Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 41 of 352
Found at i:13132651 original size:30 final size:30
Alignment explanation
Indices: 13132573--13132661 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
13132563 CATAGTATCG
* * *
13132573 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTT
* *
13132603 TAT-TCTGGTTTTCTTTATTCTGGGTTTCTT
1 TATCT-TGGATTTCTTTATTCTGGATTTCTT
*
13132633 TATCTTGGATTTCTTTATT-TGGTTTTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTT
13132662 GTTATCTTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 10 0.20
30 40 0.78
31 1 0.02
ACGTcount: A:0.09, C:0.15, G:0.16, T:0.61
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTT
Found at i:13132659 original size:14 final size:15
Alignment explanation
Indices: 13132582--13132661 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
13132572 GTATCTTGGG
* *
13132582 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGT
*
13132597 TCTCTTTATTCTGGT
1 TTTCTTTATTCTGGT
*
13132612 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGT
*
13132627 TTTCTTTA-TCTTGGA
1 TTTCTTTATTC-TGGT
13132642 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGT
13132656 TTTCTT
1 TTTCTT
13132662 GTTATCTTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
14 11 0.20
15 44 0.79
16 1 0.02
ACGTcount: A:0.09, C:0.15, G:0.14, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGT
Found at i:13134091 original size:46 final size:46
Alignment explanation
Indices: 13134021--13134160 Score: 201
Period size: 46 Copynumber: 3.0 Consensus size: 46
13134011 CGGGGCGTTA
*
13134021 CAACGTAACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
1 CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
*
13134067 CAACGTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGG
1 CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
* * * * *
13134113 CAACATGACA-GAAAGTGAGTAAGACCATAGTTGAAAGACACTATGG
1 CAACGTGACATGAAA-TGAATAAGACCATGGTTGAAAGATACCATGG
13134159 CA
1 CA
13134161 TCATGTCGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 4 0.05
46 81 0.95
ACGTcount: A:0.43, C:0.16, G:0.23, T:0.18
Consensus pattern (46 bp):
CAACGTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGG
Found at i:13134306 original size:26 final size:26
Alignment explanation
Indices: 13134249--13134298 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
13134239 TCAAATGATG
* *
13134249 AATGGTTTTATGAATTGGTTATACAA
1 AATGGTTGTATGAAATGGTTATACAA
13134275 AATGGTTGTATGAAAT-GTT-TACAA
1 AATGGTTGTATGAAATGGTTATACAA
13134299 GAATTGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 3 0.14
26 14 0.64
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (26 bp):
AATGGTTGTATGAAATGGTTATACAA
Found at i:13145674 original size:2 final size:2
Alignment explanation
Indices: 13145667--13145702 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
13145657 AAGATGCTGC
13145667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13145703 AACATAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13146654 original size:2 final size:2
Alignment explanation
Indices: 13146647--13146674 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13146637 TAACATGTGC
13146647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13146675 TTATGTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13156609 original size:53 final size:53
Alignment explanation
Indices: 13156529--13156639 Score: 204
Period size: 53 Copynumber: 2.1 Consensus size: 53
13156519 TTTAACTATA
*
13156529 TATATGTGTGTATATGAAAAAATATAACAAATGAAAGTATATTCAATTAAAAT
1 TATATGTGTGTATACGAAAAAATATAACAAATGAAAGTATATTCAATTAAAAT
*
13156582 TATATGTGTGTATACGAAAAACTATAACAAATGAAAGTATATTCAATTAAAAT
1 TATATGTGTGTATACGAAAAAATATAACAAATGAAAGTATATTCAATTAAAAT
13156635 TATAT
1 TATAT
13156640 TTACTTTTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.50, C:0.05, G:0.11, T:0.34
Consensus pattern (53 bp):
TATATGTGTGTATACGAAAAAATATAACAAATGAAAGTATATTCAATTAAAAT
Found at i:13157512 original size:26 final size:30
Alignment explanation
Indices: 13157483--13157537 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
13157473 TATCACTTAT
13157483 AAAAATT-AT-ATA-TAA-TATTTTAATTG
1 AAAAATTAATGATATTAATTATTTTAATTG
*
13157509 AAAATTTAATGATATTAATTATTTTAATT
1 AAAAATTAATGATATTAATTATTTTAATT
13157538 AATTAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.25
27 2 0.08
28 3 0.12
29 3 0.12
30 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (30 bp):
AAAAATTAATGATATTAATTATTTTAATTG
Found at i:13158416 original size:36 final size:36
Alignment explanation
Indices: 13158376--13158461 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
13158366 ATTTTTAAAG
*
13158376 AAAATTAATTAAATTAGGG-TTTAGGATTTAGAGTT
1 AAAATTAATTAAATTAGGGCTTAAGGATTTAGAGTT
* * * *
13158411 AAAAATCAATTAATTTAGGGCTTAAGGTTTTAGGGTT
1 -AAAATTAATTAAATTAGGGCTTAAGGATTTAGAGTT
13158448 --AATTAATTAAATTA
1 AAAATTAATTAAATTA
13158462 TGTTTTAGTT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
34 12 0.29
36 17 0.40
37 13 0.31
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (36 bp):
AAAATTAATTAAATTAGGGCTTAAGGATTTAGAGTT
Found at i:13158843 original size:124 final size:124
Alignment explanation
Indices: 13158539--13158925 Score: 571
Period size: 125 Copynumber: 3.1 Consensus size: 124
13158529 AACTTTTTAT
* * * *
13158539 TTTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAAAAGACGTTTTTGAACAAACAGTGTTGAA
1 TTTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAA
*
13158604 AACGCTTTAAGCAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTGAACGC
66 AACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTG-ACGC
*
13158664 TTTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACATTTCTGAACAAATAGTGTCGAA
1 TTTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAA
*
13158729 AACACTTTAAGTAGGATGGACTGTTAGCAAAATTACT-AAAAAAGCTCCTACGTGACGC
66 AACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTGACGC
* * * *
13158787 TTTTTTTCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCCA
1 TTTTTTTCTACAGTAGTATCTG-AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGA
* * * * *
13158852 AAACGCTTCAACTAGGATGCACT-TTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
65 AAACGCTTTAAGTAGGATGGACTGTT-AGCAAAATTACTAAAAAAAGCTCCTACGT-GACGC
*
13158913 TCTTTTTCTACAG
1 TTTTTTTCTACAG
13158926 CAGTTCCTAT
Statistics
Matches: 240, Mismatches: 18, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
123 27 0.11
124 86 0.36
125 110 0.46
126 17 0.07
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (124 bp):
TTTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAA
AACGCTTTAAGTAGGATGGACTGTTAGCAAAATTACTAAAAAAAGCTCCTACGTGACGC
Found at i:13159065 original size:19 final size:20
Alignment explanation
Indices: 13159034--13159080 Score: 78
Period size: 19 Copynumber: 2.4 Consensus size: 20
13159024 TCGGAAAATA
13159034 ATTTCTAGAAAATGATTTAC
1 ATTTCTAGAAAATGATTTAC
*
13159054 TTTTCT-GAAAATGATTTAC
1 ATTTCTAGAAAATGATTTAC
13159073 ATTTCTAG
1 ATTTCTAG
13159081 TGTTTAGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (20 bp):
ATTTCTAGAAAATGATTTAC
Found at i:13162970 original size:20 final size:20
Alignment explanation
Indices: 13162947--13162984 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13162937 CAGCTCGTTG
**
13162947 AGCTTAATTTAGCTATTTTC
1 AGCTTAATCGAGCTATTTTC
13162967 AGCTTAATCGAGCTATTT
1 AGCTTAATCGAGCTATTT
13162985 CTTATTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (20 bp):
AGCTTAATCGAGCTATTTTC
Found at i:13163843 original size:3 final size:3
Alignment explanation
Indices: 13163835--13163862 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13163825 AACCAACGTG
13163835 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
13163863 AAAAAGCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:13165054 original size:28 final size:27
Alignment explanation
Indices: 13165023--13165097 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
13165013 CTAAATATAT
* *
13165023 ATTTTTTTTTATTTTTAATCATATTTAC
1 ATTTTTTTTTATTTTTAAT-ATAATCAC
* *
13165051 ATTTTATTTTCAATTTTAATATAATCAC
1 ATTTT-TTTTTATTTTTAATATAATCAC
*
13165079 -TTTTTATTATATTTTTAAT
1 ATTTTT-TTTTATTTTTAAT
13165098 TTGTGTATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.03
27 14 0.37
28 11 0.29
29 12 0.32
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTTTTTTTATTTTTAATATAATCAC
Found at i:13165141 original size:41 final size:40
Alignment explanation
Indices: 13165080--13165165 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
13165070 TATAATCACT
*
13165080 TTTTATTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
1 TTTTAGTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
* * * * *
13165120 TTTTAGTATCATTTTTTATTTGTTTCTTGTTTTAATATTTG
1 TTTTAGTAT-ATTTTTAATTTGTGTATTGTTTTAAGAATTG
13165161 TTTTA
1 TTTTA
13165166 AATGTATTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 8 0.21
41 31 0.79
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.66
Consensus pattern (40 bp):
TTTTAGTATATTTTTAATTTGTGTATTGTTTTAAGAATTG
Found at i:13166207 original size:46 final size:46
Alignment explanation
Indices: 13166155--13166554 Score: 516
Period size: 46 Copynumber: 8.7 Consensus size: 46
13166145 GCTCTTTGAA
* * * *
13166155 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACAAGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13166201 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13166247 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13166293 ATGAAATGTGTAAGACCATGGTTGAAAGATGCCATGAG-AACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATG-GCAACATGAC
