Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 104 of 438
Found at i:29740639 original size:40 final size:39
Alignment explanation
Indices: 29740553--29740733 Score: 215
Period size: 40 Copynumber: 4.6 Consensus size: 39
29740543 AATGATGACC
* *
29740553 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-ATCCG
*
29740593 GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATCCCG
1 GGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT-CCG
* *
29740633 GGCTAAG-CCCGAAGGCATTGGTGCGAGTTACCAAATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATCCG
* *
29740672 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATCCG
*
29740712 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
29740734 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 12, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
39 34 0.28
40 80 0.66
41 8 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATCCG
Found at i:29740755 original size:79 final size:77
Alignment explanation
Indices: 29740583--29740766 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 77
29740573 GTGCTAAGTG
* *
29740583 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAG-TCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
29740648 CATTGGTGCGAGTT
64 CATTGGAACGAGTT
* * *
29740662 ACCAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAA
1 ACTATATCC-GGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAA
*
29740726 GGCATTTGAACGAG-T
62 GGCATTGGAACGAGTT
*
29740741 AGCTATATCCGGTTAAATTCCGAAGG
1 A-CTATATCCGGTT-AAGTCCGAAGG
29740767 TACGTGATTC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
78 3 0.03
79 57 0.65
80 28 0.32
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (77 bp):
ACTATATCCGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCA
TTGGAACGAGTT
Found at i:29748165 original size:23 final size:23
Alignment explanation
Indices: 29748135--29748182 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
29748125 CTTAAGACTT
29748135 TTATGGTCTGTATAGACATGGCA
1 TTATGGTCTGTATAGACATGGCA
29748158 TTATGGTCTGTATAGACATGGCA
1 TTATGGTCTGTATAGACATGGCA
29748181 TT
1 TT
29748183 TCTCTCTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (23 bp):
TTATGGTCTGTATAGACATGGCA
Found at i:29751462 original size:43 final size:43
Alignment explanation
Indices: 29751393--29751520 Score: 127
Period size: 43 Copynumber: 3.0 Consensus size: 43
29751383 AGCTTGTACA
* * *
29751393 ATGCCAACGTCCCAAACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
**** * *
29751436 ATGTGTCTGTCCCAGACAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
*
29751478 ATGCCAATGTCCCAGAC-GTGGTCTTACATGATAA-CACATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACATG-TAATCAAATATCG
29751521 GATCCTATGT
Statistics
Matches: 66, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
41 1 0.02
42 30 0.45
43 35 0.53
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:29752113 original size:13 final size:13
Alignment explanation
Indices: 29752095--29752174 Score: 88
Period size: 13 Copynumber: 6.1 Consensus size: 13
29752085 AGTTTGGCAA
*
29752095 TGCTTTTGCAAAG
1 TGCTTTTGAAAAG
29752108 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
29752121 TGCTGTGGAAAAAA
1 TGCTTTTG-AAAAG
*
29752135 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
29752148 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
29752161 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
29752174 T
1 T
29752175 TTGGTTTAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
13 46 0.82
14 10 0.18
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:29754847 original size:60 final size:60
Alignment explanation
Indices: 29754754--29754891 Score: 231
Period size: 60 Copynumber: 2.3 Consensus size: 60
29754744 ATGTCGGAAT
*
29754754 TACCAGTCCATGCTAAATCCCTTATAGCGACAAACACCCTTAATGAGCTCGGATCTGAAA
1 TACCAGTCCAGGCTAAATCCCTTATAGCGACAAACACCCTTAATGAGCTCGGATCTGAAA
* * *
29754814 TACCAGTCCAGGCTAAATCCTTTATAGTGACAAACAGCCTTAATGAGCTCGGATCTGAAA
1 TACCAGTCCAGGCTAAATCCCTTATAGCGACAAACACCCTTAATGAGCTCGGATCTGAAA
*
29754874 TACCAGTCTAGGCTAAAT
1 TACCAGTCCAGGCTAAAT
29754892 TCAGACCCTA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (60 bp):
TACCAGTCCAGGCTAAATCCCTTATAGCGACAAACACCCTTAATGAGCTCGGATCTGAAA
Found at i:29757047 original size:45 final size:46
Alignment explanation
Indices: 29756932--29757059 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
29756922 TGTAACCCGC
* * ** * *
29756932 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
29756978 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
29757024 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
29757060 TGCCCAAATA
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
45 32 0.42
46 44 0.58
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:29759479 original size:30 final size:30
Alignment explanation
Indices: 29759435--29759523 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
29759425 CAAAGATAAC
*
29759435 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
29759464 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
29759494 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
29759524 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:29759483 original size:15 final size:14
Alignment explanation
Indices: 29759435--29759517 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
29759425 CAAAGATAAC
*
29759435 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
29759449 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
29759464 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
29759479 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
29759494 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
29759509 AAGAAACCC
1 AAGAAACCC
29759518 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:29759523 original size:15 final size:15
Alignment explanation
Indices: 29759446--29759523 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
29759436 AGAAAACCGA
29759446 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
29759461 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
29759475 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
29759490 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
29759506 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
29759521 ATA
1 ATA
29759524 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:29760209 original size:23 final size:23
Alignment explanation
Indices: 29760182--29760229 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
29760172 TACTTATCAG
*
29760182 CTCATTTTCAATCTTTAATCATA
1 CTCATTTTCAATCTCTAATCATA
29760205 CTCATTTTCAATCTCTAATCATA
1 CTCATTTTCAATCTCTAATCATA
29760228 CT
1 CT
29760230 TATAATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (23 bp):
CTCATTTTCAATCTCTAATCATA
Found at i:29762555 original size:93 final size:93
Alignment explanation
Indices: 29762443--29762614 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
29762433 CGCCCATAAG
* *
29762443 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
29762508 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
*
29762536 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
29762601 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
29762615 CAAATATCCA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:29762610 original size:46 final size:46
Alignment explanation
Indices: 29762436--29762610 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
29762426 TGTAACCCGC
* *
29762436 CCATAAG-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
29762481 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
29762531 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
*
29762574 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
29762611 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 9 0.08
46 61 0.55
47 31 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:29771715 original size:50 final size:51
Alignment explanation
Indices: 29771652--29771784 Score: 160
Period size: 50 Copynumber: 2.6 Consensus size: 51
29771642 TTCAGTCACG
* * * * * * **
29771652 TGTGTAGTACTAAGTGTAGGCCACTACGTGTACTTGATGGTTA-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCCACTATGTGTACTCGATAGCTACGATCAAA
* *
29771702 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAGCTACGATCAAA
1 TGTGTAGTACTAAGTGCAGGCCACTATGTGTACTCGATAGCTACGATCAAA
*
29771753 TGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 TGTGTAGTACTAAGTGCAGGCCACTATGTGTA
29771785 AAAGATAGCT
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
50 36 0.52
51 33 0.48
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCCACTATGTGTACTCGATAGCTACGATCAAA
Found at i:29778841 original size:40 final size:40
Alignment explanation
Indices: 29778702--29778847 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
29778692 GCTACTCGTT
* * *
29778702 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
* *
29778742 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCT-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT-TGCA
* * *
29778782 CAAATGCCTTC-GGATCTTAGTCCAGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCA
29778823 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29778848 CATCATTCGA
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 4 0.04
40 76 0.85
41 9 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
Found at i:29785497 original size:40 final size:41
Alignment explanation
Indices: 29785442--29785626 Score: 297
Period size: 40 Copynumber: 4.6 Consensus size: 41
29785432 ACTACTTGCT
* * *
29785442 CAAATTCCTTTGGGACTTAGCCC-GATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
29785482 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
29785522 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
* *
29785562 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
29785602 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
29785627 TTATCATCCG
Statistics
Matches: 138, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
40 135 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCA
Found at i:29788393 original size:28 final size:28
Alignment explanation
Indices: 29788297--29788434 Score: 174
Period size: 28 Copynumber: 5.0 Consensus size: 28
29788287 TGGCTGCTAG
* * *
29788297 AACAGATA-TTGTGACAGAGTCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
* * * *
29788324 TACAGGTA-TTGTGGCAAAGCCACC-GG
1 AACAGATATTTGTGGCATAGCCACCAGA
*
29788350 AACAGATATTTATGGCATAGCCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
*
29788378 AATAGATATTTGTGGCATAGCCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
29788406 AACAGATATTTGTGGCATAGCCACCAGA
1 AACAGATATTTGTGGCATAGCCACCAGA
29788434 A
1 A
29788435 CGCTTCCTCC
Statistics
Matches: 95, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.07
27 33 0.35
28 55 0.58
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (28 bp):
AACAGATATTTGTGGCATAGCCACCAGA
Found at i:29792054 original size:38 final size:38
Alignment explanation
Indices: 29792011--29792084 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
29792001 TAGAACAAAT
29792011 TTTGACATCAGATCCTCCGAATGAGGAAGAGGAGGAAA
1 TTTGACATCAGATCCTCCGAATGAGGAAGAGGAGGAAA
* *
29792049 TTTGACATCAGATCTTCTGAATGAGGAAGAGGAGGA
1 TTTGACATCAGATCCTCCGAATGAGGAAGAGGAGGA
29792085 TGAATACTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.30, T:0.22
Consensus pattern (38 bp):
TTTGACATCAGATCCTCCGAATGAGGAAGAGGAGGAAA
Found at i:29795523 original size:16 final size:15
Alignment explanation
