Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 152 of 214
Found at i:45242607 original size:25 final size:26
Alignment explanation
Indices: 45242554--45242607 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
45242544 CTTAATACTT
*
45242554 TTTTTAATTTTTATATATTATTTACA
1 TTTTTAATTTTTATATATTATTTAAA
*
45242580 TTTTT-ATTTTTA-ATATTTTTATAAA
1 TTTTTAATTTTTATATATTATT-TAAA
45242605 TTT
1 TTT
45242608 AAATTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 13 0.52
26 5 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTTAATTTTTATATATTATTTAAA
Found at i:45245328 original size:124 final size:125
Alignment explanation
Indices: 45245185--45245465 Score: 363
Period size: 124 Copynumber: 2.3 Consensus size: 125
45245175 TTTTTTTGAG
* ** ** * *
45245185 TTGACGTTTCTG-GTTAAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
* * *
45245249 GAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGT-GGTCATGT-GAGAAATAA-TTTTTT
65 GAAATAGCGCCCTCGTGGACGCAATTTCGCTACAGTCGGTCATGTAG-GAAATAATTTTTTT
* * *
45245308 TTGACGTTTTCTGAGGAAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGT
1 TTGACG-TTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGT
*
45245373 GAAATCGCGCCCTCGTGGACGCAATTTCGCTACAGTCGGTCATGTAGGAAATAATTTTTTT
65 GAAATAGCGCCCTCGTGGACGCAATTTCGCTACAGTCGGTCATGTAGGAAATAATTTTTTT
* *
45245434 TTGACGTTTCTGAGCAAACAGTGTTAAATCGC
1 TTGACGTTTCTGAGCAAATAGTGTAAAATCGC
45245466 GCCCTCGTGG
Statistics
Matches: 136, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
123 6 0.04
124 79 0.58
125 38 0.28
126 13 0.10
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTG
AAATAGCGCCCTCGTGGACGCAATTTCGCTACAGTCGGTCATGTAGGAAATAATTTTTTT
Found at i:45246545 original size:17 final size:17
Alignment explanation
Indices: 45246523--45246562 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
45246513 TTGGTGAACT
*
45246523 TGATGTACACGGCTCCG
1 TGATGTACACGGCCCCG
45246540 TGATGTACACGGCCCCG
1 TGATGTACACGGCCCCG
45246557 TGATGT
1 TGATGT
45246563 GTCGGCCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.28, G:0.30, T:0.25
Consensus pattern (17 bp):
TGATGTACACGGCCCCG
Found at i:45247225 original size:28 final size:29
Alignment explanation
Indices: 45247193--45247248 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
45247183 TTGAAAATAT
45247193 TAAAAATTTTAAAA-TTACTTAAAAAAAA
1 TAAAAATTTTAAAATTTACTTAAAAAAAA
*
45247221 TAAAAATTTTAAAATTTTCTTAAAAAAA
1 TAAAAATTTTAAAATTTACTTAAAAAAA
45247249 TGAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (29 bp):
TAAAAATTTTAAAATTTACTTAAAAAAAA
Found at i:45247321 original size:22 final size:22
Alignment explanation
Indices: 45247291--45247332 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
45247281 ATTTGGAGAT
*
45247291 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
45247313 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
45247333 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:45247340 original size:30 final size:30
Alignment explanation
Indices: 45247304--45247362 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
45247294 TTGAAGGAAA
* *
45247304 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
45247334 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
45247363 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:45247353 original size:52 final size:51
Alignment explanation
Indices: 45247282--45247384 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
45247272 TTAATATGGA
* * *
45247282 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
45247333 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
45247385 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:45247400 original size:22 final size:21
Alignment explanation
Indices: 45247334--45247401 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
45247324 ATTTGAGAGT
*
45247334 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAGG-AA
*
45247356 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAG-AATTTTGAAAGGAA
45247378 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAA-TTTTGAAAGGAA
45247400 TT
1 TT
45247402 TGTTTGTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 2 0.05
22 29 0.71
23 10 0.24
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAAGGAA
Found at i:45251561 original size:81 final size:81
Alignment explanation
Indices: 45251474--45251635 Score: 324
Period size: 81 Copynumber: 2.0 Consensus size: 81
45251464 CCAATATAAA
45251474 TGAAAAAAAACCGGTTTCGAGATTTTCCGGTGAGCGAAGAGGGAGGAGATAAGAAGAGTGGAGAA
1 TGAAAAAAAACCGGTTTCGAGATTTTCCGGTGAGCGAAGAGGGAGGAGATAAGAAGAGTGGAGAA
45251539 AGGAAGGGGGTCTAAC
66 AGGAAGGGGGTCTAAC
45251555 TGAAAAAAAACCGGTTTCGAGATTTTCCGGTGAGCGAAGAGGGAGGAGATAAGAAGAGTGGAGAA
1 TGAAAAAAAACCGGTTTCGAGATTTTCCGGTGAGCGAAGAGGGAGGAGATAAGAAGAGTGGAGAA
45251620 AGGAAGGGGGTCTAAC
66 AGGAAGGGGGTCTAAC
45251636 CAATGGGATT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.37, C:0.10, G:0.37, T:0.16
Consensus pattern (81 bp):
TGAAAAAAAACCGGTTTCGAGATTTTCCGGTGAGCGAAGAGGGAGGAGATAAGAAGAGTGGAGAA
AGGAAGGGGGTCTAAC
Found at i:45252836 original size:13 final size:13
Alignment explanation
Indices: 45252800--45252836 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
45252790 CTCTTTCTAT
45252800 TTTTTATTTTTTA
1 TTTTTATTTTTTA
* *
45252813 TTTATAATTTTTA
1 TTTTTATTTTTTA
45252826 TTTTTATTTTT
1 TTTTTATTTTT
45252837 GGAAAGTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:45261709 original size:26 final size:26
Alignment explanation
Indices: 45261662--45261711 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
45261652 AGGGGGAGCC
* *
45261662 TCGCGCCGCAACCAGGATCTTCACGT
1 TCGCGCCGCAACCACGACCTTCACGT
* *
45261688 TCGCGCCGCAGCCCCGACCTTCAC
1 TCGCGCCGCAACCACGACCTTCAC
45261712 CTGCAGCAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.16, C:0.46, G:0.22, T:0.16
Consensus pattern (26 bp):
TCGCGCCGCAACCACGACCTTCACGT
Found at i:45262465 original size:14 final size:15
Alignment explanation
Indices: 45262448--45262480 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
45262438 GTTTATTGAC
*
45262448 TTATGTTTT-TTCAT
1 TTATATTTTGTTCAT
45262462 TTATATTTTGTTCAT
1 TTATATTTTGTTCAT
45262477 TTAT
1 TTAT
45262481 TTGATATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (15 bp):
TTATATTTTGTTCAT
Found at i:45262602 original size:19 final size:20
Alignment explanation
Indices: 45262561--45262602 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
45262551 ATTTCTATGC
* *
45262561 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
45262581 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
45262600 CAT
1 CAT
45262603 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:45263182 original size:14 final size:13
Alignment explanation
Indices: 45263165--45263237 Score: 51
Period size: 14 Copynumber: 5.5 Consensus size: 13
45263155 ATTTTAAAAA
45263165 TTAAAACAAAAATT
1 TTAAAA-AAAAATT
**
45263179 TTAAAAAAGTATT
1 TTAAAAAAAAATT
*
45263192 TT--AAAAATATT
1 TTAAAAAAAAATT
*
45263203 TTAAAATTAAAAAAT
1 TTAAAA--AAAAATT
*
45263218 TTAAAAAAAGTATT
1 TTAAAAAAA-AATT
45263232 TTAAAA
1 TTAAAA
45263238 GTATTTTAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 10 0.21
13 12 0.26
14 14 0.30
15 11 0.23
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (13 bp):
TTAAAAAAAAATT
Found at i:45263226 original size:40 final size:40
Alignment explanation
Indices: 45263172--45263266 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
45263162 AAATTAAAAC
45263172 AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
* *
45263212 AAAAATTTAAAAAAAGTATTTTAAAAGTATTTTAAAATTA
1 AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
45263252 AACAAATTTTAAAAA
1 AA-AAATTTTAAAAA
45263267 TAAAAATATT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 40 0.78
41 11 0.22
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (40 bp):
AAAAATTTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:45263237 original size:11 final size:11
Alignment explanation
Indices: 45263223--45263248 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45263213 AAAATTTAAA
45263223 AAAAGTATTTT
1 AAAAGTATTTT
45263234 AAAAGTATTTT
1 AAAAGTATTTT
45263245 AAAA
1 AAAA
45263249 TTAAACAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:45264254 original size:41 final size:41
Alignment explanation
Indices: 45264197--45264305 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
45264187 TTTAACATAT
*
45264197 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT-CAGA
*
45264238 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
45264279 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
45264306 AAGTCTGAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.03
41 61 0.97
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:45264336 original size:82 final size:81
Alignment explanation
Indices: 45264197--45264354 Score: 205
Period size: 82 Copynumber: 1.9 Consensus size: 81
45264187 TTTAACATAT
* *
45264197 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAATCACCGGCACTTAGCCTGCTAGG-
1 TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATT-CAATCACCGGCACTTAGCCTGCTAGGT
45264261 TTTATAACCTGATTCAGA
65 TTTA-AACCTGATTCAGA
* * *
45264279 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-ATTTCACTGGC-CTTAAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTG-ATTCA-ATCACCGGCACTT-AGCCTGCTAG
45264342 GTTTTAAACCTGA
63 GTTTTAAACCTGA
45264355 AAATTTCAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
81 4 0.06
82 56 0.84
83 7 0.10
