Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 97 of 292
Found at i:29701695 original size:47 final size:46
Alignment explanation
Indices: 29701625--29701853 Score: 230
Period size: 47 Copynumber: 4.9 Consensus size: 46
29701615 AAGCCAAATT
*
29701625 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TCGAG
* * * *
29701673 ATGAGAGCTAGTGTAACACATGTCTAGGACAT-GCATTGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGG-CTCGAG
* * *
29701719 ACGTA-AGCCAGTGTAAGACATGTCTGGGATAT-GCATCGGCTACGAA
1 ATG-AGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCT-CGAG
* * * * * * *
29701765 ATGATAGTCAGTGTAACACCATGTATGGAACATGGCATCGACTTGAG
1 ATGAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCGGCTCGAG
*
29701812 ATGTGAGCCAGTGTAAGACGATGTCTGGGACATGGCATCGGC
1 ATGAGAGCCAGTGTAAGAC-ATGTCTGGGACATGGCATCGGC
29701854 ATCTTACCCA
Statistics
Matches: 146, Mismatches: 28, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
45 3 0.02
46 58 0.40
47 61 0.42
48 24 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
ATGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCGGCTCGAG
Found at i:29701742 original size:46 final size:46
Alignment explanation
Indices: 29701627--29701856 Score: 196
Period size: 46 Copynumber: 4.9 Consensus size: 46
29701617 GCCAAATTAT
* *
29701627 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGAT
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
* * * * *
29701675 GAGAGCTAGTGTAACACATGTCTAGGACATGCATTGGCCTCGAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
* * *
29701721 GTA-AGCCAGTGTAAGACATGTCTGGGATATGCATCGGC-TACGAAAT
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGAC
* * * * * * * *
29701767 GATAGTCAGTGTAACACCATGTATGGAACATGGCATCGAC-TTGAGAT
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCGAGAC
*
29701814 GTGAGCCAGTGTAAGACGATGTCTGGGACATGGCATCGGCATC
1 GAGAGCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCATC
29701857 TTACCCACGT
Statistics
Matches: 145, Mismatches: 30, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
45 2 0.01
46 60 0.41
47 60 0.41
48 23 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGAC
Found at i:29709712 original size:29 final size:29
Alignment explanation
Indices: 29709647--29709766 Score: 136
Period size: 29 Copynumber: 4.2 Consensus size: 29
29709637 TACATACATG
*
29709647 CATATGGCCCACTAGGCCC-AATC-TCATT
1 CATATGGCCCATTAGGCCCAAATCAT-ATT
*
29709675 CATTTGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAAATCATATT
** *
29709704 TGTATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCATATT
** * *
29709733 CATACAGCCCATTAGACCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCATATT
29709762 CATAT
1 CATAT
29709767 AAATGCTTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 17 0.22
29 60 0.77
30 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCATATT
Found at i:29709753 original size:58 final size:57
Alignment explanation
Indices: 29709649--29709757 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
29709639 CATACATGCA
* *** *
29709649 TATGGCCCACTAGGCCCAATCTCATTCATTTGGCCCATTAGGCCCAAATCATATTTG
1 TATGGCCCACTAGGCCCAATCACATTCATACAGCCCATTAGACCCAAATCATATTTG
*
29709706 TATGGCCCATTAGGCCCAAATCACATTCATACAGCCCATTAGACCCAAATCA
1 TATGGCCCACTAGGCCC-AATCACATTCATACAGCCCATTAGACCCAAATCA
29709758 CATTCATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 16 0.36
58 29 0.64
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCACATTCATACAGCCCATTAGACCCAAATCATATTTG
Found at i:29715059 original size:43 final size:41
Alignment explanation
Indices: 29714969--29715051 Score: 105
Period size: 43 Copynumber: 2.0 Consensus size: 41
29714959 GATTAAGACC
* **
29714969 ATGGCATCGATATGTGTACGAGTAAGACCCTGTCTGGGACA
1 ATGGCATCGATATATGTACGAGTAAGACCAGGTCTGGGACA
29715010 ATGGCATCGATATATGATTAC-ATGTAAGACCAGGTCTGGGAC
1 ATGGCATCGATATATG--TACGA-GTAAGACCAGGTCTGGGAC
29715052 GTTGGCATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
41 15 0.42
42 1 0.03
43 20 0.56
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (41 bp):
ATGGCATCGATATATGTACGAGTAAGACCAGGTCTGGGACA
Found at i:29725489 original size:40 final size:40
Alignment explanation
Indices: 29725444--29725610 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
29725434 CGGAATATAA
29725444 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
29725484 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
29725524 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
29725564 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
29725603 CCGGATAT
1 CCGGATAT
29725611 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:29725594 original size:80 final size:79
Alignment explanation
Indices: 29725444--29725610 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
29725434 CGGAATATAA
* *
29725444 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
29725509 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
29725524 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
29725586 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
29725603 CCGGATAT
1 CCGGATAT
29725611 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:29726457 original size:17 final size:19
Alignment explanation
Indices: 29726434--29726479 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
29726424 AAGAAGCATG
29726434 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
29726452 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
29726470 AATCATGCTC
1 AATCATGCTC
29726480 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:29733483 original size:40 final size:40
Alignment explanation
Indices: 29733438--29733604 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
29733428 CGGAATATAA
29733438 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
29733478 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
29733518 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
29733558 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
29733597 CCGGATAT
1 CCGGATAT
29733605 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:29733588 original size:80 final size:79
Alignment explanation
Indices: 29733454--29733604 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
29733444 ATAATCACGT
*
29733454 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
29733519 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
29733534 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
29733597 CCGGATAT
64 CCGGATAT
29733605 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:29738582 original size:17 final size:19
Alignment explanation
Indices: 29738540--29738583 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
29738530 ATGAAATTTT
*
29738540 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
29738559 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
29738577 AA-TATTA
1 AATTATTA
29738584 CTGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:29740404 original size:28 final size:28
Alignment explanation
Indices: 29740372--29740440 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
29740362 GCGTAGATCA
29740372 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
29740400 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
29740428 CGATA-TACCCCTA
1 CGAAATTACCCCTA
29740441 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:29747792 original size:19 final size:20
Alignment explanation
Indices: 29747755--29747792 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
29747745 ATAAGGTGGT
29747755 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
29747775 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
29747793 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:29750062 original size:12 final size:12
Alignment explanation
Indices: 29750047--29750076 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
29750037 CCTTGATCCA
29750047 CTCCTCAAATCT
1 CTCCTCAAATCT
*
29750059 CTCCCCAAATCT
1 CTCCTCAAATCT
29750071 CTCCTC
1 CTCCTC
29750077 TAGTCCCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.20, C:0.50, G:0.00, T:0.30
Consensus pattern (12 bp):
CTCCTCAAATCT
Found at i:29751873 original size:56 final size:56
Alignment explanation
Indices: 29751813--29752003 Score: 231
Period size: 56 Copynumber: 3.4 Consensus size: 56
29751803 CCTAAACAGG
* * * * *
29751813 GTCTTACTAGCACACATATAACGGAATCACATATCAATGGCAACATATTAAACGTC
1 GTCTTACTAGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTA
* * * *
29751869 GTCTTACTTGTACACATATATCGGAATCACATATCGATGCCAATGTATTAAATGTA
1 GTCTTACTAGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTA
* * * * * *
29751925 GTCTTACTCGTACACATTTATTGGAATCACATATCGATGCCAACGTATTCAACGTG
1 GTCTTACTAGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTA
29751981 GTCTTACTCA-CACACATATATCG
1 GTCTTACT-AGCACACATATATCG
29752004 ATGCCATGGT
Statistics
Matches: 114, Mismatches: 20, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
56 114 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (56 bp):
GTCTTACTAGCACACATATATCGGAATCACATATCGATGCCAACGTATTAAACGTA
Found at i:29761223 original size:22 final size:22
Alignment explanation
Indices: 29761193--29761237 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
29761183 CTAGTGCCAT
29761193 AGCCCTCAACTCCCTAGCCGCA
1 AGCCCTCAACTCCCTAGCCGCA
* * *
29761215 AGCCTTCAACTTCTTAGCCGCA
1 AGCCCTCAACTCCCTAGCCGCA
29761237 A
1 A
29761238 CATCGCTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.24, C:0.42, G:0.13, T:0.20
Consensus pattern (22 bp):
AGCCCTCAACTCCCTAGCCGCA
Found at i:29761666 original size:25 final size:27
Alignment explanation
Indices: 29761607--29761667 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 27
29761597 ATTTTTTCTC
*
29761607 TTAA-ATTTTAAATTTTATTTAATCAT
1 TTAATATTTTAAATTTTATTGAATCAT
* *
29761633 TTAAT-TTTTCAA-TTTATTGAATTA-
1 TTAATATTTTAAATTTTATTGAATCAT
29761657 TTAATATTTTA
1 TTAATATTTTA
29761668 TATTAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 5 0.17
25 14 0.48
26 10 0.34
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (27 bp):
TTAATATTTTAAATTTTATTGAATCAT
Found at i:29763679 original size:27 final size:27
Alignment explanation
Indices: 29763639--29764280 Score: 784
Period size: 27 Copynumber: 23.5 Consensus size: 27
29763629 ATCTGAGCTG
*
29763639 TGTAGGGTAAAATGACCGTAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
*
29763666 TATAGGGTAAAATGACCGTAATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
*
