Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 138 of 311
Found at i:46776944 original size:27 final size:27
Alignment explanation
Indices: 46776892--46776981 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
46776882 GTGACAGAGT
46776892 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
46776921 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
46776948 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
46776976 CACCAG
1 CACCAG
46776982 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:46777134 original size:28 final size:28
Alignment explanation
Indices: 46777087--46777151 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
46777077 AAATTAACCC
*
46777087 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
46777115 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
46777143 TAGGGGTAT
1 TAGGGGTAT
46777152 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:46781690 original size:27 final size:27
Alignment explanation
Indices: 46781660--46781863 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
46781650 ATATTGAGTC
* * * *
46781660 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
46781687 CGCACACTTAGTGCTACGA-A-TCAAAT
1 CGCACACTTAGTGCTAC-ATAGTCAAAT
46781713 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46781741 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46781768 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46781795 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46781822 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46781849 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46781864 GTACAATTTA
Statistics
Matches: 156, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
25 1 0.01
26 23 0.15
27 107 0.69
28 25 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46789620 original size:27 final size:27
Alignment explanation
Indices: 46789590--46789794 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
46789580 ATATTGAGTC
* * * *
46789590 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
46789617 CGCACACTTAGTGCTACGA-AATCAAAT
1 CGCACACTTAGTGCTAC-ATAGTCAAAT
46789644 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46789672 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46789699 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46789726 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46789753 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46789780 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46789795 GTACAATTTA
Statistics
Matches: 157, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 131 0.83
28 25 0.16
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46792643 original size:67 final size:67
Alignment explanation
Indices: 46792531--46792667 Score: 265
Period size: 67 Copynumber: 2.0 Consensus size: 67
46792521 TGCATATACC
46792531 AAAATCATATAATGTCAAAATCATCTACATGGTGGATGAACGGGCCCATATTCATTTCAGAAATG
1 AAAATCATATAATGTCAAAATCATCTACATGGTGGATGAACGGGCCCATATTCATTTCAGAAATG
46792596 CA
66 CA
*
46792598 AAAATCATATAATGTCAAAATCATCTACATGGTGGATGAATGGGCCCATATTCATTTCAGAAATG
1 AAAATCATATAATGTCAAAATCATCTACATGGTGGATGAACGGGCCCATATTCATTTCAGAAATG
46792663 CA
66 CA
46792665 AAA
1 AAA
46792668 CATTAAATCT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (67 bp):
AAAATCATATAATGTCAAAATCATCTACATGGTGGATGAACGGGCCCATATTCATTTCAGAAATG
CA
Found at i:46795455 original size:22 final size:24
Alignment explanation
Indices: 46795397--46795456 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 24
46795387 AATTTATTTC
*
46795397 ATAATAAT-ATAAT-ATCAATTAA
1 ATAATTATAATAATAATCAATTAA
*
46795419 ATAA-TATAAACAATAAT-AATT-A
1 ATAATTAT-AATAATAATCAATTAA
46795441 ATAATTATAATAATAA
1 ATAATTATAATAATAA
46795457 ATATCTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
21 2 0.06
22 16 0.52
23 11 0.35
24 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAATTATAATAATAATCAATTAA
Found at i:46798804 original size:13 final size:13
Alignment explanation
Indices: 46798786--46798810 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46798776 TTGATAGCGG
46798786 AAAACAAGAAAAC
1 AAAACAAGAAAAC
46798799 AAAACAAGAAAA
1 AAAACAAGAAAA
46798811 GTTTTGGAAA
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:0.80, C:0.12, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAACAAGAAAAC
Found at i:46798839 original size:6 final size:6
Alignment explanation
Indices: 46798830--46798866 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
46798820 AAGAGAAAGA
*
46798830 AAAATT AAAATT AAAATT AAAATT -AAATC AAAATT AA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AA
46798867 TAATAATCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:46798862 original size:11 final size:11
Alignment explanation
Indices: 46798831--46798866 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
46798821 AGAGAAAGAA
46798831 AAATTAAAATT
1 AAATTAAAATT
46798842 AAAATTAAAATT
1 -AAATTAAAATT
*
46798854 AAATCAAAATT
1 AAATTAAAATT
46798865 AA
1 AA
46798867 TAATAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:46810290 original size:40 final size:40
Alignment explanation
Indices: 46810241--46810344 Score: 163
Period size: 40 Copynumber: 2.6 Consensus size: 40
46810231 GCCACTAGCT
46810241 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCACA
* * *
46810281 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCACA
* *
46810321 CGAATGCCTTTGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
46810345 AAATTAGCCA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCACA
Found at i:46810367 original size:40 final size:39
Alignment explanation
Indices: 46810229--46810384 Score: 117
Period size: 40 Copynumber: 3.9 Consensus size: 39
46810219 TAGCCGGATA
*
46810229 TAGCCACTAGCTCAAATGCCTTCGGGACTTAGCCCGGATATAA
1 TAGCCACTAGC-CAAATGCCTTCGGGACTTAGCCC-GA-A-AT
* *
46810272 TAGCTCAC-A--CAAACGCCTTCGGGACTTAGCCCG-GAT
1 TAGC-CACTAGCCAAATGCCTTCGGGACTTAGCCCGAAAT
* * * *
46810308 ATAG-TAGCTCGCACGAATGCCTTTGGGACTTAGCCCGAAAT
1 -TAGCCA-CTAGC-CAAATGCCTTCGGGACTTAGCCCGAAAT
46810349 TAGCCACTAGCCCAAATG-CTCTCGGGACTTAGCCCG
1 TAGCCACTAG-CCAAATGCCT-TCGGGACTTAGCCCG
46810385 GTTATCATCC
Statistics
Matches: 89, Mismatches: 13, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
35 1 0.01
36 2 0.02
37 3 0.03
39 3 0.03
40 68 0.76
41 4 0.04
43 5 0.06
44 3 0.03
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (39 bp):
TAGCCACTAGCCAAATGCCTTCGGGACTTAGCCCGAAAT
Found at i:46817611 original size:21 final size:23
Alignment explanation
Indices: 46817587--46817629 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
46817577 GGTCTCCTCC
46817587 TAGGACACA-TTAA-ACAAACAT
1 TAGGACACATTTAACACAAACAT
46817608 TAGGACACATTTAACACAAACA
1 TAGGACACATTTAACACAAACA
46817630 CAAAGCTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.51, C:0.21, G:0.09, T:0.19
Consensus pattern (23 bp):
TAGGACACATTTAACACAAACAT
Found at i:46821514 original size:19 final size:19
Alignment explanation
Indices: 46821490--46821527 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
46821480 TGAAAAGAAA
* *
46821490 AACTCAAAGAGAATTTGTT
1 AACTCAAAAAGAAGTTGTT
46821509 AACTCAAAAAGAAGTTGTT
1 AACTCAAAAAGAAGTTGTT
46821528 GAATAATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (19 bp):
AACTCAAAAAGAAGTTGTT
Found at i:46826839 original size:40 final size:40
Alignment explanation
Indices: 46826795--46826990 Score: 329
Period size: 40 Copynumber: 4.9 Consensus size: 40
46826785 GGATATAGCT
* *
46826795 ACTCGCTCAAATGCCTTCGGGATTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
46826835 ACTCGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
46826875 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
46826915 ATTCGCACAAATTCCTTCGGGACTTAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
46826955 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
46826991 CATCCGAATA
Statistics
Matches: 146, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:46830639 original size:6 final size:6
Alignment explanation
Indices: 46830628--46830661 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
46830618 CCGACTCTCA
*
46830628 TCTTTG TCTTTG TCTTTG TCTTTG TCTTTC TCTT
1 TCTTTG TCTTTG TCTTTG TCTTTG TCTTTG TCTT
46830662 GGTCATGGTG
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:0.21, G:0.12, T:0.68
Consensus pattern (6 bp):
TCTTTG
Found at i:46838491 original size:156 final size:156
Alignment explanation
Indices: 46838207--46838519 Score: 590
Period size: 156 Copynumber: 2.0 Consensus size: 156
46838197 GTTTAGCTTA
* *
46838207 ACATGATATTTATGATGTCTAGTTCATGCTTTTAACATGTTCAGCTGAATATACATTGGGATTTA
1 ACATGATATTTATGATGTCTAGTTCATGCTCTTAACATGTTCAACTGAATATACATTGGGATTTA
*
46838272 ATGTGTTCATGTTTCTTGTAGGTTCAGTCGAATGTATTGAGTACATTTAATGAGATTCATGCACT
66 ATGTGTTCATGTTTCTTGTAGGTTCAGTCGAATGTATTGAGTACATTTAATGAGATTCATGCACG
46838337 GCTAGGTACATGGAATATAAGAGTTC
131 GCTAGGTACATGGAATATAAGAGTTC
46838363 ACATGATATTTATGATGTCTAGTTCATGCTCTTAACATGTTCAACTGAATATACATTGGGATTTA
1 ACATGATATTTATGATGTCTAGTTCATGCTCTTAACATGTTCAACTGAATATACATTGGGATTTA
*
46838428 ATGTGTTCATGTTTCTTGTAGGTTTAGTCGAATGTATTGAGTACATTTAATGAGATTCATGCACG
66 ATGTGTTCATGTTTCTTGTAGGTTCAGTCGAATGTATTGAGTACATTTAATGAGATTCATGCACG
46838493 GCTAGGTACATGGAATATAAGAGTTC
131 GCTAGGTACATGGAATATAAGAGTTC
46838519 A
1 A
46838520 TGCATGAACG
Statistics
Matches: 153, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 153 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (156 bp):
ACATGATATTTATGATGTCTAGTTCATGCTCTTAACATGTTCAACTGAATATACATTGGGATTTA
ATGTGTTCATGTTTCTTGTAGGTTCAGTCGAATGTATTGAGTACATTTAATGAGATTCATGCACG
GCTAGGTACATGGAATATAAGAGTTC
Found at i:46853520 original size:23 final size:22
Alignment explanation
