Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 297 of 335
Found at i:88644533 original size:2 final size:2
Alignment explanation
Indices: 88644521--88644556 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
88644511 CATAGATAAG
88644521 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
88644557 TCAAAGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:88644862 original size:15 final size:15
Alignment explanation
Indices: 88644842--88644871 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
88644832 TTTTAAGGGT
88644842 AGGGTCACTGCCCAC
1 AGGGTCACTGCCCAC
88644857 AGGGTCACTGCCCAC
1 AGGGTCACTGCCCAC
88644872 CCTTTATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (15 bp):
AGGGTCACTGCCCAC
Found at i:88645480 original size:19 final size:20
Alignment explanation
Indices: 88645451--88645491 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
88645441 ATACGTTAGC
88645451 AAATAATTTTAAAATTATAA
1 AAATAATTTTAAAATTATAA
*
88645471 AAAT-ATTTTAAAATTTTAA
1 AAATAATTTTAAAATTATAA
88645490 AA
1 AA
88645492 TTCAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AAATAATTTTAAAATTATAA
Found at i:88645485 original size:27 final size:27
Alignment explanation
Indices: 88645455--88645514 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
88645445 GTTAGCAAAT
* *
88645455 AATTTTAAAATT-ATAAAAATATTTTAA
1 AATTTTAAAATTCA-AAAAAAATTATAA
88645482 AATTTTAAAATTCAAAAAAAATTATAA
1 AATTTTAAAATTCAAAAAAAATTATAA
88645509 AATTTT
1 AATTTT
88645515 CCAAGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
AATTTTAAAATTCAAAAAAAATTATAA
Found at i:88650125 original size:39 final size:41
Alignment explanation
Indices: 88650082--88650168 Score: 106
Period size: 39 Copynumber: 2.2 Consensus size: 41
88650072 TCAAATACAT
88650082 TTAAAAAAAATATTAAAACAAGAAACAAA-T-AAAAATATA
1 TTAAAAAAAATATTAAAACAAGAAACAAATTGAAAAATATA
* * * * *
88650121 TTAAAACAATTCTTAAAACAATACACAAATTGAAAAATATA
1 TTAAAAAAAATATTAAAACAAGAAACAAATTGAAAAATATA
*
88650162 ATAAAAA
1 TTAAAAA
88650169 TTGATTATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 24 0.62
40 1 0.03
41 14 0.36
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.23
Consensus pattern (41 bp):
TTAAAAAAAATATTAAAACAAGAAACAAATTGAAAAATATA
Found at i:88654431 original size:22 final size:22
Alignment explanation
Indices: 88654406--88654450 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
88654396 TCCAACATCA
88654406 CTGCAATACTTGTTAGTATTGT
1 CTGCAATACTTGTTAGTATTGT
88654428 CTGCAATACTTGTTAGTATTGT
1 CTGCAATACTTGTTAGTATTGT
88654450 C
1 C
88654451 CAGAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (22 bp):
CTGCAATACTTGTTAGTATTGT
Found at i:88654992 original size:26 final size:28
Alignment explanation
Indices: 88654957--88655009 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 28
88654947 GGTAATTTTC
88654957 TTTCATTTGCTTCATTCATGAC-ATGCT
1 TTTCATTTGCTTCATTCATGACTATGCT
88654984 TTTC-TTTGCTTCATTCATGACTATGC
1 TTTCATTTGCTTCATTCATGACTATGC
88655010 AATGATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTCATTTGCTTCATTCATGACTATGCT
Found at i:88656531 original size:32 final size:32
Alignment explanation
Indices: 88656490--88656554 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
88656480 TATGCAATGA
* *
88656490 TTGTTTCTGATTATTTGCTACTGTTATAGCTT
1 TTGTTTCTGATTATCTGCTACTCTTATAGCTT
88656522 TTGTTTCTGATTATCTGCTACTCTTATAGCTT
1 TTGTTTCTGATTATCTGCTACTCTTATAGCTT
88656554 T
1 T
88656555 GTAAGATAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.15, C:0.15, G:0.14, T:0.55
Consensus pattern (32 bp):
TTGTTTCTGATTATCTGCTACTCTTATAGCTT
Found at i:88657281 original size:26 final size:28
Alignment explanation
Indices: 88657246--88657298 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 28
88657236 GGTAATTTTC
88657246 TTTCATTTGCTTCATTCATGAC-ATGCT
1 TTTCATTTGCTTCATTCATGACTATGCT
88657273 TTTC-TTTGCTTCATTCATGACTATGC
1 TTTCATTTGCTTCATTCATGACTATGC
88657299 AATGATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTCATTTGCTTCATTCATGACTATGCT
Found at i:88671108 original size:21 final size:21
Alignment explanation
Indices: 88671082--88671170 Score: 88
Period size: 21 Copynumber: 4.1 Consensus size: 21
88671072 CTTACTGATC
88671082 AGGCACCTCGTGTGTAGTTTT
1 AGGCACCTCGTGTGTAGTTTT
* ** *
88671103 AGGCACTTTATGTGTCGTATTT
1 AGGCACCTCGTGTGTAGT-TTT
* * * *
88671125 CAGGCACCTCGTATGTCGTATC
1 -AGGCACCTCGTGTGTAGTTTT
88671147 AGGCACCTCGTGTGTAGTTTT
1 AGGCACCTCGTGTGTAGTTTT
88671168 AGG
1 AGG
88671171 TACTTTAGGT
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
21 34 0.65
22 4 0.08
23 14 0.27
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (21 bp):
AGGCACCTCGTGTGTAGTTTT
Found at i:88671141 original size:23 final size:23
Alignment explanation
Indices: 88671080--88671161 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 23
88671070 GCCTTACTGA
*
88671080 TCAGGCACCTCGTGTGTAGT-TT
1 TCAGGCACCTCGTGTGTCGTATT
* **
88671102 T-AGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCGTGTGTCGTATT
*
88671124 TCAGGCACCTCGTATGTCGTA--
1 TCAGGCACCTCGTGTGTCGTATT
88671145 TCAGGCACCTCGTGTGT
1 TCAGGCACCTCGTGTGT
88671162 AGTTTTAGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 30 0.61
22 4 0.08
23 15 0.31
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (23 bp):
TCAGGCACCTCGTGTGTCGTATT
Found at i:88674953 original size:21 final size:21
Alignment explanation
Indices: 88674919--88674959 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
88674909 AAACAAGCGA
* * *
88674919 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
88674940 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
88674960 TTGAGCAGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:88678556 original size:7 final size:7
Alignment explanation
Indices: 88678544--88678578 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
88678534 TGAATTAACC
88678544 AATATAT
1 AATATAT
88678551 AATATAT
1 AATATAT
88678558 AATATAT
1 AATATAT
88678565 AATATAT
1 AATATAT
88678572 AATATAT
1 AATATAT
88678579 GTAGTGTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AATATAT
Found at i:88687879 original size:41 final size:42
Alignment explanation
Indices: 88687825--88687908 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 42
88687815 TTTTCCTTTA
*
88687825 AATC-GGTTTTTTTTGTTTTTTTATTCATTTCAATTGATTTT
1 AATCGGGTTTTTTTTGTTTTTCTATTCATTTCAATTGATTTT
88687866 AATCGGGTTTTTTTTTTTGTTTTTCTATTCATTTCAATTGATT
1 AATCGGG---TTTTTTTTGTTTTTCTATTCATTTCAATTGATT
88687909 CTTTATATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
41 4 0.11
42 2 0.05
45 32 0.84
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.64
Consensus pattern (42 bp):
AATCGGGTTTTTTTTGTTTTTCTATTCATTTCAATTGATTTT
Found at i:88689117 original size:126 final size:126
Alignment explanation
Indices: 88688815--88689241 Score: 487
Period size: 126 Copynumber: 3.4 Consensus size: 126
88688805 ATGCTCCGTG
* * *
88688815 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGACTTTTTTTCATTCAATTGAAAT
1 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGA--TTTTTTCATTCGACTAAAAT
** * * ** * * * *
88688880 ATGGAATATCCTTGTGAAATTTTGTCAATGTTTTCTTAAATTAAATCGATGTAATATTTTGTA
64 ACAGAATATCCTTTTAAAATTTCATCCATGTTTTCTTAAATTAAAACGAGGCAATATTTTGTA
* * * *
88688943 TTTGTGGAGTTTGAGAGATCGTGTCCAATCGTGCTGGGTTT-AAATTTTTCATTCGACTAAAAAT
1 TTTG-GAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCGACT-AAAAT
* * * ** *
88689007 ACAAAATATCCTTTTAAAATTTCATCCATATCTTCTTAAACCAAAACGAGGCAATATTTTGTG
64 ACAGAATATCCTTTTAAAATTTCATCCATGTTTTCTTAAATTAAAACGAGGCAATATTTTGTA
* * *
88689070 TTTGGAATTTTGAGAGATTGAGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCGACTAAAATAC
1 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCGACTAAAATAC
* * * * * *
88689135 AGAATATCCTTTTTAAATTTCATCCATGTTTTCTTAATTTAAAATGGGGCAATATTTCGAA
66 AGAATATCCTTTTAAAATTTCATCCATGTTTTCTTAAATTAAAACGAGGCAATATTTTGTA
* * * *
88689196 TTTGGAAATTTGATAAATCGTGCCCAATCGCGCTGGGTTTCGATTT
1 TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTT
88689242 ATCGTTTGGC
Statistics
Matches: 248, Mismatches: 48, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
126 139 0.56
127 70 0.28
128 5 0.02
129 34 0.14
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (126 bp):
TTTGGAAGTTTGAGAGATCGTGCCCAATCGTGCTGGGTTTCGATTTTTTCATTCGACTAAAATAC
AGAATATCCTTTTAAAATTTCATCCATGTTTTCTTAAATTAAAACGAGGCAATATTTTGTA
Found at i:88695906 original size:46 final size:44
Alignment explanation
Indices: 88695802--88695909 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
88695792 TGTCTTTGAC
** * * *
88695802 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