29763693 TGTAGGGTAAAATGATCGTAATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* * *
29763720 TGTAGCGTAAAATGACCATAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
*
29763747 TGTAGGGTAAAATGACCGTGATGTCGTAATGCCC
1 TGTAGGGTAAAATGACCGTAATG-C------CCC
*
29763781 T-TCAATGGTAAAATGACCGTAATGCCCC
1 TGT--AGGGTAAAATGACCGTAATGCCCC
*
29763809 TGTAGGATAAAATGACCCGTAATGCCCC
1 TGTAGGGTAAAATGA-CCGTAATGCCCC
*
29763837 TGTAGGGTAAAATGATCGTAATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* **
29763864 TGTATGGTAAAATGAATGTAATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* *
29763891 TGTAAGGTAAAATGACCGTAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* ** *
29763918 TGTAAGGTAAAATGATAGTAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* *
29763945 TGTAGGTTAAAATGACCGTAGTGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
*
29763972 TGTAGGGTAAAATGACTGTAATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
*
29763999 TGTA-GGTAAAATGACCGTAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* *
29764025 TGTAGGGTACAATGACCGTAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
*
29764052 TGTAGGGTACAATGACCGTAATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* * *
29764079 TATAGGGTAAAATGACCATAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* *
29764106 TGCAGGGTAAAATGACCGTAATGCCTC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* * * * *
29764133 TGTAGTGAAAAATTACCATAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
*
29764160 TGTAGGGTAAAATGATCGTAATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* *
29764187 TATAGGGTAAAATGACCGTAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
*
29764214 TGTAGGGTAAAATGACTGTAATGCCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* *
29764241 CGTAGGGTAAAATGACCGTAATACCCC
1 TGTAGGGTAAAATGACCGTAATGCCCC
* *
29764268 TATATGGTAAAAT
1 TGTAGGGTAAAAT
29764281 CATGATTATG
Statistics
Matches: 529, Mismatches: 74, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
26 24 0.05
27 449 0.85
28 31 0.06
29 1 0.00
33 1 0.00
34 5 0.01
35 18 0.03
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
TGTAGGGTAAAATGACCGTAATGCCCC
Found at i:29765817 original size:27 final size:27
Alignment explanation
Indices: 29765787--29765940 Score: 164
Period size: 27 Copynumber: 5.5 Consensus size: 27
29765777 ATAGTGAATC
29765787 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * **
29765814 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATC-AGCT
29765842 CGCACACTTAGTGCTATAAAATCAGCT
1 CGCACACTTAGTGCTATAAAATCAGCT
* * *
29765869 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGCTATA-AA-ATCAGCT
* **
29765898 CGCACACTTAGTGCCATATATTTCCAGCT
1 CGCACACTTAGTGCTATA-AAAT-CAGCT
*
29765927 TGCACACTTAGTGC
1 CGCACACTTAGTGC
29765941 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
27 40 0.37
28 27 0.25
29 40 0.37
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAAAATCAGCT
Found at i:29765834 original size:29 final size:28
Alignment explanation
Indices: 29765787--29765940 Score: 145
Period size: 29 Copynumber: 5.5 Consensus size: 28
29765777 ATAGTGAATC
29765787 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* * **
29765814 CGCACACATAGTGC-TATATAATCAAATT
1 CGCACACTTAGTGCATATAAAATC-AGCT
29765842 CGCACACTTAGTGC-TATAAAATCAGCT
1 CGCACACTTAGTGCATATAAAATCAGCT
* ** *
29765869 CGCACACATAGTGCTATATAATTTGAGCT
1 CGCACACTTAGTGC-ATATAAAATCAGCT
**
29765898 CGCACACTTAGTGCCATAT-ATTTCCAGCT
1 CGCACACTTAGTG-CATATAAAAT-CAGCT
*
29765927 TGCACACTTAGTGC
1 CGCACACTTAGTGC
29765941 CATTCTCGTC
Statistics
Matches: 107, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
27 36 0.34
28 28 0.26
29 42 0.39
30 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCATATAAAATCAGCT
Found at i:29765858 original size:55 final size:55
Alignment explanation
Indices: 29765787--29765890 Score: 208
Period size: 55 Copynumber: 1.9 Consensus size: 55
29765777 ATAGTGAATC
29765787 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
29765842 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
1 CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAAT
29765891 TTGAGCTCGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATAAAATCAGCTCGCACACATAGTGCTATATAATCAAATT
Found at i:29768023 original size:80 final size:80
Alignment explanation
Indices: 29767939--29768087 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29767929 TATGGTAACC
* * * *
29767939 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29768003 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29768019 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29768084 CCGG
66 CCGG
29768088 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29768029 original size:40 final size:38
Alignment explanation
Indices: 29767980--29768087 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29767970 ATCACGATTT
*
29767980 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29768020 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29768060 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29768088 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29776141 original size:80 final size:80
Alignment explanation
Indices: 29776057--29776205 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
29776047 TATGGTAACC
* * * *
29776057 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
29776121 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
29776137 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
29776202 CCGG
66 CCGG
29776206 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:29776147 original size:40 final size:38
Alignment explanation
Indices: 29776098--29776205 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
29776088 ATCACGATTT
*
29776098 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
29776138 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
29776178 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
29776206 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:29778011 original size:2 final size:2
Alignment explanation
Indices: 29777999--29778044 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
29777989 TGATGGTCGA
*
29777999 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29778041 AT AT
1 AT AT
29778045 CAACTATGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29785180 original size:37 final size:37
Alignment explanation
Indices: 29785122--29785195 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
29785112 ATACTTAGAT
29785122 AGCATAAATATCGAATATCTTGTTCTTGAACATAATA
1 AGCATAAATATCGAATATCTTGTTCTTGAACATAATA
* *
29785159 AGCATAAATATTGAATTTCTTGTTCTTGAACATAATA
1 AGCATAAATATCGAATATCTTGTTCTTGAACATAATA
29785196 TACCAAATTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (37 bp):
AGCATAAATATCGAATATCTTGTTCTTGAACATAATA
Found at i:29788440 original size:27 final size:27
Alignment explanation
Indices: 29788392--29788547 Score: 169
Period size: 27 Copynumber: 5.8 Consensus size: 27
29788382 GTGAGGCTGT
* * *
29788392 CAGATATTGTGAC-GAAGTCACCAAATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
29788419 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
29788445 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
29788472 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
29788499 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
29788526 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
29788548 TAGGACGCTT
Statistics
Matches: 113, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:29788492 original size:54 final size:54
Alignment explanation
Indices: 29788392--29788547 Score: 226
Period size: 54 Copynumber: 2.9 Consensus size: 54
29788382 GTGAGGCTGT
* * * * *
29788392 CAGATAT-TGTGACGAAGTCACCAAATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
29788445 CAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
29788499 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCAC
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCAC
29788548 TAGGACGCTT
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 12 0.13
54 80 0.87
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:29788718 original size:28 final size:26
Alignment explanation
Indices: 29788654--29788718 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
29788644 CAAAAGTAAC
** *
29788654 CATAGGGGTATAATGGTAATTTTGCA
1 CATAGGGGTATAACAGTAATTTTCCA
*
29788680 CCTAGGGGTATAACAGTAATTTTCCATA
1 CATAGGGGTATAACAGTAATTTTCC--A
29788708 CATAGGGGTAT
1 CATAGGGGTAT
29788719 TCAAGTAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 21 0.66
28 11 0.34
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (26 bp):
CATAGGGGTATAACAGTAATTTTCCA
Found at i:29790183 original size:26 final size:26
Alignment explanation
Indices: 29790153--29790234 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
29790143 TGAAATTCCC
29790153 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
29790179 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29790205 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
29790231 ATCA
1 ATCA
29790235 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:29795460 original size:47 final size:47
Alignment explanation
Indices: 29795398--29795589 Score: 357
Period size: 47 Copynumber: 4.1 Consensus size: 47
29795388 ATATATATGA
29795398 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
*
29795445 GATAAGGCCGAATGGCCAATGTGATGAATGCGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
29795492 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
* *
29795539 GATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
29795586 GATA
1 GATA
29795590 CATGCATATA
Statistics
Matches: 141, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 141 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.25
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
Found at i:29795469 original size:22 final size:22
Alignment explanation
Indices: 29795442--29795516 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
29795432 CATGCATATG
29795442 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
*
29795464 TGTGATGAATG-CGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
29795487 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
29795511 TGTGAT
1 TGTGAT
29795517 GAATGTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 18
0.68 0.03 0.29
Matches are distributed among these distances:
22 16 0.38
23 8 0.19
24 8 0.19
25 10 0.24
