Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 175 of 187
Found at i:53551422 original size:18 final size:18
Alignment explanation
Indices: 53551360--53551429 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
53551350 TTACTTGCAT
*
53551360 AATTTACCTAACTTACATA
1 AATTTACATAACTTACA-A
* * * *
53551379 AATATATATATCATATCAA
1 AATTTACATAACTTA-CAA
*
53551398 AACTTACATAACTTACAA
1 AATTTACATAACTTACAA
53551416 AATTTACATAACTT
1 AATTTACATAACTT
53551430 TAAAGAATTA
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
18 16 0.41
19 21 0.54
20 2 0.05
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTTACATAACTTACAA
Found at i:53551499 original size:9 final size:9
Alignment explanation
Indices: 53551485--53551682 Score: 209
Period size: 9 Copynumber: 21.4 Consensus size: 9
53551475 TATTCATATA
53551485 ATAACTTAC
1 ATAACTTAC
*
53551494 ATAACTCAC
1 ATAACTTAC
*
53551503 ATAACATAC
1 ATAACTTAC
53551512 ATAACTTA-
1 ATAACTTAC
*
53551520 ATAACTTAT
1 ATAACTTAC
*
53551529 ATATATCATATC
1 ATA-A-CTTA-C
*
53551541 GTAACTTAC
1 ATAACTTAC
*
53551550 ATAACTCAC
1 ATAACTTAC
*
53551559 ATAACTCAC
1 ATAACTTAC
* *
53551568 ATAAGTCAC
1 ATAACTTAC
53551577 ATAACTTAC
1 ATAACTTAC
*
53551586 ATAACTTAT
1 ATAACTTAC
*
53551595 ATATATCATATC
1 ATA-A-CTTA-C
53551607 ATAACTTAC
1 ATAACTTAC
*
53551616 ATAACTCAC
1 ATAACTTAC
*
53551625 ATAACTCAC
1 ATAACTTAC
53551634 ATAACTTAC
1 ATAACTTAC
53551643 ATAACTTAC
1 ATAACTTAC
*
53551652 ATAACTCAC
1 ATAACTTAC
53551661 ATAACTTAC
1 ATAACTTAC
53551670 ATAACTTAC
1 ATAACTTAC
53551679 ATAA
1 ATAA
53551683 TACATAAATA
Statistics
Matches: 161, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
8 8 0.05
9 132 0.82
10 8 0.05
11 8 0.05
12 5 0.03
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:53553435 original size:8 final size:8
Alignment explanation
Indices: 53553414--53553543 Score: 52
Period size: 8 Copynumber: 16.1 Consensus size: 8
53553404 AAAAACATAG
53553414 ATATATACA
1 ATATATA-A
53553423 TATATATAA
1 -ATATATAA
*
53553432 ATATAAAA
1 ATATATAA
*
53553440 ATAT-TCA
1 ATATATAA
* * *
53553447 TTAGAAAAA
1 ATA-TATAA
53553456 ATATATAA
1 ATATATAA
**
53553464 ATATATTT
1 ATATATAA
* * *
53553472 ACATGTAC
1 ATATATAA
53553480 ATATATAA
1 ATATATAA
53553488 A-A-ATAA
1 ATATATAA
53553494 ATATATACA
1 ATATATA-A
53553503 TATATATAA
1 -ATATATAA
53553512 AT-TATAA
1 ATATATAA
* *
53553519 AAAAATAA
1 ATATATAA
* * *
53553527 TTACATAT
1 ATATATAA
53553535 ATATATAA
1 ATATATAA
53553543 A
1 A
53553544 ATAATAATAA
Statistics
Matches: 85, Mismatches: 28, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
6 5 0.06
7 11 0.13
8 49 0.58
9 6 0.07
10 14 0.16
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (8 bp):
ATATATAA
Found at i:53553539 original size:33 final size:32
Alignment explanation
Indices: 53553481--53553550 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
53553471 TACATGTACA
* *
53553481 TATATAAAAATAAATATATACATATATATAAAT
1 TATAAAAAAATAAATACATACATATATA-AAAT
* *
53553514 TATAAAAAAATAATTACATATATATATAAAAT
1 TATAAAAAAATAAATACATACATATATAAAAT
*
53553546 AATAA
1 TATAA
53553551 TAATTACATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 8 0.25
33 24 0.75
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (32 bp):
TATAAAAAAATAAATACATACATATATAAAAT
Found at i:53555123 original size:44 final size:44
Alignment explanation
Indices: 53555063--53555361 Score: 231
Period size: 44 Copynumber: 6.9 Consensus size: 44
53555053 TAAGATCTGT
* *
53555063 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGC
* * * *
53555107 TTTAATCTGGTCCACTGCAGCTTCAAGGAGATAAGATT-TTCCATC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATT--AGC
* * * * **
53555152 TTCAGTCTGCCCCACTGCAACTT-AAGGAGGATAAGACTTGCGTA-C
1 TTTAATCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TT-ATTAGC
* * * * * *
53555197 -TCAGTCTGCTCCCCTGCAACTTCAAGGAGATAAGACTA-GATGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTA-GC
* * * * *
53555240 ---GATCTGCT-CTCTACAACTTCAGAGAGATAAGATCTATCA-C
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATTAGC
** *
53555280 TTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGC
53555324 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
53555362 CGCCATCTTC
Statistics
Matches: 203, Mismatches: 36, Indels: 32
0.75 0.13 0.12
Matches are distributed among these distances:
40 21 0.10
41 9 0.04
42 1 0.00
43 13 0.06
44 122 0.60
45 33 0.16
46 3 0.01
48 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATTAGC
Found at i:53555474 original size:50 final size:50
Alignment explanation
Indices: 53555420--53555576 Score: 129
Period size: 50 Copynumber: 3.1 Consensus size: 50
53555410 CGTCGTAGCA
*
53555420 TCAATCTGTTCCACTATACCACCAAGGAAGTAAGATTCGACATTGTGGCT
1 TCAATCTGTTCCACTATACCACCAAGGAAGTAAGATTCGCCATTGTGGCT
** * * * **** ** * * *
53555470 TCAATCT-TTTTAAT-TGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCT
1 TCAATCTGTTCCACTATACCA--CCAAGGAAGTAAGATTCGCCATTGTGGCT
* *
53555520 TCAATCTGTTCCACTATACCACCAAGGAAGTAAGATTTGCCATTGCGGCT
1 TCAATCTGTTCCACTATACCACCAAGGAAGTAAGATTCGCCATTGTGGCT
53555570 TCAATCT
1 TCAATCT
53555577 TTTTAATTGC
Statistics
Matches: 72, Mismatches: 31, Indels: 8
0.65 0.28 0.07
Matches are distributed among these distances:
48 3 0.04
49 4 0.06
50 58 0.81
51 4 0.06
52 3 0.04
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (50 bp):
TCAATCTGTTCCACTATACCACCAAGGAAGTAAGATTCGCCATTGTGGCT
Found at i:53555497 original size:100 final size:100
Alignment explanation
Indices: 53555368--53555857 Score: 694
Period size: 100 Copynumber: 4.9 Consensus size: 100
53555358 GATTCGCCAT
* * * *
53555368 CTTCAATCTGTTTAACTAG-AATGTCGGGGAAACAAGATTCACCGTCGTAGCATCAATCTGTTCC
1 CTTCAATCTTTTTAA-TTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCC
* * * *
53555432 ACTATACCACCAAGGAAGTAAGATTCGACATTGTGG
65 ACTACACCGCCAGGGAAGTAAGATTCGACATTGCGG
*
53555468 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCGCCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
* * * * *
53555533 CTATACCACCAAGGAAGTAAGATTTGCCATTGCGG
66 CTACACCGCCAGGGAAGTAAGATTCGACATTGCGG
***
53555568 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTTGTCGTCGTAGCTTCAATCTGTTCCA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
* *
53555633 CTACACCGCCAGGGGAGTAAGATTCGACGTTGCGG
66 CTACACCGCCAGGGAAGTAAGATTCGACATTGCGG
* * * *
53555668 CTTCAATCTTTTTAATTGCAATGCTGGGGAAACAAGATTCACCATCGTAGCTTCAATCTATTCTA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
* * *
53555733 CTACAACGCCAGGGAAGTAAGATTCGCCGTTGCGG
66 CTACACCGCCAGGGAAGTAAGATTCGACATTGCGG
* * *
53555768 CCTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCACCGTCCTAGCTTCAATCTGTTCTA
1 CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
*
53555833 CTACACCGCCAGGGGAGTAAGATTC
66 CTACACCGCCAGGGAAGTAAGATTC
53555858 ACCGTTGCTA
Statistics
Matches: 355, Mismatches: 34, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
99 2 0.01
100 353 0.99
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (100 bp):
CTTCAATCTTTTTAATTGCAATGTTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCA
CTACACCGCCAGGGAAGTAAGATTCGACATTGCGG
Found at i:53555605 original size:50 final size:50
Alignment explanation
Indices: 53555451--53555812 Score: 192
Period size: 50 Copynumber: 7.2 Consensus size: 50
53555441 CCAAGGAAGT
* * * *
53555451 AAGATTCGACATTGTGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAAC
1 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGCTGGGGAAAC
* ** ** * * * *** **
53555501 AAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTATACCA--CCAAGGAAGT
1 AAGATTCGCCGTTGCGGCTTCAATCT-TTTTAAT-TGCAATGCTGGGGAAAC
* * *
53555551 AAGATTTGCCATTGCGGCTTCAATCTTTTTAATTGCAATGTTGGGGAAAC
1 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGCTGGGGAAAC
* * * ** * ** * * ** * **
53555601 AAGATTTGTCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGG-AGT
1 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATG-CTGGGGAAAC
*
53555651 AAGATTCGACGTTGCGGCTTCAATCTTTTTAATTGCAATGCTGGGGAAAC
1 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGCTGGGGAAAC
* * * ** * * * * ** **
53555701 AAGATTCACCATCGTAGCTTCAATCTATTCT-ACTACAACGCCAGGGAAGT
1 AAGATTCGCCGTTGCGGCTTCAATCT-TTTTAATTGCAATGCTGGGGAAAC
* *
53555751 AAGATTCGCCGTTGCGGCCTCAATCTTTTTAATTGCAATGTTGGGGAAAC
1 AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGCTGGGGAAAC
*
53555801 AAGATTCACCGT
1 AAGATTCGCCGT
53555813 CCTAGCTTCA
Statistics
Matches: 212, Mismatches: 92, Indels: 16
0.66 0.29 0.05
Matches are distributed among these distances:
48 3 0.01
49 12 0.06
50 183 0.86
51 11 0.05
52 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (50 bp):
AAGATTCGCCGTTGCGGCTTCAATCTTTTTAATTGCAATGCTGGGGAAAC
Found at i:53555855 original size:50 final size:51
Alignment explanation
Indices: 53555615--53555884 Score: 155
Period size: 50 Copynumber: 5.4 Consensus size: 51
53555605 TTTGTCGTCG
* * *
53555615 TAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCGA-CGTTGC
1 TAGCTTCAATCTGTTCTACTACAACGCCAGGGGAGTAAGATTC-ACCGTTCC
* * * * * * ** * *
53555666 -GGCTTCAATCT-TTTTAATTGCAATG-CTGGGGAAACAAGATTCACC-ATCG
1 TAGCTTCAATCTGTTCT-ACTACAACGCCAGGGG-AGTAAGATTCACCGTTCC
* * * *
53555715 TAGCTTCAATCTATTCTACTACAACGCCAGGGAAGTAAGATTCGCCGTTGC
1 TAGCTTCAATCTGTTCTACTACAACGCCAGGGGAGTAAGATTCACCGTTCC
* * * * * * ** **
53555766 -GGCCTCAATCT-TTTTAATTGCAATG-TTGGGGAAACAAGATTCACCG-TCC
1 TAGCTTCAATCTGTTCT-ACTACAACGCCAGGGG-AGTAAGATTCACCGTTCC
* *
53555815 TAGCTTCAATCTGTTCTACTACACCGCCAGGGGAGTAAGATTCACCGTTGC
1 TAGCTTCAATCTGTTCTACTACAACGCCAGGGGAGTAAGATTCACCGTTCC
*
53555866 TA-CTTCAATCTGCTCTACT
1 TAGCTTCAATCTGTTCTACT
53555885 GTAATGCCAA
Statistics
Matches: 154, Mismatches: 52, Indels: 27
0.66 0.22 0.12
Matches are distributed among these distances:
49 17 0.11
50 118 0.77
51 19 0.12
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (51 bp):
TAGCTTCAATCTGTTCTACTACAACGCCAGGGGAGTAAGATTCACCGTTCC
Found at i:53556070 original size:50 final size:50
Alignment explanation
Indices: 53555957--53556071 Score: 131
Period size: 50 Copynumber: 2.3 Consensus size: 50
53555947 AAGCCTTAAT
* *
53555957 GCCAAGGAGATAAGATTTGCCGTCATGGCTTCAATCTACTCCGCTACAAC
1 GCCAAGGAGATAAGATTCGCCGTCATGGCTTCAATCTACTCCACTACAAC
* * ** ** *
53556007 GCCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTCCATTACAAC
1 GCCAAGGAGATAAGATTCGCCGTCATGGCTTCAATCTACTCCACTACAAC
* *
53556057 GTCAAGGCGATAAGA
1 GCCAAGGAGATAAGA
53556072 CTAATGTCTT
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (50 bp):
GCCAAGGAGATAAGATTCGCCGTCATGGCTTCAATCTACTCCACTACAAC
Found at i:53557237 original size:3 final size:3
Alignment explanation
