Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 54 of 170
Found at i:15857694 original size:14 final size:14
Alignment explanation
Indices: 15857675--15857708 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
15857665 TGGATTTATG
*
15857675 TTATTTCTGCCAAA
1 TTATTTCTACCAAA
15857689 TTATTTCTACCAAA
1 TTATTTCTACCAAA
15857703 TT-TTTC
1 TTATTTC
15857709 AGGATCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.26, C:0.21, G:0.03, T:0.50
Consensus pattern (14 bp):
TTATTTCTACCAAA
Found at i:15858669 original size:8 final size:8
Alignment explanation
Indices: 15858638--15858670 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
15858628 AGAAAAAATT
15858638 TTATTTT-
1 TTATTTTG
15858645 TTATTTTG
1 TTATTTTG
*
15858653 ATATTTTG
1 TTATTTTG
15858661 TTATTTTG
1 TTATTTTG
15858669 TT
1 TT
15858671 TGGTTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (8 bp):
TTATTTTG
Found at i:15860088 original size:20 final size:20
Alignment explanation
Indices: 15860063--15860101 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15860053 AACATTCAAA
15860063 ATACCATAATCACAA-CCAAG
1 ATACCATAA-CACAAGCCAAG
15860083 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
15860102 ACCATGTGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.05, T:0.13
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAG
Found at i:15860550 original size:20 final size:20
Alignment explanation
Indices: 15860508--15860551 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
15860498 CCCTTTCCAA
* ** *
15860508 ATTTTCTTACTTTCTTTTGC
1 ATTTTATTACTTTCCATTAC
15860528 ATTTTATTACTTTCCATTAC
1 ATTTTATTACTTTCCATTAC
15860548 ATTT
1 ATTT
15860552 ACTTTCTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.18, C:0.18, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTATTACTTTCCATTAC
Found at i:15861238 original size:25 final size:24
Alignment explanation
Indices: 15861210--15861287 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
15861200 GAATCAGTAT
15861210 GCTCTCACGAGCTGTAAATTGGTAA
1 GCTCTCACGAGCTG-AAATTGGTAA
*
15861235 GCTCAT-ACAAGCTGAGAATTGGTAA
1 GCTC-TCACGAGCTGA-AATTGGTAA
* *
15861260 GCTCTCACGAGCTAAAATCGGTAA
1 GCTCTCACGAGCTGAAATTGGTAA
15861284 GCTC
1 GCTC
15861288 ATACAAGCTG
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
24 14 0.30
25 31 0.67
26 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (24 bp):
GCTCTCACGAGCTGAAATTGGTAA
Found at i:15861296 original size:24 final size:25
Alignment explanation
Indices: 15861219--15861298 Score: 101
Period size: 25 Copynumber: 3.2 Consensus size: 25
15861209 TGCTCTCACG
*
15861219 AGCTGTAAATTGGTAAGCTCATACA
1 AGCTGAAAATTGGTAAGCTCATACA
* *
15861244 AGCTGAGAATTGGTAAGCTC-TCACG
1 AGCTGAAAATTGGTAAGCTCAT-ACA
*
15861269 AGCT-AAAATCGGTAAGCTCATACA
1 AGCTGAAAATTGGTAAGCTCATACA
15861293 AGCTGA
1 AGCTGA
15861299 TTGATAATCC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
24 20 0.43
25 26 0.57
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (25 bp):
AGCTGAAAATTGGTAAGCTCATACA
Found at i:15861637 original size:17 final size:18
Alignment explanation
Indices: 15861597--15861638 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
15861587 GATCTAAATT
* *
15861597 AATAATTTCATACAATAT
1 AATAATTTCAGACAATAA
*
15861615 ATTAATTT-AGACAATAA
1 AATAATTTCAGACAATAA
15861632 AATAATT
1 AATAATT
15861639 CATTTCATGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.38
Consensus pattern (18 bp):
AATAATTTCAGACAATAA
Found at i:15867361 original size:51 final size:51
Alignment explanation
Indices: 15867275--15867564 Score: 257
Period size: 51 Copynumber: 5.7 Consensus size: 51
15867265 TATCGATGAA
* *
15867275 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATTGT
* * * * * * **
15867326 CACATGTGTAGTACTAAGTGAAGGATACAATGTGTACCGAGACGCT--TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATA-AATAATT-GT
* * * * ** * *
15867377 CACGTGTGTAGTACTGTGTAAAGGCTACTACATGAATTGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATTGT
* * * * ***
15867428 CACATGTGTAGTATTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATT-GT
* *
15867479 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATTG-T
*
15867529 CACGTGTGTAGTACTATGTGAAGGCTAATACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
15867565 TCGAATGATA
Statistics
Matches: 184, Mismatches: 48, Indels: 15
0.74 0.19 0.06
Matches are distributed among these distances:
49 1 0.01
50 44 0.24
51 137 0.74
52 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATAATTGT
Found at i:15867451 original size:102 final size:102
Alignment explanation
Indices: 15867275--15867552 Score: 380
Period size: 102 Copynumber: 2.7 Consensus size: 102
15867265 TATCGATGAA
* *
15867275 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATTGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
15867340 TAAGTGAAGGATACAATGTGTACCGAGACGCTTTGGT
66 TAAGTGAAGGATACAATGTGTACCGAAAAGCTTTGGT
* * * * *
15867377 CACGTGTGTAGTACTGTGTAAAGGCTACTACATGAATTGATAAATGATGGTCACATGTGTAGTAT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
* *
15867442 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGATACAATGTGTACCGAAAAGCTTTGGT
* * * * *
15867479 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
*
15867542 CTATGTGAAGG
65 CTAAGTGAAGG
15867553 CTAATACGTG
Statistics
Matches: 153, Mismatches: 22, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
101 28 0.18
102 125 0.82
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGATACAATGTGTACCGAAAAGCTTTGGT
Found at i:15875078 original size:51 final size:50
Alignment explanation
Indices: 15874996--15875281 Score: 308
Period size: 51 Copynumber: 5.6 Consensus size: 50
15874986 GATGAATACG
* **
15874996 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATGGTCACA
* * * * * * *
15875047 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATATGGTCACA
* * * *
15875098 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAGATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-ATGGTCACA
* * *
15875149 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCTTTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TATGGTCACA
* * *
15875200 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA--TGGTCACA
15875250 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTA
15875282 TCGAATGATA
Statistics
Matches: 193, Mismatches: 35, Indels: 15
0.79 0.14 0.06
Matches are distributed among these distances:
50 40 0.21
51 151 0.78
52 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATATGGTCACA
Found at i:15875169 original size:102 final size:102
Alignment explanation
Indices: 15874993--15875273 Score: 422
Period size: 102 Copynumber: 2.8 Consensus size: 102
15874983 ATCGATGAAT
* *
15874993 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
*
15875058 AAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTC
66 AAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGTC
* *
15875095 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAGATGATGGTCACATGTGTAGTACT
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
*
15875160 AAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGTC
66 AAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGTC
* * * * * *
15875197 ACATGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTAC
1 ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTAC
*
15875260 TATGTGAAGGCTAC
65 TAAGTGAAGGCTAC
15875274 TACGTGTATC
Statistics
Matches: 163, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
101 32 0.20
102 131 0.80
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
ACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTACT
AAGTGAAGGCTACAATGTGTACCGAAAAGCTTTGGTC
Found at i:15877391 original size:17 final size:17
Alignment explanation
Indices: 15877311--15877392 Score: 56
Period size: 17 Copynumber: 4.4 Consensus size: 17
15877301 AAGATAATAT
* * *
15877311 TATTTTATTAAATTGAA
1 TATTTAATTTAATTTAA
*
15877328 TATTAAATTTAATTTAA
1 TATTTAATTTAATTTAA
15877345 TATCTATATAGATATTAATATTAGA
1 TA--T-T-TA-AT-TTAAT-TTA-A
15877370 TATTTAATTTAATTTAA
1 TATTTAATTTAATTTAA
15877387 TATTTA
1 TATTTA
15877393 TCTAGATAGT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
17 22 0.42
18 3 0.06
19 6 0.12
20 3 0.06
21 3 0.06
22 3 0.06
23 6 0.12
24 3 0.06
25 3 0.06
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (17 bp):
TATTTAATTTAATTTAA
Found at i:15877414 original size:31 final size:31
Alignment explanation
Indices: 15877378--15877471 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
15877368 GATATTTAAT
15877378 TTAATTTAATATTTATCTAGATAGTATTTTA
1 TTAATTTAATATTTATCTAGATAGTATTTTA
* **
15877409 TTAATTTAATA-TTAAC-ATGAT-GTATTAAA
1 TTAATTTAATATTTATCTA-GATAGTATTTTA
* * *
15877438 TTTATTTTGATATTTATCTAGATAATATTTTA
1 -TTAATTTAATATTTATCTAGATAGTATTTTA
15877470 TT
1 TT
15877472 TAGTATTAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
29 7 0.14
30 16 0.33
31 20 0.41
32 6 0.12
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.54
Consensus pattern (31 bp):
TTAATTTAATATTTATCTAGATAGTATTTTA
Found at i:15878455 original size:15 final size:14
Alignment explanation
Indices: 15878392--15878457 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
15878382 AATATATATT
*
15878392 ATATATATATAATA
1 ATATATATAAAATA
* *
15878406 AAATAAAATAAAATA
1 ATAT-ATATAAAATA
*
15878421 A-A-ATATAAAAGA
1 ATATATATAAAATA
15878433 ATAGTATATAAAATA
1 ATA-TATATAAAATA
15878448 TATATATATA
1 -ATATATATA
15878458 CAAACGTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
12 9 0.22
13 1 0.02
14 4 0.10
15 24 0.59
16 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (14 bp):
ATATATATAAAATA
Found at i:15878490 original size:24 final size:24
Alignment explanation
Indices: 15878439--15878509 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
15878429 AAGAATAGTA
* * *
15878439 TATAAAATATATATATATACAAACG
1 TATAAAATATA-AAATATAAAAAAG
*
15878464 TATAAAATGTAAAATATAAAAAAG
1 TATAAAATATAAAATATAAAAAAG
*
15878488 TATGAATAGTATAAAATATAAA
1 TAT-AA-AATATAAAATATAAA
15878510 TAGATATACG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 13 0.34
25 12 0.32
26 13 0.34
ACGTcount: A:0.61, C:0.03, G:0.07, T:0.30
Consensus pattern (24 bp):
TATAAAATATAAAATATAAAAAAG
Found at i:15878681 original size:21 final size:23
Alignment explanation
Indices: 15878643--15878686 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
15878633 CATATGCGCG
15878643 TATATACATAAAAGTAATAATAA
1 TATATACATAAAAGTAATAATAA
*
15878666 TATATA-ATACAA-TAATAATAA
1 TATATACATAAAAGTAATAATAA
15878687 CGAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TATATACATAAAAGTAATAATAA
Found at i:15880129 original size:50 final size:50
Alignment explanation
Indices: 15880049--15880894 Score: 355
Period size: 50 Copynumber: 17.0 Consensus size: 50
15880039 GCAACGTCAA
* * *
15880049 GGAAACCAA-ATTCGCCGTTGT-GACTCCAATCTGTTCCACTGCACTGCCAG
1 GGAAA-CAAGATTCGCCGTCGTAG-CTTCAATCTGTTCCACTGCAATGCCAG
** * * * *
15880099 GGAAGTAAGATCCGCCGTCGTAGCTTCAATCTATTCCACTTC-A--CCTAA
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCC-AG
*** * * * ** * *
15880147 GGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-G