88695846 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
88695892 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
88695910 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:88703288 original size:46 final size:44
Alignment explanation
Indices: 88703184--88703291 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
88703174 TGTCTTTGAC
** * * *
88703184 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
88703228 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
88703274 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
88703292 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:88704427 original size:2 final size:2
Alignment explanation
Indices: 88704420--88704455 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
88704410 CCTCAAAATA
88704420 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88704456 TTTTTTTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:88706637 original size:26 final size:28
Alignment explanation
Indices: 88706602--88706654 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
88706592 GGTAATTTTC
*
88706602 TTTCATTTGCTTCCTTCATGAC-ATGCT
1 TTTCATTTGCTTCATTCATGACTATGCT
88706629 TTTC-TTTGCTTCATTCATGACTATGC
1 TTTCATTTGCTTCATTCATGACTATGC
88706655 AATGATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.15, C:0.25, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTCATTTGCTTCATTCATGACTATGCT
Found at i:88734811 original size:105 final size:105
Alignment explanation
Indices: 88734614--88734830 Score: 274
Period size: 105 Copynumber: 2.1 Consensus size: 105
88734604 TCACTTAATA
* * *
88734614 TTGTCACATATAATATATTGATCGATGCACTTTGCAAGGAAGGAATGATTTCTAAAGCTATAGAG
1 TTGTTACATATAATATATTGATCGATGCACATTGCAAGGAAGGAATGATCTCTAAAGCTATAGAG
88734679 ATCGTTGACACAATGAGAAAGAAAGGCATTGAGCCCAATG
66 ATCGTTGACACAATGAGAAAGAAAGGCATTGAGCCCAATG
* * * * * * *
88734719 TTGTTACATATAGTATATTGGTTGATGCACATTGCAAGGAAGGGATGGTCTCTGAAGCTGA-GGA
1 TTGTTACATATAATATATTGATCGATGCACATTGCAAGGAAGGAATGATCTCTAAAGCT-ATAGA
* * * ** *
88734783 TATCGTTGACGCAATGATAAAGCGAGGCATTGAGCCTAATG
65 GATCGTTGACACAATGAGAAAGAAAGGCATTGAGCCCAATG
88734824 TTGTTAC
1 TTGTTAC
88734831 CCATAATGCA
Statistics
Matches: 95, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
105 94 0.99
106 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.29
Consensus pattern (105 bp):
TTGTTACATATAATATATTGATCGATGCACATTGCAAGGAAGGAATGATCTCTAAAGCTATAGAG
ATCGTTGACACAATGAGAAAGAAAGGCATTGAGCCCAATG
Found at i:88737545 original size:46 final size:46
Alignment explanation
Indices: 88737285--88737549 Score: 368
Period size: 46 Copynumber: 5.7 Consensus size: 46
88737275 TTCCATAGTG
** * * *
88737285 TCTTTCAATTATGGTCTTACTCATTTCCTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
* *** *
88737331 TCTTTCAACCATGGTCTTATTCATTTCCCCGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTT-CATATCAGGTTGCCATGGTA
* * * *
88737378 TCTTTCAACCATGGTTTTATTCATTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
88737424 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
88737470 TCTTTCAACCATAGTCTTACTCATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
*
88737516 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACTCATTTCATATCAG
88737550 AGAGCACACT
Statistics
Matches: 201, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 158 0.79
47 43 0.21
ACGTcount: A:0.21, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATGGTA
Found at i:88739402 original size:8 final size:8
Alignment explanation
Indices: 88739366--88739412 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
88739356 TATATTATTA
88739366 AAAT-ATT
1 AAATAATT
*
88739373 AAATAAAT
1 AAATAATT
88739381 -AATAATT
1 AAATAATT
**
88739388 ATCTAATT
1 AAATAATT
88739396 AAATAATT
1 AAATAATT
88739404 AAATAATT
1 AAATAATT
88739412 A
1 A
88739413 TAAAATATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
7 10 0.31
8 22 0.69
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (8 bp):
AAATAATT
Found at i:88739687 original size:30 final size:31
Alignment explanation
Indices: 88739619--88739687 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
88739609 TACCCTTAAA
* *
88739619 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCTTCAACATTTTC
* *
88739650 ATTTTTACACT-TTAATCCTTCAA-ATTTTG
1 ATATTTACACTATTAATCCTTCAACATTTTC
88739679 AGTATTTAC
1 A-TATTTAC
88739688 TATTGGGCCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.16
30 17 0.53
31 10 0.31
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCTTCAACATTTTC
Found at i:88745676 original size:22 final size:22
Alignment explanation
Indices: 88745633--88745683 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
88745623 TTATCCAAAC
88745633 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* * * *
88745655 TATAATAATAAAATGGTGGCAA
1 AATAACAATAAAATAGTAGCAA
88745677 AATAACA
1 AATAACA
88745684 TTTTTTTTGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.22
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:88747094 original size:23 final size:25
Alignment explanation
Indices: 88747067--88747120 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
88747057 TAAGGTTGCC
88747067 AATATTTTTTA-AAATTTTTAAAT-
1 AATATTTTTTATAAATTTTTAAATA
* * *
88747090 AATA-TGTTTATATATTTTTAATTA
1 AATATTTTTTATAAATTTTTAAATA
88747114 AATATTT
1 AATATTT
88747121 AATAATTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
22 5 0.21
23 14 0.58
24 4 0.17
25 1 0.04
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
AATATTTTTTATAAATTTTTAAATA
Found at i:88747121 original size:22 final size:23
Alignment explanation
Indices: 88747074--88747130 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
88747064 GCCAATATTT
*
88747074 TTTAA-AATTTTTAAATAATATG
1 TTTAATAATTTTTAAATAATATA
*
88747096 TTT-ATATATTTTTAATTAA-ATA
1 TTTAATA-ATTTTTAAATAATATA
88747118 TTTAATAATTTTT
1 TTTAATAATTTTT
88747131 TATATTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 1 0.03
22 15 0.50
23 14 0.47
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAATAATTTTTAAATAATATA
Found at i:88747145 original size:34 final size:35
Alignment explanation
Indices: 88747078--88747153 Score: 95
Period size: 33 Copynumber: 2.2 Consensus size: 35
88747068 ATATTTTTTA
*
88747078 AAATTTTTAAATAATATGTTTATATATTTTTAATT
1 AAATATTTAAATAATATGTTTATATATTTTTAATT
* *
88747113 AAATATTT-AATAAT-TTTTTATATTTTTATTAATT
1 AAATATTTAAATAATATGTTTATATATTT-TTAATT
88747147 AAA-ATTT
1 AAATATTT
88747154 TATATATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 15 0.41
34 15 0.41
35 7 0.19
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (35 bp):
AAATATTTAAATAATATGTTTATATATTTTTAATT
Found at i:88747280 original size:18 final size:18
Alignment explanation
Indices: 88747245--88747280 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88747235 GCTATAAGGT
*
88747245 ACATAATATATAAGATTA
1 ACATAATATAAAAGATTA
*
88747263 ACATAATATAAAATATTA
1 ACATAATATAAAAGATTA
88747281 TGAACATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (18 bp):
ACATAATATAAAAGATTA
Found at i:88750028 original size:2 final size:2
Alignment explanation
Indices: 88750021--88750046 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
88750011 TGGGTGTATG
88750021 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
88750047 AGTAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:88751476 original size:29 final size:30
Alignment explanation
Indices: 88751410--88751469 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
88751400 CTTAACAACC
*
88751410 CAATGAATTAAATAAAAACTTTTGAATAGTT
1 CAATGACTTAAATAAAAAC-TTTGAATAGTT
*
88751441 CAATGACTTAAATGAAAAC-TTGAATAGTT
1 CAATGACTTAAATAAAAACTTTGAATAGTT
88751470 TAGTGACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 10 0.37
31 17 0.63
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (30 bp):
CAATGACTTAAATAAAAACTTTGAATAGTT
Found at i:88753057 original size:18 final size:18
Alignment explanation
Indices: 88753034--88753069 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
88753024 ATTTATGGTG
88753034 CAATAAATTAATAGAAGA
1 CAATAAATTAATAGAAGA
88753052 CAATAAATTAATAGAAGA
1 CAATAAATTAATAGAAGA
88753070 TAATTGCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (18 bp):
CAATAAATTAATAGAAGA
Found at i:88758742 original size:22 final size:24
Alignment explanation
Indices: 88758717--88758764 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
88758707 GGTCAGAGTG
*
88758717 TTTACTGTAT-TAAA-TTATATTT
1 TTTACTGTATATAAATTTAAATTT
*
88758739 TTTAGTGTATATAAATTTAAATTT
1 TTTACTGTATATAAATTTAAATTT
88758763 TT
1 TT
