Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 17 of 182
Found at i:5944834 original size:19 final size:19
Alignment explanation
Indices: 5944806--5944847 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
5944796 TGAGAGCTAA
*
5944806 GAGAGTTGAGAGAGAGGAT
1 GAGAGATGAGAGAGAGGAT
*
5944825 GAGAGATGAGAGAGATGAT
1 GAGAGATGAGAGAGAGGAT
5944844 GAGA
1 GAGA
5944848 TGAGGGATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.45, T:0.14
Consensus pattern (19 bp):
GAGAGATGAGAGAGAGGAT
Found at i:5944837 original size:17 final size:17
Alignment explanation
Indices: 5944812--5944859 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 17
5944802 CTAAGAGAGT
5944812 TGAGA-GAGAG-GATGA
1 TGAGATGAGAGAGATGA
5944827 -GAGATGAGAGAGATGA
1 TGAGATGAGAGAGATGA
5944843 TGAGATGAG-G-GATGA
1 TGAGATGAGAGAGATGA
5944858 TG
1 TG
5944860 GATAAAATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 6 0.20
17 8 0.27
ACGTcount: A:0.38, C:0.00, G:0.46, T:0.17
Consensus pattern (17 bp):
TGAGATGAGAGAGATGA
Found at i:5944856 original size:12 final size:12
Alignment explanation
Indices: 5944812--5944857 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
5944802 CTAAGAGAGT
5944812 TGAGAGA-GAGGA
1 TGAGAGATGA-GA
5944824 TGAGAGATGAGA
1 TGAGAGATGAGA
5944836 -GAGATGATGAGA
1 TGAGA-GATGAGA
*
5944848 TGAGGGATGA
1 TGAGAGATGA
5944858 TGGATAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 4 0.13
12 21 0.70
13 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.46, T:0.15
Consensus pattern (12 bp):
TGAGAGATGAGA
Found at i:5957237 original size:89 final size:88
Alignment explanation
Indices: 5957076--5957243 Score: 239
Period size: 89 Copynumber: 1.9 Consensus size: 88
5957066 TCGATACACG
* * * * *
5957076 TAGTAGCCTTCAGATAGTACTACACACGTGATCAAGTTTTACGATTCACGTAGTAGCCTTCACAT
1 TAGTAGCCTTCACATAGTACTACACACATGACCAAGTTTTACGATACACATAGTAGCCTTCACAT
5957141 AGTACTACACACGTCGGTTCACA
66 AGTACTACACACGTCGGTTCACA
* *
5957164 TAGTAGCCTTCACATAGTACTACGCACATGACCAAAGCTTTT-CGGTACACATAGTAGCCTTCAC
1 TAGTAGCCTTCACATAGTACTACACACATGACC-AAG-TTTTACGATACACATAGTAGCCTTCAC
*
5957228 TTAGTACTACACACGT
64 ATAGTACTACACACGT
5957244 GACCAAAACT
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
88 29 0.41
89 37 0.53
90 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (88 bp):
TAGTAGCCTTCACATAGTACTACACACATGACCAAGTTTTACGATACACATAGTAGCCTTCACAT
AGTACTACACACGTCGGTTCACA
Found at i:5957297 original size:51 final size:51
Alignment explanation
Indices: 5957154--5957346 Score: 224
Period size: 51 Copynumber: 3.8 Consensus size: 51
5957144 ACTACACACG
* * * * * *
5957154 TCGGTTCACATAGTAGCCTTCACATAGTACTACGCACATGACCAAAGCTTT
1 TCGGTACACATAGTAGCCTTCACTTAGTACTACACACGTGACCAAAACTTC
5957205 TCGGTACACATAGTAGCCTTCACTTAGTACTACACACGTGACCAAAACTTC
1 TCGGTACACATAGTAGCCTTCACTTAGTACTACACACGTGACCAAAACTTC
* * ** * *
5957256 TCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
1 TCGGTACACATAGTAGCCTTCACTTAGTACTACACACGTGACCAAAACTTC
* * * ** *
5957307 TCGATTCACGTAGTAGCCTTCACACAGCACTACACACGTG
1 TCGGTACACATAGTAGCCTTCACTTAGTACTACACACGTG
5957347 TTCATCGATA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 122 1.00
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (51 bp):
TCGGTACACATAGTAGCCTTCACTTAGTACTACACACGTGACCAAAACTTC
Found at i:5963961 original size:26 final size:26
Alignment explanation
Indices: 5963921--5963998 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
5963911 AGGAAGTATT
5963921 CTGTTACTGGCAGCTTTGCTGTGATA
1 CTGTTACTGGCAGCTTTGCTGTGATA
* *
5963947 CTGTTACTGGTAGCTTTGCTATGATA
1 CTGTTACTGGCAGCTTTGCTGTGATA
* *
5963973 CTATTACTGGCAGCTTTGCTGCGATA
1 CTGTTACTGGCAGCTTTGCTGTGATA
5963999 TTGGTGTGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (26 bp):
CTGTTACTGGCAGCTTTGCTGTGATA
Found at i:5964128 original size:27 final size:27
Alignment explanation
Indices: 5964098--5964156 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
5964088 ATTGCACTGT
5964098 ATTGATCA-TTATTGGGCTAAAGCCCAC
1 ATTG-TCACTTATTGGGCTAAAGCCCAC
* *
5964125 ATTGTTACTTATTGGGCTAAGGCCCAC
1 ATTGTCACTTATTGGGCTAAAGCCCAC
5964152 ATTGT
1 ATTGT
5964157 ACCATTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (27 bp):
ATTGTCACTTATTGGGCTAAAGCCCAC
Found at i:5971837 original size:26 final size:26
Alignment explanation
Indices: 5971791--5971882 Score: 107
Period size: 26 Copynumber: 3.6 Consensus size: 26
5971781 TGGAGGAAGT
5971791 ATACTGTTACTGGC-GCTTTGCT-CTG
1 ATACTGTTACTGGCAGCTTTGCTGC-G
* *
5971816 ATATTGTTACTAGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* **
5971842 ATACTGTTACTGGCAGCTTTGTTGTT
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
5971868 ATACTATTACTGGCA
1 ATACTGTTACTGGCA
5971883 TCTTGGCAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.21
26 44 0.77
27 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:5978612 original size:26 final size:27
Alignment explanation
Indices: 5978553--5978619 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
5978543 CAATTTGACC
*
5978553 CACAGCTCGTGTGAGCAGGCCCATTTT
1 CACAGCTCGTGTGAGCAGACCCATTTT
* * *
5978580 CATAGCTCGTGTGAGCATACTC-TTTT
1 CACAGCTCGTGTGAGCAGACCCATTTT
*
5978606 CACAGCTCATGTGA
1 CACAGCTCGTGTGA
5978620 AAATATATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 16 0.47
27 18 0.53
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (27 bp):
CACAGCTCGTGTGAGCAGACCCATTTT
Found at i:5996883 original size:22 final size:23
Alignment explanation
Indices: 5996858--5996902 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
5996848 AAACTTATTT
5996858 TAACCCATT-TTT-AACACTAAAA
1 TAACCC-TTATTTCAACACTAAAA
*
5996880 TAACCCTTATTTCAACCCTAAAA
1 TAACCCTTATTTCAACACTAAAA
5996903 CATACTAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 9 0.45
23 9 0.45
ACGTcount: A:0.42, C:0.27, G:0.00, T:0.31
Consensus pattern (23 bp):
TAACCCTTATTTCAACACTAAAA
Found at i:6007333 original size:29 final size:29
Alignment explanation
Indices: 6007287--6007410 Score: 158
Period size: 29 Copynumber: 4.3 Consensus size: 29
6007277 ACCTCATATA
*
6007287 ATGAAAAGGGATAGCTTCGGCTACCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
6007316 ATGAAAAGGGATAACTTCGGCTATTGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * *
6007345 ATAAAAAAGGATAGCTTCGGCTTTCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * *
6007374 GTGAAAAGAGATAGCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
6007403 ATGAAAAG
1 ATGAAAAG
6007411 AGATGGTGAC
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:6007483 original size:59 final size:58
Alignment explanation
Indices: 6007396--6007516 Score: 147
Period size: 59 Copynumber: 2.1 Consensus size: 58
6007386 AGCTTTGGCT
*
6007396 ATCGATTATGAAAAGAGATGGTGACAACCATC-AACTATAAAAAGAGATGGTGACGACC
1 ATCGATTATGAAAAGAGATGGTGACAACCATCGAA-TATAAAAAGAGATGGTGACAACC
** * * *
6007454 ATCGATTAATGAAAATG-GATGGTTTCAACCATCGAATATTAAAAGGGATGGTTACAACC
1 ATCGATT-ATGAAAA-GAGATGGTGACAACCATCGAATATAAAAAGAGATGGTGACAACC
6007513 ATCG
1 ATCG
6007517 GTTAGCACAC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
58 7 0.13
59 44 0.81
60 3 0.06
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (58 bp):
ATCGATTATGAAAAGAGATGGTGACAACCATCGAATATAAAAAGAGATGGTGACAACC
Found at i:6007516 original size:29 final size:29
Alignment explanation
Indices: 6007396--6007516 Score: 120
Period size: 29 Copynumber: 4.1 Consensus size: 29
6007386 AGCTTTGGCT
*
6007396 ATCGATTATGAAAAGAGATGGTGACAACC
1 ATCGAATATGAAAAGAGATGGTGACAACC
* *
6007425 ATC-AACTATAAAAAGAGATGGTGACGACC
1 ATCGAA-TATGAAAAGAGATGGTGACAACC
* **
6007454 ATCGATTAATGAAAATG-GATGGTTTCAACC
1 ATCGAAT-ATGAAAA-GAGATGGTGACAACC
* * *
6007484 ATCGAATATTAAAAGGGATGGTTACAACC
1 ATCGAATATGAAAAGAGATGGTGACAACC
6007513 ATCG
1 ATCG
6007517 GTTAGCACAC
Statistics
Matches: 76, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
28 2 0.03
29 50 0.66
30 23 0.30
31 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (29 bp):
ATCGAATATGAAAAGAGATGGTGACAACC
Found at i:6013043 original size:24 final size:25
Alignment explanation
Indices: 6012996--6013051 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 25
6012986 TGATCTGAAG
*
6012996 ATCGGTATGCTCTCACGAGTTATAA
1 ATCGGTATGCTCTCACGAGCTATAA
6013021 ATCGGTATGCTCTC-CGAGCTATAA
1 ATCGGTATGCTCTCACGAGCTATAA
6013045 ATCGGTA
1 ATCGGTA
6013052 ACCCTAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (25 bp):
ATCGGTATGCTCTCACGAGCTATAA
Found at i:6017624 original size:40 final size:40
Alignment explanation
Indices: 6017567--6017770 Score: 239
Period size: 40 Copynumber: 5.1 Consensus size: 40
6017557 AACTTTTGTA
* * * * * *
6017567 TGAATGCACATATGTGCCCTTGTTTGTAATTCGGTATCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* *
6017607 TGAATGCACATACGTGCCCCTTTTTGTACTTCTATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
6017647 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* * * *
6017687 TAAATGCACATACATGCCCCTGTTTGTACTTCGGTACACC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
* * * * * *
6017727 TGAACGCTCATACATG-CCCTGTTTGTACTTTGGTAACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
6017766 TGAAT
1 TGAAT
6017771 CAAATAGTAT
Statistics
Matches: 143, Mismatches: 21, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 24 0.17
40 119 0.83
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.34
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCGATACCCC
Found at i:6017666 original size:20 final size:20
Alignment explanation
Indices: 6017643--6017708 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
6017633 TACTTCTATA
6017643 CCCCTGAATGCACATACGTG
1 CCCCTGAATGCACATACGTG
** * * *
6017663 CCCCTGTTTGTAC-TTCGATA
1 CCCCTGAATGCACATACG-TG
* *
6017683 CCCCTAAATGCACATACATG
1 CCCCTGAATGCACATACGTG
6017703 CCCCTG
1 CCCCTG
6017709 TTTGTACTTC
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
19 3 0.10
20 26 0.84
21 2 0.06
