Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_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: 2670214
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 14
Found at i:2105892 original size:61 final size:61
Alignment explanation
Indices: 2105776--2105892 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
2105766 ACGAATTGGG
* * * * *
2105776 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCACAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGATAATAC
* * * *
2105837 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGAT
2105893 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCACAACGCGATAATAC
Found at i:2106455 original size:19 final size:19
Alignment explanation
Indices: 2106408--2106474 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
2106398 TTCGAGAATG
2106408 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
2106428 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
* * **
2106447 AAAAACGCAACGTGAAACC
1 AAAATCGCAACGCGAAATA
2106466 AAAATCGCA
1 AAAATCGCA
2106475 TTGCGATTTT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 27 0.71
20 11 0.29
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.10
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:2106492 original size:19 final size:19
Alignment explanation
Indices: 2106470--2106619 Score: 175
Period size: 19 Copynumber: 8.1 Consensus size: 19
2106460 GAAACCAAAA
*
2106470 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2106489 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2106503 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2106522 TCGCGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
2106541 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
2106560 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
2106579 TCGCATTGCGATTCTCATT
1 TCGCGTTGCGATTTTCATT
* *
2106598 ATCTCGTTGCGATTTTTATT
1 -TCGCGTTGCGATTTTCATT
2106618 TC
1 TC
2106620 AACCAAAAGA
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
14 10 0.09
16 3 0.03
17 3 0.03
19 80 0.72
20 15 0.14
ACGTcount: A:0.13, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2108672 original size:42 final size:42
Alignment explanation
Indices: 2108612--2108734 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
2108602 GCCCGACTCG
* * *
2108612 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
2108654 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
2108696 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
2108735 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:2108692 original size:21 final size:21
Alignment explanation
Indices: 2108668--2108734 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2108658 TCATTCCTCG
2108668 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2108689 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2108710 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2108731 AGAG
1 AGAG
2108735 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2110137 original size:13 final size:14
Alignment explanation
Indices: 2110093--2110130 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
2110083 TATTGTTTAA
2110093 TTGATTTGTTAAAG
1 TTGATTTGTTAAAG
* *
2110107 GTGATTTGTAAAAG
1 TTGATTTGTTAAAG
2110121 TTGATTTGTT
1 TTGATTTGTT
2110131 TAATTGATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (14 bp):
TTGATTTGTTAAAG
Found at i:2110354 original size:33 final size:32
Alignment explanation
Indices: 2110312--2110438 Score: 166
Period size: 33 Copynumber: 3.9 Consensus size: 32
2110302 ATTAAATTCG
2110312 CGTTGCGATTTTCATTTCGCATTGCGATTCCCC
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCC
* **
2110345 CGTTGCGATTTTCATTTCGCATTGTGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCC
*
2110378 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CC
*
2110411 CGTTGTGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2110439 AGTAATTTCT
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
31 3 0.04
33 77 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCC
Found at i:2110401 original size:66 final size:66
Alignment explanation
Indices: 2110305--2110434 Score: 224
Period size: 66 Copynumber: 2.0 Consensus size: 66
2110295 ACGCGAAATT
*
2110305 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCCCGTTGCGATTTTCATTTCGCATTGT
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCCCGTTGCGATTTTCATTTCGCATTGT
2110370 G
66 G
* * *
2110371 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCCCGTTGCGATTTTCATTTCGCATTG
2110435 CGATAGTAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCCCGTTGCGATTTTCATTTCGCATTGT
G
Found at i:2112961 original size:24 final size:24
Alignment explanation
Indices: 2112927--2112980 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2112917 CTGAAACATC
* *
2112927 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
2112951 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
2112975 ATCAAA
1 ATCAAA
2112981 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:2114058 original size:20 final size:20
Alignment explanation
Indices: 2114033--2114090 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
2114023 ATTCATTTGA
2114033 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
2114053 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
2114073 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
2114091 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:2114150 original size:19 final size:19
Alignment explanation
Indices: 2114109--2114176 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
2114099 GAAATGAAAA
2114109 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
2114125 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2114142 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2114161 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
2114177 TCATTGTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2114182 original size:33 final size:33
Alignment explanation
Indices: 2114140--2114205 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
2114130 GCGATTTTCA
***
2114140 TTTCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TTTCGCATTGCGATAGCCATTTCGCATTGCGAT
* * *
2114173 TTTCTCATTGTGATAGCCATTTCGCGTTGCGAT
1 TTTCGCATTGCGATAGCCATTTCGCATTGCGAT
2114206 AGTCTGTTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.44
Consensus pattern (33 bp):
TTTCGCATTGCGATAGCCATTTCGCATTGCGAT
Found at i:2114312 original size:14 final size:14
Alignment explanation
Indices: 2114293--2114329 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2114283 CATCAATTAA
2114293 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2114307 ACAAATCATCTTTT
1 ACAAATCAACATTT
2114321 ACAAATCAA
1 ACAAATCAA
2114330 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2116230 original size:20 final size:19
Alignment explanation
Indices: 2116195--2116261 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
2116185 GAAACTTAAA
2116195 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
2116214 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
2116234 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
2116253 ATCGCAACG
1 ATCGCAACG
2116262 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:2116281 original size:14 final size:14
Alignment explanation
Indices: 2116249--2116292 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
2116239 AATGCGAAAT
2116249 GAAAATCGCAACGAC
1 GAAAATCGCAACG-C
2116264 -AAAATCGCAACGC
1 GAAAATCGCAACGC
2116277 GAAAAT-G-AACGC
1 GAAAATCGCAACGC
2116289 GAAA
1 GAAA
2116293 CACAAATCGC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 9 0.32
13 2 0.07
14 17 0.61
ACGTcount: A:0.50, C:0.23, G:0.20, T:0.07
Consensus pattern (14 bp):
GAAAATCGCAACGC
Found at i:2116892 original size:18 final size:18
Alignment explanation
Indices: 2116863--2116910 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
2116853 CGGGTCGATC
2116863 AGATGATGGCTCTGGGTG
1 AGATGATGGCTCTGGGTG
* *
2116881 AGGTGATAGCTCTGGGTG
1 AGATGATGGCTCTGGGTG
2116899 AGATGATGGCTC
1 AGATGATGGCTC
2116911 CCGAAGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.19, C:0.12, G:0.42, T:0.27
Consensus pattern (18 bp):
AGATGATGGCTCTGGGTG
Found at i:2118272 original size:20 final size:20
Alignment explanation
Indices: 2118230--2118272 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
2118220 AATAGTTTCT
*
2118230 GAAAATGAAAATCGTAACAC
1 GAAAATGAAAATCGCAACAC
*
2118250 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
2118270 GAA
1 GAA
2118273 TTCGACTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.19, T:0.12
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:2118807 original size:20 final size:20
Alignment explanation
Indices: 2118781--2118894 Score: 120
Period size: 20 Copynumber: 5.7 Consensus size: 20
2118771 GATTATGTAT
2118781 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2118801 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2118821 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
2118841 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
2118862 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2118882 TATCGCATTGCGA
1 TATCGCGTTGCGA
2118895 TTTTCCCAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 65 0.83
21 13 0.17