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * * * *
15880196 AGGAAACGAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGC-ATCGCTAA
1 -GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAAT-GCCAG
*** * * * * ** * * *
15880247 GGAGGTAATATTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * * * ** * *
15880297 GGAAACCAGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAA
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
*** * * * ** * *
15880347 GGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-G
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * * * * *
15880396 AGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCAGTGCACTACTAA
1 -GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* *** * * * ** * * *
15880447 TGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAATGCAATGTCGG
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * ** ***
15880497 GGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTATACCACCAG
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * * ** * ** *
15880547 GGAAACAAGATTTGCCGTTGTGGCTTCAATCT-TTTAATTGCAATGTTAA
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * * * * * * ***
15880596 GGAAACCAGATCCACCATCGTGGCTTTAATCTGTTCCACTACACCACCAG
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * * ** * * *
15880646 GGAAACAAGACTCGCCGTTGTGGCTTCAATCT-TTTAATTGCAATGTCGG
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* ** * *
15880695 GGAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAA
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
** * * * * ** * ***
15880745 GGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCAATGTTGG
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * *
15880795 GGAAACCAGA-TCTGTCGTCGTAGCTTCAATCTGTTCCACTGCATTGCCAG
1 GGAAACAAGATTC-GCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
* * * * * * *
15880845 GAAAACAGGATTCACCGTTGTGGCTTCAATCTGATCCACTGTAATGCCAG
1 GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
15880895 AGAGATAGGA
Statistics
Matches: 539, Mismatches: 241, Indels: 32
0.66 0.30 0.04
Matches are distributed among these distances:
47 2 0.00
48 34 0.06
49 74 0.14
50 423 0.78
51 6 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.29
Consensus pattern (50 bp):
GGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCAATGCCAG
Found at i:15880277 original size:100 final size:100
Alignment explanation
Indices: 15880106--15880837 Score: 1004
Period size: 100 Copynumber: 7.4 Consensus size: 100
15880096 CAGGGAAGTA
* *
15880106 AGATCCGCCGTCGTAGCTTCAATCTATTCCACTTCA-C-CTAAGGAGGTAAGATTCGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACTAAGGAGGTAAGATTCGCCGTTGTG
* *
15880169 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACG
66 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
* * * * * *
15880204 AGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCATCGCTAAGGAGGTAATATTCGCTGTTGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACTAAGGAGGTAAGATTCGCCGTTGTG
15880269 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
* * *
15880304 AGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACTAAGGAGGTAAGATTCGCCGTTGTG
*
15880369 GCTTCAATCTTTTTAATTGCAATGTCGAGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
* * * *
15880404 AGATTCGCCGTCGTAGCTTCAATCTGTTCCAGTGCACTACTAATGAGGTAAGATTCGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACTAAGGAGGTAAGATTCGCCGTTGTG
*
15880469 GCTTCAATCTTTTTAAATGCAATGTCGGGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
** * * *** *
15880504 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTATACCACCAGGGAAACAAGATTTGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACTAAGGAGGTAAGATTCGCCGTTGTG
***
15880569 GCTTCAATC-TTTTAATTGCAATGTTAAGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
* * * * * * * *** *
15880603 AGATCCACCATCGTGGCTTTAATCTGTTCCACTACACCACCAGGGAAACAAGACTCGCCGTTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACTAAGGAGGTAAGATTCGCCGTTGTG
15880668 GCTTCAATC-TTTTAATTGCAATGTCGGGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
* * * *
15880702 AGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATTGTG
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACTAAGGAGGTAAGATTCGCCGTTGTG
*
15880767 GCTTCAATCTTTTTAATTGCAATGTTGGGGAAACC
66 GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
* *
15880802 AGATCTGTCGTCGTAGCTTCAATCTGTTCCACTGCA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCA
15880838 TTGCCAGGAA
Statistics
Matches: 565, Mismatches: 66, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
98 33 0.06
99 172 0.30
100 360 0.64
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (100 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCACTAAGGAGGTAAGATTCGCCGTTGTG
GCTTCAATCTTTTTAATTGCAATGTCGGGGAAACC
Found at i:15880865 original size:398 final size:398
Alignment explanation
Indices: 15880106--15880876 Score: 1086
Period size: 398 Copynumber: 1.9 Consensus size: 398
15880096 CAGGGAAGTA
***
15880106 AGATCCGCCGTCGTAGCTTCAATCTATTCCACTTCACCTAAGGAGGTAAGATTCGCCGTTGTGGC
1 AGATCCGCCGTCGTAGCTTCAATCTATTCCACTTCACCTAAGGAAACAAGATTCGCCGTTGTGGC
* * *
15880171 TTCAATCTTTTTAATTGCAATGTCGAGGAAACGAGATCCACCGTCGTAGCTTCAATCTGTTCCAC
66 TTCAATCTTTTTAATTGCAATGTCAAGGAAACCAGATCCACCATCGTAGCTTCAATCTGTTCCAC
* * * * *** * * *
15880236 TGCATCGCTAAGGAGGTAATATTCGCTGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
131 TACACCACCAAGGAAACAAGACTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
* * *
15880301 ACCAGATCCACTGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAGGTAAGATTCGCCGTT
196 ACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATT
15880366 GTGGCTTCAATCTTTTTAATTGCAATGTCGAGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGT
261 GTGGCTTCAATCTTTTTAATTGCAATGTCGAGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGT
* * ** *
15880431 TCCAGTGCACTACTAATGAGGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAAATGCAATGTCG
326 TCCACTGCACTACTAAGGAGAAAAGATTCACCGTTGTGGCTTCAATCTTTTTAAATGCAATGTCG
15880496 GGGAAACC
391 GGGAAACC
* * *
15880504 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTATACCACC-AGGGAAACAAGATTTGCCGTTGT
1 AGATCCGCCGTCGTAGCTTCAATCTATTCCACT-T--CACCTAAGGAAACAAGATTCGCCGTTGT
* * *
15880568 GGCTTCAATC-TTTTAATTGCAATGTTAAGGAAACCAGATCCACCATCGTGGCTTTAATCTGTTC
63 GGCTTCAATCTTTTTAATTGCAATGTCAAGGAAACCAGATCCACCATCGTAGCTTCAATCTGTTC
* *
15880632 CACTACACCACCAGGGAAACAAGACTCGCCGTTGTGGCTTCAATC-TTTTAATTGCAATGTCGGG
128 CACTACACCACCAAGGAAACAAGACTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGG
* *
15880696 GAAACCAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCC
193 GAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCC
* * *
15880761 ATTGTGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAACCAGA-TCTGTCGTCGTAGCTTCAAT
258 ATTGTGGCTTCAATCTTTTTAATTGCAATGTCGAGGAAACCAGATTC-GCCGTCGTAGCTTCAAT
* * *
15880825 CTGTTCCACTGCATTGC-CAGGA-AAACAGGATTCACCGTTGTGGCTTCAATCT
322 CTGTTCCACTGCACTACTAAGGAGAAA-A-GATTCACCGTTGTGGCTTCAATCT
15880877 GATCCACTGT
Statistics
Matches: 327, Mismatches: 40, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
396 1 0.00
397 6 0.02
398 206 0.63
399 82 0.25
400 28 0.09
401 4 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (398 bp):
AGATCCGCCGTCGTAGCTTCAATCTATTCCACTTCACCTAAGGAAACAAGATTCGCCGTTGTGGC
TTCAATCTTTTTAATTGCAATGTCAAGGAAACCAGATCCACCATCGTAGCTTCAATCTGTTCCAC
TACACCACCAAGGAAACAAGACTCGCCGTTGTAGCTTCAATCTTTTTAATTGCAATGTCGGGGAA
ACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATT
GTGGCTTCAATCTTTTTAATTGCAATGTCGAGGAAACCAGATTCGCCGTCGTAGCTTCAATCTGT
TCCACTGCACTACTAAGGAGAAAAGATTCACCGTTGTGGCTTCAATCTTTTTAAATGCAATGTCG
GGGAAACC
Found at i:15881102 original size:166 final size:167
Alignment explanation
Indices: 15880854--15881164 Score: 426
Period size: 166 Copynumber: 1.9 Consensus size: 167
15880844 GGAAAACAGG
* * * *
15880854 ATTCACCGTTGTGGCTTCAATCTGATCCACTGTAATGCCAGAGAGATAGGATTCGCTGCCCACAG
1 ATTCACCGTTGCGGCTTCAATCTGATCCACTGAAATGCCAAAGAGATAAGATTCGCTGCCCACAG
* *** * *
15880919 CTTTAATTTGCTCCACTTCAGCCAATTCAAGTCTTAACGCCAGAGAGATAAGATTCACCGTCGTG
66 CTTCAATCCACTCCACTTCAGCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCACCGTCGTG
15880984 GCTTCAATCTGCTCCGTTGCAATGCCAAAGAAGTAAA
131 GCTTCAATCTGCTCCGTTGCAATGCCAAAGAAGTAAA
* * * * * *
15881021 ATTCACCGTTGCGGCTTTAATCTGTTCTACT-AAATGTCAAAGTGATAAGATTTGCTGCCCACAG
1 ATTCACCGTTGCGGCTTCAATCTGATCCACTGAAATGCCAAAGAGATAAGATTCGCTGCCCACAG
** * *
15881085 CTTCAATCCACTCCACTTCAGTTAATCCAAGCCTTAACGCTAGGGAGATAAGATTCACCGTCGTG
66 CTTCAATCCACTCCACTTCAGCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCACCGTCGTG
*
15881150 GCTTTAATCTGCTCC
131 GCTTCAATCTGCTCC
15881165 ACTATAACGC
Statistics
Matches: 123, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
166 96 0.78
167 27 0.22
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (167 bp):
ATTCACCGTTGCGGCTTCAATCTGATCCACTGAAATGCCAAAGAGATAAGATTCGCTGCCCACAG
CTTCAATCCACTCCACTTCAGCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCACCGTCGTG
GCTTCAATCTGCTCCGTTGCAATGCCAAAGAAGTAAA
Found at i:15881185 original size:166 final size:167
Alignment explanation
Indices: 15880854--15881217 Score: 406
Period size: 166 Copynumber: 2.2 Consensus size: 167
15880844 GGAAAACAGG
* * * *
15880854 ATTCACCGTTGTGGCTTCAATCTGATCCACTGTAATGCCAGAGAGATAGGATTCGCTGCCCACAG
1 ATTCACCGTTGCGGCTTCAATCTGATCCACTGAAATGCCAAAGAGATAAGATTCGCTGCCCACAG
* *** * *
15880919 CTTTAATTTGCTCCACTTCAGCCAATTCAAGTCTTAACGCCAGAGAGATAAGATTCACCGTCGTG
66 CTTCAATCCACTCCACTTCAGCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCACCGTCGTG
** * *
15880984 GCTTCAATCTGCTCCGTTGCAATGCCAAAGAAGTAAA
131 GCTTCAATCTGCTCCACTACAACGCCAAAGAAGTAAA
* * * * * *
15881021 ATTCACCGTTGCGGCTTTAATCTGTTCTACT-AAATGTCAAAGTGATAAGATTTGCTGCCCACAG
1 ATTCACCGTTGCGGCTTCAATCTGATCCACTGAAATGCCAAAGAGATAAGATTCGCTGCCCACAG
** * *
15881085 CTTCAATCCACTCCACTTCAGTTAATCCAAGCCTTAACGCTAGGGAGATAAGATTCACCGTCGTG
66 CTTCAATCCACTCCACTTCAGCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCACCGTCGTG
* * ** *
15881150 GCTTTAATCTGCTCCACTATAACGCCAGGGAAGTAAG
131 GCTTCAATCTGCTCCACTACAACGCCAAAGAAGTAAA
** * * * *
15881187 ATTTGCCGTTGTGCCTTCAATCCGTTCCACT
1 ATTCACCGTTGCGGCTTCAATCTGATCCACT
15881218 ACAACATCAA
Statistics
Matches: 161, Mismatches: 36, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
166 134 0.83
167 27 0.17
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (167 bp):
ATTCACCGTTGCGGCTTCAATCTGATCCACTGAAATGCCAAAGAGATAAGATTCGCTGCCCACAG
CTTCAATCCACTCCACTTCAGCCAATCCAAGCCTTAACGCCAGAGAGATAAGATTCACCGTCGTG
GCTTCAATCTGCTCCACTACAACGCCAAAGAAGTAAA
Found at i:15885235 original size:18 final size:18
Alignment explanation
Indices: 15885212--15885247 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15885202 CAATCATATC
15885212 GTCAACATAAACCTCAAT
1 GTCAACATAAACCTCAAT
15885230 GTCAACATAAACCTCAAT
1 GTCAACATAAACCTCAAT
15885248 CTCCTTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.06, T:0.22
Consensus pattern (18 bp):
GTCAACATAAACCTCAAT
Found at i:15886202 original size:27 final size:27
Alignment explanation
Indices: 15886150--15886206 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