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (20 bp):
CCCCTGAATGCACATACGTG
Found at i:6020690 original size:19 final size:19
Alignment explanation
Indices: 6020666--6020703 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
6020656 AAAAAAAATT
6020666 TGAGAGAATGATGA-ATGAG
1 TGAGAG-ATGATGAGATGAG
6020685 TGAGAGATGATGAGATGAG
1 TGAGAGATGATGAGATGAG
6020704 GGATGATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.21
Consensus pattern (19 bp):
TGAGAGATGATGAGATGAG
Found at i:6024302 original size:49 final size:50
Alignment explanation
Indices: 6024203--6024304 Score: 161
Period size: 49 Copynumber: 2.1 Consensus size: 50
6024193 ACGGCACAAA
* * **
6024203 GAAGATATTTAGGGATTTTTAGGGTGGAAGCAAATTGTTTTGAGGGATAT
1 GAAGAGATTTAGGGATTTTTAGGGTGAAAGCAAATTACTTTGAGGGATAT
6024253 GAAGAGATTTAGGGATTTTTAGGGT-AAAGCAAATTACTTTGAGGGATAT
1 GAAGAGATTTAGGGATTTTTAGGGTGAAAGCAAATTACTTTGAGGGATAT
6024302 GAA
1 GAA
6024305 AATTAGTAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
49 24 0.50
50 24 0.50
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (50 bp):
GAAGAGATTTAGGGATTTTTAGGGTGAAAGCAAATTACTTTGAGGGATAT
Found at i:6033565 original size:12 final size:13
Alignment explanation
Indices: 6033541--6033569 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6033531 GGGTTATAAC
6033541 TATTGCATTTATT
1 TATTGCATTTATT
6033554 TATTGC-TTTATT
1 TATTGCATTTATT
6033566 TATT
1 TATT
6033570 CATGTATGAG
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:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:6038207 original size:16 final size:16
Alignment explanation
Indices: 6038186--6038254 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
6038176 TTTGGTTCGC
6038186 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6038202 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6038218 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
6038235 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
6038251 TGTA
1 TGTA
6038255 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:6038232 original size:33 final size:32
Alignment explanation
Indices: 6038186--6038254 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
6038176 TTTGGTTCGC
6038186 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
6038218 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
6038251 TGTA
1 TGTA
6038255 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:6038319 original size:44 final size:45
Alignment explanation
Indices: 6038235--6038325 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6038225 GGATTAGAGG
* * *
6038235 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
6038280 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
6038324 TG
1 TG
6038326 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:6038511 original size:18 final size:17
Alignment explanation
Indices: 6038490--6038524 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6038480 TTATTATTAA
*
6038490 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6038508 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6038525 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6038631 original size:18 final size:17
Alignment explanation
Indices: 6038610--6038644 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6038600 TTATTATTAA
*
6038610 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6038628 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6038645 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6038686 original size:120 final size:120
Alignment explanation
Indices: 6038473--6038735 Score: 517
Period size: 120 Copynumber: 2.2 Consensus size: 120
6038463 ATCATATTTA
6038473 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
6038538 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
6038593 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
6038658 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
6038713 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
6038736 AACTTGAAAA
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 142 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:6038873 original size:47 final size:46
Alignment explanation
Indices: 6038820--6038958 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
6038810 TTAATAATAA
*
6038820 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATAT-AATT
** * * *
6038867 TATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-ATAATGA
1 TATATAATTTCATAAAATTCTTAATAATAAAT-T-TTCTTATATAAT-T
*
6038911 TATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATAATT
1 TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATAATT
6038957 TA
1 TA
6038959 CTAAAATCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.35
45 7 0.10
46 8 0.11
47 29 0.40
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (46 bp):
TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATAATT
Found at i:6038915 original size:44 final size:43
Alignment explanation
Indices: 6038798--6038920 Score: 106
Period size: 44 Copynumber: 2.7 Consensus size: 43
6038788 TTATATTTTA
** *
6038798 ATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCTTGAT
1 ATTAAATATAATTTAATAAT-ATATATAA-TT--TAAAATAATTAAT
* * *
6038845 AATAAAT-T-TTCTTATATGAATTTATATAATTTAAAATAATTAAT
1 ATTAAATATAAT-TTA-AT-AATATATATAATTTAAAATAATTAAT
6038889 ATTAAATATAATTTAATAATGATATATAATTT
1 ATTAAATATAATTTAATAAT-ATATATAATTT
6038921 CATAAAATTC
Statistics
Matches: 61, Mismatches: 9, Indels: 15
0.72 0.11 0.18
Matches are distributed among these distances:
43 3 0.05
44 28 0.46
45 5 0.08
46 7 0.11
47 15 0.25
48 3 0.05
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (43 bp):
ATTAAATATAATTTAATAATATATATAATTTAAAATAATTAAT
Found at i:6038948 original size:16 final size:16
Alignment explanation
Indices: 6038922--6038955 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6038912 ATATAATTTC
6038922 ATAAAATTCTTA-ATA
1 ATAAAATTCTTATATA
6038937 ATAAATATTCTTATATA
1 ATAAA-ATTCTTATATA
6038954 AT
1 AT
6038956 TTACTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAATTCTTATATA
Found at i:6039302 original size:66 final size:66
Alignment explanation
Indices: 6039196--6039326 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
6039186 CGCAAATGTG
* *
6039196 ATTTGAGTTCAAATTAGATTCATAGTAAGCTCAAATTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
6039261 C
66 C
* *
6039262 ATTTGGGTTCAAATTATACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
6039327 AAACCTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (66 bp):
ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
C
Found at i:6043426 original size:306 final size:306
Alignment explanation
Indices: 6042873--6043482 Score: 1141
Period size: 306 Copynumber: 2.0 Consensus size: 306
6042863 TTTCAGTTTT
* * *
6042873 TTTTCTGTGACTACAAATAAACTGTTTTATGATAATGTCCTGAGAATAATATGATTATTTTTAAA
1 TTTTCTGTGACTACAAATAAACTGTTTTATAATAATATCCTGAGAATAATATGATTATTCTTAAA
* *
6042938 AGGTCCTTAGTCAAGTGTTATTGTTGACTAGGACAACAATAATGCATTAAGTCTAACATGTAGTT
66 AGGTCCTTAGTCAAGTATTATTGTTGACTAGGACAACAATAATGCATTAAGACTAACATGTAGTT
6043003 GATTGATGATAAAGAGTTGTCATTGATAAGAAGTGTCAAAATCAATGTATGAATATGTGTGTCAG
131 GATTGATGATAAAGAGTTGTCATTGATAAGAAGTGTCAAAATCAATGTATGAATATGTGTGTCAG
6043068 AGAAAAAACATATTGGACTGACCCGCTATGAGTATGTTTCTTGGATTATTATGTAATTGTCACAA
196 AGAAAAAACATATTGGACTGACCCGCTATGAGTATGTTTCTTGGATTATTATGTAATTGTCACAA
6043133 CATTACTCATAGTGATTAATATGTATATGATCCTCAGACTTAATTC
261 CATTACTCATAGTGATTAATATGTATATGATCCTCAGACTTAATTC
* *
6043179 TTTTCTGTGAGTATAAATAAACTGTTTTATAATAATATCCTGAGAATAATATGATTATTCTTAAA
1 TTTTCTGTGACTACAAATAAACTGTTTTATAATAATATCCTGAGAATAATATGATTATTCTTAAA
6043244 AGGTCCTTAGTCAAGTATTATTGTTGGA-TAGGACAACAATAATGCATTAAGACTAACATGTAGT
66 AGGTCCTTAGTCAAGTATTATTGTT-GACTAGGACAACAATAATGCATTAAGACTAACATGTAGT
6043308 TGATTGATGATAAAGAGTTGTCATTGATAAGAAGTGTCAAAATCAATGTATGAATATGTGTGTCA
130 TGATTGATGATAAAGAGTTGTCATTGATAAGAAGTGTCAAAATCAATGTATGAATATGTGTGTCA
6043373 GAGAAAAAACATATTGGACTGACCCGCTATGAGTATGTTTCTTGGATTATTATGTAATTGTCACA
195 GAGAAAAAACATATTGGACTGACCCGCTATGAGTATGTTTCTTGGATTATTATGTAATTGTCACA
6043438 ACATTACTCATAGTGATTAATATGTATATGATCCTCAGACTTAAT
260 ACATTACTCATAGTGATTAATATGTATATGATCCTCAGACTTAAT
6043483 ATCATCATTA
Statistics
Matches: 296, Mismatches: 7, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
306 294 0.99
307 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (306 bp):
TTTTCTGTGACTACAAATAAACTGTTTTATAATAATATCCTGAGAATAATATGATTATTCTTAAA
AGGTCCTTAGTCAAGTATTATTGTTGACTAGGACAACAATAATGCATTAAGACTAACATGTAGTT
GATTGATGATAAAGAGTTGTCATTGATAAGAAGTGTCAAAATCAATGTATGAATATGTGTGTCAG
AGAAAAAACATATTGGACTGACCCGCTATGAGTATGTTTCTTGGATTATTATGTAATTGTCACAA
CATTACTCATAGTGATTAATATGTATATGATCCTCAGACTTAATTC
Found at i:6045779 original size:14 final size:14
Alignment explanation
Indices: 6045760--6045787 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6045750 TCAATTTATT
6045760 AATGAATTATTAAA
1 AATGAATTATTAAA
6045774 AATGAATTATTAAA
1 AATGAATTATTAAA
6045788 TATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (14 bp):
AATGAATTATTAAA
Found at i:6047255 original size:7 final size:8
Alignment explanation
Indices: 6047243--6047301 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
6047233 TAAGCACAAG
6047243 AATAAAA-
1 AATAAAAT
6047250 AATAAAAT
1 AATAAAAT
*
6047258 AACAAGAAT
1 AATAA-AAT
6047267 AAT-AAAT
1 AATAAAAT
*
6047274 AATAAAAC
1 AATAAAAT
*
6047282 AACAAAGTAT
1 AATAAA--AT
6047292 AATAAAAT
1 AATAAAAT
6047300 AA
1 AA
6047302 GATAAAGGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
7 13 0.32
8 17 0.41
9 5 0.12
10 6 0.15
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (8 bp):
AATAAAAT
Found at i:6047262 original size:21 final size:21
Alignment explanation
Indices: 6047238--6047283 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6047228 AAATCTAAGC
6047238 ACAAGAATAAAAAATAA-AATA
1 ACAAGAATAAAAAATAATAA-A
*