Indices: 46853475--46853520 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
46853465 GTATGAAACT
*
46853475 TGAAGATAAATCTGAATTTTTC
1 TGAAGATAAATCTGAATTCTTC
46853497 TGAAGATAAATCTGAAATTCTTC
1 TGAAGATAAATCTG-AATTCTTC
46853520 T
1 T
46853521 TATTCTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (22 bp):
TGAAGATAAATCTGAATTCTTC
Found at i:46869096 original size:9 final size:9
Alignment explanation
Indices: 46869082--46869110 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
46869072 TCTTCGATCC
46869082 AAAAAAA-A
1 AAAAAAAGA
46869090 AAAAAAAGA
1 AAAAAAAGA
46869099 AAAAAAAGA
1 AAAAAAAGA
46869108 AAA
1 AAA
46869111 GGAATCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:46877294 original size:18 final size:18
Alignment explanation
Indices: 46877254--46877317 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
46877244 TTACTTTCTA
*
46877254 ATATGATTTTAAAATTTT
1 ATATTATTTTAAAATTTT
*
46877272 ATATTATTTTCAAA--TT
1 ATATTATTTTAAAATTTT
*
46877288 AT-TTATTTATAAAATATT
1 ATATTATTT-TAAAATTTT
46877306 AT-TTATTTTAAA
1 ATATTATTTTAAA
46877318 TATGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
15 6 0.15
16 8 0.20
17 4 0.10
18 22 0.55
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
ATATTATTTTAAAATTTT
Found at i:46877295 original size:15 final size:14
Alignment explanation
Indices: 46877270--46877358 Score: 52
Period size: 18 Copynumber: 5.6 Consensus size: 14
46877260 TTTTAAAATT
46877270 TTATATTATTTTCAAA
1 TTAT-TTATTTT-AAA
46877286 TTATTTATTTATAAAATA
1 TTATTTATTT-T--AA-A
46877304 TTATTTATTTTAAA
1 TTATTTATTTTAAA
**
46877318 TATGATGTTCATTTTATT
1 T-T-AT-TT-ATTTTAAA
*
46877336 TTATTTATTTTTAA
1 TTATTTATTTTAAA
*
46877350 GTATTTATT
1 TTATTTATT
46877359 CATCTACTAT
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
14 15 0.25
15 11 0.19
16 9 0.15
17 6 0.10
18 18 0.31
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (14 bp):
TTATTTATTTTAAA
Found at i:46881654 original size:40 final size:40
Alignment explanation
Indices: 46881464--46881697 Score: 215
Period size: 40 Copynumber: 5.9 Consensus size: 40
46881454 GCATTACCTT
* * *
46881464 CTGAAATGTATGCGCTATTAAGCCATACCTACTGAATCTA
1 CTGAAATGTATGCACTATCAAGCCATACCTACTGAATTTA
** ** ** * *
46881504 CTGATTTGTATGGGCTATTGAGTCATACCTACTAAATTTA
1 CTGAAATGTATGCACTATCAAGCCATACCTACTGAATTTA
* *
46881544 CTGAAATGTATGTGA-TATCAAGCCGTACCTACTG-ATTCTA
1 CTGAAATGTATG-CACTATCAAGCCATACCTACTGAATT-TA
* * *
46881584 CT-AAGA-GTACGCTCTATCAAGCCATACCTATTGAATTTA
1 CTGAA-ATGTATGCACTATCAAGCCATACCTACTGAATTTA
* *
46881623 CTGAAATGTATGCACTATCGAGCCATACCTATTGAATTTA
1 CTGAAATGTATGCACTATCAAGCCATACCTACTGAATTTA
* * * *
46881663 CTAAAAAGTATGCTCTATCGAGCCATACCTACTGA
1 CTGAAATGTATGCACTATCAAGCCATACCTACTGA
46881698 TTCTATTGAA
Statistics
Matches: 160, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
39 31 0.19
40 128 0.80
41 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (40 bp):
CTGAAATGTATGCACTATCAAGCCATACCTACTGAATTTA
Found at i:46881694 original size:119 final size:119
Alignment explanation
Indices: 46881478--46881702 Score: 290
Period size: 119 Copynumber: 1.9 Consensus size: 119
46881468 AATGTATGCG
* ** ** * *
46881478 CTATTAAGCCATACCTACTGAATCTACTGATTTGTATGGGCTATTGAGTCATACCTACTAAATTT
1 CTATCAAGCCATACCTACTGAATCTACTGAAATGTATGCACTATCGAGCCATACCTACTAAATTT
* * *
46881543 ACTGAAATGTATGTGATATCAAGCCGTACCTACTGATTCTACTAAGAGTACGCT
66 ACTAAAAAGTATGTGATATCAAGCCATACCTACTGATTCTACTAAGAGTACGCT
* * * *
46881597 CTATCAAGCCATACCTATTGAATTTACTGAAATGTATGCACTATCGAGCCATACCTATTGAATTT
1 CTATCAAGCCATACCTACTGAATCTACTGAAATGTATGCACTATCGAGCCATACCTACTAAATTT
* *
46881662 ACTAAAAAGTATGCT-CTATCGAGCCATACCTACTGATTCTA
66 ACTAAAAAGTATG-TGATATCAAGCCATACCTACTGATTCTA
46881703 TTGAAAGTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
119 88 0.99
120 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (119 bp):
CTATCAAGCCATACCTACTGAATCTACTGAAATGTATGCACTATCGAGCCATACCTACTAAATTT
ACTAAAAAGTATGTGATATCAAGCCATACCTACTGATTCTACTAAGAGTACGCT
Found at i:46890239 original size:26 final size:25
Alignment explanation
Indices: 46890178--46890240 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
46890168 TATTCAGGGC
* *
46890178 TCCTGATTAATGGCTGTTCGTGAGT
1 TCCTGATTAAAGGCTCTTCGTGAGT
* *
46890203 TTCTAGTTTAAAGGCTCTTCGTGAGCT
1 TCCT-GATTAAAGGCTCTTCGTGAG-T
46890230 TCCTGATTAAA
1 TCCTGATTAAA
46890241 AGTTCTATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.10
26 23 0.77
27 4 0.13
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (25 bp):
TCCTGATTAAAGGCTCTTCGTGAGT
Found at i:46893582 original size:27 final size:27
Alignment explanation
Indices: 46893541--46893594 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46893531 TGTCATGTGA
* *
46893541 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTAATATTACATG
**
46893568 AATTGAATGTTAAATTAATATTACATG
1 AATTGAATGGCAAATTAATATTACATG
46893595 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTAATATTACATG
Found at i:46893911 original size:20 final size:20
Alignment explanation
Indices: 46893886--46893930 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
46893876 CACGTTCGTC
46893886 TGGCCTGGGACATGCCCGTG
1 TGGCCTGGGACATGCCCGTG
*
46893906 TGGCCTGGGACGTGCCCGTG
1 TGGCCTGGGACATGCCCGTG
*
46893926 GGGCC
1 TGGCC
46893931 AAGCCGTGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.07, C:0.31, G:0.44, T:0.18
Consensus pattern (20 bp):
TGGCCTGGGACATGCCCGTG
Found at i:46895748 original size:12 final size:12
Alignment explanation
Indices: 46895717--46895741 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46895707 TATTTTCCTT
46895717 TCTTTTTCTTTC
1 TCTTTTTCTTTC
46895729 TCTTTTTCTTTC
1 TCTTTTTCTTTC
46895741 T
1 T
46895742 TTCTTTCCCT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:46895822 original size:8 final size:8
Alignment explanation
Indices: 46895811--46895868 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
46895801 TTATTTTCTT
*
46895811 TATTATTT
1 TATTATTA
46895819 TATTATTA
1 TATTATTA
**
46895827 TAACATATA
1 TATTAT-TA
46895836 TATTATTA
1 TATTATTA
46895844 TATTATTA
1 TATTATTA
* *
46895852 AATTATTT
1 TATTATTA
*
46895860 TAATATTA
1 TATTATTA
46895868 T
1 T
46895869 TTCTTATTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
8 33 0.85
9 6 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATTA
Found at i:46898796 original size:45 final size:44
Alignment explanation
Indices: 46898682--46898799 Score: 112
Period size: 45 Copynumber: 2.6 Consensus size: 44
46898672 TCAAAGAATG
*
46898682 CCATAGCATCTTTCAGCCATGGTTTTAGTCCTATTCTTATCATGATG
1 CCATAGCATCTTTCAGCCATGG-TTT--TCCTATTCTTATCATGATA
*** * * *
46898729 CCATAATGTCTTTGAACTATGGTTTTCCTCA-TCTTTATCATGATA
1 CCATAGCATCTTTCAGCCATGGTTTTCCT-ATTC-TTATCATGATA
*
46898774 TCATAGCATCTTTCAGCCATGGTTTT
1 CCATAGCATCTTTCAGCCATGGTTTT
46898800 ACTTATTTTA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
44 6 0.11
45 30 0.55
46 3 0.05
47 16 0.29
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (44 bp):
CCATAGCATCTTTCAGCCATGGTTTTCCTATTCTTATCATGATA
Found at i:46899663 original size:32 final size:32
Alignment explanation
Indices: 46899596--46899663 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 32
46899586 ACCTTATTTG
* * *
46899596 TTTTCATATTTGGGAACTAAACAGTCACTTGT
1 TTTTCAGATATGGGAACTAAACAGTCACTTAT
* *
46899628 TTTTCAGATATGGGAACTGAAATAGTGA-TTAT
1 TTTTCAGATATGGGAACT-AAACAGTCACTTAT
46899660 TTTT
1 TTTT
46899664 TGTTTCTCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 23 0.77
33 7 0.23
ACGTcount: A:0.29, C:0.10, G:0.18, T:0.43
Consensus pattern (32 bp):
TTTTCAGATATGGGAACTAAACAGTCACTTAT
Found at i:46903197 original size:40 final size:41
Alignment explanation
Indices: 46903135--46903342 Score: 168
Period size: 40 Copynumber: 5.2 Consensus size: 41
46903125 CGGATGATAA
*
46903135 CCGGGCTAAGTTCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTAATAT
* * * * *
46903175 TCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TGGCTAATAT
* * * *
46903215 CCGGGCTAAGTCCCAAAGGCGTTTGTGC--G-AGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTA--ATAT
* ** *
46903255 CCGGGCTAAGTCCCGAAGGCATTT-ATGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGA-GCTAGTGGCTAATAT
46903295 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTAATAT
46903335 CC-GGCTAA
1 CCGGGCTAA
46903343 ACTCCGAAGG
Statistics
Matches: 135, Mismatches: 21, Indels: 25
0.75 0.12 0.14
Matches are distributed among these distances:
37 2 0.01
38 1 0.01
39 8 0.06
40 117 0.87
41 4 0.03
42 1 0.01
43 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTAATAT
Found at i:46903334 original size:80 final size:80
Alignment explanation
Indices: 46903131--46903342 Score: 252
Period size: 80 Copynumber: 2.7 Consensus size: 80
46903121 TGTTCGGATG
* *
46903131 ATAACCGGGCTAAGTTCCG-AGAGCATTTGAGCTAGTGGCTA-ATTTCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGG
* *
46903194 CATTCGTGCGAGCTACT
64 CATTCATGCAAGCTACT
* * * * * **
46903211 ATATCCGGGCTAAGTCCCAAAGGCGTTTGTGCGAGCT-ATTATATCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TGGCTATATCCGGGCTAAGTCCCGAAGGC
* *
46903275 ATTTATGCAAGTTACT
65 ATTCATGCAAGCTACT
46903291 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
46903343 ACTCCGAAGG
Statistics
Matches: 108, Mismatches: 20, Indels: 9
0.79 0.15 0.07
Matches are distributed among these distances:
79 7 0.06
80 97 0.90
81 4 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCA
TTCATGCAAGCTACT
Found at i:46908085 original size:10 final size:10
Alignment explanation
Indices: 46908070--46908117 Score: 78
Period size: 10 Copynumber: 4.7 Consensus size: 10
46908060 ATTTTGATAT
46908070 ACATGATTTG
1 ACATGATTTG
46908080 ACATGATTTG
1 ACATGATTTG
46908090 ACATGATTTG
