Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 54 of 284
Found at i:18942980 original size:28 final size:27
Alignment explanation
Indices: 18942895--18942984 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
18942885 GTGACAGAGT
*
18942895 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
18942924 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
18942951 CACTAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
18942979 CACCAG
1 CACCAG
18942985 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:18943137 original size:28 final size:28
Alignment explanation
Indices: 18943090--18943937 Score: 1585
Period size: 28 Copynumber: 30.3 Consensus size: 28
18943080 AAATTAACCC
* *
18943090 TAGGGGTATAGA-GGTCATTTTACATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
18943118 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943146 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
* * * **
18943174 TAGGGGTACT-CTAGTACA-TCTAAATACA
1 TAGGGGTA-TAATGGTA-ATTTTGCATACA
18943202 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943230 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943258 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943286 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943314 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943342 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943370 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943398 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943426 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943454 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943482 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943510 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943538 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943566 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943594 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943622 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943650 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943678 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943706 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943734 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943762 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943790 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943818 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943846 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943874 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943902 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
18943930 TAGGGGTA
1 TAGGGGTA
18943938 CTCTAGTACA
Statistics
Matches: 803, Mismatches: 12, Indels: 10
0.97 0.01 0.01
Matches are distributed among these distances:
27 3 0.00
28 798 0.99
29 2 0.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:18944215 original size:8 final size:8
Alignment explanation
Indices: 18944188--18944218 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
18944178 CCAAAATACA
18944188 GGCTTTTC
1 GGCTTTTC
*
18944196 GGCATTTC
1 GGCTTTTC
18944204 GGCTTTTC
1 GGCTTTTC
18944212 GGCTTTT
1 GGCTTTT
18944219 GCCGATCTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:18951801 original size:29 final size:28
Alignment explanation
Indices: 18951736--18951834 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
18951726 ATTCCAACCG
*
18951736 AATTAATGTGTCTTATTTTATACAAGTT
1 AATTAATGTGTCCTATTTTATACAAGTT
*
18951764 -ATTAATGTGTCCTA-TTTAGTTACATGTT
1 AATTAATGTGTCCTATTTTA--TACAAGTT
* * *
18951792 AATTAATGTGTCCAAGTTTTAAACATG-T
1 AATTAATGTGTCCTA-TTTTATACAAGTT
*
18951820 AATTAATTTGTCCTA
1 AATTAATGTGTCCTA
18951835 GTGTAGCTGA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
26 4 0.07
27 13 0.22
28 21 0.35
29 18 0.30
31 4 0.07
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.46
Consensus pattern (28 bp):
AATTAATGTGTCCTATTTTATACAAGTT
Found at i:18952337 original size:21 final size:21
Alignment explanation
Indices: 18952313--18952352 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
18952303 AATGAGTGGA
18952313 GAAGCTTCCTAGAATTTTCTT
1 GAAGCTTCCTAGAATTTTCTT
* * *
18952334 GAAGTTTTCTGGAATTTTC
1 GAAGCTTCCTAGAATTTTC
18952353 AGCTCATTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (21 bp):
GAAGCTTCCTAGAATTTTCTT
Found at i:18953964 original size:20 final size:20
Alignment explanation
Indices: 18953927--18953964 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18953917 CTCAGGCTTT
*
18953927 TACTTACATCAAAGTGTAAC
1 TACTTACATCAAAATGTAAC
*
18953947 TACTTACATTAAAATGTA
1 TACTTACATCAAAATGTA
18953965 CGAGTCTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (20 bp):
TACTTACATCAAAATGTAAC
Found at i:18959231 original size:27 final size:27
Alignment explanation
Indices: 18959147--18959231 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 27
18959137 TACCTGTATC
* *
18959147 TGGCCCATTAAGCCCATTCATATTCATA
1 TGGCCCATT-AGCCCAATCACATTCATA
* *
18959175 TGGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTA-GCC-CAATCACATTCATA
** *
18959204 TGGCCTGTTAGCCCAGTCACATTCATA
1 TGGCCCATTAGCCCAATCACATTCATA
18959231 T
1 T
18959232 TCATGCTCAC
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 13 0.28
28 15 0.33
29 18 0.39
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (27 bp):
TGGCCCATTAGCCCAATCACATTCATA
Found at i:18963079 original size:15 final size:16
Alignment explanation
Indices: 18963050--18963079 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18963040 CAAACATGCT
18963050 TTAACACATTATCAAA
1 TTAACACATTATCAAA
18963066 TTAACACA-TATCAA
1 TTAACACATTATCAA
18963080 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:18972190 original size:17 final size:16
Alignment explanation
Indices: 18972167--18972205 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
18972157 ATTGTAACAC
*
18972167 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCAAAA
18972183 CCCAAAAATCTCAAAA
1 CCCAAAAATCTCAAAA
*
18972199 TCCAAAA
1 CCCAAAA
18972206 CTTTTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.54, C:0.31, G:0.03, T:0.13
Consensus pattern (16 bp):
CCCAAAAATCTCAAAA
Found at i:18973608 original size:24 final size:25
Alignment explanation
Indices: 18973581--18973632 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
18973571 GCCTAGCCTC
*
18973581 TTTTAAT-AACTGGGGCGAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
**
18973605 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
18973630 TTT
1 TTT
18973633 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:18973735 original size:21 final size:21
Alignment explanation
Indices: 18973682--18973722 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18973672 AATGAGTATA
*
18973682 TCATAGCATATCATGTGCATC
1 TCATAACATATCATGTGCATC
18973703 TCATAACATATCATGTGCAT
1 TCATAACATATCATGTGCAT
18973723 ACCATGTCAT
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:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (21 bp):
TCATAACATATCATGTGCATC
Found at i:18975603 original size:19 final size:20
Alignment explanation
Indices: 18975579--18975616 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18975569 CACAACCCAA
18975579 TACCAAATT-TTAAAAATTC
1 TACCAAATTCTTAAAAATTC
*
18975598 TACCAAATTCTTGAAAATT
1 TACCAAATTCTTAAAAATT
18975617 ACGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTTAAAAATTC
Found at i:18981787 original size:21 final size:22
Alignment explanation
Indices: 18981763--18981820 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
18981753 AATGAGTATA
18981763 TCATAGCATATCATGTGCAT-C
1 TCATAGCATATCATGTGCATAC
*
18981784 TCATAACATATCATGTGCATAC
1 TCATAGCATATCATGTGCATAC
18981806 -CAT-GTCATATCATGT
1 TCATAG-CATATCATGT
18981821 ATTGCAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 32 0.97
22 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATAGCATATCATGTGCATAC
Found at i:18981902 original size:26 final size:27
Alignment explanation
Indices: 18981857--18981907 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
18981847 ATAATTAAAC
*
18981857 CCTAGGGGGAATAATGGTCATTTTTTT
1 CCTAGGGGGAATAATAGTCATTTTTTT
*
18981884 CCTAGGGGTAA-AATAGTCATTTTT
1 CCTAGGGGGAATAATAGTCATTTTT
18981908 CATATTATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (27 bp):
CCTAGGGGGAATAATAGTCATTTTTTT
Found at i:18983713 original size:19 final size:20
Alignment explanation
Indices: 18983689--18983726 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
18983679 CACAACCTAA
18983689 TACCAAATT-TTAAAAATTC
1 TACCAAATTCTTAAAAATTC
*
18983708 TACCAAATTCTTGAAAATT
1 TACCAAATTCTTAAAAATT
18983727 TTGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.16, G:0.03, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTTAAAAATTC
Found at i:18984753 original size:29 final size:29
Alignment explanation
Indices: 18984711--18984812 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 29
18984701 TGAATATGAC
*
18984711 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* *
18984740 TGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
* * **
18984769 TGGGCCTAATAGGCCATATGAATAAGA-T
1 TGGGCCTAATGGGCCATATAAATGTGATT
*
18984797 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
18984813 AATACAGGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 15 0.24
29 47 0.76
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:18984818 original size:57 final size:58
Alignment explanation
Indices: 18984711--18984821 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
18984701 TGAATATGAC
* ** *
18984711 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATGGGCCAAATACAGGTGATT
* * *
18984769 TGGGCCTAATAGGCCATATGAATAAGA-TTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATGGGCCAAATACAGGT
18984822 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (58 bp):
TGGGCCTAACAGGCCATATAAATAAGATTTGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:18993094 original size:24 final size:24
Alignment explanation
Indices: 18993050--18993097 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18993040 TAATTCAATC
