Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 41 of 345
Found at i:11665559 original size:3 final size:3
Alignment explanation
Indices: 11665551--11665588 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11665541 AGGTTCAGAT
11665551 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
11665589 TAGGGTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11670135 original size:15 final size:15
Alignment explanation
Indices: 11670111--11670140 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11670101 ATCCTAAAAA
*
11670111 TTCTATTTCTATTTT
1 TTCTAATTCTATTTT
11670126 TTCTAATTCTATTTT
1 TTCTAATTCTATTTT
11670141 CTCAGGACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (15 bp):
TTCTAATTCTATTTT
Found at i:11681199 original size:19 final size:18
Alignment explanation
Indices: 11681178--11681231 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
11681168 AAAATTTTAA
*
11681178 AAAAAGTATAAATTTATT
1 AAAAAGTATAAAATTATT
* * *
11681196 AAAAATTAAAAAAATATTT
1 AAAAAGTATAAAATTA-TT
11681215 AAAAAGTATAAAATTAT
1 AAAAAGTATAAAATTAT
11681232 AAATTTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAAAGTATAAAATTATT
Found at i:11681879 original size:32 final size:33
Alignment explanation
Indices: 11681843--11681915 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
11681833 TGTTTGTCTA
*
11681843 ATATTATATT-AAATTCAT-ATATAA-GATAATTT
1 ATATTATATTCAAATT-ATGATA-AATAATAATTT
*
11681875 ATATT-TATTCAAATTTTGATAAATAATAATTT
1 ATATTATATTCAAATTATGATAAATAATAATTT
11681907 ATATTATAT
1 ATATTATAT
11681916 ATTTTGAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
31 7 0.20
32 25 0.71
33 3 0.09
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (33 bp):
ATATTATATTCAAATTATGATAAATAATAATTT
Found at i:11685883 original size:16 final size:16
Alignment explanation
Indices: 11685863--11685901 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
11685853 TTTTATATTT
11685863 TTTAATTTTTTATATAA
1 TTTAATTTTTTA-ATAA
*
11685880 -TTAATATTTTAATAA
1 TTTAATTTTTTAATAA
11685895 TTTAATT
1 TTTAATT
11685902 ATCATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAATTTTTTAATAA
Found at i:11685898 original size:24 final size:22
Alignment explanation
Indices: 11685862--11685921 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
11685852 GTTTTATATT
**
11685862 TTTTAATTTTTTATATAATTAATA
1 TTTTAATAATTTA-ATAA-TAATA
* *
11685886 TTTTAATAATTTAATTATCATA
1 TTTTAATAATTTAATAATAATA
*
11685908 TTTTAATAAATTAA
1 TTTTAATAATTTAA
11685922 ATTTTTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 17 0.55
23 3 0.10
24 11 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTTAATAATTTAATAATAATA
Found at i:11686959 original size:3 final size:3
Alignment explanation
Indices: 11686951--11686999 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
11686941 AAAAAGAGGA
11686951 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
11686998 AA
1 AA
11687000 ATAGAAAGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:11689565 original size:10 final size:10
Alignment explanation
Indices: 11689550--11689581 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
11689540 TAACTCAACC
11689550 TTTCTTTTTT
1 TTTCTTTTTT
*
11689560 TTTCTTTTCT
1 TTTCTTTTTT
11689570 TTTCTTTTTT
1 TTTCTTTTTT
11689580 TT
1 TT
11689582 GGGGTGGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:11693738 original size:2 final size:2
Alignment explanation
Indices: 11693731--11693759 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11693721 GAATTCTTTT
11693731 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11693760 TTTTTTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11700834 original size:31 final size:34
Alignment explanation
Indices: 11700799--11700873 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 34
11700789 AATAATGAGT
* *
11700799 ATTTTCAAAAAAAATTAAGAGCT-TA-ATT-AAA
1 ATTTTCAAAAAAAATTAAAAGATATATATTGAAA
*
11700830 ATTTT-TAAAAAAATTAAAAGATATATATTGAAA
1 ATTTTCAAAAAAAATTAAAAGATATATATTGAAA
*
11700863 ATTTCCAAAAA
1 ATTTTCAAAAA
11700874 TTTTGGGGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 14 0.40
31 7 0.20
32 3 0.09
33 7 0.20
34 4 0.11
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (34 bp):
ATTTTCAAAAAAAATTAAAAGATATATATTGAAA
Found at i:11703935 original size:26 final size:27
Alignment explanation
Indices: 11703906--11703962 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11703896 TAGTCCATTA
* *
11703906 GGACATTAAAC-CAAGATAGTCCGTCG
1 GGACAATAAACACAAAATAGTCCGTCG
* *
11703932 GGACAATAAACACAAAATAGTTCGTTG
1 GGACAATAAACACAAAATAGTCCGTCG
11703959 GGAC
1 GGAC
11703963 GTGAAACACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (27 bp):
GGACAATAAACACAAAATAGTCCGTCG
Found at i:11705330 original size:27 final size:27
Alignment explanation
Indices: 11705300--11705400 Score: 73
Period size: 27 Copynumber: 3.6 Consensus size: 27
11705290 CCGAAAAACG
11705300 TAGGATAGAGTACGATTAGCATGCCAA
1 TAGGATAGAGTACGATTAGCATGCCAA
* *
11705327 TAGGTTATG-GTGCACGCGGATGTA--AAGCCAA
1 TAGGATA-GAGT--A--C-GAT-TAGCATGCCAA
* * *
11705358 TAGGTTAGAGTACAATTGGCATGCCAA
1 TAGGATAGAGTACGATTAGCATGCCAA
11705385 TAGGATAGAGTACGAT
1 TAGGATAGAGTACGAT
11705401 GATTCCTAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
25 1 0.02
26 2 0.04
27 29 0.51
28 1 0.02
29 2 0.04
30 1 0.02
31 16 0.28
32 3 0.05
33 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.24
Consensus pattern (27 bp):
TAGGATAGAGTACGATTAGCATGCCAA
Found at i:11722479 original size:24 final size:26
Alignment explanation
Indices: 11722452--11722508 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