1 ACATGATTTG
*
46908100 ACATGATATG
1 ACATGATTTG
46908110 CACATGAT
1 -ACATGAT
46908118 ATGTATGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
10 29 0.81
11 7 0.19
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (10 bp):
ACATGATTTG
Found at i:46908095 original size:20 final size:21
Alignment explanation
Indices: 46908070--46908135 Score: 91
Period size: 20 Copynumber: 3.2 Consensus size: 21
46908060 ATTTTGATAT
*
46908070 ACATGATTTGACATGATTTG-
1 ACATGATTTGACATGATATGC
46908090 ACATGATTTGACATGATATGC
1 ACATGATTTGACATGATATGC
* *
46908111 ACATGATATG-TATGATATGC
1 ACATGATTTGACATGATATGC
46908131 ACATG
1 ACATG
46908136 TTATATTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
20 33 0.79
21 9 0.21
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (21 bp):
ACATGATTTGACATGATATGC
Found at i:46910276 original size:26 final size:26
Alignment explanation
Indices: 46910247--46910299 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
46910237 TCATACATGC
*
46910247 ATTTAGGTCATTTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACTCCTAGGGGT
* *
46910273 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
46910299 A
1 A
46910300 AACCTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:46912607 original size:47 final size:47
Alignment explanation
Indices: 46912556--46912793 Score: 334
Period size: 47 Copynumber: 5.1 Consensus size: 47
46912546 TTCCACGTTT
* * * *
46912556 ATCACATTAGCCACTCTACCTTATCACACATATGCATGTTCACATCC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
*
46912603 ATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
* *
46912650 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
46912697 ATCACATTGGCCATTC-AGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGA-CCTTATCACACATATGCATGTTCACATTC
* * * * * **
46912744 ATCACATTGGCCATTAGGCCTTATCTCATATATACACATTCACATTC
1 ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
46912791 ATC
1 ATC
46912794 TCATAAAATC
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 174 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
ATCACATTGGCCATTCGACCTTATCACACATATGCATGTTCACATTC
Found at i:46912654 original size:25 final size:25
Alignment explanation
Indices: 46912625--46912749 Score: 76
Period size: 23 Copynumber: 5.2 Consensus size: 25
46912615 ATTCGGCCTT
46912625 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
46912650 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
*
46912672 ATCACATATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
*
46912697 AT--CACAT-TGGCCA--TTCAGCCTT-
1 ATCACACATAT-G-CATGTTCA-CATTC
46912719 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
46912744 ATCACA
1 ATCACA
46912750 TTGGCCATTA
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 13 0.18
23 21 0.28
24 21 0.28
25 19 0.26
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:46912722 original size:22 final size:22
Alignment explanation
Indices: 46912603--46912724 Score: 65
Period size: 22 Copynumber: 5.3 Consensus size: 22
46912593 GTTCACATCC
*
46912603 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCAGCCTT
*
46912625 ATCACACATAT-G-CATGTTCA-CATT
1 AT--CACAT-TGGCCA--TTCAGCCTT
*
46912649 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
* *
46912672 ATCACATATATG-CATGTTCA-CATT
1 ATCACAT-T-GGCCA--TTCAGCCTT
46912696 CATCACATTGGCCATTCAGCCTT
1 -ATCACATTGGCCATTCAGCCTT
46912719 ATCACA
1 ATCACA
46912725 CATATGCATG
Statistics
Matches: 75, Mismatches: 9, Indels: 32
0.65 0.08 0.28
Matches are distributed among these distances:
22 23 0.31
23 18 0.24
24 18 0.24
25 16 0.21
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:46912774 original size:94 final size:94
Alignment explanation
Indices: 46912574--46912793 Score: 368
Period size: 94 Copynumber: 2.3 Consensus size: 94
46912564 AGCCACTCTA
* * *
46912574 CCTTATCACACATATGCATGTTCACATCCATCACATTGGCCATTCGGCCTTATCACACATATGCA
1 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATATGCA
*
46912639 TGTTCACATTCATCACATTGGCCATTCGG
66 TGTTCACATTCATCACATTGGCCATTAGG
46912668 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATATGCA
1 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATATGCA
46912733 TGTTCACATTCATCACATTGGCCATTAGG
66 TGTTCACATTCATCACATTGGCCATTAGG
* * **
46912762 CCTTATCTCATATATACACATTCACATTCATC
1 CCTTATCACATATATGCATGTTCACATTCATC
46912794 TCATAAAATC
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 118 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (94 bp):
CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCAGCCTTATCACACATATGCA
TGTTCACATTCATCACATTGGCCATTAGG
Found at i:46915914 original size:26 final size:26
Alignment explanation
Indices: 46915884--46915991 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
46915874 TGAAATGCCC
46915884 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46915910 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
46915936 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
46915962 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46915988 ATCA
1 ATCA
46915992 ATTTGTACTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46921323 original size:26 final size:26
Alignment explanation
Indices: 46921294--46921346 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
46921284 TCATACATGC
*
46921294 ATTTAGGTCATTTTAAC-CCTAGGGGT
1 ATTTAGGT-AATTTAACTCCTAGGGGT
* *
46921320 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAGGTAATTTAACTCCTAGGGGT
46921346 A
1 A
46921347 AAACGGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTAACTCCTAGGGGT
Found at i:46922855 original size:26 final size:26
Alignment explanation
Indices: 46922825--46922932 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
46922815 TGAAATGCCC
46922825 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46922851 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
46922877 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
46922903 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
46922929 ATCA
1 ATCA
46922933 ATTTGTACCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:46933647 original size:22 final size:23
Alignment explanation
Indices: 46933608--46933650 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
46933598 GAAATCCTAC
*
46933608 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
46933631 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
46933651 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:46939866 original size:24 final size:21
Alignment explanation
Indices: 46939816--46939866 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
46939806 TTTCTAACAT
*
46939816 AATTTAGTCTCTATATTTTTA
1 AATTTAGTCTCTATATGTTTA
*
46939837 ATTTTAGTCTCTCTATTATGTTTA
1 AATTTAG--TCTCTA-TATGTTTA
46939861 AATTTA
1 AATTTA
46939867 AAAATTAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 6 0.25
23 6 0.25
24 12 0.50
ACGTcount: A:0.27, C:0.10, G:0.06, T:0.57
Consensus pattern (21 bp):
AATTTAGTCTCTATATGTTTA
Found at i:46949941 original size:13 final size:14
Alignment explanation
Indices: 46949923--46949953 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
46949913 ATAAAAATTG
46949923 TAAAACACT-AAAA
1 TAAAACACTAAAAA
46949936 TAAAACACTAAAAA
1 TAAAACACTAAAAA
46949950 TAAA
1 TAAA
46949954 CCATTCAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (14 bp):
TAAAACACTAAAAA
Found at i:46952450 original size:23 final size:23
Alignment explanation
Indices: 46952424--46952521 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
46952414 ATAAGTGCCA
46952424 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46952447 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
46952470 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
46952492 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
46952515 CACTGAT
1 CACTGAT
46952522 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:46952489 original size:45 final size:45
Alignment explanation
Indices: 46952431--46952519 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
46952421 CCACACTGAT
* *
46952431 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
46952476 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
46952520 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:46955363 original size:33 final size:33
Alignment explanation
Indices: 46955321--46955384 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
46955311 ACATGCAAAA
* *
46955321 GATGTATCTTTCT-ATGAGATACCCTTTCATAAG
1 GATGTATCTTT-TAATGAGATACACATTCATAAG
46955354 GATGTATCTTTTAATGAGATACACATTCATA
1 GATGTATCTTTTAATGAGATACACATTCATA
46955385 GAATTGTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (33 bp):
GATGTATCTTTTAATGAGATACACATTCATAAG
Found at i:46957401 original size:9 final size:9
Alignment explanation
Indices: 46957387--46957432 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
46957377 TCATAAACTC
46957387 CATGTAATT
1 CATGTAATT
46957396 CATGTAATT
1 CATGTAATT
46957405 CATGTAACTT
1 CATGTAA-TT
46957415 -A--TAATT
1 CATGTAATT
*
46957421 CATGTAAAT
1 CATGTAATT
46957430 CAT
1 CAT
46957433 ATAGCTCTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
6 2 0.06
7 4 0.12
9 24 0.75
10 2 0.06
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (9 bp):
CATGTAATT
Found at i:46957711 original size:23 final size:23
Alignment explanation
Indices: 46957600--46957721 Score: 88
Period size: 23 Copynumber: 5.3 Consensus size: 23
46957590 AAGCTCCTCC
*
46957600 TGAGCTGATAAACAGTAAGCTCCAA
1 TGAGCTG--AAACGGTAAGCTCCAA
* * ***
46957625 AGAGTTG-AACGGTAAGC-CTTG
1 TGAGCTGAAACGGTAAGCTCCAA
**
46957646 TAGAGCTGAAACGGTAAGCTCTTA
1 T-GAGCTGAAACGGTAAGCTCCAA
* *
46957670 CGAGCTGAATCGGTAAGCTCCAA
1 TGAGCTGAAACGGTAAGCTCCAA