6047259 ACAAGAATAATAAATAATAAA
1 ACAAGAATAAAAAATAATAAA
6047280 ACAA
1 ACAA
6047284 CAAAGTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (21 bp):
ACAAGAATAAAAAATAATAAA
Found at i:6047277 original size:24 final size:25
Alignment explanation
Indices: 6047243--6047298 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
6047233 TAAGCACAAG
*
6047243 AATAAAAAATAAAATAAC-AAGAAT
1 AATAAAAAATAAAACAACAAAGAAT
* *
6047267 AATAAATAATAAAACAACAAAGTAT
1 AATAAAAAATAAAACAACAAAGAAT
6047292 AATAAAA
1 AATAAAA
6047299 TAAGATAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (25 bp):
AATAAAAAATAAAACAACAAAGAAT
Found at i:6048217 original size:20 final size:20
Alignment explanation
Indices: 6048180--6048218 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6048170 ATCAAAGTAA
*
6048180 ATAAAAATAAGTATTAAAAG
1 ATAAAAATAAGTAATAAAAG
6048200 ATAATAAATAA-TAATAAAA
1 ATAA-AAATAAGTAATAAAA
6048219 ACACTCAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAAAAATAAGTAATAAAAG
Found at i:6055392 original size:14 final size:14
Alignment explanation
Indices: 6055373--6055400 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6055363 TAAAGTTGAA
6055373 TTTAATATTTCATT
1 TTTAATATTTCATT
6055387 TTTAATATTTCATT
1 TTTAATATTTCATT
6055401 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATATTTCATT
Found at i:6058790 original size:41 final size:40
Alignment explanation
Indices: 6058727--6059084 Score: 356
Period size: 41 Copynumber: 8.6 Consensus size: 40
6058717 CTTTGAATGT
* * * *
6058727 AAGGGGTTGCTAAGTGCAGATTCCTCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TAA
* * * *
6058768 AAGGGGTTACTATGTGCTGATTCCCTGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * *
6058808 AAGATGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATGGTGA
1 AAG-GGGTTGCTAAGTGCTGATTCC-CCGTATCATTGAT--TAA
* *
6058852 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * * *
6058892 AAGGTGGTTGCTAAGTGTTGATTCAACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTC-CCCGTATCATTGA-T-TAA
* *
6058936 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * *
6058976 AAGGTGGTTGCCAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* * *
6059020 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
*
6059060 AAGGTGGTTGCCAAGTGCTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
6059085 ACCAGGATCC
Statistics
Matches: 258, Mismatches: 46, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
40 19 0.07
41 103 0.40
42 67 0.26
43 55 0.21
44 14 0.05
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
Found at i:6058870 original size:84 final size:84
Alignment explanation
Indices: 6058767--6059096 Score: 561
Period size: 84 Copynumber: 3.9 Consensus size: 84
6058757 CATTGATCAA
* * * *
6058767 AAAGGGGTTACTATGTGCTGATTCCCTGTATCATTGATTATAAGATGGTTGCTAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTC
*
6058832 CACCGTATCCTTGATGGTG
66 CACCGTATCCTTGATTGTG
* *
6058851 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTC
*
6058916 AACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
6058935 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTC
6059000 CACCGTATCCTTGATTGTG
66 CACCGTATCCTTGATTGTG
*
6059019 AAAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTC
*
6059084 CACCAGGATCCTT
66 CACC-GTATCCTT
6059097 TGAACATGAG
Statistics
Matches: 234, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
84 227 0.97
85 7 0.03
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (84 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCCAAGTGCTGATTC
CACCGTATCCTTGATTGTG
Found at i:6069930 original size:21 final size:22
Alignment explanation
Indices: 6069890--6069930 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6069880 ATAGGCTAGG
* *
6069890 ATTCACTAAGTTATAAAATGAA
1 ATTCACTAAATTAGAAAATGAA
6069912 ATTCACTAAATT-GAAAATG
1 ATTCACTAAATTAGAAAATG
6069931 CTAAAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.32
Consensus pattern (22 bp):
ATTCACTAAATTAGAAAATGAA
Found at i:6070859 original size:17 final size:17
Alignment explanation
Indices: 6070837--6070870 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6070827 CACTAACATG
*
6070837 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
6070854 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
6070871 TATACTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:6079088 original size:16 final size:15
Alignment explanation
Indices: 6079049--6079090 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6079039 AGATGATAAT
6079049 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
6079065 TATCAATTATAATATA
1 TATTAATTATAAT-TA
6079081 TATTAATTAT
1 TATTAATTAT
6079091 TATCAGCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:6079702 original size:24 final size:25
Alignment explanation
Indices: 6079647--6079706 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
6079637 CTCCTAAATT
* *
6079647 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATATTTCAA
*
6079672 TTTATTAAATTAT-TAATATTT-ATA
1 TTAATTAAATTATCTAATATTTCA-A
6079696 TTAATTAAATT
1 TTAATTAAATT
6079707 TTTTGAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.03
24 18 0.60
25 11 0.37
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATATTTCAA
Found at i:6081576 original size:28 final size:28
Alignment explanation
Indices: 6081545--6081601 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
6081535 GATGTTATAG
*
6081545 TAGAGTTTTCTTATATAAAGTCTTATGT
1 TAGAGTTTTCTTATATAAAGTATTATGT
6081573 TAGAGTTTTCTTATATAAAGTATTATGT
1 TAGAGTTTTCTTATATAAAGTATTATGT
6081601 T
1 T
6081602 TTTCATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.51
Consensus pattern (28 bp):
TAGAGTTTTCTTATATAAAGTATTATGT
Found at i:6083916 original size:51 final size:49
Alignment explanation
Indices: 6083755--6083927 Score: 168
Period size: 51 Copynumber: 3.4 Consensus size: 49
6083745 AAAGTGATGA
* * *
6083755 TCACGTGTGTAGTACTATGTGCAAGCTACTACGAGTATCGGAATGATGGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGAGTATCGG-ATGATCGG
* * * * * * * *
6083805 TCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGAATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGAGTATCGGAT-G-ATCGG
* *
6083856 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAAT-GG
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGAGTATCGGAT-G--ATCGG
6083907 TCACATGTGTAGTACTATGTG
1 TCACATGTGTAGTACTATGTG
6083928 AACCGAATAC
Statistics
Matches: 97, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.02
50 34 0.35
51 60 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGAGTATCGGATGATCGG
Found at i:6084088 original size:19 final size:19
Alignment explanation
Indices: 6084066--6084102 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6084056 GAATATAATT
*
6084066 TGAAAATGTGAATTGAAAA
1 TGAAAATGTGAATAGAAAA
6084085 TGAAAATGTGAATAGAAA
1 TGAAAATGTGAATAGAAA
6084103 GTATGAACTA
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:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (19 bp):
TGAAAATGTGAATAGAAAA
Found at i:6085360 original size:28 final size:28
Alignment explanation
Indices: 6085222--6085533 Score: 571
Period size: 28 Copynumber: 11.3 Consensus size: 28
6085212 TAAATTGTGC
*
6085222 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085249 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085276 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085303 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085330 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085358 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085386 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085414 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
6085442 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085469 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085497 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
6085525 AGCACTAAG
1 AGCACTAAG
6085534 CAGATGCTGG
Statistics
Matches: 280, Mismatches: 2, Indels: 5
0.98 0.01 0.02
Matches are distributed among these distances:
27 123 0.44
28 157 0.56
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:6085404 original size:83 final size:83
Alignment explanation
Indices: 6085222--6085533 Score: 576
Period size: 83 Copynumber: 3.8 Consensus size: 83
6085212 TAAATTGTGC
*
6085222 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
6085285 TGTGCGAGTTGACTATGT
66 TGTGCGAGTTGACTATGT
6085303 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
6085367 TGTGCGAGTTTGACTATGT
66 TGTGCGAG-TTGACTATGT
6085386 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
*
6085451 TGTGCGAATTGACTATGT
66 TGTGCGAGTTGACTATGT
6085469 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
6085534 CAGATGCTGG
Statistics
Matches: 226, Mismatches: 1, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
81 43 0.19
82 27 0.12
83 102 0.45
84 54 0.24
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (83 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
TGTGCGAGTTGACTATGT
Found at i:6097542 original size:50 final size:50
Alignment explanation
Indices: 6097487--6097758 Score: 328
Period size: 50 Copynumber: 5.3 Consensus size: 50
6097477 TACCCCATAT
** * *
6097487 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGAC
** * * *
6097537 ATGGTCTTACGGGGGACCTCTTATCTTGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGAC
* * *
6097587 ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGAC
* * *
6097637 ATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGAC
* *
6097687 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTGCCAACGCCATGTCCCAGAC
*
6097743 ATGGTGTTACATGGGA
1 ATGGTCTTACATGGGA
6097759 TCTCATCCTC
Statistics
Matches: 194, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
50 157 0.81
53 1 0.01
56 36 0.19
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGAC
Found at i:6097591 original size:100 final size:100
Alignment explanation
Indices: 6097487--6097765 Score: 373
Period size: 100 Copynumber: 2.8 Consensus size: 100
6097477 TACCCCATAT
** * * **
6097487 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACATGGGACCTCTCATATAGATGCCAATGCCATGTCCCAGACATGGTCTTACACGGG
* *
6097552 ACCTCTTATCTTGGTGCCAACGCCATGTCCCAGAC
66 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
* * *
6097587 ATGGTCTTACATGGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGACATGGTCTTACACGGG
1 ATGGTCTTACATGGGACCTCTCATATAGATGCCAATGCCATGTCCCAGACATGGTCTTACACGGG
6097652 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
66 ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
*
6097687 ATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGACATGGTGTTA
1 ATGGTCTTACATGGGACCTCTCAT-A--T--A-GATGCCAATGCCATGTCCCAGACATGGTCTTA
*
6097752 CATGGGA--TCTCATC
60 CACGGGACCTCTCATC
6097766 CTCTTAATGT
Statistics
Matches: 157, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
100 113 0.72
103 1 0.01
104 7 0.04
106 36 0.23
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (100 bp):
ATGGTCTTACATGGGACCTCTCATATAGATGCCAATGCCATGTCCCAGACATGGTCTTACACGGG
ACCTCTCATCTCGGTGCCAACGCCATGTCCCAGAC
Found at i:6097668 original size:150 final size:151
Alignment explanation
Indices: 6097487--6097765 Score: 384
Period size: 150 Copynumber: 1.8 Consensus size: 151
6097477 TACCCCATAT
* ** * * *
6097487 ATGGTCTTACATGGGAGTTCTCATATAGGTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGG
1 ATGGTCTTACACGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
*
6097552 ACCTCT-T-ATCT-TGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC
66 ACCTCTATAATCTATGATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA--TCTCATCTC
6097614 GATGCCAACGCCATGTCCCAGAC
129 GATGCCAACGCCATGTCCCAGAC
* * *
6097637 ATGGTCTTACACGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGG
1 ATGGTCTTACACGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
* *
6097702 ACCTCTCATAATCTCAATGATGCCAATGCCATGTCCCAGACATGGTGTTACATGGGATCTCATC
66 ACCTCT-ATAATCT--ATGATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCATC
6097766 CTCTTAATGT
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
150 62 0.56
152 1 0.01
153 4 0.04
154 7 0.06
156 37 0.33
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (151 bp):
ATGGTCTTACACGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGACATGGTCTTACAGGGG
ACCTCTATAATCTATGATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCATCTCGA
TGCCAACGCCATGTCCCAGAC
Found at i:6109954 original size:18 final size:18
Alignment explanation
Indices: 6109928--6109972 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
6109918 TCAACAACTT
*
6109928 CTTCTTCTTTAGCAAGC-A
1 CTTCCTCTTTAGCAA-CAA
*
6109946 CTTCCTCTTTTGCAACAA
1 CTTCCTCTTTAGCAACAA
6109964 CTTCCTCTT
1 CTTCCTCTT
6109973 CTATAGTAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 23 0.96
ACGTcount: A:0.18, C:0.33, G:0.07, T:0.42
Consensus pattern (18 bp):
CTTCCTCTTTAGCAACAA
Found at i:6112491 original size:18 final size:18
Alignment explanation
Indices: 6112468--6112505 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6112458 TATAATTGAG
6112468 TTGAGCTTCTATAAGAGT
1 TTGAGCTTCTATAAGAGT
*
6112486 TTGAGCTTCTGTAAGAGT
1 TTGAGCTTCTATAAGAGT
6112504 TT
1 TT
6112506 TGCTAGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.42
Consensus pattern (18 bp):
TTGAGCTTCTATAAGAGT
Found at i:6116046 original size:27 final size:27
Alignment explanation
Indices: 6116015--6116192 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
6116005 TAAATTGTAC
6116015 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
6116042 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6116068 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
6116096 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
6116124 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
6116151 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
6116178 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6116193 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:6116129 original size:82 final size:81
Alignment explanation
Indices: 6116016--6116171 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
6116006 AAATTGTACA
* *
6116016 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
6116080 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
6116097 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
6116162 TGCGAGTTGA
65 TGCGAATTGA
6116172 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:6116183 original size:82 final size:81
Alignment explanation
Indices: 6116012--6116192 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
6116002 GATTAAATTG
* *
6116012 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
6116077 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
6116093 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
6116157 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
6116175 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
6116193 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:6121476 original size:39 final size:40
Alignment explanation
Indices: 6121303--6121483 Score: 176
Period size: 40 Copynumber: 4.5 Consensus size: 40
6121293 TTGAATGCTG
* * *
6121303 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTATAA
*
6121343 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTA-T-TAA
1 TCCGGGCTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTATAA
* * *
6121382 TTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA-AA
1 -TCCGGGCTAAGTCCCGAAGG-CATTGTGCGAGTTACTATAA
* **
6121423 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
*
6121463 -CCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
6121484 CTTGAACGAG
Statistics
Matches: 118, Mismatches: 14, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 35 0.30
40 71 0.60
41 11 0.09
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATAA
Found at i:6129313 original size:40 final size:39
Alignment explanation
Indices: 6129269--6129376 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 39
6129259 TGTGAGTTAT
* *
6129269 TAATTCCGGGTTAAGTCCCGAAGGCCTTTGTCCAAGATAC
1 TAATTCCGGGTTAAGTCCCGAAGGCATTCGTCCAAG-TAC
* * **
6129309 TAATTCCGGGTTAAGTCCCGAAGGCATTCGTGCTAGTTT
1 TAATTCCGGGTTAAGTCCCGAAGGCATTCGTCCAAGTAC
*
6129348 TAAAATCCGGGTTAAGTCCCGAAGGCATT
1 T-AATTCCGGGTTAAGTCCCGAAGGCATT
6129377 GTATGAGTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 2 0.03
40 58 0.97
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (39 bp):
TAATTCCGGGTTAAGTCCCGAAGGCATTCGTCCAAGTAC
Found at i:6129330 original size:80 final size:81
Alignment explanation
Indices: 6129193--6129373 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 81
6129183 TTGAATGCTG
* *
6129193 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCCAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
6129257 TGTG-TGAGTTATT-AAT
66 CGTGCT-AGTT-TTAAAA
**
6129273 TCCGGGTTAAGTCCCGAAGGCCTTTGT-CCAAGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCCAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
6129334 ATTCGTGCTAGTTTTAAAA
63 ATTCGTGCTAGTTTTAAAA
6129353 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
6129374 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
79 4 0.04
80 77 0.87
81 8 0.09
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCCAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCTAGTTTTAAAA
Found at i:6131406 original size:16 final size:15
Alignment explanation
Indices: 6131380--6131409 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6131370 CATCAGGAAC
6131380 GCCTTTTGACTAAAT
1 GCCTTTTGACTAAAT
6131395 GCCTTGTTGACTAAA
1 GCCTT-TTGACTAAA
6131410 GGAAGCACAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (15 bp):
GCCTTTTGACTAAAT
Found at i:6133317 original size:28 final size:28
Alignment explanation
Indices: 6133277--6133337 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
6133267 TTATTTCACT
*
6133277 TGTCCTGGTGGACT-TACTCCGTGTTTAC
1 TGTCCTGGCGGACTCTA-TCCGTGTTTAC
**
6133305 TGTCCTGGCGGACTCTATCTTTGTTTAC
1 TGTCCTGGCGGACTCTATCCGTGTTTAC
6133333 TGTCC
1 TGTCC
6133338 CAGCAGACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.10, C:0.26, G:0.23, T:0.41
Consensus pattern (28 bp):
TGTCCTGGCGGACTCTATCCGTGTTTAC
Found at i:6133346 original size:28 final size:30
Alignment explanation
Indices: 6133297--6133370 Score: 98
Period size: 28 Copynumber: 2.5 Consensus size: 30
6133287 GACTTACTCC
** *
6133297 GTGTTTACTGTCCTGGCGGAC-TCTATCTT
1 GTGTTTACTGTCCCAGCAGACATCTATCTT
6133326 -TGTTTACTGTCCCAGCAGACTATCTATCTT
1 GTGTTTACTGTCCCAGCAGAC-ATCTATCTT
6133356 GTGTTTACTGTCCCA
1 GTGTTTACTGTCCCA
6133371 ATGGACTACT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 17 0.44
30 8 0.21
31 14 0.36
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.41
Consensus pattern (30 bp):
GTGTTTACTGTCCCAGCAGACATCTATCTT
Found at i:6138437 original size:21 final size:21
Alignment explanation
Indices: 6138411--6138450 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6138401 ATTTTAATTC
* *
6138411 ATATACTTTTAGTGAGTTACA
1 ATATACTTCTAATGAGTTACA
6138432 ATATACTTCTAATGAGTTA
1 ATATACTTCTAATGAGTTA
6138451 TCTTTGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (21 bp):
ATATACTTCTAATGAGTTACA
Found at i:6141017 original size:21 final size:23
Alignment explanation
Indices: 6140975--6141018 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6140965 TTTTTATAAT
*
6140975 TAATACATGTTTATATATTTTTA
1 TAATACATGTTTAGATATTTTTA
6140998 TAATACAT-TTTAGA-ATTTTTA
1 TAATACATGTTTAGATATTTTTA
6141019 GGATTGCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
TAATACATGTTTAGATATTTTTA
Found at i:6141050 original size:21 final size:22
Alignment explanation
Indices: 6141011--6141052 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6141001 TACATTTTAG
