Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 57 of 145
Found at i:18483301 original size:131 final size:131
Alignment explanation
Indices: 18483095--18483342 Score: 354
Period size: 131 Copynumber: 1.9 Consensus size: 131
18483085 TCATCAAATC
** * *
18483095 AAATCGAATGAACTTAGGTTGCGATCTTAAATCAGCCAACATTAACAATATCTGCTGCGATATTA
1 AAATCGAATGAACTTAGGTCACGATCTTAAATCAGCCAACATTAACAATATCAGCTACGATATTA
* *
18483160 AACCAACGAGCTATTTGGAGTAGCGATATTAAATT-AGCTAACTCAAATAAGATTATTATTGATA
66 AACCAACGAGCTATTTGGAGTAACAATATT-AATTCAGCTAACTCAAATAAGATTATTATTGATA
18483224 TT
130 TT
** * * * *
18483226 AAATCGAATGAACTTAGGTCACGATCTTAAATCAGTGAACCTTTACGATATCAGCTACGATCTTA
1 AAATCGAATGAACTTAGGTCACGATCTTAAATCAGCCAACATTAACAATATCAGCTACGATATTA
* *
18483291 AATCAGCGAGCTATTTGGAGTAACAATATTAATTCAGCTAACTCAAATAAGA
66 AACCAACGAGCTATTTGGAGTAACAATATTAATTCAGCTAACTCAAATAAGA
18483343 CTGTTCATAA
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 4 0.04
131 98 0.96
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (131 bp):
AAATCGAATGAACTTAGGTCACGATCTTAAATCAGCCAACATTAACAATATCAGCTACGATATTA
AACCAACGAGCTATTTGGAGTAACAATATTAATTCAGCTAACTCAAATAAGATTATTATTGATAT
T
Found at i:18493553 original size:12 final size:12
Alignment explanation
Indices: 18493521--18493561 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
18493511 TGCATAAAAT
*
18493521 AAAATAGTCCTA
1 AAAATAGTCTTA
18493533 AATAATAGTCTTA
1 AA-AATAGTCTTA
*
18493546 AAAATAGTATTA
1 AAAATAGTCTTA
18493558 AAAA
1 AAAA
18493562 AATTCCCCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (12 bp):
AAAATAGTCTTA
Found at i:18493561 original size:13 final size:13
Alignment explanation
Indices: 18493521--18493562 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
18493511 TGCATAAAAT
*
18493521 AAAATAGTCCTAA
1 AAAATAGTCTTAA
*
18493534 ATAATAGTCTT-A
1 AAAATAGTCTTAA
*
18493546 AAAATAGTATTAA
1 AAAATAGTCTTAA
18493559 AAAA
1 AAAA
18493563 ATTCCCCCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATAGTCTTAA
Found at i:18506661 original size:194 final size:194
Alignment explanation
Indices: 18506302--18506694 Score: 576
Period size: 194 Copynumber: 2.0 Consensus size: 194
18506292 CACTCCCATT
* * *
18506302 AAAATTACAAACGACAAGCTGACGTGGTAATTAAAAAATAGGTATATTAACAAATTTAGCCTCCA
1 AAAAATACAAACGACAAGATGACGTGGTAATTAAAAAATAGGTATAATAACAAATTTAGCCTCCA
* * * * *
18506367 ATTTTTACATATTATATCGATTTATTCATAATTTTAAAAAATTAACCATCATAATTTACAAATGT
66 ATTTTTAAATATCATATCAATTTAGTCATAACTTTAAAAAATTAACCATCATAATTTACAAATGT
*
18506432 TCTCAATTTGATCCTAATTCTAAAAAAAATCAAAGAAATATATAAAAATACATAAATATTTTCA
131 TCTCAATTTGATCCTAATTCTAAAAAAAATCAAAGAAATATATAAAAACACATAAATATTTTCA
* * * *
18506496 AAAAATACAAACGACAAGATGATGTGGTAGTTAAAAATATATGTATAATAATAAATTTAGCC-CT
1 AAAAATACAAACGACAAGATGACGTGGTAATTAAAAA-ATAGGTATAATAACAAATTTAGCCTC-
*
18506560 CAATTTTTAAATATCATATCAATTTAGTCATAACTTT-AAAAATTAACCCTCATAATTTACAAAT
64 CAATTTTTAAATATCATATCAATTTAGTCATAACTTTAAAAAATTAACCATCATAATTTACAAAT
* * *
18506624 GTTCTCAAGTTTGATCCTAATT-TTAAAAAATTCAAAGAAATATATAAAAACACATACATATTTT
129 GTTCTCAA-TTTGATCCTAATTCTAAAAAAAATCAAAGAAATATATAAAAACACATAAATATTTT
*
18506688 TA
193 CA
18506690 AAAAA
1 AAAAA
18506695 ATATAATAAT
Statistics
Matches: 178, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
194 112 0.63
195 66 0.37
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (194 bp):
AAAAATACAAACGACAAGATGACGTGGTAATTAAAAAATAGGTATAATAACAAATTTAGCCTCCA
ATTTTTAAATATCATATCAATTTAGTCATAACTTTAAAAAATTAACCATCATAATTTACAAATGT
TCTCAATTTGATCCTAATTCTAAAAAAAATCAAAGAAATATATAAAAACACATAAATATTTTCA
Found at i:18506776 original size:27 final size:26
Alignment explanation
Indices: 18506746--18506821 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
18506736 TATTGTTCAC
18506746 AATAAATAATAATATATAAAATTTAAA
1 AATAAATAATAATA-ATAAAATTTAAA
* * *
18506773 AATATATAAAAATAAATAAATATTTTCAA
1 AATAAATAATAAT-AATAAA-A-TTTAAA
18506802 AA-AAAT-ATAATAATAAAATT
1 AATAAATAATAATAATAAAATT
18506822 AATATTAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 2 0.05
25 1 0.02
26 6 0.15
27 20 0.49
28 5 0.12
29 7 0.17
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (26 bp):
AATAAATAATAATAATAAAATTTAAA
Found at i:18506778 original size:59 final size:54
Alignment explanation
Indices: 18506661--18506821 Score: 177
Period size: 59 Copynumber: 2.9 Consensus size: 54
18506651 AAATTCAAAG
* * * * *
18506661 AAATATATAAAAACACATACATATTTTTAAAAAAATATAATA-AT-AAGTTTAA
1 AAATATATAAAAATAAATAAATATTTTCAAAAAAATATAATATATAAAATTTAA
* *
18506713 AAATATATAAAGATAGAA-AATATTATTGTTCACAATAAATAATAATATATAAAATTTAA
1 AAATATATAAAAATA-AATAA-A-TATT-TTCA-AAAAAAT-ATAATATATAAAATTTAA
18506772 AAATATATAAAAATAAATAAATATTTTCAAAAAAATATAATA-ATAAAATT
1 AAATATATAAAAATAAATAAATATTTTCAAAAAAATATAATATATAAAATT
18506822 AATATTAATA
Statistics
Matches: 91, Mismatches: 9, Indels: 17
0.78 0.08 0.15
Matches are distributed among these distances:
52 14 0.15
53 10 0.11
54 10 0.11
55 9 0.10
56 10 0.11
57 10 0.11
58 5 0.05
59 23 0.25
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (54 bp):
AAATATATAAAAATAAATAAATATTTTCAAAAAAATATAATATATAAAATTTAA
Found at i:18506828 original size:6 final size:6
Alignment explanation
Indices: 18506805--18506845 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
18506795 TTTTCAAAAA
* *
18506805 AATA-T AATAAT AAAATT AATATT AATATT AATATT AATATT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT
18506846 CCATCCCCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AATATT
Found at i:18513280 original size:16 final size:16
Alignment explanation
Indices: 18513259--18513321 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 16
18513249 CGTTAATTCG
18513259 GGCTTTGTGCCTAGCA
1 GGCTTTGTGCCTAGCA
*
18513275 GGCTTTGTGCCGGTGATATTCA
1 GGCTTTGTGCC-----TA-GCA
18513297 GGCTTTGTGCCTAGCA
1 GGCTTTGTGCCTAGCA
18513313 GGCTTTGTG
1 GGCTTTGTG
18513322 TCGGTGAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
16 22 0.56
17 2 0.05
21 2 0.05
22 13 0.33
ACGTcount: A:0.11, C:0.21, G:0.33, T:0.35
Consensus pattern (16 bp):
GGCTTTGTGCCTAGCA
Found at i:18513310 original size:38 final size:39
Alignment explanation
Indices: 18513254--18513357 Score: 147
Period size: 38 Copynumber: 2.7 Consensus size: 39
18513244 CGTAACGTTA
18513254 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTG-AT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAAT
* *
18513292 ATTCAGGCTTTGTGCCTAGCAGGCTTTGTGTCGGTGAAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAAT
* * * *
18513331 ATTTGGGCTCTATGCCTAGTAGGCTTT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTT
18513358 ATTCTGGTGT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
38 34 0.59
39 24 0.41
ACGTcount: A:0.13, C:0.19, G:0.31, T:0.37
Consensus pattern (39 bp):
ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAAT
Found at i:18513347 original size:39 final size:38
Alignment explanation
Indices: 18513266--18513357 Score: 121
Period size: 39 Copynumber: 2.4 Consensus size: 38
18513256 TCGGGCTTTG
* *
18513266 TGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGCTTTG
1 TGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGCTCTA
* **
18513304 TGCCTAGCAGGCTTTGTGTCGGTGAATATTTGGGCTCTA
1 TGCCTAGCAGGCTTTGTGCCGGTG-ATATTCAGGCTCTA
*
18513343 TGCCTAGTAGGCTTT
1 TGCCTAGCAGGCTTT
18513358 ATTCTGGTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
38 23 0.49
39 24 0.51
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (38 bp):
TGCCTAGCAGGCTTTGTGCCGGTGATATTCAGGCTCTA
Found at i:18519082 original size:20 final size:21
Alignment explanation
Indices: 18519044--18519083 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
18519034 TAAAATGAAC
18519044 CTGATAAGCCTTGCTAAACAG
1 CTGATAAGCCTTGCTAAACAG
*
18519065 CTGATAAGTCTT-CTAAACA
1 CTGATAAGCCTTGCTAAACA
18519084 CAAGCTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (21 bp):
CTGATAAGCCTTGCTAAACAG
Found at i:18519203 original size:15 final size:15
Alignment explanation
Indices: 18519183--18519214 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18519173 GAGATTTTTA
18519183 AATTTAATTAAATTT
1 AATTTAATTAAATTT
18519198 AATTTAATTAAATTT
1 AATTTAATTAAATTT
18519213 AA
1 AA
18519215 GGATAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTTAATTAAATTT
Found at i:18519650 original size:21 final size:22
Alignment explanation
Indices: 18519622--18519677 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
18519612 AATTAATAAA
* *
18519622 ATTATAAAAATATTTAAATTTT
1 ATTATAAAAATATATAAAATTT
*
18519644 ATT-TAAAATTATATAAAATTT
1 ATTATAAAAATATATAAAATTT
18519665 ATTAT-AAAATATA
1 ATTATAAAAATATA
18519678 AATATAGAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATTATAAAAATATATAAAATTT
Found at i:18519670 original size:12 final size:12
Alignment explanation
Indices: 18519622--18519674 Score: 53
Period size: 11 Copynumber: 4.8 Consensus size: 12
18519612 AATTAATAAA
*
18519622 ATTATAAAA-AT
1 ATTATAAAATTT
*
18519633 ATT-TAAATTTT
1 ATTATAAAATTT
18519644 ATT-TAAAA-TT
1 ATTATAAAATTT
18519654 A-TATAAAATTT
1 ATTATAAAATTT
18519665 ATTATAAAAT
1 ATTATAAAAT
18519675 ATAAATATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 1 0.03
10 12 0.34
11 14 0.40
12 8 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATTATAAAATTT
Found at i:18525302 original size:30 final size:31
Alignment explanation
Indices: 18525261--18525345 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 31
18525251 ATTAAATTTT
*
18525261 AAATTTTAATAAAAATATTAAAA-ATTAGAA
1 AAATATTAATAAAAATATTAAAATATTAGAA
* * *
18525291 AAATATTAATAAAAATTTGTAAAATTTTATAA
1 AAATATTAATAAAAATAT-TAAAATATTAGAA
18525323 AAATCA-TAATAAAAATA-TAAAAT
1 AAAT-ATTAATAAAAATATTAAAAT
18525346 GCATCAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
30 22 0.47
31 5 0.11
32 19 0.40
33 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (31 bp):
AAATATTAATAAAAATATTAAAATATTAGAA
Found at i:18525303 original size:21 final size:20
Alignment explanation
Indices: 18525279--18525326 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
18525269 ATAAAAATAT
18525279 TAAAAATTAGAAAAATATTAA
1 TAAAAATTAGAAAAAT-TTAA
* * *
18525300 TAAAAATTTGTAAAATTTTA
1 TAAAAATTAGAAAAATTTAA
18525320 TAAAAAT
1 TAAAAAT
18525327 CATAATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (20 bp):
TAAAAATTAGAAAAATTTAA
Found at i:18525333 original size:32 final size:30
Alignment explanation
Indices: 18525267--18525344 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 30
18525257 TTTTAAATTT
*
18525267 TAATAAAAATATTAAAAATTAGAAAAATAT
1 TAATAAAAATATTAAAAATTAGAAAAATAA
* * * *
18525297 TAATAAAAATTTGTAAAATTTTATAAAAATCA
1 TAATAAAAATAT-TAAAA-ATTAGAAAAATAA
18525329 TAATAAAAATA-TAAAA
1 TAATAAAAATATTAAAA
18525345 TGCATCAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
30 16 0.40
31 5 0.12
32 19 0.47
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (30 bp):
TAATAAAAATATTAAAAATTAGAAAAATAA