15886140 AATAATGTAG
*
15886150 AAAAAGAATAAAAGAATAATTACTCAA
1 AAAAAGAATAAAAGAATAACTACTCAA
15886177 AAAAAGAATAAAAGAAT-ACTAGCTCAA
1 AAAAAGAATAAAAGAATAACTA-CTCAA
15886204 AAA
1 AAA
15886207 TGCCTACGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 3 0.11
27 25 0.89
ACGTcount: A:0.67, C:0.09, G:0.09, T:0.16
Consensus pattern (27 bp):
AAAAAGAATAAAAGAATAACTACTCAA
Found at i:15886735 original size:18 final size:18
Alignment explanation
Indices: 15886712--15886758 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
15886702 ATCTTCCCAA
15886712 TCCTTTTCCCAGTACAAC
1 TCCTTTTCCCAGTACAAC
*
15886730 TCCTTTTCCCGGTACAAC
1 TCCTTTTCCCAGTACAAC
15886748 TCCTTTTCCCA
1 TCCTTTTCCCA
15886759 CCATTAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.40, G:0.06, T:0.36
Consensus pattern (18 bp):
TCCTTTTCCCAGTACAAC
Found at i:15905809 original size:44 final size:44
Alignment explanation
Indices: 15905496--15906049 Score: 266
Period size: 44 Copynumber: 12.8 Consensus size: 44
15905486 AAGATGGCAA
* * * *
15905496 ATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCGATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ACAG
* * * * *
15905540 ATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* * * *** * *
15905584 ATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-TCGCATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* * * * * * *
15905625 -TCATATCTCTCTGAGGTTGTAGTGGAGCAGACTACGCAAGCA-AG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTA--AAACCACAG
* * *** *
15905669 -TCTTATC-CTCTTGAAGTTGCAGT-GAGGCAGACTAAAGATGGCAA
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAA-ACCACAG
* * * *
15905713 ATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAGCCGATA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ACAG
* * *
15905757 ATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* * * * *** * *
15905801 ATCTTATCTCTCTAAAGTTACAG-AGAGCAGA-TCGCATC-TAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* * * *
15905842 -TCTTATCTCCCTGAACTTGCAGTGGAGCAGACT-AAGCAAGCAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA-CAG
* * *** *
15905885 GTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGA-AA
1 ATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-AACCACAG
* *
15905930 ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGACA-
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-ACAG
* * * *
15905974 ATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCACAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
* * *
15906018 ATCTTATCTCTCTGAATTTGCAG-AGAGCAGAT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT
15906050 CGCATCTAGT
Statistics
Matches: 378, Mismatches: 102, Indels: 61
0.70 0.19 0.11
Matches are distributed among these distances:
40 37 0.10
41 17 0.04
42 9 0.02
43 34 0.09
44 217 0.57
45 56 0.15
46 6 0.02
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAG
Found at i:15905846 original size:173 final size:173
Alignment explanation
Indices: 15905667--15905992 Score: 376
Period size: 173 Copynumber: 1.9 Consensus size: 173
15905657 TACGCAAGCA
* * *
15905667 AGTCTTATC-CTCTTGAAGTTGCAGT-GAGGCAGACTAAAG-ATGGCAAATCTTAT-CTCCCTGA
1 AGTCTTATCTC-CCTGAACTTGCAGTGGA-GCAGACT-AAGCA-AGCAAATCTTATCCT-CCTGA
* * * * *
15905728 AGTTGTAGTGAAGCAGATTAAAG-CCGATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTA
61 AGTTGCAGTGAAGCAGACTAAAGACCGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTA
* *
15905792 AAACC-ACAGATCTTATCTCTCTAAAGTTACAGAGAGCAGATCGCATCT
126 AAACCGACA-ATCCTATCTCCCTAAAGTTACAGAGAGCAGATCGCATCT
**
15905840 AGTCTTATCTCCCTGAACTTGCAGTGGAGCAGACTAAGCAAGCAGGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAACTTGCAGTGGAGCAGACTAAGCAAGCAAATCTTATCCTCCTGAAGTTG
* * ** * * *
15905905 CAGTGAGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCC
66 CAGTGAAGCAGACTAAAGACCGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
*
15905970 GACAATCCTATCTCCCTGAAGTT
131 GACAATCCTATCTCCCTAAAGTT
15905993 GTAGTGGAGC
Statistics
Matches: 127, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
172 36 0.28
173 85 0.67
174 6 0.05
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (173 bp):
AGTCTTATCTCCCTGAACTTGCAGTGGAGCAGACTAAGCAAGCAAATCTTATCCTCCTGAAGTTG
CAGTGAAGCAGACTAAAGACCGAAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
GACAATCCTATCTCCCTAAAGTTACAGAGAGCAGATCGCATCT
Found at i:15905868 original size:217 final size:217
Alignment explanation
Indices: 15905469--15906100 Score: 996
Period size: 217 Copynumber: 2.9 Consensus size: 217
15905459 CTCCCTAAAG
*
15905469 TGCAGTG-GAGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAA
1 TGCAGTGAG-GCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAA
* * *
15905533 GCCGATAATCCTATCTCCCTAAAGTTGCAATGGAGCGGATTAAAACCTCAGATCTTATCTCTCTG
65 GCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTG
* * * * * *
15905598 AAGTTGCAGAGAGTAGATCGCATCTAGTCATATCTCTCTGAGGTTGTAGTGGAGCAGACTACGCA
130 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCA
*
15905663 AGCAAGTCTTATCCTCTTGAAGT
195 AGCAAGTCTTATCCTCCTGAAGT
* *
15905686 TGCAGTGAGGCAGACTAAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGAAGCAGATTAAAG
1 TGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
* *
15905751 CCGATAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTAA
66 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGA
* *
15905816 AGTTACAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAACTTGCAGTGGAGCAGACTAAGCAA
131 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAA
*
15905881 GCAGGTCTTATCCTCCTGAAGT
196 GCAAGTCTTATCCTCCTGAAGT
* * *
15905903 TGCAGTGAGGCAGACTGAAGATGGAAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAG
1 TGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
* * *
15905968 CCGACAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCACAGATCTTATCTCTCTGA
66 CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGA
* * *
15906033 ATTTGCAGAGAGCAGATCGCATCTAGTCTTATCCCCCTGAAGTTGCAGTGGAACAGACTAAGTCA
131 AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-CA
15906098 AGC
195 AGC
15906101 TGAAGCTATA
Statistics
Matches: 380, Mismatches: 33, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
217 374 0.98
218 6 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (217 bp):
TGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
CCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGA
AGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGCAA
GCAAGTCTTATCCTCCTGAAGT
Found at i:15919399 original size:25 final size:25
Alignment explanation
Indices: 15919360--15919453 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
15919350 TCATGTACAT
*
15919360 GTATGCTCA-TACGAGCTGTGAATCG
1 GTATGCTCACT-CGAGCTGTAAATCG
15919385 GTATGCTCACTCGAGCTGTAAATCG
1 GTATGCTCACTCGAGCTGTAAATCG
* * **
15919410 GTATGCTCTCACGAGCTACAAATCG
1 GTATGCTCACTCGAGCTGTAAATCG
* *
15919435 ATATTCTCA-TACGAGCTGT
1 GTATGCTCACT-CGAGCTGT
15919454 GGGTCAAAAC
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 55 0.98
26 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTGTAAATCG
Found at i:15922496 original size:29 final size:29
Alignment explanation
Indices: 15922464--15922549 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 29
15922454 CCTTTTCGGC
15922464 TATCTCAATTAAAAGGAAAGT-TTTGTGGT
1 TATCTCAATTAAAAGG-AAGTCTTTGTGGT
*** *
15922493 TATCTTTGTTAAAAGGAAGTCTTTGTGGC
1 TATCTCAATTAAAAGGAAGTCTTTGTGGT
* * * * *
15922522 TATTTCTACTAAAAGAAAGACTTTGTGG
1 TATCTCAATTAAAAGGAAGTCTTTGTGG
15922550 CAATCACTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
28 4 0.09
29 42 0.91
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (29 bp):
TATCTCAATTAAAAGGAAGTCTTTGTGGT
Found at i:15922523 original size:58 final size:58
Alignment explanation
Indices: 15922439--15922579 Score: 142
Period size: 58 Copynumber: 2.4 Consensus size: 58
15922429 TATGGCTATA
* * * * **
15922439 TTTGTTTAAAGGTAGCCTTT-TCGGCTATCTCAATTAAAAGGAAAG-TTTTGTGGTTATC
1 TTTGTTAAAAGGAAGCCTTTGT-GGCTATCTCAACTAAAA-GAAAGACTTTGTGGCAATC
* * *
15922497 TTTGTTAAAAGGAAGTCTTTGTGGCTATTTCTACTAAAAGAAAGACTTTGTGGCAATC
1 TTTGTTAAAAGGAAGCCTTTGTGGCTATCTCAACTAAAAGAAAGACTTTGTGGCAATC
** *
15922555 ACTGTTAAAAGGATGCCTTTGTGGC
1 TTTGTTAAAAGGAAGCCTTTGTGGC
15922580 AACACTCTGA
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
57 5 0.07
58 62 0.91
59 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.38
Consensus pattern (58 bp):
TTTGTTAAAAGGAAGCCTTTGTGGCTATCTCAACTAAAAGAAAGACTTTGTGGCAATC
Found at i:15922563 original size:29 final size:29
Alignment explanation
Indices: 15922499--15922585 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
15922489 TGGTTATCTT
* * **
15922499 TGTTAAAAGGAAGTCTTTGTGGCTATTTC
1 TGTTAAAAGGAAGACTTTGTGGCAATCAC
** *
15922528 TACTAAAAGAAAGACTTTGTGGCAATCAC
1 TGTTAAAAGGAAGACTTTGTGGCAATCAC
* *
15922557 TGTTAAAAGGATGCCTTTGTGGCAA-CAC
1 TGTTAAAAGGAAGACTTTGTGGCAATCAC
15922585 T
1 T
15922586 CTGAAAGGAA
Statistics
Matches: 46, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 4 0.09
29 42 0.91
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (29 bp):
TGTTAAAAGGAAGACTTTGTGGCAATCAC
Found at i:15925922 original size:26 final size:28
Alignment explanation
Indices: 15925893--15925948 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
15925883 TCTATATTAA
*
15925893 ACAATTTTACCC-CCA-ATAAAATTTTG
1 ACAATTTTACCCTCCATAAAAAATTTTG
*
15925919 ACAATTTTACCCTCGATAAAAAATTTTG
1 ACAATTTTACCCTCCATAAAAAATTTTG
15925947 AC
1 AC
15925949 GGTTTACCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 12 0.46
27 2 0.08
28 12 0.46
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.34
Consensus pattern (28 bp):
ACAATTTTACCCTCCATAAAAAATTTTG
Found at i:15939297 original size:25 final size:25
Alignment explanation
Indices: 15939251--15939298 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15939241 AACAAAAACA
* *
15939251 AACAAAACAAAAAATTACTTAATTG
1 AACAAAACAAAAAATAAATTAATTG
15939276 AACAAAACAAAACAA-AAATTAAT
1 AACAAAACAAAA-AATAAATTAAT
15939299 GTAACTCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (25 bp):
AACAAAACAAAAAATAAATTAATTG
Found at i:15941772 original size:43 final size:42
Alignment explanation
Indices: 15941724--15941912 Score: 159
Period size: 43 Copynumber: 4.5 Consensus size: 42
15941714 AGTGATACAG
* *
15941724 GGAATCAGCACATAGTAACTCCTTTCATAATCAAAGATACGAT
1 GGAATCAGCACATAGCAACACCTTTCATAATCAAAGATACG-T
* * * ** *
15941767 GGAATCAGTACTTAGCAACCACCTTT-ATATTCAGTGATACGG
1 GGAATCAGCACATAGCAA-CACCTTTCATAATCAAAGATACGT
* * *
15941809 GGAATCAGCACATAGCAACCCCTTTCACAATCAAATATACGGT
1 GGAATCAGCACATAGCAACACCTTTCATAATCAAAGATAC-GT
* * * *
15941852 GGAATCAGCACTTAGCAACCACCTTT-AGAATCAATA-ATTCGA
1 GGAATCAGCACATAGCAA-CACCTTTCATAATCAA-AGATACGT
* *
15941894 GGAATCAACACTTAGCAAC
1 GGAATCAGCACATAGCAAC
15941913 CCCTCGGGGA
Statistics
Matches: 118, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
41 7 0.06
42 43 0.36
43 55 0.47
44 13 0.11
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (42 bp):
GGAATCAGCACATAGCAACACCTTTCATAATCAAAGATACGT
Found at i:15941825 original size:42 final size:42