* * *
13166339 ATGAAAAGAATAAGACCATGGTTGAGAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * ***
13166385 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGTGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
13166431 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
13166477 ATGAAAAGAATAAGACCATAGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
13166523 A-GAAAATGAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATAC
13166555 TATGCCATCA
Statistics
Matches: 322, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
45 2 0.01
46 319 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:13166603 original size:45 final size:44
Alignment explanation
Indices: 13166554--13166702 Score: 138
Period size: 45 Copynumber: 3.3 Consensus size: 44
13166544 TTGAAAGATA
*
13166554 CTATGCCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
1 CTATGACAT-ATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
* ** * * * ** **
13166599 CTATGACATATGTTGAACA-ATTGATATAGACCATAGTTGAAAGATA
1 CTATGACATATG-TCAA-AGATAAATA-AGACCGTGGATGGGAGACG
*
13166645 CTATGCCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
1 CTATGACAT-ATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
13166690 CTATGACATATGT
1 CTATGACATATGT
13166703 TGAACAATTG
Statistics
Matches: 76, Mismatches: 23, Indels: 11
0.69 0.21 0.10
Matches are distributed among these distances:
44 7 0.09
45 37 0.49
46 29 0.38
47 3 0.04
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (44 bp):
CTATGACATATGTCAAAGATAAATAAGACCGTGGATGGGAGACG
Found at i:13166633 original size:91 final size:91
Alignment explanation
Indices: 13166535--13166716 Score: 364
Period size: 91 Copynumber: 2.0 Consensus size: 91
13166525 AAAATGAGTA
13166535 AGACCATAGTTGAAAGATACTATGCCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACGC
1 AGACCATAGTTGAAAGATACTATGCCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACGC
13166600 TATGACATATGTTGAACAATTGATAT
66 TATGACATATGTTGAACAATTGATAT
13166626 AGACCATAGTTGAAAGATACTATGCCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACGC
1 AGACCATAGTTGAAAGATACTATGCCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACGC
13166691 TATGACATATGTTGAACAATTGATAT
66 TATGACATATGTTGAACAATTGATAT
13166717 TCAGGTAATA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (91 bp):
AGACCATAGTTGAAAGATACTATGCCATCATGTCAAAGATAAATAAGACCGTGGATGGGAGACGC
TATGACATATGTTGAACAATTGATAT
Found at i:13168504 original size:13 final size:13
Alignment explanation
Indices: 13168486--13168520 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
13168476 CTCGGCAGGG
13168486 ACACGCCCGCGGC
1 ACACGCCCGCGGC
*
13168499 ACACGCCTGCGGC
1 ACACGCCCGCGGC
13168512 ACACGCCCG
1 ACACGCCCG
13168521 TGTTTGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.51, G:0.29, T:0.03
Consensus pattern (13 bp):
ACACGCCCGCGGC
Found at i:13173752 original size:23 final size:23
Alignment explanation
Indices: 13173708--13173752 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13173698 ACCAATTCAA
* *
13173708 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAGATAAAGTCATG
*
13173731 CATATTTATAAGATAACGTCAT
1 CATATTTATAAGATAAAGTCAT
13173753 CACATACCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CATATTTATAAGATAAAGTCATG
Found at i:13183622 original size:46 final size:49
Alignment explanation
Indices: 13183439--13183751 Score: 266
Period size: 46 Copynumber: 6.7 Consensus size: 49
13183429 GGGTGTAATA
* * *
13183439 CCGATGTCATGTCCCAAACATGGTCTTACACTGGCTCATCCA--TCAA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCAATG
** * * *
13183486 TTGATGCCATCTCCTAGACATGGTCTTACACTGGCTCTCACATCTCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCTCAATG
* * *
13183536 CCGATGCCATGTTCCAGACATGGTCTTACACTGAC-C--CATCTC-GTAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCAAT-G
* * *
13183582 CCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACATCTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCAATG
* * *
13183628 CCAATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCAATG
* * *
13183674 CCGATGCCATGTCCTAGACATGGTCTTACACTGACTCTA-A--TAATATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCA-AT-G
*
13183722 CCGAAG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
13183752 AGCGCACAAA
Statistics
Matches: 217, Mismatches: 34, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
44 12 0.06
45 13 0.06
46 76 0.35
47 62 0.29
48 20 0.09
49 4 0.02
50 30 0.14
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCAATG
Found at i:13183698 original size:138 final size:142
Alignment explanation
Indices: 13183439--13183708 Score: 358
Period size: 138 Copynumber: 1.9 Consensus size: 142
13183429 GGGTGTAATA
*** *
13183439 CCGATGTCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGTTGATGCCATCTCCTAGA
1 CCGATGTCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGCCAATGCCATCTCCCAGA
* *
13183504 CATGGTCTTACACTGGCTCTCACATCTCCATGCCGATGCCATGTTCCAGACATGGTCTTACACTG
66 CATGGTCTTACACTAGCTCT-ACATCTCAATGCCGATGCCATGTTCCAGACATGGTCTTACACTG
13183569 ACCCATCTCGTAG
130 ACCCATCTCGTAG
* *
13183582 CCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTTACAT-C-TCGAGGCCAATG-CATGTCCC
1 CCGATGTCATGTCCCAAACATGGTCTTACACTGGC-T-CATCCATC-AAGCCAATGCCATCTCCC
*
13183642 AGACAT-GTCTTACACTAGCTCT-CGTCTCAATGCCGATGCCATG-TCCTAGACATGGTCTTACA
63 AGACATGGTCTTACACTAGCTCTACATCTCAATGCCGATGCCATGTTCC-AGACATGGTCTTACA
13183704 CTGAC
127 CTGAC
13183709 TCTAATAATA
Statistics
Matches: 114, Mismatches: 9, Indels: 13
0.84 0.07 0.10
Matches are distributed among these distances:
137 3 0.03
138 39 0.34
140 15 0.13
141 27 0.24
142 21 0.18
143 9 0.08
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (142 bp):
CCGATGTCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGCCAATGCCATCTCCCAGA
CATGGTCTTACACTAGCTCTACATCTCAATGCCGATGCCATGTTCCAGACATGGTCTTACACTGA
CCCATCTCGTAG
Found at i:13183700 original size:94 final size:94
Alignment explanation
Indices: 13183446--13183754 Score: 286
Period size: 94 Copynumber: 3.3 Consensus size: 94
13183436 ATACCGATGT
* * ** *
13183446 CATGTCCCAAACATGGTCTTACACTGGCTCATC-CATCAA-GTTGATGCCATCTCCTAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCTC-TCTC-TCAATGCCGATGCCATGTCCTAGACATGG
* *
13183509 TCTTACACTGGCTCTCACATCTCCATGCCGATG
64 TCTTACACTGGCTCT-ACATCT-CAGGCCAATG
* * * *
13183542 CCATGTTCCAGACATGGTCTTACACT-GAC-C-CATCTC-GTAGCCGATG-CATGTCCCAAACAT
1 -CATGTCCCAGACATGGTCTTACACTAG-CTCTC-TCTCAAT-GCCGATGCCATGTCCTAGACAT
13183602 -GTCTTACACTGGCT-TACATCTCGAGGCCAATG
62 GGTCTTACACTGGCTCTACATCTC-AGGCCAATG
13183634 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCTAGACATGGT
1 CATGTCCCAGACATGGTCTTACACTAGCTCTC-TCTCAATGCCGATGCCATGTCCTAGACATGGT
* *
13183698 CTTACACTGACTCTA-ATAAT-ATGGCCGAA-G
65 CTTACACTGGCTCTACAT-CTCA-GGCC-AATG
13183728 CATGTCCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
13183755 GCACAAAGGA
Statistics
Matches: 179, Mismatches: 17, Indels: 35
0.77 0.07 0.15
Matches are distributed among these distances:
90 11 0.06
91 16 0.09
92 25 0.14
93 15 0.08
94 62 0.35
95 18 0.10
96 8 0.04
97 24 0.13
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCTCTCTCAATGCCGATGCCATGTCCTAGACATGGTC
TTACACTGGCTCTACATCTCAGGCCAATG
Found at i:13192531 original size:129 final size:130
Alignment explanation
Indices: 13192326--13192601 Score: 441
Period size: 129 Copynumber: 2.1 Consensus size: 130
13192316 TTATTAAAAA
** * *
13192326 TATA-AAA-ATATTAAAAATACTGTCTTATTCAAAAGAACTTTTATTTTATTAAAAATATAAAAA
1 TATACAAATATATTAAAAATACTACCTTATTAAAAAAAACTTTTATTTTATTAAAAATATAAAAA
*
13192389 GTAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATAT-AAAAAGTT
66 GTAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAAAATAAAAAAGTT
* *
13192453 TGTACAAATATATTAAAAATATTACCTTATTAAAAAAAACTTTTATTTTATTAAAAATATAAAAA
1 TATACAAATATATTAAAAATACTACCTTATTAAAAAAAACTTTTATTTTATTAAAAATATAAAAA
* *
13192518 GTAAATTATAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAAAATAAAAAATTT
66 GTAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAAAATAAAAAAGTT
*
13192583 TATACAAATATTTTAAAAA
1 TATACAAATATATTAAAAA
13192602 ATCAATGTTG
Statistics
Matches: 135, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
127 3 0.02
128 3 0.02
129 105 0.78
130 24 0.18
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (130 bp):
TATACAAATATATTAAAAATACTACCTTATTAAAAAAAACTTTTATTTTATTAAAAATATAAAAA
GTAAATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAAAATAAAAAAGTT
Found at i:13193012 original size:18 final size:18
Alignment explanation
Indices: 13192991--13193025 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13192981 AAAAGGAAAC
*
13192991 ATATAAGGGTTAGGATAT
1 ATATAAGGGCTAGGATAT
13193009 ATATAAGGGCTAGGATA
1 ATATAAGGGCTAGGATA
13193026 CGCACCTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.29, T:0.29
Consensus pattern (18 bp):
ATATAAGGGCTAGGATAT
Found at i:13193115 original size:30 final size:29
Alignment explanation
Indices: 13193081--13193145 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
13193071 GTTGAAGTGT
13193081 TGGGCCTGGTGACTATGTGGGCGCTGTTGA
1 TGGGCCT-GTGACTATGTGGGCGCTGTTGA
* * *
13193111 TGGGCCCTGTGATTGTGTGGGCGTTGTTGA
1 TGGG-CCTGTGACTATGTGGGCGCTGTTGA
13193141 TGGGC
1 TGGGC
13193146 TCGTGTCGTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 27 0.87