Found at i:18537642 original size:20 final size:19
Alignment explanation
Indices: 18537607--18537744 Score: 79
Period size: 19 Copynumber: 7.2 Consensus size: 19
18537597 TTTTTATGAA
18537607 TTTTAT-ATTTCTTTACATT
1 TTTTATAATTT-TTTACATT
*
18537626 TTTTATAATTTTCTTACGACT
1 TTTTATAATTTT-TTAC-ATT
* *
18537647 TTATAAAATTTTATT--ATT
1 TTTTATAATTTT-TTACATT
*
18537665 TTTTATAATTATTTTATGA-T
1 TTTTATAATT-TTTTA-CATT
***
18537685 TTTTATAAAAATTTACATT
1 TTTTATAATTTTTTACATT
*
18537704 TTTTATATTTTTTTACGA-T
1 TTTTATAATTTTTTAC-ATT
* * *
18537723 TTTTATACTTTTATATATT
1 TTTTATAATTTTTTACATT
18537742 TTT
1 TTT
18537745 ATTAAAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 20
0.71 0.14 0.16
Matches are distributed among these distances:
18 14 0.15
19 44 0.48
20 18 0.20
21 15 0.16
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTTTTTACATT
Found at i:18537666 original size:39 final size:37
Alignment explanation
Indices: 18537623--18537744 Score: 120
Period size: 39 Copynumber: 3.2 Consensus size: 37
18537613 ATTTCTTTAC
18537623 ATTTTTTATAATTTTCTTACGACTTTATAAAATTTTATT
1 ATTTTTTATAATTTT-TTACGA-TTTATAAAATTTTATT
* * *
18537662 ATTTTTTATAATTATTTTATGATTTTTATAAAAATTTA-C
1 ATTTTTTATAATT-TTTTACGA--TTTATAAAATTTTATT
* * * *
18537701 ATTTTTTATATTTTTTTACGATTTTTATACTTTTATAT
1 ATTTTTTATAATTTTTTACGATTTATAAAATTTTAT-T
18537739 ATTTTT
1 ATTTTT
18537745 ATTAAAATTT
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
36 10 0.15
38 13 0.19
39 30 0.44
40 15 0.22
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (37 bp):
ATTTTTTATAATTTTTTACGATTTATAAAATTTTATT
Found at i:18537678 original size:21 final size:19
Alignment explanation
Indices: 18537646--18537785 Score: 90
Period size: 19 Copynumber: 7.3 Consensus size: 19
18537636 TTCTTACGAC
*
18537646 TTTATAAAATTTTATTATTT
1 TTTATAAAATTTTATGA-TT
*
18537666 TTTATAATTATTTTATGATT
1 TTTATAA-AATTTTATGATT
* *
18537686 TTTATAAAAATTTA-CATTT
1 TTTATAAAATTTTATGA-TT
*** *
18537705 TTTATATTTTTTTACGATT
1 TTTATAAAATTTTATGATT
* *
18537724 TTTAT--ACTTTTATATATT
1 TTTATAAAATTTTAT-GATT
* *
18537742 TTTATTAAAATTTAATCATT
1 TTTA-TAAAATTTTATGATT
18537762 TTTAT-AAATTTTATTGATT
1 TTTATAAAATTTTA-TGATT
18537781 TTTAT
1 TTTAT
18537786 TTTTTTATCA
Statistics
Matches: 93, Mismatches: 19, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
17 5 0.05
18 15 0.16
19 35 0.38
20 24 0.26
21 14 0.15
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATAAAATTTTATGATT
Found at i:18537680 original size:78 final size:77
Alignment explanation
Indices: 18537586--18537745 Score: 196
Period size: 78 Copynumber: 2.1 Consensus size: 77
18537576 TGTACAATAA
* ****
18537586 TTTTAATAATTTTTTTATGAATTTTATATTTCTTTACATTTTTTATAATTTTCTTACGACTTTAT
1 TTTTAATAATTATTTTATGAATTTTATAAAAATTTACATTTTTTAT-ATTTTCTTACGA-TTTAT
18537651 AAAATTTTAT-TAT
64 AAAATTTTATATAT
* * * * *
18537664 TTTTTATAATTATTTTATGATTTTTATAAAAATTTACATTTTTTATATTTTTTTACGATTTTTAT
1 TTTTAATAATTATTTTATGAATTTTATAAAAATTTACATTTTTTATATTTTCTTACGATTTATAA
*
18537729 ACTTTTATATAT
66 AATTTTATATAT
18537741 TTTTA
1 TTTTA
18537746 TTAAAATTTA
Statistics
Matches: 69, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
76 12 0.17
77 18 0.26
78 39 0.57
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (77 bp):
TTTTAATAATTATTTTATGAATTTTATAAAAATTTACATTTTTTATATTTTCTTACGATTTATAA
AATTTTATATAT
Found at i:18541896 original size:136 final size:136
Alignment explanation
Indices: 18541678--18542109 Score: 664
Period size: 136 Copynumber: 3.2 Consensus size: 136
18541668 GAGAGAGAGT
* * *
18541678 TACTTGGGTATTTATACCTAGCCTTGGGGCATCAATGCTCCAGAGTGCTATCGGATGCTTAAGTT
1 TACTTGGATATTTATACCTAGCCTTGGGGCATCAGTGCTCCAGAGTGCTATCTGATGCTTAAGTT
18541743 AGCAAAGGAGATTGTGTAATGGATAAAAAAAGAGCTTAAGCTAGCAGAGAAGAAGTGTGAGAGGG
66 AGCAAAGGAGATTGTGTAATGGATAAAAAAAGAGCTTAAGCTAGCAGAGAAGAAGTGTGAGAGGG
18541808 ATTTGG
131 ATTTGG
18541814 TACTTGGATATTTATACCTAGCCTTGGGGCATCAGTGCTCCAGAGTGCTATCTGATGCTTAAGTT
1 TACTTGGATATTTATACCTAGCCTTGGGGCATCAGTGCTCCAGAGTGCTATCTGATGCTTAAGTT
18541879 AGCAAAGGAGATTGTGTAATGGATAAAAAAAGAGCTTAAGCTAGCAGAGAAGAAGTGTGAGAGGG
66 AGCAAAGGAGATTGTGTAATGGATAAAAAAAGAGCTTAAGCTAGCAGAGAAGAAGTGTGAGAGGG
18541944 ATTTGG
131 ATTTGG
* * *
18541950 TACTTGGATATTTATACCTAGCCTTGGGGCATCAGTGCTCCAGAATGCTCTTTGATGCTTAAGTT
1 TACTTGGATATTTATACCTAGCCTTGGGGCATCAGTGCTCCAGAGTGCTATCTGATGCTTAAGTT
* * * * * *
18542015 AGAAAACGAGATGGTGTAATGGGT-----AA-AGC--AAGCTAGCAGAGAGGAAGTAAGAGAGAG
66 AGCAAAGGAGATTGTGTAATGGATAAAAAAAGAGCTTAAGCTAGCAGAGAAGAAGT--GTGAGAG
*
18542072 GGAGTTGG
129 GGATTTGG
*
18542080 TACTTGGGTATTTATACCTAGCCTTGGGGC
1 TACTTGGATATTTATACCTAGCCTTGGGGC
18542110 TGCCTGTTGC
Statistics
Matches: 280, Mismatches: 14, Indels: 10
0.92 0.05 0.03
Matches are distributed among these distances:
128 18 0.06
130 45 0.16
131 2 0.01
136 215 0.77
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.27
Consensus pattern (136 bp):
TACTTGGATATTTATACCTAGCCTTGGGGCATCAGTGCTCCAGAGTGCTATCTGATGCTTAAGTT
AGCAAAGGAGATTGTGTAATGGATAAAAAAAGAGCTTAAGCTAGCAGAGAAGAAGTGTGAGAGGG
ATTTGG
Found at i:18557266 original size:44 final size:44
Alignment explanation
Indices: 18557216--18557370 Score: 213
Period size: 44 Copynumber: 3.5 Consensus size: 44
18557206 TCATTAGGGC
*
18557216 TTATATTCAATAGGTACTATGTATCGGTGTTGGCTATGTGCCAT
1 TTATATTCAACAGGTACTATGTATCGGTGTTGGCTATGTGCCAT
*
18557260 TTATATTCAGCAGGTACTATGTATCGGTGTTGGCTAAT-TGCCAT
1 TTATATTCAACAGGTACTATGTATCGGTGTTGGCT-ATGTGCCAT
* ** * * * *
18557304 TTGTATTCAGTAGGTACCATGTATTGATGTTGGCTATGTGTCAT
1 TTATATTCAACAGGTACTATGTATCGGTGTTGGCTATGTGCCAT
18557348 TTATATTCAACAGGTACTATGTA
1 TTATATTCAACAGGTACTATGTA
18557371 CTAGTATTGG
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
43 2 0.02
44 93 0.96
45 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (44 bp):
TTATATTCAACAGGTACTATGTATCGGTGTTGGCTATGTGCCAT
Found at i:18560007 original size:22 final size:22
Alignment explanation
Indices: 18559940--18560009 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 22
18559930 ACTATGAATA
*
18559940 ACATTGGAAT-TGAATGTCACG
1 ACATTGGAATCTGAATGTCGCG
* * *
18559961 ACATTGGGA-CTGAATGTTGCA
1 ACATTGGAATCTGAATGTCGCG
*
18559982 ACATTGGAATCTGAATGTCGTG
1 ACATTGGAATCTGAATGTCGCG
18560004 ACATTG
1 ACATTG
18560010 AATACAGACG
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
21 24 0.62
22 15 0.38
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (22 bp):
ACATTGGAATCTGAATGTCGCG
Found at i:18566366 original size:25 final size:24
Alignment explanation
Indices: 18566311--18566414 Score: 99
Period size: 25 Copynumber: 4.4 Consensus size: 24
18566301 AATTTTGGAC
18566311 TAAATTGAATAGTATGTTTTTAAA
1 TAAATTGAATAGTATGTTTTTAAA
18566335 TAAATTGAATAGTATGTTTATTAAA
1 TAAATTGAATAGTATGTTT-TTAAA
* * ** *
18566360 TAGATTG-AT-G-A-ATTTTGGAC
1 TAAATTGAATAGTATGTTTTTAAA
*
18566380 TAAATTGAATAGTATGTGTATTAAA
1 TAAATTGAATAGTATGT-TTTTAAA
*
18566405 TAGATTGAAT
1 TAAATTGAAT
18566415 TTGCTTATTT
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
20 8 0.13
21 5 0.08
22 2 0.03
23 2 0.03
24 22 0.35
25 23 0.37
ACGTcount: A:0.40, C:0.01, G:0.16, T:0.42
Consensus pattern (24 bp):
TAAATTGAATAGTATGTTTTTAAA
Found at i:18568046 original size:12 final size:12
Alignment explanation
Indices: 18568029--18568059 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18568019 TGGGCAAGGA
18568029 CACGAGCTCGGG
1 CACGAGCTCGGG
18568041 CACGAGCTCGGG
1 CACGAGCTCGGG
18568053 CACGAGC
1 CACGAGC
18568060 GTGTGTACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.35, G:0.39, T:0.06
Consensus pattern (12 bp):
CACGAGCTCGGG
Found at i:18573354 original size:12 final size:12
Alignment explanation
Indices: 18573337--18573361 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18573327 ATTTTATAAC
18573337 ATAAATATTGTT
1 ATAAATATTGTT
18573349 ATAAATATTGTT
1 ATAAATATTGTT
18573361 A
1 A
18573362 ATAGCCTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:18575863 original size:24 final size:21
Alignment explanation
Indices: 18575782--18575850 Score: 95
Period size: 21 Copynumber: 3.3 Consensus size: 21
18575772 CTCACAAAGA
* * *
18575782 AAAAAGA-AAGTGAGTTAGAC
1 AAAAAGAGAAGTAACTTGGAC
*
18575802 AAAAAGAGAAGCAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
18575823 AAAAAGAGAAGTAACTTGGAC
1 AAAAAGAGAAGTAACTTGGAC
18575844 AAAAAGA
1 AAAAAGA
18575851 AACGAAGTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 7 0.16
21 36 0.84
ACGTcount: A:0.57, C:0.09, G:0.23, T:0.12
Consensus pattern (21 bp):
AAAAAGAGAAGTAACTTGGAC
Found at i:18582356 original size:19 final size:19
Alignment explanation
Indices: 18582334--18582391 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
18582324 TTGCCAAAAT
18582334 TTTTTTGCTGATTCTACTA
1 TTTTTTGCTGATTCTACTA
* * * *
18582353 TTTTATCCTGA---TAATT
1 TTTTTTGCTGATTCTACTA
*
18582369 TTTTTTGCTAATTCTACTA
1 TTTTTTGCTGATTCTACTA
18582388 TTTT
1 TTTT
18582392 ATCCTGATAA
Statistics
Matches: 27, Mismatches: 9, Indels: 6
0.64 0.21 0.14
Matches are distributed among these distances:
16 11 0.41
19 16 0.59
ACGTcount: A:0.19, C:0.14, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTTTGCTGATTCTACTA
Found at i:18582376 original size:35 final size:35
Alignment explanation
Indices: 18582333--18582410 Score: 129
Period size: 35 Copynumber: 2.2 Consensus size: 35
18582323 TTTGCCAAAA
* *
18582333 TTTTTTTGCTGATTCTACTATTTTATCCTGATAAT
1 TTTTTTTGCTAATTCTACTATTTTATCCTGATAAC
18582368 TTTTTTTGCTAATTCTACTATTTTATCCTGATAAC
1 TTTTTTTGCTAATTCTACTATTTTATCCTGATAAC
*
18582403 TTATTTTG
1 TTTTTTTG
18582411 TTAGAACTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.21, C:0.14, G:0.08, T:0.58
Consensus pattern (35 bp):
TTTTTTTGCTAATTCTACTATTTTATCCTGATAAC
Found at i:18582421 original size:35 final size:35
Alignment explanation
Indices: 18582336--18582425 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
18582326 GCCAAAATTT
* * * *
18582336 TTTTGCTGATTCTACTATTTTATCCTGATAATTTT
1 TTTTGCTAATACTACTATTTTATCCTGATAACTTA
*
18582371 TTTTGCTAATTCTACTATTTTATCCTGATAACTTA
1 TTTTGCTAATACTACTATTTTATCCTGATAACTTA
*
18582406 TTTTGTTAGA-ACTACTATTT
1 TTTTGCTA-ATACTACTATTT
18582426 ATTTCTTGAG
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
35 48 0.98
36 1 0.02
ACGTcount: A:0.23, C:0.14, G:0.08, T:0.54
Consensus pattern (35 bp):
TTTTGCTAATACTACTATTTTATCCTGATAACTTA
Found at i:18589592 original size:14 final size:14
Alignment explanation
Indices: 18589573--18589601 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18589563 ACAGATGGAT
18589573 TCGTATAATTCTTA
1 TCGTATAATTCTTA
18589587 TCGTATAATTCTTA
1 TCGTATAATTCTTA
18589601 T
1 T
18589602 ATATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:18595084 original size:18 final size:18
Alignment explanation
Indices: 18595061--18595098 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
18595051 TGAAAAGTCC
18595061 TTTGCTTATTTCTATTCT
1 TTTGCTTATTTCTATTCT
18595079 TTTGCTTATTTCTATTCT