*
46957693 TGAGTTGAAACGGTAAGCT-CATA
1 TGAGCTGAAACGGTAAGCTCCA-A
46957716 TGAGCT
1 TGAGCT
46957722 AAGGTGAGTC
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
21 1 0.01
22 16 0.21
23 51 0.67
24 3 0.04
25 5 0.07
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (23 bp):
TGAGCTGAAACGGTAAGCTCCAA
Found at i:46962642 original size:14 final size:14
Alignment explanation
Indices: 46962623--46962672 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
46962613 TAACTTAGGT
46962623 TTAATTTTAGTTAA
1 TTAATTTTAGTTAA
46962637 TTAATTTTA-TT-A
1 TTAATTTTAGTTAA
46962649 TTATTATTTTAGTTTAA
1 TTA--ATTTTAG-TTAA
46962666 TTTAATT
1 -TTAATT
46962673 ATTTATTACT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.13
13 2 0.07
14 15 0.50
16 5 0.17
17 1 0.03
18 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (14 bp):
TTAATTTTAGTTAA
Found at i:46962678 original size:29 final size:28
Alignment explanation
Indices: 46962626--46962685 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
46962616 CTTAGGTTTA
* *
46962626 ATTTTAGTTAATTAATTTTATTATTATT
1 ATTTTAGTTAATTAATTATATTATTACT
46962654 ATTTTAGTTTAATTTAATTAT-TTATTACT
1 ATTTTAG-TTAA-TTAATTATATTATTACT
46962683 ATT
1 ATT
46962686 GTTTTAGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 7 0.25
29 14 0.50
30 7 0.25
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (28 bp):
ATTTTAGTTAATTAATTATATTATTACT
Found at i:46962691 original size:32 final size:28
Alignment explanation
Indices: 46962626--46962692 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 28
46962616 CTTAGGTTTA
*
46962626 ATTTTAGTTAATTAATTTTATTATTATT
1 ATTTTAGTTAATTAATTTTATTACTATT
46962654 ATTTTAGTTTAATTTAATTATTTATTACTATT
1 ATTTTAG-TTAA-TTAA-T-TTTATTACTATT
*
46962686 GTTTTAG
1 ATTTTAG
46962693 ATATTGCACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 7 0.21
29 4 0.12
30 4 0.12
31 1 0.03
32 17 0.52
ACGTcount: A:0.30, C:0.01, G:0.06, T:0.63
Consensus pattern (28 bp):
ATTTTAGTTAATTAATTTTATTACTATT
Found at i:46963686 original size:18 final size:18
Alignment explanation
Indices: 46963644--46963687 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
46963634 TAAATTGGAA
*
46963644 ATAAAAAATTATTAAAAG
1 ATAATAAATTATTAAAAG
*
46963662 ATGATAAATTATTAAATAG
1 ATAATAAATTATTAAA-AG
46963681 A-AATAAA
1 ATAATAAA
46963688 AATAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 19 0.86
19 3 0.14
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
ATAATAAATTATTAAAAG
Found at i:46978938 original size:23 final size:23
Alignment explanation
Indices: 46978912--46978958 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
46978902 TGGGTGCTAG
46978912 GCTCGTACGTCCTACCAGTGGCT
1 GCTCGTACGTCCTACCAGTGGCT
*
46978935 GCTCGTACGTCCTACCGGTGGCT
1 GCTCGTACGTCCTACCAGTGGCT
46978958 G
1 G
46978959 AGTATACTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.11, C:0.34, G:0.30, T:0.26
Consensus pattern (23 bp):
GCTCGTACGTCCTACCAGTGGCT
Found at i:46983300 original size:106 final size:106
Alignment explanation
Indices: 46983115--46983327 Score: 426
Period size: 106 Copynumber: 2.0 Consensus size: 106
46983105 CTGAGACACC
46983115 AACTTTTGTCGAATCGTCATTGCGACATCATGAATCAATTTCATAAAGACAAATACATATACATA
1 AACTTTTGTCGAATCGTCATTGCGACATCATGAATCAATTTCATAAAGACAAATACATATACATA
46983180 TACATTTCATACAATATTTAAGCATTAAACATATAATAGTA
66 TACATTTCATACAATATTTAAGCATTAAACATATAATAGTA
46983221 AACTTTTGTCGAATCGTCATTGCGACATCATGAATCAATTTCATAAAGACAAATACATATACATA
1 AACTTTTGTCGAATCGTCATTGCGACATCATGAATCAATTTCATAAAGACAAATACATATACATA
46983286 TACATTTCATACAATATTTAAGCATTAAACATATAATAGTA
66 TACATTTCATACAATATTTAAGCATTAAACATATAATAGTA
46983327 A
1 A
46983328 TAATATGTTG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (106 bp):
AACTTTTGTCGAATCGTCATTGCGACATCATGAATCAATTTCATAAAGACAAATACATATACATA
TACATTTCATACAATATTTAAGCATTAAACATATAATAGTA
Found at i:46990719 original size:32 final size:32
Alignment explanation
Indices: 46990675--46990739 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
46990665 ATTGGTACTT
*
46990675 TTGAACTTATGGATATATGTAAATATGACATG
1 TTGAACTAATGGATATATGTAAATATGACATG
* *
46990707 TTGAACTAATGGATATATGTAAATGTGGCATG
1 TTGAACTAATGGATATATGTAAATATGACATG
46990739 T
1 T
46990740 ATAGGCTAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (32 bp):
TTGAACTAATGGATATATGTAAATATGACATG
Found at i:46992281 original size:19 final size:19
Alignment explanation
Indices: 46992243--46992281 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
46992233 AACGGACATA
**
46992243 AAAATCTTGACATGGCATG
1 AAAATCTTGACATGAAATG
*
46992262 AAAATCTTGAGATGAAATG
1 AAAATCTTGACATGAAATG
46992281 A
1 A
46992282 TAATGACTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.26
Consensus pattern (19 bp):
AAAATCTTGACATGAAATG
Found at i:47011771 original size:30 final size:28
Alignment explanation
Indices: 47011737--47011796 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
47011727 ATGTAATATA
47011737 AACATATAAGAA-AAATAATAGATATAAAGT
1 AACATATAA-AACAAAT-ATAGATAT-AAGT
*
47011767 AACATATAAAACAAATATATATATAAGT
1 AACATATAAAACAAATATAGATATAAGT
47011795 AA
1 AA
47011797 TAAATATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 6 0.21
29 9 0.32
30 13 0.46
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (28 bp):
AACATATAAAACAAATATAGATATAAGT
Found at i:47011879 original size:16 final size:14
Alignment explanation
Indices: 47011842--47011978 Score: 53
Period size: 14 Copynumber: 9.9 Consensus size: 14
47011832 ATTTAAGGAA
47011842 AATAATATATATAAT
1 AATAATATA-ATAAT
47011857 AAGTAATAATAATAAT
1 AA-TAAT-ATAATAAT
47011873 ATATAAT-TGAA-AAT
1 A-ATAATAT-AATAAT
*
47011887 AATACTCATAATAA-
1 AATAAT-ATAATAAT
* * *
47011901 AACAATTTTATAAT
1 AATAATATAATAAT
47011915 ATATAATATAA-AAGT
1 A-ATAATATAATAA-T
47011930 AA-AAT-TAA-AAT
1 AATAATATAATAAT
* *
47011941 AA-ACAAATAAT-AC
1 AATA-ATATAATAAT
47011954 AATATATATAATAAT
1 AATA-ATATAATAAT
47011969 -ATAATA-AATA
1 AATAATATAATA
47011979 TAGGACTAAA
Statistics
Matches: 94, Mismatches: 13, Indels: 33
0.67 0.09 0.24
Matches are distributed among these distances:
11 4 0.04
12 10 0.11
13 21 0.22
14 25 0.27
15 16 0.17
16 14 0.15
17 4 0.04
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (14 bp):
AATAATATAATAAT
Found at i:47011968 original size:17 final size:17
Alignment explanation
Indices: 47011946--47011980 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47011936 AAAATAAACA
*
47011946 AATAATACAATATATAT
1 AATAATACAATAAATAT
*
47011963 AATAATATAATAAATAT
1 AATAATACAATAAATAT
47011980 A
1 A
47011981 GGACTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAATACAATAAATAT
Found at i:47014044 original size:21 final size:22
Alignment explanation
Indices: 47013988--47014123 Score: 82
Period size: 22 Copynumber: 6.2 Consensus size: 22
47013978 CGAGTATACT
47013988 CAAATTAATCCCTCAAGGGATA
1 CAAATTAATCCCTCAAGGGATA
* * * *
47014010 TAACTAAATCCC-CTAGGGGATA
1 CAAATTAATCCCTC-AAGGGATA
** *
47014032 CAAATTAATCCCTCGTGGTATA
1 CAAATTAATCCCTCAAGGGATA
* * * *
47014054 TAACA-CAATCCCTCAAAGCATA
1 CAA-ATTAATCCCTCAAGGGATA
* *
47014076 CGAATTAATCCCTCAAGAGATA
1 CAAATTAATCCCTCAAGGGATA
*
47014098 TAAATTAAT--CTGCAAGGGATA
1 CAAATTAATCCCT-CAAGGGATA
*
47014119 TAAAT
1 CAAAT
47014124 AAATGTTTCA
Statistics
Matches: 84, Mismatches: 25, Indels: 11
0.70 0.21 0.09
Matches are distributed among these distances:
20 2 0.02
21 15 0.18
22 65 0.77
23 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.25
Consensus pattern (22 bp):
CAAATTAATCCCTCAAGGGATA
Found at i:47014099 original size:44 final size:43
Alignment explanation
Indices: 47013988--47014100 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 43
47013978 CGAGTATACT
** *
47013988 CAAATTAATCCCTCAAGGGATATAACTAAATCCCCTAGGGGATA
1 CAAATTAATCCCTCAA-GGATATAACTAAATCCCCTAAAGCATA
**
47014032 CAAATTAATCCCTCGTGGTATATAAC-ACAAT-CCCTCAAAGCATA
1 CAAATTAATCCCTCAAGG-ATATAACTA-AATCCCCT-AAAGCATA
*
47014076 CGAATTAATCCCTCAAGAGATATAA
1 CAAATTAATCCCTCAAG-GATATAA
47014101 ATTAATCTGC
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
43 7 0.12
44 49 0.86
45 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (43 bp):
CAAATTAATCCCTCAAGGATATAACTAAATCCCCTAAAGCATA
Found at i:47017953 original size:27 final size:26
Alignment explanation
Indices: 47017923--47017978 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
47017913 TAATGGTATT
*
47017923 AAAAGGATAGATATATAATATAATATGA
1 AAAAGG-TAGATACATAATAT-ATATGA
* *
47017951 AAAATGTATATACATAATATATATGA
1 AAAAGGTAGATACATAATATATATGA
47017977 AA
1 AA
47017979 CGTAATATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.32
27 12 0.48
28 5 0.20
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAAGGTAGATACATAATATATATGA
Found at i:47018436 original size:13 final size:13
Alignment explanation
Indices: 47018418--47018442 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47018408 AGACATAATA
47018418 ATACTAAATATAC
1 ATACTAAATATAC
47018431 ATACTAAATATA
1 ATACTAAATATA
47018443 TATGCATAAT
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
ATACTAAATATAC
Found at i:47018465 original size:32 final size:33
Alignment explanation
Indices: 47018415--47018477 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
47018405 TATAGACATA
*
47018415 ATAATACTAAATATACATACTA-AATATATATGC
1 ATAATACTAAATAAACATA-TACAATATATATGC
47018448 ATAATA-TAAATAAACATATACAATATATAT
1 ATAATACTAAATAAACATATACAATATATAT
47018478 TAGGAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 2 0.07
32 20 0.71
33 6 0.21
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (33 bp):
ATAATACTAAATAAACATATACAATATATATGC
Found at i:47018514 original size:29 final size:31
Alignment explanation
Indices: 47018437--47018521 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 31