Indices: 53557231--53557286 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
53557221 GTTTCTTTTT
53557231 TTC TTC 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
53557279 TTC TTC TT
1 TTC TTC TT
53557287 TTGCGACTCA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:53558295 original size:25 final size:25
Alignment explanation
Indices: 53558238--53558302 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
53558228 AAGAAAATCC
* * *
53558238 AAAACAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
53558263 AAAAGAATGAAAGAAT-ATTGCTCA
1 AAAAGAATGAAAGAATAATTACTCA
53558287 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
53558303 TGTATTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 9 0.26
25 20 0.59
26 5 0.15
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:53564278 original size:31 final size:32
Alignment explanation
Indices: 53564223--53564294 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
53564213 CATGTACATA
*
53564223 TATAAAAAATAAATATATACATATATATAAAT
1 TATAAATAATAAATATATACATATATATAAAT
53564255 TATAAATAAT-AATA-ATTACATATATATAAAT
1 TATAAATAATAAATATA-TACATATATATAAAT
*
53564286 AAT-AATAAT
1 TATAAATAAT
53564295 TACATTATTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
30 7 0.19
31 21 0.57
32 9 0.24
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (32 bp):
TATAAATAATAAATATATACATATATATAAAT
Found at i:53567248 original size:129 final size:129
Alignment explanation
Indices: 53567065--53567300 Score: 341
Period size: 129 Copynumber: 1.8 Consensus size: 129
53567055 AAAAAGTGTC
* * * *
53567065 GCTAAAGGTCATTCTCTATAGCGACATTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAGT
1 GCTAAAGGCCATTCTCTATAGCGACATTTGTGATAAAAGCGCCGCTAAAGGTCATGCTCTTTAGC
*
53567130 AGCATTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTAACGTCTATGATAAAAGCATT
66 AGCATTTGTGGAT-AAAGCGCCACTAAAGGTCATGTTCTTTAGTAACGTCTATGATAAAAGCATT
* * *
53567194 GCTAAAGGCCATGT-TCTTTAGCGGCATTTGTGATAATAGCGCCGCTAAAGGTCATGCTCTTTAG
1 GCTAAAGGCCAT-TCTCTATAGCGACATTTGTGATAAAAGCGCCGCTAAAGGTCATGCTCTTTAG
* * *
53567258 CGGCGTTTGTGGGTAAAGCGCCACTAAAGGTCATGTTCTTTAG
65 CAGCATTTGTGGATAAAGCGCCACTAAAGGTCATGTTCTTTAG
53567301 CGGCGTTTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
129 91 0.97
130 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.32
Consensus pattern (129 bp):
GCTAAAGGCCATTCTCTATAGCGACATTTGTGATAAAAGCGCCGCTAAAGGTCATGCTCTTTAGC
AGCATTTGTGGATAAAGCGCCACTAAAGGTCATGTTCTTTAGTAACGTCTATGATAAAAGCATT
Found at i:53567276 original size:86 final size:86
Alignment explanation
Indices: 53567064--53567304 Score: 304
Period size: 86 Copynumber: 2.8 Consensus size: 86
53567054 AAAAAAGTGT
* * *
53567064 CGCTAAAGGTCATTCTCTATAGCGACATTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAG
1 CGCTAAAGGTCATGCTCTTTAGCGACGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAG
**
53567129 TAGCATTTGTGATAAAAGCGC
66 CGGCATTTGTGATAAAAGCGC
* ** * * * * *
53567150 CGCTAAAGGTCATGTTCTTTAGTAACGTCTATGATAAAAGCATTGCTAAAGGCCATGTTCTTTAG
1 CGCTAAAGGTCATGCTCTTTAGCGACGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAG
*
53567215 CGGCATTTGTGATAATAGCGC
66 CGGCATTTGTGATAAAAGCGC
* * * *
53567236 CGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGGGT-AAAGCGCCACTAAAGGTCATGTTCTTTA
1 CGCTAAAGGTCATGCTCTTTAGCGACGTTTGT-GATAAAAGCGTCGCTAAAGGTCATGTTCTTTA
53567300 GCGGC
65 GCGGC
53567305 GTTTTTTGCG
Statistics
Matches: 128, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
86 126 0.98
87 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (86 bp):
CGCTAAAGGTCATGCTCTTTAGCGACGTTTGTGATAAAAGCGTCGCTAAAGGTCATGTTCTTTAG
CGGCATTTGTGATAAAAGCGC
Found at i:53567308 original size:43 final size:43
Alignment explanation
Indices: 53567064--53567304 Score: 270
Period size: 43 Copynumber: 5.6 Consensus size: 43
53567054 AAAAAAGTGT
* * *
53567064 CGCTAAAGGTCAT-TCTCTATAGCGACATTTGTGATAAAAGCGT
1 CGCTAAAGGTCATGT-TCTTTAGCGGCATTTGTGATAAAAGCGC
**
53567107 CGCTAAAGGTCATGTTCTTTAGTAGCATTTGTGATAAAAGCGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGATAAAAGCGC
*** * * * **
53567150 CGCTAAAGGTCATGTTCTTTAGTAACGTCTATGATAAAAGCAT
1 CGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGATAAAAGCGC
* * *
53567193 TGCTAAAGGCCATGTTCTTTAGCGGCATTTGTGATAATAGCGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGATAAAAGCGC
* * *
53567236 CGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGGGT-AAAGCGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCATTTGT-GATAAAAGCGC
*
53567279 CACTAAAGGTCATGTTCTTTAGCGGC
1 CGCTAAAGGTCATGTTCTTTAGCGGC
53567305 GTTTTTTGCG
Statistics
Matches: 166, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
43 163 0.98
44 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (43 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCATTTGTGATAAAAGCGC
Found at i:53571027 original size:24 final size:24
Alignment explanation
Indices: 53570999--53571050 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
53570989 TTTCTAGAAG
*
53570999 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
53571023 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
53571047 ATTT
1 ATTT
53571051 GACTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:53571414 original size:15 final size:15
Alignment explanation
Indices: 53571383--53571433 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
53571373 ATAAGATAAT
**
53571383 AATATAAATAACCAA
1 AATATAAATAATTAA
*
53571398 AATATAACAT-TTTAA
1 AATATAA-ATAATTAA
53571413 AA-ATAAATAATTAA
1 AATATAAATAATTAA
53571427 AATATAA
1 AATATAA
53571434 TTCGAGATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 10 0.34
15 15 0.52
16 2 0.07
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AATATAAATAATTAA
Found at i:53571659 original size:11 final size:11
Alignment explanation
Indices: 53571639--53571746 Score: 65
Period size: 11 Copynumber: 10.4 Consensus size: 11
53571629 ACAAAAATTA
53571639 AAAAAGTATTTT
1 AAAAA-TATTTT
53571651 AAAAATATTTT
1 AAAAATATTTT
53571662 --AAA-A--TT
1 AAAAATATTTT
*
53571668 AAAAAAATTTT
1 AAAAATATTTT
53571679 AAAAAGTATTTT
1 AAAAA-TATTTT
**
53571691 AAAAA-AAATT
1 AAAAATATTTT
53571701 -AAAA-A-TTT
1 AAAAATATTTT
*
53571709 AAAAA-ATTTAA
1 AAAAATATTT-T
53571720 AAAAAGTATTTT
1 AAAAA-TATTTT
*
53571732 AAAAGTATTTT
1 AAAAATATTTT
53571743 AAAA
1 AAAA
53571747 TTAAAAAAAT
Statistics
Matches: 78, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
6 2 0.03
8 6 0.08
9 14 0.18
10 5 0.06
11 28 0.36
12 19 0.24
13 4 0.05
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:53571671 original size:17 final size:17
Alignment explanation
Indices: 53571649--53571682 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
53571639 AAAAAGTATT
*
53571649 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
53571666 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
53571683 AGTATTTTAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:53571696 original size:41 final size:40
Alignment explanation
Indices: 53571621--53571756 Score: 182
Period size: 40 Copynumber: 3.3 Consensus size: 40
53571611 TATGGGCCCG
*
53571621 AAATTAAAACAAAAATTAAAAAAGTATTTTAAAAATATTTTA
1 AAATT-AAA-AAAATTTAAAAAAGTATTTTAAAAATATTTTA
* * * *
53571663 AAATTAAAAAAATTTTAAAAAGTATTTTAAAAAAAATTAA
1 AAATTAAAAAAATTTAAAAAAGTATTTTAAAAATATTTTA
* *
53571703 AAATTTAAAAAATTTAAAAAAAGTATTTTAAAAGTATTTTA
1 AAATTAAAAAAATTT-AAAAAAGTATTTTAAAAATATTTTA
53571744 AAATTAAAAAAAT
1 AAATTAAAAAAAT
53571757 AAAAATAAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
40 41 0.51
41 35 0.43
42 5 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (40 bp):
AAATTAAAAAAATTTAAAAAAGTATTTTAAAAATATTTTA
Found at i:53576788 original size:14 final size:15
Alignment explanation
Indices: 53576771--53576801 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
53576761 TCTTTCTCTC
53576771 TTTTCATTTCT-TTT
1 TTTTCATTTCTGTTT
53576785 TTTTCATTTCTGTTT
1 TTTTCATTTCTGTTT
53576800 TT
1 TT
53576802 ATATTATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.06, C:0.13, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTCATTTCTGTTT
Found at i:53577558 original size:21 final size:24
Alignment explanation
Indices: 53577504--53577558 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 24
53577494 TTATTATGTA
53577504 GTATTATTTTAAGTTTTCCATATAT
1 GTATTATTTTAAG-TTTCCATATAT
53577529 -TATTA-TTTAA-TTT-CATA-AT
1 GTATTATTTTAAGTTTCCATATAT
53577548 GTATTATTTTA
1 GTATTATTTTA
53577559 TATATATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 9 0.32
21 7 0.25
23 5 0.18
24 5 0.18
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (24 bp):
GTATTATTTTAAGTTTCCATATAT
Found at i:53580102 original size:56 final size:56
Alignment explanation
Indices: 53580016--53580183 Score: 327
Period size: 56 Copynumber: 3.0 Consensus size: 56
53580006 TACAACGAAG
53580016 AACTCGCGTGGCCCGACCTTCTGTGTAGTAGTTTTGCAAACTCCAACCCATCCTCT
1 AACTCGCGTGGCCCGACCTTCTGTGTAGTAGTTTTGCAAACTCCAACCCATCCTCT
53580072 AACTCGCGTGGCCCGACCTTCTGTGTAGTAGTTTTGCAAACTCCAACCCATCCTCT
1 AACTCGCGTGGCCCGACCTTCTGTGTAGTAGTTTTGCAAACTCCAACCCATCCTCT
*
53580128 AACTCGCGTGGCCCGACCTTCTGTGTAGTAGTTTTGCAAACTCTAACCCATCCTCT
1 AACTCGCGTGGCCCGACCTTCTGTGTAGTAGTTTTGCAAACTCCAACCCATCCTCT
53580184 GATGATAGGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 111 1.00
ACGTcount: A:0.20, C:0.33, G:0.18, T:0.29
Consensus pattern (56 bp):
AACTCGCGTGGCCCGACCTTCTGTGTAGTAGTTTTGCAAACTCCAACCCATCCTCT
Found at i:53582710 original size:9 final size:9
Alignment explanation
Indices: 53582698--53582760 Score: 81
Period size: 9 Copynumber: 6.8 Consensus size: 9
53582688 TTCACATCAT
53582698 TCTCTCAAC
1 TCTCTCAAC
53582707 TCTCTCAAAC
1 TCTCTC-AAC
53582717 TCTCTCAAC
1 TCTCTCAAC
*
53582726 TTTCTCAAAC
1 TCTCTC-AAC
* *
53582736 CCTCTCAAG
1 TCTCTCAAC
53582745 TCTCTCAAC
1 TCTCTCAAC
53582754 TCTCTCA
1 TCTCTCA
53582761 TTTTGATTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
9 30 0.65
10 16 0.35
ACGTcount: A:0.24, C:0.41, G:0.02, T:0.33
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:53582722 original size:19 final size:19
Alignment explanation
Indices: 53582698--53582760 Score: 92
Period size: 19 Copynumber: 3.4 Consensus size: 19
53582688 TTCACATCAT
53582698 TCTCTCAACTCTCTCAAAC
1 TCTCTCAACTCTCTCAAAC
*
53582717 TCTCTCAACTTTCTCAAAC
1 TCTCTCAACTCTCTCAAAC
* *
53582736 CCTCTCAAGTCTCTC-AAC
1 TCTCTCAACTCTCTCAAAC
53582754 TCTCTCA
1 TCTCTCA
53582761 TTTTGATTGT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
18 9 0.23
19 30 0.77
ACGTcount: A:0.24, C:0.41, G:0.02, T:0.33
Consensus pattern (19 bp):
TCTCTCAACTCTCTCAAAC