1 TTTGCTTATTTCTATTCT
18595097 TT
1 TT
18595099 CTCTAGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTGCTTATTTCTATTCT
Found at i:18597885 original size:13 final size:13
Alignment explanation
Indices: 18597869--18597896 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18597859 CTCCTTTCAA
18597869 ATAAATTGAAATG
1 ATAAATTGAAATG
18597882 ATAAATTGAAATG
1 ATAAATTGAAATG
18597895 AT
1 AT
18597897 TGAAGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.32
Consensus pattern (13 bp):
ATAAATTGAAATG
Found at i:18598022 original size:19 final size:20
Alignment explanation
Indices: 18597998--18598045 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 20
18597988 GATCAGTTGG
18597998 ACCTTT-GATTAATTAACAT
1 ACCTTTGGATTAATTAACAT
18598017 ACCTTTTTTGGATTAATTAACAT
1 ACC---TTTGGATTAATTAACAT
18598040 ACCTTT
1 ACCTTT
18598046 TTTTGACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.12
20 3 0.12
22 3 0.12
23 16 0.64
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (20 bp):
ACCTTTGGATTAATTAACAT
Found at i:18598030 original size:23 final size:23
Alignment explanation
Indices: 18598004--18598048 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
18597994 TTGGACCTTT
18598004 GATTAATTAACATACCTTTTTTG
1 GATTAATTAACATACCTTTTTTG
18598027 GATTAATTAACATACCTTTTTT
1 GATTAATTAACATACCTTTTTT
18598049 TGACTGACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.13, G:0.07, T:0.49
Consensus pattern (23 bp):
GATTAATTAACATACCTTTTTTG
Found at i:18598107 original size:14 final size:13
Alignment explanation
Indices: 18598085--18598119 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
18598075 TTTGAATTTC
18598085 AATTT-ATTTAAT
1 AATTTAATTTAAT
18598097 AATTTGAATTTAAT
1 AATTT-AATTTAAT
18598111 AATTTAATT
1 AATTTAATT
18598120 CAATGAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.24
13 4 0.19
14 12 0.57
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
AATTTAATTTAAT
Found at i:18600949 original size:18 final size:18
Alignment explanation
Indices: 18600909--18600950 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
18600899 TGCTCACAAC
*
18600909 AATATCACCAATAACAAT
1 AATATCACCAATAAAAAT
18600927 AATATCACGCAA-AAAAAT
1 AATATCAC-CAATAAAAAT
*
18600945 GATATC
1 AATATC
18600951 GAACATCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.55, C:0.19, G:0.05, T:0.21
Consensus pattern (18 bp):
AATATCACCAATAAAAAT
Found at i:18607122 original size:23 final size:25
Alignment explanation
Indices: 18607071--18607122 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
18607061 TCAAATTTTC
* * *
18607071 AAAATATTTATAAATTTTATTTTCT
1 AAAATATTTATAAATTATATATTCA
18607096 AAAAT-TTTATAAA-TATATATTCA
1 AAAATATTTATAAATTATATATTCA
18607119 AAAA
1 AAAA
18607123 ATTAAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 11 0.46
24 8 0.33
25 5 0.21
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (25 bp):
AAAATATTTATAAATTATATATTCA
Found at i:18607141 original size:17 final size:15
Alignment explanation
Indices: 18607119--18607156 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 15
18607109 TATATATTCA
18607119 AAAAATTAAAAATTACT
1 AAAAATTAAAAA-TA-T
18607136 AAAAATTAAAAATAT
1 AAAAATTAAAAATAT
18607151 AAAAAT
1 AAAAAT
18607157 GATAGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 7 0.33
16 2 0.10
17 12 0.57
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAAATTAAAAATAT
Found at i:18612243 original size:35 final size:34
Alignment explanation
Indices: 18612178--18612243 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 34
18612168 GTTTCTAAAA
* **
18612178 AAAAAAATCTAAAGTAAAAATTTATTAAAATAAT
1 AAAAAAATCTAAAATAAAAATTTACAAAAATAAT
* *
18612212 AAAAAAATCTAAAAATAAAACTTTCCAAAAAT
1 AAAAAAATCT-AAAATAAAAATTTACAAAAAT
18612244 GAAAGTTCCC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
34 10 0.38
35 16 0.62
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.26
Consensus pattern (34 bp):
AAAAAAATCTAAAATAAAAATTTACAAAAATAAT
Found at i:18615559 original size:30 final size:31
Alignment explanation
Indices: 18615494--18615564 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
18615484 TTTTGGGGAA
* * *
18615494 TAAAAGTTTGAGAGAAAGTAAATAGGGGTAG
1 TAAAATTTTGAGAAAAAGTAAATAGGAGTAG
18615525 TAAAATTTTGAGAAAAAGTAAATAGGAG-AG
1 TAAAATTTTGAGAAAAAGTAAATAGGAGTAG
18615555 TAAAATTTTG
1 TAAAATTTTG
18615565 GTGGGAAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.27
Consensus pattern (31 bp):
TAAAATTTTGAGAAAAAGTAAATAGGAGTAG
Found at i:18615651 original size:29 final size:29
Alignment explanation
Indices: 18615609--18615688 Score: 135
Period size: 29 Copynumber: 2.8 Consensus size: 29
18615599 GTAGGGGAGG
18615609 GGAGTAAAAGTTTTGGGAGAAAGTGGGAA
1 GGAGTAAAAGTTTTGGGAGAAAGTGGGAA
18615638 GGAGTAAAAGTTTTGAGG-GAAAGTGGGAA
1 GGAGTAAAAGTTTTG-GGAGAAAGTGGGAA
*
18615667 GGAGTAAAAGTTTTGAGAGAAA
1 GGAGTAAAAGTTTTGGGAGAAA
18615689 AATAAAAAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
28 1 0.02
29 45 0.94
30 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.39, T:0.21
Consensus pattern (29 bp):
GGAGTAAAAGTTTTGGGAGAAAGTGGGAA
Found at i:18625293 original size:993 final size:993
Alignment explanation
Indices: 18623367--18625354 Score: 3976
Period size: 993 Copynumber: 2.0 Consensus size: 993
18623357 TTAAGGGTAA
18623367 TTATTTGATAGATTTCACAAGTGGATTGAGAGAATAACAAGTGTTATATTTATTTATATATTTAA
1 TTATTTGATAGATTTCACAAGTGGATTGAGAGAATAACAAGTGTTATATTTATTTATATATTTAA
18623432 TATTTTATTATTTTACTACTCCTATAATATACCTAACAAACTCTCAATGTCTTTGTGGAGTCTAA
66 TATTTTATTATTTTACTACTCCTATAATATACCTAACAAACTCTCAATGTCTTTGTGGAGTCTAA
18623497 TAAACTCCACACGAGTATATGGAATAATTTTTTAAAAAATATTTACCTTGTGTTTTATAATCATA
131 TAAACTCCACACGAGTATATGGAATAATTTTTTAAAAAATATTTACCTTGTGTTTTATAATCATA
18623562 TATTTAATTTATGTGATTTGAATTATAAAAATAAATTAAATATATTATAAAAGTACAAAACCGAC
196 TATTTAATTTATGTGATTTGAATTATAAAAATAAATTAAATATATTATAAAAGTACAAAACCGAC
18623627 TAGGCCGAGCAAAGATCAGATTAGAGTCCGACCCTTAAGGCATGTTTGGTTGGCTGTAATACCAA
261 TAGGCCGAGCAAAGATCAGATTAGAGTCCGACCCTTAAGGCATGTTTGGTTGGCTGTAATACCAA
18623692 TATATTACAGCTGAATTCAGTGGGCTCATCACTAAGCCATTGTTTGGTTGGCTGCAATGAGCTAT
326 TATATTACAGCTGAATTCAGTGGGCTCATCACTAAGCCATTGTTTGGTTGGCTGCAATGAGCTAT
18623757 TACAGCCCTATTCCATACGAGCTTATTATAAAAGCCCGTTTTCAGTGGTGTCAGAAACAGTGGTT
391 TACAGCCCTATTCCATACGAGCTTATTATAAAAGCCCGTTTTCAGTGGTGTCAGAAACAGTGGTT
18623822 TTGGGGCCACCAAATTTGACGAGTAAGTTCATAAATATTAAATAATAATATTTACAAGTCAAGTG
456 TTGGGGCCACCAAATTTGACGAGTAAGTTCATAAATATTAAATAATAATATTTACAAGTCAAGTG
18623887 TGATTTTTAAAAAAGGTTTTTGATTTGATAATTTACGTTATTTAAGTGATTTATTAAGTTCAAGT
521 TGATTTTTAAAAAAGGTTTTTGATTTGATAATTTACGTTATTTAAGTGATTTATTAAGTTCAAGT
18623952 GGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATAAGGTATCGGGACCTCGTTTCTATAAACTAA
586 GGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATAAGGTATCGGGACCTCGTTTCTATAAACTAA
18624017 GCCGTAAATATTTTTATAAATATTTACGGAGTGTCATTAAGGTGGTATTAAAGTTTCATTGAAAA
651 GCCGTAAATATTTTTATAAATATTTACGGAGTGTCATTAAGGTGGTATTAAAGTTTCATTGAAAA
18624082 TTTTAACGTTTCGATAGATAATTAATTAAAAAGAACTAAATCGTAAAAGATGTAAAACTTGATCA
716 TTTTAACGTTTCGATAGATAATTAATTAAAAAGAACTAAATCGTAAAAGATGTAAAACTTGATCA
18624147 CTATTTGATTTAAGTGATTAAATGGTTTATTTCATAAAAGAAATGGACTTAAATGGTAATTAAAC
781 CTATTTGATTTAAGTGATTAAATGGTTTATTTCATAAAAGAAATGGACTTAAATGGTAATTAAAC
18624212 CATTGTAAGGAGTTAGTGGACTTATATGGACATGAATTTGGTGTTTTATTTATTTATAAACCAAT
846 CATTGTAAGGAGTTAGTGGACTTATATGGACATGAATTTGGTGTTTTATTTATTTATAAACCAAT
18624277 GTTAAAATGGTAATTTGATAATTAATTAAATTAAATAAAACATTAGTAAAACAAAAAAATGTCGT
911 GTTAAAATGGTAATTTGATAATTAATTAAATTAAATAAAACATTAGTAAAACAAAAAAATGTCGT
18624342 CATCTTCCTTTCTCTTTT
976 CATCTTCCTTTCTCTTTT
18624360 TTATTTGATAGATTTCACAAGTGGATTGAGAGAATAACAAGTGTTATATTTATTTATATATTTAA
1 TTATTTGATAGATTTCACAAGTGGATTGAGAGAATAACAAGTGTTATATTTATTTATATATTTAA
18624425 TATTTTATTATTTTACTACTCCTATAATATACCTAACAAACTCTCAATGTCTTTGTGGAGTCTAA
66 TATTTTATTATTTTACTACTCCTATAATATACCTAACAAACTCTCAATGTCTTTGTGGAGTCTAA
18624490 TAAACTCCACACGAGTATATGGAATAATTTTTTAAAAAATATTTACCTTGTGTTTTATAATCATA
131 TAAACTCCACACGAGTATATGGAATAATTTTTTAAAAAATATTTACCTTGTGTTTTATAATCATA
18624555 TATTTAATTTATGTGATTTGAATTATAAAAATAAATTAAATATATTATAAAAGTACAAAACCGAC
196 TATTTAATTTATGTGATTTGAATTATAAAAATAAATTAAATATATTATAAAAGTACAAAACCGAC
18624620 TAGGCCGAGCAAAGATCAGATTAGAGTCCGACCCTTAAGGCATGTTTGGTTGGCTGTAATACCAA
261 TAGGCCGAGCAAAGATCAGATTAGAGTCCGACCCTTAAGGCATGTTTGGTTGGCTGTAATACCAA
18624685 TATATTACAGCTGAATTCAGTGGGCTCATCACTAAGCCATTGTTTGGTTGGCTGCAATGAGCTAT
326 TATATTACAGCTGAATTCAGTGGGCTCATCACTAAGCCATTGTTTGGTTGGCTGCAATGAGCTAT
18624750 TACAGCCCTATTCCATACGAGCTTATTATAAAAGCCCGTTTTCAGTGGTGTCAGAAACAGTGGTT
391 TACAGCCCTATTCCATACGAGCTTATTATAAAAGCCCGTTTTCAGTGGTGTCAGAAACAGTGGTT
18624815 TTGGGGCCACCAAATTTGACGAGTAAGTTCATAAATATTAAATAATAATATTTACAAGTCAAGTG
456 TTGGGGCCACCAAATTTGACGAGTAAGTTCATAAATATTAAATAATAATATTTACAAGTCAAGTG
18624880 TGATTTTTAAAAAAGGTTTTTGATTTGATAATTTACGTTATTTAAGTGATTTATTAAGTTCAAGT
521 TGATTTTTAAAAAAGGTTTTTGATTTGATAATTTACGTTATTTAAGTGATTTATTAAGTTCAAGT
18624945 GGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATAAGGTATCGGGACCTCGTTTCTATAAACTAA
586 GGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATAAGGTATCGGGACCTCGTTTCTATAAACTAA
18625010 GCCGTAAATATTTTTATAAATATTTACGGAGTGTCATTAAGGTGGTATTAAAGTTTCATTGAAAA
651 GCCGTAAATATTTTTATAAATATTTACGGAGTGTCATTAAGGTGGTATTAAAGTTTCATTGAAAA
18625075 TTTTAACGTTTCGATAGATAATTAATTAAAAAGAACTAAATCGTAAAAGATGTAAAACTTGATCA
716 TTTTAACGTTTCGATAGATAATTAATTAAAAAGAACTAAATCGTAAAAGATGTAAAACTTGATCA
18625140 CTATTTGATTTAAGTGATTAAATGGTTTATTTCATAAAAGAAATGGACTTAAATGGTAATTAAAC
781 CTATTTGATTTAAGTGATTAAATGGTTTATTTCATAAAAGAAATGGACTTAAATGGTAATTAAAC
18625205 CATTGTAAGGAGTTAGTGGACTTATATGGACATGAATTTGGTGTTTTATTTATTTATAAACCAAT
846 CATTGTAAGGAGTTAGTGGACTTATATGGACATGAATTTGGTGTTTTATTTATTTATAAACCAAT
18625270 GTTAAAATGGTAATTTGATAATTAATTAAATTAAATAAAACATTAGTAAAACAAAAAAATGTCGT
911 GTTAAAATGGTAATTTGATAATTAATTAAATTAAATAAAACATTAGTAAAACAAAAAAATGTCGT
18625335 CATCTTCCTTTCTCTTTT
976 CATCTTCCTTTCTCTTTT
18625353 TT
1 TT
18625355 TTTTTTTCAA
Statistics
Matches: 995, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
993 995 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (993 bp):
TTATTTGATAGATTTCACAAGTGGATTGAGAGAATAACAAGTGTTATATTTATTTATATATTTAA
TATTTTATTATTTTACTACTCCTATAATATACCTAACAAACTCTCAATGTCTTTGTGGAGTCTAA
TAAACTCCACACGAGTATATGGAATAATTTTTTAAAAAATATTTACCTTGTGTTTTATAATCATA
TATTTAATTTATGTGATTTGAATTATAAAAATAAATTAAATATATTATAAAAGTACAAAACCGAC
TAGGCCGAGCAAAGATCAGATTAGAGTCCGACCCTTAAGGCATGTTTGGTTGGCTGTAATACCAA
TATATTACAGCTGAATTCAGTGGGCTCATCACTAAGCCATTGTTTGGTTGGCTGCAATGAGCTAT
TACAGCCCTATTCCATACGAGCTTATTATAAAAGCCCGTTTTCAGTGGTGTCAGAAACAGTGGTT
TTGGGGCCACCAAATTTGACGAGTAAGTTCATAAATATTAAATAATAATATTTACAAGTCAAGTG
TGATTTTTAAAAAAGGTTTTTGATTTGATAATTTACGTTATTTAAGTGATTTATTAAGTTCAAGT
GGTAAGACCCTAAGGTCAAGTGGTTTTAGAAAATAAGGTATCGGGACCTCGTTTCTATAAACTAA
