Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 7 of 313
Found at i:2084754 original size:47 final size:47
Alignment explanation
Indices: 2084663--2084883 Score: 160
Period size: 47 Copynumber: 4.7 Consensus size: 47
2084653 TGGGTAAAGT
* *
2084663 GTCGATGCCATGTCCCAGACATGGTCTTGCATTGGA-TCATATCTC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATATCTCGAA
*
2084710 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTAT-ATCTCGAA
* * * * *
2084758 GCCGAAT--CATATCCCAGACAT-GTCTTACACTGGCTTATGTCTCGAG
1 GTCG-ATGCCATGTCCCAGACATGGTCTTACACTGAC-TATATCTCGAA
* * *
2084804 GTCGAAT--CATGTCCTAGACAT-GTCTTACACT-AGC--TCTCGTACCAA
1 GTCG-ATGCCATGTCCCAGACATGGTCTTACACTGA-CTATATC-T-CGAA
2084849 -TACCGATGCCATGTCCCAGACATGGTCTTACACTG
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTG
2084884 GCTCTCATAA
Statistics
Matches: 143, Mismatches: 17, Indels: 26
0.77 0.09 0.14
Matches are distributed among these distances:
43 3 0.02
44 2 0.01
45 4 0.03
46 52 0.36
47 66 0.46
48 14 0.10
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATATCTCGAA
Found at i:2084801 original size:46 final size:46
Alignment explanation
Indices: 2084722--2084834 Score: 140
Period size: 46 Copynumber: 2.4 Consensus size: 46
2084712 CGATGCCATG
2084722 TCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCGAATCATA
1 TCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCGAATCATA
* * * *
2084769 TCCCAGACATGTCTTACACTGGCTTAT-GTCTCGAGGTCGAATCATG
1 TCCCAGACATGTCTTACACTGAC-TATCATCTCGAGGCCGAATCATA
*
2084815 TCCTAGACATGTCTTACACT
1 TCCCAGACATGTCTTACACT
2084835 AGCTCTCGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
45 1 0.02
46 45 0.76
47 13 0.22
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (46 bp):
TCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCGAATCATA
Found at i:2089468 original size:30 final size:30
Alignment explanation
Indices: 2089422--2089482 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
2089412 TTCCCGAGCC
*
2089422 TAGGGGTAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
2089452 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
2089482 T
1 T
2089483 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:2095500 original size:47 final size:46
Alignment explanation
Indices: 2095437--2095606 Score: 149
Period size: 47 Copynumber: 3.7 Consensus size: 46
2095427 TAAAGTGTCA
2095437 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTGG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-ATCTCAAGTGG
* * * * **
2095484 ATGCCGTGTCCCAGACATGGTTTTACACT--ATC-ATCTCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAATCTC-AAGTGG
* *
2095528 -TG-CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCAA-TGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-ATCTCAAGTG--G
*
2095573 AT-CCGATGTCCCAGAAATGGTCTTACACTGGCTC
1 ATGCC-ATGTCCCAGACATGGTCTTACACTGGCTC
2095607 TCATAATGTG
Statistics
Matches: 96, Mismatches: 16, Indels: 21
0.72 0.12 0.16
Matches are distributed among these distances:
41 9 0.09
42 13 0.14
43 8 0.08
44 4 0.04
45 7 0.07
46 2 0.02
47 39 0.41
48 14 0.15
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCAATCTCAAGTGG
Found at i:2101214 original size:25 final size:25
Alignment explanation
Indices: 2101177--2101227 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2101167 TTGGCTTGAA
**
2101177 ATTTACTAAGCAATATCGGATATTC
1 ATTTACTAAGCAATATCAAATATTC
* *
2101202 ATTTAGTAGGCAATATCAAATATTC
1 ATTTACTAAGCAATATCAAATATTC
2101227 A
1 A
2101228 AATTATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (25 bp):
ATTTACTAAGCAATATCAAATATTC
Found at i:2108534 original size:17 final size:16
Alignment explanation
Indices: 2108514--2108581 Score: 50
Period size: 17 Copynumber: 4.1 Consensus size: 16
2108504 AAAACTAGTG
*
2108514 AAAATGGAAAAGTAAAA
1 AAAAT-GAAAAATAAAA
2108531 AAAATGAAAAATAAATA
1 AAAATGAAAAATAAA-A
*
2108548 AATAAT-AAGAATAATAA
1 AA-AATGAAAAATAA-AA
*
2108565 TAAAT-AAATAATAAAA
1 AAAATGAAA-AATAAAA
2108581 A
1 A
2108582 GGAAAAGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 16 0.38
17 22 0.52
18 4 0.10
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (16 bp):
AAAATGAAAAATAAAA
Found at i:2117630 original size:30 final size:30
Alignment explanation
Indices: 2117586--2117674 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
2117576 CAAAGATAAT
2117586 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
2117615 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
2117645 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
2117675 CGATATTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:2117634 original size:15 final size:15
Alignment explanation
Indices: 2117586--2117665 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
2117576 CAAAGATAAT
*
2117586 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
2117600 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
2117615 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
2117630 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
2117645 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
2117660 AAGAAA
1 AAGAAA
2117666 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:2117674 original size:15 final size:15
Alignment explanation
Indices: 2117597--2117674 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
2117587 AGAAAACCGA
*
2117597 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
2117612 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
2117626 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
2117641 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
2117657 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
2117672 ATA
1 ATA
2117675 CGATATTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:2120531 original size:46 final size:46
Alignment explanation
Indices: 2120464--2120600 Score: 265
Period size: 46 Copynumber: 3.0 Consensus size: 46
2120454 NNNNNNNNGA
*
2120464 CATTTGCATCTATAAGTGAACTCGGACTCAACTCAACGAGTTCGGG
1 CATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGG
2120510 CATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGG
1 CATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGG
2120556 CATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
2120601 ATGCCTAAAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 90 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (46 bp):
CATTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGG
Found at i:2125311 original size:15 final size:15
Alignment explanation
Indices: 2125287--2125333 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
2125277 TTGAATTAAT
* *
2125287 AATTTTTATATTCAA
1 AATTTATATATACAA
2125302 AATTTATATATAC-A
1 AATTTATATATACAA
*
2125316 AATTT-TGTATACAA
1 AATTTATATATACAA
2125330 AATT
1 AATT
2125334 ATTCATTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 6 0.21
14 11 0.39
15 11 0.39
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (15 bp):
AATTTATATATACAA
Found at i:2125479 original size:9 final size:9
Alignment explanation
Indices: 2125465--2125489 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
2125455 ATTAAAATCC
2125465 AATTTTTTT
1 AATTTTTTT
2125474 AATTTTTTT
1 AATTTTTTT
2125483 AATTTTT
1 AATTTTT
2125490 AATAGTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
AATTTTTTT
Found at i:2125488 original size:16 final size:17
Alignment explanation
Indices: 2125469--2125506 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2125459 AAATCCAATT
*
2125469 TTTTTAAT-TTTTTTAA
1 TTTTTAATATTTTATAA
2125485 TTTTTAATAGTTTTATAA
1 TTTTTAATA-TTTTATAA
2125503 TTTT
1 TTTT
2125507 GAAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTTAATATTTTATAA
Found at i:2125540 original size:29 final size:29
Alignment explanation
Indices: 2125482--2125553 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
2125472 TTAATTTTTT
* *
2125482 TAATTTTTAATAGTTTTATAATTTTGAAA
1 TAATTATTAATAGTTTTATAATTCTGAAA
2125511 TAATTATTAATA-TTGTTATAAATTCT-AAA
1 TAATTATTAATAGTT-TTAT-AATTCTGAAA
2125540 T-ATT-TT-ATAGTTTT
1 TAATTATTAATAGTTTT
2125554 GAACTCAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 5 0.13
27 4 0.11
28 5 0.13
29 19 0.50
30 5 0.13
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.56
Consensus pattern (29 bp):
TAATTATTAATAGTTTTATAATTCTGAAA
Found at i:2127441 original size:17 final size:16
Alignment explanation
Indices: 2127419--2127462 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
2127409 GTCTAAATAT
2127419 TTATTTTTATTTTTTAA
1 TTATTTTTATTTTTT-A
*
2127436 TTATTTTTATATTTTA
1 TTATTTTTATTTTTTA
2127452 TT-TTTTTATTT
1 TTATTTTTATTT
2127463 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.32
16 3 0.12
17 14 0.56
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTATTTTTATTTTTTA
Found at i:2128180 original size:22 final size:20
Alignment explanation
Indices: 2128155--2128218 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
2128145 TGTCATAGTT
2128155 ACACGGCCATGTGCCTCCTCTC
1 ACACGG-CATGTGCCTCCT-TC
* *
2128177 ACACAGGCATGT-TCTTCTTC
1 ACAC-GGCATGTGCCTCCTTC
*
2128197 ACAAGGGCATGTGCCTCCTTC
1 AC-ACGGCATGTGCCTCCTTC
2128218 A
1 A
2128219 TATGGACGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
20 11 0.32
21 12 0.35
22 9 0.26
23 2 0.06
ACGTcount: A:0.19, C:0.36, G:0.19, T:0.27
Consensus pattern (20 bp):
ACACGGCATGTGCCTCCTTC
Found at i:2128870 original size:2 final size:2
Alignment explanation
Indices: 2128863--2129671 Score: 1618
Period size: 2 Copynumber: 404.5 Consensus size: 2
2128853 TGCCTGAATA