Alignment explanation
Indices: 15941695--15941913 Score: 187
Period size: 42 Copynumber: 5.2 Consensus size: 42
15941685 ATTCAGCATT
* *
15941695 TAGCAACCACC-TTA-AATTCAGTGATACAGGGAATCAGCACA
1 TAGCAACCACCTTTATAA-TCAATGATACGGGGAATCAGCACA
* * * * * *
15941736 TAGTAA-CTCCTTTCATAATCAAAGATACGATGGAATCAGTACT
1 TAGCAACCACCTTT-ATAATCAATGATACG-GGGAATCAGCACA
* *
15941779 TAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACA
1 TAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACA
* *
15941821 TAGCAACC-CCTTTCACAATCAAAT-ATACGGTGGAATCAGCACT
1 TAGCAACCACCTTT-ATAATC-AATGATACGG-GGAATCAGCACA
* * * * * *
15941864 TAGCAACCACCTTTAGAATCAATAATTCGAGGAATCAACACT
1 TAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACA
15941906 TAGCAACC
1 TAGCAACC
15941914 CCTCGGGGAA
Statistics
Matches: 144, Mismatches: 24, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
40 3 0.02
41 12 0.08
42 59 0.41
43 59 0.41
44 11 0.08
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (42 bp):
TAGCAACCACCTTTATAATCAATGATACGGGGAATCAGCACA
Found at i:15941841 original size:85 final size:85
Alignment explanation
Indices: 15941682--15941916 Score: 303
Period size: 85 Copynumber: 2.8 Consensus size: 85
15941672 AGTTACTCGG
* * * * *
15941682 TGGATTCAGCATTTAGCAACCACC-TTAAATTCAGTGATACAGGGAATCAGCACATAGTAACTCC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCC
*
15941746 TTTCATAATCAAAGATACGA
66 TTTCACAATCAAAGATACGA
* *
15941766 TGGAATCAGTACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAGCACATAGCAACCCC
1 TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCC
* *
15941831 TTTCACAATCAAATATACGG
66 TTTCACAATCAAAGATACGA
* * * * * *
15941851 TGGAATCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCGAGGAATCAACACTTAGCAACCC
1 TGGAATCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACGGGGAATCAGCACATAGCAACCC
15941915 CT
65 CT
15941917 CGGGGAATCT
Statistics
Matches: 131, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 21 0.16
85 109 0.83
86 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (85 bp):
TGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCC
TTTCACAATCAAAGATACGA
Found at i:15947786 original size:45 final size:44
Alignment explanation
Indices: 15947737--15947861 Score: 133
Period size: 45 Copynumber: 2.8 Consensus size: 44
15947727 GTTTGATTCG
* * *
15947737 TGATGCCATAGCGTCTTTCAACTATGGTTTTACTCGATAAAATCA
1 TGATGCCATAACGTCTTTCAATTATGGTCTTACTCGATAAAA-CA
* * * * **
15947782 TGATGTCATACCGTCTTTCAGTTATAGTCTTACTCGATGGAACA
1 TGATGCCATAACGTCTTTCAATTATGGTCTTACTCGATAAAACA
* * *
15947826 CGATTCCATAACATCTTTCAATTATGGTCTTACTCG
1 TGATGCCATAACGTCTTTCAATTATGGTCTTACTCG
15947862 TTTCTGGTAT
Statistics
Matches: 65, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
44 31 0.48
45 34 0.52
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (44 bp):
TGATGCCATAACGTCTTTCAATTATGGTCTTACTCGATAAAACA
Found at i:15947856 original size:44 final size:45
Alignment explanation
Indices: 15947750--15947861 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 45
15947740 TGCCATAGCG
* * * * *
15947750 TCTTTCAACTATGGTTTTACTCGATAAAATCATGATGTCATACCG
1 TCTTTCAATTATGGTCTTACTCGATAAAATCACGATGTCATAACA
* * **
15947795 TCTTTCAGTTATAGTCTTACTCGATGGAA-CACGAT-TCCATAACA
1 TCTTTCAATTATGGTCTTACTCGATAAAATCACGATGT-CATAACA
15947839 TCTTTCAATTATGGTCTTACTCG
1 TCTTTCAATTATGGTCTTACTCG
15947862 TTTCTGGTAT
Statistics
Matches: 55, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 1 0.02
44 31 0.56
45 23 0.42
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.38
Consensus pattern (45 bp):
TCTTTCAATTATGGTCTTACTCGATAAAATCACGATGTCATAACA
Found at i:15947889 original size:45 final size:45
Alignment explanation
Indices: 15947839--15947954 Score: 144
Period size: 45 Copynumber: 2.6 Consensus size: 45
15947829 TTCCATAACA
* * *
15947839 TCTTTCAATTATGGTCTTACTC-GTTTCTGGTATGGTGCCATAGTG
1 TCTTTCAACTATGGTCTTACTCATTTTC-GATATGGTGCCATAGTG
* * * *
15947884 TCTTTCAACTATGGTCTTATTTATTTTCGATATTGTGTCATAGTG
1 TCTTTCAACTATGGTCTTACTCATTTTCGATATGGTGCCATAGTG
*
15947929 TCTTTCAACTATGGTCTTAATCATTT
1 TCTTTCAACTATGGTCTTACTCATTT
15947955 CCTTCAAGCT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 57 0.93
46 4 0.07
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTACTCATTTTCGATATGGTGCCATAGTG
Found at i:15958406 original size:40 final size:40
Alignment explanation
Indices: 15958349--15958509 Score: 216
Period size: 40 Copynumber: 4.0 Consensus size: 40
15958339 ATTATTGAAC
* * *
15958349 GATTGCACTTATGTGCCCCTATTTGTACCTCGGTACCTCT
1 GATTGCACTTACGTGCCCCTATTTGTACCTCAGTACCCCT
* *
15958389 GATTGCACTTACATGCCCCTGTTTGTACCTCAGTACCCCT
1 GATTGCACTTACGTGCCCCTATTTGTACCTCAGTACCCCT
* * * *
15958429 GATTGCACTTACGTGCTCCTGTTTGTACTTTAGTACCCCT
1 GATTGCACTTACGTGCCCCTATTTGTACCTCAGTACCCCT
*
15958469 GATTGCACTTACGTGCCCCTATTTGTACTTC-GATACCCCT
1 GATTGCACTTACGTGCCCCTATTTGTACCTCAG-TACCCCT
15958509 G
1 G
15958510 TTTATACTCC
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 107 0.99
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (40 bp):
GATTGCACTTACGTGCCCCTATTTGTACCTCAGTACCCCT
Found at i:15958487 original size:20 final size:20
Alignment explanation
Indices: 15958387--15958488 Score: 91
Period size: 20 Copynumber: 5.1 Consensus size: 20
15958377 CTCGGTACCT
*
15958387 CTGATTGCACTTACATGCCC
1 CTGATTGCACTTACGTGCCC
* * * *
15958407 CTGTTTGTACCT-CAGTACCC
1 CTGATTGCACTTAC-GTGCCC
*
15958427 CTGATTGCACTTACGTGCTC
1 CTGATTGCACTTACGTGCCC
* * *
15958447 CTGTTTGTACTTTA-GTACCC
1 CTGATTGCAC-TTACGTGCCC
15958467 CTGATTGCACTTACGTGCCC
1 CTGATTGCACTTACGTGCCC
15958487 CT
1 CT
15958489 ATTTGTACTT
Statistics
Matches: 61, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
19 4 0.07
20 53 0.87
21 4 0.07
ACGTcount: A:0.16, C:0.32, G:0.17, T:0.35
Consensus pattern (20 bp):
CTGATTGCACTTACGTGCCC
Found at i:15958498 original size:20 final size:20
Alignment explanation
Indices: 15958355--15958498 Score: 66
Period size: 20 Copynumber: 7.2 Consensus size: 20
15958345 GAACGATTGC
*
15958355 ACTTATGTGCCCCTATTTGT
1 ACTTACGTGCCCCTATTTGT
* * * *
15958375 ACCT-CGGTACCTCTGA-TTGC
1 ACTTAC-GTGCCCCT-ATTTGT
* *
15958395 ACTTACATGCCCCTGTTTGT
1 ACTTACGTGCCCCTATTTGT
* * *
15958415 ACCT-CAGTACCCCTGA-TTGC
1 ACTTAC-GTGCCCCT-ATTTGT
* *
15958435 ACTTACGTGCTCCTGTTTGT
1 ACTTACGTGCCCCTATTTGT
* *
15958455 ACTTTA-GTACCCCTGA-TTGC
1 AC-TTACGTGCCCCT-ATTTGT
15958475 ACTTACGTGCCCCTATTTGT
1 ACTTACGTGCCCCTATTTGT
15958495 ACTT
1 ACTT
15958499 CGATACCCCT
Statistics
Matches: 85, Mismatches: 27, Indels: 24
0.62 0.20 0.18
Matches are distributed among these distances:
19 5 0.06
20 74 0.87
21 6 0.07
ACGTcount: A:0.16, C:0.31, G:0.16, T:0.38
Consensus pattern (20 bp):
ACTTACGTGCCCCTATTTGT
Found at i:15961995 original size:20 final size:20
Alignment explanation
Indices: 15961963--15962014 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
15961953 TTTACAAACA
15961963 AAAATAT-AATATTAAAAAT
1 AAAATATAAATATTAAAAAT
* *
15961982 TAAATCTAAATATTAAAAAT
1 AAAATATAAATATTAAAAAT
15962002 AAAATATAAATAT
1 AAAATATAAATAT
15962015 ATAATATACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 5 0.18
20 23 0.82
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATATAAATATTAAAAAT
Found at i:15962129 original size:20 final size:21
Alignment explanation
Indices: 15962092--15962130 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
15962082 AAATAGAAAC
* *
15962092 AACACAAATAATTTTTTTACA
1 AACAAAAATAATTATTTTACA
15962113 AACAAAAAT-ATTATTTTA
1 AACAAAAATAATTATTTTA
15962131 AACATTAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (21 bp):
AACAAAAATAATTATTTTACA
Found at i:15963784 original size:23 final size:23
Alignment explanation
Indices: 15963758--15963851 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
15963748 AAGTTAGAAG
15963758 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
15963781 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
15963804 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
15963827 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
15963850 AG
1 AG
15963852 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:15968287 original size:23 final size:23
Alignment explanation
Indices: 15968261--15968354 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
15968251 AAGTTAGAAG
15968261 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
15968284 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
15968307 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
15968330 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
15968353 AG
1 AG
15968355 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:15969061 original size:42 final size:42
Alignment explanation
Indices: 15969002--15969084 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
15968992 GAATAAAAGT
15969002 AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCAA
1 AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCAA
15969044 AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCA
1 AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCA
15969085 GTCTACCGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (42 bp):
AAAACACCACAACTGCAGGTTTCATTTTCTCCAAAGATCCAA
Found at i:15969498 original size:24 final size:24
Alignment explanation
Indices: 15969448--15969502 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
15969438 TAATTTTTTT
*
15969448 AAATATTAAAATTAAAAATCATAAA
1 AAAT-TTAAAATAAAAAATCATAAA
*
15969473 AAATTTATAAATAAAAAAT-ATTAA
1 AAATTTA-AAATAAAAAATCATAAA
15969497 AAATTT
1 AAATTT
15969503 CTTAATCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATTTAAAATAAAAAATCATAAA
Found at i:15971419 original size:18 final size:18
Alignment explanation
Indices: 15971396--15971430 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15971386 GAAAAAGAAT
15971396 TAAAATAACAGT-ATGTAA
1 TAAAATAA-AGTAATGTAA
15971414 TAAAATAAAGTAATGTA
1 TAAAATAAAGTAATGTA
15971431 CATGCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
TAAAATAAAGTAATGTAA
Found at i:15973424 original size:44 final size:45
Alignment explanation
Indices: 15973348--15973509 Score: 154
Period size: 44 Copynumber: 3.6 Consensus size: 45
15973338 GATCATTTTG
* * * *
15973348 ATCTACTCTACTGCAACTTCAGGGGGATAGGATTTAT-TACTTTA
1 ATCTACTCCACTGCAACTTCAGGGAGATAGGATTTATCGACTTCA
*
15973392 AT-TCACTCCACTACAACTTCAGGGAGATAGGA-TTATCGACTTCA
1 ATCT-ACTCCACTGCAACTTCAGGGAGATAGGATTTATCGACTTCA
* * * * * *
15973436 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTT-GCCATCTTCG
1 ATCTACTCCACTGCAACTTCAGGGAGATAGGATTTATCGA-CTTCA
*
15973481 ATCTA-TCCCACTGCAACTTCAGGGGGATA
1 ATCTACT-CCACTGCAACTTCAGGGAGATA
15973510 AGACCTGCTT
Statistics
Matches: 97, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
43 5 0.05
44 61 0.63
45 31 0.32
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (45 bp):
ATCTACTCCACTGCAACTTCAGGGAGATAGGATTTATCGACTTCA
Found at i:15974601 original size:30 final size:31
Alignment explanation
Indices: 15974562--15974621 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
15974552 GGAGGTGGGA
*
15974562 TGGGAAGGGAATAAAAGTTTTAGGG-GAAAAG
1 TGGGAAGGGAATAAAAATTTT-GGGAGAAAAG
*