* *
6141011 AATTTTTAGGATTGCTTTTATA
1 AATTTATAGGATCGCTTTTATA
6141033 AATTTATAGGATCG-TTTTAT
1 AATTTATAGGATCGCTTTTAT
6141053 GTACATTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (22 bp):
AATTTATAGGATCGCTTTTATA
Found at i:6144907 original size:24 final size:24
Alignment explanation
Indices: 6144853--6144908 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
6144843 ACCTTGTGCA
* * *
6144853 TATTCTATAAATTCCTTTACGGCT
1 TATTCTGTAAATGCCTTTACGGCG
*
6144877 TATTCTGTAAATGCCTTTATGGCG
1 TATTCTGTAAATGCCTTTACGGCG
6144901 TATTCTGT
1 TATTCTGT
6144909 GTTTCCTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.46
Consensus pattern (24 bp):
TATTCTGTAAATGCCTTTACGGCG
Found at i:6146636 original size:20 final size:20
Alignment explanation
Indices: 6146611--6146657 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
6146601 CTTACCATTC
*
6146611 TTACTTACTTTCCAATTCAT
1 TTACTTAATTTCCAATTCAT
*
6146631 TTACTTAATTTCCATTTCAT
1 TTACTTAATTTCCAATTCAT
6146651 TTACTTA
1 TTACTTA
6146658 GCATAAGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (20 bp):
TTACTTAATTTCCAATTCAT
Found at i:6148331 original size:713 final size:713
Alignment explanation
Indices: 6146966--6148391 Score: 2852
Period size: 713 Copynumber: 2.0 Consensus size: 713
6146956 GGGATCAACC
6146966 GCATGATAAGCCATTTCATAAGAAAATATATCTTTTGATTCATACAACATTTTCATGAATATAAG
1 GCATGATAAGCCATTTCATAAGAAAATATATCTTTTGATTCATACAACATTTTCATGAATATAAG
6147031 CATATTTACATTTGGACACTTACCATTTCAAAGTTTATCATTAAGACTAAGCATGATATAATCCA
66 CATATTTACATTTGGACACTTACCATTTCAAAGTTTATCATTAAGACTAAGCATGATATAATCCA
6147096 ACCATAAGCTTGGCACAATCCTAAGCACCATCCACAACACATGTTAGTGCATTAACAAATAATTC
131 ACCATAAGCTTGGCACAATCCTAAGCACCATCCACAACACATGTTAGTGCATTAACAAATAATTC
6147161 ACTTGAATTAGCATGAGGTAAGCTAGATGTACATGAACATACTACTTTTGAATTCATCCATTTCA
196 ACTTGAATTAGCATGAGGTAAGCTAGATGTACATGAACATACTACTTTTGAATTCATCCATTTCA
6147226 TTAACATAATAGACTTTCATTGAACATTTCCATTTCAATCCTTTTCTTAGATTCATGTTATAGTT
261 TTAACATAATAGACTTTCATTGAACATTTCCATTTCAATCCTTTTCTTAGATTCATGTTATAGTT
6147291 CATTTGAACACTTACCGTTCCGTTCCTTTTCATGCACGTTAAACCATTCAGGATAACATCGGATA
326 CATTTGAACACTTACCGTTCCGTTCCTTTTCATGCACGTTAAACCATTCAGGATAACATCGGATA
6147356 CATGGGAAAGCTCACACAAACTGTGCTAAACATATAACCGTAACCTATCCATTTCCTTTACATCG
391 CATGGGAAAGCTCACACAAACTGTGCTAAACATATAACCGTAACCTATCCATTTCCTTTACATCG
6147421 TTGCACAGGAGCTGTGAAATGGGTCTGCTCACACAAGTAGTGGGTCAGAATGTAAGCTACACGAT
456 TTGCACAGGAGCTGTGAAATGGGTCTGCTCACACAAGTAGTGGGTCAGAATGTAAGCTACACGAT
6147486 GCTGCTCACAGAAGCTGAAGAGTATCTGCAAAAAATGTAGGACCTCAACCATCGGTAGGACACTC
521 GCTGCTCACAGAAGCTGAAGAGTATCTGCAAAAAATGTAGGACCTCAACCATCGGTAGGACACTC
6147551 AAGAATAGTACTCAAAACTTTGAAACCCTAATGACATGTCATTCATATCCTACGAATTCCTAAAG
586 AAGAATAGTACTCAAAACTTTGAAACCCTAATGACATGTCATTCATATCCTACGAATTCCTAAAG
6147616 TTCAAACAGGCCTTCATAATTGTCAATTTGTAATAATGTGGATATATTAACATATATATTGAT
651 TTCAAACAGGCCTTCATAATTGTCAATTTGTAATAATGTGGATATATTAACATATATATTGAT
6147679 GCATGATAAGCCATTTCATAAGAAAATATATCTTTTGATTCATACAACATTTTCATGAATATAAG
1 GCATGATAAGCCATTTCATAAGAAAATATATCTTTTGATTCATACAACATTTTCATGAATATAAG
6147744 CATATTTACATTTGGACACTTACCATTTCAAAGTTTATCATTAAGACTAAGCATGATATAATCCA
66 CATATTTACATTTGGACACTTACCATTTCAAAGTTTATCATTAAGACTAAGCATGATATAATCCA
6147809 ACCATAAGCTTGGCACAATCCTAAGCACCATCCACAACACATGTTAGTGCATTAACAAATAATTC
131 ACCATAAGCTTGGCACAATCCTAAGCACCATCCACAACACATGTTAGTGCATTAACAAATAATTC
6147874 ACTTGAATTAGCATGAGGTAAGCTAGATGTACATGAACATACTACTTTTGAATTCATCCATTTCA
196 ACTTGAATTAGCATGAGGTAAGCTAGATGTACATGAACATACTACTTTTGAATTCATCCATTTCA
6147939 TTAACATAATAGACTTTCATTGAACATTTCCATTTCAATCCTTTTCTTAGATTCATGTTATAGTT
261 TTAACATAATAGACTTTCATTGAACATTTCCATTTCAATCCTTTTCTTAGATTCATGTTATAGTT
6148004 CATTTGAACACTTACCGTTCCGTTCCTTTTCATGCACGTTAAACCATTCAGGATAACATCGGATA
326 CATTTGAACACTTACCGTTCCGTTCCTTTTCATGCACGTTAAACCATTCAGGATAACATCGGATA
6148069 CATGGGAAAGCTCACACAAACTGTGCTAAACATATAACCGTAACCTATCCATTTCCTTTACATCG
391 CATGGGAAAGCTCACACAAACTGTGCTAAACATATAACCGTAACCTATCCATTTCCTTTACATCG
6148134 TTGCACAGGAGCTGTGAAATGGGTCTGCTCACACAAGTAGTGGGTCAGAATGTAAGCTACACGAT
456 TTGCACAGGAGCTGTGAAATGGGTCTGCTCACACAAGTAGTGGGTCAGAATGTAAGCTACACGAT
6148199 GCTGCTCACAGAAGCTGAAGAGTATCTGCAAAAAATGTAGGACCTCAACCATCGGTAGGACACTC
521 GCTGCTCACAGAAGCTGAAGAGTATCTGCAAAAAATGTAGGACCTCAACCATCGGTAGGACACTC
6148264 AAGAATAGTACTCAAAACTTTGAAACCCTAATGACATGTCATTCATATCCTACGAATTCCTAAAG
586 AAGAATAGTACTCAAAACTTTGAAACCCTAATGACATGTCATTCATATCCTACGAATTCCTAAAG
6148329 TTCAAACAGGCCTTCATAATTGTCAATTTGTAATAATGTGGATATATTAACATATATATTGAT
651 TTCAAACAGGCCTTCATAATTGTCAATTTGTAATAATGTGGATATATTAACATATATATTGAT
6148392 TCGTTTACAT
Statistics
Matches: 713, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
713 713 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (713 bp):
GCATGATAAGCCATTTCATAAGAAAATATATCTTTTGATTCATACAACATTTTCATGAATATAAG
CATATTTACATTTGGACACTTACCATTTCAAAGTTTATCATTAAGACTAAGCATGATATAATCCA
ACCATAAGCTTGGCACAATCCTAAGCACCATCCACAACACATGTTAGTGCATTAACAAATAATTC
ACTTGAATTAGCATGAGGTAAGCTAGATGTACATGAACATACTACTTTTGAATTCATCCATTTCA
TTAACATAATAGACTTTCATTGAACATTTCCATTTCAATCCTTTTCTTAGATTCATGTTATAGTT
CATTTGAACACTTACCGTTCCGTTCCTTTTCATGCACGTTAAACCATTCAGGATAACATCGGATA
CATGGGAAAGCTCACACAAACTGTGCTAAACATATAACCGTAACCTATCCATTTCCTTTACATCG
TTGCACAGGAGCTGTGAAATGGGTCTGCTCACACAAGTAGTGGGTCAGAATGTAAGCTACACGAT
GCTGCTCACAGAAGCTGAAGAGTATCTGCAAAAAATGTAGGACCTCAACCATCGGTAGGACACTC
AAGAATAGTACTCAAAACTTTGAAACCCTAATGACATGTCATTCATATCCTACGAATTCCTAAAG
TTCAAACAGGCCTTCATAATTGTCAATTTGTAATAATGTGGATATATTAACATATATATTGAT
Found at i:6150597 original size:20 final size:20
Alignment explanation
Indices: 6150572--6150611 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
6150562 GTTACCTATC
6150572 CCCTTCATGAAAGCTAGAAA
1 CCCTTCATGAAAGCTAGAAA
6150592 CCCTTCATGAAAGCTAGAAA
1 CCCTTCATGAAAGCTAGAAA
6150612 TGGGATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.25, G:0.15, T:0.20
Consensus pattern (20 bp):
CCCTTCATGAAAGCTAGAAA
Found at i:6153991 original size:41 final size:41
Alignment explanation
Indices: 6153944--6154043 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
6153934 TACACATATA
* *
6153944 TGCCCCTGTTTGTACTTCGATACCCCTGAATTGCACATACG
1 TGCCCCTGTTTGTACTTCGATACCACTAAATTGCACATACG
* * * * *
6153985 TTCCCCTATCTGTACGTT-GGTACCACTAAATTGCACATGCG
1 TGCCCCTGTTTGTAC-TTCGATACCACTAAATTGCACATACG
*
6154026 TGCCCCTGTTTATACTTC
1 TGCCCCTGTTTGTACTTC
6154044 AGTTGTAACA
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
40 2 0.04
41 42 0.91
42 2 0.04
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (41 bp):
TGCCCCTGTTTGTACTTCGATACCACTAAATTGCACATACG
Found at i:6156060 original size:50 final size:50
Alignment explanation
Indices: 6155985--6156084 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
6155975 CTAATTGGCC
6155985 GGACCAAAAATTCTAGAAAAAACTATGTAGATGGGCATATGAGTCTAGTT
1 GGACCAAAAATTCTAGAAAAAACTATGTAGATGGGCATATGAGTCTAGTT
6156035 GGACCAAAAATTCTAGAAAAAACTATGTAGATGGGCATATGAGTCTAGTT
1 GGACCAAAAATTCTAGAAAAAACTATGTAGATGGGCATATGAGTCTAGTT
6156085 TCAGGGAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (50 bp):
GGACCAAAAATTCTAGAAAAAACTATGTAGATGGGCATATGAGTCTAGTT
Found at i:6172773 original size:80 final size:79
Alignment explanation
Indices: 6172689--6172860 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
6172679 GGACTAAGAT
*
6172689 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
6172753 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
6172769 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
6172834 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
6172848 CCGAAGGCATTTG
1 CCGAAGGCATTTG
6172861 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:6172840 original size:39 final size:39
Alignment explanation
Indices: 6172636--6172858 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
6172626 TTGAATGCTG
* * * * *
6172636 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
6172676 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
6172715 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
6172756 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
6172796 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
6172835 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
6172859 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:6172878 original size:79 final size:80
Alignment explanation
Indices: 6172716--6172893 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
6172706 AGATACAAAT
* * * *
6172716 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
6172781 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
6172796 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
6172860 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
6172875 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
6172894 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:6182999 original size:54 final size:53
Alignment explanation
Indices: 6182915--6183023 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 53
6182905 GAACTCCTCA
6182915 AACCACCATGATCATTCAACGGAGCGGTAAGTCGTGCTTAGATGATAAACACC
1 AACCACCATGATCATTCAACGGAGCGGTAAGTCGTGCTTAGATGATAAACACC
6182968 AANCCACCATGATCATTCAACGGAGCGGTAAGTCGTGCTTAGATGATAAACACC
1 AA-CCACCATGATCATTCAACGGAGCGGTAAGTCGTGCTTAGATGATAAACACC
6183022 AA
1 AA
6183024 ATTATACATG
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 2 0.04
54 53 0.96
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (53 bp):
AACCACCATGATCATTCAACGGAGCGGTAAGTCGTGCTTAGATGATAAACACC
Found at i:6184225 original size:13 final size:13
Alignment explanation
Indices: 6184209--6184241 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6184199 TTTGATTAAA
*
6184209 TTAGTTAATTAGT
1 TTAGATAATTAGT
6184222 TTAGATAATTAGT
1 TTAGATAATTAGT
6184235 TTA-ATAA
1 TTAGATAA
6184242 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:6186843 original size:6 final size:5
Alignment explanation