2128863 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2128905 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2128947 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2128989 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129031 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129073 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129115 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129157 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129199 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129241 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129283 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129325 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129367 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129409 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129451 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129493 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129535 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129577 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129619 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
2129661 TG TG TG TG TG T
1 TG TG TG TG TG T
2129672 TTGACTATGC
Statistics
Matches: 807, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 807 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:2129924 original size:16 final size:16
Alignment explanation
Indices: 2129883--2129924 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
2129873 CAAGCTCGAA
* *
2129883 AAAATT-TAAGCTTCG
1 AAAATTCTAACCTTAG
2129898 AAAAGTTCTAACCTTAG
1 AAAA-TTCTAACCTTAG
2129915 AAAATTCTAA
1 AAAATTCTAA
2129925 ATTCGTGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 11 0.48
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (16 bp):
AAAATTCTAACCTTAG
Found at i:2131089 original size:17 final size:17
Alignment explanation
Indices: 2131056--2131088 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2131046 TTTAGAATTG
2131056 AATTTTTAATAATTTTT
1 AATTTTTAATAATTTTT
2131073 AATTTTTAA-AATTTTT
1 AATTTTTAATAATTTTT
2131089 TCTTACATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTTAATAATTTTT
Found at i:2131422 original size:49 final size:49
Alignment explanation
Indices: 2131350--2131447 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
2131340 CCTTCACCTT
* * * *
2131350 TGTTAAAAGGTGGTAACAAACAGCATATGTACGTTATCCGGATGAAATA
1 TGTTAAAAGGTGGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
*
2131399 TGTTAAAAGGTTGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
1 TGTTAAAAGGTGGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
2131448 CAGCAACATG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (49 bp):
TGTTAAAAGGTGGCAACAAACAGCACATGTAAGTTACCCGGATGAAATA
Found at i:2135969 original size:40 final size:40
Alignment explanation
Indices: 2135924--2136075 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
2135914 ATAACCACAA
* * *
2135924 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
2135964 GCACAAATGCCTTCGGGTCTTAGCCTGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
2136004 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
2136044 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
2136076 CATTCAAATG
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:2138814 original size:40 final size:40
Alignment explanation
Indices: 2138770--2138921 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
2138760 ATAACCACAA
2138770 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
2138810 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
2138850 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
2138890 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
2138922 CATTCAAATG
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 3 0.03
40 92 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:2138877 original size:80 final size:80
Alignment explanation
Indices: 2138750--2138920 Score: 272
Period size: 80 Copynumber: 2.1 Consensus size: 80
2138740 TCTTCGGAAT
* * *
2138750 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCAC
1 TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
2138814 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * *
2138829 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
2138894 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
2138909 TTAGCCCGGATA
1 TTAGCCCGGATA
2138921 TCATTCAAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 4 0.05
80 80 0.95
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATAAAACCACAAGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:2142505 original size:49 final size:49
Alignment explanation
Indices: 2142415--2142512 Score: 144
Period size: 49 Copynumber: 2.0 Consensus size: 49
2142405 CAAGGAGGAG
* * * *
2142415 TGTTAAAAGGTGGCAACAAATAGCATGTGTACGTTATCCGGATGAAATA
1 TGTTAAAAGGTGGCAACAAACAGCATATGTAAGTTACCCGGATGAAATA
2142464 TGTTAAAAGGTGGCAACAAACAGC-TCATGTAAGTTACCCGGATGAAATA
1 TGTTAAAAGGTGGCAACAAACAGCAT-ATGTAAGTTACCCGGATGAAATA
2142513 CAGCAACATG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.02
49 43 0.98
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.24
Consensus pattern (49 bp):
TGTTAAAAGGTGGCAACAAACAGCATATGTAAGTTACCCGGATGAAATA
Found at i:2143877 original size:225 final size:225
Alignment explanation
Indices: 2143482--2143930 Score: 862
Period size: 225 Copynumber: 2.0 Consensus size: 225
2143472 GATAGCCCGG
2143482 TATATTCCATCAGAGTTTCTTTTTGTTCCTAACGCTGCTGCCATGGACATCTCTGCAAGTGAAAT
1 TATATTCCATCAGAGTTTCTTTTTGTTCCTAACGCTGCTGCCATGGACATCTCTGCAAGTGAAAT
*
2143547 GAAACTGTCTATCATTAAATCCATATCACAAGCAACTTCAGCTAAGAATTCTTCCATGAGTTCTG
66 GAAACTGTCTATCATTAAATCCATATCACAAGAAACTTCAGCTAAGAATTCTTCCATGAGTTCTG
2143612 CCACGGAGATAAATCCAGAAGCATCGGAGCTATCGTAATTGCTGTAGAATACTTTCAGAATCCTC
131 CCACGGAGATAAATCCAGAAGCATCGGAGCTATCGTAATTGCTGTAGAATACTTTCAGAATCCTC
2143677 CTTATGCACTCAATATCATATTGCACTTCC
196 CTTATGCACTCAATATCATATTGCACTTCC
*
2143707 TATATTCCATCAGAGTTTCTTTTTGTTCCTAACGCTGCTGCCATGGACATCTTTGCAAGTGAAAT
1 TATATTCCATCAGAGTTTCTTTTTGTTCCTAACGCTGCTGCCATGGACATCTCTGCAAGTGAAAT
2143772 GAAACTGTCTATCATTAAATCCATATCACAAGAAACTTCAGCTAAGAATTCTTCCATGAGTTCTG
66 GAAACTGTCTATCATTAAATCCATATCACAAGAAACTTCAGCTAAGAATTCTTCCATGAGTTCTG
* *
2143837 CCACGGAGATAAATCCAGAAGCATTGGAGCTATTGTAATTGCTGTAGAATACTTTCAGAATCCTC
131 CCACGGAGATAAATCCAGAAGCATCGGAGCTATCGTAATTGCTGTAGAATACTTTCAGAATCCTC
2143902 CTTATGCACTCAATATCATATTGCACTTC
196 CTTATGCACTCAATATCATATTGCACTTC
2143931 TTTGGCATAG
Statistics
Matches: 220, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
225 220 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (225 bp):
TATATTCCATCAGAGTTTCTTTTTGTTCCTAACGCTGCTGCCATGGACATCTCTGCAAGTGAAAT
GAAACTGTCTATCATTAAATCCATATCACAAGAAACTTCAGCTAAGAATTCTTCCATGAGTTCTG
CCACGGAGATAAATCCAGAAGCATCGGAGCTATCGTAATTGCTGTAGAATACTTTCAGAATCCTC
CTTATGCACTCAATATCATATTGCACTTCC
Found at i:2148949 original size:20 final size:19
Alignment explanation
Indices: 2148920--2148970 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
2148910 AACCCTAGTG
*
2148920 ATATCTATATTTTTATATAA
1 ATATCGATATTTTTATA-AA
*
2148940 ATATCGATATTTTTCTAAA
1 ATATCGATATTTTTATAAA
2148959 AGTATCGATATT
1 A-TATCGATATT
2148971 CTTAAGTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 3 0.11
20 25 0.89
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (19 bp):
ATATCGATATTTTTATAAA
Found at i:2152716 original size:21 final size:21
Alignment explanation
Indices: 2152692--2152737 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
2152682 TTCCATTTTC
2152692 AACAATGAACTTAATAATTTA
1 AACAATGAACTTAATAATTTA
2152713 AACAATGAACTTAATAATTTA
1 AACAATGAACTTAATAATTTA
2152734 AACA
1 AACA
2152738 TAAACCTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.54, C:0.11, G:0.04, T:0.30
Consensus pattern (21 bp):
AACAATGAACTTAATAATTTA
Found at i:2156106 original size:14 final size:14
Alignment explanation
Indices: 2156087--2156114 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2156077 AGTGGCCCGT
2156087 TTATTGCCCTATAA
1 TTATTGCCCTATAA
2156101 TTATTGCCCTATAA
1 TTATTGCCCTATAA
2156115 ACAAGGTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.07, T:0.43
Consensus pattern (14 bp):
TTATTGCCCTATAA
Found at i:2161755 original size:137 final size:137
Alignment explanation
Indices: 2161509--2161783 Score: 505
Period size: 137 Copynumber: 2.0 Consensus size: 137
2161499 CGACTAATAT
*
2161509 AAAACAGAACAGAACGTAATCAAAATGATGTAAAAACCCACAAGTATGACAAAAATGCTACTTCA
1 AAAACAGAACAGAACATAATCAAAATGATGTAAAAACCCACAAGTATGACAAAAATGCTACTTCA
*
2161574 CAACCTGAATAAAGCAAAACTCACATATGCTATATGTTTTAATCAATAAATATTACCAAAACTTC
66 CAACCTGAATAAAGCAAAACTCACATATGCTATATGTTTTAATCAATAAATATTACCAAAACTTA
2161639 CTACCCG
131 CTACCCG
* *
2161646 AAAACAGAACATAACATAATCAAAATGATGTAAGAACCCACAAGTATGACAAAAATGCTACTTCA
1 AAAACAGAACAGAACATAATCAAAATGATGTAAAAACCCACAAGTATGACAAAAATGCTACTTCA
*
2161711 CAACCTGACTAAAGCAAAACTCACATATGCTATATGTTTTAATCAATAAATATTACCAAAACTTA
66 CAACCTGAATAAAGCAAAACTCACATATGCTATATGTTTTAATCAATAAATATTACCAAAACTTA
2161776 CTACCCG
131 CTACCCG
2161783 A
1 A
2161784 TTTGATGTCC
Statistics
Matches: 133, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 133 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (137 bp):
AAAACAGAACAGAACATAATCAAAATGATGTAAAAACCCACAAGTATGACAAAAATGCTACTTCA
CAACCTGAATAAAGCAAAACTCACATATGCTATATGTTTTAATCAATAAATATTACCAAAACTTA
CTACCCG
Found at i:2165534 original size:47 final size:47
Alignment explanation
Indices: 2165473--2165679 Score: 308
Period size: 47 Copynumber: 4.4 Consensus size: 47
2165463 CAGCCAAGAC
2165473 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
2165520 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGAT-ACATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA-ATGTGAA
2165567 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