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:29795594 original size:17 final size:17
Alignment explanation
Indices: 29795566--29795606 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
29795556 AATGTGATGA
29795566 ATGTGA-ACATGCATAT
1 ATGTGATACATGCATAT
29795582 ATGTGATACATGCATAT
1 ATGTGATACATGCATAT
29795599 ATGTGATA
1 ATGTGATA
29795607 AGGCCGAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.34
Consensus pattern (17 bp):
ATGTGATACATGCATAT
Found at i:29795604 original size:64 final size:64
Alignment explanation
Indices: 29795519--29795653 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 64
29795509 AATGTGATGA
*
29795519 ATGTGA-ACATGCATATGTGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATACATGCATATATGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCATAT
*
29795582 ATGTGATACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 ATGTGATACATGCATATATGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCATAT
29795646 ATGTGATA
1 ATGTGATA
29795654 AGGCAGAATG
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 6 0.09
64 63 0.91
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (64 bp):
ATGTGATACATGCATATATGTGATAAGGACGAATGGCCAATGTGATGAATGTGAACATGCATAT
Found at i:29795604 original size:111 final size:111
Alignment explanation
Indices: 29795478--29795677 Score: 366
Period size: 111 Copynumber: 1.8 Consensus size: 111
29795468 ATGAATGCGA
* *
29795478 ACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATA
1 ACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATA
29795543 AGG-ACGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAT
66 AGGCA-GAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAT
29795589 ACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATA
1 ACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATA
29795654 AGGCAGAATGGCCAATGTGATGAA
66 AGGCAGAATGGCCAATGTGATGAA
29795678 CGTGGAAGTG
Statistics
Matches: 86, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
111 85 0.99
112 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (111 bp):
ACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGATA
AGGCAGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGAT
Found at i:29795646 original size:47 final size:47
Alignment explanation
Indices: 29795582--29795717 Score: 184
Period size: 47 Copynumber: 2.9 Consensus size: 47
29795572 ACATGCATAT
29795582 ATGTGATACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGA-ACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
29795630 ATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * * * *
29795677 ACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTAATG
1 ATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCAATG
29795718 CGAAACGTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
47 70 0.89
48 9 0.11
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:29795674 original size:22 final size:22
Alignment explanation
Indices: 29795599--29795674 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
29795589 ACATGCATAT
*
29795599 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
29795621 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
29795645 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
29795668 ATGTGAT
1 ATGTGAT
29795675 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:29795779 original size:46 final size:46
Alignment explanation
Indices: 29795691--29795781 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
29795681 GGAAGTGTAT
* *
29795691 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * * *
29795737 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTGTGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
29795782 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:29797315 original size:40 final size:40
Alignment explanation
Indices: 29797257--29797630 Score: 588
Period size: 40 Copynumber: 9.4 Consensus size: 40
29797247 TGAGAGTTAT
*
29797257 ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
29797297 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
29797337 ATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
29797377 ATGTATCCGGGCTAAGTCCTGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
29797417 ATATATCAGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
29797457 ATATATCC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
29797496 ATGTATCCGGGCTGAGTCCCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
29797536 ATATATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
**
29797576 ATATATCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
29797616 ATATATTCGGGCTAA
1 ATATATCCGGGCTAA
29797631 ACCTCGAAGG
Statistics
Matches: 309, Mismatches: 24, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 38 0.12
40 271 0.88
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:29797606 original size:199 final size:200
Alignment explanation
Indices: 29797257--29797630 Score: 637
Period size: 199 Copynumber: 1.9 Consensus size: 200
29797247 TGAGAGTTAT
29797257 ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
*
29797322 GCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATGTATCCGG
66 GCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCGG
29797387 GCTAAGTCCTGAAGAGCATTCGTGCTAGTGATATA-TCAGGGCTAAGTTCCGAAGAGCATTCGTG
131 GCTAAGTCCTGAAGAGCATTCGTGCTAGTGATATATTC-GGGCTAAGTTCCGAAGAGCATTCGTG
29797451 CTAGTG
195 CTAGTG
* * *
29797457 ATATATCC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTGAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
* * *
29797521 GCATTTGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTAGTGATATATCCGG
66 GCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCGG
*
29797586 GCTAAGT-TTCGAAGAGCATTCGTGCTAGTGATATATTCGGGCTAA
131 GCTAAGTCCT-GAAGAGCATTCGTGCTAGTGATATATTCGGGCTAA
29797631 ACCTCGAAGG
Statistics
Matches: 164, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
198 1 0.01
199 153 0.93
200 10 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (200 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
GCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCAAAGAGCATTCGTGCTAGTGATATATCCGG
GCTAAGTCCTGAAGAGCATTCGTGCTAGTGATATATTCGGGCTAAGTTCCGAAGAGCATTCGTGC
TAGTG
Found at i:29797702 original size:28 final size:28
Alignment explanation
Indices: 29797662--29797818 Score: 102
Period size: 28 Copynumber: 5.5 Consensus size: 28
29797652 GAATTATGAG
* *
29797662 GCACTGTGTGTGCAAGTTCTCCAACCGA
1 GCACTATGTGTGCAAGTTCTCCAATCGA
* * *** * *
29797690 GCACTATGTGTGCCAGATCAGTAGTTGA
1 GCACTATGTGTGCAAGTTCTCCAATCGA
*
29797718 GGCACTATGTGTGCAAGTTCTTCAATCGA
1 -GCACTATGTGTGCAAGTTCTCCAATCGA
* * * *
29797747 GCACTATGTGTACGAGATTGGT--AATTGA
1 GCACTATGTGTGCAAG-TT-CTCCAATCGA
* **
29797775 GGCACTATGTGTGCGAGTTCTTTAATCGA
1 -GCACTATGTGTGCAAGTTCTCCAATCGA
*
29797804 GCGCTATGTGTGCAA
1 GCACTATGTGTGCAA
29797819 ATCAGTCAGT
Statistics
Matches: 98, Mismatches: 25, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
27 1 0.01
28 53 0.54
29 43 0.44
30 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTATGTGTGCAAGTTCTCCAATCGA
Found at i:29797748 original size:57 final size:57
Alignment explanation
Indices: 29797658--29797824 Score: 219
Period size: 57 Copynumber: 2.9 Consensus size: 57
29797648 GCTGGAATTA
* * * *
29797658 TGAGGCACTGTGTGTGCAAGTTCTCCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCAAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* * **
29797715 TGAGGCACTATGTGTGCAAGTTCTTCAATCGAGCACTATGTGTACGAGATTGGTAAT
1 TGAGGCACTATGTGTGCAAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
* * * *
29797772 TGAGGCACTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTG-CAAATCAGT
1 TGAGGCACTATGTGTGCAAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGT
29797825 CAGTGGGCAC
Statistics
Matches: 94, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
56 5 0.05
57 89 0.95
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.30
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCAAGTTCTTCAATCGAGCACTATGTGTGCCAGATCAGTAAT
Found at i:29797791 original size:29 final size:29
Alignment explanation
Indices: 29797690--29797791 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
29797680 CTCCAACCGA
* * *
29797690 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
* ** *
29797719 GCACTATGTGTGCAAG-TTCTTCAATCGA-
1 GCACTATGTGTGCGAGATTAGT-AATTGAG
* *
29797747 GCACTATGTGTACGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGATTAGTAATTGAG
29797776 GCACTATGTGTGCGAG
1 GCACTATGTGTGCGAG
29797792 TTCTTTAATC
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
28 21 0.36
29 37 0.64
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATTAGTAATTGAG
Found at i:29799950 original size:2 final size:2
Alignment explanation
Indices: 29799943--29799978 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
29799933 AAGTGTTTAG
29799943 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29799979 GAATTTAGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29801758 original size:47 final size:47
Alignment explanation
Indices: 29801647--29802118 Score: 768
Period size: 47 Copynumber: 10.1 Consensus size: 47
29801637 TTAGGATTTT
** * *
29801647 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
29801693 ATATGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29801740 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29801787 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
29801834 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29801881 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29801928 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
29801975 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
29802022 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
29802069 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
29802116 ATG
1 ATG
29802119 CGAAACGTGT
Statistics
Matches: 402, Mismatches: 22, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
46 38 0.09
47 361 0.90
48 3 0.01
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:29802075 original size:22 final size:22
Alignment explanation
Indices: 29802000--29802075 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
29801990 ACATGCATAT
*
29802000 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCAGAATGGCCA
*
29802022 ATGTGATGAATGTG-A-ACAT-GCATA
1 ATGTGAT-AA-G-GCAGA-ATGGC-CA
29802046 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGCAGAATGGCCA
29802069 ATGTGAT