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2118898 original size:41 final size:41
Alignment explanation
Indices: 2118761--2118896 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
2118751 CGCTTTGAAA
* *
2118761 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATTTATTATCGCGTTGCGAAAGTCAGT
* * * * * *
2118802 ATCGCGTTGCGA-AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATTTATTATCGCGTTGCGAAAGTCAGT
* * * * *
2118842 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATTTATTATCGCGTTGCGAAAGTCAGT
2118883 ATCGCATTGCGATT
1 ATCGCATTGCGATT
2118897 TTCCCAATTC
Statistics
Matches: 75, Mismatches: 19, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
40 32 0.43
41 43 0.57
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTATTTATTATCGCGTTGCGAAAGTCAGT
Found at i:2118914 original size:41 final size:41
Alignment explanation
Indices: 2118761--2118916 Score: 109
Period size: 41 Copynumber: 3.8 Consensus size: 41
2118751 CGCTTTGAAA
* ** * * * *
2118761 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
* *** * *
2118802 ATCGCGTTGCGAAAGT-CAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
* * ** * * *
2118842 ATCTCGTTGCGATTTTTTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
2118883 ATCGCATTGCGATTTTCCCAAT-TCGCGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
2118917 TTACTTATTC
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
40 32 0.36
41 56 0.62
42 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGT
Found at i:2123898 original size:17 final size:18
Alignment explanation
Indices: 2123863--2123901 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
2123853 TGACCGGTCC
2123863 GACCCGACCTGACCCGTT
1 GACCCGACCTGACCCGTT
*
2123881 GACCCGACC-GACCTGTT
1 GACCCGACCTGACCCGTT
2123898 GACC
1 GACC
2123902 GTTGACCACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.15
Consensus pattern (18 bp):
GACCCGACCTGACCCGTT
Found at i:2125011 original size:117 final size:116
Alignment explanation
Indices: 2124805--2125098 Score: 498
Period size: 117 Copynumber: 2.5 Consensus size: 116
2124795 GAAGTATTTA
* * *
2124805 AGGCTCATCGACTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTTTGGG
1 AGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGT-GGTGTATGGTTATGGG
2124870 AAACCTACACATTTTGGTGATTGGAGTGATTGGATGAGAAAGTTATTACCGC
65 AAACCTACACATTTTGGTGATTGGAGTGATTGGATGAGAAAGTTATTACCGC
*
2124922 AGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCATGTCGGTGTATGGTTATGGG
1 AGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGT-GGTGTATGGTTATGGG
* *
2124987 GAACCTACACATTTTGGTGATTGGAGTGATTGGATGGGAAAGTTATTACCGC
65 AAACCTACACATTTTGGTGATTGGAGTGATTGGATGAGAAAGTTATTACCGC
*
2125039 AGGCTCCTCGGCTTTATGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGTGTGTATGGTT
1 AGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTG-GTGTATGGTT
2125099 CTGGAAAATA
Statistics
Matches: 167, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
116 1 0.01
117 166 0.99
ACGTcount: A:0.19, C:0.16, G:0.32, T:0.33
Consensus pattern (116 bp):
AGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGTGTATGGTTATGGGA
AACCTACACATTTTGGTGATTGGAGTGATTGGATGAGAAAGTTATTACCGC
Found at i:2132350 original size:117 final size:117
Alignment explanation
Indices: 2132137--2132432 Score: 484
Period size: 117 Copynumber: 2.5 Consensus size: 117
2132127 GGAAGTATTT
* * *
2132137 CAGGCTCCACGACTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGAGTGTATGGTTCTGG
1 CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
* *
2132202 GGAACCTACACATTTTGGTGATTAGAGTGATTGGATGGGAAAGTTAGTACTG
66 GGAACCTACACATTTTGGTGATTAGAATGATTGGATGGGAAAGTTAGTACCG
* * *
2132254 CAGGCTCCTCGGCTTTGTGCTTAGGGTAAGTCTTTACTGGTGTGCATGTGGGTGTATGGTTCTGG
1 CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
* *
2132319 GGAACCTACACATTTTGGTGATTGGAATGATTGGATGGGAAAGTTATTACCG
66 GGAACCTACACATTTTGGTGATTAGAATGATTGGATGGGAAAGTTAGTACCG
* *
2132371 CAGGCTCCTCGGCTTTATGCTCAGGGTAAGTCCTTATTGGTGTGCAGGTGGGTGTATGGTTC
1 CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTC
2132433 CGGAAAATAT
Statistics
Matches: 164, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
117 164 1.00
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (117 bp):
CAGGCTCCTCGGCTTTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
GGAACCTACACATTTTGGTGATTAGAATGATTGGATGGGAAAGTTAGTACCG
Found at i:2148782 original size:24 final size:24
Alignment explanation
Indices: 2148750--2148800 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
2148740 TCGTATCCTT
* * *
2148750 CTCATCCTCCTCATCTTCATCGTA
1 CTCACCCTCCTAATCATCATCGTA
*
2148774 CTCACCCTCGTAATCATCATCGTA
1 CTCACCCTCCTAATCATCATCGTA
2148798 CTC
1 CTC
2148801 GTCTTCATTC
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:0.20, C:0.41, G:0.06, T:0.33
Consensus pattern (24 bp):
CTCACCCTCCTAATCATCATCGTA
Found at i:2150126 original size:17 final size:18
Alignment explanation
Indices: 2150096--2150129 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2150086 AAAAACACAC
*
2150096 ATTACATTATTAAAATAA
1 ATTACATTAGTAAAATAA
2150114 ATTA-ATTAGTAAAATA
1 ATTACATTAGTAAAATA
2150130 TAATCGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTACATTAGTAAAATAA
Found at i:2152506 original size:3 final size:3
Alignment explanation
Indices: 2152498--2152556 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
2152488 ATACATATTA
* * * *
2152498 AAT AAT AAT AAT AAT AAT -AT AAA AAT GAC AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2152545 AAT AAA AAT AAT
1 AAT AAT AAT AAT
2152557 TAAAATTAGA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2152820 original size:40 final size:41
Alignment explanation
Indices: 2152776--2152964 Score: 127
Period size: 40 Copynumber: 4.4 Consensus size: 41
2152766 ACATGGTTCC
*
2152776 TACGTGATGAGGAGATTTGG-TC-GGTGGATGACACGGCTCA
1 TACGTGATGAGGAG-TTTGGATCTGGGGGATGACACGGCTCA
* * * *
2152816 TACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGTGATAACACGGTTCC
1 TACGTGATGAGGAGTT-TGG--ATC--T-GG--GG-GATGACACGGCTCA
* * * *
2152866 TACGTGATGAGGACGGTTGGTTATCTAGGGG-TGAAACGGCTCC
1 TACGTGATGAGGA-GTTTGG--ATCTGGGGGATGACACGGCTCA
2152909 TACGTGATGAGGAGATTTGG-TC-GGGGGATGACACGGCTCA
1 TACGTGATGAGGAG-TTTGGATCTGGGGGATGACACGGCTCA
*
2152949 TACGTGATGAAGAGTT
1 TACGTGATGAGGAGTT
2152965 CTGGCCATCT
Statistics
Matches: 117, Mismatches: 18, Indels: 29
0.71 0.11 0.18
Matches are distributed among these distances:
39 8 0.07
40 41 0.35
42 1 0.01
43 28 0.24
44 1 0.01
45 2 0.02
47 3 0.03
48 1 0.01
49 1 0.01
50 29 0.25
51 2 0.02
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (41 bp):
TACGTGATGAGGAGTTTGGATCTGGGGGATGACACGGCTCA
Found at i:2152913 original size:43 final size:42
Alignment explanation
Indices: 2152858--2153055 Score: 134
Period size: 43 Copynumber: 4.5 Consensus size: 42
2152848 AGGTGATAAC
*
2152858 ACGGTTCCTACGTGATGAGGACGGTTGGTTATCTAGGGGTGAA
1 ACGGCTCCTACGTGATGAGGA-GGTTGGTTATCTAGGGGTGAA
* * *
2152901 ACGGCTCCTACGTGATGAGGAGATTTGG---TC-GGGGGATGAC
1 ACGGCTCCTACGTGATGAGGAG-GTTGGTTATCTAGGGG-TGAA
* * * **
2152941 ACGGCTCATACGTGATGAAGAGTTCTGGCCATCTTTAGGAAGGTGATAA
1 ACGGCTCCTACGTGATGAGGAGGT-TGGTTATC--TAGG--GGTG--AA
* * * * *
2152990 CACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGAC
1 -ACGGCTCCTACGTGATGAGGA-GGTTGGTTATCTAGGGGTGAA
2153034 ACGGCTCCTACGTGATGAGGAG
1 ACGGCTCCTACGTGATGAGGAG
2153056 ATCTGGTCTG
Statistics
Matches: 121, Mismatches: 19, Indels: 31
0.71 0.11 0.18
Matches are distributed among these distances:
39 6 0.05
40 28 0.23
42 2 0.02
43 46 0.38
44 1 0.01
46 5 0.04
47 2 0.02
48 5 0.04
49 1 0.01
50 24 0.20
51 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.26
Consensus pattern (42 bp):
ACGGCTCCTACGTGATGAGGAGGTTGGTTATCTAGGGGTGAA
Found at i:2152971 original size:133 final size:133
Alignment explanation
Indices: 2152773--2153113 Score: 549
Period size: 133 Copynumber: 2.6 Consensus size: 133
2152763 GTGACATGGT
*
2152773 TCCTACGTGATGAGGAGATTTGGTCGGTGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAGATTTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
*
2152838 ATCTTTAGGAAGGTGATAACACGGTTCCTACGTGATGAGGACGGTTGGTTATCTAGGGGTGAAAC
66 ATCTTTAGGAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGGTGAAAC
2152903 GGC
131 GGC
2152906 TCCTACGTGATGAGGAGATTTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
1 TCCTACGTGATGAGGAGATTTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
* * *
2152971 ATCTTTAGGAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACAC
66 ATCTTTAGGAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGGTGAAAC
2153036 GGC
131 GGC
* * ** * * * *
2153039 TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGATTCCTACATGATGAGGACGGT-TGGC
1 TCCTACGTGATGAGGAGATTTGGTCGGGGGATGACACGGCTCATACGTGATGAAGA-GTTCTGGC
2153103 CATCTTTAGGA
65 CATCTTTAGGA
2153114 GTTATGGTTT
Statistics
Matches: 194, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 192 0.99
134 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (133 bp):
TCCTACGTGATGAGGAGATTTGGTCGGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCC
ATCTTTAGGAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTAGGGGTGAAAC
GGC
Found at i:2153171 original size:28 final size:28
Alignment explanation
Indices: 2153140--2153216 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