Indices: 29795483--29795529 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
29795473 AAAAAAGATG
29795483 ATAATTAT-T-AATAT
1 ATAATTATATCAAT-T
*
29795497 ATAATTATATCCATT
1 ATAATTATATCAATT
29795512 ATAATATATATCAATT
1 ATAAT-TATATCAATT
29795528 AT
1 AT
29795530 TATCAACTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTATATCAATT
Found at i:29796289 original size:40 final size:40
Alignment explanation
Indices: 29796234--29796313 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
29796224 TCACCCATCC
* *
29796234 TTAGCCAAATCCTCCAACCTACTTCTATTTAACCTTTTTT
1 TTAGCCAAATCCTCCAACCTACTTCCATTTAACCTCTTTT
29796274 TTAGCCAAATCCTCCAACCTACTTCCATTTAACCTCTTTT
1 TTAGCCAAATCCTCCAACCTACTTCCATTTAACCTCTTTT
29796314 GCTTTCTAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.40
Consensus pattern (40 bp):
TTAGCCAAATCCTCCAACCTACTTCCATTTAACCTCTTTT
Found at i:29796407 original size:25 final size:25
Alignment explanation
Indices: 29796379--29796442 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
29796369 TTTTCTCCTA
* *
29796379 AATTTTTAATTTTATTTAATTATT-T
1 AATTTTTAA-TTTATTGAATCATTAT
29796404 AATTTTTCAATTTATTGAATCATTAGT
1 AATTTTT-AATTTATTGAATCATTA-T
29796431 AATTTTT-ATTTA
1 AATTTTTAATTTA
29796443 ATTAAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 24 0.71
26 2 0.06
27 8 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (25 bp):
AATTTTTAATTTATTGAATCATTAT
Found at i:29801302 original size:43 final size:42
Alignment explanation
Indices: 29801253--29801375 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
29801243 CACATGTATC
* *
29801253 ACATCCATTATGAACTCGGACCCCTCAATAAGCTCGGATGCTT
1 ACATCCATAATGAACTCGGACCACTCAATAAGCTCGGATGC-T
* * **
29801296 GCATCCATAATGAACTCGGACCACTCAACAAGCTTAGATGCT
1 ACATCCATAATGAACTCGGACCACTCAATAAGCTCGGATGCT
** * * *
29801338 ACATATATCATGAACCCGGACCACTCAATGAGCTCGGA
1 ACATCCATAATGAACTCGGACCACTCAATAAGCTCGGA
29801376 CTTCTTAATT
Statistics
Matches: 65, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
42 30 0.46
43 35 0.54
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (42 bp):
ACATCCATAATGAACTCGGACCACTCAATAAGCTCGGATGCT
Found at i:29805443 original size:22 final size:23
Alignment explanation
Indices: 29805415--29805463 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
29805405 GTATGAGATC
29805415 ATCAAAAATAT-AATC-CATACAT
1 ATCAAAAATATCAATCTCA-ACAT
29805437 ATC-AAAATATCAATCTCAACAT
1 ATCAAAAATATCAATCTCAACAT
29805459 ATCAA
1 ATCAA
29805464 TCATCATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 7 0.29
22 14 0.58
23 3 0.12
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (23 bp):
ATCAAAAATATCAATCTCAACAT
Found at i:29807133 original size:17 final size:17
Alignment explanation
Indices: 29807095--29807132 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
29807085 GTTGTTTGTC
29807095 AAAAAGGAGAGAAAATG
1 AAAAAGGAGAGAAAATG
29807112 AAAAAGGA-AGAAAATG
1 AAAAAGGAGAGAAAATG
29807128 AAAAA
1 AAAAA
29807133 AAATGAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (17 bp):
AAAAAGGAGAGAAAATG
Found at i:29809365 original size:40 final size:40
Alignment explanation
Indices: 29809310--29809519 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
29809300 GAACATTGGA
29809310 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
29809350 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
29809390 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
29809430 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
29809469 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
29809510 CTATATCCGG
1 ATATATCCGG
29809520 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:29821148 original size:40 final size:40
Alignment explanation
Indices: 29821093--29821302 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
29821083 AACATTGGAA
29821093 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
29821133 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
29821173 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
29821213 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
29821252 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
29821293 CTATATCCGG
1 ATATATCCGG
29821303 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:29833330 original size:2 final size:2
Alignment explanation
Indices: 29833323--29833347 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29833313 TATATTCTTT
29833323 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
29833348 CTTTGTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29836125 original size:27 final size:27
Alignment explanation
Indices: 29835702--29836125 Score: 482
Period size: 27 Copynumber: 15.7 Consensus size: 27
29835692 CCAAAGTACT
*
29835702 CTCGATTTACAGAATTACAGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
29835729 CTC-AGTTTACAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
29835756 CTCGATTTACAGAATTA-TCGTTTTACC
1 CTCGATTTACAGAATTACT-GTTTTACC
*
29835783 CTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
* * *
29835810 CTTGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
** * *
29835837 CTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
29835864 CTCGATTTACAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* *
29835891 CTC-AGTTTATAGAATTACTATTTTACC
1 CTCGA-TTTACAGAATTACTGTTTTACC
* *
29835918 CTCGATTTATAGAATTACCGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
* * **
29835945 C-CTAATTTACATAATTACCATTTTACC
1 CTC-GATTTACAGAATTACTGTTTTACC
* * *
29835972 CCCAATTTACATAATTA-TCGTTTTACC
1 CTCGATTTACAGAATTACT-GTTTTACC
* **
29835999 CTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
**
29836026 CTCGATTTACAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
29836053 CTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
29836080 CTTGATTTACAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACTGTTTTACC
*
29836107 CTCGATTTACAAAATTACT
1 CTCGATTTACAGAATTACT
29836126 AAAATACCCT
Statistics
Matches: 347, Mismatches: 38, Indels: 24
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.01
27 337 0.97
28 5 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CTCGATTTACAGAATTACTGTTTTACC
Found at i:29836137 original size:54 final size:54
Alignment explanation
Indices: 29835702--29836126 Score: 534
Period size: 54 Copynumber: 7.9 Consensus size: 54
29835692 CCAAAGTACT
*
29835702 CTCGATTTACAGAATTACAGTTTTACCCTC-AGTTTACAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTTTACC
* * *
29835756 CTCGATTTACAGAATTATCGTTTTACCCTC-AGTTTACAGAATTATTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTTTACC
* * ** * **
29835810 CTTGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACC
*
29835864 CTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTTTACC
* * * *
29835918 CTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAGAATTACTATTTTACC
* * * * * *
29835972 CCCAATTTACATAATTATCGTTTTACCCTCGATTTATAGAATTACCATTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACC
* * *
29836026 CTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACC
1 CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACC
* * *
29836080 CTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTA
29836127 AAATACCCTT
Statistics
Matches: 323, Mismatches: 43, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
53 2 0.01
54 318 0.98
55 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
CTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACC
Found at i:29836150 original size:81 final size:81
Alignment explanation
Indices: 29835702--29836124 Score: 534
Period size: 81 Copynumber: 5.2 Consensus size: 81
29835692 CCAAAGTACT
* *
29835702 CTCGATTTACAGAATTA-CAGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTA
1 CTCGATTTACAGAATTACCA-TTTTACCCTCGA-TTTATAGAATTACTGTTTTACCCTCGATTTA
* *
29835765 CAGAATTATCGTTTTACC
64 TAGAATTACCGTTTTACC
*** * * *
29835783 CTC-AGTTTACAGAATTATTGTTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTGT
1 CTCGA-TTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTAT
*
29835847 AAAATTACCGTTTTACC
65 AGAATTACCGTTTTACC
* *
29835864 CTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTATTTTACCCTCGATTTAT
1 CTCGATTTACAGAATTACCATTTTACCCTCGA-TTTATAGAATTACTGTTTTACCCTCGATTTAT
29835928 AGAATTACCGTTTTACC
65 AGAATTACCGTTTTACC
* * * * * *
29835945 C-CTAATTTACATAATTACCATTTTACCCCCAATTTACATAATTA-TCGTTTTACCCTCGATTTA
1 CTC-GATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACT-GTTTTACCCTCGATTTA
*
29836008 TAGAATTACCATTTTACC
64 TAGAATTACCGTTTTACC
* *
29836026 CTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACA
1 CTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATA
*
29836091 GAATTACTGTTTTACC
66 GAATTACCGTTTTACC
*
29836107 CTCGATTTACAAAATTAC
1 CTCGATTTACAGAATTAC
29836125 TAAAATACCC
Statistics
Matches: 296, Mismatches: 36, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
80 4 0.01
81 287 0.97
82 5 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (81 bp):
CTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATA
GAATTACCGTTTTACC
Found at i:29837457 original size:9 final size:9
Alignment explanation
Indices: 29837445--29837501 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29837435 TTTGATAAAC
29837445 ATGATATGT
1 ATGATATGT
*
29837454 ATGATATGCAC
1 ATGATATG--T
*
29837465 ATGACATGT
1 ATGATATGT
*
29837474 ATGATATGCAC
1 ATGATATG--T
29837485 ATGATATGT
1 ATGATATGT
29837494 ATGATATG
1 ATGATATG
29837502 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:29837468 original size:20 final size:20
Alignment explanation
Indices: 29837443--29837513 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
29837433 ATTTTGATAA
29837443 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29837463 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29837483 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29837503 ACATGAGATGT
1 ACATGATATGT
29837514 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29837490 original size:11 final size:11
Alignment explanation
Indices: 29837454--29837508 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29837444 CATGATATGT
29837454 ATGATATGCAC
1 ATGATATGCAC
* *
29837465 ATGACATG--T
1 ATGATATGCAC
29837474 ATGATATGCAC
1 ATGATATGCAC
*
29837485 ATGATATG--T
1 ATGATATGCAC
29837494 ATGATATGCAC
1 ATGATATGCAC
29837505 ATGA
1 ATGA
29837509 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29837588 original size:23 final size:23
Alignment explanation
Indices: 29837558--29837723 Score: 271
Period size: 24 Copynumber: 7.1 Consensus size: 23
29837548 AGGAAGTGCA
29837558 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29837581 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
29837605 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
29837629 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29837652 AAAGGGCTTATGCCCCA-TTATT
1 AAAGGGCTTATGCCCCAGTTATT
29837674 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29837697 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
29837721 AAA
1 AAA
29837724 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 3, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
22 22 0.16
23 47 0.34
24 68 0.50
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:29837613 original size:24 final size:23
Alignment explanation
Indices: 29837557--29837745 Score: 265
Period size: 24 Copynumber: 8.0 Consensus size: 23
29837547 GAGGAAGTGC
29837557 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29837580 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
