Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 191 of 325
Found at i:62067512 original size:4 final size:4
Alignment explanation
Indices: 62067505--62067530 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
62067495 CCCTTCCTTT
62067505 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
62067531 CCTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:62075973 original size:21 final size:20
Alignment explanation
Indices: 62075949--62075994 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
62075939 TGAAATGCAA
62075949 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
62075970 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
62075990 T-AACC
1 TCAACC
62075995 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:62076998 original size:39 final size:39
Alignment explanation
Indices: 62076944--62077023 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
62076934 AAAAGTGTGT
*
62076944 ATATTTTTGTGTTTCCAACTGATATCTTTTAGGTTGGGC
1 ATATTTTTGTGTTTCCAACTGATATATTTTAGGTTGGGC
*
62076983 ATATTTTTGTGTTTCCAGCTGATATATTTTAGGTTGGGC
1 ATATTTTTGTGTTTCCAACTGATATATTTTAGGTTGGGC
62077022 AT
1 AT
62077024 TAACTATCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.19, C:0.11, G:0.21, T:0.49
Consensus pattern (39 bp):
ATATTTTTGTGTTTCCAACTGATATATTTTAGGTTGGGC
Found at i:62084563 original size:93 final size:91
Alignment explanation
Indices: 62084404--62084624 Score: 307
Period size: 93 Copynumber: 2.4 Consensus size: 91
62084394 TTCGACATGA
* * * * *
62084404 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTGTCACGTTGCCATGGTATCATTCAAC
** * *
62084469 CATGGTCTTATTCATTTCCCCGTCACGT
65 CATGGTCTTACACATTT-CACATCACGT
*
62084497 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGTCACGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TGTCACGTTGCCATGGTATCATTCAAC
* *
62084562 CATGGTCTTACACATTTCATATCAGGT
65 CATGGTCTTACACATTTCACATCACGT
62084589 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT
62084625 TCTATCAGAG
Statistics
Matches: 115, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
92 46 0.40
93 69 0.60
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTGTCACGTTGCCATGGTATCATTCAACC
ATGGTCTTACACATTTCACATCACGT
Found at i:62084632 original size:46 final size:46
Alignment explanation
Indices: 62084404--62084627 Score: 299
Period size: 46 Copynumber: 4.8 Consensus size: 46
62084394 TTCGACATGA
* * * * *
62084404 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
* ** * *
62084450 TGCCATGGTATCATTCAACCATGGTCTTATTCATTTCCCCGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTGTCACGT
62084497 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
* *
62084543 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TGTCACGT
62084589 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCT
62084628 ATCAGAGAGC
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
45 1 0.01
46 118 0.74
47 41 0.26
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTGTCACGT
Found at i:62086796 original size:11 final size:11
Alignment explanation
Indices: 62086780--62086831 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
62086770 TATACTAAAT
62086780 AAATAATAATA
1 AAATAATAATA
*
62086791 AAATAAT-ATT
1 AAATAATAATA
* *
62086801 AAATATCTCATA
1 AAATA-ATAATA
*
62086813 AAATATTAATA
1 AAATAATAATA
62086824 AAATAATA
1 AAATAATA
62086832 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:62094938 original size:15 final size:15
Alignment explanation
Indices: 62094888--62094938 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
62094878 GAATTTGAAA
62094888 ATAAAATA-TTTAAT
1 ATAAAATATTTTAAT
* *
62094902 TTCAAAATATAATTTAAA
1 AT-AAAATAT--TTTAAT
62094920 ATAAAATATTTTAAT
1 ATAAAATATTTTAAT
62094935 ATAA
1 ATAA
62094939 TTAATATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
14 1 0.03
15 15 0.52
17 7 0.24
18 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAAAATATTTTAAT
Found at i:62094953 original size:15 final size:15
Alignment explanation
Indices: 62094935--62094971 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
62094925 ATATTTTAAT
62094935 ATAATTA-ATATAAAA
1 ATAATTATAT-TAAAA
62094950 ATAATTATATTAAAA
1 ATAATTATATTAAAA
62094965 AT-ATTAT
1 ATAATTAT
62094972 TAAATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 14 0.67
16 2 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATTATATTAAAA
Found at i:62095064 original size:15 final size:14
Alignment explanation
Indices: 62095034--62095061 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62095024 TTAAAATATG
62095034 ATTAAATTATTTTT
1 ATTAAATTATTTTT
62095048 ATTAAATTATTTTT
1 ATTAAATTATTTTT
62095062 TATAATAATC
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTAAATTATTTTT
Found at i:62095270 original size:16 final size:16
Alignment explanation
Indices: 62095246--62095299 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
62095236 TGAATTACTG
* *
62095246 ATTACAACTCTATTAT
1 ATTATAACTCTATTCT
*
62095262 ATTATAACTCTATTCC
1 ATTATAACTCTATTCT
*
62095278 GTTATAACTCTATTCT
1 ATTATAACTCTATTCT
62095294 ATTATA
1 ATTATA
62095300 GCGAACCCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTATAACTCTATTCT
Found at i:62095526 original size:19 final size:19
Alignment explanation
Indices: 62095504--62095541 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
62095494 ATTAATATAT
62095504 CTTATAAAAATAATAAAAA
1 CTTATAAAAATAATAAAAA
* *
62095523 CTTATAAATATTATAAAAA
1 CTTATAAAAATAATAAAAA
62095542 TAAAAATATA
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:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (19 bp):
CTTATAAAAATAATAAAAA
Found at i:62095570 original size:34 final size:34
Alignment explanation
Indices: 62095507--62095575 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
62095497 AATATATCTT
*
62095507 ATAAAAATAATAAAAACTTATAAATATTATAAAA
1 ATAAAAATAATAAAAACTTATAAAAATTATAAAA
*
62095541 ATAAAAAT-ATAATAAA-TTCTAACAAATTATAAAA
1 ATAAAAATAATAA-AAACTTATAA-AAATTATAAAA
62095575 A
1 A
62095576 ATTTTAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
33 9 0.29
34 22 0.71
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (34 bp):
ATAAAAATAATAAAAACTTATAAAAATTATAAAA
Found at i:62095657 original size:29 final size:30
Alignment explanation
Indices: 62095600--62095659 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
62095590 AAACATATTT
* * **
62095600 AAATTTTTAAAAGTTTATAAAAACGTAAAA
1 AAATCTTTAAAAGCTTATAAAAAAATAAAA
62095630 AAATCTTTAAAA-CTTATAAAAAAATAAAA
1 AAATCTTTAAAAGCTTATAAAAAAATAAAA
62095659 A
1 A
62095660 TCATAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (30 bp):
AAATCTTTAAAAGCTTATAAAAAAATAAAA
Found at i:62095747 original size:30 final size:30
Alignment explanation
Indices: 62095690--62095765 Score: 93
Period size: 30 Copynumber: 2.6 Consensus size: 30
62095680 TATTTAATAT
* * *
62095690 TAAAAA-TATT-AAAATTCATATAAACTTA
1 TAAAAATTATTAAAAAATCACAAAAACTTA
62095718 TAAAAATTATTAAAAAATCACAAAAACTTA
1 TAAAAATTATTAAAAAATCACAAAAACTTA
* *
62095748 TAAATATTATAAAAAAAT
1 TAAAAATTATTAAAAAAT
62095766 TCTAATAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
28 6 0.15
29 4 0.10
30 31 0.76
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.32
Consensus pattern (30 bp):
TAAAAATTATTAAAAAATCACAAAAACTTA
Found at i:62095761 original size:19 final size:19
Alignment explanation
Indices: 62095739--62095852 Score: 59
Period size: 20 Copynumber: 5.6 Consensus size: 19
62095729 AAAAAATCAC
62095739 AAAAACTTATAAATATTAT
1 AAAAACTTATAAATATTAT
* * *
62095758 AAAAAAATTCTAATAAATTAT
1 -AAAAACTTATAA-ATATTAT
*
62095779 TAAAACTTTATGAAATTATTA-
1 AAAAAC-TTAT-AAA-TATTAT
* * * *
62095800 AAATATTTTTAAAATCTTAT
1 AAAAACTTAT-AAATATTAT
* *
62095820 AAAATATTTATAAACATTCAT
1 AAAA-ACTTATAAATATT-AT
62095841 AAAAACTTATAA
1 AAAAACTTATAA
62095853 TAAATAATAA
Statistics
Matches: 69, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
19 4 0.06
20 35 0.51
21 24 0.35
22 6 0.09
ACGTcount: A:0.54, C:0.06, G:0.01, T:0.39
Consensus pattern (19 bp):
AAAAACTTATAAATATTAT
Found at i:62095842 original size:21 final size:21
Alignment explanation
Indices: 62095798--62095852 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
62095788 ATGAAATTAT
* *
62095798 TAAAATATTTTTAAAATCTTA
1 TAAAATATTTATAAAATCTCA
62095819 TAAAATATTTATAAACAT-TCA
1 TAAAATATTTATAAA-ATCTCA
*
62095840 TAAAA-ACTTATAA
1 TAAAATATTTATAA
62095853 TAAATAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 21 0.70
22 2 0.07
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATATTTATAAAATCTCA
Found at i:62096546 original size:11 final size:10
Alignment explanation
Indices: 62096471--62096546 Score: 64
Period size: 10 Copynumber: 7.5 Consensus size: 10
62096461 ATGATCTTTT
62096471 TTTTTTATAA
1 TTTTTTATAA
62096481 TTTTTTATAA
1 TTTTTTATAA
* ***
62096491 GTTTATGGCAA
1 -TTTTTTATAA
*
62096502 -TTTTAATAA
1 TTTTTTATAA
62096511 TTTTTTTATAA
1 -TTTTTTATAA
*
62096522 TTTTTTATGA
1 TTTTTTATAA
62096532 TTTTTTATAA
1 TTTTTTATAA
*
62096542 GTTTT
1 TTTTT
62096547 AGGAATTTTA
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
9 5 0.10
10 32 0.63
11 14 0.27
ACGTcount: A:0.28, C:0.01, G:0.07, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:62096554 original size:20 final size:20
Alignment explanation
Indices: 62096512--62096565 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
62096502 TTTTAATAAT
* *
62096512 TTTTTTATAATTTTTTATGA
1 TTTTTTATAATGTTTTAGGA
62096532 TTTTTTATAA-GTTTTAGGA
1 TTTTTTATAATGTTTTAGGA
* *
62096551 ATTTTAAT-ATGTTTT
1 TTTTTTATAATGTTTT
62096566 GATAAAATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.62
20 10 0.34
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (20 bp):
TTTTTTATAATGTTTTAGGA
Found at i:62096880 original size:26 final size:26
Alignment explanation
Indices: 62096851--62096907 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
62096841 CACGAAACAG
*
62096851 ATCATCAGCA-CTCTGCTTGCTTTTTT
1 ATCATC-GCATCTCTACTTGCTTTTTT
* *
62096877 ATCAATCTCATTTCTACTTGCTTTTTT
1 ATC-ATCGCATCTCTACTTGCTTTTTT
62096904 ATCA
1 ATCA
62096908 CAGTAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.19, C:0.25, G:0.07, T:0.49
Consensus pattern (26 bp):
ATCATCGCATCTCTACTTGCTTTTTT
Found at i:62100378 original size:19 final size:19
Alignment explanation
Indices: 62100354--62100392 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
62100344 TAGGAGCCCT
62100354 ATGCCATCATTCTCCACTC
1 ATGCCATCATTCTCCACTC
62100373 ATGCCATCATTCTCCACTC
1 ATGCCATCATTCTCCACTC
62100392 A