47018427 ATACATACTA
** * *
47018437 AATATATATGCATAATATAAATAAACATATAC
1 AATATATATTAATAATATTAAT-AACATAGAC
**
47018469 AATATATATTAGGAATATTAATAACATAGA-
1 AATATATATTAATAATATTAATAACATAGAC
*
47018499 AA-ATATATTAATAATAATAATAA
1 AATATATATTAATAATATTAATAA
47018522 ACAAATGTAT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 18 0.41
30 2 0.05
31 7 0.16
32 17 0.39
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (31 bp):
AATATATATTAATAATATTAATAACATAGAC
Found at i:47019075 original size:27 final size:23
Alignment explanation
Indices: 47019053--47019108 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
47019043 TATATAAAAT
*
47019053 TAGAAATATATGTACATAATATAA
1 TAGAAA-ATATATACATAATATAA
47019077 TAGAAAATATATACATAAT-T-A
1 TAGAAAATATATACATAATATAA
*
47019098 TATAAAATATA
1 TAGAAAATATA
47019109 ATAATACAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 11 0.37
22 1 0.03
23 12 0.40
24 6 0.20
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (23 bp):
TAGAAAATATATACATAATATAA
Found at i:47020494 original size:88 final size:85
Alignment explanation
Indices: 47020309--47021045 Score: 560
Period size: 88 Copynumber: 8.6 Consensus size: 85
47020299 ACGTGAGCCA
* * * * * * * **
47020309 AGGCTCAACTCATCTCTCGCAATTTGAGTTGGTTTTTGAAACT-TAATTTGGAAAGCAGATTTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAATTGAAAAACA-AAATTG
* *
47020373 AAAATA-CTGCAGTGTGCCCTG
65 AAAATACCT-CAATGTGGCCTG
*
47020394 AGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAAAGATATAAATTGAAAAGACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATATAAATTGAAAA-ACA-AAAT
* *
47020459 TGAAAATACCTCAATGCGTCCTG
63 TGAAAATACCTCAATGTGGCCTG
* * * *
47020482 AGGC-CAAACTCACCTCTCGTAATATGAGTTAATATTTGAAAATAGAAATTG-AAAAC-----TG
1 AGGCTC-AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAATTGAAAAACAAAATTG
* *
47020540 AAAATGCCTCAGCATGTGAGCC-A
65 AAAATACCTCA--ATGTG-GCCTG
* * * *
47020563 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCAGAAATTAAAAAACAAGAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-TATAAATTGAAAAACAA-AATT
* * * *
47020628 GAAATTACCTCAGCTTATGACCTG
64 GAAAATACCTCA--ATGTGGCCTG
* *
47020652 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGGAAGAAATAGAAATTGAAAAACAGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-G-A-AAATATAAATTGAAAAACA-AA-
* * *
47020717 TTTGAAAATACCTCGGCATGTGGCCCG
61 ATTGAAAATACCTC--AATGTGGCCTG
* *
47020744 AGGCTCAACTCATCTTTCGCAATATGAGTTGATTTTTGAAAAGTATAAA-T-----A-AAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-TATAAATTGAAAAACAAAATTG
* *
47020802 AAAATGCCTCAGCATGTGAGCC-A
65 AAAATACCTCA--ATGTG-GCCTG
* * * *
47020825 AGGCTCAACTCACTTCTCGCAATATGAATTGATTTTTTTGAAAAGCA-AAGATTGAAAAGCAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA-TATAA-ATTGAAAAACAAAA
* * ** *
47020889 ATGAAAATTCCTCAGCGTGCCCTG
62 TTGAAAATACCTCAATGTGGCCTG
*
47020913 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAATATAAATTGAAAAACA-AAATT
* **
47020978 GAAAATACCTCAACGTATCCTG
64 GAAAATACCTCAATGTGGCCTG
* * * ** *
47021000 AGGTTTAATTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-ATAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAA
47021046 GAACATTAAA
Statistics
Matches: 531, Mismatches: 78, Indels: 86
0.76 0.11 0.12
Matches are distributed among these distances:
79 12 0.02
81 87 0.16
82 17 0.03
83 19 0.04
84 2 0.00
85 43 0.08
86 25 0.05
87 80 0.15
88 91 0.17
89 59 0.11
90 23 0.04
91 17 0.03
92 56 0.11
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATATAAATTGAAAAACAAAATTGA
AAATACCTCAATGTGGCCTG
Found at i:47020580 original size:81 final size:83
Alignment explanation
Indices: 47020488--47020975 Score: 386
Period size: 81 Copynumber: 5.7 Consensus size: 83
47020478 CCTGAGGCCA
* * * *
47020488 AACTCACCTCTCGTAATATGAGTTAATATTTGAAAA-TAGAAATTGAAAAC-TGAAAATGCCTCA
1 AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTAGAAATTAAAAACATGAAAATACCTCA
47020551 GCATGTGAGCCAAGGCTC
66 GCATGTGAGCCAAGGCTC
* *
47020569 AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCAGAAATTAAAAAACAAGAATTGAAATT
1 AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTAGAAATT-AAAAAC----A-TGAAAAT
* * *
47020634 ACCTCAGCTTATGA-CCTGAGGCTC
60 ACCTCAGCATGTGAGCC-AAGGCTC
*
47020658 AACTCACCTCTCGTAATATGAGTTGATTTTTGGAAGAAATAGAAATTGAAAAACAGAATTTTGAA
1 AACTCACCTCTCGTAATATGAGTTGATTTTT-GAA-AAGTAGAAATT-AAAAAC---A---TGAA
* *
47020723 AATACCTCGGCATGTG-GCCCGAGGCTC
57 AATACCTCAGCATGTGAG-CCAAGGCTC
* * * * * *
47020750 AACTCATCTTTCGCAATATGAGTTGATTTTTGAAAAGTATAAA-TAAAAA-TTGAAAATGCCTCA
1 AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTAGAAATTAAAAACATGAAAATACCTCA
47020813 GCATGTGAGCCAAGGCTC
66 GCATGTGAGCCAAGGCTC
* * * * *
47020831 AACTCACTTCTCGCAATATGAATTGATTTTTTTGAAAAGCA-AAGATTGAAAAGCAAAAATGAAA
1 AACTCACCTCTCGTAATATGAGTTGA--TTTTTGAAAAGTAGAA-ATT---AA--AAACATGAAA
* * *
47020895 ATTCCTCAGC--GTG-CCCTGAGGCTC
58 ATACCTCAGCATGTGAGCC-AAGGCTC
** * *
47020919 AACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAACA-GAAA
1 AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTAGAAATT-AAAAACATGAAA
47020976 TTGAAAATAC
Statistics
Matches: 338, Mismatches: 41, Indels: 56
0.78 0.09 0.13
Matches are distributed among these distances:
81 86 0.25
82 14 0.04
83 18 0.05
84 3 0.01
86 14 0.04
87 6 0.02
88 39 0.12
89 58 0.17
90 28 0.08
91 18 0.05
92 52 0.15
93 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (83 bp):
AACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGTAGAAATTAAAAACATGAAAATACCTCA
GCATGTGAGCCAAGGCTC
Found at i:47020771 original size:92 final size:90
Alignment explanation
Indices: 47020538--47020989 Score: 395
Period size: 89 Copynumber: 5.1 Consensus size: 90
47020528 AATTGAAAAC
* *
47020538 TGAAAATGCCTCAGCATGTGAG-CCAAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTT-G
1 TGAAAATACCTCAGCATGTG-GCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGG
*
47020601 AAAAGCAGAAATTAAAAAACAAGAAT
65 AAAAACAGAAATTAAAAAACAAGAAT
* * * * *
47020627 TGAAATTACCTCAGCTTATGACCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGGA
1 TGAAAATACCTCAGCATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGGA
* *
47020692 AGAAATAGAAATTGAAAAAC-AGAATTT
66 A-AAACAGAAATTAAAAAACAAGAA--T
* * * *
47020719 TGAAAATACCTCGGCATGTGGCCCGAGGCTCAACTCATCTTTCGCAATATGAGTTGATTTTT-G-
1 TGAAAATACCTCAGCATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGGA
* *
47020782 -AAA-AG-TA-T-AAATA-AA-AAT
66 AAAACAGAAATTAAAAAACAAGAAT
* * * * * *
47020800 TGAAAATGCCTCAGCATGTGAG-CCAAGGCTCAACTCACTTCTCGCAATATGAATTGATTTTTTT
1 TGAAAATACCTCAGCATGTG-GCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTG
* * * *
47020864 GAAAAGCA-AAGATTGAAAAGCAA-AAA
64 GAAAAACAGAA-ATTAAAAAACAAGAAT
* **
47020890 TGAAAATTCCTCAGC--GT-GCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-G
1 TGAAAATACCTCAGCATGTGGCCC-GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGG
* * *
47020951 AAAAATATAAATTGAAAAAC-AGAAAT
65 AAAAACAGAAATTAAAAAACAAG-AAT
47020977 TGAAAATACCTCA
1 TGAAAATACCTCA
47020990 ACGTATCCTG
Statistics
Matches: 298, Mismatches: 43, Indels: 46
0.77 0.11 0.12
Matches are distributed among these distances:
81 49 0.16
82 6 0.02
83 3 0.01
84 5 0.02
85 4 0.01
86 18 0.06
87 26 0.09
88 35 0.12
89 57 0.19
90 25 0.08
91 16 0.05
92 54 0.18
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (90 bp):
TGAAAATACCTCAGCATGTGGCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGGA
AAAACAGAAATTAAAAAACAAGAAT
Found at i:47020851 original size:173 final size:170
Alignment explanation
Indices: 47020211--47020962 Score: 554
Period size: 173 Copynumber: 4.4 Consensus size: 170
47020201 TTATTCTTTA
* ** * * * *
47020211 CTCAGCATGTGA-TCCTGAGGCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAATTAA
1 CTCAGCA-GTGAGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAGTAT
* * * * *
47020274 AAATA-GAAATTGAAAATAACTCAGCACGTGAGCC-AAGGCTCAACTCATCTCTCGCAATTTGAG
64 AAATACAAAATTGAAAATACCTCAGCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * * *
47020337 TTGGTTTTTGAAACT-TAATTTGGAAAGCAGATTTTGAAAATA-
129 TTGATTTTTGAAAATAGAAATTGAAAAACA-A-TTTGAAAATAC
* *
47020379 CT--GCAGTGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTG-AAAGATATA
1 CTCAGCAGTGAGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAG-TATA
* * * *
47020441 AATTGAAAAGACAGAAATTGAAAATACCTCA--ATGCG-TCCTGAGGC-CAAACTCACCTCTCGT
65 AA-T------ACA-AAATTGAAAATACCTCAGCATGTGAGCCTAAGGCTC-AACTCACCTCTCGC
* * *
47020502 AATATGAGTTAATATTTGAAAATAGAAATTG-AAAAC----TGAAAATGC
121 AATATGAGTTGATTTTTGAAAATAGAAATTGAAAAACAATTTGAAAATAC
* *
47020547 CTCAGCATGTGAG-CC-AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAGCAGA
1 CTCAGCA-GTGAGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAA--AG-
* * * * * * *
47020610 AATTAAAAAACAAGAATTGAAATTACCTCAGCTTATGA-CCTGAGGCTCAACTCACCTCTCGTAA
61 TA-T-AAATACAA-AATTGAAAATACCTCAGCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAA
47020674 TATGAGTTGATTTTTGGAAGAAATAGAAATTGAAAAACAGAATTTTGAAAATAC
123 TATGAGTTGATTTTT-G-A-AAATAGAAATTGAAAAAC--AA-TTTGAAAATAC
* * *
47020728 CTCGGCATGTG-GCCC-GAGGCTCAACTCATCTTTCGCAATATGAGTTGATTTTTGAAAAGTATA
1 CTCAGCA-GTGAGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATA
* * *
47020791 AATA-AAAATTGAAAATGCCTCAGCATGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATGAAT
65 AATACAAAATTGAAAATACCTCAGCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGT
* * ** *
47020854 TGATTTTTTTGAAAAGCA-AAGATTGAAAAGCAAAAATGAAAATTC
130 TGA--TTTTTGAAAA-TAGAA-ATTGAAAAAC-AATTTGAAAATAC
* *
47020899 CTCAGC-GT--GCCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATATAA
1 CTCAGCAGTGAGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAA
47020961 AT
66 AT
47020963 TGAAAAACAG
