Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 89 of 213
Found at i:24515700 original size:22 final size:22
Alignment explanation
Indices: 24515675--24515751 Score: 84
Period size: 22 Copynumber: 3.4 Consensus size: 22
24515665 ACTATTAAAT
24515675 AGAGAGCACTAAAGTGCTATAC
1 AGAGAGCACTAAAGTGCTATAC
* *
24515697 AGAGAGCAC-AAATGTGCTAAAT
1 AGAGAGCACTAAA-GTGCTATAC
*
24515719 AGAGAGCACTAATGTGCTGATAATC
1 AGAGAGCACTAAAGTGCT-AT-A-C
24515744 AGAGAGCA
1 AGAGAGCA
24515752 TGCTAGTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
21 3 0.07
22 30 0.67
23 3 0.07
24 1 0.02
25 8 0.18
ACGTcount: A:0.42, C:0.16, G:0.25, T:0.18
Consensus pattern (22 bp):
AGAGAGCACTAAAGTGCTATAC
Found at i:24515751 original size:25 final size:24
Alignment explanation
Indices: 24515675--24515846 Score: 121
Period size: 25 Copynumber: 7.4 Consensus size: 24
24515665 ACTATTAAAT
*
24515675 AGAGAGCACTAAAGTGCTAT-A-C
1 AGAGAGCACTAACGTGCTATAATC
* *
24515697 AGAGAGCACAAATGTGCTA-AAT-
1 AGAGAGCACTAACGTGCTATAATC
*
24515719 AGAGAGCACTAATGTGCTGATAATC
1 AGAGAGCACTAACGTGCT-ATAATC
24515744 AGAGAG--C--A--TGCTAGTAATC
1 AGAGAGCACTAACGTGCTA-TAATC
* *
24515763 AAAGAGCACTGACGTGCTAATAATC
1 AGAGAGCACTAACGTGCT-ATAATC
* * *
24515788 AGAGAGCATTGACATGCTAATAATC
1 AGAGAGCACTAACGTGCT-ATAATC
* * *
24515813 AGATAACACTGACGTGCTAATAATC
1 AGAGAGCACTAACGTGCT-ATAATC
24515838 AGAGAGCAC
1 AGAGAGCAC
24515847 ACTAAACTCC
Statistics
Matches: 124, Mismatches: 13, Indels: 23
0.77 0.08 0.14
Matches are distributed among these distances:
18 1 0.01
19 14 0.11
21 2 0.02
22 35 0.28
23 3 0.02
24 3 0.02
25 65 0.52
26 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.20
Consensus pattern (24 bp):
AGAGAGCACTAACGTGCTATAATC
Found at i:24515812 original size:50 final size:50
Alignment explanation
Indices: 24515750--24515845 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
24515740 AATCAGAGAG
* *
24515750 CATGCTAGTAATCAAAGAGCACTGACGTGCTAATAATCAGAGAGCATTGA
1 CATGCTAATAATCAAAGAACACTGACGTGCTAATAATCAGAGAGCATTGA
* *
24515800 CATGCTAATAATCAGATAACACTGACGTGCTAATAATCAGAGAGCA
1 CATGCTAATAATCAAAGAACACTGACGTGCTAATAATCAGAGAGCA
24515846 CACTAAACTC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (50 bp):
CATGCTAATAATCAAAGAACACTGACGTGCTAATAATCAGAGAGCATTGA
Found at i:24524946 original size:19 final size:20
Alignment explanation
Indices: 24524901--24524946 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
24524891 TAGGGACTAA
24524901 ATTGAAAAGATTTAAAATTT
1 ATTGAAAAGATTTAAAATTT
* *
24524921 ATGGAAAA-ATTTTAAATTT
1 ATTGAAAAGATTTAAAATTT
*
24524940 TTTGAAA
1 ATTGAAA
24524947 TACATGGGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (20 bp):
ATTGAAAAGATTTAAAATTT
Found at i:24525458 original size:24 final size:24
Alignment explanation
Indices: 24525426--24525476 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24525416 CAACTTGCAA
* *
24525426 GAGTGTCCCATTATTAGCTCTCAT
1 GAGTATCCCAATATTAGCTCTCAT
* *
24525450 GAGTATCCCAATATTGGCTCTCTT
1 GAGTATCCCAATATTAGCTCTCAT
24525474 GAG
1 GAG
24525477 CTACCCGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (24 bp):
GAGTATCCCAATATTAGCTCTCAT
Found at i:24525568 original size:25 final size:25
Alignment explanation
Indices: 24525526--24525597 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
24525516 GCTTTTTCAT
*
24525526 GAGCTTCCCGACTAATGGCTCTCCA-
1 GAGCTTCTCGA-TAATGGCTCTCCAC
*
24525551 GAGCTTCTCGATATATGGCTC-GCAC
1 GAGCTTCTCGATA-ATGGCTCTCCAC
*
24525576 GAGCTTCTTGATAAATGGCTCT
1 GAGCTTCTCGAT-AATGGCTCT
24525598 TTGAAGCTAC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.10
25 35 0.88
26 1 0.03
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (25 bp):
GAGCTTCTCGATAATGGCTCTCCAC
Found at i:24536741 original size:16 final size:16
Alignment explanation
Indices: 24536720--24536784 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
24536710 TTCGCTGTAT
*
24536720 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
24536736 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
24536752 TGGAATAGAGGTGTAA
1 TGGAATAGAGGCGTAA
* *
24536768 TGGATTAGAGGTGTAA
1 TGGAATAGAGGCGTAA
24536784 T
1 T
24536785 AGCAAATCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.37, C:0.03, G:0.35, T:0.25
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:24536822 original size:45 final size:44
Alignment explanation
Indices: 24536763--24536857 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 44
24536753 GGAATAGAGG
*
24536763 TGTAATGGATTAGAGGTGTAATAGCAAATCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAG--AATCAATGTGTTTGGTTGAA
* * *
24536808 TGTAATGGAATAGAGGTGTAATAGTATTATTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGAATCAATGTGTTTGGTTGAA
24536852 TGTAAT
1 TGTAAT
24536858 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 4 0.09
44 18 0.40
45 23 0.51
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (44 bp):
TGTAATGGAATAGAGGTGTAATAGAATCAATGTGTTTGGTTGAA
Found at i:24537035 original size:16 final size:16
Alignment explanation
Indices: 24536998--24537039 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
24536988 TTAATCATAT
*
24536998 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
24537014 TT-AAATATATTATAA
1 TTAAAATATATTATAA
24537029 TTAAAATATAT
1 TTAAAATATAT
24537040 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:24537046 original size:14 final size:15
Alignment explanation
Indices: 24537007--24537048 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
24536997 TTTAAACATA
*
24537007 ATTATTATTAAATAT
1 ATTATAATTAAATAT
24537022 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
24537036 A-TATAATTTAATA
1 ATTATAATTAAATA
24537049 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:24537166 original size:14 final size:15
Alignment explanation
Indices: 24537117--24537168 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
24537107 ATAAAATATA
24537117 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
24537132 TATTAAATATATTAT
1 AATTAAATATATTAT
24537147 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
24537160 AATTTAATA
1 AATTAAATA
24537169 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:24537277 original size:16 final size:16
Alignment explanation
Indices: 24537233--24537279 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
24537223 TACTATAAAA
*
24537233 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
24537249 TATTATT-AAATATAT
1 TATAATTAAAATATAT
24537264 TATAATTAAAATATAT
1 TATAATTAAAATATAT
24537280 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:24537359 original size:120 final size:120
Alignment explanation
Indices: 24536996--24537343 Score: 662
Period size: 120 Copynumber: 2.9 Consensus size: 120
24536986 ATTTAATCAT
24536996 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
24537061 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
*
24537117 AATTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
24537182 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
24537237 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
24537302 TTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATA
24537344 ATTTAACATA
Statistics
Matches: 223, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
119 4 0.02
120 216 0.97
121 3 0.01
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
Found at i:24537364 original size:59 final size:59
Alignment explanation
Indices: 24537056--24537364 Score: 155
Period size: 59 Copynumber: 5.2 Consensus size: 59
24537046 ATAAAATTCT
* *
24537056 TAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-A
1 TAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATAATTTAAAATAA
* * * * * *
24537115 T-A-AATTAACATAATTATTAT-TAAATATA-TTATAAT--TAAAATATATAATTTAATAA-AA
1 TAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCATAATATAGATAATTTAA-AATAA
* * *
24537172 TTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAT-A
1 ----TAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATAATTTAAAATAA
* * * * * *
24537235 TAAT--TTAACATAATTATTAT-TAAATATA-TTATAAT--TAAAATATATAATTTAATAA-AA
1 TAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCATAATATAGATAATTTAA-AATAA
*
24537292 TTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATAATTTAACATAA
1 ----TAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATAATTTAAAATAA
*
24537355 TAATTATTAA
1 TAATAATTAA
24537365 ATATATTAAA
Statistics
Matches: 181, Mismatches: 34, Indels: 70
0.64 0.12 0.25
Matches are distributed among these distances:
56 14 0.08
57 23 0.13
58 7 0.04
59 36 0.20
60 28 0.15
61 27 0.15
62 8 0.04
63 31 0.17
64 7 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (59 bp):
TAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATAATTTAAAATAA
Found at i:24546621 original size:14 final size:14
Alignment explanation
Indices: 24546602--24546629 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24546592 CCTTGGGTAT
24546602 GATCCTCGGAGTAC
1 GATCCTCGGAGTAC
24546616 GATCCTCGGAGTAC
1 GATCCTCGGAGTAC
24546630 TCACCTACTT
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:0.21, C:0.29, G:0.29, T:0.21
Consensus pattern (14 bp):
GATCCTCGGAGTAC
Found at i:24548496 original size:76 final size:77
Alignment explanation
Indices: 24548348--24548501 Score: 256
Period size: 76 Copynumber: 2.0 Consensus size: 77
24548338 TTCTGCTCAC
* *
24548348 CGCCTTATTTCTCCTTCTCTCATTTTTCTTATTTCTCCATGTAAGAAGTCACAACGTGATAAAGT