2165614 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
2165661 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
2165680 TCCCGAAGGG
Statistics
Matches: 145, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 143 0.99
48 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:2165854 original size:37 final size:37
Alignment explanation
Indices: 2165798--2165876 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
2165788 CCGAGCTCTA
* *
2165798 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
2165835 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
2165872 AAGAC
1 AAGAC
2165877 TTCGTGATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:2171927 original size:28 final size:28
Alignment explanation
Indices: 2171890--2171996 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
2171880 GCAATCAAAT
*
2171890 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
2171918 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
2171946 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
2171974 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
2171997 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:2173989 original size:28 final size:28
Alignment explanation
Indices: 2173958--2174112 Score: 130
Period size: 28 Copynumber: 5.5 Consensus size: 28
2173948 GTGAACATAG
*
2173958 GCACTGTGTGTGTGAGTTCCGTAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
* * * **** *
2173986 GCACTGTGTGTGAGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGTTCCG-TAACCAA
* *
2174015 GCACTGTATGTGCGAGTTCCGTAACCGA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
* * **** *
2174043 GCACTGTGTGTGCGAGATCGGTTGTTGAT
1 GCACTGTGTGTGCGAGTTCCG-TAACCAA
2174072 GCACTGTGTGTGCGAGTTCCGTAACCAA
1 GCACTGTGTGTGCGAGTTCCGTAACCAA
2174100 GCACTGTGTGTGC
1 GCACTGTGTGTGC
2174113 AAGATCGGTT
Statistics
Matches: 91, Mismatches: 34, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
28 52 0.57
29 39 0.43
ACGTcount: A:0.18, C:0.19, G:0.34, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCCGTAACCAA
Found at i:2174046 original size:57 final size:57
Alignment explanation
Indices: 2173956--2174142 Score: 286
Period size: 57 Copynumber: 3.2 Consensus size: 57
2173946 AAGTGAACAT
*
2173956 AGGCACTGTGTGTGTGAGTTCCGTAACCAAGCACTGTGTGTGAGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGAGAGATCGGTTGTTG
* * *
2174013 AGGCACTGTATGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGAGAGATCGGTTGTTG
*
2174070 ATGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGCA-AGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTG-AGAGATCGGTTGTTG
*
2174127 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
2174143 AAATGAGATC
Statistics
Matches: 117, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 110 0.94
59 7 0.06
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCAAGCACTGTGTGTGAGAGATCGGTTGTTG
Found at i:2177756 original size:91 final size:91
Alignment explanation
Indices: 2177601--2177783 Score: 339
Period size: 91 Copynumber: 2.0 Consensus size: 91
2177591 GGGGGAAGAG
*
2177601 TTGTAACAACCCATTTTTAGGGTTAATCGAAACAGTGGTCTCGGGGCCACCAAATCCGACGAGTA
1 TTGTAACAACCCATTTTTAGGCTTAATCGAAACAGTGGTCTCGGGGCCACCAAATCCGACGAGTA
2177666 GGTTTGTAAATATTATATTTAATATT
66 GGTTTGTAAATATTATATTTAATATT
* *
2177692 TTGTATCAGCCCATTTTTAGGCTTAATCGAAACAGTGGTCTCGGGGCCACCAAATCCGACGAGTA
1 TTGTAACAACCCATTTTTAGGCTTAATCGAAACAGTGGTCTCGGGGCCACCAAATCCGACGAGTA
2177757 GGTTTGTAAATATTATATTTAATATT
66 GGTTTGTAAATATTATATTTAATATT
2177783 T
1 T
2177784 ACGAGTTAAT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (91 bp):
TTGTAACAACCCATTTTTAGGCTTAATCGAAACAGTGGTCTCGGGGCCACCAAATCCGACGAGTA
GGTTTGTAAATATTATATTTAATATT
Found at i:2178187 original size:99 final size:99
Alignment explanation
Indices: 2178014--2178212 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
2178004 TAGTTAATTC
*
2178014 AGGAAAAAGAACTAAATCGCGGAAAATGAAAAAGTTACATTCTAATTGTTTAAGTGTTTATTTTC
1 AGGAAAAAGAACTAAATCGCGAAAAATGAAAAAGTTACATTCTAATTGTTTAAGTGTTTATTTTC
2178079 CATGATTTACTAAAGTATAAGTCCCTATTTATCA
66 CATGATTTACTAAAGTATAAGTCCCTATTTATCA
*
2178113 AGGAAAAAGAACTAAATCGCGAAAAATGAAAAGGTTACATTCTAATTGTTTAAGTGTTTATTTTC
1 AGGAAAAAGAACTAAATCGCGAAAAATGAAAAAGTTACATTCTAATTGTTTAAGTGTTTATTTTC
*
2178178 CATGGTTTACTAAAGTATAAGTCCCTATTTATCA
66 CATGATTTACTAAAGTATAAGTCCCTATTTATCA
2178212 A
1 A
2178213 TTAAACCATT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (99 bp):
AGGAAAAAGAACTAAATCGCGAAAAATGAAAAAGTTACATTCTAATTGTTTAAGTGTTTATTTTC
CATGATTTACTAAAGTATAAGTCCCTATTTATCA
Found at i:2178539 original size:139 final size:140
Alignment explanation
Indices: 2178341--2178619 Score: 506
Period size: 139 Copynumber: 2.0 Consensus size: 140
2178331 TAAAATGGCT
*
2178341 ATGCAAATTTTATCTCTTGGCCGAATATGGAGGAGAAAAGAAAGCCATTGAAGCTTCCTTAGTTT
1 ATGCAAATTTTATCTCTTGGCCGAATATGGAGGAGAAAAGAAAGCCATTGAAGCTTCCTTACTTT
* *
2178406 CGGCATTTGCATGAAGTGACTTAGGTATG-TTGTGTTCGGTTTTTTATAATTTTTATGTTTTTGA
66 CGGCATTTGCATGAAGTGACTTAGGTATGTTTGTGTTCGATTTTTGATAATTTTTATGTTTTTGA
2178470 GATCGTTGCC
131 GATCGTTGCC
2178480 ATGCAAATTTTATCTCTTGGCCGAATATGGAGGAGAAAAGAAAGCCATTGAAGCTTCCTTACTTT
1 ATGCAAATTTTATCTCTTGGCCGAATATGGAGGAGAAAAGAAAGCCATTGAAGCTTCCTTACTTT
*
2178545 CGGCATTTGCATGAAGTGATTTAGGTATGTTTTGTGTTCGATTTTTGATAATTTTTATGTTTTTG
66 CGGCATTTGCATGAAGTGACTTAGGTATG-TTTGTGTTCGATTTTTGATAATTTTTATGTTTTTG
2178610 AGATCGTTGC
130 AGATCGTTGC
2178620 TTCGTATTCT
Statistics
Matches: 134, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
139 92 0.69
141 42 0.31
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (140 bp):
ATGCAAATTTTATCTCTTGGCCGAATATGGAGGAGAAAAGAAAGCCATTGAAGCTTCCTTACTTT
CGGCATTTGCATGAAGTGACTTAGGTATGTTTGTGTTCGATTTTTGATAATTTTTATGTTTTTGA
GATCGTTGCC
Found at i:2178932 original size:93 final size:94
Alignment explanation
Indices: 2178818--2179005 Score: 351
Period size: 93 Copynumber: 2.0 Consensus size: 94
2178808 ATTATGTGGC
2178818 TGAAAGTGTGAAAAAAATGAAAATATGGGCTGTTATGAAGTAGTAGTAAATTTGTCTAGGCATGG
1 TGAAAGTGTGAAAAAAATGAAAATATGGGCTGTTATGAAGTAGTAGTAAATTTGTCTAGGCATGG
2178883 GTTTGGCCAAAAATTGAATGAATTTAATT
66 GTTTGGCCAAAAATTGAATGAATTTAATT
* *
2178912 TGAAAGTGTG-AATAAATGAAAATATGGGCTGTTATGAAGTAGTAGTAAATTTTTCTAGGCATGG
1 TGAAAGTGTGAAAAAAATGAAAATATGGGCTGTTATGAAGTAGTAGTAAATTTGTCTAGGCATGG
2178976 GTTTGGCCAAAAATTGAATGAATTTAATT
66 GTTTGGCCAAAAATTGAATGAATTTAATT
2179005 T
1 T
2179006 TTCGAGCTTA
Statistics
Matches: 92, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 82 0.89
94 10 0.11
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (94 bp):
TGAAAGTGTGAAAAAAATGAAAATATGGGCTGTTATGAAGTAGTAGTAAATTTGTCTAGGCATGG
GTTTGGCCAAAAATTGAATGAATTTAATT
Found at i:2179400 original size:64 final size:64
Alignment explanation
Indices: 2179318--2179444 Score: 245
Period size: 64 Copynumber: 2.0 Consensus size: 64
2179308 AGGGAAAAAT
2179318 GAAGTATCGGATTCGTCGATCTAATTTATCGTTACCGCGAACGAGGTAAGTTCGTATGCAATAC
1 GAAGTATCGGATTCGTCGATCTAATTTATCGTTACCGCGAACGAGGTAAGTTCGTATGCAATAC
*
2179382 GAAGTATCGGATTTGTCGATCTAATTTATCGTTACCGCGAACGAGGTAAGTTCGTATGCAATA
1 GAAGTATCGGATTCGTCGATCTAATTTATCGTTACCGCGAACGAGGTAAGTTCGTATGCAATA
2179445 AGCATTGTTA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (64 bp):
GAAGTATCGGATTCGTCGATCTAATTTATCGTTACCGCGAACGAGGTAAGTTCGTATGCAATAC
Found at i:2179602 original size:28 final size:28
Alignment explanation
Indices: 2179565--2179643 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
2179555 GCAATCAAAT
* *
2179565 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
*
2179593 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTGAGA
* *
2179621 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
2179644 CGAATGATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTGAGA
Found at i:2195253 original size:80 final size:80
Alignment explanation
Indices: 2195120--2195279 Score: 302
Period size: 80 Copynumber: 2.0 Consensus size: 80
2195110 ATAACAAGGA
2195120 AATGGAAATCATGGTATTGACGAGCTCATCAATCATAGTATATATTATTGGTACATGGAAATTAC
1 AATGGAAATCATGGTATTGACGAGCTCATCAATCATAGTATATATTATTGGTACATGGAAATTAC
2195185 TGTACTAACTTGAAT
66 TGTACTAACTTGAAT
* *
2195200 AATGGAAATCATGGTATTGACGAGCTCGTCAATCATAGTATATATTATTGGTACATGGAAATTAT
1 AATGGAAATCATGGTATTGACGAGCTCATCAATCATAGTATATATTATTGGTACATGGAAATTAC
2195265 TGTACTAACTTGAAT
66 TGTACTAACTTGAAT
2195280 GTTGAGTTTG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
80 78 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (80 bp):
AATGGAAATCATGGTATTGACGAGCTCATCAATCATAGTATATATTATTGGTACATGGAAATTAC
TGTACTAACTTGAAT
Found at i:2196867 original size:26 final size:26
Alignment explanation
Indices: 2196794--2196868 Score: 98
Period size: 25 Copynumber: 2.9 Consensus size: 26
2196784 TTTCATCCCT
*
2196794 ATTTTACCCCTAGTAAAATTTTAACG
1 ATTTTACCCCTAGTAAAATTTTGACG
* * *
2196820 ATTTTA-CCATAGTAATATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
2196845 ATTTTACCCCTGGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
2196869 GGAAATATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 21 0.51
26 20 0.49
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:2199246 original size:13 final size:13
Alignment explanation
Indices: 2199224--2199255 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2199214 TTAGTATGTT
2199224 TGAAAATTTCATA
1 TGAAAATTTCATA
*
2199237 TGAAACTTTCATA
1 TGAAAATTTCATA
2199250 TGAAAA
1 TGAAAA
2199256 ATTGATCGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.34
Consensus pattern (13 bp):
TGAAAATTTCATA
Found at i:2200458 original size:42 final size:43
Alignment explanation
Indices: 2200356--2200505 Score: 119
Period size: 43 Copynumber: 3.5 Consensus size: 43