Indices: 6186809--6186863 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
6186799 CTTTTTATTC
*
6186809 TTTTA TTTTA TTTTA TTTTA TTTCTA TTTTCA TTTCAA TTTTA --TTA
1 TTTTA TTTTA TTTTA TTTTA TTT-TA TTTT-A TTT-TA TTTTA TTTTA
6186855 TTTTA TTTT
1 TTTTA TTTT
6186864 GAAAGACATA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
3 3 0.07
5 27 0.63
6 13 0.30
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:6191743 original size:17 final size:17
Alignment explanation
Indices: 6191721--6191756 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6191711 AATAAGCATT
6191721 AATATAATTGTGTTTTA
1 AATATAATTGTGTTTTA
6191738 AATATAATTGTGTTTTA
1 AATATAATTGTGTTTTA
6191755 AA
1 AA
6191757 ATGATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (17 bp):
AATATAATTGTGTTTTA
Found at i:6192438 original size:30 final size:30
Alignment explanation
Indices: 6192402--6192459 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
6192392 TAGTGTAACT
6192402 GAAGCTTGCTCAAATTGGGGAGTCGTCACC
1 GAAGCTTGCTCAAATTGGGGAGTCGTCACC
*
6192432 GAAGCTTGCTCGAATTGGGGAGTCGTCA
1 GAAGCTTGCTCAAATTGGGGAGTCGTCA
6192460 GAGATCTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (30 bp):
GAAGCTTGCTCAAATTGGGGAGTCGTCACC
Found at i:6198419 original size:43 final size:44
Alignment explanation
Indices: 6198320--6198427 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 44
6198310 GGTTATCAAG
** *
6198320 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACAGCGGCATCGATA
* * *
6198364 AT-TGATTTCATGTAAGACCCTGTCTGGGACAGCGGCATTGAT-
1 ATGTGATTACATGTAAGACCATGTCTGGGACAGCGGCATCGATA
*
6198406 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
6198428 ATCGGGATAT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
42 2 0.04
43 50 0.93
44 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACAGCGGCATCGATA
Found at i:6200292 original size:20 final size:20
Alignment explanation
Indices: 6200264--6200301 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6200254 CTAGGAATTA
6200264 TGTGATCTGAGCTCATGAGT
1 TGTGATCTGAGCTCATGAGT
* *
6200284 TGTGGTCTGAGTTCATGA
1 TGTGATCTGAGCTCATGA
6200302 TATATGTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (20 bp):
TGTGATCTGAGCTCATGAGT
Found at i:6202838 original size:52 final size:52
Alignment explanation
Indices: 6202782--6202881 Score: 173
Period size: 52 Copynumber: 1.9 Consensus size: 52
6202772 GAGTTTCTCT
* * *
6202782 ATTTGAAACAAGGTCGCATGTTAGTTGCTGAGTACGAAAGAGAGTTTTCTTG
1 ATTTGAAACAAGGCCGCATGTCAGTTACTGAGTACGAAAGAGAGTTTTCTTG
6202834 ATTTGAAACAAGGCCGCATGTCAGTTACTGAGTACGAAAGAGAGTTTT
1 ATTTGAAACAAGGCCGCATGTCAGTTACTGAGTACGAAAGAGAGTTTT
6202882 TTTAGCTCAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (52 bp):
ATTTGAAACAAGGCCGCATGTCAGTTACTGAGTACGAAAGAGAGTTTTCTTG
Found at i:6209331 original size:40 final size:39
Alignment explanation
Indices: 6209274--6210197 Score: 1251
Period size: 40 Copynumber: 23.1 Consensus size: 39
6209264 TCGAATGATG
* * *
6209274 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTATA
* *
6209314 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6209354 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
*
6209394 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * *
6209433 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
*
6209473 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
6209513 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6209553 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
6209593 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6209633 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
6209673 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6209713 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
6209753 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6209793 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
6209833 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6209873 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
6209913 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6209953 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
6209993 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6210033 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
6210073 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
*
6210113 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* * **
6210153 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTATA
6210193 TCCGG
1 TCCGG
6210198 TTAAATTCCG
Statistics
Matches: 789, Mismatches: 71, Indels: 48
0.87 0.08 0.05
Matches are distributed among these distances:
39 46 0.06
40 726 0.92
41 17 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:6210197 original size:80 final size:80
Alignment explanation
Indices: 6209327--6210178 Score: 1525
Period size: 80 Copynumber: 10.7 Consensus size: 80
6209317 GGACTAAGAT
* **
6209327 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT
* **
6209391 ATATCCGGACTAAGAT-
65 AAATCCGGGTTAAG-TC
* * *
6209407 CCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGTTACTATA-TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
6209470 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
6209486 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
6209551 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
6209566 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
6209631 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
6209646 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
6209711 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
6209726 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
6209791 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
6209806 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
6209871 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
6209886 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
6209951 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
6209966 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
6210031 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
6210046 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
6210111 AATCCGGGTTAAGTC
66 AATCCGGGTTAAGTC
* * *
6210126 CCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTG
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGAT-CCGAAGGCATTTG
6210179 AACGAGTAGC
Statistics
Matches: 755, Mismatches: 12, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
78 1 0.00
79 71 0.09
80 683 0.90
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
AATCCGGGTTAAGTC
Found at i:6223556 original size:28 final size:27
Alignment explanation
Indices: 6223515--6223567 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
6223505 GTGGATTATT
* *
6223515 ATTTGGTAATATGAAATTATGTGAATA
1 ATTTGATAATATGAAATTATCTGAATA
6223542 ATTTGATAAGTATGAAATTATCTGAA
1 ATTTGATAA-TATGAAATTATCTGAA
6223568 CTCGTTGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTGATAATATGAAATTATCTGAATA
Found at i:6233390 original size:31 final size:31
Alignment explanation
Indices: 6233352--6233416 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
6233342 GTGACAGCCT
*
6233352 CTTTGATTAAATAATATTTTTTTAATTCATG
1 CTTTGATTAAATAATATTTATTTAATTCATG
* *
6233383 CTTTGATTATATAATATTTATTTGATTCATG
1 CTTTGATTAAATAATATTTATTTAATTCATG
6233414 CTT
1 CTT
6233417 ATAATGTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (31 bp):
CTTTGATTAAATAATATTTATTTAATTCATG
Found at i:6241199 original size:40 final size:40
Alignment explanation
Indices: 6241144--6241307 Score: 224
Period size: 40 Copynumber: 4.1 Consensus size: 40
6241134 CAGATGATAA
* * *
6241144 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
6241184 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
6241224 CCGGGCTAAGCCCCGAAGGCAATTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
6241264 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
6241304 CCGG
1 CCGG
6241308 TTAAATCCCA
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 3 0.03
40 109 0.97
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:6243419 original size:47 final size:47
Alignment explanation
Indices: 6243313--6243578 Score: 147
Period size: 47 Copynumber: 5.7 Consensus size: 47
6243303 AGGGTAAGGT
* * *
6243313 GCCGATGCCATGTCCTAGACACGGTCCTACACTGGCTCATATCTCAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATATCTCAA
** *
6243360 GTTGATGCCATGTCCTAGACATGGTCTTATACTGACT-ATCATCTCATA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCAT-ATCTCA-A
* * * * * ** *
6243408 GCCGATG-CATGTCCCAAACAT-GTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATATCTC-AA
** * * * * *
6243454 GATGATG-CATGTCCCAAACAT-GTCTTACACT-AGTCCTCGTCTCAA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCAT-ATCTCAA
* * * * *
6243499 TGCGGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT--G
1 -GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACTCAT-ATCTCAA
*
6243548 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCTAGACATGGTCTTACACT
6243579 AGCTCACACA
Statistics
Matches: 172, Mismatches: 36, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
45 2 0.01
46 65 0.38
47 78 0.45
48 22 0.13
51 5 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGACTCATATCTCAA
Found at i:6243495 original size:46 final size:45
Alignment explanation
Indices: 6243408--6243581 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 45
6243398 TCATCTCATA
* * *
6243408 GCCGATGCATGTCCCAAACATGTCTTACATTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCCT-CGTCTCGAG
** * *
6243454 GATGATGCATGTCCCAAACATGTCTTACACTAGTCCTCGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAG-CCTCGTCTCGAG
* * * * *
6243500 GCGGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGC-CTCGT-CTCGAG
*
6243548 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGC
6243582 TCACACATGA
Statistics