1 CGCCTTATTTCTCATTCTCTCATCTTTCTTATTTCTCCATGTAAGAAGTCACAACGTGATAAAGT
24548413 AACTACGGTCAG
66 AACTACGGTCAG
** *
24548425 CGCCTTATTTCTCATTCTCTCATCTTTCTTATTT-TCCATGTTGGAATTCACAACGTGATAAAGT
1 CGCCTTATTTCTCATTCTCTCATCTTTCTTATTTCTCCATGTAAGAAGTCACAACGTGATAAAGT
24548489 AACTACGGTCAG
66 AACTACGGTCAG
24548501 C
1 C
24548502 TTACGAGTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
76 40 0.56
77 32 0.44
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (77 bp):
CGCCTTATTTCTCATTCTCTCATCTTTCTTATTTCTCCATGTAAGAAGTCACAACGTGATAAAGT
AACTACGGTCAG
Found at i:24552613 original size:19 final size:18
Alignment explanation
Indices: 24552585--24552627 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
24552575 CTCATTCACA
*
24552585 TCTCTTCTCTCACAACTTT
1 TCTCTCCTCTCAC-ACTTT
*
24552604 TCTCTCCTCTCTCACTTT
1 TCTCTCCTCTCACACTTT
*
24552622 TTTCTC
1 TCTCTC
24552628 TCATTTTCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.09, C:0.40, G:0.00, T:0.51
Consensus pattern (18 bp):
TCTCTCCTCTCACACTTT
Found at i:24564334 original size:16 final size:16
Alignment explanation
Indices: 24564306--24564340 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
24564296 GCAAATTAGT
24564306 AATAAAACTAAAGTAA
1 AATAAAACTAAAGTAA
24564322 AATAATAAC-AAAGTAA
1 AATAA-AACTAAAGTAA
24564338 AAT
1 AAT
24564341 TTCATCTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (16 bp):
AATAAAACTAAAGTAA
Found at i:24573212 original size:33 final size:34
Alignment explanation
Indices: 24573175--24573246 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
24573165 GAGTTTGTTT
24573175 ATTAAATTTAGTTCAACTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
* *
24573208 ATTAATTTTAGTTCAACTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
24573242 ATTAA
1 ATTAA
24573247 TTTGTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAACTCAAATAAGTGTTAGTA
Found at i:24576708 original size:21 final size:23
Alignment explanation
Indices: 24576673--24576714 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24576663 TAAATGTACG
24576673 TTCATTGAACATTAC-CTTTTTA
1 TTCATTGAACATTACTCTTTTTA
*
24576695 TTCATTG-TCATTACTCTTTT
1 TTCATTGAACATTACTCTTTT
24576715 CATTTTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.21, C:0.19, G:0.05, T:0.55
Consensus pattern (23 bp):
TTCATTGAACATTACTCTTTTTA
Found at i:24576965 original size:35 final size:34
Alignment explanation
Indices: 24576904--24577062 Score: 201
Period size: 34 Copynumber: 4.6 Consensus size: 34
24576894 TACATCGATA
* * *
24576904 ATCCAACCGAAACAGACTAGATGCTCATAAGAGCT
1 ATCCATCCGAAACACACCA-ATGCTCATAAGAGCT
* *
24576939 AATCCATCTGGAACACACCAATGCTCATAAGAGCT
1 -ATCCATCCGAAACACACCAATGCTCATAAGAGCT
*
24576974 AATCCATCCGAAACACATCAATGCTCATAAGAGCT
1 -ATCCATCCGAAACACACCAATGCTCATAAGAGCT
* * *
24577009 ATCCATCCAAAACACACTAATGCTCATAAAAGCT
1 ATCCATCCGAAACACACCAATGCTCATAAGAGCT
*
24577043 ATCCATCCAAAACACACCAA
1 ATCCATCCGAAACACACCAA
24577063 AACAAAGAGT
Statistics
Matches: 110, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
34 49 0.45
35 47 0.43
36 14 0.13
ACGTcount: A:0.42, C:0.30, G:0.11, T:0.18
Consensus pattern (34 bp):
ATCCATCCGAAACACACCAATGCTCATAAGAGCT
Found at i:24577031 original size:69 final size:71
Alignment explanation
Indices: 24576902--24577059 Score: 207
Period size: 69 Copynumber: 2.3 Consensus size: 71
24576892 AGTACATCGA
* * ***
24576902 TAATCCAACCGAAACAGACTAGATGCTCATAAGAGCTAATCCATCTGGAACACACCAATGCTCAT
1 TAATCCATCCGAAACACACTAGATGCTCATAAGAGCTAATCCATCCAAAACACACCAATGCTCAT
*
24576967 AAGAGC
66 AAAAGC
*
24576973 TAATCCATCCGAAACACA-TCA-ATGCTCATAAGAGCT-ATCCATCCAAAACACACTAATGCTCA
1 TAATCCATCCGAAACACACT-AGATGCTCATAAGAGCTAATCCATCCAAAACACACCAATGCTCA
24577035 TAAAAGC
65 TAAAAGC
*
24577042 T-ATCCATCCAAAACACAC
1 TAATCCATCCGAAACACAC
24577060 CAAAACAAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
68 15 0.19
69 29 0.38
70 16 0.21
71 17 0.22
ACGTcount: A:0.41, C:0.29, G:0.11, T:0.19
Consensus pattern (71 bp):
TAATCCATCCGAAACACACTAGATGCTCATAAGAGCTAATCCATCCAAAACACACCAATGCTCAT
AAAAGC
Found at i:24580373 original size:19 final size:19
Alignment explanation
Indices: 24580349--24580392 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
24580339 GACCCCTGCA
* *
24580349 TCTCAAATTTTCATG-TTTT
1 TCTCAAAATTTC-TGATTTG
24580368 TCTCAAAATTTCTGATTTG
1 TCTCAAAATTTCTGATTTG
24580387 TCTCAA
1 TCTCAA
24580393 TTTGATCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.50
Consensus pattern (19 bp):
TCTCAAAATTTCTGATTTG
Found at i:24581693 original size:33 final size:34
Alignment explanation
Indices: 24581635--24581713 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
24581625 GACAATCAAT
* *
24581635 ATACAACAAGCAGTGACAGTCTGGGCCTGAGCCCT
1 ATACAATAA-CAGTGACAGTCTGGGCCTGAGCCCA
* * *
24581670 ATTCAATAACAGT-ACAGTGTGGGCCTTAGCCCA
1 ATACAATAACAGTGACAGTCTGGGCCTGAGCCCA
24581703 ATACAATAACA
1 ATACAATAACA
24581714 ATATGGGCCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 27 0.71
34 4 0.11
35 7 0.18
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (34 bp):
ATACAATAACAGTGACAGTCTGGGCCTGAGCCCA
Found at i:24581704 original size:28 final size:28
Alignment explanation
Indices: 24581673--24581763 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
24581663 GAGCCCTATT
*
24581673 CAATAACAGT-ACAGTGTGGGCCTTAGCC
1 CAAT-ACAGTAACAATGTGGGCCTTAGCC
* *
24581701 CAATACAATAACAATATGGGCCTTAGCC
1 CAATACAGTAACAATGTGGGCCTTAGCC
*
24581729 CAATACAGTAATAATGTGGGCCTTAGCC
1 CAATACAGTAACAATGTGGGCCTTAGCC
24581757 CAATACA
1 CAATACA
24581764 ATATCGGTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 4 0.07
28 52 0.93
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (28 bp):
CAATACAGTAACAATGTGGGCCTTAGCC
Found at i:24581766 original size:33 final size:33
Alignment explanation
Indices: 24581656--24581766 Score: 82
Period size: 33 Copynumber: 3.7 Consensus size: 33
24581646 AGTGACAGTC
* * * * *
24581656 TGGGCCTGAGCCCTATTCAATAACAGT-ACAGTG
1 TGGGCCTTAGCCCAATACAAT-ACAGTAATAATG
*
24581689 TGGGCCTTAGCCCAATACAATA-A-CAAT-A--
1 TGGGCCTTAGCCCAATACAATACAGTAATAATG
24581717 TGGGCCTTAG-CC----CAATACAGTAATAATG
1 TGGGCCTTAGCCCAATACAATACAGTAATAATG
24581745 TGGGCCTTAGCCCAATACAATA
1 TGGGCCTTAGCCCAATACAATA
24581767 TCGGTACAGT
Statistics
Matches: 60, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
23 5 0.08
24 1 0.02
25 3 0.05
26 1 0.02
27 2 0.03
28 20 0.33
29 2 0.03
31 2 0.03
32 1 0.02
33 23 0.38
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.23
Consensus pattern (33 bp):
TGGGCCTTAGCCCAATACAATACAGTAATAATG
Found at i:24581903 original size:26 final size:26
Alignment explanation
Indices: 24581874--24581976 Score: 143
Period size: 26 Copynumber: 4.0 Consensus size: 26
24581864 AACACACCAA
*
24581874 TATCGCAGCAAAGCTACCAGTAATAG
1 TATCGCAGCAAAGCTACCAGTAACAG
* * * *
24581900 TATCACAACGAAGCTATCAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
*
24581926 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
*
24581952 TATCGCAGCAAAGCTACCAATAACA
1 TATCGCAGCAAAGCTACCAGTAACA
24581977 ATATACTTCC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.17
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTAACAG
Found at i:24582657 original size:27 final size:26
Alignment explanation
Indices: 24582144--24582654 Score: 538
Period size: 27 Copynumber: 19.0 Consensus size: 26
24582134 GGGTATAATA
* * *
24582144 GTCATTTTACTCTATGGGGGCATTTC
1 GTCATTTTACCCTATGGGGGTAATTC
* * * *
24582170 GATCATTCTACCATATGGGGGTACTTTG
1 G-TCATTTTACCCTATGGGGGTA-ATTC
24582198 GTCATTTTACCCTATGGGGGTAATTC
1 GTCATTTTACCCTATGGGGGTAATTC
* * *
24582224 GATCATTTTACCCTATAGAGGTATTTC
1 G-TCATTTTACCCTATGGGGGTAATTC
* * *
24582251 GATCATTCTACCCTAT-AGGGTATTTC
1 G-TCATTTTACCCTATGGGGGTAATTC
* *
24582277 GATCATTTTACCTTATAGGGGTAATTC
1 G-TCATTTTACCCTATGGGGGTAATTC
* * *
24582304 GATCATTCTACCTTATGGGGGTATTTC
1 G-TCATTTTACCCTATGGGGGTAATTC
* *
24582331 AGTCACTCTACCCTATGGGGGTAATTC
1 -GTCATTTTACCCTATGGGGGTAATTC
* *
24582358 AGTTATTTTACCCTATGGGGATAATTC
1 -GTCATTTTACCCTATGGGGGTAATTC
* *
24582385 GGTCATTTTACCCTGTGAGGGTAATTC
1 -GTCATTTTACCCTATGGGGGTAATTC
*
24582412 AGTTATTTTACCCTATGGGGGTAATTC
1 -GTCATTTTACCCTATGGGGGTAATTC
*
24582439 GATTATTTTACCCTATGGGGGTAATTC
1 G-TCATTTTACCCTATGGGGGTAATTC
* *
24582466 GATCATTTTACCCTATGAGGGTATTTC
1 G-TCATTTTACCCTATGGGGGTAATTC
* *
24582493 GGTCATTTTACCCTATGAGAGTAATTC
1 -GTCATTTTACCCTATGGGGGTAATTC
* *
24582520 GGTCATTTTACCCTATGAGGGTATTTC
1 -GTCATTTTACCCTATGGGGGTAATTC
24582547 GATCATTTTACCCTATGGGGGTAATTC
1 G-TCATTTTACCCTATGGGGGTAATTC
* *
24582574 GATAATTTTACCCTATAGGGGTAATTC
1 G-TCATTTTACCCTATGGGGGTAATTC
24582601 AGTCATTTTACCCTATGGGGGTAATTC
1 -GTCATTTTACCCTATGGGGGTAATTC
*
24582628 AGTCATTTTATCCTATGGGGGTAATTC
1 -GTCATTTTACCCTATGGGGGTAATTC
24582655 AGTTATAAGA
Statistics
Matches: 424, Mismatches: 52, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
26 28 0.07
27 389 0.92
28 7 0.02
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGGTAATTC
Found at i:24583398 original size:28 final size:28
Alignment explanation
Indices: 24583357--24583413 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
24583347 TTCATGCAGC
* * *
24583357 AACAGTGTAGGCCTTATCCCAATATAGT
1 AACAATGTAGGCCTTAGCCCAATACAGT
*
24583385 AACAATGTGGGCCTTAGCCCAATACAGT
1 AACAATGTAGGCCTTAGCCCAATACAGT
24583413 A
1 A
24583414 TCGGTACAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (28 bp):
AACAATGTAGGCCTTAGCCCAATACAGT
Found at i:24583690 original size:32 final size:32
Alignment explanation