15974593 TGGG-AGGGAGTAAAAATTTTGGGAGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGAGAAAA
15974622 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 3 0.12
30 19 0.73
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGAGAAAAG
Found at i:15974851 original size:9 final size:9
Alignment explanation
Indices: 15974837--15974873 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
15974827 TATAGTTTGA
15974837 TATTCGAAT
1 TATTCGAAT
15974846 TATTCGAAT
1 TATTCGAAT
*
15974855 TATTCGAGT
1 TATTCGAAT
15974864 TATTCGAAT
1 TATTCGAAT
15974873 T
1 T
15974874 TAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15974944 original size:9 final size:9
Alignment explanation
Indices: 15974927--15974957 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15974917 TCAAGTTGAT
15974927 TCGAATAAC
1 TCGAATAAC
*
15974936 TCGATTAAC
1 TCGAATAAC
15974945 TCGAATAAC
1 TCGAATAAC
15974954 TCGA
1 TCGA
15974958 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15987484 original size:18 final size:18
Alignment explanation
Indices: 15987461--15987495 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
15987451 GAAAAAGAAT
15987461 TAAAATAACAGT-ATGTAA
1 TAAAATAA-AGTAATGTAA
15987479 TAAAATAAAGTAATGTA
1 TAAAATAAAGTAATGTA
15987496 CATGCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.57, C:0.03, G:0.11, T:0.29
Consensus pattern (18 bp):
TAAAATAAAGTAATGTAA
Found at i:15989543 original size:17 final size:16
Alignment explanation
Indices: 15989521--15989555 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
15989511 TCAAATTTAA
15989521 TTTAATTTTTGTAGTTT
1 TTTAATTTTTGTA-TTT
15989538 TTTAATTTTTGTATTT
1 TTTAATTTTTGTATTT
15989554 TT
1 TT
15989556 AGAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (16 bp):
TTTAATTTTTGTATTT
Found at i:15990497 original size:41 final size:42
Alignment explanation
Indices: 15990431--15990509 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 42
15990421 TTCCAAAAAA
* *
15990431 ATATTAATAACATTTTAAAAATCATGTAATTTGTAAAAATAT
1 ATATTAATAACATTATAAAAATCATGTAATATGTAAAAATAT
* *
15990473 ATATT-ATAATATTATAAAATTCATGTAATATGTAAAA
1 ATATTAATAACATTATAAAAATCATGTAATATGTAAAA
15990510 GAATTCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 28 0.85
42 5 0.15
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.41
Consensus pattern (42 bp):
ATATTAATAACATTATAAAAATCATGTAATATGTAAAAATAT
Found at i:15990631 original size:16 final size:17
Alignment explanation
Indices: 15990610--15990651 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
15990600 AAGGGTGTTT
15990610 TTTTTTAATAA-TAATA
1 TTTTTTAATAATTAATA
*
15990626 TTTTTT-ATAATTTATA
1 TTTTTTAATAATTAATA
*
15990642 ATTTTTAATA
1 TTTTTTAATA
15990652 GTTTTGTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 4 0.18
16 15 0.68
17 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTTTAATAATTAATA
Found at i:15994844 original size:20 final size:22
Alignment explanation
Indices: 15994819--15994859 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
15994809 AGTTATTTTT
15994819 ATTATTT-TAAAT-ATAAAATA
1 ATTATTTCTAAATCATAAAATA
*
15994839 ATTATTTCTATATCATAAAAT
1 ATTATTTCTAAATCATAAAAT
15994860 TAAAATTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTATTTCTAAATCATAAAATA
Found at i:15996130 original size:22 final size:22
Alignment explanation
Indices: 15996099--15996146 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
15996089 CTAGCAAACT
* *
15996099 TAGCTTAATAACATAACTTAGC
1 TAGCTCAATAACAGAACTTAGC
15996121 TAGCTCAATAACAGAACTTAGC
1 TAGCTCAATAACAGAACTTAGC
15996143 TAGC
1 TAGC
15996147 ACACTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (22 bp):
TAGCTCAATAACAGAACTTAGC
Found at i:16001156 original size:22 final size:22
Alignment explanation
Indices: 16001128--16001169 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
16001118 AACTTAACTT
16001128 AATAACAAAACTTAGCTAGCTC
1 AATAACAAAACTTAGCTAGCTC
16001150 AATAACAAAACTTAGCTAGC
1 AATAACAAAACTTAGCTAGC
16001170 ACCTTTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.10, T:0.21
Consensus pattern (22 bp):
AATAACAAAACTTAGCTAGCTC
Found at i:16002342 original size:18 final size:18
Alignment explanation
Indices: 16002316--16002353 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16002306 TGGATGCGCT
* *
16002316 TTCTGTTTCTTTCCAGGG
1 TTCTATTTCTTCCCAGGG
16002334 TTCTATTTCTTCCCAGGG
1 TTCTATTTCTTCCCAGGG
16002352 TT
1 TT
16002354 AGGGGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.24, G:0.18, T:0.50
Consensus pattern (18 bp):
TTCTATTTCTTCCCAGGG
Found at i:16004040 original size:18 final size:18
Alignment explanation
Indices: 16004017--16004052 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
16004007 ATGAGGGAAA
*
16004017 AGAAAAAAGAAAATAAAG
1 AGAAAAAAGAAAAAAAAG
*
16004035 AGAAAAAGGAAAAAAAAG
1 AGAAAAAAGAAAAAAAAG
16004053 GAAGTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (18 bp):
AGAAAAAAGAAAAAAAAG
Found at i:16004433 original size:12 final size:12
Alignment explanation
Indices: 16004418--16004442 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16004408 TTTTTATGTA
16004418 TTTTATAATTTT
1 TTTTATAATTTT
16004430 TTTTATAATTTT
1 TTTTATAATTTT
16004442 T
1 T
16004443 ATAAAAATTT
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:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTATAATTTT
Found at i:16004442 original size:21 final size:21
Alignment explanation
Indices: 16004403--16004446 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
16004393 AAAATATGAG
*
16004403 AATTTTTTTTATGTATTTTAT
1 AATTTTTTTTATATATTTTAT
16004424 AATTTTTTTTATA-ATTTTTAT
1 AATTTTTTTTATATA-TTTTAT
16004445 AA
1 AA
16004447 AAATTTAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
AATTTTTTTTATATATTTTAT
Found at i:16004499 original size:28 final size:29
Alignment explanation
Indices: 16004468--16004543 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
16004458 TTTATAGGAT
*
16004468 TTTTATAATTTTTTA-CCTTTTAATAAAA
1 TTTTATAATTTTTTATACTTTTAATAAAA
* *
16004496 TTTTAAAATTTTTTATATTTTTAATAAAA
1 TTTTATAATTTTTTATACTTTTAATAAAA
*
16004525 TTTAAT-ATTTTTTATACTT
1 TTTTATAATTTTTTATACTT
16004544 ATTATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 26 0.63
29 15 0.37
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTATAATTTTTTATACTTTTAATAAAA
Found at i:16004554 original size:19 final size:18
Alignment explanation
Indices: 16004532--16004576 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
16004522 AAATTTAATA
16004532 TTTTTTATACTTATTAT-TT
1 TTTTTTAT-CTT-TTATATT
16004551 TTTTTTATCTTTTATAATT
1 TTTTTTATCTTTTAT-ATT
16004570 TTTTTTA
1 TTTTTTA
16004577 CCATATGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 3 0.12
19 17 0.71
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTATCTTTTATATT
Found at i:16004571 original size:18 final size:20
Alignment explanation
Indices: 16004527--16004574 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
16004517 TAATAAAATT
16004527 TAATATTTTTTATACTTATTA
1 TAAT-TTTTTTATACTTATTA
*
16004548 T-TTTTTTTTAT-CTT-TTA
1 TAATTTTTTTATACTTATTA
16004565 TAATTTTTTT
1 TAATTTTTTT
16004575 TACCATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 8 0.33
20 1 0.04
21 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.73
Consensus pattern (20 bp):
TAATTTTTTTATACTTATTA
Found at i:16014101 original size:14 final size:14
Alignment explanation
Indices: 16014082--16014109 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16014072 GAACCCTCCT
16014082 ATAAACTTCACTAA
1 ATAAACTTCACTAA
16014096 ATAAACTTCACTAA
1 ATAAACTTCACTAA
16014110 CTTGAACCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (14 bp):
ATAAACTTCACTAA
Found at i:16015486 original size:20 final size:20
Alignment explanation
Indices: 16015445--16015488 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
16015435 TTAGATTTAG
* *
16015445 ATCATATTCAAATTAAATAT
1 ATCATACTCAAATTAAAGAT
16015465 ATCATACTC-AATTAACAGAT
1 ATCATACTCAAATTAA-AGAT
16015485 ATCA
1 ATCA
16015489 CAATGAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (20 bp):
ATCATACTCAAATTAAAGAT
Found at i:16018436 original size:29 final size:30
Alignment explanation
Indices: 16018364--16018434 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
16018354 GTAGGATCCG
* *
16018364 TATAAAATTTTTAGGACTAAATCTAAAACA
1 TATAAAATTTTTAAGACTAAATCAAAAACA
16018394 TATAAAATTTTTAAGACTAAATCAAAAACA
1 TATAAAATTTTTAAGACTAAATCAAAAACA
*
16018424 TATAACATTTT
1 TATAAAATTTT
16018435 AATCACACAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAATTTTTAAGACTAAATCAAAAACA
Found at i:16022140 original size:25 final size:25
Alignment explanation
Indices: 16022090--16022194 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 25
16022080 GATGCTCCAC
* **
16022090 AGCTCGTAAGAGCATA-CTGACATAT
1 AGCTCGTGAGAGCATATC-GATTTAT
*
16022115 AGCTCGTGAGAGCATATCAATTTAT
1 AGCTCGTGAGAGCATATCGATTTAT
* * * * *
16022140 AGCTTGTGAGAGCAAACCGATCTAC
1 AGCTCGTGAGAGCATATCGATTTAT
* * *
16022165 AGCTCGAGTGAGCATATCGATTCAT
1 AGCTCGTGAGAGCATATCGATTTAT
16022190 AGCTC
1 AGCTC
16022195 ATATAAGCAT
Statistics
Matches: 61, Mismatches: 18, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
25 60 0.98
26 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (25 bp):
AGCTCGTGAGAGCATATCGATTTAT
Found at i:16028825 original size:16 final size:16
Alignment explanation
Indices: 16028800--16028835 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16028790 TATTGAAAGA
*
16028800 ATCAGACCTGTTACGT
1 ATCAGACCTGTTACAT
*
16028816 ATCAGGCCTGTTACAT
1 ATCAGACCTGTTACAT
16028832 ATCA
1 ATCA
16028836 ATTAGATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (16 bp):
ATCAGACCTGTTACAT
Found at i:16030488 original size:12 final size:12
Alignment explanation
Indices: 16030471--16030498 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
16030461 TTAGGCTGTT
16030471 ACACGACCTAGC
1 ACACGACCTAGC
16030483 ACACGACCTAGC
1 ACACGACCTAGC
16030495 ACAC
1 ACAC
16030499 AGGCGTGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.43, G:0.14, T:0.07
Consensus pattern (12 bp):
ACACGACCTAGC
Found at i:16034645 original size:28 final size:29
Alignment explanation
Indices: 16034614--16034668 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
16034604 ATACTTTTAA
* *
16034614 TAACAACTAATATCTCAAA-TTCATCATT
1 TAACAACTAAAATCACAAATTTCATCATT
*
16034642 TAACATCTAAAATCACAAATTTCATCA
1 TAACAACTAAAATCACAAATTTCATCA
16034669 ATGGCAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (29 bp):
TAACAACTAAAATCACAAATTTCATCATT
Found at i:16037748 original size:7 final size:7
Alignment explanation
Indices: 16037733--16037775 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
16037723 TATTAATCAA
*
16037733 AATAAAT
1 AATATAT
16037740 AATATAT
1 AATATAT
16037747 AATATAT
1 AATATAT
16037754 ATTATATAT
1 A--ATATAT
*
16037763 TATATAT
1 AATATAT
16037770 AATATA
1 AATATA
16037776 CTTTTTGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 25 0.81
9 6 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
AATATAT
Found at i:16040977 original size:16 final size:15
Alignment explanation
Indices: 16040952--16040984 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