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (81 bp):
TCACCGGCACTTAGCCTGCTAGACTTAAAGCCTGATTCAATCACCGGCACTTAGCCTGCTAGGTT
TTAAACCTGATTCAGA
Found at i:45264355 original size:41 final size:41
Alignment explanation
Indices: 45264197--45264355 Score: 157
Period size: 41 Copynumber: 3.9 Consensus size: 41
45264187 TTTAACATAT
* *
45264197 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG-ATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGTTTA-AACCTGAATT-CAGA
45264238 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTG-ATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTA-AACCTGAATTCAGA
** * **
45264279 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCTGAATT-ATT
1 TCACCGGCACTTAGCCTGCTAGGTTTAAA-CCTGAATTCAGA
*
45264320 TCACTGGC-CTTAAGCCTGCTAGGTTTTAAACCTGAA
1 TCACCGGCACTT-AGCCTGCTAGG-TTTAAACCTGAA
45264356 AATTTCAATT
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
40 7 0.07
41 87 0.85
42 8 0.08
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.30
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTAAACCTGAATTCAGA
Found at i:45264605 original size:34 final size:34
Alignment explanation
Indices: 45264549--45264627 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 34
45264539 ACAATAATTT
*
45264549 TACATATATATATTCACCTATTCGAA-ACTAACTA
1 TACATATATATATTCACCTATTC-AATACTAACCA
* * *
45264583 TACATATATAT-TTGTACGTATTCAATACTACCCA
1 TACATATATATATT-CACCTATTCAATACTAACCA
*
45264617 TATATATATAT
1 TACATATATAT
45264628 GTAAACTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (34 bp):
TACATATATATATTCACCTATTCAATACTAACCA
Found at i:45271836 original size:41 final size:41
Alignment explanation
Indices: 45271665--45271814 Score: 230
Period size: 41 Copynumber: 3.7 Consensus size: 41
45271655 TTTAACATAT
*
45271665 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCA-A
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATT-CAGA
*
45271706 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
* * *
45271747 TCATCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
45271788 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
45271815 AAGTCTGAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 2 0.02
41 98 0.98
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:45271845 original size:82 final size:82
Alignment explanation
Indices: 45271664--45271863 Score: 239
Period size: 82 Copynumber: 2.4 Consensus size: 82
45271654 ATTTAACATA
* * *
45271664 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCAATCACCGGCACTTAGCCTGCTAGA
*
45271729 TTTATAACCTGATTCAG
66 CTTATAACCTGATTCAG
* * *
45271746 ATCATCGACACTTAGCCTGCTAGGTTTATAACCTGATT-CAGATCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCA-ATCACCGGCACTTAGCCTGCTAG
* *
45271810 ACTTA-AAGTCTGAATT-AT
65 ACTTATAA-CCTG-ATTCAG
45271828 TTCACCGGC-CTTAAGCCTGCTAGGTTT-TAAACCTGA
1 TTCACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
45271864 AAATTTCAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
81 8 0.08
82 90 0.89
83 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.30
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCCAATCACCGGCACTTAGCCTGCTAGA
CTTATAACCTGATTCAG
Found at i:45272114 original size:34 final size:34
Alignment explanation
Indices: 45272058--45272136 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 34
45272048 ACAATAATTT
*
45272058 TACATATATATATTCACCTATTCGAA-ACTAACTA
1 TACATATATATATTCACCTATTC-AATACTAACCA
* * *
45272092 TACATATATAT-TTGTACGTATTCAATACTACCCA
1 TACATATATATATT-CACCTATTCAATACTAACCA
*
45272126 TATATATATAT
1 TACATATATAT
45272137 GTAAACTTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
33 4 0.11
34 34 0.89
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (34 bp):
TACATATATATATTCACCTATTCAATACTAACCA
Found at i:45273561 original size:9 final size:9
Alignment explanation
Indices: 45273544--45273580 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
45273534 TAAGTTTTCG
45273544 AATTCGAAT
1 AATTCGAAT
*
45273553 AACTCGAAT
1 AATTCGAAT
45273562 AATTCGAAT
1 AATTCGAAT
45273571 AATTCGAAT
1 AATTCGAAT
45273580 A
1 A
45273581 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:45277740 original size:31 final size:31
Alignment explanation
Indices: 45277705--45277797 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 31
45277695 TTTTAGAGTT
*
45277705 AGGACTAAATTGATAGATTTTGTAAATATTG
1 AGGACTAAATTGATAAATTTTGTAAATATTG
* * * * *
45277736 AGGACCAAATTTATTACATTTTTTAGA-ATT-
1 AGGACTAAATTGA-TAAATTTTGTAAATATTG
* * *
45277766 AGAACTAAAATGACAAATTTTGTAAATATTG
1 AGGACTAAATTGATAAATTTTGTAAATATTG
45277797 A
1 A
45277798 AGGCTAATTT
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 9 0.20
30 12 0.26
31 15 0.33
32 10 0.22
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.38
Consensus pattern (31 bp):
AGGACTAAATTGATAAATTTTGTAAATATTG
Found at i:45277810 original size:61 final size:61
Alignment explanation
Indices: 45277694--45277821 Score: 161
Period size: 61 Copynumber: 2.1 Consensus size: 61
45277684 TATTTTTTAA
* * * * *
45277694 TTTTTAGAGTTAGGACTAAATTGATAGATTTTGTAAATATTGAGGACCAAATTTATT-ACAT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGGACCAAATTTATTGA-AT
* *
45277755 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAAGG-CTAATTTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTG-AGGACCAAATTTATTGAAT
45277816 TTTTTA
1 TTTTTA
45277822 TATTTTATGA
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
61 54 0.93
62 4 0.07
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATGACAAATTTTGTAAATATTGAGGACCAAATTTATTGAAT
Found at i:45279882 original size:16 final size:17
Alignment explanation
Indices: 45279855--45279887 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
45279845 GGTTATCTTC
45279855 TTCTTCTTTTCTTTTTT
1 TTCTTCTTTTCTTTTTT
45279872 TTCTT-TTTTCTTTTTT
1 TTCTTCTTTTCTTTTTT
45279888 ATGATGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTCTTCTTTTCTTTTTT
Found at i:45285727 original size:32 final size:32
Alignment explanation
Indices: 45285686--45285749 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
45285676 TCAATACTAG
*
45285686 TCAGAACGATAAAGTGAAGTTGATAGATGCTA
1 TCAGAACGATAAAGTGAAGTTGACAGATGCTA
*
45285718 TCAGAACGATAAAGTGAAGTTGGCAGATGCTA
1 TCAGAACGATAAAGTGAAGTTGACAGATGCTA
45285750 ACTCTGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (32 bp):
TCAGAACGATAAAGTGAAGTTGACAGATGCTA
Found at i:45289194 original size:29 final size:29
Alignment explanation
Indices: 45289154--45289211 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
45289144 TTATAATATC
45289154 ATCTTTGTCAAAGCTCATCACGGGCCTAT
1 ATCTTTGTCAAAGCTCATCACGGGCCTAT
45289183 ATCTTTGTCAAAGCTCATCACGGGCCTAT
1 ATCTTTGTCAAAGCTCATCACGGGCCTAT
45289212 CTTGAACTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (29 bp):
ATCTTTGTCAAAGCTCATCACGGGCCTAT
Found at i:45292132 original size:6 final size:7
Alignment explanation
Indices: 45292115--45292142 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
45292105 TAAGTATGTC
45292115 TTTTTAA
1 TTTTTAA
45292122 TTTTTAA
1 TTTTTAA
45292129 TTTTTAA
1 TTTTTAA
45292136 TTTTTAA
1 TTTTTAA
45292143 AATTCATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTAA
Found at i:45301191 original size:9 final size:9
Alignment explanation
Indices: 45301173--45301268 Score: 106
Period size: 9 Copynumber: 10.4 Consensus size: 9
45301163 TTTGGTTAAA
45301173 AATTACCCG
1 AATTACCCG
*
45301182 AATTATCCG
1 AATTACCCG
45301191 AATTACCC-
1 AATTACCCG
45301199 AACTTACCCG
1 AA-TTACCCG
*
45301209 AATTACTC-
1 AATTACCCG
45301217 AACTTACCCG
1 AA-TTACCCG
*
45301227 ACTTACCCG
1 AATTACCCG
*
45301236 AATTAACCG
1 AATTACCCG
45301245 AAAATTACCCG
1 --AATTACCCG
45301256 AATTACCCG
1 AATTACCCG
45301265 AATT
1 AATT
45301269 GACACTTTGA
Statistics
Matches: 73, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
8 4 0.05
9 58 0.79
10 3 0.04
11 8 0.11
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:45301254 original size:20 final size:20
Alignment explanation
Indices: 45301229--45301266 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
45301219 CTTACCCGAC
45301229 TTACCCGAATTAACCGAAAA
1 TTACCCGAATTAACCGAAAA
*
45301249 TTACCCGAATTACCCGAA
1 TTACCCGAATTAACCGAA
45301267 TTGACACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (20 bp):
TTACCCGAATTAACCGAAAA
Found at i:45302049 original size:16 final size:16
Alignment explanation
Indices: 45302028--45302067 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
45302018 GCCTAAGAGA
45302028 AAATTGGGCTGGATTT
1 AAATTGGGCTGGATTT
*
45302044 AAATTGGGCTGGGTTT
1 AAATTGGGCTGGATTT
45302060 AAATTGGG
1 AAATTGGG
45302068 AGGGAGTAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.25, C:0.05, G:0.35, T:0.35
Consensus pattern (16 bp):
AAATTGGGCTGGATTT
Found at i:45309670 original size:20 final size:20
Alignment explanation
Indices: 45309632--45309670 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45309622 TTGTTTGTAA
* * *
45309632 CTTTTATGTTTTATTTTTTT
1 CTTTTATATTATATATTTTT
45309652 CTTTTATATTATATATTTT
1 CTTTTATATTATATATTTT
45309671 GTAAATGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
CTTTTATATTATATATTTTT
Found at i:45311957 original size:31 final size:29
Alignment explanation
Indices: 45311897--45311964 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
45311887 GTGATAGTTT
*
45311897 AAGTACCACATTAGACATTTTCAAAGTAC
1 AAGTACCACATTAGACATTATCAAAGTAC
*
45311926 AAGTACCACATTAGACATGTAATGAAAGTAC
1 AAGTACCACATTAGACAT-T-ATCAAAGTAC
*
45311957 AGGTACCA
1 AAGTACCA