2153130 AAACCAAATT
2153140 AAAGATTTGTTTCAAAAGAAACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* *
2153168 AAAGATTCGTTTCAAGAA-AAACAAACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
2153196 AAAGATGATGTGTTTCAAAAG
1 AAAGAT--T-TGTTTCAAAAG
2153217 CAACTGTCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 29 0.71
29 2 0.05
30 3 0.07
31 7 0.17
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:2153752 original size:106 final size:105
Alignment explanation
Indices: 2153580--2153865 Score: 420
Period size: 106 Copynumber: 2.7 Consensus size: 105
2153570 AAAGGTGTTT
* * * *
2153580 ATTTTGTTTCAAAT-ACAACAAATT-TAAATTTGTATCTCATA-GAAAAAATGTCTCAAGCGAGA
1 ATTTTGTTTCAAGTGA-AGCAAATTCAAAATTTGTATCTCAAAGGAAAAAATGTCTCAAGCGAGA
*
2153642 CGAAATTTGTTTTGAAATAAACAACAATCTCAAGTGAGATTA
65 CGAAATTTGTTTTGAAA-AAACAACAATCTCAAGTGAGATCA
* * *
2153684 ATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGT-TTTCAAAGGAAAAAAATGTCCCAAGCGGGA
1 ATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGG-AAAAAATGTCTCAAGCGAGA
*
2153748 CGAAATTTGTTTTTTAAAAAACAACAATCTCAAGTGAGATCA
65 CGAAATTTG-TTTTGAAAAAACAACAATCTCAAGTGAGATCA
2153790 ATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGG-AAAAATGTCTCAAGCGAGAC
1 ATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGGAAAAAATGTCTCAAGCGAGAC
2153854 GAAATTTGTTTT
66 GAAATTTGTTTT
2153866 CAGATAAATT
Statistics
Matches: 164, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
104 29 0.18
105 36 0.22
106 84 0.51
107 15 0.09
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (105 bp):
ATTTTGTTTCAAGTGAAGCAAATTCAAAATTTGTATCTCAAAGGAAAAAATGTCTCAAGCGAGAC
GAAATTTGTTTTGAAAAAACAACAATCTCAAGTGAGATCA
Found at i:2153924 original size:35 final size:37
Alignment explanation
Indices: 2153839--2153936 Score: 130
Period size: 35 Copynumber: 2.7 Consensus size: 37
2153829 AAAGGAAAAA
* *
2153839 TGTCTCAAGCGAGACGAAATTTG-TTTTCAGATAAAT
1 TGTCTCAAGCGAGACAAAATTTGTTTTTCAGATAAAC
* * *
2153875 TGTCTTAAGTGAGACAAAATTTGTTTTTCA-A-GAAC
1 TGTCTCAAGCGAGACAAAATTTGTTTTTCAGATAAAC
2153910 TGTCTCAAGCGAGACAAAATTTGTTTT
1 TGTCTCAAGCGAGACAAAATTTGTTTT
2153937 CGAAGGAAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
35 27 0.50
36 21 0.39
37 6 0.11
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (37 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTTCAGATAAAC
Found at i:2153975 original size:71 final size:71
Alignment explanation
Indices: 2153839--2153976 Score: 172
Period size: 71 Copynumber: 1.9 Consensus size: 71
2153829 AAAGGAAAAA
* * * ** * * *
2153839 TGTCTCAAGCGAGACGAAATTTGTTTTCAGATAAATTGTCTTAAGTGAGACAAAATTTGTTTTTC
1 TGTCTCAAGCGAGACAAAATTTGTTTTCAGAGAAACTACCTTAAATAAGACAAAATTTGTGTTTC
2153904 AAGAAC
66 AAGAAC
2153910 TGTCTCAAGCGAGACAAAATTTGTTTTC-GAAGGAAACTACCTTAAATAAGACAAAATTT-TGTT
1 TGTCTCAAGCGAGACAAAATTTGTTTTCAG-A-GAAACTACCTTAAATAAGACAAAATTTGTGTT
2153973 TCAA
64 TCAA
2153977 AGGAAACAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
70 1 0.02
71 35 0.61
72 21 0.37
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (71 bp):
TGTCTCAAGCGAGACAAAATTTGTTTTCAGAGAAACTACCTTAAATAAGACAAAATTTGTGTTTC
AAGAAC
Found at i:2153994 original size:37 final size:37
Alignment explanation
Indices: 2153921--2153994 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
2153911 GTCTCAAGCG
* * * *
2153921 AGACAAAATTTGTTTTCGAAGGAAACTACCTTAAATA
1 AGACAAAATTTGTTTTCAAAGGAAACAAACTCAAATA
2153958 AGACAAAATTT-TGTTTCAAAGGAAACAAACTCAAATA
1 AGACAAAATTTGT-TTTCAAAGGAAACAAACTCAAATA
2153995 TTTTTTTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (37 bp):
AGACAAAATTTGTTTTCAAAGGAAACAAACTCAAATA
Found at i:2158015 original size:31 final size:32
Alignment explanation
Indices: 2157959--2158020 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2157949 TGACAAAATG
2157959 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
2157991 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
2158021 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:2159524 original size:17 final size:18
Alignment explanation
Indices: 2159494--2159527 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2159484 AAAAACACAC
*
2159494 ATTACATTATTAAAATAA
1 ATTACATTAGTAAAATAA
2159512 ATTA-ATTAGTAAAATA
1 ATTACATTAGTAAAATA
2159528 TAATCGACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (18 bp):
ATTACATTAGTAAAATAA
Found at i:2161893 original size:3 final size:3
Alignment explanation
Indices: 2161885--2161943 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
2161875 ATACATATTA
* * * *
2161885 AAT AAT AAT AAT AAT AAT -AT AAA AAT GAC AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2161932 AAT AAA AAT AAT
1 AAT AAT AAT AAT
2161944 TAAAATTAGA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:2163252 original size:13 final size:13
Alignment explanation
Indices: 2163234--2163260 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2163224 GTAGGACTTC
2163234 TCAAATGAATATT
1 TCAAATGAATATT
2163247 TCAAATGAATATT
1 TCAAATGAATATT
2163260 T
1 T
2163261 TTCGACTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TCAAATGAATATT
Found at i:2167114 original size:18 final size:18
Alignment explanation
Indices: 2167091--2167131 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2167081 AGACATTTGA
*
2167091 TCCTCTGGTCGTGCTTGC
1 TCCTCTGGTCGAGCTTGC
* *
2167109 TCCTCTGGTGGAGCTTGT
1 TCCTCTGGTCGAGCTTGC
2167127 TCCTC
1 TCCTC
2167132 GTGTTGTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.32, G:0.27, T:0.39
Consensus pattern (18 bp):
TCCTCTGGTCGAGCTTGC
Found at i:2167608 original size:20 final size:20
Alignment explanation
Indices: 2167583--2167637 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
2167573 GTTTCCAGAT
2167583 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTTTGACTA
*
2167603 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTTTGACTA
*
2167623 TCGCAATGCGATTTT
1 TCGCAACGCGATTTT
2167638 CAAAGCGTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (20 bp):
TCGCAACGCGATTTTGACTA
Found at i:2168256 original size:20 final size:20
Alignment explanation
Indices: 2168227--2168275 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
2168217 ACGATTATCT
*
2168227 CGTTGTGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
2168247 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
2168267 TGTTGCGAT
1 CGTTGCGAT
2168276 TTTCATTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.16, G:0.27, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2168281 original size:20 final size:20
Alignment explanation
Indices: 2168243--2168298 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
2168233 GATAGTCAAA
* **
2168243 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
2168263 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
2168283 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
2168299 AAGTTTCAGA
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:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:2168305 original size:20 final size:20
Alignment explanation
Indices: 2168262--2168305 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2168252 CGATAGTCAT
* *
2168262 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
2168282 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
2168302 TTTC
1 TTTC
2168306 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:2170216 original size:20 final size:20
Alignment explanation
Indices: 2170193--2170285 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 20
2170183 GAAACTTAAA
2170193 ATCGCAACGCGAAAATGATT
1 ATCGCAACGCGAAAATGATT
*
2170213 ATCGCAACGCGGAAATGATT
1 ATCGCAACGCGAAAATGATT
** *
2170233 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGATT
* * **
2170253 ATCGCAATGCG-AAATAAAA
1 ATCGCAACGCGAAAATGATT
2170272 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
2170286 CCAAATTCGC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.22
20 47 0.78
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGATT
Found at i:2170237 original size:40 final size:39
Alignment explanation
Indices: 2170174--2170285 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 39
2170164 AGAAGAATAG
* * *
2170174 TCGCAACACGAAACTTAAAATCGCAACGCGAAAATGATTA
1 TCGCAACGCGAAA-TAAAAATCGCAACGCGAAAATGACTA
* ** **
2170214 TCGCAACGCGGAAATGATTATCGCAACGCGAATTTGACTA
1 TCGCAACGC-GAAATAAAAATCGCAACGCGAAAATGACTA
*
2170254 TCGCAATGCGAAATAAAAATCGCAACGCGAAA
1 TCGCAACGCGAAATAAAAATCGCAACGCGAAA
2170286 CCAAATTCGC
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
39 19 0.32
40 36 0.61
41 4 0.07
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (39 bp):
TCGCAACGCGAAATAAAAATCGCAACGCGAAAATGACTA
Found at i:2170320 original size:20 final size:20
Alignment explanation
Indices: 2170291--2170328 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2170281 CGAAACCAAA
*
2170291 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCATT
2170311 TTCGCATTGCGATTTTCA
1 TTCGCATTGCGATTTTCA
2170329 CGTTGCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.21, G:0.18, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:2170352 original size:33 final size:34
Alignment explanation
Indices: 2170295--2170367 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 34
2170285 ACCAAATTCG