Found at i:53587727 original size:44 final size:44
Alignment explanation
Indices: 53587679--53587766 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
53587669 AAAAGTCTTG
53587679 TTGGACGTGCTTTTTGTTCCTCTCTCCTAAAAATGGCCTATTTC
1 TTGGACGTGCTTTTTGTTCCTCTCTCCTAAAAATGGCCTATTTC
* *
53587723 TTGGACGTGCTTTTTGTTTCTCTCTCCTAGAAATGGCCTATTTC
1 TTGGACGTGCTTTTTGTTCCTCTCTCCTAAAAATGGCCTATTTC
53587767 CCTAATTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (44 bp):
TTGGACGTGCTTTTTGTTCCTCTCTCCTAAAAATGGCCTATTTC
Found at i:53587886 original size:13 final size:12
Alignment explanation
Indices: 53587863--53587892 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
53587853 ACCATGTAAT
53587863 AAATTTATA-AA
1 AAATTTATATAA
53587874 AAATTTATATAA
1 AAATTTATATAA
53587886 AAATTTA
1 AAATTTA
53587893 AAATTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTATATAA
Found at i:53590091 original size:80 final size:80
Alignment explanation
Indices: 53589933--53590097 Score: 235
Period size: 80 Copynumber: 2.1 Consensus size: 80
53589923 TAAGAGTTAG
*
53589933 ATTG-AAATAAAATCAAATTATTAATTATTAGAGGATTAAAAGTACCATTACTCTATTTTATAAG
1 ATTGCAAATAAAATCAAATTATTAATTATCAGAGGATTAAAAGTACCATTACTCTATTTTATAAG
*
53589997 GGGCAAGCACTTTTA
66 GGGCAAGCAATTTTA
* * * *
53590012 ATTGCAAATTAAATTAAATTATTAATTATCAGAGGGTTAAAAGTATCATTACTCTATTTTATAAG
1 ATTGCAAATAAAATCAAATTATTAATTATCAGAGGATTAAAAGTACCATTACTCTATTTTATAAG
*
53590077 GAGTCAAG-AATTTTA
66 G-GGCAAGCAATTTTA
*
53590092 CTTGCA
1 ATTGCA
53590098 CGCACTTCTA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
79 4 0.05
80 67 0.88
81 5 0.07
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (80 bp):
ATTGCAAATAAAATCAAATTATTAATTATCAGAGGATTAAAAGTACCATTACTCTATTTTATAAG
GGGCAAGCAATTTTA
Found at i:53591038 original size:15 final size:15
Alignment explanation
Indices: 53591018--53591046 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53591008 ACTTGTTCAT
53591018 AATTTCTATTAAAGC
1 AATTTCTATTAAAGC
53591033 AATTTCTATTAAAG
1 AATTTCTATTAAAG
53591047 GATCTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (15 bp):
AATTTCTATTAAAGC
Found at i:53591837 original size:43 final size:43
Alignment explanation
Indices: 53591773--53592086 Score: 327
Period size: 43 Copynumber: 7.3 Consensus size: 43
53591763 ACGTCGCTAA
* * * *
53591773 CTTTTGCGGCGCTTACAGAAAAAAACGCTGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAGATCATGTT
* *
53591817 CTTTAGCGGTGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTT
* **
53591860 CTTTAGCGGCGCTCAGGAAAAAAACGCCGCTAATTATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTT
*
53591903 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTT
* * * * * *
53591945 CTTTAGCAGCACTT-GGGAGAAAACGCCGCTAAAGAAACATGAT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAG-ATCATGTT
* * * *
53591988 CTTTAGTGGCGTTTA-GAAAAAAAAGCCGCTAAA-AGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TCATGTT
* *
53592030 CTATAGCGGCGCTT-GGTAAAAAACGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGA-TCA-TGTT
*
53592072 CTTTTGCGGCGCTTA
1 CTTTAGCGGCGCTTA
53592087 TTTCACAAAC
Statistics
Matches: 229, Mismatches: 34, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
41 4 0.02
42 101 0.44
43 111 0.48
44 13 0.06
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:53591944 original size:85 final size:83
Alignment explanation
Indices: 53591790--53592086 Score: 310
Period size: 85 Copynumber: 3.5 Consensus size: 83
53591780 GGCGCTTACA
* * *
53591790 GAAAAAAACGCTGCTAAAGGTCATGTTCTTTAGCGGTGCTTAGGAAAAAAACGCCGCTAATGATC
1 GAAAAAAACGCCGCTAAA-ATCATGTTCTTTAGCGGCGCTTAGG-AAAAAACGCCGCTAATGATC
53591855 ATGTTCTTTAGCGGCGCTCAG
64 ATGTTCTTTAGCGGCGCT-AG
*
53591876 GAAAAAAACGCCGCTAATTATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAATGATCA
1 GAAAAAAACGCCGCTAA-AATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAATGATCA
* * *
53591941 TGTTCTTTAGCAGCACTTG
65 TGTTCTTTAGCGGCGCTAG
* * * * * * * * *
53591960 GGAGAAAACGCCGCTAAAGAAACATGATCTTTAGTGGCGTTTAGAAAAAAAAGCCGCTAA-AAGT
1 GAAAAAAACGCCGCT-AA-AATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAATGA-T
* * *
53592024 AATGTTCTATAGCGGCGCTTG
63 CATGTTCTTTAGCGGCGCTAG
* *
53592045 GTAAAAAACGCCGCTAAAAGT-AGTGTTCTTTTGCGGCGCTTA
1 GAAAAAAACGCCGCTAAAA-TCA-TGTTCTTTAGCGGCGCTTA
53592087 TTTCACAAAC
Statistics
Matches: 177, Mismatches: 29, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
83 3 0.02
84 32 0.18
85 103 0.58
86 39 0.22
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (83 bp):
GAAAAAAACGCCGCTAAAATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAATGATCAT
GTTCTTTAGCGGCGCTAG
Found at i:53592549 original size:21 final size:21
Alignment explanation
Indices: 53592523--53592586 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
53592513 TTTGAACCTT
53592523 TACTTCCCTCGCTGCAGCCTC
1 TACTTCCCTCGCTGCAGCCTC
*
53592544 TACTTCCCTCACTGCAGCCTC
1 TACTTCCCTCGCTGCAGCCTC
*
53592565 TACTTCCCTCGCTGCTGCCTC
1 TACTTCCCTCGCTGCAGCCTC
53592586 T
1 T
53592587 GTTTTAAGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.09, C:0.47, G:0.12, T:0.31
Consensus pattern (21 bp):
TACTTCCCTCGCTGCAGCCTC
Found at i:53598074 original size:9 final size:9
Alignment explanation
Indices: 53598060--53598344 Score: 185
Period size: 9 Copynumber: 33.4 Consensus size: 9
53598050 AAGTTATTTA
53598060 TTATGTAAG
1 TTATGTAAG
53598069 TTATGTAAG
1 TTATGTAAG
53598078 TTATGTAAG
1 TTATGTAAG
*
53598087 TTGTGTAAG
1 TTATGTAAG
53598096 TTATGTAAG
1 TTATGTAAG
*
53598105 TTGTGTAAG
1 TTATGTAAG
*
53598114 TTGTGT-A-
1 TTATGTAAG
* *
53598121 TTATGAAAC
1 TTATGTAAG
*
53598130 TTATGT--C
1 TTATGTAAG
53598137 TTATGTAAG
1 TTATGTAAG
*
53598146 TTATGTAAA
1 TTATGTAAG
53598155 TTATGT-A-
1 TTATGTAAG
53598162 TTATGTAAG
1 TTATGTAAG
53598171 TTATGTAAG
1 TTATGTAAG
*
53598180 TTGTGT-A-
1 TTATGTAAG
53598187 TTATGTAAG
1 TTATGTAAG
*
53598196 TTATGTCAG
1 TTATGTAAG
*
53598205 TTGTGT-A-
1 TTATGTAAG
53598212 TTATGTAAG
1 TTATGTAAG
53598221 TTATGTAAG
1 TTATGTAAG
* **
53598230 TTTTTGT-TT
1 -TTATGTAAG
*
53598239 TTGTGT-A-
1 TTATGTAAG
*
53598246 TTATGTAAC
1 TTATGTAAG
* *
53598255 TTATTTAAT
1 TTATGTAAG
*
53598264 TTATGTACG
1 TTATGTAAG
* *
53598273 GTATGCTTA-
1 TTATG-TAAG
53598282 TTATGTAAG
1 TTATGTAAG
*
53598291 TTCTGT-A-
1 TTATGTAAG
*
53598298 TTATGTATG
1 TTATGTAAG
*
53598307 TTATAT-AG
1 TTATGTAAG
53598315 TTATGT-A-
1 TTATGTAAG
53598322 TTATGTAAG
1 TTATGTAAG
* *
53598331 ATATATAAG
1 TTATGTAAG
53598340 CTTAT
1 -TTAT
53598345 ATATAATTAT
Statistics
Matches: 218, Mismatches: 38, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
7 43 0.20
8 25 0.11
9 141 0.65
10 9 0.04
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:53598078 original size:25 final size:25
Alignment explanation
Indices: 53598049--53598231 Score: 217
Period size: 25 Copynumber: 7.2 Consensus size: 25
53598039 GATTTAGGAA
*
53598049 TAAGTTATTTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
53598074 TAAGTTATGTAAGTTGTGTAAGTTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* *
53598101 TAAGTTGTGTAAGTTGTGT-A-TTATG
1 TAAGTTATGT-A-TTATGTAAGTTATG
* * *
53598126 AAACTTATGTCTTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
53598151 TAAATTATGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
*
53598176 TAAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
* *
53598201 TCAGTTGTGTATTATGTAAGTTATG
1 TAAGTTATGTATTATGTAAGTTATG
53598226 TAAGTT
1 TAAGTT
53598232 TTTGTTTTTG
Statistics
Matches: 139, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.04
24 1 0.01
25 100 0.72
26 2 0.01
27 31 0.22
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.48
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATG
Found at i:53598144 original size:41 final size:41
Alignment explanation
Indices: 53598096--53598176 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
53598086 GTTGTGTAAG
* * *
53598096 TTATGTAAGTTGTGTAAGTTGTGTATTATGAAACTTATGTC
1 TTATGTAAGTTATGTAAATTATGTATTATGAAACTTATGTC
* *
53598137 TTATGTAAGTTATGTAAATTATGTATTATGTAAGTTATGT
1 TTATGTAAGTTATGTAAATTATGTATTATGAAACTTATGT
53598177 AAGTTGTGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (41 bp):
TTATGTAAGTTATGTAAATTATGTATTATGAAACTTATGTC
Found at i:53598149 original size:16 final size:17
Alignment explanation
Indices: 53598049--53598329 Score: 158
Period size: 16 Copynumber: 16.7 Consensus size: 17
53598039 GATTTAGGAA
*
53598049 TAAGTTAT-TTATTATG
1 TAAGTTATGTAATTATG
53598065 TAAGTTATGTAAGTTATG
1 TAAGTTATGTAA-TTATG
*
53598083 TAAGTTGTGTAAGTTATG
1 TAAGTTATGTAA-TTATG
* *
53598101 TAAGTTGTGTAAGTTGTG
1 TAAGTTATGTAA-TTATG
*
53598119 T-A-TTATGAAACTTATG
1 TAAGTTATGTAA-TTATG
*
53598135 T--CTTATGTAAGTTATG
1 TAAGTTATGTAA-TTATG
*
53598151 TAAATTATGT-ATTATG
1 TAAGTTATGTAATTATG
*
53598167 TAAGTTATGTAAGTTGTG
1 TAAGTTATGTAA-TTATG
53598185 T-A-TTATGTAAGTTATG
1 TAAGTTATGTAA-TTATG
* *
53598201 TCAGTTGTGT-ATTATG
1 TAAGTTATGTAATTATG
*
53598217 TAAGTTATGTAAGTTTTTG
1 TAAGTTATGTAA--TTATG
** *
53598236 T-TTTTGTGT-ATTATG
1 TAAGTTATGTAATTATG
* *
53598251 TAACTTATTTAATTTATG
1 TAAGTTATGTAA-TTATG
* * *
53598269 TACGGTATGCTTATTATG
1 TAAGTTATG-TAATTATG
*
53598287 TAAGTTCTGT-ATTATG
1 TAAGTTATGTAATTATG
* * *
53598303 TATGTTATATAGTTATG
1 TAAGTTATGTAATTATG
53598320 T-A-TTATGTAA
1 TAAGTTATGTAA
53598330 GATATATAAG
Statistics
Matches: 208, Mismatches: 40, Indels: 35
0.73 0.14 0.12
Matches are distributed among these distances:
15 11 0.05
16 90 0.43
17 18 0.09
18 82 0.39
19 7 0.03
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (17 bp):
TAAGTTATGTAATTATG
Found at i:53598321 original size:24 final size:24
Alignment explanation
Indices: 53598289--53598337 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
53598279 TTATTATGTA
* * *
53598289 AGTTCTGTATTATGTATGTTATAT
1 AGTTATGTATTATGTAAGATATAT
53598313 AGTTATGTATTATGTAAGATATAT
1 AGTTATGTATTATGTAAGATATAT
53598337 A
1 A
53598338 AGCTTATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (24 bp):
AGTTATGTATTATGTAAGATATAT
Found at i:53598443 original size:17 final size:17
Alignment explanation
Indices: 53598397--53598463 Score: 88
Period size: 17 Copynumber: 4.2 Consensus size: 17
53598387 TTTATTACTA
*
53598397 ATAAATTTAGAACACTT
1 ATAAATTTAGAAAACTT
53598414 AT--A--TAGAAAACTT
1 ATAAATTTAGAAAACTT
*
53598427 ATAAATTTAGAACACTT
1 ATAAATTTAGAAAACTT
53598444 ATAAATTTAGAAAACTT
1 ATAAATTTAGAAAACTT
53598461 ATA
1 ATA
53598464 TAGATATTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 30 0.70
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (17 bp):
ATAAATTTAGAAAACTT
Found at i:53598505 original size:21 final size:21
Alignment explanation