88758765 GTGGCATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 4 0.18
24 9 0.41
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
TTTACTGTATATAAATTTAAATTT
Found at i:88772878 original size:3 final size:3
Alignment explanation
Indices: 88772872--88772929 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
88772862 AATATAAGCT
88772872 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
88772920 TTA TTA TTA T
1 TTA TTA TTA T
88772930 AGAAATTTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:88773520 original size:2 final size:2
Alignment explanation
Indices: 88773513--88773544 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
88773503 TCCCACATTA
*
88773513 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
88773545 GATTTCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:88773904 original size:19 final size:19
Alignment explanation
Indices: 88773880--88773920 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
88773870 AAAACATTGA
*
88773880 TTTTAATAT-TTTTAGTATT
1 TTTTAATATATTATA-TATT
88773899 TTTTAATATATTATATATT
1 TTTTAATATATTATATATT
88773918 TTT
1 TTT
88773921 AAAAATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTAATATATTATATATT
Found at i:88775461 original size:210 final size:210
Alignment explanation
Indices: 88775159--88775580 Score: 583
Period size: 210 Copynumber: 2.0 Consensus size: 210
88775149 TGTTGTCAGG
* * * ** * * *
88775159 TATAATACACTGGTTGATGCGCTTTGCAAGGAAGGAATGGTCTCTGAAGCTGAGGGTTTTGTTTA
1 TATAATACACTGGTTGATGCACATTGCAAGCAAGGAATGGTCTCTGAAGCCAAGGATATTGTTGA
* * *
88775224 CGCAATGATAAAGCGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCATT
66 CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
*
88775289 GCTTGCAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
131 GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
*
88775354 CCTGATATAGTTACT
196 CCTAATATAGTTACT
* * * *
88775369 TATAATATATTGGTTGATGCACATTGCAAGCAAGGGATGGTCTTTGAAGCCAAGGATATTGTTGA
1 TATAATACACTGGTTGATGCACATTGCAAGCAAGGAATGGTCTCTGAAGCCAAGGATATTGTTGA
* * * ** * * * *
88775434 CTCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCTATAGTGTGTTAGTTAATGGTCACT
66 CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
* * *
88775499 GCTTACAGAATGAAATGGATAAAGCTAGAAGGGTTTTCAGCTTGATGATTGAGAAGGGTTGTGCA
131 GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
88775564 CCTAATATAGTTACT
196 CCTAATATAGTTACT
88775579 TA
1 TA
88775581 CAACACCATG
Statistics
Matches: 183, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
210 183 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (210 bp):
TATAATACACTGGTTGATGCACATTGCAAGCAAGGAATGGTCTCTGAAGCCAAGGATATTGTTGA
CGCAATGAGAAAGAGAGGCATTGAGCCTAATGTTGTTACCCATAATGCATTAATCAACGGCCACT
GCTTACAGAACGAAATGGATAAAGCTAGAAGAGTTTTCAACTTGATGATTGAGAAGGGTTGTGCA
CCTAATATAGTTACT
Found at i:88775698 original size:26 final size:26
Alignment explanation
Indices: 88775662--88775715 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
88775652 CTCAAAAGGG
88775662 ACCAATCCCGGATACTGTCACATACA
1 ACCAATCCCGGATACTGTCACATACA
88775688 ACCAATCCCGGATACTGTCACATACA
1 ACCAATCCCGGATACTGTCACATACA
88775714 AC
1 AC
88775716 ACTCTTGTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.35, G:0.11, T:0.19
Consensus pattern (26 bp):
ACCAATCCCGGATACTGTCACATACA
Found at i:88779093 original size:20 final size:19
Alignment explanation
Indices: 88779070--88779112 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
88779060 TATTGCGATT
88779070 TTTAAAAGAATATTCCGTTA
1 TTTAAAAGAA-ATTCCGTTA
* **
88779090 TTTAGATTAAATTCCGTTA
1 TTTAAAAGAAATTCCGTTA
88779109 TTTA
1 TTTA
88779113 GATTAAATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (19 bp):
TTTAAAAGAAATTCCGTTA
Found at i:88779105 original size:19 final size:19
Alignment explanation
Indices: 88779081--88779120 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
88779071 TTAAAAGAAT
88779081 ATTCCGTTATTTAGATTAA
1 ATTCCGTTATTTAGATTAA
88779100 ATTCCGTTATTTAGATTAA
1 ATTCCGTTATTTAGATTAA
88779119 AT
1 AT
88779121 GAGAAAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (19 bp):
ATTCCGTTATTTAGATTAA
Found at i:88779524 original size:3 final size:3
Alignment explanation
Indices: 88779510--88779619 Score: 72
Period size: 3 Copynumber: 39.0 Consensus size: 3
88779500 GTTAATAAGG
* * * * * *
88779510 ATA ATA AAA ATA AT- ATG CTA ATA AT- ATA ATA GTG ATG ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
88779556 ATA GTA ATA AAA ATA AAA ATA AT- ATA GTA A-A A-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
88779601 GTA ATA A-A A-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
88779620 GTGATATTAG
Statistics
Matches: 83, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
2 14 0.17
3 69 0.83
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:88779748 original size:2 final size:2
Alignment explanation
Indices: 88779732--88779791 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
88779722 GTAGATAATA
*
88779732 AT AT AT AC AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
88779773 AT AT AT A- AA AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
88779792 ATGATAACGA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
1 3 0.06
2 49 0.94
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:88779993 original size:21 final size:20
Alignment explanation
Indices: 88779964--88780010 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
88779954 AATATATTAG
*
88779964 ATAAAAATAATAAAGTAATAA
1 ATAATAATAATAAAGT-ATAA
* *
88779985 GTAATAATAATAAGGTATAA
1 ATAATAATAATAAAGTATAA
88780005 ATAATA
1 ATAATA
88780011 GAAGTAATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (20 bp):
ATAATAATAATAAAGTATAA
Found at i:88780136 original size:21 final size:21
Alignment explanation
Indices: 88780094--88780145 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
88780084 TAGTAAGAAA
*
88780094 AAGTAATAATAATAATAATAG
1 AAGTAATAATAATAACAATAG
* * *
88780115 AAGTGATAATAATGACATTAG
1 AAGTAATAATAATAACAATAG
88780136 AA-TAA-AATAA
1 AAGTAATAATAA
88780146 ATACATGTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 5 0.19
20 2 0.08
21 19 0.73
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.27
Consensus pattern (21 bp):
AAGTAATAATAATAACAATAG
Found at i:88781602 original size:41 final size:41
Alignment explanation
Indices: 88781525--88781602 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
88781515 ATTCGCTCCA
* * * *
88781525 CTGCTCCACTGTAACTTTAGTGAGATAAGGTTTGTTTTGAT
1 CTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTTTGAT
*
88781566 CTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTTT
1 CTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTT
88781603 ATTCATAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.38
Consensus pattern (41 bp):
CTGCTCCACTGTAACTTCAGAGAGATAAGATCTGTTTTGAT
Found at i:88781893 original size:87 final size:87
Alignment explanation
Indices: 88781733--88782041 Score: 413
Period size: 87 Copynumber: 3.5 Consensus size: 87
88781723 CAAGGAGAAG
* * *
88781733 AGATTTGTAATTTCCAGCCTGTTACCCTACTGCTTAGGGGTTTGAGGCCCATCACC-TCTGATCT
1 AGATCTGTAAATT-CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTC-GATCT
*
88781797 GTTTCCCTACTGCTTAGGGGGCTA
64 GTTTCCCTACTGCTTAGGGGGATA
* * ** *
88781821 AGATCTGTAAATTCAGCCTGTTACCTTACTGCTTAAGGGTTTAAGGCCTGTCACCTTCGATCTGC
1 AGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGT
*
88781886 TTCCCTACTGCTTAGGGGGGTA
66 TTCCCTACTGCTTAGGGGGATA
* ** ** * *
88781908 AGATCTGTAAATTCAACCTGTTACCCTACTATTTAGGGGTTTAAGGCCCATTGCCTTCAATTTGT
1 AGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGT
*
88781973 TTCCCTACGGCTTAGGGGGATA
66 TTCCCTACTGCTTAGGGGGATA
* *
88781995 AGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGC
1 AGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGC
88782042 TTGTGAATTC
Statistics
Matches: 192, Mismatches: 28, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
87 179 0.93
88 13 0.07
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (87 bp):
AGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATCACCTTCGATCTGT
TTCCCTACTGCTTAGGGGGATA
Found at i:88782029 original size:43 final size:43
Alignment explanation
Indices: 88781795--88782039 Score: 162
Period size: 43 Copynumber: 5.7 Consensus size: 43
88781785 CACCTCTGAT
* * *
88781795 CTGTTTCCCTACTGCTTAGGGGGCTAAGATCTGTAAATTCAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
* * * ** * ** * *
88781838 CTGTTACCTTACTGCTTAAGGGTTTAAGGCCTGTCACCTTCGAT
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAG-C
* * *