45311965 AATAATACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 18 0.53
30 1 0.03
31 15 0.44
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (29 bp):
AAGTACCACATTAGACATTATCAAAGTAC
Found at i:45312052 original size:91 final size:91
Alignment explanation
Indices: 45311797--45312058 Score: 260
Period size: 91 Copynumber: 2.9 Consensus size: 91
45311787 ATATCCAGAT
* * * * ** * * * *
45311797 TGATAGTTCAAGTACCACATTAAATATTTTCAAAGTATAAGTATCATGTTGGGCATTTCATGAAA
1 TGATAGTTCAAGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTAGACATGTAATGAAA
* *
45311862 GTTCA--AACCTTAAATAATACACAAAG
66 GTACAGGTACC--AAATAATACACAAAG
*
45311888 TGATAGTTTAAGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTAGACATGTAATGAAA
1 TGATAGTTCAAGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTAGACATGTAATGAAA
*
45311953 GTACAGGTACCAAATAATACACAAAT
66 GTACAGGTACCAAATAATACACAAAG
* ** * * * * * *
45311979 TGATGGTTCAAGTACGGCATTAGACATTTTTAAGGTACATA-TACCACATTGGATATTTTATGAA
1 TGATAGTTCAAGTACCACATTAGACATTTTCAAAGTACA-AGTACCACATTAGACATGTAATGAA
*
45312043 AGTATAGGTACCAAAT
65 AGTACAGGTACCAAAT
45312059 GTGACATTAT
Statistics
Matches: 143, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
91 139 0.97
92 1 0.01
93 3 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (91 bp):
TGATAGTTCAAGTACCACATTAGACATTTTCAAAGTACAAGTACCACATTAGACATGTAATGAAA
GTACAGGTACCAAATAATACACAAAG
Found at i:45316347 original size:171 final size:170
Alignment explanation
Indices: 45316048--45316562 Score: 958
Period size: 170 Copynumber: 3.0 Consensus size: 170
45316038 TGTATTTTAA
45316048 CATTGATACTCTTATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTTG
1 CATTGATACTCTTATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTTG
*
45316113 ATTGGCTAACCGAGAGATCTAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
66 ATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
45316178 GGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
131 GGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
45316218 CATTGATACTCTTATTCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTT
1 CATTGATACTCTTA-TCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTT
*
45316283 GATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTCTTGCAAATCTTGTTGACTTGAAGA
65 GATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGA
*
45316348 GGGATGTTCATTTTTGTACTCACATATTGCTTTTCTCATCT
130 GGGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
* *
45316389 CATTGATACTCTCATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTTTTTGATATTGTTG
1 CATTGATACTCTTATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTTG
*
45316454 ATTGGCTAACCGAGAGATTAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
66 ATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
*
45316519 GGATGCTCATTTTTGTACTCACATTTTGCTTTTCTCATCT
131 GGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
45316559 CATT
1 CATT
45316563 TGTCAATATA
Statistics
Matches: 335, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
170 169 0.50
171 166 0.50
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (170 bp):
CATTGATACTCTTATCTCTTTTGACAAATATTTAGATGACCTTGTAAGAGTATTTGATATTGTTG
ATTGGCTAACCGAGAGATCAAATGTTTGTTGAACCCACTGTTGCAAATCTTGTTGACTTGAAGAG
GGATGCTCATTTTTGTACTCACATATTGCTTTTCTCATCT
Found at i:45316868 original size:20 final size:21
Alignment explanation
Indices: 45316845--45316888 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
45316835 TGCATAAAGT
*
45316845 ATAAAATAT-TCACTAAATTA
1 ATAAAATATATCAATAAATTA
*
45316865 AT-AAATTTATCAATAAATTA
1 ATAAAATATATCAATAAATTA
45316885 ATAA
1 ATAA
45316889 CCTCGATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 5 0.25
20 14 0.70
21 1 0.05
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAAAATATATCAATAAATTA
Found at i:45317576 original size:18 final size:19
Alignment explanation
Indices: 45317540--45317597 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
45317530 AGGGAGAAGT
*
45317540 AGAAAAAATGAAAAAT-AA
1 AGAAAAAAAGAAAAATAAA
**
45317558 AGAAAAAAAGAAAGTTAAA
1 AGAAAAAAAGAAAAATAAA
45317577 AGAACATAAAAGAAAAA-AAA
1 AGAA-A-AAAAGAAAAATAAA
45317597 A
1 A
45317598 TTAAATAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 13 0.41
19 6 0.19
20 5 0.16
21 8 0.25
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.09
Consensus pattern (19 bp):
AGAAAAAAAGAAAAATAAA
Found at i:45318041 original size:27 final size:28
Alignment explanation
Indices: 45318002--45318058 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 28
45317992 ATCAAAATGT
*
45318002 TATAACTTTTTTTATTTACCAAAAAATA
1 TATAACTTCTTTTATTTACCAAAAAATA
*
45318030 TATAA-TTCTTTTATTTACCAAAATATA
1 TATAACTTCTTTTATTTACCAAAAAATA
45318057 TA
1 TA
45318059 AAAAAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (28 bp):
TATAACTTCTTTTATTTACCAAAAAATA
Found at i:45318076 original size:25 final size:26
Alignment explanation
Indices: 45318048--45318098 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
45318038 TTTTATTTAC
* *
45318048 CAAAATATATAAAAAA-ACAAAAAAA
1 CAAAAAATAGAAAAAATACAAAAAAA
*
45318073 CAAAAAATAGAAAAAATAGAAAAAAA
1 CAAAAAATAGAAAAAATACAAAAAAA
45318099 ACCTGAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.80, C:0.06, G:0.04, T:0.10
Consensus pattern (26 bp):
CAAAAAATAGAAAAAATACAAAAAAA
Found at i:45318249 original size:18 final size:17
Alignment explanation
Indices: 45318226--45318402 Score: 71
Period size: 18 Copynumber: 10.0 Consensus size: 17
45318216 GAAGGAGAGG
45318226 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
45318244 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
45318261 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
*
45318277 GGAAAGAAAGAAAGAGAA
1 GG-AAGAAAGAAAAAGAA
** *
45318295 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
45318315 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
*
45318333 GGAAAGAAAAGGAAAGGAGAA
1 GG-AAG-AAA-GAAA-AAGAA
45318354 -GAGAGAAA-AAAAAGAA
1 GGA-AGAAAGAAAAAGAA
* **
45318370 AGAAG-AAGAAGAGGGAA
1 GGAAGAAAGAA-AAAGAA
*
45318387 GGAAGGAA-AAAAAGAA
1 GGAAGAAAGAAAAAGAA
45318403 AATAAGGTAA
Statistics
Matches: 125, Mismatches: 19, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
15 11 0.09
16 16 0.13
17 19 0.15
18 30 0.24
19 26 0.21
20 20 0.16
21 3 0.02
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:45318259 original size:10 final size:10
Alignment explanation
Indices: 45318228--45318376 Score: 58
Period size: 10 Copynumber: 15.1 Consensus size: 10
45318218 AGGAGAGGGG
*
45318228 AAGAAGAAGA
1 AAGAAAAAGA
45318238 AAGAAAGGAAGA
1 AAGAAA--AAGA
45318250 AAGAAAAAGA
1 AAGAAAAAGA
* *
45318260 AGGAAAAGGA
1 AAGAAAAAGA
* * *
45318270 AAGGAGAGGA
1 AAGAAAAAGA
45318280 AAG--AAAGA
1 AAGAAAAAGA
* *
45318288 AAGAGAAGGA
1 AAGAAAAAGA
*
45318298 AAGAAAAGGA
1 AAGAAAAAGA
*** *
45318308 AAGGGGAGGA
1 AAGAAAAAGA
45318318 AAG--AAAGA
1 AAGAAAAAGA
*
45318326 AA-AATAAGGA
1 AAGAA-AAAGA
*
45318336 AAGAAAAGGA
1 AAGAAAAAGA
* *
45318346 AAGGAGAAGA
1 AAGAAAAAGA
*
45318356 GAGAAAAA-A
1 AAGAAAAAGA
45318365 AAGAAAGAAGA
1 AAGAAA-AAGA
45318376 A
1 A
45318377 GAAGAGGGAA
Statistics
Matches: 106, Mismatches: 23, Indels: 19
0.72 0.16 0.13
Matches are distributed among these distances:
8 11 0.10
9 6 0.06
10 75 0.71
11 4 0.04
12 10 0.09
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:45318274 original size:5 final size:5
Alignment explanation
Indices: 45318259--45318350 Score: 61
Period size: 5 Copynumber: 19.0 Consensus size: 5
45318249 AAAGAAAAAG
* *
45318259 AAGGAA AAGGA AAGGA GAGGA AA-GA AA-GA AA-GA GAAGGA AAGAA AAGGA
1 AAGG-A AAGGA AAGGA AAGGA AAGGA AAGGA AAGGA -AAGGA AAGGA AAGGA
* * * *
45318308 AAGGG GAGGA AA-GA AA-GA AA-AA TAAGGA AAGAA AAGGA AAGGA
1 AAGGA AAGGA AAGGA AAGGA AAGGA -AAGGA AAGGA AAGGA AAGGA
45318351 GAAGAGAGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
4 19 0.27
5 44 0.63
6 7 0.10
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.01
Consensus pattern (5 bp):
AAGGA
Found at i:45318286 original size:28 final size:28
Alignment explanation
Indices: 45318235--45318370 Score: 77
Period size: 28 Copynumber: 4.8 Consensus size: 28
45318225 GGGAAGAAGA
* *
45318235 AGAAAGAAAG-GAA-GAAAGAAAAAGAA
1 AGAAAGAAAGAAAAGGAAAGAAAAGGAA
* * *
45318261 GGAAAAGGAAAGGAGAGGAAAG-AAA-GAA
1 AG-AAA-GAAAGAAAAGGAAAGAAAAGGAA
***
45318289 AGAGAAGGAAAGAAAAGGAAAGGGGAGGAA
1 AGA-AA-GAAAGAAAAGGAAAGAAAAGGAA
45318319 AGAAAGAAA-AATAAGGAAAGAAAAGGAA
1 AGAAAGAAAGAA-AAGGAAAGAAAAGGAA
* *
45318347 AGGAGAAGAGAGAAAA-AAAAGAAA
1 A-GA-AAGAAAGAAAAGGAAAGAAA
45318371 GAAGAAGAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
26 1 0.01
27 6 0.07
28 43 0.50
29 16 0.19
30 18 0.21
31 2 0.02
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (28 bp):
AGAAAGAAAGAAAAGGAAAGAAAAGGAA
Found at i:45318291 original size:38 final size:38
Alignment explanation
Indices: 45318240--45318403 Score: 172
Period size: 38 Copynumber: 4.3 Consensus size: 38
45318230 GAAGAAGAAA
* *
45318240 GAAAGGAAGAAAGAAAAAGAAGGAAAAGGAAAGGAGAG
1 GAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAG
* * *
45318278 GAAAGAAAGAAAGAGAAGGAAAGAAAAGGAAAGGGGAG
1 GAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAG
* *
45318316 GAAAGAAAGAAA-AATAAGGAAAGAAAAGGAAAGGAGAA
1 GAAAGAAAGAAAGAA-AAAGAAAGAAAAGGAAAGGAGAG
* * * *
45318354 GAGAGAAAAAAAAGAAAGAAG-AAGAAGAGGGAAGGA-AG
1 GAAAG-AAAGAAAGAAA-AAGAAAGAAAAGGAAAGGAGAG
*
45318392 GAAAAAAAGAAA
1 GAAAGAAAGAAA
45318404 ATAAGGTAAT
Statistics
Matches: 105, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
37 7 0.07
38 74 0.70
39 20 0.19