Indices: 24583640--24583794 Score: 139
Period size: 32 Copynumber: 4.8 Consensus size: 32
24583630 AGCCATAAAT
***
24583640 ACAGTAATATGGTTGGCACAAAGCCATCAGTA
1 ACAGTAATATGACCGGCACAAAGCCATCAGTA
* * * *
24583672 GCAGTGATATGATCGGCACATAGCCATCAGTA
1 ACAGTAATATGACCGGCACAAAGCCATCAGTA
** * *
24583704 ATGGTAATATGACCGACACAAAGCCATCAGTT
1 ACAGTAATATGACCGGCACAAAGCCATCAGTA
* * ** * * *
24583736 GCAGTGATATGATTGACACACAGTCATCAGTA
1 ACAGTAATATGACCGGCACAAAGCCATCAGTA
*
24583768 ACGGTAATATGACCGGCACAAAGCCAT
1 ACAGTAATATGACCGGCACAAAGCCAT
24583795 TAGCAGCATC
Statistics
Matches: 93, Mismatches: 30, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
32 93 1.00
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (32 bp):
ACAGTAATATGACCGGCACAAAGCCATCAGTA
Found at i:24583730 original size:64 final size:64
Alignment explanation
Indices: 24583656--24583794 Score: 215
Period size: 64 Copynumber: 2.2 Consensus size: 64
24583646 ATATGGTTGG
* * *
24583656 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACATAGCCATCAGTAATGGTAATATGACCGA
1 CACAAAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATCAGTAACGGTAATATGACCGA
* * * *
24583720 CACAAAGCCATCAGTTGCAGTGATATGATTGACACACAGTCATCAGTAACGGTAATATGACCGG
1 CACAAAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATCAGTAACGGTAATATGACCGA
24583784 CACAAAGCCAT
1 CACAAAGCCAT
24583795 TAGCAGCATC
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 68 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (64 bp):
CACAAAGCCATCAGTAGCAGTGATATGATCGACACACAGCCATCAGTAACGGTAATATGACCGA
Found at i:24583829 original size:26 final size:26
Alignment explanation
Indices: 24583798--24583849 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
24583788 AAGCCATTAG
** *
24583798 CAGCATCGTAGCAAAGCTACGAGTAA
1 CAGCATCACAGCAAAGCTACCAGTAA
24583824 CAGCATCACAGCAAAGCTACCAGTAA
1 CAGCATCACAGCAAAGCTACCAGTAA
24583850 ACAGAATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.13
Consensus pattern (26 bp):
CAGCATCACAGCAAAGCTACCAGTAA
Found at i:24584029 original size:24 final size:24
Alignment explanation
Indices: 24583999--24584057 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
24583989 ATAGATAAAA
*
24583999 CAATCATTTAAATTACAGACAAAT
1 CAATCATTTAAATCACAGACAAAT
* ** *
24584023 CAGTCATTTTCATCACAGACCAAT
1 CAATCATTTAAATCACAGACAAAT
24584047 CAATCATTTAA
1 CAATCATTTAA
24584058 CCTCGAGGGA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (24 bp):
CAATCATTTAAATCACAGACAAAT
Found at i:24584118 original size:27 final size:26
Alignment explanation
Indices: 24584088--24584145 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
24584078 TTTACCCTCT
* *
24584088 AGGGGCATTACGGTTATTTTACCTTA
1 AGGGGCATTACGGTCATTTTACCGTA
* **
24584114 CAGGGGTATTTTGGTCATTTTACCGTA
1 -AGGGGCATTACGGTCATTTTACCGTA
24584141 AGGGG
1 AGGGG
24584146 GTATCTCGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (26 bp):
AGGGGCATTACGGTCATTTTACCGTA
Found at i:24584156 original size:27 final size:27
Alignment explanation
Indices: 24584098--24584156 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
24584088 AGGGGCATTA
* * *
24584098 CGGTTATTTTACCTTACAGGGGTATTT
1 CGGTCATTTTACCGTACAGGGGTATCT
*
24584125 TGGTCATTTTACCGTA-AGGGGGTATCT
1 CGGTCATTTTACCGTACA-GGGGTATCT
24584152 CGGTC
1 CGGTC
24584157 CCTTTACCCC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (27 bp):
CGGTCATTTTACCGTACAGGGGTATCT
Found at i:24584268 original size:27 final size:27
Alignment explanation
Indices: 24584238--24584380 Score: 146
Period size: 27 Copynumber: 5.4 Consensus size: 27
24584228 TAATTCGATC
* *
24584238 ATTTTACCCATCGAGGATATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTAGTA
*** **
24584265 ATTTTATTGATCGAGGGTATTTCGGTA
1 ATTTTACCCATCGAGGGTATTTTAGTA
* * *
24584292 ATTTTACCTACCAAGGGTATTTTAGTA
1 ATTTTACCCATCGAGGGTATTTTAGTA
*
24584319 ATTTTACCCAT--AGGGTATTTTTGTA
1 ATTTTACCCATCGAGGGTATTTTAGTA
* * *
24584344 GTTTTACCCATTGAGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTATTTTAGTA
24584371 ATTTTACCCA
1 ATTTTACCCA
24584381 CGAATTGCAC
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
25 23 0.24
27 72 0.76
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTTAGTA
Found at i:24588293 original size:256 final size:259
Alignment explanation
Indices: 24587843--24588342 Score: 891
Period size: 256 Copynumber: 1.9 Consensus size: 259
24587833 GAAGAAAATT
* *
24587843 TTTTTGTATTTAAGACAAGGAAGAATGTTTGTGATGAAGTACAAGAATGACATGAATTTGTCAGA
1 TTTTTGTATTTAAGACAAGGAAGAATGTTTGTGATGAAGTAC-A-AATGACATGAATTTATCAAA
24587908 CTTAGCCGTTATGCTAAAACCATGTTTCAAATAAAGAAAGAAATGTGTAATAAATTTGAATAGAG
64 CTTAGCCGTTATGCTAAAACCATGTTTCAAATAAAGAAAGAAATGTGTAATAAATTTGAATAGAG
24587973 GTTAAAAGATAAGATTCATGCTTTAATAGCAGCTTTTGAATGCAACAGTTTAGTAGCCATGACAG
129 GTTAAAAGATAAGATTCATGCTTTAATAGCAGCTTTTGAATGCAACAGTTTAGTAGCCATGACAG
24588038 CTAAAGCTCA-TAAGATGGAAACTATTATTAGAGACAAAAGTAGAAATTTAGAGACAGAAGAAAG
194 CTAAAGCTCAGT-AGATGGAAACTATTATTAGAGACAAAAGTAGAAATTTAGAGACAGAAGAAAG
24588102 AA
258 AA
24588104 TTTTTGTATTTAAGACAAGGAAGAATGTTTGTGATGAAGTAC-AA-G-CATGAATTTATCAAACT
1 TTTTTGTATTTAAGACAAGGAAGAATGTTTGTGATGAAGTACAAATGACATGAATTTATCAAACT
*
24588166 TAGCCGTTATGCTAAAACCATGTTTCAAATAAAGAAAGAAATGTGTAATAAATTTGAATAGGGGT
66 TAGCCGTTATGCTAAAACCATGTTTCAAATAAAGAAAGAAATGTGTAATAAATTTGAATAGAGGT
* *
24588231 TAAAAGATGAGATTCATGCTTTAATAGCAGCTTTTGAATGCAAGAGTTTAGTAGCCATGACAGCT
131 TAAAAGATAAGATTCATGCTTTAATAGCAGCTTTTGAATGCAACAGTTTAGTAGCCATGACAGCT
*
24588296 AAAGCTCAGTAGATGGAAACTATTATTAGAGACAGAAGTAGAAATTT
196 AAAGCTCAGTAGATGGAAACTATTATTAGAGACAAAAGTAGAAATTT
24588343 TGAAAGAAAA
Statistics
Matches: 232, Mismatches: 6, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
256 186 0.80
257 2 0.01
258 2 0.01
261 42 0.18
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.29
Consensus pattern (259 bp):
TTTTTGTATTTAAGACAAGGAAGAATGTTTGTGATGAAGTACAAATGACATGAATTTATCAAACT
TAGCCGTTATGCTAAAACCATGTTTCAAATAAAGAAAGAAATGTGTAATAAATTTGAATAGAGGT
TAAAAGATAAGATTCATGCTTTAATAGCAGCTTTTGAATGCAACAGTTTAGTAGCCATGACAGCT
AAAGCTCAGTAGATGGAAACTATTATTAGAGACAAAAGTAGAAATTTAGAGACAGAAGAAAGAA
Found at i:24592636 original size:92 final size:93
Alignment explanation
Indices: 24592473--24592651 Score: 315
Period size: 92 Copynumber: 1.9 Consensus size: 93
24592463 CGCAGGAGCA
* * *
24592473 ATTCGAGTGCATAGAAATTGAATCCACATTTTTGTTACAGGAAACATTATTTCTTGATTAGATGA
1 ATTCAAGTGCACAGAAATTGAATCCACATTTTTGTTACAGGAAACATTATTGCTTGATTAGATGA
*
24592538 AGTTGGGATATCAGTACCTGGGGCGAAC
66 AGTTGGGATATCAATACCTGGGGCGAAC
24592566 ATTCAAGTGCACAGAAATTGAATCCACATTTTT-TTACAGGAAACATTATTGCTTGATTAGATGA
1 ATTCAAGTGCACAGAAATTGAATCCACATTTTTGTTACAGGAAACATTATTGCTTGATTAGATGA
24592630 AGTTGGGATATCAATACCTGGG
66 AGTTGGGATATCAATACCTGGG
24592652 CGACACTTCC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 51 0.62
93 31 0.38
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (93 bp):
ATTCAAGTGCACAGAAATTGAATCCACATTTTTGTTACAGGAAACATTATTGCTTGATTAGATGA
AGTTGGGATATCAATACCTGGGGCGAAC
Found at i:24593971 original size:31 final size:32
Alignment explanation
Indices: 24593935--24593994 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
24593925 TTTGATGAGT
*
24593935 GAATC-AATA-AGTATTATTATTAAATTTTTAC
1 GAATCAAATATAGTAATA-TATTAAATTTTTAC
*
24593966 GAATCAAATATAGTAATATATTACATTTT
1 GAATCAAATATAGTAATATATTAAATTTT
24593995 GATTTGATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 5 0.20
32 14 0.56
33 6 0.24
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (32 bp):
GAATCAAATATAGTAATATATTAAATTTTTAC
Found at i:24595800 original size:13 final size:13
Alignment explanation
Indices: 24595784--24595820 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
24595774 ATACATAATA
24595784 GTTATATGAAATG
1 GTTATATGAAATG
* *
24595797 GTTATGTGAATTG
1 GTTATATGAAATG
24595810 GTTATATGAAA
1 GTTATATGAAA
24595821 ATATATGTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.24, T:0.41
Consensus pattern (13 bp):
GTTATATGAAATG
Found at i:24597099 original size:11 final size:12
Alignment explanation
Indices: 24597068--24597102 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
24597058 CATTGATTTA
*
24597068 TGATATTTAAAT
1 TGATTTTTAAAT
24597080 TGATTTTTAAAT
1 TGATTTTTAAAT
24597092 TG-TTTTTAAAT
1 TGATTTTTAAAT
24597103 ATTATTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (12 bp):
TGATTTTTAAAT
Found at i:24600766 original size:21 final size:21
Alignment explanation
Indices: 24600737--24600777 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24600727 AATACCTAGT
*
24600737 AAAAGGTATTGATACTTTTTA
1 AAAACGTATTGATACTTTTTA
24600758 AAAACGTATTGATACTTTTT
1 AAAACGTATTGATACTTTTT
24600778 GTAATTGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (21 bp):
AAAACGTATTGATACTTTTTA
Found at i:24609057 original size:27 final size:27
Alignment explanation
Indices: 24608804--24609055 Score: 299
Period size: 27 Copynumber: 9.3 Consensus size: 27
24608794 GTAATGGGTC
*
24608804 TAAAATGACCGAAATACCCTCGGAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24608831 TAAAATAACCAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24608858 TAAAGTGACCAAAATACCCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * * *
24608885 TCAAATAACTGAAATACCCCCGAAAGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24608912 TAAAATGACCCAAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24608939 TAAAATGATCGAAATACCCTCGCAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* ** * *