29837603 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
29837627 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
29837651 TAAAGGGCTTATGCCCCA-TTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29837673 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
29837697 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
29837721 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29837745 A
1 A
29837746 TGATAAAGCA
Statistics
Matches: 154, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
22 22 0.14
23 42 0.27
24 80 0.52
25 10 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:29837625 original size:47 final size:47
Alignment explanation
Indices: 29837556--29837723 Score: 277
Period size: 47 Copynumber: 3.6 Consensus size: 47
29837546 GGAGGAAGTG
29837556 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
29837603 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
*
29837651 -TAAAGGGCTTATGCCCCA-TTATTAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
29837696 TAAAAGGGCTTTTGCCCCAGTTATTAAA
1 CAAAAGGGCTTATGCCCCAGTTATTAAA
29837724 AGAGGCTAGG
Statistics
Matches: 113, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
45 22 0.19
46 20 0.18
47 49 0.43
48 22 0.19
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (47 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:29837718 original size:93 final size:95
Alignment explanation
Indices: 29837558--29837744 Score: 308
Period size: 93 Copynumber: 2.0 Consensus size: 95
29837548 AGGAAGTGCA
29837558 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
*
29837623 TTATCAAAAG-GGCTTATGCC-CCAGTTATT
66 TTATCAAAAGAGGC-TAGGCCTCCAGTTATT
* *
29837652 AAAGGGCTTATGCCCCA-TTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
*
29837716 TTATTAAAAGAGGCTAGGCCTCCAGTTAT
66 TTATCAAAAGAGGCTAGGCCTCCAGTTAT
29837745 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
93 59 0.68
94 28 0.32
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (95 bp):
AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
TTATCAAAAGAGGCTAGGCCTCCAGTTATT
Found at i:29841258 original size:27 final size:27
Alignment explanation
Indices: 29840837--29841257 Score: 526
Period size: 27 Copynumber: 15.6 Consensus size: 27
29840827 AAAGTACTCC
*
29840837 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
29840864 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
29840891 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
29840918 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
29840945 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
29840972 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
29840999 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
29841026 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
29841053 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
29841079 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
29841107 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
29841134 CGATTTATAGAATTACTGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
*
29841161 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
29841188 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
29841215 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
29841242 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
29841258 TAAAATACCC
Statistics
Matches: 340, Mismatches: 46, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 4 0.01
27 332 0.98
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:29842591 original size:9 final size:9
Alignment explanation
Indices: 29842579--29842635 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29842569 TTTGATAAAC
29842579 ATGATATGT
1 ATGATATGT
*
29842588 ATGATATGCAC
1 ATGATATG--T
*
29842599 ATGACATGT
1 ATGATATGT
*
29842608 ATGATATGCAC
1 ATGATATG--T
29842619 ATGATATGT
1 ATGATATGT
29842628 ATGATATG
1 ATGATATG
29842636 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:29842602 original size:20 final size:20
Alignment explanation
Indices: 29842577--29842647 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
29842567 ATTTTGATAA
29842577 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29842597 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
29842617 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29842637 ACATGAGATGT
1 ACATGATATGT
29842648 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29842624 original size:11 final size:11
Alignment explanation
Indices: 29842588--29842642 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29842578 CATGATATGT
29842588 ATGATATGCAC
1 ATGATATGCAC
* *
29842599 ATGACATG--T
1 ATGATATGCAC
29842608 ATGATATGCAC
1 ATGATATGCAC
*
29842619 ATGATATG--T
1 ATGATATGCAC
29842628 ATGATATGCAC
1 ATGATATGCAC
29842639 ATGA
1 ATGA
29842643 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29842724 original size:23 final size:23
Alignment explanation
Indices: 29842694--29842860 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
29842684 AGGAAGTGCA
*
29842694 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
29842717 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
29842741 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
29842765 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29842788 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
29842811 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
29842834 AAAAGGGCTTTTGCCCCAATTATT
1 -AAAGGGCTTATGCCCCAGTTATT
29842858 AAA
1 AAA
29842861 AGAGGCTAGG
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
23 70 0.51
24 67 0.49
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:29842749 original size:24 final size:23
Alignment explanation
Indices: 29842693--29842882 Score: 256
Period size: 24 Copynumber: 8.0 Consensus size: 23
29842683 GAGGAAGTGC
*
29842693 AAAAGGGCTTATGCCCCAATTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29842716 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
29842739 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
29842763 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
29842787 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
29842810 TAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
* *
29842834 AAAAGGGCTTTTGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTA-T
*
29842858 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29842882 A
1 A
29842883 TGATAAAGCA
Statistics
Matches: 153, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
23 65 0.42
24 79 0.52
25 9 0.06
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:29842792 original size:47 final size:46
Alignment explanation
Indices: 29842694--29842881 Score: 252
Period size: 47 Copynumber: 4.0 Consensus size: 46
29842684 AGGAAGTGCA
* *
29842694 AAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAATTATAAAAGGGCTTATGCCCCAGTTAT-T
*
29842741 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTAT-AAAAGGGCTTATGCCCCAGTTATT
* *
29842788 AAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAATTATAAAAGGGCTTATGCCCCAGTTATT
* *
29842834 AAAAGGGCTTTTGCCCCAATTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 -AAAGGGCTTATGCCCCAATTA-TAAAAG-GGCTTATGCC-CCAGTTAT
29842882 ATGATAAAGC
Statistics
Matches: 128, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
46 23 0.18
47 62 0.48
48 32 0.25
49 11 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAATTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:29847328 original size:35 final size:35
Alignment explanation
Indices: 29847289--29847434 Score: 238
Period size: 35 Copynumber: 4.2 Consensus size: 35
29847279 CATGGAAAAG
*
29847289 TGTGAAATGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
29847324 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
29847359 TGTGAAACATAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
29847394 TGTGAAACGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
29847429 TGTGAA
1 TGTGAA
29847435 GTGTAGCTAT
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 102 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
Found at i:29847450 original size:70 final size:70
Alignment explanation
Indices: 29847289--29847450 Score: 279
Period size: 70 Copynumber: 2.3 Consensus size: 70
29847279 CATGGAAAAG
29847289 TGTGAAATGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
1 TGTGAAATGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
29847354 TGAGT
66 TGAGT
**
29847359 TGTGAAACATAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
1 TGTGAAATGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
29847424 TGAGT
66 TGAGT
* * *
29847429 TGTGAAGTGTAGCTATAGTATT
1 TGTGAAATGTAGGTATGGTATT
29847451 TCAATGAGGA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 85 1.00
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (70 bp):
TGTGAAATGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGGTATCATCCATAC
TGAGT
Found at i:29850615 original size:180 final size:180
Alignment explanation
Indices: 29850309--29850664 Score: 538
Period size: 180 Copynumber: 2.0 Consensus size: 180
29850299 GAGCTATAGA
* *
29850309 ACTCCAAATTAAGATCCGTTAATTTTTCCAGAAACTAGACTCACATATGATCTTACCATAACATT
1 ACTCCAAATTAAGAACCGTTAATTTTCCCAGAAACTAGACTCACATATGATCTTACCATAACATT
* * *
29850374 TTCATAATTTTTGGTTTATCCAATTAGTACATTTTATTCATTAAATTTACCCCTATTTCACTGTC
66 TTCAGAATTTTTGGTTTATCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGTC
* * * *
29850439 CAATAGTTTTGACCTCTCTTCACTATAAATTATTTATCTCATGGTATTGG
131 CAACAGTTCTAACCTCTCTTCACTAAAAATTATTTATCTCATGGTATTGG
29850489 ACTCCAAATTAAGAACCGTTAATTTTCCCAGAAACTAGACTCACATAT-ATTCTTACCATAA-AC
1 ACTCCAAATTAAGAACCGTTAATTTTCCCAGAAACTAGACTCACATATGA-TCTTACCATAACA-
* *
29850552 TTTTCAGAATTTTTGGTTTAGT-CAATTAGTACAGTTTATTCATTAAAGTTACTCCTGTTTCACT
64 TTTTCAGAATTTTTGGTTTA-TCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACT
* * *
29850616 GTCCGACAGTTCTAATCTTTCTTCACTAAAAATTATTTATCTCATGGTA
128 GTCCAACAGTTCTAACCTCTCTTCACTAAAAATTATTTATCTCATGGTA
29850665 CAGATCTTGG
Statistics
Matches: 159, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
179 2 0.01
180 156 0.98
181 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (180 bp):
ACTCCAAATTAAGAACCGTTAATTTTCCCAGAAACTAGACTCACATATGATCTTACCATAACATT
TTCAGAATTTTTGGTTTATCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGTC
CAACAGTTCTAACCTCTCTTCACTAAAAATTATTTATCTCATGGTATTGG
Found at i:29852934 original size:54 final size:53
Alignment explanation
Indices: 29852739--29852947 Score: 213
Period size: 53 Copynumber: 3.9 Consensus size: 53
29852729 TTTTCCTTTT
* * * * * *
29852739 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCTTTA
1 TGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* * * * ** *
29852792 TGTACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTA
1 TGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTA
* * *
29852845 TGGTAACTTATCAATGACATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 T-G-AACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
* *
29852900 TAGAAGTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 T-GAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
29852948 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 41 0.32
55 40 0.31
56 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
TGAACTTATCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTA
Found at i:29852981 original size:47 final size:47
Alignment explanation
Indices: 29852926--29853047 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
29852916 CATGCCTTGG
* *