11722442 AGACTTACAT
*
11722452 GGTGATGCA-GC-GAGGAGTATCGAC
1 GGTGATGCAGGCAGAGGAGTATCAAC
*
11722476 GGTGATG-AGGCAGAGGAGTGTCAAC
1 GGTGATGCAGGCAGAGGAGTATCAAC
*
11722501 GGCGATGC
1 GGTGATGC
11722509 TACAAAAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 9 0.33
25 17 0.63
ACGTcount: A:0.25, C:0.16, G:0.44, T:0.16
Consensus pattern (26 bp):
GGTGATGCAGGCAGAGGAGTATCAAC
Found at i:11722865 original size:19 final size:19
Alignment explanation
Indices: 11722818--11722865 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 19
11722808 AATTAGGGCG
*
11722818 AAAAG-AATAAGAGAGTGT
1 AAAAGAAATAAGAGAGAGT
11722836 AAAA-AAA-AAGAGAGAG-
1 AAAAGAAATAAGAGAGAGT
11722852 AGAAAGAAATAAGA
1 A-AAAGAAATAAGA
11722866 AAGAAGTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.44
18 9 0.36
19 4 0.16
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (19 bp):
AAAAGAAATAAGAGAGAGT
Found at i:11723927 original size:7 final size:7
Alignment explanation
Indices: 11723915--11723955 Score: 82
Period size: 7 Copynumber: 5.9 Consensus size: 7
11723905 GAATTCGAAC
11723915 TCAAATG
1 TCAAATG
11723922 TCAAATG
1 TCAAATG
11723929 TCAAATG
1 TCAAATG
11723936 TCAAATG
1 TCAAATG
11723943 TCAAATG
1 TCAAATG
11723950 TCAAAT
1 TCAAAT
11723956 TTTAAATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (7 bp):
TCAAATG
Found at i:11724116 original size:21 final size:22
Alignment explanation
Indices: 11724090--11724137 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
11724080 AGTGTTTGAA
*
11724090 TGTCTCGAGA-CAAAGATCACT
1 TGTCTCGAGACCAAAGATCAAT
*
11724111 TGTCTCGAGACCTAAGATCAAT
1 TGTCTCGAGACCAAAGATCAAT
11724133 TGTCT
1 TGTCT
11724138 TAAGAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (22 bp):
TGTCTCGAGACCAAAGATCAAT
Found at i:11724958 original size:16 final size:16
Alignment explanation
Indices: 11724937--11724971 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
11724927 TTAGGTTGAC
11724937 GTCGCGAAGTTATAGG
1 GTCGCGAAGTTATAGG
11724953 GTCGCGAAGTTATAGG
1 GTCGCGAAGTTATAGG
11724969 GTC
1 GTC
11724972 CCTCGTCGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.14, G:0.37, T:0.26
Consensus pattern (16 bp):
GTCGCGAAGTTATAGG
Found at i:11730527 original size:46 final size:46
Alignment explanation
Indices: 11730460--11730551 Score: 175
Period size: 46 Copynumber: 2.0 Consensus size: 46
11730450 ATTCAAAGTC
*
11730460 ATGAAAGCACAGACTAGAATTGGCTACTCGTCTACGGCTTTTACCT
1 ATGAAAGCACAGACTACAATTGGCTACTCGTCTACGGCTTTTACCT
11730506 ATGAAAGCACAGACTACAATTGGCTACTCGTCTACGGCTTTTACCT
1 ATGAAAGCACAGACTACAATTGGCTACTCGTCTACGGCTTTTACCT
11730552 TTCTTTTATC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (46 bp):
ATGAAAGCACAGACTACAATTGGCTACTCGTCTACGGCTTTTACCT
Found at i:11741355 original size:13 final size:12
Alignment explanation
Indices: 11741337--11741391 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 12
11741327 GAAAATTGAT
11741337 AAATATTCAATAA
1 AAATATT-AATAA
11741350 AAATA-TAAT-A
1 AAATATTAATAA
11741360 AAATATTAA-AA
1 AAATATTAATAA
11741371 ATATATATTTAATAA
1 A-A-ATA-TTAATAA
11741386 AAATAT
1 AAATAT
11741392 ATATTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
10 6 0.17
11 8 0.22
12 3 0.08
13 11 0.31
14 5 0.14
15 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (12 bp):
AAATATTAATAA
Found at i:11741628 original size:16 final size:18
Alignment explanation
Indices: 11741594--11741631 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
11741584 GGTCCCTATA
11741594 TTTTTTCGTTTTGAGTAT
1 TTTTTTCGTTTTGAGTAT
*
11741612 TTTTTTC-TTTT-ATTAT
1 TTTTTTCGTTTTGAGTAT
11741628 TTTT
1 TTTT
11741632 AACTTTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 4 0.21
18 7 0.37
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTTTCGTTTTGAGTAT
Found at i:11745116 original size:21 final size:21
Alignment explanation
Indices: 11745077--11745116 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11745067 TTTATTTAAA
*
11745077 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
11745098 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
11745117 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:11746970 original size:117 final size:117
Alignment explanation
Indices: 11746759--11747048 Score: 526
Period size: 117 Copynumber: 2.5 Consensus size: 117
11746749 ATTTGACAAA
*
11746759 TAAAACCATGGTTGGGCCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAATG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAATG
* *
11746824 TAAAGGATGAATTGACGGATAAGATCATAACTGGGTTATGGTACTCTAAACG
66 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
*
11746876 TAAAACCATGGTTAGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAATG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAATG
11746941 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
66 TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
* *
11746993 TAAAACCATGGTTGGACCATGGCAGTGTTTATATGTAAAACCATAGTTGGGCTATG
1 TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATG
11747049 GAATTCTGAT
Statistics
Matches: 166, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 166 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (117 bp):
TAAAACCATGGTTGGACCATGGCAGTGTTTATATATAAGACCATAGTTGGGCTATGACATTAATG
TAAAGGATGAATTGACGGATAAGACCATAACTGGGTTATGGTACTATAAACG
Found at i:11748164 original size:21 final size:21
Alignment explanation
Indices: 11748135--11748174 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
11748125 TTAGGGGTGT
*
11748135 TACACATTTCATATGTGCATG
1 TACAAATTTCATATGTGCATG
11748156 TACAAATTTCATATGTGCA
1 TACAAATTTCATATGTGCA