24608966 TAGAATGACTAAAAAACTCTCGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
24608993 TAAAATGACCGAAATACCCTCGTAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
24609020 TAAAATGACTGAAATATCCCT-GAAGGG
1 TAAAATGACCGAAATA-CCCTCGAAGGG
24609047 TAAAATGAC
1 TAAAATGAC
24609056 TGTTATACCC
Statistics
Matches: 186, Mismatches: 38, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
27 182 0.98
28 4 0.02
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:24609270 original size:26 final size:26
Alignment explanation
Indices: 24609236--24609303 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
24609226 CATATACTGC
* *
24609236 TACTAGCAGCTTTGCTGTG-TTACTAT
1 TACTGGCAGCTTTGCTG-GATCACTAT
* *
24609262 TAGTGGCAGCTTTGTTGGATCACTAT
1 TACTGGCAGCTTTGCTGGATCACTAT
*
24609288 TACTGGTAGCTTTGCT
1 TACTGGCAGCTTTGCT
24609304 ACGATATTGG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 1 0.03
26 33 0.97
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGGATCACTAT
Found at i:24609468 original size:28 final size:28
Alignment explanation
Indices: 24609416--24609473 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
24609406 CATTGTACTG
*
24609416 TTACTGTATTGGGCTAAAGCTCACACTA
1 TTACTGTATTGGGCTAAAGCCCACACTA
*
24609444 TTACTGTATTGGGC-ATAGGCCCACACTA
1 TTACTGTATTGGGCTA-AAGCCCACACTA
24609472 TT
1 TT
24609474 GTATACTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAAGCCCACACTA
Found at i:24610851 original size:15 final size:15
Alignment explanation
Indices: 24610831--24610867 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
24610821 GATTTTTGAG
24610831 TATGTGGGCGCAAGT
1 TATGTGGGCGCAAGT
24610846 TATGTGGGCGCAAGT
1 TATGTGGGCGCAAGT
24610861 TATGTGG
1 TATGTGG
24610868 ACGCCCGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.19, C:0.11, G:0.41, T:0.30
Consensus pattern (15 bp):
TATGTGGGCGCAAGT
Found at i:24617699 original size:27 final size:27
Alignment explanation
Indices: 24617660--24617883 Score: 213
Period size: 27 Copynumber: 8.3 Consensus size: 27
24617650 GTAATGGGCC
* *
24617660 TAAAATGATCGAAATACCCTTGAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
*
24617687 TAAAATGACCGAAATACCC-CTGAAAGG
1 TAAAATGACCGAAATACCCTC-GAAGGG
* * * *
24617714 TAAAGTGATCGGAATACCCTCAAAGGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* * * * *
24617741 TAAAATAACTGAAATACCCCCAAAGGT
1 TAAAATGACCGAAATACCCTCGAAGGG
*
24617768 TAAAATGACTGAAATACCCTC-ACAGGG
1 TAAAATGACCGAAATACCCTCGA-AGGG
* *
24617795 TAGAATGACC-AAGAAACCCTCGAAGGG
1 TAAAATGACCGAA-ATACCCTCGAAGGG
* *
24617822 TAAAATGACCGAAATACCCTCGCATGG
1 TAAAATGACCGAAATACCCTCGAAGGG
* *
24617849 TAAAATGACCGAAATA-CATCTTAAGGG
1 TAAAATGACCGAAATACCCTC-GAAGGG
24617876 TAAAATGA
1 TAAAATGA
24617884 ATGTTATACC
Statistics
Matches: 161, Mismatches: 29, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
26 6 0.04
27 151 0.94
28 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCTCGAAGGG
Found at i:24618167 original size:28 final size:28
Alignment explanation
Indices: 24618126--24618206 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
24618116 ACTGCATTGT
* *
24618126 ACTGTTACTGTATTGGGCTAAGGCCCGC
1 ACTGTTATTGTATTGGGCTAAGGCCCAC
* *
24618154 ACTGTTATTATATTTGGCTAAGGCCCAC
1 ACTGTTATTGTATTGGGCTAAGGCCCAC
* * *
24618182 ACTGTTGTTGTATAGGGCTCAGGCC
1 ACTGTTATTGTATTGGGCTAAGGCC
24618207 TAGACTACTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (28 bp):
ACTGTTATTGTATTGGGCTAAGGCCCAC
Found at i:24626628 original size:40 final size:39
Alignment explanation
Indices: 24626550--24626793 Score: 301
Period size: 40 Copynumber: 6.1 Consensus size: 39
24626540 TACTATTTGG
* * *
24626550 TTCAGGGTTACC-AAGGTACAAACAGGGCACGCATGTGCA
1 TTCAGGGGTACCGAA-GTACAAACAGGGCACGTAAGTGCA
* *
24626589 TTAAGGGGTACCGAAGTACAAACACGGGCATGTAAGTGCA
1 TTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGCA
* * * *
24626629 TTCAGGGGTATCGAAGTATAAACAGGGGCACATATGTGCA
1 TTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGCA
* * *
24626669 TTCAAGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
1 TTCAGGGGTACCGAAGTACAAACA-GGGCACGTAAGTGCA
*
24626709 TTCAGGGGTACCAAAGTACAAACAGAGGCACGTAAGTGCA
1 TTCAGGGGTACCGAAGTACAAACAG-GGCACGTAAGTGCA
*
24626749 TTCAGGGGTGCCGAAGTACAAACAGGGACACGTAAGTGCA
1 TTCAGGGGTACCGAAGTACAAACAGGG-CACGTAAGTGCA
24626789 TTCAG
1 TTCAG
24626794 CAATAATTAT
Statistics
Matches: 180, Mismatches: 21, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 22 0.12
40 158 0.88
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (39 bp):
TTCAGGGGTACCGAAGTACAAACAGGGCACGTAAGTGCA
Found at i:24626708 original size:120 final size:120
Alignment explanation
Indices: 24626553--24626792 Score: 349
Period size: 120 Copynumber: 2.0 Consensus size: 120
24626543 TATTTGGTTC
* *
24626553 AGGGTTACCAAGGTACAAACAGGGCACGCATGTGCATTAAGGGGTACCGAAGTACAAACACG-GG
1 AGGGTTACCAAAGTACAAACAGGGCACGCATGTGCATTAAGGGGTACCAAAGTACAAACA-GAGG
* * * * *
24626617 CATGTAAGTGCATTCAGGGGTATCGAAGTATAAACAGGGGCACATATGTGCATTCA
65 CACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAGGGACACATAAGTGCATTCA
* *
24626673 AGGG-TACCAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTACAAACAGAGG
1 AGGGTTACCAAAGTACAAACA-GGGCACGCATGTGCATTAAGGGGTACCAAAGTACAAACAGAGG
* *
24626737 CACGTAAGTGCATTCAGGGGTGCCGAAGTACAAACAGGGACACGTAAGTGCATTCA
65 CACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAGGGACACATAAGTGCATTCA
24626793 GCAATAATTA
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
119 16 0.15
120 91 0.85
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.17
Consensus pattern (120 bp):
AGGGTTACCAAAGTACAAACAGGGCACGCATGTGCATTAAGGGGTACCAAAGTACAAACAGAGGC
ACGTAAGTGCATTCAGGGGTACCGAAGTACAAACAGGGACACATAAGTGCATTCA
Found at i:24632869 original size:26 final size:26
Alignment explanation
Indices: 24632833--24632893 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
24632823 CTGTAAGTGT
* *
24632833 TCTGACACTGATACATGCTATGATAA
1 TCTGAAACTGATAAATGCTATGATAA
* *
24632859 TCTGAAACTGATAAATGTTATGATAT
1 TCTGAAACTGATAAATGCTATGATAA
24632885 TCTGAAACT
1 TCTGAAACT
24632894 ATTGTAGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (26 bp):
TCTGAAACTGATAAATGCTATGATAA
Found at i:24641260 original size:31 final size:31
Alignment explanation
Indices: 24641225--24641287 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
24641215 ATGCACAAAG
*
24641225 ACTTATCATAGAGAGCTCACATAGGGAGCTT
1 ACTTATCACAGAGAGCTCACATAGGGAGCTT
**
24641256 ACTTATCACAGAGAGCTTGCATAGGGAGCTT
1 ACTTATCACAGAGAGCTCACATAGGGAGCTT
24641287 A
1 A
24641288 TTTGAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (31 bp):
ACTTATCACAGAGAGCTCACATAGGGAGCTT
Found at i:24643868 original size:17 final size:17
Alignment explanation
Indices: 24643833--24643865 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
24643823 TTAAGATAAG
*
24643833 TATTAAATTTAATTTAA
1 TATTAAATTTAATTAAA
24643850 TATTAAATTT-ATTAAA
1 TATTAAATTTAATTAAA
24643866 ATAATATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TATTAAATTTAATTAAA
Found at i:24647886 original size:40 final size:40
Alignment explanation
Indices: 24647838--24647925 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
24647828 CAATAATTAG
*
24647838 AGCAATAGCGGCGTTTATGGGAAAAATGCTGCAAAAGGTA
1 AGCAATAGCGGCGTTTATGGGAAAAACGCTGCAAAAGGTA
24647878 AGCAATAGCGGCGTTTATGGGAAAAACGCTGCAAAAGGTA
1 AGCAATAGCGGCGTTTATGGGAAAAACGCTGCAAAAGGTA
24647918 AGCAATAG
1 AGCAATAG
24647926 TGGCCGTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.39, C:0.14, G:0.30, T:0.18
Consensus pattern (40 bp):
AGCAATAGCGGCGTTTATGGGAAAAACGCTGCAAAAGGTA
Found at i:24648072 original size:48 final size:48
Alignment explanation
Indices: 24648017--24648114 Score: 144
Period size: 48 Copynumber: 2.0 Consensus size: 48
24648007 TTCTCAATCA
**
24648017 TTTCTTTGCTTGAAAC-CTTAAAATCCTGTCCCTTTTCTTTCCTAGACT
1 TTTCTTTGCTTGAAACTC-TAAAATCCCATCCCTTTTCTTTCCTAGACT
* *
24648065 TTTCTTTGCTTGAAACTCTAAAATCCCATCCCTTTTCTTTCTTAGTCT
1 TTTCTTTGCTTGAAACTCTAAAATCCCATCCCTTTTCTTTCCTAGACT
24648113 TT
1 TT
24648115 AAATTACTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
48 44 0.98
49 1 0.02
ACGTcount: A:0.18, C:0.27, G:0.07, T:0.48
Consensus pattern (48 bp):
TTTCTTTGCTTGAAACTCTAAAATCCCATCCCTTTTCTTTCCTAGACT
Found at i:24648125 original size:48 final size:48
Alignment explanation
Indices: 24648025--24648127 Score: 118
Period size: 48 Copynumber: 2.1 Consensus size: 48
24648015 CATTTCTTTG
** *** *
24648025 CTTGAAACCTTAAAATCCTGTCCCTTTTCTTTCCTAGACTTTTCTTTG
1 CTTGAAACCTTAAAATCCCATCCCTTTTCTTTCCTAGACTTTAAATTA
* *
24648073 CTTGAAA-CTCTAAAATCCCATCCCTTTTCTTTCTTAGTCTTTAAATTA
1 CTTGAAACCT-TAAAATCCCATCCCTTTTCTTTCCTAGACTTTAAATTA
24648121 CTTGAAA
1 CTTGAAA
24648128 AAAATATACA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 2 0.04
48 44 0.96
ACGTcount: A:0.24, C:0.25, G:0.07, T:0.44
Consensus pattern (48 bp):
CTTGAAACCTTAAAATCCCATCCCTTTTCTTTCCTAGACTTTAAATTA
Found at i:24659964 original size:28 final size:30
Alignment explanation
Indices: 24659932--24659996 Score: 98
Period size: 28 Copynumber: 2.2 Consensus size: 30
24659922 TTTCAAAAAT
*
24659932 TTTAATAACTAAATTAAAA-AA-ATAATAG
1 TTTAATAACTAAAATAAAAGAAGATAATAG
24659960 TTTAATAACTAAAATAAAAGGAAGATAATAG
1 TTTAATAACTAAAATAAAA-GAAGATAATAG
24659991 TTTAAT
1 TTTAAT
24659997 GACCATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 18 0.55
30 2 0.06
31 13 0.39
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (30 bp):
TTTAATAACTAAAATAAAAGAAGATAATAG