Statistics
Matches: 471, Mismatches: 65, Indels: 95
0.75 0.10 0.15
Matches are distributed among these distances:
165 9 0.02
166 41 0.09
167 9 0.02
168 26 0.06
169 85 0.18
170 44 0.09
171 21 0.04
172 11 0.02
173 118 0.25
174 16 0.03
175 28 0.06
176 1 0.00
177 1 0.00
178 2 0.00
180 4 0.01
181 55 0.12
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (170 bp):
CTCAGCAGTGAGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAGTATAA
ATACAAAATTGAAAATACCTCAGCATGTGAGCCTAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAATAGAAATTGAAAAACAATTTGAAAATAC
Found at i:47020895 original size:13 final size:14
Alignment explanation
Indices: 47020863--47020895 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
47020853 TTGATTTTTT
*
47020863 TGAAAAGCAAAGAT
1 TGAAAAGCAAAGAA
47020877 TGAAAAGCAAA-AA
1 TGAAAAGCAAAGAA
47020890 TGAAAA
1 TGAAAA
47020896 TTCCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.64, C:0.06, G:0.18, T:0.12
Consensus pattern (14 bp):
TGAAAAGCAAAGAA
Found at i:47020967 original size:14 final size:14
Alignment explanation
Indices: 47020948--47020982 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47020938 GAGTTGATTT
* *
47020948 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
47020962 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
47020976 TTGAAAA
1 TTGAAAA
47020983 TACCTCAACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:47021023 original size:87 final size:86
Alignment explanation
Indices: 47020825--47021045 Score: 255
Period size: 87 Copynumber: 2.5 Consensus size: 86
47020815 ATGTGAGCCA
* ** *
47020825 AGGCTCAACTCACTTCTCGCAATATGAATTGATTTTTTTGAAAAGCAAAGATTGAAAAGCAAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA--TTTTTGAAAAATAAAGATTGAAAAACAAAAA
* * *
47020890 TGAAAATTCCTCAGCGTGCCCTG
64 TGAAAATACCTCAACGTACCCTG
* * *
47020913 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATATAA-ATTGAAAAACAGAAAT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATA-AAGATTGAAAAACA-AAAA
*
47020977 TGAAAATACCTCAACGTATCCTG
64 TGAAAATACCTCAACGTACCCTG
* * * * *
47021000 AGGTTTAATTCATTTCTCGCAATATGAGTTGAATTTTGAAAAATAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAA
47021046 GAACATTAAA
Statistics
Matches: 113, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
86 22 0.19
87 62 0.55
88 29 0.26
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (86 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAAAGATTGAAAAACAAAAATG
AAAATACCTCAACGTACCCTG
Found at i:47021903 original size:41 final size:42
Alignment explanation
Indices: 47021844--47021923 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
47021834 TGTGTTAATC
47021844 AAGACGCCCTTTTCGGGTTTTCACCTTGA-TCCTTTTTTTTT
1 AAGACGCCCTTTTCGGGTTTTCACCTTGATTCCTTTTTTTTT
* * * *
47021885 AAGATGCCCTTTTTGGGTTTTCATCTTGATTTCTTTTTT
1 AAGACGCCCTTTTCGGGTTTTCACCTTGATTCCTTTTTT
47021924 AAACATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 26 0.76
42 8 0.24
ACGTcount: A:0.12, C:0.20, G:0.15, T:0.53
Consensus pattern (42 bp):
AAGACGCCCTTTTCGGGTTTTCACCTTGATTCCTTTTTTTTT
Found at i:47033160 original size:27 final size:26
Alignment explanation
Indices: 47033130--47033186 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
47033120 TAATGGTATT
*
47033130 AAAAGGATAGATATATAATATAATATGA
1 AAAAGG-TAGATACATAATAT-ATATGA
* *
47033158 AAAATGTATATACATAATATATATGA
1 AAAAGGTAGATACATAATATATATGA
47033184 AAA
1 AAA
47033187 CGTAATATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 9 0.35
27 12 0.46
28 5 0.19
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.30
Consensus pattern (26 bp):
AAAAGGTAGATACATAATATATATGA
Found at i:47033194 original size:26 final size:27
Alignment explanation
Indices: 47033144--47033195 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
47033134 GGATAGATAT
*
47033144 ATAATATAATATGAAAAATGTATATAC
1 ATAATATAATATGAAAAACGTATATAC
47033171 ATAATAT-ATATG-AAAACGTAATATA
1 ATAATATAATATGAAAAACGT-ATATA
47033196 GTATTAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 10 0.43
27 7 0.30
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.33
Consensus pattern (27 bp):
ATAATATAATATGAAAAACGTATATAC
Found at i:47033652 original size:15 final size:15
Alignment explanation
Indices: 47033632--47033660 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47033622 AGACATAATA
47033632 ATACTAAATATATAC
1 ATACTAAATATATAC
47033647 ATACTAAATATATA
1 ATACTAAATATATA
47033661 TATGCATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
ATACTAAATATATAC
Found at i:47033732 original size:29 final size:31
Alignment explanation
Indices: 47033656--47033739 Score: 82
Period size: 29 Copynumber: 2.7 Consensus size: 31
47033646 CATACTAAAT
** * *
47033656 ATATATATGCATAATATAAATAAACATATACA
1 ATATATATTAATAATATTAAT-AACATAGACA
**
47033688 ATATATATTAGGAATATTAATAACATAGA-A
1 ATATATATTAATAATATTAATAACATAGACA
*
47033718 A-ATATATTAATAATAATAATAA
1 ATATATATTAATAATATTAATAA
47033740 ACAAATGTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
29 18 0.42
30 2 0.05
31 7 0.16
32 16 0.37
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (31 bp):
ATATATATTAATAATATTAATAACATAGACA
Found at i:47034285 original size:24 final size:22
Alignment explanation
Indices: 47034248--47034322 Score: 64
Period size: 24 Copynumber: 3.3 Consensus size: 22
47034238 ATACTAAAGT
*
47034248 ATATACACGAAATAGTATATAAAA
1 ATATATAC-AAATA-TATATAAAA
* *
47034272 ATATATAACTAATA-ATATCAAA
1 ATATAT-ACAAATATATATAAAA
47034294 ATATATACAAGATAATATATAAAA
1 ATATATACAA-AT-ATATATAAAA
47034318 A-ATAT
1 ATATAT
47034323 TAGAAAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 3 0.07
22 15 0.36
23 5 0.12
24 17 0.40
25 2 0.05
ACGTcount: A:0.60, C:0.07, G:0.04, T:0.29
Consensus pattern (22 bp):
ATATATACAAATATATATAAAA
Found at i:47034296 original size:11 final size:12
Alignment explanation
Indices: 47034282--47034392 Score: 54
Period size: 12 Copynumber: 9.0 Consensus size: 12
47034272 ATATATAACT
47034282 AATAATAT-CAA
1 AATAATATACAA
47034293 AAT-ATATACAA
1 AATAATATACAA
* *
47034304 GATAATATATAA
1 AATAATATACAA
*
47034316 AA-AATATTAGAA
1 AATAATA-TACAA
*
47034328 AATATATGTACATA
1 AATA-ATATACA-A
*
47034342 ATATAATAT-GAA
1 A-ATAATATACAA
47034354 AAT-ATATACATA
1 AATAATATACA-A
47034366 ATATAATATTA-AA
1 A-ATAATA-TACAA
47034379 ACATAATAATACAA
1 A-ATAAT-ATACAA
47034393 CATTAAAAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
10 8 0.11
11 15 0.20
12 18 0.24
13 16 0.21
14 14 0.18
15 5 0.07
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (12 bp):
AATAATATACAA
Found at i:47034308 original size:22 final size:22
Alignment explanation
Indices: 47034264--47034322 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 22
47034254 ACGAAATAGT
*
47034264 ATATAAAAATATATAACTAATA
1 ATATAAAAATATATAACAAATA
*
47034286 ATATCAAAATATAT-ACAAGATA
1 ATATAAAAATATATAACAA-ATA
*
47034308 ATATATAAAAAATAT
1 ATATA-AAAATATAT
47034323 TAGAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 20 0.65
23 8 0.26
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (22 bp):
ATATAAAAATATATAACAAATA
Found at i:47034363 original size:24 final size:25
Alignment explanation
Indices: 47034325--47034379 Score: 85
Period size: 24 Copynumber: 2.2 Consensus size: 25
47034315 AAAAATATTA
47034325 GAAAATATATGTACATAATATAATAT
1 GAAAATATA-GTACATAATATAATAT
47034351 GAAAATATA-TACATAATATAATAT
1 GAAAATATAGTACATAATATAATAT
*
47034375 TAAAA
1 GAAAA
47034380 CATAATAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 19 0.68
26 9 0.32
ACGTcount: A:0.58, C:0.04, G:0.05, T:0.33
Consensus pattern (25 bp):
GAAAATATAGTACATAATATAATAT
Found at i:47034384 original size:18 final size:18
Alignment explanation
Indices: 47034366--47034467 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 18
47034356 TATATACATA
47034366 ATATAATATTAAAACATAAT
1 ATATAATATTAAAA-AT-AT
* *
47034386 AATACAACATTAAAAATAT
1 -ATATAATATTAAAAATAT
* * *
47034405 ATATGATA-TATATA-AT
1 ATATAATATTAAAAATAT
*
47034421 ATATAATATTAAAAGTAT
1 ATATAATATTAAAAATAT
*
47034439 ATATAACATATAAAAAATAT
1 ATAT-A-ATATTAAAAATAT
47034459 ATATAATAT
1 ATATAATAT
47034468 AATACCTAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 11
0.73 0.15 0.12
Matches are distributed among these distances:
16 9 0.14
17 7 0.11
18 15 0.23
19 4 0.06
20 17 0.27
21 12 0.19
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (18 bp):
ATATAATATTAAAAATAT
Found at i:47034389 original size:21 final size:22
Alignment explanation
Indices: 47034336--47034400 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 22
47034326 AAAATATATG
* *
47034336 TACATAATATAATATGAAAATATA
1 TACATAATATAATAT-TAAA-ACA
47034360 TACATAATATAATATTAAAACA
1 TACATAATATAATATTAAAACA
* *
47034382 TA-ATAATACAACATTAAAA
1 TACATAATATAATATTAAAA
47034401 ATATATATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 15 0.41
22 4 0.11
23 3 0.08
24 15 0.41
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATATAATATTAAAACA
Found at i:47034415 original size:9 final size:9
Alignment explanation
Indices: 47034400--47034471 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
47034390 CAACATTAAA
47034400 AATATATAT
1 AATATATAT
*
47034409 GATATATAT
1 AATATATAT
47034418 -A-ATATAT
1 AATATATAT
*
47034425 AATAT-TAA
1 AATATATAT
47034433 AAGTATATAT
1 AA-TATATAT
* *
47034443 AACATATAA
1 AATATATAT
*
47034452 AAAATATAT
1 AATATATAT
47034461 -ATA-ATAT
1 AATATATAT
47034468 AATA
1 AATA
47034472 CCTAAGTATA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
7 10 0.20
8 11 0.22
9 25 0.50
10 4 0.08
ACGTcount: A:0.58, C:0.01, G:0.03, T:0.38
Consensus pattern (9 bp):
AATATATAT
Found at i:47034450 original size:34 final size:34
Alignment explanation