1 ATGTGAT
29802076 GAACGTGGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCAGAATGGCCA
Found at i:29802145 original size:46 final size:46
Alignment explanation
Indices: 29802092--29802182 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
29802082 GGAAGTGTAT
* *
29802092 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
29802138 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
29802183 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:29810338 original size:40 final size:40
Alignment explanation
Indices: 29810294--29810440 Score: 204
Period size: 40 Copynumber: 3.7 Consensus size: 40
29810284 AGTGTCGTAC
* * *
29810294 ATAGCCAAAGCTATCTCAAATCGCACACTAAGTTCCATAT
1 ATAGCCAAAGCTATGTCGAATCGCACACTAAGTGCCATAT
** * *
29810334 ATAGCTGAAGCTATGTCGAATCACATACTAAGTGCCATAT
1 ATAGCCAAAGCTATGTCGAATCGCACACTAAGTGCCATAT
29810374 ATAGCCAAAGCTATGTCGAATCGCACACTAAGTGCCATAT
1 ATAGCCAAAGCTATGTCGAATCGCACACTAAGTGCCATAT
* * *
29810414 ATAGTCGAAGCTATATCGAATCGCACA
1 ATAGCCAAAGCTATGTCGAATCGCACA
29810441 TATCTGTAGT
Statistics
Matches: 93, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (40 bp):
ATAGCCAAAGCTATGTCGAATCGCACACTAAGTGCCATAT
Found at i:29813359 original size:20 final size:19
Alignment explanation
Indices: 29813334--29813433 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 19
29813324 TCATATATTT
29813334 TAGGGGTACTGAAGTACAAA
1 TAGGGGTAC-GAAGTACAAA
* * *
29813354 TAGGGGCACGTATGTGCAAA
1 TAGGGGTACG-AAGTACAAA
29813374 TAGGGGTACCGAAGTACAAA
1 TAGGGGTA-CGAAGTACAAA
* * *
29813394 AAGGGGCACGAATGTGCAAA
1 TAGGGGTACGAA-GTACAAA
*
29813414 TAGGGATACCGAAGTACAAA
1 TAGGGGTA-CGAAGTACAAA
29813434 CAAGGGCTCG
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.08
20 52 0.83
21 6 0.10
ACGTcount: A:0.39, C:0.14, G:0.31, T:0.16
Consensus pattern (19 bp):
TAGGGGTACGAAGTACAAA
Found at i:29813389 original size:40 final size:40
Alignment explanation
Indices: 29813334--29813449 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
29813324 TCATATATTT
* * *
29813334 TAGGGGTACTGAAGTACAAATAGGGGCACGTATGTGCAAA
1 TAGGGGTACCGAAGTACAAAAAGGGGCACGAATGTGCAAA
29813374 TAGGGGTACCGAAGTACAAAAAGGGGCACGAATGTGCAAA
1 TAGGGGTACCGAAGTACAAAAAGGGGCACGAATGTGCAAA
* *
29813414 TAGGGATACCGAAGTACAAACAA-GGGCTCGAATGTG
1 TAGGGGTACCGAAGTACAAA-AAGGGGCACGAATGTG
29813450 ACAGCCCAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 68 0.97
41 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.32, T:0.16
Consensus pattern (40 bp):
TAGGGGTACCGAAGTACAAAAAGGGGCACGAATGTGCAAA
Found at i:29815195 original size:40 final size:40
Alignment explanation
Indices: 29815129--29815295 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
29815119 AAATTGAATG
* * *
29815129 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
29815168 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
29815208 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
29815248 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
29815288 ATATCCGG
1 ATATCCGG
29815296 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:29823199 original size:40 final size:40
Alignment explanation
Indices: 29823133--29823299 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
29823123 AAATTGAATG
* * *
29823133 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
29823172 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
29823212 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
29823252 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
29823292 ATATCCGG
1 ATATCCGG
29823300 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:29824718 original size:40 final size:40
Alignment explanation
Indices: 29824659--29824752 Score: 143
Period size: 40 Copynumber: 2.4 Consensus size: 40
29824649 GGTGTTACAT
* *
29824659 CGAATGTGCAAACAGGGGTAGCAAAGTACGAAGAGGGGCA
1 CGAATGTGCAAACAAGGGTAGCAAAGTACGAACAGGGGCA
* * *
29824699 CGAATGTGCAAACAAGGGTATCGAAGTATGAACAGGGGCA
1 CGAATGTGCAAACAAGGGTAGCAAAGTACGAACAGGGGCA
29824739 CGAATGTGCAAACA
1 CGAATGTGCAAACA
29824753 TTCAATAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.38, C:0.16, G:0.33, T:0.13
Consensus pattern (40 bp):
CGAATGTGCAAACAAGGGTAGCAAAGTACGAACAGGGGCA
Found at i:29828487 original size:35 final size:35
Alignment explanation
Indices: 29828448--29828551 Score: 136
Period size: 35 Copynumber: 3.0 Consensus size: 35
29828438 TACACCAAAT
* * **
29828448 GCTCACAAGAGCTAGTCCAATTGAAATGCGCCAAC
1 GCTCATAAGAGCTAGTCCAATCGAAACACGCCAAC
* * * *
29828483 GCTCATAAGAGCTAGTCCAACCAAAACACGTCAAT
1 GCTCATAAGAGCTAGTCCAATCGAAACACGCCAAC
29828518 GCTCATAAGAGCTAGTCCAATCGAAACACGCCAA
1 GCTCATAAGAGCTAGTCCAATCGAAACACGCCAA
29828552 ATAGAGAGTA
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (35 bp):
GCTCATAAGAGCTAGTCCAATCGAAACACGCCAAC
Found at i:29835424 original size:2 final size:2
Alignment explanation
Indices: 29835412--29835448 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
29835402 CATGAATAAC
*
29835412 TA TA CA TA TA TA 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 TA TA TA TA TA TA T
29835449 GATGAGGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:29838145 original size:46 final size:46
Alignment explanation
Indices: 29838095--29838311 Score: 208
Period size: 46 Copynumber: 4.7 Consensus size: 46
29838085 TCATCTTGTA
*
29838095 GCCGATGCATGTCCCGGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
* *
29838141 GCCGATGCATGTCTCGGACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
* * * * * ** *
29838187 GCTGATGCATGTCCCAAACATGTCTTATACTAGCCCT-CGTCTTAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-GGCTTACGTCTCGAG
* **
29838233 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CAGAAT--ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TAC-GTCTCGA-G
* *
29838281 GCCGATGTATGTCCCAGACATCTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
29838312 AGCTCACACA
Statistics
Matches: 144, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
46 93 0.65
47 32 0.22
48 17 0.12
49 2 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAG
Found at i:29838228 original size:92 final size:94
Alignment explanation
Indices: 29838050--29838269 Score: 225
Period size: 92 Copynumber: 2.4 Consensus size: 94
29838040 ATATCAAGTG
* * * * * * **
29838050 GATGCCATGTCCTAGACATGGTCTTGCACTGAC-TATCATCTTGTA-GCCGATGCATGTCCCGGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTA-CGTCTCG-AGGCTGATGCATGTCCCAAA
* * *
29838113 CATGTCTTACACTGGCTTACGTCTCGAGGCC
64 CATGTCTTACACTGCCCTACGTCTCAAGGCC
* *
29838144 GATG-CATGTCTCGGACAT-GTCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCCCAAACA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCCCAAACA
* * * *
29838207 TGTCTTATACTAGCCCT-CGTCTTAATGCT
66 TGTCTTACACT-GCCCTACGTCTCAAGGCC
29838236 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
29838270 CTCAGAATAT
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
91 1 0.01
92 55 0.54
93 28 0.27
94 18 0.18
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGGCTGATGCATGTCCCAAACA
TGTCTTACACTGCCCTACGTCTCAAGGCC
Found at i:29841297 original size:53 final size:53
Alignment explanation
Indices: 29841115--29841321 Score: 207
Period size: 53 Copynumber: 3.8 Consensus size: 53
29841105 ATTAGGGTTT
* * * * * *
29841115 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * ***
29841169 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAACCCACGATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAA-GTTC-ATAAGGC
* * * *
29841224 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* *
29841277 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
29841322 TAAAAAGGAA
Statistics
Matches: 121, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 46 0.38
54 36 0.30
55 39 0.32
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:29848874 original size:942 final size:942
Alignment explanation
Indices: 29847051--29848935 Score: 3520
Period size: 942 Copynumber: 2.0 Consensus size: 942
29847041 AAGGCCCAAA
29847051 ACACACATCGTAAATCATTCAGAACCAACTCGAGTACTTTTGCCAACTATAGAAAAATGTCACAT
1 ACACACATCGTAAATCATTCAGAACCAACTCGAGTACTTTTGCCAACTATAGAAAAATGTCACAT
* *
29847116 GACATAGAGGCATACGCCCGTGTAGCCAATTCAACATGGTTGTGTTGATGGCCCGTGTGGCTTAC
66 GACATAGAGGCACACGCCCGTGTAGCCAATTCAACATGGTCGTGTTGATGGCCCGTGTGGCTTAC
29847181 ACGGCCTAAGCAATAAAAGGACATGCCTCGTGTCCTCCACTCGTGTGGAATTTATTTTAAATACA
131 ACGGCCTAAGCAATAAAAGGACATGCCTCGTGTCCTCCACTCGTGTGGAATTTATTTTAAATACA
*
29847246 CACCTACAGGGGTTTTCACACGACTTGGCACATGCCCATGTGCCTGGCCCGTGTCTTTCACACAG
196 CACCTACAAGGGTTTTCACACGACTTGGCACATGCCCATGTGCCTGGCCCGTGTCTTTCACACAG
29847311 CCATGACACGCCCGAGTACTAGCCTATGTACAAAAATATGGACATTCTGTTTCTGACGTTAGCAA
261 CCATGACACGCCCGAGTACTAGCCTATGTACAAAAATATGGACATTCTGTTTCTGACGTTAGCAA
*
29847376 CCCCAAATATCACACGGCCAAGGCACATACCCGTGTGCTAGGCTGTGCCCTTCACACGGCTAATA
326 CCCCAAATATCACACGGCCAAGGCACACACCCGTGTGCTAGGCTGTGCCCTTCACACGGCTAATA
*
29847441 CACATAGCCGTGTCTCTACTCGTGTGTTTATTATCATGCATACTGACTTAAAATTTTTATGTGCA
391 CACATAGCCGTGTCTCTACTCGTGTGATTATTATCATGCATACTGACTTAAAATTTTTATGTGCA
* *
29847506 GGGGACACACGTCCTGACCACACGCCCATGGGAAAGATCGTGTGTCTTACACGGCCAAGACACAT
456 GGGGACACACGTCCTGACCACACGCCCATGGGAAAGATCGTGTGTCTCACACGGCCAAAACACAT
*
29847571 GCCCGTGTGCCTACCCGTGTAGACAATATAAGGATATTTACCAATCCGTATTGCCACCCTTACAT
521 GCCCGTGTGCCTACCCGTGTAGACAATATAAGGATATTTACCAATCCCTATTGCCACCCTTACAT
29847636 ATGTAGTTCTACACAAATACCAACCAATACCAAAATAAGCCCATGATAATGCATCTTTTATAAAT
586 ATGTAGTTCTACACAAATACCAACCAATACCAAAATAAGCCCATGATAATGCATCTTTTATAAAT
29847701 TCAAATGAATGTTAGCCATCATTCAAGGCTTAATACAAATTGAAGAGTTTCCAACCCAAGCTAAT
651 TCAAATGAATGTTAGCCATCATTCAAGGCTTAATACAAATTGAAGAGTTTCCAACCCAAGCTAAT
29847766 ATATATGGCCAAACCCCAATGACACAAAATAAGAAAGTCTAAATCCTATACATGCCAAATTCAAA
716 ATATATGGCCAAACCCCAATGACACAAAATAAGAAAGTCTAAATCCTATACATGCCAAATTCAAA
29847831 AATATAAATCCAACTATATTGAATGCTTCAGCTGATAGTGTGATCGATATCTCTAACTTCCGGTG
781 AATATAAATCCAACTATATTGAATGCTTCAGCTGATAGTGTGATCGATATCTCTAACTTCCGGTG
29847896 ATCCTTGAGCTAATTAGGCGACACTGTAAGAAAATGAAAAGAGAAGGGAGTAAGCATAACAACTT
846 ATCCTTGAGCTAATTAGGCGACACTGTAAGAAAATGAAAAGAGAAGGGAGTAAGCATAACAACTT
29847961 AGTAAGTTGCATATAAGTAAGTATACAACAAC
911 AGTAAGTTGCATATAAGTAAGTATACAACAAC
* * *
29847993 ACACACATCGTAAATCATTCGGAACCAACTCGGGTACTTTTTCCAACTATAGAAAAATGTCACAT
1 ACACACATCGTAAATCATTCAGAACCAACTCGAGTACTTTTGCCAACTATAGAAAAATGTCACAT
* * *
29848058 GACATAGAGGCACATGCTCGTGTGGCCAATTCAACATGGTCGTGTTGATGGCCCGTGTGGCTTAC
66 GACATAGAGGCACACGCCCGTGTAGCCAATTCAACATGGTCGTGTTGATGGCCCGTGTGGCTTAC