Matches: 107, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
46 54 0.50
47 30 0.28
48 22 0.21
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCCTCGTCTCGAG
Found at i:6248532 original size:68 final size:68
Alignment explanation
Indices: 6248423--6248560 Score: 231
Period size: 68 Copynumber: 2.0 Consensus size: 68
6248413 TCAAGGTTGA
* ** *
6248423 AGTTATTTCATGGGAAGCTTAAATCCCAATGGAAAGGACCCTATACCATCTACTGAGTTTATCCT
1 AGTTATTTCATAGGAAGCTTAAATCCCAATGGAAAAAACCCTATACCATCTACCGAGTTTATCCT
6248488 TAT
66 TAT
*
6248491 AGTTATTTCCTAGGAAGCTTAAATCCCAATGGAAAAAACCCTATACCATCTACCGAGTTTATCCT
1 AGTTATTTCATAGGAAGCTTAAATCCCAATGGAAAAAACCCTATACCATCTACCGAGTTTATCCT
6248556 TAT
66 TAT
6248559 AG
1 AG
6248561 AGCTATTGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (68 bp):
AGTTATTTCATAGGAAGCTTAAATCCCAATGGAAAAAACCCTATACCATCTACCGAGTTTATCCT
TAT
Found at i:6272265 original size:40 final size:40
Alignment explanation
Indices: 6272213--6272364 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
6272203 ATAACCACAA
* * *
6272213 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
6272253 GTACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
6272293 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
6272333 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
6272365 CATTCAAATG
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:6274387 original size:76 final size:76
Alignment explanation
Indices: 6274261--6274414 Score: 281
Period size: 76 Copynumber: 2.0 Consensus size: 76
6274251 GGTTGGGCCA
* *
6274261 ATTAGTACAGTTTATTAGTCAAATTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCGCA
1 ATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCCCA
6274326 TTACGACTTGG
66 TTACGACTTGG
*
6274337 ATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTGCAGGGATCGACTACACTGACCTTTGCCCA
1 ATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCCCA
6274402 TTACGACTTGG
66 TTACGACTTGG
6274413 AT
1 AT
6274415 ATCTCCCTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (76 bp):
ATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGATCGACTACACTGACCTTTGCCCA
TTACGACTTGG
Found at i:6275491 original size:27 final size:27
Alignment explanation
Indices: 6275461--6275638 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
6275451 ATATTGAGCC
* *
6275461 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
6275488 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
6275515 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
6275543 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
6275570 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
6275597 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
6275624 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
6275639 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:6275600 original size:82 final size:81
Alignment explanation
Indices: 6275482--6275637 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
6275472 TGCTATATAA
* *
6275482 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
6275547 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
6275564 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
6275628 CCCTTAGTGC
65 CACTTAGTGC
6275638 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:6282974 original size:27 final size:27
Alignment explanation
Indices: 6282944--6283121 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
6282934 ATATTGAGCC
* *
6282944 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
6282971 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
6282998 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
6283026 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
6283053 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
6283080 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
*
6283107 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
6283122 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 103 0.80
28 25 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:6283083 original size:82 final size:81
Alignment explanation
Indices: 6282965--6283120 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
6282955 TGCTATATAA
* *
6282965 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
6283030 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
6283047 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
6283111 CCCTTAGTGC
65 CACTTAGTGC
6283121 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:6286225 original size:40 final size:40
Alignment explanation
Indices: 6286165--6286348 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
6286155 TATTCGAATG
*
6286165 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * * *
6286205 ATATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * * *
6286245 ATATCCGGGCTGAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
6286285 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
6286325 ATATCCGGGCTAAGATCTGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
6286349 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 115 0.96
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:6286298 original size:80 final size:79
Alignment explanation
Indices: 6286165--6286384 Score: 241
Period size: 80 Copynumber: 2.8 Consensus size: 79
6286155 TATTCGAATG
* * * *
6286165 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCAGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCC-GGCTAAGATCCCGAAGGC
* *
6286229 ATTTGTGCGAGTTG-CT
64 ATTTATGCGAG-TGACC
* *
6286245 ATATCCGGGCTGAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCC-GGCTAAGATCCCGAAGGC
*
6286309 ATTTATGCTAGTGACC
64 ATTTATGCGAGTGACC
* * * * *
6286325 ATATCCGGGCTAAGATCTGAAGGCCTTGTGCGAGTGGTTATATCCGGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAGATCCCGAAG
6286385 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
78 14 0.12
79 20 0.17
80 85 0.71
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGCTAAGATCCCGAAGGCAT
TTATGCGAGTGACC
Found at i:6293915 original size:25 final size:25
Alignment explanation
Indices: 6293885--6293939 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
6293875 ATCGAATTCC
6293885 TTTTTTAACCTCAACCGAGACAATT
1 TTTTTTAACCTCAACCGAGACAATT
6293910 TTTTTTAACCTCAACCGAGACAATT
1 TTTTTTAACCTCAACCGAGACAATT
6293935 TTTTT
1 TTTTT
6293940 CAACACATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (25 bp):
TTTTTTAACCTCAACCGAGACAATT
Found at i:6314275 original size:27 final size:27
Alignment explanation
Indices: 6314238--6314306 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
6314228 TAAATTGTGC
*
6314238 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATAT
* *
6314265 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATAT
*
6314292 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
6314307 GACTTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATAT
Found at i:6317737 original size:200 final size:199
Alignment explanation
Indices: 6317395--6317793 Score: 744
Period size: 200 Copynumber: 2.0 Consensus size: 199
6317385 CTTTCTCCAG
6317395 CATCAAATACCTTTCTTTACTATAACTAATATATTACATTCTTTTAATTGAGAAATCCCACTATG
1 CATCAAATACCTTTCTTTACTATAACTAATATATTACATTCTTTTAATTGAGAAATCCCACTATG
6317460 CATCTTCTTGATATAACTCTTCACTTATATACCATAGTAGTTTTAGGGATGTTACATTTCTCCCT
66 CATCTTCTTGATATAACTCTTCACTTATATACCATAGTAGTTTTAGGGATGTTACATTTCTCCCT
6317525 TCTTAAAAGAATTTCATCCTCAAAATTTGCTCGACTCAAGTAATCATAGATACCATCATTTCTTT
131 TCTTAAAAGAATTTCATCCTCAAAATTTGCTCGACTCAAGTAATCATAGATACCATCATTTCTTT
6317590 ACAT
196 ACAT
*
6317594 CATCAAATACCTTTCTTTACTATAACTAATATATTACATTTCTTTTAATTGAGAAATTCCACTAT
1 CATCAAATACCTTTCTTTACTATAACTAATATATTACA-TTCTTTTAATTGAGAAATCCCACTAT
*
6317659 GCATCTTCTTGATATAACTCTTCACTTATATACCATAGTGGTTTTAGGGATGTTACATTTCTCCC
65 GCATCTTCTTGATATAACTCTTCACTTATATACCATAGTAGTTTTAGGGATGTTACATTTCTCCC
* * *
6317724 TTCTTAAAAGAATTTCATCCTTAAATTTTGCTCGACTCAAGTAATCGTAGATACCATCATTTCTT
130 TTCTTAAAAGAATTTCATCCTCAAAATTTGCTCGACTCAAGTAATCATAGATACCATCATTTCTT
6317789 TACAT
195 TACAT
6317794 TTTCACTTTT
Statistics
Matches: 194, Mismatches: 5, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
199 38 0.20
200 156 0.80
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (199 bp):
CATCAAATACCTTTCTTTACTATAACTAATATATTACATTCTTTTAATTGAGAAATCCCACTATG
CATCTTCTTGATATAACTCTTCACTTATATACCATAGTAGTTTTAGGGATGTTACATTTCTCCCT
TCTTAAAAGAATTTCATCCTCAAAATTTGCTCGACTCAAGTAATCATAGATACCATCATTTCTTT
ACAT
Found at i:6325015 original size:123 final size:123
Alignment explanation
Indices: 6324796--6325043 Score: 496
Period size: 123 Copynumber: 2.0 Consensus size: 123
6324786 TTCATACAAA
6324796 TATAGGAATGAGTAGACCCGGGATCAATCAATGCAATAACAATAGCATCATAGAGAGAAAATGTA
1 TATAGGAATGAGTAGACCCGGGATCAATCAATGCAATAACAATAGCATCATAGAGAGAAAATGTA
6324861 CCAGTAATCACGTCGGGAGATGATGCATCCTCTCGGGCATGTATGGCATAAGCTCTAG
66 CCAGTAATCACGTCGGGAGATGATGCATCCTCTCGGGCATGTATGGCATAAGCTCTAG
6324919 TATAGGAATGAGTAGACCCGGGATCAATCAATGCAATAACAATAGCATCATAGAGAGAAAATGTA
1 TATAGGAATGAGTAGACCCGGGATCAATCAATGCAATAACAATAGCATCATAGAGAGAAAATGTA
6324984 CCAGTAATCACGTCGGGAGATGATGCATCCTCTCGGGCATGTATGGCATAAGCTCTAG
66 CCAGTAATCACGTCGGGAGATGATGCATCCTCTCGGGCATGTATGGCATAAGCTCTAG
6325042 TA
1 TA
6325044 GGCGCTCTAG
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (123 bp):
TATAGGAATGAGTAGACCCGGGATCAATCAATGCAATAACAATAGCATCATAGAGAGAAAATGTA
CCAGTAATCACGTCGGGAGATGATGCATCCTCTCGGGCATGTATGGCATAAGCTCTAG
Found at i:6327708 original size:18 final size:18
Alignment explanation
Indices: 6327685--6327719 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6327675 TAAGAATAAG
6327685 AAGCACGAAAATAGTTTC
1 AAGCACGAAAATAGTTTC
6327703 AAGCACGAAAATAGTTT
1 AAGCACGAAAATAGTTT
6327720 GGCACATCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
AAGCACGAAAATAGTTTC
Found at i:6338925 original size:24 final size:24
Alignment explanation
Indices: 6338864--6338937 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