*
18993050 TAACCATATTAAGCACACATATAT
1 TAACCATATTAAACACACATATAT
*
18993074 TAACCATATTATAAC-CTCATATAT
1 TAACCATATTA-AACACACATATAT
18993098 ATATATTCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.90
25 2 0.10
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (24 bp):
TAACCATATTAAACACACATATAT
Found at i:19010882 original size:30 final size:29
Alignment explanation
Indices: 19010839--19010924 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 29
19010829 ACCGGGTTTG
* *
19010839 AGCTAAGCTGAGCTAAGCTTTAGC-CCTTA
1 AGCTAAGTTGAGCTAAGATTTAGCTCC-TA
*
19010868 AGCTAAAGTTGAGCTGAGATTATA-CTCCTA
1 AGCT-AAGTTGAGCTAAGATT-TAGCTCCTA
*
19010898 AGCTGAAGTTGAGCTAAGGTTTAGCTC
1 AGCT-AAGTTGAGCTAAGATTTAGCTC
19010925 GAGCTGAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
29 6 0.13
30 37 0.79
31 4 0.09
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (29 bp):
AGCTAAGTTGAGCTAAGATTTAGCTCCTA
Found at i:19015082 original size:21 final size:22
Alignment explanation
Indices: 19015034--19015083 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
19015024 TATTAAAGAG
**
19015034 TGTTGTGATTGCATCTGACTCT
1 TGTTGTGGGTGCATCTGACTCT
*
19015056 TG-TGTGGGTGCATCTGGCT-T
1 TGTTGTGGGTGCATCTGACTCT
19015076 TGTTGTGG
1 TGTTGTGG
19015084 TTGTATTTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.79
22 2 0.08
ACGTcount: A:0.08, C:0.14, G:0.34, T:0.44
Consensus pattern (22 bp):
TGTTGTGGGTGCATCTGACTCT
Found at i:19018564 original size:47 final size:47
Alignment explanation
Indices: 19018513--19018684 Score: 222
Period size: 47 Copynumber: 3.7 Consensus size: 47
19018503 TTAGGATTCT
* * *
19018513 ATGTGATGGATGTGAACA-TGCATATATGAGAAAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGAAAAGGCCTAATGGCCG
*
19018560 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGAAAAGGCCTAATGGCCG
* * *
19018607 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC-AAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGAAAAGGCCTAA-TGGCCG
* * *
19018654 ACGTGATGGATGTGAAAGTGTATAAATGTGA
1 ATGTGATGAATGTGAAAGTGTATATATGTGA
19018685 TAAGTCCCGA
Statistics
Matches: 113, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
46 3 0.03
47 110 0.97
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGAAAAGGCCTAATGGCCG
Found at i:19018857 original size:37 final size:37
Alignment explanation
Indices: 19018807--19018959 Score: 252
Period size: 37 Copynumber: 4.1 Consensus size: 37
19018797 CCGAGCTCTA
*
19018807 AAGACCCGATGACTACGTGTGGGGATTTTGTCCAGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
*
19018844 AAGACCCAATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
19018881 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
* * * *
19018918 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
19018955 AAGAC
1 AAGAC
19018960 TTCGTAATAA
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 109 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
Found at i:19021868 original size:47 final size:48
Alignment explanation
Indices: 19021756--19022021 Score: 227
Period size: 47 Copynumber: 5.7 Consensus size: 48
19021746 GTTATTGTGG
* * * *
19021756 GCTAGTGAAAGA-CATGTCTGGGACAT-GCATCAGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCATCGA-GATGATA
* * * *
19021802 GCCAGTGTAAGACCGTGTCTGGGATATGGCATCGGCATTGAGATGA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGATA
* * *
19021849 TGCTAGTGTAAGA-CATGTCTGGGACGT-GCATCGGCCTCGAGA-GGTAA
1 -GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAT-A
* *
19021896 GCCAGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-TACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGATGATA
19021942 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GAGAT-ATGA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGAT-A
* * *
19021989 GCTAGTGTAAGACCGTGTCTGGGATATGTCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
19022022 AGCACTTTAC
Statistics
Matches: 182, Mismatches: 23, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
45 2 0.01
46 72 0.40
47 77 0.42
48 29 0.16
49 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGATGATA
Found at i:19024801 original size:29 final size:29
Alignment explanation
Indices: 19024738--19024805 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
19024728 TAATCAACCG
19024738 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
19024767 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
19024796 CGCACACTTA
1 CGCACACTTA
19024806 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:19024918 original size:174 final size:174
Alignment explanation
Indices: 19024627--19024954 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
19024617 AACTCAAGGT
* *
19024627 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
19024692 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
19024757 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
19024801 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
19024866 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
19024931 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
19024955 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:19024946 original size:29 final size:30
Alignment explanation
Indices: 19024907--19024985 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
19024897 CTTAATAATC
19024907 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
19024937 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
19024966 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
19024986 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:19032740 original size:40 final size:40
Alignment explanation
Indices: 19032696--19032957 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
19032686 GCTCCTCGTT
* *
19032696 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
19032736 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19032776 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19032815 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
19032854 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
19032893 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
19032934 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19032958 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:19049449 original size:49 final size:49
Alignment explanation
Indices: 19049148--19050266 Score: 2013
Period size: 49 Copynumber: 23.2 Consensus size: 49
19049138 AATTCTAAAT
19049148 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049195 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049242 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049289 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049336 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049383 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049432 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049481 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049530 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049579 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049628 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049677 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049726 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049775 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049824 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049873 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049922 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19049971 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19050020 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
*
19050067 TGTGAATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTG-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19050117 --TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19050164 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
*** * * * * * *
19050211 TGTGACGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATA-A-A
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
19050258 TGTGATAAG
1 TGTGATAAG
19050267 TCCCGAAGGG
Statistics
Matches: 1050, Mismatches: 13, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
47 329 0.31
48 39 0.04
49 676 0.64
50 6 0.01
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:19050442 original size:38 final size:37
Alignment explanation
Indices: 19050385--19050463 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 37
19050375 CTGAGCTCTA
* *
19050385 AAGACCCGATGACTACGTGTGG-GAATTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-A-TTATGTCCGGGT
*
19050423 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19050460 AAGA
1 AAGA
19050464 TTTCGTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 15 0.41
38 21 0.57
39 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19053022 original size:43 final size:43
Alignment explanation
Indices: 19052969--19053057 Score: 160
Period size: 43 Copynumber: 2.1 Consensus size: 43
19052959 CACACGCCAA
*
19052969 TGTGAACAGGCCGTGTGCCTCACACGGCTAGTAGACACACCCG
1 TGTGAACAGGCCGTATGCCTCACACGGCTAGTAGACACACCCG
*
19053012 TGTGAACAGGCCGTATGCCTCACACGGCTAGTAGAGACACCCG
1 TGTGAACAGGCCGTATGCCTCACACGGCTAGTAGACACACCCG
19053055 TGT
1 TGT
19053058 CTTAGGCCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.18
Consensus pattern (43 bp):
TGTGAACAGGCCGTATGCCTCACACGGCTAGTAGACACACCCG
Found at i:19072651 original size:15 final size:16
Alignment explanation
Indices: 19072631--19072660 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19072621 TGGTGCCTTG
19072631 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
19072646 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
19072661 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:19076196 original size:27 final size:27
Alignment explanation
Indices: 19076166--19076272 Score: 128
Period size: 27 Copynumber: 3.9 Consensus size: 27
19076156 GGCTGCCACA
* *
19076166 ACAGATAATGTGACAGAGTCACCAGAT
1 ACAGATAATGTGGCAGAGCCACCAGAT
19076193 ACAGATAATCGTGGCAGAGCCACCAGA-