29852926 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
29852973 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
*
29853020 CATGGTCTTACATGGCATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
29853048 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:29853234 original size:44 final size:44
Alignment explanation
Indices: 29853185--29853269 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
29853175 TATCCTTACT
* *
29853185 GTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTCC
1 GTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTCC
* *
29853229 GTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
29853270 GAGATATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTCC
Found at i:29854764 original size:50 final size:50
Alignment explanation
Indices: 29854689--29855390 Score: 629
Period size: 50 Copynumber: 13.9 Consensus size: 50
29854679 ACCGAAGCTC
* * * *
29854689 TCTGGTACTCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * *
29854739 TCTGGTACACGTAGTAGCCTGCACTTAGTACCACACACGTGACATATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* ** *
29854789 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAA
* * * * * * * * *
29854840 TCGGGTACGCATAGTAGCCTACAATTATTACTACACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * *
29854890 TCTGCTACACGTAATAGCCTGCACTTAGTACTAAAACACGTGACCTAAGC-A
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACT-ACACACGTGACCTAA-CAA
* * ** *
29854941 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAA
* ** * * *
29854992 TCGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * * *
29855042 TCCGTTACACGTAGTAGCGTGTACTTAGTACTACACACGTGACCTGACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
** * ** *
29855092 TCTAATACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAA
* ** * * * * *
29855143 TCGGGTATGCATATTAGCCTGCAGTTAGAACTACACA--TGCACCCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTG-A-CCTAACAA
* * * * ***
29855193 TCCGGTGCACGTAGTAGCCTACACTTAGTACCACACACACAACCTAAGC-A
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAA
** * ** *
29855243 TCTAATACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAA
* * * * * *
29855294 TCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
29855344 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
29855391 AACTGTCTTA
Statistics
Matches: 511, Mismatches: 129, Indels: 24
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.00
50 316 0.62
51 192 0.38
52 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
Found at i:29854899 original size:101 final size:100
Alignment explanation
Indices: 29854700--29855389 Score: 578
Period size: 101 Copynumber: 6.8 Consensus size: 100
29854690 CTGGTACTCA
* * * *
29854700 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACAATCGGGTACACGTAGTAGCCTGCACTT
* * * *
29854765 AGTACCACACACGTGACATATCCATCTGATACACG
66 AGTACTACACATGTGACCTATCAATCTGATACACG
* * * * * *
29854800 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACGCATAGTAGCCTACAAT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAACAATCGGGTACACGTAGTAGCCTGCACT
* * *
29854865 TATTACTACACATGCGACCTATCAATCTGCTACACG
65 TAGTACTACACATGTGACCTATCAATCTGATACACG
* * * * *
29854901 TAATAGCCTGCACTTAGTACTAAAACACGTGACCTAAGC-ATCTGATACACGTAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACT-ACACACGTGACC-AAACAATCGGGTACACGTAGTAGCCTGCAC
** * * * * ** *
29854965 TTAGTACTACACATGTGATCGAAACTATCGGGTATGCA
64 TTAGTACTACACATGTGA-CCTATCAATCTGATACACG
* * * * * * *
29855003 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGTTACACGTAGTAGCGTGTACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACAATCGGGTACACGTAGTAGCCTGCACTT
* * * *
29855068 AGTACTACACACGTGACCTGA-CCATCTAATACATG
66 AGTACTACACATGTGACCT-ATCAATCTGATACACG
* * ** * * *
29855103 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTATGCATATTAGCCTGCAGT
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAAACAATCGGGTACACGTAGTAGCCTGCACT
* * * * *
29855168 TAGAACTACACATG-CACCCTATCAATCCGGTGCACG
65 TAGTACTACACATGTGA-CCTATCAATCTGATACACG
* * *** * ***
29855204 TAGTAGCCTACACTTAGTACCACACACACAACCTAAGC-ATCTAATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AAACAATCGGGTACACGTAGTAGCCTGCACT
** * * * * * *
29855268 TAGTACTACACATGTGATCGAAACTATCGGGTACGCA
65 TAGTACTACACATGTGA-CCTATCAATCTGATACACG
* * * * *
29855305 TAGTAGCCTGCACATAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACAATCGGGTACACGTAGTAGCCTGCACTT
*
29855370 AGTACTACACACGTGACCTA
66 AGTACTACACATGTGACCTA
29855390 AAACTGTCTT
Statistics
Matches: 458, Mismatches: 120, Indels: 24
0.76 0.20 0.04
Matches are distributed among these distances:
100 107 0.23
101 309 0.67
102 42 0.09
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAAACAATCGGGTACACGTAGTAGCCTGCACTT
AGTACTACACATGTGACCTATCAATCTGATACACG
Found at i:29855150 original size:151 final size:151
Alignment explanation
Indices: 29854692--29855390 Score: 1031
Period size: 151 Copynumber: 4.6 Consensus size: 151
29854682 GAAGCTCTCT
* *
29854692 GGTACTCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * *
29854757 CTGCACTTAGTACCACACACGTGACATATCCATCTGATACACGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTA
29854822 CACACGTGATCGAAACTATCG
131 CACACGTGATCGAAACTATCG
* * * * *
29854843 GGTACGCATAGTAGCCTACAATTATTACTACACATGCGACCTATCAATCTGCTACACGTAATAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * *
29854908 CTGCACTTAGTACTAAAACACGTGACCTAAGCATCTGATACACGTAGTAGCCTGCACTTAGTACT
66 CTGCACTTAGTACT-ACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACT
*
29854973 ACACATGTGATCGAAACTATCG
130 ACACACGTGATCGAAACTATCG
* * * *
29854995 GGTATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGTTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * *
29855060 GTGTACTTAGTACTACACACGTGACCTGACCATCTAATACATGTAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTA
29855125 CACACGTGATCGAAACTATCG
131 CACACGTGATCGAAACTATCG
* * * * * *
29855146 GGTATGCATATTAGCCTGCAGTTAGAACTACACATGC-ACCCTATCAATCCGGTGCACGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTATCAATCTGGTACACGTAGTAG
* * *** *
29855210 CCTACACTTAGTACCACACACACAACCTAAGCATCTAATACACGTAGTAGCCTGCACTTAGTACT
65 CCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACT
*
29855275 ACACATGTGATCGAAACTATCG
130 ACACACGTGATCGAAACTATCG
* *
29855297 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
29855362 CTGCACTTAGTACTACACACGTGACCTAA
66 CTGCACTTAGTACTACACACGTGACCTAA
29855391 AACTGTCTTA
Statistics
Matches: 486, Mismatches: 59, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
150 1 0.00
151 348 0.72
152 137 0.28
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAACTATCG
Found at i:29855435 original size:42 final size:42
Alignment explanation
Indices: 29855388--29855470 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
29855378 ACACGTGACC
*
29855388 TAAAACTGTCTTAAACACATAGTAGCCTGTACATAGTACTAT
1 TAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACTAT
29855430 TAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACTA
1 TAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACTA
29855471 CACATGTGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (42 bp):
TAAAACTGTCTTAAACACATAGTAGCCTGCACATAGTACTAT
Found at i:29861742 original size:35 final size:35
Alignment explanation
Indices: 29861692--29861814 Score: 183
Period size: 35 Copynumber: 3.5 Consensus size: 35
29861682 CATGGCAAAG
29861692 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * *
29861727 TGTGAAACGTTGGTATGGTATTAACTATACTAAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * *
29861762 TGTGAAACGTATGTATGGTATCATCCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
29861797 TGTGAAATGTAGGTATGG
1 TGTGAAACGTAGGTATGG
29861815 CATTTCAATA
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 77 1.00
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
Found at i:29863520 original size:37 final size:37
Alignment explanation
Indices: 29863463--29863548 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
29863453 CGAATAGTCC
**
29863463 CCACACGTAGTTGTCAGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCAGGTCTTACCCGGACAAAATCT
*
29863500 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCAGGTCTTACCCGGACAAAATCT
29863537 CCACACGTAGTC
1 CCACACGTAGTC
29863549 TGTAACACCC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCAGGTCTTACCCGGACAAAATCT
Found at i:29865046 original size:39 final size:39
Alignment explanation
Indices: 29864974--29865126 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
29864964 TATGGTAACC
** *
29864974 CGCACAAAGGCCTTCGGGACTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
29865014 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
29865053 CGCCCAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
29865092 CGTAGAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
29865127 TCGAACATTC
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.85
40 15 0.15
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:29873057 original size:39 final size:39
Alignment explanation
Indices: 29872985--29873127 Score: 252
Period size: 39 Copynumber: 3.7 Consensus size: 39
29872975 ACCCCACAAA
*
29872985 GCCTTCGGGACTTAACCCGGATATCACAA-TCGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAATT
*
29873024 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
29873063 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
29873102 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
29873128 TCGAACATTC
Statistics
Matches: 100, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
38 17 0.17
39 83 0.83
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAATT
Found at i:29874901 original size:48 final size:48
Alignment explanation
Indices: 29874830--29874962 Score: 212
Period size: 48 Copynumber: 2.8 Consensus size: 48
29874820 TGTTACAACA
*
29874830 TTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
29874878 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * *
29874926 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
29874963 ATTTATCTTG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 78 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
Found at i:29879087 original size:42 final size:42
Alignment explanation
Indices: 29879024--29879129 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
29879014 ATAGCCCAGC
* * *
29879024 TATGGACTTACATGAAATCTCATATC-GATGCCATATACCAAA
1 TATGGTCTTACACGAAGTCTCATA-CAGATGCCATATACCAAA
* *
29879066 TATGGTCTTACACGAAGTCTCATACAGATGCCATATCCCAGA
1 TATGGTCTTACACGAAGTCTCATACAGATGCCATATACCAAA
29879108 TATGGTCTTACAC-ATAGTCTCA
1 TATGGTCTTACACGA-AGTCTCA
29879130 GTAACCCTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.04
42 55 0.96
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (42 bp):
TATGGTCTTACACGAAGTCTCATACAGATGCCATATACCAAA
Found at i:29886599 original size:68 final size:70
Alignment explanation
Indices: 29886527--29886724 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
29886517 ACACCCTGTA
* * * *
29886527 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
29886589 ATAAAT
65 ATAAAT
*
29886595 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
29886660 ATAAAT
65 ATAAAT
*
29886666 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
29886725 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:29886638 original size:41 final size:41
Alignment explanation
Indices: 29886593--29886710 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
29886583 TGAAAGATAA
29886593 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