1 A
62100393 AGGCTGTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.41, G:0.05, T:0.31
Consensus pattern (19 bp):
ATGCCATCATTCTCCACTC
Found at i:62103335 original size:107 final size:108
Alignment explanation
Indices: 62103165--62103380 Score: 407
Period size: 107 Copynumber: 2.0 Consensus size: 108
62103155 AAAAAACACG
62103165 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
62103230 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
62103273 TCAAAAATTTTAT-AGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
1 TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
* *
62103337 AAAATTTATTCTAACTTAACATATCATTGTTTTGTTAAACTAA
66 AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
62103380 T
1 T
62103381 TTTTTGTTTA
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
107 93 0.88
108 13 0.12
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.44
Consensus pattern (108 bp):
TCAAAAATTTTATCAGAGTAATTAACAAAAATTTTAATACAATTTTGTTAGAAATTTTATTATTT
AAAACTTATTCCAACTTAACATATCATTGTTTTGTTAAACTAA
Found at i:62103632 original size:27 final size:27
Alignment explanation
Indices: 62103594--62103646 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
62103584 TGTGCAGGGT
62103594 GTTGTGCCTACCT-ATCAGGCACGACTA
1 GTTGTGCCTACCTGA-CAGGCACGACTA
*
62103621 GTTGTGCCTACCTGACAGGCTCGACT
1 GTTGTGCCTACCTGACAGGCACGACT
62103647 CATTTCGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (27 bp):
GTTGTGCCTACCTGACAGGCACGACTA
Found at i:62105051 original size:3 final size:3
Alignment explanation
Indices: 62105043--62105074 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
62105033 GGTTGATATA
62105043 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AG
62105075 GTGTTTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
AGT
Found at i:62116136 original size:79 final size:81
Alignment explanation
Indices: 62116004--62116184 Score: 201
Period size: 79 Copynumber: 2.3 Consensus size: 81
62115994 ATGATGTCCG
* * *
62116004 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTA
*
62116068 CGAGATACTA-ATTCCA
66 CGAGATACTATA-ACCA
* * * **
62116084 GGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAATTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAATTGT
* *
62116146 ACGAGTTACTATAACCG
65 ACGAGATACTATAACCA
*
62116163 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
62116185 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 55 0.65
80 29 0.34
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGTA
CGAGATACTATAACCA
Found at i:62116190 original size:40 final size:40
Alignment explanation
Indices: 62116000--62116191 Score: 194
Period size: 40 Copynumber: 4.8 Consensus size: 40
62115990 TTGAATGATG
* * * * *
62116000 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
* * * *
62116040 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
62116080 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
* *
62116119 TCCGGGTTAAGTCCCGAAGGCAATTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
62116160 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
62116192 AGCTATATCC
Statistics
Matches: 128, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
39 34 0.27
40 84 0.66
41 10 0.08
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:62140721 original size:25 final size:25
Alignment explanation
Indices: 62140693--62140800 Score: 94
Period size: 25 Copynumber: 4.4 Consensus size: 25
62140683 AGCTCTTTCA
62140693 AGCCATATAACAGGAAGCTCATGTG
1 AGCCATATAACAGGAAGCTCATGTG
* * * **
62140718 AGCCATGTAACAAGAAGCTTATCCG
1 AGCCATATAACAGGAAGCTCATGTG
* ** **
62140743 GGCTGTATAACAGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATGTG
* *
62140768 AGCCATAT-TCGGGAAGCTCATGTG
1 AGCCATATAACAGGAAGCTCATGTG
62140792 AGCCA-ATAA
1 AGCCATATAA
62140801 TGGGTAGCTC
Statistics
Matches: 61, Mismatches: 21, Indels: 3
0.72 0.25 0.04
Matches are distributed among these distances:
23 2 0.03
24 17 0.28
25 42 0.69
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATGTG
Found at i:62140784 original size:24 final size:24
Alignment explanation
Indices: 62140755--62140942 Score: 91
Period size: 24 Copynumber: 7.6 Consensus size: 24
62140745 CTGTATAACA
*
62140755 GGAAGCTCATAAGAGCCATATTCG
1 GGAAGCTCATAAGAGCCATAATCG
**
62140779 GGAAGCTCATGTGAGCCAATAAT-G
1 GGAAGCTCATAAGAGCC-ATAATCG
* *
62140803 GGTAGCTCCA-AAGAGCCATTAATCA
1 GGAAGCT-CATAAGAGCCA-TAATCG
* * *
62140828 GGAAGCTC-TGAATAGCTATATACCG
1 GGAAGCTCAT-AAGAGCCATA-ATCG
* * * *
62140853 AGAAGTTCA-AGCGAGCCAT-ATCA
1 GGAAGCTCATA-AGAGCCATAATCG
* *
62140876 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCA-TAAGAGCC-ATAATCG
*
62140902 AGAAGCTCATGAAGAGCCATATATCAG
1 GGAAGCTCAT-AAGAGCCATA-ATC-G
*
62140929 GG-CGCTCATAAGAG
1 GGAAGCTCATAAGAG
62140943 TTGTGGTGTG
Statistics
Matches: 119, Mismatches: 29, Indels: 31
0.66 0.16 0.17
Matches are distributed among these distances:
23 10 0.08
24 40 0.34
25 40 0.34
26 27 0.23
27 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCG
Found at i:62141413 original size:21 final size:21
Alignment explanation
Indices: 62141389--62141430 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
62141379 TAAATTTAAC
*
62141389 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
62141410 TCAATTCAATTCAATTCATAT
1 TCAATTCAATACAATTCATAT
62141431 CTTAGGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:62141418 original size:5 final size:5
Alignment explanation
Indices: 62141389--62141427 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
62141379 TAAATTTAAC
* *
62141389 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
62141428 TATCTTAGGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:62145067 original size:16 final size:16
Alignment explanation
Indices: 62145046--62145078 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62145036 TCCAAACGTA
62145046 TCATGAATTAATAAAG
1 TCATGAATTAATAAAG
62145062 TCATGAATTAATAAAG
1 TCATGAATTAATAAAG
62145078 T
1 T
62145079 AACTCTCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (16 bp):
TCATGAATTAATAAAG
Found at i:62146607 original size:23 final size:25
Alignment explanation
Indices: 62146581--62146627 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
62146571 TATCATTCAT
*
62146581 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
62146604 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
62146628 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:62146948 original size:46 final size:46
Alignment explanation
Indices: 62146888--62147234 Score: 440
Period size: 46 Copynumber: 7.9 Consensus size: 46
62146878 TTTGACGTGA
* * * * * *
62146888 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * * *
62146934 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCTTGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
62146980 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62147026 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62147072 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62147110 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
62147156 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
62147194 TGCCATGGTATCTTTCAACCATGGTATTACACATTTCATAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
62147235 TAGAGAGCAG
Statistics
Matches: 269, Mismatches: 15, Indels: 34
0.85 0.05 0.11
Matches are distributed among these distances:
38 65 0.24
39 2 0.01
40 6 0.02
41 2 0.01
43 2 0.01
44 6 0.02
45 6 0.02
46 180 0.67
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:62147004 original size:92 final size:88
Alignment explanation
Indices: 62146888--62147234 Score: 449
Period size: 84 Copynumber: 3.9 Consensus size: 88
62146878 TTTGACGTGA
* * * *
62146888 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CA--TTCT-TCAGGTTGCCATGGTATCTTTCAAC
** * * * *
62146953 CATGGTCTTATTCTTTTCTTGTCACGT
62 CATGGTCTTACACATTTCATATCAGGT
62146980 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTAC-CAT-TC-T-TCAGGTTGCCATGGTATCTTTCAAC
62147045 CATGGTCTTACACATTTCATATCAGGT
62 CATGGTCTTACACATTTCATATCAGGT
*
62147072 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
62147133 GTCTTACACATTTCATATCAGGT
66 GTCTTACACATTTCATATCAGGT
*
62147156 TGCCATGGTATCTTTCAACCATGGTCTTA-CA--C-ACAGGTTGCCATGGTATCTTTCAACCATG
1 TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
*
62147217 GTATTACACATTTCATAT
66 GTCTTACACATTTCATAT
62147235 TAGAGAGCAG
Statistics
Matches: 239, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
84 129 0.54
87 1 0.00
90 3 0.01
91 2 0.01
92 104 0.44
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (88 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACCATTCTTCAGGTTGCCATGGTATCTTTCAACCATG
GTCTTACACATTTCATATCAGGT
Found at i:62147118 original size:38 final size:38
Alignment explanation
Indices: 62147067--62147226 Score: 239
Period size: 38 Copynumber: 4.0 Consensus size: 38
62147057 CATTTCATAT
62147067 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
62147105 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A
62147150 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 -CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
*
62147189 CAGGTTGCCATGGTATCTTTCAACCATGGTATTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
62147227 TTTCATATTA
Statistics
Matches: 113, Mismatches: 1, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
38 70 0.62
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 1 0.01
46 33 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:62159799 original size:32 final size:32
Alignment explanation
Indices: 62159763--62159842 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
62159753 CAATTGAATC
*
62159763 TTCGTACATACATGTACCATATTGTACCAATT
1 TTCGTACATACCTGTACCATATTGTACCAATT
* *
62159795 TTCGTACATTCCTGTACCATATTGTTCCAATT
1 TTCGTACATACCTGTACCATATTGTACCAATT
*
62159827 TTCGTAGATACCTGTA
1 TTCGTACATACCTGTA
62159843 TCATCTCGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (32 bp):
TTCGTACATACCTGTACCATATTGTACCAATT
Found at i:62159966 original size:28 final size:28
Alignment explanation
Indices: 62159935--62160034 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 28
62159925 CCGATACCTT
** *
62159935 GCACACTAAGTTTCGTTCTGGATGTTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
* * * **
62159963 GCACACTAAGTGCCATCCTCGTTACTTC
1 GCACACTAAGTGCCATTCTGGATGTTTC
*
62159991 GCACACTAAGTGCCATTCTGGATGTATC
1 GCACACTAAGTGCCATTCTGGATGTTTC
62160019 GCACACTAAGTGCCAT
1 GCACACTAAGTGCCAT