31 3 0.10
ACGTcount: A:0.08, C:0.15, G:0.45, T:0.32
Consensus pattern (29 bp):
TGGGCCTGTGACTATGTGGGCGCTGTTGA
Found at i:13194849 original size:11 final size:11
Alignment explanation
Indices: 13194820--13194849 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
13194810 TAAACAGAGC
*
13194820 TTTGAGAAAAA
1 TTTGAGAGAAA
13194831 TTTGAGAGAAA
1 TTTGAGAGAAA
13194842 TTTGAGAG
1 TTTGAGAG
13194850 GATTTTTGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:13195246 original size:23 final size:22
Alignment explanation
Indices: 13195220--13195262 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
13195210 AATCTCTACA
13195220 TTTTTATTTTTTAAAATTTAATT
1 TTTTTATTTTTT-AAATTTAATT
13195243 TTTTTATTTTTTAAATTTAA
1 TTTTTATTTTTTAAATTTAA
13195263 AAATTTAGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTTTTTAAATTTAATT
Found at i:13196482 original size:22 final size:22
Alignment explanation
Indices: 13196443--13196485 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
13196433 TAGCTATTTA
**
13196443 TTGTTGTTTTAATTCTATTTTC
1 TTGTTGTTTTAACCCTATTTTC
*
13196465 TTGTTGTTTTCACCCTATTTT
1 TTGTTGTTTTAACCCTATTTT
13196486 GCTACCATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.14, G:0.09, T:0.65
Consensus pattern (22 bp):
TTGTTGTTTTAACCCTATTTTC
Found at i:13199025 original size:19 final size:19
Alignment explanation
Indices: 13198990--13199046 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 19
13198980 TTTAAAAATA
*
13198990 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
13199008 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
* *
13199026 TAAAAATTATTTTAAATTTT
1 TATAAA-TATTTTGAATTTT
13199046 T
1 T
13199047 GTTGAGGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 15 0.45
19 14 0.42
20 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:13199027 original size:18 final size:18
Alignment explanation
Indices: 13198990--13199045 Score: 60
Period size: 19 Copynumber: 3.1 Consensus size: 18
13198980 TTTAAAAATA
*
13198990 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAA-TTT
13199008 TATAAATATTTTGAATTT
1 TATAAATATTTTGAATTT
* *
13199026 TAAAAATTATTTTAAATTT
1 TATAAA-TATTTTGAATTT
13199045 T
1 T
13199046 TGTTGAGGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TATAAATATTTTGAATTT
Found at i:13204489 original size:41 final size:42
Alignment explanation
Indices: 13204427--13204511 Score: 163
Period size: 41 Copynumber: 2.0 Consensus size: 42
13204417 AGGCTTAAAG
13204427 TAAAACTCTTATTTTATGATTACCTCTTTTAGAGTTTAAATT
1 TAAAACTCTTATTTTATGATTACCTCTTTTAGAGTTTAAATT
13204469 TAAAACTCTTATTTTA-GATTACCTCTTTTAGAGTTTAAATT
1 TAAAACTCTTATTTTATGATTACCTCTTTTAGAGTTTAAATT
13204510 TA
1 TA
13204512 GACTCGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 27 0.63
42 16 0.37
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (42 bp):
TAAAACTCTTATTTTATGATTACCTCTTTTAGAGTTTAAATT
Found at i:13205481 original size:131 final size:129
Alignment explanation
Indices: 13205157--13205814 Score: 516
Period size: 131 Copynumber: 5.0 Consensus size: 129
13205147 CTTGCCTTAG
* * * * * * * *
13205157 AAAATATGAGTGAAATTTTGAAGAGATACTCGATTATTTTGAACGAACGGGAGATTGCAACCCAG
1 AAAACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAAC-GAAAATCGCAACCCAG
* * * *
13205222 CACGATAGGGCACTATTCCCCGAATTGCCAAACATCGAACAT-TTCTTCCGTTTTCAAGAGTTTT
65 CACGATAGGGCACGATT-CGCGAATTGCCAAACATCGAACATCATCTT-CGTTTTAAAGAGTTTT
13205286 TA
128 TA
* ** * * * * * * * *
13205288 GAAAACGTGAGTGAAATTCCGAAGGGATCTTCAATTGTTCTGAACCAATGAAAAAGCGCAACCCA
1 -AAAACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACG-AAAATCGCAACCCA
* * * * *
13205353 GCACGATAGGGCACGATTCTCAAATCGCCAAACATTGAACATCATCTTCGTTTTAAAGTGTTTTT
64 GCACGATAGGGCACGATTCGCGAATTGCCAAACATCGAACATCATCTTCGTTTTAAAGAGTTTTT
13205418 A
129 A
* * * * *
13205419 ATAAACATGAGTGAGAA-TATAAAGGAATATTCGATTGTTTTGAGCAAACGAAAGATCACAACCC
1 A-AAACATGAGTGA-AATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAAA-ATCGCAACCC
* *** * * * * *** * *
13205483 AACACGATAAAACATGATTCTCGAATTGTCAAACATCGAATATTGCCTTCGTTTTAAATAATTTT
63 AGCACGATAGGGCACGATTCGCGAATTGCCAAACATCGAACATCATCTTCGTTTTAAAGAGTTTT
13205548 TA
128 TA
* * * * *
13205550 AAAGACATGAATGAAATTTTGAAGGGATATTTGATTATTTTAAGCAACCGAGAAATTGCAACCCA
1 AAA-ACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGA-AAATCGCAACCCA
* * * * * * * *
13205615 GCACGTTATGGCACGATTCCGCAAATTGCCAAATATCGCACATCACCTTCGTTTCAAAGA-ATTT
64 GCACGATAGGGCACGATT-CGCGAATTGCCAAACATCGAACATCATCTTCGTTTTAAAGAGTTTT
13205679 TA
128 TA
* * *
13205681 AAAAGGCATGA-TGAAATTTTGAAGGGATATTTGATTATTTTGAGCAAACGCGAAATTGCAACCC
1 AAAA--CATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACG-AAAATCGCAACCC
* * * * * * *
13205745 AACACGTTAGGGCACTATTCAGCGAATTGCCAAATATTGAATC-TCGTCTTCGTTTTAGAGAGTT
63 AGCACGATAGGGCACGATTC-GCGAATTGCCAAACATCGAA-CATCATCTTCGTTTTAAAGAGTT
13205809 TTTA
126 TTTA
13205813 AA
1 AA
13205815 TGAATACTTA
Statistics
Matches: 417, Mismatches: 94, Indels: 30
0.77 0.17 0.06
Matches are distributed among these distances:
130 10 0.02
131 292 0.70
132 115 0.28
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (129 bp):
AAAACATGAGTGAAATTTTGAAGGGATATTCGATTATTTTGAGCAAACGAAAATCGCAACCCAGC
ACGATAGGGCACGATTCGCGAATTGCCAAACATCGAACATCATCTTCGTTTTAAAGAGTTTTTA
Found at i:13206378 original size:21 final size:21
Alignment explanation
Indices: 13206336--13206378 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13206326 AGAAGTTAAC
* * *
13206336 AAAATATATGATAATAATAAT
1 AAAAAATATGATAAGAAAAAT
*
13206357 AAAAAATATGATACGAAAAAT
1 AAAAAATATGATAAGAAAAAT
13206378 A
1 A
13206379 CATGACAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAAAATATGATAAGAAAAAT
Found at i:13215655 original size:2 final size:2
Alignment explanation
Indices: 13215648--13215672 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13215638 ATTTTAGTGT
13215648 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13215673 TTAAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13220364 original size:12 final size:12
Alignment explanation
Indices: 13220310--13220369 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
13220300 TTTTTAATAT
*
13220310 TTATATTTTAATA
1 TTATATTTT-TTA
* *
13220323 TCATATTTATTA
1 TTATATTTTTTA
* *
13220335 TTA-AATTATTA
1 TTATATTTTTTA
13220346 TTATATTTTTTA
1 TTATATTTTTTA
*
13220358 TTTTATTTTTTA
1 TTATATTTTTTA
13220370 ACAATTTCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
11 10 0.26
12 21 0.55
13 7 0.18
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATATTTTTTA
Found at i:13226800 original size:152 final size:152
Alignment explanation
Indices: 13226639--13226942 Score: 581
Period size: 152 Copynumber: 2.0 Consensus size: 152
13226629 ATATATGTAT
*
13226639 GATAAAAAAAATATTTTAAAAAAAAATTAAAGGTAGGAAATCAACAAATATCAAGTTCTTTCAAT
1 GATAAAAAAAATATTTTAAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCAAT
13226704 TAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCCT
66 TAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCCT
13226769 CCCCTCATCATGTTTAATCACC
131 CCCCTCATCATGTTTAATCACC
*
13226791 GATAAAAAAAATATTTTGAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCAAT
1 GATAAAAAAAATATTTTAAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCAAT
*
13226856 TAATTAACTTAAAACAGAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCCT
66 TAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCCT
13226921 CCCCTCATCATGTTTAATCACC
131 CCCCTCATCATGTTTAATCACC
13226943 TAATGATTAA
Statistics
Matches: 149, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
152 149 1.00
ACGTcount: A:0.43, C:0.22, G:0.11, T:0.24
Consensus pattern (152 bp):
GATAAAAAAAATATTTTAAAAAAAAATTAAAGATAGGAAATCAACAAATATCAAGTTCTTTCAAT
TAATTAACTTAAAACAAAGAGATTCACACCGCCACCCAGAAGCCAGATGACCCAAGTCATCGCCT
CCCCTCATCATGTTTAATCACC
Found at i:13227405 original size:30 final size:30
Alignment explanation
Indices: 13227371--13227435 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
13227361 CAACTTAACA
*
13227371 AACAAATGCCTCTAAAATAATAATAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
* *
13227401 AACAAATGCTTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
13227431 AACAA
1 AACAA
13227436 TAAAATAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.26
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:13227478 original size:14 final size:14
Alignment explanation
Indices: 13227459--13227495 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13227449 TACAATATCC
13227459 AAATAGTAACAACA
1 AAATAGTAACAACA
*
13227473 AAATAGTAGCAACA
1 AAATAGTAACAACA
*
13227487 TAATAGTAA
1 AAATAGTAA
13227496 AATGATAGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (14 bp):
AAATAGTAACAACA
Found at i:13236864 original size:19 final size:20
Alignment explanation
Indices: 13236821--13236866 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
13236811 ATTATGCTTT
13236821 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
13236841 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
13236860 GCCCATA
1 GCCCATA
13236867 ACAAAACAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:13249337 original size:22 final size:24
Alignment explanation
Indices: 13249309--13249352 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
13249299 TATGGCAAGA
13249309 AATTAAG-TAGAAAAG-AAGTATG
1 AATTAAGTTAGAAAAGTAAGTATG
13249331 AATTAAGTTAGAAAAGTAAGTA
1 AATTAAGTTAGAAAAGTAAGTA
13249353 AACTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (24 bp):