1 ACAGATAAT-GTGGCAGAGCCACCAGAT
*
19076220 ACAGAAATATGTGGCAGAGCCACCAGAT
1 ACAGATA-ATGTGGCAGAGCCACCAGAT
* *
19076248 -CAGATAATTGTGGTATAGCCACCAG
1 ACAGATAA-TGTGGCAGAGCCACCAG
19076273 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 1 0.01
27 52 0.74
28 17 0.24
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGATAATGTGGCAGAGCCACCAGAT
Found at i:19076224 original size:54 final size:54
Alignment explanation
Indices: 19076165--19076272 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
19076155 TGGCTGCCAC
* *
19076165 AACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCACCAG
* * * *
19076219 AACAGAAATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTATAGCCACCAG
1 AACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACCAG
19076273 GACGCTTCCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (54 bp):
AACAGAAATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCACCAG
Found at i:19077718 original size:24 final size:24
Alignment explanation
Indices: 19077691--19077761 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
19077681 ATAGATTTCC
**
19077691 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
19077715 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
19077739 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
19077762 CTCCTGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:19084063 original size:27 final size:26
Alignment explanation
Indices: 19084026--19084137 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
19084016 AGCATGGCTG
*
19084026 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
*
19084052 CCAGATACAGATAATAGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGACAGAGCCA
*
19084080 CCAGAACAGAAATATGTGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
19084107 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
19084134 CCAG
1 CCAG
19084138 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:19084118 original size:54 final size:54
Alignment explanation
Indices: 19084026--19084137 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
19084016 AGCATGGCTG
* *
19084026 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATAGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATAGTGGCAGAGCCA
* *
19084080 CCAGAACAGAAATATGTGACAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATAGTGGCAGAGCCA
19084134 CCAG
1 CCAG
19084138 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 34 0.64
55 19 0.36
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATAGTGGCAGAGCCA
Found at i:19093975 original size:24 final size:24
Alignment explanation
Indices: 19093948--19093994 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19093938 CTAGATTTCC
**
19093948 TCCCTTACCTGCTCCTAAATCCTA
1 TCCCTTACCAACTCCTAAATCCTA
*
19093972 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTACCAACTCCTAAATCCT
19093995 CTCCTGACAG
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:0.23, C:0.40, G:0.02, T:0.34
Consensus pattern (24 bp):
TCCCTTACCAACTCCTAAATCCTA
Found at i:19097969 original size:25 final size:25
Alignment explanation
Indices: 19097935--19097985 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
19097925 CTTTTTAATT
19097935 ACTATAGAACAAGGGAAAATAAAAC
1 ACTATAGAACAAGGGAAAATAAAAC
19097960 ACTATAGAACAAGGGAAAATAAAAC
1 ACTATAGAACAAGGGAAAATAAAAC
19097985 A
1 A
19097986 GAGTAAGCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.12
Consensus pattern (25 bp):
ACTATAGAACAAGGGAAAATAAAAC
Found at i:19099076 original size:65 final size:65
Alignment explanation
Indices: 19098993--19099133 Score: 214
Period size: 65 Copynumber: 2.2 Consensus size: 65
19098983 GAATGTTCAA
** * *
19098993 AAAGAGCTGCGTTTGTGTCTGCAACATATGCAGGATCACAACTGATCACAT-AACAGGATGCTCA
1 AAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCA-ATAAACAGGACGCTCA
19099057 C
65 C
19099058 AAAGAG-TGGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCAATAAACAGGACGCTCA
1 AAAGAGCT-GCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCAATAAACAGGACGCTCA
19099122 C
65 C
19099123 AAAGAGCTGCG
1 AAAGAGCTGCG
19099134 GTAGTCGCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
64 3 0.04
65 65 0.94
66 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (65 bp):
AAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCAATAAACAGGACGCTCAC
Found at i:19102329 original size:40 final size:40
Alignment explanation
Indices: 19102292--19102475 Score: 225
Period size: 40 Copynumber: 4.6 Consensus size: 40
19102282 GCTACTCGTT
*
19102292 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
19102332 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
19102372 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
** * *
19102411 CAAATGCCTTC-GGATCTTAGCCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
19102452 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
19102476 ACATCATTCG
Statistics
Matches: 125, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 78 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:19102403 original size:79 final size:81
Alignment explanation
Indices: 19102294--19102476 Score: 241
Period size: 79 Copynumber: 2.3 Consensus size: 81
19102284 TACTCGTTCA
* * *
19102294 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGA
* *
19102357 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
*
19102374 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGCCCGAA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAA
*
19102437 TATAGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
19102453 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
19102477 CATCATTCGA
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAA
TATAGTAACTTAGCAC
Found at i:19109668 original size:39 final size:40
Alignment explanation
Indices: 19109597--19109740 Score: 156
Period size: 39 Copynumber: 3.6 Consensus size: 40
19109587 GCTACTCGTT
* *
19109597 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
*
19109637 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
19109676 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
19109717 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
19109741 CATCATTCAA
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
38 2 0.02
39 47 0.52
40 33 0.37
41 8 0.09
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:19111518 original size:18 final size:18
Alignment explanation
Indices: 19111470--19111519 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
19111460 CCCAATTCAA
*
19111470 TAACAGTAAACAATGCAG
1 TAACAGTAAACAGTGCAG
19111488 TAACAGTAAACAGTGCAG
1 TAACAGTAAACAGTGCAG
*
19111506 TATCAGTAAACAGT
1 TAACAGTAAACAGT
19111520 ATGCAAGTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.46, C:0.16, G:0.18, T:0.20
Consensus pattern (18 bp):
TAACAGTAAACAGTGCAG
Found at i:19113366 original size:25 final size:25
Alignment explanation
Indices: 19113338--19113385 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19113328 TTATAATATG
* * *
19113338 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
19113363 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
19113386 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:19113426 original size:9 final size:10
Alignment explanation
Indices: 19113414--19113470 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
19113404 TACATGGGAT
19113414 ATGATAT-AC
1 ATGATATGAC
*
19113423 ATGA-ATGAT
1 ATGATATGAC
19113432 ATGATATGCAC
1 ATGATATG-AC
*
19113443 ATGATATG-T
1 ATGATATGAC
19113452 ATGATATGCAC
1 ATGATATG-AC
19113463 ATGATATG
1 ATGATATG
19113471 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 17 0.44
10 3 0.08
11 17 0.44
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (10 bp):
ATGATATGAC
Found at i:19113446 original size:20 final size:20
Alignment explanation
Indices: 19113413--19113487 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
19113403 ATACATGGGA
19113413 TATGATAT--ACATGA-ATG
1 TATGATATGCACATGATATG
19113430 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
19113451 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
19113471 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
19113488 GTAATCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 42 0.79
21 3 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:19113448 original size:11 final size:11
Alignment explanation
Indices: 19113432--19113487 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
19113422 CATGAATGAT
19113432 ATGATATGCAC
1 ATGATATGCAC
*
19113443 ATGATATG--T
1 ATGATATGCAC
19113452 ATGATATGCAC
1 ATGATATGCAC
*
19113463 ATGATATG--T
1 ATGATATGCAC
*
19113472 ATGAAATGCAC
1 ATGATATGCAC
19113483 ATGAT
1 ATGAT
19113488 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:19113577 original size:26 final size:25
Alignment explanation
Indices: 19113537--19113633 Score: 122
Period size: 26 Copynumber: 3.8 Consensus size: 25
19113527 GAGGAAGTGC
**
19113537 AAAAGGGCTATGCCCCAGTTTATTG
1 AAAAGGGCTATGCCCCAGTTTACCG
**
19113562 GTAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGC-TATGCCCCAGTTTACCG
19113588 AAAAGGGCCTATGCCCCAGTTTACCG
1 AAAAGGG-CTATGCCCCAGTTTACCG
* *
19113614 AAAAGGGCTTTGCCTCAGTT
1 AAAAGGGCTATGCCCCAGTT
19113634 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
25 17 0.27
26 44 0.71
27 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTATGCCCCAGTTTACCG
Found at i:19121500 original size:20 final size:21
Alignment explanation
Indices: 19121464--19121541 Score: 85
Period size: 20 Copynumber: 4.0 Consensus size: 21
19121454 TTGATACGTG
19121464 GGATATGATAT--ACATGA-A
1 GGATATGATATGCACATGATA
19121482 GGATATGATATGCACATGATA
1 GGATATGATATGCACATGATA
*
19121503 TG-TATGATATGCACATGATA
1 GGATATGATATGCACATGATA
* * *
19121523 TG-TATGAAATACACATGAT
1 GGATATGATATGCACATGAT
19121542 GTAATCATAA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
18 11 0.20
20 41 0.76
21 2 0.04
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.31
Consensus pattern (21 bp):
GGATATGATATGCACATGATA
Found at i:19121502 original size:11 final size:11
Alignment explanation