16040942 GTCAACAAAT
16040952 AATTTAAAAATTATA
1 AATTTAAAAATTATA
16040967 AATTATAAAAATTATA
1 AATT-TAAAAATTATA
16040983 AA
1 AA
16040985 AAAAACCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AATTTAAAAATTATA
Found at i:16043936 original size:124 final size:124
Alignment explanation
Indices: 16043755--16044164 Score: 538
Period size: 124 Copynumber: 3.3 Consensus size: 124
16043745 AAAACGACAC
* * * * *
16043755 CGTTCCACTACA-GGAAATAATTTTTTTAGTGGCGTTTTGATTGAAAATGCCTCAAAGGTGATAC
1 CGTTTCACTACAGGGAATTAA-ATTTTTAGTGGCATTTTGATTGAAAATGCCTCAAAGGTTATAC
* * * *
16043819 ATTAGTGGCGTTTTTTATAAACACCGCAAAATTGCAATACCAATTTGACTTAAACGTCGT
65 ATTAGTGGCGTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGGCGT
* * *
16043879 CGTTTCACTACA-GAACATTAAACTTTTAGTGGTATTTTGATTGAAAATGCCGT-AAAGGTTATA
1 CGTTTCACTACAGGGA-ATTAAATTTTTAGTGGCATTTTGATTGAAAATGCC-TCAAAGGTTATA
* * * *
16043942 CGTTAGTGGGGTTTTTCATAAACGCCGTAAAATTACAATACCAAATTGACTTAAACGGCGT
64 CATTAGTGGCGTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGGCGT
* * **
16044003 CGTTTCACTATAGGGAATTAAATTTTTAGTGGCGTTTTGACCGAAAATGCCTCAAAGGTTATACA
1 CGTTTCACTACAGGGAATTAAATTTTTAGTGGCATTTTGATTGAAAATGCCTCAAAGGTTATACA
* * *
16044068 TTAGTGGCATTTTTCATAAACGCCACAAAAATACAATACCAATTTGACTTAAACGGCGT
66 TTAGTGGCGTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGGCGT
* * *
16044127 TGTTTCACTACATGGAATTAAGTTTTTAGTGGCATTTT
1 CGTTTCACTACAGGGAATTAAATTTTTAGTGGCATTTT
16044165 TCATAAACGT
Statistics
Matches: 247, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
123 1 0.00
124 239 0.97
125 7 0.03
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (124 bp):
CGTTTCACTACAGGGAATTAAATTTTTAGTGGCATTTTGATTGAAAATGCCTCAAAGGTTATACA
TTAGTGGCGTTTTTCATAAACGCCGCAAAATTACAATACCAATTTGACTTAAACGGCGT
Found at i:16044212 original size:84 final size:85
Alignment explanation
Indices: 16044068--16044283 Score: 317
Period size: 84 Copynumber: 2.5 Consensus size: 85
16044058 AGGTTATACA
* * *
16044068 TTAGTGGCATTTTTCATAAACGCCACAAAAATACAATACCAATTTGACTTAAACGGCGTTGTTTC
1 TTAGTGGCATTTTTCATAAACGCCGCAAAATTGCAATACCAATTTGACTTAAACGGCGTTGTTTC
*
16044133 ACTACATGGAATTAAG-TTT
66 ACTACAGGGAATTAAGTTTT
* * *
16044152 TTAGTGGCATTTTTCATAAACGTCGCAAAATTGCGATACCAATTTGACTTAAACGTCGTTGTTTC
1 TTAGTGGCATTTTTCATAAACGCCGCAAAATTGCAATACCAATTTGACTTAAACGGCGTTGTTTC
16044217 ACTACAGGGAATTAAGTTTT
66 ACTACAGGGAATTAAGTTTT
** *
16044237 TTAGTGGCATTTGGCCTAAAAACGCCGCAAAATTGCAATACCAATTT
1 TTAGTGGCATTT-TTC-ATAAACGCCGCAAAATTGCAATACCAATTT
16044284 TATTTAAATG
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
84 74 0.63
85 15 0.13
86 1 0.01
87 27 0.23
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Consensus pattern (85 bp):
TTAGTGGCATTTTTCATAAACGCCGCAAAATTGCAATACCAATTTGACTTAAACGGCGTTGTTTC
ACTACAGGGAATTAAGTTTT
Found at i:16044475 original size:22 final size:21
Alignment explanation
Indices: 16044449--16044500 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
16044439 AAAATATTTT
*
16044449 ATTTTAGGGTTTAAGGTTTATG
1 ATTTTAGGGTGTAAGGTTTA-G
16044471 ATTTTAGGGTGTAAGGTTTAG
1 ATTTTAGGGTGTAAGGTTTAG
16044492 AGTTTTAGG
1 A-TTTTAGG
16044501 ATTTTAGGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
ATTTTAGGGTGTAAGGTTTAG
Found at i:16044506 original size:30 final size:31
Alignment explanation
Indices: 16044456--16044531 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 31
16044446 TTTATTTTAG
* *
16044456 GGTTTA-AGGTTTATGATTTTAGGGTGT-AA
1 GGTTTAGAGTTTTAGGATTTTAGGGTGTAAA
*
16044485 GGTTTAGAGTTTTAGGATTTTAGGGTTTAAA
1 GGTTTAGAGTTTTAGGATTTTAGGGTGTAAA
*
16044516 GTTTTAGAGTTTTAGG
1 GGTTTAGAGTTTTAGG
16044532 GTTTAAGGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 6 0.15
30 18 0.44
31 17 0.41
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (31 bp):
GGTTTAGAGTTTTAGGATTTTAGGGTGTAAA
Found at i:16044518 original size:23 final size:23
Alignment explanation
Indices: 16044485--16044558 Score: 98
Period size: 23 Copynumber: 3.3 Consensus size: 23
16044475 TAGGGTGTAA
*
16044485 GGTTTAGAGTTTTAG-GATTTTAG
1 GGTTTAAAGTTTTAGAG-TTTTAG
16044508 GGTTTAAAGTTTTAGAGTTTTAG
1 GGTTTAAAGTTTTAGAGTTTTAG
* *
16044531 GGTTTAAGGTTTT-GAGTTTTAA
1 GGTTTAAAGTTTTAGAGTTTTAG
16044553 GGTTTA
1 GGTTTA
16044559 GGGTTTATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
22 14 0.30
23 32 0.68
24 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (23 bp):
GGTTTAAAGTTTTAGAGTTTTAG
Found at i:16044530 original size:8 final size:8
Alignment explanation
Indices: 16044487--16044564 Score: 58
Period size: 8 Copynumber: 10.2 Consensus size: 8
16044477 GGGTGTAAGG
16044487 TTTAGAGT
1 TTTAGAGT
16044495 TTTAG-GAT
1 TTTAGAG-T
*
16044503 TTTAG-GG
1 TTTAGAGT
*
16044510 TTTAAAGT
1 TTTAGAGT
16044518 TTTAGAGT
1 TTTAGAGT
*
16044526 TTTAGGGT
1 TTTAGAGT
*
16044534 TTAAG-GT
1 TTTAGAGT
16044541 TTT-GAGT
1 TTTAGAGT
*
16044548 TTTA-AGG
1 TTTAGAGT
*
16044555 TTTAGGGT
1 TTTAGAGT
16044563 TT
1 TT
16044565 ATTTTCGTAT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
6 1 0.02
7 20 0.36
8 34 0.62
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.50
Consensus pattern (8 bp):
TTTAGAGT
Found at i:16049668 original size:43 final size:43
Alignment explanation
Indices: 16049352--16049665 Score: 242
Period size: 43 Copynumber: 7.3 Consensus size: 43
16049342 GAACGGTGCT
* ** * *
16049352 TTTAGCAGCGTTTGTGATAAAAGTGCCATTAAAGATCATGTTG
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
* * * * **
16049395 TTTAACAGTGTTTGTGAAAAAAAAAGCCGCTAAAAGG-CA--TTC
1 TTTAGCGGCGTTTGTG-ATAAAAGTGCCGCT-AAAGGTCATGTTC
** * ** *
16049437 TTTATAATGGCGTTTGTGATAAATGCACCGCTAAAGGTCATGCTC
1 -TT-TAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
* * * **
16049482 TTTAGCAGCGCTTGTAATAAAAGCACCGCT-AAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
* * * *
16049524 TTTAGTGGCGTTTGTGATAAAAGTGCCACTAAAGATCAAGTTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
*
16049567 TTTAGCGGCGTTTGTGAGT-AAAGTGCCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGTGA-TAAAAGTGCCGCTAAAGGTCATGTTC
* ** * * *
16049610 TTTGGCGGTATTTTTTATAAAAGTGCCGCTAAAGTTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
*
16049653 TATAGCGGCGTTT
1 TTTAGCGGCGTTT
16049666 TTTCACATAA
Statistics
Matches: 211, Mismatches: 50, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
42 42 0.20
43 138 0.65
44 25 0.12
45 6 0.03
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTC
Found at i:16050070 original size:46 final size:46
Alignment explanation
Indices: 16050003--16050090 Score: 167
Period size: 46 Copynumber: 1.9 Consensus size: 46
16049993 CTGCTACCTC
*
16050003 GACCTAACCATTTGTATCAAACAGCCTTTTTTCTCCTCTCTAACAT
1 GACCTAACCATTTGTATCAAACAACCTTTTTTCTCCTCTCTAACAT
16050049 GACCTAACCATTTGTATCAAACAACCTTTTTTCTCCTCTCTA
1 GACCTAACCATTTGTATCAAACAACCTTTTTTCTCCTCTCTA
16050091 CATCCCTCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.26, C:0.31, G:0.06, T:0.38
Consensus pattern (46 bp):
GACCTAACCATTTGTATCAAACAACCTTTTTTCTCCTCTCTAACAT
Found at i:16056024 original size:32 final size:32
Alignment explanation
Indices: 16055988--16056056 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
16055978 TCTGAAATGG
*
16055988 AAATGATGGATAAATGTTGTAAGGTTGTGCTT
1 AAATGATGGATAAATGTTGTAAGGTTATGCTT
16056020 AAATGATGGATAAATGTTGTAAGGTTATGCTT
1 AAATGATGGATAAATGTTGTAAGGTTATGCTT
16056052 AAATG
1 AAATG
16056057 GTTATATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (32 bp):
AAATGATGGATAAATGTTGTAAGGTTATGCTT
Found at i:16065463 original size:131 final size:133
Alignment explanation
Indices: 16065318--16065589 Score: 372
Period size: 144 Copynumber: 2.0 Consensus size: 133
16065308 TGATAGAAAA
16065318 AAAAACATAAATATGGTGTTAAAGTAAAGG-TT-TC-TTGTATTTTGACATG-CTGATGAAGAGA
1 AAAAACATAAATATGGTGTTAAAGTAAAGGTTTCTCATTGTATTTTGACATGTC-GATGAAGAGA
*
16065379 AAAGTTGAGAAAAAGAGTCAAGTGGCAGGAGAAGTAAAACGGAAGAGATTTTGATAGAAAAAGAG
65 AAAGTTGAGAAAAAGAGTCAAGTGGCAGGAGAAGTAAAAAGGAAGAGATTTTGATAGAAAAAG-G
16065444 GGAGT
129 GGAGT
16065449 AAAAACATAAATATGGTGTTAAAGTAAAGGTTTCTCATGGGGAAATATTGTATTTTGACATGTCG
1 AAAAACATAAATATGGTGTTAAAGTAAAGGTTTCTC----------ATTGTATTTTGACATGTCG
* * *
16065514 ATGAAGAGAAAAGTTGAGAAAGAGATTCAAGTGGTAGGAGAAGTAAAAAGGAAGAGATTTTGATA
56 ATGAAGAGAAAAGTTGAGAAAAAGAGTCAAGTGGCAGGAGAAGTAAAAAGGAAGAGATTTTGATA
16065579 GAAAAAGGGGA
121 GAAAAAGGGGA
16065590 AGTACCCATG
Statistics
Matches: 123, Mismatches: 4, Indels: 16
0.86 0.03 0.11
Matches are distributed among these distances:
131 30 0.24
132 2 0.02
133 2 0.02
143 4 0.03
144 84 0.68
145 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.28, T:0.24
Consensus pattern (133 bp):
AAAAACATAAATATGGTGTTAAAGTAAAGGTTTCTCATTGTATTTTGACATGTCGATGAAGAGAA
AAGTTGAGAAAAAGAGTCAAGTGGCAGGAGAAGTAAAAAGGAAGAGATTTTGATAGAAAAAGGGG
AGT
Found at i:16065821 original size:51 final size:51
Alignment explanation
Indices: 16065757--16065874 Score: 202
Period size: 51 Copynumber: 2.3 Consensus size: 51
16065747 AATAATACAA
* *
16065757 GTGAAATACATAGAAATTTGATCTGAAAAATGAGATAGTAGAATTAATTAT
1 GTGAATTAAATAGAAATTTGATCTGAAAAATGAGATAGTAGAATTAATTAT
*
16065808 GTGAATTAAATAGAAATTTGATGTGAAAAATGAGATAGTAGAATTAATTAT
1 GTGAATTAAATAGAAATTTGATCTGAAAAATGAGATAGTAGAATTAATTAT
16065859 GTGAATTAAAT-GAAAT
1 GTGAATTAAATAGAAAT
16065875 GTGAAATAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
50 5 0.08
51 59 0.92
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.32
Consensus pattern (51 bp):
GTGAATTAAATAGAAATTTGATCTGAAAAATGAGATAGTAGAATTAATTAT
Found at i:16066006 original size:19 final size:20
Alignment explanation
Indices: 16065952--16066007 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
16065942 TATAGAAGTT
* *
16065952 TACAAGAAAATATTAATAAA
1 TACAAGAATATATGAATAAA
*
16065972 TA-AAGTATATAGTGAA-AAA
1 TACAAGAATATA-TGAATAAA
16065991 TACAAGAATATATGAAT
1 TACAAGAATATATGAAT
16066008 TTTTGCAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.27
Consensus pattern (20 bp):
TACAAGAATATATGAATAAA
Found at i:16068033 original size:66 final size:67
Alignment explanation
Indices: 16067957--16068088 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 67
16067947 GATTTGGGCA
*
16067957 TTGAGGCCCTGGGACATGTTGGAGAGATAAGGAAATGTGAGCTAAGCTTCATT-AACGGGATATG
1 TTGAGGCCCTGGGACATGTTGGAGAGATAAGGAAATGTGAGCTAAGCTCCATTCAACGGGATATG
16068021 TG
66 TG
*
16068023 TTGAGGCCCTGGGACATGTTGGAGAGATAAGGGAATGTGAGCTAAGCTCCATTCAACGGGATATG
1 TTGAGGCCCTGGGACATGTTGGAGAGATAAGGAAATGTGAGCTAAGCTCCATTCAACGGGATATG
16068088 T
66 T
16068089 TTGGTGTGAT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 51 0.81
67 12 0.19
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (67 bp):
TTGAGGCCCTGGGACATGTTGGAGAGATAAGGAAATGTGAGCTAAGCTCCATTCAACGGGATATG
TG
Found at i:16068274 original size:25 final size:25
Alignment explanation
Indices: 16068240--16068290 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
16068230 ATTATCTCTA
*
16068240 AATATGATTGTATGTAAAGTGTTAT
1 AATATGATTGTATATAAAGTGTTAT
16068265 AATATGATTGTATATAAAGTGTTAT
1 AATATGATTGTATATAAAGTGTTAT
16068290 A
1 A
16068291 TGTTTAAAAG
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:0.39, C:0.00, G:0.18, T:0.43
Consensus pattern (25 bp):
AATATGATTGTATATAAAGTGTTAT