AATTAAGTTAGAAAAGTAAGTATG
Found at i:13250069 original size:38 final size:38
Alignment explanation
Indices: 13249967--13250075 Score: 103
Period size: 38 Copynumber: 2.8 Consensus size: 38
13249957 GACCTTGAGT
* **
13249967 CGATGAGACACTGGGTGTCACTATTGTACTTCGGATAGATT
1 CGATGAGACACTGGGTATCAC--TT-TACTTCGGATAGAGC
** * *
13250008 CGATGAGGTACTGGGTACCACTTTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTATCACTTTACTTCGGATAGAGC
*
13250045 CGATGAGACACTGGGTATCAACTTTGCTTCG
1 CGATGAGACACTGGGTATC-ACTTTACTTCG
13250076 AACTATCTGA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
37 16 0.29
38 21 0.38
39 2 0.04
41 17 0.30
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (38 bp):
CGATGAGACACTGGGTATCACTTTACTTCGGATAGAGC
Found at i:13268308 original size:2 final size:2
Alignment explanation
Indices: 13268303--13268348 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
13268293 CAGAGATATA
13268303 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
13268345 TG TG
1 TG TG
13268349 GAGGAGATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:13270769 original size:44 final size:42
Alignment explanation
Indices: 13270718--13270864 Score: 127
Period size: 42 Copynumber: 3.5 Consensus size: 42
13270708 ATCTAAAATA
* *
13270718 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGATATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGA-ATT
* * ** *
13270761 TACGTGTAATATCATGTCTGGGACATTGACATCGTATTTG-ATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATTTGAATT
* * *
13270804 TCGAGTAAGACCTTGTCTGGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT-TTGAATT
* * *
13270847 ACAT-TAAGACCACGTCTG
1 TCGTGTAAGACCATGTCTG
13270865 AGACGTGGGC
Statistics
Matches: 81, Mismatches: 19, Indels: 9
0.74 0.17 0.08
Matches are distributed among these distances:
41 2 0.02
42 40 0.49
43 9 0.11
44 25 0.31
45 5 0.06
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGAATT
Found at i:13273874 original size:26 final size:26
Alignment explanation
Indices: 13273826--13273911 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
13273816 ATCTTTGATC
* * *
13273826 GGCGAATCCAGTTTGCCACACAAATT
1 GGCGAACCCAGCTTGCCAAACAAATT
* *
13273852 GGCGAACCCAGCTTGTCAAACAAACT
1 GGCGAACCCAGCTTGCCAAACAAATT
* * *
13273878 AGTGAACCCCTAGCTTGCC-AACATATT
1 GGCGAA-CCC-AGCTTGCCAAACAAATT
*
13273905 AGCGAAC
1 GGCGAAC
13273912 TTGGCTCGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 26 0.55
27 14 0.30
28 7 0.15
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.20
Consensus pattern (26 bp):
GGCGAACCCAGCTTGCCAAACAAATT
Found at i:13273911 original size:27 final size:26
Alignment explanation
Indices: 13273833--13273911 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
13273823 ATCGGCGAAT
* *
13273833 CCAGTTTGCCACACAAATTGGCGAA-C
1 CCAGCTTGCCA-ACAAATTAGCGAACC
* * *
13273859 CCAGCTTGTCAAACAAACTAGTGAACC
1 CCAGCTTG-CCAACAAATTAGCGAACC
*
13273886 CCTAGCTTGCCAACATATTAGCGAAC
1 CC-AGCTTGCCAACAAATTAGCGAAC
13273912 TTGGCTCGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
26 17 0.41
27 18 0.44
28 6 0.15
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.20
Consensus pattern (26 bp):
CCAGCTTGCCAACAAATTAGCGAACC
Found at i:13274594 original size:14 final size:15
Alignment explanation
Indices: 13274575--13274603 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13274565 ACATTCTAAG
13274575 TAAAGA-TAAGATGT
1 TAAAGATTAAGATGT
13274589 TAAAGATTAAGATGT
1 TAAAGATTAAGATGT
13274604 CAANNNNNNN
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (15 bp):
TAAAGATTAAGATGT
Found at i:13276163 original size:44 final size:42
Alignment explanation
Indices: 13276112--13276258 Score: 127
Period size: 42 Copynumber: 3.5 Consensus size: 42
13276102 ATCTAAAATA
* *
13276112 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTTGATATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGA-ATT
* * ** *
13276155 TACGTGTAATATCATGTCTGGGACATTGACATCGTATTTG-ATT
1 T-CGTGTAAGACCATGTCTGGGACACAGGCATCG-ATTTGAATT
* * *
13276198 TCGAGTAAGACCTTGTCTGGGACAGAGGCATCGATATTGAATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT-TTGAATT
* * *
13276241 ACAT-TAAGACCACGTCTG
1 TCGTGTAAGACCATGTCTG
13276259 AGACGTGGGC
Statistics
Matches: 81, Mismatches: 19, Indels: 9
0.74 0.17 0.08
Matches are distributed among these distances:
41 2 0.02
42 40 0.49
43 9 0.11
44 25 0.31
45 5 0.06
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTTGAATT
Found at i:13279270 original size:26 final size:26
Alignment explanation
Indices: 13279222--13279307 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
13279212 ATCTTTGATC
* * *
13279222 GGCGAATCCAGTTTGCCACACAAATT
1 GGCGAACCCAGCTTGCCAAACAAATT
* *
13279248 GGCGAACCCAGCTTGTCAAACAAACT
1 GGCGAACCCAGCTTGCCAAACAAATT
* * *
13279274 AGTGAACCCCTAGCTTGCC-AACATATT
1 GGCGAA-CCC-AGCTTGCCAAACAAATT
*
13279301 AGCGAAC
1 GGCGAAC
13279308 TTGGCTCGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
26 26 0.55
27 14 0.30
28 7 0.15
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.20
Consensus pattern (26 bp):
GGCGAACCCAGCTTGCCAAACAAATT
Found at i:13279307 original size:27 final size:26
Alignment explanation
Indices: 13279229--13279307 Score: 70
Period size: 27 Copynumber: 3.0 Consensus size: 26
13279219 ATCGGCGAAT
* *
13279229 CCAGTTTGCCACACAAATTGGCGAA-C
1 CCAGCTTGCCA-ACAAATTAGCGAACC
* * *
13279255 CCAGCTTGTCAAACAAACTAGTGAACC
1 CCAGCTTG-CCAACAAATTAGCGAACC
*
13279282 CCTAGCTTGCCAACATATTAGCGAAC
1 CC-AGCTTGCCAACAAATTAGCGAAC
13279308 TTGGCTCGTA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
26 17 0.41
27 18 0.44
28 6 0.15
ACGTcount: A:0.33, C:0.30, G:0.16, T:0.20
Consensus pattern (26 bp):
CCAGCTTGCCAACAAATTAGCGAACC
Found at i:13279997 original size:14 final size:15
Alignment explanation
Indices: 13279978--13280007 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13279968 ACATTCTAAG
13279978 TAAAGA-TAAGATGT
1 TAAAGATTAAGATGT
13279992 TAAAGATTAAGATGT
1 TAAAGATTAAGATGT
13280007 T
1 T
13280008 TTAGGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.47, C:0.00, G:0.20, T:0.33
Consensus pattern (15 bp):
TAAAGATTAAGATGT
Found at i:13282167 original size:18 final size:19
Alignment explanation
Indices: 13282126--13282162 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13282116 TTATCTATTT
*
13282126 ATAAATTTAAAAATTATAA
1 ATAATTTTAAAAATTATAA
*
13282145 ATAATTTTAAACATTATA
1 ATAATTTTAAAAATTATA
13282163 TTAATATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAATTTTAAAAATTATAA
Found at i:13282846 original size:21 final size:24
Alignment explanation
Indices: 13282819--13282867 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
13282809 AATTTCATGT
13282819 TTATATATTATAT-ATAT-AAATAA
1 TTATAT-TTATATAATATAAAATAA
*
13282842 TTATATTTATCTAATATAAAATAA
1 TTATATTTATATAATATAAAATAA
13282866 TT
1 TT
13282868 TGGTATATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 10 0.43
24 8 0.35
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTATATTTATATAATATAAAATAA
Found at i:13282991 original size:29 final size:31
Alignment explanation
Indices: 13282948--13283014 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
13282938 TAATAAAAGT
13282948 TTTATA-AATATAATTACAC-CAAATTAAAA
1 TTTATATAATATAATTACACACAAATTAAAA
* *
13282977 TTTATATAATA-AATTATACATAAATTAAAA
1 TTTATATAATATAATTACACACAAATTAAAA
*
13283007 TTAATATA
1 TTTATATA
13283015 TAATTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTATATAATATAATTACACACAAATTAAAA
Found at i:13284177 original size:125 final size:126
Alignment explanation
Indices: 13283879--13284399 Score: 677
Period size: 125 Copynumber: 4.2 Consensus size: 126
13283869 GAAAGATTTT
* ** * * * * * *
13283879 TTTTTCTACAGTCGTTTTTGAAAAATTAATTTTGAGAAGATGGTTCTGAAAAGATAGTAACAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAA
* * * *
13283944 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAGTACTTAAAAAAGCTCCCACATGGACGCTC
66 ACGCTTCAAACAGGATGCACTATCAGCAAAAGTACTGAAAAAAACTCCCACATGGACGCTC
* * * * *
13284005 TTTTTCTACAGTAGTTTCAAAAAAAATAATTTTGAGAAGACGATTTTGAAAAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAA
* * * *
13284070 ACGCTTCAAGCAGTATGCACTATCAGCAAAAGTACT-AAAAAAACTCCCACGTGAACGCTC
66 ACGCTTCAAACAGGATGCACTATCAGCAAAAGTACTGAAAAAAACTCCCACATGGACGCTC
* * * *
13284130 TTTTTATACAGTAGTTCCTAAAAAAATAATTTAGAGAAGACGGTTTTGAAAAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAA
* * * *
13284195 ACGCTTCAAACA-GATGCACTGTCAGCAAAATTACTGAAAAAATCTCCCACGTGGACGCTC
66 ACGCTTCAAACAGGATGCACTATCAGCAAAAGTACTGAAAAAAACTCCCACATGGACGCTC
* * * * * **
13284255 TTTTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGTAGACAGTTCTGAAAAAATGGTATCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAA
* *
13284320 ACGCTTTAAACAGGATGCACTATCAGCAAAATTACTGAAAAAAACTCCCACATGGACGCTC
66 ACGCTTCAAACAGGATGCACTATCAGCAAAAGTACTGAAAAAAACTCCCACATGGACGCTC
13284381 TTTTTCTACAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
13284400 GCTTAGCCTT
Statistics
Matches: 348, Mismatches: 45, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
124 20 0.06
125 179 0.51
126 149 0.43
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATATCAAAA
ACGCTTCAAACAGGATGCACTATCAGCAAAAGTACTGAAAAAAACTCCCACATGGACGCTC
Found at i:13294039 original size:43 final size:43
Alignment explanation
Indices: 13293992--13294079 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
13293982 ATCCAATCAA
13293992 GTATGATTAATTTCATACTCAACTAATTTTCGTTTAGCTTTAG
1 GTATGATTAATTTCATACTCAACTAATTTTCGTTTAGCTTTAG