88781882 CTGCTT-CCCTACTGCTTAGGGGGGTAAGATCTGTAAATTCAAC
1 CTG-TTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
** * *
88781925 CTGTTACCCTACTATTTAGGGGTTTAAGGCCCAT-TGCCTTCAATTT-G-
1 CTGTTACCCTACTGCTTAGGGGGTTAA-G---ATCTG---TAAATTTAGC
* *
88781972 -T-TT-CCCTACGGCTTAGGGGGATAAGATCTGTAAATTTAGC
1 CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
88782012 CTGTTACCCTACTGCTTAGGGGGTTAAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG
88782040 GCTTGTGAAT
Statistics
Matches: 145, Mismatches: 41, Indels: 32
0.67 0.19 0.15
Matches are distributed among these distances:
38 6 0.04
39 1 0.01
40 2 0.01
41 3 0.02
42 4 0.03
43 71 0.49
44 44 0.30
45 4 0.03
46 3 0.02
47 2 0.01
49 5 0.03
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (43 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGATCTGTAAATTTAGC
Found at i:88788816 original size:34 final size:34
Alignment explanation
Indices: 88788777--88788847 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
88788767 AAAAATAAGC
88788777 TTGAGCAAAAAAAAAAAAAGAAAAAAGAAAAGGG
1 TTGAGCAAAAAAAAAAAAAGAAAAAAGAAAAGGG
88788811 TTGAGCAAAAAAAAAAAAAGAAAAAAGAAAAGGG
1 TTGAGCAAAAAAAAAAAAAGAAAAAAGAAAAGGG
88788845 TTG
1 TTG
88788848 TACTCAAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.08
Consensus pattern (34 bp):
TTGAGCAAAAAAAAAAAAAGAAAAAAGAAAAGGG
Found at i:88789142 original size:18 final size:18
Alignment explanation
Indices: 88789121--88789156 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
88789111 GTTATTAGTG
*
88789121 TTTTTGATTTATTATATA
1 TTTTTAATTTATTATATA
*
88789139 TTTTTAATTTTTTATATA
1 TTTTTAATTTATTATATA
88789157 AAAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTAATTTATTATATA
Found at i:88791202 original size:12 final size:12
Alignment explanation
Indices: 88791185--88791210 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
88791175 TTATAATGAG
88791185 ATTGTTCAAAAA
1 ATTGTTCAAAAA
88791197 ATTGTTCAAAAA
1 ATTGTTCAAAAA
88791209 AT
1 AT
88791211 AATCAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.08, T:0.35
Consensus pattern (12 bp):
ATTGTTCAAAAA
Found at i:88791824 original size:3 final size:3
Alignment explanation
Indices: 88791818--88791859 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
88791808 AAGAAAAAAA
* * *
88791818 AAG AAG AAG AAG AAG -AG GAG GAG AAG AAG AAG AAG GAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
88791860 GGAAAAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:88791848 original size:23 final size:23
Alignment explanation
Indices: 88791818--88791862 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
88791808 AAGAAAAAAA
*
88791818 AAGAAGAAGAAGAAGAGGAGGAG
1 AAGAAGAAGAAGAAGAAGAGGAG
*
88791841 AAGAAGAAGAAGGAGAAGAGGA
1 AAGAAGAAGAAGAAGAAGAGGA
88791863 AAAATAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (23 bp):
AAGAAGAAGAAGAAGAAGAGGAG
Found at i:88792357 original size:19 final size:17
Alignment explanation
Indices: 88792333--88792375 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
88792323 TCGGCCCAGA
88792333 AAATAAAAAACCAAAAAAT
1 AAATAAAAAA-C-AAAAAT
88792352 AAAT-AAAAACAAAAAT
1 AAATAAAAAACAAAAAT
88792368 -AATAAAAA
1 AAATAAAAA
88792376 GTCCTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 3 0.13
16 10 0.43
17 1 0.04
18 5 0.22
19 4 0.17
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAAACAAAAAT
Found at i:88792367 original size:16 final size:15
Alignment explanation
Indices: 88792332--88792375 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
88792322 CTCGGCCCAG
*
88792332 AAAATAA-AAAACCAA
1 AAAATAATAAAAAC-A
88792347 AAAATAAATAAAAACA
1 AAAAT-AATAAAAACA
88792363 AAAATAATAAAAA
1 AAAATAATAAAAA
88792376 GTCCTTTACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 13 0.50
16 8 0.31
17 5 0.19
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (15 bp):
AAAATAATAAAAACA
Found at i:88793598 original size:23 final size:24
Alignment explanation
Indices: 88793572--88793617 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
88793562 TATTTATATA
88793572 TTTTA-TA-ATATATTATATCATTT
1 TTTTACTATATATATTAT-TCATTT
*
88793595 TTTTACTATATGTATTATTCATT
1 TTTTACTATATATATTATTCATT
88793618 ATATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTACTATATATATTATTCATTT
Found at i:88793634 original size:14 final size:14
Alignment explanation
Indices: 88793594--88793637 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
88793584 TTATATCATT
*
88793594 TTTTTACTATATGTA
1 TTTTTATTATAT-TA
*
88793609 TTATTCATTATATTA
1 TT-TTTATTATATTA
88793624 TTTTTATTATATTA
1 TTTTTATTATATTA
88793638 CTTCAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 11 0.44
15 6 0.24
16 8 0.32
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTATTATATTA
Found at i:88794570 original size:56 final size:56
Alignment explanation
Indices: 88794508--88794618 Score: 213
Period size: 56 Copynumber: 2.0 Consensus size: 56
88794498 AGGTTGGATG
*
88794508 TGATGTTTGCACTCTTTTGGAACGAAAGAATCTCGATTTTCAGCTCAAATTATTCA
1 TGATGTTTGCACTCTTTTGGAACGAAAGAATCTCAATTTTCAGCTCAAATTATTCA
88794564 TGATGTTTGCACTCTTTTGGAACGAAAGAATCTCAATTTTCAGCTCAAATTATTC
1 TGATGTTTGCACTCTTTTGGAACGAAAGAATCTCAATTTTCAGCTCAAATTATTC
88794619 CAGTTTTAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (56 bp):
TGATGTTTGCACTCTTTTGGAACGAAAGAATCTCAATTTTCAGCTCAAATTATTCA
Found at i:88804625 original size:19 final size:19
Alignment explanation
Indices: 88804601--88804640 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
88804591 GAATTTCAAG
88804601 AATGGGACCTTGTACTGAA
1 AATGGGACCTTGTACTGAA
88804620 AATGGGACCTTGTACTGAA
1 AATGGGACCTTGTACTGAA
88804639 AA
1 AA
88804641 AGATTCTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (19 bp):
AATGGGACCTTGTACTGAA
Found at i:88805798 original size:44 final size:44
Alignment explanation
Indices: 88805744--88806449 Score: 762
Period size: 44 Copynumber: 16.2 Consensus size: 44
88805734 ATAGATCACC
* *
88805744 GATAGTAGATTTGGCATCTCTGTATTGACAGAGAGTAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* *
88805788 GATAGTAGATTTGGCATCTCTGTATTGATAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * * *
88805832 GATAACAGTTTTGTCGTCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* *
88805876 GAT-GACATATTTGGCGT-TACTGTATTGACAGAGAGCAGAT-GAA
1 GATAG-CAGATTTGGCATCT-CTGTATTGACAGAGAGCAGATCGAA
* *
88805919 GAT-GACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * **
88805963 GATAACAGATTTGGCATCTCTGTTTTGTTAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* **
88806007 GATAGCCGATTTGGCATCTCTGTATTTTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* *
88806051 GATAGCAGATTTGGCGTCTCTGTATTGTC-G-GAG-AG--C--A
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * ** *
88806088 GATAGTAGATTTGGCGTCTCTGTATTGTTAGAGAGAAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
** *
88806132 GATAGCAGATTTGGCATCTCTGTATTGTTAGAGAGCAGATCAAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
** ** * **
88806176 GATTTC-GGCTTGGCGTCTCCATATTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* * * * *
88806219 GATAGTAGATCTGACAT-T-TGTATGCTTACATTGA-AGCAGATCAAA
1 GATAGCAGATTTGGCATCTCTGTAT--TGACA--GAGAGCAGATCGAA
* *
88806264 GATAACAGATTTGGCATCTCTATATTGACAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* *
88806308 GAT-GATAGATTTGGTATCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAG-CAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
* *
88806352 GATAGCAGATTTGGCGTTTCTGTATTGACAGAGAGCAGAGT-GAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGA-TCGAA
* * *
88806396 GATAGCAGATTTGGCGTCTTTGTATTGACAAAGAGCAGATCGAA
1 GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
88806440 GATAGCAGAT
1 GATAGCAGAT
88806450 CTGACATTTG
Statistics
Matches: 566, Mismatches: 72, Indels: 48
0.83 0.10 0.07
Matches are distributed among these distances:
37 28 0.05
38 1 0.00
39 4 0.01
40 2 0.00
41 2 0.00
42 7 0.01
43 77 0.14
44 409 0.72
45 29 0.05
46 3 0.01
47 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (44 bp):
GATAGCAGATTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
Found at i:88806100 original size:37 final size:37
Alignment explanation
Indices: 88806050--88806171 Score: 138
Period size: 37 Copynumber: 3.1 Consensus size: 37
88806040 AGCAGATCGA
*
88806050 AGATAGCAGATTTGGCGTCTCTGTATTGTCGGAGAGC
1 AGATAGCAGATTTGGCGTCTCTGTATTGTAGGAGAGC
*
88806087 AGATAGTAGATTTGGCGTCTCTGTATTGTTAGAGAGAAGATC
1 AGATAGCAGATTTGGCGTCTCTGTATTG-TAG-GAG-AG--C
*
88806129 GAAGATAGCAGATTTGGCATCTCTGTATTGTTA-GAGAGC
1 --AGATAGCAGATTTGGCGTCTCTGTATTG-TAGGAGAGC
88806168 AGAT
1 AGAT