Indices: 19121486--19121524 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
19121476 CATGAAGGAT
19121486 ATGATATGCAC
1 ATGATATGCAC
*
19121497 ATGATATG--T
1 ATGATATGCAC
19121506 ATGATATGCAC
1 ATGATATGCAC
19121517 ATGATATG
1 ATGATATG
19121525 TATGAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:19121620 original size:26 final size:26
Alignment explanation
Indices: 19121591--19121749 Score: 208
Period size: 26 Copynumber: 6.3 Consensus size: 26
19121581 GAGGAAGTGC
19121591 AAAAGGGCTTATGCCCCTA-TTTATTG
1 AAAAGGGCTTATGCCCC-AGTTTATTG
**
19121617 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
19121643 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
19121669 AAAAGGGCTTATG--CC--TTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
19121691 GAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
19121717 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
19121740 AAAAGAGGCT
1 AAAAG-GGCT
19121750 AGGCCTCTAG
Statistics
Matches: 119, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
22 19 0.16
23 5 0.04
24 12 0.10
25 9 0.08
26 74 0.62
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:19121669 original size:52 final size:52
Alignment explanation
Indices: 19121591--19121736 Score: 205
Period size: 48 Copynumber: 2.9 Consensus size: 52
19121581 GAGGAAGTGC
19121591 AAAAGGGCTTATGCCCCTA-TTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCC-AGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
**
19121643 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATG--CC--TTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
* *
19121691 GAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTT
19121737 ATTAAAAGAG
Statistics
Matches: 85, Mismatches: 4, Indels: 11
0.85 0.04 0.11
Matches are distributed among these distances:
47 2 0.02
48 39 0.46
49 2 0.02
50 2 0.02
51 3 0.04
52 37 0.44
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:19121719 original size:74 final size:73
Alignment explanation
Indices: 19121591--19121749 Score: 232
Period size: 74 Copynumber: 2.1 Consensus size: 73
19121581 GAGGAAGTGC
19121591 AAAAGGGCTTATGCCCCTATTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATG
1 AAAAGGGCTTATG-CCC-ATTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTT-TG
19121656 CCCCAGTTTATT
63 CCCCAG-TTATT
* *
19121668 GAAAAGGGCTTATG-CC-TTTATTGGAAAGGGCTTATGCCCCAGTTTATCGAAAAGGGCTTTGCC
1 -AAAAGGGCTTATGCCCATTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCC
19121731 CCAGTTATT
65 CCAGTTATT
19121740 AAAAGAGGCT
1 AAAAG-GGCT
19121750 AGGCCTCTAG
Statistics
Matches: 78, Mismatches: 2, Indels: 8
0.89 0.02 0.09
Matches are distributed among these distances:
71 5 0.06
72 9 0.12
73 8 0.10
74 41 0.53
76 2 0.03
78 13 0.17
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (73 bp):
AAAAGGGCTTATGCCCATTTATTGAAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTTGCCC
CAGTTATT
Found at i:19121996 original size:31 final size:31
Alignment explanation
Indices: 19121959--19122022 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
19121949 CCGTTAAACG
19121959 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
19121990 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
19122021 AA
1 AA
19122023 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.23, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:19133692 original size:41 final size:43
Alignment explanation
Indices: 19133593--19133729 Score: 118
Period size: 41 Copynumber: 3.2 Consensus size: 43
19133583 CAACACCAAC
* ** *
19133593 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACATAATCAAATATCGATGCCACT
* *
19133636 GTCCCTGACAGGGTCTTACACAT-ATCAAATA-CGATGCCGA-T
1 GTCCCAGACATGGTCTTACACATAATCAAATATCGATGCC-ACT
* ** * * *
19133677 GTCCCAAACATGGTCTTACATGTAATCACTTATATTGATGCCAAT
1 GTCCCAGACATGGTCTTACACATAATCA--AATATCGATGCCACT
19133722 GTCCCAGA
1 GTCCCAGA
19133730 TGGGGTCATA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
41 26 0.35
42 12 0.16
43 18 0.24
44 4 0.05
45 14 0.19
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACATAATCAAATATCGATGCCACT
Found at i:19135823 original size:20 final size:21
Alignment explanation
Indices: 19135798--19135836 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19135788 CTCTTGAAAC
19135798 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
19135818 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
19135837 ATCATTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:19137037 original size:47 final size:45
Alignment explanation
Indices: 19136976--19137284 Score: 199
Period size: 47 Copynumber: 6.6 Consensus size: 45
19136966 GCCGATGTCG
19136976 TGTCCCAGACATGGTCTTACACTAGCTTATCCATCAAGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGC-TAT-CATCAAGTCGATGCCA
* * *
19137023 TGTCCCAGACATGGTCTTACACT-GACTATCGAAATCGAGGCCGACGCCA
1 TGTCCCAGACATGGTCTTACACTAG-CTATC---ATC-AAGTCGATGCCA
* *
19137072 TGTCCTAGACATGGTCTTACACTAGCTCTCA-CATATCCGTGCTGATGCCA
1 TGTCCCAGACATGGTCTTACACTAGCTATCATCA-A---GT-C-GATGCCA
* * *
19137122 TGTCCCAGACATGGTCTTACACT-GACACATC-TCATAGCCGAT-ACA
1 TGTCCCAGACATGGTCTTACACTAG-C-TATCATCA-AGTCGATGCCA
* * * * *
19137167 TGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCTAATG-CT
1 TGTCCCAGACATGGTCTTACACTAGCTAT-CA--TCAAGTC-GATGCCA
*
19137213 TGTCCCAGACATGGTCTTACACTAGCTCTCAT-AATGTGGCCGATG-CA
1 TGTCCCAGACATGGTCTTACACTAGCTATCATCAA-GT---CGATGCCA
19137260 TGTCCCAGACAT-GTCTTACACTAGC
1 TGTCCCAGACATGGTCTTACACTAGC
19137285 GTACAAATAA
Statistics
Matches: 211, Mismatches: 23, Indels: 57
0.73 0.08 0.20
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 13 0.06
45 22 0.10
46 38 0.18
47 56 0.27
48 7 0.03
49 37 0.18
50 30 0.14
51 6 0.03
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
TGTCCCAGACATGGTCTTACACTAGCTATCATCAAGTCGATGCCA
Found at i:19137091 original size:49 final size:50
Alignment explanation
Indices: 19137019--19137147 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 50
19137009 TCAAGTCGAT
19137019 GCCATGTCCCAGACATGGTCTTACACTGACTATCGA-A-AT-CGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTATC-ACATATCCG-GGCCGAC
* * * * *
19137068 GCCATGTCCTAGACATGGTCTTACACT-AGCTCTCACATATCCGTGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCACATATCCGGGCCGAC
19137118 GCCATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
19137148 ACATCTCATA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
48 2 0.03
49 31 0.45
50 33 0.48
51 3 0.04
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCACATATCCGGGCCGAC
Found at i:19137274 original size:93 final size:95
Alignment explanation
Indices: 19137017--19137284 Score: 277
Period size: 93 Copynumber: 2.8 Consensus size: 95
19137007 CATCAAGTCG
* * *
19137017 ATGCCATGTCCCAGACATGGTCTTACACT-GACTATCGA-AATCGAGGCCGACGCCATGTCCTAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ATAAT-G-GGCCGATG-CATGTCCCAG
* *
19137080 ACATGGTCTTACACTAGCTCTCACATATCCGTGCTG
61 ACAT-GTCTTACACTAGCTCTCACATATCCGGGCTA
* *
19137116 ATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCAT-A---GCCGATACATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACT-A-GC-TCTCATAATGGGCCGATGCATGTCCCAGAC
* *
19137177 ATGTCTTACACTGGCT-T-ACATCT-CGAGGCTA
63 ATGTCTTACACTAGCTCTCACATATCCG-GGCTA
*
19137208 ATG-CTTGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATG-GGCCGATGCATGTCCCAGACAT
19137272 GTCTTACACTAGC
65 GTCTTACACTAGC
19137285 GTACAAATAA
Statistics
Matches: 145, Mismatches: 13, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
88 6 0.04
89 2 0.01
90 1 0.01
91 26 0.18
92 11 0.08
93 33 0.23
94 13 0.09
95 13 0.09
96 5 0.03
99 29 0.20
101 3 0.02
102 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCTCTCACATATCCGGGCTA
Found at i:19146998 original size:48 final size:45
Alignment explanation
Indices: 19146886--19147053 Score: 153
Period size: 48 Copynumber: 3.6 Consensus size: 45
19146876 AGGCCGACGC
* * * *
19146886 CATGTTCCAGACATGGTCTTACACTAGCTCTCACATATTCGT-GCTAATG
1 CATGTCCCAGACATGGTCTTACACT-G---ACACAT-CTCGTAGCCAATG
* * *
19146935 TCATGTCCCACACATGGTCTTACACTGACACCTCTATACGT-GCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACACATC--T-CGTAGCCAATG
*
19146983 CTATGTCTCAGACATGGTCTTACACTGACACATCTCGTAGCCAATG
1 C-ATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATG
19147029 CATGTCCCAGACAT-GTCTTACACTG
1 CATGTCCCAGACATGGTCTTACACTG
19147054 GCTTACACTG
Statistics
Matches: 101, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
44 11 0.11
45 15 0.15
46 12 0.12
47 2 0.02
48 37 0.37
49 1 0.01
50 23 0.23
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCAATG
Found at i:19147107 original size:46 final size:46
Alignment explanation
Indices: 19147055--19147200 Score: 138
Period size: 46 Copynumber: 3.2 Consensus size: 46
19147045 CTTACACTGG
*
19147055 CTTACACTGGCTTTCATCTCGAGGCTGATGCATGTCCCAGACATGT
1 CTTACACTGGCTCTCATCTCGAGGCTGATGCATGTCCCAGACATGT
* * ** * *
19147101 CTTACACTAGCTCTCGTCTC-ATTTCCGATGCCATGT-CC-TACATGGT
1 CTTACACTGGCTCTCATCTCGA-GGCTGATG-CATGTCCCAGACAT-GT
* * *
19147147 CTTACACTGGCTCTCATAAT-GTGGCTGATACATGTCCCAGACATGT
1 CTTACACTGGCTCTCAT-CTCGAGGCTGATGCATGTCCCAGACATGT
19147193 CTTACACT
1 CTTACACT
19147201 AGCGCACAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
45 10 0.13
46 57 0.74
47 10 0.13
ACGTcount: A:0.21, C:0.29, G:0.18, T:0.32
Consensus pattern (46 bp):
CTTACACTGGCTCTCATCTCGAGGCTGATGCATGTCCCAGACATGT
Found at i:19152148 original size:47 final size:47
Alignment explanation
Indices: 19152094--19152420 Score: 483
Period size: 47 Copynumber: 7.0 Consensus size: 47
19152084 TTAGGATTTT
** *
19152094 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
19152141 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
19152188 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
19152235 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
19152282 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
19152329 ATGTGATGGATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
19152376 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