40 4 0.04
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (38 bp):
GAAAGAAAGAAAGAAAAAGAAAGAAAAGGAAAGGAGAG
Found at i:45319110 original size:19 final size:19
Alignment explanation
Indices: 45319077--45319127 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
45319067 AAAAAATATA
** *
45319077 TAATATTTTGGTATTTTTT
1 TAATATTTTATTATTTTTG
45319096 TAATATTTTATTA-TTTTG
1 TAATATTTTATTATTTTTG
*
45319114 TAATGTTTTATTAT
1 TAATATTTTATTAT
45319128 GGGTTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:45319210 original size:26 final size:27
Alignment explanation
Indices: 45319163--45319228 Score: 109
Period size: 26 Copynumber: 2.5 Consensus size: 27
45319153 AAATAAAAAA
45319163 TTACCAAAATAT-TATAACTTTTTTAT
1 TTACCAAAATATATATAACTTTTTTAT
*
45319189 TTACCAAAAAATATATAA-TTTTTTAT
1 TTACCAAAATATATATAACTTTTTTAT
45319215 TTACCAAAATATAT
1 TTACCAAAATATAT
45319229 CAAAAAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 32 0.86
27 5 0.14
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.45
Consensus pattern (27 bp):
TTACCAAAATATATATAACTTTTTTAT
Found at i:45319251 original size:17 final size:17
Alignment explanation
Indices: 45319229--45319262 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45319219 CAAAATATAT
*
45319229 CAAAAAAAGTAAAAAAA
1 CAAAAAAAATAAAAAAA
45319246 CAAAAAAAATAAAAAAA
1 CAAAAAAAATAAAAAAA
45319263 AAACAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (17 bp):
CAAAAAAAATAAAAAAA
Found at i:45321133 original size:24 final size:24
Alignment explanation
Indices: 45321101--45321147 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
45321091 TATTTTTTTG
45321101 ATATATTTTGGTAAATAAAAAAAT
1 ATATATTTTGGTAAATAAAAAAAT
*
45321125 ATATTTTTTGGTAAATAAAAAAA
1 ATATATTTTGGTAAATAAAAAAA
45321148 ATTATAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (24 bp):
ATATATTTTGGTAAATAAAAAAAT
Found at i:45322471 original size:13 final size:13
Alignment explanation
Indices: 45322455--45322494 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
45322445 TTTAAACCAA
45322455 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * *
45322468 ACTTTTCCACAGT
1 ACTTTTCAAAAGC
45322481 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
45322494 A
1 A
45322495 ATGAAGAACT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:45322842 original size:17 final size:17
Alignment explanation
Indices: 45322763--45322842 Score: 51
Period size: 17 Copynumber: 4.5 Consensus size: 17
45322753 TCAATTTTTA
45322763 ATTATAATTATAATTATATT
1 ATTATAATT-TAA--ATATT
* *
45322783 ATTAT-TTATTAAATGCTT
1 ATTATAAT-TTAAAT-ATT
45322801 ATTA-AATTTGAAATA-T
1 ATTATAATTT-AAATATT
45322817 A-TATAAATTTAAATATT
1 ATTAT-AATTTAAATATT
45322834 ATTATAATT
1 ATTATAATT
45322843 ATTTTTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 19
0.68 0.06 0.27
Matches are distributed among these distances:
15 2 0.04
16 7 0.15
17 15 0.31
18 14 0.29
19 4 0.08
20 6 0.12
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTATAATTTAAATATT
Found at i:45334072 original size:18 final size:19
Alignment explanation
Indices: 45334051--45334089 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
45334041 TTTTAAAAAA
*
45334051 TTTTAAAATTTTAT-ATTT
1 TTTTAAAATTTAATAATTT
*
45334069 TTTTATAATTTAATAATTT
1 TTTTAAAATTTAATAATTT
45334088 TT
1 TT
45334090 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTAAAATTTAATAATTT
Found at i:45339283 original size:14 final size:14
Alignment explanation
Indices: 45339264--45339293 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45339254 CCCTCGTAGG
*
45339264 GTTATCGTATACTT
1 GTTATCATATACTT
45339278 GTTATCATATACTT
1 GTTATCATATACTT
45339292 GT
1 GT
45339294 GCACATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.50
Consensus pattern (14 bp):
GTTATCATATACTT
Found at i:45340443 original size:40 final size:40
Alignment explanation
Indices: 45340388--45340468 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
45340378 ATATATAAGT
45340388 ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
1 ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
45340428 ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
1 ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
45340468 A
1 A
45340469 CATCCACGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.40
Consensus pattern (40 bp):
ATATTTTACCAATTCATGCAACCCTTAACATATTTATGTA
Found at i:45341204 original size:24 final size:24
Alignment explanation
Indices: 45341177--45341249 Score: 69
Period size: 24 Copynumber: 3.0 Consensus size: 24
45341167 GATATATAAC
45341177 AGAAGCTCATAAGAGCCATAATCG
1 AGAAGCTCATAAGAGCCATAATCG
**
45341201 AGAAGCTCATGCGAGCCAATAA-CG
1 AGAAGCTCATAAGAGCC-ATAATCG
* *
45341225 GGTAGCTC-TGAAGAGCCATTAATCG
1 AGAAGCTCAT-AAGAGCCA-TAATCG
45341250 GAGAGTGGCT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
23 2 0.05
24 31 0.79
25 6 0.15
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (24 bp):
AGAAGCTCATAAGAGCCATAATCG
Found at i:45341444 original size:20 final size:19
Alignment explanation
Indices: 45341405--45341445 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45341395 AATTTGTTTG
* *
45341405 TTTAGTTAATTAACCTTAA
1 TTTAGTTAAATAAACTTAA
45341424 TTTAGTTAAATAATACTTAA
1 TTTAGTTAAATAA-ACTTAA
45341444 TT
1 TT
45341446 AATTAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAGTTAAATAAACTTAA
Found at i:45347340 original size:16 final size:18
Alignment explanation
Indices: 45347319--45347356 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
45347309 GCAGCAAACC
45347319 ATTTTGCT-AAAATC-AT
1 ATTTTGCTAAAAATCAAT
45347335 ATTTTGCTAAAAATCAAT
1 ATTTTGCTAAAAATCAAT
45347353 ATTT
1 ATTT
45347357 CATGTACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 6 0.30
18 6 0.30
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (18 bp):
ATTTTGCTAAAAATCAAT
Found at i:45348570 original size:76 final size:76
Alignment explanation
Indices: 45348441--45348593 Score: 288
Period size: 76 Copynumber: 2.0 Consensus size: 76
45348431 TCCATTTTGA
* *
45348441 CGGATTTAGTCTCTCGTTTTAGAATATTTAAAGTATTCACATAAATCATAAATCAAATAATAATA
1 CGGATTTAGTCTCTCGTTTTAGAATACTTAAAGTATTCACATAAATCACAAATCAAATAATAATA
45348506 TTTTGTTTAGG
66 TTTTGTTTAGG
45348517 CGGATTTAGTCTCTCGTTTTAGAATACTTAAAGTATTCACATAAATCACAAATCAAATAATAATA
1 CGGATTTAGTCTCTCGTTTTAGAATACTTAAAGTATTCACATAAATCACAAATCAAATAATAATA
45348582 TTTTGTTTAGG
66 TTTTGTTTAGG
45348593 C
1 C
45348594 ATTATTAACG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (76 bp):
CGGATTTAGTCTCTCGTTTTAGAATACTTAAAGTATTCACATAAATCACAAATCAAATAATAATA
TTTTGTTTAGG
Found at i:45353767 original size:132 final size:132
Alignment explanation
Indices: 45353530--45353794 Score: 512
Period size: 132 Copynumber: 2.0 Consensus size: 132
45353520 ACTCATTTCA
*
45353530 TGTTTCGAATCTTTGCCCTAAATTGATTTTATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
1 TGTTTCGAATCTTTGCCCTAAATTGATTTGATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
*
45353595 TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGTTTTCTGTCAGCATGGAAC
66 TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGTTTTCTATCAGCATGGAAC
45353660 TT
131 TT
45353662 TGTTTCGAATCTTTGCCCTAAATTGATTTGATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
1 TGTTTCGAATCTTTGCCCTAAATTGATTTGATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
45353727 TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGTTTTCTATCAGCATGGAAC
66 TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGTTTTCTATCAGCATGGAAC
45353792 TT
131 TT
45353794 T
1 T
45353795 CTTTGTATAG
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (132 bp):
TGTTTCGAATCTTTGCCCTAAATTGATTTGATTGGTATCAAGCTGTTACCATTTGTGTTCCTTTT
TTAATATATATTCTTTGGGTATTTTTGCGTTGTGCACTAATGGATGTTTTCTATCAGCATGGAAC
TT
Found at i:45355162 original size:21 final size:21
Alignment explanation
Indices: 45355136--45355198 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
45355126 CTTCGGGGGA
45355136 ATGGGCGGCATGGGCGACATG
1 ATGGGCGGCATGGGCGACATG
*
45355157 ATGGGCGGCATGGGTGACATG
1 ATGGGCGGCATGGGCGACATG
* *
45355178 ATGGGTGGCATGGGCGGCATG
1 ATGGGCGGCATGGGCGACATG
45355199 GGTGGCATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.17, C:0.16, G:0.49, T:0.17
Consensus pattern (21 bp):
ATGGGCGGCATGGGCGACATG
Found at i:45356106 original size:33 final size:33
Alignment explanation
Indices: 45356064--45356126 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
45356054 TTATAGTATT
45356064 ATTAGAGAAGGCAGAGTTGTAGTAAATGCAGTC
1 ATTAGAGAAGGCAGAGTTGTAGTAAATGCAGTC
45356097 ATTAGAGAAGGCAGAGTTGTAGTAAATGCA
1 ATTAGAGAAGGCAGAGTTGTAGTAAATGCA
45356127 AGGCTGACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (33 bp):
ATTAGAGAAGGCAGAGTTGTAGTAAATGCAGTC
Found at i:45356294 original size:93 final size:93
Alignment explanation
Indices: 45356135--45356321 Score: 365
Period size: 93 Copynumber: 2.0 Consensus size: 93
45356125 CAAGGCTGAC
45356135 TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTGAGGGTTTTAACTCCACT
1 TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTGAGGGTTTTAACTCCACT
45356200 CCTTGTAGCTGATGCTAATGGGGTATGT
66 CCTTGTAGCTGATGCTAATGGGGTATGT
*
45356228 TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTTAGGGTTTTAACTCCACT
1 TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTGAGGGTTTTAACTCCACT
45356293 CCTTGTAGCTGATGCTAATGGGGTATGT
66 CCTTGTAGCTGATGCTAATGGGGTATGT
45356321 T
1 T
45356322 TGATGATTTA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (93 bp):
TGTTTTACTTTTCAATGCTACTTTATGCAAGTATTTGCAGCTCCTCTGAGGGTTTTAACTCCACT