2200346 TATGTGTTTC
** * *
2200356 CGTGTAAGACCACATTTGGGAC-GTTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCATGTCTGGGACAG-TGGCATCGA-TATTTGA-TTA
* * * *
2200400 AGTGTAAGACTATGTCTGGGACA-TCGGTATC-ATATTTGATTT
1 CGTGTAAGACCATGTCTGGGACAGT-GGCATCGATATTTGATTA
* *
2200442 CGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGATTA
1 CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTA
* **
2200485 CATGTAAGACCACATCTGGGA
1 CGTGTAAGACCATGTCTGGGA
2200506 TGTTCACATC
Statistics
Matches: 83, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
42 27 0.33
43 34 0.41
44 22 0.27
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTA
Found at i:2205721 original size:5 final size:5
Alignment explanation
Indices: 2205707--2205761 Score: 60
Period size: 5 Copynumber: 10.8 Consensus size: 5
2205697 AAATAGAAAG
*
2205707 ATTTT ATTTT GTTTT ATTTT ATTTT -TTATT A-TTT ATTTT ATTTTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATTTT ATTTT A-TTTT A-TTTT
2205758 ATTT
1 ATTT
2205762 ATTAATTTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 5 0.11
5 28 0.64
6 11 0.25
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:2205751 original size:6 final size:6
Alignment explanation
Indices: 2205718--2205761 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
2205708 TTTTATTTTG
2205718 TTTTA- TTTTATT TTTTAT TATTTA- TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTA-T TTTTAT T-TTTAT TTTTAT TTTTAT TTTTAT TT
2205762 ATTAATTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
5 9 0.26
6 17 0.49
7 9 0.26
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:2205758 original size:24 final size:25
Alignment explanation
Indices: 2205718--2205769 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
2205708 TTTTATTTTG
*
2205718 TTTTATTTTATTTTTTA-TTATTTA
1 TTTTATTTTATTTTTTATTTATTAA
2205742 TTTTATTTT-TATTTTTATTTATTAA
1 TTTTATTTTAT-TTTTTATTTATTAA
2205767 TTT
1 TTT
2205770 AGGTTAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 1 0.04
24 15 0.60
25 9 0.36
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (25 bp):
TTTTATTTTATTTTTTATTTATTAA
Found at i:2205763 original size:25 final size:23
Alignment explanation
Indices: 2205708--2205769 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 23
2205698 AATAGAAAGA
*
2205708 TTTTATTTTGTTTTATTTTATTTT
1 TTTTA-TTTATTTTATTTTATTTT
2205732 TTATTATTTATTTTATTTTTATTTT
1 TT-TTATTTATTTTA-TTTTATTTT
*
2205757 TATTTATTAATTT
1 T-TTTATTTATTT
2205770 AGGTTAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 10 0.30
25 22 0.67
26 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (23 bp):
TTTTATTTATTTTATTTTATTTT
Found at i:2210536 original size:27 final size:27
Alignment explanation
Indices: 2210478--2210559 Score: 94
Period size: 28 Copynumber: 3.0 Consensus size: 27
2210468 AGGAAGCGTC
*
2210478 CTGGTGGCTA-TGCCACAAATTATCTATT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
2210506 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
*
2210533 CTGGTGGCACTACCACAAAATATCTGT
1 CTGGTGGCACTGCCAC-AAATATCTGT
2210560 ATTTGGTGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
27 21 0.46
28 25 0.54
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:2219133 original size:247 final size:247
Alignment explanation
Indices: 2218697--2219175 Score: 949
Period size: 247 Copynumber: 1.9 Consensus size: 247
2218687 ACGTATGATG
2218697 GGTAGCCGTATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCT
1 GGTAGCCGTATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCT
2218762 ATTGAGCCGAAAATGGGAATGCTTAATAATTGATTTGTGTTTGAATTCTAGTTATGAAAATGAAA
66 ATTGAGCCGAAAATGGGAATGCTTAATAATTGATTTGTGTTTGAATTCTAGTTATGAAAATGAAA
2218827 TAAAGATGTGTCATGATTTACTAATATGTGCATGAATAGTCGGATGATAACGAAGGCATTTGTGC
131 TAAAGATGTGTCATGATTTACTAATATGTGCATGAATAGTCGGATGATAACGAAGGCATTTGTGC
*
2218892 TAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATC
196 TAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATC
2218944 GGTAGCCGTATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCT
1 GGTAGCCGTATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCT
2219009 ATTGAGCCGAAAATGGGAATGCTTAATAATTGATTTGTGTTTGAATTCTAGTTATGAAAATGAAA
66 ATTGAGCCGAAAATGGGAATGCTTAATAATTGATTTGTGTTTGAATTCTAGTTATGAAAATGAAA
2219074 TAAAGATGTGTCATGATTTACTAATATGTGCATGAATAGTCGGATGATAACGAAGGCATTTGTGC
131 TAAAGATGTGTCATGATTTACTAATATGTGCATGAATAGTCGGATGATAACGAAGGCATTTGTGC
2219139 TAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
196 TAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
2219176 AGCGAGTAGC
Statistics
Matches: 231, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
247 231 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (247 bp):
GGTAGCCGTATGTGCATAGAGATCATGTCACAAAGCAAACCAAATCATGCTGTTTGTATGTGGCT
ATTGAGCCGAAAATGGGAATGCTTAATAATTGATTTGTGTTTGAATTCTAGTTATGAAAATGAAA
TAAAGATGTGTCATGATTTACTAATATGTGCATGAATAGTCGGATGATAACGAAGGCATTTGTGC
TAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATC
Found at i:2219193 original size:40 final size:39
Alignment explanation
Indices: 2219124--2219208 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 39
2219114 CGGATGATAA
* * *
2219124 CGAAGGCATTTGTGCTAGTGACTAAATCCGGGCTAAGTCC
1 CGAAGGCATTTGAGCGAGTGACTAAATCC-GGCTAAATCC
* *
2219164 CGAAGGCATTTGAGCGAGT-AGCTATATCCGGTTAAATCC
1 CGAAGGCATTTGAGCGAGTGA-CTAAATCCGGCTAAATCC
2219203 CGAAGG
1 CGAAGG
2219209 TACTTGGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.38
40 24 0.62
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
CGAAGGCATTTGAGCGAGTGACTAAATCCGGCTAAATCC
Found at i:2222017 original size:27 final size:27
Alignment explanation
Indices: 2221959--2222048 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
2221949 AGGAAGCGTC
2221959 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
2221987 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
2222014 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
2222043 CTGGTG
1 CTGGTG
2222049 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:2222067 original size:55 final size:56
Alignment explanation
Indices: 2221959--2222073 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
2221949 AGGAAGCGTC
* *
2221959 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
2222014 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
2222070 CTGG
1 CTGG
2222074 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:2237597 original size:5 final size:5
Alignment explanation
Indices: 2237583--2237616 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
2237573 AAATAGAAAG
*
2237583 ATTTT ATTTT GTTTT ATTTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT A-TTTT ATTTT ATTTT ATT
2237617 AATTTAGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:2237605 original size:16 final size:16
Alignment explanation
Indices: 2237584--2237616 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2237574 AATAGAAAGA
*
2237584 TTTTATTTTGTTTTAT
1 TTTTATTTTATTTTAT
2237600 TTTTATTTTATTTTAT
1 TTTTATTTTATTTTAT
2237616 T
1 T
2237617 AATTTAGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTATTTTATTTTAT
Found at i:2243328 original size:26 final size:26
Alignment explanation
Indices: 2243257--2243386 Score: 194
Period size: 26 Copynumber: 5.1 Consensus size: 26
2243247 GCCTAGCCTC
2243257 TTTCAA-AAACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
* **
2243281 TTCCGGTAAACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
2243306 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
**
2243332 TTTCGGTAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
2243358 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
2243384 TTT
1 TTT
2243387 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
24 3 0.03
25 33 0.35
26 58 0.62
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
TTTCAATAAACTGGGGCATAAGCCCT
Found at i:2243374 original size:52 final size:51
Alignment explanation
Indices: 2243257--2243386 Score: 228
Period size: 52 Copynumber: 2.6 Consensus size: 51
2243247 GCCTAGCCTC
*
2243257 TTTCAA-AAACTGGGGCA-AAGCCCTTTCCGGTAAACTGGGGCAAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCT
2243306 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCT
2243358 TTTCAATAAACTGGGGCATAAGCCCTTTT
1 TTTCAATAAACTGGGGCATAAGCCCTTTT
2243387 GCACTTCCTC
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
49 6 0.08
50 11 0.14
51 24 0.31
52 36 0.47
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (51 bp):
TTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAAAGCCCT
Found at i:2243461 original size:20 final size:20
Alignment explanation
Indices: 2243436--2243510 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
2243426 TTATGAATTC
*
2243436 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
2243456 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
2243476 GTCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
2243496 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
2243511 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:2243566 original size:25 final size:25
Alignment explanation
Indices: 2243538--2243585 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2243528 ATAATTAAAC
* * *
2243538 CCTAGGGGTATAATAGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
2243563 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
2243586 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:2252146 original size:38 final size:38
Alignment explanation
Indices: 2252103--2252179 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
2252093 TTTCAAATTA
*
2252103 ACATGTATAACCATGGCATAACCACTTAGCACCATGTT
1 ACATGTATAACCATGGCATAACCACTTAGCACCACGTT
* * *