*
13294035 GTATGATTAATTTCATACTCAACTAATTTTTGTTTAGCTTTAG
1 GTATGATTAATTTCATACTCAACTAATTTTCGTTTAGCTTTAG
13294078 GT
1 GT
13294080 CGGTTATCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (43 bp):
GTATGATTAATTTCATACTCAACTAATTTTCGTTTAGCTTTAG
Found at i:13295761 original size:22 final size:22
Alignment explanation
Indices: 13295736--13295778 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13295726 GCACTATTAA
13295736 ACAAAGAGCACTAAA-GTGCTAT
1 ACAAAGAGCAC-AAATGTGCTAT
13295758 ACAAAGAGCACAAATGTGCTA
1 ACAAAGAGCACAAATGTGCTA
13295779 AACGGATAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.16
Consensus pattern (22 bp):
ACAAAGAGCACAAATGTGCTAT
Found at i:13295814 original size:25 final size:25
Alignment explanation
Indices: 13295781--13295831 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
13295771 ATGTGCTAAA
* * *
13295781 CGGATAGCACTAATGTGGTAATAAT
1 CGGAGAGCACTAACGTGCTAATAAT
13295806 CGGAGAGCACTAACGTGCTAATAAT
1 CGGAGAGCACTAACGTGCTAATAAT
13295831 C
1 C
13295832 AATGAATGCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (25 bp):
CGGAGAGCACTAACGTGCTAATAAT
Found at i:13298116 original size:3 final size:3
Alignment explanation
Indices: 13298108--13298992 Score: 1235
Period size: 3 Copynumber: 297.3 Consensus size: 3
13298098 ACATTTGAAG
* *
13298108 ATA ATA ATA ATA GTA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
13298156 ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA GTA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13298203 AGA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13298251 GTA ATA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13298299 ATA ATA ATA GTA ATA ATA ATA ATA ATA GTA AT- ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13298346 ATA ATA ATC ATA ATA ATA ACA GTA ATA ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
13298394 ATA ATA ATA ATA ATA ATA ATA GTA AT- ATA ATA AGA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13298441 ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
13298489 ATA GTA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
13298537 GTA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA ATA AAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
13298585 AT- ATA ATA ATA GTA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13298632 ATA ATA GTA ATA ATA ATA ATA GTA AT- ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13298679 ATA ATA ATA GTA ATA ATA ATA ATA ATA GTA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13298727 ATA GTA ATA ATA ATA ATA ATA ATA GTA ATA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13298775 ATA ATA ATA GTA AT- ATA ATA ATA GTA ATA ATA ATA ATA ATA GTA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
13298821 ATA ATA ATA ATA ATA ATA ACA GTA ATA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
13298869 ATA ATA ACA ATA ATA ATA ATA ACA GTA ATA ATA ATA ACA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13298917 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13298965 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13298993 GAACAACAAC
Statistics
Matches: 771, Mismatches: 104, Indels: 14
0.87 0.12 0.02
Matches are distributed among these distances:
2 14 0.02
3 757 0.98
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13299101 original size:25 final size:26
Alignment explanation
Indices: 13299066--13299129 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
13299056 ATATATATTG
*
13299066 AAAATAGTAAATAAG-CAAAATAAATA
1 AAAATAATAAATAAGACAAAATAAA-A
*
13299092 AAAA-AATAAA-AAGACATAATAAAA
1 AAAATAATAAATAAGACAAAATAAAA
13299116 AAAATAATAAATAA
1 AAAATAATAAATAA
13299130 AAATTGTGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 8 0.24
25 19 0.58
26 6 0.18
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (26 bp):
AAAATAATAAATAAGACAAAATAAAA
Found at i:13299128 original size:16 final size:16
Alignment explanation
Indices: 13299066--13299132 Score: 55
Period size: 16 Copynumber: 4.1 Consensus size: 16
13299056 ATATATATTG
* **
13299066 AAAATAGTAAATAAGC
1 AAAATAATAAATAAAA
*
13299082 AAAATAAATAAAAAAATA
1 AAAAT-AATAAATAAA-A
*
13299100 AAAAGACAT-AATAAAA
1 AAAATA-ATAAATAAAA
13299116 AAAATAATAAATAAAA
1 AAAATAATAAATAAAA
13299132 A
1 A
13299133 TTGTGGAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
15 2 0.05
16 19 0.47
17 13 0.32
18 6 0.15
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.16
Consensus pattern (16 bp):
AAAATAATAAATAAAA
Found at i:13299131 original size:13 final size:13
Alignment explanation
Indices: 13299066--13299133 Score: 63
Period size: 13 Copynumber: 5.4 Consensus size: 13
13299056 ATATATATTG
*
13299066 AAAATAGTAAATA
1 AAAATAATAAATA
*
13299079 AGCAA-AATAAATA
1 A-AAATAATAAATA
13299092 AAAA-AATAAA-A
1 AAAATAATAAATA
*
13299103 AGACATAATAAA-A
1 A-AAATAATAAATA
13299116 AAAATAATAAATA
1 AAAATAATAAATA
13299129 AAAAT
1 AAAAT
13299134 TGTGGAAACG
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
11 2 0.04
12 19 0.41
13 23 0.50
14 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (13 bp):
AAAATAATAAATA
Found at i:13299444 original size:3 final size:3
Alignment explanation
Indices: 13299438--13299497 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
13299428 TACAACAATT
13299438 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13299486 TAA TAA TAA TAA
1 TAA TAA TAA TAA
13299498 GGGGATTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13314251 original size:55 final size:55
Alignment explanation
Indices: 13314192--13314302 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
13314182 TTGAATGTAC
13314192 ATATATATATAACAAAGTATCTTTCAATTTCAAAGCTAAGATATTATTATAACTA
1 ATATATATATAACAAAGTATCTTTCAATTTCAAAGCTAAGATATTATTATAACTA
13314247 ATATATATATAACAAAGTATCTTTCAATTTCAAAGCTAAGATATTATTATAACTA
1 ATATATATATAACAAAGTATCTTTCAATTTCAAAGCTAAGATATTATTATAACTA
13314302 A
1 A
13314303 GTACACTTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (55 bp):
ATATATATATAACAAAGTATCTTTCAATTTCAAAGCTAAGATATTATTATAACTA
Found at i:13317515 original size:16 final size:17
Alignment explanation
Indices: 13317494--13317525 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
13317484 TTCAAAAATC
13317494 AATAAAAAAA-ATAAAA
1 AATAAAAAAATATAAAA
13317510 AATAAAAAAATATAAA
1 AATAAAAAAATATAAA
13317526 TAGACTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AATAAAAAAATATAAAA
Found at i:13328322 original size:45 final size:45
Alignment explanation
Indices: 13328171--13328341 Score: 162
Period size: 45 Copynumber: 3.9 Consensus size: 45
13328161 ATATCGTACA
* * *
13328171 ATGCCAACGTCCCAGACGTGGTCTTACA--T-GCCATC-TCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAACCA-CAT-ATATTG
*
13328214 ATGCC-ACTGTCCCAGACATGGTCTTACACG-AATCA-A-ATA-TG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAACCACATATATTG
* *
13328255 ATGCCAATGTCTCAGACATGGTCTTACACGTAACCACATATATTG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAACCACATATATTG
* * * *
13328300 ATGCCAACGTCCCAGACGTGGTCTTAAACGAAAACACATATA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAACCACATATA
13328342 AAAAATCCTA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
41 27 0.26
42 10 0.10
43 25 0.24
44 3 0.03
45 40 0.38
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (45 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAACCACATATATTG
Found at i:13329485 original size:14 final size:15
Alignment explanation
Indices: 13329468--13329496 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13329458 ACACAAAAAT
13329468 TTCACACAT-ATAAA
1 TTCACACATAATAAA
13329482 TTCACACATAATAAA
1 TTCACACATAATAAA
13329497 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:13330901 original size:61 final size:61
Alignment explanation
Indices: 13330806--13330927 Score: 226
Period size: 61 Copynumber: 2.0 Consensus size: 61
13330796 GTAACTCCTT
*
13330806 TTAATTATGAATGATCTACTCTTAAAAATGGACTTTTCTTCCACTGAATAAGCACATCAAA
1 TTAATTATGAATGATCTACTCTTAAAAAGGGACTTTTCTTCCACTGAATAAGCACATCAAA
*
13330867 TTAATTATGAATGATCTACTCTTAAACAGGGACTTTTCTTCCACTGAATAAGCACATCAAA
1 TTAATTATGAATGATCTACTCTTAAAAAGGGACTTTTCTTCCACTGAATAAGCACATCAAA
13330928 AACCTGAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.34
Consensus pattern (61 bp):
TTAATTATGAATGATCTACTCTTAAAAAGGGACTTTTCTTCCACTGAATAAGCACATCAAA
Found at i:13334479 original size:49 final size:48
Alignment explanation
Indices: 13334421--13334585 Score: 187
Period size: 49 Copynumber: 3.4 Consensus size: 48
13334411 GGTAAAGTGT
*
13334421 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATCTTCGAGGC
1 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATCTACGA-GC
* * *
13334470 CGATGCCATGTCCAAGACATGGTTTTACACTAGCTCTCA-CATAACTGTGC
1 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATC-T-AC-GAGC
* * *
13334520 CGATGCCATGTCCCAGACATGGTCTTACACT-GATA-CATC-GCGTAGC
1 CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATCTACG-AGC
13334566 CGATG-CATGTCCCAGACATG
1 CGATGCCATGTCCCAGACATG
13334586 TCTTATACTG
Statistics
Matches: 101, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
45 16 0.16
46 8 0.08
48 3 0.03
49 41 0.41
50 32 0.32
51 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTTTTACACTAGCTATCATCTACGAGC
Found at i:13340033 original size:582 final size:582
Alignment explanation
Indices: 13338929--13340093 Score: 2177
Period size: 582 Copynumber: 2.0 Consensus size: 582
13338919 CGAAGAACAT
13338929 TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