29848123 ACGGCCTAAGCAATAAAAGGACATGCCTCGTGTCCTCCACTCGTGTGGAATTTATTTTAAATACA
131 ACGGCCTAAGCAATAAAAGGACATGCCTCGTGTCCTCCACTCGTGTGGAATTTATTTTAAATACA
* *
29848188 CACCTATAAGGGTTTTCACACGACTTGGCACATGCCCGTGTGCCTGGCCCGTGTCTTTCACACAG
196 CACCTACAAGGGTTTTCACACGACTTGGCACATGCCCATGTGCCTGGCCCGTGTCTTTCACACAG
*
29848253 CCATGACACGCCCGTGTACTAGCCTATGTACAAAAATATGGACATTCTGTTTCTGACGTTAGCAA
261 CCATGACACGCCCGAGTACTAGCCTATGTACAAAAATATGGACATTCTGTTTCTGACGTTAGCAA
*
29848318 CCCCAAATATCACACGGCCAATGCACACACCCGTGTGCTAGGCTGTGCCCTTCACACGGCTAATA
326 CCCCAAATATCACACGGCCAAGGCACACACCCGTGTGCTAGGCTGTGCCCTTCACACGGCTAATA
*
29848383 CACATAGCTGTGTCTCTACTCGTGTGATTATTATCATGCATACTGACTTAAAATTTTTATGTGCA
391 CACATAGCCGTGTCTCTACTCGTGTGATTATTATCATGCATACTGACTTAAAATTTTTATGTGCA
*
29848448 GGGGACACGCGTCCTGACCACACGCCCATGGGAAAGATCGTGTGTCTCACACGGCCAAAACACAT
456 GGGGACACACGTCCTGACCACACGCCCATGGGAAAGATCGTGTGTCTCACACGGCCAAAACACAT
* *
29848513 GCCCGTGTGCCTACCCGTGTAGACAATATAAGGCTATTTACTAATCCCTATTGCCACCCTTACAT
521 GCCCGTGTGCCTACCCGTGTAGACAATATAAGGATATTTACCAATCCCTATTGCCACCCTTACAT
*
29848578 ATGTAGTTCTACACAAATACCAACCAATACCAAAATTAGCCCATGATAATGCATCTTTTATAAAT
586 ATGTAGTTCTACACAAATACCAACCAATACCAAAATAAGCCCATGATAATGCATCTTTTATAAAT
29848643 TCAAATGAATGTTAGCCATCATTCAAGGCTTAATACAAATTGAA-AGGTTTCCAACCCAAGCTAA
651 TCAAATGAATGTTAGCCATCATTCAAGGCTTAATACAAATTGAAGA-GTTTCCAACCCAAGCTAA
29848707 TATATATGGCCAAACCCCAATGACACAAAATAAGAAAGTCTAAATCCTATACATGCCAAATTCAA
715 TATATATGGCCAAACCCCAATGACACAAAATAAGAAAGTCTAAATCCTATACATGCCAAATTCAA
*
29848772 AAATATAAATCCAACTATATTGAATGCTTCAGTTGATAGTGTGATCGATATCTCTAACTTCCGGT
780 AAATATAAATCCAACTATATTGAATGCTTCAGCTGATAGTGTGATCGATATCTCTAACTTCCGGT
* *
29848837 GATCCTTGAGCTAATTAGGCGGCATTGTAAGAAAATGAAAAGAGAAGGGAGTAAGCATAACAACT
845 GATCCTTGAGCTAATTAGGCGACACTGTAAGAAAATGAAAAGAGAAGGGAGTAAGCATAACAACT
29848902 TAGTAAGTTGCATATAAGTAAGTATACAACAAC
910 TAGTAAGTTGCATATAAGTAAGTATACAACAAC
29848935 A
1 A
29848936 ATTTATCAAT
Statistics
Matches: 916, Mismatches: 26, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
941 1 0.00
942 915 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (942 bp):
ACACACATCGTAAATCATTCAGAACCAACTCGAGTACTTTTGCCAACTATAGAAAAATGTCACAT
GACATAGAGGCACACGCCCGTGTAGCCAATTCAACATGGTCGTGTTGATGGCCCGTGTGGCTTAC
ACGGCCTAAGCAATAAAAGGACATGCCTCGTGTCCTCCACTCGTGTGGAATTTATTTTAAATACA
CACCTACAAGGGTTTTCACACGACTTGGCACATGCCCATGTGCCTGGCCCGTGTCTTTCACACAG
CCATGACACGCCCGAGTACTAGCCTATGTACAAAAATATGGACATTCTGTTTCTGACGTTAGCAA
CCCCAAATATCACACGGCCAAGGCACACACCCGTGTGCTAGGCTGTGCCCTTCACACGGCTAATA
CACATAGCCGTGTCTCTACTCGTGTGATTATTATCATGCATACTGACTTAAAATTTTTATGTGCA
GGGGACACACGTCCTGACCACACGCCCATGGGAAAGATCGTGTGTCTCACACGGCCAAAACACAT
GCCCGTGTGCCTACCCGTGTAGACAATATAAGGATATTTACCAATCCCTATTGCCACCCTTACAT
ATGTAGTTCTACACAAATACCAACCAATACCAAAATAAGCCCATGATAATGCATCTTTTATAAAT
TCAAATGAATGTTAGCCATCATTCAAGGCTTAATACAAATTGAAGAGTTTCCAACCCAAGCTAAT
ATATATGGCCAAACCCCAATGACACAAAATAAGAAAGTCTAAATCCTATACATGCCAAATTCAAA
AATATAAATCCAACTATATTGAATGCTTCAGCTGATAGTGTGATCGATATCTCTAACTTCCGGTG
ATCCTTGAGCTAATTAGGCGACACTGTAAGAAAATGAAAAGAGAAGGGAGTAAGCATAACAACTT
AGTAAGTTGCATATAAGTAAGTATACAACAAC
Found at i:29849247 original size:47 final size:47
Alignment explanation
Indices: 29849175--29849303 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
29849165 GGGTAAGGTA
* * *
29849175 TCGATGCCATGTACTAGACACGGTCTTATACTGGCTCAT-ATCTCG-AG
1 TCGATG-CATGTACCAGACATGGTCTTACACTGGCT-ATCATCTCGTAG
* *
29849222 TCGATGTCATGTTCCAGACATGGTCTTACACTGACTATCATCTCGTAG
1 TCGATG-CATGTACCAGACATGGTCTTACACTGGCTATCATCTCGTAG
* * * *
29849270 CCGATGCATGTCCCTGACAT-ATCTTACACTGGCT
1 TCGATGCATGTACCAGACATGGTCTTACACTGGCT
29849304 TACGTCTAGA
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
46 14 0.20
47 48 0.70
48 7 0.10
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (47 bp):
TCGATGCATGTACCAGACATGGTCTTACACTGGCTATCATCTCGTAG
Found at i:29850859 original size:14 final size:14
Alignment explanation
Indices: 29850840--29850890 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
29850830 TTTATCTCTA
29850840 ATAATTATAAATTT
1 ATAATTATAAATTT
29850854 ATAATTA-AAA-TT
1 ATAATTATAAATTT
*
29850866 A-AATAATAAATTT
1 ATAATTATAAATTT
29850879 -TAATTAATAAAT
1 ATAATT-ATAAAT
29850891 AATAATATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
11 4 0.13
12 6 0.19
13 8 0.26
14 13 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATTATAAATTT
Found at i:29850894 original size:24 final size:24
Alignment explanation
Indices: 29850839--29850897 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
29850829 ATTTATCTCT
*
29850839 AATAATTATAAATTTATAATTAAA
1 AATAATAATAAATTTATAATTAAA
*
29850863 ATTAAATAATAAATTT-TAATTAATA
1 AAT-AATAATAAATTTATAATTAA-A
29850888 AATAATAATA
1 AATAATAATA
29850898 TGAGCAGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (24 bp):
AATAATAATAAATTTATAATTAAA
Found at i:29853182 original size:33 final size:34
Alignment explanation
Indices: 29853144--29853218 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
29853134 ATTAAAATTA
* *
29853144 TGGCAAAATTGCCTTAGGTATTGTAGTATT-AAT
1 TGGCAAAATTGCCTTAGATATTGTAATATTAAAT
29853177 TGGCAAAATTGCCTTAGATATTGTAATATTAAAT
1 TGGCAAAATTGCCTTAGATATTGTAATATTAAAT
29853211 TGG-AAAAT
1 TGGCAAAAT
29853219 GGCAAAATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 33 0.85
34 6 0.15
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.37
Consensus pattern (34 bp):
TGGCAAAATTGCCTTAGATATTGTAATATTAAAT
Found at i:29853259 original size:41 final size:41
Alignment explanation
Indices: 29853177--29853259 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
29853167 TAGTATTAAT
* * **
29853177 TGGCAAAATTGCCTTAGATATTGTAATATTAAATTGGAAAA
1 TGGCAAAATAGCCTTAGATATTATAATATTAAATTAAAAAA
29853218 TGGCAAAATAG-CTTCAGATATTATAATATTAAATTAAAAAA
1 TGGCAAAATAGCCTT-AGATATTATAATATTAAATTAAAAAA
29853259 T
1 T
29853260 TTGCAATAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 3 0.08
41 34 0.92
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (41 bp):
TGGCAAAATAGCCTTAGATATTATAATATTAAATTAAAAAA
Found at i:29856709 original size:41 final size:41
Alignment explanation
Indices: 29856664--29856781 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
29856654 TGAAAGATAA
29856664 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
29856705 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29856735 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29856776 ATGTAG
1 ATGTAG
29856782 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:29856720 original size:71 final size:71
Alignment explanation
Indices: 29856632--29856795 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
29856622 GAGATGTATC
29856632 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29856697 AGGACA
66 AGGACA
29856703 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29856768 AGGACA
66 AGGACA
29856774 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
29856796 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:29864241 original size:41 final size:41
Alignment explanation
Indices: 29864196--29864313 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
29864186 TGAAAGATAA
29864196 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
29864237 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29864267 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29864308 ATGTAG
1 ATGTAG
29864314 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:29864252 original size:71 final size:71
Alignment explanation
Indices: 29864164--29864327 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
29864154 GAGATGTATC
29864164 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29864229 AGGACA
66 AGGACA
29864235 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29864300 AGGACA
66 AGGACA
29864306 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
29864328 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:29868647 original size:21 final size:21
Alignment explanation
Indices: 29868621--29868666 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
29868611 ATCATGCAGT
*
29868621 ATTAACCAATCTGTACCCAGA
1 ATTAACCAATCCGTACCCAGA
29868642 ATTAACCAATCCGTACCCAGA
1 ATTAACCAATCCGTACCCAGA
29868663 ATTA
1 ATTA
29868667 TATCAAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.28, G:0.09, T:0.24
Consensus pattern (21 bp):
ATTAACCAATCCGTACCCAGA
Found at i:29868916 original size:61 final size:61
Alignment explanation
Indices: 29868821--29868943 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
29868811 CTACAGGCAA
* * *
29868821 AGTCTTACTAGATACTAAAGTTTCACATACATAAGAATGTGTCGATACTGGATCTATCAAC
1 AGTCTCACTAGATACAAAAGTTTCACATACATAAGAATGAGTCGATACTGGATCTATCAAC
*
29868882 AGTCTCACTAGATACAAAAGTTTCACATACATAAGAATGAGTCGATCCTGGATCTATCAAC
1 AGTCTCACTAGATACAAAAGTTTCACATACATAAGAATGAGTCGATACTGGATCTATCAAC
29868943 A
1 A
29868944 CAATTACAGT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (61 bp):
AGTCTCACTAGATACAAAAGTTTCACATACATAAGAATGAGTCGATACTGGATCTATCAAC
Found at i:29872094 original size:39 final size:39
Alignment explanation
Indices: 29872013--29872202 Score: 319
Period size: 39 Copynumber: 4.9 Consensus size: 39
29872003 TATGGTAACC
* * * *
29872013 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
29872053 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
29872092 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
29872131 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
29872169 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
29872203 CTCGAACATT
Statistics
Matches: 143, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 38 0.27
39 88 0.62
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.23, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:29872197 original size:77 final size:78
Alignment explanation
Indices: 29872013--29872203 Score: 330
Period size: 77 Copynumber: 2.4 Consensus size: 78
29872003 TATGGTAACC
* *
29872013 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
29872078 CGGGTATCATAGCT
65 CGGGTATCATAGCT
* *
29872092 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
29872157 -GGTATCATAGCT
66 GGGTATCATAGCT
29872169 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
29872204 TCGAACATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 46 0.43
78 44 0.41
79 17 0.16
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (78 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGGTATCATAGCT
Found at i:29875063 original size:24 final size:24