88806172 CAAAGATTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
37 31 0.42
38 2 0.03
39 4 0.05
40 2 0.03
41 2 0.03
42 4 0.05
44 29 0.39
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.31
Consensus pattern (37 bp):
AGATAGCAGATTTGGCGTCTCTGTATTGTAGGAGAGC
Found at i:88806585 original size:221 final size:220
Alignment explanation
Indices: 88805821--88806532 Score: 583
Period size: 213 Copynumber: 3.3 Consensus size: 220
88805811 ATTGATAGAG
* * * * * ** * * * * *
88805821 AGCAGATCGAAGATAACAGTTTTGTCGTCTCTGTATTGACAGAGAGCAGATCGAAGATGACATAT
1 AGCAGATCAAAGATAACAGATTCGGCATCTCCATATTGAAAGAGAGCAGATCAAAGATGATAGAC
* * *
88805886 TTGGCGT-TACTGTATTGACAGAGAGCAGAT-GAAGAT-GACAGATTTGGCGTCTCTGTATTGTC
66 TTGGCATCT-CTGTATTGACAGAGAGCAGATCGAAGATAG-CAGATTTGGCATCTCTGTATTGAC
* * * * ** * ** *
88805948 AGAGAGCAGATCGAAGATAACAGATTTGGCATCTCTGTTTTGTTAGAGAGCAGATCGAAGATAGC
129 AGAGAGCAGATCAAAGATAGC-GACTTGGCGTCTCCATATTGACAAAGAGCAGATCGAAGATAGC
* * * *
88806013 CGATTTGGCATCTCTGTAT--TTTCA--GA
193 AGATCTGACAT-T-TGTATGCTTACATCGA
* * * * ** ***
88806039 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCGGAGAGCAGAT-----A-G-TAGA
1 -AGCAGATCAAAGATAACAGATTCGGCATCTCCATATTGAAAGAGAGCAGATCAAAGATGATAGA
* * ** * **
88806097 TTTGGCGTCTCTGTATTGTTAGAGAGAAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTTA
65 CTTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACA
** * * *
88806162 GAGAGCAGATCAAAGATTTCGGCTTGGCGTCTCCATATTGACAGAGAGCAGATCGAAGATAGTAG
130 GAGAGCAGATCAAAGATAGCGACTTGGCGTCTCCATATTGACAAAGAGCAGATCGAAGATAGCAG
*
88806227 ATCTGACATTTGTATGCTTACATTGA
195 ATCTGACATTTGTATGCTTACATCGA
* * * * *
88806253 AGCAGATCAAAGATAACAGATTTGGCATCTCTATATTGACAGAGAGCAGATCGAAGATGATAGAT
1 AGCAGATCAAAGATAACAGATTCGGCATCTCCATATTGAAAGAGAGCAGATCAAAGATGATAGAC
* * *
88806318 TTGGTATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCGTTTCTGTATTGACAG
66 TTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAG
* * ***
88806383 AGAGCAGAGT-GAAGATAGCAGATTTGGCGTCTTTGTATTGACAAAGAGCAGATCGAAGATAGCA
131 AGAGCAGA-TCAAAGATAGC-GACTTGGCGTCTCCATATTGACAAAGAGCAGATCGAAGATAGCA
88806447 GATCTGACATTTGTATGCTTACATCGA
194 GATCTGACATTTGTATGCTTACATCGA
* ** * * * *
88806474 AGTAGATTGAAGATGACAGATTCGGCTTCTCCGTATTAGGAAAG-GAGTAGATCAAAGAT
1 AGCAGATCAAAGATAACAGATTCGGCATCTCCATATT--GAAAGAGAGCAGATCAAAGAT
88806533 TTCAGCTTGG
Statistics
Matches: 410, Mismatches: 65, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
210 5 0.01
211 1 0.00
212 74 0.18
213 93 0.23
214 4 0.01
218 1 0.00
219 47 0.11
220 75 0.18
221 93 0.23
222 13 0.03
223 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (220 bp):
AGCAGATCAAAGATAACAGATTCGGCATCTCCATATTGAAAGAGAGCAGATCAAAGATGATAGAC
TTGGCATCTCTGTATTGACAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGACAG
AGAGCAGATCAAAGATAGCGACTTGGCGTCTCCATATTGACAAAGAGCAGATCGAAGATAGCAGA
TCTGACATTTGTATGCTTACATCGA
Found at i:88806794 original size:18 final size:17
Alignment explanation
Indices: 88806773--88806814 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
88806763 CCGGCCCAGA
88806773 AAATAAAAAACAAAAAAT
1 AAATAAAAAAC-AAAAAT
88806791 AAAT-AAAAACAAAAAT
1 AAATAAAAAACAAAAAT
88806807 -AATAAAAA
1 AAATAAAAA
88806815 GTCCTTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 3 0.13
16 10 0.43
17 6 0.26
18 4 0.17
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAAACAAAAAT
Found at i:88806810 original size:15 final size:17
Alignment explanation
Indices: 88806773--88806814 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
88806763 CCGGCCCAGA
88806773 AAATAAAAAACAAAAAAT
1 AAAT-AAAAACAAAAAAT
88806791 AAATAAAAAC-AAAAAT
1 AAATAAAAACAAAAAAT
88806807 -AATAAAAA
1 AAATAAAAA
88806815 GTCCTTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.33
16 6 0.25
17 6 0.25
18 4 0.17
ACGTcount: A:0.83, C:0.05, G:0.00, T:0.12
Consensus pattern (17 bp):
AAATAAAAACAAAAAAT
Found at i:88808167 original size:14 final size:14
Alignment explanation
Indices: 88808127--88808170 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
88808117 TTATATCATT
*
88808127 TTTTTACTATATGTA
1 TTTTTATTATAT-TA
*
88808142 TTATTCATTATATTA
1 TT-TTTATTATATTA
88808157 TTTTTATTATATTA
1 TTTTTATTATATTA
88808171 CTTCAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 11 0.44
15 6 0.24
16 8 0.32
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTATTATATTA
Found at i:88809106 original size:56 final size:56
Alignment explanation
Indices: 88809040--88809151 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
88809030 CAGGCTGGAT
*
88809040 GTGATGTTTGCACTCTTTTGGAACGGAAGAATCTCGATTTTCAGCTCAAATTATTC
1 GTGATGTTTGCACTCTTTTGGAACGGAAGAATCTCAATTTTCAGCTCAAATTATTC
* *
88809096 GTGATGTTTGCACTCTTTTGGAACGGAAGAATCTCAATTTTCAGCTTACATTATTC
1 GTGATGTTTGCACTCTTTTGGAACGGAAGAATCTCAATTTTCAGCTCAAATTATTC
88809152 CAGTTTTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (56 bp):
GTGATGTTTGCACTCTTTTGGAACGGAAGAATCTCAATTTTCAGCTCAAATTATTC
Found at i:88810596 original size:48 final size:48
Alignment explanation
Indices: 88810522--88810643 Score: 163
Period size: 48 Copynumber: 2.5 Consensus size: 48
88810512 TTGGATACAA
* * * * *
88810522 ACAATGGCAGATATACACAATCAACATCAGTTTGATAATGGCATTTAT
1 ACAATAGCAGATATAAACAATAAACATCAATTTGATAATGGCATTCAT
* *
88810570 ACAATAGTAGATATAAATAATAAACATCAATTTGATAATGGCATTCAT
1 ACAATAGCAGATATAAACAATAAACATCAATTTGATAATGGCATTCAT
* *
88810618 ACAATGGCAGATACAAACAATAAACA
1 ACAATAGCAGATATAAACAATAAACA
88810644 ACATACAAAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 63 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (48 bp):
ACAATAGCAGATATAAACAATAAACATCAATTTGATAATGGCATTCAT
Found at i:88810672 original size:6 final size:6
Alignment explanation
Indices: 88810654--88810718 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
88810644 ACATACAAAC
* * * * * * **
88810654 AAAT-A AAACCA AAATCA AATTCT AAATCA AAATCG AGATCG AAATTG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
88810701 AAATCA AAATCA AAATCA
1 AAATCA AAATCA AAATCA
88810719 GTGAGTGTTT
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
5 3 0.06
6 44 0.94
ACGTcount: A:0.58, C:0.15, G:0.06, T:0.20
Consensus pattern (6 bp):
AAATCA
Found at i:88810770 original size:18 final size:18
Alignment explanation
Indices: 88810728--88810770 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
88810718 AGTGAGTGTT
* *
88810728 TCAAAATTGAAATCAAAG
1 TCAAAATAGAAATCAAAA
**
88810746 TTGAAATAGAAATCAAAA
1 TCAAAATAGAAATCAAAA
88810764 TCAAAAT
1 TCAAAAT
88810771 CCGAATCGAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.09, G:0.09, T:0.23
Consensus pattern (18 bp):
TCAAAATAGAAATCAAAA
Found at i:88810812 original size:10 final size:10
Alignment explanation
Indices: 88810797--88810822 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
88810787 ATTGAAACCG
88810797 AAATAACCCT
1 AAATAACCCT
88810807 AAATAACCCT
1 AAATAACCCT
88810817 AAATAA
1 AAATAA
88810823 AAAAAACAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAACCCT
Found at i:88811281 original size:21 final size:21
Alignment explanation
Indices: 88811257--88811296 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
88811247 AACGTGGCAA
88811257 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
*
88811278 GTTAACTTGCCACGTCAGC
1 GTTAACTTGCCACATCAGC
88811297 AATCCCGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:88811577 original size:2 final size:2
Alignment explanation
Indices: 88811565--88811603 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
88811555 AAAGAGATTG
*
88811565 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88811604 CTATTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:88811854 original size:2 final size:2
Alignment explanation
Indices: 88811847--88811875 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
88811837 TTTATTTTAA
88811847 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
88811876 ACATAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88811903 original size:20 final size:20
Alignment explanation
Indices: 88811878--88811919 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
88811868 TATATATAAC
88811878 ATAATTTTTTTATCTAAGTT
1 ATAATTTTTTTATCTAAGTT
88811898 ATAATTTTTTTATCTAAGTT
1 ATAATTTTTTTATCTAAGTT
88811918 AT
1 AT
88811920 GAGTGCCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (20 bp):
ATAATTTTTTTATCTAAGTT
Found at i:88816977 original size:21 final size:21
Alignment explanation
Indices: 88816953--88816993 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
88816943 AGATTTTCTA
*
88816953 AAGTTAAAAGTCAAAACTATT
1 AAGTTAAAAGGCAAAACTATT
*
88816974 AAGTTAAAAGGGAAAACTAT