CCTTGTAGCTGATGCTAATGGGGTATGT
Found at i:45356489 original size:14 final size:16
Alignment explanation
Indices: 45356470--45356501 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45356460 AGTTAAATTA
45356470 TAAATT-AAA-CATGT
1 TAAATTGAAATCATGT
45356484 TAAATTGAAATCATGT
1 TAAATTGAAATCATGT
45356500 TA
1 TA
45356502 TAGATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 3 0.19
16 7 0.44
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
TAAATTGAAATCATGT
Found at i:45356656 original size:20 final size:20
Alignment explanation
Indices: 45356623--45356675 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
45356613 TTTTATACAC
45356623 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
45356642 ATTTTGAATTTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
45356662 ATTTTGTAATTTTT
1 ATTTTG-AATTTTT
45356676 GTTGAGAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 8 0.25
20 17 0.53
21 7 0.22
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:45356820 original size:23 final size:23
Alignment explanation
Indices: 45356790--45356834 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
45356780 CAACTCGAAC
45356790 TTATTCAAGTTGGCTT-GAATTAT
1 TTATTCAAGTTGG-TTCGAATTAT
45356813 TTATTCAAGTTGGTTCGAATTA
1 TTATTCAAGTTGGTTCGAATTA
45356835 CTCGATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.47
Consensus pattern (23 bp):
TTATTCAAGTTGGTTCGAATTAT
Found at i:45366578 original size:46 final size:46
Alignment explanation
Indices: 45366475--45366635 Score: 267
Period size: 46 Copynumber: 3.6 Consensus size: 46
45366465 TACGTATGAT
* *
45366475 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
45366518 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
45366564 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
*
45366610 TACTTATCACTTTGTCAC-TGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
45366636 AGTACTCAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
43 10 0.09
44 5 0.04
45 28 0.25
46 69 0.62
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:45375031 original size:19 final size:19
Alignment explanation
Indices: 45374995--45375036 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
45374985 TGCATAGATG
* *
45374995 ATATATATTATAGATATAT
1 ATATATATTAAAGATATAA
45375014 ATATATATTAAA-AGTATAA
1 ATATATATTAAAGA-TATAA
45375033 ATAT
1 ATAT
45375037 GTTACCAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
ATATATATTAAAGATATAA
Found at i:45382703 original size:27 final size:27
Alignment explanation
Indices: 45382651--45382703 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
45382641 GAGTAGTTGC
*
45382651 GCCTATCTCAAAGGCGCCAATGGTGGA
1 GCCTATCTCAAAGGCGCCAATAGTGGA
* * *
45382678 GCCTATCTGACAGGCGCCACTAGTGG
1 GCCTATCTCAAAGGCGCCAATAGTGG
45382704 TGCCATGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.28, G:0.30, T:0.19
Consensus pattern (27 bp):
GCCTATCTCAAAGGCGCCAATAGTGGA
Found at i:45384945 original size:60 final size:60
Alignment explanation
Indices: 45384852--45384984 Score: 221
Period size: 60 Copynumber: 2.2 Consensus size: 60
45384842 AATACTAAAC
* * *
45384852 TAAACACAATAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
45384912 TAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 TAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
*
45384972 TAAAAAGCAAAAA
1 TAAACA-CAAAAA
45384985 AATTACAATA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
60 62 0.91
61 6 0.09
ACGTcount: A:0.56, C:0.11, G:0.01, T:0.33
Consensus pattern (60 bp):
TAAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
Found at i:45385093 original size:14 final size:13
Alignment explanation
Indices: 45385068--45385123 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
45385058 TTACCTTTTT
45385068 TTTTTCTTTCTTC
1 TTTTTCTTTCTTC
45385081 TTTTTCTTCTCTTC
1 TTTTTCTT-TCTTC
* *
45385095 TTCTCCTTTC-TC
1 TTTTTCTTTCTTC
45385107 TCTTTTCTTTCTCTC
1 T-TTTTCTTTCT-TC
45385122 TT
1 TT
45385124 CCGTTCATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
12 3 0.09
13 17 0.49
14 12 0.34
15 3 0.09
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTTCTTTCTTC
Found at i:45385112 original size:27 final size:27
Alignment explanation
Indices: 45385073--45385124 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
45385063 TTTTTTTTTT
45385073 CTTTCTTCTTTTTC-TTCTCTTCTTCTC
1 CTTTCTTCTTTTTCTTTCTC-TCTTCTC
45385100 CTTTC-TCTCTTTTCTTTCTCTCTTC
1 CTTTCTTCT-TTTTCTTTCTCTCTTC
45385125 CGTTCATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 3 0.13
27 15 0.65
28 5 0.22
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (27 bp):
CTTTCTTCTTTTTCTTTCTCTCTTCTC
Found at i:45405197 original size:34 final size:35
Alignment explanation
Indices: 45405153--45405219 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
45405143 CAGTAAAATA
*
45405153 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
45405187 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
45405220 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:45406232 original size:13 final size:13
Alignment explanation
Indices: 45406214--45406240 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45406204 AGTTAACTAA
45406214 TCTCACCAGGGAT
1 TCTCACCAGGGAT
45406227 TCTCACCAGGGAT
1 TCTCACCAGGGAT
45406240 T
1 T
45406241 TGAAAGAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (13 bp):
TCTCACCAGGGAT
Found at i:45409359 original size:6 final size:7
Alignment explanation
Indices: 45409339--45409366 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
45409329 ATTCAAACAA
45409339 TTATTTT
1 TTATTTT
45409346 TTATTTT
1 TTATTTT
45409353 TTATTTT
1 TTATTTT
45409360 TTATTTT
1 TTATTTT
45409367 ATAAATGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTATTTT
Found at i:45409958 original size:9 final size:9
Alignment explanation
Indices: 45409918--45409957 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
45409908 ATCGAATTGA
45409918 TAATTAAAT
1 TAATTAAAT
45409927 TAATTAAAT
1 TAATTAAAT
45409936 T--TTAAAT
1 TAATTAAAT
*
45409943 T-ATTAATT
1 TAATTAAAT
45409951 TAATTAA
1 TAATTAA
45409958 TCTAATCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
7 7 0.25
8 6 0.21
9 15 0.54
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TAATTAAAT
Found at i:45415897 original size:42 final size:44
Alignment explanation
Indices: 45415777--45415899 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 44
45415767 ATGGCAGTAC
* * *
45415777 ATGATTTCGTATAAGGCCACGTCTGGGACGTTGGCATCGATTTG
1 ATGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
* *
45415821 A-GATTTACGTGTAAGACCATGTCTGGGACATTGGCATC-ATAT-
1 ATGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
* *
45415863 ATGATTTTGTGTAAGACCACGTCTAGGACGTTGGCAT
1 ATGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
45415900 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.40
43 13 0.19
44 28 0.41
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (44 bp):
ATGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGATATG
Found at i:45418593 original size:13 final size:14
Alignment explanation
Indices: 45418570--45418599 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
45418560 TTTAGGTTAA
45418570 TTAATTTAATAAGT
1 TTAATTTAATAAGT
45418584 TTAA-TTAATAAGT
1 TTAATTTAATAAGT
45418597 TTA
1 TTA
45418600 TTTGGATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAATTTAATAAGT
Found at i:45427481 original size:26 final size:26
Alignment explanation
Indices: 45427313--45427471 Score: 102
Period size: 26 Copynumber: 6.4 Consensus size: 26
45427303 TGGTTATCCG
* *
45427313 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* * ** *
45427338 GGGCTTCTTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
** *
45427364 GAATTTCCTGATT-ATGGCTC-TTAT
1 GAGCTTCCTGATTAATGGCTCTTTGT
* * *
45427388 AAGCTTCCTG-TTATATAGCTC--GGAT
1 GAGCTTCCTGATTA-ATGGCTCTTTG-T
* *
45427413 AAGCTTCCTGA-T--GGGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
45427436 GAGCTTCCTGATTAATGGCTCTTTGT
1 GAGCTTCCTGATTAATGGCTCTTTGT
45427462 GAGCTTCCTG
1 GAGCTTCCTG
45427472 CTATATGGCT
Statistics
Matches: 100, Mismatches: 24, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
22 4 0.04
23 13 0.13
24 12 0.12
25 25 0.25
26 46 0.46
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGT
Found at i:45432342 original size:76 final size:76
Alignment explanation
Indices: 45432212--45432360 Score: 187
Period size: 76 Copynumber: 2.0 Consensus size: 76
45432202 TCGAATATAA
* * * *
45432212 ATATGTATGCATATAATCAAGTTATTGAGTTGGGAATTAATGTATGAATTTTATAATT-ATAGGG
1 ATATGTATGCATATAATCAAATTATTGAGTTGGAAATTAAAGTATGAATTTTAT-ATTCATAGAG
45432276 AGATTCGAACAT
65 AGATTCGAACAT
**
45432288 ATATGTATGCAT-TAAATCAAATTATTGAGTTGGAAATTAAAGTAT-CTTTCTTATATTCATAGA
1 ATATGTATGCATAT-AATCAAATTATTGAGTTGGAAATTAAAGTATGAATT-TTATATTCATAGA
*
45432351 GAGGTTCGAA
64 GAGATTCGAA
45432361 TATAGGTTAC
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
75 6 0.10
76 57 0.90
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (76 bp):
ATATGTATGCATATAATCAAATTATTGAGTTGGAAATTAAAGTATGAATTTTATATTCATAGAGA
GATTCGAACAT
Found at i:45432614 original size:41 final size:41
Alignment explanation
Indices: 45432538--45432616 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
45432528 TATCTGAGAT
* *
45432538 TTTCAGGCTTAATGCCTAGCAGACTTGATGTCGGTGAATAA
1 TTTCAGACTTAATGCCTAGCAGACTTGATGCCGGTGAATAA
* * *
45432579 TTTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAA
1 TTTCAGACTTAATGCCTAGCAGAC-TTGATGCCGGTGAA