Indices: 47034394--47034459 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
47034384 ATAATACAAC
* * * *
47034394 ATTAAAAATATATATGATATATATAATATATAAT
1 ATTAAAAATATATATAACATATAAAAAATATAAT
*
47034428 ATTAAAAGTATATATAACATATAAAAAATATA
1 ATTAAAAATATATATAACATATAAAAAATATA
47034460 TATAATATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (34 bp):
ATTAAAAATATATATAACATATAAAAAATATAAT
Found at i:47043700 original size:15 final size:15
Alignment explanation
Indices: 47043649--47043706 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 15
47043639 CCTCTACGTA
* *
47043649 GCTCTGTTCAGTTCT
1 GCTCTGTTCTGTTTT
* *
47043664 GCTCTGCTATGTTTT
1 GCTCTGTTCTGTTTT
* *
47043679 GTTCTGTTTTGTTTT
1 GCTCTGTTCTGTTTT
47043694 GCTCTGTTCTGTT
1 GCTCTGTTCTGTT
47043707 CTATTTTGCT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.03, C:0.19, G:0.21, T:0.57
Consensus pattern (15 bp):
GCTCTGTTCTGTTTT
Found at i:47043701 original size:20 final size:20
Alignment explanation
Indices: 47043678--47043725 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
47043668 TGCTATGTTT
* *
47043678 TGTTCTGTTTTGTTTTGCTC
1 TGTTCTGTTCTATTTTGCTC
*
47043698 TGTTCTGTTCTATTTTGCTT
1 TGTTCTGTTCTATTTTGCTC
47043718 TGTTCTGT
1 TGTTCTGT
47043726 CATGTTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.02, C:0.15, G:0.19, T:0.65
Consensus pattern (20 bp):
TGTTCTGTTCTATTTTGCTC
Found at i:47043724 original size:25 final size:25
Alignment explanation
Indices: 47043663--47043733 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
47043653 TGTTCAGTTC
* * * *
47043663 TGCTCTGCTATGTTTTGTTCTGTTT
1 TGCTTTGCTCTGTTCTGTTCTATTT
*
47043688 TGTTTTGCTCTGTTCTGTTCTATTT
1 TGCTTTGCTCTGTTCTGTTCTATTT
*
47043713 TGCTTTGTTCTG-TCATGTTCT
1 TGCTTTGCTCTGTTC-TGTTCT
47043734 TGTGGGTTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 2 0.05
25 36 0.95
ACGTcount: A:0.04, C:0.17, G:0.18, T:0.61
Consensus pattern (25 bp):
TGCTTTGCTCTGTTCTGTTCTATTT
Found at i:47045949 original size:29 final size:29
Alignment explanation
Indices: 47045907--47046121 Score: 213
Period size: 29 Copynumber: 7.4 Consensus size: 29
47045897 ACCTCAGATA
*
47045907 ATGAAAAAGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
*
47045936 ATGAAAAGGGATAGCTTCGGCTATCGACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
47045965 ATGAAAAGGGATAGCTTCAGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* * * * *
47045994 ACGAAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAA-T
* * * * *
47046023 ATGAAAAGGGAT-GGTGACGACAATTGAAT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAAT
47046052 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAAT
* *
47046081 GTGAAAAGGGATAGCTTCGACTATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAA-T
*
47046110 ATGAAAAAGGAT
1 ATGAAAAGGGAT
47046122 GATGACGACC
Statistics
Matches: 158, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
28 5 0.03
29 149 0.94
30 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAAT
Found at i:47056205 original size:13 final size:13
Alignment explanation
Indices: 47056187--47056213 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47056177 TTGGCAATGG
47056187 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
47056200 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
47056213 T
1 T
47056214 GTGGAAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:47057835 original size:30 final size:30
Alignment explanation
Indices: 47057799--47057858 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
47057789 CTTCGGGTGC
47057799 AATTAGATCAATGGCCATCCTTGAAACTTT
1 AATTAGATCAATGGCCATCCTTGAAACTTT
47057829 AATTAGATCAATGGCCATCCTTGAAACTTT
1 AATTAGATCAATGGCCATCCTTGAAACTTT
47057859 CTCAAGCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (30 bp):
AATTAGATCAATGGCCATCCTTGAAACTTT
Found at i:47058473 original size:72 final size:72
Alignment explanation
Indices: 47058331--47058569 Score: 374
Period size: 72 Copynumber: 3.3 Consensus size: 72
47058321 AAAATCATAT
** * *
47058331 ATAAACAACTATTGATAAAACTA-ATTTA-GTATACATAAGTAGAACATAAATTTAATATCCAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
*
47058394 AATCAAAC
65 AACCAAAC
* *
47058402 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAAAATATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
47058467 ACCAAAC
66 ACCAAAC
*
47058474 ATAAACAACCATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
47058539 ACCAAAC
66 ACCAAAC
*
47058546 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
47058570 TTTAGCATTG
Statistics
Matches: 154, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
71 26 0.17
72 128 0.83
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:47059022 original size:18 final size:18
Alignment explanation
Indices: 47058995--47059064 Score: 104
Period size: 18 Copynumber: 3.9 Consensus size: 18
47058985 TGTTTCCATC
*
47058995 AATGTAAACATCATTTGA
1 AATGTGAACATCATTTGA
*
47059013 AATGAGAACATCATTTGA
1 AATGTGAACATCATTTGA
* *
47059031 AATCTGAACATCATTTAA
1 AATGTGAACATCATTTGA
47059049 AATGTGAACATCATTT
1 AATGTGAACATCATTT
47059065 CTCACATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (18 bp):
AATGTGAACATCATTTGA
Found at i:47060187 original size:10 final size:11
Alignment explanation
Indices: 47060163--47060202 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
47060153 AGGGAAGTCT
47060163 ATTTATTTCCC
1 ATTTATTTCCC
*
47060174 ATTTA-TTCCT
1 ATTTATTTCCC
47060184 ATTTATTTCCC
1 ATTTATTTCCC
47060195 ATTTATTT
1 ATTTATTT
47060203 TAAATTTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTATTTCCC
Found at i:47060187 original size:21 final size:21
Alignment explanation
Indices: 47060161--47060201 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
47060151 ACAGGGAAGT
47060161 CTATTTATTTCCCATTTATTC
1 CTATTTATTTCCCATTTATTC
47060182 CTATTTATTTCCCATTTATT
1 CTATTTATTTCCCATTTATT
47060202 TTAAATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.22, G:0.00, T:0.59
Consensus pattern (21 bp):
CTATTTATTTCCCATTTATTC
Found at i:47062659 original size:10 final size:10
Alignment explanation
Indices: 47062644--47062688 Score: 56
Period size: 10 Copynumber: 4.5 Consensus size: 10
47062634 AATTTTATCT
*
47062644 TTTATCTTCA
1 TTTATCTTTA
47062654 TTTATCTTTA
1 TTTATCTTTA
*
47062664 ATTATCTTTA
1 TTTATCTTTA
47062674 TTTAT-TTGTA
1 TTTATCTT-TA
47062684 TTTAT
1 TTTAT
47062689 ATTTTAGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 2 0.06
10 29 0.94
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:47066408 original size:7 final size:7
Alignment explanation
Indices: 47066398--47066485 Score: 86
Period size: 7 Copynumber: 11.4 Consensus size: 7
47066388 TTCTTTTTCT
*
47066398 TTTATTG
1 TTTATTA
47066405 TTTATTA
1 TTTATTA
47066412 TTTATTA
1 TTTATTA
47066419 TTTATTA
1 TTTATTA
47066426 TTTATTA
1 TTTATTA
47066433 CTTTATTTTA
1 -TTTA--TTA
47066443 TTTTATTA
1 -TTTATTA
47066451 TTTATTACA
1 TTTATT--A
*
47066460 TTATTTTA
1 TT-TATTA
47066468 TTTTATTA
1 -TTTATTA
47066476 TTTATTA
1 TTTATTA
47066483 TTT
1 TTT
47066486 TATTTTGTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 14
0.80 0.05 0.16
Matches are distributed among these distances:
7 43 0.61
8 12 0.17
9 5 0.07
10 10 0.14
ACGTcount: A:0.25, C:0.02, G:0.01, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:47066419 original size:3 final size:3
Alignment explanation
Indices: 47066406--47066489 Score: 56
Period size: 3 Copynumber: 28.7 Consensus size: 3
47066396 CTTTTATTGT
*
47066406 TTA TTA TTTA TTA TTTA TTA TTTA TTA CT- TTA TT- TTA TT- TTA TTA
1 TTA TTA -TTA TTA -TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
47066451 TTTA TTA -CA TTA TT- TTA TT- TTA TTA TTTA TTA TT- TTA TT
1 -TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
47066490 TTGTTTGGTT
Statistics
Matches: 65, Mismatches: 4, Indels: 24
0.70 0.04 0.26
Matches are distributed among these distances:
2 12 0.18
3 38 0.58
4 15 0.23
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:47066453 original size:25 final size:25
Alignment explanation
Indices: 47066419--47066491 Score: 119
Period size: 25 Copynumber: 2.9 Consensus size: 25
47066409 TTATTTATTA
*
47066419 TTTATTATTTATTACTTTATTTTAT
1 TTTATTATTTATTACATTATTTTAT
47066444 TTTATTATTTATTACATTATTTTAT
1 TTTATTATTTATTACATTATTTTAT
**
47066469 TTTATTATTTATTATTTTATTTT
1 TTTATTATTTATTACATTATTTT
47066492 GTTTGGTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTATTATTTATTACATTATTTTAT
Found at i:47067264 original size:15 final size:15
Alignment explanation
Indices: 47067233--47067261 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47067223 TGTCTACTAA
47067233 GTTAATTATGATTTT
1 GTTAATTATGATTTT
47067248 GTTAATT-TGATTTT
1 GTTAATTATGATTTT
47067262 TGTCTCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (15 bp):
GTTAATTATGATTTT
Found at i:47069432 original size:79 final size:80
Alignment explanation
Indices: 47069290--47069470 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
47069280 TACTCGTTCA
* **
47069290 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
47069355 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
47069370 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
47069432 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
47069449 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
47069471 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.67
80 26 0.30
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:47069472 original size:40 final size:40
Alignment explanation
Indices: 47069269--47069472 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
47069259 CGGAATTTAA
** *
47069269 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47069309 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47069349 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