GCCGTAAATATTTTTATAAATATTTACGGAGTGTCATTAAGGTGGTATTAAAGTTTCATTGAAAA
TTTTAACGTTTCGATAGATAATTAATTAAAAAGAACTAAATCGTAAAAGATGTAAAACTTGATCA
CTATTTGATTTAAGTGATTAAATGGTTTATTTCATAAAAGAAATGGACTTAAATGGTAATTAAAC
CATTGTAAGGAGTTAGTGGACTTATATGGACATGAATTTGGTGTTTTATTTATTTATAAACCAAT
GTTAAAATGGTAATTTGATAATTAATTAAATTAAATAAAACATTAGTAAAACAAAAAAATGTCGT
CATCTTCCTTTCTCTTTT
Found at i:18627247 original size:42 final size:42
Alignment explanation
Indices: 18627188--18627271 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
18627178 AATATTCTTA
18627188 TTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATAAAT
1 TTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATAAAT
18627230 TTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATAAAT
1 TTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATAAAT
18627272 ATAAATTATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (42 bp):
TTTGTTTCTATTGAAAATAGACTCACTAAGGAATCTATAAAT
Found at i:18627971 original size:20 final size:20
Alignment explanation
Indices: 18627936--18627984 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
18627926 ATCATGGTCT
*
18627936 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
18627955 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
18627975 TTGCTTACTT
1 TTGCTTACTT
18627985 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:18628304 original size:50 final size:50
Alignment explanation
Indices: 18628187--18628372 Score: 189
Period size: 50 Copynumber: 3.7 Consensus size: 50
18628177 GATAATAACA
* * * * *
18628187 TGCCAAAGCCATGTCCCAGACATAGTCTTACATGGGATGTT-TCCTGTAC--
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* *
18628236 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
18628286 TGCCCATGTCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
** *
18628336 CACCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
18628373 TCTCATCCCC
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 4 0.04
49 36 0.32
50 73 0.65
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:18632216 original size:18 final size:18
Alignment explanation
Indices: 18632193--18632230 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
18632183 TAATTGAATA
*
18632193 AAATAAA-ACCTTGTTGTT
1 AAATAAACAACTT-TTGTT
18632211 AAATAAACAACTTTTGTT
1 AAATAAACAACTTTTGTT
18632229 AA
1 AA
18632231 GTGATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.45, C:0.11, G:0.08, T:0.37
Consensus pattern (18 bp):
AAATAAACAACTTTTGTT
Found at i:18632828 original size:25 final size:25
Alignment explanation
Indices: 18632800--18632863 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
18632790 TTACTGATAC
*
18632800 TCAGCTCGTATGAGCTTACTA-TTA
1 TCAGCTCGTATGAGCTTACCATTTA
18632824 TTCAGCTCAG-ATGAGCTTACCATTTA
1 -TCAGCTC-GTATGAGCTTACCATTTA
18632850 TCA-CTCGTATGAGC
1 TCAGCTCGTATGAGC
18632864 ATACATGTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 1 0.03
24 9 0.26
25 21 0.60
26 4 0.11
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTACCATTTA
Found at i:18633710 original size:20 final size:21
Alignment explanation
Indices: 18633685--18633723 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
18633675 TTGAGATGCT
18633685 TGTGGATAT-CATGATATATG
1 TGTGGATATACATGATATATG
*
18633705 TGTGGATATACATGTTATA
1 TGTGGATATACATGATATA
18633724 AGCTTGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (21 bp):
TGTGGATATACATGATATATG
Found at i:18634699 original size:38 final size:38
Alignment explanation
Indices: 18634648--18634724 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
18634638 ACCCCTGGAG
*
18634648 TATGAATTTTTCTATCTTCTGCCATGAAGTTCTAACTA
1 TATGAATTTTTCTATCTTCTACCATGAAGTTCTAACTA
18634686 TATGAATTTTTCTATCTTCTACCATGAAGTTCTAACTA
1 TATGAATTTTTCTATCTTCTACCATGAAGTTCTAACTA
18634724 T
1 T
18634725 TTTCAATTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.45
Consensus pattern (38 bp):
TATGAATTTTTCTATCTTCTACCATGAAGTTCTAACTA
Found at i:18640590 original size:16 final size:17
Alignment explanation
Indices: 18640569--18640601 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
18640559 AAAATACATT
*
18640569 AAATAAAGCTT-TTAAA
1 AAATAAACCTTATTAAA
18640585 AAATAAACCTTATTAAA
1 AAATAAACCTTATTAAA
18640602 TACGAAACAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATAAACCTTATTAAA
Found at i:18641972 original size:43 final size:43
Alignment explanation
Indices: 18641924--18642147 Score: 324
Period size: 43 Copynumber: 5.2 Consensus size: 43
18641914 AGAAATAAAT
*
18641924 GCCGCTATAGACCATAACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCACAAAC
* *
18641967 GCCGCTATAGACCATGACCTTTAGCGGCTC-TTTCCCACAAAC
1 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCACAAAC
**
18642009 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCACAAAC
* **
18642052 GCCGCTATAGATCATTACCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
18642095 GCCGCTAAAGACCATTACCTTTAGTGGCGCTTCTCCCACAAAC
1 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCACAAAC
* *
18642138 GTCGTTATAG
1 GCCGCTATAG
18642148 GAAACGCCGC
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
42 40 0.24
43 124 0.76
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (43 bp):
GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:18642072 original size:85 final size:86
Alignment explanation
Indices: 18641924--18642147 Score: 315
Period size: 85 Copynumber: 2.6 Consensus size: 86
18641914 AGAAATAAAT
* *
18641924 GCCGCTATAGACCATAACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGACCTTT
1 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTACCACAAACGCCGCTATAGACCATGACCTTT
* *
18641989 AGCGGCTC-TTTCCCACAAAC
66 AGCGGCGCTTTTACCACAAAC
* * *
18642009 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTATCACAAACGCCGCTATAGATCATTACCTTT
1 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTACCACAAACGCCGCTATAGACCATGACCTTT
*
18642074 AGCGGCGCTTTTATCACAAAC
66 AGCGGCGCTTTTACCACAAAC
* * * * * *
18642095 GCCGCTAAAGACCATTACCTTTAGTGGCGCTTCTCCCACAAACGTCGTTATAG
1 GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTACCACAAACGCCGCTATAG
18642148 GAAACGCCGC
Statistics
Matches: 123, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 67 0.54
86 56 0.46
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (86 bp):
GCCGCTATAGACCATTACCTTTAGCGGCGCTTTTACCACAAACGCCGCTATAGACCATGACCTTT
AGCGGCGCTTTTACCACAAAC
Found at i:18642279 original size:17 final size:14
Alignment explanation
Indices: 18642244--18642272 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
18642234 GGATAAATAC
18642244 AAATTATTATTTAA
1 AAATTATTATTTAA
18642258 AAATTATTATTTAA
1 AAATTATTATTTAA
18642272 A
1 A
18642273 TTAAATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTATTATTTAA
Found at i:18642496 original size:43 final size:43
Alignment explanation
Indices: 18642448--18642538 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
18642438 ACATATGCAA
** * * *
18642448 GGTAATAAATTATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
*
18642491 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
18642534 -GTAAT
1 GGTAAT
18642539 GAACTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (43 bp):
GGTAATAAAAGATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:18648278 original size:83 final size:81
Alignment explanation
Indices: 18648132--18648374 Score: 272
Period size: 83 Copynumber: 2.9 Consensus size: 81
18648122 CTTTATTTAG
** * * * * * *
18648132 TCAATGAAACAACGCCGTTTTGTGAAATTTTTAATTTATTTTTTGTGGCGTTTTTATAGAAAACG
1 TCAATGAAACGGCGCCGTTTTATTAAA-TTTTAATATATTTTTTGCGGC-ATTTTATACAAAACG
18648197 CCACTAATATTTAATTCA
64 CCACTAATATTTAATTCA
*
18648215 TCAATGAAATGGCGCCGTTTTATTAAATTCTTAATATATTTTTTGCGGCATTTGTATACAAAACG
1 TCAATGAAACGGCGCCGTTTTATTAAATT-TTAATATATTTTTTGCGGCATTT-TATACAAAACG
*
18648280 CCACTAATATTTAATTCG
64 CCACTAATATTTAATTCA
* * * * *
18648298 TCAATGAAACGGTGTCG-TTTAGTTAAATTTTAAATGTATTTTTTGCGGCATTTTTTACCAAACG
1 TCAATGAAACGGCGCCGTTTTA-TTAAATTTT-AATATATTTTTTGCGGCATTTTATACAAAACG
*
18648362 CCGCTAATGATTT
64 CCACTAAT-ATTT
18648375 CACTTTTAAA
Statistics
Matches: 138, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
82 27 0.20
83 111 0.80
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (81 bp):
TCAATGAAACGGCGCCGTTTTATTAAATTTTAATATATTTTTTGCGGCATTTTATACAAAACGCC
ACTAATATTTAATTCA
Found at i:18648518 original size:14 final size:14
Alignment explanation
Indices: 18648499--18648526 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
18648489 ACATCATTAT
18648499 TAATATTATTTAAA
1 TAATATTATTTAAA
18648513 TAATATTATTTAAA
1 TAATATTATTTAAA
18648527 ATTTTGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATATTATTTAAA
Found at i:18649501 original size:41 final size:41
Alignment explanation
Indices: 18649444--18649811 Score: 520
Period size: 41 Copynumber: 9.0 Consensus size: 41
18649434 ATTTTAAATC
* *
18649444 CCTGAGCATTAGCGGCGCTTCTTCAAAAACGTCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* *
18649485 CCTGAGCATTAGCGGCGCTTCCACACAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* ** ** * *
18649526 CTTGAGCATTCTCGGCGCTTTATAAAAAATGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
*
18649567 CCTGAGCATTAGCGGCGCTTCCTCACAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
*
18649608 CCTGAGCATTAGCGGCGCTTCCTCACAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* **
18649649 CCTGAGCATTAGTGGCGCTTTATCAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* * *
18649690 CATGAGCATTAGCGACACTTCCTCAAAAACGCCGCTAAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
** *
18649731 CCTGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTGAAGG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
* *
18649772 CCTAAGCATTAGTGGCGCTTCCTCAAAAACGCCGCTAAAG
1 CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAG
18649812 CCCCAAAAAA
Statistics
Matches: 285, Mismatches: 42, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 285 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (41 bp):
CCTGAGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGG
Found at i:18651805 original size:21 final size:21
Alignment explanation
Indices: 18651780--18651821 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18651770 AGTGTAAGGG
18651780 CTACTATGCGTCTCTCTCAGA
1 CTACTATGCGTCTCTCTCAGA
18651801 CTACTATGCGTCTCTCTCAGA
1 CTACTATGCGTCTCTCTCAGA
18651822 ATAGACTGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.33
Consensus pattern (21 bp):
CTACTATGCGTCTCTCTCAGA
Found at i:18656332 original size:715 final size:717
Alignment explanation
Indices: 18654902--18656339 Score: 2727
Period size: 715 Copynumber: 2.0 Consensus size: 717
18654892 TTAATCATTA
* * *
18654902 GTCTCAACTCATGAAAGCACAATAACCCCAAATTAAATATACTTCCATTTCAAATGCACGATACC
1 GTCTCAACTCATGAAAGCAAAATAACACCAAATCAAATATACTTCCATTTCAAA-GCACGATACC
18654967 TACCTTGAAACTCTGAACGAATACACTAACACTCCACAGAAGAAGAACCTCAATCAAAATGATTC