11748175 ATTTATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
TACAAATTTCATATGTGCATG
Found at i:11763166 original size:22 final size:22
Alignment explanation
Indices: 11763120--11763166 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
11763110 TATTAGATAT
**
11763120 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
11763142 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
11763164 TAA
1 TAA
11763167 TTATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:11765393 original size:46 final size:46
Alignment explanation
Indices: 11765342--11765712 Score: 476
Period size: 46 Copynumber: 8.0 Consensus size: 46
11765332 GTGTGCTCTC
* * *
11765342 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
11765388 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
11765434 TAATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGTAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
11765480 TGATATGAAATGTGTAGGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* *
11765526 TGATA-GAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * *
11765572 TGACATGAAATGAATACGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
11765618 TGACGGGAAAATGAATAAGAACATGGTTGAAAGATACCATGGCAACA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
11765665 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
11765711 TG
1 TG
11765713 TCAAAGATAA
Statistics
Matches: 297, Mismatches: 25, Indels: 6
0.91 0.08 0.02
Matches are distributed among these distances:
45 1 0.00
46 254 0.86
47 42 0.14
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:11765772 original size:67 final size:67
Alignment explanation
Indices: 11765690--11765828 Score: 278
Period size: 67 Copynumber: 2.1 Consensus size: 67
11765680 AAGACCATAG
11765690 TTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGAGAGACGCTATGACATC
1 TTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGAGAGACGCTATGACATC
11765755 TA
66 TA
11765757 TTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGAGAGACGCTATGACATC
1 TTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGAGAGACGCTATGACATC
11765822 TA
66 TA
11765824 TTGAA
1 TTGAA
11765829 CAATTGATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 72 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (67 bp):
TTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACCGTGGATGAGAGACGCTATGACATC
TA
Found at i:11766081 original size:16 final size:17
Alignment explanation
Indices: 11766060--11766092 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11766050 ATGATGGAGC
*
11766060 ATGAAAT-ATTTATATA
1 ATGAAATGATTGATATA
11766076 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
11766093 TACTTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:11767455 original size:14 final size:14
Alignment explanation
Indices: 11767436--11767468 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11767426 AAAACAGAAT
11767436 GAAAATATACAA-AA
1 GAAAATA-ACAACAA
11767450 GAAAATAACAACAA
1 GAAAATAACAACAA
11767464 GAAAA
1 GAAAA
11767469 AATTAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (14 bp):
GAAAATAACAACAA
Found at i:11767923 original size:17 final size:16
Alignment explanation
Indices: 11767901--11767952 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
11767891 CATGGTGGCA
11767901 AGTGGGGTAATGGAGTT
1 AGTGGGGT-ATGGAGTT
*
11767918 AGTGGGG--TGG-TTT
1 AGTGGGGTATGGAGTT
11767931 AGTGGGGTGATGGAGTT
1 AGTGGGGT-ATGGAGTT
11767948 AGTGG
1 AGTGG
11767953 CAAGTAAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 9 0.31
14 3 0.10
16 3 0.10
17 14 0.48
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.31
Consensus pattern (16 bp):
AGTGGGGTATGGAGTT
Found at i:11768147 original size:21 final size:24
Alignment explanation
Indices: 11768123--11768168 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11768113 AAATCAAAAG
11768123 ATATAT-AAA-TAATAA-AACATA
1 ATATATAAAACTAATAATAACATA
*
11768144 ATATTTAAAACTAATAATAACATA
1 ATATATAAAACTAATAATAACATA
11768168 A
1 A
11768169 CACATGCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 3 0.14
23 6 0.29
24 7 0.33
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (24 bp):
ATATATAAAACTAATAATAACATA
Found at i:11773251 original size:38 final size:38
Alignment explanation
Indices: 11773200--11773275 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
11773190 AAACGAGTAA
11773200 GCATAAGGAAGCTTAGTAAGTTTAATAAGTCAACTCAT
1 GCATAAGGAAGCTTAGTAAGTTTAATAAGTCAACTCAT
11773238 GCATAAGGAAGCTTAGTAAGTTTAATAAGTCAACTCAT
1 GCATAAGGAAGCTTAGTAAGTTTAATAAGTCAACTCAT
11773276 TTGCTATCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (38 bp):
GCATAAGGAAGCTTAGTAAGTTTAATAAGTCAACTCAT
Found at i:11773365 original size:22 final size:21
Alignment explanation
Indices: 11773340--11773419 Score: 80
Period size: 22 Copynumber: 4.0 Consensus size: 21
11773330 AAGCCTGCTA
*
11773340 GGCATTAAGCCTGAATAACACT
1 GGCACTAAGCCTGAATAACA-T
*
11773362 GGCACTAAGCCTG-CT---A-
1 GGCACTAAGCCTGAATAACAT
11773378 GGCACTAAGCCTGAATAACAT
1 GGCACTAAGCCTGAATAACAT
*
11773399 CGGCATTAAGCCTGAATAACA
1 -GGCACTAAGCCTGAATAACA
11773420 CTGTATTTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
16 13 0.27
17 1 0.02
18 1 0.02
20 1 0.02
21 1 0.02
22 31 0.65
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (21 bp):
GGCACTAAGCCTGAATAACAT
Found at i:11773381 original size:38 final size:38
Alignment explanation
Indices: 11773330--11773412 Score: 132
Period size: 38 Copynumber: 2.2 Consensus size: 38
11773320 CATTGGCTCA
*
11773330 AAGCCTGCTAGGCATTAAGCCTGAATAACA-CTGGCACT
1 AAGCCTGCTAGGCACTAAGCCTGAATAACATC-GGCACT
*