29886634 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29886664 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
29886705 ATGTAG
1 ATGTAG
29886711 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:29886650 original size:71 final size:71
Alignment explanation
Indices: 29886561--29886724 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
29886551 GAGATGTATC
29886561 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29886626 AGGACA
66 AGGACA
29886632 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
29886697 AGGACA
66 AGGACA
29886703 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
29886725 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:29888355 original size:40 final size:40
Alignment explanation
Indices: 29888249--29888432 Score: 140
Period size: 40 Copynumber: 4.6 Consensus size: 40
29888239 TGCTGGAAAT
* * * * * **
29888249 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
29888289 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
29888329 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * *
29888367 TGATATCCGGGTTAAGTCCC-ATAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGA-AGGCATTCGTGCGAGTCAC
* * *
29888408 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
29888433 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 24, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.02
39 28 0.24
40 84 0.73
41 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:29890263 original size:50 final size:50
Alignment explanation
Indices: 29890178--29890323 Score: 229
Period size: 50 Copynumber: 2.9 Consensus size: 50
29890168 GTGGAAGTAT
*
29890178 GTGGCAGTACATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAA
1 GTGGCAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAA
*
29890228 GTGGTAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAA
1 GTGGCAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAA
* * * * *
29890278 GTAGCAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAGTGTT
1 GTGGCAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTT
29890324 TTCAATAGCA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 88 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (50 bp):
GTGGCAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAA
Found at i:29890333 original size:50 final size:50
Alignment explanation
Indices: 29890181--29890341 Score: 225
Period size: 50 Copynumber: 3.2 Consensus size: 50
29890171 GAAGTATGTG
* *
29890181 GCAGTACATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAAGTG
1 GCAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAAGTA
*
29890231 GTAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAAGTA
1 GCAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAAGTA
* * * * *
29890281 GCAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAGTGTTTTCAA-TA
1 GCAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTAT-AAGTA
*
29890331 GCAGTTTATCT
1 GCAGTATATCT
29890342 TCAAATTAGT
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 98 0.98
51 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (50 bp):
GCAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAAGTA
Found at i:29890350 original size:50 final size:50
Alignment explanation
Indices: 29890181--29890364 Score: 199
Period size: 50 Copynumber: 3.7 Consensus size: 50
29890171 GAAGTATGTG
* * * * * * *
29890181 GCAGTACATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAAGTG
1 GCAGTATATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTATAAGTA
* * * * * *
29890231 GTAGTATATCTGCATATCAGTAGTGGCTAGACCACAAAGTGTTATAAGTA
1 GCAGTATATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTATAAGTA
* *
29890281 GCAGTATATCTGCATATTAGTGGTGGCTTGTCCACAAAGTGTTTTCAA-TA
1 GCAGTATATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTAT-AAGTA
* *
29890331 GCAGTTTATCTTCAAATTAGTGGTGGCTTGTCCA
1 GCAGTATATCTGCAAATTAGTGGTGGCTTGTCCA
29890365 TAAATGGTGA
Statistics
Matches: 121, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 119 0.98
51 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (50 bp):
GCAGTATATCTGCAAATTAGTGGTGGCTTGTCCACAAAGTGTTATAAGTA
Found at i:29893703 original size:46 final size:48
Alignment explanation
Indices: 29893599--29893718 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
29893589 TGTCTTTGAC
** * *
29893599 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
29893647 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
29893693 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
29893719 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:29895545 original size:40 final size:40
Alignment explanation
Indices: 29895484--29895628 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
29895474 CGATATCTCT
* * * * *
29895484 CACACTAAGTGTCGTACATAGCCGAAGTTATGTCAAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
*
29895524 CACACTAAGTGCCATATATAGCTGAAGCTATGTCGAATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
* ** *
29895564 CACACTAAGTGCCATATAAAGTTGAAGCTATGTCGTATCG
1 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
29895604 CACACTAAGTGCCATATATAGCCGA
1 CACACTAAGTGCCATATATAGCCGA
29895629 TTGGTCATCA
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
Found at i:29905249 original size:29 final size:28
Alignment explanation
Indices: 29905215--29905353 Score: 91
Period size: 28 Copynumber: 5.1 Consensus size: 28
29905205 AGATTATACC
*
29905215 TAATAAAAAATAATAGAT-AATTATATA-A
1 TAATAAAAAAT-ATA-ATGAATAATATATA
29905243 TATATAATAAAATATAATGAATAATATATA
1 TA-ATAA-AAAATATAATGAATAATATATA
** *
29905273 TAATAAAATGTATAAATCAA-AATATATA
1 TAATAAAAAATAT-AATGAATAATATATA
**
29905301 TAATAAAATGTA-AAT-AAT-ATA-ATA
1 TAATAAAAAATATAATGAATAATATATA
*
29905325 -AATAATAAAA-ATAA-AAATAATATATA
1 TAATAA-AAAATATAATGAATAATATATA
29905351 TAA
1 TAA
29905354 GAAATTTTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 25
0.75 0.05 0.20
Matches are distributed among these distances:
23 6 0.06
24 10 0.11
25 8 0.09
26 6 0.06
27 2 0.02
28 29 0.31
29 24 0.26
30 8 0.09
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (28 bp):
TAATAAAAAATATAATGAATAATATATA
Found at i:29905251 original size:32 final size:33
Alignment explanation
Indices: 29905215--29905277 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
29905205 AGATTATACC
29905215 TAATAAAAAATAAT-AGATAAT-TATATAATATA
1 TAATAAAAAATAATGA-ATAATATATATAATATA
*
29905247 TAATAAAATATAATGAATAATATATATAATA
1 TAATAAAAAATAATGAATAATATATATAATA
29905278 AAATGTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (33 bp):
TAATAAAAAATAATGAATAATATATATAATATA
Found at i:29905277 original size:26 final size:26
Alignment explanation
Indices: 29905242--29905353 Score: 126
Period size: 26 Copynumber: 4.3 Consensus size: 26
29905232 TAATTATATA
29905242 ATATATAATAAAATAT-AATGAATAAT
1 ATATATAATAAAATATAAAT-AATAAT
29905268 ATATATAATAAAATGTATAAATCAA-AAT
1 ATATATAATAAAA--TATAAAT-AATAAT
*
29905296 ATATATAATAAAATGTAAATAAT-AT
1 ATATATAATAAAATATAAATAATAAT
*
29905321 AATAAATAATAAAA-ATAAA-AATAAT
1 -ATATATAATAAAATATAAATAATAAT
29905346 ATATATAA
1 ATATATAA
29905354 GAAATTTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
24 10 0.13
25 10 0.13
26 31 0.41
28 19 0.25
29 5 0.07
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (26 bp):
ATATATAATAAAATATAAATAATAAT
Found at i:29905286 original size:14 final size:14
Alignment explanation
Indices: 29905242--29905352 Score: 94
Period size: 14 Copynumber: 8.4 Consensus size: 14
29905232 TAATTATATA
29905242 ATATATAATAAAAT
1 ATATATAATAAAAT
29905256 ATA-ATGAAT--AAT
1 ATATAT-AATAAAAT
29905268 ATATATAATAAAAT
1 ATATATAATAAAAT
*
29905282 GTATA-AATCAAAAT
1 ATATATAAT-AAAAT
29905296 ATATATAATAAAAT
1 ATATATAATAAAAT
* * *
29905310 GTAAATAATATAAT
1 ATATATAATAAAAT
29905324 A-A-ATAATAAAA-
1 ATATATAATAAAAT
* *
29905335 ATA-AAAATAATAT
1 ATATATAATAAAAT
29905348 ATATA
1 ATATA
29905353 AGAAATTTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
11 1 0.01
12 25 0.32
13 11 0.14
14 39 0.49
15 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (14 bp):
ATATATAATAAAAT
Found at i:29905306 original size:19 final size:18
Alignment explanation
Indices: 29905284--29905327 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
29905274 AATAAAATGT
29905284 ATAAATCAAAATATATATA
1 ATAAATCAAAATA-ATATA
**
29905303 ATAAAATGTAAATAATATA
1 AT-AAATCAAAATAATATA
29905322 ATAAAT
1 ATAAAT
29905328 AATAAAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 9 0.41
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATAAATCAAAATAATATA
Found at i:29905352 original size:54 final size:54
Alignment explanation
Indices: 29905215--29905352 Score: 131
Period size: 54 Copynumber: 2.5 Consensus size: 54
29905205 AGATTATACC
* *
29905215 TAATAAAAAATAATAGATAATTATATAATATATAATAAAATATAATGAATAATATATA
1 TAAT-AAAAATAA-AAATAA-TATAT-ATATATAATAAAATATAATGAATAATATAAA
* * *
29905273 TAATAAAATGTATAAATCAA-A-ATATATATAATAAAATGTAAAT-AAT-ATAATAAA
1 TAATAAAA-ATAAAAAT-AATATATATATATAATAAAATAT-AATGAATAAT-ATAAA
29905327 TAATAAAAATAAAAATAATATATATA
1 TAATAAAAATAAAAATAATATATATA
29905353 AGAAATTTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
52 2 0.03
53 9 0.13
54 35 0.52
55 5 0.07
56 1 0.01
57 7 0.10
58 8 0.12
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.33
Consensus pattern (54 bp):
TAATAAAAATAAAAATAATATATATATATAATAAAATATAATGAATAATATAAA
Found at i:29905432 original size:16 final size:16
Alignment explanation
Indices: 29905396--29905431 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
29905386 GTAAAATAAA
*
29905396 TAAAATATATAATATT
1 TAAAATAAATAATATT
29905412 TAAAATAAATAA-ATT
1 TAAAATAAATAATATT
29905427 TAAAA
1 TAAAA
29905432 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAATAAATAATATT
Found at i:29905441 original size:25 final size:25
Alignment explanation
Indices: 29905387--29905440 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
29905377 ATGTTTATGG
* *
29905387 TAAAATAAATAAAATATATAATATT
1 TAAAATAAATAAAATATAAAAAATT
*
29905412 TAAAATAAAT-AAATTTAAAAAATT
1 TAAAATAAATAAAATATAAAAAATT
29905436 TAAAA
1 TAAAA
29905441 AGGATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAATAAATAAAATATAAAAAATT
Found at i:29906986 original size:44 final size:44
Alignment explanation
Indices: 29906953--29907710 Score: 768
Period size: 44 Copynumber: 17.2 Consensus size: 44
29906943 GGAGAAGCTG
* * *
29906953 AATCTGTCATCTTTGATCTG-TCCTTTGTCAATACAGAGACACCA
1 AATCTGTTATCTTCGATCTGCT-CTTTGTCAATACAGAGACGCCA
* * * * *
29906997 AATATGTTATCTTCGATCTGCTCTCTGTCTATATAGAGACTCCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * ** * *
29907041 AATCTATCATCTTTAATCTGCCCTCTGTCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * * * *
29907085 AATCTGTTATCTTCGATCTGTTCTTTTTCAACACAGAGATGACA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
**
29907129 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGAAA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
*
29907173 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGACA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * * * *
29907217 AATATGTTATCTTCGATCTGCTCTCTGTCAATAAAGAGATGTCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * * *
29907261 AATCTGTTATCTCCGATCTACTCTCTGCCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * * *
29907305 AATCTGCTATCTCCGATCTGCTCTCTGCCAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * * * *
29907349 AATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACACCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