19152421 TAGTGTGAAA
Statistics
Matches: 253, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 253 1.00
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:19152196 original size:25 final size:25
Alignment explanation
Indices: 19152121--19152196 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
19152111 GTGTATATAT
19152121 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
19152146 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
19152168 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
19152193 GTGA
1 GTGA
19152197 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:19152689 original size:37 final size:37
Alignment explanation
Indices: 19152583--19152691 Score: 155
Period size: 37 Copynumber: 2.9 Consensus size: 37
19152573 GGAAATATAT
* * *
19152583 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
19152620 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
19152657 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
19152692 CGTCTAAGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:19165470 original size:42 final size:42
Alignment explanation
Indices: 19165402--19165514 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
19165392 ATTAAGATTC
* ** * * *
19165402 CATATAAGACCATATCCAGGATATGGCCTCGGTATG-TGATTT
1 CATATAAAACCATATCGGGGACATGGCATCGATATGAT-ATTT
* *
19165444 CGTATAAAACCATGTCGGGGACATGGCATCGATATGATATTT
1 CATATAAAACCATATCGGGGACATGGCATCGATATGATATTT
* * *
19165486 CATGTAAGACCATATCGGGGATATGGCAT
1 CATATAAAACCATATCGGGGACATGGCAT
19165515 TGAAACGATA
Statistics
Matches: 57, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 56 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (42 bp):
CATATAAAACCATATCGGGGACATGGCATCGATATGATATTT
Found at i:19165533 original size:42 final size:42
Alignment explanation
Indices: 19165452--19165533 Score: 94
Period size: 42 Copynumber: 2.0 Consensus size: 42
19165442 TTCGTATAAA
* * * *
19165452 ACCATGTCGGGGACATGGCATCGATATGATATTTCATGTAAG
1 ACCATATCGGGGACATGGCATCGAAACGATATATCATGTAAG
* *
19165494 ACCATATCGGGGATATGGCATTGAAACGATACTAT-ATGTA
1 ACCATATCGGGGACATGGCATCGAAACGATA-TATCATGTA
19165534 TGAGATTTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
ACCATATCGGGGACATGGCATCGAAACGATATATCATGTAAG
Found at i:19170773 original size:23 final size:24
Alignment explanation
Indices: 19170743--19170788 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
19170733 AGAACTTTTA
*
19170743 ATCAAGAAT-CTCACGAAGAGCCT
1 ATCAAGAATGCTCACAAAGAGCCT
*
19170766 ATCAAGAATGCTTACAAAGAGCC
1 ATCAAGAATGCTCACAAAGAGCC
19170789 ACGTAACGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (24 bp):
ATCAAGAATGCTCACAAAGAGCCT
Found at i:19170936 original size:65 final size:65
Alignment explanation
Indices: 19170842--19170988 Score: 190
Period size: 65 Copynumber: 2.3 Consensus size: 65
19170832 CGAGTCATAT
* * * * * *
19170842 CAGGACACTCATAAAGAGC-TGCGTTTGTGTCCGTAACATATGCAGGATCACAACTGATCGCAT-
1 CAGGACGCTCACAAAGA-CTTGCATTTGTGTCCGCAACATATGCAGGATCACAACCGATC-AATA
19170905 AA
64 AA
* *
19170907 CAGGATGCTCACAAAGACTTGCATTTGTGTCCGCAACATATGCAGGATCATAACCGATCAATAAA
1 CAGGACGCTCACAAAGACTTGCATTTGTGTCCGCAACATATGCAGGATCACAACCGATCAATAAA
19170972 CAGGACGCTCACAAAGA
1 CAGGACGCTCACAAAGA
19170989 GCTGCAGTAG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
64 3 0.04
65 68 0.96
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (65 bp):
CAGGACGCTCACAAAGACTTGCATTTGTGTCCGCAACATATGCAGGATCACAACCGATCAATAAA
Found at i:19175554 original size:17 final size:17
Alignment explanation
Indices: 19175532--19175574 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
19175522 TGCACAAAAT
*
19175532 CAACATGTACAATTGAC
1 CAACATGCACAATTGAC
19175549 CAACATGCACAATTGAC
1 CAACATGCACAATTGAC
19175566 CAACATGCA
1 CAACATGCA
19175575 TATCACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.42, C:0.28, G:0.12, T:0.19
Consensus pattern (17 bp):
CAACATGCACAATTGAC
Found at i:19177626 original size:18 final size:19
Alignment explanation
Indices: 19177603--19177639 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
19177593 CGAATGTACA
19177603 TTTCATATACA-CATATAT
1 TTTCATATACATCATATAT
*
19177621 TTTCATTTACATCATATAT
1 TTTCATATACATCATATAT
19177640 AATTTGTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTCATATACATCATATAT
Found at i:19177864 original size:43 final size:42
Alignment explanation
Indices: 19177805--19177921 Score: 123
Period size: 41 Copynumber: 2.8 Consensus size: 42
19177795 ACACATATCG
* *
19177805 TACAATGCCAAC-GTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAACTGTCCCAGACATGGTCTTACACG-AATCAAA
* * * *
19177847 TATCGATGCC-ACTGTCCCAAACAGGGTCCTACACGAATCAAA
1 TA-CAATGCCAACTGTCCCAGACATGGTCTTACACGAATCAAA
* *
19177889 TACAATGCCGA-TGTCCCAGATATGGTCTTACAC
1 TACAATGCCAACTGTCCCAGACATGGTCTTACAC
19177922 ATCACATATA
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
41 24 0.39
42 13 0.21
43 24 0.39
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (42 bp):
TACAATGCCAACTGTCCCAGACATGGTCTTACACGAATCAAA
Found at i:19177947 original size:42 final size:41
Alignment explanation
Indices: 19177809--19177962 Score: 109
Period size: 42 Copynumber: 3.7 Consensus size: 41
19177799 ATATCGTACA
* * *
19177809 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAC-ATATCG
1 ATGCCAACGTCCCAAACAGGGTCTTACA---CATCACAATATCG
* *
19177852 ATGCC-ACTGTCCCAAACAGGGTCCTACACGAATCA-AATA-CA
1 ATGCCAAC-GTCCCAAACAGGGTCTTACAC--ATCACAATATCG
* * * * *
19177893 ATGCCGATGTCCCAGATATGGTCTTACACATCACATATATCG
1 ATGCCAACGTCCCAAACAGGGTCTTACACATCACA-ATATCG
**
19177935 ATGCCAACGTCCCAAATGGGGTCTTACA
1 ATGCCAACGTCCCAAACAGGGTCTTACA
19177963 TGAGAACACA
Statistics
Matches: 87, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
39 4 0.05
40 1 0.01
41 26 0.30
42 34 0.39
43 22 0.25
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (41 bp):
ATGCCAACGTCCCAAACAGGGTCTTACACATCACAATATCG
Found at i:19184623 original size:44 final size:43
Alignment explanation
Indices: 19184559--19184682 Score: 142
Period size: 44 Copynumber: 2.8 Consensus size: 43
19184549 ACTTGTATTG
* *
19184559 CATCCATTATGAA-CTCAGACCAACTCAACGAGTTCGGATGCTCT
1 CATCCATAATGAACCT-AGACCAACTCAACGAGTTCGGATGC-CA
* *
19184603 CATCCATAATGAACCTAGACCAACTCAATGAGTTCGGTTGCCA
1 CATCCATAATGAACCTAGACCAACTCAACGAGTTCGGATGCCA
* * *
19184646 CATACATATCACGAACCCAGACCAACTCAACGAGTTC
1 CATCCATA--ATGAACCTAGACCAACTCAACGAGTTC
19184683 AGATTTCTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
43 8 0.12
44 35 0.51
45 26 0.38
ACGTcount: A:0.33, C:0.31, G:0.15, T:0.22
Consensus pattern (43 bp):
CATCCATAATGAACCTAGACCAACTCAACGAGTTCGGATGCCA
Found at i:19188663 original size:49 final size:49
Alignment explanation
Indices: 19188563--19188667 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
19188553 AGGAAGTATC
*
19188563 TGGCAGTAAATCTGTAATTTCTAGTGGCTTGACCACAATATTCTGCATT
1 TGGCAGTAAATCTGTAATTTCTAGTGGCTCGACCACAATATTCTGCATT
* * * * * *
19188612 TGGCAGTATATCTGTGATTATTTGGTGGCTCGACCATAATATTCTG-TTT
1 TGGCAGTAAATCTGTAATT-TCTAGTGGCTCGACCACAATATTCTGCATT
19188661 TGGCAGT
1 TGGCAGT
19188668 TCAACTGCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 26 0.54
50 22 0.46
ACGTcount: A:0.23, C:0.16, G:0.22, T:0.39
Consensus pattern (49 bp):
TGGCAGTAAATCTGTAATTTCTAGTGGCTCGACCACAATATTCTGCATT
Found at i:19193429 original size:13 final size:13
Alignment explanation
Indices: 19193386--19193429 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
19193376 GAGCATACAT
19193386 AAAACATATCTTTG
1 AAAACATATC-TTG
* * *
19193400 AAATCATAGCTTA
1 AAAACATATCTTG
19193413 AAAACATATCTTG
1 AAAACATATCTTG
19193426 AAAA
1 AAAA
19193430 TAGAATCTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (13 bp):
AAAACATATCTTG
Found at i:19193658 original size:50 final size:49
Alignment explanation
Indices: 19193554--19193660 Score: 117
Period size: 50 Copynumber: 2.2 Consensus size: 49
19193544 ACATTCATAA
* *
19193554 CAAAAAACATGATAGTGTACATACTTCTGATGAATCCTAGATATCTCAC
1 CAAAAAACATGATAGTGTACATACTTCTGATGAATCCCAGATATATCAC
* * ** * *
19193603 TAAAAAACATGATAGTTTAGCATGTTTTTGATGAATCCCCGATCA-ATCAC
1 CAAAAAACATGATAGTGTA-CATACTTCTGATGAATCCCAGAT-ATATCAC
19193653 CAAAAAAC
1 CAAAAAAC
19193661 TAAGAATTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
49 17 0.36
50 29 0.62
51 1 0.02
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (49 bp):
CAAAAAACATGATAGTGTACATACTTCTGATGAATCCCAGATATATCAC
Found at i:19200544 original size:30 final size:31
Alignment explanation
Indices: 19200499--19200564 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
19200489 CTTCTTGATC
*
19200499 GGATACTTCTCGATGAGCAACATCGTGATGG
1 GGATACTTCTCGATGAGCAACATCATGATGG
* * *
19200530 GGAT-CTTCTTGATGAGCTACTTCATGAT-G
1 GGATACTTCTCGATGAGCAACATCATGATGG
19200559 GGATAC
1 GGATAC
19200565 CTCCTGAGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 5 0.17
30 21 0.70
31 4 0.13
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (31 bp):
GGATACTTCTCGATGAGCAACATCATGATGG
Found at i:19203656 original size:44 final size:45
Alignment explanation
Indices: 19203595--19203682 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 45
19203585 AAGCAAAACA
*
19203595 TAAGCCAAATATGAAAACAACCAAGAAACATAATTTTGATTAACG
1 TAAGCCAAATATAAAAACAACCAAGAAACATAATTTTGATTAACG
* *
19203640 TAAGCC-AATATAAAAACCACTAAGAAACATAATTTTGATTAAC
1 TAAGCCAAATATAAAAACAACCAAGAAACATAATTTTGATTAAC
19203683 ACCAAGAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.85
45 6 0.15
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.24
Consensus pattern (45 bp):
TAAGCCAAATATAAAAACAACCAAGAAACATAATTTTGATTAACG
Found at i:19203694 original size:41 final size:42
Alignment explanation
Indices: 19203596--19203695 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 42
19203586 AGCAAAACAT
*
19203596 AAGCCAAATATGAAAACAACCAAGAAACATAATTTTGATTAAC
1 AAGCCAAA-ATAAAAACAACCAAGAAACATAATTTTGATTAAC
* * *
19203639 GTAAGCCAATATAAAAACCACTAAGAAACATAATTTTGATTAAC
1 --AAGCCAAAATAAAAACAACCAAGAAACATAATTTTGATTAAC
19203683 -A-CCAAGAATAAAA
1 AAGCCAA-AATAAAA
19203696 TTTAAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