6338854 CATTTAATGA
6338864 CATTCAAA-CCAGCATACATAGTGC
1 CATTCAAATCC-GCATACATAGTGC
* * * *
6338888 CAATCGATTTCGCATACATAGTGC
1 CATTCAAATCCGCATACATAGTGC
* *
6338912 CATTCAAATCCGCACACTTAGTGC
1 CATTCAAATCCGCATACATAGTGC
6338936 CA
1 CA
6338938 ATGTTGGCTC
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 38 0.97
25 1 0.03
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (24 bp):
CATTCAAATCCGCATACATAGTGC
Found at i:6351015 original size:18 final size:18
Alignment explanation
Indices: 6350989--6351023 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6350979 TCGTAACGTT
*
6350989 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
6351007 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
6351024 CGTCTTATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:6351657 original size:25 final size:25
Alignment explanation
Indices: 6351629--6351713 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
6351619 CTGGAGGCCT
*
6351629 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTAATAAACTGGGGCATA
***
6351654 AGCCCTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTAATAAACTGGGGCATA
6351679 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTGGGGCATA
6351705 AGCCCTTTT
1 AGCCCTTTT
6351714 GCACTTCCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
24 5 0.10
25 23 0.45
26 23 0.45
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTAATAAACTGGGGCATA
Found at i:6351695 original size:26 final size:26
Alignment explanation
Indices: 6351629--6351713 Score: 113
Period size: 26 Copynumber: 3.3 Consensus size: 26
6351619 CTGGAGGCCT
*
6351629 AGCCTCTTTT-AAT-AACTGGGGCAAA
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
6351654 AGCCC-TTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
6351679 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
6351705 AGCCCTTTT
1 AGCCCTTTT
6351714 GCACTTCCTG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.06
24 2 0.04
25 20 0.38
26 27 0.52
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:6351788 original size:20 final size:20
Alignment explanation
Indices: 6351763--6351819 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
6351753 TTATGAATAC
6351763 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
6351783 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
6351803 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
6351820 TCAATATTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:6351794 original size:11 final size:11
Alignment explanation
Indices: 6351763--6351818 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
6351753 TTATGAATAC
6351763 ATCATGTGCAT
1 ATCATGTGCAT
*
6351774 ATCA--TACAT
1 ATCATGTGCAT
6351783 ATCATGTGCAT
1 ATCATGTGCAT
*
6351794 ATCA--TACAT
1 ATCATGTGCAT
6351803 ATCATGTGCAT
1 ATCATGTGCAT
6351814 ATCAT
1 ATCAT
6351819 ATCAATATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:6357857 original size:28 final size:29
Alignment explanation
Indices: 6357799--6357859 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
6357789 TGAGCATGAC
* *
6357799 TATAAATGTGATTTGGGCCTAATGGGTCA
1 TATAAATGTGATTTAGGCCTAATGGGCCA
*
6357828 TATAAATGTGA-TTAGGCCTAGTGGGCCA
1 TATAAATGTGATTTAGGCCTAATGGGCCA
6357856 TATA
1 TATA
6357860 CAGGTATGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (29 bp):
TATAAATGTGATTTAGGCCTAATGGGCCA
Found at i:6359922 original size:14 final size:14
Alignment explanation
Indices: 6359903--6359930 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6359893 AAGCTTCAAA
6359903 AATCTGTTACAAGT
1 AATCTGTTACAAGT
6359917 AATCTGTTACAAGT
1 AATCTGTTACAAGT
6359931 CTAGATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
AATCTGTTACAAGT
Found at i:6362150 original size:40 final size:40
Alignment explanation
Indices: 6362099--6362255 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
6362089 ATAACCGCAA
* * * *
6362099 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
6362139 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
6362179 GCATAATTGCCTTCGGATCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
6362219 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
6362256 ATGCTCATGC
Statistics
Matches: 103, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 103 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:6362206 original size:80 final size:80
Alignment explanation
Indices: 6362103--6362255 Score: 261
Period size: 80 Copynumber: 1.9 Consensus size: 80
6362093 CCGCAAGCAC
* * *
6362103 AATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGA
1 AATTGCCTTCGGATCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
6362168 TATATCAACTTGCAT
66 TATATCAACTTGCAT
* *
6362183 AATTGCCTTCGGATCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
1 AATTGCCTTCGGATCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
6362248 TATATCAA
66 TATATCAA
6362256 ATGCTCATGC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.27
Consensus pattern (80 bp):
AATTGCCTTCGGATCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
TATATCAACTTGCAT
Found at i:6377955 original size:43 final size:43
Alignment explanation
Indices: 6377894--6378061 Score: 264
Period size: 43 Copynumber: 3.9 Consensus size: 43
6377884 ACATATCATT
* *
6377894 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
6377937 TCACCGGCACGAAGCCTGCTAGGCACAAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
6377980 TCACCAGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
6378023 TCACCGGCACTAAGCCTACTAGGCACGAAAGCCCAAATA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATA
6378062 TAATACCAGG
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.32, C:0.35, G:0.21, T:0.12
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:6378039 original size:86 final size:84
Alignment explanation
Indices: 6377907--6378082 Score: 264
Period size: 86 Copynumber: 2.1 Consensus size: 84
6377897 CCGGCATTAC
*
6377907 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCAC-AAAGGCCC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTAGGCACGAAA-GCCC
*
6377971 GAATACACATCACCAGCACTAA
65 AAATACA-AT-ACCAGCACTAA
*
6377993 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACTAAGCCTACTAGGCACGAAAGCCCA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTAGGCACGAAAGCCCA
* * *
6378058 AATATAATACCAGGACTAG
66 AATACAATACCAGCACTAA
6378077 GCCTGC
1 GCCTGC
6378083 GGGATTTATC
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
84 15 0.18
85 2 0.02
86 63 0.76
87 3 0.04
ACGTcount: A:0.32, C:0.34, G:0.22, T:0.12
Consensus pattern (84 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTACTAGGCACGAAAGCCCA
AATACAATACCAGCACTAA
Found at i:6378119 original size:38 final size:38
Alignment explanation
Indices: 6378058--6378137 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
6378048 CGAAAGCCCA
* * * *
6378058 AATATAATACCAGGACTAGGCCTGCGGGATTTATCCCG
1 AATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
6378096 AATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
1 AATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
6378134 AATA
1 AATA
6378138 CACATCAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (38 bp):
AATATAATACCAGCACGAAGCCTGCGGGATTTAACCCG
Found at i:6389302 original size:28 final size:27
Alignment explanation
Indices: 6389230--6389312 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 27
6389220 TGGCTGCTAG
* *
6389230 AACAGATATTGTGACAGAGTCACCAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
* *
6389257 TACAGATATTGTGGCAGAGCCACAAGA
1 AACAGATATTGTGGCAGAGCCACCAGA
*
6389284 AATAGATATTTGTGGCAGAGCCACCAGA
1 AACAGATA-TTGTGGCAGAGCCACCAGA
6389312 A
1 A
6389313 CGCTTCCTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 29 0.60
28 19 0.40
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.19
Consensus pattern (27 bp):
AACAGATATTGTGGCAGAGCCACCAGA
Found at i:6389477 original size:27 final size:26
Alignment explanation
Indices: 6389419--6389477 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
6389409 GTAACCCTAG
*
6389419 GGGTATAATGGTAATTTTGCACATAG
1 GGGTATAATGGTAATTTTGCACATAA
6389445 GGGTATAATGGTAATTTT-CATACATAA
1 GGGTATAATGGTAATTTTGC--ACATAA
6389472 GGGTAT
1 GGGTAT
6389478 TTTAGTAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 1 0.03
26 18 0.60
27 11 0.37
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
GGGTATAATGGTAATTTTGCACATAA
Found at i:6394929 original size:37 final size:37
Alignment explanation
Indices: 6394874--6394944 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
6394864 GCTCTTCTAC
6394874 TCTTGCCCTTTTAGCACTCCTATTTGCACCACCCAAG
1 TCTTGCCCTTTTAGCACTCCTATTTGCACCACCCAAG
* *
6394911 TCTTTCCCTTTTAGCACTCCTATTTGTACCACCC
1 TCTTGCCCTTTTAGCACTCCTATTTGCACCACCC
6394945 GGGGGTCCCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.17, C:0.38, G:0.08, T:0.37
Consensus pattern (37 bp):
TCTTGCCCTTTTAGCACTCCTATTTGCACCACCCAAG
Found at i:6397316 original size:26 final size:27
Alignment explanation
Indices: 6397287--6397349 Score: 85
Period size: 25 Copynumber: 2.4 Consensus size: 27
6397277 CAAAATTATC
* *
6397287 CCTAGGGGTATAATGGTAATTTT-GTA
1 CCTAGGGGTATAAAGGTAATTTTCATA
6397313 CCTA-GGGTATAAAGGTAATTTTCATA
1 CCTAGGGGTATAAAGGTAATTTTCATA
*
6397339 CTTAGGGGTAT
1 CCTAGGGGTAT
6397350 TTTAGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 17 0.53
26 9 0.28
27 6 0.19
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATAAAGGTAATTTTCATA
Found at i:6400257 original size:22 final size:22
Alignment explanation
Indices: 6400228--6400276 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
6400218 TAAAATTATA
6400228 GTAT-TCCACCAACGATAAGCT
1 GTATCTCCACCAACGATAAGCT
6400249 GTATCTCCACCAACGATAAGCT
1 GTATCTCCACCAACGATAAGCT
6400271 GTATCT
1 GTATCT
6400277 TTCAGTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (22 bp):
GTATCTCCACCAACGATAAGCT
Done.