11773368 AAGCCTGCTAGGCACTAAGCCTGAATAACATCGGCATT
1 AAGCCTGCTAGGCACTAAGCCTGAATAACATCGGCACT
11773406 AAGCCTG
1 AAGCCTG
11773413 AATAACACTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 41 0.98
39 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (38 bp):
AAGCCTGCTAGGCACTAAGCCTGAATAACATCGGCACT
Found at i:11778201 original size:24 final size:24
Alignment explanation
Indices: 11778169--11778216 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11778159 ATCTGAAGAA
11778169 AACTATGCTGTTGTAATAACTATG
1 AACTATGCTGTTGTAATAACTATG
11778193 AACTATGCTGTTGTAATAACTATG
1 AACTATGCTGTTGTAATAACTATG
11778217 TTTTATCGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (24 bp):
AACTATGCTGTTGTAATAACTATG
Found at i:11782727 original size:38 final size:36
Alignment explanation
Indices: 11782641--11782711 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
11782631 TCAATTTTTG
* *
11782641 AATTTTATAAATA-TA-TTTTTTTTATATTTTTTTAA
1 AATTTTA-AAATATTAGATTTTTTTATATTTTATTAA
11782676 AATTTTAAAATATTAGATTTTTTTATAGTTTTATTA
1 AATTTTAAAATATTAGATTTTTTTATA-TTTTATTA
11782712 TAATGTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
34 5 0.16
35 9 0.29
36 10 0.32
37 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (36 bp):
AATTTTAAAATATTAGATTTTTTTATATTTTATTAA
Found at i:11788677 original size:23 final size:23
Alignment explanation
Indices: 11788630--11788678 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
11788620 TCTAAGTACA
*
11788630 TTTGTATTTTTTATTTCAAGTTT
1 TTTGTATTTTTTAATTCAAGTTT
11788653 TTTGTTATTTTTTAATT-AATGTTT
1 TTTG-TATTTTTTAATTCAA-GTTT
11788677 TT
1 TT
11788679 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (23 bp):
TTTGTATTTTTTAATTCAAGTTT
Found at i:11788679 original size:13 final size:13
Alignment explanation
Indices: 11788661--11788685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11788651 TTTTTGTTAT
11788661 TTTTTAATTAATG
1 TTTTTAATTAATG
11788674 TTTTTAATTAAT
1 TTTTTAATTAAT
11788686 AAATATAGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:11791321 original size:28 final size:29
Alignment explanation
Indices: 11791281--11791336 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
11791271 TTGGGTTTTT
*
11791281 GGACACGGGCGTGT-CTAGGCCTTGTGAG
1 GGACACGGGCGTGTGCTAGGCCATGTGAG
*
11791309 GGACACGGGCGTGTGCTCGGCCATGTGA
1 GGACACGGGCGTGTGCTAGGCCATGTGA
11791337 AAACCCCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 14 0.56
29 11 0.44
ACGTcount: A:0.14, C:0.23, G:0.43, T:0.20
Consensus pattern (29 bp):
GGACACGGGCGTGTGCTAGGCCATGTGAG
Found at i:11792346 original size:95 final size:93
Alignment explanation
Indices: 11792216--11792489 Score: 336
Period size: 95 Copynumber: 2.9 Consensus size: 93
11792206 GAATTTGTCA
* * * *
11792216 CTTTAATCTGCTTCACTGCAACTTCAATGAGATAAGATTAGTAGCTTCAATTTGCTCCACTACAA
1 CTTTAATCT-ATTCACTGCAACTTCAAGGA-ATAAGATTAGTATCTTCAATATGCTCCACTACAA
*
11792281 CTTCAGGGAGATAAGATTTGCAACTTGTAG
64 CTTCAGGGAAATAAGATTTGCAACTTGTAG
*
11792311 CTTTAATCTATTCTACTGCAACTTCAAGGCAATAAGATTCA-CATCTTCAATATGCTCCACTACA
1 CTTTAATCTATTC-ACTGCAACTTCAAGG-AATAAGATT-AGTATCTTCAATATGCTCCACTACA
* *
11792375 AATTCAGGGAAATAAGATTTGTAACTTGTAG
63 ACTTCAGGGAAATAAGATTTGCAACTTGTAG
* * * **
11792406 CTTTAATCTGTTCCACTGCAACTT-AAGGGAAGTAAGATTCGCTATCTTTAATATGCTCCACTGT
1 CTTTAATCTATT-CACTGCAACTTCAA-GGAA-TAAGATTAG-TATCTTCAATATGCTCCACTAC
11792470 AACTTCAGGGAAATAAGATT
62 AACTTCAGGGAAATAAGATT
11792490 CGCTATCTTT
Statistics
Matches: 156, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
94 7 0.04
95 109 0.70
96 40 0.26
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (93 bp):
CTTTAATCTATTCACTGCAACTTCAAGGAATAAGATTAGTATCTTCAATATGCTCCACTACAACT
TCAGGGAAATAAGATTTGCAACTTGTAG
Found at i:11792474 original size:45 final size:45
Alignment explanation
Indices: 11792406--11792534 Score: 179
Period size: 45 Copynumber: 2.9 Consensus size: 45
11792396 TAACTTGTAG
* * * *
11792406 CTTTAATCTGTTCCACTGCAACTTAAGGGAAGTAAGATTCGCTAT
1 CTTTAATATGCTCCACTGAAACTTAAGGGAAATAAGATTCGCTAT
* *
11792451 CTTTAATATGCTCCACTGTAACTTCAGGGAAATAAGATTCGCTAT
1 CTTTAATATGCTCCACTGAAACTTAAGGGAAATAAGATTCGCTAT
*
11792496 CTTTAATATGCTCCACTGAAACTTTAGGGAGAA-AAGATT
1 CTTTAATATGCTCCACTGAAACTTAAGGGA-AATAAGATT
11792535 TGTAACTTGT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
45 74 0.97
46 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.33
Consensus pattern (45 bp):
CTTTAATATGCTCCACTGAAACTTAAGGGAAATAAGATTCGCTAT
Found at i:11792536 original size:141 final size:140
Alignment explanation
Indices: 11792325--11792630 Score: 393
Period size: 141 Copynumber: 2.2 Consensus size: 140
11792315 AATCTATTCT
*
11792325 ACTGCAACTTCAAGGCAATAAGATTCACATCTTCAATATGCTCCACTACAAATTCAGGGAAATAA
1 ACTGCAACTTCAGGGCAATAAGATTCACATCTTCAATATGCTCCACTACAAATTCAGGGAAATAA
* * * *
11792390 GATTTGTAACTTGTAGCTTTAATCTGTTCCA-CTGCAACTTAAGGGAAGTAAGATTCGCTATCTT
66 GATTTGTAACTTGTAGCATTAATCTGTT-CAGCTGCAACTTAAGGAAAATAAGATTCGCTAACTT
*
11792454 TAATATGCTCC
130 CAATATGCTCC
* * * * * *
11792465 ACTGTAACTTCAGGGAAATAAGATTCGCTATCTTTAATATGCTCCACTGA-AACTTTAGGGAGAA
1 ACTGCAACTTCAGGGCAATAAGATTCAC-ATCTTCAATATGCTCCACT-ACAAATTCAGGGA-AA
* * * * *
11792529 -AAGATTTGTAACTTGTAGCATTAATCTGTTTAGCTGCAACTTCAGGAAAATAAGATTTGTTAAG
63 TAAGATTTGTAACTTGTAGCATTAATCTGTTCAGCTGCAACTTAAGGAAAATAAGATTCGCTAAC
*
11792593 TTCAATCTGCTCC
128 TTCAATATGCTCC
11792606 ACTGCAACTTCAGGGCAATAAGATT
1 ACTGCAACTTCAGGGCAATAAGATT
11792631 TGTAACTTGT
Statistics
Matches: 142, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
140 25 0.18
141 114 0.80
142 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (140 bp):