Indices: 53598448--53598509 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
53598438 ACACTTATAA
*
53598448 ATTTAGAAAACTTATATAGA-T
1 ATTTAGAAAACTTTTATA-ATT
*
53598469 A-TTA-AAACAATATTTATAATT
1 ATTTAGAAA-ACT-TTTATAATT
53598490 ATTTAGAAAACTTTTA-AATT
1 ATTTAGAAAACTTTTATAATT
53598510 TTATAGTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
19 3 0.09
20 10 0.30
21 12 0.36
22 5 0.15
23 3 0.09
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTTAGAAAACTTTTATAATT
Found at i:53598641 original size:45 final size:43
Alignment explanation
Indices: 53598571--53598682 Score: 152
Period size: 45 Copynumber: 2.6 Consensus size: 43
53598561 GGTGATATAA
* *
53598571 TTATTTAGAAAACTTAAAAAATTAATACTAATAAATTTAGAACAC
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTT--AACAC
* *
53598616 TTATTTAGAAAGCTTATAAATTTAATACTAATAAATTTAATAC
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTAACAC
* *
53598659 TAATATAGAAAACTTATAAATTTA
1 TTATTTAGAAAACTTATAAATTTA
53598683 GAAAACTTAT
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 25 0.42
45 35 0.58
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (43 bp):
TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTAACAC
Found at i:53598651 original size:15 final size:15
Alignment explanation
Indices: 53598631--53598663 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
53598621 TAGAAAGCTT
53598631 ATAAATTTAATACTA
1 ATAAATTTAATACTA
53598646 ATAAATTTAATACTA
1 ATAAATTTAATACTA
53598661 ATA
1 ATA
53598664 TAGAAAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:53600247 original size:23 final size:24
Alignment explanation
Indices: 53600184--53600250 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
53600174 AGGAATTGGC
* * *
53600184 GGGAAATGAAATCGGGGAAGTTGG
1 GGGAAATGAAATTGGGGAAATTGA
53600208 GGGAATATGAAA-T-GGGAAATT-A
1 GGGAA-ATGAAATTGGGGAAATTGA
53600230 GGGAAATGAAATTGGGGAAAT
1 GGGAAATGAAATTGGGGAAAT
53600251 CAGAGTGGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.16
22 6 0.16
23 14 0.38
24 5 0.14
25 6 0.16
ACGTcount: A:0.40, C:0.01, G:0.39, T:0.19
Consensus pattern (24 bp):
GGGAAATGAAATTGGGGAAATTGA
Found at i:53601068 original size:29 final size:30
Alignment explanation
Indices: 53600998--53601085 Score: 78
Period size: 29 Copynumber: 3.0 Consensus size: 30
53600988 ATAGGCCCCT
**
53600998 AACCTTACACTC-TAAACCCGTAACTTTTA
1 AACCTTACACTCTTAAACCCGTAACTTACA
*
53601027 AACTTTA-ACCTCTTAAACCC-TAAAC-TACA
1 AACCTTACA-CTCTTAAACCCGT-AACTTACA
*
53601056 AACCTTACACTC-TAAAACCGTAACCTTACA
1 AACCTTACACTCTTAAACCCGTAA-CTTACA
53601086 CTCAAAACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
28 9 0.19
29 23 0.49
30 15 0.32
ACGTcount: A:0.39, C:0.32, G:0.02, T:0.27
Consensus pattern (30 bp):
AACCTTACACTCTTAAACCCGTAACTTACA
Found at i:53601094 original size:20 final size:21
Alignment explanation
Indices: 53601056--53601094 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
53601046 CTAAACTACA
53601056 AACCTTACACTCTAAAACCGT
1 AACCTTACACTCTAAAACCGT
53601077 AACCTTACACTC-AAAACC
1 AACCTTACACTCTAAAACC
53601095 ATGCATTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.36, G:0.03, T:0.21
Consensus pattern (21 bp):
AACCTTACACTCTAAAACCGT
Found at i:53601256 original size:21 final size:21
Alignment explanation
Indices: 53601189--53601256 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
53601179 ACTAAAATAG
* *
53601189 CCTAAACCCCAGAC-CCCAAA
1 CCTAAACCCAAGACACCAAAA
** *
53601209 CCTTAAACCCCAA-ACTAATAAAC
1 CC-TAAA-CCCAAGAC-ACCAAAA
53601232 CCTAAACCCAAGACACCAAAA
1 CCTAAACCCAAGACACCAAAA
53601253 CCTA
1 CCTA
53601257 CATCATAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 9
0.67 0.15 0.17
Matches are distributed among these distances:
20 2 0.06
21 19 0.54
22 10 0.29
23 4 0.11
ACGTcount: A:0.46, C:0.41, G:0.03, T:0.10
Consensus pattern (21 bp):
CCTAAACCCAAGACACCAAAA
Found at i:53601954 original size:115 final size:116
Alignment explanation
Indices: 53601634--53602274 Score: 625
Period size: 115 Copynumber: 5.6 Consensus size: 116
53601624 GCGTTTCAAC
* * *
53601634 GTAAGCGCCACTAATT-GAAGTATACATCGAGACCAAAA-TGATGCGTTTTGGTTCAGATATTTT
1 GTAAGCGCCACTAATTCTAA-TATACATCAAGACCAAAACT-ATGCGTTTTGGTTAAGATATTTT
* ** *
53601697 GCGGCGC-TTCCGTAAAGCGCCGCTAATACTATCCAGTT-GCGGCGTTTTCCTA
64 GCGGCGCTTTTCAAAAAGCGCCGCTAATACTATCC-TTTAGCGGCGTTTTCCTA
* * * * * *
53601749 -TAAGCACCACTAATTCTAACATACCTCAAGACC-AAACTCTGTGTTTT-GTTAAGATATGTTGC
1 GTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
* *** * *
53601811 GGCACTTTTTGCAAAGCGCCGCTAATACTATGCTTTAACGGCGTTTT-CTA
66 GGCGCTTTTCAAAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCTA
* **
53601861 GTAAGCGCCACTAATTCTAGTATACATCAAGATTAAAACTATGCGTTTTGGTTAAGATATTTTGC
1 GTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
* * * * *
53601926 GGCACTTTTCAAAAAGCGCCGCTAATACTATTCTTTAGCGGTGGTTTCC-C
66 GGCGCTTTTCAAAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCTA
* * * ** * *
53601976 GTAAGTGCCACTAATTTTAGTATACATCAAGACCAAAACGCTGCGTTTTAGTTAGGATATTTTGC
1 GTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
** * * *
53602041 GGCGC-TAGCAAAGAATCGCTGCTAATACTATGCTTTAGCGGCGTTTTACC--
66 GGCGCTTTTCAAA-AAGCGCCGCTAATACTATCCTTTAGCGGCGTTTT-CCTA
* * * * *
53602091 GTAAACGCCACTAATTCTAATATACATCAATACCAAAACAATGCATTTTGGTTCAA-AAATTTTG
1 GTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACTATGCGTTTTGGTT-AAGATATTTTG
**
53602155 CGGCGCTTTTC-AAAAGTTCCGCTAATACTATCCGTTT-GCGGCGTTTTCCTA
65 CGGCGCTTTTCAAAAAGCGCCGCTAATACTATCC-TTTAGCGGCGTTTTCCTA
* * * * *
53602206 -TAAGCGCCACTAATTCTAACATAGC-TCAAGACC-GAACTCTGTGTTTTGGTTAAGATCTTTTG
1 GTAAGCGCCACTAATTCTAATATA-CATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTG
53602268 CGGCGCT
65 CGGCGCT
53602275 ACTATGTGTT
Statistics
Matches: 432, Mismatches: 77, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
112 24 0.06
113 97 0.22
114 96 0.22
115 209 0.48
116 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (116 bp):
GTAAGCGCCACTAATTCTAATATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
GGCGCTTTTCAAAAAGCGCCGCTAATACTATCCTTTAGCGGCGTTTTCCTA
Found at i:53602103 original size:230 final size:223
Alignment explanation
Indices: 53601621--53602275 Score: 735
Period size: 230 Copynumber: 2.9 Consensus size: 223
53601611 TTGTGTTTTG
* * ** *
53601621 GCGGCGTTTCAACGTAAGCGCCACTAATTGAAGTATACATCGAGACCAAAA-TGATGCGTTTTGG
1 GCGGCGTTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACT-ATGCGTTTTGG
* * * *
53601685 TTCAGATATTTTGCGGCGC-TTCCGTAAAGCGCCGCTAATACTATCCAGTTGCGGCGTTTTCCTA
65 TTAAGATATTTTGCGGCGCTTTTC-AAAAGCGCCGCTAATACTATCCATTTGCGGCGTTTTCCTA
* *
53601749 TAAGCACCACTAATTCTAACATACCTCAAGACCAAACTCTGTGTTTTGTTAAGATATGTTGCGGC
129 TAAGCGCCACTAATTCTAACATA-CTCAAGACCAAACTCTGTGTTTTGTTAAGATATTTTGCGGC
* *
53601814 ACTTTTTGCAAAGCGCCGCTAATACTATGCTTTA
193 GC---TAGCAAAGCGCCGCTAATACTATGCTTTA
* * **
53601848 ACGGCGTTTT-CTAGTAAGCGCCACTAATTCTAGTATACATCAAGATTAAAACTATGCGTTTTGG
1 GCGGCGTTTTAC-CGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGG
* * * * *
53601912 TTAAGATATTTTGCGGCACTTTTCAAAAAGCGCCGCTAATACTATTC-TTTAGCGGTGGTTTCCC
65 TTAAGATATTTTGCGGCGCTTTTC-AAAAGCGCCGCTAATACTATCCATTT-GCGGCGTTTTCCT
* * * ** * * *
53601976 GTAAGTGCCACTAATTTTAGTATACATCAAGACCAAAACGCTGCGTTTTAGTTAGGATATTTTGC
128 ATAAGCGCCACTAATTCTAACATAC-TCAAGACC-AAACTCTGTGTTTT-GTTAAGATATTTTGC
*
53602041 GGCGCTAGCAAAGAATCGCTGCTAATACTATGCTTTA
190 GGCGCTAGCAAAG---CGCCGCTAATACTATGCTTTA
* * * * *
53602078 GCGGCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAATACCAAAACAATGCATTTTGGT
1 GCGGCGTTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGT
* ** *
53602143 TCAA-AAATTTTGCGGCGCTTTTCAAAAGTTCCGCTAATACTATCCGTTTGCGGCGTTTTCCTAT
66 T-AAGATATTTTGCGGCGCTTTTCAAAAGCGCCGCTAATACTATCCATTTGCGGCGTTTTCCTAT
* *
53602207 AAGCGCCACTAATTCTAACATAGCTCAAGACCGAACTCTGTGTTTTGGTTAAGATCTTTTGCGGC
130 AAGCGCCACTAATTCTAACATA-CTCAAGACCAAACTCTGTGTTTT-GTTAAGATATTTTGCGGC
53602272 GCTA
193 GCTA
53602276 CTATGTGTTA
Statistics
Matches: 354, Mismatches: 60, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
227 79 0.22
228 91 0.26
229 68 0.19
230 113 0.32
231 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (223 bp):
GCGGCGTTTTACCGTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACTATGCGTTTTGGT
TAAGATATTTTGCGGCGCTTTTCAAAAGCGCCGCTAATACTATCCATTTGCGGCGTTTTCCTATA
AGCGCCACTAATTCTAACATACTCAAGACCAAACTCTGTGTTTTGTTAAGATATTTTGCGGCGCT
AGCAAAGCGCCGCTAATACTATGCTTTA
Found at i:53604984 original size:44 final size:42
Alignment explanation
Indices: 53604921--53605034 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
53604911 AATGTGACGT
*
53604921 CGTGTAAGACCACGTCTGGGACATTGGCCTCGATTTGA-AATTTA
1 CGTGTAAGACCATGTCTGGGACATTGGCCTC-ATTT-ATAA-TTA
** *
53604965 CGTGTAAGACCATGTCTGGGACATTGGTGTCATTTATGATTA
1 CGTGTAAGACCATGTCTGGGACATTGGCCTCATTTATAATTA
* *
53605007 CGTGTAAGACCCTGTCTGGGACAGTGGC
1 CGTGTAAGACCATGTCTGGGACATTGGC
53605035 ATCGTTGTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
42 29 0.47
43 5 0.08
44 28 0.45
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACATTGGCCTCATTTATAATTA
Found at i:53605059 original size:43 final size:42
Alignment explanation
Indices: 53604926--53605061 Score: 103
Period size: 42 Copynumber: 3.2 Consensus size: 42
53604916 GACGTCGTGT
* * * * * *
53604926 AAGACCACGTCTGGGACATTGGCCTCGATTTGA-AATTTACGTGT
1 AAGACCATGTCTGGGACAGTGGCATC-ATTT-ATGA-TTACATGA
* ** * *
53604970 AAGACCATGTCTGGGACATTGGTGTCATTTATGATTACGTGT
1 AAGACCATGTCTGGGACAGTGGCATCATTTATGATTACATGA
* * *
53605012 AAGACCCTGTCTGGGACAGTGGCATCGTTGTTTGATTACATGA
1 AAGACCATGTCTGGGACAGTGGCATCATT-TATGATTACATGA
53605055 AAGACCA
1 AAGACCA
53605062 CGTTTGGAAC
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 33 0.43
43 21 0.27
44 23 0.30
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (42 bp):
AAGACCATGTCTGGGACAGTGGCATCATTTATGATTACATGA
Found at i:53605892 original size:22 final size:22
Alignment explanation
Indices: 53605855--53606272 Score: 494
Period size: 22 Copynumber: 19.0 Consensus size: 22
53605845 TTGAAGTAAA
53605855 AATTGTTGATTAAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
53605877 AAATATTGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
*
53605899 AATTGTTGATTAAAATGTTGTCC
1 AATTGTTGATT-AAATGCTGTCC
* *
53605922 AAATGTTGATTTAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
*
53605944 AATTGTTGATTAAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * * *
53605966 AAATATTGATTGAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
53605988 AATTGTTGATTAAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * * * *
53606010 AAATATTGATTGAATGATGCCC
1 AATTGTTGATTAAATGCTGTCC