65 TACCTTGAAACTCTGAACGAATACACTAACACTCCACAGAAGAAGAACCTCAATCAAAATGATTC
** * *
18655032 ATTGCTGTCAAAATGATAGCAACATCCAATCAGCATTTAAATTAGGCACAAAACAAGGTGTCAAA
130 ATTGCTGTCAAAACAATAGAAACATCCAATCAACATTTAAATTAGGCACAAAACAAGGTGTCAAA
18655097 GTTTTACTTACCAGAATAGCAACGAGAACCAAACCACGAGAACAATCAACGATAGAAAAATAGAA
195 GTTTTACTTACCAGAATAGCAACGAGAACCAAACCACGAGAACAATCAACGATAGAAAAATAGAA
18655162 TGACAGAGTGGAGGAGACAAGAATCGACAATATGAAGGGGGACGAAAAGAAAAAAGATCGGCCTA
260 TGACAGAGTGGAGGAGACAAGAATCGACAATATGAAGGGGGACGAAAAGAAAAAAGATCGGCCTA
18655227 AGGATCAACAATTCGGTAGCAACCAACAGGAACAAAAAGAATGTGACTGCAAGAAAAAGAAGAAA
325 AGGATCAACAATTCGGTAGCAACCAACAGGAACAAAAAGAATGTGACTGCAAGAAAAAGAAGAAA
18655292 GAAAAAATGGGTAGAAAAGTGTACAAAATAGAAAAGAAGAAGAAAAAAATAAAAATAAGTATCAA
390 GAAAAAATGGGTAGAAAAGTGTACAAAATAGAAAAGAAGAAGAAAAAAATAAAAATAAGTATCAA
18655357 AAATTCACTAGCAATATTCGGTAGAGGAAGGAGAACAATTGACAGAAAATTGAGAGGAAACAAAA
455 AAATTCACTAGCAATATTCGGTAGAGGAAGGAGAACAATTGACAGAAAATTGAGAGGAAACAAAA
18655422 GCTAAAGCTGAAATTTTGGGAAAGAAATCAGTTTTGGCACCACTACTAGTCACCTCCCTTGATCC
520 GCTAAAGCTGAAATTTTGGGAAAGAAATCAGTTTTGGCACCACTACTAGTCACCTCCCTTGATCC
18655487 ACTCTTTAAAACTCTCCTACTATGCCTCCACAAATCGTCCACTTCCCACCACACCTCAAACTCCT
585 ACTCTTTAAAACTCTCCTACTATGCCTCCACAAATCGTCCACTTCCCACCACACCTCAAACTCCT
18655552 TATTTTCCTCCACCAATCCCACAATTATCGAAATCTCTCTCATTATCCTCCTAAAAATCAGCCAC
650 TATTTTCCTCCACCAATCCCACAATTATCGAAATCTCTCTCATTATCCTCCTAAAAATCAGCCAC
18655617 AAC
715 AAC
*
18655620 GTCTCAACTCATGAAAGCAAAATAACACCAAATCGAATATACTTCCATTTCAAA-CAC-ATACCT
1 GTCTCAACTCATGAAAGCAAAATAACACCAAATCAAATATACTTCCATTTCAAAGCACGATACCT
* * *
18655683 ACCTTGAAACTCTGAACGAATATACTAACACTCCACAGAAGAAGGACCTCAATCAAAATGATTCC
66 ACCTTGAAACTCTGAACGAATACACTAACACTCCACAGAAGAAGAACCTCAATCAAAATGATTCA
* *
18655748 TTGCTGTCAAAACAATATAAACATCCGATCAACATTTAAATTAGGCACAAAACAAGGTGTCAAAG
131 TTGCTGTCAAAACAATAGAAACATCCAATCAACATTTAAATTAGGCACAAAACAAGGTGTCAAAG
18655813 TTTTACTTACCAGAATAGCAACGAGAACCAAACCACGAGAACAATCAACGATAGAAAAATAGAAT
196 TTTTACTTACCAGAATAGCAACGAGAACCAAACCACGAGAACAATCAACGATAGAAAAATAGAAT
18655878 GACAGAGTGGAGGAGACAAGAATCGACAATATGAAGGGGGACGAAAAGAAAAAAGATCGGCCTAA
261 GACAGAGTGGAGGAGACAAGAATCGACAATATGAAGGGGGACGAAAAGAAAAAAGATCGGCCTAA
18655943 GGATCAACAATTCGGTAGCAACCAACAGGAACAAAAAGAATGTGACTGCAAGAAAAAGAAGAAAG
326 GGATCAACAATTCGGTAGCAACCAACAGGAACAAAAAGAATGTGACTGCAAGAAAAAGAAGAAAG
18656008 AAAAAATGGGTAGAAAAGTGTACAAAATAGAAAAGAAGAAGAAAAAAATAAAAATAAGTATCAAA
391 AAAAAATGGGTAGAAAAGTGTACAAAATAGAAAAGAAGAAGAAAAAAATAAAAATAAGTATCAAA
18656073 AATTCACTAGCAATATTCGGTAGAGGAAGGAGAACAATTGACAGAAAATTGAGAGGAAACAAAAG
456 AATTCACTAGCAATATTCGGTAGAGGAAGGAGAACAATTGACAGAAAATTGAGAGGAAACAAAAG
18656138 CTAAAGCTGAAATTTTGGGAAAGAAATCAGTTTTGGCACCACTACTAGTCACCTCCCTTGATCCA
521 CTAAAGCTGAAATTTTGGGAAAGAAATCAGTTTTGGCACCACTACTAGTCACCTCCCTTGATCCA
18656203 CTCTTTAAAACTCTCCTACTATGCCTCCACAAATCGTCCACTTCCCACCACACCTCAAACTCCTT
586 CTCTTTAAAACTCTCCTACTATGCCTCCACAAATCGTCCACTTCCCACCACACCTCAAACTCCTT
18656268 ATTTTCCTCCACCAATCCCACAATTATCGAAATCTCTCTCATTATCCTCCTAAAAATCAGCCACA
651 ATTTTCCTCCACCAATCCCACAATTATCGAAATCTCTCTCATTATCCTCCTAAAAATCAGCCACA
18656333 AC
716 AC
*
18656335 CTCTC
1 GTCTC
18656340 CACACTCCTC
Statistics
Matches: 706, Mismatches: 14, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
715 653 0.92
716 3 0.00
718 50 0.07
ACGTcount: A:0.43, C:0.22, G:0.15, T:0.20
Consensus pattern (717 bp):
GTCTCAACTCATGAAAGCAAAATAACACCAAATCAAATATACTTCCATTTCAAAGCACGATACCT
ACCTTGAAACTCTGAACGAATACACTAACACTCCACAGAAGAAGAACCTCAATCAAAATGATTCA
TTGCTGTCAAAACAATAGAAACATCCAATCAACATTTAAATTAGGCACAAAACAAGGTGTCAAAG
TTTTACTTACCAGAATAGCAACGAGAACCAAACCACGAGAACAATCAACGATAGAAAAATAGAAT
GACAGAGTGGAGGAGACAAGAATCGACAATATGAAGGGGGACGAAAAGAAAAAAGATCGGCCTAA
GGATCAACAATTCGGTAGCAACCAACAGGAACAAAAAGAATGTGACTGCAAGAAAAAGAAGAAAG
AAAAAATGGGTAGAAAAGTGTACAAAATAGAAAAGAAGAAGAAAAAAATAAAAATAAGTATCAAA
AATTCACTAGCAATATTCGGTAGAGGAAGGAGAACAATTGACAGAAAATTGAGAGGAAACAAAAG
CTAAAGCTGAAATTTTGGGAAAGAAATCAGTTTTGGCACCACTACTAGTCACCTCCCTTGATCCA
CTCTTTAAAACTCTCCTACTATGCCTCCACAAATCGTCCACTTCCCACCACACCTCAAACTCCTT
ATTTTCCTCCACCAATCCCACAATTATCGAAATCTCTCTCATTATCCTCCTAAAAATCAGCCACA
AC
Found at i:18665822 original size:28 final size:27
Alignment explanation
Indices: 18665769--18665823 Score: 67
Period size: 30 Copynumber: 2.0 Consensus size: 27
18665759 GTTAGAAGGA
*
18665769 GGGGAGGGTAAAAGTTTTGGGGGGAAAG
1 GGGGAGGGTAAAAGTTTT-GGAGGAAAG
18665797 GGGGAAGGAGTAAAAGTTTT-GAGGAAA
1 GGGG-AGG-GTAAAAGTTTTGGAGGAAA
18665824 AAGTAAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 10 0.42
29 3 0.12
30 11 0.46
ACGTcount: A:0.35, C:0.00, G:0.47, T:0.18
Consensus pattern (27 bp):
GGGGAGGGTAAAAGTTTTGGAGGAAAG
Found at i:18668000 original size:24 final size:25
Alignment explanation
Indices: 18667944--18668006 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
18667934 AATGTTCATT
* *
18667944 TTGGTACCTAAGTTTTTTTTCCCAA
1 TTGGTACCTATGTTTTTTTTCACAA
*
18667969 TTAAGTACCTATGTTTTTTTTCACAA
1 TT-GGTACCTATGTTTTTTTTCACAA
*
18667995 -TGGTACATATGT
1 TTGGTACCTATGT
18668007 CAAACATTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
24 9 0.28
25 3 0.09
26 20 0.62
ACGTcount: A:0.24, C:0.16, G:0.13, T:0.48
Consensus pattern (25 bp):
TTGGTACCTATGTTTTTTTTCACAA
Found at i:18669139 original size:14 final size:17
Alignment explanation
Indices: 18669116--18669151 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
18669106 AAGACTTATT
18669116 TTTTTCTCAAG-CTA-A
1 TTTTTCTCAAGCCTATA
18669131 TTTTT-TCAAGCCTATA
1 TTTTTCTCAAGCCTATA
18669147 TTTTT
1 TTTTT
18669152 GCCCAAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.26
15 8 0.42
16 6 0.32
ACGTcount: A:0.22, C:0.17, G:0.06, T:0.56
Consensus pattern (17 bp):
TTTTTCTCAAGCCTATA
Found at i:18670034 original size:7 final size:8
Alignment explanation
Indices: 18670015--18670041 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
18670005 TGTTTTGTAA
18670015 AAAAAATT
1 AAAAAATT
18670023 AAAAAATT
1 AAAAAATT
18670031 AAAAAATT
1 AAAAAATT
18670039 AAA
1 AAA
18670042 TATTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAAATT
Found at i:18671693 original size:68 final size:68
Alignment explanation
Indices: 18671615--18671788 Score: 303
Period size: 68 Copynumber: 2.6 Consensus size: 68
18671605 TAAAAAATGT
* *
18671615 TAAATCTCAAGTTTTAACATAATATAGGGACTAAAATTTTGGACTAAAATGTATAAGGATTATAA
1 TAAATCTCAAGTTTTAATATAGTATAGGGACTAAAATTTTGGACTAAAATGTATAAGGATTATAA
18671680 AAG
66 AAG
* * *
18671683 TAAATCTCAAGTTTTAATATAGTATAGGGATTAAAATTTTGGACTAAAATGTTTAGGGATTATAA
1 TAAATCTCAAGTTTTAATATAGTATAGGGACTAAAATTTTGGACTAAAATGTATAAGGATTATAA
18671748 AAG
66 AAG
18671751 TAAATCTCAAGTTTTAATATAGTATAGGGACTAAAATT
1 TAAATCTCAAGTTTTAATATAGTATAGGGACTAAAATT
18671789 AGATTGTTAA
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 100 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (68 bp):
TAAATCTCAAGTTTTAATATAGTATAGGGACTAAAATTTTGGACTAAAATGTATAAGGATTATAA
AAG
Found at i:18674868 original size:22 final size:21
Alignment explanation
Indices: 18674817--18674878 Score: 52
Period size: 22 Copynumber: 2.8 Consensus size: 21
18674807 CAGTAACCAG
* *
18674817 AATGGCTAAGAGCTGTAAACAG
1 AATGGCTAA-AGCTATAAACAA
* *
18674839 GATAGCTATAAGCTATAAACAA
1 AATGGCTA-AAGCTATAAACAA
*
18674861 AATGGCTACAAGCCATAA
1 AATGGCTA-AAGCTATAA
18674879 GTACATTAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
22 30 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.19
Consensus pattern (21 bp):
AATGGCTAAAGCTATAAACAA
Found at i:18674923 original size:32 final size:32
Alignment explanation
Indices: 18674870--18674977 Score: 128
Period size: 32 Copynumber: 3.4 Consensus size: 32
18674860 AAATGGCTAC
* * *
18674870 AAGCCATAAGTA-CATTAATATGATTGGTACA
1 AAGCCATCAGTAGCAGTAATATGATTGGCACA
*
18674901 AAGCCATCAGTAGTAGTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATTGGCACA
* * * * *
18674933 CAGCCATCAGTAACGGTAACATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATTGGCACA
18674965 AAGCCATCAGTAG
1 AAGCCATCAGTAG
18674978 ATCGCAGCAA
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
31 11 0.17
32 53 0.83
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATTGGCACA
Found at i:18675027 original size:26 final size:26
Alignment explanation
Indices: 18674978--18675031 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
18674968 CCATCAGTAG
* *
18674978 ATCGCAGCAAAGCTGTCAACAACAGT
1 ATCGCAACAAAGCTGCCAACAACAGT
**
18675004 ATCGCAACAAAGCTGCCAGTAACAGT
1 ATCGCAACAAAGCTGCCAACAACAGT
18675030 AT
1 AT
18675032 ATGTGGCCAA
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:0.39, C:0.26, G:0.19, T:0.17
Consensus pattern (26 bp):
ATCGCAACAAAGCTGCCAACAACAGT
Found at i:18675074 original size:27 final size:27
Alignment explanation
Indices: 18675019--18675075 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
18675009 AACAAAGCTG
*
18675019 CCAGTAACAGTATATGTGGCCAAGTCA
1 CCAGTAACAGTATATGTGGCCAAGCCA
18675046 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
1 CCAGTAACAGT-ATATGTGGCCA-AGCCA
18675073 CCA
1 CCA
18675076 ATATAGTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 23 0.85
28 2 0.07
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCCAAGCCA
Found at i:18675214 original size:24 final size:24
Alignment explanation
Indices: 18675147--18675207 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 24
18675137 CCATGCTTAG
* *
18675147 AATCGGTCATACAAATCACAGACA
1 AATCAGTCATACAAATCATAGACA
*
18675171 AATCAGTCATAAAAATCATAGACA
1 AATCAGTCATACAAATCATAGACA
*
18675195 AATTAGTCATACA
1 AATCAGTCATACA
18675208 TAACATAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.21
Consensus pattern (24 bp):
AATCAGTCATACAAATCATAGACA
Found at i:18675426 original size:27 final size:27
Alignment explanation
Indices: 18675386--18675850 Score: 423
Period size: 27 Copynumber: 17.3 Consensus size: 27
18675376 ATCATGGTCT
* *
18675386 TTTTACCC-TACAGGGATACTTCGGTAA
1 TTTTACCCAT-CAGGGGTATTTCGGTAA
* **
18675413 TTTTGCCCATCAGGGGTATTTTAGTAA
1 TTTTACCCATCAGGGGTATTTCGGTAA
*
18675440 TTTTACCCATC-GGAGGTATTTCGATAA
1 TTTTACCCATCAGG-GGTATTTCGGTAA
*
18675467 TTTTACCCATCAGGGGTATTTCGATAA
1 TTTTACCCATCAGGGGTATTTCGGTAA
* * *
18675494 TTTTACCCAT-TGACGGTATTTCGATAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
* *
18675521 TTTTACCTATC-GAGGGTATTTCGATAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
* *
18675548 TTTTATCCATC-GAGGGTATTTCGATAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
* * *
18675575 TTTTACCTATCGGGGGTATTTCAGTAA
1 TTTTACCCATCAGGGGTATTTCGGTAA
** *
18675602 TTTTACCCATTGGGGGTATTTCGATAA
1 TTTTACCCATCAGGGGTATTTCGGTAA
*
18675629 TTTTACCCATCGGGGGTATTTCGGTAA
1 TTTTACCCATCAGGGGTATTTCGGTAA
* * *
18675656 TTTTAACCATC-GAAGGTATTTCGATAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
*
18675683 TTTTACCCATC-GAGAGTATTTC-GTAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
* *
18675709 TTTTACCTATC-GAGGGTATTTCAGTAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