2252141 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATAACCACTTAGCACCACGTT
2252179 A
1 A
2252180 ATGAATCAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCATGGCATAACCACTTAGCACCACGTT
Found at i:2254076 original size:13 final size:13
Alignment explanation
Indices: 2254058--2254086 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2254048 CGGGTACACT
2254058 CTGGTCTATCAGG
1 CTGGTCTATCAGG
2254071 CTGGTCTATCAGG
1 CTGGTCTATCAGG
2254084 CTG
1 CTG
2254087 AAAACTGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.31
Consensus pattern (13 bp):
CTGGTCTATCAGG
Found at i:2256854 original size:55 final size:53
Alignment explanation
Indices: 2256672--2256918 Score: 224
Period size: 55 Copynumber: 4.7 Consensus size: 53
2256662 ACCTTACCAT
* * * *
2256672 TGCCATGACTTGTCATGGTCTTACGTGGTATCC--G--TT-T-GAAACTTACTAT
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACTTAC-AA
* * *
2256721 TGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACTAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTAC-AA
* *
2256774 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTTA-CAA
* * *
2256829 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGA-AACCTTACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAA-CTTA-CAA
* *
2256883 TTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
2256919 AAACCCTAAT
Statistics
Matches: 165, Mismatches: 21, Indels: 18
0.81 0.10 0.09
Matches are distributed among these distances:
49 29 0.18
51 1 0.01
52 2 0.01
53 47 0.28
54 10 0.06
55 73 0.44
56 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACAA
Found at i:2266408 original size:39 final size:40
Alignment explanation
Indices: 2266308--2266492 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
2266298 TCGAATGATG
* * * *
2266308 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
2266347 ATCAGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
2266388 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
2266427 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
2266466 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
2266493 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:2266514 original size:79 final size:79
Alignment explanation
Indices: 2266361--2266515 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
2266351 GGACTAAGAT
** **
2266361 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
2266426 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
2266440 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
2266503 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
2266516 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:2270312 original size:35 final size:35
Alignment explanation
Indices: 2270273--2270342 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
2270263 AGTAAGGGTA
2270273 AAACCATCGTAAATTATCGATAAGGACGGACTATT
1 AAACCATCGTAAATTATCGATAAGGACGGACTATT
*
2270308 AAACCATCGTAAATTATTGATAAGGACGGACTATT
1 AAACCATCGTAAATTATCGATAAGGACGGACTATT
2270343 TGCGGAACCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (35 bp):
AAACCATCGTAAATTATCGATAAGGACGGACTATT
Found at i:2270804 original size:43 final size:43
Alignment explanation
Indices: 2270751--2270906 Score: 249
Period size: 43 Copynumber: 3.6 Consensus size: 43
2270741 GCTGGTATTA
* * * *
2270751 TATTTGGGCCTTCGTGCCTAGCAGGCTTTGTGCCGTTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
2270794 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
2270837 TATTCGGGCTTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
2270880 TATTCGGGCTTTCATGCCTAGCAGGCT
1 TATTCGGGCCTTCATGCCTAGCAGGCT
2270907 ATGATGCTGG
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.11, C:0.24, G:0.32, T:0.33
Consensus pattern (43 bp):
TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:2270944 original size:45 final size:46
Alignment explanation
Indices: 2270794--2270985 Score: 120
Period size: 43 Copynumber: 4.3 Consensus size: 46
2270784 CGTTGATGTG
* ** * *
2270794 TATTCGGGCC-TTCATGCCTAGCAGGCT-TCGTGCCGGTGATG-T-G
1 TATTCGGGCCTTTGATGCCTAGCAGGCTATAATACCGGTGA-GATAC
** * *
2270837 TATTCGGG-CTTTCG-TGCCTAGCAGGCT-TCGTGCCGGTGATG-T-G
1 TATTCGGGCCTTT-GATGCCTAGCAGGCTATAATACCGGTGA-GATAC
* * * *
2270880 TATTCGGG-CTTTCATGCCTAGCAGGCTATGATGCTGGTG-GAATAC
1 TATTCGGGCCTTTGATGCCTAGCAGGCTATAATACCGGTGAG-ATAC
*
2270925 TATTCGGGCCTTTGA-GCCTAGCATGCTATAATACCGGTGAGATAC
1 TATTCGGGCCTTTGATGCCTAGCAGGCTATAATACCGGTGAGATAC
* *
2270970 TATTCAGGCTTTTGAT
1 TATTCGGGCCTTTGAT
2270986 ATCGGGCCTC
Statistics
Matches: 126, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
42 2 0.02
43 64 0.51
44 9 0.07
45 45 0.36
46 6 0.05
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (46 bp):
TATTCGGGCCTTTGATGCCTAGCAGGCTATAATACCGGTGAGATAC
Found at i:2276365 original size:45 final size:45
Alignment explanation
Indices: 2276258--2276405 Score: 133
Period size: 45 Copynumber: 3.3 Consensus size: 45
2276248 GCTGGTATTA
* * * ** *
2276258 TATTTGGGCCTTCGTGCCTAGTAGGCT-TTGTGCCGGTGATG-T-G
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-GATAC
* * * *
2276301 TATTCGGGCCTTCGTGCCTAGTAGGCTATGATGCTGGTG-GAATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAG-ATAC
* *
2276346 TATTCGGGCCTTTGAGCCTAGCATGCTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
*
2276391 TATTCGGGCTTTCGA
1 TATTCGGGCCTTCGA
2276406 TATCGGGCCT
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 26 0.30
44 9 0.10
45 50 0.57
46 1 0.01
ACGTcount: A:0.16, C:0.20, G:0.30, T:0.33
Consensus pattern (45 bp):
TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGATAC
Found at i:2284871 original size:31 final size:31
Alignment explanation
Indices: 2284833--2284894 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2284823 GCTATCTTTT
* * *
2284833 TGGCTGATTTGATGGAACTGACTTTTGGGGA
1 TGGCTGATCTAATGGAACTGACATTTGGGGA
* *
2284864 TGGCTGATCTAATGGAGCTGCCATTTGGGGA
1 TGGCTGATCTAATGGAACTGACATTTGGGGA
2284895 GTTCAACCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.19, C:0.13, G:0.35, T:0.32
Consensus pattern (31 bp):
TGGCTGATCTAATGGAACTGACATTTGGGGA
Found at i:2293557 original size:25 final size:25
Alignment explanation
Indices: 2293528--2293576 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2293518 ATTTGCAAGA
* * *
2293528 AACAAGTGAGATTTGCATGTATATC
1 AACAAGTAAGAATTCCATGTATATC
*
2293553 AACAATTAAGAATTCCATGTATAT
1 AACAAGTAAGAATTCCATGTATAT
2293577 TAAGAATTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (25 bp):
AACAAGTAAGAATTCCATGTATATC
Found at i:2303006 original size:29 final size:29
Alignment explanation
Indices: 2302932--2303008 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
2302922 TGAACGTGAC
* * * *
2302932 TGGGCCTAACGGGTCAAATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
2302961 TGGGCCTAATGGGCCATATATAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
2302990 TGGGCCTAATGGGCCATAT
1 TGGGCCTAATGGGCCATAT
2303009 GAATATGAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:2305640 original size:18 final size:19
Alignment explanation
Indices: 2305606--2305641 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
2305596 CCAGTAGTAG
2305606 ACCAAGGTGGTGCTCAGCC
1 ACCAAGGTGGTGCTCAGCC
*
2305625 ACCAAGG-GGTGGTCAGC
1 ACCAAGGTGGTGCTCAGC
2305642 TGCCGCCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.22, C:0.28, G:0.36, T:0.14
Consensus pattern (19 bp):
ACCAAGGTGGTGCTCAGCC
Found at i:2310726 original size:29 final size:29
Alignment explanation
Indices: 2310689--2310765 Score: 127
Period size: 29 Copynumber: 2.7 Consensus size: 29
2310679 TGAATGTAAC
* *
2310689 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
*
2310718 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAAGGTGATT
2310747 TGGGCCTAATGGGCCATAT
1 TGGGCCTAATGGGCCATAT
2310766 GAATATGAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAAGGTGATT
Found at i:2310761 original size:58 final size:57
Alignment explanation
Indices: 2310689--2310799 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
2310679 TGAATGTAAC
* * * *
2310689 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGGGCCATATAAATATGA-ATGGACCTAATGGGCCAGATACAGGTGATT
* * *
2310747 TGGGCCTAATGGGCCATATGAATATGAATGGACTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGGGCCATATAAATATGAATGGACCTAATGGGCCAGATACAGGT
2310800 ATGTGAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 22 0.48
58 24 0.52
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (57 bp):
TGGGCCTAACGGGCCATATAAATATGAATGGACCTAATGGGCCAGATACAGGTGATT
Found at i:2315646 original size:42 final size:42
Alignment explanation
Indices: 2315585--2315679 Score: 127
Period size: 42 Copynumber: 2.3 Consensus size: 42
2315575 CTAAGTCTAT
* * * *
2315585 GTGTACGACCATATTTGGGATATAGCATCGATATGAGATTTC
1 GTGTAAGACCACATCTGGGATACAGCATCGATATGAGATTTC
* * *
2315627 GTGTAAGACCACATCTGGGATGCGGCATCGATATGAGATTTT
1 GTGTAAGACCACATCTGGGATACAGCATCGATATGAGATTTC
2315669 GTGTAAGACCA
1 GTGTAAGACCA
2315680 TAGCCATGTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCACATCTGGGATACAGCATCGATATGAGATTTC
Found at i:2321638 original size:44 final size:45
Alignment explanation
Indices: 2321528--2321697 Score: 217
Period size: 45 Copynumber: 3.9 Consensus size: 45
2321518 TTTTATCAAA
* * * **
2321528 TCACCGGCATT-CAGCCTGCTAGGTTTAAAAACCCGAAT--TCA-T
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATT
*
2321570 TCACCGGCATT-TCGCCTGCTAGGCTC-AAGGCCCGAATAATATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATT
* *
2321613 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGACTATTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATT
2321658 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
2321698 GTACTGTACA