53606032 AATTGTTGATTAAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
53606054 AGTTGTTGATTAAAAGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
53606076 AAATATTGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
*
53606098 AATTGTTGATTAAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * * *
53606120 AAATATTGATTGAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
53606142 AATTGTTGATTAAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
53606164 AGTTGTTGATTAAAAGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
53606186 AAATATTGATTGAATGCTGTCC
1 AATTGTTGATTAAATGCTGTCC
*
53606208 AATTGTTGATTAAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCC
* * *
53606230 AAATGTTGATTTAATGCTATCC
1 AATTGTTGATTAAATGCTGTCC
53606252 AATTGTTGATTAAATGCTGTC
1 AATTGTTGATTAAATGCTGTC
53606273 TGAATGTTGG
Statistics
Matches: 325, Mismatches: 70, Indels: 2
0.82 0.18 0.01
Matches are distributed among these distances:
22 306 0.94
23 19 0.06
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.41
Consensus pattern (22 bp):
AATTGTTGATTAAATGCTGTCC
Found at i:53606074 original size:110 final size:110
Alignment explanation
Indices: 53605860--53606272 Score: 637
Period size: 110 Copynumber: 3.7 Consensus size: 110
53605850 GTAAAAATTG
* * * * * * * *
53605860 TTGATTAAATGCTGTCCAAATATTGATTGAATGCTGTCCAATTGTTGATTAAAATGTTGTCCAAA
1 TTGATTGAATGCTGTCCAATTGTTGATTAAATGCTGTCCAAATATTGATT-GAATGTTGTCCAAT
* * *
53605925 TGTTGATTTAATGCTGTCCAATTGTTGATTAAATGTTGTCCAAATA
65 TGTTGATTAAATGCTGTCCAGTTGTTGATTAAAAGTTGTCCAAATA
* * *
53605971 TTGATTGAATGTTGTCCAATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGATGCCCAATT
1 TTGATTGAATGCTGTCCAATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGTTGTCCAATT
53606036 GTTGATTAAATGCTGTCCAGTTGTTGATTAAAAGTTGTCCAAATA
66 GTTGATTAAATGCTGTCCAGTTGTTGATTAAAAGTTGTCCAAATA
*
53606081 TTGATTGAATGCTGTCCAATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCCAATT
1 TTGATTGAATGCTGTCCAATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGTTGTCCAATT
53606146 GTTGATTAAATGCTGTCCAGTTGTTGATTAAAAGTTGTCCAAATA
66 GTTGATTAAATGCTGTCCAGTTGTTGATTAAAAGTTGTCCAAATA
* * * * *
53606191 TTGATTGAATGCTGTCCAATTGTTGATTAAATGTTGTCCAAATGTTGATTTAATGCTATCCAATT
1 TTGATTGAATGCTGTCCAATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGTTGTCCAATT
53606256 GTTGATTAAATGCTGTC
66 GTTGATTAAATGCTGTC
53606273 TGAATGTTGG
Statistics
Matches: 280, Mismatches: 22, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
110 237 0.85
111 43 0.15
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (110 bp):
TTGATTGAATGCTGTCCAATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGTTGTCCAATT
GTTGATTAAATGCTGTCCAGTTGTTGATTAAAAGTTGTCCAAATA
Found at i:53606764 original size:29 final size:29
Alignment explanation
Indices: 53606699--53606764 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
53606689 GTAATGATAT
53606699 AAGCT-TGAATATATATAGTGAATATTCG
1 AAGCTATGAATATATATAGTGAATATTCG
*
53606727 AATGGTATGAATATA-ATAGTGAATAGGTTCG
1 AA-GCTATGAATATATATAGTGAATA--TTCG
53606758 AA-CTATG
1 AAGCTATG
53606765 GGCTTGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
28 2 0.06
29 16 0.50
30 8 0.25
31 6 0.19
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.33
Consensus pattern (29 bp):
AAGCTATGAATATATATAGTGAATATTCG
Found at i:53615875 original size:12 final size:12
Alignment explanation
Indices: 53615858--53615883 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
53615848 CAAAACAGGC
53615858 TTTTAGCGGCGT
1 TTTTAGCGGCGT
53615870 TTTTAGCGGCGT
1 TTTTAGCGGCGT
53615882 TT
1 TT
53615884 GGATAAAAAA
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:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:53616070 original size:73 final size:72
Alignment explanation
Indices: 53615951--53616119 Score: 223
Period size: 73 Copynumber: 2.3 Consensus size: 72
53615941 AAAAAAAGCA
* * * *
53615951 TTAGCGGCGTTTTTGAGCAAAGCGCCGCAAATAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGA-TAAAGCGCCGCAAAAAACCCAAGCCCAACGACGCCGTTTTCTGAACTT
* *
53616016 TCGGGGAT
65 TCAGAGAT
* *
53616024 TTAGCGACGTTTTTGATAAAGCGCCGCAAAAAAACCCAAGCCCAACGATGCCGTTTTCTGAACTT
1 TTAGCGGCGTTTTTGATAAAGCGCCGC-AAAAAACCCAAGCCCAACGACGCCGTTTTCTGAACTT
53616089 TCAGAGAT
65 TCAGAGAT
*
53616097 TTAGCGGTGTTTTTCG-TAAAGCG
1 TTAGCGGCGTTTTT-GATAAAGCG
53616120 TCGCTAAAGG
Statistics
Matches: 84, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
72 10 0.12
73 73 0.87
74 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (72 bp):
TTAGCGGCGTTTTTGATAAAGCGCCGCAAAAAACCCAAGCCCAACGACGCCGTTTTCTGAACTTT
CAGAGAT
Found at i:53616934 original size:14 final size:15
Alignment explanation
Indices: 53616906--53616938 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
53616896 AAGTTTTATA
53616906 GATTATGGAATTAGG
1 GATTATGGAATTAGG
53616921 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
53616935 GATT
1 GATT
53616939 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:53616980 original size:14 final size:14
Alignment explanation
Indices: 53616961--53617027 Score: 66
Period size: 14 Copynumber: 4.9 Consensus size: 14
53616951 TTAATGTGAT
* *
53616961 TTAAGGTTTATGGG
1 TTAAGGGTTAGGGG
53616975 TTAAGGGTTAGGGG
1 TTAAGGGTTAGGGG
53616989 TTAAGGGTTA--GG
1 TTAAGGGTTAGGGG
* **
53617001 TTAGGGGTTAGATG
1 TTAAGGGTTAGGGG
*
53617015 TTAAGAGTTAGGG
1 TTAAGGGTTAGGG
53617028 ATTTAGGGCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
12 11 0.26
14 32 0.74
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:53617008 original size:26 final size:26
Alignment explanation
Indices: 53616973--53617026 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
53616963 AAGGTTTATG
* *
53616973 GGTTAAGGGTTAGGGGTTAAGGGTTA
1 GGTTAAGGGTTAGAGGTTAAGAGTTA
* *
53616999 GGTTAGGGGTTAGATGTTAAGAGTTA
1 GGTTAAGGGTTAGAGGTTAAGAGTTA
53617025 GG
1 GG
53617027 GATTTAGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.44, T:0.31
Consensus pattern (26 bp):
GGTTAAGGGTTAGAGGTTAAGAGTTA
Found at i:53617017 original size:19 final size:20
Alignment explanation
Indices: 53616972--53617010 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
53616962 TAAGGTTTAT
53616972 GGGTTAAGGGTTAGGGGTTAA
1 GGGTTAA-GGTTAGGGGTTAA
53616993 GGGTT-AGGTTAGGGGTTA
1 GGGTTAAGGTTAGGGGTTA
53617011 GATGTTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.67
20 1 0.06
21 5 0.28
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.31
Consensus pattern (20 bp):
GGGTTAAGGTTAGGGGTTAA
Found at i:53617312 original size:21 final size:21
Alignment explanation
Indices: 53617288--53617366 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
53617278 TGGGTTTAAA
*
53617288 GGTTAGGATTTAAGGTTTAGG
1 GGTTAGGAGTTAAGGTTTAGG
*
53617309 GGTTAGTG-GTTAAGGGTTAGG
1 GGTTAG-GAGTTAAGGTTTAGG
* *
53617330 GGTTAAGAGTTAGGGATTTAGG
1 GGTTAGGAGTTAAGG-TTTAGG
*
53617352 GGTTAGGACTTAAGG
1 GGTTAGGAGTTAAGG
53617367 ATTCAAGGGT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
20 1 0.02
21 28 0.60
22 18 0.38
ACGTcount: A:0.24, C:0.01, G:0.42, T:0.33
Consensus pattern (21 bp):
GGTTAGGAGTTAAGGTTTAGG
Found at i:53617314 original size:7 final size:7
Alignment explanation
Indices: 53617304--53617358 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
53617294 GATTTAAGGT
53617304 TTAGGGG
1 TTAGGGG
*
53617311 TTAGTGG
1 TTAGGGG
*
53617318 TTAAGGG
1 TTAGGGG
53617325 TTAGGGG
1 TTAGGGG
* *
53617332 TTAAGAG
1 TTAGGGG
*
53617339 TTAGGGAT
1 TTAGGG-G
53617347 TTAGGGG
1 TTAGGGG
53617354 TTAGG
1 TTAGG
53617359 ACTTAAGGAT
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:53617704 original size:19 final size:18
Alignment explanation
Indices: 53617675--53617728 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
53617665 GGACCAAATT
*
53617675 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
53617693 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
53617712 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
53617729 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:53617782 original size:47 final size:48
Alignment explanation
Indices: 53617713--53617811 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
53617703 AAAAATGAAA
*
53617713 TAAAAACACTAAAATTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
53617761 TAAAAA-ACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
53617808 TAAA
1 TAAA
53617812 CAAAACTATG
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (48 bp):
TAAAAACACTAAAATTTATAATTTTATCTAATTTTTATAAATATTACT
Found at i:53618152 original size:16 final size:15
Alignment explanation
Indices: 53618131--53618170 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
53618121 TGGTTGAAAT
53618131 ATTTATTCCCCTCCAA
1 ATTTATTCCCCTCC-A
*
53618147 ATTTATTCCCCTTCA
1 ATTTATTCCCCTCCA
53618162 ATTT-TTCCC
1 ATTTATTCCC
53618171 ATACCCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.20, C:0.35, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTTATTCCCCTCCA
Found at i:53622595 original size:43 final size:43
Alignment explanation
Indices: 53622547--53622712 Score: 260
Period size: 43 Copynumber: 3.9 Consensus size: 43
53622537 GCTTTTATCA
* *
53622547 AAAGCGTCGCTAAAGATCATGTTTTTTAGCGGCGTTTGTGGTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* * *
53622590 AAAGCGTCGCTAAAGATCATGTTCTTTAGCGGCATTTGTGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
*
53622633 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
* *
53622676 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
53622713 TGCCTCATAA
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 114 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGTT
Found at i:53623017 original size:17 final size:16
Alignment explanation
Indices: 53622979--53623017 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
53622969 GTGTAATTGG
*
53622979 TTGATTTTTAGTTTAA
1 TTGATTTTTAGGTTAA
53622995 TTGATTTTTAGGTTAA
1 TTGATTTTTAGGTTAA
53623011 TTAGATT
1 TT-GATT
53623018 AATTGATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (16 bp):
TTGATTTTTAGGTTAA
Found at i:53624195 original size:21 final size:21
Alignment explanation
Indices: 53624166--53624206 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
53624156 CCACAATTCA
*
53624166 ATATGTTCATGAGCTTTATTT
1 ATATGTTCATGAACTTTATTT
* *
53624187 ATATTTTCATTAACTTTATT
1 ATATGTTCATGAACTTTATT
53624207 AATTAGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (21 bp):
ATATGTTCATGAACTTTATTT
Found at i:53624572 original size:20 final size:20
Alignment explanation
Indices: 53624547--53624584 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53624537 CTCAATTTAG