1 TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
13338994 AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
66 AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
*
13339059 ACAATGACCTCTAATTGTCAAAGGACAATCCTTACACAATTGGTCCACTAATACATATTTACCTA
131 ACAATGACCTCTAATTGTCAAAGAACAATCCTTACACAATTGGTCCACTAATACATATTTACCTA
*
13339124 AAGGGTTAGACACTTTGATCACAAACTTAGTGGACTCTACTAGCATGCTCACACAAGGTACTAAT
196 AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCACACAAGGTACTAAT
* *
13339189 TCCATACAAATATAAGAGTGGGTAGATCCCGGGTCAATTAATGCAACAACAGATATATCATGGAT
261 TCCATACAAATATAAGAGTGGGTAGATCCCGGGTCAATTAATGAAACAACAGATATATCATAGAT
*
13339254 AGAAAAAGTATCCGTGATCACATCGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAATCC
326 AGAAAAAGTATCCATGATCACATCGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAATCC
* *
13339319 TTGCAGGCGCTCTGCCCTCGGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
391 TTGCAGGCGCTCTACCCTCAGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
13339384 CTTCCCAGGTTCTTTTGTGGTCTACCCCTTAATGGAGCACTGCTTGCCTTTACTTTTTACTTTCT
456 CTTCCCAGGTTCTTTTGTGGTCTACCCCTTAATGGAGCACTGCTTGCCTTTACTTTTTACTTTCT
*
13339449 CTCTCCCATCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
521 CTCTCCCACCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
13339511 TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
1 TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
13339576 AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
66 AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
* *
13339641 ACAATGACCTCTAATTGTCAAAGAACAATCCTTACACACTTGGTCCATTAATACATATTTACCTA
131 ACAATGACCTCTAATTGTCAAAGAACAATCCTTACACAATTGGTCCACTAATACATATTTACCTA
* **
13339706 AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCATATGAGGTACTAAT
196 AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCACACAAGGTACTAAT
13339771 TCCATACAAATATAAGAGTGGGTAGATCCCGGGTCAATTAATGAAACAACAGATATATCATAGAT
261 TCCATACAAATATAAGAGTGGGTAGATCCCGGGTCAATTAATGAAACAACAGATATATCATAGAT
*
13339836 AGAAAAAGTATCCATGATCACATCGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAATTCC
326 AGAAAAAGTATCCATGATCACATCGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAATCC
13339901 TTGCAGGCGCTCTACCCTCAGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
391 TTGCAGGCGCTCTACCCTCAGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
* * *
13339966 CTTCCCGGGTTTTTTTGTTGTCTACCCCTTAATGGAGCACTGCTTGCCTTTACTTTTTACTTTCT
456 CTTCCCAGGTTCTTTTGTGGTCTACCCCTTAATGGAGCACTGCTTGCCTTTACTTTTTACTTTCT
13340031 CTCTCCCACCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
521 CTCTCCCACCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
13340093 T
1 T
13340094 TTCGTTTCCT
Statistics
Matches: 566, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
582 566 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (582 bp):
TCCTGTCTTCACATTTCAACTCAATAACTTTCCTCCCATAGTCCACTACAACACTATGAGAAGTC
AACCAATCCATCCCAAGGATTACGTCAAATTCATTAAACGACAATAACATCAAGTTAGCCGGAAA
ACAATGACCTCTAATTGTCAAAGAACAATCCTTACACAATTGGTCCACTAATACATATTTACCTA
AAGGGTTAGACACTTTGATCACAAACTCAGTGGACTCTACTAGCATGCTCACACAAGGTACTAAT
TCCATACAAATATAAGAGTGGGTAGATCCCGGGTCAATTAATGAAACAACAGATATATCATAGAT
AGAAAAAGTATCCATGATCACATCGGGAGACTCTGCCTCTTCCCGAGCTCGAATAGCATAAATCC
TTGCAGGCGCTCTACCCTCAGACCTCATTGCAGCGTCTCTGGGTGCACTTCGGCTAGAAGCCCCG
CTTCCCAGGTTCTTTTGTGGTCTACCCCTTAATGGAGCACTGCTTGCCTTTACTTTTTACTTTCT
CTCTCCCACCTCAGGGCAATCATGAATAAAGTGGTCTAGTGACTTACACTTCTAGCAACCCC
Found at i:13342006 original size:46 final size:46
Alignment explanation
Indices: 13341943--13342256 Score: 479
Period size: 46 Copynumber: 6.8 Consensus size: 46
13341933 TTTGACATGA
* * * * *
13341943 TGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
* *** *
13341989 TTCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
**
13342035 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
13342081 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
13342127 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
* *
13342173 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-ACATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
13342218 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
13342257 TTCAGAGAGC
Statistics
Matches: 252, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
45 47 0.19
46 205 0.81
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGT
Found at i:13344395 original size:31 final size:31
Alignment explanation
Indices: 13344340--13344401 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
13344330 CTAAATAAAT
*
13344340 AATAATAATAAAATAATAAATATCTCATTAA
1 AATAATAATAAAATAATAAATATCTAATTAA
* **
13344371 AATATTAATAAAATAATATTTATCTAATTAA
1 AATAATAATAAAATAATAAATATCTAATTAA
13344402 TTAATTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (31 bp):
AATAATAATAAAATAATAAATATCTAATTAA
Found at i:13355569 original size:46 final size:47
Alignment explanation
Indices: 13355463--13355633 Score: 215
Period size: 46 Copynumber: 3.6 Consensus size: 47
13355453 TTTGACATGA
* * * *
13355463 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTC-T--T-ATTCATTTTCATGTCACGT
13355513 TGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
* *
13355559 TGCCATGGTATCTTTCAACCATGGTCTTA--CATATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTATTCAT-TTTCATGTCACGT
13355605 TGCCATGGTATCTTTCAACCATGGTCTTA
1 TGCCATGGTATCTTTCAACCATGGTCTTA
13355634 CACATTTCAT
Statistics
Matches: 112, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
44 1 0.01
45 6 0.05
46 80 0.71
47 1 0.01
49 1 0.01
50 23 0.21
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCATGTCACGT
Found at i:13355634 original size:46 final size:46
Alignment explanation
Indices: 13355511--13355648 Score: 217
Period size: 46 Copynumber: 3.0 Consensus size: 46
13355501 TTTCTGTCAT
* *
13355511 GTTGCCATGGTATCTTTCAACCATGGTCTTATTC-T-TTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA--CATATTTCATATCAG
13355557 GTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
*
13355603 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
13355649 AGAGCACACT
Statistics
Matches: 87, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 85 0.98
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACATATTTCATATCAG
Found at i:13357755 original size:18 final size:18
Alignment explanation
Indices: 13357732--13357766 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
13357722 AGTTTTTCCC
*
13357732 TTTTTCCTTCTTTCTTTT
1 TTTTTCCTTCCTTCTTTT
13357750 TTTTTCCTTCCTTCTTT
1 TTTTTCCTTCCTTCTTT
13357767 CTTTCCCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTCCTTCCTTCTTTT
Found at i:13368916 original size:13 final size:13
Alignment explanation
Indices: 13368898--13368922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13368888 GCTCAACAGG
13368898 GACACGCCCGTGT
1 GACACGCCCGTGT
13368911 GACACGCCCGTG
1 GACACGCCCGTG
13368923 AGAGTCGTGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.32, T:0.12
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:13374645 original size:20 final size:20
Alignment explanation
Indices: 13374620--13374659 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
13374610 TTTATGTTCT
13374620 TTTAATACTTGGATTAATTC
1 TTTAATACTTGGATTAATTC
13374640 TTTAATACTTGGATTAATTC
1 TTTAATACTTGGATTAATTC
13374660 CTCTTTCTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTAATACTTGGATTAATTC
Found at i:13378344 original size:13 final size:13
Alignment explanation
Indices: 13378326--13378354 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
13378316 TTTAGTTTAA
13378326 TTAGTTAATTAGT
1 TTAGTTAATTAGT
13378339 TTAGTTAATTAGT
1 TTAGTTAATTAGT
13378352 TTA
1 TTA
13378355 ATAAACAACC
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:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:13383826 original size:6 final size:6
Alignment explanation
Indices: 13383815--13383857 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
13383805 AATCCTCCTA
13383815 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT T
13383858 GAAAGACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:13385673 original size:11 final size:11
Alignment explanation
Indices: 13385654--13385686 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13385644 AGCGCACCAA
13385654 GAGCC-AAAAG
1 GAGCCAAAAAG
*
13385664 GAGCCAAAAAC
1 GAGCCAAAAAG
13385675 GAGCCAAAAAG
1 GAGCCAAAAAG
13385686 G
1 G
13385687 GACAAAACGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.52, C:0.21, G:0.27, T:0.00
Consensus pattern (11 bp):
GAGCCAAAAAG
Found at i:13385692 original size:21 final size:21
Alignment explanation
Indices: 13385654--13385702 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
13385644 AGCGCACCAA
*
13385654 GAGCC-AAAAGGAGCCAAAAAC
1 GAGCCAAAAAGGAGAC-AAAAC
13385675 GAGCCAAAAAGG-GACAAAAC
1 GAGCCAAAAAGGAGACAAAAC
*
13385695 GGGCCAAA
1 GAGCCAAA
13385703 TCGAGAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.48
21 7 0.28
22 6 0.24
ACGTcount: A:0.51, C:0.22, G:0.27, T:0.00
Consensus pattern (21 bp):
GAGCCAAAAAGGAGACAAAAC
Found at i:13386732 original size:13 final size:13
Alignment explanation
Indices: 13386714--13386738 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13386704 TTTAGTTTAA
13386714 TTAGTTAATTAGT
1 TTAGTTAATTAGT
13386727 TTAGTTAATTAG
1 TTAGTTAATTAG
13386739 CTTAATAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:13398383 original size:14 final size:15