18675736 TTTTACCCAT-AGAGGGTATTTCGGTAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
* *
18675763 TTTTACCCTTC-GAGGGTATTTCAGTAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
* * **
18675790 TTTTACCCTTCAAGGGTATTTTAGTAA
1 TTTTACCCATCAGGGGTATTTCGGTAA
* * *
18675817 TTTTACCCTTC-GAGGGTATTTTGATAA
1 TTTTACCCATCAG-GGGTATTTCGGTAA
18675844 TTTTACC
1 TTTTACC
18675851 TATAAGGCCC
Statistics
Matches: 383, Mismatches: 43, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
26 27 0.07
27 352 0.92
28 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTTACCCATCAGGGGTATTTCGGTAA
Found at i:18675476 original size:54 final size:54
Alignment explanation
Indices: 18675405--18675850 Score: 505
Period size: 54 Copynumber: 8.3 Consensus size: 54
18675395 ACAGGGATAC
* *
18675405 TTCGGTAATTTTGCCCATCAGGGGTATTTTAGTAATTTTACCCATCG-GAGGTAT
1 TTCGATAATTTTACCCATCAGGGGTATTTTAGTAATTTTACCCATCGAG-GGTAT
* * *
18675459 TTCGATAATTTTACCCATCAGGGGTA-TTTCGATAATTTTACCCATTGACGGTAT
1 TTCGATAATTTTACCCATCAGGGGTATTTTAG-TAATTTTACCCATCGAGGGTAT
* * *
18675513 TTCGATAATTTTACCTATC-GAGGGTA-TTTCGATAATTTTATCCATCGAGGGTAT
1 TTCGATAATTTTACCCATCAG-GGGTATTTTAG-TAATTTTACCCATCGAGGGTAT
* * * * *
18675567 TTCGATAATTTTACCTATCGGGGGTATTTCAGTAATTTTACCCATTGGGGGTAT
1 TTCGATAATTTTACCCATCAGGGGTATTTTAGTAATTTTACCCATCGAGGGTAT
* ** * *
18675621 TTCGATAATTTTACCCATCGGGGGTATTTCGGTAATTTTAACCATCGAAGGTAT
1 TTCGATAATTTTACCCATCAGGGGTATTTTAGTAATTTTACCCATCGAGGGTAT
* * *
18675675 TTCGATAATTTTACCCATC-GAGAGTA-TTTCGTAATTTTACCTATCGAGGGTAT
1 TTCGATAATTTTACCCATCAG-GGGTATTTTAGTAATTTTACCCATCGAGGGTAT
** *
18675728 TTC-AGTAATTTTACCCAT-AGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTAT
1 TTCGA-TAATTTTACCCATCAG-GGGTATTTTAGTAATTTTACCCATCGAGGGTAT
* * *
18675782 TTC-AGTAATTTTACCCTTCAAGGGTATTTTAGTAATTTTACCCTTCGAGGGTAT
1 TTCGA-TAATTTTACCCATCAGGGGTATTTTAGTAATTTTACCCATCGAGGGTAT
*
18675836 TTTGATAATTTTACC
1 TTCGATAATTTTACC
18675851 TATAAGGCCC
Statistics
Matches: 345, Mismatches: 36, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
52 1 0.00
53 50 0.14
54 288 0.83
55 6 0.02
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.40
Consensus pattern (54 bp):
TTCGATAATTTTACCCATCAGGGGTATTTTAGTAATTTTACCCATCGAGGGTAT
Found at i:18675495 original size:81 final size:81
Alignment explanation
Indices: 18675386--18675850 Score: 472
Period size: 81 Copynumber: 5.8 Consensus size: 81
18675376 ATCATGGTCT
* * * *
18675386 TTTTACCC-TACAGGGATACTTCGGTAATTTTGCCCATC-AGGGGTATTTTAG-TAATTTTACCC
1 TTTTACCCAT-CAGGGGTATTTCGATAATTTTACCCATCGA-GGGTATTTTAGATAATTTTACCC
18675448 ATCGGAGGTATTTCGATAA
64 ATC-GAGGTATTTCGATAA
* * * *
18675467 TTTTACCCATCAGGGGTATTTCGATAATTTTACCCATTGACGGTA-TTTCGATAATTTTACCTAT
1 TTTTACCCATCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGATAATTTTACCCAT
18675531 CGAGGGTATTTCGATAA
66 CGA-GGTATTTCGATAA
* * * *
18675548 TTTTATCCATC-GAGGGTATTTCGATAATTTTACCTATCGGGGGTATTTCAG-TAATTTTACCCA
1 TTTTACCCATCAG-GGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGATAATTTTACCCA
* *
18675611 TTGGGGGTATTTCGATAA
65 -TCGAGGTATTTCGATAA
* * * * *
18675629 TTTTACCCATCGGGGGTATTTCGGTAATTTTAACCATCGAAGGTA-TTTCGATAATTTTACCCAT
1 TTTTACCCATCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGATAATTTTACCCAT
18675693 CGAGAGTATTTCG-TAA
66 CGAG-GTATTTCGATAA
* * * *
18675709 TTTTACCTATC-GAGGGTATTTC-AGTAATTTTACCCATAGAGGGTA-TTTCGGTAATTTTACCC
1 TTTTACCCATCAG-GGGTATTTCGA-TAATTTTACCCATCGAGGGTATTTTAGATAATTTTACCC
*
18675771 TTCGAGGGTATTTC-AGTAA
64 ATCGA-GGTATTTCGA-TAA
* * * *
18675790 TTTTACCCTTCAAGGGTATTT-TAGTAATTTTACCCTTCGAGGGTATTTT-GATAATTTTACC
1 TTTTACCCATCAGGGGTATTTCGA-TAATTTTACCCATCGAGGGTATTTTAGATAATTTTACC
18675851 TATAAGGCCC
Statistics
Matches: 325, Mismatches: 41, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
79 1 0.00
80 80 0.25
81 233 0.72
82 11 0.03
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (81 bp):
TTTTACCCATCAGGGGTATTTCGATAATTTTACCCATCGAGGGTATTTTAGATAATTTTACCCAT
CGAGGTATTTCGATAA
Found at i:18681707 original size:11 final size:11
Alignment explanation
Indices: 18681691--18681724 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
18681681 GTGCAGATTC
18681691 AAAAAAA-CAA
1 AAAAAAATCAA
*
18681701 AAAAAAATCCA
1 AAAAAAATCAA
18681712 AAAAAAATCAA
1 AAAAAAATCAA
18681723 AA
1 AA
18681725 TCAAAGTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.82, C:0.12, G:0.00, T:0.06
Consensus pattern (11 bp):
AAAAAAATCAA
Found at i:18682633 original size:6 final size:6
Alignment explanation
Indices: 18682612--18682650 Score: 51
Period size: 6 Copynumber: 6.0 Consensus size: 6
18682602 AAAAAAAGGG
18682612 TGAAAA GTGAAAAA TGAAAA TGAAAAA TGAAAA TGAAAA
1 TGAAAA -TG-AAAA TGAAAA TG-AAAA TGAAAA TGAAAA
18682651 AGTAAAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 16 0.53
7 10 0.33
8 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.18, T:0.15
Consensus pattern (6 bp):
TGAAAA
Found at i:18682651 original size:7 final size:7
Alignment explanation
Indices: 18682612--18682660 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
18682602 AAAAAAAGGG
*
18682612 TGAAAAG
1 TGAAAAA
18682619 TGAAAAA
1 TGAAAAA
18682626 TG-AAAA
1 TGAAAAA
18682632 TGAAAAA
1 TGAAAAA
18682639 TG-AAAA
1 TGAAAAA
18682645 TGAAAAA
1 TGAAAAA
18682652 -GTAAAAA
1 TG-AAAAA
18682659 TG
1 TG
18682661 GAGAGGCTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
6 13 0.35
7 23 0.62
8 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:18682651 original size:20 final size:19
Alignment explanation
Indices: 18682612--18682660 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
18682602 AAAAAAAGGG
*
18682612 TGAAAAGTGAAAAATGAAAA
1 TGAAAAATG-AAAATGAAAA
18682632 TGAAAAATGAAAATGAAAA
1 TGAAAAATGAAAATGAAAA
*
18682651 AGTAAAAATG
1 TG-AAAAATG
18682661 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.16
Consensus pattern (19 bp):
TGAAAAATGAAAATGAAAA
Found at i:18682657 original size:13 final size:13
Alignment explanation
Indices: 18682612--18682651 Score: 71
Period size: 13 Copynumber: 3.0 Consensus size: 13
18682602 AAAAAAAGGG
18682612 TGAAAAGTGAAAAA
1 TGAAAA-TGAAAAA
18682626 TGAAAATGAAAAA
1 TGAAAATGAAAAA
18682639 TGAAAATGAAAAA
1 TGAAAATGAAAAA
18682652 GTAAAAATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (13 bp):
TGAAAATGAAAAA
Found at i:18684010 original size:43 final size:43
Alignment explanation
Indices: 18683874--18684010 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
18683864 GGGAACAGAT
18683874 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * * * *
18683917 CTTGCC-TCCAT-CGGTTG-CAGTGGAGCTGGT-TAAAGATAGCAGAT
1 CTTGCCTTCC-TGC-ATTGACAGCGAAGCAGATCGAAA-ACA-AAG-C
*
18683961 CTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGC
18684004 CTTGCCT
1 CTTGCCT
18684011 CCATCGGTTG
Statistics
Matches: 66, Mismatches: 19, Indels: 18
0.64 0.18 0.17
Matches are distributed among these distances:
41 3 0.05
42 15 0.23
43 19 0.29
44 12 0.18
45 14 0.21
46 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGC
Found at i:18684015 original size:87 final size:87
Alignment explanation
Indices: 18683869--18684347 Score: 609
Period size: 88 Copynumber: 5.5 Consensus size: 87
18683859 CCCTAGGGAA
* *
18683869 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
1 CAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCCTCGGTTG
*
18683934 CAGTGGAGCTGGTTAAAGATAG
66 CAGTGGAGCAGGTTAAAGATAG
*
18683956 CAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTG
1 CAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCCTCGGTTG
*
18684021 CAGTGGAGCGGGTTAAAGATAG
66 CAGTGGAGCAGGTTAAAGATAG
* * * * *
18684043 TAGATCTTGCCTTCCTGCGTTGACAACAAAGCAGATCGAAGAAATAAAGCCTTGCCTCCCTCAGT
1 CAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCG-A-AAACAAAGCCTTGCCTCCCTCGGT
*
18684108 TGCAGTGGAGCAGGTTGAAGATAG
64 TGCAGTGGAGCAGGTTAAAGATAG
* * ** * * *
18684132 CAGATCTTGCCTTCTTACGCTGACAACGAAGCAGATCGAAGATAC-CAGCCTTGCCTCCCTCGGT
1 CAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAA-A-ACAAAGCCTTGCCTCCCTCGGT
* *
18684196 TGCAGTGGAGTAGGTTAAAGATAA
64 TGCAGTGGAGCAGGTTAAAGATAG
* * ** * * *
18684220 CAGATCTTGCCTTCCTGCGTAGACAGTGAAGCGGATCGAAGACACCAGCCTTGCCTCCCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAAACA-AAGCCTTGCCTCCCTCGGTT
* *
18684285 GCAGTGGAGCAGGTTGAGGATAG
65 GCAGTGGAGCAGGTTAAAGATAG
* * * *
18684308 CAAATCTTGCCTTCCTGTACTGACGGCAAAGCAGATCGAA
1 CAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAA
18684348 GATGGCAGAT
Statistics
Matches: 344, Mismatches: 42, Indels: 11
0.87 0.11 0.03
Matches are distributed among these distances:
86 2 0.01
87 121 0.35
88 144 0.42
89 77 0.22
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (87 bp):
CAGATCTTGCCTTCCTGCATTGACAGCAAAGCAGATCGAAAACAAAGCCTTGCCTCCCTCGGTTG
CAGTGGAGCAGGTTAAAGATAG
Found at i:18684597 original size:73 final size:74
Alignment explanation
Indices: 18684478--18684615 Score: 251
Period size: 73 Copynumber: 1.9 Consensus size: 74
18684468 AGCAGATCAA
*
18684478 AGACGGGGGATTTTACCTCCCTGTGGTTACAGTTGAGTACATTGAAGCCAGTAATTCTAT-TTCC
1 AGACGGGGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCC
18684542 CTAGGCAGC
66 CTAGGCAGC
*
18684551 AGACGGGGGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCC
1 AGACGGGGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCC
18684616 TGAGTGGTGC
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
73 58 0.94
74 4 0.06
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (74 bp):
AGACGGGGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTTCC
CTAGGCAGC
Found at i:18684688 original size:50 final size:50
Alignment explanation
Indices: 18684634--18684843 Score: 188
Period size: 50 Copynumber: 4.2 Consensus size: 50
18684624 GCAGTGGAAC
* * *
18684634 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
* ** * ** ** *
18684684 AGATTAAAGCTACAACAGCGAATCTTATTTCCCTGGA-AGAACAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCTTCCC-CGACATTACAGTTAAAA
* * * * *
18684734 AGATTAATGCCACAACGGCGAATCTTGCTTCTCCGACATTGCAATTAAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACATTACAGTT-AAAA
* * * * * *
18684785 AGATTAAAGCTACGACAGCGAATCTTGCTTCCTCAACATCACAGTTAAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
18684835 AGATTAAAG
1 AGATTAAAG
18684844 TTACGAGTTA
Statistics
Matches: 120, Mismatches: 37, Indels: 6
0.74 0.23 0.04
Matches are distributed among these distances:
49 2 0.02
50 78 0.65
51 40 0.33
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTGCTTCCCCGACATTACAGTTAAAA
Found at i:18684747 original size:100 final size:101
Alignment explanation
Indices: 18684625--18684810 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 101
18684615 CTGAGTGGTG
* * *
18684625 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTT-AAAAAGATT
1 CAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAATTAAAAAAGATT
18684689 AAAGCTACAACAGCGAATCTTATTTCCCTGGAAGAA
66 AAAGCTACAACAGCGAATCTTATTTCCCTGGAAGAA
* * *
18684725 CAGTGGAACAGATTAATGCCACAACGGCGAATCTTGCTTCTCCGACATTGCAATTAAAAAAGATT
1 CAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAATTAAAAAAGATT
*
18684790 AAAGCTACGACAGCGAATCTT
66 AAAGCTACAACAGCGAATCTT
18684811 GCTTCCTCAA
Statistics
Matches: 78, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 49 0.63
101 29 0.37
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (101 bp):
CAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAATTAAAAAAGATT
AAAGCTACAACAGCGAATCTTATTTCCCTGGAAGAA
Found at i:18684840 original size:101 final size:100
Alignment explanation
Indices: 18684625--18684843 Score: 271
Period size: 100 Copynumber: 2.2 Consensus size: 100
18684615 CTGAGTGGTG
* * * *
18684625 CAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTACAGTTAAAAAGATTA
1 CAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAATTAAAAAGATTA
* * *
18684690 AAGCTACAACAGCGAATCTTATTTCCCTGGAAGAA
66 AAGCTACAACAGCGAATCTTACTTCCCTGCAACAA
* * * *
18684725 CAGTGGAACAGATTAATGCCACAACGGCGAATCTTGCTTCTCCGACATTGCAATTAAAAAAGATT
1 CAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAATT-AAAAAGATT
* *
18684790 AAAGCTACGACAGCGAATCTTGCTT-CCT-CAACATCA
65 AAAGCTACAACAGCGAATCTTACTTCCCTGCAACA--A
*
18684826 CAGTTAAACAGATTAAAG
1 CAGTGAAACAGATTAAAG
18684844 TTACGAGTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 3 0.03
100 52 0.51
101 47 0.46
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (100 bp):
CAGTGAAACAGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTACAATTAAAAAGATTA
AAGCTACAACAGCGAATCTTACTTCCCTGCAACAA
Found at i:18695518 original size:13 final size:13
Alignment explanation
Indices: 18695502--18695549 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
18695492 TTCATTTAGC
*
18695502 TTTTTTATTTTAA
1 TTTTTCATTTTAA
*
18695515 -TTTTAATTTTAA
1 TTTTTCATTTTAA
*
18695527 TTTTTCATTATAA
1 TTTTTCATTTTAA
18695540 TTTTTCATTT
1 TTTTTCATTT
18695550 GTTTGTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 11 0.37
13 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTCATTTTAA
Found at i:18698542 original size:6 final size:6
Alignment explanation
Indices: 18698502--18698535 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
18698492 TGTTTTTGTT
*
18698502 TTTTTC TTTTGC TTTTGC TTTTGC TTTTGC TTTT
1 TTTTGC TTTTGC TTTTGC TTTTGC TTTTGC TTTT
18698536 TACTTTTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.12, T:0.74
Consensus pattern (6 bp):
TTTTGC
Found at i:18718202 original size:4 final size:4
Alignment explanation
Indices: 18718179--18718219 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
18718169 AATCCTAGTC
*
18718179 AAAT AAAA AAAT -AA- AAAT AAAT AAAT AAAT AAGAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AA
18718220 GTACAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 24 0.75
5 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:18718228 original size:13 final size:12
Alignment explanation
Indices: 18718179--18718219 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
18718169 AATCCTAGTC
*
18718179 AAATAAAAAAAT
1 AAATAAATAAAT
18718191 -AA-AAATAAAT
1 AAATAAATAAAT
18718201 AAATAAATAAGAT
1 AAATAAATAA-AT
18718214 AAATAA
1 AAATAA
18718220 GTACAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 7 0.28
11 4 0.16
12 6 0.24
13 8 0.32
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (12 bp):
AAATAAATAAAT
Found at i:18719836 original size:15 final size:14
Alignment explanation
Indices: 18719816--18719865 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
18719806 AATTATATTT
18719816 TTAATAGATTTTTTA
1 TTAATA-ATTTTTTA
18719831 TTAAT-ATTTTTTA
1 TTAATAATTTTTTA
**
18719844 AAAAT-ATTTTTTA
1 TTAATAATTTTTTA
*
18719857 TTAAAAATT
1 TTAATAATT
18719866 AATTCGTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 21 0.72
14 3 0.10
15 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TTAATAATTTTTTA
Found at i:18719839 original size:13 final size:13
Alignment explanation
Indices: 18719823--18719860 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
18719813 TTTTTAATAG
18719823 ATTTTTTATTAAT
1 ATTTTTTATTAAT
**
18719836 ATTTTTTAAAAAT
1 ATTTTTTATTAAT
18719849 ATTTTTTATTAA
1 ATTTTTTATTAA
18719861 AAATTAATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
ATTTTTTATTAAT
Found at i:18722089 original size:32 final size:32
Alignment explanation
Indices: 18722046--18722157 Score: 129
Period size: 32 Copynumber: 3.5 Consensus size: 32
18722036 TTTTAAATGA
18722046 ATATTT-TTATCATTTAACAAAATTAAAGTTG
1 ATATTTGTTATCATTTAACAAAATTAAAGTTG
* *
18722077 ATATTTGTTATCATTTTACAAAATTAACGTTG
1 ATATTTGTTATCATTTAACAAAATTAAAGTTG
* * * *
18722109 -TAATTTATTATCATTTCACAAAATGAAAACTTG
1 AT-ATTTGTTATCATTTAACAAAAT-TAAAGTTG
*
18722142 AAATTTGTTATCATTT
1 ATATTTGTTATCATTT
18722158 CATAGAACCG
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
31 7 0.10
32 43 0.63
33 18 0.26
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (32 bp):
ATATTTGTTATCATTTAACAAAATTAAAGTTG
Found at i:18727963 original size:17 final size:19
Alignment explanation
Indices: 18727941--18727984 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
18727931 TATGGAAACA
18727941 TAATCTT-CA-AGGATATG
1 TAATCTTACATAGGATATG
* *
18727958 TAATCTTAGATATGATATG
1 TAATCTTACATAGGATATG
18727977 TAATCTTA
1 TAATCTTA
18727985 GANNNNNNNN
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 7 0.30
18 1 0.04
19 15 0.65
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (19 bp):
TAATCTTACATAGGATATG
Found at i:18729369 original size:79 final size:79
Alignment explanation
Indices: 18729180--18729340 Score: 304
Period size: 79 Copynumber: 2.0 Consensus size: 79
18729170 ACAAATATTT
* *
18729180 TTTTTAAAAAAATAATAACAAAGGAAATATTCCAAGTTTAGGATTTTGAGAAATTGTGCCCTAAC
1 TTTTTAAAAAAATAATAACAAATGAAATATTCCAAGTTTAGAATTTTGAGAAATTGTGCCCTAAC
18729245 GTATTGGGCCGCAA
66 GTATTGGGCCGCAA
18729259 TTTTTAAAAAAATAATAACAAATGAAATATTCCAAGTTTAGAATTTTGAGAAATTGTGCCCTAAC
1 TTTTTAAAAAAATAATAACAAATGAAATATTCCAAGTTTAGAATTTTGAGAAATTGTGCCCTAAC
18729324 GTATTGGGCCGCAA
66 GTATTGGGCCGCAA
18729338 TTT
1 TTT
18729341 CTTTCTAAAT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.32
Consensus pattern (79 bp):
TTTTTAAAAAAATAATAACAAATGAAATATTCCAAGTTTAGAATTTTGAGAAATTGTGCCCTAAC
GTATTGGGCCGCAA
Found at i:18732690 original size:13 final size:13
Alignment explanation
Indices: 18732672--18732696 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18732662 CTAGGATCTA
18732672 AAACACAAGCAAC
1 AAACACAAGCAAC
18732685 AAACACAAGCAA
1 AAACACAAGCAA
18732697 ATTCATCTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.28, G:0.08, T:0.00
Consensus pattern (13 bp):
AAACACAAGCAAC
Found at i:18734249 original size:22 final size:22
Alignment explanation
Indices: 18734224--18734272 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
18734214 ATCATGTATG
*
18734224 GTTCTGTCATTCGAGCTCCTAT
1 GTTCTGTCATCCGAGCTCCTAT
18734246 GTTCTGTCATCCGAGCTCCTAT
1 GTTCTGTCATCCGAGCTCCTAT
18734268 GTTCT
1 GTTCT
18734273 TCCTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.12, C:0.29, G:0.18, T:0.41
Consensus pattern (22 bp):
GTTCTGTCATCCGAGCTCCTAT
Found at i:18735570 original size:46 final size:46
Alignment explanation
Indices: 18735477--18735574 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 46
18735467 TTTCTAATTT
* *
18735477 TTTGTGTGATTCAATGGATTGGGTTTATTTTGGGAGTGGATCGGTG
1 TTTGTGTGAGTCAATGGATTGGGTTTATTTTGGGAGTGGATCAGTG
* *
18735523 TTTGTGTGAGTCAGTGGATTGGGTTTATTTTGGGAGTAGG-TTAGTG
1 TTTGTGTGAGTCAATGGATTGGGTTTATTTTGGGAGT-GGATCAGTG
18735569 TTTGTG
1 TTTGTG
18735575 GCCTGGTTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
46 45 0.96
47 2 0.04
ACGTcount: A:0.14, C:0.03, G:0.38, T:0.45
Consensus pattern (46 bp):
TTTGTGTGAGTCAATGGATTGGGTTTATTTTGGGAGTGGATCAGTG
Found at i:18735877 original size:30 final size:30
Alignment explanation
Indices: 18735842--18735914 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
18735832 TTTTCAGTGG
*
18735842 CACACGGCCGTGTCACTAGCTCGTATGTGA
1 CACACGGCCGTGTCACTAACTCGTATGTGA
**
18735872 CACACGGCCAAGTCACTAACTCGTATGTGA
1 CACACGGCCGTGTCACTAACTCGTATGTGA
* *
18735902 GACATGGCCGTGT
1 CACACGGCCGTGT
18735915 GGCCAGATCG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (30 bp):
CACACGGCCGTGTCACTAACTCGTATGTGA
Found at i:18748627 original size:46 final size:46
Alignment explanation
Indices: 18748569--18748660 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
18748559 CCCAGATGCT
18748569 TAGATACCTATCCCAACTTATAGCACATGATCACAAGACCCTAAAA
1 TAGATACCTATCCCAACTTATAGCACATGATCACAAGACCCTAAAA
*
18748615 TAGATACTTATCCCAACTTATAGCACATGATCACAAGACCCTAAAA
1 TAGATACCTATCCCAACTTATAGCACATGATCACAAGACCCTAAAA
18748661 CCCATTCAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.27, G:0.09, T:0.23
Consensus pattern (46 bp):
TAGATACCTATCCCAACTTATAGCACATGATCACAAGACCCTAAAA
Found at i:18753076 original size:10 final size:10
Alignment explanation
Indices: 18753061--18753087 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18753051 TTAAGTTTAG
18753061 TGTGTTTAAA
1 TGTGTTTAAA
18753071 TGTGTTTAAA
1 TGTGTTTAAA
18753081 TGTGTTT
1 TGTGTTT
18753088 GTTAATAAAT
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:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (10 bp):
TGTGTTTAAA
Found at i:18773808 original size:5 final size:5
Alignment explanation
Indices: 18773798--18773857 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
18773788 TAATACATGC
18773798 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
18773848 ATATT ATATT
1 ATATT ATATT
18773858 NNNNNNNNNN
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:18776371 original size:18 final size:19
Alignment explanation
Indices: 18776337--18776373 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
18776327 GGAGAAGGTG
18776337 ATACCACTGCGAATTTTAT
1 ATACCACTGCGAATTTTAT
18776356 ATACCACTGC-AATTTTAT
1 ATACCACTGCGAATTTTAT
18776374 TTATTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (19 bp):
ATACCACTGCGAATTTTAT
Found at i:18778261 original size:14 final size:14
Alignment explanation
Indices: 18778244--18778273 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18778234 AATGGTTTGG
*
18778244 GAAAAATAAAATGA
1 GAAAAATAAAAAGA
18778258 GAAAAATAAAAAGA
1 GAAAAATAAAAAGA
18778272 GA
1 GA
18778274 TTCCAGGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.17, T:0.10
Consensus pattern (14 bp):
GAAAAATAAAAAGA
Found at i:18778644 original size:19 final size:20
Alignment explanation
Indices: 18778600--18778643 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
18778590 TAAAATTATA
18778600 ATTTTTAGTTTTTGTATTTC
1 ATTTTTAGTTTTTGTATTTC
18778620 ATTTTTA-TTTTTGTATTTC
1 ATTTTTAGTTTTTGTATTTC
18778639 -TTTTT
1 ATTTTT
18778644 TTTGTTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.21
19 12 0.50