62160035 CCCCGATACT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTGGATGTTTC
Found at i:62159977 original size:56 final size:56
Alignment explanation
Indices: 62159900--62160061 Score: 197
Period size: 56 Copynumber: 2.9 Consensus size: 56
62159890 TGAATACTCA
** *
62159900 ATGTATCGCACACT-AGATGCCATACCCGATACCTT-GCACACTAAGTTTCGTTCTGG
1 ATGTATCGCACACTAAG-TGCCAT-CCCGATACCTTCGCACACTAAGTGCCATTCTGG
* *
62159956 ATGTTTCGCACACTAAGTGCCATCCTCGTTA-CTTCGCACACTAAGTGCCATTCTGG
1 ATGTATCGCACACTAAGTGCCATCC-CGATACCTTCGCACACTAAGTGCCATTCTGG
**
62160012 ATGTATCGCACACTAAGTGCCATCCCCGATA-CTTCGCACGTTAAGTGCCA
1 ATGTATCGCACACTAAGTGCCAT-CCCGATACCTTCGCACACTAAGTGCCA
62160062 CATATAATTA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
55 5 0.05
56 84 0.90
57 4 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (56 bp):
ATGTATCGCACACTAAGTGCCATCCCGATACCTTCGCACACTAAGTGCCATTCTGG
Found at i:62160048 original size:28 final size:28
Alignment explanation
Indices: 62159960--62160061 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
62159950 TTCTGGATGT
*
62159960 TTCGCACACTAAGTGCCATCCTCGTTAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
* * *
62159988 TTCGCACACTAAGTGCCATTCTGGAT-G
1 TTCGCACACTAAGTGCCATCCTCGATAC
*
62160015 TATCGCACACTAAGTGCCATCCCCGATAC
1 T-TCGCACACTAAGTGCCATCCTCGATAC
**
62160044 TTCGCACGTTAAGTGCCA
1 TTCGCACACTAAGTGCCA
62160062 CATATAATTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
27 1 0.02
28 60 0.97
29 1 0.02
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGATAC
Found at i:62168783 original size:40 final size:40
Alignment explanation
Indices: 62168728--62168805 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
62168718 GTGAGATGGT
*
62168728 GGTGGTGTGACATCTTTATATTCAGGTTCAACGACCGAAC
1 GGTGGTGTGACATCTTTATATTCAAGTTCAACGACCGAAC
62168768 GGTGGTGTGACATCTTTATATTCAAGTTCAACGACCGA
1 GGTGGTGTGACATCTTTATATTCAAGTTCAACGACCGA
62168806 GCCAAGTATA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (40 bp):
GGTGGTGTGACATCTTTATATTCAAGTTCAACGACCGAAC
Found at i:62171648 original size:18 final size:18
Alignment explanation
Indices: 62171614--62171648 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62171604 GTTTATGGCT
* *
62171614 CCAAAAACACTTTTAGCC
1 CCAAAAACACATATAGCC
62171632 CCAAAAACACATATAGC
1 CCAAAAACACATATAGC
62171649 TTTGATTGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.31, G:0.06, T:0.17
Consensus pattern (18 bp):
CCAAAAACACATATAGCC
Found at i:62180916 original size:31 final size:31
Alignment explanation
Indices: 62180878--62180942 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
62180868 GCTTACACTG
62180878 TTTCCTTTATGTGAAACTAGACTCATTAAGC
1 TTTCCTTTATGTGAAACTAGACTCATTAAGC
62180909 TTTCCTTTATGTGAAACTAGACTCATTAAGC
1 TTTCCTTTATGTGAAACTAGACTCATTAAGC
62180940 TTT
1 TTT
62180943 AATTTCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (31 bp):
TTTCCTTTATGTGAAACTAGACTCATTAAGC
Found at i:62184050 original size:47 final size:47
Alignment explanation
Indices: 62183999--62184362 Score: 617
Period size: 47 Copynumber: 7.7 Consensus size: 47
62183989 TTAGGATTCT
* * *
62183999 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
62184046 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62184093 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62184140 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
62184187 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
62184236 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
62184283 ATGTGATGAATGTGAAAGTGTATATA--TGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
62184328 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62184363 TCCCGAAGGG
Statistics
Matches: 305, Mismatches: 7, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
45 41 0.13
46 1 0.00
47 216 0.71
49 47 0.15
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:62184144 original size:141 final size:140
Alignment explanation
Indices: 62183999--62184362 Score: 615
Period size: 143 Copynumber: 2.6 Consensus size: 140
62183989 TTAGGATTCT
* *
62183999 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATG-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
62184063 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
64 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62184128 GCCTAATGGCCG
129 GCCTAATGGCCG
62184140 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATG-GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
62184205 TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
65 TG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
62184270 GGCCTAATGGCCG
128 GGCCTAATGGCCG
* * *
62184283 ATGTGATGAATGTGAAAGTGTATATAT-GATAAGGCCTAATGGCCAACGTGATGGATGTGAAAGT
1 ATGTGATGAATGTGAAAGTGTATATATGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
62184347 GTATAAATGTGATAAG
66 GTATATATGTGATAAG
62184363 TCCCGAAGGG
Statistics
Matches: 213, Mismatches: 7, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
139 14 0.07
140 1 0.00
141 97 0.46
143 101 0.47
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (140 bp):
ATGTGATGAATGTGAAAGTGTATATATGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
GTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATGGCCG
Found at i:62184536 original size:36 final size:36
Alignment explanation
Indices: 62184481--62184558 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
62184471 CCGAGCTCTA
* * *
62184481 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGA-CCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62184518 AAGACCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
62184554 AAGAC
1 AAGAC
62184559 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (36 bp):
AAGACCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62186035 original size:118 final size:119
Alignment explanation
Indices: 62185772--62186079 Score: 512
Period size: 118 Copynumber: 2.6 Consensus size: 119
62185762 GAGAATTGAG
*
62185772 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATATATCCGGGCTAA-ACCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
62185837 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
65 AAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
**
62185892 AGTGATATATCCGGGCT-AAGTCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG-
1 AGTGATATATCCGGGCTAAACCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
62185955 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
66 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
62186009 AGTGATATATCCGTGCTAAACCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAGGTCTCGA
1 AGTGATATATCCGGGCTAAACCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
62186074 AGAGCA
66 AGAGCA
62186080 ATCATGCTGG
Statistics
Matches: 175, Mismatches: 11, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
117 69 0.39
118 82 0.47
119 7 0.04
120 17 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
AGTGATATATCCGGGCTAAACCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:62186091 original size:40 final size:40
Alignment explanation
Indices: 62185772--62186079 Score: 525
Period size: 40 Copynumber: 7.8 Consensus size: 40
62185762 GAGAATTGAG
62185772 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
62185812 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
62185852 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
62185892 AGTGATATATCCGGGCTAAGT--CGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
62185930 AGTGATATATCCGGGCTAAGTCCCG-AGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
62185969 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
62186009 AGTGATATATCCGTGCTAA-ACCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
62186048 GGTGTTATATCCGGGCTAGGTCTCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
62186080 ATCATGCTGG
Statistics
Matches: 254, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
38 38 0.15
39 72 0.28
40 144 0.57
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:62186285 original size:25 final size:25
Alignment explanation
Indices: 62186255--62186305 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
62186245 TGTGTATAAC
62186255 GAATGAATAAGA-GCACTATGTGTGT
1 GAATG-ATAAGAGGCACTATGTGTGT
* *
62186280 GAATGATTAGAGGCACTGTGTGTGT
1 GAATGATAAGAGGCACTATGTGTGT
62186305 G
1 G
62186306 CGAATTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.29
Consensus pattern (25 bp):
GAATGATAAGAGGCACTATGTGTGT
Found at i:62190051 original size:49 final size:47
Alignment explanation
Indices: 62189967--62190190 Score: 333
Period size: 47 Copynumber: 4.7 Consensus size: 47
62189957 TTAGGATTCT
* * *
62189967 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
62190014 ATGTGATGAATTTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
62190063 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
62190110 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
62190157 ACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAA
62190191 ATCCCGAAGG
Statistics
Matches: 164, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
46 1 0.01
47 119 0.73
49 44 0.27
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:62190088 original size:96 final size:94
Alignment explanation
Indices: 62189967--62190190 Score: 342
Period size: 96 Copynumber: 2.4 Consensus size: 94
62189957 TTAGGATTCT
* * *
62189967 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATTTGAAA
1 ATGTGATGGATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
62190031 GTGTATATATATGTGATAAGGCCTAATGGCCG
65 GTG--TATATATGTGATAAGGCCTAATAGCCA
*
62190063 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
62190128 TGTATATATGTGATAAGGCCTAATAGCCA
66 TGTATATATGTGATAAGGCCTAATAGCCA
* *
62190157 ACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 ATGTGATGGATGTGAAAGTGTATATATGTGATAA
62190191 ATCCCGAAGG
Statistics
Matches: 118, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
94 56 0.47
95 1 0.01
96 61 0.52
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (94 bp):
ATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATAGCCA
Found at i:62190366 original size:37 final size:37
Alignment explanation
Indices: 62190310--62190388 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
62190300 CCGAGCTCTA
* *
62190310 AAGACCCGATGACTACGTGTTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTG-TGGAGATTATGTCCGGGT
* *
62190347 AAGATCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62190384 AAGAC