* *
2170295 CGTTGCGATTTTCATTTTCGCATTGCGATTTTCA
1 CGTTGCAATTTTCATTTTCGCATTGCGATTATCA
* *
2170329 CGTTGCAATTTTTA-TTTCGCATTGCGATTATCC
1 CGTTGCAATTTTCATTTTCGCATTGCGATTATCA
2170362 CGTTGC
1 CGTTGC
2170368 GATAGTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
33 23 0.66
34 12 0.34
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (34 bp):
CGTTGCAATTTTCATTTTCGCATTGCGATTATCA
Found at i:2170387 original size:20 final size:20
Alignment explanation
Indices: 2170362--2170430 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
2170352 GCGATTATCC
* *
2170362 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAATTTCG
2170382 CGTTGCGATAATC-ATTTCCG
1 CGTTGCGATAATCAATTT-CG
*
2170402 CGTTGCGATAATCATTTTCG
1 CGTTGCGATAATCAATTTCG
2170422 CGTTGCGAT
1 CGTTGCGAT
2170431 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
19 3 0.07
20 38 0.86
21 3 0.07
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAATCAATTTCG
Found at i:2170388 original size:34 final size:37
Alignment explanation
Indices: 2170344--2170431 Score: 92
Period size: 40 Copynumber: 2.4 Consensus size: 37
2170334 CAATTTTTAT
* *
2170344 TTCGCATTGCGATT-A-TCC-CGTTGCGATAGTCAAA
1 TTCGCGTTGCGATTCATTCCGCGTTGCGATAATCAAA
**
2170378 TTCGCGTTGCGATAATCATTTCCGCGTTGCGATAATCATT
1 TTCGCGTTGCGAT--TCA-TTCCGCGTTGCGATAATCAAA
2170418 TTCGCGTTGCGATT
1 TTCGCGTTGCGATT
2170432 TTAAGTTTCG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
34 12 0.27
36 1 0.02
37 1 0.02
38 1 0.02
39 3 0.07
40 26 0.59
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (37 bp):
TTCGCGTTGCGATTCATTCCGCGTTGCGATAATCAAA
Found at i:2170440 original size:20 final size:20
Alignment explanation
Indices: 2170417--2170460 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
2170407 CGATAATCAT
*
2170417 TTTCGCGTTGCGATTTTAAG
1 TTTCGCGTTGCGATTTGAAG
*
2170437 TTTCGTGTTGCGATTTGAAG
1 TTTCGCGTTGCGATTTGAAG
2170457 TTTC
1 TTTC
2170461 AGAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.48
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTGAAG
Found at i:2170969 original size:21 final size:21
Alignment explanation
Indices: 2170943--2171058 Score: 92
Period size: 21 Copynumber: 5.5 Consensus size: 21
2170933 CTCACCTGTC
*
2170943 ATCGTTCAAGAGGCCTCTCCT
1 ATCGTTCAAGAGGCCCCTCCT
* *
2170964 ATCGTTCAAGAGGCCCAT-AT
1 ATCGTTCAAGAGGCCCCTCCT
** * *
2170984 CATCCCTCAAGAGTCCCCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
*
2171006 ATCGTTCAAGAGGCCCCT-AT
1 ATCGTTCAAGAGGCCCCTCCT
* * * *
2171026 CATCGTTGAAGAGGTCTCTCCC
1 -ATCGTTCAAGAGGCCCCTCCT
2171048 ATCGTTCAAGA
1 ATCGTTCAAGA
2171059 CCCCGATTCA
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
20 1 0.01
21 70 0.99
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCCT
Found at i:2171010 original size:42 final size:42
Alignment explanation
Indices: 2170948--2171058 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 42
2170938 CTGTCATCGT
* *
2170948 TCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCATATCATCCC
1 TCAAGAGTCCTCTCCCATCGTTCAAGAGGCCCATATCATCCC
* * **
2170990 TCAAGAGTCCCCTCCCATCGTTCAAGAGGCCCCTATCATCGT
1 TCAAGAGTCCTCTCCCATCGTTCAAGAGGCCCATATCATCCC
*
2171032 TGAAGAGGT-CTCTCCCATCGTTCAAGA
1 TCAAGA-GTCCTCTCCCATCGTTCAAGA
2171059 CCCCGATTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 58 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.24
Consensus pattern (42 bp):
TCAAGAGTCCTCTCCCATCGTTCAAGAGGCCCATATCATCCC
Found at i:2172620 original size:20 final size:20
Alignment explanation
Indices: 2172595--2172658 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
2172585 AACGCTAAAC
2172595 TCAAAATCGTAATGCGAAAG
1 TCAAAATCGTAATGCGAAAG
* *
2172615 TCAAAAGCGCAATGCGAAAG
1 TCAAAATCGTAATGCGAAAG
* *
2172635 CCAAAATCGTAACGCGAAAG
1 TCAAAATCGTAATGCGAAAG
2172655 TCAA
1 TCAA
2172659 TTCGCGTTGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.14
Consensus pattern (20 bp):
TCAAAATCGTAATGCGAAAG
Found at i:2172626 original size:40 final size:40
Alignment explanation
Indices: 2172582--2172658 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
2172572 GGTACACTTT
* *
2172582 CGCAACGCTAAA-CTCAAAATCGTAATGCGAAAGTCAAAAG
1 CGCAACGCGAAAGC-CAAAATCGTAACGCGAAAGTCAAAAG
*
2172622 CGCAATGCGAAAGCCAAAATCGTAACGCGAAAGTCAA
1 CGCAACGCGAAAGCCAAAATCGTAACGCGAAAGTCAA
2172659 TTCGCGTTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.44, C:0.23, G:0.19, T:0.13
Consensus pattern (40 bp):
CGCAACGCGAAAGCCAAAATCGTAACGCGAAAGTCAAAAG
Found at i:2172726 original size:20 final size:20
Alignment explanation
Indices: 2172697--2172780 Score: 114
Period size: 20 Copynumber: 4.2 Consensus size: 20
2172687 GCGATTTTCT
*
2172697 CGTTGCGATAGTCAAATTCC
1 CGTTGCGATAGTCAAATTCG
* * * *
2172717 CGTTGTGATAATTAAATTCA
1 CGTTGCGATAGTCAAATTCG
2172737 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
2172757 CGTTGCGATTGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
2172777 CGTT
1 CGTT
2172781 ACAAGTTTAC
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:2175376 original size:24 final size:24
Alignment explanation
Indices: 2175309--2175376 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
2175299 CTGAAACATA
* *
2175309 ATCAAAATCTGAATATTGACCAAG
1 ATCAAAGTCCGAATATTGACCAAG
**
2175333 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATATTGACCAAG
* * *
2175357 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATATTGAC
2175377 TAGTACTCAC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
ATCAAAGTCCGAATATTGACCAAG
Found at i:2176246 original size:21 final size:21
Alignment explanation
Indices: 2176217--2176291 Score: 91
Period size: 21 Copynumber: 3.6 Consensus size: 21
2176207 GACAGTCAGA
*
2176217 ATCGAGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
2176238 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
2176258 ATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
*
2176279 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
2176292 AGTCAGAATC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.04
20 15 0.33
21 26 0.58
22 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:2176247 original size:41 final size:41
Alignment explanation
Indices: 2176197--2176312 Score: 180
Period size: 41 Copynumber: 2.8 Consensus size: 41
2176187 GACAGTCAGA
* *
2176197 ATCGTGTTGCGACAGTCAGAATCGAGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGAGTTGCGATTATGTATT
*
2176238 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGAGTTGCGATTATGTATT
*
2176279 ATCGCATTGCGATAGTCAGAATC-ACGTTGCGATT
1 ATCGCGTTGCGATAGTCAGAATCGA-GTTGCGATT
2176313 TACATATTCG
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (41 bp):
ATCGCGTTGCGATAGTCAGAATCGAGTTGCGATTATGTATT
Found at i:2176311 original size:20 final size:20
Alignment explanation
Indices: 2176182--2176311 Score: 120
Period size: 20 Copynumber: 6.4 Consensus size: 20
2176172 GAAATTCAGT
* *
2176182 GTTGCGACAGTCAGAATCGT
1 GTTGCGATAGTCAGAATCGC
* *
2176202 GTTGCGACAGTCAGAATCGA
1 GTTGCGATAGTCAGAATCGC
**
2176222 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
2176243 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
**
2176263 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
* *
2176284 ATTGCGATAGTCAGAATCAC
1 GTTGCGATAGTCAGAATCGC
2176304 GTTGCGAT
1 GTTGCGAT
2176312 TTACATATTC
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.04
20 55 0.61
21 27 0.30
22 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:2176355 original size:22 final size:21
Alignment explanation
Indices: 2176327--2176372 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2176317 TATTCGCATT
* *
2176327 GCGATTTTCTAAAATCGTAAC
1 GCGAATTTCAAAAATCGTAAC
* *
2176348 GCGAATTTGAAAAATCGTAAT
1 GCGAATTTCAAAAATCGTAAC
2176369 GCGA
1 GCGA
2176373 TAATCAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (21 bp):
GCGAATTTCAAAAATCGTAAC
Found at i:2180928 original size:17 final size:17
Alignment explanation
Indices: 2180903--2180941 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2180893 AAGAAAGGGA
*
2180903 AGTATCTTACCCAAGAG
1 AGTACCTTACCCAAGAG
2180920 AGTACCTTACCCAAGAG
1 AGTACCTTACCCAAGAG
2180937 AGTAC
1 AGTAC
2180942 AACTATGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.21
Consensus pattern (17 bp):
AGTACCTTACCCAAGAG
Found at i:2186394 original size:22 final size:23
Alignment explanation
Indices: 2186368--2186428 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
2186358 TTGGTGCAGA
**
2186368 GGGAATCGATACCCCCTTGA-AG
1 GGGAATCGATACCCCCTCCACAG
* *
2186390 GGGAACCGATTCCCCC-CCACAG
1 GGGAATCGATACCCCCTCCACAG
2186412 GGGAATCGATACCCCCT
1 GGGAATCGATACCCCCT
2186429 GAGGGTTCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 1 0.03
22 30 0.97
ACGTcount: A:0.25, C:0.36, G:0.25, T:0.15
Consensus pattern (23 bp):
GGGAATCGATACCCCCTCCACAG
Found at i:2188008 original size:18 final size:18
Alignment explanation
Indices: 2187987--2188027 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2187977 AGAACAGCAC
*
2187987 GAGGAACAAGCTCCACCA
1 GAGGAACAAGCACCACCA
*
2188005 GAGGAACAAGCACGACCA
1 GAGGAACAAGCACCACCA
2188023 GAGGA
1 GAGGA
2188028 TCAAATGCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.41, C:0.27, G:0.29, T:0.02
Consensus pattern (18 bp):
GAGGAACAAGCACCACCA
Found at i:2192236 original size:10 final size:10
