Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 41
Found at i:7541113 original size:120 final size:119
Alignment explanation
Indices: 7540940--7541809 Score: 500
Period size: 120 Copynumber: 7.4 Consensus size: 119
7540930 GCTAATGAAA
* * * * *
7540940 GTGTCGAAGCCAATGTTCTCGATTTCAGGTCAAAGGGGAATGAGGAATCTGAAATGGCTGTAGCT
1 GTGTCGAAGCCAATGATATCGATTCCAGGTCAAAAGAGAATGAGGAATCTGAAATGGCTGTAGCT
7541005 GATGCTAGTGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAAGGCCATC
66 GATGCTAGTGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAAGGCCATC
* *
7541059 GTGTCTGAAGCCAATGATATTGATTCCAGGTCAAAAGAGAATGAAGG-CTCTGAAATGGCTGTAG
1 GTGTC-GAAGCCAATGATATCGATTCCAGGTCAAAAGAGAATG-AGGAATCTGAAATGGCTGTAG
* * ** *
7541123 GTGTTGCTAGTGATTGCAATGGAGGTGGTTTAGCTAAT--T----CT-A-G---T-
64 CTGATGCTAGTGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAAGGCCATC
* * * * * ** *
7541167 GT-T-AAGGCCAATGTTCTCGATTTCAGGTCAAAAGAGAATGAGGGCTCCGAAATGGCTGTAGCT
1 GTGTCGAAGCCAATGATATCGATTCCAGGTCAAAAGAGAATGAGGAATCTGAAATGGCTGTAGCT
** * * * * * * **
7541230 TCTGATGGTGATTGCAATGGAGATGGTTTAGCTAATGATGGTGCTAACACCAAT-
66 GATGCTAGTGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAAGGCC-ATC
* * * * * *** *
7541284 GTGTCTGAGGCCAATGTTCTGGATTTCAGGTCAAAAGAGAATGAGGGCCCTGAAATGGCTCTAGC
1 GTGTC-GAAGCCAATGATATCGATTCCAGGTCAAAAGAGAATGAGGAATCTGAAATGGCTGTAGC
* * * * * * * *
7541349 TGATGATGGCGAATGCAATGGAGAAGGTTTAGCTAATGATGGTGCTAAAGG-CA-C
65 TGATGCTAGTGATTGCAATGGAGACGATTTAGCTAATGATAGAGCT-AAGGCCATC
* * * * *
7541403 TGTCTCTAAAGCCAAT-ATTATCCATTCCAGGTCAAAAGAGAATG-GAGACTCTGAAATGGCTTT
1 -GTGTC-GAAGCCAATGA-TATCGATTCCAGGTCAAAAGAGAATGAG-GAATCTGAAATGGCTGT
* * * * * * * * *
7541466 AGCTGATGATGGTGATTGCAATGGAAATGCTTTAGCTGATGATAATACCT-GGGCCA-C
62 AGCTGATGCTAGTGATTGCAATGGAGACGATTTAGCTAATGAT-AGAGCTAAGGCCATC
* * * * * * ** *
7541523 TGTCTCTGAAGCCCATGTTATTGATTCCGGGTCAAAAGAGACTGAGGGCTCTGAAATGGTTGTAG
1 -GTGTC-GAAGCCAATGATATCGATTCCAGGTCAAAAGAGAATGAGGAATCTGAAATGGCTGTAG
* * * * * *
7541588 CTGATGAT-GATGATTGCAGTGGAGATGGTTTAGCTAATGTTAGTGCTAAGGCCA-C
64 CTGATGCTAG-TGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAAGGCCATC
* * * * * * *
7541643 TGTCTCTGAAGCCAATGTTCTCGATT-CAGGGTCGAGAGAGAATGAGGACT-TGGAAATGGTTGT
1 -GTGTC-GAAGCCAATGATATCGATTCCA-GGTCAAAAGAGAATGAGGAATCT-GAAATGGCTGT
* * ** * * * *
7541706 AGCTGATGAT-GACGATTGCAATCAAGATGGTTTAGCTAATGATATAGATAAGGCCA-C
62 AGCTGATGCTAG-TGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAAGGCCATC
* * * * *
7541763 TGTCTCTGAAGCCAATGTTATCTATTCGAAGTCAAAAGAGAATGAGG
1 -GTGTC-GAAGCCAATGATATCGATTCCAGGTCAAAAGAGAATGAGG
7541810 GTTCTCAAAT
Statistics
Matches: 618, Mismatches: 101, Indels: 63
0.79 0.13 0.08
Matches are distributed among these distances:
104 3 0.00
105 79 0.13
107 2 0.00
108 2 0.00
109 1 0.00
111 2 0.00
112 2 0.00
113 1 0.00
114 2 0.00
117 3 0.00
118 2 0.00
119 15 0.02
120 495 0.80
121 9 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (119 bp):
GTGTCGAAGCCAATGATATCGATTCCAGGTCAAAAGAGAATGAGGAATCTGAAATGGCTGTAGCT
GATGCTAGTGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAAGGCCATC
Found at i:7541283 original size:105 final size:105
Alignment explanation
Indices: 7541080--7541285 Score: 279
Period size: 105 Copynumber: 2.0 Consensus size: 105
7541070 CAATGATATT
* * *
7541080 GATTCCAGGTCAAAAGAGAATGAAGGCTCTGAAATGGCTGTAGGTGTTGCTAGTGATTGCAATGG
1 GATTCCAGGTCAAAAGAGAATGAAGGCTCCGAAATGGCTGTAGCTGTTGATAGTGATTGCAATGG
* ** * **
7541145 AGGTGGTTTAGCTAATTCTAGTGTTAAGGCCAATGTTCTC
66 AGATGGTTTAGCTAATGATAGTGCTAACACCAATGTTCTC
* * *
7541185 GATTTCAGGTCAAAAGAGAATGAGGGCTCCGAAATGGCTGTAGCT-TCTGATGGTGATTGCAATG
1 GATTCCAGGTCAAAAGAGAATGAAGGCTCCGAAATGGCTGTAGCTGT-TGATAGTGATTGCAATG
*
7541249 GAGATGGTTTAGCTAATGATGGTGCTAACACCAATGT
65 GAGATGGTTTAGCTAATGATAGTGCTAACACCAATGT
7541286 GTCTGAGGCC
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
104 1 0.01
105 86 0.99
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (105 bp):
GATTCCAGGTCAAAAGAGAATGAAGGCTCCGAAATGGCTGTAGCTGTTGATAGTGATTGCAATGG
AGATGGTTTAGCTAATGATAGTGCTAACACCAATGTTCTC
Found at i:7541339 original size:225 final size:225
Alignment explanation
Indices: 7540948--7541641 Score: 581
Period size: 225 Copynumber: 3.0 Consensus size: 225
7540938 AAGTGTCGAA
* * * *
7540948 GCCAATGTTCTCGATTTCAGGTCAAAGGGGAATGAGGAATCTGAAATGGCTGTAGCTGATGCTAG
1 GCCAATGTTCTCGATTTCAGGTCAAAAGAGAATGAGGAATCCGAAATGGCTGTAGCTGATGATAG
**
7541013 TGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAAGGCCATCGTGTCTGAAGCCAATGATA
66 TGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAACACCATCGTGTCTGAAGCCAATGATA
* * * * * * * *
7541078 TTGATTCCAGGTCAAAAGAGAATGAAGGCTCTGAAATGGCTGTAGGTGTTGCTAGTGATTGCAAT
131 TGGATTCCAGGTCAAAAGAGAATGAAGGCCCTGAAATGGCTCTAGCTGATGATAGCGAATGCAAT
**
7541143 GGAGGTGGTTTAGCTAATTCTAGTGTTAAG
196 GGAGAAGGTTTAGCTAATTCTAGTGTTAAG
** ** *
7541173 GCCAATGTTCTCGATTTCAGGTCAAAAGAGAATGAGGGCTCCGAAATGGCTGTAGCTTCTGATGG
1 GCCAATGTTCTCGATTTCAGGTCAAAAGAGAATGAGGAATCCGAAATGGCTGTAGCTGATGATAG
* * * * * *
7541238 TGATTGCAATGGAGATGGTTTAGCTAATGATGGTGCTAACACCAAT-GTGTCTGAGGCCAATGTT
66 TGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAACACC-ATCGTGTCTGAAGCCAATGAT
* * * *
7541302 CTGGATTTCAGGTCAAAAGAGAATGAGGGCCCTGAAATGGCTCTAGCTGATGATGGCGAATGCAA
130 ATGGATTCCAGGTCAAAAGAGAATGAAGGCCCTGAAATGGCTCTAGCTGATGATAGCGAATGCAA
*
7541367 TGGAGAAGGTTTAGCTAATGATGGTGCTAAAGGCACTGTCTCTAAA
195 TGGAGAAGGTTTAGCT-A--AT--T-CT--A-G---TG--T-TAAG
* * * * * * * *
7541413 GCCAATATTATCCATTCCAGGTCAAAAGAGAATG-GAGACTCTGAAATGGCTTTAGCTGATGATG
1 GCCAATGTTCTCGATTTCAGGTCAAAAGAGAATGAG-GAATCCGAAATGGCTGTAGCTGATGATA
* * * * * * *** * *
7541477 GTGATTGCAATGGAAATGCTTTAGCTGATGATAATACCT-GGGCCA-CTGTCTCTGAAGCCCATG
65 GTGATTGCAATGGAGACGATTTAGCTAATGAT-AGAGCTAACACCATC-GTGTCTGAAGCCAATG
* * * * * * * * * *
7541540 TTATTGATTCCGGGTCAAAAGAGACTGAGGGCTCTGAAATGGTTGTAGCTGATGAT-GATGATTG
128 ATATGGATTCCAGGTCAAAAGAGAATGAAGGCCCTGAAATGGCTCTAGCTGATGATAG-CGAATG
* * *
7541604 CAGTGGAGATGGTTTAGCTAATGT-TAGTGCTAAG
192 CAATGGAGAAGGTTTAGCTAAT-TCTAGTGTTAAG
7541638 GCCA
1 GCCA
7541642 CTGTCTCTGA
Statistics
Matches: 380, Mismatches: 68, Indels: 42
0.78 0.14 0.09
Matches are distributed among these distances:
225 183 0.48
226 3 0.01
228 4 0.01
230 1 0.00
231 3 0.01
232 1 0.00
233 1 0.00
234 2 0.01
236 2 0.01
237 4 0.01
239 5 0.01
240 169 0.44
241 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (225 bp):
GCCAATGTTCTCGATTTCAGGTCAAAAGAGAATGAGGAATCCGAAATGGCTGTAGCTGATGATAG
TGATTGCAATGGAGACGATTTAGCTAATGATAGAGCTAACACCATCGTGTCTGAAGCCAATGATA
TGGATTCCAGGTCAAAAGAGAATGAAGGCCCTGAAATGGCTCTAGCTGATGATAGCGAATGCAAT
GGAGAAGGTTTAGCTAATTCTAGTGTTAAG
Found at i:7541820 original size:120 final size:119
Alignment explanation
Indices: 7541173--7542004 Score: 734
Period size: 120 Copynumber: 7.0 Consensus size: 119
7541163 TAGTGTTAAG
* * * ** *
7541173 GCCAATGTTCTCGATTTCAGGTCAAAAGAGAATGAGGGCTCCGAAATGGCTGTAGCTTCTGATGG
1 GCCAATGTTATCGA-TTCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGTTGTAGCTGATGATGA
* * ** * * *
7541238 TGATTGCAATGGAGATGGTTTAGCTAATGATGGTGCTAACACCAATGTGTCTGAG
65 CGATTGCAATGGAGATGGTTTAGCTAATGATGATGCTAAGGCCACTGTCTCTGAA
* * * * * *
7541293 GCCAATGTTCTGGATTTCAGGTCAAAAGAGAATGAGGGCCCTGAAATGGCTCTAGCTGATGATGG
1 GCCAATGTTATCGA-TTCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGTTGTAGCTGATGATGA
* * * *
7541358 CGAATGCAATGGAGAAGGTTTAGCTAATGATGGTGCTAAAGG-CACTGTCTCTAAA
65 CGATTGCAATGGAGATGGTTTAGCTAATGATGATGCT-AAGGCCACTGTCTCTGAA
* * *
7541413 GCCAATATTATCCATTCCAGGTCAAAAGAGAATG-GAGACTCTGAAATGGCTT-TAGCTGATGAT
1 GCCAATGTTATCGATT-CAGGTCAAAAGAGAATGAG-GGCTCTGAAATGG-TTGTAGCTGATGAT
** * * * * * *
7541476 GGTGATTGCAATGGAAATGCTTTAGCTGATGATAATACCT-GGGCCACTGTCTCTGAA
63 GACGATTGCAATGGAGATGGTTTAGCTAATGATGAT-GCTAAGGCCACTGTCTCTGAA
* * * *
7541533 GCCCATGTTATTGATTCCGGGTCAAAAGAGACTGAGGGCTCTGAAATGGTTGTAGCTGATGATGA
1 GCCAATGTTATCGATT-CAGGTCAAAAGAGAATGAGGGCTCTGAAATGGTTGTAGCTGATGATGA
* * *
7541598 TGATTGCAGTGGAGATGGTTTAGCTAATG-TTAGTGCTAAGGCCACTGTCTCTGAA
65 CGATTGCAATGGAGATGGTTTAGCTAATGATGA-TGCTAAGGCCACTGTCTCTGAA
* * * *
7541653 GCCAATGTTCTCGATTCAGGGTCGAGAGAGAATGAGGACT-TGGAAATGGTTGTAGCTGATGATG
1 GCCAATGTTATCGATTCA-GGTCAAAAGAGAATGAGGGCTCT-GAAATGGTTGTAGCTGATGATG
** *
7541717 ACGATTGCAATCAAGATGGTTTAGCTAATGAT-ATAGATAAGGCCACTGTCTCTGAA
64 ACGATTGCAATGGAGATGGTTTAGCTAATGATGAT-GCTAAGGCCACTGTCTCTGAA
* * * * *** *
7541773 GCCAATGTTATCTATTCGAAGTCAAAAGAGAATGAGGGTTCTCAAATGGCCATAGCTGCTGATGA
1 GCCAATGTTATCGATTC-AGGTCAAAAGAGAATGAGGGCTCTGAAATGGTTGTAGCTGATGATGA
* * * *
7541838 C-AGTTGCTATGGAGACGGTTTAGCAAATGAT-A-G-T--GGTTCCACTGTTTCTGAA
65 CGA-TTGCAATGGAGATGGTTTAGCTAATGATGATGCTAAGG--CCACTGTCTCTGAA
* * * * * * *
7541890 GCTAGTGTTCTCGACTTCAGGTCAAAAGATAATGAGAGTTCTGAAATGTTTGTAGC---TGAT--
1 GCCAATGTTATCGA-TTCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGTTGTAGCTGATGATGA
*
7541950 -GATTGCAATGGAGATGGTTTAGCTTATGAT-AGTGCTAAGGCCACTGT-TACTGAA
65 CGATTGCAATGGAGATGGTTTAGCTAATGATGA-TGCTAAGGCCACTGTCT-CTGAA
7542004 G
1 G
7542005 ATGCTGCTGA
Statistics
Matches: 590, Mismatches: 95, Indels: 60
0.79 0.13 0.08
Matches are distributed among these distances:
111 25 0.04
112 1 0.00
113 2 0.00
114 18 0.03
115 2 0.00
116 2 0.00
117 54 0.09
118 4 0.01
119 15 0.03
120 458 0.78
121 9 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (119 bp):
GCCAATGTTATCGATTCAGGTCAAAAGAGAATGAGGGCTCTGAAATGGTTGTAGCTGATGATGAC
GATTGCAATGGAGATGGTTTAGCTAATGATGATGCTAAGGCCACTGTCTCTGAA
Found at i:7546587 original size:28 final size:29
Alignment explanation
Indices: 7546529--7546587 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
7546519 AGAAGTTCAC
* * *
7546529 AAAAAATCCGAATATCCGATTTTGTGTAA
1 AAAAAATCCGAATATCAGATTTTGGGGAA
7546558 AAAAATATCCGAA-ATCAGA-TTTGGGGAA
1 AAAAA-ATCCGAATATCAGATTTTGGGGAA
7546586 AA
1 AA
7546588 TCGGTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 9 0.35
29 10 0.38
30 7 0.27
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAAAATCCGAATATCAGATTTTGGGGAA
Found at i:7546615 original size:19 final size:19
Alignment explanation
Indices: 7546587--7546624 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7546577 TTTGGGGAAA
*
7546587 ATCGGTTTTTTTTAACCGG
1 ATCGGATTTTTTTAACCGG
7546606 ATCGGATTTTTTTAACCGG
1 ATCGGATTTTTTTAACCGG
7546625 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (19 bp):
ATCGGATTTTTTTAACCGG
Found at i:7546633 original size:13 final size:13
Alignment explanation
Indices: 7546615--7546639 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7546605 GATCGGATTT