47069388 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
47069428 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
47069468 CCGGA
1 CCGGA
47069473 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:47070122 original size:37 final size:37
Alignment explanation
Indices: 47070072--47070196 Score: 250
Period size: 37 Copynumber: 3.4 Consensus size: 37
47070062 AGGCTACCTA
47070072 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
47070109 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
47070146 TGGCCGAACATACACATAACTTATGTACTTATTCATG
1 TGGCCGAACATACACATAACTTATGTACTTATTCATG
47070183 TGGCCGAACATACA
1 TGGCCGAACATACA
47070197 TGTCTATGTT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 88 1.00
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.30
Consensus pattern (37 bp):
TGGCCGAACATACACATAACTTATGTACTTATTCATG
Found at i:47070838 original size:23 final size:24
Alignment explanation
Indices: 47070786--47070843 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
47070776 AAAGGATGGA
*
47070786 CACATTTT-TTTTTCTTTTGTTTT
1 CACATTTTCTTTCTCTTTTGTTTT
*
47070809 CATCATTTTCTTTCTCTTTTTTTTT
1 CA-CATTTTCTTTCTCTTTTGTTTT
47070834 C-CA-TTTCTTT
1 CACATTTTCTTT
47070844 ATTACTAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 7 0.23
23 4 0.13
24 6 0.19
25 14 0.45
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.71
Consensus pattern (24 bp):
CACATTTTCTTTCTCTTTTGTTTT
Found at i:47071795 original size:10 final size:10
Alignment explanation
Indices: 47071780--47071827 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
47071770 ATTTTAGCTA
*
47071780 TTATCTTCAT
1 TTATCTTTAT
*
47071790 TTATCTTTAA
1 TTATCTTTAT
47071800 TTATCTTTAT
1 TTATCTTTAT
47071810 TTAT-TTGTAT
1 TTATCTT-TAT
47071820 TTATCTTT
1 TTATCTTT
47071828 TAGAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 2 0.06
10 29 0.88
11 2 0.06
ACGTcount: A:0.21, C:0.10, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAT
Found at i:47073082 original size:16 final size:16
Alignment explanation
Indices: 47073061--47073091 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47073051 ATGGAATGCC
*
47073061 CTATTATGGGTTTATT
1 CTATTATGGGCTTATT
47073077 CTATTATGGGCTTAT
1 CTATTATGGGCTTAT
47073092 GCATGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
CTATTATGGGCTTATT
Found at i:47075344 original size:30 final size:30
Alignment explanation
Indices: 47075310--47075367 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
47075300 TTTTCGAGCA
*
47075310 TAGGGGTAAAATGGTCATTTTACCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
47075340 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
47075368 ATGTGAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:47075838 original size:46 final size:47
Alignment explanation
Indices: 47075745--47075872 Score: 152
Period size: 46 Copynumber: 2.7 Consensus size: 47
47075735 CCACATTATG
47075745 AGAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGACATCGAGACA-
1 AGAGCCAGTGTAAGA-CATGTCTGGGAAAT-GCATCGACATCGAGACAT
* * * * * *
47075793 AGAGCTAGTGTAAGATATTTCTGGGATATGCATCGGCCTCGAGACAT
1 AGAGCCAGTGTAAGACATGTCTGGGAAATGCATCGACATCGAGACAT
* *
47075840 A-AGCCAGTGTAAGACATGTCTGGTACATGCATC
1 AGAGCCAGTGTAAGACATGTCTGGGAAATGCATC
47075873 AGCTATGAGA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 42 0.62
47 12 0.18
48 14 0.21
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
AGAGCCAGTGTAAGACATGTCTGGGAAATGCATCGACATCGAGACAT
Found at i:47082983 original size:30 final size:30
Alignment explanation
Indices: 47082949--47083006 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
47082939 TTTTCGAGCA
* *
47082949 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
47082979 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
47083007 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:47083441 original size:47 final size:47
Alignment explanation
Indices: 47083341--47083511 Score: 131
Period size: 46 Copynumber: 3.7 Consensus size: 47
47083331 GTTATTTTTT
** *
47083341 GCTAGTGTAAGA-CATGTCTGGGACATACATCGGCCATATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATACATCGGCCATAAGACGAGA
* *
47083387 GCCAGTGTAAGACCATG-CTGGGACATGGCATCGG-CATCAAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-ACATCGGCCAT-AAGACGAGA
* * * * * *
47083434 GCTAGTGTAAGA-CATTTCTAGGATATGCATCGACC-TCGAGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATACATCGGCCAT-AAGACG-AGA
* * *
47083480 GCCAGTGTAAGA-CATGTCTGGTACATGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATACATCG
47083512 ACTACGAGAT
Statistics
Matches: 103, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
46 67 0.65
47 36 0.35
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATACATCGGCCATAAGACGAGA
Found at i:47083520 original size:46 final size:45
Alignment explanation
Indices: 47083383--47083608 Score: 142
Period size: 47 Copynumber: 4.8 Consensus size: 45
47083373 GCCATATTAT
* *
47083383 GAGAGCCAGTGTAAGACCATG-CTGGGACATGGCATCGGC-ATCAAGAC
1 GAGAGCCAGTGTAAGA-CATGTCT-GGACAT-GCATCGACTA-CGAGAC
* * *
47083430 GAGAGCTAGTGTAAGACATTTCTAGGATATGCATCGACCT-CGAGAC
1 GAGAGCCAGTGTAAGACATGTCT-GGACATGCATCGA-CTACGAGAC
*
47083476 GTA-AGCCAGTGTAAGACATGTCTGGTACATGCATCGACTACGAGAT
1 G-AGAGCCAGTGTAAGACATGTCTGG-ACATGCATCGACTACGAGAC
* * * * *
47083522 GATG-GTCAGTGTAAGACTATGGCTGGGACATGGCATTGACT-TGTA-AT
1 GA-GAGCCAGTGTAAGAC-ATGTCT-GGACAT-GCATCGACTACG-AGAC
* *
47083569 GTGAGCCAGTGTAAGACCATGTCTAAGACATGGCATCGAC
1 GAGAGCCAGTGTAAGA-CATGTCT-GGACAT-GCATCGAC
47083609 ACCTTACCCA
Statistics
Matches: 145, Mismatches: 20, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
45 5 0.03
46 62 0.43
47 66 0.46
48 12 0.08
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (45 bp):
GAGAGCCAGTGTAAGACATGTCTGGACATGCATCGACTACGAGAC
Found at i:47086382 original size:58 final size:58
Alignment explanation
Indices: 47086276--47086445 Score: 175
Period size: 58 Copynumber: 2.8 Consensus size: 58
47086266 TATAATATTA
* *
47086276 TATATTATGATTTTTATT-AATTCATATTTTTAATAATAATTGTATTAAAA-ATGTTATTAAAT
1 TATA-TATTATTTTTATTAAATT-ATA--TTTAATAATAATTATATTAAAATATG--ATTAAAT
* *
47086338 TATATATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATGATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAAT
* * *
47086395 TATTTGTTATTTTTATTAAATTATATATAATAATAATAATTTTATTAAAAT
1 TATATATTATTTTTATTAAATTATAT-T--TAATAATAATTATATTAAAAT
47086446 TTAATAACAA
Statistics
Matches: 93, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
57 14 0.15
58 35 0.38
59 4 0.04
60 9 0.10
61 27 0.29
62 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (58 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAAT
Found at i:47086461 original size:28 final size:29
Alignment explanation
Indices: 47086405--47086462 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
47086395 TATTTGTTAT
*
47086405 TTTTATTAAATTATATATAATAATAATAA
1 TTTTATTAAATTATATATAACAATAATAA
47086434 TTTTATTAAAATT-TA-ATAACAATAATAA
1 TTTTATT-AAATTATATATAACAATAATAA
47086462 T
1 T
47086463 AATCATCTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 13 0.48
29 9 0.33
30 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (29 bp):
TTTTATTAAATTATATATAACAATAATAA
Found at i:47088346 original size:28 final size:29
Alignment explanation
Indices: 47088294--47088353 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
47088284 ATATTTAATA
*
47088294 TTTAAAACTTCAAAAAGAATTTAAAAAAT
1 TTTAAAACTTCAAAAAGAATATAAAAAAT
* * *
47088323 TTTAAAATTTTAAAAAG-ATATAAAATAT
1 TTTAAAACTTCAAAAAGAATATAAAAAAT
47088351 TTT
1 TTT
47088354 TTAAAATAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.38
Consensus pattern (29 bp):
TTTAAAACTTCAAAAAGAATATAAAAAAT
Found at i:47088354 original size:29 final size:30
Alignment explanation
Indices: 47088290--47088360 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
47088280 TTTAATATTT
* *
47088290 AATA-TTTAAAACTTCAAAAAGAATTTAAA
1 AATATTTTAAAATTTCAAAAAGAATATAAA
*
47088319 AA-ATTTTAAAATTTTAAAAAG-ATATAAA
1 AATATTTTAAAATTTCAAAAAGAATATAAA
*
47088347 ATATTTTTTAAAAT
1 A-ATATTTTAAAAT
47088361 AAAAAATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 8 0.23
29 18 0.51
30 9 0.26
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (30 bp):
AATATTTTAAAATTTCAAAAAGAATATAAA
Found at i:47088694 original size:30 final size:30
Alignment explanation
Indices: 47088660--47088720 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
47088650 ATAAGTTTAA
47088660 ATATTCAAATAAA-CTCTTAAATTTTAATTG
1 ATATTCAAATAAATC-CTTAAATTTTAATTG
*
47088690 ATATTCAAATGAATCCTTAAATTTTAATTG
1 ATATTCAAATAAATCCTTAAATTTTAATTG
47088720 A
1 A
47088721 CGCTCAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (30 bp):
ATATTCAAATAAATCCTTAAATTTTAATTG
Found at i:47088760 original size:30 final size:30
Alignment explanation
Indices: 47088726--47088783 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
47088716 ATTGACGCTC
47088726 AAATAAG-TTGTTAATCTTTAATTTATATTT
1 AAATAAGCTT-TTAATCTTTAATTTATATTT
*
47088756 AAATAAGCTTTTAATCTTTTATTTATAT
1 AAATAAGCTTTTAATCTTTAATTTATAT
47088784 CAAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (30 bp):
AAATAAGCTTTTAATCTTTAATTTATATTT
Found at i:47088790 original size:30 final size:30
Alignment explanation
Indices: 47088726--47088791 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
47088716 ATTGACGCTC
**
47088726 AAATAAGTTGTTAATCTTTAATTTATATTT
1 AAATAAGTTGTTAATCTTTAATTTATATCA
*
47088756 AAATAAGCTT-TTAATCTTTTATTTATATCA
1 AAATAAG-TTGTTAATCTTTAATTTATATCA
47088786 AAATAA
1 AAATAA
47088792 ATTTCTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (30 bp):
AAATAAGTTGTTAATCTTTAATTTATATCA
Done.