ACTGCAACTTCAGGGCAATAAGATTCACATCTTCAATATGCTCCACTACAAATTCAGGGAAATAA
GATTTGTAACTTGTAGCATTAATCTGTTCAGCTGCAACTTAAGGAAAATAAGATTCGCTAACTTC
AATATGCTCC
Found at i:11792770 original size:96 final size:96
Alignment explanation
Indices: 11792470--11792780 Score: 342
Period size: 96 Copynumber: 3.2 Consensus size: 96
11792460 GCTCCACTGT
* * * * * *
11792470 AACTTCAGGGAAATAAGATTCGCTATCTTTAATATGCTCCACTGA-AACTTTAGGGAGAAAAGAT
1 AACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCA-TTACAACTTCAGGGAGATAAGAT
* *
11792534 TTGTAACTTGTAGCATTAATCTGTTTAGCTGC
65 TTGTAACTTGTAGCTTTAATCTATTTAGCTGC
* *** ** * *
11792566 AACTTCAGGAAAATAAGATTTGTTAAGTTCAATCTGCTCCACTGCAACTTCAGGGCA-ATAAGAT
1 AACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCATTACAACTTCAGGG-AGATAAGAT
* *
11792630 TTGTAACTTGTAGCTTTAATCTATTCCA-ATGC
65 TTGTAACTTGTAGCTTTAATCTATT-TAGCTGC
* * *
11792662 AACTTCAAGGAAATAAGATTCACTATCTTCAATCTGCTCCATTACAAATTCAGTGAGATAAGATT
1 AACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCATTACAACTTCAGGGAGATAAGATT
*
11792727 TGTAACTTGTAGCTTTAATCTATTTTGCTGC
66 TGTAACTTGTAGCTTTAATCTATTTAGCTGC
* *
11792758 AAATTTC-GGGAAATGAGATTCAC
1 -AACTTCAGGGAAATAAGATTCAC
11792781 CACGATGACT
Statistics
Matches: 176, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
95 1 0.01
96 168 0.95
97 7 0.04
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (96 bp):
AACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCATTACAACTTCAGGGAGATAAGATT
TGTAACTTGTAGCTTTAATCTATTTAGCTGC
Found at i:11799148 original size:18 final size:20
Alignment explanation
Indices: 11799127--11799178 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
11799117 ACAATTTTTT
11799127 TAAAATTATACATAATA-ATAA
1 TAAAATTAT--ATAATATATAA
*
11799148 -ATAATTATATAATATATAA
1 TAAAATTATATAATATATAA
*
11799167 TAAAATAATATA
1 TAAAATTATATA
11799179 GTGAACAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 6 0.23
19 4 0.15
20 16 0.62
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATTATATAATATATAA
Found at i:11799178 original size:22 final size:22
Alignment explanation
Indices: 11799133--11799175 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
11799123 TTTTTAAAAT
11799133 TATACATAATAATAAATAATTA
1 TATACATAATAATAAATAATTA
11799155 TATA-ATATATAATAAAATAAT
1 TATACATA-ATAAT-AAATAAT
11799176 ATAGTGAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 3 0.16
22 9 0.47
23 7 0.37
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TATACATAATAATAAATAATTA
Found at i:11801117 original size:86 final size:88
Alignment explanation
Indices: 11800794--11801474 Score: 678
Period size: 88 Copynumber: 8.0 Consensus size: 88
11800784 CCCCACCAAA
* * * * *
11800794 ACAGAGACGTCAAATC-AGCTATCCTCGATCTACTCTCTGACAATACAGAAACGCCAAATCTGCT
1 ACAGAGATGCCAAATCTA-CTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT
* * **
11800858 ATCTTCGATCTGCTCTCTGAGAAT
65 ATCTTTGATCTGCTCTCCGTCAAT
* * * * * * * *
11800882 ATAGAGATGCCAAATCTGCTATATTCGATTTGCTTTCTGACAATACAGAGATGTCAAATCCGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * *
11800947 TCTTTGATCTGCTATCTGACAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* *
11800970 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
11801035 TCTTTGATCTGCTCTCCGTCAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * * * *
11801058 ACAGAGATGCCAGATGT-C-ATCCTCGATCTGCTCTCTGTCAATACAGAAACGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
11801121 TCTTTGATCTGCTCTCCGTCAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * *
11801144 ACAGAGATGCCAGATGT-C-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* * * **
11801207 TCTTCGATCTGTTCTCTGAAAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * * * * *
11801230 ATAGAGACGCAAAATCTACTATCTTCGATCTACTCTCTGACAATACAGAGATGCCAAATCTACTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
* ** * * *
11801295 TCTTTAATCTATTTTCCATAAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * *
11801318 ACAGAGATG------C--C-A--GTCGATCTGCTCTCTGTCAATACAGAGACGCC-AGTC-G--A
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
11801368 TC--T-A-CT-CTCT--GTCAAT
66 TCTTTGATCTGCTCTCCGTCAAT
* * * *
11801384 ACAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTA
1 ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
11801449 TCTTTGATCTGCTCTCCGTCAAT
66 TCTTTGATCTGCTCTCCGTCAAT
11801472 ACA
1 ACA
11801475 AAGACGTCAG
Statistics
Matches: 495, Mismatches: 73, Indels: 50
0.80 0.12 0.08
Matches are distributed among these distances:
66 12 0.02
68 2 0.00
69 2 0.00
70 1 0.00
71 1 0.00
72 1 0.00
73 3 0.01
74 1 0.00
75 1 0.00
76 3 0.01
77 58 0.12
78 3 0.01
79 2 0.00
80 1 0.00
81 3 0.01
82 1 0.00
83 1 0.00
84 1 0.00
85 2 0.00
86 159 0.32
87 2 0.00
88 235 0.47
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (88 bp):
ACAGAGATGCCAAATCTACTATCTTCGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTA
TCTTTGATCTGCTCTCCGTCAAT
Found at i:11801305 original size:44 final size:44
Alignment explanation
Indices: 11800794--11801298 Score: 604
Period size: 44 Copynumber: 11.6 Consensus size: 44
11800784 CCCCACCAAA
* * * * *
11800794 ACAGAGACGTCAAATCAGCTATCCTCGATCTACTCTCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * *
11800838 ACAGAAACGCCAAATCTGCTATCTTCGATCTGCTCTCTGAGAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * *
11800882 ATAGAGATGCCAAATCTGCTATATTCGATTTGCTTTCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * *
11800926 ACAGAGATGTCAAATCCGCTATCTTTGATCTGCTATCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* *
11800970 ACAGAGACGCCAAATCTACTATCTTCGATCTGCTCTCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * *
11801014 ACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCCGTCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * *
11801058 ACAGAGATGCCAGATGT-C-ATCCTCGATCTGCTCTCTGTCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * * *
11801100 ACAGAAACGCCAAATCTGCTATCTTTGATCTGCTCTCCGTCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * *
11801144 ACAGAGATGCCAGATGT-C-ATCTTCGATCTGCTCTCTGTCAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * *
11801186 ACAGAGACGCCAAATCTGCTATCTTCGATCTGTTCTCTGAAAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
* * * * *
11801230 ATAGAGACGCAAAATCTACTATCTTCGATCTACTCTCTGACAAT
1 ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
*
11801274 ACAGAGATGCCAAATCTACTATCTT
1 ACAGAGATGCCAAATCTGCTATCTT
11801299 TAATCTATTT
Statistics
Matches: 393, Mismatches: 64, Indels: 8
0.85 0.14 0.02
Matches are distributed among these distances:
42 70 0.18
43 4 0.01
44 319 0.81
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (44 bp):
ACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAAT
Found at i:11801357 original size:33 final size:33
Alignment explanation
Indices: 11801315--11801395 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
11801305 ATTTTCCATA
* *
11801315 AATACAGAGATGCCAGTCGATCTGCTCTCTGTC
1 AATACAGAGACGCCAGTCGATCTACTCTCTGTC
11801348 AATACAGAGACGCCAGTCGATCTACTCTCTGTC
1 AATACAGAGACGCCAGTCGATCTACTCTCTGTC
11801381 AATACAGAGACGCCA
1 AATACAGAGACGCCA
11801396 AATCTGCTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (33 bp):
AATACAGAGACGCCAGTCGATCTACTCTCTGTC
Found at i:11801429 original size:44 final size:44
Alignment explanation
Indices: 11801366--11801480 Score: 203
Period size: 44 Copynumber: 2.6 Consensus size: 44
11801356 GACGCCAGTC
*
11801366 GATCTACTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
11801410 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
1 GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
* *
11801454 GATCTGCTCTCCGTCAATACAAAGACG
1 GATCTGCTCTCTGTCAATACAGAGACG
11801481 TCAGGTGTCA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 68 1.00
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (44 bp):
GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTT
Found at i:11813326 original size:18 final size:20
Alignment explanation
Indices: 11813305--11813350 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
11813295 ACAATTTTTT
11813305 TAAAATTATACATAATA-ATAA
1 TAAAATTAT--ATAATATATAA
*
11813326 -ATAATTATATAATATATAA
1 TAAAATTATATAATATATAA
11813345 TAAAAT
1 TAAAAT
11813351 CCGAGGGACT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 6 0.29
19 4 0.19
20 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAATTATATAATATATAA
Found at i:11813457 original size:30 final size:30
Alignment explanation
Indices: 11813423--11813481 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
11813413 TATAATGGTC
* *
11813423 ATTAGGACTAAATTGAAACAAAAATAAAAG
1 ATTAGGACCAAATTAAAACAAAAATAAAAG
* * *
11813453 ATTAGGGCCGAATTAAAATAAAAATAAAA
1 ATTAGGACCAAATTAAAACAAAAATAAAA
11813482 TGTAATTGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.20
Consensus pattern (30 bp):
ATTAGGACCAAATTAAAACAAAAATAAAAG
Found at i:11820358 original size:21 final size:20
Alignment explanation
Indices: 11820321--11820362 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
11820311 TACTCAAGGA
*
11820321 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
11820342 AAGCCGGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
11820362 A
1 A
11820363 CTGAAGATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:11829669 original size:13 final size:13
Alignment explanation
Indices: 11829651--11829675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11829641 TAAAAGAGTT
11829651 ATTAATTAAAAAG
1 ATTAATTAAAAAG
11829664 ATTAATTAAAAA
1 ATTAATTAAAAA
11829676 TAAAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:11844028 original size:2 final size:2
Alignment explanation
Indices: 11844021--11844049 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11844011 GGATTACGAA
11844021 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11844050 ACTTCAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11844563 original size:17 final size:16
Alignment explanation
Indices: 11844537--11844568 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
11844527 ATAAATTCTA
11844537 TTAAATTATAATTATT
1 TTAAATTATAATTATT
11844553 TTAAATGTATAATTAT
1 TTAAAT-TATAATTAT
11844569 CATAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTAAATTATAATTATT
Found at i:11849064 original size:16 final size:16
Alignment explanation
Indices: 11849043--11849110 Score: 102
Period size: 16 Copynumber: 4.2 Consensus size: 16
11849033 TTTGGTTCGC
11849043 TGTATTGGATTAGAGA
1 TGTATTGGATTAGAGA
11849059 TGTATTGGATTAGA-A
1 TGTATTGGATTAGAGA
*
11849074 GTGTATTGGATTAGAGG
1 -TGTATTGGATTAGAGA
*
11849091 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGA
11849107 TGTA
1 TGTA
11849111 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
15 1 0.02
16 48 0.98
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGA
Found at i:11849082 original size:32 final size:32
Alignment explanation
Indices: 11849043--11849110 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
11849033 TTTGGTTCGC
11849043 TGTATTGGATTAGAGATGTATTGGATTAGAAG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
* *
11849075 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGATGTATTGGATTAGAAG
11849107 TGTA
1 TGTA
11849111 ATAGCAAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.28, C:0.00, G:0.34, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGATGTATTGGATTAGAAG
Found at i:11849434 original size:157 final size:157
Alignment explanation
Indices: 11849240--11849543 Score: 527
Period size: 157 Copynumber: 1.9 Consensus size: 157
11849230 CCCTTAGCAT
*
11849240 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
11849305 TAATAAATATTTTAATCATATTTAAACATAATTATTATTAAACATATTTTAATTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
11849370 TTTAATAAAATTCTTAATAATTACCAG
131 TTTAATAAAATTCTTAATAATTACCAG
* * * *
11849397 AAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTGATAAGATTATTAATATGAA
1 AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
* *
11849462 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATACTTAAAATATATAA
66 TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
11849527 TTTAATAAAATTCTTAA
131 TTTAATAAAATTCTTAA
11849544 ATATTAATAT
Statistics
Matches: 138, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
157 138 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (157 bp):
AAATTTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAA
TAATAAATAATTTAATCATATTTAAACATAATTATTATTAAACATATTATAATTAAAATATATAA
TTTAATAAAATTCTTAATAATTACCAG
Found at i:11853196 original size:21 final size:21
Alignment explanation
Indices: 11853151--11853198 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11853141 AAATTCTTTG
11853151 AAAAAA-TCTCAAAAATAATT
1 AAAAAATTCTCAAAAATAATT
* *
11853171 CAAAAATTCTCAGAAAAT-CTT
1 AAAAAATTCTCA-AAAATAATT
11853192 AAAAAAT
1 AAAAAAT
11853199 ACGAAGTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 5 0.22
21 13 0.57
22 5 0.22
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.25
Consensus pattern (21 bp):
AAAAAATTCTCAAAAATAATT
Found at i:11856332 original size:24 final size:24
Alignment explanation
Indices: 11856300--11856346 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11856290 ACCTGTTGTT
*
11856300 GCTGCAAATAATTTTGAACTGAAC
1 GCTGCAAATAAGTTTGAACTGAAC
*
11856324 GCTGCAAATAAGTTTGAATTGAA
1 GCTGCAAATAAGTTTGAACTGAA
11856347 ACGTAACACG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (24 bp):
GCTGCAAATAAGTTTGAACTGAAC
Found at i:11856888 original size:25 final size:25
Alignment explanation
Indices: 11856859--11856912 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
11856849 TTGAAGAGAT
*
11856859 GTCACTGAATAACTATCAGTGGCAA
1 GTCACTGAATAACTATCAGTAGCAA
11856884 GTCACTGAATAACTATCAGTAGCAA
1 GTCACTGAATAACTATCAGTAGCAA
11856909 GTCA
1 GTCA
11856913 TGAGAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (25 bp):
GTCACTGAATAACTATCAGTAGCAA
Found at i:11858983 original size:17 final size:17
Alignment explanation
Indices: 11858961--11859025 Score: 121
Period size: 17 Copynumber: 3.8 Consensus size: 17
11858951 AAAGTCGATT
11858961 CACACAGCCGTGTGAAG
1 CACACAGCCGTGTGAAG
*
11858978 CACACAGCTGTGTGAAG
1 CACACAGCCGTGTGAAG
11858995 CACACAGCCGTGTGAAG
1 CACACAGCCGTGTGAAG
11859012 CACACAGCCGTGTG
1 CACACAGCCGTGTG
11859026 TTCGGACATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 46 1.00
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.14
Consensus pattern (17 bp):
CACACAGCCGTGTGAAG
Found at i:11859466 original size:24 final size:24
Alignment explanation
Indices: 11859422--11859467 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11859412 TTTTTTTTTA
*
11859422 TTTTTTCTTTCCTTCTTTTTTCCC
1 TTTTTTCTTTCCTTCTCTTTTCCC
11859446 TTTTTTC-TTCCTTCATCTTTTC
1 TTTTTTCTTTCCTTC-TCTTTTC
11859468 TCCCTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTTCTTTCCTTCTCTTTTCCC
Found at i:11863068 original size:30 final size:30
Alignment explanation
Indices: 11863034--11863091 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11863024 TAGGCACTTT
11863034 CACACAGGT-GATCCACACACCCGTGTGTGA
1 CACACAGGTAGA-CCACACACCCGTGTGTGA
* * *
11863064 CACACGGGTAGACCACACGCTCGTGTGT
1 CACACAGGTAGACCACACACCCGTGTGT
11863092 CATGGCCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (30 bp):
CACACAGGTAGACCACACACCCGTGTGTGA
Found at i:11866298 original size:138 final size:138
Alignment explanation
Indices: 11866048--11866323 Score: 403
Period size: 138 Copynumber: 2.0 Consensus size: 138
11866038 AGGAAATTTC
*
11866048 CTTTTGCACCCTTGGCTTGATTCATTTCCTACGTTTCCACTGGTAAATGCGTCAGATGTGGAGGT
1 CTTTTGCACACTTGGCTTGATTCATTTCCTACGTTTCCACTGGTAAATGCGTCAGATGTGGAGGT
*
11866113 TTTAATTGCAACTCAGTCTATAATTATGTTTATTATTAGGACCTCCTCCTCATACTCTC-TTCTA
66 TTTAATTGCAACTCAGTCTATAATTATGTTTATTATAAGGACCTCCTCCTCATACTCTCTTTC-A
11866177 TGAGACCTT
130 TGAGACCTT
* * * * * *
11866186 CTTTTGTACACTTGGCTTGATTCA-TTCCTTGCGTTTCCACTTGTGAGTGCGTCAGATGTTGAGG
1 CTTTTGCACACTTGGCTTGATTCATTTCC-TACGTTTCCACTGGTAAATGCGTCAGATGTGGAGG
* * * * *
11866250 TTTTAATTGCAACTCAGTCTGTTATTATGTTTATTATAAGGACTTCCTCCTCATAGTTTCTTTCA
65 TTTTAATTGCAACTCAGTCTATAATTATGTTTATTATAAGGACCTCCTCCTCATACTCTCTTTCA
11866315 TGAGACCTT
130 TGAGACCTT
11866324 TTCCAAACCC
Statistics
Matches: 123, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
137 4 0.03
138 116 0.94
139 3 0.02
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (138 bp):
CTTTTGCACACTTGGCTTGATTCATTTCCTACGTTTCCACTGGTAAATGCGTCAGATGTGGAGGT
TTTAATTGCAACTCAGTCTATAATTATGTTTATTATAAGGACCTCCTCCTCATACTCTCTTTCAT
GAGACCTT
Found at i:11869002 original size:10 final size:10
Alignment explanation
Indices: 11868967--11869013 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
11868957 TTTGTCACAA
11868967 TTAAAAA-AT
1 TTAAAAATAT
11868976 TTAAAAATAT
1 TTAAAAATAT
*
11868986 GTAAAAATAT
1 TTAAAAATAT
*
11868996 TTTAAAAT-T
1 TTAAAAATAT
11869005 TTAGAAAAT
1 TTA-AAAAT
11869014 TAATTAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 10 0.31