Alignment explanation
Indices: 2192221--2192260 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
2192211 TTTTATCACA
2192221 CAAATTCTCT
1 CAAATTCTCT
2192231 CAAATTCTCT
1 CAAATTCTCT
2192241 -AAATTTCTCT
1 CAAA-TTCTCT
*
2192251 CAAATACTCT
1 CAAATTCTCT
2192261 ATCTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 21 0.78
11 3 0.11
ACGTcount: A:0.33, C:0.28, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:2192582 original size:110 final size:111
Alignment explanation
Indices: 2192388--2192608 Score: 381
Period size: 110 Copynumber: 2.0 Consensus size: 111
2192378 TGGAAATCAT
* *
2192388 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
*
2192453 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * *
2192499 ATATCTCGACACTTTGTTGATACGGTAATATTTTAA-ATTTTAATTTAATTTAAATTATTAGTGA
1 ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
2192563 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
2192609 TTTTTGTAAT
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
110 71 0.68
111 33 0.32
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGCTGATACGGTAACATTTTAACATTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:2200325 original size:2 final size:2
Alignment explanation
Indices: 2200320--2200355 Score: 54
Period size: 2 Copynumber: 17.0 Consensus size: 2
2200310 TATATGTATA
2200320 TG TG TG TG TG TG TG TG TG TG TG TG TAG ATG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG T-G -TG TG TG TG
2200356 CATATAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 29 0.91
3 2 0.06
4 1 0.03
ACGTcount: A:0.06, C:0.00, G:0.47, T:0.47
Consensus pattern (2 bp):
TG
Found at i:2204722 original size:2 final size:2
Alignment explanation
Indices: 2204715--2204754 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2204705 GCTTATGTTT
2204715 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2204755 ACCACTAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2213178 original size:22 final size:22
Alignment explanation
Indices: 2213153--2213213 Score: 95
Period size: 22 Copynumber: 2.8 Consensus size: 22
2213143 GGACTATTAT
*
2213153 GTCCCGAAAGACCACTAGATAC
1 GTCCCGAAGGACCACTAGATAC
*
2213175 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTAGATAC
*
2213197 GTCTCGAAGGACCACTA
1 GTCCCGAAGGACCACTA
2213214 TGTCACGAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (22 bp):
GTCCCGAAGGACCACTAGATAC
Found at i:2218152 original size:22 final size:23
Alignment explanation
Indices: 2218127--2218187 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
2218117 GGACTATTAT
2218127 GTCCCGAAGGACCACTAG-ATAC
1 GTCCCGAAGGACCACTAGAATAC
2218149 GTCCCGAAGGACCACT-GAATAC
1 GTCCCGAAGGACCACTAGAATAC
* *
2218171 TTCCTGAAGGACCACTA
1 GTCCCGAAGGACCACTA
2218188 TGTCCCGAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.16
Consensus pattern (23 bp):
GTCCCGAAGGACCACTAGAATAC
Found at i:2219029 original size:2 final size:2
Alignment explanation
Indices: 2219022--2219097 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
2219012 GGTTATACAA
2219022 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2219064 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2219098 GTCTAACTCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2236660 original size:21 final size:21
Alignment explanation
Indices: 2236609--2236661 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2236599 GGTAGAATGT
* **
2236609 TACCTAAAATGTTATTTTTTC
1 TACCTAAAATGTTAATTTCGC
2236630 TACC-AGAAATGTTAATTTCGC
1 TACCTA-AAATGTTAATTTCGC
2236651 TACCTAAAATG
1 TACCTAAAATG
2236662 AATATTTCCG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (21 bp):
TACCTAAAATGTTAATTTCGC
Found at i:2237971 original size:12 final size:13
Alignment explanation
Indices: 2237954--2237982 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
2237944 TTAATTGCGA
2237954 AAAATGAAAA-TT
1 AAAATGAAAATTT
2237966 AAAATGAAAATTT
1 AAAATGAAAATTT
2237979 AAAA
1 AAAA
2237983 ACTCGATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (13 bp):
AAAATGAAAATTT
Found at i:2238066 original size:11 final size:11
Alignment explanation
Indices: 2238050--2238080 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2238040 AATATTAGAC
2238050 AATAAATGATA
1 AATAAATGATA
*
2238061 AATAAATGTTA
1 AATAAATGATA
2238072 AATAAATGA
1 AATAAATGA
2238081 AAGAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (11 bp):
AATAAATGATA
Found at i:2238104 original size:18 final size:19
Alignment explanation
Indices: 2238081--2238116 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2238071 AAATAAATGA
*
2238081 AAGAAAAA-AAGATAAAAT
1 AAGAAAAATAACATAAAAT
2238099 AAGAAAAATAACATAAAA
1 AAGAAAAATAACATAAAA
2238117 ATATTTAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (19 bp):
AAGAAAAATAACATAAAAT
Found at i:2239686 original size:27 final size:26
Alignment explanation
Indices: 2239640--2239700 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
2239630 CCTACAAAAG
2239640 TAAA-AAATAATTAATAATAATAATAA
1 TAAATAAATAATTAATAATAAT-ATAA
*
2239666 TAAATAAATAATATAGT-ATAATATAA
1 TAAATAAATAAT-TAATAATAATATAA
2239692 TATAATAAA
1 TA-AATAAA
2239701 AAAATTTGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 10 0.32
27 18 0.58
28 3 0.10
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
TAAATAAATAATTAATAATAATATAA
Found at i:2239690 original size:5 final size:5
Alignment explanation
Indices: 2239653--2239698 Score: 51
Period size: 5 Copynumber: 9.2 Consensus size: 5
2239643 AAAATAATTA
*
2239653 ATAAT AATAAT AATAA- ATAA- ATAAT ATAGT ATAAT ATAAT ATAAT A
1 ATAAT -ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
2239699 AAAAAATTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 8 0.22
5 19 0.51
6 10 0.27
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (5 bp):
ATAAT
Found at i:2240023 original size:83 final size:84
Alignment explanation
Indices: 2239931--2240089 Score: 241
Period size: 83 Copynumber: 1.9 Consensus size: 84
2239921 TTGTTGACAG
* *
2239931 ATAGCCCTTCTCGCCTTGAGCTATGCTGTAAATGATGTGCCTTTGAGCT-AAGCGTAATCGAACT
1 ATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAA-CGTAATCGAACT
2239995 CGAAGGTCTTTGGTTGGCAA
65 CGAAGGTCTTTGGTTGGCAA
* * *
2240015 ATAG-CCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCGAACTC
1 ATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAATCGAACTC
*
2240079 GAAGGTTTTTG
66 GAAGGTCTTTG
2240090 TGTTTCAAGA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
83 62 0.91
84 6 0.09
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (84 bp):
ATAGCCCTTCTCGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAATCGAACTC
GAAGGTCTTTGGTTGGCAA
Found at i:2240156 original size:35 final size:35
Alignment explanation
Indices: 2240084--2240220 Score: 213
Period size: 35 Copynumber: 3.9 Consensus size: 35
2240074 AACTCGAAGG
* * *
2240084 TTTTTGTGTTTCAAGAGAAAGATCTTGAAAGTTTT
1 TTTTTGTGTTTCAAGAGAAACATCTTCAAAGGTTT
2240119 TTTTTGGTGTTTCAAGAGAAACATCTTCAAAGGTTT
1 TTTTT-GTGTTTCAAGAGAAACATCTTCAAAGGTTT
2240155 TTTTTGTGTTTCAAGAGAAACGAT-TTCAAAGGTTT
1 TTTTTGTGTTTCAAGAGAAAC-ATCTTCAAAGGTTT
*
2240190 TTTTTGTGTTTCAAGAGAAACATATTCAAAG
1 TTTTTGTGTTTCAAGAGAAACATCTTCAAAG
2240221 ATTGGTGTTT
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
34 2 0.02
35 60 0.62
36 34 0.35
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (35 bp):
TTTTTGTGTTTCAAGAGAAACATCTTCAAAGGTTT
Found at i:2240206 original size:70 final size:71
Alignment explanation
Indices: 2240084--2240220 Score: 224
Period size: 71 Copynumber: 1.9 Consensus size: 71
2240074 AACTCGAAGG
* * *
2240084 TTTTTGTGTTTCAAGAGAAAGATCTTGAAAGTTTTTTTTTGGTGTTTCAAGAGAAACATCTTCAA
1 TTTTTGTGTTTCAAGAGAAAGATCTTCAAAGGTTTTTTTTGGTGTTTCAAGAGAAACATATTCAA
2240149 AGGTTT
66 AGGTTT
2240155 TTTTTGTGTTTCAAGAGAAACGAT-TTCAAAGGTTTTTTTT-GTGTTTCAAGAGAAACATATTCA
1 TTTTTGTGTTTCAAGAGAAA-GATCTTCAAAGGTTTTTTTTGGTGTTTCAAGAGAAACATATTCA
2240218 AAG
65 AAG
2240221 ATTGGTGTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
70 25 0.40
71 34 0.55
72 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (71 bp):
TTTTTGTGTTTCAAGAGAAAGATCTTCAAAGGTTTTTTTTGGTGTTTCAAGAGAAACATATTCAA
AGGTTT
Found at i:2240277 original size:37 final size:36
Alignment explanation
Indices: 2240226--2240577 Score: 382
Period size: 36 Copynumber: 9.9 Consensus size: 36
2240216 CAAAGATTGG
*
2240226 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
*
2240263 TGTTTCAAGGGAAACTGTCTCCAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* *
2240299 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
* * ** * * *
2240336 AGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * * *
2240372 TGTTTCAAGGAAAACATAT-TC--TA-AG----ATTT
1 TGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAATT
* *
2240401 TTTTTCGAGGGAAACTGTCTCAAGAGAGAC--AATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
2240435 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
2240471 TGTTTCAAGTGAAATTGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
2240507 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAGATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA-AATT
*
2240544 TGTTTCAAGGGAAACTGTCTCAAGAGATACAAAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
2240578 CTTGGAAACT
Statistics