Statistics
Matches: 113, Mismatches: 10, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
41 9 0.08
42 23 0.20
43 13 0.12
44 14 0.12
45 54 0.48
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATT
Found at i:2330218 original size:47 final size:48
Alignment explanation
Indices: 2330132--2330227 Score: 122
Period size: 47 Copynumber: 2.0 Consensus size: 48
2330122 CCTGTGTGAG
* * *
2330132 GTGGCTTAGGCCGTGTTTAGAGTCTACTAAATAGACACGGACGTGTGGT
1 GTGGCTTAGGCCG-GTTTACAATCTACTAAAAAGACACGGACGTGTGGT
** *
2330181 GTGGCTTAGGCC-GTTTACAATCTGTTAAAAAGACACGGGCGTGTGGT
1 GTGGCTTAGGCCGGTTTACAATCTACTAAAAAGACACGGACGTGTGGT
2330228 TTACCCGTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 29 0.71
49 12 0.29
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (48 bp):
GTGGCTTAGGCCGGTTTACAATCTACTAAAAAGACACGGACGTGTGGT
Found at i:2338452 original size:27 final size:27
Alignment explanation
Indices: 2338422--2338599 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
2338412 ATATTGAGCC
* *
2338422 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
2338449 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
2338476 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
2338504 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
2338531 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
2338558 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
2338585 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
2338600 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:2338561 original size:82 final size:81
Alignment explanation
Indices: 2338443--2338598 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
2338433 TGCTATATAA
* * *
2338443 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
2338508 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
2338525 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
2338589 CCCTTAGTGC
65 CCCTTAGTGC
2338599 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:2353921 original size:29 final size:28
Alignment explanation
Indices: 2353869--2353924 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 28
2353859 CATGGCCAAG
2353869 ACACACGCCCGTGTTCTAAGCCGTGTGGC
1 ACACACGCCCGTGTTCT-AGCCGTGTGGC
2353898 ACACACGCCCGTGTCTCT-GCCCGTGTG
1 ACACACGCCCGTGT-TCTAG-CCGTGTG
2353925 CTCAATTCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 1 0.04
29 21 0.84
30 3 0.12
ACGTcount: A:0.14, C:0.38, G:0.27, T:0.21
Consensus pattern (28 bp):
ACACACGCCCGTGTTCTAGCCGTGTGGC
Found at i:2356710 original size:51 final size:51
Alignment explanation
Indices: 2356631--2356740 Score: 184
Period size: 51 Copynumber: 2.2 Consensus size: 51
2356621 CTACTTGCAG
* *
2356631 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCATCAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTGCAAAATCAACAGCATATTCAT
* *
2356682 CAGCAATATTATCTACTCCATCTAATGTTGCAAAATCAACAGCATATTCAT
1 CAGCAACATTATCCACTCCATCTAATGTTGCAAAATCAACAGCATATTCAT
2356733 CAGCAACA
1 CAGCAACA
2356741 ACTTCACTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.28
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTAATGTTGCAAAATCAACAGCATATTCAT
Found at i:2357673 original size:117 final size:117
Alignment explanation
Indices: 2357464--2358025 Score: 732
Period size: 117 Copynumber: 4.8 Consensus size: 117
2357454 GGTAACATAA
* * * *
2357464 ATCAACAACATCG-GGACCACTGTCGAATTAGAAATTGACAAAACAAACCCTACATTGTGGCACT
1 ATCAACAACATTGAGG-CCACTGTCGCATTACAAATCGACAAAACAAACCCTACATTGTGGCACT
* * * * *
2357528 AAAATTGCAATAATAGATCACAAGTAACCATCTACATTTTTAGCAACAGTTTT
65 GAAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGTTTT
* * * *
2357581 ATCAACAACATTGAGGCCACTGTCGTATCAAAAATCGACAAAACAAACCCTACATTGTAGCACTG
1 ATCAACAACATTGAGGCCACTGTCGCATTACAAATCGACAAAACAAACCCTACATTGTGGCACTG
* *
2357646 AAATTGAAATAATAAATCACAAATAACCATCTACATTTTTAACAACAGTTTT
66 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGTTTT
* * * * * *
2357698 ATCAACAACATTGAGACCACTATCGCATTACAAATAGATAGAACAAACCCTACATTGTAGCACTG
1 ATCAACAACATTGAGGCCACTGTCGCATTACAAATCGACAAAACAAACCCTACATTGTGGCACTG
* * * *
2357763 AAATTGCAATAATAAATCACAAAAAACCCTCTATAATTTTAACAATAGTTTT
66 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGTTTT
* * * *
2357815 ATCAACAACATTGAGACTACTGTCGCATCACAAGTCGACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATTGAGGCCACTGTCGCATTACAAATCGACAAAACAAACCCTACATTGTGGCACTG
* * * *
2357880 AAATTGCAATAATAAATCACAGATAACAATCTACAATTTGAACAACAGCTTT
66 AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGTTTT
* * * * *
2357932 ATCAACAACATCG-GGACCACTGTTGCATTACAAATCGATAAAACAAACCCCACATTGTGGCATT
1 ATCAACAACATTGAGG-CCACTGTCGCATTACAAATCGACAAAACAAACCCTACATTGTGGCACT
* *
2357996 GAAATTGTAATAATAAATGACAAATAACCA
65 GAAATTGCAATAATAAATCACAAATAACCA
2358026 ACAAACCAAA
Statistics
Matches: 389, Mismatches: 54, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
116 1 0.00
117 386 0.99
118 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.25
Consensus pattern (117 bp):
ATCAACAACATTGAGGCCACTGTCGCATTACAAATCGACAAAACAAACCCTACATTGTGGCACTG
AAATTGCAATAATAAATCACAAATAACCATCTACAATTTTAACAACAGTTTT
Found at i:2360346 original size:40 final size:40
Alignment explanation
Indices: 2360297--2360393 Score: 128
Period size: 40 Copynumber: 2.4 Consensus size: 40
2360287 CTATCTCGGT
2360297 ATCGCACACTTAGTGCCTCA-TATAGCCGAAGCTA-TTCCA
1 ATCGCACACTTAGTGCCT-ATTATAGCCGAAGCTATTTCCA
**
2360336 ATTCGCACACTTAGTG-CTATTTATAGCCGAAGCTATTTTGA
1 A-TCGCACACTTAGTGCCTA-TTATAGCCGAAGCTATTTCCA
2360377 ATCGCACACTTAGTGCC
1 ATCGCACACTTAGTGCC
2360394 AAACATAGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
38 1 0.02
39 3 0.06
40 42 0.82
41 5 0.10
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCTATTATAGCCGAAGCTATTTCCA
Found at i:2364520 original size:40 final size:40
Alignment explanation
Indices: 2364475--2364587 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 40
2364465 TATAACCACA
* *
2364475 AGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACT
* * *
2364515 CGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACT
* * * *
2364555 AGCATAAATGCCTTCGGGACTTAGCGCGGATAT
1 AGCACAAATGCCTTCGGGTCTTAACCCGGATAT
2364588 CATTCAAATG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
AGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACT
Found at i:2368876 original size:14 final size:13
Alignment explanation
Indices: 2368853--2368884 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
2368843 GGGATATCAA
2368853 AACAATAATTAAG
1 AACAATAATTAAG
2368866 AACACATAATTAAG
1 AACA-ATAATTAAG
2368880 AACAA
1 AACAA
2368885 ATCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.19
Consensus pattern (13 bp):
AACAATAATTAAG
Found at i:2377503 original size:13 final size:13
Alignment explanation
Indices: 2377485--2377524 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
2377475 GCTCGGCAGG
2377485 GACACGCCCGTGT
1 GACACGCCCGTGT
*
2377498 GACACGCTCGTGT
1 GACACGCCCGTGT
*
2377511 GATACGCCCGTGT
1 GACACGCCCGTGT
2377524 G
1 G
2377525 CGATTACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.20
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:2388224 original size:29 final size:27
Alignment explanation
Indices: 2388185--2388238 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
2388175 TTCCATTTAA
* *
2388185 TTCACATTTTAGTCCCTCAATTACTCATT
1 TTCACAATTTAG-CCC-AAATTACTCATT
2388214 TTCACAATTTAGCCCAAATTACTCA
1 TTCACAATTTAGCCCAAATTACTCA
2388239 AATTCTTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 3 0.13
29 11 0.48
ACGTcount: A:0.30, C:0.28, G:0.04, T:0.39
Consensus pattern (27 bp):
TTCACAATTTAGCCCAAATTACTCATT
Found at i:2404973 original size:40 final size:40
Alignment explanation
Indices: 2404878--2405095 Score: 284
Period size: 40 Copynumber: 5.5 Consensus size: 40
2404868 TTGATGATAA
* *
2404878 CCGGGCTAAGTCCCGGAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
2404919 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
2404959 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
2404999 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
2405039 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
2405078 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
2405096 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 13, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
38 15 0.09
39 15 0.09
40 104 0.65
41 23 0.14
42 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:2407531 original size:47 final size:47
Alignment explanation
Indices: 2407462--2407573 Score: 181
Period size: 47 Copynumber: 2.4 Consensus size: 47
2407452 NNNNNNNNNN
*
2407462 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
2407509 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
2407556 CTTATCACATATACACAC
1 CTTATCTCATATATACAC
2407574 CTTGTACATC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.02
47 60 0.98
ACGTcount: A:0.29, C:0.30, G:0.06, T:0.34
Consensus pattern (47 bp):
CTTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:2409311 original size:37 final size:37
Alignment explanation
Indices: 2409270--2409343 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
2409260 GGTGAGGTTA
*
2409270 TTATAATTTAACCTCTATTTCCGAATGCCCCCTTCTC
1 TTATAATTTAACCTCTATTTCCGAATGCCCCATTCTC
2409307 TTATAATTTAACCTCTATTTCCGAATGCCCCATTCTC
1 TTATAATTTAACCTCTATTTCCGAATGCCCCATTCTC
2409344 CATAAAACCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.05, T:0.41
Consensus pattern (37 bp):
TTATAATTTAACCTCTATTTCCGAATGCCCCATTCTC
Found at i:2409932 original size:265 final size:262
Alignment explanation
Indices: 2409462--2409967 Score: 960
Period size: 265 Copynumber: 1.9 Consensus size: 262
2409452 ATAAAACATA
*