1 AAGAC
62190389 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 3 0.08
37 33 0.92
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62194397 original size:69 final size:69
Alignment explanation
Indices: 62194281--62194422 Score: 248
Period size: 69 Copynumber: 2.1 Consensus size: 69
62194271 AGGGCTCACA
*
62194281 ATCACTTTAAGAGATGGATTACTAAAGGTAGTAGCTGTTGTACTATTTAAATAGAAGTAAAGTTA
1 ATCACTTTAAGAGATGGATTACTAAAGGTAGTAGCTGCTGTACTATTTAAATAGAAGTAAAGTTA
62194346 TTGG
66 TTGG
* * *
62194350 ATCATTTTAAGAGATGGATTACTAAATGTAGTAGCTGCTGTACTATTTAAATAGAAGTAGAGTTA
1 ATCACTTTAAGAGATGGATTACTAAAGGTAGTAGCTGCTGTACTATTTAAATAGAAGTAAAGTTA
62194415 TTGG
66 TTGG
62194419 ATCA
1 ATCA
62194423 AAATCAACAG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (69 bp):
ATCACTTTAAGAGATGGATTACTAAAGGTAGTAGCTGCTGTACTATTTAAATAGAAGTAAAGTTA
TTGG
Found at i:62199619 original size:44 final size:44
Alignment explanation
Indices: 62199540--62199641 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
62199530 TCCGATATGT
** **
62199540 GATTTCGTGTAAGACCACGTCTGGGATGTTGGCATCG-ATTTGA
1 GATTTCGTGTAAGACCACGTCTGGGACATCAGCATCGTATTTGA
*
62199583 GATTTACGTGTAAGACCATGTCTGGGACATCAGCATCGTATTT--
1 GATTT-CGTGTAAGACCACGTCTGGGACATCAGCATCGTATTTGA
*
62199626 GACTTCGTGTAAGACC
1 GATTTCGTGTAAGACC
62199642 CTATCTAGGA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 11 0.22
43 9 0.18
44 27 0.53
45 4 0.08
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (44 bp):
GATTTCGTGTAAGACCACGTCTGGGACATCAGCATCGTATTTGA
Found at i:62201174 original size:16 final size:16
Alignment explanation
Indices: 62201153--62201183 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
62201143 AATAAAAACT
62201153 AACTAAATTAACTAAC
1 AACTAAATTAACTAAC
62201169 AACTAAATTAACTAA
1 AACTAAATTAACTAA
62201184 AAACCCACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (16 bp):
AACTAAATTAACTAAC
Found at i:62204196 original size:14 final size:14
Alignment explanation
Indices: 62204166--62204195 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
62204156 TTGATGGATC
62204166 AATAGAAAATAAAA
1 AATAGAAAATAAAA
62204180 AATATGAAAATAAAA
1 AATA-GAAAATAAAA
62204195 A
1 A
62204196 TTTATAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
AATAGAAAATAAAA
Found at i:62207655 original size:94 final size:92
Alignment explanation
Indices: 62207557--62207833 Score: 291
Period size: 94 Copynumber: 2.9 Consensus size: 92
62207547 TTTGGATAAT
* *
62207557 TGTGATGTGAATACATGAAAATCTATAT-TTTGATTTAA-G-AT-TCGATGTGATGAATGTGAAA
1 TGTGATGTGAAT--ATGAAAATCTATATATGTGA--TAAGGCATGCCGATGTGATGAATGTGAAA
62207618 GTGTATATATATGTGATAAGGCCTAATGGCCGA
62 GTGTATATATA--TGATAAGGCCTAATGGCCGA
* * *
62207651 TGTGA--TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTGATGTGAATATGAAAATCTATATATGTGATAAGG-C--AT-GCCGATGTGATGAATGTGAAA
62207714 GTGTATATATATGATAAGGCCTAATGGCCGA
62 GTGTATATATATGATAAGGCCTAATGGCCGA
* * *
62207745 TGTGA--TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTGATGTGAATATGAAAATCTATATATGTGATAAGG-C--AT-GCCGATGTGATGAATGTGAAA
*
62207808 GTGTATATATGTGATAAGGCCTAATG
62 GTGTATATATATGATAAGGCCTAATG
62207834 CCAACGTGAT
Statistics
Matches: 169, Mismatches: 6, Indels: 16
0.88 0.03 0.08
Matches are distributed among these distances:
89 3 0.02
90 12 0.07
91 4 0.02
92 5 0.03
94 115 0.68
96 30 0.18
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (92 bp):
TGTGATGTGAATATGAAAATCTATATATGTGATAAGGCATGCCGATGTGATGAATGTGAAAGTGT
ATATATATGATAAGGCCTAATGGCCGA
Found at i:62207692 original size:47 final size:47
Alignment explanation
Indices: 62207599--62207870 Score: 474
Period size: 47 Copynumber: 5.8 Consensus size: 47
62207589 ATTTAAGATT
62207599 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
62207648 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
*
62207695 CGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
62207742 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
62207789 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
62207835 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAA
62207871 ATCCCGAAGG
Statistics
Matches: 217, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
46 34 0.16
47 161 0.74
49 22 0.10
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:62207772 original size:25 final size:25
Alignment explanation
Indices: 62207744--62207822 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
62207734 CTAATGGCCG
62207744 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
62207769 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
62207791 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
62207816 ATGTGAT
1 ATGTGAT
62207823 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:62208046 original size:37 final size:37
Alignment explanation
Indices: 62207990--62208068 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62207980 CCGAGCTCTA
* * *
62207990 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62208027 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62208064 AAGAC
1 AAGAC
62208069 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62209326 original size:40 final size:40
Alignment explanation
Indices: 62209282--62209509 Score: 388
Period size: 40 Copynumber: 5.7 Consensus size: 40
62209272 GAGAATTGAG
*
62209282 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
62209322 AGTGATGCATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
62209362 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
62209402 AGT-ATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
62209441 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
*
62209481 AGTGATGTATCCGGACTAAGT-TCCGAAGA
1 AGTGATGTATCCGGGCTAAGTCT-CGAAGA
62209510 ACAATCATGC
Statistics
Matches: 178, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 39 0.22
40 139 0.78
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCT
Found at i:62209362 original size:23 final size:23
Alignment explanation
Indices: 62209296--62209362 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
62209286 ATGTATCCGG
*
62209296 GCTAAGTCCCGAAGAGCATTCGT
1 GCTAAGTCTCGAAGAGCATTCGT
* * *
62209319 GCT-AG--T-G-A-TGCATCCGG
1 GCTAAGTCTCGAAGAGCATTCGT
62209336 GCTAAGTCTCGAAGAGCATTCGT
1 GCTAAGTCTCGAAGAGCATTCGT
62209359 GCTA
1 GCTA
62209363 GTGATGTATC
Statistics
Matches: 31, Mismatches: 7, Indels: 12
0.62 0.14 0.24
Matches are distributed among these distances:
17 9 0.29
18 3 0.10
19 1 0.03
20 1 0.03
21 1 0.03
22 3 0.10
23 13 0.42
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (23 bp):
GCTAAGTCTCGAAGAGCATTCGT
Found at i:62209449 original size:79 final size:80
Alignment explanation
Indices: 62209282--62209509 Score: 397
Period size: 79 Copynumber: 2.9 Consensus size: 80
62209272 GAGAATTGAG
* * *
62209282 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGCATCCGGGCTAAGTCTCG
1 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCG
62209347 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
62209362 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTAGT-ATGTATCCGGGCTAAGTCTCG
1 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCG
62209426 AAGAGCATTCGTGCT
66 AAGAGCATTCGTGCT
*
62209441 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGT-TCC
1 AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCT-C
62209505 GAAGA
65 GAAGA
62209510 ACAATCATGC
Statistics
Matches: 142, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
79 79 0.56
80 63 0.44
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
AGTGATGTATCCAGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCG
AAGAGCATTCGTGCT
Found at i:62209500 original size:119 final size:119
Alignment explanation
Indices: 62209286--62209509 Score: 389
Period size: 119 Copynumber: 1.9 Consensus size: 119
62209276 ATTGAGAGTG
*
62209286 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGCATCCGGGCTAAGTCTCGAAGA
1 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGCATCCAGGCTAAGTCTCGAAGA
62209351 GCATTCGTGCTAGTGATGTATCCAGGCTAAG-TCTCGAAGAGCATTCGTGCTAGT
66 GCATTCGTGCTAGTGATGTATCCAGGCTAAGTTC-CGAAGAGCATTCGTGCTAGT
* *
62209405 ATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCCAGGCTAAGTCTCGAAGA
1 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGCATCCAGGCTAAGTCTCGAAGA
62209470 GCATTCGTGCTAGTGATGTATCC-GGACTAAGTTCCGAAGA
66 GCATTCGTGCTAGTGATGTATCCAGG-CTAAGTTCCGAAGA
62209510 ACAATCATGC
Statistics
Matches: 100, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
118 2 0.02
119 96 0.96
120 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGCATCCAGGCTAAGTCTCGAAGA
GCATTCGTGCTAGTGATGTATCCAGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
Found at i:62209729 original size:25 final size:25
Alignment explanation
Indices: 62209688--62209739 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
62209678 TGTGTAATAA
62209688 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
62209713 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
62209738 TG
1 TG
62209740 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:62213422 original size:96 final size:92
Alignment explanation
Indices: 62213354--62213627 Score: 342
Period size: 96 Copynumber: 2.9 Consensus size: 92
62213344 ATTTTGATTT
*
62213354 AGGATTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 AGGATCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * *
62213419 TGTGAAAGTGTATATATGTGATAAGGCCTA
66 TGTGAAAGTG-ATATATAT-ATTATG-ATA
62213449 ATGG--CCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 A-GGATCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
62213512 GAATGTGAAAGTG-TATATATA-TGTGATA
63 GAATGTGAAAGTGATATATATATTATGATA
62213540 AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 AGG----AT--CCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
*
62213605 GATGAATGTGAAAGAG-TATATAT
60 GATGAATGTGAAAGTGATATATAT
62213628 GTGACAGGGC
Statistics
Matches: 161, Mismatches: 7, Indels: 21
0.85 0.04 0.11
Matches are distributed among these distances:
90 2 0.01
91 3 0.02
92 1 0.01
93 1 0.01
94 28 0.17
95 1 0.01
96 102 0.63
98 23 0.14
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (92 bp):
AGGATCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGATATATATATTATGATA
Found at i:62213501 original size:49 final size:47
Alignment explanation
Indices: 62213360--62213682 Score: 529
Period size: 47 Copynumber: 6.8 Consensus size: 47
62213350 ATTTAGGATT
62213360 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