1 AAGTTAAAAGGCAAAACTAT
88816994 GTTGTTTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.54, C:0.07, G:0.15, T:0.24
Consensus pattern (21 bp):
AAGTTAAAAGGCAAAACTATT
Found at i:88818947 original size:16 final size:16
Alignment explanation
Indices: 88818928--88818958 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
88818918 ATATAGGCCC
88818928 CAAAAATGGACTTGGG
1 CAAAAATGGACTTGGG
88818944 CAAAAATGGACTTGG
1 CAAAAATGGACTTGG
88818959 CCGTAGCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.19
Consensus pattern (16 bp):
CAAAAATGGACTTGGG
Found at i:88819236 original size:12 final size:12
Alignment explanation
Indices: 88819219--88819246 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
88819209 AGCAAAACAG
88819219 GTTTTTAGCGGC
1 GTTTTTAGCGGC
88819231 GTTTTTAGCGGC
1 GTTTTTAGCGGC
88819243 GTTT
1 GTTT
88819247 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:88819886 original size:7 final size:7
Alignment explanation
Indices: 88819851--88819893 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
88819841 TATTGTAAGC
88819851 TTTATGG
1 TTTATGG
*
88819858 ATTATGAG
1 TTTATG-G
*
88819866 TTTAGGG
1 TTTATGG
*
88819873 ATTATGG
1 TTTATGG
88819880 TTTATGG
1 TTTATGG
88819887 TTTATGG
1 TTTATGG
88819894 GTTAAAGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
7 24 0.83
8 5 0.17
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (7 bp):
TTTATGG
Found at i:88819891 original size:14 final size:14
Alignment explanation
Indices: 88819851--88819893 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
88819841 TATTGTAAGC
88819851 TTTATGGATTATGAG
1 TTTATGGATTATG-G
*
88819866 TTTAGGGATTATGG
1 TTTATGGATTATGG
*
88819880 TTTATGGTTTATGG
1 TTTATGGATTATGG
88819894 GTTAAAGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TTTATGGATTATGG
Found at i:88819896 original size:15 final size:15
Alignment explanation
Indices: 88819851--88819896 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
88819841 TATTGTAAGC
*
88819851 TTTATGGATTATGAG
1 TTTATGGATTATGGG
*
88819866 TTTAGGGATTAT-GG
1 TTTATGGATTATGGG
*
88819880 TTTATGGTTTATGGG
1 TTTATGGATTATGGG
88819895 TT
1 TT
88819897 AAAGGTTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.20, C:0.00, G:0.30, T:0.50
Consensus pattern (15 bp):
TTTATGGATTATGGG
Found at i:88819930 original size:22 final size:21
Alignment explanation
Indices: 88819900--88819947 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
88819890 ATGGGTTAAA
88819900 GGTTAGGGTTT-AAGTTTTAAGG
1 GGTTAGGGTTTAAAG-TTT-AGG
*
88819922 GGTTGGGGTTTAAAGTTTAGG
1 GGTTAGGGTTTAAAGTTTAGG
88819943 GGTTA
1 GGTTA
88819948 AAGGTTAAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.40
Consensus pattern (21 bp):
GGTTAGGGTTTAAAGTTTAGG
Found at i:88820013 original size:7 final size:7
Alignment explanation
Indices: 88819865--88820013 Score: 52
Period size: 7 Copynumber: 20.9 Consensus size: 7
88819855 TGGATTATGA
88819865 GTTTAGG
1 GTTTAGG
* *
88819872 GATTATG
1 GTTTAGG
*
88819879 GTTTATG
1 GTTTAGG
88819886 GTTTATGG
1 GTTTA-GG
* *
88819894 GTTAAAG
1 GTTTAGG
88819901 G-TTAGG
1 GTTTAGG
*
88819907 GTTTAAG
1 GTTTAGG
*
88819914 TTTTAAGG
1 GTTT-AGG
* *
88819922 GGTTGGG
1 GTTTAGG
**
88819929 GTTTAAA
1 GTTTAGG
88819936 GTTTAGGG
1 GTTTA-GG
* *
88819944 GTTAAAG
1 GTTTAGG
*
88819951 GTTAAGG
1 GTTTAGG
*
88819958 GTTTA-T
1 GTTTAGG
**
88819964 GTTATATT
1 GTT-TAGG
*
88819972 GTTTAAG
1 GTTTAGG
88819979 GTTTAAGG
1 GTTT-AGG
*
88819987 GTTAAGG
1 GTTTAGG
88819994 G-TTAGG
1 GTTTAGG
88820000 GATTTAGG
1 G-TTTAGG
88820008 GTTTAG
1 GTTTAG
88820014 ATTAATTAGT
Statistics
Matches: 103, Mismatches: 30, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
6 12 0.12
7 63 0.61
8 28 0.27
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:88820669 original size:14 final size:13
Alignment explanation
Indices: 88820620--88820671 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
88820610 CTTAATTTTT
*
88820620 TATTTATAAAAAC
1 TATTTATAAAAAA
88820633 TAATTTATAAAAAA
1 T-ATTTATAAAAAA
* *
88820647 TAGTAATAAAAAA
1 TATTTATAAAAAA
88820660 TATTTTATAAAA
1 TA-TTTATAAAA
88820672 TTATTTAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 13 0.41
14 19 0.59
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:88823503 original size:43 final size:43
Alignment explanation
Indices: 88823455--88823678 Score: 315
Period size: 43 Copynumber: 5.2 Consensus size: 43
88823445 GGTCGTATTT
*
88823455 TTTAGCGGCGTTTGTGGGAAAAGCGCCGTTGAAA-GTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCT-AAAGGTCATGACC
* **
88823498 TTTAGCGACGTTTGTAAGAAAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* *
88823541 TTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCATAACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* * *
88823584 TTTAGCTGCGATTATGGGAAAAGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
* * **
88823627 TTTAGCGGCGTTTGAGGGAAAAACGCTTCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
88823670 TTTAGCGGC
1 TTTAGCGGC
88823679 TTTTTTTTTC
Statistics
Matches: 159, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 3 0.02
43 156 0.98
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACC
Found at i:88825657 original size:24 final size:24
Alignment explanation
Indices: 88825615--88825660 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
88825605 TTTGTTATGG
*
88825615 TTTGGTTTTGGGTGATGGTTTGGT
1 TTTGGTTTTGGATGATGGTTTGGT
88825639 TTTGGTTTTGGTATG-TGGTTTG
1 TTTGGTTTTGG-ATGATGGTTTG
88825661 ATTTGGTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.04, C:0.00, G:0.39, T:0.57
Consensus pattern (24 bp):
TTTGGTTTTGGATGATGGTTTGGT
Found at i:88826078 original size:14 final size:14
Alignment explanation
Indices: 88826059--88826090 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
88826049 TGGTGGCTAT
88826059 GTGTTTCCACGGGC
1 GTGTTTCCACGGGC
88826073 GTGTTTCCACGGGC
1 GTGTTTCCACGGGC
88826087 GTGT
1 GTGT
88826091 GTCCCCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.25, G:0.38, T:0.31
Consensus pattern (14 bp):
GTGTTTCCACGGGC
Found at i:88827279 original size:3 final size:3
Alignment explanation
Indices: 88827256--88827311 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
88827246 TTTTATTAAT
* * *
88827256 TTA TATA TTA TTT TTA GTTA TTA TTA TTA CTA TTA TTA TT- TTA -CA
1 TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
88827301 TTA TTA TTA TT
1 TTA TTA TTA TT
88827312 GCATATTTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 3 0.07
3 34 0.79
4 6 0.14
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:88827280 original size:28 final size:29
Alignment explanation
Indices: 88827234--88827311 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 29
88827224 GTTTTATTTT
*
88827234 TTATTTTTACATTTTTATTAATT--TATATA
1 TTATTTTTACATTATTATT-ATTACTAT-TA
*
88827263 TTATTTTTA-GTTATTATTATTACTATTA
1 TTATTTTTACATTATTATTATTACTATTA
88827291 TTA-TTTTACATTATTATTATT
1 TTATTTTTACATTATTATTATT
88827312 GCATATTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 8 0.19
28 23 0.53
29 12 0.28
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (29 bp):
TTATTTTTACATTATTATTATTACTATTA
Found at i:88829064 original size:19 final size:20
Alignment explanation
Indices: 88829030--88829072 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
88829020 TCTTTTTATA
*
88829030 TTCATGCATCTGCATTACAT
1 TTCATGCATCTGCATTAAAT
*
88829050 TTCAT-CATGTGCATTAAAT
1 TTCATGCATCTGCATTAAAT
88829069 TTCA
1 TTCA
88829073 CAAAAGGATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.42
Consensus pattern (20 bp):
TTCATGCATCTGCATTAAAT
Found at i:88834969 original size:18 final size:19
Alignment explanation
Indices: 88834936--88834972 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
88834926 TAGGCTTGGG
88834936 CAAAATTTTAGGTTGGGCC
1 CAAAATTTTAGGTTGGGCC
88834955 CAAAATTTT-GGTTGGGCC
1 CAAAATTTTAGGTTGGGCC
88834973 GAATCTAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
CAAAATTTTAGGTTGGGCC
Found at i:88835284 original size:3 final size:3
Alignment explanation
Indices: 88835271--88835349 Score: 149
Period size: 3 Copynumber: 26.3 Consensus size: 3
88835261 CCGCAGCCAT
*
88835271 TTC TGC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
88835319 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
88835350 AACACCATTG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.00, C:0.33, G:0.01, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:88837922 original size:66 final size:68
Alignment explanation
Indices: 88837846--88838032 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