7546615 TTTTAACCGGTTA
1 TTTTAACCGGTTA
7546628 TTTTAACCGGTT
1 TTTTAACCGGTT
7546640 TGGAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTAACCGGTTA
Found at i:7548245 original size:21 final size:21
Alignment explanation
Indices: 7548221--7548262 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
7548211 AATTTATTTT
7548221 TAAACTTTATTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
*
7548242 TAAACTTTGTTTCAATTATCG
1 TAAACTTTATTTCAATTATCG
7548263 AACTTAGAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (21 bp):
TAAACTTTATTTCAATTATCG
Found at i:7548306 original size:33 final size:33
Alignment explanation
Indices: 7548257--7548360 Score: 165
Period size: 33 Copynumber: 3.2 Consensus size: 33
7548247 TTTGTTTCAA
*
7548257 TTATCGAACTTAGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
*
7548290 TTATTGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* *
7548323 TTATCGAACTTGGAAGTATTTAAGTATTTCAA-
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
7548355 TTATCG
1 TTATCG
7548361 TAAACTTTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
32 6 0.09
33 60 0.91
ACGTcount: A:0.32, C:0.07, G:0.16, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:7548562 original size:16 final size:17
Alignment explanation
Indices: 7548532--7548568 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
7548522 TATCTATAAA
7548532 AAAAACCGAATCAAAT-
1 AAAAACCGAATCAAATC
7548548 AAAAACCG-ATCCAAATC
1 AAAAACCGAAT-CAAATC
7548565 AAAA
1 AAAA
7548569 TAAAATCCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 2 0.11
16 13 0.68
17 4 0.21
ACGTcount: A:0.62, C:0.22, G:0.05, T:0.11
Consensus pattern (17 bp):
AAAAACCGAATCAAATC
Found at i:7549131 original size:77 final size:77
Alignment explanation
Indices: 7549003--7549180 Score: 320
Period size: 77 Copynumber: 2.3 Consensus size: 77
7548993 CTGACTTAAT
*
7549003 TCTGATTGTAACATCAAATACTCTTTTAAATATTGTGTGCCTTCACATGCATGGATGGTCCAGAG
1 TCTGATTGTAACATCAAATACTCTTTTAAATATTGTGTGCCTTCACATGCATGGATGGACCAGAG
* *
7549068 GTAGAGGGAAAG
66 GGAGAGAGAAAG
*
7549080 TCTGATTGTAACATCAAATACTCTTTTAAATATTGTGTGCCTTCACCTGCATGGATGGACCAGAG
1 TCTGATTGTAACATCAAATACTCTTTTAAATATTGTGTGCCTTCACATGCATGGATGGACCAGAG
7549145 GGAGAGAGAAAG
66 GGAGAGAGAAAG
7549157 TCTGATTGTAACATCAAATACTCT
1 TCTGATTGTAACATCAAATACTCT
7549181 GTGTCGTCAC
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 97 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (77 bp):
TCTGATTGTAACATCAAATACTCTTTTAAATATTGTGTGCCTTCACATGCATGGATGGACCAGAG
GGAGAGAGAAAG
Found at i:7549833 original size:23 final size:22
Alignment explanation
Indices: 7549807--7549852 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
7549797 TCAGTGCTCC
7549807 CCTTAACCCCCTTAATTGACTTT
1 CCTT-ACCCCCTTAATTGACTTT
*
7549830 CCTTAGCCCCTTAATTGACTTT
1 CCTTACCCCCTTAATTGACTTT
7549852 C
1 C
7549853 AACAATCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.39
Consensus pattern (22 bp):
CCTTACCCCCTTAATTGACTTT
Found at i:7552338 original size:22 final size:23
Alignment explanation
Indices: 7552302--7552347 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
7552292 ATTCGGTACC
7552302 CCTTAACCCTCTTAAATGACTTT
1 CCTTAACCCTCTTAAATGACTTT
* *
7552325 CCTTAGCCC-CTTAATTGACTTT
1 CCTTAACCCTCTTAAATGACTTT
7552347 C
1 C
7552348 AACAATTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.22, C:0.33, G:0.07, T:0.39
Consensus pattern (23 bp):
CCTTAACCCTCTTAAATGACTTT
Found at i:7553525 original size:29 final size:29
Alignment explanation
Indices: 7553478--7553546 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
7553468 GACATATATT
* *
7553478 ACATCACTATATACATGTGGTAATATCAC
1 ACATCACTTTATACATGTGATAATATCAC
* * * *
7553507 GCATCACTTTGTACGTGTGATAATGTCAC
1 ACATCACTTTATACATGTGATAATATCAC
7553536 ACTATCACTTT
1 AC-ATCACTTT
7553547 TTAAACATGT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (29 bp):
ACATCACTTTATACATGTGATAATATCAC
Found at i:7556214 original size:36 final size:36
Alignment explanation
Indices: 7556167--7556236 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
7556157 AATCTCTGGG
*
7556167 AAAAACCAGAATCGAAGCGAAGATTCTACATTAAAC
1 AAAAACCAGAATCAAAGCGAAGATTCTACATTAAAC
7556203 AAAAACCAGAATCAAAGCGAAGATTCTACATTAA
1 AAAAACCAGAATCAAAGCGAAGATTCTACATTAA
7556237 CCAATCTCTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (36 bp):
AAAAACCAGAATCAAAGCGAAGATTCTACATTAAAC
Found at i:7560757 original size:23 final size:23
Alignment explanation
Indices: 7560710--7560759 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
7560700 AATAACATAT
* **
7560710 TAGGTAGCGTTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
7560733 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
7560756 TAGG
1 TAGG
7560760 CATTTAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:7560821 original size:87 final size:87
Alignment explanation
Indices: 7560675--7560835 Score: 286
Period size: 87 Copynumber: 1.9 Consensus size: 87
7560665 TGTTATATCC
* *
7560675 TTTAACCGGAAATATTATTAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAG
1 TTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAG
*
7560740 CGCTTATATAATAAAATAGGCA
66 CACTTATATAATAAAATAGGCA
*
7560762 TTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCTTTTATATAATGTAATAGGTAG
1 TTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAG
7560827 CACTTATAT
66 CACTTATAT
7560836 TGACCAATTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (87 bp):
TTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGTTTATATAATGTAATAGGTAG
CACTTATATAATAAAATAGGCA
Found at i:7561410 original size:201 final size:199
Alignment explanation
Indices: 7561024--7561538 Score: 693
Period size: 201 Copynumber: 2.6 Consensus size: 199
7561014 TATTTAGGCT
* * * *
7561024 TATTTTCTCATAAAACCGGTACATTTATACCATGTACATTGTAAATTTACCTATCACATTGTAAT
1 TATTTTCTCATAAAACCGGTATATTTATACGAT-TACATTGTAAATTTACCTATTACATTATAAT
* * * * *
7561089 T-TTTGTTTCGATGTTTTTGGGATCGATACAATTT--TACATGTATCGACACTTTATTCTTGCAC
65 TATTAGTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCAC
* *
7561151 CTCGTTGGGCATTCATTATGGACAAAATGTATCAACACAAATTTAACAAGTGTCGATACTTGATG
129 CTCGTTGGGCATTCATTATGGACAAAATGTATCAACACAAATTCAACAAGTGTCGATACATGATG
7561216 CTGACC
194 CTGACC
* *
7561222 TATTTTCTCATAAAACAGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAAT
1 TATTTTCTCATAAAACCGGTATATTTATA-CGATTACATTGTAAATTTACCTATTACATTATAAT
*
7561287 TATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACC
65 TATTAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACC
* * *
7561352 TCGTTTGGGCATTCATTCTGGACAATAA-GTATCGACACAAATTCCACAAGTGTCGATACATGAT
130 TCG-TTGGGCATTCATTATGGACAA-AATGTATCAACACAAATTCAACAAGTGTCGATACATGAT
7561416 GCTGACC
193 GCTGACC
* * *
7561423 TATTTTCTCATAAAACCGGTATATTTATACCGATTATATTATTAATTTACCTATTACATTATAAT
1 TATTTTCTCATAAAACCGGTATATTTATA-CGATTACATTGTAAATTTACCTATTACATTATAAT
* * *
7561488 TATTGGTTTTGATATTTTTTGGG-TCGATA-TTTGTAGA-AAATGTATCGACAC
65 TATTAGTTTCGAT-GTTTTTGGGATCGATACTTT-TA-ATAAATGTATCGACAC
7561539 ATATTTAGGT
Statistics
Matches: 281, Mismatches: 27, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
198 60 0.21
199 28 0.10
200 32 0.11
201 150 0.53
202 11 0.04
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (199 bp):
TATTTTCTCATAAAACCGGTATATTTATACGATTACATTGTAAATTTACCTATTACATTATAATT
ATTAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCT
CGTTGGGCATTCATTATGGACAAAATGTATCAACACAAATTCAACAAGTGTCGATACATGATGCT
GACC
Found at i:7561478 original size:20 final size:19
Alignment explanation
Indices: 7561450--7561488 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
7561440 GGTATATTTA
*
7561450 TACCGATTATATTATTAATT
1 TACCGATTACATTA-TAATT
*
7561470 TACCTATTACATTATAATT
1 TACCGATTACATTATAATT
7561489 ATTGGTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (19 bp):
TACCGATTACATTATAATT
Found at i:7565271 original size:64 final size:63
Alignment explanation
Indices: 7565177--7565317 Score: 160
Period size: 64 Copynumber: 2.2 Consensus size: 63
7565167 GCACATTAAT
* * *
7565177 GTGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAGG-A
1 GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTA
* * * * * *
7565240 GTGCATCGATGCATCCCCTTAAA-ATGAAAACATCGAAGGTAATTTGTGTATCGATGCATGGGTA
1 GTGCATCGATGCA-CCCCTTAAAGAAG-AAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
7565304 GTGCATCGATGCAC
1 GTGCATCGATGCAC
7565318 ATGTTAAAGA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
63 18 0.27
64 48 0.73
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (63 bp):
GTGCATCGATGCACCCCTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTA
Found at i:7565350 original size:20 final size:22
Alignment explanation
Indices: 7565305--7565362 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
7565295 GCATGGGTAG
7565305 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
7565329 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
7565349 TGCATTGATGCACT
1 TGCATCGATGCACT
7565363 TCAAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:7566183 original size:31 final size:31
Alignment explanation
Indices: 7566062--7566173 Score: 197
Period size: 31 Copynumber: 3.6 Consensus size: 31
7566052 AGGGTCGAGG
*
7566062 GTTTACCTATGTTCTTCGGGACATATGCACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
7566093 GTTTACCTATGTTCTTCGCGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
7566124 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
7566155 GTTTACCTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
7566174 AATCTATGGA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:7567421 original size:251 final size:252
Alignment explanation
Indices: 7566964--7567417 Score: 626
Period size: 251 Copynumber: 1.8 Consensus size: 252
7566954 GTTTCGATGT
* * * *
7566964 TTTTGGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTTACCCTTTTGGGCATCCAT
1 TTTTGGGATCGACACTCTATGAAAATATATCGACACTTTATGCGTTAACCCTTTTGGGCATCCAT
* * * * * * *
7567029 TTTGGACAAAAATTATGGACACAATATTAAGAAGTGTCGATACATATTATAAACCTATTCTCTCA
66 TCTGGACAAAAAGTATCGAAAAAATACTAAGAAGTGTCGATAAATATTATAAACCTATTCTCTCA
* * *
7567094 TAAAACTGGTATATGTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTGTC
131 TAAAACTGGTATATGTATACCGGTTACATTACAAAATTACCCATTACATTATAATTAAGGGTGTC
7567159 GATGTTTTTGGGATCGGCACTTTTAAAAAATGTATCGAAACTTTTTGCGTGCACCCC
196 GATGTTTTTGGGATCGGCACTTTTAAAAAATGTATCGAAACTTTTTGCGTGCACCCC
* * * *
7567216 TTTT-GGATCGACACTCTATGGAAATATATTGACACTTTGTGCGTTAACCCTTTTTGGCATCCAT