62213407 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
62213454 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
62213503 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
62213552 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * * *
62213599 CGATGTGATGAATGTGAAAGAGTATATATGTGACAGGGCCGAGTGGC
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
* * * *
62213646 CAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
62213683 TCCCGAAGGG
Statistics
Matches: 262, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
47 166 0.63
49 96 0.37
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
Found at i:62213857 original size:37 final size:37
Alignment explanation
Indices: 62213801--62213879 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
62213791 CCGAGCTCTA
* * *
62213801 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
62213838 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
62213875 AAGAC
1 AAGAC
62213880 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:62215316 original size:5 final size:6
Alignment explanation
Indices: 62215301--62215325 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62215291 TTTAAATTTA
62215301 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
62215326 CTAAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:62220411 original size:36 final size:36
Alignment explanation
Indices: 62220216--62220417 Score: 200
Period size: 35 Copynumber: 5.7 Consensus size: 36
62220206 ACGACGTTTA
* * * *
62220216 AAAAAGATTAGGATAGACCCT-TCTAAGACAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* * * *
62220251 AAAAACGTTGGGATATACC-CGTCTAAGACAACCTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* **
62220286 AAAAATGTTGGGATAGACCTTGTCTAAGGC--TTTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
* *
62220320 AAAAAAGGTTGGGATAGAGC-TGTCTAAGG-AACCCCT
1 -AAAAAGGTTGGGATAGACCTTGTCTAAGGCAA-CCTT
* *
62220356 AAAAAGGTTGGGACAGACCTTGTCTAAGGCAAACTT
1 AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
*
62220392 AAATAGGTTGGGATAGACCTTGTCTA
1 AAAAAGGTTGGGATAGACCTTGTCTA
62220418 TGTCAACACC
Statistics
Matches: 137, Mismatches: 22, Indels: 15
0.79 0.13 0.09
Matches are distributed among these distances:
34 11 0.08
35 80 0.58
36 44 0.32
37 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (36 bp):
AAAAAGGTTGGGATAGACCTTGTCTAAGGCAACCTT
Found at i:62221110 original size:140 final size:139
Alignment explanation
Indices: 62220823--62221115 Score: 408
Period size: 140 Copynumber: 2.1 Consensus size: 139
62220813 TTTAGTGCGG
* * * * *
62220823 GCCCATAAGTGTCAGCATAGTATTGGATAAGCTGACTCTTATTTAAGCGTTGCCTTAGGCATGTA
1 GCCCAAAAGTGTCAGCATAGTATTGGAAAAGCCGACTCTTATTTAAGCGTTGCCTTACGCATGCA
*
62220888 TATCCCAATCTTTATACAAAGAGTTGGCCAAAGCGTATGTCAGCAAGTCTATCCCAACACTAAGG
66 TATCCCAACCTTTATACAAAGAGTTGGCCAAAGCGTATGTCAGCAAGTCTATCCCAACACTAAGG
**
62220953 AAAATGTTG
131 AAAATGTCA
* * * * *
62220962 GCCTAAAAGTGTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTACGTATGC
1 GCCCAAAAGTGTCAGCATAGTATTGGA-AAAGCCGACTCTTATTTAAGCGTTGCCTTACGCATGC
* * * *
62221027 ATATCCCAGCCTTTATACAAAGAGTTGGCGAAAGCGTATGTCAGCAAGTCTATCCTAACACTTA-
65 ATATCCCAACCTTTATACAAAGAGTTGGCCAAAGCGTATGTCAGCAAGTCTATCCCAACACTAAG
62221091 GAAAAGTGTCA
130 GAAAA-TGTCA
62221102 GCCCAAAAGTGTCA
1 GCCCAAAAGTGTCA
62221116 TCTTAGGACT
Statistics
Matches: 133, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
139 28 0.21
140 105 0.79
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (139 bp):
GCCCAAAAGTGTCAGCATAGTATTGGAAAAGCCGACTCTTATTTAAGCGTTGCCTTACGCATGCA
TATCCCAACCTTTATACAAAGAGTTGGCCAAAGCGTATGTCAGCAAGTCTATCCCAACACTAAGG
AAAATGTCA
Found at i:62223919 original size:29 final size:27
Alignment explanation
Indices: 62223886--62223948 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
62223876 AATCCTCCAT
62223886 AACACACCAGTATAAT-ATAGCCTCCCA
1 AACACACCAGTAT-ATCATAGCCTCCCA
* *
62223913 AACACACCGGTATATCATATCCTCCCA
1 AACACACCAGTATATCATAGCCTCCCA
62223940 AACACACCA
1 AACACACCA
62223949 ATAAGGCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.40, C:0.37, G:0.06, T:0.17
Consensus pattern (27 bp):
AACACACCAGTATATCATAGCCTCCCA
Found at i:62224484 original size:17 final size:18
Alignment explanation
Indices: 62224454--62224487 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62224444 AATTTTTATT
*
62224454 CAATTTATTCCCTAATTC
1 CAATTTAATCCCTAATTC
62224472 CAATTTAAT-CCTAATT
1 CAATTTAATCCCTAATT
62224488 AACTCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTAATCCCTAATTC
Found at i:62238298 original size:38 final size:38
Alignment explanation
Indices: 62238247--62238562 Score: 506
Period size: 38 Copynumber: 8.3 Consensus size: 38
62238237 ATATTCGATG
*
62238247 TATATCCGGGTTAAATCCCGCAGGCTTCTTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
62238285 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
62238323 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
62238361 TATATCCGGCTTAAATCACGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
62238399 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* *
62238437 TATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAA
1 TATATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAT
*
62238477 AATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
* * * *
62238515 TATATCTGGGATAAATCCCGCAGGCCTAGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
*
62238553 TATATTCGGG
1 TATATCCGGG
62238563 CCTTCGTGCC
Statistics
Matches: 257, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
38 217 0.84
39 10 0.04
40 30 0.12
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAT
Found at i:62238514 original size:116 final size:115
Alignment explanation
Indices: 62238248--62238563 Score: 526
Period size: 116 Copynumber: 2.7 Consensus size: 115
62238238 TATTCGATGT
*
62238248 ATATCCGGGTTAAATCCCGCAGGCTTCTTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
* *
62238313 GTGCTGGTATTATATCCGGG-TTAAATCCCGCAGGCTTCGTGCTGGTAAT
66 GTGCTGGTATTATATCCGGGCTTAAAACCCGCAGGCTTCGTGCTGGTAAA
* *
62238362 ATATCCGGCTTAAATCACGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
62238427 GTGCTGGTATTATATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTAAA
66 GTGCTGGTATTATATCCGGGCTTAAA-ACCCGCAGGCTTCGTGCTGGTAAA
* * * *
62238478 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCTGGGATAAATCCCGCAGGCCTA
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
*
62238543 GTGCTGGTATTATATTCGGGC
66 GTGCTGGTATTATATCCGGGC
62238564 CTTCGTGCCT
Statistics
Matches: 188, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
114 82 0.44
115 5 0.03
116 101 0.54
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (115 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTC
GTGCTGGTATTATATCCGGGCTTAAAACCCGCAGGCTTCGTGCTGGTAAA
Found at i:62238632 original size:43 final size:43
Alignment explanation
Indices: 62238555--62238636 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
62238545 GCTGGTATTA
* * **
62238555 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGAGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
62238598 TATTCGAGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGAGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
62238637 AATGATATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.13, C:0.26, G:0.33, T:0.28
Consensus pattern (43 bp):
TATTCGAGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGTG
Found at i:62265496 original size:40 final size:40
Alignment explanation
Indices: 62265254--62265482 Score: 381
Period size: 40 Copynumber: 5.7 Consensus size: 40
62265244 TATTCGGATG
* *
62265254 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
62265294 A-AATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62265334 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62265374 A-AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62265414 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62265454 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
62265483 AGCAAGTAGC
Statistics
Matches: 177, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
39 4 0.02
40 169 0.95
41 4 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:62265500 original size:120 final size:120
Alignment explanation
Indices: 62265258--62265515 Score: 405
Period size: 120 Copynumber: 2.2 Consensus size: 120
62265248 CGGATGATAA
* *
62265258 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
* *
62265323 TGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAAT
66 TGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTGACTAAAT
*
62265378 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AATCCGGGCTAAGTCCCGAAGGCATTT
*
62265442 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGT-AGCTATAT
65 GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTGA-CTAAAT
* *
62265498 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
62265516 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
119 15 0.12
120 111 0.87
121 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTGACTAAAT
Found at i:62272882 original size:47 final size:47
Alignment explanation
Indices: 62272804--62273209 Score: 609
Period size: 47 Copynumber: 8.6 Consensus size: 47
62272794 CCCTTCGGGA
* * * * * *
62272804 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62272851 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62272898 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62272945 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62272992 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
62273041 CTTATCACATATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62273090 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62273139 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
62273186 CTTATCACATATATACA--TTCACAT
1 CTTATCACATATATACACTTTCACAT
62273210 CACAATTATC
Statistics
Matches: 337, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
45 7 0.02
47 189 0.56
49 141 0.42
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62273038 original size:96 final size:96
Alignment explanation
Indices: 62272804--62273200 Score: 622
Period size: 96 Copynumber: 4.2 Consensus size: 96
62272794 CCCTTCGGGA
* * * * * * *
62272804 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62272867 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
62272898 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62272961 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62272992 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* * *