Alignment explanation
Indices: 29875033--29875274 Score: 414
Period size: 24 Copynumber: 10.1 Consensus size: 24
29875023 GAATGTGACT
* *
29875033 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
29875057 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29875081 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29875105 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29875129 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29875153 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29875177 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29875201 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29875225 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29875249 ATAGTAAA-CGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29875272 ATA
1 ATA
29875275 TGGTCTTTGC
Statistics
Matches: 212, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
23 18 0.08
24 194 0.92
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:29883075 original size:24 final size:24
Alignment explanation
Indices: 29883045--29883287 Score: 423
Period size: 24 Copynumber: 10.1 Consensus size: 24
29883035 GAATGTGACT
* *
29883045 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
29883069 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29883093 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29883117 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29883141 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29883165 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29883189 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29883213 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
29883237 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29883261 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
29883285 ATA
1 ATA
29883288 TGGTCTTTGC
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 213 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:29891490 original size:77 final size:77
Alignment explanation
Indices: 29891370--29891559 Score: 335
Period size: 77 Copynumber: 2.5 Consensus size: 77
29891360 TATGGTAACC
* *
29891370 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
29891435 CGGTATCATAGCT
65 CGGTATCATAGCT
* *
29891448 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTGCCTTCGGGCTTAGCCC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
29891513 GGTATCATAGCT
66 GGTATCATAGCT
29891525 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
29891560 TCGAACATTC
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 90 0.84
78 17 0.16
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (77 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCC
GGTATCATAGCT
Found at i:29891492 original size:39 final size:39
Alignment explanation
Indices: 29891370--29891558 Score: 319
Period size: 38 Copynumber: 4.9 Consensus size: 39
29891360 TATGGTAACC
* * * *
29891370 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
29891410 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
29891448 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
29891487 CGCACAATTGCCTTCGGGCTTAGCCCGG-TATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
29891525 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
29891559 CTCGAACATT
Statistics
Matches: 143, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 74 0.52
39 52 0.36
40 17 0.12
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:29902469 original size:29 final size:28
Alignment explanation
Indices: 29902436--29902538 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
29902426 GGGACGAGAT
* *
29902436 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
29902465 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
29902494 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
29902523 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29902539 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:29910448 original size:29 final size:28
Alignment explanation
Indices: 29910416--29910518 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
29910406 GGGACGAGAT
* *
29910416 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
29910445 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
29910474 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
29910503 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29910519 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:29916735 original size:30 final size:30
Alignment explanation
Indices: 29916701--29916761 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29916691 TTCCCGAGCC
29916701 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * * *
29916731 TAGGGGCAAAATTGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
29916761 T
1 T
29916762 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:0.39, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:29926843 original size:41 final size:43
Alignment explanation
Indices: 29926771--29926878 Score: 132
Period size: 41 Copynumber: 2.6 Consensus size: 43
29926761 AATTTGAGAC
* * * *
29926771 TTACATTTAAGACCATGTCTGGGACATCGGCATC-ATATTTGA
1 TTACATGTAAGACCCTGTCTGGAACAACGGCATCAATATTTGA
* *
29926813 TTTCGTGT-AGACCCTGTCTGGAACAACGGCATCAATATTTGA
1 TTACATGTAAGACCCTGTCTGGAACAACGGCATCAATATTTGA
29926855 TTACATGTAAGACCAC-GTCTGGAA
1 TTACATGTAAGACC-CTGTCTGGAA
29926879 TGTTGGCATT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 22 0.40
42 19 0.35
43 13 0.24
44 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (43 bp):
TTACATGTAAGACCCTGTCTGGAACAACGGCATCAATATTTGA
Found at i:29926887 original size:84 final size:86
Alignment explanation
Indices: 29926719--29926878 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 86
29926709 TAGGATTCCG
**** *
29926719 ATATGTGATTTCGTGTAAGACCACGTCTGGAATGTTGGCATCAATTTGAGACTTACATTTAAGAC
1 ATATGTGATTTCGTGTAAGACCACGTCTGGAACAACGGCATCAATTTGAGACTTACATGTAAGAC
* *
29926784 CATGTCTGGGACATCGGCATC
66 CACGTCTGGAACATCGGCATC
* *
29926805 ATATTTGATTTCGTGT-AGACC-CTGTCTGGAACAACGGCATCAATATT-TGA-TTACATGTAAG
1 ATATGTGATTTCGTGTAAGACCAC-GTCTGGAACAACGGCATCAAT-TTGAGACTTACATGTAAG
29926866 ACCACGTCTGGAA
64 ACCACGTCTGGAA
29926879 TGTTGGCATT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
84 22 0.35
85 24 0.38
86 17 0.27
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (86 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGAACAACGGCATCAATTTGAGACTTACATGTAAGAC
CACGTCTGGAACATCGGCATC
Found at i:29931042 original size:47 final size:47
Alignment explanation
Indices: 29930927--29931177 Score: 387
Period size: 47 Copynumber: 5.3 Consensus size: 47
29930917 GTATGAGATA
29930927 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA--GTG
29930976 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
29931023 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
29931069 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
29931116 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
29931163 TATAAATGTGATAAG
1 TATATATGTGATAAG
29931178 TCCCGAAGGG
Statistics
Matches: 192, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
46 44 0.23
47 104 0.54
49 44 0.23
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:29931110 original size:93 final size:93
Alignment explanation
Indices: 29930927--29931177 Score: 385
Period size: 93 Copynumber: 2.7 Consensus size: 93
29930917 GTATGAGATA
29930927 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AA--GTGTATATATGTGATAAGG
* *
29930992 CCTAATGGCCGATGTGATGAATGTGAAAGTG
63 CCGAATGGCCAATGTGATGAATGTGAAAGTG
29931023 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTGTATATATGTGATAAGGCCG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTGTATATATGTGATAAGGCCG
29931088 AATGGCCAATGTGATGAATGTGAAAGTG
66 AATGGCCAATGTGATGAATGTGAAAGTG
* * * * * * *
29931116 TATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT-GAAGTGTATATATGTGATAAG
29931178 TCCCGAAGGG
Statistics
Matches: 145, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
93 82 0.57
94 20 0.14
95 2 0.01
96 41 0.28
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.29
Consensus pattern (93 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGTGTATATATGTGATAAGGCCG
AATGGCCAATGTGATGAATGTGAAAGTG
Found at i:29933022 original size:27 final size:27
Alignment explanation
Indices: 29932992--29933189 Score: 225
Period size: 27 Copynumber: 7.3 Consensus size: 27
29932982 TACTGAAATG
**
29932992 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
29933019 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
29933046 CCCTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
29933073 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* ** *
29933100 CCCTTGATTTACAGAATTACTGTTTCA
1 CCCTCGATTTACAGAATTACCATTTTA
*
29933127 CCCTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
** * **
29933154 CCCTTAATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
29933181 CCCTTGATT
1 CCCTCGATT
29933190 GTGAAATTAC
Statistics
Matches: 145, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:29933064 original size:54 final size:54
Alignment explanation
Indices: 29933006--29933189 Score: 260
Period size: 54 Copynumber: 3.4 Consensus size: 54
29932996 CGATTTGTAG
* *
29933006 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTTGATTTACAA
1 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAA
*
29933060 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAG
1 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAA
** * * * *
29933114 AATTACTGTTTCACCCTCGATTTACAAAATTACCATTTTACCCTTAATTTACAA
1 AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAA
** *
29933168 AATTACTGTTTTACCCTTGATT
1 AATTACCATTTTACCCTCGATT
29933190 GTGAAATTAC
Statistics
Matches: 118, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 118 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.41
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAA
Found at i:29933109 original size:81 final size:81
Alignment explanation
Indices: 29932992--29933189 Score: 297
Period size: 81 Copynumber: 2.4 Consensus size: 81
29932982 TACTGAAATG
* * * *
29932992 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATAGAATTACCGTTTCACCCTTGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTCACCCTCGATTTA
29933057 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
*
29933073 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACTGTTTCACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTCACCCTCGATTTA
29933138 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
** * * **
29933154 CCCTTAATTTACAAAATTACTGTTTTACCCTTGATT
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATT
29933190 GTGAAATTAC
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 106 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTTCACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:29933211 original size:27 final size:27
Alignment explanation
Indices: 29933188--29933344 Score: 149
Period size: 27 Copynumber: 5.8 Consensus size: 27
29933178 TTACCCTTGA
*
29933188 TTGTGAAATTACTGAAATACCCCT-GT
1 TTGTGAAATTACCGAAATACCCCTAGT
** *
29933214 AGGAT-AGAATTACCAAAATACCCCTAGT
1 TTG-TGA-AATTACCGAAATACCCCTAGT
* **
29933242 TTGTAAAATTACAAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGT
* *
29933269 TTGTAAAATTACCGAAATACCACTAGT
1 TTGTGAAATTACCGAAATACCCCTAGT
*
29933296 TTGTGAAATTACCGAAATA-CCCTCAAT
1 TTGTGAAATTACCGAAATACCCCT-AGT
* * *
29933323 TTATAAAATTACCAAAATACCC
1 TTGTGAAATTACCGAAATACCC
29933345 TTGATTTACA
Statistics
Matches: 109, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.05
27 98 0.90
28 6 0.06
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (27 bp):
TTGTGAAATTACCGAAATACCCCTAGT
Found at i:29933262 original size:54 final size:54
Alignment explanation
Indices: 29933188--29933371 Score: 169
Period size: 54 Copynumber: 3.4 Consensus size: 54
29933178 TTACCCTTGA
* * *
29933188 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACAGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** *
29933242 TTGTAAAATTACAAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTAGT
1 TTGTGAAATTACAGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* * * *
29933296 TTGTGAAATTACCGAAATACCCTCAATTTA--TAAAATTACCAAAATACC-CTTGAT
1 TTGTGAAATTACAGAAATACCC-CTA-GTAGGTAAAATTACCAAAATACCACTAG-T
***
29933350 TTACAAAATTACAGAAATACCC
1 TTGTGAAATTACAGAAATACCC
29933372 TTGACTTTCT
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
53 3 0.03
54 97 0.92
55 5 0.05
56 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACAGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:29933308 original size:81 final size:81
Alignment explanation
Indices: 29933221--29933370 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
29933211 TGTAGGATAG
* * ** *
29933221 AATTACCAAAATACCC-CTAGTTTGTAAAATTACAAAAATACCCCTAG-TTTGTAAAATTACCGA
1 AATTACCAAAATACCCTC-AATTTATAAAATTACAAAAATA-CCCTAGATTTACAAAATTACAGA
29933284 AATACCACTAGTTTGTGA
64 AATACCACTAGTTTGTGA
* * *
29933302 AATTACCGAAATACCCTCAATTTATAAAATTACCAAAATACCCTTGATTTACAAAATTACAGAAA
1 AATTACCAAAATACCCTCAATTTATAAAATTACAAAAATACCCTAGATTTACAAAATTACAGAAA
29933367 TACC
66 TACC
29933371 CTTGACTTTC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 5 0.08
81 53 0.90
82 1 0.02
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCTCAATTTATAAAATTACAAAAATACCCTAGATTTACAAAATTACAGAAA
TACCACTAGTTTGTGA
Found at i:29933351 original size:27 final size:27
Alignment explanation
Indices: 29933221--29933457 Score: 149
Period size: 27 Copynumber: 8.7 Consensus size: 27
29933211 TGTAGGATAG
*
29933221 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* *
29933248 AATTACAAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * *
29933275 AATTACCGAAATACCACTAG-TTTGTGA
1 AATTACCAAAATACC-CTTGATTTGTAA
* ** *
29933302 AATTACCGAAATACCCTCAATTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
29933329 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
29933356 AATTA-CAGAAATACCCTTGACTTTCTAAA
1 AATTACCA-AAATACCCTTGA-TTTGT-AA
** *** * **
29933385 AATTATAAAAATATTGTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * *
29933412 AATTACTGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
29933439 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
29933458 TAGGATGAAA
Statistics
Matches: 167, Mismatches: 36, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.02
27 140 0.84
28 7 0.04
29 15 0.09
30 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:29934398 original size:25 final size:25
Alignment explanation
Indices: 29934360--29934429 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
29934350 AGGAAGTGCT
* *
29934360 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
29934385 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
29934410 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
29934430 ATTAAAAAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:29934431 original size:24 final size:25
Alignment explanation
Indices: 29934360--29934454 Score: 111
Period size: 25 Copynumber: 3.8 Consensus size: 25
29934350 AGGAAGTGCT
* *
29934360 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTATGCCCCAGTTTATCA
*
29934385 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTATGCCCCAGTTTATCA
* *
29934410 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTATGCCCCAGTTTATCA
* *
29934434 AAAAAGGCTAGGCCTCCAGTT
1 AAAAGGGCTATGCC-CCAGTT
29934455 ATATAATAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 16 0.26
25 44 0.72
26 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTATCA
Found at i:29935751 original size:15 final size:16
Alignment explanation
Indices: 29935731--29935762 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
29935721 GGGAAATTGA
29935731 TATGAT-TTGAAATGT
1 TATGATCTTGAAATGT
29935746 TATGATCTTGAAATGT
1 TATGATCTTGAAATGT
29935762 T
1 T
29935763 TATAAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (16 bp):
TATGATCTTGAAATGT
Found at i:29940776 original size:26 final size:26
Alignment explanation
Indices: 29940744--29940795 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
29940734 CATATTTGGC
*
29940744 CATAAC-ATATATAAATTCTAACATTT
1 CATAACAACATATAAATT-TAACATTT
29940770 CATAACAACATATAAATTTAACATTT
1 CATAACAACATATAAATTTAACATTT
29940796 AATTACCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (26 bp):
CATAACAACATATAAATTTAACATTT
Found at i:29952787 original size:34 final size:34
Alignment explanation
Indices: 29952709--29952788 Score: 106
Period size: 34 Copynumber: 2.4 Consensus size: 34
29952699 TGATACTGTG
**
29952709 CTGAAATGGGCTAAGGCCCACACTGATACTGTTA
1 CTGAAATGGGCTAAGGCCCACACTGATACTGCAA
* * * *
29952743 CTGTATTGGGCTAAGGCCCACATTGATATTGCAA
1 CTGAAATGGGCTAAGGCCCACACTGATACTGCAA
29952777 CTGAAATGGGCT
1 CTGAAATGGGCT
29952789 TAGACCCAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (34 bp):
CTGAAATGGGCTAAGGCCCACACTGATACTGCAA
Found at i:29959704 original size:28 final size:29
Alignment explanation
Indices: 29959592--29959714 Score: 185
Period size: 29 Copynumber: 4.3 Consensus size: 29
29959582 AAAAGCATGT
*
29959592 ATATGAATGTGATTTGGGCGTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
29959621 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
**
29959650 ATACAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
29959679 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
29959707 ATATGAAT
1 ATATGAAT
29959715 ATATGTAGAC
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
28 23 0.27
29 62 0.73
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:29964111 original size:40 final size:40
Alignment explanation
Indices: 29964056--29964339 Score: 383
Period size: 40 Copynumber: 7.1 Consensus size: 40
29964046 TGAATGATAC
* * * **
29964056 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * *
29964096 CCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG-TTATAT
29964136 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
29964176 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
29964216 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
29964256 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * ** *
29964296 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
29964336 CCGG
1 CCGG
29964340 TTGTATTCCG
Statistics
Matches: 221, Mismatches: 20, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
40 219 0.99
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:29971709 original size:40 final size:40
Alignment explanation
Indices: 29971603--29971885 Score: 374
Period size: 40 Copynumber: 7.1 Consensus size: 40
29971593 TGAATGATAC
* * * **
29971603 CCGGGCTAAGT-CCCGAAGACATTTATGCTAGTAATTATAT
1 CCGGGCTAA-TACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * * *
29971643 CCGGGTTAAGA-CCGAAGGCAATTGTGCTAG-TGACTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTG-TTATAT
29971682 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
29971722 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
29971762 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
*
29971802 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
* * * ** *
29971842 CCGGGCTAAGACCCGAGGGCATTCGTGCGTGTGGTTATAT
1 CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
29971882 CCGG
1 CCGG
29971886 TTGTATTCCG
Statistics
Matches: 219, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
39 30 0.14
40 187 0.85
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGGGCTAATACCCGAAGGCATTTGTGCAAGTTGTTATAT
Found at i:29973664 original size:34 final size:33
Alignment explanation
Indices: 29973612--29973704 Score: 87
Period size: 34 Copynumber: 2.8 Consensus size: 33
29973602 TGCATTTCTT
29973612 ATACTGTACTGAAATGGGCTAAGGCCCACACTG
1 ATACTGTACTGAAATGGGCTAAGGCCCACACTG
* * * * *
29973645 ATACTGCTACTGTATTGGGCTAATGTCCACATTG
1 ATACTG-TACTGAAATGGGCTAAGGCCCACACTG
* * * *
29973679 ATATTGCAACTAAAATGGGCTTAGGC
1 ATACTG-TACTGAAATGGGCTAAGGC
29973705 GCAGACTGTT
Statistics
Matches: 46, Mismatches: 13, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
33 6 0.13
34 40 0.87
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (33 bp):
ATACTGTACTGAAATGGGCTAAGGCCCACACTG
Found at i:29978466 original size:40 final size:40
Alignment explanation
Indices: 29978401--29978644 Score: 276
Period size: 40 Copynumber: 6.1 Consensus size: 40
29978391 CGGAATACAA
* ** * * *
29978401 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* *
29978441 CCGGATATAACGACTTGCACAAATGCCTTCGAGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
29978481 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
**
29978521 TTGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
29978561 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
29978601 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
29978641 CCGG
1 CCGG
29978645 GTATCATTCA
Statistics
Matches: 176, Mismatches: 25, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 175 0.99