88837836 TAGTACCACT
*
88837846 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
88837908 CACG
65 CACG
88837912 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
88837977 ATCACG
63 ATCACG
88837983 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
88838033 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:88837957 original size:71 final size:71
Alignment explanation
Indices: 88837869--88838032 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88837859 CGATTTGTCT
88837869 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88837934 CTTTCA
66 CTTTCA
88837940 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88838005 CTTTCA
66 CTTTCA
88838011 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88838033 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:88838070 original size:71 final size:70
Alignment explanation
Indices: 88837869--88838066 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
88837859 CGATTTGTCT
* * *
88837869 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
88837934 CTTTCA
65 CTTTCA
* * *
88837940 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
88838005 CTTTCA
65 CTTTCA
* *
88838011 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
88838067 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88845492 original size:66 final size:68
Alignment explanation
Indices: 88845416--88845602 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
88845406 TAGTACCACT
*
88845416 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
88845478 CACG
65 CACG
88845482 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
88845547 ATCACG
63 ATCACG
88845553 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
88845603 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:88845527 original size:71 final size:71
Alignment explanation
Indices: 88845439--88845602 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
88845429 CGATTTGTCT
88845439 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88845504 CTTTCA
66 CTTTCA
88845510 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
88845575 CTTTCA
66 CTTTCA
88845581 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
88845603 GATACATCTC
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:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:88845640 original size:71 final size:70
Alignment explanation
Indices: 88845439--88845636 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
88845429 CGATTTGTCT
* * *
88845439 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
88845504 CTTTCA
65 CTTTCA
* * *
88845510 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
88845575 CTTTCA
65 CTTTCA
* *
88845581 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
88845637 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:88848015 original size:28 final size:27
Alignment explanation
Indices: 88847977--88848031 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
88847967 ACAAAATAAT
88847977 AACATAAGTGACTAAAAGGTAACATTTA
1 AACATAAGTGACTAAAAGGTAAC-TTTA
*
88848005 AACATAAGTGACTAAAATGTAACTTTA
1 AACATAAGTGACTAAAAGGTAACTTTA
88848032 GGCAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 4 0.15
28 22 0.85
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (27 bp):
AACATAAGTGACTAAAAGGTAACTTTA
Found at i:88848251 original size:3 final size:3
Alignment explanation
Indices: 88848243--88848288 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
88848233 AAAGGAAGAT
88848243 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
88848289 TGAATATTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:88850710 original size:19 final size:18
Alignment explanation
Indices: 88850681--88850718 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
88850671 ACATTTTCCG
88850681 ATAATTGATTTTTGGAAA
1 ATAATTGATTTTTGGAAA
*
88850699 ATAATATGATTTTTTGAAA
1 ATAAT-TGATTTTTGGAAA
88850718 A
1 A
88850719 ATGTAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (18 bp):
ATAATTGATTTTTGGAAA
Found at i:88850714 original size:20 final size:18
Alignment explanation
Indices: 88850681--88850720 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
88850671 ACATTTTCCG
*
88850681 ATAATTGATTTTTGGAAA
1 ATAATTGATTTTTGAAAA
88850699 ATAATATGATTTTTTGAAAA
1 ATAAT-TGA-TTTTTGAAAA
88850719 AT
1 AT
88850721 GTAATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 3 0.16
20 11 0.58
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
ATAATTGATTTTTGAAAA
Found at i:88857729 original size:64 final size:64
Alignment explanation
Indices: 88857656--88857866 Score: 151
Period size: 64 Copynumber: 3.2 Consensus size: 64
88857646 CTGGGCCAGA
*
88857656 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
* * * *** * ** *
88857720 GCCCATTTCAAAATAC-ATGCAACATCAGTAAACATATGCAAGCCC--ATTTGGGTAACAGTGGT
1 GCCCATTTCAGATTACAAT--AA-A-CTG-GGCCTTA-GC---CCCTTATTCAGATAACA---GT
* *
88857782 ACTGGGCCAGA-
54 A-TGGCCCATAG
*
88857793 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
88857857 GCCCATTTCA
1 GCCCATTTCA
88857867 AAATACATGC
Statistics
Matches: 103, Mismatches: 27, Indels: 34
0.63 0.16 0.21
Matches are distributed among these distances:
63 9 0.09
64 25 0.24
65 5 0.05
66 1 0.01
67 11 0.11
68 5 0.05
69 5 0.05
70 11 0.11
71 1 0.01
72 5 0.05
73 16 0.16
74 9 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (64 bp):
GCCCATTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:88857868 original size:137 final size:137
Alignment explanation
Indices: 88857622--88857908 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
88857612 CATTGGGCCT
**
88857622 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
88857687 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
88857752 CATATGC
131 CATATGC
88857759 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
88857824 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
88857889 CATATGC
131 CATATGC
88857896 AAGCCCATTTGGG
1 AAGCCCATTTGGG
88857909 GAGACTACTC
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:88858193 original size:25 final size:27
Alignment explanation
Indices: 88858156--88858209 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
88858146 TCAAACATGC
88858156 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
88858182 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
88858208 AT
1 AT
88858210 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:88858217 original size:26 final size:27
Alignment explanation
Indices: 88858173--88858248 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
88858163 TCAATTTAAC
* * *
88858173 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
88858199 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
88858227 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
88858249 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:88859732 original size:26 final size:26
Alignment explanation
Indices: 88859696--88859805 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
88859686 CATGAAATTC
88859696 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
88859722 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
88859748 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
88859774 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGAAACATTTACCTAACCTA
88859800 TTATCA
1 TTATCA
88859806 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:88869682 original size:22 final size:24
Alignment explanation
Indices: 88869642--88869691 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 24
88869632 GCTTAATATT
*
88869642 TAATTATATAATAAGTTATTAATA
1 TAATTATATAATAAGTTATTAAAA
*
88869666 TAATT-TAT-ATAATTTATTAAAA
1 TAATTATATAATAAGTTATTAAAA
88869688 TAAT
1 TAAT
88869692 AATTTATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.67
23 3 0.12
24 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TAATTATATAATAAGTTATTAAAA
Found at i:88869693 original size:25 final size:26
Alignment explanation
Indices: 88869645--88869724 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
88869635 TAATATTTAA
** *
88869645 TTATATAATAAGTTATTAAT-ATAAT
1 TTATATAATATTTTAATAATAATAAT
88869670 TTATATAAT-TTATTAA-AATAATAAT
1 TTATATAATATT-TTAATAATAATAAT
*
88869695 TTATTTAATATTTTAATAATAA-ATAT
1 TTATATAATATTTTAATAATAATA-AT
88869721 TTAT
1 TTAT
88869725 TACAATTATA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
24 3 0.07
25 30 0.65
26 13 0.28
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (26 bp):
TTATATAATATTTTAATAATAATAAT
Found at i:88869719 original size:15 final size:15
Alignment explanation