62273057 ACACTTTCACATTCATCACATTGGTCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
62273090 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
62273155 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
62273186 CTTATCACATATATA
1 CTTATCACATATATA
62273201 CATTCACATC
Statistics
Matches: 278, Mismatches: 19, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
93 1 0.00
94 89 0.32
96 97 0.35
98 91 0.33
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:62277672 original size:40 final size:40
Alignment explanation
Indices: 62277608--62277835 Score: 336
Period size: 40 Copynumber: 5.7 Consensus size: 40
62277598 TATTCGGATG
* *
62277608 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62277648 A-AATCCGGACTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
62277688 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62277728 A-AATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
62277768 ACAACCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
62277808 ATAACCGGGCTAAGT-CCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
62277836 AGCAAGTAGC
Statistics
Matches: 171, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
39 16 0.09
40 151 0.88
41 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:62277741 original size:80 final size:80
Alignment explanation
Indices: 62277608--62277868 Score: 377
Period size: 80 Copynumber: 3.3 Consensus size: 80
62277598 TATTCGGATG
*
62277608 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCCGGACTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCCGGGCTAAGTCCCGAAGGCA
62277673 TTTGTGCAAGTTACT
66 TTTGTGCAAGTTACT
*
62277688 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCCGGGCTAAGTCCCGAAGGCA
*
62277753 TTTGTGCGAGTTACT
66 TTTGTGCAAGTTACT
* * * *
62277768 ACAACCGGGCTAAGTCCCGAAAGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGT-CCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-AATCCGGGCTAAGTCCCGAAGGC
*
62277831 ATTTGAGCAAG-TAGCT
65 ATTTGTGCAAGTTA-CT
* * *
62277847 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
62277869 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
78 15 0.09
79 23 0.14
80 124 0.76
81 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCAAGTTACT
Found at i:62280436 original size:21 final size:21
Alignment explanation
Indices: 62280410--62280465 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
62280400 GAAACATGGC
62280410 ACACGCCCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
*
62280431 ATACGCCCGTGTGGAAGGGCA
1 ACACGCCCGTGTGGAAGGGCA
62280452 ACACGCCCGTGTGG
1 ACACGCCCGTGTGG
62280466 TCATTATAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.29, G:0.38, T:0.12
Consensus pattern (21 bp):
ACACGCCCGTGTGGAAGGGCA
Found at i:62281847 original size:48 final size:46
Alignment explanation
Indices: 62281642--62281910 Score: 181
Period size: 48 Copynumber: 5.7 Consensus size: 46
62281632 GGTATGATGT
* * * *
62281642 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATC-AAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-C-TCGTAGC
* * * ** *
62281689 TGATGCCATCTCCCAGACATGGTCTTACATTGACTATCAAAATTG-AGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATCTCGTA-GC
* * * * * * *
62281738 CGACGCCAAGTACCAAATATGGTCTTACACTAGCTCTCACATGTCCGTA-C
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G---ACACATCT-CGTAGC
*
62281788 CGATGCCATGTCCCAGACATGGTCTTACACTGACACCTCTATACGT-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--T-CGTAGC
*
62281836 CGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCGTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGC
**
62281882 CGATG-CATGTCTTAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
62281911 AGCTCTCGTT
Statistics
Matches: 172, Mismatches: 35, Indels: 33
0.72 0.15 0.14
Matches are distributed among these distances:
44 9 0.05
45 15 0.09
46 12 0.07
47 30 0.17
48 44 0.26
49 26 0.15
50 31 0.18
51 2 0.01
52 2 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGC
Found at i:62290595 original size:21 final size:20
Alignment explanation
Indices: 62290558--62290596 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
62290548 ATACTTCTTA
*
62290558 TAAAATGAGGAAAAGAAACC
1 TAAAATAAGGAAAAGAAACC
*
62290578 TAAAATAATGGAATAGAAA
1 TAAAATAA-GGAAAAGAAA
62290597 AATTGATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.62, C:0.05, G:0.18, T:0.15
Consensus pattern (20 bp):
TAAAATAAGGAAAAGAAACC
Found at i:62292941 original size:18 final size:18
Alignment explanation
Indices: 62292918--62292954 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
62292908 TTATACCAGG
*
62292918 TGTGTATCCTAGCCCTTA
1 TGTGTATCCTAACCCTTA
*
62292936 TGTGTATCTTAACCCTTA
1 TGTGTATCCTAACCCTTA
62292954 T
1 T
62292955 ATGTTTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (18 bp):
TGTGTATCCTAACCCTTA
Found at i:62293111 original size:18 final size:18
Alignment explanation
Indices: 62293088--62293134 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
62293078 CGTCAGGGAG
62293088 CCCATC-TCATTTCCAATC
1 CCCATCGTC-TTTCCAATC
62293106 CCCATCGTCTTTCCAATC
1 CCCATCGTCTTTCCAATC
62293124 CCCATCGTCTT
1 CCCATCGTCTT
62293135 ACGGGATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 26 0.93
19 2 0.07
ACGTcount: A:0.17, C:0.45, G:0.04, T:0.34
Consensus pattern (18 bp):
CCCATCGTCTTTCCAATC
Found at i:62294674 original size:98 final size:98
Alignment explanation
Indices: 62294499--62294704 Score: 214
Period size: 98 Copynumber: 2.1 Consensus size: 98
62294489 TTCTCAAAAT
* * * * * * * *
62294499 TATTTTTTCAGAAATTGCTGTAGAAAAATAGTGTCCAGATAGAAGCTTTTTTTAGTAATTTTGCT
1 TATTTTTTCAAAAACTACTGTAGAAAAAGAGTATCCAGATAGAAGCATCTTTCAGTAATTTTGCT
* * *** *
62294564 AACAATACATCCTGTTTGAAGTGTTTTTGACCC
66 AACAATACATCCTGCTTAAAACATTTTTGACAC
* * * *
62294597 TATTTTTTCAAAAACTACTGTAGAAAAAGAGTATCCAGTTGGGAGCATCTTTCAGTACTTTTGCT
1 TATTTTTTCAAAAACTACTGTAGAAAAAGAGTATCCAGATAGAAGCATCTTTCAGTAATTTTGCT
* * **
62294662 GACACTGTATCCTGCTTAAAACATTTTTGACAC
66 AACAATACATCCTGCTTAAAACATTTTTGACAC
62294695 TATTTTTTCA
1 TATTTTTTCA
62294705 GAACCATCTT
Statistics
Matches: 86, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
98 86 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.40
Consensus pattern (98 bp):
TATTTTTTCAAAAACTACTGTAGAAAAAGAGTATCCAGATAGAAGCATCTTTCAGTAATTTTGCT
AACAATACATCCTGCTTAAAACATTTTTGACAC
Found at i:62294778 original size:224 final size:223
Alignment explanation
Indices: 62294388--62295018 Score: 737
Period size: 224 Copynumber: 2.8 Consensus size: 223
62294378 AAGTAGGATG
* *
62294388 TACTGTAGAAAAAGAGCATCCAGGTGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCATCTTAC
1 TACTGTAGAAAAAGAGCATCCAGATGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCATCTTGC
* * * *
62294453 TTGAAGCGTTTTTGACCCTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAATTGCT
66 TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACT
* * * * **
62294518 GTAGAAAAATAGTGTCCAGAT-AGAAGCTTTTTTTAGTAATTTTGCTAACAATACATCCTGTTTG
131 GTAGAAAAATAGCGTTCAGATGAG-GGCTTTTTTTAGTACTTTTGCTAACAATACATCCTACTTG
*
62294582 AAGTGTTTTTGACCCTATT-TTTTCAAAAAC
195 AAGT-TTTTTGACCCTATTATTGT-AAAAAC
* * * * * *
62294612 TACTGTAGAAAAAGAGTATCCAGTTGGGAGCATCTTTCAGTACTTTTGCTGACACTGTATCCTGC
1 TACTGTAGAAAAAGAGCATCCAGATGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCATCTTGC
* * * *
62294677 TTAAAACATTTTTGACACTATTTTTTCAGAACCATCTTTTCAAAATTATTTTTTCAGAAACTATT
66 TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACT
* * * *
62294742 GTAGAAAAATAGCGTTTAGATGAGGGCTTTTTTTAGTACTTTTGCTGACAGTGCATCCTACTTGA
131 GTAGAAAAATAGCGTTCAGATGAGGGCTTTTTTTAGTACTTTTGCTAACAATACATCCTACTTGA
* *
62294807 AGTTTTTTTACCCTATTATTGTAGAAAC
196 AGTTTTTTGACCCTATTATTGTAAAAAC
* * ** * * *
62294835 TACTGTAAAAAAATAAAAAGAACATTTAGATGGGAGCATTTTTTAGTATTTTTGCTGATAGTGCA
1 TACTGT------AGAAAAAGAGCATCCAGATGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCA
* * * * *
62294900 TCTTGCTTGAAGCATTTTTTACATTATTTTTTTTCATAACCATCTTCTCAAAATTATTTTCTCAA
60 TCTTGCTTGAAGCATTTTTGACACTA--TTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAG
* * *
62294965 AAACTACTGTAGAAAAAGAACGTTCAGATG-GGAGCTTTTTTCAGTACTTTTGCT
123 AAACTACTGTAGAAAAATAGCGTTCAGATGAGG-GCTTTTTTTAGTACTTTTGCT
62295019 GAAAGTACAT
Statistics
Matches: 342, Mismatches: 54, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
223 24 0.07
224 173 0.51
225 2 0.01
229 62 0.18
230 2 0.01
231 79 0.23
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (223 bp):
TACTGTAGAAAAAGAGCATCCAGATGGGAGCATTTTTCAGTACTTTTGCTGACAGTGCATCTTGC
TTGAAGCATTTTTGACACTATTTTTTCAGAACCATCTTCTCAAAATTATTTTTTCAGAAACTACT
GTAGAAAAATAGCGTTCAGATGAGGGCTTTTTTTAGTACTTTTGCTAACAATACATCCTACTTGA
AGTTTTTTGACCCTATTATTGTAAAAAC
Found at i:62295124 original size:126 final size:125
Alignment explanation
Indices: 62294849--62295269 Score: 435
Period size: 126 Copynumber: 3.4 Consensus size: 125
62294839 GTAAAAAAAT
* * * *
62294849 AAAAAGAACATTTAGATGGGAGCATTTTTT-AGTATTTTTGCTGATAGTGCATCTTGCTTGAAGC
1 AAAAAGAACGTTCAGATGGGAGC-TTTTTTCAGTACTTTTGCTGAAAGTGCATCTT-CTTGAAGC
** * * * * * *
62294913 ATTTTTTACATTATTTTTTTTCATAACCATCTTCTCAAAATTATTTTCTCAAAAACTACTGTAG
64 ATTTTTTAC-CCA-ATTTTTTCATAACTATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAA
* *
62294977 AAAAAGAACGTTCAGATGGGAGCTTTTTTCAGTACTTTTGCTGAAAGTACATACTTTTTGAAGCA
1 AAAAAGAACGTTCAGATGGGAGCTTTTTTCAGTACTTTTGCTGAAAGTGCAT-CTTCTTGAAGCA
* *
62295042 TTTTTTACCCAATATTTTT-AGAACTATCTTCTCAAAATTATTTTTTTAGAAACTACTATAA
65 TTTTTTACCCAAT-TTTTTCATAACTATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAA
* * * * * * *
62295103 AAAAAGAGCG-TCTAGGTGGGAGTTTTTTTCAATACTTTTGCTGACAGTGCATCCTGCTTGAAAC
1 AAAAAGAACGTTC-AGATGGGAGCTTTTTTCAGTACTTTTGCTGAAAGTGCAT-CTTCTTGAAGC
* * *
62295167 ATTTTTTAACCTATTTTTTCATAA-TCATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAG
64 ATTTTTTACCCAATTTTTTCATAACT-ATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAA
* * *
62295229 AAAAA-AA-GTCCA-ACTAGGAG-TTTTTTCAGTACTTTTTCTGA
1 AAAAAGAACGTTCAGA-TGGGAGCTTTTTTCAGTACTTTTGCTGA
62295270 CTAAACAAAA
Statistics
Matches: 248, Mismatches: 37, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
123 19 0.08
124 7 0.03
125 10 0.04
126 141 0.57
127 12 0.05
128 56 0.23
129 3 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (125 bp):
AAAAAGAACGTTCAGATGGGAGCTTTTTTCAGTACTTTTGCTGAAAGTGCATCTTCTTGAAGCAT
TTTTTACCCAATTTTTTCATAACTATCTTCTCAAAATTATTTTTTTAGAAACTACTGTAA