** * * * *
29907393 AATCTACTATCTTCGATCTGCTCTTTGCCAATATAGAAATGCCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * * * **
29907437 AATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAAATACCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * *
29907481 AATCTGTTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * * * * *
29907525 AATCTGCTATCTTCGATCTGCTCTCTGCCAATATAGAAATGCCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * * * *
29907569 AATCTGCTATCTCCGATCTACTCTCTGACAATACAGAGACGCCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
** * * * * *
29907613 AATCTACTATCTTCGATATGCTCTCTGACAATACAGAGATGTCA
1 AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
* * *
29907657 AAT-TAGCTATCATCGATCTGCT-TTCTGTCAATACAGA-ATGCCA
1 AATCT-GTTATCTTCGATCTGCTCTT-TGTCAATACAGAGACGCCA
*
29907700 AATCTGCTATC
1 AATCTGTTATC
29907711 AGTGATCTAT
Statistics
Matches: 617, Mismatches: 93, Indels: 9
0.86 0.13 0.01
Matches are distributed among these distances:
43 16 0.03
44 600 0.97
45 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (44 bp):
AATCTGTTATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCA
Found at i:29919688 original size:7 final size:7
Alignment explanation
Indices: 29919678--29919807 Score: 54
Period size: 7 Copynumber: 19.9 Consensus size: 7
29919668 CTAATAAAAA
*
29919678 ATAATAG
1 ATAATAT
29919685 ATAATTAT
1 ATAA-TAT
29919693 ATAATAT
1 ATAATAT
29919700 ATAATA-
1 ATAATAT
29919706 A-AATAT
1 ATAATAT
29919712 AATGAATA-
1 -AT-AATAT
29919720 AT-ATAT
1 ATAATAT
29919726 ATAATA-
1 ATAATAT
*
29919732 A-AATGT
1 ATAATAT
29919738 ATAA-AT
1 ATAATAT
*
29919744 CAAAATAT
1 -ATAATAT
29919752 ATAATA-
1 ATAATAT
*
29919758 A-AATGT
1 ATAATAT
29919764 A-AATAAT
1 ATAAT-AT
*
29919771 ATAATAA
1 ATAATAT
29919778 ATAATA-
1 ATAATAT
*
29919784 AAAATA-
1 ATAATAT
*
29919790 AAAATA-
1 ATAATAT
29919796 AT-ATAT
1 ATAATAT
29919802 ATAATA
1 ATAATA
29919808 AATTTTTTAC
Statistics
Matches: 97, Mismatches: 10, Indels: 32
0.70 0.07 0.23
Matches are distributed among these distances:
5 16 0.16
6 25 0.26
7 41 0.42
8 11 0.11
9 4 0.04
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (7 bp):
ATAATAT
Found at i:29919703 original size:29 final size:28
Alignment explanation
Indices: 29919669--29919734 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 28
29919659 AGATTATACC
*
29919669 TAATAAAAAATAATAGAT-AATTATATA-A
1 TAATAAAAAAT-ATA-ATGAATAATATATA
29919697 TATATAATAAAATATAATGAATAATATATA
1 TA-ATAA-AAAATATAATGAATAATATATA
29919727 TAATAAAA
1 TAATAAAA
29919735 TGTATAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 6 0.18
29 19 0.58
30 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (28 bp):
TAATAAAAAATATAATGAATAATATATA
Found at i:29919705 original size:32 final size:33
Alignment explanation
Indices: 29919669--29919731 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
29919659 AGATTATACC
29919669 TAATAAAAAATAAT-AGATAAT-TATATAATATA
1 TAATAAAAAATAATGA-ATAATATATATAATATA
*
29919701 TAATAAAATATAATGAATAATATATATAATA
1 TAATAAAAAATAATGAATAATATATATAATA
29919732 AAATGTATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (33 bp):
TAATAAAAAATAATGAATAATATATATAATATA
Found at i:29919712 original size:12 final size:12
Alignment explanation
Indices: 29919695--29919809 Score: 97
Period size: 12 Copynumber: 9.1 Consensus size: 12
29919685 ATAATTATAT
29919695 AATATATAATAA
1 AATATATAATAA
29919707 AATATAATGAATAA
1 AATAT-AT-AATAA
*
29919721 TATATATAATAA
1 AATATATAATAA
*
29919733 AATGTATAAATCAA
1 AATATAT-AAT-AA
29919747 AATATATAATAA
1 AATATATAATAA
* *
29919759 AATGTAAATAATAT
1 AA--TATATAATAA
*
29919773 AATAAATAATAA
1 AATATATAATAA
*
29919785 AA-ATAAAAATAA
1 AATAT-ATAATAA
*
29919797 TATATATAATAA
1 AATATATAATAA
29919809 A
1 A
29919810 TTTTTTACAT
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
11 1 0.01
12 43 0.52
13 12 0.14
14 27 0.33
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (12 bp):
AATATATAATAA
Found at i:29919731 original size:26 final size:26
Alignment explanation
Indices: 29919696--29919809 Score: 130
Period size: 26 Copynumber: 4.5 Consensus size: 26
29919686 TAATTATATA
*
29919696 ATATATAATAAAATATAATGAATAAT
1 ATATATAATAAAATATAATAAATAAT
* *
29919722 ATATATAATAAAATGT-ATAAATCAAA
1 ATATATAATAAAATATAATAAAT-AAT
*
29919748 ATATATAATAAAATGTAAATAATATAAT
1 ATATATAATAAAATAT-AATAA-ATAAT
29919776 A-A-ATAATAAAA-ATAA-AAATAAT
1 ATATATAATAAAATATAATAAATAAT
29919798 ATATATAATAAA
1 ATATATAATAAA
29919810 TTTTTTACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
22 6 0.08
23 3 0.04
24 10 0.13
25 6 0.08
26 42 0.55
27 1 0.01
28 7 0.09
29 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (26 bp):
ATATATAATAAAATATAATAAATAAT
Found at i:29919740 original size:14 final size:14
Alignment explanation
Indices: 29919696--29919809 Score: 88
Period size: 14 Copynumber: 8.9 Consensus size: 14
29919686 TAATTATATA
29919696 ATATATAATAAAAT
1 ATATATAATAAAAT
29919710 ATA-ATGAAT--AAT
1 ATATAT-AATAAAAT
29919722 ATATATAATAAAAT
1 ATATATAATAAAAT
* *
29919736 GTATA-AATCAAA-
1 ATATATAATAAAAT
29919748 ATATATAATAAAAT
1 ATATATAATAAAAT
* * *
29919762 GTAAATAATATAAT
1 ATATATAATAAAAT
29919776 A-A-ATAATAAAA-
1 ATATATAATAAAAT
*
29919787 ATA-A-AA-ATAAT
1 ATATATAATAAAAT
29919798 ATATATAATAAA
1 ATATATAATAAA
29919810 TTTTTTACAT
Statistics
Matches: 78, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
10 3 0.04
11 6 0.08
12 24 0.31
13 19 0.24
14 26 0.33
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (14 bp):
ATATATAATAAAAT
Found at i:29919884 original size:16 final size:16
Alignment explanation
Indices: 29919848--29919883 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
29919838 GTAAAATAAA
*
29919848 TAAAATATATAATATT
1 TAAAATAAATAATATT
29919864 TAAAATAAATAA-ATT
1 TAAAATAAATAATATT
29919879 TAAAA
1 TAAAA
29919884 AATTTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAATAAATAATATT
Found at i:29919893 original size:25 final size:25
Alignment explanation
Indices: 29919839--29919892 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
29919829 ATGTTTATGG
* *
29919839 TAAAATAAATAAAATATATAATATT
1 TAAAATAAATAAAATATAAAAAATT
*
29919864 TAAAATAAAT-AAATTTAAAAAATT
1 TAAAATAAATAAAATATAAAAAATT
29919888 TAAAA
1 TAAAA
29919893 AGGATTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
TAAAATAAATAAAATATAAAAAATT
Found at i:29921396 original size:29 final size:29
Alignment explanation
Indices: 29921364--29921517 Score: 106
Period size: 29 Copynumber: 5.5 Consensus size: 29
29921354 TAATCGTCCT
*
29921364 TTTTCATATTCGATGGTCGAAACCATCCC
1 TTTTCATAATCGATGGTCGAAACCATCCC
*
29921393 TTTTCATTAATCAATGGT------CATCCC
1 TTTTCA-TAATCGATGGTCGAAACCATCCC
* * * *
29921417 TTTTCATAATCTATAG-CTGAAGCTATCCC
1 TTTTCATAATCGATGGTC-GAAACCATCCC
** * **
29921446 TTTTCATTTTTGATGGTCGTCACCATCCC
1 TTTTCATAATCGATGGTCGAAACCATCCC
* * **
29921475 TTTTCATATTTGATGGTCGTCACCATCCC
1 TTTTCATAATCGATGGTCGAAACCATCCC
29921504 TTTTCATAATCGAT
1 TTTTCATAATCGAT
29921518 AGCCGAAGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
23 8 0.08
24 12 0.12
29 69 0.70
30 10 0.10
ACGTcount: A:0.22, C:0.25, G:0.12, T:0.41
Consensus pattern (29 bp):
TTTTCATAATCGATGGTCGAAACCATCCC
Found at i:29934819 original size:64 final size:64
Alignment explanation
Indices: 29934653--29934825 Score: 179
Period size: 68 Copynumber: 2.6 Consensus size: 64
29934643 TGGATGATAC
* * * *
29934653 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACA
1 AGATA-TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-
29934718 AG
63 AG
* * * *
29934720 ACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTA
1 AGA-TAT-ATGTAGCTAGGTCGCATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTA
29934784 C-G
62 CAG
*
29934786 GGATATATGTAGCTAGGTCGCATGTGTAGTACTAAGTGCA
1 AGATATATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCA
29934826 GGCTACTATG
Statistics
Matches: 88, Mismatches: 13, Indels: 13
0.77 0.11 0.11
Matches are distributed among these distances:
64 29 0.33
65 4 0.05
66 2 0.02
67 4 0.05
68 48 0.55
69 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAG
Found at i:29934888 original size:28 final size:28
Alignment explanation
Indices: 29934856--29934939 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
29934846 AACTTCGATC
29934856 ACGTGTGTAGTACTAAGTGTAGGCTACT
1 ACGTGTGTAGTACTAAGTGTAGGCTACT
*
29934884 ACGTGTATCAG-A-T-AGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGTAGGCTACT
* *
29934906 ACGTGTGTAGTACTAAGAGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGTAGGCTACT
29934934 ACGTGT
1 ACGTGT
29934940 ACCGGATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.18
23 2 0.05
24 3 0.07
25 7 0.16
26 4 0.09
27 2 0.05
28 14 0.32
29 2 0.05
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGTAGGCTACT
Found at i:29936551 original size:26 final size:26
Alignment explanation
Indices: 29936515--29936604 Score: 144
Period size: 26 Copynumber: 3.5 Consensus size: 26
29936505 TAATACTAAC
*
29936515 GTTCCATGATAATAGGTTAGGTAAAT
1 GTTCCATGATAATGGGTTAGGTAAAT
29936541 GTTCCATGATAATGGGTTAGGTAAAT
1 GTTCCATGATAATGGGTTAGGTAAAT
* *
29936567 GTTTCTTGATAATGGGTTAGGTAAAT
1 GTTCCATGATAATGGGTTAGGTAAAT
*
29936593 GTTTCATGATAA
1 GTTCCATGATAA
29936605 GAATTTCGTG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (26 bp):
GTTCCATGATAATGGGTTAGGTAAAT
Found at i:29938265 original size:27 final size:27
Alignment explanation
Indices: 29938224--29938336 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
29938214 GAGGAAGCGT
*
29938224 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
29938251 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
29938278 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
29938306 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
29938332 TCTGG
1 TCTGG
29938337 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:29938329 original size:54 final size:54
Alignment explanation
Indices: 29938222--29938336 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
29938212 TGGAGGAAGC
*
29938222 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
29938276 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
29938330 GTTCTGG
1 GTTCTGG
29938337 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:29951540 original size:15 final size:16
Alignment explanation
Indices: 29951509--29951541 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
29951499 ACTATATGAA
*
29951509 ATATATGGAATTTTTT
1 ATATATGGAATTGTTT
29951525 ATATAT-GAATTGTTT
1 ATATATGGAATTGTTT
29951540 AT
1 AT
29951542 GAGACAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (16 bp):
ATATATGGAATTGTTT
Found at i:29964901 original size:38 final size:38
Alignment explanation
Indices: 29964845--29964924 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
29964835 GATGTGTATT
* * *
29964845 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
*
29964883 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
29964921 CGGG
1 CGGG
29964925 CCTTCGTGCC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATATC
Found at i:29964971 original size:43 final size:42
Alignment explanation
Indices: 29964896--29965070 Score: 246
Period size: 43 Copynumber: 4.1 Consensus size: 42
29964886 GATAAATCCC
* *
29964896 GCAGGCCTAGTGCTGGT-AT-TATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGC-GGTGATGTGTATTCGGGCCTTCGTGCCTA
29964937 GCAGGCTTAGTGCAGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGC-GGTGATGTGTATTCGGGCCTTCGTGCCTA
* *
29964980 GCAGGCTTAGTGCCGGTGATGTGTATTCGGACCTTTGTGCCTA
1 GCAGGCTTAGTG-CGGTGATGTGTATTCGGGCCTTCGTGCCTA