1 TTTTGGGATCGACACTCTATGAAAATATATCGACACTTTATGCGTTAACCCTTTTGGGCATCCAT
* * * * * *
7567280 TCTGGATAAAAAGTATCGAAAAAATACTAATAAGTGTCGATAAATGTTGTAGACCTATT-TTTCA
66 TCTGGACAAAAAGTATCGAAAAAATACTAAGAAGTGTCGATAAATATTATAAACCTATTCTCTCA
* ** *
7567344 TAAAACTGGTATATTTATACCGGTTACATTGA-AAAATTACCCATTATGTTATAATTAAGGGTTT
131 TAAAACTGGTATATGTATACCGGTTACATT-ACAAAATTACCCATTACATTATAATTAAGGGTGT
7567408 CGATGTTTTT
195 CGATGTTTTT
7567418 TGGGTCGTTA
Statistics
Matches: 173, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
250 69 0.40
251 100 0.58
252 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (252 bp):
TTTTGGGATCGACACTCTATGAAAATATATCGACACTTTATGCGTTAACCCTTTTGGGCATCCAT
TCTGGACAAAAAGTATCGAAAAAATACTAAGAAGTGTCGATAAATATTATAAACCTATTCTCTCA
TAAAACTGGTATATGTATACCGGTTACATTACAAAATTACCCATTACATTATAATTAAGGGTGTC
GATGTTTTTGGGATCGGCACTTTTAAAAAATGTATCGAAACTTTTTGCGTGCACCCC
Found at i:7570698 original size:200 final size:202
Alignment explanation
Indices: 7570223--7570759 Score: 909
Period size: 200 Copynumber: 2.7 Consensus size: 202
7570213 TTAAATTAGT
* ** * *
7570223 ATCGACACAAAATT-CAAAAGTGTTTATACATGTTGTAGACTTAGTCTCTCATAAAACCGGTATA
1 ATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
* *
7570287 TTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTTGATATTTCTAGGA
66 TTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATATTTCTGGGA
* *
7570352 TCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCTTTTTTTGCATTCATTCTGGAC
131 TCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCATTTTTGGCATTCATTCTGGAC
* *
7570417 TAAAAGT
196 CAAAAGG
*
7570424 ATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTATACCTATTCTCTCATAAAACCGGTATA
1 ATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
*
7570489 TTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCAATATTTCTGGGA
66 TTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATATTTCTGGGA
*
7570554 TCGATA-TTTTTATAACTGTATCGACACTTTATGGTTGC-CCCATTTTTGGCATTCATTCTGGAC
131 TCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCATTTTTGGCATTCATTCTGGAC
7570617 CAAAAGG
196 CAAAAGG
*
7570624 ATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAACCGGTATA
1 ATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
*
7570689 TTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATGTTTCTGGGA
66 TTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATATTTCTGGGA
7570754 TCGATA
131 TCGATA
7570760 AATTTTACCT
Statistics
Matches: 317, Mismatches: 18, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
200 160 0.50
201 45 0.14
202 112 0.35
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (202 bp):
ATCGACACAAAATTAAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGTATA
TTTATACCGGTTACATTGAAAATTTACCTATTACATTATACTTATGGGTTTCGATATTTCTGGGA
TCGATACTTTTTATAAATGTATCGACACTTTATGGTTGCACCCATTTTTGGCATTCATTCTGGAC
CAAAAGG
Found at i:7571046 original size:19 final size:19
Alignment explanation
Indices: 7571022--7571068 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
7571012 TTACATTCAC
7571022 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
7571041 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCTT
*
7571060 ATAAAAAAT
1 ATACAAAAT
7571069 CAACCCTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (19 bp):
ATACAAAATTATAAATCTT
Found at i:7572680 original size:65 final size:64
Alignment explanation
Indices: 7572558--7572768 Score: 228
Period size: 65 Copynumber: 3.2 Consensus size: 64
7572548 TATTCAAAGG
* * * *
7572558 CATGCATCGATACATCAGTCCATGCATCGATACA-TCGATGAAT-TAATTGAAACATCGAATGCA
1 CATGCATCGATGCA-CAATCCATGCATCGATACACTC-A-GAATAT-TTTCAAACATCGAATGCA
*
7572621 TTC
62 TTT
* *** *
7572624 CATGCACCGATGCATTCTCCATGCATCGATACACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATACACTCAGAATATTTTC-AAACATCGAATGCATTT
* * **
7572689 GATGCATCGATGCACAATCCATGCATCGATGCACTCAGGCTATTTTCAAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATACACTCAGAATATTTTCAAACATCGAATGCATTT
*
7572753 TATGCATCGATGCACA
1 CATGCATCGATGCACA
7572769 CTTGGTGCAC
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
64 38 0.31
65 71 0.58
66 14 0.11
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (64 bp):
CATGCATCGATGCACAATCCATGCATCGATACACTCAGAATATTTTCAAACATCGAATGCATTT
Found at i:7579243 original size:21 final size:21
Alignment explanation
Indices: 7579219--7579282 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
7579209 AAAACCGTCC
7579219 TCCCGTTCCTCAACATCCTAA
1 TCCCGTTCCTCAACATCCTAA
** *
7579240 TCCCGTTCCTCCTCAACCTAA
1 TCCCGTTCCTCAACATCCTAA
* *
7579261 TCCTGATCCTCAAGC-TCCTAA
1 TCCCGTTCCTCAA-CATCCTAA
7579282 T
1 T
7579283 GGCTTATTGA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
21 33 0.97
22 1 0.03
ACGTcount: A:0.22, C:0.42, G:0.06, T:0.30
Consensus pattern (21 bp):
TCCCGTTCCTCAACATCCTAA
Found at i:7580124 original size:21 final size:21
Alignment explanation
Indices: 7580082--7580125 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7580072 ACTCCGGGAG
*
7580082 CTAGTTCTTCTCGAGCTGCTC
1 CTAGTTCTTCTCGAGCTCCTC
* *
7580103 CTAGTTCTTCTTGTGCTCCTC
1 CTAGTTCTTCTCGAGCTCCTC
7580124 CT
1 CT
7580126 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.07, C:0.34, G:0.16, T:0.43
Consensus pattern (21 bp):
CTAGTTCTTCTCGAGCTCCTC
Found at i:7581314 original size:64 final size:65
Alignment explanation
Indices: 7581087--7581297 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 65
7581077 TATTCAAAGG
* * * * *
7581087 CATGCACCGATGCATCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAAACATCAAATGC
1 CATGCATCGATGCA-CAATCCATGCATCGATGCACTC-A-GAATAT-TTTCAAAACATCGAATGC
*
7581149 ATTC
62 ATTT
* * *** *
7581153 CATGCACCAATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
* **
7581218 GATGCATCGATGCACAATCCATGCATCGATGCACTCAGGCTATTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACAATCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
7581282 CATGCATCGATGCACA
1 CATGCATCGATGCACA
7581298 CTTGGTGCAC
Statistics
Matches: 123, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
64 38 0.31
65 70 0.57
66 15 0.12
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
CATGCATCGATGCACAATCCATGCATCGATGCACTCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:7582680 original size:21 final size:21
Alignment explanation
Indices: 7582655--7582719 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
7582645 CCCCTTATAC
* *
7582655 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
7582676 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
7582697 CTCTCAAATTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
7582718 CT
1 CT
7582720 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.32, G:0.09, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:7585021 original size:20 final size:19
Alignment explanation
Indices: 7584967--7585012 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
7584957 CCGGTAGCTC
*
7584967 TTTACCGGTTTTATCATTT
1 TTTACCAGTTTTATCATTT
*
7584986 TGATACCAGTTTTATCATATT
1 T-TTACCAGTTTTATCAT-TT
7585007 TTTACC
1 TTTACC
7585013 TGTTATATCG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.05
20 18 0.82
21 3 0.14
ACGTcount: A:0.22, C:0.17, G:0.09, T:0.52
Consensus pattern (19 bp):
TTTACCAGTTTTATCATTT
Found at i:7585372 original size:182 final size:182
Alignment explanation
Indices: 7584950--7585407 Score: 598
Period size: 182 Copynumber: 2.5 Consensus size: 182
7584940 CAACAGTTTT
* * * * * * *
7584950 AATATATCCGGTAGCTCTTTACCGGTTTTATCATTTTGATACC-AGTTTTATCATATTTTTACCT
1 AATATATCTGGTAGCGCTTTACCGATATTATTATTTCGATACCGA-TTTTATCATATTTTTACAT
* *
7585014 GTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATATGCGCTAAAATTGCT
65 GTTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATATGCACTAAAACTGCT
*
7585079 TCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTACCGACACTTTA
130 TCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTACCGACACGTTA
* * * *
7585132 AATATATCTGGTAGCGCTTTACTGATTTTATTATTTCGATACCGGTTTTGTCATATTTTTACATG
1 AATATATCTGGTAGCGCTTTACCGATATTATTATTTCGATACCGATTTTATCATATTTTTACATG
* * *
7585197 TTATATCGTTGTGGATCGATATATTTTTATAAATTATCGACACTTTATA-GCATTAAAACTGCTT
66 TTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATATGCACTAAAACTGCTT
* * * *
7585261 CTCTTTTAAATTCATAAAGTGTCGATCCTTATATTAAAGTATCGACACGTTC
131 CTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTACCGACACGTTA
* * * * * *
7585313 AATATATCTGGTAGGGTTTTACCGGTATTGTCT-TTTCGTTACCGATTTTATCGATATTTTTACT
1 AATATATCTGGTAGCGCTTTACCGATATTAT-TATTTCGATACCGATTTTATC-ATATTTTTACA
* * *
7585377 TGTTATATTGATATGGATCGATACATTTTTA
64 TGTTATATCGTTGTGGATCGATACATTTTTA
7585408 ATTTGGATTG
Statistics
Matches: 240, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
181 100 0.42
182 140 0.58
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (182 bp):
AATATATCTGGTAGCGCTTTACCGATATTATTATTTCGATACCGATTTTATCATATTTTTACATG
TTATATCGTTGTGGATCGATACATTTTTATAAAGTATCGACACTTTATATGCACTAAAACTGCTT
CTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTACCGACACGTTA
Found at i:7589639 original size:54 final size:55
Alignment explanation
Indices: 7589580--7589687 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 55
7589570 AAAATGTTAA
*
7589580 GTTCGTTAATAAAGGTATACGACT-TAAAAATATTGTTGTGAATA-AAAAAATTAG
1 GTTCGTTAAAAAAGGTATACG-CTCTAAAAATATTGTTGTGAATAGAAAAAATTAG
* * *
7589634 GTTCGTTAAAAAAGGTATATGGTCTAAAAATATTGTTGTGAATAGAGAAAATTA
1 GTTCGTTAAAAAAGGTATACGCTCTAAAAATATTGTTGTGAATAGAAAAAATTA
7589688 TATTCGAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
53 1 0.02
54 39 0.81
55 8 0.17
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.33
Consensus pattern (55 bp):
GTTCGTTAAAAAAGGTATACGCTCTAAAAATATTGTTGTGAATAGAAAAAATTAG
Found at i:7590287 original size:2 final size:2
Alignment explanation
Indices: 7590280--7590315 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
7590270 AGAACTTTTC
7590280 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7590316 TTCTTTTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7596718 original size:30 final size:32
Alignment explanation
Indices: 7596665--7596726 Score: 101
Period size: 30 Copynumber: 2.0 Consensus size: 32
7596655 ATATTAGTTC
7596665 GATAAATTTTAATGAAATATTTTATAATTTTT
1 GATAAATTTTAATGAAATATTTTATAATTTTT
*
7596697 GATAAA-TTTAAT-AATTATTTTATAATTTTT
1 GATAAATTTTAATGAAATATTTTATAATTTTT
7596727 AAAAGTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 17 0.59
31 6 0.21
32 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (32 bp):