*
53624547 GATAATTAATTATTTAATTA
1 GATAATTAATGATTTAATTA
*
53624567 GATAATTAGTGATTTAAT
1 GATAATTAATGATTTAAT
53624585 CAATCATAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (20 bp):
GATAATTAATGATTTAATTA
Found at i:53628617 original size:22 final size:22
Alignment explanation
Indices: 53628592--53628636 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
53628582 AATACAAGTG
53628592 ATTGGTTATGAGCATATACCTA
1 ATTGGTTATGAGCATATACCTA
53628614 ATTGGTTATGAGCATATACCTA
1 ATTGGTTATGAGCATATACCTA
53628636 A
1 A
53628637 GTTATTTGTT
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:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (22 bp):
ATTGGTTATGAGCATATACCTA
Found at i:53640771 original size:22 final size:20
Alignment explanation
Indices: 53640745--53640798 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 20
53640735 CCCAAAACCG
53640745 TCAAAACTTTTATTTTACTCCC
1 TCAAAACTTTTATTTT-C-CCC
53640767 TCAAAACTTTTTATTTTCCCC
1 TCAAAAC-TTTTATTTTCCCC
*
53640788 -CTAAACTTTTA
1 TCAAAACTTTTA
53640799 CTTCTCACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 5 0.17
21 3 0.10
22 8 0.27
23 9 0.30
ACGTcount: A:0.28, C:0.26, G:0.00, T:0.46
Consensus pattern (20 bp):
TCAAAACTTTTATTTTCCCC
Found at i:53641869 original size:11 final size:10
Alignment explanation
Indices: 53641847--53641877 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
53641837 TTAATTATGA
53641847 TTTTTAAAAT
1 TTTTTAAAAT
53641857 TTTTTAAAGAT
1 TTTTTAAA-AT
53641868 TTTTTAAAAT
1 TTTTTAAAAT
53641878 ATTTCTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (10 bp):
TTTTTAAAAT
Found at i:53642348 original size:19 final size:19
Alignment explanation
Indices: 53642326--53642382 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
53642316 ATGTAAATAG
53642326 ATTAAAAATAAACT-ATAAT
1 ATTAAAAATAAA-TAATAAT
53642345 ATTAAAAATAAATAATAAT
1 ATTAAAAATAAATAATAAT
* *
53642364 AATAATAAT-AATAATAAT
1 ATTAAAAATAAATAATAAT
53642382 A
1 A
53642383 ATGAGAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 11 0.31
19 24 0.69
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
ATTAAAAATAAATAATAAT
Found at i:53642363 original size:3 final size:3
Alignment explanation
Indices: 53642340--53642384 Score: 63
Period size: 3 Copynumber: 14.7 Consensus size: 3
53642330 AAAATAAACT
* *
53642340 ATA ATA TTA AAA ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
53642385 GAGAAATAGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:53669633 original size:19 final size:19
Alignment explanation
Indices: 53669611--53669647 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53669601 TTATTAATGC
*
53669611 AAATCTAATTCTAACATGT
1 AAATCTAATTCCAACATGT
*
53669630 AAATCTGATTCCAACATG
1 AAATCTAATTCCAACATG
53669648 ATTCTAGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (19 bp):
AAATCTAATTCCAACATGT
Found at i:53673139 original size:29 final size:30
Alignment explanation
Indices: 53673091--53673147 Score: 82
Period size: 29 Copynumber: 1.9 Consensus size: 30
53673081 CCATAAAGGC
53673091 TTTCCTTTGATAGAGATTGCCACAAAGGTA
1 TTTCCTTTGATAGAGATTGCCACAAAGGTA
*
53673121 TTTCC-TTG-TAGAGATTTGCCATAAAGG
1 TTTCCTTTGATAGAGA-TTGCCACAAAGG
53673148 CGTTCTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 6 0.24
29 14 0.56
30 5 0.20
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (30 bp):
TTTCCTTTGATAGAGATTGCCACAAAGGTA
Found at i:53674618 original size:37 final size:37
Alignment explanation
Indices: 53674577--53674650 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
53674567 TAATAACATA
53674577 ATCAAAGCACCATGCAATTCAAACAAAAAATAGAATT
1 ATCAAAGCACCATGCAATTCAAACAAAAAATAGAATT
53674614 ATCAAAGCACCATGCAATTCAAACAAAAAATAGAATT
1 ATCAAAGCACCATGCAATTCAAACAAAAAATAGAATT
53674651 TTTGTCGAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.54, C:0.19, G:0.08, T:0.19
Consensus pattern (37 bp):
ATCAAAGCACCATGCAATTCAAACAAAAAATAGAATT
Found at i:53674640 original size:21 final size:21
Alignment explanation
Indices: 53674579--53674640 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
53674569 ATAACATAAT
53674579 CAAAGCACCATGCAATTCAAA
1 CAAAGCACCATGCAATTCAAA
* *
53674600 CAAA--A-AATAG-AATT--AT
1 CAAAGCACCAT-GCAATTCAAA
53674616 CAAAGCACCATGCAATTCAAA
1 CAAAGCACCATGCAATTCAAA
53674637 CAAA
1 CAAA
53674641 AAATAGAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 14
0.62 0.08 0.29
Matches are distributed among these distances:
16 5 0.17
18 8 0.27
19 8 0.27
21 9 0.30
ACGTcount: A:0.53, C:0.23, G:0.08, T:0.16
Consensus pattern (21 bp):
CAAAGCACCATGCAATTCAAA
Found at i:53679933 original size:15 final size:14
Alignment explanation
Indices: 53679887--53679934 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
53679877 TAGTGTGTTA
53679887 ATTTTTAATTATTT
1 ATTTTTAATTATTT
*
53679901 TTATTTTAATTA-TT
1 AT-TTTTAATTATTT
*
53679915 ATTTTTATTTATTT
1 ATTTTTAATTATTT
53679929 AATTTT
1 -ATTTT
53679935 CGTTAGATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 8 0.29
14 6 0.21
15 14 0.50
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTTAATTATTT
Found at i:53680653 original size:20 final size:21
Alignment explanation
Indices: 53680628--53680671 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
53680618 TTTTAAACTT
53680628 ATTTATTT-AAAATAAATTAA
1 ATTTATTTAAAAATAAATTAA
*
53680648 ATTTATTTAAAAATAGATTAA
1 ATTTATTTAAAAATAAATTAA
53680669 ATT
1 ATT
53680672 ATGTGTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTTATTTAAAAATAAATTAA
Found at i:53684621 original size:17 final size:17
Alignment explanation
Indices: 53684580--53684621 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
53684570 TATACTATTT
*
53684580 TAAAATTTTAAATAAAT
1 TAAAATTTTAAATAAAA
*
53684597 TCAAATTTT-AATAAAA
1 TAAAATTTTAAATAAAA
53684613 TAAACATTT
1 TAAA-ATTT
53684622 ATTGTAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAATTTTAAATAAAA
Found at i:53687365 original size:15 final size:15
Alignment explanation
Indices: 53687345--53687374 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
53687335 CTAGCGAACT
53687345 GGGGAGTTCGCCAAA
1 GGGGAGTTCGCCAAA
53687360 GGGGAGTTCGCCAAA
1 GGGGAGTTCGCCAAA
53687375 AGTGTATCAG
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:0.27, C:0.20, G:0.40, T:0.13
Consensus pattern (15 bp):
GGGGAGTTCGCCAAA
Found at i:53692077 original size:20 final size:20
Alignment explanation
Indices: 53692052--53692091 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53692042 TTGCATGAGA
*
53692052 AAGATTGTTGTTAGTGATTT
1 AAGATTGTTGTCAGTGATTT
53692072 AAGATTGTTGTCAGTGATTT
1 AAGATTGTTGTCAGTGATTT
53692092 TGTTTCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (20 bp):
AAGATTGTTGTCAGTGATTT
Found at i:53694568 original size:79 final size:81
Alignment explanation
Indices: 53694466--53694649 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
53694456 GCTCATCGTT
* * *
53694466 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCCTC-GGATCTTAACC
*
53694528 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
53694546 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCCTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCCTCGGATCTTAACCCGG
*
53694610 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
53694626 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53694650 CATCATTCAA
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 14 0.15
79 55 0.60
80 22 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCCTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:53694583 original size:39 final size:41
Alignment explanation
Indices: 53694466--53694649 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
53694456 GCTCATCGTT
* *
53694466 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
53694506 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
53694546 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * * *
53694585 CAAATGCCCTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
53694626 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53694650 CATCATTCAA
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
38 3 0.02
39 46 0.37
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:53700184 original size:28 final size:30
Alignment explanation
Indices: 53700136--53700199 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
53700126 GCAACTATCT
53700136 TTTC-TAT-TTTTTAATAAAAATTAAAT-A
1 TTTCTTATATTTTTAATAAAAATTAAATCA
* *
53700163 TTTCTTATATTTTT-ATTAAAATTTAATCA
1 TTTCTTATATTTTTAATAAAAATTAAATCA
53700192 TTT-TTATA
1 TTTCTTATA
53700200 AAATTTATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 4 0.12
28 19 0.59
29 9 0.28
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTCTTATATTTTTAATAAAAATTAAATCA
Found at i:53700196 original size:20 final size:20
Alignment explanation
Indices: 53700171--53700218 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
53700161 TATTTCTTAT
53700171 ATTTTTATTAAAATTTAATC
1 ATTTTTATTAAAATTTAATC
* *
53700191 ATTTTTA-TAAAATTTATTG
1 ATTTTTATTAAAATTTAATC
53700210 ATTTTTATT
1 ATTTTTATT
53700219 TTTTATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTTATTAAAATTTAATC
Found at i:53701144 original size:42 final size:42
Alignment explanation
Indices: 53701085--53701167 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
53701075 AAAGTCTACC
53701085 ATATTGCATTTATTTCCCAAAAACATCAACAACTAAATCAAA
1 ATATTGCATTTATTTCCCAAAAACATCAACAACTAAATCAAA
53701127 ATATTGCATTTATTTCCCAAAAACATCAACAACTAAATCAA
1 ATATTGCATTTATTTCCCAAAAACATCAACAACTAAATCAA
53701168 CACCTACGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (42 bp):
ATATTGCATTTATTTCCCAAAAACATCAACAACTAAATCAAA
Found at i:53709704 original size:61 final size:62
Alignment explanation
Indices: 53709526--53709732 Score: 249
Period size: 62 Copynumber: 3.4 Consensus size: 62
53709516 GTATATGTTT
* * * **
53709526 TATACATTTCCAAATTTGATTTGTATATAGATATACATTG-CAGAATTTGAATTGTTTATAAA
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGTCA-AATTTGAATTGTATATGGA
* * * * * *
53709588 TATACATTGCCGAATTTAATTGGTATATGGTTATACATTGTCGAATTTGACTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGTCAAATTTGAATTGTATATGGA
* *
53709650 TATACATTGCCGAA-TTGATTTGTATGTAGATATACATTGTCAAATTTGAGTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGATATACATTGTCAAATTTGAATTGTATATGGA
* *
53709711 TATATATTGTCGAA-TTGATTTG
1 TATACATTGCCGAATTTGATTTG
53709733 AGCATTGGAT
Statistics
Matches: 124, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
61 60 0.48
62 63 0.51
63 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (62 bp):
TATACATTGCCGAATTTGATTTGTATATAGATATACATTGTCAAATTTGAATTGTATATGGA