Found at i:24662856 original size:6 final size:6
Alignment explanation
Indices: 24662845--24662876 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
24662835 ATTAAATCCT
24662845 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
1 CCTAAC CCTAAC CCTAAC CCTAAC CCTAAC CC
24662877 CAATGCCTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.53, G:0.00, T:0.16
Consensus pattern (6 bp):
CCTAAC
Found at i:24670653 original size:40 final size:40
Alignment explanation
Indices: 24670578--24670667 Score: 110
Period size: 40 Copynumber: 2.3 Consensus size: 40
24670568 AGGTTCAACA
* * *
24670578 TGTTTCAGTTGGATTAGCTCTTATAAGCTACTGTCTGGCG
1 TGTTTCGGTTGGATTAGCTCTCATAAGCTACTGTCTGACG
* ** *
24670618 TGTTTCGGTTGGATTAGCTCTCATGAGCTTTTGTCTGATG
1 TGTTTCGGTTGGATTAGCTCTCATAAGCTACTGTCTGACG
24670658 TG-TTCGGTTG
1 TGTTTCGGTTG
24670668 ATTTAACAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 8 0.19
40 35 0.81
ACGTcount: A:0.13, C:0.16, G:0.28, T:0.43
Consensus pattern (40 bp):
TGTTTCGGTTGGATTAGCTCTCATAAGCTACTGTCTGACG
Found at i:24690087 original size:30 final size:31
Alignment explanation
Indices: 24690045--24690115 Score: 101
Period size: 30 Copynumber: 2.3 Consensus size: 31
24690035 AAAAGTTACA
*
24690045 ATTT-AATTATTGAATTATTTAAAA-ATTTT
1 ATTTAAATCATTGAATTATTTAAAAGATTTT
*
24690074 ATTTAAATCATTGAATTATTTAAAAGTTTTTT
1 ATTTAAATCATTGAATTATTTAAAAG-ATTTT
24690106 ATTTAAATCA
1 ATTTAAATCA
24690116 CTAAGTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 4 0.11
30 19 0.51
32 14 0.38
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (31 bp):
ATTTAAATCATTGAATTATTTAAAAGATTTT
Found at i:24690094 original size:17 final size:16
Alignment explanation
Indices: 24690053--24690098 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 16
24690043 CAATTTAATT
24690053 ATTGAATTATTTAAAA
1 ATTGAATTATTTAAAA
*
24690069 ATT---TTATTTAAATC
1 ATTGAATTATTTAAA-A
24690083 ATTGAATTATTTAAAA
1 ATTGAATTATTTAAAA
24690099 GTTTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
13 9 0.38
14 3 0.12
16 3 0.12
17 9 0.38
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTGAATTATTTAAAA
Found at i:24690816 original size:3 final size:3
Alignment explanation
Indices: 24690808--24690846 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
24690798 GGCTGGGAGT
24690808 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
24690847 ACAACCCCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24692597 original size:41 final size:41
Alignment explanation
Indices: 24692540--24692700 Score: 214
Period size: 41 Copynumber: 3.9 Consensus size: 41
24692530 TTCTTACCTT
* *
24692540 TCGGGGCTTTAGCGGCGTTTTTGAAAATGCGCCACTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
24692581 TCGGGGATTTAGCGGCGTTTTTGGAAAAGCGCTGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
** * *
24692622 TTTGTGTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* * *
24692663 TAGGTGCTTTAGCGGCGTTTTTGAAAAAGCGCTGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
24692701 AATTTTTTTA
Statistics
Matches: 105, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 105 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:24692684 original size:82 final size:82
Alignment explanation
Indices: 24692547--24692700 Score: 254
Period size: 82 Copynumber: 1.9 Consensus size: 82
24692537 CTTTCGGGGC
* * *
24692547 TTTAGCGGCGTTTTTGAAAATGCGCCACTAATGCTCGGGGATTTAGCGGCGTTTTTGGAAAAGCG
1 TTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTAGGGGATTTAGCGGCGTTTTTGAAAAAGCG
24692612 CTGCTAATGCTTTGTGT
66 CTGCTAATGCTTTGTGT
* * *
24692629 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTAGGTGCTTTAGCGGCGTTTTTGAAAAAGCG
1 TTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTAGGGGATTTAGCGGCGTTTTTGAAAAAGCG
24692694 CTGCTAA
66 CTGCTAA
24692701 AATTTTTTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 66 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTAGGGGATTTAGCGGCGTTTTTGAAAAAGCG
CTGCTAATGCTTTGTGT
Found at i:24693392 original size:15 final size:14
Alignment explanation
Indices: 24693354--24693388 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
24693344 CATATTTTAA
24693354 GGTTTAGGGAGTAT
1 GGTTTAGGGAGTAT
*
24693368 GGATTTAGGGATTAT
1 GG-TTTAGGGAGTAT
24693383 GGTTTA
1 GGTTTA
24693389 AGGGTTGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGAGTAT
Found at i:24693425 original size:7 final size:7
Alignment explanation
Indices: 24693413--24693462 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
24693403 AGGTTCAAGA
24693413 GTTAGGG
1 GTTAGGG
24693420 GTTAGGG
1 GTTAGGG
24693427 GTTTAGGG
1 G-TTAGGG
**
24693435 GTTAGAC
1 GTTAGGG
24693442 GTTAGGG
1 GTTAGGG
* *
24693449 GTTAAGA
1 GTTAGGG
24693456 GTTAGGG
1 GTTAGGG
24693463 ATTTAGGATT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
7 27 0.79
8 7 0.21
ACGTcount: A:0.20, C:0.02, G:0.48, T:0.30
Consensus pattern (7 bp):
GTTAGGG
Found at i:24693448 original size:14 final size:13
Alignment explanation
Indices: 24693410--24693462 Score: 61
Period size: 14 Copynumber: 3.8 Consensus size: 13
24693400 TTAAGGTTCA
24693410 AGAGTTAGGGGTT
1 AGAGTTAGGGGTT
*
24693423 AGGGGTTTAGGGGTT
1 A-GAG-TTAGGGGTT
24693438 AGACGTTAGGGGTT
1 AGA-GTTAGGGGTT
24693452 AAGAGTTAGGG
1 -AGAGTTAGGG
24693463 ATTTAGGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
13 1 0.03
14 19 0.56
15 14 0.41
ACGTcount: A:0.23, C:0.02, G:0.47, T:0.28
Consensus pattern (13 bp):
AGAGTTAGGGGTT
Found at i:24693642 original size:28 final size:28
Alignment explanation
Indices: 24693577--24693634 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
24693567 TAATAATAAA
* *
24693577 TTAAA-TATATTTAAATTATGAGTGTAGT
1 TTAAATTAT-TTTAAATTATGAGTATACT
24693605 TTAAATTATTTTAAA-TATGAGTATACT
1 TTAAATTATTTTAAATTATGAGTATACT
24693632 TTA
1 TTA
24693635 TATGTATTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 13 0.48
28 11 0.41
29 3 0.11
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (28 bp):
TTAAATTATTTTAAATTATGAGTATACT
Found at i:24693935 original size:40 final size:40
Alignment explanation
Indices: 24693880--24694007 Score: 177
Period size: 40 Copynumber: 3.2 Consensus size: 40
24693870 AAAATACAAG
*
24693880 GCATTAGTGGCGCTTTTTAAAAAACGCCACTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
* **
24693920 GCATTAGCGGCGCTTTTTAAAAAATGCTGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
* *
24693960 GCATTAGCGGCG-TTTTTGAAGAAACGCCACTATAGATTGA
1 GCATTAGCGGCGCTTTTT-AAAAAACGCCACTATAGATCGA
*
24694000 GCTTTAGC
1 GCATTAGC
24694008 AGTGTTATTT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
39 5 0.06
40 72 0.94
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATCGA
Found at i:24694025 original size:40 final size:39
Alignment explanation
Indices: 24693880--24694027 Score: 161
Period size: 40 Copynumber: 3.7 Consensus size: 39
24693870 AAAATACAAG
* *
24693880 GCATTAGTGGCGCTTTTTAAAAAACGCCACTATAGATCGA
1 GCATTAGCGGCG-TTTTTTAAAAACGCCACTATAGATCGA
* * **
24693920 GCATTAGCGGCGCTTTTTAAAAAATGCTGCTATAGATCGA
1 GCATTAGCGGCG-TTTTTTAAAAACGCCACTATAGATCGA
* *
24693960 GCATTAGCGGCGTTTTTGAAGAAACGCCACTATAGATTGA
1 GCATTAGCGGCGTTTTTTAA-AAACGCCACTATAGATCGA
* * *
24694000 GCTTTAGCAGTGTTATTTTAAAAACGCC
1 GCATTAGCGGCGTT-TTTTAAAAACGCC
24694028 GCAAAAATAA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
39 7 0.08
40 81 0.87
41 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (39 bp):
GCATTAGCGGCGTTTTTTAAAAACGCCACTATAGATCGA
Found at i:24698348 original size:43 final size:43
Alignment explanation
Indices: 24698299--24698520 Score: 230
Period size: 43 Copynumber: 5.2 Consensus size: 43
24698289 TGTTCTAGAA
* * * *
24698299 GCTAAAGGTCATGATTTTTAGCGACGTTTGTGGCCAAAGCGCT
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGCC
** * * *
24698342 GCTAAAGGTCATGATCTTTAGCGGTATTTGTAGTATAAGCGCC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGCC
* * **
24698385 GCTGAAGGCCATGATCTTTAGCGGCGTTTGTGGCAAAAGTACC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGCC
* * * **
24698428 GTTAAATGTCATGATCTTTAGCGGCGTTTGCGTTAAAAGCGCC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGCC
** * *
24698471 GCTAAAGACCATGATCTTTAGCGGCGTTTTTGTG-AAAAACGCC
1 GCTAAAGGTCATGATCTTTAGCGGCGTTTGTG-GCAAAAGCGCC
24698514 GCTAAAG
1 GCTAAAG
24698521 TTAGCGACGT
Statistics
Matches: 143, Mismatches: 35, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
GCTAAAGGTCATGATCTTTAGCGGCGTTTGTGGCAAAAGCGCC
Found at i:24699058 original size:22 final size:21
Alignment explanation
Indices: 24699028--24699069 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24699018 ATGTGTACTC
*
24699028 GAAACTTTTTATTTTATTTTAT
1 GAAACTTTTTATATT-TTTTAT
*
24699050 GAAATTTTTTATATTTTTTA
1 GAAACTTTTTATATTTTTTA
24699070 ATTTTAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (21 bp):
GAAACTTTTTATATTTTTTAT
Found at i:24699076 original size:6 final size:6
Alignment explanation
Indices: 24699065--24699097 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
24699055 TTTTTATATT
*
24699065 TTTTAA TTTTAA TTTTGA -TTTAA TTTTAA TTTT
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTT
24699098 TATAATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (6 bp):
TTTTAA
Found at i:24700432 original size:10 final size:10
Alignment explanation
Indices: 24700417--24700441 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24700407 AAACAATTAA
24700417 TATATGATAT
1 TATATGATAT
24700427 TATATGATAT