40 4 0.08
41 7 0.14
44 31 0.63
45 7 0.14
ACGTcount: A:0.54, C:0.16, G:0.09, T:0.21
Consensus pattern (42 bp):
AAGCCAAAATAAAAACAACCAAGAAACATAATTTTGATTAAC
Found at i:19205656 original size:24 final size:23
Alignment explanation
Indices: 19205621--19205667 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
19205611 TATCAAATTT
19205621 TTAAAAATATTTAAAAATATAAAA
1 TTAAAAATATTT-AAAATATAAAA
*
19205645 TTAAATAA-ATTTCAAATATAAAA
1 TTAAA-AATATTTAAAATATAAAA
19205668 ATATTAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 9 0.43
25 2 0.10
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TTAAAAATATTTAAAATATAAAA
Found at i:19205698 original size:20 final size:19
Alignment explanation
Indices: 19205655--19205699 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
19205645 TTAAATAAAT
* *
19205655 TTCAAATATAAAAATATTA
1 TTCAATTATAAAAATATCA
*
19205674 ATCAATTATATAAAATATCA
1 TTCAATTATA-AAAATATCA
19205694 TTCAAT
1 TTCAAT
19205700 AAATTAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (19 bp):
TTCAATTATAAAAATATCA
Found at i:19206149 original size:27 final size:29
Alignment explanation
Indices: 19206105--19206224 Score: 74
Period size: 28 Copynumber: 4.2 Consensus size: 29
19206095 TAAATTTTAG
*
19206105 AAAAATTATTAAATTTTAATAAGAA-TAT
1 AAAAATTATTAAATTTTAATAAAAATTAT
*
19206133 AAAAATT-TTGAAA-TTTATTAAAAATTAT
1 AAAAATTATT-AAATTTTAATAAAAATTAT
* * ***
19206161 AAAAAAATTTATAAAAATCGCA-AAAAA-T-T
1 --AAAAA-TTATTAAATTTTAATAAAAATTAT
* *
19206190 AAAAATTATAAAATTTT-ATAAAAATCAT
1 AAAAATTATTAAATTTTAATAAAAATTAT
19206218 AAAAATT
1 AAAAATT
19206225 TATAAAATGC
Statistics
Matches: 71, Mismatches: 11, Indels: 20
0.70 0.11 0.20
Matches are distributed among these distances:
25 1 0.01
26 14 0.20
27 16 0.23
28 21 0.30
29 1 0.01
30 6 0.08
31 10 0.14
32 2 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (29 bp):
AAAAATTATTAAATTTTAATAAAAATTAT
Found at i:19206213 original size:19 final size:19
Alignment explanation
Indices: 19206143--19206231 Score: 83
Period size: 19 Copynumber: 4.6 Consensus size: 19
19206133 AAAAATTTTG
*
19206143 AAATTTATTAAAAATTATAAAA
1 AAATTTA-TAAAAATCAT--AA
**
19206165 AAATTTATAAAAATCGCAA
1 AAATTTATAAAAATCATAA
* *
19206184 AAA-AT-TAAAAATTATAA
1 AAATTTATAAAAATCATAA
*
19206201 AATTTTATAAAAATCATAA
1 AAATTTATAAAAATCATAA
19206220 AAATTTATAAAA
1 AAATTTATAAAA
19206232 TGCATCAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
17 11 0.20
18 2 0.04
19 27 0.50
21 7 0.13
22 7 0.13
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (19 bp):
AAATTTATAAAAATCATAA
Found at i:19206474 original size:17 final size:17
Alignment explanation
Indices: 19206448--19206481 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19206438 TTTATATTTC
19206448 TTTACATTTTTAAATAT
1 TTTACATTTTTAAATAT
* *
19206465 TTTACTTTTTTATATAT
1 TTTACATTTTTAAATAT
19206482 AAAAATTTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTACATTTTTAAATAT
Found at i:19206892 original size:28 final size:30
Alignment explanation
Indices: 19206859--19206919 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
19206849 GAAATTAAAA
19206859 TATTATTTAAAA-TA-TAAAAAT-TATAATT
1 TATTATTTAAAATTATTAAAAATATAT-ATT
19206887 TATTATTTAAAATTATTAAAAATATATATT
1 TATTATTTAAAATTATTAAAAATATATATT
19206917 TAT
1 TAT
19206920 AATTATGCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 12 0.40
29 2 0.07
30 13 0.43
31 3 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTATTTAAAATTATTAAAAATATATATT
Found at i:19208894 original size:15 final size:15
Alignment explanation
Indices: 19208876--19208918 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
19208866 TTATTGAATA
19208876 TTTTTATATAATTTT
1 TTTTTATATAATTTT
* * *
19208891 TTTTAATATTATTAT
1 TTTTTATATAATTTT
19208906 TTTTT-TATAATTT
1 TTTTTATATAATTT
19208919 GTAAAATCCA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTTATATAATTTT
Found at i:19209092 original size:16 final size:16
Alignment explanation
Indices: 19209071--19209106 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
19209061 AAACAAATTA
*
19209071 ATATAAATAAATATTT
1 ATATAAACAAATATTT
19209087 ATATAAACAAATATTT
1 ATATAAACAAATATTT
19209103 ATAT
1 ATAT
19209107 TTATGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAACAAATATTT
Found at i:19210671 original size:16 final size:16
Alignment explanation
Indices: 19210634--19210671 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
19210624 AAAATTTTAA
19210634 AATATAA-AAATATTT
1 AATATAATAAATATTT
*
19210649 AA-ATAATAATTATTT
1 AATATAATAAATATTT
19210664 AATATAAT
1 AATATAAT
19210672 TTTAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 4 0.20
15 11 0.55
16 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AATATAATAAATATTT
Found at i:19210763 original size:23 final size:23
Alignment explanation
Indices: 19210737--19210782 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
19210727 ATAATCAAAT
19210737 ATTTAAGGGATAAATCCCAAAAC
1 ATTTAAGGGATAAATCCCAAAAC
*
19210760 ATTTAAGGGATAAATCCTAAAAC
1 ATTTAAGGGATAAATCCCAAAAC
19210783 TATATATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (23 bp):
ATTTAAGGGATAAATCCCAAAAC
Found at i:19211635 original size:17 final size:18
Alignment explanation
Indices: 19211613--19211647 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
19211603 TATTTATTAA
*
19211613 TTATTATTTTAAT-TTTT
1 TTATTATTGTAATATTTT
19211630 TTATTATTGTAATATTTT
1 TTATTATTGTAATATTTT
19211648 AATTGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATTATTGTAATATTTT
Found at i:19211645 original size:25 final size:25
Alignment explanation
Indices: 19211591--19211651 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
19211581 AATAATTTAT
*
19211591 ATATGTTAATTCTATTTATTAATTA
1 ATATTTTAATTCTATTTATTAATTA
* * *
19211616 TTATTTTAATT-TTTTTATTATTGTA
1 ATATTTTAATTCTATTTATTAAT-TA
19211641 ATATTTTAATT
1 ATATTTTAATT
19211652 GTTAAATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 9 0.30
25 21 0.70
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (25 bp):
ATATTTTAATTCTATTTATTAATTA
Found at i:19216855 original size:8 final size:8
Alignment explanation
Indices: 19216842--19216866 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
19216832 CAATATTACT
19216842 ACCATTTC
1 ACCATTTC
19216850 ACCATTTC
1 ACCATTTC
19216858 ACCATTTC
1 ACCATTTC
19216866 A
1 A
19216867 TTCAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (8 bp):
ACCATTTC
Found at i:19217074 original size:40 final size:40
Alignment explanation
Indices: 19217029--19217108 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
19217019 CCAATTCTAA
19217029 CTTCCAAAACTTCACAAGATAGCATATTATACCAAAAACT
1 CTTCCAAAACTTCACAAGATAGCATATTATACCAAAAACT
* *
19217069 CTTCCAAAACTTCATAAGATAGTATATTATACCAAAAACT
1 CTTCCAAAACTTCACAAGATAGCATATTATACCAAAAACT
19217109 GGCTCAACCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (40 bp):
CTTCCAAAACTTCACAAGATAGCATATTATACCAAAAACT
Found at i:19225752 original size:18 final size:18
Alignment explanation
Indices: 19225731--19225770 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
19225721 AAATATGTTG
19225731 AAAAATCATAATA-ATTAT
1 AAAAATCATAA-ACATTAT
19225749 AAAAATCATAAACATTAT
1 AAAAATCATAAACATTAT
19225767 AAAA
1 AAAA
19225771 TATATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAAATCATAAACATTAT
Found at i:19226229 original size:21 final size:21
Alignment explanation
Indices: 19226177--19226231 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
19226167 CAAAAAGTAA
* *
19226177 TATAA-TTTTTGTGATTTATT
1 TATAATTTTTTATTATTTATT
* * *
19226197 TGTAATTATTTATTATTTTTT
1 TATAATTTTTTATTATTTATT
19226218 TATAATTTTTTATT
1 TATAATTTTTTATT
19226232 TCAAAATCTA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.69
Consensus pattern (21 bp):
TATAATTTTTTATTATTTATT
Found at i:19226315 original size:14 final size:14
Alignment explanation
Indices: 19226278--19226319 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
19226268 AATAAAAAAA
*
19226278 TAATATTTTTGGAAT
1 TAATATTTTT-TAAT
*
19226293 T-ATAATTTTTAAT
1 TAATATTTTTTAAT
19226306 TAATATTTTTTAAT
1 TAATATTTTTTAAT
19226320 GTTTTTTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.17
14 18 0.78
15 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (14 bp):
TAATATTTTTTAAT
Found at i:19226387 original size:39 final size:39
Alignment explanation
Indices: 19226333--19226412 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
19226323 TTTTACAAAA
19226333 TATTTAGTTACAAAATTGAATTTCCAAT-AGAAATTTTAG
1 TATTTAGTTACAAAATTGAATTTCCAATAAG-AATTTTAG
* * * *
19226372 TATTTTGTTATAAAATTGAGTTTCTAATAAGAATTTTAG
1 TATTTAGTTACAAAATTGAATTTCCAATAAGAATTTTAG
19226411 TA
1 TA
19226413 ATAATTATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
39 34 0.94
40 2 0.06
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (39 bp):
TATTTAGTTACAAAATTGAATTTCCAATAAGAATTTTAG
Found at i:19231159 original size:117 final size:117
Alignment explanation
Indices: 19230943--19231164 Score: 297
Period size: 117 Copynumber: 1.9 Consensus size: 117
19230933 GAGTATGGAA
* * * *
19230943 TTTGTGTATTTATATAGTTTGGCATGTACTTAGGTCCATAACTTGTATAAATATGCTTATTCATA
1 TTTGAGTATTCATATAGTTTGGCATGTACTTAGGTACATAACTTGTATAAATATACTTATTCATA
*
19231008 TGTTAGTTAGTACCTAAAATGCTAGTGATAATGTAGAAATTGAAGGCTAGAG
66 TGTTAGTTAGCACCTAAAATGCTAGTGATAATGTAGAAATTGAAGGCTAGAG
* *
19231060 TTTGAGTATTCATATA-TTGTGGCATGTACTTAGG-ACATTAATTTGTATAAATATACTTATTTA
1 TTTGAGTATTCATATAGTT-TGGCATGTACTTAGGTACA-TAACTTGTATAAATATACTTATTCA
* * * *
19231123 TATGTTATTTAGCACCTGAAATGTTAGT-AGTGATGTAGAAAT
64 TATGTTAGTTAGCACCTAAAATGCTAGTGA-TAATGTAGAAAT
19231165 AGAAAGCTTT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
116 5 0.05
117 86 0.95
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (117 bp):
TTTGAGTATTCATATAGTTTGGCATGTACTTAGGTACATAACTTGTATAAATATACTTATTCATA
TGTTAGTTAGCACCTAAAATGCTAGTGATAATGTAGAAATTGAAGGCTAGAG
Found at i:19235819 original size:23 final size:22
Alignment explanation
Indices: 19235769--19235819 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