Found at i:53709720 original size:31 final size:31
Alignment explanation
Indices: 53709538--53709726 Score: 204
Period size: 31 Copynumber: 6.1 Consensus size: 31
53709528 TACATTTCCA
*
53709538 AATTTGATTTGTATATAGATATACATTG-CAG
1 AATTTGAATTGTATATAGATATACATTGTC-G
* * *
53709569 AATTTGAATTGTTTATAAATATACATTGCCG
1 AATTTGAATTGTATATAGATATACATTGTCG
* *
53709600 AATTT-AATTGGTATATGGTTATACATTGTCG
1 AATTTGAATT-GTATATAGATATACATTGTCG
* * *
53709631 AATTTGACTTGTATATGGATATACATTGCCG
1 AATTTGAATTGTATATAGATATACATTGTCG
* * *
53709662 AA-TTGATTTGTATGTAGATATACATTGTCA
1 AATTTGAATTGTATATAGATATACATTGTCG
* * *
53709692 AATTTGAGTTGTATATGGATATATATTGTCG
1 AATTTGAATTGTATATAGATATACATTGTCG
53709723 AATT
1 AATT
53709727 GATTTGAGCA
Statistics
Matches: 133, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
30 29 0.22
31 100 0.75
32 4 0.03
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.43
Consensus pattern (31 bp):
AATTTGAATTGTATATAGATATACATTGTCG
Found at i:53709742 original size:92 final size:93
Alignment explanation
Indices: 53709538--53709726 Score: 229
Period size: 92 Copynumber: 2.0 Consensus size: 93
53709528 TACATTTCCA
* * * * *
53709538 AATTTGATTTGTATATAGATATACATTGCAGAATTTGAATTGTTTATAAATATACATTGCCGAAT
1 AATTTGACTTGCATATGGATATACATTGCAGAATTTGAATTGTATATAAATATACATTGCCAAAT
*
53709603 TTAATTGGTATATGGTTATACATTGTCG
66 TTAATTGGTATATGGATATACATTGTCG
* * * * * *
53709631 AATTTGACTTGTATATGGATATACATTGCCGAA-TTGATTTGTATGTAGATATACATTGTCAAAT
1 AATTTGACTTGCATATGGATATACATTGCAGAATTTGAATTGTATATAAATATACATTGCCAAAT
* *
53709695 TTGAGTT-GTATATGGATATATATTGTCG
66 TT-AATTGGTATATGGATATACATTGTCG
53709723 AATT
1 AATT
53709727 GATTTGAGCA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
92 50 0.60
93 33 0.40
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.43
Consensus pattern (93 bp):
AATTTGACTTGCATATGGATATACATTGCAGAATTTGAATTGTATATAAATATACATTGCCAAAT
TTAATTGGTATATGGATATACATTGTCG
Found at i:53709898 original size:43 final size:43
Alignment explanation
Indices: 53709850--53709997 Score: 224
Period size: 43 Copynumber: 3.4 Consensus size: 43
53709840 TCTGACGTGT
* *
53709850 GATTTCATGTAAGACCATAGTTGGGCTATTAGCATCGATTTGA
1 GATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
*
53709893 GATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
1 GATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
* * **
53709936 GACTTCATGTAAGACCGTAGCTGGGCTATTGGCATCGATACGA
1 GATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
53709979 GATTTCCATGTAAGACCAT
1 GATTT-CATGTAAGACCAT
53709998 GTCTTGGACA
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
43 82 0.87
44 12 0.13
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
Found at i:53716261 original size:31 final size:31
Alignment explanation
Indices: 53716067--53716267 Score: 251
Period size: 31 Copynumber: 6.5 Consensus size: 31
53716057 TTATATGTTT
*
53716067 TATACATTGTCGAATTTGATTTGTATATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
53716098 TATACATTGCTGAATTTGAATTGTTTATAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* * *
53716129 TATGCATTGCCGAATTTGATTTGTATATGGT
1 TATACATTGCCGAATTTGATTTGTATATAGA
** *
53716160 TATACATTATCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
** *
53716191 TATACATTTTCGAA-TTGATTTGTATGTAGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
*
53716221 TATACATTGCCGAATTTGATTTGTATATGGA
1 TATACATTGCCGAATTTGATTTGTATATAGA
* *
53716252 TATATATTGCTGAATT
1 TATACATTGCCGAATT
53716268 GCTTTGAGCA
Statistics
Matches: 146, Mismatches: 23, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
30 26 0.18
31 120 0.82
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (31 bp):
TATACATTGCCGAATTTGATTTGTATATAGA
Found at i:53716294 original size:92 final size:92
Alignment explanation
Indices: 53716067--53716255 Score: 245
Period size: 92 Copynumber: 2.0 Consensus size: 92
53716057 TTATATGTTT
* * * * * * * *
53716067 TATACATTGTCGAATTTGATTTGTATATAGATATACA-TTGCTGAATTTGAATTGTTTATAGATA
1 TATACATTATCGAATTTGATTTGCATATGGATAGACATTTTC-GAA-TTGATTTGTATGTAGATA
* *
53716131 TGCATTGCCGAATTTGATTTGTATATGGT
64 TACATTGCCGAATTTGATTTGTATATGGA
* *
53716160 TATACATTATCGAATTTGATTTGTATATGGATATACATTTTCGAATTGATTTGTATGTAGATATA
1 TATACATTATCGAATTTGATTTGCATATGGATAGACATTTTCGAATTGATTTGTATGTAGATATA
53716225 CATTGCCGAATTTGATTTGTATATGGA
66 CATTGCCGAATTTGATTTGTATATGGA
53716252 TATA
1 TATA
53716256 TATTGCTGAA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
92 46 0.53
93 38 0.44
94 3 0.03
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (92 bp):
TATACATTATCGAATTTGATTTGCATATGGATAGACATTTTCGAATTGATTTGTATGTAGATATA
CATTGCCGAATTTGATTTGTATATGGA
Found at i:53716455 original size:43 final size:43
Alignment explanation
Indices: 53716391--53716538 Score: 199
Period size: 43 Copynumber: 3.4 Consensus size: 43
53716381 TCTGAGGTGT
* ** *
53716391 GATTTCGTGTAAGACTGTAGCTGGGCTTTTGGCATCGATCTGA
1 GATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATCTGA
* *
53716434 GATTTTATGTAAGACCATAGCTGGGCTATTGGCATCGATTTGA
1 GATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATCTGA
* *
53716477 GATTTCGTGTAAGACCATAGTTGGGCTATTGGCATCGATAC-GA
1 GATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGAT-CTGA
53716520 GATTTCCATGTAAGACCAT
1 GATTT-CATGTAAGACCAT
53716539 GTCTGGGACA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
43 80 0.87
44 12 0.13
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
GATTTCATGTAAGACCATAGCTGGGCTATTGGCATCGATCTGA
Found at i:53717085 original size:37 final size:37
Alignment explanation
Indices: 53717035--53717109 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
53717025 GAAAGAGTAA
*
53717035 AATTTGCAATAAAACAGTTTTGGACAGAAACATTTGT
1 AATTTGCAATAAAACAGTTTTGGACAGAAACAGTTGT
53717072 AATTTGCAATAAAACAGTTTTGGACAGAAACAGTTGT
1 AATTTGCAATAAAACAGTTTTGGACAGAAACAGTTGT
53717109 A
1 A
53717110 TAACTTTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (37 bp):
AATTTGCAATAAAACAGTTTTGGACAGAAACAGTTGT
Found at i:53725560 original size:31 final size:31
Alignment explanation
Indices: 53725522--53725583 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
53725512 AGGCAAATTA
53725522 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
53725553 CAAGAGTAATTGAATCCTAATAAAACTCTTT
1 CAAGAGTAATTGAATCCTAATAAAACTCTTT
53725584 AAAATTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (31 bp):
CAAGAGTAATTGAATCCTAATAAAACTCTTT
Found at i:53729009 original size:15 final size:16
Alignment explanation
Indices: 53728989--53729018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53728979 AAGGTTAAAA
53728989 TCGTC-AAATTTTACC
1 TCGTCAAAATTTTACC
53729004 TCGTCAAAATTTTAC
1 TCGTCAAAATTTTAC
53729019 TAGGGTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (16 bp):
TCGTCAAAATTTTACC
Found at i:53751113 original size:27 final size:27
Alignment explanation
Indices: 53751083--53751269 Score: 293
Period size: 27 Copynumber: 6.9 Consensus size: 27
53751073 GGTGTTACAT
* *
53751083 GAATTACCCTCACAGGGTAAAATAATC
1 GAATTACCCCCACAGGGTAAAATGATC
53751110 GAATTACCCCCACAGGGTAAAATGATC
1 GAATTACCCCCACAGGGTAAAATGATC
53751137 GAATTACCCCCACAGGGTAAAATGATC
1 GAATTACCCCCACAGGGTAAAATGATC
53751164 GAATTACCCCCACAGGGTAAAATGATC
1 GAATTACCCCCACAGGGTAAAATGATC
53751191 GAATTACCCCCACAGGGTAAAATGATC
1 GAATTACCCCCACAGGGTAAAATGATC
* *
53751218 GAATTACCCCCATAGGGTAAAATGACC
1 GAATTACCCCCACAGGGTAAAATGATC
* * * * *
53751245 AAAATACCTCCATAGTGTAAAATGA
1 GAATTACCCCCACAGGGTAAAATGA
53751270 CTGTTATACC
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 152 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (27 bp):
GAATTACCCCCACAGGGTAAAATGATC
Found at i:53751676 original size:28 final size:28
Alignment explanation
Indices: 53751635--53751699 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
53751625 ACTGTACCAA
*
53751635 TACTGTATTAGGCTAGGGACCACATGGT
1 TACTGTATTAGGCTAAGGACCACATGGT
* * *
53751663 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTAGGCTAAGGACCACATGGT
53751691 TACTGTATT
1 TACTGTATT
53751700 TCACTAAGGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (28 bp):
TACTGTATTAGGCTAAGGACCACATGGT
Found at i:53751706 original size:28 final size:28
Alignment explanation
Indices: 53751654--53751723 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
53751644 AGGCTAGGGA
* **
53751654 CCACATGGTTACTGTATTGGGCTAAGGC
1 CCACATTGTTACTGTATTGCACTAAGGC
*
53751682 CCACATTGTTACTGTATTTCACTAAGGC
1 CCACATTGTTACTGTATTGCACTAAGGC
* *
53751710 CTACACTG-TACTGT
1 CCACATTGTTACTGT
53751724 TACTGAATAG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 6 0.17
28 30 0.83
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (28 bp):
CCACATTGTTACTGTATTGCACTAAGGC
Found at i:53751826 original size:25 final size:25
Alignment explanation
Indices: 53751792--53751841 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
53751782 GGGGATTACA
53751792 CACTGAGTTTCGTAAA-CTCACTCTT
1 CACTGAGTTTCG-AAATCTCACTCTT
*
53751817 CACTGAGTTTCGAAATCTTACTCTT
1 CACTGAGTTTCGAAATCTCACTCTT
53751842 TCCTTTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (25 bp):
CACTGAGTTTCGAAATCTCACTCTT
Found at i:53757642 original size:27 final size:27
Alignment explanation
Indices: 53757612--53757673 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
53757602 AGGGGCATTA
53757612 CGGTCATTTTA-CCTTACAAGGGTATTT
1 CGGTCATTTTATCCTT-CAAGGGTATTT
*
53757639 CGGTCATTTTATCCTTCGAGGGTATTT
1 CGGTCATTTTATCCTTCAAGGGTATTT
*
53757666 CAGTCATT
1 CGGTCATT
53757674 CAACAACCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
CGGTCATTTTATCCTTCAAGGGTATTT
Found at i:53758202 original size:8 final size:8
Alignment explanation
Indices: 53758160--53758202 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
53758150 GTAGTCATAC
*
53758160 TTTCAGCT
1 TTTCAGCA
*
53758168 TTTCAGCT
1 TTTCAGCA
53758176 TTTCAGCA
1 TTTCAGCA
* *
53758184 TTTCGGGA
1 TTTCAGCA
53758192 TTTCAGCA
1 TTTCAGCA
53758200 TTT
1 TTT
53758203 GCTGATCTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.16, C:0.21, G:0.16, T:0.47
Consensus pattern (8 bp):
TTTCAGCA
Found at i:53764750 original size:137 final size:137
Alignment explanation
Indices: 53764504--53764755 Score: 346
Period size: 137 Copynumber: 1.8 Consensus size: 137
53764494 ATGTCATTAG
* * * * *
53764504 GGTTACCATGTTTCGGGTGCTGGTTCTAAATGTCTTACCGATGGCTGAGTTTTGACATTTGTTGC
1 GGTTACAATGTTTCGGGTGCTGGTTCTAAATGTCCTACCGATGGCTAAGGTCTGACATTTGTTGC
53764569 GGATACTCATCAACTTATGTGAGTGGCAACGTGTAGCTACATTCCAACCGCCAGCTTGTGTGAGC
66 GGATACTCATCAACTTATGTGAGTGGCAACGTGTAGCTACATTCCAACCGCCAGCTTGTGTGAGC
53764634 AGACCTA
131 AGACCTA
* **