45432617 ATGTATCGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 29 0.91
42 3 0.09
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTCAGACTTAATGCCTAGCAGACTTGATGCCGGTGAATAA
Found at i:45436675 original size:26 final size:26
Alignment explanation
Indices: 45436612--45436686 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 26
45436602 CCATAAACCC
*
45436612 AACCCTAAACCCT-AAA-C-ACTA-A
1 AACCTTAAACCCTAAAACCAACTATA
* * *
45436634 AATCTTGAACCATAAAACCAACTATA
1 AACCTTAAACCCTAAAACCAACTATA
* *
45436660 AACCTTAAACCCTAAACCCAACCATA
1 AACCTTAAACCCTAAAACCAACTATA
45436686 A
1 A
45436687 CAATAAGACC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
22 9 0.22
23 3 0.08
24 1 0.03
25 4 0.10
26 23 0.57
ACGTcount: A:0.49, C:0.32, G:0.01, T:0.17
Consensus pattern (26 bp):
AACCTTAAACCCTAAAACCAACTATA
Found at i:45436919 original size:41 final size:40
Alignment explanation
Indices: 45436816--45436935 Score: 107
Period size: 41 Copynumber: 2.9 Consensus size: 40
45436806 CCCTAACCTC
* **
45436816 AAACCATAAACCCTTAA-ACTATAGACCATAGACCATAACCTTT
1 AAACCATAAACCC--AACACTA-A-ACCATAGACCCTAAAATTT
* * *
45436859 AACCCTTAACCCCAACACTAAACCATAGACCCTAAAATCTT
1 AAACCATAAACCCAACACTAAACCATAGACCCTAAAAT-TT
* * *
45436900 AAACCATAAACCCAACACTAGACCTTAAACCCTAAA
1 AAACCATAAACCCAACACTAAACCATAGACCCTAAA
45436936 CCATAAACCC
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
40 14 0.22
41 35 0.56
42 4 0.06
43 10 0.16
ACGTcount: A:0.45, C:0.33, G:0.03, T:0.19
Consensus pattern (40 bp):
AAACCATAAACCCAACACTAAACCATAGACCCTAAAATTT
Found at i:45436944 original size:14 final size:14
Alignment explanation
Indices: 45436876--45437059 Score: 66
Period size: 14 Copynumber: 13.7 Consensus size: 14
45436866 AACCCCAACA
*
45436876 CTAAACCATAGACC
1 CTAAACCATAAACC
* *
45436890 CTAAAATCTTAAACC
1 CT-AAACCATAAACC
* * *
45436905 ATAAACC--CAACA
1 CTAAACCATAAACC
* *
45436917 CTAGACCTTAAACC
1 CTAAACCATAAACC
45436931 CTAAACCATAAACC
1 CTAAACCATAAACC
* *
45436945 C--AAGCAT-AACA
1 CTAAACCATAAACC
*
45436956 CT-AACCCT-AA-C
1 CTAAACCATAAACC
* *
45436967 CTTAACCTTAAACC
1 CTAAACCATAAACC
**
45436981 CTAAAAAATAAA-C
1 CTAAACCATAAACC
* *
45436994 CTTAACTATAAACC
1 CTAAACCATAAACC
*
45437008 CTAAACCCTAAACC
1 CTAAACCATAAACC
* * *
45437022 ATAAATCTTAAACTC
1 CTAAACCATAAAC-C
45437037 C-AAACCAT-AACC
1 CTAAACCATAAACC
*
45437049 TTTAAACCATA
1 -CTAAACCATA
45437060 GACCATAACC
Statistics
Matches: 122, Mismatches: 36, Indels: 23
0.67 0.20 0.13
Matches are distributed among these distances:
11 6 0.05
12 25 0.20
13 15 0.12
14 65 0.53
15 11 0.09
ACGTcount: A:0.47, C:0.32, G:0.02, T:0.20
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:45437019 original size:27 final size:28
Alignment explanation
Indices: 45436921--45437050 Score: 84
Period size: 27 Copynumber: 5.0 Consensus size: 28
45436911 CCAACACTAG
*
45436921 ACCT-TAAACCCTAAACCATAAACC-CA
1 ACCTATAAACCCTAAACCATAAACCTTA
* * *
45436947 AGC-AT-AACACT-AACCCT-AACCTTA
1 ACCTATAAACCCTAAACCATAAACCTTA
**
45436971 ACCT-TAAACCCTAAAAAATAAACCTTA
1 ACCTATAAACCCTAAACCATAAACCTTA
* *
45436998 A-CTATAAACCCTAAACCCTAAACCATAA
1 ACCTATAAACCCTAAACCATAAACC-TTA
*
45437026 ATCT-TAAACTCC-AAACCAT-AACCTT
1 ACCTATAAAC-CCTAAACCATAAACCTT
45437051 TAAACCATAG
Statistics
Matches: 79, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
23 4 0.05
24 9 0.11
25 10 0.13
26 9 0.11
27 29 0.37
28 14 0.18
29 4 0.05
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (28 bp):
ACCTATAAACCCTAAACCATAAACCTTA
Found at i:45437547 original size:19 final size:19
Alignment explanation
Indices: 45437519--45437568 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
45437509 AAGTATGTGT
45437519 CCCTAAACCCTAACACTAAC
1 CCCTAAACCCTAACA-TAAC
*
45437539 CCC-AAACCCTAACATCAC
1 CCCTAAACCCTAACATAAC
45437557 CCCTAAACCCTA
1 CCCTAAACCCTA
45437569 GACCTTAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 6 0.21
19 19 0.68
20 3 0.11
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (19 bp):
CCCTAAACCCTAACATAAC
Found at i:45443418 original size:3 final size:3
Alignment explanation
Indices: 45443412--45443448 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
45443402 TATTATTATT
45443412 ATC ATC ATC ATC ATC ATC ATC ATC AT- ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
45443449 TATTATTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:45443453 original size:3 final size:3
Alignment explanation
Indices: 45443447--45443483 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
45443437 TATCATCATC
45443447 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
45443484 AGGTTTGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:45450706 original size:50 final size:50
Alignment explanation
Indices: 45450647--45451514 Score: 332
Period size: 50 Copynumber: 17.5 Consensus size: 50
45450637 GCAGTGGAAC
* * * *
45450647 AGATTAAAGCCACATCGATGAATCTTGCTTCCCCGATATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** *
45450697 AGATCAAAGCTACAAC-AGCGAATCTTACTTCCCAGACGA-TGTAGTGGAAC
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCCCGAC-ATTGCAGTTAAAA
* * ** * *
45450747 AGATTAAAGCCACATCAATAAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * ** *
45450797 AGATTAAAGCTACAAC-AGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCCC-GAC-ATTGCAGTTAAAA
** ** * *
45450847 AGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** ** *
45450897 AGATCAAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
45450947 AGATGAAAGCCAAAACG--GATAT-TGT-CTT-CCTG-CA-T-C-G--ACAA
1 AGATTAAAGCCACAACGACGA-ATCT-TACTTCCCCGACATTGCAGTTAAAA
* * * * * ** * * * * * *
45450988 CGAAGTAGATCGA-AAATACCAATTTTAC-TCTCCAGGCGA-TGCAGTGGAACA
1 AG-ATTAAAGCCACAACGACGAATCTTACTTC-CCCGAC-ATTGCAGT-TAAAA
* ** *
45451039 A-ATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** *
45451088 AGATCAAAGCTACAAC-AGCGAATCTTACTTCCCAGATGA-TGTAGTGGAAT
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCCCGA-CATTGCAGTTAAAA
* * *
45451138 AGATTAAAGCCACATC-A-GTAAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGACG--AATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * ** *
45451188 AGATTAAAGCTACAAC-AGCGACTCTTAC-TCCTCAAGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACGA-CGAATCTTACTTCCCCGA-C-ATTGCAGTTAAAA
** ** * *
45451238 AGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * ** ** *
45451288 AGATCAAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAAT
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * * *
45451338 AGATGAAAGCCAAAATGGCAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * * *** ** *
45451388 AGATTAAAGCTACAACGGCGAATCTAACTTCCCAGATGGTGCAGTGGAAC
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
45451438 AGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
* * * *
45451488 AGATTGAAGCTACAATGGCGAATCTTA
1 AGATTAAAGCCACAACGACGAATCTTA
45451515 TTTTCCAAAA
Statistics
Matches: 583, Mismatches: 193, Indels: 84
0.68 0.22 0.10
Matches are distributed among these distances:
41 4 0.01
42 9 0.02
43 4 0.01
44 4 0.01
45 2 0.00
46 3 0.01
47 4 0.01
48 8 0.01
49 31 0.05
50 493 0.85
51 20 0.03
52 1 0.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCCACAACGACGAATCTTACTTCCCCGACATTGCAGTTAAAA
Found at i:45450751 original size:100 final size:100
Alignment explanation
Indices: 45450628--45451514 Score: 1034
Period size: 100 Copynumber: 9.0 Consensus size: 100
45450618 ATTTTACTCT
* *
45450628 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGATGAATCTTGCTTCCCCGATATTGCAGTT
1 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTT
45450693 AAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
66 AAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
* * * *
45450728 CCAGACGATGTAGTGGAACAGATTAAAGCCACATCAATAAATCTTGCTTCCCCGACATTACAGTT
1 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTT
* *
45450793 AAAAAGATTAAAGCTACAACAGCGAATCTTACTCC
66 AAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
* * * *
45450828 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGTT
1 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTT
*
45450893 AAAAAGATCAAAGCTACAACGGCGAATCTTACTTC
66 AAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
* * * * * * *
45450928 CCAGGCGGTGCAGTGGAATAGATGAAAGCCAAAACGGAT--A--TTGTCTT-CCTG-CATCGACA
1 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATC-GATAAATCTTG-CTTCCCCGACATTG-CA
*** ** * *
45450987 ACGAAGTAGATCGAAA---A-TAC--C-AATTTTAC-TC
63 GTTAAAAAGATC-AAAGCTACAACAGCGAATCTTACTTC
*
45451018 TCCAGGCGATGCAGTGGAACAAATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGT
1 -CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGT
45451083 TAAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
65 TAAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
** * * *
45451119 CCAGATGATGTAGTGGAATAGATTAAAGCCACATC-AGTAAATCTTGCTTCCCCGACATTACAGT
1 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGA-TAAATCTTGCTTCCCCGACATTGCAGT
* *
45451183 TAAAAAGATTAAAGCTACAACAGCGACTCTTAC-TC
65 TAAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
* * * * *
45451218 CTCAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGT
1 C-CAGGCGATGCAGTGGAACAGATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGT
*
45451283 TAAAAAGATCAAAGCTACAACGGCGAATCTTACTTC
65 TAAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
* * * * **
45451319 CCAGGCGGTGCAGTGGAATAGATGAAAGCCAAAAT-GGCAAATCTTGCTTCCCCGACATTGCAGT
1 CCAGGCGATGCAGTGGAACAGATTAAAGCC-ACATCGATAAATCTTGCTTCCCCGACATTGCAGT
* * *
45451383 TAAAAAGATTAAAGCTACAACGGCGAATCTAACTTC