Found at i:62295416 original size:28 final size:28
Alignment explanation
Indices: 62295385--62295463 Score: 72
Period size: 33 Copynumber: 2.6 Consensus size: 28
62295375 TAAAAATCTT
62295385 TAAACCTTAATTTATTTTTTAAAAAT-AA
1 TAAACCTTAATTTATTTTTT-AAAATCAA
*
62295413 TAAACCGTAATTAAATTTATTTTTTAAAATCCA
1 TAAACC----TT-AATTTATTTTTTAAAATCAA
62295446 TAAACAC-TAATTTATTTT
1 TAAAC-CTTAATTTATTTT
62295464 AACAAAAACC
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
28 16 0.37
29 1 0.02
32 7 0.16
33 18 0.42
34 1 0.02
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (28 bp):
TAAACCTTAATTTATTTTTTAAAATCAA
Found at i:62295521 original size:22 final size:22
Alignment explanation
Indices: 62295476--62295521 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
62295466 CAAAAACCAT
*
62295476 AACCCTAAACCCTAAATATCTA
1 AACCCTAAACCCTAAACATCTA
* * *
62295498 AACCTTAAGCCCTAAACATGTA
1 AACCCTAAACCCTAAACATCTA
62295520 AA
1 AA
62295522 TAACCCACCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.46, C:0.28, G:0.04, T:0.22
Consensus pattern (22 bp):
AACCCTAAACCCTAAACATCTA
Found at i:62299274 original size:16 final size:16
Alignment explanation
Indices: 62299253--62299300 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
62299243 TTTTAAAGAA
62299253 AATATATACATAAAAT
1 AATATATACATAAAAT
*
62299269 AATATA-ACAT-CAAT
1 AATATATACATAAAAT
*
62299283 AATATATACATAGAAT
1 AATATATACATAAAAT
62299299 AA
1 AA
62299301 GAAAATAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.32
15 8 0.29
16 11 0.39
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.29
Consensus pattern (16 bp):
AATATATACATAAAAT
Found at i:62299283 original size:14 final size:15
Alignment explanation
Indices: 62299253--62299293 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
62299243 TTTTAAAGAA
*
62299253 AATATATACATAAAAT
1 AATATATACAT-CAAT
62299269 AATATA-ACATCAAT
1 AATATATACATCAAT
62299283 AATATATACAT
1 AATATATACAT
62299294 AGAATAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.32
Consensus pattern (15 bp):
AATATATACATCAAT
Found at i:62300950 original size:15 final size:15
Alignment explanation
Indices: 62300930--62300959 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62300920 TTCACTATTA
*
62300930 TATCTTTTGTATTTT
1 TATCTTTTATATTTT
62300945 TATCTTTTATATTTT
1 TATCTTTTATATTTT
62300960 GCATGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (15 bp):
TATCTTTTATATTTT
Found at i:62310348 original size:47 final size:46
Alignment explanation
Indices: 62310297--62310543 Score: 162
Period size: 47 Copynumber: 5.2 Consensus size: 46
62310287 TAAGACCACA
*
62310297 TCTGGGACATGGCATCAACATAGAGGTGAGTGCTAGTGTAAGACATG
1 TCTGGGACAT-GCATCAACCTAGAGGTGAGTGCTAGTGTAAGACATG
* * * * *
62310344 TCTGGGACATGCTTCAGCCTCGA--TGATGTTAGCCAGTGTAAGACGTG
1 TCTGGGACATGCATCAACCTAGAGGTGA-G-T-GCTAGTGTAAGACATG
** * **
62310391 TCTGGGACATGCATC-GGCTA-AGTTTCGTGCTAGTGTAAGACATG
1 TCTGGGACATGCATCAACCTAGAGGTGAGTGCTAGTGTAAGACATG
* * *** **
62310435 TCTGGGACATGCATCAGCACGTATACACGAAAGCTAGTGTAAGACCATG
1 TCTGGGACATGCATCA--ACCTAGAGGTGAGTGCTAGTGTAAGA-CATG
* * * *
62310484 TCTGGGACATGGCATCGACCTCGATG-GAGATAGCTAGCGTAAGACCATG
1 TCTGGGACAT-GCATCAACCTAGAGGTGAG-T-GCTAGTGTAAGA-CATG
62310533 TCTGGGACATG
1 TCTGGGACATG
62310544 GCAGCGGCAA
Statistics
Matches: 155, Mismatches: 32, Indels: 25
0.73 0.15 0.12
Matches are distributed among these distances:
44 32 0.21
45 3 0.02
46 14 0.09
47 43 0.28
48 18 0.12
49 40 0.26
50 5 0.03
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (46 bp):
TCTGGGACATGCATCAACCTAGAGGTGAGTGCTAGTGTAAGACATG
Found at i:62310437 original size:44 final size:47
Alignment explanation
Indices: 62310326--62310452 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 47
62310316 ATAGAGGTGA
* *
62310326 GTGCTAGTGTAAGACATGTCTGGGACATGCTTCAGCCTCGATGATGTT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTC-AAGATGTT
* * * *
62310374 -AGCCAGTGTAAGACGTGTCTGGGACATGCATC-GGCT-AAG-T-TT
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGTT
62310416 CGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
1 -GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGC
62310453 ACGTATACAC
Statistics
Matches: 66, Mismatches: 10, Indels: 9
0.78 0.12 0.11
Matches are distributed among these distances:
42 2 0.03
43 1 0.02
44 31 0.47
45 1 0.02
46 3 0.05
47 28 0.42
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGATGTT
Found at i:62310544 original size:49 final size:50
Alignment explanation
Indices: 62310419--62310546 Score: 165
Period size: 49 Copynumber: 2.6 Consensus size: 50
62310409 TAAGTTTCGT
*
62310419 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGTATACACGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCACCACGTATACACGAAA
* ** *
62310467 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTCG-ATGGA-GATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-ACCACGTATACACGAAA
*
62310516 GCTAGCGTAAGACCATGTCTGGGACATGGCA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCA
62310547 GCGGCAATGT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
48 12 0.17
49 47 0.66
50 8 0.11
51 4 0.06
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (50 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCACCACGTATACACGAAA
Found at i:62324912 original size:53 final size:53
Alignment explanation
Indices: 62324832--62324940 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
62324822 TTTGCTTCTT
*
62324832 TTTCCCTATCTCTTTAATTTTTGTTGTTATTGTGACGAACTTGTTTATGGATA
1 TTTCCCTATCTCTTTAATTTTTGTTGTTATTGTGACGAACATGTTTATGGATA
* *
62324885 TTTCCCTATCTCTTTAATTTTTGTTGTTATTTTGATGAACATGTTTATGGATA
1 TTTCCCTATCTCTTTAATTTTTGTTGTTATTGTGACGAACATGTTTATGGATA
62324938 TTT
1 TTT
62324941 ATGCTATTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (53 bp):
TTTCCCTATCTCTTTAATTTTTGTTGTTATTGTGACGAACATGTTTATGGATA
Found at i:62330927 original size:19 final size:19
Alignment explanation
Indices: 62330905--62330991 Score: 160
Period size: 19 Copynumber: 4.7 Consensus size: 19
62330895 TCATATATTC
62330905 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
62330924 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
62330943 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCT
62330960 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
62330979 AAGATTGCATATC
1 AAGATTGCATATC
62330992 CTTAAAGATT
Statistics
Matches: 66, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.26
19 49 0.74
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:62330956 original size:36 final size:37
Alignment explanation
Indices: 62330905--62330991 Score: 149
Period size: 36 Copynumber: 2.3 Consensus size: 37
62330895 TCATATATTC
62330905 AAGATTGCATATCATATCTAAGATTGCATATCATATCT
1 AAGATTG-ATATCATATCTAAGATTGCATATCATATCT
62330943 AAGATTG-TATCATATCTAAGATTGCATATCATATCT
1 AAGATTGATATCATATCTAAGATTGCATATCATATCT
62330979 AAGATTGCATATC
1 AAGATTG-ATATC
62330992 CTTAAAGATT
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
36 36 0.77
38 11 0.23
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (37 bp):
AAGATTGATATCATATCTAAGATTGCATATCATATCT
Found at i:62331000 original size:36 final size:35
Alignment explanation
Indices: 62330905--62331001 Score: 108
Period size: 36 Copynumber: 2.6 Consensus size: 35
62330895 TCATATATTC
*
62330905 AAGATTGCATATCATATCTAAGATTGCATATCATATCT
1 AAGATTGCATATC--CT-TAAGATTGCATATCATATCT
62330943 AAGATTGTATCATAT-C-TAAGATTGCATATCATATCT
1 AAGATTG---CATATCCTTAAGATTGCATATCATATCT
62330979 AAGATTGCATATCCTTAAAGATT
1 AAGATTGCATATCCTT-AAGATT
62331002 ATATTTCCAT
Statistics
Matches: 52, Mismatches: 1, Indels: 14
0.78 0.01 0.21
Matches are distributed among these distances:
33 5 0.10
34 1 0.02
35 1 0.02
36 33 0.63
38 7 0.13
41 5 0.10
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (35 bp):
AAGATTGCATATCCTTAAGATTGCATATCATATCT
Found at i:62331752 original size:206 final size:206
Alignment explanation
Indices: 62331381--62331892 Score: 819
Period size: 206 Copynumber: 2.5 Consensus size: 206
62331371 AATCTGTTAT
* * *
62331381 CTTCGATCTGTTTTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * * *
62331446 GCGAAAACCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCTT
* * * * *
62331511 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTT-TGCCCTCCGTCGAATAT
131 GGATCTGCTTCAGTATAAACATCCGAAGGTTAGATCTGCTATGT-TTCTGCCCTCCGCCAAATAT
62331575 GGAGACGCCAAA
195 GGAGACGCCAAA
* *
62331587 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
62331652 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCTT
* *
62331717 GGATCTGCTTCAGTATAAACATCCGAGGGTTAGATCTGCTATGTTTCTGCTCTCCGCCAAATATG
131 GGATCTGCTTCAGTATAAACATCCGAAGGTTAGATCTGCTATGTTTCTGCCCTCCGCCAAATATG
*
62331782 GAGATGCCAAA
196 GAGACGCCAAA
62331793 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
*
62331858 GTGAAAGCCAAATCAGCTATGTATTCGATTTGTTC
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
62331893 TCCAAACTTT
Statistics
Matches: 282, Mismatches: 23, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
205 2 0.01
206 280 0.99
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATACCAAACCATCTT
GGATCTGCTTCAGTATAAACATCCGAAGGTTAGATCTGCTATGTTTCTGCCCTCCGCCAAATATG
GAGACGCCAAA
Found at i:62331973 original size:106 final size:106
Alignment explanation
Indices: 62331788--62331998 Score: 377
Period size: 106 Copynumber: 2.0 Consensus size: 106
62331778 TATGGAGATG
62331788 CCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
1 CCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
*
62331853 AGCACGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
66 AGCACATGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
* * *
62331894 CCAAACTTTGATTTGTTCTCTGACAATACGGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
1 CCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
*
62331959 AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTC
66 AGCACATGAAAGCCAAATCAGCTATGTATTCGATTTGTTC
62331999 CTTGTAAGCA
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (106 bp):
CCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
AGCACATGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
Found at i:62332147 original size:312 final size:311
Alignment explanation
Indices: 62331582--62332203 Score: 1012
Period size: 312 Copynumber: 2.0 Consensus size: 311
62331572 TATGGAGACG
62331582 CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
1 CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
*
62331647 AGCACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