20 7 0.29
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.75
Consensus pattern (20 bp):
ATTTTTAGTTTTTGTATTTC
Found at i:18779033 original size:7 final size:7
Alignment explanation
Indices: 18779021--18779195 Score: 88
Period size: 7 Copynumber: 24.6 Consensus size: 7
18779011 ATTATTCCTC
18779021 AAACCCT
1 AAACCCT
18779028 AAACCCCT
1 AAA-CCCT
18779036 -AACCCT
1 AAACCCT
*
18779042 TAACCCT
1 AAACCCT
*
18779049 TAACCACT
1 AAACC-CT
18779057 -AACCCTT
1 AAACCC-T
18779064 AAACCCT
1 AAACCCT
*
18779071 AAACCTT
1 AAACCCT
*
18779078 AAACCCC
1 AAACCCT
* *
18779085 AATCCTT
1 AAACCCT
*
18779092 AAACCAT
1 AAACCCT
*
18779099 AAACCAT
1 AAACCCT
*
18779106 AATCCCT
1 AAACCCT
18779113 AAACCCAT
1 AAACCC-T
* *
18779121 AATCCAT
1 AAACCCT
*
18779128 AAACCTT
1 AAACCCT
*
18779135 AAA--AT
1 AAACCCT
*
18779140 AGTAACTCTT
1 A--AAC-CCT
*
18779150 AAACCTT
1 AAACCCT
18779157 AAACCCT
1 AAACCCT
*
18779164 AAACCAT
1 AAACCCT
* *
18779171 ATACCTT
1 AAACCCT
*
18779178 AAACCAT
1 AAACCCT
18779185 AAACCCT
1 AAACCCT
18779192 AAAC
1 AAAC
18779196 TATAATGGTC
Statistics
Matches: 133, Mismatches: 24, Indels: 22
0.74 0.13 0.12
Matches are distributed among these distances:
5 2 0.02
6 5 0.04
7 105 0.79
8 19 0.14
10 2 0.02
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.22
Consensus pattern (7 bp):
AAACCCT
Found at i:18779356 original size:14 final size:14
Alignment explanation
Indices: 18779339--18779393 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
18779329 CATAAAACAA
18779339 AAACCATAAACCTT
1 AAACCATAAACCTT
* *
18779353 AAACCCTTAACCCTT
1 AAA-CCATAAACCTT
* * *
18779368 AAATCACAACCCTT
1 AAACCATAAACCTT
18779382 AAACCATAAACC
1 AAACCATAAACC
18779394 ATAATCCTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (14 bp):
AAACCATAAACCTT
Found at i:18779391 original size:21 final size:21
Alignment explanation
Indices: 18779339--18779412 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
18779329 CATAAAACAA
18779339 AAACCATAAACCTTA-AACCCTT
1 AAACCATAAACC--ACAACCCTT
* * *
18779361 AACCCTTAAATCACAACCCTT
1 AAACCATAAACCACAACCCTT
* *
18779382 AAACCATAAACCATAATCCTT
1 AAACCATAAACCACAACCCTT
*
18779403 AAATCATAAA
1 AAACCATAAA
18779413 GCTCAATCTA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
20 1 0.02
21 32 0.76
22 9 0.21
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (21 bp):
AAACCATAAACCACAACCCTT
Found at i:18779474 original size:40 final size:39
Alignment explanation
Indices: 18779413--18779956 Score: 235
Period size: 40 Copynumber: 14.0 Consensus size: 39
18779403 AAATCATAAA
* *
18779413 GCTCAATCTATAACGGCGTTTTTCAAAAGCTGCCGCTAAT
1 GCTCGATCTATAGCGGCGTTTTTCAAAAGC-GCCGCTAAT
* *
18779453 GCTCGATCTATAGCGGTGTTTTTCAAGATGCGCCGCTAAT
1 GCTCGATCTATAGCGGCGTTTTTCAA-AAGCGCCGCTAAT
* * * * * *
18779493 ACTCGATCTATAGCTGCGTTTTTGAAAAACACAGCTAAT
1 GCTCGATCTATAGCGGCGTTTTTCAAAAGCGCCGCTAAT
* * ** * **
18779532 GC-C-A-CTA-A--AGC-----TCAAATG-GTAGTGTTGT
1 GCTCGATCTATAGCGGCGTTTTTCAAAAGCGCCG-CTAAT
** * * * *
18779560 GCTTAATTTTTTTGCGGCATTTTTCAAAAAGCGCCGCTAAT
1 GCTCGA-TCTATAGCGGCGTTTTTC-AAAAGCGCCGCTAAT
* * * * *
18779601 GGTTGACCTATAGCGGCGCTTTTTCAAAAAGCACTGCTAAT
1 GCTCGATCTATAGCGGCG-TTTTTC-AAAAGCGCCGCTAAT
*
18779642 GCTCGATCTATAGCGGCATTTTTCAAGAAGCGCCGCTAAT
1 GCTCGATCTATAGCGGCGTTTTTCAA-AAGCGCCGCTAAT
18779682 GCTCGATCTATAGCGGCGTTTTTCAAGAAGCGCCGCTAAT
1 GCTCGATCTATAGCGGCGTTTTTCAA-AAGCGCCGCTAAT
** **
18779722 GCTCGATCTATAGCAACGTTTTTCAAAAAATGCCGCTAAT
1 GCTCGATCTATAGCGGCGTTTTTC-AAAAGCGCCGCTAAT
* * **** ** * **
18779762 GC-C-A-CTAAAGC-TC-AACAT-AAAA-CGATGGTGTTGT
1 GCTCGATCTATAGCGGCGTTTTTCAAAAGCG-CCG-CTAAT
** * * * ** * *
18779796 GCTTAATTTTTTTTGCTACGTTTTTTAAAAAGCGCTGCTAAT
1 GCTCGA--TCTATAGCGGCG-TTTTTCAAAAGCGCCGCTAAT
* * *
18779838 GGTCGACCTATAGCGACGTTTTTCAAAAAGCGCCGCTAAT
1 GCTCGATCTATAGCGGCGTTTTTC-AAAAGCGCCGCTAAT
* * *
18779878 GCTCGATCTGTAACGGTGTTTTTCAAGAAGCGCCGCTAAT
1 GCTCGATCTATAGCGGCGTTTTTCAA-AAGCGCCGCTAAT
* * *
18779918 GCTCAACCTATAGCGGCGTTTTTTAAAAAGCGCCGCTAA
1 GCTCGATCTATAGCGGCG-TTTTTCAAAAGCGCCGCTAA
18779957 AAATGTCGCT
Statistics
Matches: 368, Mismatches: 102, Indels: 68
0.68 0.19 0.13
Matches are distributed among these distances:
27 2 0.01
28 8 0.02
30 1 0.00
32 2 0.01
33 7 0.02
34 4 0.01
35 4 0.01
36 5 0.01
37 7 0.02
38 2 0.01
39 23 0.06
40 232 0.63
41 56 0.15
42 8 0.02
43 5 0.01
44 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (39 bp):
GCTCGATCTATAGCGGCGTTTTTCAAAAGCGCCGCTAAT
Found at i:18779678 original size:81 final size:80
Alignment explanation
Indices: 18779573--18779956 Score: 278
Period size: 80 Copynumber: 4.8 Consensus size: 80
18779563 TAATTTTTTT
* * *
18779573 GCGGCATTTTTCAAAAAGCGCCGCTAATGGTTGACCTATAGCGGCGCTTTTTCAAAAAGCACTGC
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCG-TTTTTCAAAAAGCACCGC
18779638 TAATGCTCGATCTATA
65 TAATGCTCGATCTATA
* * * *
18779654 GCGGCATTTTTCAAGAAGCGCCGCTAATGCTCGATCTATAGCGGCGTTTTTCAAGAAGCGCCGCT
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCT
18779719 AATGCTCGATCTATA
66 AATGCTCGATCTATA
** * ** * * **** * ** *
18779734 GCAACGTTTTTCAAAAAATGCCGCTAATGC-C-A-CTAAAGC-TC-AACAT-AAAACG-ATGGTG
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAAAAAGCACCG-C
** ** * * *
18779792 TTGTGCTTAATTTTTTTT
65 TAATGCTCGA--TCTATA
** * * * * * *
18779810 GCTACGTTTTTTAAAAAGCGCTGCTAATGGTCGACCTATAGCGACGTTTTTCAAAAAGCGCCGCT
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCT
*
18779875 AATGCTCGATCTGTA
66 AATGCTCGATCTATA
* ** * * * *
18779890 ACGGTGTTTTTCAAGAAGCGCCGCTAATGCTCAACCTATAGCGGCGTTTTTTAAAAAGCGCCGCT
1 GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCT
18779955 AA
66 AA
18779957 AAATGTCGCT
Statistics
Matches: 226, Mismatches: 67, Indels: 21
0.72 0.21 0.07
Matches are distributed among these distances:
73 1 0.00
74 10 0.04
75 1 0.00
76 28 0.12
77 7 0.03
78 2 0.01
79 7 0.03
80 115 0.51
81 43 0.19
82 11 0.05
83 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (80 bp):
GCGGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGCGGCGTTTTTCAAAAAGCACCGCT
AATGCTCGATCTATA
Found at i:18790178 original size:6 final size:6
Alignment explanation
Indices: 18790167--18790211 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
18790157 GTCTCTCAGC
* *
18790167 AAAATA AAAATA AAAATA AATAATA AGAA-A AAAATA AAATTA AAA
1 AAAATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAA
18790212 TGTGTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 4 0.12
6 25 0.74
7 5 0.15
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:18799785 original size:41 final size:41
Alignment explanation
Indices: 18799714--18799812 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 41
18799704 TTTTCAAATA
* * *
18799714 CAACCTTTCCATTTGTTATCCTATATGGATAACTCCCTTTT
1 CAACATTTTCATTTGTTATCCTATACGGATAACTCCCTTTT
* *
18799755 CCACATTTTCATTTGTTATCC-ATTACGGATAACTTCCTTTT
1 CAACATTTTCATTTGTTATCCTA-TACGGATAACTCCCTTTT
*
18799796 CAACCTTTTCATTTGTT
1 CAACATTTTCATTTGTT
18799813 CAGAAATGCG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 1 0.02
41 49 0.98
ACGTcount: A:0.21, C:0.25, G:0.07, T:0.46
Consensus pattern (41 bp):
CAACATTTTCATTTGTTATCCTATACGGATAACTCCCTTTT
Found at i:18801788 original size:14 final size:14
Alignment explanation
Indices: 18801769--18801798 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
18801759 AATGTATACT
18801769 TGAAACTCTAATTG
1 TGAAACTCTAATTG
18801783 TGAAACTCTAATTG
1 TGAAACTCTAATTG
18801797 TG
1 TG
18801799 GTTCAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (14 bp):
TGAAACTCTAATTG
Found at i:18802013 original size:29 final size:30
Alignment explanation
Indices: 18801970--18802051 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 30
18801960 GAATTGGATC
*
18801970 AAATCAAAATTTCATGTATAAAATTGCACA-
1 AAATC-AAAGTTCATGTATAAAATTGCACAT
*
18802000 AAATCAAAGTTCATGTATACAATTGCACATT
1 AAATCAAAGTTCATGTATAAAATTGCACA-T
* *
18802031 AAACCATAGTTCATGTATAAA
1 AAATCAAAGTTCATGTATAAA
18802052 TTTGGTATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 22 0.49
30 5 0.11
31 18 0.40
ACGTcount: A:0.46, C:0.15, G:0.09, T:0.30
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATAAAATTGCACAT
Found at i:18807615 original size:3 final size:3
Alignment explanation
Indices: 18807607--18807641 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
18807597 AATTTTTATA
18807607 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
18807642 AAGTATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18807813 original size:21 final size:21
Alignment explanation
Indices: 18807789--18807841 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
18807779 AACGGTGGCG
*
18807789 GTGAGATTAGTTACTGTAGCA
1 GTGAGATTAGATACTGTAGCA
* *
18807810 GTGAGATTGGATACTGTAGCG
1 GTGAGATTAGATACTGTAGCA
*
18807831 GTGAAATTAGA
1 GTGAGATTAGA
18807842 AACAATGGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCA
Found at i:18812361 original size:9 final size:9
Alignment explanation
Indices: 18812338--18812388 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
18812328 AAGTTAAATG
*
18812338 AATCAAGTT
1 AATCGAGTT
*
18812347 ATTCGAGTT
1 AATCGAGTT
18812356 AATCGAGTT
1 AATCGAGTT
*
18812365 ATTCGAGTT
1 AATCGAGTT
18812374 AATCGAGTT
1 AATCGAGTT
*
18812383 ATTCGA
1 AATCGA
18812389 ATCAACTCGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (9 bp):
AATCGAGTT
Found at i:18812364 original size:18 final size:18
Alignment explanation
Indices: 18812338--18812388 Score: 93
Period size: 18 Copynumber: 2.8 Consensus size: 18
18812328 AAGTTAAATG
*
18812338 AATCAAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
18812356 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
18812374 AATCGAGTTATTCGA
1 AATCGAGTTATTCGA
18812389 ATCAACTCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:18812579 original size:18 final size:18
Alignment explanation
Indices: 18812552--18812594 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
18812542 CTGCCCACTT
*
18812552 TCCCCCCAAAACTTTTAC
1 TCCCCTCAAAACTTTTAC
18812570 TCCCCTCAAAACTTTTAC
1 TCCCCTCAAAACTTTTAC
18812588 TCCCCTC
1 TCCCCTC
18812595 CCAACCCCCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (18 bp):
TCCCCTCAAAACTTTTAC
Found at i:18830004 original size:31 final size:30
Alignment explanation
Indices: 18829969--18830028 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
18829959 GGAGGTGGGA
*
18829969 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
18830000 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
18830029 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:18830257 original size:9 final size:9
Alignment explanation
Indices: 18830243--18830270 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
18830233 TATAGTTTGA
18830243 TATTCGAAT
1 TATTCGAAT
18830252 TATTCGAAT
1 TATTCGAAT
18830261 TATTCGAAT
1 TATTCGAAT
18830270 T
1 T
18830271 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Done.