Matches: 264, Mismatches: 40, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.01
29 17 0.06
31 1 0.00
32 2 0.01
33 2 0.01
34 31 0.12
36 113 0.43
37 96 0.36
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:2240312 original size:73 final size:73
Alignment explanation
Indices: 2240226--2240577 Score: 397
Period size: 73 Copynumber: 5.0 Consensus size: 73
2240216 CAAAGATTGG
*
2240226 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCCAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
2240291 ACAAAATT
66 ACAAAATT
* * * ** * *
2240299 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
*
2240364 ACGAAATT
66 ACAAAATT
* * * * *
2240372 TGTTTCAAG-GAAAACATAT-TC--TA-AG-----ATTTTTTTTCGAGGGAAACTGTCTCAAGAG
1 TGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAG
2240427 AGAC--AATT
64 AGACAAAATT
* * * *
2240435 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTCAAGTGAAATTGTCTTAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
2240499 ACAAAATT
66 ACAAAATT
* * * *
2240507 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAGATTTTGTTTCAAGGGAAACTGTCTCAAGAGAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
2240572 ACAAAA
66 ACAAAA
2240578 CTTGGAAACT
Statistics
Matches: 229, Mismatches: 35, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
62 2 0.01
63 19 0.08
64 1 0.00
65 26 0.11
66 2 0.01
70 29 0.13
71 2 0.01
72 36 0.16
73 110 0.48
74 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (73 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACTGTCTCAAGAGAG
ACAAAATT
Found at i:2240454 original size:172 final size:175
Alignment explanation
Indices: 2240196--2240558 Score: 522
Period size: 172 Copynumber: 2.1 Consensus size: 175
2240186 GTTTTTTTTG
2240196 TGTTTCAA-GAGAAACATATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TGTTTCAAGGA-AAACATATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAA
*
2240260 CTTTGTTTCAAGGGAAACTGTCTCCAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAG
64 CTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAG
*
2240325 AGACAAAACTTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAA-A-TT
129 AGACAAAA-TTAGTTCCAAAAGAAACTATCTCAAGCGAGAC-AAGATTT
* * * * *
2240372 TGTTTCAAGGAAAACATATTCTAAGATT-TTTTTTCGAGGGAAACTGTCTCAAGAGAGAC-AA-T
1 TGTTTCAAGGAAAACATATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACT
* *
2240434 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGTGAAATTGTCTTAAGAGAG
66 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAG
* * * *
2240499 ACAAAATTTGTTTCAAGAGAAACTGTCTCAAGCGAGACAAGATTT
131 ACAAAATTAGTTCCAAAAGAAACTATCTCAAGCGAGACAAGATTT
*
2240544 TGTTTCAAGGGAAAC
1 TGTTTCAAGGAAAAC
2240559 TGTCTCAAGA
Statistics
Matches: 170, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
170 2 0.01
171 28 0.16
172 85 0.50
173 2 0.01
175 27 0.16
176 24 0.14
177 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (175 bp):
TGTTTCAAGGAAAACATATTCAAAGATTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAACT
TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAG
ACAAAATTAGTTCCAAAAGAAACTATCTCAAGCGAGACAAGATTT
Found at i:2240455 original size:136 final size:137
Alignment explanation
Indices: 2240265--2240520 Score: 363
Period size: 136 Copynumber: 1.9 Consensus size: 137
2240255 CAAAACTTTG
* *
2240265 TTTCAAGGGAAACTGTCTCCAGAGAGACAAAATTTGTTTCAAGAGAAATTGTCTCAAGAGAGACA
1 TTTCAAGGGAAACTGTCTCAAGAGAGAC-AAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACA
* *
2240330 AAACTTAGTTCCAAAAGAAACTATCTCAAGGGAGACGAAATTTGTTTCAAG-GAAAACATATTCT
65 AAA-TTAGTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAACATATTCT
2240394 AAGATTTTT
129 AAGATTTTT
* *
2240403 TTTCGAGGGAAACTGTCTCAAGAGAGAC-AATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
* * ** * * *
2240467 AATTTGTTTCAAGTGAAATTGTCTTAAGAGAGACAAAATTTGTTTCAAGAGAAA
66 AATTAGTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAA
2240521 CTGTCTCAAG
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
135 38 0.37
136 40 0.38
138 26 0.25
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (137 bp):
TTTCAAGGGAAACTGTCTCAAGAGAGACAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
AATTAGTTCCAAAAGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGAGAAAACATATTCTAA
GATTTTT
Found at i:2240516 original size:21 final size:21
Alignment explanation
Indices: 2240454--2240518 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
2240444 GGAAACTGTC
2240454 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
*
2240475 TC-A-AGTG---AAA-TTGTCT
1 TCAAGAGAGACAAAATTTGT-T
2240491 T-AAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAATTTGTT
2240511 TCAAGAGA
1 TCAAGAGA
2240519 AACTGTCTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
15 4 0.12
16 6 0.18
17 3 0.09
19 3 0.09
20 6 0.18
21 12 0.35
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (21 bp):
TCAAGAGAGACAAAATTTGTT
Found at i:2241848 original size:32 final size:33
Alignment explanation
Indices: 2241747--2241841 Score: 149
Period size: 32 Copynumber: 2.9 Consensus size: 33
2241737 ATTCCCAAAG
*
2241747 ATGCCCCAATATTTGATGTTAAAT-TTCAAAAA
1 ATGCCCCAACATTTGATGTTAAATCTTCAAAAA
2241779 ATGCCCCAACATTTGATGTTAAATC-TCAAAAA
1 ATGCCCCAACATTTGATGTTAAATCTTCAAAAA
* *
2241811 ATGCCCCAGCATTTGATGTTGAATCTTCAAA
1 ATGCCCCAACATTTGATGTTAAATCTTCAAA
2241842 GATGCCCTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
32 53 0.91
33 5 0.09
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.32
Consensus pattern (33 bp):
ATGCCCCAACATTTGATGTTAAATCTTCAAAAA
Found at i:2242834 original size:61 final size:65
Alignment explanation
Indices: 2242759--2242888 Score: 196
Period size: 61 Copynumber: 2.0 Consensus size: 65
2242749 TGTCTCTCTC
2242759 TTGATGCTCTATGATCTTCGAGTGAAGTGA-TT-TG-G-AAATGATTGTGCTTGATCAATCTCAT
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTTATGTGAAAATGATTGTGCTTGATCAATCTCAT
2242820 TTGATGCTCTATGATCTTCGAGTGAAGTGATTTAGTGATTCGAAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATCTTCGAGTGAAGTGATTTA-TG--T-GAAAATGATTGTGCTTGATCAATC
2242885 TCAT
62 TCAT
2242889 AGTTTGAATC
Statistics
Matches: 61, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
61 30 0.49
62 2 0.03
64 2 0.03
68 1 0.02
69 26 0.43
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (65 bp):
TTGATGCTCTATGATCTTCGAGTGAAGTGATTTATGTGAAAATGATTGTGCTTGATCAATCTCAT
Found at i:2244248 original size:27 final size:24
Alignment explanation
Indices: 2244218--2244267 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
2244208 CATGTTTATG
2244218 AAAATGCTTAAAAATGAATGTAGATGC
1 AAAATGC--AAAAATGAATG-AGATGC
*
2244245 AAAATGCAAAAATGCATGAGATG
1 AAAATGCAAAAATGAATGAGATG
2244268 TTCGAGGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 10 0.45
27 7 0.32
ACGTcount: A:0.50, C:0.08, G:0.20, T:0.22
Consensus pattern (24 bp):
AAAATGCAAAAATGAATGAGATGC
Found at i:2246081 original size:19 final size:19
Alignment explanation
Indices: 2246057--2246093 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2246047 AAATAAATCA
*
2246057 AAGAAAAAAAAGATAAAAT
1 AAGAAAAAAAACATAAAAT
*
2246076 AAGAAAAATAACATAAAA
1 AAGAAAAAAAACATAAAA
2246094 ATATTTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.08, T:0.11
Consensus pattern (19 bp):
AAGAAAAAAAACATAAAAT
Found at i:2247627 original size:17 final size:17
Alignment explanation
Indices: 2247597--2247635 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
2247587 TAGGACGTAT
2247597 AAAA-AATAAAAAATAA
1 AAAATAATAAAAAATAA
*
2247613 AAAATAATAATAAATAA
1 AAAATAATAAAAAATAA
*
2247630 ATAATA
1 AAAATA
2247636 TAGAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAATAAAAAATAA
Found at i:2247627 original size:24 final size:24
Alignment explanation
Indices: 2247595--2247658 Score: 65
Period size: 24 Copynumber: 2.5 Consensus size: 24
2247585 ATTAGGACGT
*
2247595 ATAAAAAATAAAAAATAAAAAATA
1 ATAATAAATAAAAAATAAAAAATA
* * *
2247619 ATAATAAATAAATAATATAGAATA
1 ATAATAAATAAAAAATAAAAAATA
2247643 ATTTAATATAATAAAA
1 A--TAATA-AATAAAA
2247659 TTTTTTATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 21 0.66
26 5 0.16
27 6 0.19
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (24 bp):
ATAATAAATAAAAAATAAAAAATA
Found at i:2247635 original size:7 final size:7
Alignment explanation
Indices: 2247595--2247633 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
2247585 ATTAGGACGT
2247595 ATAAAAA
1 ATAAAAA
2247602 ATAAAAA
1 ATAAAAA
2247609 ATAAAAA
1 ATAAAAA
*
2247616 AT-AATA
1 ATAAAAA
2247622 ATAAATAA
1 ATAAA-AA
2247630 ATAA
1 ATAA
2247634 TATAGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 5 0.18
7 18 0.64
8 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAAAAA
Found at i:2249440 original size:138 final size:137
Alignment explanation
Indices: 2249283--2249538 Score: 467
Period size: 138 Copynumber: 1.9 Consensus size: 137
2249273 CTAATAAATA
2249283 CCAACATATTAACATTTTAACATGTAACAACTAAGAAATCATCAAGTGATCTCAGTTGATAAAGA
1 CCAACATATTAACATTTTAACATGTAACAACTAAGAAATCATCAAGTGATCTCAGTTGATAAAGA
* * *
2249348 GAATGTTATTCTAATATAAGATCTTAAGTTTAAATAATTACATATGTAGAATGTTTAGGTTAATA
66 GAATATTATTCTAA-AGAAGATCTTAAGTTCAAATAATTACATATGTAGAATGTTTAGGTTAATA
2249413 AATTATGT
130 AATTATGT
2249421 CCAACATATTAACATTTTAACATGTAACAACTAAGAAATCATCAAGTGATCTCAGTTGATAAAGA
1 CCAACATATTAACATTTTAACATGTAACAACTAAGAAATCATCAAGTGATCTCAGTTGATAAAGA