Indices: 88869701--88869757 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
88869691 TAATTTATTT
88869701 AATATTTTAATAATA
1 AATATTTTAATAATA
*
88869716 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
88869735 AATATATTAATAACA
1 AATATTTTAATAATA
88869750 AATATTTT
1 AATATTTT
88869758 TTAGTATAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:88870189 original size:26 final size:27
Alignment explanation
Indices: 88870154--88870214 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
88870144 TGTCAGTTTC
*
88870154 TTTTTATTTTTTA-CTTTTGT-TTCTTT
1 TTTTTATTTTTTATCTTTTGTCTT-TTA
*
88870180 TTTTTATTTTTTATGTTTTGTCTTTTA
1 TTTTTATTTTTTATCTTTTGTCTTTTA
88870207 TTTTTATT
1 TTTTTATT
88870215 CATTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
26 13 0.42
27 16 0.52
28 2 0.06
ACGTcount: A:0.10, C:0.05, G:0.05, T:0.80
Consensus pattern (27 bp):
TTTTTATTTTTTATCTTTTGTCTTTTA
Found at i:88870229 original size:20 final size:20
Alignment explanation
Indices: 88870203--88870243 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
88870193 TGTTTTGTCT
*
88870203 TTTATTTTTATTCATT-TTA
1 TTTAATTTTATTCATTATTA
*
88870222 TTTAATTTTATTTATTATTA
1 TTTAATTTTATTCATTATTA
88870242 TT
1 TT
88870244 AACTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTAATTTTATTCATTATTA
Found at i:88870250 original size:19 final size:19
Alignment explanation
Indices: 88870209--88870250 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
88870199 GTCTTTTATT
*
88870209 TTTATTCATTTTATTTAAT
1 TTTATTCATTTTATTTAAC
*
88870228 TTTATTTATTATTA-TTAAC
1 TTTATTCATT-TTATTTAAC
88870247 TTTA
1 TTTA
88870251 AAAAATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTCATTTTATTTAAC
Found at i:88870311 original size:21 final size:21
Alignment explanation
Indices: 88870252--88870323 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
88870242 TTAACTTTAA
* *
88870252 AAAATTTGAAATATATATTTA
1 AAAATTTTAAATATATATTTT
88870273 AAATATTTTATTAATATATATTTT
1 AAA-ATTTTA--AATATATATTTT
*
88870297 TAAATTTTAAATATATATTTT
1 AAAATTTTAAATATATATTTT
*
88870318 GAAATT
1 AAAATT
88870324 ACTGTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 20 0.45
22 5 0.11
23 6 0.14
24 13 0.30
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AAAATTTTAAATATATATTTT
Found at i:88870337 original size:21 final size:19
Alignment explanation
Indices: 88870313--88870392 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 19
88870303 TTAAATATAT
88870313 ATTTTGAAATTACTGTTTTA-A
1 ATTTT-AAATTA-T-TTTTAGA
88870334 ATTTTAAATATTATTTTTAGA
1 ATTTT-AA-ATTATTTTTAGA
88870355 ATTTTAAATATTATTTTCTA-A
1 ATTTT-AA-ATTATTTT-TAGA
*
88870376 ATATTAAATATATTTTT
1 ATTTTAAAT-TATTTTT
88870393 TAATACTATA
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
19 3 0.06
20 13 0.25
21 31 0.58
22 6 0.11
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (19 bp):
ATTTTAAATTATTTTTAGA
Found at i:88870404 original size:21 final size:20
Alignment explanation
Indices: 88870331--88870391 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
88870321 ATTACTGTTT
*
88870331 TAAATTTTAAATATTATTTT-
1 TAAATATTAAATA-TATTTTC
*
88870351 TAGAATTTTAAATATTATTTTC
1 TA-AATATTAAATA-TATTTTC
88870373 TAAATATTAAATATATTTT
1 TAAATATTAAATATATTTT
88870392 TTAATACTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
20 8 0.21
21 28 0.74
22 2 0.05
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TAAATATTAAATATATTTTC
Found at i:88870406 original size:22 final size:20
Alignment explanation
Indices: 88870360--88870408 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 20
88870350 TTAGAATTTT
*
88870360 AAATATTATTTTCTAAATATT
1 AAATA-TATTTTCTAAATATA
*
88870381 AAATATATTTTTTAATACTATA
1 AAATATATTTTCTAA-A-TATA
88870403 AAATAT
1 AAATAT
88870409 TTAAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 6 0.25
22 9 0.38
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATATATTTTCTAAATATA
Found at i:88870565 original size:25 final size:25
Alignment explanation
Indices: 88870509--88870566 Score: 84
Period size: 23 Copynumber: 2.4 Consensus size: 25
88870499 TGCATATTTA
*
88870509 AAATATTTTATAATATATATTTTTT
1 AAATATTTTATAATATATAATTTTT
88870534 AAA-ATTTTA-AATATATAATTTTT
1 AAATATTTTATAATATATAATTTTT
88870557 AAATTATTTT
1 AAA-TATTTT
88870567 TCTAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.53
24 6 0.20
25 8 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
AAATATTTTATAATATATAATTTTT
Found at i:88870567 original size:34 final size:33
Alignment explanation
Indices: 88870525--88870614 Score: 130
Period size: 32 Copynumber: 2.7 Consensus size: 33
88870515 TTTATAATAT
88870525 ATATTTTTTAAAATTTTAAATATATAATTTTTAA
1 ATATTTTTTAAAATTTTAAATATATAATTTTT-A
*
88870559 ATTATTTTTCT-AAATTTTAAAT-TATTATTTTTA
1 A-TATTTTT-TAAAATTTTAAATATATAATTTTTA
88870592 ATATTTTTTAAAATTTTAAATAT
1 ATATTTTTTAAAATTTTAAATAT
88870615 TAAATATATT
Statistics
Matches: 51, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
31 1 0.02
32 18 0.35
33 3 0.06
34 10 0.20
35 18 0.35
36 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (33 bp):
ATATTTTTTAAAATTTTAAATATATAATTTTTA
Found at i:88870578 original size:20 final size:22
Alignment explanation
Indices: 88870549--88870598 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
88870539 TTTAAATATA
88870549 TAAT-TTTTAAATTATT-TTTC
1 TAATATTTTAAATTATTATTTC
*
88870569 TAA-ATTTTAAATTATTATTTT
1 TAATATTTTAAATTATTATTTC
88870590 TAATATTTT
1 TAATATTTT
88870599 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 15 0.58
21 6 0.23
22 5 0.19
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
TAATATTTTAAATTATTATTTC
Found at i:88870640 original size:28 final size:26
Alignment explanation
Indices: 88870591--88870653 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
88870581 TATTATTTTT
* *
88870591 AATATTTTTTAAAATTTTAAATATTA
1 AATATTTTTTAAAATATAAAATATTA
88870617 AATATATTTTTAATAATATAAAATATTTA
1 AATAT-TTTTTAA-AATATAAAATA-TTA
*
88870646 AGTATTTT
1 AATATTTT
88870654 AAACTTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 5 0.16
27 7 0.23
28 12 0.39
29 7 0.23
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
AATATTTTTTAAAATATAAAATATTA
Found at i:88870658 original size:234 final size:235
Alignment explanation
Indices: 88870251--88870723 Score: 719
Period size: 234 Copynumber: 2.0 Consensus size: 235
88870241 ATTAACTTTA
* *
88870251 AAAAATTTGAAATATATATTTAAAATATTTTATTAATATATATTTTTAAATTTTAAATATATATT
1 AAAAACTTGAAATACATATTTAAAATATTTTATTAATATATATTTTTAAATTTTAAATATATATT
88870316 TTGAAATTACTGTTTTAAATTTTAAATATTATTTTTAGAATTTTAAATATTATTTTCTAAATATT
66 TTGAAATTACTGTTTTAAATTTTAAATATTATTTTTAGAATTTTAAATA-TATTTTCTAAATATT
*
88870381 AAATATATTTTTTAATACTATAAAATATTTAAATATTTTAAACTTTCAAATTTGTTACTAGTTTT
130 AAATATATTTTTTAATAATATAAAATATTTAAATATTTTAAACTTTCAAATTTGTTACTAGTTTT
*
88870446 ATAATATTTTAAATATTATTTAATTTGTTTTATAATATTTT
195 ATAATATTTTAAATATTATTTAATTTATTTTATAATATTTT
*
88870487 AAAAACTTGAAATGCATATTTAAAATATTTTA-TAATATATATTTTTTAAAATTTTAAATATATA
1 AAAAACTTGAAATACATATTTAAAATATTTTATTAATATATA-TTTTT-AAATTTTAAATATAT-
* * *
88870551 ATTTTTAAATTA-TTTTTCTAAATTTTAAATTATTATTTTTA-ATATTTTTTAA-A-A-TTT-TA
63 ATTTTGAAATTACTGTTT-TAAATTTTAAA-TATTATTTTTAGA-A-TTTTAAATATATTTTCTA
* *
88870610 AATATTAAATATA-TTTTTAATAATATAAAATATTTAAGTATTTTAAACTTTCAAATTTGTTATT
124 AATATTAAATATATTTTTTAATAATATAAAATATTTAAATATTTTAAACTTTCAAATTTGTTACT
*
88870674 AGTTTTATAATATTTTAGATATTATTTAATTTATTTTATAATATTTT
189 AGTTTTATAATATTTTAAATATTATTTAATTTATTTTATAATATTTT
88870721 AAA
1 AAA
88870724 TTATGAATTT
Statistics
Matches: 219, Mismatches: 11, Indels: 16
0.89 0.04 0.07
Matches are distributed among these distances:
234 96 0.44
235 24 0.11
236 37 0.17
237 20 0.09
238 23 0.11
239 13 0.06
240 6 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (235 bp):
AAAAACTTGAAATACATATTTAAAATATTTTATTAATATATATTTTTAAATTTTAAATATATATT
TTGAAATTACTGTTTTAAATTTTAAATATTATTTTTAGAATTTTAAATATATTTTCTAAATATTA
AATATATTTTTTAATAATATAAAATATTTAAATATTTTAAACTTTCAAATTTGTTACTAGTTTTA
TAATATTTTAAATATTATTTAATTTATTTTATAATATTTT
Found at i:88870711 original size:31 final size:28
Alignment explanation
Indices: 88870676--88870737 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 28
88870666 TTGTTATTAG
*
88870676 TTTTATAATATTTTAGATATTATTTAATTTA
1 TTTTATAATATTTTA-A-ATTA-TGAATTTA
88870707 TTTTATAATATTTTAAATTATGAATTTA
1 TTTTATAATATTTTAAATTATGAATTTA
88870735 TTT
1 TTT
88870738 AAAAAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 10 0.33
29 4 0.13
30 1 0.03
31 15 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (28 bp):
TTTTATAATATTTTAAATTATGAATTTA
Done.