19235759 TTTAGGGAAA
* *
19235769 ATGTGAATAATTTTGAATGATG
1 ATGTGAATAAATTTGAATAATG
19235791 AT-TGAATGAAATTTGAA-AATG
1 ATGTGAAT-AAATTTGAATAATG
19235812 TATGTGAA
1 -ATGTGAA
19235820 ATGTATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 8 0.33
22 12 0.50
23 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (22 bp):
ATGTGAATAAATTTGAATAATG
Found at i:19236584 original size:591 final size:591
Alignment explanation
Indices: 19234989--19237342 Score: 4296
Period size: 591 Copynumber: 4.0 Consensus size: 591
19234979 AACCATGTGA
* *
19234989 TCCCATTTTGAATGTCCACAAGGCCTATGACACAGGCGTGTCTTTGGCCATGTGAGACACATGGC
1 TCCCATTTTGAATGTCCACAAGGCCTGTGACACAGGCGTGTCTTTGGCCGTGTGAGACACATGGC
* *
19235054 TAGGCCATACGGGTGTGTGTCCCTTGTATTTTGAAAAATTTTCTAAGTTTTCTGAAATTGTCCTG
66 CAGGCCATACGGGTGTGTGTCCCTTGTATTTTGAAAAATTTTCTAAGTTTTTTGAAATTGTCCTG
19235119 AGTACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGACAATGTG
131 AGTACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGACAATGTG
*
19235184 AATAATTTTGAATAATGATTGCATGAAATTTGAAAATGTATGTGAAATGTATGTTTTAATTGTGT
196 AATAATTTTGAATGATGATTGCATGAAATTTGAAAATGTATGTGAAATGTATGTTTTAATTGTGT
* * *
19235249 AGTAAGTCAGGTAATGTTTCGTAACCCTATTTCGGTGTTGAATATGGGTAAGGGGTGTTACATTT
261 AATAAGTCAGGTAATGTTTCGTAACCCTATTTCGGTGTTGAATACGGGTGAGGGGTGTTACATTT
* * *
19235314 TTTGGTATTAGAGATGTGGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGCCTAGGTA
326 ATTGGTATCAGAGATGTGGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGTCTAGGTA
19235379 TACATTCCATATATAACCTGTTATAGTGTGATATCTCCTGACAGTTTTAAATCATGTTTTCATAT
391 TACATTCCATATATAACCTGTTATAGTGTGATATCTCCTGACAGTTTTAAATCATGTTTTCATAT
* *
19235444 AGTAAATGGATCCAAATCGAGTTGTAACTGATGATGTTGAAAGTAATGCGCCAGCCTCCATTCAT
456 AGTAAATGGATCCCAATCGAGCTGTAACTGATGATGTTGAAAGTAATGCGCCAGCCTCCATTCAT
19235509 GGAGTAGCGCAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCCAAA
521 GGAGTAGCGCAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCCAAA
19235574 GAAGCC
586 GAAGCC
* *
19235580 TCCCATTTTGAATGTCCACAAGACCTGTGACACAGGCGTGTGTTTGGCCGTGTGAGACACATGGC
1 TCCCATTTTGAATGTCCACAAGGCCTGTGACACAGGCGTGTCTTTGGCCGTGTGAGACACATGGC
* *
19235645 CAGGCCATACGGGTGTGTGTCCCTTGTATTTTG-AAATTTTTTTAAGTTTTTTGAAATTGTCCTG
66 CAGGCCATACGGGTGTGTGTCCCTTGTATTTTGAAAAATTTTCTAAGTTTTTTGAAATTGTCCTG
*
19235709 AGTACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGAAAATGTG
131 AGTACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGACAATGTG
*
19235774 AATAATTTTGAATGATGATTGAATGAAATTTGAAAATGTATGTGAAATGTATGTTTTAATTGTGT
196 AATAATTTTGAATGATGATTGCATGAAATTTGAAAATGTATGTGAAATGTATGTTTTAATTGTGT
*
19235839 AATAAGTCAGGTAATGTTTCGTAACCCTATTTCAGTGTTGAATACGGGTGAGGGGTGTTACATTT
261 AATAAGTCAGGTAATGTTTCGTAACCCTATTTCGGTGTTGAATACGGGTGAGGGGTGTTACATTT
*
19235904 ATTGGTATCAGAGATGTAGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGTCTAGGTA
326 ATTGGTATCAGAGATGTGGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGTCTAGGTA
19235969 TACATTCCATATATAACCTGTTATAGTGTGATATCTCCTGACAGTTTTAAATCATGTTTTCATAT
391 TACATTCCATATATAACCTGTTATAGTGTGATATCTCCTGACAGTTTTAAATCATGTTTTCATAT
* *
19236034 AGTAAATGGATCCCAATCGAGCTGTAACTGATAATGTTGAAAGTAATGCACCAGCCTCCATTCAT
456 AGTAAATGGATCCCAATCGAGCTGTAACTGATGATGTTGAAAGTAATGCGCCAGCCTCCATTCAT
*
19236099 GGAGTAGCGCAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCTAAA
521 GGAGTAGCGCAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCCAAA
19236164 GAAGCC
586 GAAGCC
*
19236170 TCCCATTTTGAATGTCCACAAGGCCTGTGACACAGGCGTGTCTTTGGCCGTGTGAGACACATGGT
1 TCCCATTTTGAATGTCCACAAGGCCTGTGACACAGGCGTGTCTTTGGCCGTGTGAGACACATGGC
*
19236235 CAGGCCATACGGGTGTGTGTCCCTTGTATTTTGAAAAATTTTCTAAGTTTTTTGAAATTGTCTTG
66 CAGGCCATACGGGTGTGTGTCCCTTGTATTTTGAAAAATTTTCTAAGTTTTTTGAAATTGTCCTG
19236300 AGTACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGACAATGTG
131 AGTACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGACAATGTG
*
19236365 AATAATTTTGAATGATGATTGCATGAAATTTGAAAATGTATGTGAAATGTATGTTTTAATTGCGT
196 AATAATTTTGAATGATGATTGCATGAAATTTGAAAATGTATGTGAAATGTATGTTTTAATTGTGT
19236430 AATAAGTCAGGTAATGTTTCGTAACCCTATTTCGGTGTTGAATACGGGTGAGGGGTGTTACATTT
261 AATAAGTCAGGTAATGTTTCGTAACCCTATTTCGGTGTTGAATACGGGTGAGGGGTGTTACATTT
19236495 ATTGGTATCAGAGATGTGGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGTCTAGGTA
326 ATTGGTATCAGAGATGTGGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGTCTAGGTA
*
19236560 TACATTCCATATATAACCTGTTATAGTGTGATATCTCTTGACAGTTTTAAATCATGTTTTCATAT
391 TACATTCCATATATAACCTGTTATAGTGTGATATCTCCTGACAGTTTTAAATCATGTTTTCATAT
*
19236625 AGTAAATGGATCCCAATCGAGCTGTAACTAATGATGTTGAAAGTAATGCGCCAGCCTCCATTCAT
456 AGTAAATGGATCCCAATCGAGCTGTAACTGATGATGTTGAAAGTAATGCGCCAGCCTCCATTCAT
*
19236690 GGAGTAGCACAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCCAAA
521 GGAGTAGCGCAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCCAAA
*
19236755 GAAGCA
586 GAAGCC
* * *
19236761 TCCTATTTTGAATGTCCACAAGGCCTGTGACACAAGCGTGTCCTTGGCCGTGTGAGACACATGGC
1 TCCCATTTTGAATGTCCACAAGGCCTGTGACACAGGCGTGTCTTTGGCCGTGTGAGACACATGGC
19236826 CAGGCCATACGGGTGTGTGTCCCTTGTATTTTGAAAAATTTTCTAAGTTTTTTGAAATTGTCCTG
66 CAGGCCATACGGGTGTGTGTCCCTTGTATTTTGAAAAATTTTCTAAGTTTTTTGAAATTGTCCTG
*
19236891 AGAACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGACAATGTG
131 AGTACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGACAATGTG
*
19236956 AATAATTTTGAATGATGATTGCATGAAATTCGAAAATGTATGTGAAATGTATGTTTTAATTGTGT
196 AATAATTTTGAATGATGATTGCATGAAATTTGAAAATGTATGTGAAATGTATGTTTTAATTGTGT
*
19237021 AATAAGTCAGGTAATGTTTCGTAACCCTATTTCGGTGTTGAATACGGGTGAGGGGTATTACATTT
261 AATAAGTCAGGTAATGTTTCGTAACCCTATTTCGGTGTTGAATACGGGTGAGGGGTGTTACATTT
* *
19237086 ATTGGTATCAGAGATGCGGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGTCTAAGTA
326 ATTGGTATCAGAGATGTGGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGTCTAGGTA
* *
19237151 TACATTCCATATATAACCTGTTATAGTGCGATATCTCCTAACAGTTTTAAATCATGTTTTCATAT
391 TACATTCCATATATAACCTGTTATAGTGTGATATCTCCTGACAGTTTTAAATCATGTTTTCATAT
* * *
19237216 TGTTAATGGATCCCAATCGAGCTGTAACTGATGATGTCGAAAGTAATGCGCCAGCCTCCATTCAT
456 AGTAAATGGATCCCAATCGAGCTGTAACTGATGATGTTGAAAGTAATGCGCCAGCCTCCATTCAT
*
19237281 GGAGTAGAGCAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCC
521 GGAGTAGCGCAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCC
19237343 TTCTTCCAGA
Statistics
Matches: 1700, Mismatches: 62, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
590 568 0.33
591 1132 0.67
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (591 bp):
TCCCATTTTGAATGTCCACAAGGCCTGTGACACAGGCGTGTCTTTGGCCGTGTGAGACACATGGC
CAGGCCATACGGGTGTGTGTCCCTTGTATTTTGAAAAATTTTCTAAGTTTTTTGAAATTGTCCTG
AGTACTTGGTTTAGTCCCGAACCATTCCTAAAGCATGTTTTGAGCCTCGTTTTAGGGACAATGTG
AATAATTTTGAATGATGATTGCATGAAATTTGAAAATGTATGTGAAATGTATGTTTTAATTGTGT
AATAAGTCAGGTAATGTTTCGTAACCCTATTTCGGTGTTGAATACGGGTGAGGGGTGTTACATTT
ATTGGTATCAGAGATGTGGTTTAGTCGATTCTAGGACTAATGTAGCATGTGTGAAAGTCTAGGTA
TACATTCCATATATAACCTGTTATAGTGTGATATCTCCTGACAGTTTTAAATCATGTTTTCATAT
AGTAAATGGATCCCAATCGAGCTGTAACTGATGATGTTGAAAGTAATGCGCCAGCCTCCATTCAT
GGAGTAGCGCAGTCTAAGTCGAGACCCATATTGGGTAGTCAGGGAGGAGAGCCAAAGAAGCCAAA
GAAGCC
Found at i:19243500 original size:6 final size:6
Alignment explanation
Indices: 19243470--19243656 Score: 107
Period size: 6 Copynumber: 30.3 Consensus size: 6
19243460 AAGAAACATT
* * * *
19243470 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
19243519 ATCAAA ATCAGA TTTAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* * *
19243568 ATCAAGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CTGA
1 ATC-AG-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* *
19243618 ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
19243657 ATGAATGCAA
Statistics
Matches: 137, Mismatches: 27, Indels: 34
0.69 0.14 0.17
Matches are distributed among these distances:
5 10 0.07
6 107 0.78
7 13 0.09
8 7 0.05
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:19243525 original size:37 final size:37
Alignment explanation
Indices: 19243479--19243609 Score: 133
Period size: 37 Copynumber: 3.5 Consensus size: 37
19243469 TATCAGAACT
* *
19243479 AGAATCAAAATGAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATTAGAATCAGAATCAGGTAAC
* *
19243516 AGAATCAAAATCAGATTTAGAATCAGAATTAGGTAAC
1 AGAATCAAAATCAGAATTAGAATCAGAATCAGGTAAC
* * *
19243553 AGAATCAGAATCAGTATCAAGTAA-CAGAATCA-G-AATC
1 AGAATCAAAATCAGAAT-TAG-AATCAGAATCAGGTAA-C
* *
19243590 AGAACCAGAATCAGAATTAG
1 AGAATCAAAATCAGAATTAG
19243610 GTAACTGAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
36 4 0.05
37 64 0.81
38 9 0.11
39 2 0.03
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATTAGAATCAGAATCAGGTAAC
Found at i:19243565 original size:62 final size:62
Alignment explanation
Indices: 19243491--19243655 Score: 240
Period size: 62 Copynumber: 2.7 Consensus size: 62
19243481 AATCAAAATG
* * * * ***
19243491 AGAATTAGAATCAGAATCAGGTGACAGAATCAAAATCAGATTTAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
*
19243553 AGAATCAGAATCAGTATCAAGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
* *
19243615 TGAATCAGAATTAGTATCAGGTAACAGAATCAGAATCAGAA
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
19243656 TATGAATGCA
Statistics
Matches: 92, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 92 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (62 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAAC
Found at i:19243614 original size:37 final size:37
Alignment explanation
Indices: 19243552--19243625 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
19243542 AATTAGGTAA
* *
19243552 CAGAATCAGAATCAGTATCAAGTAACAGAATCAGAAT
1 CAGAACCAGAATCAGAATCAAGTAACAGAATCAGAAT
* * *
19243589 CAGAACCAGAATCAGAATTAGGTAACTGAATCAGAAT
1 CAGAACCAGAATCAGAATCAAGTAACAGAATCAGAAT
19243626 TAGTATCAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (37 bp):
CAGAACCAGAATCAGAATCAAGTAACAGAATCAGAAT
Found at i:19243625 original size:25 final size:25
Alignment explanation
Indices: 19243491--19243656 Score: 105
Period size: 25 Copynumber: 6.7 Consensus size: 25
19243481 AATCAAAATG
* *
19243491 AGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* * *