2409462 AAGGTTTAATGTTCATCTTTAACACAATTATCACACTTCAAACTAAATTTTCAGCTTCATATATC
1 AAGGTTTAATGTTCATCTTTAACACAATTACCACACTTCAAACTAAATTTTCAGCTTCATATATC
2409527 CCACACCAGATTTTTTTTCCATGCTCAATTTCCATGGCCAAATGAAACTATGCCCTAATTCATGA
66 CCACACCAGATTTTTTTTCCATGCTCAATTTCCATGGCCAAATGAAACTATGCCCTAATTCATGA
2409592 ACTTAAACAACATTGGCCAACTTTCCAAGCTCATTTGAGCCATCAAGCACATTTAGTTTGTTCAT
131 ACTTAAACAACATTGGCCAACTTTCCAAGCTCATTTGAGCCATCAAGCACATTTAGTTTGTTCAT
2409657 ACTCAACTAGAATCAATTATCCTCCCAAAATCATCAAACATACAAAGGTTAAACTAAATCATGCT
196 ACTCAACTAGAATCAATTATCCTCCCAAAATCATCAAACATACAAAGGTTAAACTAAATCATGCT
2409722 TT
261 TT
2409724 AAGGTTTAATGTTCATCTTTAACACAATTACCACACTTCAAACTAAATTTTCAGCTTCATATATC
1 AAGGTTTAATGTTCATCTTTAACACAATTACCACACTTCAAACTAAATTTTCAGCTTCATATATC
2409789 CCACACCAGATTTTTTTTTTTCCATGCTCAATTTCTC-TGGCCAAATGAAACTATGCCCTAATTC
66 CCACACCAGA---TTTTTTTTCCATGCTCAATTTC-CATGGCCAAATGAAACTATGCCCTAATTC
2409853 ATGAACTTAAACAACATTGGCCAACTTTCCAAGCTCATTTGAGCCATCAAGCACATTTAGTTTGT
127 ATGAACTTAAACAACATTGGCCAACTTTCCAAGCTCATTTGAGCCATCAAGCACATTTAGTTTGT
2409918 TCATACTCAACTAGAATCAATTATCCTCCCAAAATCATCAAACATACAAA
192 TCATACTCAACTAGAATCAATTATCCTCCCAAAATCATCAAACATACAAA
2409968 ATATACCCCA
Statistics
Matches: 239, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
262 74 0.31
265 164 0.69
266 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (262 bp):
AAGGTTTAATGTTCATCTTTAACACAATTACCACACTTCAAACTAAATTTTCAGCTTCATATATC
CCACACCAGATTTTTTTTCCATGCTCAATTTCCATGGCCAAATGAAACTATGCCCTAATTCATGA
ACTTAAACAACATTGGCCAACTTTCCAAGCTCATTTGAGCCATCAAGCACATTTAGTTTGTTCAT
ACTCAACTAGAATCAATTATCCTCCCAAAATCATCAAACATACAAAGGTTAAACTAAATCATGCT
TT
Found at i:2411894 original size:40 final size:40
Alignment explanation
Indices: 2411815--2412128 Score: 450
Period size: 40 Copynumber: 7.9 Consensus size: 40
2411805 ATTTTTTCCA
* *
2411815 AGCACGAATGC-CTTCGGGGCTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
* * *
2411854 AGCACGAATGCTCTTTGGGACTTAGCCCGGGTATACCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
* * * *
2411894 AACACGAATGCTCTTCGGGACTTAGTCCGGGTGTATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
* * *
2411934 AGCACGAATGCTCTTCAGAACTTAGCCCGGGTATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
* * *
2411974 AGCACGAATGCTCTTCGGAACTTATCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
* * *
2412014 AGCATGAATGCTCTTCGGGACCTAGTCCGGATATATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
*
2412054 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACC
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
2412094 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 AGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
2412129 ACATACTGAA
Statistics
Matches: 244, Mismatches: 30, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
39 11 0.05
40 233 0.95
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGGGACTTAGCCCGGATATATCACC
Found at i:2414043 original size:47 final size:47
Alignment explanation
Indices: 2413980--2414141 Score: 225
Period size: 47 Copynumber: 3.4 Consensus size: 47
2413970 CCCTTCGGGA
* * *
2413980 CTTATCACATTTATACACCTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACCTTCACATCCATCACATTGGCCATTAGGT
* *
2414027 CTTATCACATAAATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACCTTCACATCCATCACATTGGCCATTAGGT
* * * *
2414074 CTTCTCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACCTTCACATCCATCACATTGGCCATTAGGT
* *
2414121 CTTATCTCATATACACACCTT
1 CTTATCACATATATACACCTT
2414142 GTACATCAAT
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 101 1.00
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATCCATCACATTGGCCATTAGGT
Found at i:2414319 original size:47 final size:47
Alignment explanation
Indices: 2414262--2414365 Score: 181
Period size: 47 Copynumber: 2.2 Consensus size: 47
2414252 GATGCTCATT
* *
2414262 ATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
2414309 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
2414356 ATATACACAC
1 ATATACACAC
2414366 CTTGTACATC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
ATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:2420987 original size:28 final size:28
Alignment explanation
Indices: 2420947--2421007 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
2420937 ACTATTATAT
*
2420947 CCCTATGTATGCAAAATTACCATAATAC
1 CCCTATGTATGCAAAATGACCATAATAC
* *
2420975 CCCTATGTATGCAAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATAATAC
2421003 CCCTA
1 CCCTA
2421008 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATAATAC
Found at i:2421172 original size:27 final size:27
Alignment explanation
Indices: 2421114--2421203 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
2421104 AGGAAGCGTC
2421114 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
2421142 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
2421169 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
2421198 CTGGTG
1 CTGGTG
2421204 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:2421222 original size:55 final size:56
Alignment explanation
Indices: 2421114--2421228 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
2421104 AGGAAGCGTC
* *
2421114 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
2421169 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
2421225 CTGG
1 CTGG
2421229 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:2424016 original size:47 final size:47
Alignment explanation
Indices: 2423962--2424059 Score: 196
Period size: 47 Copynumber: 2.1 Consensus size: 47
2423952 GCTTAGTAAG
2423962 TTTATAATGAAATTTTAAACCAAGTTTCCTCAATCACGTAGCTGAAA
1 TTTATAATGAAATTTTAAACCAAGTTTCCTCAATCACGTAGCTGAAA
2424009 TTTATAATGAAATTTTAAACCAAGTTTCCTCAATCACGTAGCTGAAA
1 TTTATAATGAAATTTTAAACCAAGTTTCCTCAATCACGTAGCTGAAA
2424056 TTTA
1 TTTA
2424060 AACAAGTAAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 51 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (47 bp):
TTTATAATGAAATTTTAAACCAAGTTTCCTCAATCACGTAGCTGAAA
Found at i:2426140 original size:26 final size:26
Alignment explanation
Indices: 2426101--2426167 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
2426091 TTAATATTAA
*
2426101 ATTAATATAATATT-TATCAAGATAAAT
1 ATTAA-ATTATATTATATCAA-ATAAAT
* *
2426128 ATTAGATTATATTATATTAAATAAAT
1 ATTAAATTATATTATATCAAATAAAT
*
2426154 ATTAAATTAAATTA
1 ATTAAATTATATTA
2426168 AATATTAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 25 0.74
27 9 0.26
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (26 bp):
ATTAAATTATATTATATCAAATAAAT
Found at i:2426453 original size:17 final size:17
Alignment explanation
Indices: 2426418--2426450 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
2426408 TTAAGATAAG
*
2426418 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
2426435 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
2426451 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:2426513 original size:197 final size:197
Alignment explanation
Indices: 2426177--2426571 Score: 727
Period size: 197 Copynumber: 2.0 Consensus size: 197
2426167 AAATATTAGG
*
2426177 ATAATCACTTTAATATTAAATTAATAAAATACTATTAAGGTAAGTATTAAATTCAATTTAATATT
1 ATAATCACTTTAATATTAAATTAATAAAATACTATTAAGATAAGTATTAAATTCAATTTAATATT
*
2426242 AAATCTATTAAAATAATATTATTTTTGGAATAGTTACTCTGATACCAAATTTTCTAGTAGAGTCT
66 AAATCTATTAAAATAATATTATTTTTGAAATAGTTACTCTGATACCAAATTTTCTAGTAGAGTCT
2426307 CAATAGGAGTGTAATTCTTCCATTGCTCACCCACCGAAAACCCATCACCACCGACCATTTACCGG
131 CAATAGGAGTGTAATTCTTCCATTGCTCACCCACCGAAAACCCATCACCACCGACCATTTACCGG
2426372 CC
196 CC
*
2426374 ATAATCACTTTAATATTAAATTAATAAAATACTATTAAGATAAGTATTAAATTTAATTTAATATT
1 ATAATCACTTTAATATTAAATTAATAAAATACTATTAAGATAAGTATTAAATTCAATTTAATATT
* *
2426439 AAATTTATTAAAATAATATTATTTTTGAAATAGTTACTCTGATACCAAATTTTCTAGTATAGTCT
66 AAATCTATTAAAATAATATTATTTTTGAAATAGTTACTCTGATACCAAATTTTCTAGTAGAGTCT
* *
2426504 CAGTAGGAGTGTAATTCTTCCATTGCTCACCCACCGAAAACCCATCACCACCGACCATTTACTGG
131 CAATAGGAGTGTAATTCTTCCATTGCTCACCCACCGAAAACCCATCACCACCGACCATTTACCGG
2426569 CC
196 CC
2426571 A
1 A
2426572 CTGGAATGCC
Statistics
Matches: 191, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
197 191 1.00
ACGTcount: A:0.38, C:0.17, G:0.09, T:0.35
Consensus pattern (197 bp):
ATAATCACTTTAATATTAAATTAATAAAATACTATTAAGATAAGTATTAAATTCAATTTAATATT
AAATCTATTAAAATAATATTATTTTTGAAATAGTTACTCTGATACCAAATTTTCTAGTAGAGTCT
CAATAGGAGTGTAATTCTTCCATTGCTCACCCACCGAAAACCCATCACCACCGACCATTTACCGG
CC
Found at i:2431859 original size:33 final size:33
Alignment explanation
Indices: 2431817--2431882 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2431807 AAAAGGTAAA
2431817 AAAAATGGGTAGTCTAAAAAGACAATTAGCTTC
1 AAAAATGGGTAGTCTAAAAAGACAATTAGCTTC
*
2431850 AAAAATGGGTAGTCTAAAAAGACAATTGGCTTC
1 AAAAATGGGTAGTCTAAAAAGACAATTAGCTTC
2431883 TCCTCAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (33 bp):
AAAAATGGGTAGTCTAAAAAGACAATTAGCTTC
Found at i:2437650 original size:6 final size:6
Alignment explanation
Indices: 2437639--2437667 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
2437629 ATAGGTTTCC
2437639 AAATGG AAATGG AAATGG AAATGG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG
2437668 AGTCATTTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:2441455 original size:18 final size:18
Alignment explanation
Indices: 2441427--2441461 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2441417 TAATAATAAT
2441427 AAATTGA-TTTTTAAATA
1 AAATTGATTTTTTAAATA
2441444 AAATTAGATTTTTTAAAT
1 AAATT-GATTTTTTAAAT
2441462 TTAGTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 2 0.12
19 9 0.56
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
AAATTGATTTTTTAAATA
Found at i:2444063 original size:20 final size:20