*
2249486 GAATATTATTCTAAAGAAGATCTTAAGTTCAAATAATTACATATGTATAATGT
66 GAATATTATTCTAAAGAAGATCTTAAGTTCAAATAATTACATATGTAGAATGT
2249539 ACATACAACA
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
137 36 0.32
138 78 0.68
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (137 bp):
CCAACATATTAACATTTTAACATGTAACAACTAAGAAATCATCAAGTGATCTCAGTTGATAAAGA
GAATATTATTCTAAAGAAGATCTTAAGTTCAAATAATTACATATGTAGAATGTTTAGGTTAATAA
ATTATGT
Found at i:2249736 original size:16 final size:18
Alignment explanation
Indices: 2249706--2249741 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
2249696 AAAATATTTA
2249706 TTTAATATATATAATATT
1 TTTAATATATATAATATT
2249724 TTTAATA-AT-TAATATT
1 TTTAATATATATAATATT
2249740 TT
1 TT
2249742 CGATTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
17 2 0.11
18 7 0.39
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTAATATATATAATATT
Found at i:2256603 original size:15 final size:15
Alignment explanation
Indices: 2256585--2256618 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2256575 AGTCACTGTA
2256585 ATTTTAATAATTAAT
1 ATTTTAATAATTAAT
*
2256600 ATTTTAATCATTAAT
1 ATTTTAATAATTAAT
2256615 ATTT
1 ATTT
2256619 AATTAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTAATAATTAAT
Found at i:2256700 original size:15 final size:14
Alignment explanation
Indices: 2256675--2256717 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 14
2256665 GAATTAGTAT
2256675 CTTTAATTTTAATA
1 CTTTAATTTTAATA
2256689 CTTTATATTTTAATA
1 CTTTA-ATTTTAATA
*
2256704 TTATTAATTTTAAT
1 CT-TTAATTTTAAT
2256718 TTCTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 18 0.69
16 3 0.12
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (14 bp):
CTTTAATTTTAATA
Found at i:2256711 original size:30 final size:30
Alignment explanation
Indices: 2256677--2256749 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
2256667 ATTAGTATCT
2256677 TTAATTTTAATACTTTATATTTTAAT-ATTA
1 TTAATTTTAATACTTT-TATTTTAATCATTA
* *
2256707 TTAATTTTAATTTCTTTTATTTTGATCATTA
1 TTAATTTTAA-TACTTTTATTTTAATCATTA
*
2256738 TTTATTTGTAAT
1 TTAATTT-TAAT
2256750 TTTATTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 18 0.49
31 16 0.43
32 3 0.08
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (30 bp):
TTAATTTTAATACTTTTATTTTAATCATTA
Found at i:2256728 original size:15 final size:15
Alignment explanation
Indices: 2256674--2256729 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
2256664 CGAATTAGTA
2256674 TCTTTAATTTTAA-T
1 TCTTTAATTTTAATT
*
2256688 ACTTTATATTTTAATAT
1 TCTTTA-ATTTTAAT-T
*
2256705 T-ATTAATTTTAATT
1 TCTTTAATTTTAATT
*
2256719 TCTTTTATTTT
1 TCTTTAATTTT
2256730 GATCATTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
14 7 0.21
15 22 0.67
16 3 0.09
17 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TCTTTAATTTTAATT
Found at i:2257232 original size:154 final size:156
Alignment explanation
Indices: 2256851--2257252 Score: 450
Period size: 158 Copynumber: 2.6 Consensus size: 156
2256841 TAATTAAATA
* * *
2256851 ATAATGTTTATTTATTTTTAATATCAAAGAAAAGGATAGTCTTAAAGCAACTAGATGTCCTATTA
1 ATAATATTTATTTATTTTTAATATTAAAGAAAAGG-TAGTCTTAAAGCAACTAGATGTCCTTTTA
* * * *
2256916 TGATATTTTAAAAACAAATAAATATCCTACTTATAAAAACAAGAAAATAAATATTGTTTTATTTT
65 TGATATTTTAAAAATAAATAAATATCATACTTAT--AAACAAGAAAATAAATATTGATTTATCTT
*
2256981 TATTATTTTCTTAGAAAAATTATTATTTT
128 CATTATTTTCTTAGAAAAATTATTATTTT
* * *
2257010 A-AATATTTATTTATTTTCCAAATATT-AAGAAATGGCAGTCTTAAAGCAACTAGATGT-CTTAT
1 ATAATATTTATTTATTTT--TAATATTAAAGAAAAGGTAGTCTTAAAGCAACTAGATGTCCTT-T
* * *
2257072 TATGATATTTTAAAAATAAATAAATATCATGCTTAT-AA-AA-AATATATATA-T-ATTTA-CTT
63 TATGATATTTTAAAAATAAATAAATATCATACTTATAAACAAGAAAATAAATATTGATTTATCTT
*
2257131 CATTATTTT-TTAGGAAAATTATTATATTCTT
128 CATTATTTTCTTAGAAAAATTA-T-TATT-TT
* *
2257162 ATTAATATTTATTTATTTATTAATATTAAAGAAAAGGTAATCTTAAAACAACTAGATGTCCTTTT
1 A-TAATATTTATTTATTT-TTAATATTAAAGAAAAGGTAGTCTTAAAGCAACTAGATGTCCTTTT
*
2257227 TTGATATTTGT--AAATAAATAAATATC
64 ATGATATTT-TAAAAATAAATAAATATC
2257253 CTATTTACAA
Statistics
Matches: 210, Mismatches: 21, Indels: 30
0.80 0.08 0.11
Matches are distributed among these distances:
149 11 0.05
150 11 0.05
151 8 0.04
152 4 0.02
153 29 0.14
154 54 0.26
155 7 0.03
157 2 0.01
158 70 0.33
159 9 0.04
160 5 0.02
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (156 bp):
ATAATATTTATTTATTTTTAATATTAAAGAAAAGGTAGTCTTAAAGCAACTAGATGTCCTTTTAT
GATATTTTAAAAATAAATAAATATCATACTTATAAACAAGAAAATAAATATTGATTTATCTTCAT
TATTTTCTTAGAAAAATTATTATTTT
Found at i:2257835 original size:23 final size:23
Alignment explanation
Indices: 2257808--2257867 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
2257798 ATATATATAC
2257808 TTATTATTTTCATAATAT-TTTA
1 TTATTATTTTCATAATATCTTTA
*
2257830 TATATTATTTTTTATTAATATCTTTA
1 T-TATTA-TTTTCA-TAATATCTTTA
2257856 TT-TTATTTTCAT
1 TTATTATTTTCAT
2257868 GTATTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
22 2 0.06
23 10 0.31
24 8 0.25
25 7 0.22
26 5 0.16
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (23 bp):
TTATTATTTTCATAATATCTTTA
Found at i:2257842 original size:25 final size:26
Alignment explanation
Indices: 2257801--2257864 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
2257791 TTTTTTTATA
2257801 TATATACTTATTATTTTCA-TAATAT-TT
1 TATATA-TTATT-TTTT-ATTAATATCTT
2257828 TATATATTATTTTTTATTAATATCTT
1 TATATATTATTTTTTATTAATATCTT
2257854 TAT-T-TTATTTT
1 TATATATTATTTT
2257865 CATGTATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
24 8 0.23
25 11 0.31
26 10 0.29
27 6 0.17
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (26 bp):
TATATATTATTTTTTATTAATATCTT
Found at i:2259302 original size:7 final size:7
Alignment explanation
Indices: 2259286--2259325 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
2259276 TTTTCATACA
2259286 TGCA-TT
1 TGCATTT
2259292 TGCATTT
1 TGCATTT
2259299 TGCATCTT
1 TGCAT-TT
2259307 TGCATTT
1 TGCATTT
2259314 T-CATTT
1 TGCATTT
2259320 TGCATT
1 TGCATT
2259326 CATACTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 10 0.32
7 14 0.45
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:2261682 original size:2 final size:2
Alignment explanation
Indices: 2261670--2261711 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
2261660 ATCCTTTCAA
*
2261670 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2261712 CCCTTGTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2262441 original size:27 final size:27
Alignment explanation
Indices: 2262382--2262443 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
2262372 TCTTGAAACC
*
2262382 AAAGGAGGATTCGAGTTGAAAACCTGA
1 AAAGGTGGATTCGAGTTGAAAACCTGA
2262409 AAAGGTGGATTCGAGTTGAAAACCTGA
1 AAAGGTGGATTCGAGTTGAAAACCTGA
2262436 AAAGGTGG
1 AAAGGTGG
2262444 CTCGAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.39, C:0.10, G:0.32, T:0.19
Consensus pattern (27 bp):
AAAGGTGGATTCGAGTTGAAAACCTGA
Found at i:2266022 original size:31 final size:31
Alignment explanation
Indices: 2265984--2266108 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
2265974 CCCGAAGGAC
*
2265984 CAGTCCATA-GATCCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
2266015 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2266046 AAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
2266077 CAGTCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2266108 C
1 C
2266109 CCTCGACCCT
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
31 88 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.18, T:0.18
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2267342 original size:3 final size:3
Alignment explanation
Indices: 2267334--2267374 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2267324 TCTCGTACAT
*
2267334 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAT GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
2267375 GAATATCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.34, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:2270324 original size:31 final size:31
Alignment explanation
Indices: 2270286--2270410 Score: 207
Period size: 31 Copynumber: 4.0 Consensus size: 31
2270276 CCCGAAGGAC
*
2270286 CAGTCCATA-GATCCCGAAGAACCTAGGTAAA
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
2270317 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
2270348 CAATCCATATATCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2270379 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
2270410 C
1 C
2270411 CCTCGACCCT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:2271188 original size:64 final size:64
Alignment explanation
Indices: 2271050--2271211 Score: 193
Period size: 64 Copynumber: 2.5 Consensus size: 64
2271040 TCTTTCAATG
* *
2271050 AAAGTATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTA
1 AAAGTATGCATCGATGCACTACTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTA
*** * * * *
2271114 CTGGTATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATT-TTA
1 AAAGTATGCATCGATGCACTACTAATGCATCGATGCATAAAATGCATTCGATG-TTGTATTATTA
* *
2271178 AAAG-AGTGCATCAATGCACTACCAATGCATCGAT
1 AAAGTA-TGCATCGATGCACTACTAATGCATCGAT
2271212 ACACATTCAA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
63 1 0.01
64 75 0.91
65 6 0.07
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (64 bp):