GATAAATTTTAATGAAATATTTTATAATTTTT
Found at i:7596835 original size:21 final size:21
Alignment explanation
Indices: 7596810--7596853 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7596800 AAAGTAACCT
7596810 TAAGAAAATCATTTTCAAGAA
1 TAAGAAAATCATTTTCAAGAA
7596831 TAAGAAAATCATTTTCAAGAA
1 TAAGAAAATCATTTTCAAGAA
7596852 TA
1 TA
7596854 TAAATGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (21 bp):
TAAGAAAATCATTTTCAAGAA
Found at i:7600400 original size:9 final size:9
Alignment explanation
Indices: 7600382--7600412 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7600372 ATAATAATTT
7600382 CCGATTGAA
1 CCGATTGAA
*
7600391 CCGGTTGAA
1 CCGATTGAA
7600400 CCGATTGAA
1 CCGATTGAA
7600409 CCGA
1 CCGA
7600413 CCGATCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.19
Consensus pattern (9 bp):
CCGATTGAA
Found at i:7601190 original size:29 final size:29
Alignment explanation
Indices: 7601135--7601190 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
7601125 AAGGTTCAAA
* *
7601135 GTTTTTATTTTTCTTTTAATTTTTTTGCT
1 GTTTTTATTTTTCTTTTAATCTCTTTGCT
* *
7601164 GTTTTTTTTTTTCTTTTCATCTCTTTG
1 GTTTTTATTTTTCTTTTAATCTCTTTG
7601191 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.75
Consensus pattern (29 bp):
GTTTTTATTTTTCTTTTAATCTCTTTGCT
Found at i:7615438 original size:21 final size:21
Alignment explanation
Indices: 7615414--7615457 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
7615404 AAGACAATCA
7615414 AGAGTCAAAGAGAAACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
* * *
7615435 AGAGTCGAAGATACACTTGAG
1 AGAGTCAAAGAGAAACTTGAG
7615456 AG
1 AG
7615458 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCAAAGAGAAACTTGAG
Found at i:7615528 original size:33 final size:33
Alignment explanation
Indices: 7615491--7615556 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
7615481 AAATAGATAG
*
7615491 AGTGGTGAAAGAAGTAAATGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAAATGTGTTAAGGGGTGA
**
7615524 AGTGGTGAAAGAAGTTGATGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAAATGTGTTAAGGGGTGA
7615557 TCTTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.00, G:0.42, T:0.26
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAAATGTGTTAAGGGGTGA
Found at i:7618154 original size:201 final size:201
Alignment explanation
Indices: 7617615--7618353 Score: 1239
Period size: 201 Copynumber: 3.7 Consensus size: 201
7617605 GTAAAATATA
*
7617615 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACTGGTA
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
*
7617680 TAAATATATCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
66 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
* * *
7617745 CGATACTTTTGGTCCATAATGGATGCCAAAAAGAGTGAACACAAAAAGTGTCGATACATTTTCAA
131 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
7617810 AAAGTG
196 AAAGTG
* * *
7617816 TCGAT-CTAGAAATATATGCATCCATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTA
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
7617880 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
66 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
*
7617945 CGATACTTTTGGTCCATAATGGATACCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
131 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
7618010 AAAGTG
196 AAAGTG
7618016 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
* * *
7618081 TAAATATATCGGTTTTATGAGAGAATAGGTTTACAACATTTATCGACACTTTTTTAATTTTGTGT
66 TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
* *
7618146 CGATACTTTTGGTCCAGAATGAATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
131 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
7618211 AAAGTG
196 AAAGTG
* * * * * * *
7618217 TCGATCCAAAAAACAT-CGAAACCCATAATTATAATGTAATAGGTAAATTTTCAATGTAACCGGT
1 TCGATCCCAGAAACATATG-CATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGT
* * *
7618281 ATAAATATACCGGTTTTATAAGAGAATAAGTCTACAACATGTATCGACACGTTTTTAATTTTGTG
65 ATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTG
7618346 TCGATACT
130 TCGATACT
7618354 AATTTAAATA
Statistics
Matches: 505, Mismatches: 31, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
200 192 0.38
201 313 0.62
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (201 bp):
TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAACCGGTA
TAAATATACCGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATACATTTTCAA
AAAGTG
Found at i:7619837 original size:18 final size:18
Alignment explanation
Indices: 7619814--7619864 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
7619804 AAGCGGTCAT
*
7619814 TGAAGATGAAGATGACGA
1 TGAAGATGACGATGACGA
7619832 TGAAGATGACGATGACGA
1 TGAAGATGACGATGACGA
*
7619850 TGATGATGACGATGA
1 TGAAGATGACGATGA
7619865 TAATGATGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (18 bp):
TGAAGATGACGATGACGA
Found at i:7619883 original size:6 final size:6
Alignment explanation
Indices: 7619818--7619883 Score: 69
Period size: 6 Copynumber: 11.0 Consensus size: 6
7619808 GGTCATTGAA
* * * * * *
7619818 GATGAA GATGAC GATGAA GATGAC GATGAC GATGAT GATGAC GATGAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
*
7619866 AATGAT GATGAT GATGAT
1 GATGAT GATGAT GATGAT
7619884 CCAAACAAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.38, C:0.06, G:0.32, T:0.24
Consensus pattern (6 bp):
GATGAT
Found at i:7619883 original size:12 final size:12
Alignment explanation
Indices: 7619818--7619882 Score: 76
Period size: 12 Copynumber: 5.4 Consensus size: 12
7619808 GGTCATTGAA
*
7619818 GATGAAGATGAC
1 GATGAAGATGAT
*
7619830 GATGAAGATGAC
1 GATGAAGATGAT
*
7619842 GATGACGATGAT
1 GATGAAGATGAT
*
7619854 GATGACGATGAT
1 GATGAAGATGAT
* *
7619866 AATGATGATGAT
1 GATGAAGATGAT
7619878 GATGA
1 GATGA
7619883 TCCAAACAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.38, C:0.06, G:0.32, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAT
Found at i:7621612 original size:251 final size:251
Alignment explanation
Indices: 7621152--7621644 Score: 683
Period size: 251 Copynumber: 2.0 Consensus size: 251
7621142 TAAAGTTTCC
*
7621152 CATAAAGTGTCGATCCATATATAAAAAGTAACGACCCAAAAAACATCGAAACCCATAATTATAAT
1 CATAAAGTGTCGATACATATATAAAAAGT-ACGACCCAAAAAACATCGAAACCCATAATTATAAT
* *
7621217 GTAATGGGTAATTTTTCAATATAACTGGTATAAATATACCGATTTTATGAAAAATATGTCTACAA
65 GTAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGATTTTATGAAAAATATGTCTACAA
* * * *
7621282 CATTTATCGACACTTATTAGTATTGTGTCGATACTTTTTGTCCAGAATGGATGTCAAAAAAAAGG
130 CATGTATCGACACTTATTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAAAAGG
* *
7621347 GAACCTACAAAGTGTCGATACATTTTCATAGAGTGTCGATCC-AAAAGAATTGCACG
195 GAACCTACAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCTAAAAGAATTGCACG
* *
7621403 CATAAAGTGTCGATACATTTATTAAAAGAGT-CGATCCC-AAAAATATCGAAACCCATAATTATA
1 CATAAAGTGTCGATACATATA-TAAAA-AGTACGA-CCCAAAAAACATCGAAACCCATAATTATA
* * * *
7621466 ATGTAATAGGTAATTTTGT-AATATAACCGGTATACATATATCGGTTTTATGAGAGAATATGTCT
63 ATGTAATAGGTAATTTT-TCAATATAACCGGTATAAATATACCGATTTTATGA-AAAATATGTCT
* * * *
7621530 ATAATATGTATCGACACTTATTAATATTGTGTCGATAATTTTTGTCCATAATGGATGCCAAAAAG
126 ACAACATGTATCGACACTTATTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAA
* * *
7621595 GA-TGAACGC-ATAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCTAAAA
191 AAGGGAAC-CTACAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCTAAAA
7621645 ACATCGAAAC
Statistics
Matches: 213, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
251 128 0.60
252 82 0.38
253 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (251 bp):
CATAAAGTGTCGATACATATATAAAAAGTACGACCCAAAAAACATCGAAACCCATAATTATAATG
TAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGATTTTATGAAAAATATGTCTACAAC
ATGTATCGACACTTATTAATATTGTGTCGATAATTTTTGTCCAGAATGGATGCCAAAAAAAAGGG
AACCTACAAAGTGTCGATACATTTTCAAAAAGTGTCGATCCTAAAAGAATTGCACG
Found at i:7624783 original size:21 final size:23
Alignment explanation
Indices: 7624747--7624828 Score: 137
Period size: 23 Copynumber: 3.6 Consensus size: 23
7624737 TGGTTAAATG
*
7624747 CCTATTTTATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
7624770 CCTATTATATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
7624793 CCTATTATATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
* *
7624816 CCTAATATGTTAT
1 CCTATTATATTAT
7624829 TGTACTTGAT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (23 bp):
CCTATTATATTATATAAGCGCTA
Found at i:7627299 original size:85 final size:85
Alignment explanation
Indices: 7627168--7627329 Score: 261
Period size: 85 Copynumber: 1.9 Consensus size: 85
7627158 AAAGAGGCCG
* * **
7627168 TTAAATCTTAATTTTACCACTGATCCATAATACTTTGTTTGTTTTTTTATTGTAACAATAGTAAT
1 TTAAATCTCAATTTTACCACTGATCCATAATACTTTATTTAATTTTTTATTGTAACAATAGTAAT
*
7627233 AAATTTAATTTTGTGGGTCC
66 AAATCTAATTTTGTGGGTCC
* *
7627253 TTAAATCTCAATTTTACTATTGATCCATAATACTTTATTTAATTTTTTATTGTAACAATAGTAAT
1 TTAAATCTCAATTTTACCACTGATCCATAATACTTTATTTAATTTTTTATTGTAACAATAGTAAT
7627318 AAATCTAATTTT
66 AAATCTAATTTT
7627330 TTGAGTTCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.33, C:0.11, G:0.07, T:0.49
Consensus pattern (85 bp):
TTAAATCTCAATTTTACCACTGATCCATAATACTTTATTTAATTTTTTATTGTAACAATAGTAAT
AAATCTAATTTTGTGGGTCC
Found at i:7630437 original size:6 final size:6
Alignment explanation
Indices: 7630426--7630453 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7630416 ACAGAGTCGC
7630426 TGATGT TGATGT TGATGT TGATGT TGAT
1 TGATGT TGATGT TGATGT TGATGT TGAT
7630454 TAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (6 bp):
TGATGT
Found at i:7633784 original size:2 final size:2
Alignment explanation
Indices: 7633777--7633806 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7633767 TTAATTACAA
7633777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7633807 TATTTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7633829 original size:34 final size:34
Alignment explanation
Indices: 7633789--7633857 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 34
7633779 ATATATATAT
*
7633789 ATATATATATATATATATTATTTTTCATTATTATTA
1 ATATATACAT-TATATATTATTTTTC-TTATTATTA
* * *
7633825 ATATATACATTTTATTTTATTTTTCTTTTTATT
1 ATATATACATTATATATTATTTTTCTTATTATT
7633858 TCCTTTTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 7 0.24
35 13 0.45
36 9 0.31
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (34 bp):
ATATATACATTATATATTATTTTTCTTATTATTA
Found at i:7633854 original size:17 final size:17
Alignment explanation