Alignment explanation
Indices: 2444038--2444080 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
2444028 TTCTATTAGG
2444038 ATGGGAATACATTGAGGACA
1 ATGGGAATACATTGAGGACA
2444058 ATGGGAATACATTGAGGACA
1 ATGGGAATACATTGAGGACA
2444078 ATG
1 ATG
2444081 TGCACTCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.30, T:0.21
Consensus pattern (20 bp):
ATGGGAATACATTGAGGACA
Found at i:2456538 original size:28 final size:27
Alignment explanation
Indices: 2456505--2456557 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
2456495 TTAGAATACT
*
2456505 TTAGTTTACTAAAATTACCGAAATACGC
1 TTAGTTT-CTAAAAATACCGAAATACGC
* *
2456533 TTAGTTTGTAAAAATACTGAAATAC
1 TTAGTTTCTAAAAATACCGAAATAC
2456558 CCTCGATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (27 bp):
TTAGTTTCTAAAAATACCGAAATACGC
Found at i:2456544 original size:27 final size:27
Alignment explanation
Indices: 2456514--2456612 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
2456504 TTTAGTTTAC
2456514 TAAAATTACCGAAATACGCTTAG-TTTG
1 TAAAATTACCGAAATAC-CTTAGATTTG
* * * *
2456541 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
2456568 TAAAATTACTGAAATACCTTTGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
2456595 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
2456613 CCCGATTTAC
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 6 0.10
27 55 0.90
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:2456613 original size:54 final size:54
Alignment explanation
Indices: 2456514--2456620 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
2456504 TTTAGTTTAC
* * *
2456514 TAAAATTACCGAAATACGCTTAGTTTGTAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
* * *
2456568 TAAAATTACTGAAATAC-CTTTGACTTGTAAAATTAC-CAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACGCTTAG-CTTGTAAAAATACTCAAA-TACCCCCGATTT
2456621 ACAGAATTAC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 7 0.16
54 38 0.84
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (54 bp):
TAAAATTACCGAAATACGCTTAGCTTGTAAAAATACTCAAATACCCCCGATTTG
Found at i:2456794 original size:27 final size:27
Alignment explanation
Indices: 2456609--2456792 Score: 208
Period size: 27 Copynumber: 6.8 Consensus size: 27
2456599 ATTACCAAAG
*
2456609 TACCCCCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
2456636 TACCCCCGATTTATATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
2456663 TAACCC-CGATTTACATAATTACCGTTT
1 T-ACCCTCGATTTACAGAATTACCATTT
* *
2456690 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
2456717 TACCCTCGACTTACAAAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
2456744 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
2456771 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
2456793 TAGAATACCC
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
26 4 0.03
27 127 0.94
28 4 0.03
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:2456801 original size:27 final size:27
Alignment explanation
Indices: 2456744--2456803 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
2456734 AGTACCGTTT
* * * ***
2456744 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAGAA
2456771 TACCCTCGATTTACAAAATTACTAGAA
1 TACCCTCGATTTACAAAATTACTAGAA
2456798 TACCCT
1 TACCCT
2456804 AGTCTGTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAGAA
Found at i:2456803 original size:54 final size:54
Alignment explanation
Indices: 2456609--2456792 Score: 244
Period size: 54 Copynumber: 3.4 Consensus size: 54
2456599 ATTACCAAAG
* * * ** *
2456609 TACCCCCGATTTACAGAATTACCATTTTACCCCCGATTTATATAATTACCATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTT
* * *
2456663 TAACCC-CGATTTACATAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTT
1 T-ACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTT
* * *
2456717 TACCCTCGACTTACAAAAGTACCGTTTTACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTT
2456771 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
2456793 TAGAATACCC
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 4 0.04
54 105 0.93
55 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTTGATTTATAGAATTACCATTT
Found at i:2456842 original size:27 final size:27
Alignment explanation
Indices: 2456785--2456963 Score: 175
Period size: 27 Copynumber: 6.7 Consensus size: 27
2456775 CTCGATTTAC
* * *
2456785 AAAATTACTAGAATACCC-TAGTCTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
*** *
2456811 AAAATTGTTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
2456838 AAAATTA-CATAAATACCCTCAATTTGT
1 AAAATTACCA-AAATACCCTTAGTTTGT
*
2456865 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
*
2456892 AAAATTACCAAAATACCAC-TGGTTTGT
1 AAAATTACCAAAATACC-CTTAGTTTGT
* * * * *
2456919 GAAATTACCGATATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
2456946 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
2456964 CTGATTTACA
Statistics
Matches: 125, Mismatches: 23, Indels: 9
0.80 0.15 0.06
Matches are distributed among these distances:
26 17 0.14
27 105 0.84
28 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:2456915 original size:81 final size:81
Alignment explanation
Indices: 2456771--2456965 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 81
2456761 ATTACTATTT
* ** * * ***
2456771 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAGTCTGTAAAATTGTTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
*
2456835 TGTAAAATTACATAAA
66 TGTAAAATTACAGAAA
*
2456851 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTGGT
* * *
2456915 TTGTGAAATTACCGATA
65 TTGTAAAATTACAGAAA
2456932 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
2456966 GATTTACAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 24 0.24
81 75 0.75
82 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:2456987 original size:81 final size:81
Alignment explanation
Indices: 2456771--2456993 Score: 242
Period size: 81 Copynumber: 2.8 Consensus size: 81
2456761 ATTACTATTT
* ** * * ***
2456771 TACCCTCGATTTACAAAATTACTAGAATA-CCCTAG-TCTGTAAAATTGTTAAAATACCCTTGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGAT-TGTAAAATTACCAAAATACCCTTGGT
*
2456834 TTGTAAAATTACATAAA
65 TTGTAAAATTACAGAAA
*
2456851 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TGGT
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACC-CTTGGT
* * *
2456915 TTGTGAAATTACCGATA
65 TTGTAAAATTACAGAAA
2456932 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CAGAAATACCCTTG
1 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA-AAATACCCTTG
2456994 ACTTTCTAAA
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
79 2 0.02
80 33 0.27
81 86 0.70
82 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTGGTT
TGTAAAATTACAGAAA
Found at i:2456989 original size:54 final size:54
Alignment explanation
Indices: 2456833--2456991 Score: 150
Period size: 54 Copynumber: 2.9 Consensus size: 54
2456823 ATACCCTTGG
* *
2456833 TTTGTAAAATTA-CATAAATACC-CTCAATTTGTA-AAATTACCA-AAATACCC-CTAG
1 TTTGTAAAATTACCA-AAATACCACT-GATTTG-ACAAATTA-CAGAAATACCCTC-AA
* ** * *
2456887 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGATATACCCTCAA
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAATACCCTCAA
*
2456941 TTTGTAAAATTACCAAAATACCCCTGATTT-ACAAAGTTACAGAAATACCCT
1 TTTGTAAAATTACCAAAATACCACTGATTTGACAAA-TTACAGAAATACCCT
2456992 TGACTTTCTA
Statistics
Matches: 87, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
53 4 0.05
54 78 0.90
55 5 0.06
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTGATTTGACAAATTACAGAAATACCCTCAA
Found at i:2457041 original size:27 final size:27
Alignment explanation
Indices: 2457002--2457053 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
2456992 TGACTTTCTA
2457002 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
2457029 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
2457054 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:2457137 original size:27 final size:27
Alignment explanation
Indices: 2457107--2457195 Score: 108
Period size: 27 Copynumber: 3.3 Consensus size: 27
2457097 ACCCCTATTA
*
2457107 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
2457134 GGTACAGTGACCGTAAAGCCCTTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
2457161 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
2457188 GGTAAAAT
1 GGTAAAAT
2457196 AACGAATATG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:2458453 original size:9 final size:9
Alignment explanation
Indices: 2458441--2458497 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
2458431 TTTGATAAAC
2458441 ATGATATGT
1 ATGATATGT
*
2458450 ATGATATGCAC
1 ATGATATG--T
*
2458461 ATGACATGT
1 ATGATATGT
*
2458470 ATGATATGCAC
1 ATGATATG--T
2458481 ATGATATGT
1 ATGATATGT
2458490 ATGATATG
1 ATGATATG
2458498 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:2458464 original size:20 final size:20
Alignment explanation
Indices: 2458439--2458509 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
2458429 ATTTTGATAA
2458439 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
2458459 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
2458479 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
2458499 ACATGAGATGT
1 ACATGATATGT
2458510 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:2458486 original size:11 final size:11
Alignment explanation
Indices: 2458450--2458504 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
2458440 CATGATATGT
2458450 ATGATATGCAC
1 ATGATATGCAC
* *
2458461 ATGACATG--T
1 ATGATATGCAC
2458470 ATGATATGCAC
1 ATGATATGCAC
*
2458481 ATGATATG--T
1 ATGATATGCAC
2458490 ATGATATGCAC
1 ATGATATGCAC
2458501 ATGA
1 ATGA
2458505 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Done.