65 TAAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
** * * * **
45451419 CCAGATGGTGCAGTGGAACAGATTAAAGCTACAACGGCAAATCTTGCTTCCCCGACATTGCAGTT
1 CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTT
** **
45451484 AAAAAGATTGAAGCTACAATGGCGAATCTTA
66 AAAAAGATCAAAGCTACAACAGCGAATCTTA
45451515 TTTTCCAAAA
Statistics
Matches: 670, Mismatches: 92, Indels: 50
0.83 0.11 0.06
Matches are distributed among these distances:
90 5 0.01
91 36 0.05
92 2 0.00
93 6 0.01
94 17 0.03
95 5 0.01
96 5 0.01
97 16 0.02
98 6 0.01
99 8 0.01
100 554 0.83
101 10 0.01
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (100 bp):
CCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTT
AAAAAGATCAAAGCTACAACAGCGAATCTTACTTC
Found at i:45451290 original size:391 final size:391
Alignment explanation
Indices: 45450569--45451352 Score: 1478
Period size: 391 Copynumber: 2.0 Consensus size: 391
45450559 CAGTGAAGAT
*
45450569 AACGGATCTTGTCTTCCTGCATCGACAACGAAGTAGATCGAAAATACCAATTTTACTCTCCAGGC
1 AACGGATATTGTCTTCCTGCATCGACAACGAAGTAGATCGAAAATACCAATTTTACTCTCCAGGC
* * *
45450634 GATGCAGTGGAACAGATTAAAGCCACATCGATGAATCTTGCTTCCCCGATATTGCAGTTAAAAAG
66 GATGCAGTGGAACAAATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
45450699 ATCAAAGCTACAACAGCGAATCTTACTTCCCAGACGATGTAGTGGAACAGATTAAAGCCACATCA
131 ATCAAAGCTACAACAGCGAATCTTACTTCCCAGACGATGTAGTGGAACAGATTAAAGCCACATCA
45450764 ATAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCC
196 ATAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCC
*
45450829 CAGGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGTTA
261 CAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGTTA
45450894 AAAAGATCAAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAATAGATGAAAGCCA
326 AAAAGATCAAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAATAGATGAAAGCCA
45450959 A
391 A
45450960 AACGGATATTGTCTTCCTGCATCGACAACGAAGTAGATCGAAAATACCAATTTTACTCTCCAGGC
1 AACGGATATTGTCTTCCTGCATCGACAACGAAGTAGATCGAAAATACCAATTTTACTCTCCAGGC
45451025 GATGCAGTGGAACAAATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
66 GATGCAGTGGAACAAATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
* *
45451090 ATCAAAGCTACAACAGCGAATCTTACTTCCCAGATGATGTAGTGGAATAGATTAAAGCCACATCA
131 ATCAAAGCTACAACAGCGAATCTTACTTCCCAGACGATGTAGTGGAACAGATTAAAGCCACATCA
* * *
45451155 GTAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGACTCTTACTCCT
196 ATAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCC
45451220 CAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGTTA
261 CAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGTTA
45451285 AAAAGATCAAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAATAGATGAAAGCCA
326 AAAAGATCAAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAATAGATGAAAGCCA
45451350 A
391 A
45451351 AA
1 AA
45451353 TGGCAAATCT
Statistics
Matches: 383, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
391 383 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (391 bp):
AACGGATATTGTCTTCCTGCATCGACAACGAAGTAGATCGAAAATACCAATTTTACTCTCCAGGC
GATGCAGTGGAACAAATTAAAGCCACATCGATAAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
ATCAAAGCTACAACAGCGAATCTTACTTCCCAGACGATGTAGTGGAACAGATTAAAGCCACATCA
ATAAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCC
CAAGCGATGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCAACATTGCAGTTA
AAAAGATCAAAGCTACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAATAGATGAAAGCCA
A
Found at i:45452972 original size:3 final size:3
Alignment explanation
Indices: 45452964--45452993 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
45452954 CTTTTTTACT
45452964 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
45452994 AGGTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:45458674 original size:17 final size:19
Alignment explanation
Indices: 45458644--45458681 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
45458634 AATTTGCTTT
45458644 TACATTGTACTTATAA-AA
1 TACATTGTACTTATAATAA
*
45458662 TACA-TGTATTTATAATAA
1 TACATTGTACTTATAATAA
45458680 TA
1 TA
45458682 AGACTTTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (19 bp):
TACATTGTACTTATAATAA
Found at i:45464218 original size:16 final size:16
Alignment explanation
Indices: 45464197--45464229 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45464187 CGTCATTAAA
45464197 TATATATGATACTAAT
1 TATATATGATACTAAT
*
45464213 TATATATGATATTAAT
1 TATATATGATACTAAT
45464229 T
1 T
45464230 TTCGTGATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
TATATATGATACTAAT
Found at i:45482706 original size:21 final size:21
Alignment explanation
Indices: 45482680--45482744 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
45482670 TGGTTGAATC
* *
45482680 AGCTCTTACGAGCTTCTGTTT
1 AGCTCTTACAAGCTTCTATTT
*
45482701 AGCTCTTACAAGCTTCTATTC
1 AGCTCTTACAAGCTTCTATTT
45482722 AGCTCTTACAAGCTTCTATTT
1 AGCTCTTACAAGCTTCTATTT
45482743 AG
1 AG
45482745 ATTTCGAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (21 bp):
AGCTCTTACAAGCTTCTATTT
Found at i:45483323 original size:4 final size:4
Alignment explanation
Indices: 45483314--45483364 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
45483304 ATGAGTGATA
45483314 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
45483362 TAT
1 TAT
45483365 ATATTTGAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.25, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:45485512 original size:5 final size:5
Alignment explanation
Indices: 45485502--45485534 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
45485492 TTATCTACAA
45485502 AATTT AATTT AATTT AATTT AATTT AATATT AA
1 AATTT AATTT AATTT AATTT AATTT AAT-TT AA
45485535 GATAAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (5 bp):
AATTT
Found at i:45502057 original size:20 final size:21
Alignment explanation
Indices: 45502022--45502060 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
45502012 TTTAACTTTG
*
45502022 AAAAATTAAGTGATTAAATTA
1 AAAAATTAAGTAATTAAATTA
45502043 AAAAATTAA-TAATTAAAT
1 AAAAATTAAGTAATTAAAT
45502061 CACTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
AAAAATTAAGTAATTAAATTA
Found at i:45502220 original size:41 final size:39
Alignment explanation
Indices: 45502175--45502251 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 39
45502165 CCTTTATTGA
45502175 AATTCTTTTGA-TTGTAATTTCTATTTTTCATATAAACTCTT
1 AATTCTTTTGACTT-T-ATTT-TATTTTTCATATAAACTCTT
*
45502216 AATTCTTTTTACTTTATTTTATTTTTCATATAAACT
1 AATTCTTTTGACTTTATTTTATTTTTCATATAAACT
45502252 TTGTTTATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 17 0.50
40 4 0.12
41 11 0.32
42 2 0.06
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (39 bp):
AATTCTTTTGACTTTATTTTATTTTTCATATAAACTCTT
Found at i:45503583 original size:17 final size:17
Alignment explanation
Indices: 45503556--45503683 Score: 62
Period size: 17 Copynumber: 6.9 Consensus size: 17
45503546 CTGATATAAT
* * *
45503556 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
*
45503573 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
45503590 AAATATTTTTAAAATGCTTT-
1 AAATATTTTT--AAT--TTTA
***
45503610 TTTTATTTTTTAATTTTA
1 AAATA-TTTTTAATTTTA
45503628 AAATATTTTTAAAATACTTTTTA
1 AAATATTTTT---A-A--TTTTA
45503651 AAAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
45503667 AAATTTTTTTTAATTTT
1 AAA-TATTTTTAATTTT
45503684 TTTTTAATTT
Statistics
Matches: 86, Mismatches: 11, Indels: 27
0.69 0.09 0.22
Matches are distributed among these distances:
16 8 0.09
17 31 0.36
18 14 0.16
19 7 0.08
20 3 0.03
21 9 0.10
22 5 0.06
23 9 0.10
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:45503626 original size:38 final size:37
Alignment explanation
Indices: 45503577--45503697 Score: 154
Period size: 38 Copynumber: 3.2 Consensus size: 37
45503567 TTTTTTAAAT
45503577 TTTTTTAATTTTAAAATATTTTTAAAATGCTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAAT-CTTTTTTTA
**
45503615 TTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAAA
1 TTTTTTAATTTTAAAATATTTTTAAAAT-CTTTTT-TTA
** *
45503654 TTTTTTAATTTTAAAAT-TTTTTTTAATTTTTTTTTA
1 TTTTTTAATTTTAAAATATTTTTAAAATCTTTTTTTA
*
45503690 ATTTTTAA
1 TTTTTTAA
45503698 AATAAAATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
36 8 0.11
37 5 0.07
38 42 0.58
39 18 0.25
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (37 bp):
TTTTTTAATTTTAAAATATTTTTAAAATCTTTTTTTA
Found at i:45503657 original size:39 final size:39
Alignment explanation
Indices: 45503568--45503676 Score: 166
Period size: 38 Copynumber: 2.8 Consensus size: 39
45503558 ATATATTTAT
* *
45503568 TTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATGC
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
**
45503607 TTTTT-TTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
*
45503645 TTTTTAAAATTTTTTAATTTTAAAATTTTTTT
1 TTTTTAAAATTTTTTAATTTTAAAATATTTTT
45503677 TAATTTTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 34 0.55
39 28 0.45
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTTAAAATTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:45503666 original size:28 final size:30
Alignment explanation
Indices: 45503632--45503701 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 30
45503622 ATTTTAAAAT
45503632 ATTTTTAAAATACTTTTTAA-AATTTTTTA
1 ATTTTTAAAATACTTTTTAATAATTTTTTA
** **
45503661 A-TTTTAAAATTTTTTTTAATTTTTTTTTA
1 ATTTTTAAAATACTTTTTAATAATTTTTTA
45503690 ATTTTTAAAATA
1 ATTTTTAAAATA
45503702 AAATTTTAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 16 0.47
29 9 0.26
30 9 0.26