66 AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
* * * ** * *
62331712 ATCTTGGATCTGCTTCAGTATAAACATCCGAGGGTTAGATCTGCTATGTTTCTGCTCTCCGCCAA
131 ATCTTGGATCTGCTTCAATATAAACATACGAAGGCCAGATCTACTATGTGTCTGCTCTCCGCCAA
*
62331777 ATATGGAGATGCCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTT
196 ATATGGAGACGCCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTT
* *
62331842 GCTTCATCGTAAGCACGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
261 GCTTCAGCGTAAAC-CGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
*
62331894 CCAAACTTTGATTTGTTCTCTGACAATACGGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
1 CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
*
62331959 AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
66 AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
* * * * * *
62332024 A-CATTGGATCTGCTTTAATATAAACATATGAAGGCCAGATCTATTATGTGTCTGCTTTCCGTCG
131 ATC-TTGGATCTGCTTCAATATAAACATACGAAGGCCAGATCTACTATGTGTCTGCTCTCCGCCA
*
62332088 AATATGGAGACGCCAAACTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATT
195 AATATGGAGACGCCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATT
* * *
62332153 TGCTTCAGCGTAAACCGTGAAAGCTAAATCAGCTATGTCTTTGATTTGTTC
260 TGCTTCAGCGTAAACCGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTC
62332204 CTTGTAAGCA
Statistics
Matches: 286, Mismatches: 23, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
311 34 0.12
312 252 0.88
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (311 bp):
CCAAACTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTA
AGCACATGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATC
ATCTTGGATCTGCTTCAATATAAACATACGAAGGCCAGATCTACTATGTGTCTGCTCTCCGCCAA
ATATGGAGACGCCAAACTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTT
GCTTCAGCGTAAACCGTGAAAGCCAAATCAGCTATGTATTCGATTTGTTCT
Found at i:62332265 original size:44 final size:43
Alignment explanation
Indices: 62332198--62332361 Score: 152
Period size: 44 Copynumber: 3.7 Consensus size: 43
62332188 TGTCTTTGAT
* * * * *
62332198 TTGTTCCTTGTAAGCACAAGGATGCCAAATCTGCTATCTTCAA
1 TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCGA
**
62332241 CTTGTTCCCTATAAACACAGGGATGCC--ATGCTGAAATCTTCGA
1 -TTGTTCCCTATAAACACAGGGATGCCAAAT-CTGCTATCTTCGA
* * * * * *
62332284 TCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
1 T-TG-TTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCGA
62332329 TTTGTTCCCTATAAACACAGGGATGCCAAATCT
1 -TTGTTCCCTATAAACACAGGGATGCCAAATCT
62332362 TGTTTCTTTG
Statistics
Matches: 94, Mismatches: 20, Indels: 12
0.75 0.16 0.10
Matches are distributed among these distances:
42 3 0.03
43 12 0.13
44 63 0.67
45 13 0.14
46 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
TTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCGA
Found at i:62333231 original size:26 final size:26
Alignment explanation
Indices: 62333202--62333255 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
62333192 TCACCTTGGC
62333202 CTCTCCATTTTTA-TTTTTTCATTTTT
1 CTCTCCATTTTTATTTTTTTC-TTTTT
***
62333228 CTCTTTTTTTTTATTTTTTTCTTTTT
1 CTCTCCATTTTTATTTTTTTCTTTTT
62333254 CT
1 CT
62333256 TTTCTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (26 bp):
CTCTCCATTTTTATTTTTTTCTTTTT
Found at i:62333238 original size:18 final size:18
Alignment explanation
Indices: 62333215--62333253 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
62333205 TCCATTTTTA
62333215 TTTTTTCATTTTTCTCTT
1 TTTTTTCATTTTTCTCTT
* *
62333233 TTTTTTTATTTTTTTCTT
1 TTTTTTCATTTTTCTCTT
62333251 TTT
1 TTT
62333254 CTTTTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTTTCATTTTTCTCTT
Found at i:62333244 original size:10 final size:10
Alignment explanation
Indices: 62333223--62333279 Score: 71
Period size: 11 Copynumber: 5.5 Consensus size: 10
62333213 TATTTTTTCA
62333223 TTTTTCTCTTT
1 TTTTTCT-TTT
*
62333234 TTTTT-TATT
1 TTTTTCTTTT
62333243 TTTTTCTTTT
1 TTTTTCTTTT
62333253 TCTTTTCTTTT
1 T-TTTTCTTTT
62333264 TTTTTCCTTTT
1 TTTTT-CTTTT
62333275 TTTTT
1 TTTTT
62333280 GAAATAGAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
9 7 0.17
10 9 0.22
11 25 0.61
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:62333263 original size:18 final size:17
Alignment explanation
Indices: 62333209--62333279 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 17
62333199 GGCCTCTCCA
* *
62333209 TTTTTATTTTTTC-ATT
1 TTTTTCTTTTTTCTTTT
* *
62333225 TTTCTCTTTTTTTTTATT
1 TTTTTCTTTTTTCTT-TT
62333243 TTTTTC-TTTTTCTTTT
1 TTTTTCTTTTTTCTTTT
* *
62333259 CTTTT-TTTTTCCTTTT
1 TTTTTCTTTTTTCTTTT
62333275 TTTTT
1 TTTTT
62333280 GAAATAGAAG
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
16 29 0.67
17 7 0.16
18 7 0.16
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTCTTTTTTCTTTT
Found at i:62333263 original size:26 final size:26
Alignment explanation
Indices: 62333209--62333266 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
62333199 GGCCTCTCCA
62333209 TTTTTATTTTTTCATTTTTCTCTTTT
1 TTTTTATTTTTTCATTTTTCTCTTTT
*
62333235 TTTTTATTTTTTTC-TTTTTCTTTTCTT
1 TTTTTA-TTTTTTCATTTTTCTCTT-TT
62333262 TTTTT
1 TTTTT
62333267 TTCCTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTTTATTTTTTCATTTTTCTCTTTT
Found at i:62338136 original size:22 final size:21
Alignment explanation
Indices: 62338106--62338171 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
62338096 TACAAATTAA
62338106 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
62338128 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
62338149 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
62338168 ATCT
1 ATCT
62338172 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:62338158 original size:19 final size:19
Alignment explanation
Indices: 62338123--62338220 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
62338113 AGATTACAAG
62338123 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
62338144 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62338163 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
62338180 ATCAAATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62338199 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
62338218 ATC
1 ATC
62338221 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:62338189 original size:36 final size:37
Alignment explanation
Indices: 62338123--62338220 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
62338113 AGATTACAAG
*
62338123 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCAAATCTAAGATTGCAT
62338163 ATCATATCTAAGATTG-TATCAAATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCAAATCTAAGATTGCAT
62338199 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
62338221 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCAAATCTAAGATTGCAT
Found at i:62338852 original size:11 final size:11
Alignment explanation
Indices: 62338809--62338864 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
62338799 AATTAAAAAA
*
62338809 TAAAAAATAAT
1 TAAAAATTAAT
62338820 TATAATAATTAA-
1 TA-AA-AATTAAT
* *
62338832 TAATATATTATT
1 TAA-AAATTAAT
62338844 TAAAAATTAAT
1 TAAAAATTAAT
62338855 TAAAAATTAA
1 TAAAAATTAA
62338865 ATGCGTAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
11 23 0.64
12 8 0.22
13 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TAAAAATTAAT
Found at i:62339195 original size:18 final size:19
Alignment explanation
Indices: 62339174--62339217 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
62339164 TATTTTAACC
*
62339174 TTTTATTTAAT-TTTATAT
1 TTTTATTTAATCTTTAAAT
*
62339192 TTTT-TTTAGTCTTTAAAT
1 TTTTATTTAATCTTTAAAT
62339210 TTTTATTT
1 TTTTATTT
62339218 TTTTTGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 14 0.64
19 3 0.14
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATTTAATCTTTAAAT
Found at i:62341164 original size:13 final size:14
Alignment explanation
Indices: 62341148--62341183 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
62341138 CAATCTCATA
62341148 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
62341161 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
62341174 TCTC-ATTTCA
1 TCTCAATTTCA
62341184 TTCCAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:62341173 original size:18 final size:19
Alignment explanation
Indices: 62341135--62341175 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
62341125 TGGTTCATGT
62341135 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
62341154 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
62341172 TTTC
1 TTTC
62341176 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:62341344 original size:27 final size:29
Alignment explanation
Indices: 62341276--62341346 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 29
62341266 ATACACGGAT
* *
62341276 TCCTCCCAAACACACCCGAAATATTATAAA
1 TCCTCCCAAACACACCAGAAATATCAT-AA
*
62341306 TCCT-CCATAACACACCAG-TATATCAT-A
1 TCCTCCCA-AACACACCAGAAATATCATAA
62341333 TCCTCCCAAACACA
1 TCCTCCCAAACACA
62341347 ACAATAAGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
27 11 0.31
28 3 0.08
29 9 0.25
30 13 0.36
ACGTcount: A:0.39, C:0.37, G:0.03, T:0.21
Consensus pattern (29 bp):
TCCTCCCAAACACACCAGAAATATCATAA
Found at i:62341813 original size:15 final size:15
Alignment explanation
Indices: 62341793--62341839 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
62341783 TATTATATAT
62341793 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
62341808 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
62341823 TTCAATCAATATAAA
1 TTCAATCAATATAAA
62341838 TT
1 TT
62341840 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:62342786 original size:23 final size:23
Alignment explanation
Indices: 62342750--62342803 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
62342740 GTCCCCTGCT
*
62342750 ATTCTGTTTCTTTCCTTCTTTTA
1 ATTCTTTTTCTTTCCTTCTTTTA
* * *
62342773 ATTCTTTTTGTTTCTTTCTTTTG
1 ATTCTTTTTCTTTCCTTCTTTTA
*
62342796 TTTCTTTT
1 ATTCTTTT
62342804 ATATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.06, C:0.17, G:0.06, T:0.72
Consensus pattern (23 bp):
ATTCTTTTTCTTTCCTTCTTTTA
Found at i:62342796 original size:13 final size:13
Alignment explanation
Indices: 62342778--62342802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
62342768 TTTTAATTCT
62342778 TTTTGTTTCTTTC
1 TTTTGTTTCTTTC
62342791 TTTTGTTTCTTT
1 TTTTGTTTCTTT
62342803 TATATATATA
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:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTGTTTCTTTC
Done.