Indices: 7633834--7633875 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7633824 AATATATACA
*
7633834 TTTTATTTTATTTTTCT
1 TTTTATTTCATTTTTCT
*
7633851 TTTTATTTCCTTTTTCT
1 TTTTATTTCATTTTTCT
7633868 TTATTATT
1 TT-TTATT
7633876 AATATTAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTTCATTTTTCT
Found at i:7633997 original size:9 final size:9
Alignment explanation
Indices: 7633898--7634185 Score: 65
Period size: 9 Copynumber: 30.2 Consensus size: 9
7633888 TATATACTTT
7633898 TTTATTTTA
1 TTTATTTTA
* *
7633907 CTTATGTTA
1 TTTATTTTA
7633916 TTTTATTTTAA
1 -TTTATTTT-A
7633927 TTTATTATTTA
1 TTTA-T-TTTA
* *
7633938 TATATATATA
1 TTTAT-TTTA
* *
7633948 TATATTATA
1 TTTATTTTA
* *
7633957 TTTATCTTG
1 TTTATTTTA
* *
7633966 TTTACCTTTC
1 TTTA-TTTTA
*
7633976 TTT-TGTT-
1 TTTATTTTA
7633983 TTTATTTTA
1 TTTATTTTA
*
7633992 TTTATTTCA
1 TTTATTTTA
*
7634001 TTTATATATA
1 TTTAT-TTTA
*
7634011 GTTTCATTTTT
1 -TTT-ATTTTA
7634022 TATTATTATTA
1 T-TTATT-TTA
7634033 TTT-TCCTTTA
1 TTTAT--TTTA
*
7634043 TCTTATTCT-
1 T-TTATTTTA
*
7634052 TTTATGTT-
1 TTTATTTTA
7634060 TTTATTTCTA
1 TTTATTT-TA
*
7634070 TTTATCTTTG
1 TTTAT-TTTA
* *
7634080 TTTCATTAGTC
1 TTT-ATT-TTA
*
7634091 TTTATTTTC
1 TTTATTTTA
*
7634100 TTTGTTTT-
1 TTTATTTTA
7634108 TTATATTTT-
1 TT-TATTTTA
7634117 TTTATAGATTATA
1 TTTAT---TT-TA
7634130 TTTATTTTA
1 TTTATTTTA
7634139 TTT-TCATTT-
1 TTTAT--TTTA
*
7634148 TTT-CTTTA
1 TTTATTTTA
*
7634156 TCTTATCTTA
1 T-TTATTTTA
7634166 TTTATTTTA
1 TTTATTTTA
7634175 TTTATTTTA
1 TTTATTTTA
7634184 TT
1 TT
7634186 CTTCATCTAA
Statistics
Matches: 211, Mismatches: 36, Indels: 64
0.68 0.12 0.21
Matches are distributed among these distances:
7 6 0.03
8 23 0.11
9 80 0.38
10 61 0.29
11 29 0.14
12 7 0.03
13 5 0.02
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (9 bp):
TTTATTTTA
Found at i:7634147 original size:6 final size:5
Alignment explanation
Indices: 7634125--7634185 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
7634115 TTTTTATAGA
* * *
7634125 TTATAT TTATT TTATT TTCATT TTTTCT TTATC TTATC TTA-T TTATT
1 TTAT-T TTATT TTATT TT-ATT TTAT-T TTATT TTATT TTATT TTATT
7634172 TTA-T TTATT TTATT
1 TTATT TTATT TTATT
7634186 CTTCATCTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
4 7 0.15
5 27 0.57
6 13 0.28
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.74
Consensus pattern (5 bp):
TTATT
Found at i:7639875 original size:20 final size:20
Alignment explanation
Indices: 7639828--7639876 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
7639818 TAAGTTTTAA
*
7639828 ATTCTAAATATTTTAATTTT
1 ATTCTAAATATTATAATTTT
7639848 A-TCATAAA-ATTATAATTTTT
1 ATTC-TAAATATTATAA-TTTT
7639868 ATTCTAAAT
1 ATTCTAAAT
7639877 TAATCTCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
19 8 0.33
20 14 0.58
21 2 0.08
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTCTAAATATTATAATTTT
Found at i:7641567 original size:12 final size:12
Alignment explanation
Indices: 7641538--7641575 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
7641528 AATTATTAAC
7641538 ATATTTAA-AAT
1 ATATTTAATAAT
*
7641549 ATATTTATTAAT
1 ATATTTAATAAT
*
7641561 ATTTTTAATAAT
1 ATATTTAATAAT
7641573 ATA
1 ATA
7641576 ATAATATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:7641567 original size:23 final size:23
Alignment explanation
Indices: 7641520--7641577 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
7641510 CATTTTAATA
7641520 AAAATATTAATTATTAACATATTT
1 AAAATA-TAATTATTAACATATTT
* * *
7641544 AAAATATATTTATTAATATTTTT
1 AAAATATAATTATTAACATATTT
7641567 AATAATATAAT
1 AA-AATATAAT
7641578 AATATTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATATAATTATTAACATATTT
Found at i:7641583 original size:26 final size:26
Alignment explanation
Indices: 7641512--7641589 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 26
7641502 TTTAGTATCA
* * *
7641512 TTTTAATAAAAATATTAATTATTAACAT
1 TTTTAAT-AATATAATAA-TATTAATAT
* *
7641540 ATTTAA-AATAT-AT-TTATTAATAT
1 TTTTAATAATATAATAATATTAATAT
*
7641563 TTTTAATAATATAATAATATTATTAT
1 TTTTAATAATATAATAATATTAATAT
7641589 T
1 T
7641590 ACAATATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
23 13 0.33
24 5 0.13
25 3 0.08
26 13 0.33
28 5 0.13
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTTAATAATATAATAATATTAATAT
Found at i:7641621 original size:11 final size:11
Alignment explanation
Indices: 7641566--7641660 Score: 68
Period size: 11 Copynumber: 8.5 Consensus size: 11
7641556 TTAATATTTT
*
7641566 TAATAATATAA
1 TAATAATATTA
*
7641577 TAATATTATTA
1 TAATAATATTA
* *
7641588 TTACAATATATA
1 TAATAATAT-TA
*
7641600 CTCAATTATATTA
1 -T-AATAATATTA
7641613 TAATAATA-TA
1 TAATAATATTA
* *
7641623 TGATACTATTA
1 TAATAATATTA
* *
7641634 TAATCATATTT
1 TAATAATATTA
7641645 TAATAATA-TA
1 TAATAATATTA
7641655 TAATAA
1 TAATAA
7641661 CTTATTAATA
Statistics
Matches: 63, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
10 15 0.24
11 37 0.59
12 3 0.05
13 3 0.05
14 5 0.08
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (11 bp):
TAATAATATTA
Found at i:7641738 original size:19 final size:18
Alignment explanation
Indices: 7641714--7641781 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
7641704 ATATTATTAA
7641714 ATTATTAATAGTGAATAAT
1 ATTATTAATAGT-AATAAT
* *
7641733 ATTATTTAT-GTATTTAAT
1 ATTATTAATAGTA-ATAAT
7641751 ATTAATATAATAGTCTAATAAT
1 ATT-AT-TAATAG--TAATAAT
7641773 ATT-TTAATA
1 ATTATTAATA
7641782 AAAATCGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
17 1 0.03
18 9 0.23
19 15 0.38
20 4 0.10
21 1 0.03
22 7 0.18
23 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTATTAATAGTAATAAT
Found at i:7641860 original size:19 final size:21
Alignment explanation
Indices: 7641817--7641891 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 21
7641807 TAATTTTAAA
*
7641817 AATATAATATAGTAATTTTATTTT
1 AATATAATATA-TAA-TATA-TTT
7641841 AATAT-ATATAT-ATATATTT
1 AATATAATATATAATATATTT
* *
7641860 AATATAATTTATAATATTTTT
1 AATATAATATATAATATATTT
*
7641881 AATAGAATATA
1 AATATAATATA
7641892 CTAGTCTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 8 0.18
20 8 0.18
21 17 0.39
22 1 0.02
23 5 0.11
24 5 0.11
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AATATAATATATAATATATTT
Found at i:7642315 original size:25 final size:25
Alignment explanation
Indices: 7642278--7642328 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
7642268 CTTCAATTGA
*
7642278 AGTTTCAAGTGTAAACAAATCTAGG
1 AGTTTCAAATGTAAACAAATCTAGG
7642303 AGTTTCAAATGTAAACAAATCTAGG
1 AGTTTCAAATGTAAACAAATCTAGG
7642328 A
1 A
7642329 AAAGGACGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (25 bp):
AGTTTCAAATGTAAACAAATCTAGG
Found at i:7647406 original size:14 final size:14
Alignment explanation
Indices: 7647387--7647413 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7647377 ATCAGATATT
7647387 ACAAAAAAAAAAAA
1 ACAAAAAAAAAAAA
7647401 ACAAAAAAAAAAA
1 ACAAAAAAAAAAA
7647414 CAATGACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (14 bp):
ACAAAAAAAAAAAA
Found at i:7647408 original size:12 final size:12
Alignment explanation
Indices: 7647391--7647416 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7647381 GATATTACAA
7647391 AAAAAAAAAAAC
1 AAAAAAAAAAAC
7647403 AAAAAAAAAAAC
1 AAAAAAAAAAAC
7647415 AA
1 AA
7647417 TGACTAATCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:7652456 original size:21 final size:22
Alignment explanation
Indices: 7652416--7652463 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
7652406 GTACTTAAAA
7652416 ATAAATATTAAAATTAAATTG-
1 ATAAATATTAAAATTAAATTGT
*
7652437 ATAAA-ATTAAAAGTTTAATTGT
1 ATAAATATTAAAA-TTAAATTGT
7652459 ATAAA
1 ATAAA
7652464 CAAGTGCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (22 bp):
ATAAATATTAAAATTAAATTGT
Found at i:7653485 original size:3 final size:3
Alignment explanation
Indices: 7653477--7653502 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7653467 TTGATATCAC
7653477 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
7653503 GGAACGAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:7659696 original size:89 final size:91
Alignment explanation
Indices: 7659545--7659725 Score: 330
Period size: 89 Copynumber: 2.0 Consensus size: 91
7659535 GTTAAGTCGG
7659545 TGATTGTGTGGTTGCAGTGCAAGATATGTTACTTGGACTTGGGTGTTAGTGTTGGACATGGGTAC
1 TGATTGTGTGGTTGCAGTGCAAGATATGTTACTTGGACTTGGGTGTTAGTGTTGGACATGGGTAC
7659610 AAT-AAAAA-ATGAAGAGTCTGAGCA
66 AATAAAAAAGATGAAGAGTCTGAGCA
*
7659634 TGATTGTGTGGTTGCAGTGCAAGATATGTTACTTTGACTTGGGTGTTAGTGTTGGACATGGGTAC
1 TGATTGTGTGGTTGCAGTGCAAGATATGTTACTTGGACTTGGGTGTTAGTGTTGGACATGGGTAC
7659699 AATAAAAAATGATGAAGAGTCTGAGCA
66 AATAAAAAA-GATGAAGAGTCTGAGCA
7659726 ACATAGGTGC
Statistics
Matches: 88, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
89 67 0.76
90 5 0.06
92 16 0.18
ACGTcount: A:0.28, C:0.09, G:0.31, T:0.32
Consensus pattern (91 bp):
TGATTGTGTGGTTGCAGTGCAAGATATGTTACTTGGACTTGGGTGTTAGTGTTGGACATGGGTAC
AATAAAAAAGATGAAGAGTCTGAGCA
Found at i:7663725 original size:24 final size:26
Alignment explanation
Indices: 7663680--7663731 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 26
7663670 CGTTTGTGAA
*
7663680 CGTTCGATTATATGTTCGTTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
7663706 CGTTC-ATT-TATGTTCATTTATGTT
1 CGTTCGATTATATGTTCATTTATGTT
7663730 CG
1 CG
7663732 AACAGAGGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 17 0.68
25 3 0.12
26 5 0.20
ACGTcount: A:0.15, C:0.13, G:0.17, T:0.54
Consensus pattern (26 bp):
CGTTCGATTATATGTTCATTTATGTT
Found at i:7663995 original size:13 final size:13
Alignment explanation
Indices: 7663979--7664019 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
7663969 TGCTTTTTGT
7663979 GTTTATTATGTTC
1 GTTTATTATGTTC
7663992 G--T-TTATGTTC
1 GTTTATTATGTTC
*
7664002 ATTTATTATGTTC
1 GTTTATTATGTTC
7664015 GTTTA
1 GTTTA
7664020 CGTTCGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
10 8 0.35
11 1 0.04
12 1 0.04
13 13 0.57
ACGTcount: A:0.17, C:0.07, G:0.15, T:0.61
Consensus pattern (13 bp):
GTTTATTATGTTC
Found at i:7664006 original size:23 final size:23
Alignment explanation
Indices: 7663980--7664030 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
7663970 GCTTTTTGTG
*
7663980 TTTATTATGTTCGTTTATGTTCA
1 TTTATTATGTTCGTTTACGTTCA
*
7664003 TTTATTATGTTCGTTTACGTTCG
1 TTTATTATGTTCGTTTACGTTCA
7664026 TTTAT
1 TTTAT
7664031 CATTTAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.16, C:0.10, G:0.14, T:0.61
Consensus pattern (23 bp):
TTTATTATGTTCGTTTACGTTCA
Found at i:7669109 original size:166 final size:166