* * *
29965023 GCAGGCTTCGTGCCGTGATGTGTATTCGGGCCTTCATGCCTA
1 GCAGGCTTAGTGCGGTGATGTGTATTCGGGCCTTCGTGCCTA
29965065 GCAGGC
1 GCAGGC
29965071 ATAATGCTGT
Statistics
Matches: 121, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
41 15 0.12
42 34 0.28
43 71 0.59
44 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (42 bp):
GCAGGCTTAGTGCGGTGATGTGTATTCGGGCCTTCGTGCCTA
Found at i:29965063 original size:85 final size:84
Alignment explanation
Indices: 29964896--29965070 Score: 253
Period size: 85 Copynumber: 2.1 Consensus size: 84
29964886 GATAAATCCC
* * *
29964896 GCAGGCCTAGTGCTGGTATTATATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCAGGTGATGTGT
1 GCAGGCCTAGTGCCGGTATTATATTCGGACCTTCGTGCCTAGCAGGCTTAGTGCACGTGATGTGT
*
29964961 ATTCGGGCCTTCGTGCCTA
66 ATTCGGGCCTTCATGCCTA
* * * *
29964980 GCAGGCTTAGTGCCGGTGATGTGTATTCGGACCTTTGTGCCTAGCAGGCTTCGTGC-CGTGATGT
1 GCAGGCCTAGTGCCGGT-AT-TATATTCGGACCTTCGTGCCTAGCAGGCTTAGTGCACGTGATGT
29965044 GTATTCGGGCCTTCATGCCTA
64 GTATTCGGGCCTTCATGCCTA
29965065 GCAGGC
1 GCAGGC
29965071 ATAATGCTGT
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
84 15 0.19
85 35 0.43
86 31 0.38
ACGTcount: A:0.14, C:0.23, G:0.33, T:0.30
Consensus pattern (84 bp):
GCAGGCCTAGTGCCGGTATTATATTCGGACCTTCGTGCCTAGCAGGCTTAGTGCACGTGATGTGT
ATTCGGGCCTTCATGCCTA
Found at i:29968674 original size:48 final size:48
Alignment explanation
Indices: 29968532--29968809 Score: 313
Period size: 48 Copynumber: 5.9 Consensus size: 48
29968522 CACGTAGTAA
* * *
29968532 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAGATT
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
* * * * * *
29968580 GAAG-C--TG--ATAGCCCAG-CTATGGTCTTACACGATG-TCTCATAAC
1 GATGCCAATGCCATATCCCAGAC-ATGGTCTTACATG-GGATCACATATC
* *
29968623 GATGCCAATGCCATATACCAGACATGGTCTTACATGGGATCACATACC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
* * *
29968671 GATGCCAATGCCAT-TGCCCAAACATGGT-TGTACATGGTATCACATATT
1 GATGCCAATGCCATAT-CCCAGACATGGTCT-TACATGGGATCACATATC
*
29968719 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
*
29968767 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCAC
1 GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCAC
29968810 TCATAACCCT
Statistics
Matches: 193, Mismatches: 24, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
43 28 0.15
44 2 0.01
45 2 0.01
46 2 0.01
47 4 0.02
48 152 0.79
49 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATATCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:29970735 original size:24 final size:24
Alignment explanation
Indices: 29970703--29970909 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
29970693 TATCTCAAAT
*
29970703 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
29970727 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
29970751 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
29970775 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
29970799 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
29970823 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
29970847 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
29970871 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
29970895 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
29970910 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:29978471 original size:24 final size:24
Alignment explanation
Indices: 29978439--29978645 Score: 342
Period size: 24 Copynumber: 8.6 Consensus size: 24
29978429 TATCTCAAAT
*
29978439 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
29978463 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
29978487 GCACTATGTGTGCGATTCACTATG
1 GCACTATGTGTGCGATTTACTATG
29978511 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
29978535 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
29978559 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
* *
29978583 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
* *
29978607 GCACTATGTGTGCGATTTGCTATA
1 GCACTATGTGTGCGATTTACTATG
*
29978631 GCTCTATGTGTGCGA
1 GCACTATGTGTGCGA
29978646 ACATAATAAG
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 177 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:29982009 original size:46 final size:46
Alignment explanation
Indices: 29981959--29982131 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
29981949 TGGTTGAGCA
*
29981959 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
29982005 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
29982052 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
29982098 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
29982132 GGCGCGGGTT
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:29982115 original size:93 final size:93
Alignment explanation
Indices: 29981956--29982126 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
29981946 GGATGGTTGA
* * *
29981956 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
29982021 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
29982049 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATTCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
29982114 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
29982127 ACTTAGGCGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:29985667 original size:39 final size:39
Alignment explanation
Indices: 29985611--29985738 Score: 168
Period size: 39 Copynumber: 3.3 Consensus size: 39
29985601 TATATGAGAT
29985611 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * *
29985650 TGGAAAAACATCTGGACATGAGATCCACAGGCTATATGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
* * * **
29985689 TAGAAATATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
29985728 TGG-AAAATATC
1 TGGAAAAATATC
29985739 AGGGTTAAAG
Statistics
Matches: 74, Mismatches: 15, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
38 7 0.09
39 67 0.91
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (39 bp):
TGGAAAAATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:29991240 original size:40 final size:40
Alignment explanation
Indices: 29991133--29991300 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
29991123 CGGGATTTCA
* * * * *
29991133 CCGGATACAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * * * *
29991173 CCGGATTTGGTAATTTGCACCATTGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
29991213 CCGGATATAA-CAACTCGCACGAATGCCTTCGGATCTTAGC
1 CCGGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
29991253 CCGGACATAATCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
29991293 CCGGATAT
1 CCGGATAT
29991301 CATTCAAATG
Statistics
Matches: 99, Mismatches: 27, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
40 98 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:29996802 original size:39 final size:39
Alignment explanation
Indices: 29996708--29996802 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
29996698 GGAAAAATAT
*
29996708 CATGCTGGAAAAACATCCGGACATGAGATCCGCAGGCTA
1 CATGCTGGAAAAATATCCGGACATGAGATCCGCAGGCTA
* * * * * *
29996747 TATGCTAGAAATATATCTGGACTTGAGGTCCGCAGGCTA
1 CATGCTGGAAAAATATCCGGACATGAGATCCGCAGGCTA
*
29996786 CGTGCTGGAAAAATATC
1 CATGCTGGAAAAATATC
29996803 AGGGTTAAAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (39 bp):
CATGCTGGAAAAATATCCGGACATGAGATCCGCAGGCTA
Found at i:29997939 original size:26 final size:26
Alignment explanation
Indices: 29997890--29997957 Score: 82
Period size: 26 Copynumber: 2.6 Consensus size: 26
29997880 ATTTCGACCT
* * * *
29997890 ACAGCTCGTTTGAGCAGGCGCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTCC
*
29997916 ACAGCTCGTGTGAGCATACCCATTCC
1 ACAGCTCGTGTGAGCAGACCCATTCC
*
29997942 ACAGATCGTGTGAGCA
1 ACAGCTCGTGTGAGCA
29997958 ATGATGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.24
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCAGACCCATTCC
Found at i:30004988 original size:43 final size:43
Alignment explanation
Indices: 30004891--30005011 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
30004881 ATCGAGACTT
* * *
30004891 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATGGTAATGA
* *
30004934 GATTACGTGTAAGACCATGTCTGGGACATTGGCATGGTTAAT-C
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCATGG-TAATGA
* * * * *
30004977 GATTTCCTGTAAGACCCTGTCCGGGATAGTGGCAT
1 GATTACCTGTAAGACCATGTCTGGGACATTGGCAT
30005012 CGATATATGA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
43 64 0.96
44 3 0.04
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GATTACCTGTAAGACCATGTCTGGGACATTGGCATGGTAATGA
Found at i:30012744 original size:43 final size:42
Alignment explanation
Indices: 30012696--30012862 Score: 160
Period size: 43 Copynumber: 3.9 Consensus size: 42
30012686 ATCGAGACTT
30012696 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATT-A
* * *
30012739 GATTACGTGTAAGACCATGTTTGGGACATTGGCATGGTTAATT-
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T-ATTA
* * * * *
30012782 GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TA
* * * *
30012824 TGATAACAAGTAAGACCATATCTGGGATA-TGGCATTGTA
1 -GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
30012863 CGAGCTTATG
Statistics
Matches: 102, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
40 2 0.02
41 1 0.01
42 7 0.07
43 88 0.86
44 1 0.01
45 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTA
Found at i:30012850 original size:86 final size:84
Alignment explanation
Indices: 30012694--30012858 Score: 188
Period size: 86 Copynumber: 1.9 Consensus size: 84
30012684 TTATCGAGAC
* * * ** *
30012694 TTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTAAGACCATGT
1 TTGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGTATT-AGATAACAAGTAAGACCATAT
*
30012759 TTGGGACATTGGCATGGTTAA
65 CTGGGACA-TGGCATGGTTAA
* * *
30012780 TTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATATGATAACAAGTAAGACCATA
1 TTGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGTAT-TA-GATAACAAGTAAGACCATA
*
30012844 TCTGGGATATGGCAT
64 TCTGGGACATGGCAT
30012859 TGTACGAGCT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
85 9 0.14
86 57 0.86
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (84 bp):
TTGATTACATGTAAGACCATGTCTGGGACAGTGGCATCGTATTAGATAACAAGTAAGACCATATC
TGGGACATGGCATGGTTAA
Found at i:30022203 original size:33 final size:33
Alignment explanation
Indices: 30022165--30022228 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
30022155 AGTTAAGCCA
30022165 AAAGGCATAACCAACCACTTGTACAAACCATCG
1 AAAGGCATAACCAACCACTTGTACAAACCATCG
30022198 AAAGGCATAACCAACCACTTGTACAAACCAT
1 AAAGGCATAACCAACCACTTGTACAAACCAT
30022229 ACTTGTCTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.44, C:0.30, G:0.11, T:0.16
Consensus pattern (33 bp):
AAAGGCATAACCAACCACTTGTACAAACCATCG
Found at i:30028130 original size:30 final size:30
Alignment explanation
Indices: 30028073--30028130 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30028063 TTTTCGGGCT
* ***
30028073 TAGGGGCAAAATGGTTATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTCACCAAAGTC
30028103 TAGGGGCAAAATGGTCATTTCACCAAAG
1 TAGGGGCAAAATGGTCATTTCACCAAAG
30028131 ATATGGATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTCACCAAAGTC
Found at i:30043058 original size:42 final size:42
Alignment explanation
Indices: 30042979--30043117 Score: 143
Period size: 42 Copynumber: 3.3 Consensus size: 42
30042969 AATAAGATAC
* * * * * ** *
30042979 CAATGCCATGTCCCGAACGTGGTCTTACATGGGATCTCACAT
1 CAATGCCATATCCCAAACATAGTCTTACACGAAATCTCATAT
* * *
30043021 CGATGCCATATCCCAAACATAGTCTTATACGAAATCTCATTT
1 CAATGCCATATCCCAAACATAGTCTTACACGAAATCTCATAT