Found at i:16069354 original size:24 final size:23
Alignment explanation
Indices: 16069314--16069358 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
16069304 TATGTTAGCT
*
16069314 TAATAATGCAATGAAATGCATATC
1 TAATAAAGCAATGAAAT-CATATC
16069338 TAATAAAGC-ATGCAAATCATA
1 TAATAAAGCAATG-AAATCATA
16069359 CCATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (23 bp):
TAATAAAGCAATGAAATCATATC
Found at i:16082170 original size:182 final size:182
Alignment explanation
Indices: 16081863--16082232 Score: 659
Period size: 182 Copynumber: 2.0 Consensus size: 182
16081853 TTTTGTTATT
*
16081863 CAAACCAACACCAAAACCTACATATTTCAAAGCCAAAAAACCAATTCACCTAACCATTTAAACAT
1 CAAACCAACACCAAAACATACATATTTCAAAGCCAAAAAACCAATTCACCTAACCATTTAAACAT
16081928 ACAACCAATATGCCATCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
66 ACAACCAATATGCCATCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
* * *
16081993 AGCCATCTAAATTCACAATTTTAAGAATTCCAATTATAACATTTTCTTACCA
131 AACCATCTAAATTCACAATTTTAAGAATGCCAATTATAACATTTGCTTACCA
* *
16082045 CAAACCAACACCAAAACATACATATTTCAAAGCCAAAAAACCAATTTACCTAATCATTTAAACAT
1 CAAACCAACACCAAAACATACATATTTCAAAGCCAAAAAACCAATTCACCTAACCATTTAAACAT
* *
16082110 ACAACGAATATGCCCTCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
66 ACAACCAATATGCCATCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
16082175 AACCATCTAAATTCACAATTTTAAGAATGCCAATTATAACATTTGCTTACCA
131 AACCATCTAAATTCACAATTTTAAGAATGCCAATTATAACATTTGCTTACCA
*
16082227 AAAACC
1 CAAACC
16082233 CAAGTTTATA
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
182 179 1.00
ACGTcount: A:0.44, C:0.26, G:0.04, T:0.26
Consensus pattern (182 bp):
CAAACCAACACCAAAACATACATATTTCAAAGCCAAAAAACCAATTCACCTAACCATTTAAACAT
ACAACCAATATGCCATCATTGGCACCAACAATTCATCAATTCAAATCAACAACCAAATATGTTTT
AACCATCTAAATTCACAATTTTAAGAATGCCAATTATAACATTTGCTTACCA
Found at i:16083135 original size:46 final size:46
Alignment explanation
Indices: 16083006--16083164 Score: 142
Period size: 46 Copynumber: 3.4 Consensus size: 46
16082996 ACAGGTGAAA
* * *
16083006 ATAATAGTGTTTGGTTACCCATTTAGGTTAAACCTACACGAATAATG
1 ATAATAGTGCTTGGTCACCCATTAAGGTTAAACCTACACGAATAA-G
* * * **
16083053 AATCATAGTG-TCTGGTCAACC-GTAAGGGTTGCACCTACACGAATAAG
1 -ATAATAGTGCT-TGGTCACCCATTAA-GGTTAAACCTACACGAATAAG
** **
16083100 ATAATAGTGCTTGGTCACCCATTAAGGTTAAACCTACATTAATCGG
1 ATAATAGTGCTTGGTCACCCATTAAGGTTAAACCTACACGAATAAG
* *
16083146 AGAATAGTGCCTGGTCACC
1 ATAATAGTGCTTGGTCACC
16083165 TACTAGGTTG
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
46 48 0.54
47 8 0.09
48 33 0.37
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (46 bp):
ATAATAGTGCTTGGTCACCCATTAAGGTTAAACCTACACGAATAAG
Found at i:16094060 original size:15 final size:17
Alignment explanation
Indices: 16094035--16094067 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
16094025 TAAGTTTACT
16094035 TTTTATTTAAAAT-TAA
1 TTTTATTTAAAATATAA
16094051 TTTT-TTTAAAATATAA
1 TTTTATTTAAAATATAA
16094067 T
1 T
16094068 ACAAAATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTATTTAAAATATAA
Found at i:16094240 original size:31 final size:29
Alignment explanation
Indices: 16094173--16094245 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
16094163 GCCTCAGGTT
*
16094173 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTA
***
16094202 ACATTTTAGTCACTTATGTTATCGTGTTGTA
1 ACATTTTAGTCACTTATGTT-T-GAAATGTA
16094233 ACATTTTAGTCAC
1 ACATTTTAGTCAC
16094246 CGAGTCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 20 0.53
30 1 0.03
31 17 0.45
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTA
Found at i:16096705 original size:18 final size:19
Alignment explanation
Indices: 16096682--16096717 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
16096672 TGAAATACAG
16096682 ATACCATATTAA-AAAAAA
1 ATACCATATTAACAAAAAA
16096700 ATACCATATTAACAAAAA
1 ATACCATATTAACAAAAA
16096718 TTAAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.22
Consensus pattern (19 bp):
ATACCATATTAACAAAAAA
Found at i:16104913 original size:19 final size:20
Alignment explanation
Indices: 16104876--16104915 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
16104866 TCTTTTCGCA
* *
16104876 TTCATTTCATGCATTTGCAT
1 TTCATTACATGCATATGCAT
16104896 TTCATTACAT-CATATGCAT
1 TTCATTACATGCATATGCAT
16104915 T
1 T
16104916 AAACACGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (20 bp):
TTCATTACATGCATATGCAT
Found at i:16106810 original size:20 final size:20
Alignment explanation
Indices: 16106785--16106826 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
16106775 GCAAATGTTC
16106785 TTTCATTCTTTAC-GATTTTT
1 TTTCATTCTTT-CTGATTTTT
16106805 TTTCATTCTTTCTGATTTTT
1 TTTCATTCTTTCTGATTTTT
16106825 TT
1 TT
16106827 GCCAAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTCATTCTTTCTGATTTTT
Found at i:16107778 original size:23 final size:25
Alignment explanation
Indices: 16107742--16107787 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
16107732 ATTGAGTCAT
*
16107742 TAAAAAATGATGAAATGAAAAAAAA
1 TAAAAAATGATGAAAAGAAAAAAAA
16107767 TAAAAAA-G-TGAAAAGAAAAAA
1 TAAAAAATGATGAAAAGAAAAAA
16107788 TGAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 1 0.05
25 7 0.35
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (25 bp):
TAAAAAATGATGAAAAGAAAAAAAA
Found at i:16109190 original size:89 final size:89
Alignment explanation
Indices: 16109084--16109845 Score: 980
Period size: 89 Copynumber: 8.6 Consensus size: 89
16109074 GAGTAGCAGT
*
16109084 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGAACGGAA-AAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGTAC
*
16109148 TGGCGTGAAGTAGATCAAAGATAAT
65 TGGCGTGAAGTAGATCAAAGATAAC
* * *
16109173 AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCAGAA-AAAGTAGATCTTGTCTTCATGTAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-GAAGAAAGCAGATCTTGTCTTCATGTAC
16109237 TGGCGTGAAGTAGATCAAAGATAAC
65 TGGCGTGAAGTAGATCAAAGATAAC
* *
16109262 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
16109327 GGCGTGAAGTAGATCAAAGATAAC
66 GGCGTGAAGTAGATCAAAGATAAC
*
16109351 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTACT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
*
16109416 GGCGTGAAGTAGATCAAAGATAGC
66 GGCGTGAAGTAGATCAAAGATAAC
* *
16109440 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
* *
16109505 GGCGTGAAGTAAATCAAAGACAAC
66 GGCGTGAAGTAGATCAAAGATAAC
*
16109529 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
* *
16109594 GGCGTGAAGTAGATCGAAGA-AAGA
66 GGCGTGAAGTAGATCAAAGATAA-C
*** * * ***
16109618 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
* * * *
16109682 GGTGGCGAAGTAGATCGAAGA-AAGT
66 GG-CGTGAAGTAGATCAAAGATAA-C
*** * * * * ***
16109707 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGACAA-CAGATCTTGTCTCCCCATAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA-AAGCAGATCTTGTCTTCATGTAC
* * ** * *
16109770 TGGTGGTGGAGTAGATTGAAGTTAGC
65 TGG-CGTGAAGTAGATCAAAGATAAC
* * * *
16109796 AGATCTTGTATTCCCATACTGGTGGCGAAGTAGATCAAAGAAAGTAGATC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATC
16109846 GAAGAAAGTA
Statistics
Matches: 617, Mismatches: 49, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
88 44 0.07
89 549 0.89
90 24 0.04
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (89 bp):
AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAAC
Found at i:16109842 original size:14 final size:14
Alignment explanation
Indices: 16109823--16109859 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
16109813 ACTGGTGGCG
16109823 AAGTAGATCAAAGA
1 AAGTAGATCAAAGA
*
16109837 AAGTAGATCGAAGA
1 AAGTAGATCAAAGA
16109851 AAGTAGATC
1 AAGTAGATC
16109860 TTGTCTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.08, G:0.24, T:0.16
Consensus pattern (14 bp):
AAGTAGATCAAAGA
Found at i:16109888 original size:222 final size:221
Alignment explanation
Indices: 16109084--16109851 Score: 661
Period size: 222 Copynumber: 3.4 Consensus size: 221
16109074 GAGTAGCAGT
* * * **
16109084 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGAACGGAA-AAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATC-GAAGAAAGCAGATCTTGTATTCACATAC
* * * *** *** * * *
16109148 TGGCGTGAAGTAGATCAAAGATAA-TAGATCTTA-TCTTCCCATACTGGTGGCGAAGTAGATCAG
65 TGGCGCGAAGTAGATCAAAGA-AAGAAGATC-AAGAAGTCATGTATTGGCGTC-AAGTA-ATC-G
* *** * * * *
16109211 AA-AAAGTAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-CAGATCTTGTCT
125 AAGAAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGA-AAGTAGATCTTGTCT
*** * * * * * *
16109273 TCCCATACTGGTGGCGAAGTAGATCGAAGAAAAC
189 TCATGTATTGG-CGTGAAGTAAATCAAAGACAAC
* *** * * * *
16109307 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAA-CAGATCTTGTCTTCCCATAC
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGA-AAGCAGATCTTGTATTCACATAC
* * * * ** *** * * *
16109370 TGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAG
65 TGG-CGCGAAGTAGATCAAAGAAAGAAGATCAAGAAGTCATGTATTGGCGTCAAGTA-ATCGAAG
* *
16109435 ATAGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCAT
128 AAAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCAT
16109500 GTATTGGCGTGAAGTAAATCAAAGACAAC
193 GTATTGGCGTGAAGTAAATCAAAGACAAC
* * ** *
16109529 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTATTCACATACT
* * ** *** *
16109594 GGCGTGAAGTAGATCGAAGAAAGAAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAA
66 GGCGCGAAGTAGATCAAAGAAAGAAGATCAAGAAGTCATGTATTGGCGTCAAGTA-ATCGAAGAA
16109659 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGT
130 AGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGT
*
16109724 ATTGGCGTGAAGTAGATCAAAGACAAC
195 ATTGGCGTGAAGTAAATCAAAGACAAC
* * ** *
16109751 AGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATTGAAGTTAGCAGATCTTGTATTCCCATACT
1 AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTATTCACATACT
* *
16109816 GGTGGCGAAGTAGATCAAAGAAAGTAGATCGAAGAA
66 GG-CGCGAAGTAGATCAAAGAAAGAAGATC-AAGAA
16109852 AGTAGATCTT
Statistics
Matches: 463, Mismatches: 70, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
221 4 0.01
222 311 0.67
223 147 0.32
224 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (221 bp):
AGATCTTGTCTCCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTATTCACATACT
GGCGCGAAGTAGATCAAAGAAAGAAGATCAAGAAGTCATGTATTGGCGTCAAGTAATCGAAGAAA
GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTA
TTGGCGTGAAGTAAATCAAAGACAAC
Found at i:16110798 original size:8 final size:8
Alignment explanation
Indices: 16110785--16110831 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
16110775 GCAGTGTCCG
16110785 TTTTTTTA
1 TTTTTTTA
16110793 TTTTTTTA
1 TTTTTTTA
*
16110801 TGTTTTTA
1 TTTTTTTA
16110809 TTTTCTTTTA
1 -TTT-TTTTA
16110819 TTTTTTTCA
1 TTTTTTT-A
16110828 TTTT
1 TTTT
16110832 ATTTCATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 19 0.56
9 10 0.29
10 5 0.15
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (8 bp):
TTTTTTTA
Found at i:16110836 original size:10 final size:9
Alignment explanation
Indices: 16110785--16110838 Score: 51
Period size: 8 Copynumber: 6.1 Consensus size: 9
16110775 GCAGTGTCCG
16110785 TTTTTTT-A
1 TTTTTTTCA
16110793 TTTTTTT-A
1 TTTTTTTCA
*