Alignment explanation
Indices: 7668835--7669168 Score: 668
Period size: 166 Copynumber: 2.0 Consensus size: 166
7668825 GATGCCTGCC
7668835 AGACACTTCTAGCAGATGGCCCTTCATCAAGCCTCACAGGTCCAGGACCCTTATCCCAAGCTCTC
1 AGACACTTCTAGCAGATGGCCCTTCATCAAGCCTCACAGGTCCAGGACCCTTATCCCAAGCTCTC
7668900 TTGCCACCAACCTGATCACTCTCATGTTCTGATTTGGGTGATCTATCATCCAGGCTGCCGCTAGC
66 TTGCCACCAACCTGATCACTCTCATGTTCTGATTTGGGTGATCTATCATCCAGGCTGCCGCTAGC
7668965 AGGATCTCTTCTTGATGCAATTTGTCCGTTACTGGA
131 AGGATCTCTTCTTGATGCAATTTGTCCGTTACTGGA
7669001 AGACACTTCTAGCAGATGGCCCTTCATCAAGCCTCACAGGTCCAGGACCCTTATCCCAAGCTCTC
1 AGACACTTCTAGCAGATGGCCCTTCATCAAGCCTCACAGGTCCAGGACCCTTATCCCAAGCTCTC
7669066 TTGCCACCAACCTGATCACTCTCATGTTCTGATTTGGGTGATCTATCATCCAGGCTGCCGCTAGC
66 TTGCCACCAACCTGATCACTCTCATGTTCTGATTTGGGTGATCTATCATCCAGGCTGCCGCTAGC
7669131 AGGATCTCTTCTTGATGCAATTTGTCCGTTACTGGA
131 AGGATCTCTTCTTGATGCAATTTGTCCGTTACTGGA
7669167 AG
1 AG
7669169 CACCAAATGC
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 168 1.00
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (166 bp):
AGACACTTCTAGCAGATGGCCCTTCATCAAGCCTCACAGGTCCAGGACCCTTATCCCAAGCTCTC
TTGCCACCAACCTGATCACTCTCATGTTCTGATTTGGGTGATCTATCATCCAGGCTGCCGCTAGC
AGGATCTCTTCTTGATGCAATTTGTCCGTTACTGGA
Found at i:7675291 original size:23 final size:23
Alignment explanation
Indices: 7675257--7675325 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
7675247 CACCACAGCT
* *
7675257 CGTATAAATGCACCGAAGTGCTA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
7675280 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
7675303 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
7675326 TATAATATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:7676303 original size:20 final size:20
Alignment explanation
Indices: 7676278--7676317 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7676268 GAAGTATTGA
7676278 TGCATCGATGCACCCCTTAC
1 TGCATCGATGCACCCCTTAC
7676298 TGCATCGATGCACCCCTTAC
1 TGCATCGATGCACCCCTTAC
7676318 ATATTGAATG
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:0.20, C:0.40, G:0.15, T:0.25
Consensus pattern (20 bp):
TGCATCGATGCACCCCTTAC
Found at i:7677502 original size:16 final size:16
Alignment explanation
Indices: 7677481--7677518 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
7677471 ATTCAAAATC
*
7677481 CAAATCTTCTTTTACA
1 CAAATCTCCTTTTACA
7677497 CAAATCTCCTTTTACA
1 CAAATCTCCTTTTACA
7677513 CAAATC
1 CAAATC
7677519 ATATATTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (16 bp):
CAAATCTCCTTTTACA
Found at i:7680277 original size:2 final size:2
Alignment explanation
Indices: 7680270--7680297 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7680260 AATCATATGA
7680270 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7680298 CTTGTCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7689560 original size:41 final size:41
Alignment explanation
Indices: 7689488--7689586 Score: 103
Period size: 41 Copynumber: 2.4 Consensus size: 41
7689478 AAATAACCAA
* * * * * *
7689488 CAAATTCGTAACGAGA-ACTCCAATTTCGCAACATAA-TTT
1 CAAATTCGCAACGCGATTCTCCAAATTAGCAACACAATTTT
* *
7689527 CTAAATTCGCAACGCGATTCTCCAAATTAGCAACGCGATTTT
1 C-AAATTCGCAACGCGATTCTCCAAATTAGCAACACAATTTT
7689569 CAAATTCGCAACGCGATT
1 CAAATTCGCAACGCGATT
7689587 TTTGTTTTCG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.02
40 13 0.27
41 31 0.63
42 4 0.08
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.27
Consensus pattern (41 bp):
CAAATTCGCAACGCGATTCTCCAAATTAGCAACACAATTTT
Found at i:7689574 original size:20 final size:20
Alignment explanation
Indices: 7689524--7689588 Score: 94
Period size: 20 Copynumber: 3.1 Consensus size: 20
7689514 CGCAACATAA
7689524 TTTCTAAATTCGCAACGCGAT
1 TTTC-AAATTCGCAACGCGAT
* *
7689545 TCTCCAAATTAGCAACGCGAT
1 T-TTCAAATTCGCAACGCGAT
7689566 TTTCAAATTCGCAACGCGAT
1 TTTCAAATTCGCAACGCGAT
7689586 TTT
1 TTT
7689589 TGTTTTCGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
20 20 0.51
21 17 0.44
22 2 0.05
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (20 bp):
TTTCAAATTCGCAACGCGAT
Found at i:7689658 original size:58 final size:58
Alignment explanation
Indices: 7689593--7689716 Score: 203
Period size: 58 Copynumber: 2.1 Consensus size: 58
7689583 GATTTTTGTT
* * *
7689593 TTCGCAACGTTAATTATCGATATAGGTAAACACAACTATTCGCCACTCAGTTTTCAAA
1 TTCGCAACGCTAATTACCGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAA
* *
7689651 TTTGCAACGCTAATTACCGATATAGGTAAACACATCTATTCGCAACTCAGTTTTCAAA
1 TTCGCAACGCTAATTACCGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAA
7689709 TTCGCAAC
1 TTCGCAAC
7689717 ACGAATTAGC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (58 bp):
TTCGCAACGCTAATTACCGATATAGGTAAACACAACTATTCGCAACTCAGTTTTCAAA
Found at i:7690086 original size:19 final size:20
Alignment explanation
Indices: 7690042--7690096 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
7690032 GTTACGAAAT
*
7690042 TCGCGTTGCGAAA-TTGAAGT
1 TCGCGTTGC-AAATTTGAAGA
*
7690062 TTGCGTTGCAAATTTG-AGA
1 TCGCGTTGCAAATTTGAAGA
*
7690081 TCGCGTTGCGAATTTG
1 TCGCGTTGCAAATTTG
7690097 TTGGTGCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 19 0.63
20 11 0.37
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.35
Consensus pattern (20 bp):
TCGCGTTGCAAATTTGAAGA
Found at i:7691287 original size:3 final size:3
Alignment explanation
Indices: 7691281--7691354 Score: 139
Period size: 3 Copynumber: 24.7 Consensus size: 3
7691271 TTTTTATCCA
7691281 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7691329 TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
7691355 AATATATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:7691366 original size:11 final size:11
Alignment explanation
Indices: 7691350--7691381 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
7691340 TTATTATTAT
7691350 TATTAAATATA
1 TATTAAATATA
7691361 TATTAAATATA
1 TATTAAATATA
7691372 TATATAAATA
1 TAT-TAAATA
7691382 ATTAATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATTAAATATA
Found at i:7700650 original size:9 final size:10
Alignment explanation
Indices: 7700631--7700664 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
7700621 GCAATCATTC
7700631 TTTACATTTT
1 TTTACATTTT
7700641 TTTACATTTT
1 TTTACATTTT
*
7700651 TTTACATTTA
1 TTTACATTTT
7700661 TTTA
1 TTTA
7700665 TTTCATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTACATTTT
Found at i:7704196 original size:9 final size:9
Alignment explanation
Indices: 7704179--7704220 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
7704169 ATTATGCTTG
7704179 AAGAAAAAA
1 AAGAAAAAA
*
7704188 AAGAGAAAA
1 AAGAAAAAA
7704197 AAG-AAAAA
1 AAGAAAAAA
*
7704205 AA-AAAGAA
1 AAGAAAAAA
7704213 AAGAAAAA
1 AAGAAAAA
7704221 GGGGGGTCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 12 0.44
9 15 0.56
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:7704202 original size:18 final size:18
Alignment explanation
Indices: 7704179--7704214 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7704169 ATTATGCTTG
*
7704179 AAGAAAAAAAAGAGAAAA
1 AAGAAAAAAAAAAGAAAA
7704197 AAGAAAAAAAAAAGAAAA
1 AAGAAAAAAAAAAGAAAA
7704215 GAAAAAGGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (18 bp):
AAGAAAAAAAAAAGAAAA
Found at i:7704205 original size:16 final size:16
Alignment explanation
Indices: 7704179--7704220 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
7704169 ATTATGCTTG
*
7704179 AAGAAAAAAAAGAGAAAA
1 AAGAAAAAAAA-A-AGAA
7704197 AAGAAAAAAAAAAGAA
1 AAGAAAAAAAAAAGAA
7704213 AAGAAAAA
1 AAGAAAAA
7704221 GGGGGGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.48
17 1 0.04
18 11 0.48
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAAAAAAAAAAGAA
Found at i:7705531 original size:165 final size:165
Alignment explanation
Indices: 7705337--7705889 Score: 1011
Period size: 165 Copynumber: 3.4 Consensus size: 165
7705327 CATTAATTGA
*
7705337 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
7705402 ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
66 ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
7705467 TGATCTGGTTTAG-CAGAACCAATCATTGAATTTAG
131 TGATCTGGTTTGGACAGAA-CAATCATTGAATTTAG
* *
7705502 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
7705567 ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
66 ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
7705632 TGATCTGG-TTGGACAGAACAATCATTGAATTTAG
131 TGATCTGGTTTGGACAGAACAATCATTGAATTTAG
*
7705666 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
7705731 AACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
65 AACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
7705796 CTGATCTGGTTTGGACAGAACAATCATTGAATTTGG
130 CTGATCTGGTTTGGACAGAACAATCATTGAATTTAG
*
7705832 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
7705890 TGGTAAGAAC
Statistics
Matches: 377, Mismatches: 8, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
164 72 0.19
165 224 0.59
166 81 0.21
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (165 bp):
AAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTTGGACAGAACAATCATTGAATTTAG
Found at i:7705773 original size:247 final size:248
Alignment explanation
Indices: 7705337--7705889 Score: 1020
Period size: 247 Copynumber: 2.2 Consensus size: 248
7705327 CATTAATTGA
**
7705337 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
7705402 ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
66 ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
7705467 TGATCTGGTTTAGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCTCATAGCATCTTCTGGA
131 TGATCTGGTTTAGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCTAATAGCATCTTCTGGA
7705532 AGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACAATCATTGAATTTAG
196 AGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAACAATCATTGAATTTAG
7705584 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
7705649 ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
66 ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
* * *
7705714 TGATCTGGTTTGGACAGAA-CAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGG
131 TGATCTGGTTTAG-CAGAACCAATCATTGAATTTAGAAGATGAATGTGCTAATAGCATCTTCTGG
*
7705778 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAACAATCATTGAATTTGG
195 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAACAATCATTGAATTTAG
7705832 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
7705890 TGGTAAGAAC
Statistics
Matches: 297, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