* * *
30043063 CAATGCCATGTTCCAAACATGGTCTTACACGAAATCTCATAT
1 CAATGCCATATCCCAAACATAGTCTTACACGAAATCTCATAT
*
30043105 CAACGCCATATCC
1 CAATGCCATATCC
30043118 TAGATATGGT
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (42 bp):
CAATGCCATATCCCAAACATAGTCTTACACGAAATCTCATAT
Found at i:30043127 original size:42 final size:42
Alignment explanation
Indices: 30042998--30043133 Score: 123
Period size: 42 Copynumber: 3.2 Consensus size: 42
30042988 GTCCCGAACG
* ** * * *
30042998 TGGTCTTACATGGGATCTCACATCGATGCCAT-ATCCCAAACA
1 TGGTCTTACACGAAATCTCATATCAACGCCATGAT-CCAAACA
* * * * *
30043040 TAGTCTTATACGAAATCTCATTTCAATGCCATGTTCCAAACA
1 TGGTCTTACACGAAATCTCATATCAACGCCATGATCCAAACA
* *
30043082 TGGTCTTACACGAAATCTCATATCAACGCCAT-ATCCTAGATA
1 TGGTCTTACACGAAATCTCATATCAACGCCATGATCC-AAACA
30043124 TGGTCTTACA
1 TGGTCTTACA
30043134 TGATAACACA
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
41 3 0.04
42 72 0.95
43 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
TGGTCTTACACGAAATCTCATATCAACGCCATGATCCAAACA
Found at i:30043561 original size:257 final size:257
Alignment explanation
Indices: 30043105--30043870 Score: 1451
Period size: 257 Copynumber: 3.0 Consensus size: 257
30043095 AATCTCATAT
30043105 CAACGCCATATCCTAGATATGGTCTTACATGATAACACATACTGATACCGATACCATATCCCAGA
1 CAACGCCATATCCTAGATATGGTCTTACATGATAACACATACTGATACCGATACCATATCCCAGA
30043170 TATGGTCTTATACGAGATCTCATCAACCCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGC
66 TATGGTCTTATACGAGATCTCATCAACCCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGC
30043235 TTTCGTCACCTCAAATCCTTGTCGGACAACATCAATAATATTCACCAATACAAATATAAAATTCA
131 TTTCGTCACCTCAAATCCTTGTCGGACAACATCAATAATATTCACCAATACAAATATAAAATTCA
30043300 TGCAACCTTAAATGTTAAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCG
196 TGCAACCTTAAATGTTAAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCG
30043362 CAACGCCATATCCTAGATATGGTCTTACATGATAACACATACTGATACCGATACCATATCCCAGA
1 CAACGCCATATCCTAGATATGGTCTTACATGATAACACATACTGATACCGATACCATATCCCAGA
30043427 TATGGTCTTATACGAGATCTCATCAACCCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGC
66 TATGGTCTTATACGAGATCTCATCAACCCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGC
*
30043492 TTTCGTCACCTCAAATCCTTGTCGGAAAACATCAATAATATTCACCAATACAAATATAAAATTCA
131 TTTCGTCACCTCAAATCCTTGTCGGACAACATCAATAATATTCACCAATACAAATATAAAATTCA
30043557 TGCAACCTTAAATGTTAAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCG
196 TGCAACCTTAAATGTTAAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCG
30043619 CAACGCCATATCCTAGATATGGTCTTACATGATAACACATACTGATACCGATACCATATCCCAGA
1 CAACGCCATATCCTAGATATGGTCTTACATGATAACACATACTGATACCGATACCATATCCCAGA
30043684 TATGGTCTTATACGAGATCTCATCAA-CCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGC
66 TATGGTCTTATACGAGATCTCATCAACCCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGC
30043748 TTTCGTCACCTCAAATCCTTGTCGGACAACATCAAT-ATATTCACC-ATACAAATCATAAAA---
131 TTTCGTCACCTCAAATCCTTGTCGGACAACATCAATAATATTCACCAATACAAAT-ATAAAATTC
30043808 ATGC-A--TTAAATGTTAAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCG
195 ATGCAACCTTAAATGTTAAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCG
30043868 CAA
1 CAA
30043871 AATACATAAT
Statistics
Matches: 506, Mismatches: 2, Indels: 10
0.98 0.00 0.02
Matches are distributed among these distances:
249 58 0.11
251 1 0.00
252 4 0.01
254 8 0.02
255 15 0.03
256 73 0.14
257 347 0.69
ACGTcount: A:0.37, C:0.25, G:0.11, T:0.28
Consensus pattern (257 bp):
CAACGCCATATCCTAGATATGGTCTTACATGATAACACATACTGATACCGATACCATATCCCAGA
TATGGTCTTATACGAGATCTCATCAACCCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGC
TTTCGTCACCTCAAATCCTTGTCGGACAACATCAATAATATTCACCAATACAAATATAAAATTCA
TGCAACCTTAAATGTTAAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCG
Found at i:30043902 original size:45 final size:46
Alignment explanation
Indices: 30043822--30043915 Score: 163
Period size: 45 Copynumber: 2.0 Consensus size: 46
30043812 ATTAAATGTT
30043822 AAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCGCA
1 AAATACATAATAAAA--TTGTATCAACTACACACAAACTTACTTCGCA
30043870 AAATACATAATAAAA-TGTATCAACTACACACAAACTTACTTCGCA
1 AAATACATAATAAAATTGTATCAACTACACACAAACTTACTTCGCA
30043915 A
1 A
30043916 CGCCATATAC
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
45 31 0.67
48 15 0.33
ACGTcount: A:0.48, C:0.21, G:0.05, T:0.26
Consensus pattern (46 bp):
AAATACATAATAAAATTGTATCAACTACACACAAACTTACTTCGCA
Found at i:30044152 original size:294 final size:291
Alignment explanation
Indices: 30043573--30044161 Score: 983
Period size: 294 Copynumber: 2.0 Consensus size: 291
30043563 CTTAAATGTT
*
30043573 AAATACATAATAAAATGTTGTATCAACTACACACAAACTTACTTCGCAACGCCATATCCTAGATA
1 AAATACATAATAAAA--TTGTATCAACTACACACAAACTTACTTCGCAACGCCATATACTAGATA
*
30043638 TGGTCTTACATGATAACACATACTGATACCGATACCATATCCCAGATATGGTCTTATACGAGATC
64 TGG---TACATGAT-ACACACACTGATACCGATACCATATCCCAGATATGGTCTTATACGAGATC
30043703 TCATCAACCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGCTTTCGTCACCTCAAATCCTT
125 TCATCAACCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGCTTTCGTCACCTCAAATCCTT
30043768 GTCGGACAACATCAATATATTCACCATACAAATCATAAAAATGCATTAAATGTTAAATACATAAT
190 GTCGGACAACATCAATATATTCACCATACAAATCATAAAAATGCATTAAATGTTAAATACATAAT
30043833 AAAATGTTGTATCAACTACACACAAACTTACTTCGCA
255 AAAATGTTGTATCAACTACACACAAACTTACTTCGCA
30043870 AAATACATAATAAAA-TGTATCAACTACACACAAACTTACTTCGCAACGCCATATACTAGATAT-
1 AAATACATAATAAAATTGTATCAACTACACACAAACTTACTTCGCAACGCCATATACTAGATATG
30043933 G-ACATGAT-CACACACTGATACCGATACCATAT-CCAGATATGGTCTTATACGAGATCTCATCA
66 GTACATGATACACACACTGATACCGATACCATATCCCAGATATGGTCTTATACGAGATCTCATCA
30043995 ACCCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGCTTTCGTCACCTCAAATCCTTGTCGG
131 A-CCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGCTTTCGTCACCTCAAATCCTTGTCGG
30044060 ACAACATCAATAATATTCACCAATACAAAT-ATAAAATTCATGCAACCTTAAATGTTAAATACAT
195 ACAACATCAAT-ATATTCACC-ATACAAATCATAAAA---ATGC-A--TTAAATGTTAAATACAT
30044124 AATAAAATGTTGTATCAACTACACACAAACTTACTTCG
252 AATAAAATGTTGTATCAACTACACACAAACTTACTTCG
30044162 GTACAAAATA
Statistics
Matches: 281, Mismatches: 2, Indels: 21
0.92 0.01 0.07
Matches are distributed among these distances:
286 31 0.11
287 97 0.35
288 15 0.05
289 15 0.05
291 4 0.01
292 1 0.00
293 1 0.00
294 102 0.36
297 15 0.05
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.28
Consensus pattern (291 bp):
AAATACATAATAAAATTGTATCAACTACACACAAACTTACTTCGCAACGCCATATACTAGATATG
GTACATGATACACACACTGATACCGATACCATATCCCAGATATGGTCTTATACGAGATCTCATCA
ACCAAATGTCACCCTAAGTATTCCTAAGGTTCAACCGGCTTTCGTCACCTCAAATCCTTGTCGGA
CAACATCAATATATTCACCATACAAATCATAAAAATGCATTAAATGTTAAATACATAATAAAATG
TTGTATCAACTACACACAAACTTACTTCGCA
Found at i:30053705 original size:64 final size:64
Alignment explanation
Indices: 30053624--30053806 Score: 210
Period size: 67 Copynumber: 2.8 Consensus size: 64
30053614 AGACATTATG
* * *
30053624 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
30053688 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30053753 AA
63 AA
* * *
30053755 AT-TGGCTAGGTCACATGGGTGGTACTA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
30053807 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 24 0.24
66 22 0.22
67 32 0.32
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30055760 original size:343 final size:342
Alignment explanation
Indices: 30055106--30055792 Score: 1299
Period size: 342 Copynumber: 2.0 Consensus size: 342
30055096 TATGAGAGAC
30055106 ACATGTATGATGACATAAAATGCTATGTTTGTGGTTTAATTGAGAATATTTAATCATTAAATGAA
1 ACATGTATGATGACATAAAATGC-ATGTTTGTGGTTTAATTGAGAATATTTAATCATTAAATGAA
30055171 TACCATGTTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTTGGA
65 TACCATGTTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTTGGA
30055236 AAATAGCCTAGGTATATTCCACACAGGCAGAGACACGACCATGTGTCTCAGCCGTGTATGGAACA
130 AAATAGCCTAGGTATATTCCACACAGGCAGAGACACGACCATGTGTCTCAGCCGTGTATGGAACA
30055301 CGACTTTGGGACACGGGTGTGGAGCCTTAAAGCATGAAATTTCCAAGATTTTGTAAGTTCTCGGT
195 CGACTTTGGGACACGGGTGTGGAGCCTTAAAGCATGAAATTTCCAAGATTTTGTAAGTTCTCGGT
30055366 TTAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTTCGTAGACTCAAATAAGGGACTATGTGTA
260 TTAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTTCGTAGACTCAAATAAGGGACTATGTGTA
30055431 AGTGAATGAACGTTTTGA
325 AGTGAATGAACGTTTTGA
30055449 ACATGTATGATGACATACAAATG-ATGTTTGTGGTTTAATTGAGAATATTTAAT-ATTAAATGAA
1 ACATGTATGATGACATA-AAATGCATGTTTGTGGTTTAATTGAGAATATTTAATCATTAAATGAA
30055512 TACCATGTTATATGCTTTTGATTTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTTGG
65 TACCATGTTATATGCTTTTGA-TTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTTGG
30055577 AAAATAGCCTAGGTATATTCCACACAGGCAGAGACACGACCATGTGTCTCAGCCGTGTATGGAAC
129 AAAATAGCCTAGGTATATTCCACACAGGCAGAGACACGACCATGTGTCTCAGCCGTGTATGGAAC
*
30055642 ATGACTTTGGGACACGGCGTGTGGAGCCTTAAAGCATGAAATTT-CAAGATTTTTGTAAGTTCTC
194 ACGACTTTGGGACACGG-GTGTGGAGCCTTAAAGCATGAAATTTCCAAGA-TTTTGTAAGTTCTC
30055706 GGTTTAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTTCGTAGACTCAAATAAGGGACTATGT
257 GGTTTAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTTCGTAGACTCAAATAAGGGACTATGT
30055771 GTAAGTGAATGAACGTTTTGA
322 GTAAGTGAATGAACGTTTTGA
30055792 A
1 A
30055793 ATATGAATGA
Statistics
Matches: 339, Mismatches: 1, Indels: 8
0.97 0.00 0.02
Matches are distributed among these distances:
341 31 0.09
342 159 0.47
343 144 0.42
344 5 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (342 bp):
ACATGTATGATGACATAAAATGCATGTTTGTGGTTTAATTGAGAATATTTAATCATTAAATGAAT
ACCATGTTATATGCTTTTGATTTTGTATAAGTGTGTAAGAGATTAAGGTTGACCAAAGCTTGGAA
AATAGCCTAGGTATATTCCACACAGGCAGAGACACGACCATGTGTCTCAGCCGTGTATGGAACAC
GACTTTGGGACACGGGTGTGGAGCCTTAAAGCATGAAATTTCCAAGATTTTGTAAGTTCTCGGTT
TAGTCCCGAACCCTTTCTAAAGTATGTTTTGGGCTTCGTAGACTCAAATAAGGGACTATGTGTAA
GTGAATGAACGTTTTGA
Found at i:30058415 original size:68 final size:66
Alignment explanation
Indices: 30058343--30058514 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
30058333 CATCATGTGT
* * * *
30058343 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
30058406 TGTAG
62 TGTAG
** * *
30058411 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
30058476 AG
65 AG
* * * *
30058478 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
30058515 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:30058448 original size:64 final size:64
Alignment explanation
Indices: 30058367--30058550 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
30058357 AGACATTATG
* * *
30058367 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
30058431 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
30058496 AA
63 AA
* * *
30058498 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
30058551 CGAACTATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 11
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30073532 original size:23 final size:22
Alignment explanation
Indices: 30073460--30073549 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 22
30073450 TACCGATATA
*
30073460 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCGT-AGAGCTTACTATT
*
30073483 CTTAGCTCGTATGAGCTTACTGA-T
1 -TCAGCTCGTA-GAGCTTACT-ATT
*
30073507 TCAACTCGTCAGAGCTTACTATT
1 TCAGCTCGT-AGAGCTTACTATT
*
30073530 TCAGCTCAATAGAGCTTACT
1 TCAGCTC-GTAGAGCTTACT
30073550 GTCCATCAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
22 1 0.02
23 34 0.62
24 20 0.36
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.34
Consensus pattern (22 bp):
TCAGCTCGTAGAGCTTACTATT
Done.