Alignment explanation
Indices: 13398366--13398394 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13398356 ACACGAAAAT
13398366 TTCACACAT-ATAAA
1 TTCACACATAATAAA
13398380 TTCACACATAATAAA
1 TTCACACATAATAAA
13398395 CACAGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:13402606 original size:50 final size:50
Alignment explanation
Indices: 13402531--13402707 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
13402521 CCATGGCAAC
13402531 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
13402581 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
13402631 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
13402681 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
13402708 CTGATTAGTG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 95 0.81
51 23 0.19
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:13402721 original size:31 final size:31
Alignment explanation
Indices: 13402683--13402769 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
13402673 ACAAATGACA
* *
13402683 AGTGAAAAGTGGTAGCTTCAGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
13402714 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
13402745 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
13402770 AAGTGACAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:13402895 original size:49 final size:48
Alignment explanation
Indices: 13402785--13402949 Score: 211
Period size: 49 Copynumber: 3.6 Consensus size: 48
13402775 ACAAGTGATT
* * * * *
13402785 TTCGTATAAGACCATATCTGGGATATGGCATC-A-GTGAGATATGTGA
1 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA
13402831 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA
1 TTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA
*
13402879 TTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A
1 TT-CGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA
13402924 -T-GTGTAAGACCATAGCTGGGCTATGG
1 TTCGTGTAAGACCATAGCTGGGCTATGG
13402950 AATCATTATG
Statistics
Matches: 110, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
42 25 0.23
44 1 0.01
45 1 0.01
46 30 0.27
47 1 0.01
48 14 0.13
49 38 0.35
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (48 bp):
TTCGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGA
Found at i:13402929 original size:42 final size:43
Alignment explanation
Indices: 13402834--13402997 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 43
13402824 TATGTGATTC
*
13402834 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGCTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
13402881 ACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* * *
13402925 GTGTAAGACCATAGCTGGGCTATGGAATC-ATTATGTGGAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
13402967 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
13402998 GAAAATGAAA
Statistics
Matches: 102, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
41 1 0.01
42 61 0.60
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 30 0.29
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:13407275 original size:38 final size:39
Alignment explanation
Indices: 13407191--13407325 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
13407181 ACCAATATGG
*
13407191 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
13407230 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
13407268 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
13407309 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
13407326 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:13408910 original size:5 final size:5
Alignment explanation
Indices: 13408900--13408939 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
13408890 TAATAATAAT
13408900 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
13408940 CTTAATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:13416315 original size:5 final size:5
Alignment explanation
Indices: 13416307--13416339 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
13416297 ATTAAACTAT
13416307 TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT
13416340 TTTCTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:13417768 original size:23 final size:23
Alignment explanation
Indices: 13417726--13417769 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13417716 TAAATATTAT
*
13417726 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
13417749 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
13417770 AAAATGGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:13418807 original size:23 final size:23
Alignment explanation
Indices: 13418775--13418818 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
13418765 TCTACCATTT
13418775 TCTAAATAAAATAATAATAAATA
1 TCTAAATAAAATAATAATAAATA
* *
13418798 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATAATAATAAA
13418819 ATAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TCTAAATAAAATAATAATAAATA
Found at i:13418811 original size:13 final size:11
Alignment explanation
Indices: 13418779--13418821 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
13418769 CCATTTTCTA
*
13418779 AATAAAATAAT
1 AATAAAATATT
13418790 AAT-AAATATCT
1 AATAAAATAT-T
13418801 AAGTAAAATATT
1 AA-TAAAATATT
13418813 AATAAAATA
1 AATAAAATA
13418822 ATATTTCACT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 4 0.14
13 6 0.21
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (11 bp):
AATAAAATATT
Found at i:13429691 original size:9 final size:9
Alignment explanation
Indices: 13429674--13429710 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13429664 TGAGTTTTCG
13429674 AATTCGAAT
1 AATTCGAAT
*
13429683 AACTCGAAT
1 AATTCGAAT
13429692 AATTCGAAT
1 AATTCGAAT
13429701 AATTCGAAT
1 AATTCGAAT
13429710 A
1 A
13429711 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13430864 original size:71 final size:71
Alignment explanation
Indices: 13430774--13430905 Score: 201
Period size: 71 Copynumber: 1.9 Consensus size: 71
13430764 TCAAAAATAA
* ** * *
13430774 CGATGATGGTGAGGTTAGTTACTATAGCTGTAAGATAAAAAATTTCACCATACCATAAACATTAA
1 CGATGATAGTGAAATTAGTTACTATAACTATAAGATAAAAAATTTCACCATACCATAAACATTAA
13430839 AAACAG
66 AAACAG
* *
13430845 CGATGATAGTGAAATTAGTTACTATAACTATAAGATGAAAAATTTCACCATGCCATAAACA
1 CGATGATAGTGAAATTAGTTACTATAACTATAAGATAAAAAATTTCACCATACCATAAACA
13430906 CCAACCAAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 54 1.00
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.27
Consensus pattern (71 bp):
CGATGATAGTGAAATTAGTTACTATAACTATAAGATAAAAAATTTCACCATACCATAAACATTAA
AAACAG
Found at i:13432938 original size:18 final size:18
Alignment explanation
Indices: 13432917--13432951 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13432907 ATTTTGAAAT
*
13432917 TAATTTGAATTTAATTTC
1 TAATTTAAATTTAATTTC
*
13432935 TAATTTAAATTTGATTT
1 TAATTTAAATTTAATTT
13432952 TAAAATTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
TAATTTAAATTTAATTTC
Found at i:13437289 original size:21 final size:21
Alignment explanation
Indices: 13437240--13437315 Score: 80
Period size: 21 Copynumber: 3.5 Consensus size: 21
13437230 CCTGATCAGT
* * *
13437240 ATACGACACATAAAGTGCCTA
1 ATACGACACATGAGGTGCCTG
* *
13437261 AAATGACACATGAGGTGCCTG
1 ATACGACACATGAGGTGCCTG
*
13437282 ATACGACACACGAGGTGCCTG
1 ATACGACACATGAGGTGCCTG
13437303 ATACACGACACAT
1 AT--ACGACACAT
13437316 AAAATGTCTG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 36 0.82
23 8 0.18
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (21 bp):
ATACGACACATGAGGTGCCTG
Found at i:13437658 original size:15 final size:16
Alignment explanation
Indices: 13437640--13437669 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13437630 TCCAATCAAT
13437640 ATATTT-TTCAATATA
1 ATATTTATTCAATATA
13437655 ATATTTATTCAATAT
1 ATATTTATTCAATAT
13437670 TCAAATTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (16 bp):
ATATTTATTCAATATA
Found at i:13437722 original size:15 final size:15
Alignment explanation
Indices: 13437697--13437754 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
13437687 TCATATATAT
13437697 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
13437713 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
13437728 AATAATTTCAATCAA
1 TATAAATTCAATCAA
13437743 TATAAATTCAAT
1 TATAAATTCAAT
13437755 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:13439037 original size:5 final size:5
Alignment explanation
Indices: 13439024--13439055 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
13439014 TTCTTTAGTT
13439024 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
13439056 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:13441069 original size:23 final size:23
Alignment explanation
Indices: 13441043--13441091 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
13441033 AATTAAAAAG
13441043 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
13441066 ATGAAAGCATATTAGCTATCATT
1 ATGAAAGCATATTAGCTATCATT
13441089 ATG
1 ATG
13441092 TTGTTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (23 bp):
ATGAAAGCATATTAGCTATCATT
Found at i:13445989 original size:14 final size:15
Alignment explanation
Indices: 13445954--13445982 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13445944 ACAAAAATAA
13445954 GAAAAGAAAATGAGG
1 GAAAAGAAAATGAGG
13445969 GAAAAGAAAA-GAGG
1 GAAAAGAAAATGAGG
13445983 TACAAGAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (15 bp):
GAAAAGAAAATGAGG
Found at i:13450814 original size:39 final size:40