19243516 AGAATCAAAATCAGATTTA-G-AATC
1 AGAATCAGAATCAGAATCAGGTAA-C
*
19243540 AGAATTAGGTAA-CAGAATCA-G-AATC
1 AGAATCA-G-AATCAGAATCAGGTAA-C
*
19243565 AGTATCAAGTAA-CAGAATCA-G-AATC
1 AGAATC-AG-AATCAGAATCAGGTAA-C
* *
19243590 AGAACCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
* * *
19243615 TGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
19243640 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
19243657 ATGAATGCAA
Statistics
Matches: 112, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
23 3 0.03
24 17 0.15
25 87 0.78
26 5 0.04
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:19243626 original size:19 final size:19
Alignment explanation
Indices: 19243497--19243628 Score: 90
Period size: 19 Copynumber: 6.7 Consensus size: 19
19243487 AATGAGAATT
* *
19243497 AGAATCAGAATCAGGTGAC
1 AGAATCAGAATTAGGTAAC
* * * **
19243516 AGAATCAAAATCAGAT-TT
1 AGAATCAGAATTAGGTAAC
19243534 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATTAGGTAAC
*
19243553 AGAATCAGAATCAGTATCAAGTAAC
1 AGAATCAG-A--A-T-T-AGGTAAC
*
19243578 AGAATCAGAATCA-G-AACC
1 AGAATCAGAATTAGGTAA-C
19243596 AGAATCAGAATTAGGTAAC
1 AGAATCAGAATTAGGTAAC
*
19243615 TGAATCAGAATTAG
1 AGAATCAGAATTAG
19243629 TATCAGGTAA
Statistics
Matches: 90, Mismatches: 13, Indels: 20
0.73 0.11 0.16
Matches are distributed among these distances:
17 2 0.02
18 27 0.30
19 38 0.42
20 3 0.03
21 1 0.01
22 2 0.02
23 1 0.01
24 2 0.02
25 14 0.16
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (19 bp):
AGAATCAGAATTAGGTAAC
Found at i:19257115 original size:10 final size:11
Alignment explanation
Indices: 19257102--19257131 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
19257092 TAAAGTAATT
19257102 ATAAGTGATC-
1 ATAAGTGATCA
19257112 ATAAGTGATCA
1 ATAAGTGATCA
19257123 ATAAGTGAT
1 ATAAGTGAT
19257132 ATGTGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (11 bp):
ATAAGTGATCA
Found at i:19257289 original size:21 final size:22
Alignment explanation
Indices: 19257244--19257294 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
19257234 AAGGTGGAAT
* *
19257244 TTATGTGGCAGTTTATCTGCGA
1 TTATGTGGCAGTTTATCGGCAA
*
19257266 TTATGTGGCTG-TTATCGGCAA
1 TTATGTGGCAGTTTATCGGCAA
19257287 TTATGTGG
1 TTATGTGG
19257295 TGGCTTGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 16 0.62
22 10 0.38
ACGTcount: A:0.18, C:0.12, G:0.29, T:0.41
Consensus pattern (22 bp):
TTATGTGGCAGTTTATCGGCAA
Found at i:19257461 original size:20 final size:19
Alignment explanation
Indices: 19257425--19257463 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
19257415 TGGGTAAGAA
*
19257425 ATTTTATAAAATGTGCATC
1 ATTTTATAAAATATGCATC
*
19257444 ATTTTTTAAAAGTATGCATC
1 ATTTTATAAAA-TATGCATC
19257464 GACATGTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (19 bp):
ATTTTATAAAATATGCATC
Found at i:19258280 original size:63 final size:63
Alignment explanation
Indices: 19258165--19258292 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 63
19258155 CTGCGCCATC
* * * *
19258165 AATATGGCCAATGTGGTATTCGAGATTTGGCCATAATGTCTAGGCCGAGTTT-AGAGGGTTACA
1 AATATGGCCAATGTGATATTCGAGATTCGGCCATAACGTCTAGGACGAGTTTAAG-GGGTTACA
* *
19258228 AATATGGCCAATGTGATCTTCGAGATTCGGCCATAACGTCTAGGTATG-GTTTAAGGGGTTACA
1 AATATGGCCAATGTGATATTCGAGATTCGGCCATAACGTCTAGG-ACGAGTTTAAGGGGTTACA
19258291 AA
1 AA
19258293 ATGTACTTGA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
63 54 0.95
64 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (63 bp):
AATATGGCCAATGTGATATTCGAGATTCGGCCATAACGTCTAGGACGAGTTTAAGGGGTTACA
Found at i:19260722 original size:67 final size:65
Alignment explanation
Indices: 19260534--19260851 Score: 318
Period size: 67 Copynumber: 4.8 Consensus size: 65
19260524 TAGAAGTCCG
* **
19260534 CTAGGACAATAAACATGGGGTATGATGTGTAAGACCATAGCTAGGCTATGGTAACAAAGGAAGTC
1 CTAGGACAATAAACATGGGGTA-AATGTGTAAGACCATAGCTAGGCTATGACAACAAAGGAAGT-
19260599 CT
64 CT
* * * * * * * *
19260601 CCAGGACAAT-AACATAAGGTGT-ACTCTGCAATACCATAGCTACGCTATTG-CAACAAAGGAAT
1 CTAGGACAATAAACAT--GGGGTAAATGTGTAAGACCATAGCTAGGCTA-TGACAACAAAGGAAG
19260663 TCCT
63 T-CT
* *
19260667 CTAGGACAATAAACATAGGGTAAATTGTGTAAAACCATAGCTAGGCTATGACAACAAAGGAAGTC
1 CTAGGACAATAAACATGGGGTAAA-TGTGTAAGACCATAGCTAGGCTATGACAACAAAGGAAGTC
19260732 T
65 T
* * * *
19260733 GTTAGGACAATAAACATGGGGTACATTGTGTAAGACCATAGCTAGGCTATGGCAACAAAGGAAAT
1 -CTAGGACAATAAACATGGGGTA-AATGTGTAAGACCATAGCTAGGCTATGACAACAAAGGAAGT
19260798 CT
64 CT
* * * * *
19260800 GTCAGGACAACAAACATGGGGCATAATATGTAAGACCATAGCTAGGTTATGA
1 CT-AGGACAATAAACATGGGGTA-AATGTGTAAGACCATAGCTAGGCTATGA
19260852 AAAAAAATAA
Statistics
Matches: 208, Mismatches: 33, Indels: 20
0.80 0.13 0.08
Matches are distributed among these distances:
65 3 0.01
66 53 0.25
67 147 0.71
68 5 0.02
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (65 bp):
CTAGGACAATAAACATGGGGTAAATGTGTAAGACCATAGCTAGGCTATGACAACAAAGGAAGTCT
Found at i:19260832 original size:134 final size:132
Alignment explanation
Indices: 19260534--19260851 Score: 374
Period size: 134 Copynumber: 2.4 Consensus size: 132
19260524 TAGAAGTCCG
* **
19260534 CTAGGACAATAAACATGGGGTATGATGTGTAAGACCATAGCTAGGCTATGGTAACAAAGGAAGTC
1 CTAGGACAATAAACATGGGGTATAATGTGTAAGACCATAGCTAGGCTATGACAACAAAGGAAGTC
* * * *
19260599 CTCCAGGACAATAACATAAGGTGTACTCTGCAATACCATAGCTACGCTATTGCAACAAAGGAATT
66 CTCCAGGACAATAACAT-AGGGGTACTCTGCAAGACCATAGCTACGCTATGGCAACAAAGGAAAT
19260664 CCT
130 CCT
* *
19260667 CTAGGACAATAAACATAGGGTA-AATTGTGTAAAACCATAGCTAGGCTATGACAACAAAGGAAGT
1 CTAGGACAATAAACATGGGGTATAA-TGTGTAAGACCATAGCTAGGCTATGACAACAAAGGAAGT
** * * *
19260731 -CTGTTAGGACAATAAACAT-GGGGTACATTGTGTAAGACCATAGCTAGGCTATGGCAACAAAGG
65 CCT-CCAGGACAAT-AACATAGGGGTAC--TCTGCAAGACCATAGCTACGCTATGGCAACAAAGG
19260794 AAAT-CT
126 AAATCCT
* * * * *
19260800 GTCAGGACAACAAACATGGGGCATAATATGTAAGACCATAGCTAGGTTATGA
1 CT-AGGACAATAAACATGGGGTATAATGTGTAAGACCATAGCTAGGCTATGA
19260852 AAAAAAATAA
Statistics
Matches: 157, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
132 9 0.06
133 68 0.43
134 78 0.50
135 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (132 bp):
CTAGGACAATAAACATGGGGTATAATGTGTAAGACCATAGCTAGGCTATGACAACAAAGGAAGTC
CTCCAGGACAATAACATAGGGGTACTCTGCAAGACCATAGCTACGCTATGGCAACAAAGGAAATC
CT
Found at i:19262198 original size:30 final size:28
Alignment explanation
Indices: 19262158--19262214 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
19262148 TAGACACTTC
* *
19262158 CACATGGGTAGTCCACACGCTCGTGTGTGA
1 CACACGGGTAGGCCACACGC-C-TGTGTGA
19262188 CACACGGGTAGGCCACACGCCTGTGTG
1 CACACGGGTAGGCCACACGCCTGTGTG
19262215 GCATGGCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 1 0.04
30 18 0.72
ACGTcount: A:0.19, C:0.30, G:0.32, T:0.19
Consensus pattern (28 bp):
CACACGGGTAGGCCACACGCCTGTGTGA
Found at i:19275759 original size:15 final size:15
Alignment explanation
Indices: 19275739--19275790 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
19275729 ACTACAAAAC
19275739 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
19275754 ATTTATAATTCTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
19275773 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
19275788 ATT
1 ATT
19275791 AATATTTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:19275788 original size:19 final size:20
Alignment explanation
Indices: 19275752--19275803 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
19275742 TATTATTAAT
* **
19275752 ATATTTATAATTCTAATA-A
1 ATATTTATTATTAAAATATA
19275771 ATATTTATTATTAAAATATTA
1 ATATTTATTATTAAAATA-TA
*
19275792 ATATTTAATATT
1 ATATTTATTATT
19275804 TTAATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 15 0.56
21 12 0.44
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTATTATTAAAATATA
Found at i:19275809 original size:21 final size:21
Alignment explanation
Indices: 19275740--19275809 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
19275730 CTACAAAACA
* *
19275740 TTTATTATTAATATATTTATAAT
1 TTTAATATTAATAT-TTAAT-AT
* *
19275763 TCTAATA--AATATTTATTAT
1 TTTAATATTAATATTTAATAT
**
19275782 TAAAATATTAATATTTAATAT
1 TTTAATATTAATATTTAATAT
19275803 TTTAATA
1 TTTAATA
19275810 ATATGTGAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 6
0.71 0.18 0.12
Matches are distributed among these distances:
19 7 0.19
20 3 0.08
21 21 0.58
23 5 0.14
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATATTAATATTTAATAT
Found at i:19275854 original size:18 final size:19
Alignment explanation
Indices: 19275831--19275866 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19275821 ATATTATTTT
*
19275831 TAAAATT-AATTATTAAAA
1 TAAAATTGAAATATTAAAA
19275849 TAAAATTGAAATATTAAA
1 TAAAATTGAAATATTAAA
19275867 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAAATTGAAATATTAAAA
Found at i:19275895 original size:22 final size:22
Alignment explanation
Indices: 19275869--19275912 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
19275859 ATATTAAATA
19275869 ATTTATTAAAATAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
* *
19275891 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
19275913 TATATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTAAAATAATAATTTAT
Found at i:19275979 original size:9 final size:9
Alignment explanation
Indices: 19275967--19275995 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
19275957 TTGAAAATAT
19275967 AATATTTTA
1 AATATTTTA
19275976 AATATTTTA
1 AATATTTTA
19275985 AATATTTTA
1 AATATTTTA
19275994 AA
1 AA
19275996 AATAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
AATATTTTA
Found at i:19276180 original size:22 final size:22
Alignment explanation
Indices: 19276147--19276203 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
19276137 AAAAATGGCC
19276147 TATTTTAC-GTTGACCTGTAAGT
1 TATTTT-CTGTTGACCTGTAAGT
19276169 TATTTTCTGTTGACCTGTAAGT
1 TATTTTCTGTTGACCTGTAAGT
19276191 TATTTTCTGTTGA
1 TATTTTCTGTTGA
19276204 GCAAACTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 1 0.03
22 33 0.97
ACGTcount: A:0.19, C:0.12, G:0.18, T:0.51
Consensus pattern (22 bp):
TATTTTCTGTTGACCTGTAAGT
Done.