AAAGTATGCATCGATGCACTACTAATGCATCGATGCATAAAATGCATTCGATGTTGTATTATTA
Found at i:2271758 original size:3 final size:3
Alignment explanation
Indices: 2271750--2271781 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2271740 TCTCGTACAT
*
2271750 GAA GAA GAA GAA GAA GAA GAA GAA GAT GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
2271782 GAATATCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:2272626 original size:73 final size:72
Alignment explanation
Indices: 2272507--2272875 Score: 373
Period size: 73 Copynumber: 5.0 Consensus size: 72
2272497 TTAAAATAGC
* * ** * * *
2272507 AATTTATCTCAATTGAAATTGTTTTTCTTAAAACAATTTTTTTCTCGCTAGAGAAAGTTTCACTT
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-AATTGTCTCGCTTGAGAAAGTTTCACTC
*
2272572 GAAATAAT
65 GAAACAAT
*
2272580 AATTTATCTCACTAGAGATTGTTTTTCTTAAAACAAAATGTGTCTCGCTTGAGACAA-TTTCACT
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAAT-TGTCTCGCTTGAGA-AAGTTTCACT
*
2272644 CAAAACAAT
64 CGAAACAAT
* *
2272653 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCGTCTCGCTTGAGATAGTTTCACTC
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATT-GTCTCGCTTGAGAAAGTTTCACTC
2272718 GAAACAGA-
65 GAAACA-AT
* ** *
2272726 AATTTATCTCACTTGAGATAGTTTTTCCCAAAGCAAAGAATTGTCTCGCTTGAGACAATTGTTTC
1 AATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AA-AATTGTCTCGCTTGAGA-AA--GTTTC
* *
2272791 ACTTGAAACAAGA
61 ACTCGAAACAA-T
* ** ** * *
2272804 AATTTTATCTTACTCAAGATAATTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGTTTCACT
1 AA-TTTATCTCACTTGAGATTGTTTTTCTTAAAACAA-AATTGTCTCGCTTGAGAAAGTTTCACT
*
2272869 AGAAACA
64 CGAAACA
2272876 GAAATTTCCA
Statistics
Matches: 252, Mismatches: 31, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
72 3 0.01
73 151 0.60
74 18 0.07
75 18 0.07
76 1 0.00
77 15 0.06
78 21 0.08
79 25 0.10
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (72 bp):
AATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAATTGTCTCGCTTGAGAAAGTTTCACTCG
AAACAAT
Found at i:2272670 original size:37 final size:36
Alignment explanation
Indices: 2272507--2272749 Score: 153
Period size: 36 Copynumber: 6.7 Consensus size: 36
2272497 TTAAAATAGC
* * * ** *
2272507 AATTTATCTCAATTGAAATTGTTTTTCTTAAAACAA
1 AATTTATCTCACTTGAGATAGTTTCACTCAAAACAA
** * * * * ** *
2272543 TTTTTTTCTCGCTAGAGAAAGTTTCACTTGAAATAA
1 AATTTATCTCACTTGAGATAGTTTCACTCAAAACAA
* * ** *
2272579 TAATTTATCTCACTAGAGATTGTTTTTCTTAAAACAA
1 -AATTTATCTCACTTGAGATAGTTTCACTCAAAACAA
* * * * *
2272616 AATGTGTCTCGCTTGAGACAATTTCACTCAAAACAA
1 AATTTATCTCACTTGAGATAGTTTCACTCAAAACAA
* ** *
2272652 TAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAA
1 -AATTTATCTCACTTGAGATAGTTTCACTCAAAACAA
* ** * *
2272689 GATTCGTCTCGCTTGAGATAGTTTCACTCGAAACAGA
1 AATTTATCTCACTTGAGATAGTTTCACTCAAAACA-A
2272726 AATTTATCTCACTTGAGATAGTTT
1 AATTTATCTCACTTGAGATAGTTT
2272750 TTCCCAAAGC
Statistics
Matches: 149, Mismatches: 55, Indels: 5
0.71 0.26 0.02
Matches are distributed among these distances:
36 75 0.50
37 74 0.50
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (36 bp):
AATTTATCTCACTTGAGATAGTTTCACTCAAAACAA
Found at i:2272707 original size:36 final size:35
Alignment explanation
Indices: 2272594--2272780 Score: 131
Period size: 37 Copynumber: 5.1 Consensus size: 35
2272584 TATCTCACTA
*
2272594 GAGATTGTTTTTCTTAAAACAAAATGTGTCTCGCTT
1 GAGATAGTTTTTCTTAAAACAAAAT-TGTCTCGCTT
* * ** * * *
2272630 GAGACAATTTCACTCAAAACAATAATTTATCTCACTT
1 GAGATAGTTTTTCTTAAAACAA-AA-TTGTCTCGCTT
* *
2272667 GAGATTGTTTTTCTTAAAACAAGATTCGTCTCGCTT
1 GAGATAGTTTTTCTTAAAACAAAATT-GTCTCGCTT
** ** * *
2272703 GAGATAGTTTCACTCGAAACAGAAATTTATCTCACTT
1 GAGATAGTTTTTCTTAAAACA-AAA-TTGTCTCGCTT
** *
2272740 GAGATAGTTTTTCCCAAAGCAAAGAATTGTCTCGCTT
1 GAGATAGTTTTTCTTAAAAC-AA-AATTGTCTCGCTT
2272777 GAGA
1 GAGA
2272781 CAATTGTTTC
Statistics
Matches: 112, Mismatches: 32, Indels: 13
0.71 0.20 0.08
Matches are distributed among these distances:
35 2 0.02
36 40 0.36
37 64 0.57
38 6 0.05
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (35 bp):
GAGATAGTTTTTCTTAAAACAAAATTGTCTCGCTT
Found at i:2272841 original size:20 final size:20
Alignment explanation
Indices: 2272796--2272843 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
2272786 GTTTCACTTG
2272796 AAACAAGA-AATTTTATCTT
1 AAACAAGATAATTTTATCTT
**
2272815 ACTCAAGATAATTTT-TCTT
1 AAACAAGATAATTTTATCTT
2272834 AAAACAAGAT
1 -AAACAAGAT
2272844 TTGTCTCGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (20 bp):
AAACAAGATAATTTTATCTT
Found at i:2272850 original size:152 final size:146
Alignment explanation
Indices: 2272528--2272882 Score: 417
Period size: 146 Copynumber: 2.4 Consensus size: 146
2272518 ATTGAAATTG
** * * * *
2272528 TTTTTCTTAAAACAATTTTTTTCTCGCTAGAGAAAGTTTCACTTGAAATA-ATAATTTATCTCAC
1 TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAAGTTTCACTAGAAACAGA-AATTTATCTCAC
* ** *
2272592 TAGAGATTGTTTTTCTTAAAACAAAATGTGTCTCGCTTGAGACAATTTCACTCAAAACAATAATT
65 TAGAGATAGTTTTTCCCAAAACAAAATGTGTCTCGCTTGAGACAATTTCACTCAAAACAAAAATT
** **
2272657 TATCTCACTTGAGATTG
130 TATCTCACTCAAGATAA
* * *
2272674 TTTTTCTTAAAACAAGATTCGTCTCGCTTGAGATAGTTTCACTCGAAACAGAAATTTATCTCACT
1 TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAAGTTTCACTAGAAACAGAAATTTATCTCACT
* * **
2272739 TGAGATAGTTTTTCCCAAAGCAAAGAAT-TGTCTCGCTTGAGACAATTGTTTCACTTGAAACAAG
66 AGAGATAGTTTTTCCCAAAAC-AA-AATGTGTCTCGCTTGAGACAA---TTTCACTCAAAACAA-
*
2272803 AAATTTTATCTTACTCAAGATAA
125 AAA-TTTATCTCACTCAAGATAA
*
2272826 TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACAGTTTCACTAGAAACAGAAATTT
1 TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAAGTTTCACTAGAAACAGAAATTT
2272883 CCATCACTCG
Statistics
Matches: 177, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
146 71 0.40
147 20 0.11
148 3 0.02
150 13 0.07
151 2 0.01
152 68 0.38
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (146 bp):
TTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAAAGTTTCACTAGAAACAGAAATTTATCTCACT
AGAGATAGTTTTTCCCAAAACAAAATGTGTCTCGCTTGAGACAATTTCACTCAAAACAAAAATTT
ATCTCACTCAAGATAA
Found at i:2273105 original size:62 final size:59
Alignment explanation
Indices: 2273046--2273163 Score: 130
Period size: 59 Copynumber: 1.9 Consensus size: 59
2273036 GGAGTTCATA
*
2273046 ATGAGAAGAACTCATCTGAAGAAGAAGAAGATGAAGTTCACAATGAGAAGA-ACTTGTTCAAC
1 ATGAGAACAACTCATCTGAAGAAGAAG-A-A-GAAGTTCACAATGAGAAGACA-TTGTTCAAC
* * ** * *
2273108 CTTAGTTCAATTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGACATTGTTC
1 ATGAGAACAACTCATCTGAAGAAGAAGAAGAAGTTCACAATGAGAAGACATTGTTC
2273164 GACCTTATCT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
59 24 0.50
60 2 0.04
61 1 0.02
62 21 0.44
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.24
Consensus pattern (59 bp):
ATGAGAACAACTCATCTGAAGAAGAAGAAGAAGTTCACAATGAGAAGACATTGTTCAAC
Found at i:2274834 original size:15 final size:15
Alignment explanation
Indices: 2274816--2274849 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
2274806 AGTCACTATA
2274816 ATTTTAATAATTAAT
1 ATTTTAATAATTAAT
*
2274831 ATTTTAATCATTAAT
1 ATTTTAATAATTAAT
2274846 ATTT
1 ATTT
2274850 AATTAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTAATAATTAAT
Found at i:2274931 original size:15 final size:15
Alignment explanation
Indices: 2274908--2274949 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
2274898 ATTAGTATCT
2274908 TTAATTTTTAATATT-
1 TTAA-TTTTAATATTA
2274923 TTATATTTTAATATTA
1 TTA-ATTTTAATATTA
2274939 TTAATTTTAAT
1 TTAATTTTAAT
2274950 TTCTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTAATTTTAATATTA
Found at i:2274936 original size:8 final size:8
Alignment explanation
Indices: 2274907--2274943 Score: 51
Period size: 7 Copynumber: 4.8 Consensus size: 8
2274897 AATTAGTATC
2274907 TTTAAT-T
1 TTTAATAT
2274914 TTTAATAT
1 TTTAATAT
2274922 TTT-ATAT
1 TTTAATAT
2274929 TTTAATAT
1 TTTAATAT
2274937 TATTAAT
1 T-TTAAT
2274944 TTTAATTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 13 0.48
8 9 0.33
9 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTAATAT
Found at i:2274946 original size:31 final size:32
Alignment explanation
Indices: 2274908--2274976 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 32
2274898 ATTAGTATCT
2274908 TTAATTTTTAATATT-TTATATTTTAAT-ATTA
1 TTAATTTTTAAT-TTCTTATATTTTAATCATTA
* *
2274939 TTAA-TTTTAATTTCTTTTATTTTGATCATTA
1 TTAATTTTTAATTTCTTATATTTTAATCATTA
*
2274970 TTTATTT
1 TTAATTT
2274977 GCAATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 2 0.06
30 17 0.53
31 11 0.34
32 2 0.06
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (32 bp):
TTAATTTTTAATTTCTTATATTTTAATCATTA
Found at i:2278606 original size:15 final size:15
Alignment explanation
Indices: 2278586--2278615 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2278576 AGTAGTTTCC
2278586 AACCAAGATAGGTAT
1 AACCAAGATAGGTAT
2278601 AACCAAGATAGGTAT
1 AACCAAGATAGGTAT
2278616 CTCTTCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
AACCAAGATAGGTAT
Found at i:2281147 original size:3 final size:3
Alignment explanation
Indices: 2281139--2281163 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2281129 ATTCAAAAAT
2281139 ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA A
2281164 AATCCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Done.