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (30 bp):
ATTTTTAAAATACTTTTTAATAATTTTTTA
Found at i:45503675 original size:10 final size:10
Alignment explanation
Indices: 45503623--45503685 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
45503613 TATTTTTTAA
45503623 TTTTAAAATAT
1 TTTTAAAAT-T
45503634 TTTTAAAATACT
1 TTTTAAAAT--T
45503646 TTTTAAAATT
1 TTTTAAAATT
45503656 TTTT--AA--
1 TTTTAAAATT
45503662 TTTTAAAATT
1 TTTTAAAATT
**
45503672 TTTTTTAATT
1 TTTTAAAATT
45503682 TTTT
1 TTTT
45503686 TTTAATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
6 4 0.09
8 4 0.09
10 17 0.39
11 9 0.20
12 10 0.23
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:45503676 original size:11 final size:11
Alignment explanation
Indices: 45503623--45503661 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
45503613 TATTTTTTAA
45503623 TTTTAAAATAT
1 TTTTAAAATAT
45503634 TTTTAAAATACT
1 TTTTAAAATA-T
45503646 TTTTAAAAT-T
1 TTTTAAAATAT
45503656 TTTTAA
1 TTTTAA
45503662 TTTTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 7 0.26
11 10 0.37
12 10 0.37
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:45503684 original size:11 final size:11
Alignment explanation
Indices: 45503670--45503695 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45503660 AATTTTAAAA
45503670 TTTTTTTTAAT
1 TTTTTTTTAAT
45503681 TTTTTTTTAAT
1 TTTTTTTTAAT
45503692 TTTT
1 TTTT
45503696 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTAAT
Found at i:45503688 original size:39 final size:39
Alignment explanation
Indices: 45503562--45503690 Score: 138
Period size: 39 Copynumber: 3.3 Consensus size: 39
45503552 TAATAAATAT
* *
45503562 ATTTATTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAA
1 ATTT-TTTTTTAAAATTTTTTAATTTTAAAAT-TTTTTTAA
* *
45503603 ATGCTTTTTTT---ATTTTTTAATTTTAAAATATTTTTAA
1 AT-TTTTTTTTAAAATTTTTTAATTTTAAAATTTTTTTAA
* ** *
45503640 AATACTTTTTAAAATTTTTTAATTTTAAAATTTTTTTTA
1 ATTTTTTTTTAAAATTTTTTAATTTTAAAATTTTTTTAA
45503679 ATTTTTTTTTAA
1 ATTTTTTTTTAA
45503691 TTTTTAAAAT
Statistics
Matches: 71, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
36 5 0.07
37 7 0.10
38 17 0.24
39 33 0.46
41 8 0.11
42 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (39 bp):
ATTTTTTTTTAAAATTTTTTAATTTTAAAATTTTTTTAA
Found at i:45504374 original size:16 final size:16
Alignment explanation
Indices: 45504335--45504385 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
45504325 GTCAACAAAT
*
45504335 AATTTTAAAATTATAA
1 AATTTTAAAAATATAA
45504351 AATATTTAGAAAATA-AA
1 AAT-TTTA-AAAATATAA
*
45504368 AATTTTAAAATTATAA
1 AATTTTAAAAATATAA
45504384 AA
1 AA
45504386 GATGCCACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 5 0.17
16 11 0.37
17 9 0.30
18 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
AATTTTAAAAATATAA
Found at i:45507078 original size:15 final size:14
Alignment explanation
Indices: 45507053--45507083 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
45507043 TAGATTTGGC
45507053 ATATATATACATAT
1 ATATATATACATAT
45507067 ATATATTATACATAT
1 ATATA-TATACATAT
45507082 AT
1 AT
45507084 TCTCATGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
ATATATATACATAT
Found at i:45519252 original size:3 final size:3
Alignment explanation
Indices: 45519244--45519272 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
45519234 AAATATGTAT
45519244 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
45519273 TATTATGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:45520960 original size:45 final size:45
Alignment explanation
Indices: 45520908--45520999 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
45520898 TGTTTATGTG
* *
45520908 ATAATTTAAATGAGTGCACATGTGGATGCGTGAGTTTAAGATTCT
1 ATAATTTAAATGAGTGCACATGTAGATGCGTGAGTTTAAAATTCT
45520953 ATAATTTAAATGAGTGCACATGTAGATGCGTGAGTTTAAAATTCT
1 ATAATTTAAATGAGTGCACATGTAGATGCGTGAGTTTAAAATTCT
45520998 AT
1 AT
45521000 CATATAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.36
Consensus pattern (45 bp):
ATAATTTAAATGAGTGCACATGTAGATGCGTGAGTTTAAAATTCT
Found at i:45522461 original size:51 final size:51
Alignment explanation
Indices: 45522401--45522640 Score: 281
Period size: 51 Copynumber: 4.7 Consensus size: 51
45522391 GATGAACACG
* *
45522401 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
* * * * * *
45522452 TGTGTAGTACTAAGTGAAGGCTACAATGTGTATCGAGAAGCT-TTGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATGATGGTCACA
* *
45522503 TGTGTAGTAC-AGTGTAAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTA-TGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
* * * *
45522554 TGTGTAGTACTAAGTGAAGGCTACTATGTGTATCGA-AAA-GCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATG--ATGGTCACA
*
45522605 TATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
45522641 ATGATAAAAG
Statistics
Matches: 158, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
49 1 0.01
50 5 0.03
51 150 0.95
52 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATGATGGTCACA
Found at i:45522673 original size:102 final size:102
Alignment explanation
Indices: 45522397--45522640 Score: 409
Period size: 102 Copynumber: 2.4 Consensus size: 102
45522387 TATCGATGAA
*
45522397 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
45522462 TAAGTGAAGGCTACAATGTGTATCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTATCGAAAAGCTTTGGT
* *
45522499 CACATGTGTAGTAC-AGTGTAAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
1 CACGTGTGTAGTACTA-TGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTA
*
45522563 CTAAGTGAAGGCTACTATGTGTATCGAAAAGCTTTGGT
65 CTAAGTGAAGGCTACAATGTGTATCGAAAAGCTTTGGT
* *
45522601 CACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
45522641 ATGATAAAAG
Statistics
Matches: 131, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
102 130 0.99
103 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTATCGAAAAGCTTTGGT
Found at i:45522901 original size:37 final size:38
Alignment explanation
Indices: 45522832--45522904 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
45522822 ATGTGTGGAA
* **
45522832 TTGAATTGAATATTGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
45522870 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
45522905 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:45525096 original size:23 final size:23
Alignment explanation
Indices: 45525061--45525105 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
45525051 TTTTTTAAAA
*
45525061 AAATAAATATTTTTTAAAAATTT
1 AAATAAATATTTTCTAAAAATTT
45525084 AAATACAAT-TTTTCTAAAAATT
1 AAATA-AATATTTTCTAAAAATT
45525106 AATGAATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
AAATAAATATTTTCTAAAAATTT
Found at i:45529442 original size:54 final size:53
Alignment explanation
Indices: 45529360--45529463 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 53
45529350 CTTAGTGTAT
45529360 TAAGTCAGTAAGTTACACGGCCTAGCACA-AGGCCTGCGACACAACCGTGTGTCA
1 TAAGTCAGTAAGTTACACGGCCTAGCACACA-GCCTGCGA-ACAACCGTGTGTCA
** * * *
45529414 TAAGTCAG-AGAGTTACACGGTTTGGCACACAGCTTGCGAACGACCGTGTG
1 TAAGTCAGTA-AGTTACACGGCCTAGCACACAGCCTGCGAACAACCGTGTG
45529464 ACCCAACTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
53 11 0.26
54 31 0.72
55 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (53 bp):
TAAGTCAGTAAGTTACACGGCCTAGCACACAGCCTGCGAACAACCGTGTGTCA
Found at i:45532634 original size:30 final size:31
Alignment explanation
Indices: 45532588--45532651 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
45532578 ATTTCTTATG
45532588 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
*
45532619 CCAATAT-TTGATACCCATATCTTTGACTTT
1 CCAATATCTCGATACCCATATCTTTGACTTT
45532649 CCA
1 CCA
45532652 TAAATATGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.27, C:0.28, G:0.06, T:0.39
Consensus pattern (31 bp):
CCAATATCTCGATACCCATATCTTTGACTTT
Found at i:45532643 original size:15 final size:15
Alignment explanation
Indices: 45532598--45532644 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
45532588 CCAATATCTC
45532598 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
45532613 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
45532628 GATACCCATATCTTT
1 GATACCCATATCTTT
45532643 GA
1 GA
45532645 CTTTCCATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:45537259 original size:31 final size:30
Alignment explanation
Indices: 45537224--45537312 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
45537214 ATTTCTTATG
45537224 CCAATATCTCAATACCCATATCTTTGACTTT
1 CCAATAT-TCAATACCCATATCTTTGACTTT
**
45537255 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTCAATACCCATATCTTTGACTTT
* *
45537285 ---AT-TT-GATACCTATATCTTTGACTTT
1 CCAATATTCAATACCCATATCTTTGACTTT
45537310 CCA
1 CCA
45537313 TAAATATGGA
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
25 20 0.38
26 2 0.04
27 2 0.04
30 21 0.40
31 7 0.13
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTCAATACCCATATCTTTGACTTT
Found at i:45537271 original size:30 final size:29
Alignment explanation
Indices: 45537235--45537314 Score: 114
Period size: 25 Copynumber: 2.9 Consensus size: 29
45537225 CAATATCTCA
45537235 ATACCCATATCTTTGACTTTCCAATATTTG
1 ATACCCATATCTTTGACTTTCC-ATATTTG
45537265 ATACCCATATCTTTGAC-TT---TATTTG
1 ATACCCATATCTTTGACTTTCCATATTTG
*
45537290 ATACCTATATCTTTGACTTTCCATA
1 ATACCCATATCTTTGACTTTCCATA
45537315 AATATGGATG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
25 22 0.49
26 2 0.04
29 4 0.09
30 17 0.38
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (29 bp):
ATACCCATATCTTTGACTTTCCATATTTG
Done.