247 209 0.70
248 88 0.30
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (248 bp):
AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGA
ACAATCATTGAATTTAGAAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
TGATCTGGTTTAGCAGAACCAATCATTGAATTTAGAAGATGAATGTGCTAATAGCATCTTCTGGA
AGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAGAACAATCATTGAATTTAG
Found at i:7705899 original size:83 final size:83
Alignment explanation
Indices: 7705337--7705892 Score: 1012
Period size: 83 Copynumber: 6.7 Consensus size: 83
7705327 CATTAATTGA
**
7705337 AAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
7705401 AACAATCATTGAATTTAG
66 AACAATCATTGAATTTAG
*
7705419 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTAG-CAG
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
7705483 AACCAATCATTGAATTTAG
66 AA-CAATCATTGAATTTAG
* * *
7705502 AAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
7705566 AACAATCATTGAATTTAG
66 AACAATCATTGAATTTAG
7705584 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAG
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
7705648 AACAATCATTGAATTTAG
66 AACAATCATTGAATTTAG
7705666 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
7705731 AACAATCATTGAATTTAG
66 AACAATCATTGAATTTAG
7705749 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
*
7705814 AACAATCATTGAATTTGG
66 AACAATCATTGAATTTAG
7705832 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
1 AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG
7705893 TAAGAACTAC
Statistics
Matches: 459, Mismatches: 11, Indels: 7
0.96 0.02 0.01
Matches are distributed among these distances:
82 213 0.46
83 246 0.54
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (83 bp):
AAGATGAATTTGTTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGACAG
AACAATCATTGAATTTAG
Found at i:7706701 original size:113 final size:113
Alignment explanation
Indices: 7706482--7707027 Score: 896
Period size: 113 Copynumber: 4.8 Consensus size: 113
7706472 TCGAATCCAC
* *
7706482 TTGATGGATTAGT-TTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 TTGATGGATCA-TCTTTT-CCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
*
7706546 GAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
64 GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
7706596 TTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
*
7706661 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAATCCATCAT
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
*
7706709 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * *
7706774 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATTAC
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
* *
7706822 TTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * * *
7706887 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGCCTGAATTCATCAAA
66 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATC-AT
*
7706936 TTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* * *
7707001 AGTTCATGATAAGAAGAACTTGTTCAA
66 AGTTCATAATGAGAAGAATTTGTTCAA
7707028 TAATTCTATC
Statistics
Matches: 407, Mismatches: 23, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
113 307 0.75
114 100 0.25
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (113 bp):
TTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCATCAT
Found at i:7707350 original size:3 final size:3
Alignment explanation
Indices: 7707342--7707414 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
7707332 TTTTTATCCA
7707342 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7707389 TAT TAT TAT TAT TA- TAT ATAT TAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TAT TA
7707415 AATAATTAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
2 4 0.06
3 60 0.90
4 3 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7713078 original size:74 final size:74
Alignment explanation
Indices: 7712957--7713107 Score: 293
Period size: 74 Copynumber: 2.0 Consensus size: 74
7712947 AGAGAAGGTA
*
7712957 GGGTCCGGGAAGCGGAATTCCAGATCCAAATCCAGGGATAAGAAGACGATTCACTGTTACAAGTG
1 GGGTCCGGGAAGCAGAATTCCAGATCCAAATCCAGGGATAAGAAGACGATTCACTGTTACAAGTG
7713022 CAAGGAGGC
66 CAAGGAGGC
7713031 GGGTCCGGGAAGCAGAATTCCAGATCCAAATCCAGGGATAAGAAGACGATTCACTGTTACAAGTG
1 GGGTCCGGGAAGCAGAATTCCAGATCCAAATCCAGGGATAAGAAGACGATTCACTGTTACAAGTG
7713096 CAAGGAGGC
66 CAAGGAGGC
7713105 GGG
1 GGG
7713108 ACATATGAAG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.32, C:0.20, G:0.32, T:0.16
Consensus pattern (74 bp):
GGGTCCGGGAAGCAGAATTCCAGATCCAAATCCAGGGATAAGAAGACGATTCACTGTTACAAGTG
CAAGGAGGC
Found at i:7717283 original size:58 final size:58
Alignment explanation
Indices: 7717185--7717335 Score: 225
Period size: 58 Copynumber: 2.6 Consensus size: 58
7717175 AAAAGCAACT
* * * *
7717185 CAATGCTTATCTTGTA-CTATGCA-GAATCCTATATGTGAATAGTGAATCATTATTTTGC
1 CAATGCTTATTTTGTATC-ATGCATG-ATCCTACATGCGAATAATGAATCATTATTTTGC
7717243 CAATGCTTATTTTGTATCATGCATGATCCTACATGCGAATAATGAATCATTATTTTGC
1 CAATGCTTATTTTGTATCATGCATGATCCTACATGCGAATAATGAATCATTATTTTGC
*
7717301 CAATGCTTATTTTGTATAATGCATGATCCTACATG
1 CAATGCTTATTTTGTATCATGCATGATCCTACATG
7717336 TCAAGACGAA
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
58 84 0.98
59 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (58 bp):
CAATGCTTATTTTGTATCATGCATGATCCTACATGCGAATAATGAATCATTATTTTGC
Found at i:7719723 original size:2 final size:2
Alignment explanation
Indices: 7719716--7719745 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7719706 CCCTTTCTGA
7719716 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7719746 GGCATGTACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7724203 original size:9 final size:9
Alignment explanation
Indices: 7724189--7724227 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
7724179 CCAGAGGTAA
7724189 TTTCTTATT
1 TTTCTTATT
*
7724198 TTTCTTTTT
1 TTTCTTATT
*
7724207 TTTCATATT
1 TTTCTTATT
*
7724216 TTTTTTATT
1 TTTCTTATT
7724225 TTT
1 TTT
7724228 TCACATTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTCTTATT
Found at i:7724215 original size:18 final size:19
Alignment explanation
Indices: 7724189--7724230 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
7724179 CCAGAGGTAA
*
7724189 TTTCTTATTTTTCTT-TTT
1 TTTCATATTTTTCTTATTT
*
7724207 TTTCATATTTTTTTTATTT
1 TTTCATATTTTTCTTATTT
7724226 TTTCA
1 TTTCA
7724231 CATTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTCATATTTTTCTTATTT
Found at i:7755652 original size:12 final size:12
Alignment explanation
Indices: 7755637--7755661 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7755627 CGTGGCTTCC
7755637 GACGAGGATCGT
1 GACGAGGATCGT
7755649 GACGAGGATCGT
1 GACGAGGATCGT
7755661 G
1 G
7755662 TCGTGCATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.44, T:0.16
Consensus pattern (12 bp):
GACGAGGATCGT
Found at i:7755753 original size:29 final size:29
Alignment explanation
Indices: 7755691--7755767 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
7755681 AACCCAACCA
*
7755691 TAGGTCGCCAAGCACTCCAAGCGACCTAC
1 TAGGTCGCCAAGCACTCCCAGCGACCTAC
* * **
7755720 AAGGTCGCCATGCACTCCCAGCGACCTTG
1 TAGGTCGCCAAGCACTCCCAGCGACCTAC
*
7755749 TAGGTCGCCAAGCAATCCC
1 TAGGTCGCCAAGCACTCCC
7755768 GACGACCAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.38, G:0.22, T:0.16
Consensus pattern (29 bp):
TAGGTCGCCAAGCACTCCCAGCGACCTAC
Found at i:7756356 original size:28 final size:28
Alignment explanation
Indices: 7756325--7756462 Score: 85
Period size: 28 Copynumber: 5.1 Consensus size: 28
7756315 ATGGTGACCT
7756325 TTGGCGAGCTGGGCGTGCATGGAGGTCG
1 TTGGCGAGCTGGGCGTGCATGGAGGTCG
* * * ** *
7756353 TT-G-G-GC-GTGCATTGCATGGTGACCT
1 TTGGCGAGCTGGGC-GTGCATGGAGGTCG
7756378 TTGGCGAGCTGGGCGTGCATGGAGGTCG
1 TTGGCGAGCTGGGCGTGCATGGAGGTCG
* * * ** *
7756406 TT-G-G-GC-GTGCATTGCATGGTGACCT
1 TTGGCGAGCTGGGC-GTGCATGGAGGTCG
*
7756431 TTGGCGAGCTGGGCGCGCATGGAGGTCG
1 TTGGCGAGCTGGGCGTGCATGGAGGTCG
7756459 TTGG
1 TTGG
7756463 GCGTGCATGG
Statistics
Matches: 75, Mismatches: 25, Indels: 20
0.62 0.21 0.17
Matches are distributed among these distances:
24 6 0.08
25 26 0.35
26 4 0.05
27 4 0.05
28 29 0.39
29 6 0.08
ACGTcount: A:0.11, C:0.19, G:0.45, T:0.25
Consensus pattern (28 bp):
TTGGCGAGCTGGGCGTGCATGGAGGTCG
Found at i:7756381 original size:25 final size:25
Alignment explanation
Indices: 7756353--7756434 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
7756343 ATGGAGGTCG
7756353 TTGGGCGTGCATTGCATGGTGACCT
1 TTGGGCGTGCATTGCATGGTGACCT
* * * ** *
7756378 TTGGCGAGCTGGGC-GTGCATGGAGGTCG
1 TT-G-G-GC-GTGCATTGCATGGTGACCT
7756406 TTGGGCGTGCATTGCATGGTGACCT
1 TTGGGCGTGCATTGCATGGTGACCT
7756431 TTGG
1 TTGG
7756435 CGAGCTGGGC
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 3 0.08
25 17 0.43
26 2 0.05
27 2 0.05
28 13 0.32
29 3 0.08
ACGTcount: A:0.11, C:0.18, G:0.41, T:0.29
Consensus pattern (25 bp):
TTGGGCGTGCATTGCATGGTGACCT
Found at i:7756387 original size:53 final size:53
Alignment explanation
Indices: 7756312--7756470 Score: 309
Period size: 53 Copynumber: 3.0 Consensus size: 53
7756302 AAGCATGGAC
7756312 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
7756365 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
*
7756418 TGCATGGTGACCTTTGGCGAGCTGGGCGCGCATGGAGGTCGTTGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
7756471 GGCGACCTGG
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
53 105 1.00
ACGTcount: A:0.11, C:0.19, G:0.43, T:0.26
Consensus pattern (53 bp):
TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGCGTGCAT
Found at i:7765120 original size:41 final size:41
Alignment explanation
Indices: 7765063--7765144 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
7765053 TCTCAACGAC
7765063 TCATCAACAAAATAAAGCTTTGTTCATGTTCACAAAAAAAA
1 TCATCAACAAAATAAAGCTTTGTTCATGTTCACAAAAAAAA
7765104 TCATCAACAAAATAAAGCTTTGTTCATGTTCACAAAAAAAA
1 TCATCAACAAAATAAAGCTTTGTTCATGTTCACAAAAAAAA
7765145 AACCCTTCTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.27
Consensus pattern (41 bp):
TCATCAACAAAATAAAGCTTTGTTCATGTTCACAAAAAAAA
Found at i:7767221 original size:31 final size:31
Alignment explanation
Indices: 7767200--7767268 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
7767190 ATTATCAACT
*
7767200 TTGACTTGTACTAAAAATAAAAAATTGAAGC
1 TTGACTTGTACTAAAAATAAAAAATTCAAGC
*
7767231 TTGACTTGTACTCAAAATAAAAAATT-ATAGC
1 TTGACTTGTACTAAAAATAAAAAATTCA-AGC
7767262 TTGACTT
1 TTGACTT
7767269 AAACTCAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (31 bp):