16110801 TGTTTTT-A
1 TTTTTTTCA
*
16110809 TTTTCTTTTA
1 TTTT-TTTCA
16110819 TTTTTTTCA
1 TTTTTTTCA
16110828 TTTTATTTCA
1 TTTT-TTTCA
16110838 T
1 T
16110839 ATAAAATAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
8 18 0.45
9 11 0.28
10 11 0.28
ACGTcount: A:0.13, C:0.06, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:16113496 original size:29 final size:29
Alignment explanation
Indices: 16113454--16113726 Score: 217
Period size: 29 Copynumber: 9.4 Consensus size: 29
16113444 TTTGTAATCT
16113454 TCCCTTTTCATATTCGATGGTCGAAACCA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
*
16113483 TCCCTTTTCATATTCGATGGTTGAAACCA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
* * **
16113512 TCCCTTTTCATTAATCAATGGTCGTCACCA
1 TCCCTTTTCA-TATTCGATGGTCGAAACCA
* * * *
16113542 TCCCTTTTCATAATCGATAG-CTGAAGCTA
1 TCCCTTTTCATATTCGATGGTC-GAAACCA
* * * * * * *
16113571 TCCATTTTCACATTTGATAGCCGAAGCTA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
* **
16113600 TCCCTTTTCATATTTGATGGTCGTTACCA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
* * **
16113629 TCCCTTTTCATGTTTGATGGTCGTCACCA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
* * * *
16113658 TCCCTTTTCATAATCGATAG-CCAAAGCTA
1 TCCCTTTTCATATTCGATGGTCGAAA-CCA
* * * * *
16113687 TCCCTTTTTATATTCGATAGCCGAAGCTA
1 TCCCTTTTCATATTCGATGGTCGAAACCA
16113716 TCCCTTTTCAT
1 TCCCTTTTCAT
16113727 TATCTGAGGG
Statistics
Matches: 200, Mismatches: 39, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
28 3 0.01
29 169 0.85
30 28 0.14
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (29 bp):
TCCCTTTTCATATTCGATGGTCGAAACCA
Found at i:16113666 original size:87 final size:87
Alignment explanation
Indices: 16113454--16113701 Score: 257
Period size: 87 Copynumber: 2.8 Consensus size: 87
16113444 TTTGTAATCT
* * ** * *
16113454 TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTT
1 TCCCTTTTCATATTCGATGGTCGTAACCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTT
*
16113519 TCATTAATCAATGGTCGTCACCA
66 TCA-TATTCAATGGTCGTCACCA
* * * * * *
16113542 TCCCTTTTCATAATCGATAG-C-TGAAGCTATCCATTTTCACATTTGATAGCCGAAGCTATCCCT
1 TCCCTTTTCATATTCGATGGTCGT-AA-CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCT
** *
16113605 TTTCATATTTGATGGTCGTTACCA
64 TTTCATATTCAATGGTCGTCACCA
* * * * *
16113629 TCCCTTTTCATGTTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTT
1 TCCCTTTTCATATTCGATGGTCGTAACCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTT
*
16113694 TTATATTC
66 TCATATTC
16113702 GATAGCCGAA
Statistics
Matches: 127, Mismatches: 29, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
87 73 0.57
88 53 0.42
89 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.38
Consensus pattern (87 bp):
TCCCTTTTCATATTCGATGGTCGTAACCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTT
TCATATTCAATGGTCGTCACCA
Found at i:16113688 original size:116 final size:116
Alignment explanation
Indices: 16113458--16113726 Score: 360
Period size: 116 Copynumber: 2.3 Consensus size: 116
16113448 TAATCTTCCC
* * * * * *
16113458 TTTTCATATTCGATGGTCGAAACCATCCCTTTTCATATTCGATGGTTGAAACCATCCCTTTTCAT
1 TTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCAT
**
16113523 TAATCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCTGAAGCTATCCA
66 T-ATCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCA
* * **
16113575 TTTTCACATTTGATAGCCGAAGCTATCCCTTTTCATATTTGATGGTCGTTACCATCCCTTTTCAT
1 TTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCAT
** *
16113640 GT-TTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCC
66 -TATCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCA
* *
16113691 TTTTTATATTCGATAGCCGAAGCTATCCCTTTTCAT
1 TTTTCACATTCGATAGCCGAAGCTATCCCTTTTCAT
16113727 TATCTGAGGG
Statistics
Matches: 133, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
116 77 0.58
117 55 0.41
118 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (116 bp):
TTTTCACATTCGATAGCCGAAGCTATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCAT
TATCAATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCA
Found at i:16138188 original size:25 final size:25
Alignment explanation
Indices: 16138154--16138248 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
16138144 TCATGTACAT
16138154 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
* * *
16138179 GTATGCTCACTCGAGTTGT-AGATCA
1 GTATGCTCACACGAGCTGTGA-ATCG
* * * * *
16138204 ATATGCTCTCACGTGCTATAAATCG
1 GTATGCTCACACGAGCTGTGAATCG
* *
16138229 GTATGCTCTCATGAGCTGTG
1 GTATGCTCACACGAGCTGTG
16138249 GAGTATTCGC
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:16144639 original size:11 final size:13
Alignment explanation
Indices: 16144619--16144650 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16144609 AATAAAATAA
16144619 TAAAATATCAT-T
1 TAAAATATCATAT
16144631 TAAAA-ATCATAT
1 TAAAATATCATAT
16144643 TAAAATAT
1 TAAAATAT
16144651 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:16147223 original size:42 final size:42
Alignment explanation
Indices: 16147085--16147224 Score: 158
Period size: 43 Copynumber: 3.3 Consensus size: 42
16147075 CTCGGTGGAT
* * *
16147085 TCAGCACTTAGCAACCATA-TTAAATTCAGTGATACGGGGAA
1 TCAGCACATAGCAACCACATTTATATTCAGTGATACGGGGAA
* * **
16147126 TCAGCACATAGCAACC-CCTTTCATAGTCAAAGATACGGTGGAA
1 TCAGCACATAGCAACCACATTT-ATATTCAGTGATACGG-GGAA
* * *
16147169 TCAACACTTAGCAACCACATTTATATTCAGTGATATGGGGAA
1 TCAGCACATAGCAACCACATTTATATTCAGTGATACGGGGAA
16147211 TCAGCACATAGCAA
1 TCAGCACATAGCAA
16147225 ATCAAATATA
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
41 17 0.22
42 28 0.35
43 30 0.38
44 4 0.05
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (42 bp):
TCAGCACATAGCAACCACATTTATATTCAGTGATACGGGGAA
Found at i:16147282 original size:74 final size:74
Alignment explanation
Indices: 16147152--16147298 Score: 204
Period size: 74 Copynumber: 2.0 Consensus size: 74
16147142 CCTTTCATAG
* * * * *
16147152 TCAAAGATACGGTGGAATCAACACTTAGCAACCACATTTATATTCAGTGATATGGGGAATCAGCA
1 TCAAAGATACAGTGGAATCAACACTTAGCAACCACATTTAGAATCAATAATATGGGGAATCAGCA
16147217 CATAGCAAA
66 CATAGCAAA
* * * *
16147226 TCAAATATACAGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTTGGGGAATCAGCA
1 TCAAAGATACAGTGGAATCAACACTTAGCAACCACATTTAGAATCAATAATATGGGGAATCAGCA
*
16147291 CTTAGCAA
66 CATAGCAA
16147299 CCCCTCAGGG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.24
Consensus pattern (74 bp):
TCAAAGATACAGTGGAATCAACACTTAGCAACCACATTTAGAATCAATAATATGGGGAATCAGCA
CATAGCAAA
Found at i:16147309 original size:26 final size:26
Alignment explanation
Indices: 16147280--16147329 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
16147270 CAATAATTTG
16147280 GGGAATCAGCACTTAGCAACCCCTCA
1 GGGAATCAGCACTTAGCAACCCCTCA
* *
16147306 GGGAATCTGCACTTAGCGACCCCT
1 GGGAATCAGCACTTAGCAACCCCT
16147330 TTTTATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.34, G:0.22, T:0.18
Consensus pattern (26 bp):
GGGAATCAGCACTTAGCAACCCCTCA
Found at i:16158131 original size:16 final size:16
Alignment explanation
Indices: 16158110--16158141 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16158100 TAACGTTAAT
16158110 TCGGGCTCTGTGCCTA
1 TCGGGCTCTGTGCCTA
16158126 TCGGGCTCTGTGCCTA
1 TCGGGCTCTGTGCCTA
16158142 GCAGGCTTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.31, G:0.31, T:0.31
Consensus pattern (16 bp):
TCGGGCTCTGTGCCTA
Found at i:16158148 original size:16 final size:16
Alignment explanation
Indices: 16158113--16158148 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
16158103 CGTTAATTCG
* *
16158113 GGCTCTGTGCCTATCG
1 GGCTCTGTGCCTAGCA
16158129 GGCTCTGTGCCTAGCA
1 GGCTCTGTGCCTAGCA
16158145 GGCT
1 GGCT
16158149 TCGTGCCGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.31, G:0.33, T:0.28
Consensus pattern (16 bp):
GGCTCTGTGCCTAGCA
Found at i:16158177 original size:38 final size:38
Alignment explanation
Indices: 16158134--16158230 Score: 185
Period size: 38 Copynumber: 2.6 Consensus size: 38
16158124 TATCGGGCTC
*
16158134 TGTGCCTAGCAGGCTTCGTGCCGATGATATTCGGGTTT
1 TGTGCCTAGCAGGCTTTGTGCCGATGATATTCGGGTTT
16158172 TGTGCCTAGCAGGCTTTGTGCCGATGATATTCGGGTTT
1 TGTGCCTAGCAGGCTTTGTGCCGATGATATTCGGGTTT
16158210 TGTGCCTAGCAGGCTTTGTGC
1 TGTGCCTAGCAGGCTTTGTGC
16158231 TGGTGTAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.12, C:0.21, G:0.32, T:0.35
Consensus pattern (38 bp):
TGTGCCTAGCAGGCTTTGTGCCGATGATATTCGGGTTT
Found at i:16158214 original size:22 final size:22
Alignment explanation
Indices: 16158151--16158215 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
16158141 AGCAGGCTTC
16158151 GTGCCGATGATATTCGGGTTTT
1 GTGCCGATGATATTCGGGTTTT
* * *
16158173 GTGCC-----TA-GCAGGCTTT
1 GTGCCGATGATATTCGGGTTTT
16158189 GTGCCGATGATATTCGGGTTTT
1 GTGCCGATGATATTCGGGTTTT
16158211 GTGCC
1 GTGCC
16158216 TAGCAGGCTT
Statistics
Matches: 31, Mismatches: 6, Indels: 12
0.63 0.12 0.24
Matches are distributed among these distances:
16 11 0.35
17 2 0.06
21 2 0.06
22 16 0.52
ACGTcount: A:0.12, C:0.18, G:0.32, T:0.37
Consensus pattern (22 bp):
GTGCCGATGATATTCGGGTTTT
Found at i:16170024 original size:27 final size:27
Alignment explanation
Indices: 16169987--16170187 Score: 242
Period size: 27 Copynumber: 7.4 Consensus size: 27
16169977 TAAATTGTAC
16169987 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16170014 AGCACTAAGTGTACGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
16170041 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16170067 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
16170095 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
16170123 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
16170150 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16170177 AGCACTGAGTG
1 AGCACTAAGTG
16170188 AGCAGACTCA
Statistics
Matches: 150, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
27 127 0.85
28 23 0.15
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16175682 original size:19 final size:21
Alignment explanation
Indices: 16175660--16175698 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
16175650 CTGATAAACA
16175660 ATTTCA-TTGCAT-TTAGTTT
1 ATTTCATTTGCATATTAGTTT
16175679 ATTTCATTTGCATATTAGTT
1 ATTTCATTTGCATATTAGTT
16175699 GTTAATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 6 0.33
21 6 0.33
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (21 bp):
ATTTCATTTGCATATTAGTTT
Found at i:16184446 original size:12 final size:12
Alignment explanation
Indices: 16184429--16184454 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16184419 CCTCACACGC
16184429 CCATGTGCCAGG
1 CCATGTGCCAGG
16184441 CCATGTGCCAGG
1 CCATGTGCCAGG
16184453 CC
1 CC
16184455 GTGTAACATT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (12 bp):
CCATGTGCCAGG
Found at i:16187413 original size:8 final size:8
Alignment explanation
Indices: 16187400--16187435 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
16187390 TATTTATGAA
16187400 AAAATTAC
1 AAAATTAC
16187408 AAAATTAC
1 AAAATTAC
16187416 AAAATTAC
1 AAAATTAC
*
16187424 AAAATTAT
1 AAAATTAC
16187432 AAAA
1 AAAA
16187436 CAACCTTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (8 bp):
AAAATTAC
Done.