1 TATATGATAT
24700437 TATAT
1 TATAT
24700442 TTACAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TATATGATAT
Found at i:24700735 original size:14 final size:14
Alignment explanation
Indices: 24700716--24700745 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
24700706 AAATATTTCC
24700716 ATATTAAAGAATGT
1 ATATTAAAGAATGT
*
24700730 ATATTAAAGCATGT
1 ATATTAAAGAATGT
24700744 AT
1 AT
24700746 TCTTGGCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.13, T:0.37
Consensus pattern (14 bp):
ATATTAAAGAATGT
Found at i:24706484 original size:50 final size:50
Alignment explanation
Indices: 24706341--24706588 Score: 225
Period size: 50 Copynumber: 4.9 Consensus size: 50
24706331 TGATAATAAC
** *
24706341 ATGCCAAAT-CCATGTCCCAGACATGGTCTTACATGGGATGTTTC-T-T-G
1 ATGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * * **
24706388 TACTGCCAATTCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * * ** *
24706440 GTGCCCATGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* *
24706490 ATGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---G
*
24706546 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
24706589 TTACCCTAAC
Statistics
Matches: 161, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
48 4 0.02
49 33 0.20
50 79 0.49
51 1 0.01
52 1 0.01
53 2 0.01
56 41 0.25
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:24710811 original size:23 final size:23
Alignment explanation
Indices: 24710780--24710826 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
24710770 CTCCCTTCTT
*
24710780 TGGCTGGTACAATACTAAGACTA
1 TGGCAGGTACAATACTAAGACTA
24710803 TGGCAGGTACAATACTAAGACTA
1 TGGCAGGTACAATACTAAGACTA
24710826 T
1 T
24710827 CACATTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (23 bp):
TGGCAGGTACAATACTAAGACTA
Found at i:24711310 original size:29 final size:29
Alignment explanation
Indices: 24711249--24711439 Score: 121
Period size: 29 Copynumber: 6.8 Consensus size: 29
24711239 AAGGTGTCCT
*
24711249 TTTAACAGAG-TATGCCAC-AAGGCATTCC-
1 TTTAACAGAGATA-GCTACAAAGGCA-TCCA
* * * *
24711277 CTTAATAGAGATGGCTACAAAGGCATCCT
1 TTTAACAGAGATAGCTACAAAGGCATCCA
* * * *
24711306 TTTAACAAAGATAGCCACAAATGCACCCA
1 TTTAACAGAGATAGCTACAAAGGCATCCA
* *
24711335 TTTAACAGAGATAG-TCACGAAGGCATTCA
1 TTTAACAGAGATAGCT-ACAAAGGCATCCA
*
24711364 TTTAACTGAGATAGCTACAAAGG----CA
1 TTTAACAGAGATAGCTACAAAGGCATCCA
* * * *
24711389 TTTAACGGAGATAGCCACAAA-GCTATTCG
1 TTTAACAGAGATAGCTACAAAGGC-ATCCA
* *
24711418 TTTAACAGGGATAGCCACAAAG
1 TTTAACAGAGATAGCTACAAAG
24711440 ACTTCCTTAT
Statistics
Matches: 127, Mismatches: 25, Indels: 20
0.74 0.15 0.12
Matches are distributed among these distances:
24 1 0.01
25 21 0.17
28 15 0.12
29 89 0.70
30 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (29 bp):
TTTAACAGAGATAGCTACAAAGGCATCCA
Found at i:24711399 original size:25 final size:25
Alignment explanation
Indices: 24711362--24711410 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
24711352 CGAAGGCATT
* *
24711362 CATTTAACTGAGATAGCTACAAAGG
1 CATTTAACGGAGATAGCCACAAAGG
24711387 CATTTAACGGAGATAGCCACAAAG
1 CATTTAACGGAGATAGCCACAAAG
24711411 CTATTCGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (25 bp):
CATTTAACGGAGATAGCCACAAAGG
Found at i:24711422 original size:54 final size:54
Alignment explanation
Indices: 24711306--24711439 Score: 135
Period size: 54 Copynumber: 2.4 Consensus size: 54
24711296 AAGGCATCCT
* * * *
24711306 TTTAACAAAGATAGCCACAAATGCACCCATTTAACAGAGATAGTCACGAAGGCATTCA
1 TTTAACAGAGATAGCCACAAA-G---GCATTTAACAGAGATAGCCACGAAAGCATTCA
* * * *
24711364 TTTAACTGAGATAGCTACAAAGGCATTTAACGGAGATAGCCAC-AAAGCTATTCG
1 TTTAACAGAGATAGCCACAAAGGCATTTAACAGAGATAGCCACGAAAGC-ATTCA
*
24711418 TTTAACAGGGATAGCCACAAAG
1 TTTAACAGAGATAGCCACAAAG
24711440 ACTTCCTTAT
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
53 4 0.06
54 41 0.64
57 1 0.02
58 18 0.28
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.22
Consensus pattern (54 bp):
TTTAACAGAGATAGCCACAAAGGCATTTAACAGAGATAGCCACGAAAGCATTCA
Found at i:24711528 original size:29 final size:29
Alignment explanation
Indices: 24711496--24711561 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
24711486 AACCACAAAA
*
24711496 GCTTTCTTATAATAGAGATCTCCATAAA-G
1 GCTTTCTTATAATAGAGATCGCCA-AAATG
*
24711525 GC-TTCTATTTAATAGAGATCGCCAAAATG
1 GCTTTCT-TATAATAGAGATCGCCAAAATG
24711554 GCTTTCTT
1 GCTTTCTT
24711562 TCAGAGACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 7 0.22
29 21 0.66
30 4 0.12
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.36
Consensus pattern (29 bp):
GCTTTCTTATAATAGAGATCGCCAAAATG
Found at i:24719813 original size:19 final size:18
Alignment explanation
Indices: 24719791--24719844 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
24719781 AACCAAATAG
24719791 ATTTAGAAAAAAATAAGAA
1 ATTTA-AAAAAAATAAGAA
* *
24719810 ATTTCAAAATAAATAATAA
1 ATTT-AAAAAAAATAAGAA
*
24719829 ATATTAAAAATAATAA
1 AT-TTAAAAAAAATAA
24719845 ATAAATAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 26 0.90
20 3 0.10
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.28
Consensus pattern (18 bp):
ATTTAAAAAAAATAAGAA
Found at i:24719840 original size:20 final size:20
Alignment explanation
Indices: 24719797--24719851 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
24719787 ATAGATTTAG
* *
24719797 AAAA-AAATAAGAAAT-TTC
1 AAAATAAATAATAAATATTA
24719815 AAAATAAATAATAAATATTA
1 AAAATAAATAATAAATATTA
24719835 AAAAT-AATAAATAAATA
1 AAAATAAAT-AATAAATA
24719852 ACTAAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.12
19 13 0.41
20 15 0.47
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATAAATAATAAATATTA
Found at i:24723187 original size:23 final size:24
Alignment explanation
Indices: 24723134--24723187 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
24723124 AAAACAATGC
* **
24723134 ATAAAAATCCATAAATTCTTCCAA
1 ATAAAAATCAATAAATAATTCCAA
24723158 A-ACAAAATCAATAAA-AATTCCAA
1 ATA-AAAATCAATAAATAATTCCAA
24723181 ATAAAAA
1 ATAAAAA
24723188 AATAACTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (24 bp):
ATAAAAATCAATAAATAATTCCAA
Found at i:24723578 original size:4 final size:4
Alignment explanation
Indices: 24723569--24723595 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
24723559 TAACTGTAGA
24723569 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
24723596 AATAAGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:24726918 original size:6 final size:6
Alignment explanation
Indices: 24726895--24726938 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
24726885 ATTTAGAATG
* *
24726895 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA
24726939 AATGGCTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:24726923 original size:20 final size:19
Alignment explanation
Indices: 24726896--24726939 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
24726886 TTTAGAATGT
*
24726896 AAAAATTAAATTAAAAATA
1 AAAAATTAAAATAAAAATA
24726915 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAATA
24726935 AAAAA
1 AAAAA
24726940 ATGGCTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAATAAAAATA
Found at i:24726940 original size:14 final size:14
Alignment explanation
Indices: 24726908--24726941 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24726898 AAATTAAATT
*
24726908 AAAAATAAAAATAT
1 AAAAATAAAAATAA
*
24726922 TAAAATAAAAATAA
1 AAAAATAAAAATAA
24726936 AAAAAT
1 AAAAAT
24726942 GGCTAAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:24728750 original size:19 final size:19
Alignment explanation
Indices: 24728687--24728761 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 19
24728677 TTTGTTTATG
* *
24728687 TTAGAAATATTTGTATTCT
1 TTAGAAATATTGGTATCCT
* * * * *
24728706 ATAGAATTTTTGGTATTGCA
1 TTAGAAATATTGGTA-TCCT
24728726 TTAGAAATATTGGTATCCT
1 TTAGAAATATTGGTATCCT
* *
24728745 TTAGAATTTTTGGTATC
1 TTAGAAATATTGGTATC
24728762 ACTATAATTC
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
19 28 0.67
20 14 0.33
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (19 bp):
TTAGAAATATTGGTATCCT
Found at i:24748091 original size:7 final size:7
Alignment explanation
Indices: 24748079--24748111 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
24748069 ATATCTTTAT
24748079 ATTAATA
1 ATTAATA
24748086 ATTAATA
1 ATTAATA
24748093 ATTAATA
1 ATTAATA
24748100 ATTAATA
1 ATTAATA
24748107 ATTAA
1 ATTAA
24748112 ACATGAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTAATA
Found at i:24749997 original size:17 final size:19
Alignment explanation
Indices: 24749963--24749999 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
24749953 ATTTAAATAT
24749963 AATTTATATAATCTAATTA
1 AATTTATATAATCTAATTA
24749982 AATTTA-ATAA-CTAATTA
1 AATTTATATAATCTAATTA
24749999 A
1 A
24750000 TATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 4 0.22
19 6 0.33
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTATATAATCTAATTA
Found at i:24750006 original size:17 final size:18
Alignment explanation
Indices: 24749940--24749999 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
24749930 ATATTTAATT
* * *
24749940 ATTATATTTAAAAATTTA
1 ATTAAATTTAATAATCTA
*
24749958 AATATAATTTATATAATCTA
1 ATTA-AATTTA-ATAATCTA
24749978 ATTAAATTTAATAA-CTA
1 ATTAAATTTAATAATCTA
24749995 ATTAA
1 ATTAA
24750000 TATTAATTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 8 0.23
18 7 0.20
19 11 0.31
20 9 0.26
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTAAATTTAATAATCTA
Found at i:24750243 original size:26 final size:26
Alignment explanation
Indices: 24750214--24750277 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 26
24750204 AAACTCAAAT
**
24750214 TTTTCAAAAGCACTTCTCAAAAGTAC
1 TTTTCAAAAGCACTTCTCAAAAACAC
* * * * *
24750240 TTTTCCACAGCATTTTTCAAAAACAT
1 TTTTCAAAAGCACTTCTCAAAAACAC
24750266 TTTTCAAAAGCA
1 TTTTCAAAAGCA
24750278 ATGAAGAACT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (26 bp):
TTTTCAAAAGCACTTCTCAAAAACAC
Found at i:24750266 original size:13 final size:13
Alignment explanation
Indices: 24750250--24750274 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24750240 TTTTCCACAG
24750250 CATTTTTCAAAAA
1 CATTTTTCAAAAA
24750263 CATTTTTCAAAA
1 CATTTTTCAAAA
24750275 GCAATGAAGA
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
CATTTTTCAAAAA
Found at i:24750336 original size:16 final size:16
Alignment explanation
Indices: 24750315--24750347 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
24750305 TACCATTGGT
24750315 GGGCCTCAAATTTTTA
1 GGGCCTCAAATTTTTA
24750331 GGGCCTCAAATTTTTA
1 GGGCCTCAAATTTTTA
24750347 G
1 G
24750348 AGCCATTTTT
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:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (16 bp):
GGGCCTCAAATTTTTA
Found at i:24752208 original size:25 final size:26
Alignment explanation
Indices: 24752170--24752218 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
24752160 GTTTTTAATT
* *
24752170 TATTTTAAAGTTATTTTTTTAGTTAC
1 TATTATAAAGTTATTTATTTAGTTAC
24752196 TATTATAAA-TTATTTATTTAGTT
1 TATTATAAAGTTATTTATTTAGTT
24752219 TAATGCTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (26 bp):
TATTATAAAGTTATTTATTTAGTTAC
Found at i:24755890 original size:14 final size:15
Alignment explanation
Indices: 24755865--24755894 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24755855 TTTTTTCTGT
24755865 ATTTATTATGTGTGA
1 ATTTATTATGTGTGA
24755880 ATTTA-TATGTGTGA
1 ATTTATTATGTGTGA
24755894 A
1 A
24755895 AGCTTCGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (15 bp):
ATTTATTATGTGTGA
Found at i:24756132 original size:28 final size:28
Alignment explanation
Indices: 24756086--24756142 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
24756076 TATAGTTTTT
24756086 ATAATAATTATAAAGGTTATAATAATAA
1 ATAATAATTATAAAGGTTATAATAATAA
*
24756114 ATAATATATTATAAA-GTTATTATAATAA
1 ATAATA-ATTATAAAGGTTATAATAATAA
24756142 A
1 A
24756143 AACAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (28 bp):
ATAATAATTATAAAGGTTATAATAATAA
Found at i:24757090 original size:43 final size:43
Alignment explanation
Indices: 24757041--24757147 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 43
24757031 TATGTGTTTT
24757041 CGTGTAAGACCACGTCTGGGAC-GTCGGCATCGATATCTGATTA
1 CGTGTAAGACCACGTCTGGGACAGT-GGCATCGATATCTGATTA
*
24757084 CGTGTAAGACC-CTGTCTGGGACAGTGGCATCGATATGTGATTA
1 CGTGTAAGACCAC-GTCTGGGACAGTGGCATCGATATCTGATTA
* *
24757127 CATATAAGACCACGTCTGGGA
1 CGTGTAAGACCACGTCTGGGA
24757148 TGATGGCATT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
42 1 0.02
43 54 0.93
44 3 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACAGTGGCATCGATATCTGATTA
Found at i:24759546 original size:32 final size:32
Alignment explanation
Indices: 24759508--24759576 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
24759498 TTTATACAAA
24759508 CCTTAAATGTGGCTAATTGCCTTGTAAGCCCT
1 CCTTAAATGTGGCTAATTGCCTTGTAAGCCCT
* *
24759540 TCTTAAATGTGGCTAATTGCCTTGTAAGTCCT
1 CCTTAAATGTGGCTAATTGCCTTGTAAGCCCT
24759572 CCTTA
1 CCTTA
24759577 TTTATTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (32 bp):
CCTTAAATGTGGCTAATTGCCTTGTAAGCCCT
Found at i:24761519 original size:112 final size:107
Alignment explanation
Indices: 24761347--24761779 Score: 504
Period size: 112 Copynumber: 4.0 Consensus size: 107
24761337 ATAAAAAAAT
* * *
24761347 AAAATTACATTATAACAAATCACAATACACATTAAACTAAACAAATAATTTATAACCTAATCATA
1 AAAATTACATTATAA-AAATCACAATAAACACTAAACTAAACAAACAATTTATAACCTAATCATA
*
24761412 AATTACTAACAAAATAACTTTAAAATAATTTAAAAAACACACAA
65 AATTACTAACAAAATAACTTTAAAATAATTTAAAAAA-ACATAA
24761456 AAAATTACATTTATAAAAAGTCACAATAAACACTAAACTAAACACAAACAATTTATAACCTAATC
1 AAAATTACA-TTATAAAAA-TCACAATAAACACTAAACT-AA-ACAAACAATTTATAACCTAATC
*
24761521 ATAAATTCCTAACAAAATAACTTTAAAATAA-TT-AAAAAA-AT--
62 ATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAACATAA
** * * *
24761562 TGAATT-CA-TA-AAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAGCATAATTAT
1 AAAATTACATTATAAAAATCACAATAAACACTAAACT-AA-ACAAACAATTTATAACCTAATCAT
*
24761624 AAAATTACTAACAAAATAACTTTCAAATAATTTAAAAAAACATAA
64 -AAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAACATAA
** * *
24761669 AATTTTACATTCATAAAAAATCACAATAAATATTAAACTAAACTAAATACAAACAATTTATAACT
1 AAAATTACATT-AT-AAAAATCACAAT--A-A--ACACTAAACT-AA-ACAAACAATTTATAACC
*
24761734 TAATCATAAATTACTAACAAAATGACTTTAAAATAATTTAAAAAAA
57 TAATCATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAA
24761780 TTTACATTCA
Statistics
Matches: 281, Mismatches: 23, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
101 44 0.16
102 32 0.11
103 4 0.01
104 6 0.02
105 4 0.01
106 4 0.01
107 2 0.01
108 3 0.01
109 14 0.05
110 29 0.10
111 4 0.01
112 63 0.22
114 1 0.00
115 1 0.00
116 37 0.13
117 33 0.12
ACGTcount: A:0.58, C:0.14, G:0.01, T:0.27
Consensus pattern (107 bp):
AAAATTACATTATAAAAATCACAATAAACACTAAACTAAACAAACAATTTATAACCTAATCATAA
ATTACTAACAAAATAACTTTAAAATAATTTAAAAAAACATAA
Found at i:24761559 original size:101 final size:103
Alignment explanation
Indices: 24761454--24761832 Score: 480
Period size: 101 Copynumber: 3.6 Consensus size: 103
24761444 AAAAACACAC
* * *
24761454 AAAAAA-TTACATTTATAAAAAGTCACAATAAACACTAAACTAAACACAAACAATTTATAACCTA
1 AAAAAATTTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATA
*
24761518 ATCATAAATTCCTAACAAAATAACTTTAAAATAA-TTA
66 ATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
* *
24761555 AAAAAATTGA-ATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAGCATA
1 AAAAAATTTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATA
* *
24761619 ATTATAAAATTACTAACAAAATAACTTTCAAATAATTTAAAAAA
66 ATCAT-AAATTACTAACAAAATAACTTTAAAATAATTT-----A
* *
24761663 ACATAAAATTTTACATTCATAAAAAATCACAATAAATATTAAACTAAACTAAATACAAACAATTT
1 A-A-AAAA-TTTACATTCATAAAAAATCACAAT--A-A--ACACTAAACTAAACACAAACAATTT
* *
24761728 ATAACTTAATCATAAATTACTAACAAAATGACTTTAAAATAATTTA
58 ATAACATAATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
*
24761774 AAAAAATTTACATTCATAAAAATTCAC-A-AAACACTAAACTAAACACAAACAATTTATAA
1 AAAAAATTTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
24761833 AACAAAATAA
Statistics
Matches: 242, Mismatches: 19, Indels: 34
0.82 0.06 0.12
Matches are distributed among these distances:
101 87 0.36
102 29 0.12
103 3 0.01
104 1 0.00
107 1 0.00
108 22 0.09
109 5 0.02
110 5 0.02
111 5 0.02
112 19 0.08
114 1 0.00
115 1 0.00
116 30 0.12
117 33 0.14
ACGTcount: A:0.57, C:0.14, G:0.01, T:0.27
Consensus pattern (103 bp):
AAAAAATTTACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATA
ATCATAAATTACTAACAAAATAACTTTAAAATAATTTA
Found at i:24761753 original size:218 final size:215
Alignment explanation
Indices: 24761347--24761832 Score: 675
Period size: 218 Copynumber: 2.3 Consensus size: 215
24761337 ATAAAAAAAT
* * * * *
24761347 AAAATT-ACATT-ATAACAAATCACAATACACATTAAACT-AA-ACAAATAATTTATAACCTAAT
1 AAAATTGACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATAAT
*
24761408 CATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAACACACAAAAAATTACATTTATAAA
66 CATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAACACACAAAAAATTACATTCATAAA
* * *
24761473 AAGTCACAATAAACACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTCCTAACAAAA
131 AAATCACAATAAAAACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAA
24761538 TAACTTTAAAATAA-TTAAA
196 TAACTTTAAAATAATTTAAA
*
24761557 AAAATTGA-ATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAGCATAAT
1 AAAATTGACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATAAT
* * * **
24761621 TATAAAATTACTAACAAAATAACTTTCAAATAATTTAAAAAA-ACATAAAATTTTACATTCATAA
66 CAT-AAATTACTAACAAAATAACTTTAAAATAATTTAAAAAACACACAAAAAATTACATTCATAA
* *
24761685 AAAATCACAATAAATATTAAACTAAACTAAATACAAACAATTTATAACTTAATCATAAATTACTA
130 AAAATCACAAT--A-A--AAACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTA
*
24761750 ACAAAATGACTTTAAAATAATTTAAA
190 ACAAAATAACTTTAAAATAATTTAAA
* *
24761776 AAAATTTACATTCATAAAAATTCAC-A-AAACACTAAACTAAACACAAACAATTTATAA
1 AAAATTGACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAA
24761833 AACAAAATAA
Statistics
Matches: 243, Mismatches: 21, Indels: 16
0.87 0.08 0.06
Matches are distributed among these distances:
210 9 0.04
211 25 0.10
212 2 0.01
213 48 0.20
214 37 0.15
215 1 0.00
216 1 0.00
218 92 0.38
219 13 0.05
220 15 0.06
ACGTcount: A:0.57, C:0.15, G:0.01, T:0.27
Consensus pattern (215 bp):
AAAATTGACATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAACATAAT
CATAAATTACTAACAAAATAACTTTAAAATAATTTAAAAAACACACAAAAAATTACATTCATAAA
AAATCACAATAAAAACTAAACTAAACACAAACAATTTATAACCTAATCATAAATTACTAACAAAA
TAACTTTAAAATAATTTAAA
Found at i:24761774 original size:116 final size:112
Alignment explanation
Indices: 24761565--24761832 Score: 333
Period size: 117 Copynumber: 2.4 Consensus size: 112
24761555 AAAAAATTGA
* * *
24761565 ATTCATAAAAAATCACAATAAACACTAAACTAAACACAAACAATTTATAGCATAATTATAAAATT