53764641 GGTTACAATGTTTCGGGTGCTGG-TCTTGAATGTCCTACCGATGGCTAAGGTCTGGTATTTGTTG
1 GGTTACAATGTTTCGGGTGCTGGTTC-TAAATGTCCTACCGATGGCTAAGGTCTGACATTTGTTG
* * * * * *
53764705 TGGATACTCGTCAGCTTGTGTGAAG-GGCATCGTGTAGCTATATTCCAACCG
65 CGGATACTCATCAACTTATGTG-AGTGGCAACGTGTAGCTACATTCCAACCG
53764756 TCACCTTATG
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
136 2 0.02
137 95 0.96
138 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (137 bp):
GGTTACAATGTTTCGGGTGCTGGTTCTAAATGTCCTACCGATGGCTAAGGTCTGACATTTGTTGC
GGATACTCATCAACTTATGTGAGTGGCAACGTGTAGCTACATTCCAACCGCCAGCTTGTGTGAGC
AGACCTA
Found at i:53764810 original size:42 final size:41
Alignment explanation
Indices: 53764716--53764810 Score: 109
Period size: 42 Copynumber: 2.3 Consensus size: 41
53764706 GGATACTCGT
*** * *
53764716 CAGCTTGTGTGAAGGGCATCGTGTAGCTATATTCCAACCGT
1 CAGCTTGTGTGAACAACATCGTGTAGCTACATTCCAACCGC
* * *
53764757 CACCTTATGTGAACAACATTGTGTAGCTTACATTCCAACCGC
1 CAGCTTGTGTGAACAACATCGTGTAGC-TACATTCCAACCGC
53764799 CAGCTTGTGTGA
1 CAGCTTGTGTGA
53764811 GCCACGACTA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
41 21 0.49
42 22 0.51
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.29
Consensus pattern (41 bp):
CAGCTTGTGTGAACAACATCGTGTAGCTACATTCCAACCGC
Found at i:53767022 original size:36 final size:36
Alignment explanation
Indices: 53766912--53767035 Score: 103
Period size: 36 Copynumber: 3.4 Consensus size: 36
53766902 CACTTCTTCG
* * *
53766912 AATGCATATATATATA-AT-TCAAATACATATGCCA
1 AATGCACATATATATACTTATCAACTACATATGCCA
* * * * *
53766946 AAAGCAAATA-ATTATACTTATCAACCACATGTGCCG
1 AATGCACATATA-TATACTTATCAACTACATATGCCA
*
53766982 AATGCACATATATATACTTAT-AATTTACATATGCCA
1 AATGCACATATATATACTTATCAA-CTACATATGCCA
53767018 AATGCATACATATATATA
1 AATGC--ACATATATATA
53767036 TCCAACAATT
Statistics
Matches: 70, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
33 1 0.01
34 12 0.17
35 3 0.04
36 42 0.60
37 1 0.01
38 11 0.16
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.31
Consensus pattern (36 bp):
AATGCACATATATATACTTATCAACTACATATGCCA
Found at i:53767258 original size:41 final size:41
Alignment explanation
Indices: 53767203--53767324 Score: 190
Period size: 41 Copynumber: 3.0 Consensus size: 41
53767193 TTAATTAAAA
53767203 CAGATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
1 CAGA-TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* *
53767245 CAGATCACTGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
* * *
53767286 CAGTTCACCGGCACTTAGCCTTCTAGGCTTTAAGCCTGA
1 CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGA
53767325 ATTGATTCAC
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 69 0.95
42 4 0.05
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (41 bp):
CAGATCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
Found at i:53767353 original size:41 final size:40
Alignment explanation
Indices: 53767205--53767339 Score: 175
Period size: 41 Copynumber: 3.3 Consensus size: 40
53767195 AATTAAAACA
*
53767205 GATTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT
1 GATTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGATT
*
53767245 CAGA-TCACTGGCACTTAGCCTGCTAGGC-TTATAGCCTGATT
1 --GATTCACCGGCACTTAGCCTGCTAGGCTTTA-AGCCTGATT
* *
53767286 CAGTTCACCGGCACTTAGCCTTCTAGGCTTTAAGCCTGAATT
1 GA-TTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTG-ATT
53767328 GATTCACCGGCA
1 GATTCACCGGCA
53767340 ATATACCTAC
Statistics
Matches: 82, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 70 0.85
42 9 0.11
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (40 bp):
GATTCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGATT
Found at i:53767363 original size:82 final size:81
Alignment explanation
Indices: 53767207--53767365 Score: 198
Period size: 82 Copynumber: 1.9 Consensus size: 81
53767197 TTAAAACAGA
* * *
53767207 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGATCACTGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATT-AGATCACCGGCAATTAGCCTACTAGG
*
53767272 CTTATAGCCTGATTCAG
65 CTGATAGCCTGATTCAG
* *
53767289 TTCACCGGCACTTAGCCTTCTAGGCTTTAAGCCTGAATT-GATTCACCGGCAATATA-CCTACTA
1 TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTAGA-TCACCGGCAAT-TAGCCTACTA
53767352 GG-TGATGAGCCTGA
63 GGCTGAT-AGCCTGA
53767366 ATACGCAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
81 5 0.07
82 57 0.85
83 5 0.07
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (81 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTAGATCACCGGCAATTAGCCTACTAGGC
TGATAGCCTGATTCAG
Found at i:53767552 original size:60 final size:60
Alignment explanation
Indices: 53767459--53767578 Score: 231
Period size: 60 Copynumber: 2.0 Consensus size: 60
53767449 TAACTTATAT
53767459 CATTGATACACATGGTTATATAAAGTTCAATCACCAATTCCAAACTTGATAATTCAATGA
1 CATTGATACACATGGTTATATAAAGTTCAATCACCAATTCCAAACTTGATAATTCAATGA
*
53767519 CATTGATACACATGGTTATATAAAGTTCAATCACCAATTCCAAACTTGGTAATTCAATGA
1 CATTGATACACATGGTTATATAAAGTTCAATCACCAATTCCAAACTTGATAATTCAATGA
53767579 TTTAACCGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (60 bp):
CATTGATACACATGGTTATATAAAGTTCAATCACCAATTCCAAACTTGATAATTCAATGA
Found at i:53767820 original size:41 final size:41
Alignment explanation
Indices: 53767763--53767889 Score: 154
Period size: 41 Copynumber: 3.1 Consensus size: 41
53767753 ATATACATAT
* *
53767763 TAGGCTTAAAGCCTGATTCAGATCACTGGCACTTAGCCTGC
1 TAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGC
*
53767804 TAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGC
1 TAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGC
*
53767845 TAGGCTT-TAAGCCTGAATT--GATTCACCGGCAATATA-CCTGC
1 TAGGCTTAT-AGCCTG-ATTCAGA-TCACCGGCACT-TAGCCTGC
53767886 TAGG
1 TAGG
53767890 TGCTGAGCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
40 2 0.03
41 70 0.91
42 5 0.06
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (41 bp):
TAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGC
Found at i:53774811 original size:41 final size:41
Alignment explanation
Indices: 53774754--53774899 Score: 208
Period size: 41 Copynumber: 3.6 Consensus size: 41
53774744 TAAAATAGAT
53774754 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
* *
53774795 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGT
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
*
53774836 TCACCGGCACTTAGCCTGCTAGGCTTTAAGCCTGAATT--GA
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTG-ATTCAGA
*
53774876 TTCACCGGCAATATA-CCTGCTAGG
1 -TCACCGGCACT-TAGCCTGCTAGG
53774900 TGCTGAGCCT
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
40 1 0.01
41 90 0.94
42 5 0.05
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
Found at i:53775280 original size:22 final size:23
Alignment explanation
Indices: 53775232--53775281 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
53775222 AAATCTTAAA
* *
53775232 CATATATATACATATACATTTGAC
1 CATATATATAAATATACAATT-AC
*
53775256 CATATATATAAATATATAATT-C
1 CATATATATAAATATACAATTAC
53775278 CATA
1 CATA
53775282 CCTAATTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 5 0.22
24 18 0.78
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (23 bp):
CATATATATAAATATACAATTAC
Found at i:53784798 original size:20 final size:19
Alignment explanation
Indices: 53784772--53784813 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
53784762 TTCTTTGAAA
*
53784772 AAGGTTTACCTTAGATTGC
1 AAGGTTTACCATAGATTGC
53784791 ANAGGTTTACCATAGATTGC
1 A-AGGTTTACCATAGATTGC
53784811 AAG
1 AAG
53784814 CGCGGTTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.31
Consensus pattern (19 bp):
AAGGTTTACCATAGATTGC
Found at i:53787375 original size:25 final size:24
Alignment explanation
Indices: 53787341--53787435 Score: 118
Period size: 25 Copynumber: 3.8 Consensus size: 24
53787331 CAAGCCCATT
*
53787341 TTCACAGCTCGTGTGAGCATTCTAG
1 TTCACAGCTCATGTGAGCATTCT-G
53787366 TTCACAGCTCATGTGAGCATTCTGG
1 TTCACAGCTCATGTGAGCATTCT-G
*
53787391 TTCGCAGCTCATGTGAGCATTCTG
1 TTCACAGCTCATGTGAGCATTCTG
* * *
53787415 ATCCACAGCTCGTGTAAGCAT
1 -TTCACAGCTCATGTGAGCAT
53787436 ACATGTACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 1 0.02
25 61 0.98
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (24 bp):
TTCACAGCTCATGTGAGCATTCTG
Found at i:53788100 original size:20 final size:19
Alignment explanation
Indices: 53788077--53788118 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
53788067 TAAAGAAATT
53788077 AAATAC-AATGGAAAGTAATG
1 AAATACAAAT-GAAAGTAA-G
*
53788097 AAATGCAAATGAAAGTAAG
1 AAATACAAATGAAAGTAAG
53788116 AAA
1 AAA
53788119 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATACAAATGAAAGTAAG
Found at i:53792388 original size:20 final size:20
Alignment explanation
Indices: 53792357--53792412 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
53792347 AGACGATGAA
53792357 CCATTCCATTTACTTACTTT
1 CCATTCCATTTACTTACTTT
*
53792377 CTACTT-CATTTACTTACTTT
1 CCA-TTCCATTTACTTACTTT
53792397 CCATTCCATTTACTTA
1 CCATTCCATTTACTTA
53792413 GCATAAGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (20 bp):
CCATTCCATTTACTTACTTT
Found at i:53802016 original size:10 final size:10
Alignment explanation
Indices: 53802001--53802027 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
53801991 CCGACAATCA
53802001 CAAAATTTTC
1 CAAAATTTTC
53802011 CAAAATTTTC
1 CAAAATTTTC
53802021 CAAAATT
1 CAAAATT
53802028 CCTAGTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (10 bp):
CAAAATTTTC
Found at i:53817036 original size:18 final size:18
Alignment explanation
Indices: 53817013--53817049 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
53817003 CTTTTGGTTC
53817013 TTCATGAATGTAAATAGT
1 TTCATGAATGTAAATAGT
53817031 TTCATGAATGTAAATAGT
1 TTCATGAATGTAAATAGT
53817049 T
1 T
53817050 CGAACTCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
TTCATGAATGTAAATAGT
Found at i:53819298 original size:59 final size:59
Alignment explanation
Indices: 53819189--53819336 Score: 223
Period size: 59 Copynumber: 2.6 Consensus size: 59
53819179 GGTGTAGTGC
53819189 TAATTATGTGGTGTAGTAC--AATAATGCACTTGGACAATATTATTATGTGGTGAACTAT
1 TAATTATGTGGTGTAGTACTAAAT-ATGCACTTGGACAATATTATTATGTGGTGAACTAT
* * * *
53819247 TAATTATGTTGTTTAGTACTAAATATGTACTTGGACAGTATTATTATGTGGTGAACTAT
1 TAATTATGTGGTGTAGTACTAAATATGCACTTGGACAATATTATTATGTGGTGAACTAT
53819306 TAA-T-TGTGGTGTAGTACTAAATATGCACTTG
1 TAATTATGTGGTGTAGTACTAAATATGCACTTG
53819337 AGCAATAATG
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
57 24 0.30
58 18 0.22
59 36 0.44
60 3 0.04
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (59 bp):
TAATTATGTGGTGTAGTACTAAATATGCACTTGGACAATATTATTATGTGGTGAACTAT
Done.