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:29978832 original size:123 final size:123
Alignment explanation
Indices: 29978613--29978951 Score: 588
Period size: 123 Copynumber: 2.8 Consensus size: 123
29978603 GGATATAATT
* * * * * * *
29978613 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
29978678 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
29978736 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
29978801 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAGCATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
29978859 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
29978924 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
29978952 CACATAATTC
Statistics
Matches: 206, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 206 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:29981235 original size:40 final size:40
Alignment explanation
Indices: 29981190--29981357 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
29981180 CGGAATATAA
29981190 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
29981230 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** *
29981270 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
29981310 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
29981350 CCGGATAT
1 CCGGATAT
29981358 CATTCAATTT
Statistics
Matches: 109, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 108 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:29989481 original size:22 final size:23
Alignment explanation
Indices: 29989453--29989496 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
29989443 TTATCTCCAT
*
29989453 GTGGAGTGTAG-GGCTGGATGGA
1 GTGGAGTGTAGAGGATGGATGGA
29989475 GTGGAGTGTAGAGGATGGATGG
1 GTGGAGTGTAGAGGATGGATGG
29989497 GTAGGATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.20, C:0.02, G:0.55, T:0.23
Consensus pattern (23 bp):
GTGGAGTGTAGAGGATGGATGGA
Found at i:29991338 original size:42 final size:43
Alignment explanation
Indices: 29991242--29991394 Score: 149
Period size: 43 Copynumber: 3.6 Consensus size: 43
29991232 CAATGCCAAC
* *
29991242 GTCCCAGACATGGTATTACATGTAATCAAATATCGATGGCACT
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGGCACT
* *
29991285 ATCCCAAACATGGTCTTACATGAAATCAAATA-CGATGTTG-A-T
1 GTCCCAGACATGGTCTTACATGAAATCAAATATCGATG--GCACT
* *
29991327 GTCCCAGACATGGTCTTACATGTAAATCATAA-GTCGATGCCAAC-
1 GTCCCAGACATGGTCTTACATG-AAATCA-AATATCGATGGC-ACT
29991371 GTCCCAGAC--GAGTCTTACATGAAA
1 GTCCCAGACATG-GTCTTACATGAAA
29991395 AAACATATCG
Statistics
Matches: 93, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
42 30 0.32
43 45 0.48
44 18 0.19
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATCGATGGCACT
Found at i:30001775 original size:10 final size:11
Alignment explanation
Indices: 30001757--30001807 Score: 52
Period size: 10 Copynumber: 4.8 Consensus size: 11
30001747 ATATTGTTAT
30001757 ACATGATATG-
1 ACATGATATGC
*
30001767 ACATAATATGC
1 ACATGATATGC
30001778 ACATGATATG-
1 ACATGATATGC
** *
30001788 TTATGAGATGC
1 ACATGATATGC
30001799 ACATGATAT
1 ACATGATAT
30001808 TCTTTGATAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
10 16 0.52
11 15 0.48
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (11 bp):
ACATGATATGC
Found at i:30001782 original size:21 final size:21
Alignment explanation
Indices: 30001757--30001807 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
30001747 ATATTGTTAT
*
30001757 ACATGATATGACATAATATGC
1 ACATGATATGACATAAGATGC
** *
30001778 ACATGATATGTTATGAGATGC
1 ACATGATATGACATAAGATGC
30001799 ACATGATAT
1 ACATGATAT
30001808 TCTTTGATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATAAGATGC
Found at i:30008042 original size:27 final size:26
Alignment explanation
Indices: 30008007--30008118 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
30007997 AGCATGGCTG
* *
30008007 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
30008033 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
30008061 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
30008088 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
30008115 CCAG
1 CCAG
30008119 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:30008099 original size:54 final size:54
Alignment explanation
Indices: 30008007--30008118 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
30007997 AGCATGGCTG
* *
30008007 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
30008061 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
30008115 CCAG
1 CCAG
30008119 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:30009561 original size:24 final size:24
Alignment explanation
Indices: 30009534--30009580 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
30009524 CTAGATTTCC
**
30009534 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30009558 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30009581 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30015852 original size:27 final size:26
Alignment explanation
Indices: 30015817--30015928 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
30015807 AGCATGGCTG
* *
30015817 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
30015843 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
30015871 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
30015898 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
30015925 CCAG
1 CCAG
30015929 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:30015909 original size:54 final size:54
Alignment explanation
Indices: 30015817--30015928 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
30015807 AGCATGGCTG
* *
30015817 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
30015871 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
30015925 CCAG
1 CCAG
30015929 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:30017358 original size:24 final size:24
Alignment explanation
Indices: 30017331--30017377 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
30017321 CTAGATTTCC
**
30017331 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
30017355 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
30017378 CTCTTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:30025747 original size:43 final size:42
Alignment explanation
Indices: 30025695--30025794 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
30025685 GACCCAAATG
30025695 TGGTCTTACATGTAATCAAATACTGATG-CCACTGTCCCAAAC-
1 TGGTCTTACATGTAATCAAATAC-GATGTCCA-TGTCCCAAACA
* * * * *
30025737 TAGGTTTTACACGAAATCAAATACGATGTCGATGTCCCAGACA
1 T-GGTCTTACATGTAATCAAATACGATGTCCATGTCCCAAACA
30025780 TGGTCTTACATGTAA
1 TGGTCTTACATGTAA
30025795 ATCATAAGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
42 25 0.53
43 22 0.47
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
TGGTCTTACATGTAATCAAATACGATGTCCATGTCCCAAACA
Found at i:30025797 original size:43 final size:43
Alignment explanation
Indices: 30025677--30025798 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 43
30025667 AGCTCGTACA
* * *
30025677 ATGCCAATGACCCAAATGTGGTCTTACATGT-AATCAAATACTG
1 ATGCCACTGTCCCAAA-CTGGTCTTACATGTAAATCAAATACTG
* *
30025720 ATGCCACTGTCCCAAACTAGGTTTTACACG-AAATCAAATAC-G
1 ATGCCACTGTCCCAAACT-GGTCTTACATGTAAATCAAATACTG
* *
30025762 ATGTCGA-TGTCCCAGACATGGTCTTACATGTAAATCA
1 ATG-CCACTGTCCCAAAC-TGGTCTTACATGTAAATCA
30025799 TAAGTCGATG
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
42 23 0.35
43 42 0.65
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCACTGTCCCAAACTGGTCTTACATGTAAATCAAATACTG
Found at i:30028126 original size:30 final size:30
Alignment explanation
Indices: 30028092--30028149 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
30028082 GCGGAGGTAG
*
30028092 GGGCAAATCCGAAACAAAGTCCATCATCTA
1 GGGCAAACCCGAAACAAAGTCCATCATCTA
*
30028122 GGGCAAGCCCGAAACAAAGTCCATCATC
1 GGGCAAACCCGAAACAAAGTCCATCATC
30028150 ATTCTATCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.29, G:0.19, T:0.14
Consensus pattern (30 bp):
GGGCAAACCCGAAACAAAGTCCATCATCTA
Found at i:30032168 original size:43 final size:43
Alignment explanation
Indices: 30032107--30032220 Score: 167
Period size: 43 Copynumber: 2.7 Consensus size: 43
30032097 TCCTACACGG
* *
30032107 CATTAGCCACGCCCGTGTGACTAGGTCGTGTGCCTTACAAAAA
1 CATTAGACACGCCCGTGTGACTAGGCCGTGTGCCTTACAAAAA
* *
30032150 CATTAGACATGCCTGTGTGACTAGGCCGTGTGCCTTACAAAAA
1 CATTAGACACGCCCGTGTGACTAGGCCGTGTGCCTTACAAAAA
*
30032193 CATTAGACAAGCTCC-TGTGACTAGGCCG
1 CATTAGACACGC-CCGTGTGACTAGGCCG
30032221 AGTGAAAACA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 63 0.98
44 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (43 bp):
CATTAGACACGCCCGTGTGACTAGGCCGTGTGCCTTACAAAAA
Found at i:30033395 original size:43 final size:42
Alignment explanation
Indices: 30033348--30033446 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
30033338 TCTCAGACGT
*
30033348 GGTCTTACATGTAATCAAATATCGATGC-CACTGTCCTAGACAG
1 GGTCTTACATGTAATCAAATA-CGATGCTCA-TGTCCCAGACAG
*** * **
30033391 GGTCTTACACAAAATCAAATACGATGCTGATGTCCCAGACTT
1 GGTCTTACATGTAATCAAATACGATGCTCATGTCCCAGACAG
30033433 GGTCTTACATGTAA
1 GGTCTTACATGTAA
30033447 ATCATAAGTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 26 0.58
43 19 0.42
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATACGATGCTCATGTCCCAGACAG
Found at i:30033470 original size:44 final size:43
Alignment explanation
Indices: 30033329--30033487 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
30033319 AGCTCGTATA
*
30033329 ATGCCAACGTCTCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCAAATAT-G
* ** *
30033372 ATGCC-ACTGTCCTAGACAG-GGTCTTACA-CAAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAAATCAAATATG
** * *
30033414 ATGCTGATGTCCCAGACTTGGTCTTACATGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCA-AA-TATG
*
30033458 ATGCCAACGTCCCAAACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG
30033488 AAAACACATA
Statistics
Matches: 91, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
42 24 0.26
43 37 0.41
44 29 0.32
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAAATCAAATATG
Found at i:30033871 original size:8 final size:8
Alignment explanation
Indices: 30033858--30033882 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30033848 AAATTAGCCC
30033858 TCACATTT
1 TCACATTT
30033866 TCACATTT
1 TCACATTT
30033874 TCACATTT
1 TCACATTT
30033882 T
1 T
30033883 AGTCCTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Done.