1 ATTCATAAAAAATCACAATAAAAACTAAACTAAACACAAACAATTTATAACATAATCATAAAATT
*
24761630 ACTAACAAAATAACTTTCAAATAATTTAAAAAAACATAAAATTTTAC
66 ACTAACAAAATAACTTTAAAATAATTTAAAAAAACATAAAATTTTAC
* *
24761677 ATTCATAAAAAATCACAATAAATATTAAACTAAACTAAATACAAACAATTTATAACTTAATCAT-
1 ATTCATAAAAAATCACAAT--A-A--AAACTAAACTAAACACAAACAATTTATAACATAATCATA
*
24761741 AAATTACTAACAAAATGACTTTAAAATAATTT-----AA-A-AAAA-TTTAC
61 AAATTACTAACAAAATAACTTTAAAATAATTTAAAAAAACATAAAATTTTAC
* *
24761785 ATTCATAAAAATTCAC-A-AAACACTAAACTAAACACAAACAATTTATAA
1 ATTCATAAAAAATCACAATAAAAACTAAACTAAACACAAACAATTTATAA
24761833 AACAAAATAA
Statistics
Matches: 141, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
101 27 0.19
103 1 0.01
104 1 0.01
107 1 0.01
108 20 0.14
109 4 0.03
110 1 0.01
111 2 0.01
112 19 0.13
114 1 0.01
115 1 0.01
116 30 0.21
117 33 0.23
ACGTcount: A:0.57, C:0.14, G:0.01, T:0.28
Consensus pattern (112 bp):
ATTCATAAAAAATCACAATAAAAACTAAACTAAACACAAACAATTTATAACATAATCATAAAATT
ACTAACAAAATAACTTTAAAATAATTTAAAAAAACATAAAATTTTAC
Found at i:24761935 original size:17 final size:17
Alignment explanation
Indices: 24761913--24761950 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
24761903 GAATACAAAA
*
24761913 AAATAACTAATCTCTTT
1 AAATAACTAATCCCTTT
24761930 AAATAACTAATCCCTTT
1 AAATAACTAATCCCTTT
24761947 AAAT
1 AAAT
24761951 TAAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATAACTAATCCCTTT
Found at i:24762380 original size:16 final size:17
Alignment explanation
Indices: 24762361--24762399 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
24762351 CACCACTAAT
*
24762361 AAAATAATATTT-TTAA
1 AAAATAAAATTTATTAA
24762377 AAAATAAAATTTATTAA
1 AAAATAAAATTTATTAA
24762394 AAAATA
1 AAAATA
24762400 GTGGTGCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATAAAATTTATTAA
Found at i:24766922 original size:24 final size:25
Alignment explanation
Indices: 24766844--24766938 Score: 86
Period size: 24 Copynumber: 3.9 Consensus size: 25
24766834 GAAGCTCTTT
*
24766844 CGAGCCATATAACAGGAAGCTCATG
1 CGAGCCATATAACAGGAAGCTCAAG
* * ** *
24766869 TGAGCCATGTAATGGGAAGCTCCAG
1 CGAGCCATATAACAGGAAGCTCAAG
* *
24766894 AGAGCCAT-TAACAGGAAGTTCAAG
1 CGAGCCATATAACAGGAAGCTCAAG
* *
24766918 CGAGCCA-ATATCGGGAAGCTC
1 CGAGCCATATAACAGGAAGCTC
24766939 CGGAGAGACA
Statistics
Matches: 54, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
24 28 0.52
25 26 0.48
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.17
Consensus pattern (25 bp):
CGAGCCATATAACAGGAAGCTCAAG
Found at i:24767007 original size:25 final size:24
Alignment explanation
Indices: 24766919--24767012 Score: 64
Period size: 25 Copynumber: 3.8 Consensus size: 24
24766909 AAGTTCAAGC
* *
24766919 GAGCCAATATCGGGAAGCTCCGGA
1 GAGCCATTATCGGGAAGCTCCGAA
* * **
24766943 GAGACATTAAT-GGGAAGTTCATAA
1 GAGCCATT-ATCGGGAAGCTCCGAA
* * *
24766967 AAGGCAGTTATTGGGAAGCTCCGAA
1 GAGCCA-TTATCGGGAAGCTCCGAA
*
24766992 GAGCCATATATCGGGACGCTC
1 GAGCCAT-TATCGGGAAGCTC
24767013 ATAAGAGCTG
Statistics
Matches: 51, Mismatches: 15, Indels: 7
0.70 0.21 0.10
Matches are distributed among these distances:
24 22 0.43
25 29 0.57
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (24 bp):
GAGCCATTATCGGGAAGCTCCGAA
Found at i:24767163 original size:24 final size:25
Alignment explanation
Indices: 24767104--24767166 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
24767094 CAAGAACCAT
*
24767104 ATAACGGGAAGCTCATGAGAGCCAA
1 ATAACGGGATGCTCATGAGAGCCAA
* *
24767129 ATATCGGGATGCTCATGAGAG-CTA
1 ATAACGGGATGCTCATGAGAGCCAA
*
24767153 ATAACGAGATGCTC
1 ATAACGGGATGCTC
24767167 TTTCGAGCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.35, C:0.19, G:0.27, T:0.19
Consensus pattern (25 bp):
ATAACGGGATGCTCATGAGAGCCAA
Found at i:24769326 original size:53 final size:53
Alignment explanation
Indices: 24769241--24769343 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
24769231 AAAATTTTTC
*
24769241 ATATGATAACATAACCCACCAATTACAGTCTTACACGATATGGTCTTCTTCCT
1 ATATGATAACATAACCCACCAATTACAATCTTACACGATATGGTCTTCTTCCT
** * * * *
24769294 ATATGATGCCATAACCTACCAGTTACAATCTTATACGATATGGTTTTCTT
1 ATATGATAACATAACCCACCAATTACAATCTTACACGATATGGTCTTCTT
24769344 TCAATGCCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (53 bp):
ATATGATAACATAACCCACCAATTACAATCTTACACGATATGGTCTTCTTCCT
Found at i:24779673 original size:141 final size:143
Alignment explanation
Indices: 24779495--24779785 Score: 523
Period size: 141 Copynumber: 2.0 Consensus size: 143
24779485 GTAGGTAGGC
* *
24779495 TATTGGAGACATGATTTAAATAAATAAAAGATGGTCATGCACAAATTATCCATGTGGATGACAAG
1 TATTGGAGACATGATTTAAATAAATAAAAGATGGTCATGCACAAATTATCCATGTAGACGACAAG
24779560 ACCATGCAATTTTGGGCAT-GGGGTTGACTACTTGACCCCGTAAAGAAGGTGATAAAAGATGGAC
66 ACCATGCAATTTTGGGCATAGGGGTTGACTACTTGACCCCGTAAAGAAGGTGATAAAAGATGGAC
*
24779624 ATGTCTTCTAAG-
131 ATGTCTGCTAAGT
*
24779636 TATTGGAGACATGATTTAAATAAATAAAAGATGGTCATGCACAAATTATCCATGTAGACGGCAAG
1 TATTGGAGACATGATTTAAATAAATAAAAGATGGTCATGCACAAATTATCCATGTAGACGACAAG
*
24779701 ACCATGCAATTTTGGGTATAGGGGTTGACTACTTGACCCCGTAAAGAAGGTGATAAAAGATGGAC
66 ACCATGCAATTTTGGGCATAGGGGTTGACTACTTGACCCCGTAAAGAAGGTGATAAAAGATGGAC
24779766 ATGTCTGCTAAGT
131 ATGTCTGCTAAGT
24779779 TATTGGA
1 TATTGGA
24779786 CTAAAAAAAT
Statistics
Matches: 143, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
141 80 0.56
142 56 0.39
143 7 0.05
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (143 bp):
TATTGGAGACATGATTTAAATAAATAAAAGATGGTCATGCACAAATTATCCATGTAGACGACAAG
ACCATGCAATTTTGGGCATAGGGGTTGACTACTTGACCCCGTAAAGAAGGTGATAAAAGATGGAC
ATGTCTGCTAAGT
Found at i:24783586 original size:19 final size:19
Alignment explanation
Indices: 24783562--24783604 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
24783552 GAAGCAGACA
24783562 AGGAAGTTCCGATTATCCT
1 AGGAAGTTCCGATTATCCT
24783581 AGGAAGTTCCGATTATCCT
1 AGGAAGTTCCGATTATCCT
24783600 AGGAA
1 AGGAA
24783605 AACCTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (19 bp):
AGGAAGTTCCGATTATCCT
Found at i:24785216 original size:17 final size:17
Alignment explanation
Indices: 24785196--24785247 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
24785186 TATTGTTTAA
24785196 TAAATTAATCTTATTTT
1 TAAATTAATCTTATTTT
*
24785213 TAAAAATAAT-TTATTTTT
1 T-AAATTAATCTTA-TTTT
*
24785231 TAAACTTAGTCTTATTT
1 TAAA-TTAATCTTATTT
24785248 ATGTTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 7 0.25
18 18 0.64
19 3 0.11
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (17 bp):
TAAATTAATCTTATTTT
Found at i:24785230 original size:18 final size:19
Alignment explanation
Indices: 24785175--24785234 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
24785165 ATTAAGCACC
*
24785175 AAATGTAATTATATTGTTTAA
1 AAAT-TAATT-TATTTTTTAA
24785196 TAAATTAATCTTA-TTTTTAA
1 -AAATTAAT-TTATTTTTTAA
24785216 AAA-TAATTTATTTTTTAA
1 AAATTAATTTATTTTTTAA
24785234 A
1 A
24785235 CTTAGTCTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 3 0.09
18 12 0.34
19 3 0.09
20 6 0.17
21 6 0.17
22 5 0.14
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (19 bp):
AAATTAATTTATTTTTTAA
Found at i:24790532 original size:24 final size:24
Alignment explanation
Indices: 24790490--24790536 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
24790480 AGTCCTTTAT
* *
24790490 GTCCCACAAATGGCTCTCATATAC
1 GTCCCACAAAGGGCACTCATATAC
*
24790514 GTCCCATAAAGGGCACTCATATA
1 GTCCCACAAAGGGCACTCATATA
24790537 ATGGTGCGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (24 bp):
GTCCCACAAAGGGCACTCATATAC
Found at i:24791212 original size:31 final size:31
Alignment explanation
Indices: 24791177--24791239 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
24791167 CTAAAGCCCG
24791177 CTTAAATTTGTAAGCTTTTCAAACTAATCTC
1 CTTAAATTTGTAAGCTTTTCAAACTAATCTC
*
24791208 CTTAAATTTGTAAGCTTTTCAAATTAATCTC
1 CTTAAATTTGTAAGCTTTTCAAACTAATCTC
24791239 C
1 C
24791240 AAAATTACCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (31 bp):
CTTAAATTTGTAAGCTTTTCAAACTAATCTC
Found at i:24792481 original size:25 final size:24
Alignment explanation
Indices: 24792445--24792491 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
24792435 TTTCTATCAT
24792445 ATTACTAAATTTATAATTAAAAATA
1 ATTACTAAATTTA-AATTAAAAATA
*
24792470 ATTA-TAATATTTAATTTAAAAA
1 ATTACTAA-ATTTAAATTAAAAA
24792492 ATTAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
ATTACTAAATTTAAATTAAAAATA
Found at i:24794341 original size:2 final size:2
Alignment explanation
Indices: 24794334--24794368 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
24794324 AAATCGAAGG
24794334 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
24794369 GCTTTGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:24799751 original size:20 final size:20
Alignment explanation
Indices: 24799728--24799779 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
24799718 TATACGTATA
*
24799728 TATATATATATTATATTTTC
1 TATATATATATTATAATTTC
* *
24799748 TATACATATTTTATAATTTC
1 TATATATATATTATAATTTC
24799768 TATATATATATT
1 TATATATATATT
24799780 TCTTTATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATATATATTATAATTTC
Found at i:24800063 original size:12 final size:12
Alignment explanation
Indices: 24800023--24800064 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
24800013 CATTGTTTTT
24800023 TTATTATTTATA
1 TTATTATTTATA
*
24800035 TTAATT-TTTTTA
1 TT-ATTATTTATA
24800047 TTTATTATTTATA
1 -TTATTATTTATA
24800060 TTATT
1 TTATT
24800065 TCTATATCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
TTATTATTTATA
Done.