Alignment explanation
Indices: 13450755--13450837 Score: 141
Period size: 39 Copynumber: 2.1 Consensus size: 40
13450745 TAATATAAAG
*
13450755 AAAATTAATTTAAAACTCTGAATACAAAATTCAAAATCC-
1 AAAATTAATTTAAAACTCTGAATACAAAACTCAAAATCCT
*
13450794 AAAATTAATTTAAAATTCTGAATACAAAACTCAAAATCCT
1 AAAATTAATTTAAAACTCTGAATACAAAACTCAAAATCCT
13450834 AAAA
1 AAAA
13450838 AGTAAATCAG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 37 0.90
40 4 0.10
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.28
Consensus pattern (40 bp):
AAAATTAATTTAAAACTCTGAATACAAAACTCAAAATCCT
Found at i:13454273 original size:16 final size:16
Alignment explanation
Indices: 13454254--13454288 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13454244 CTCTTTTCCT
13454254 TTTTTCTTCTTATTTC
1 TTTTTCTTCTTATTTC
* *
13454270 TTTTTCTTTTTTTTTC
1 TTTTTCTTCTTATTTC
13454286 TTT
1 TTT
13454289 CTATTTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTCTTCTTATTTC
Found at i:13454924 original size:20 final size:20
Alignment explanation
Indices: 13454881--13454925 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
13454871 ACCCTGGCCA
*
13454881 CCGTACGCCAGCACAGCCCT
1 CCGTACGCCAGCACAGCACT
13454901 -CGTACGCCACGCAC-GCACT
1 CCGTACGCCA-GCACAGCACT
13454920 CCGTAC
1 CCGTAC
13454926 CTGCAAACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.11
Consensus pattern (20 bp):
CCGTACGCCAGCACAGCACT
Found at i:13456557 original size:21 final size:22
Alignment explanation
Indices: 13456522--13456563 Score: 68
Period size: 21 Copynumber: 1.9 Consensus size: 22
13456512 TAGTTTTCAA
13456522 ATTGTTTCCATATTGTTTTGTAT
1 ATTGTTT-CATATTGTTTTGTAT
13456545 ATTGTTT-ATATTGTTTTGT
1 ATTGTTTCATATTGTTTTGT
13456564 TATAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.17, C:0.05, G:0.14, T:0.64
Consensus pattern (22 bp):
ATTGTTTCATATTGTTTTGTAT
Found at i:13456573 original size:21 final size:21
Alignment explanation
Indices: 13456531--13456574 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
13456521 AATTGTTTCC
**
13456531 ATATTGTTTTGTATATTGTTT
1 ATATTGTTTTGTATATAATTT
13456552 ATATTGTTTTGT-TATAAATTT
1 ATATTGTTTTGTATAT-AATTT
13456573 AT
1 AT
13456575 TTTCATACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (21 bp):
ATATTGTTTTGTATATAATTT
Found at i:13457715 original size:130 final size:127
Alignment explanation
Indices: 13457439--13457807 Score: 380
Period size: 130 Copynumber: 2.8 Consensus size: 127
13457429 TCATTCATTC
* * * * * *
13457439 AAAAATTCTTTAAAACGAAGATGAGATTTGATATTTGACAATTCGCGAAATCGTGCCCTAACGTG
1 AAAAATCCTTTAAAACGAAGGTGATA-TCGATATTTGGCAATTCG-GGAATCGTGCCCTAACGTG
** * * ** *
13457504 TTGGGTTGCAACTTCGCGTTTGCTCAAAACAATCGAATATCATTTCAAAATTTCACTCATGTCTT
64 TTGGGTTGCAA-TT-TTGTTTGTTTAAAACAATCGAATATCCCTTCAAAATTTCACTCAGGTCTT
13457569 T
127 T
* * * *
13457570 TAAAATCCCTT-AAACGAAGGCGATATACGATATTTGGCAATTTGTGGAATCGTGCCCTAACGTG
1 AAAAATCCTTTAAAACGAAGGTGATAT-CGATATTTGGCAATTCG-GGAATCGTGCCCTAACGTG
* * *
13457634 TTGGGTTGCAATTTTGATTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTCAGGTCTTCT
64 TTGGGTTGCAATTTTGTTTGTTTAAAACAATCGAATATCCCTTCAAAATTTCACTCAGGTCTT-T
* * * * * *
13457699 AAAAATCCTTTAAAACGAAGGTAATACTCGGTGTTTGGCAATTCGGGAATCGTGTCCTATCGTGC
1 AAAAATCCTTTAAAACGAAGGTGATA-TCGATATTTGGCAATTCGGGAATCGTGCCCTAACGTGT
** *
13457764 TGGGTTGTGATTTCTCGTTTGTTTAAAACAATCGAATATTCCTT
65 TGGGTTGCAATTT-T-GTTTGTTTAAAACAATCGAATATCCCTT
13457808 TAGGTTTGCA
Statistics
Matches: 195, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
128 40 0.21
129 41 0.21
130 81 0.42
131 33 0.17
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (127 bp):
AAAAATCCTTTAAAACGAAGGTGATATCGATATTTGGCAATTCGGGAATCGTGCCCTAACGTGTT
GGGTTGCAATTTTGTTTGTTTAAAACAATCGAATATCCCTTCAAAATTTCACTCAGGTCTTT
Found at i:13467850 original size:5 final size:5
Alignment explanation
Indices: 13467842--13467866 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
13467832 TTTTATTATG
13467842 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
13467867 ACCGTCTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:13473283 original size:95 final size:95
Alignment explanation
Indices: 13473171--13473350 Score: 288
Period size: 95 Copynumber: 1.9 Consensus size: 95
13473161 AGCAAATATA
* * * *
13473171 TATACATGTAACAACTTAAATAACAACTAAAGGAGGATTAAAATGAAAGAACGATAATTTATATG
1 TATACATGTAACAACTTAAATAACAAATAAAGGAGGACTAAAATGAAAGAACGATAACTTATAGG
*
13473236 GGATGAAATGTGATTGCAACTAATGGAGGG
66 GGATGAAATATGATTGCAACTAATGGAGGG
* * *
13473266 TATATATGTAATAACTTAAATAACAAATAATGGAGGACTAAAATGAAAGAACGATAACTTATAGG
1 TATACATGTAACAACTTAAATAACAAATAAAGGAGGACTAAAATGAAAGAACGATAACTTATAGG
13473331 GGATGAAATATGATTGCAAC
66 GGATGAAATATGATTGCAAC
13473351 CAAATATGGA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
95 77 1.00
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.26
Consensus pattern (95 bp):
TATACATGTAACAACTTAAATAACAAATAAAGGAGGACTAAAATGAAAGAACGATAACTTATAGG
GGATGAAATATGATTGCAACTAATGGAGGG
Found at i:13481689 original size:21 final size:21
Alignment explanation
Indices: 13481650--13481690 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13481640 CTCCTAAGTA
* **
13481650 TGGTCAAAATTGGGGGTCTCT
1 TGGTCAAAATTAGAAGTCTCT
13481671 TGGTCAAAATTAGAAGTCTC
1 TGGTCAAAATTAGAAGTCTC
13481691 AATTTTGGTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (21 bp):
TGGTCAAAATTAGAAGTCTCT
Found at i:13484343 original size:23 final size:23
Alignment explanation
Indices: 13484261--13484347 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
13484251 CCTGATCAGT
*
13484261 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
13484283 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
13484303 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
13484326 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
13484348 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:13484734 original size:15 final size:15
Alignment explanation
Indices: 13484709--13484766 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
13484699 TCATATATAT
13484709 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
13484725 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* * *
13484740 AATAATTTCAATGAA
1 TATAAATTCAATCAA
13484755 TATAAATTCAAT
1 TATAAATTCAAT
13484767 AAATTCATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:13486075 original size:15 final size:15
Alignment explanation
Indices: 13486052--13486094 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
13486042 TTATATATAA
*
13486052 AATAAAATAAAATAT
1 AATAAAATATAATAT
*
13486067 AATATAATATAATAT
1 AATAAAATATAATAT
*
13486082 AATTAAAACATAA
1 AA-TAAAATATAA
13486095 AATATCTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AATAAAATATAATAT
Found at i:13486120 original size:8 final size:8
Alignment explanation
Indices: 13486107--13486135 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
13486097 TATCTTTATT
13486107 ATATAATA
1 ATATAATA
13486115 ATATAATA
1 ATATAATA
13486123 ATATAATA
1 ATATAATA
13486131 ATATA
1 ATATA
13486136 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:13489284 original size:17 final size:18
Alignment explanation
Indices: 13489262--13489295 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13489252 ATTTGAATAT
13489262 TAAA-TTACATATTAAAA
1 TAAATTTACATATTAAAA
*
13489279 TAAATTTATATATTAAA
1 TAAATTTACATATTAAA
13489296 TAATATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAATTTACATATTAAAA
Found at i:13489312 original size:28 final size:29
Alignment explanation
Indices: 13489258--13489314 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
13489248 TAGTATTTGA
*
13489258 ATATTAAATTACATATTAAAATAAATTTAT
1 ATATTAAATAACATATT-AAATAAATTTAT
* *
13489288 ATATTAAATAATATATT-AATCAATTTA
1 ATATTAAATAACATATTAAATAAATTTA
13489315 AAAATTCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.38
30 15 0.62
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATTAAATAACATATTAAATAAATTTAT
Found at i:13490145 original size:18 final size:18
Alignment explanation
Indices: 13490118--13490168 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
13490108 ATAACAACAT
*
13490118 AATATGAAAATATAAAAA
1 AATATTAAAATATAAAAA
13490136 AATATTAAAATGATAAAAA
1 AATATTAAAAT-ATAAAAA
13490155 AATTATTGAAAATA
1 AA-TATT-AAAATA
13490169 AAACATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 10 0.34
19 9 0.31
20 5 0.17
21 5 0.17
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (18 bp):
AATATTAAAATATAAAAA
Found at i:13490169 original size:18 final size:18
Alignment explanation
Indices: 13490118--13490171 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
13490108 ATAACAACAT
13490118 AATA-TGAAAATATAAAAA
1 AATATTGAAAATA-AAAAA
13490136 AATATT-AAAATGATAAAAA
1 AATATTGAAAAT-A-AAAAA
13490155 AATTATTGAAAATAAAA
1 AA-TATTGAAAATAAAA
13490172 CATTTAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 9 0.28
19 13 0.41
20 5 0.16
21 5 0.16
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AATATTGAAAATAAAAAA
Found at i:13490555 original size:19 final size:18
Alignment explanation
Indices: 13490511--13490558 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
13490501 CTGTTTATGT
*
13490511 TTTTAATATTTTTATAAT
1 TTTTAATATTTTTATAAA
13490529 TTTCTAAT-TTTTTAATACAA
1 TTT-TAATATTTTT-ATA-AA
13490549 TTTTAATATT
1 TTTTAATATT
13490559 GTGTATGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 8 0.32
19 11 0.44
20 6 0.24
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTAATATTTTTATAAA
Done.