TTGACTTGTACTAAAAATAAAAAATTCAAGC
Found at i:7767275 original size:31 final size:31
Alignment explanation
Indices: 7767213--7767278 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
7767203 ACTTGTACTA
**
7767213 AAAATAAAAAATTGAAGCTTGACTTGTACTC
1 AAAATAAAAAATTGAAGCTTGACTTAAACTC
7767244 AAAATAAAAAATT-ATAGCTTGACTTAAACTC
1 AAAATAAAAAATTGA-AGCTTGACTTAAACTC
7767275 AAAA
1 AAAA
7767279 AAATTTGAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.52, C:0.12, G:0.09, T:0.27
Consensus pattern (31 bp):
AAAATAAAAAATTGAAGCTTGACTTAAACTC
Found at i:7771034 original size:62 final size:62
Alignment explanation
Indices: 7770959--7771092 Score: 223
Period size: 62 Copynumber: 2.2 Consensus size: 62
7770949 CTTAAAAAGT
* * *
7770959 AATTAAACTAAAAAAATTAAAAATTAAAAGTTCATTTTAAAAATGAGAGGGTTCTAAAGTAC
1 AATTAAACCAAAAAAAATAAAAATCAAAAGTTCATTTTAAAAATGAGAGGGTTCTAAAGTAC
* *
7771021 AATTAAACCAAAAAAAATAAAAATCAAAAGTTCATTTTAAAACTGAGAGGGTTCTAAAGTAT
1 AATTAAACCAAAAAAAATAAAAATCAAAAGTTCATTTTAAAAATGAGAGGGTTCTAAAGTAC
7771083 AATTAAACCA
1 AATTAAACCA
7771093 TGTATTTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.54, C:0.09, G:0.10, T:0.27
Consensus pattern (62 bp):
AATTAAACCAAAAAAAATAAAAATCAAAAGTTCATTTTAAAAATGAGAGGGTTCTAAAGTAC
Found at i:7771359 original size:20 final size:21
Alignment explanation
Indices: 7771334--7771385 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
7771324 TTTTCCCAAT
*
7771334 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
7771354 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
7771375 TCGCAATGCGA
1 TCGCAATGCGA
7771386 TACTTACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:7771399 original size:20 final size:20
Alignment explanation
Indices: 7771374--7771427 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
7771364 AATTGGGAAA
7771374 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTTACT
7771394 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTTACT
7771414 ATCGCAATGCGATA
1 ATCGCAATGCGATA
7771428 ATACAAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (20 bp):
ATCGCAATGCGATACTTACT
Found at i:7771418 original size:61 final size:61
Alignment explanation
Indices: 7771371--7771487 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
7771361 GCGAATTGGG
* * * * * *
7771371 AAAATCGCAATGCGATACTTACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
7771432 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
7771488 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:7771484 original size:20 final size:20
Alignment explanation
Indices: 7771436--7771488 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
7771426 TAATACAAAA
* *
7771436 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
7771456 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
7771476 TCGCAACGCGATT
1 TCGCAACGCGATT
7771489 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:7772042 original size:19 final size:19
Alignment explanation
Indices: 7772004--7772059 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
7771994 TTCGAGAATG
7772004 AAAATCGCAACGCGGAAATA
1 AAAATCGCAACGC-GAAATA
**
7772024 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
7772043 AAAATCGCAACGCGAAA
1 AAAATCGCAACGCGAAA
7772060 CCAAAATCGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 21 0.66
20 11 0.34
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:7772093 original size:19 final size:19
Alignment explanation
Indices: 7772071--7772250 Score: 173
Period size: 19 Copynumber: 9.8 Consensus size: 19
7772061 CAAAATCGTA
7772071 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
7772090 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
7772109 TTGCGATTTTTATTTCGCGG
1 TTGCGATTTTCATTTCGC-G
7772129 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
7772148 TTGCGATTGTC---T-G-G
1 TTGCGATTTTCATTTCGCG
* **
7772162 TCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
7772181 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
**
7772195 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
* *
7772215 TTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATT-TCGCG
7772235 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
7772251 AACCAAAAGA
Statistics
Matches: 134, Mismatches: 14, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 56 0.42
20 49 0.37
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:7772143 original size:39 final size:38
Alignment explanation
Indices: 7772071--7772250 Score: 173
Period size: 33 Copynumber: 4.9 Consensus size: 38
7772061 CAAAATCGTA
7772071 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
*
7772109 TTGCGATTTTTATTTCGCGGTTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGC-GTTGCGATTTTCATTTCGCG
* * **
7772148 TTGCGATTGTC---T-G-GTCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
* **
7772181 TTGCGA--TTC---TCTCGTTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTT-CGCG
* *
7772215 TTGCGATTCTCATTATCTCGTTGCGATTTTCATTTC
1 TTGCGATTTTCATT-TCGCGTTGCGATTTTCATTTC
7772251 AACCAAAAGA
Statistics
Matches: 120, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
31 3 0.03
33 38 0.32
34 10 0.08
35 1 0.01
36 3 0.03
38 17 0.14
39 30 0.25
40 18 0.15
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
Found at i:7772227 original size:20 final size:20
Alignment explanation
Indices: 7772193--7772250 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
7772183 GCGATTCTCT
**
7772193 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
7772213 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
7772233 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
7772251 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:7774097 original size:23 final size:22
Alignment explanation
Indices: 7774071--7774113 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7774061 TCACTGTTTA
7774071 AATATCATGTATGTTTATTTACT
1 AATAT-ATGTATGTTTATTTACT
* *
7774094 AATATTTGTATTTTTATTTA
1 AATATATGTATGTTTATTTA
7774114 GCGGACCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (22 bp):
AATATATGTATGTTTATTTACT
Found at i:7774310 original size:42 final size:42
Alignment explanation
Indices: 7774250--7774372 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 42
7774240 GCCCGACTCG
* * *
7774250 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * * *
7774292 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGTC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
7774334 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
7774373 CCCGATTCAC
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
42 61 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:7774371 original size:21 final size:21
Alignment explanation
Indices: 7774312--7774372 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
7774302 CTCGAGAGTC
7774312 CCCTCCCACCGTTCAAGAGGT
1 CCCTCCCACCGTTCAAGAGGT
* ** * *
7774333 CACTGTCATCGTTGAAGAGGT
1 CCCTCCCACCGTTCAAGAGGT
*
7774354 CCCTCCCACCATTCAAGAG
1 CCCTCCCACCGTTCAAGAG
7774373 CCCGATTCAC
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (21 bp):
CCCTCCCACCGTTCAAGAGGT
Found at i:7775750 original size:14 final size:14
Alignment explanation
Indices: 7775731--7775766 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
7775721 ATTGTTTACT
7775731 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
7775745 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
7775759 TGATTTGT
1 TGATTTGT
7775767 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:7775991 original size:33 final size:31
Alignment explanation
Indices: 7775948--7776108 Score: 205
Period size: 33 Copynumber: 4.9 Consensus size: 31
7775938 AATTAAATTC
* *
7775948 GCGTTGCGATTTTTATTTCGCATTGCGATTCCC
1 GCGTTGCGATTTTCATTTCGCATTGCGATT--A
*
7775981 TCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 GCGTTGCGATTTTCATTTCGCATTGCG--ATTA
7776014 GCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 GCGTTGCGATTTTCATTTCGCATTGCG--ATTA
*
7776047 GCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 GCGTTGCGATTTTCATTTCGCATTGCGA-T-TA
*
7776080 TCGTTGCGATTTTCATTTCGCATTGCGAT
1 GCGTTGCGATTTTCATTTCGCATTGCGAT
7776109 AGTAATTTCC
Statistics
Matches: 118, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
31 1 0.01
32 2 0.02
33 112 0.95
35 3 0.03
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.42
Consensus pattern (31 bp):
GCGTTGCGATTTTCATTTCGCATTGCGATTA
Found at i:7776038 original size:66 final size:64
Alignment explanation
Indices: 7775942--7776108 Score: 228
Period size: 66 Copynumber: 2.5 Consensus size: 64
7775932 ACGCGAAATT
* **
7775942 AAATTCGCGTTGCGATTTTTATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATT--AGCGTTGCGATTTTCATTTCGCATTGC
7776007 G
64 G
*
7776008 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGAAATTAGCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG--ATTAGCGTTGCGATTTTCATTTCGCATTGC
7776073 G
64 G
* *
7776074 -ATTCTCTCGTTGCGATTTTCATTTCGCATTGCGAT
1 AAAT-TCGCGTTGCGATTTTCATTTCGCATTGCGAT
7776109 AGTAATTTCC
Statistics
Matches: 91, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
64 2 0.02
65 2 0.02
66 84 0.92
68 3 0.03
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (64 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTAGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:7778207 original size:12 final size:12
Alignment explanation
Indices: 7778190--7778214 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7778180 TCTTCGGGGA
7778190 CTTTTTCTTCTT
1 CTTTTTCTTCTT
7778202 CTTTTTCTTCTT
1 CTTTTTCTTCTT
7778214 C
1 C
7778215 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:7778423 original size:24 final size:24
Alignment explanation
Indices: 7778389--7778442 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7778379 CTGAAACATC
* *
7778389 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
7778413 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
7778437 ATCAAA
1 ATCAAA
7778443 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:7779529 original size:20 final size:20
Alignment explanation
Indices: 7779504--7779561 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
7779494 ATTCATTTGA
7779504 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
7779524 CTATCGCAACGCAAAAATGG
1 CTATCGCAACGCGAAAATGG
* *
7779544 TTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
7779562 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.22, G:0.21, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Done.