10 22 0.69
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (10 bp):
TTAAAAATAT
Found at i:11875589 original size:19 final size:19
Alignment explanation
Indices: 11875565--11875619 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
11875555 TTAATAAGGA
11875565 TAATAATAATAATAAATAG
1 TAATAATAATAATAAATAG
* *
11875584 TAATAATAATATATTATTAG
1 TAATAATAATA-ATAAATAG
*
11875604 TAATAGAAAATAATAA
1 TAATA-ATAATAATAA
11875620 TGATAAAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 11 0.37
20 14 0.47
21 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TAATAATAATAATAAATAG
Found at i:11875771 original size:13 final size:12
Alignment explanation
Indices: 11875743--11875782 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 12
11875733 TATATAAAAC
*
11875743 ATAATAAAAG-A
1 ATAATAATAGTA
11875754 ATAATAATATGTA
1 ATAATAATA-GTA
11875767 ATAATAATAGTA
1 ATAATAATAGTA
11875779 ATAA
1 ATAA
11875783 AAAAAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 8 0.31
12 8 0.31
13 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:11875808 original size:18 final size:18
Alignment explanation
Indices: 11875766--11875809 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
11875756 AATAATATGT
* *
11875766 AATAATAATAGTAATAAA
1 AATAATAACAGTAACAAA
* *
11875784 AAAAATAACAGTAACAAC
1 AATAATAACAGTAACAAA
11875802 AATAATAA
1 AATAATAA
11875810 TAAATAATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (18 bp):
AATAATAACAGTAACAAA
Found at i:11875813 original size:30 final size:33
Alignment explanation
Indices: 11875743--11875813 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 33
11875733 TATATAAAAC
* * *
11875743 ATAATAAAAGAATAATAATATGTAATAATAATA
1 ATAATAAAAGAATAATAACATGTAACAACAATA
*
11875776 GTAATAAAA-AA-AATAACA-GTAACAACAATA
1 ATAATAAAAGAATAATAACATGTAACAACAATA
11875806 ATAATAAA
1 ATAATAAA
11875814 TAATATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 17 0.52
31 6 0.18
32 2 0.06
33 8 0.24
ACGTcount: A:0.66, C:0.04, G:0.06, T:0.24
Consensus pattern (33 bp):
ATAATAAAAGAATAATAACATGTAACAACAATA
Found at i:11877378 original size:45 final size:45
Alignment explanation
Indices: 11877279--11877400 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 45
11877269 TTTATCTTCA
* * * * *
11877279 ATCTGTTCCATTACTACTTCATGGAAATAAGATTCTCTATCTTCG
1 ATCTGCTCCATTGCTACTTCATGGAGATAAGATTCTCAATCTTAG
* *
11877324 ATCTACTCCATTGCTACCTCATGGAGATAAGA-TCTACAATCTTTAG
1 ATCTGCTCCATTGCTACTTCATGGAGATAAGATTCT-CAATC-TTAG
* * *
11877370 -TCTGCTCCACTGTTACTTCAGGGAGATAAGA
1 ATCTGCTCCATTGCTACTTCATGGAGATAAGA
11877401 GTTGTGTCTT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
44 3 0.05
45 57 0.90
46 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (45 bp):
ATCTGCTCCATTGCTACTTCATGGAGATAAGATTCTCAATCTTAG
Found at i:11877548 original size:132 final size:132
Alignment explanation
Indices: 11877387--11877627 Score: 340
Period size: 132 Copynumber: 1.8 Consensus size: 132
11877377 CACTGTTACT
* * * * * *
11877387 TCAGGGAGATAAGAGTTGTGTCTTAAATTTACTTCTCTACTATCTCGGGAAGATAAGATTCACCG
1 TCAGGGAGATAAGAGTAGTGGCTTAAATTTACTTCCCTACTACCTCAGGAAGATAAGATTCACCA
* **
11877452 TTTTCGATCTGCTTTACTACTGCTTAGGAAAATAAGATCTGTGATCTTCAGCCTTCTCCACTACT
66 TCTTCGATCTGCTCCACTACTGCTTAGGAAAATAAGATCTGTGATCTTCAGCCTTCTCCACTACT
11877517 GC
131 GC
* *
11877519 TCAGGGAGATAAG-GCTAGTGGCTTAAATTTGCTTCCCTACTACCTCAGGAAGATAAGATTCGCC
1 TCAGGGAGATAAGAG-TAGTGGCTTAAATTTACTTCCCTACTACCTCAGGAAGATAAGATTCACC
* * *
11877583 ATCTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTGA
65 ATCTTCGATCTGCTCCACTACTGCTTAGGAAAATAAGATCTGTGA
11877628 ATTCATCAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
131 1 0.01
132 93 0.99
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (132 bp):
TCAGGGAGATAAGAGTAGTGGCTTAAATTTACTTCCCTACTACCTCAGGAAGATAAGATTCACCA
TCTTCGATCTGCTCCACTACTGCTTAGGAAAATAAGATCTGTGATCTTCAGCCTTCTCCACTACT
GC
Found at i:11882291 original size:20 final size:20
Alignment explanation
Indices: 11882266--11882308 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
11882256 ATTTGTATGG
*
11882266 TAAAGAATATTTGCTCAGGA
1 TAAAGAATATTTGCTCAGAA
11882286 TAAAGAATATTTGCTCAGAA
1 TAAAGAATATTTGCTCAGAA
11882306 TAA
1 TAA
11882309 GACATAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.30
Consensus pattern (20 bp):
TAAAGAATATTTGCTCAGAA
Found at i:11885869 original size:19 final size:20
Alignment explanation
Indices: 11885845--11885891 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
11885835 TTGTGAAATT
* *
11885845 TAATGCACATG-ATGCGATG
1 TAATGCAAATGCATGAGATG
11885864 TAATGCAAATGCATGAGATG
1 TAATGCAAATGCATGAGATG
11885884 -AATGCAAA
1 TAATGCAAA
11885892 ACTAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (20 bp):
TAATGCAAATGCATGAGATG
Found at i:11887862 original size:24 final size:24
Alignment explanation
Indices: 11887830--11887880 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
11887820 GCAATAGCAA
11887830 TGTCCCTTCTCACTTTTCAGCCAT
1 TGTCCCTTCTCACTTTTCAGCCAT
11887854 TGTCCCTTCTCACTTTTCAGCCAT
1 TGTCCCTTCTCACTTTTCAGCCAT
11887878 TGT
1 TGT
11887881 GTAGATGATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.12, C:0.35, G:0.10, T:0.43
Consensus pattern (24 bp):
TGTCCCTTCTCACTTTTCAGCCAT
Found at i:11893563 original size:10 final size:10
Alignment explanation
Indices: 11893548--11893575 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
11893538 GGCTTAGGTT
11893548 AAGGGTATGG
1 AAGGGTATGG
11893558 AAGGGTATGG
1 AAGGGTATGG
11893568 AAGGGTAT
1 AAGGGTAT
11893576 ACATAGTGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.46, T:0.21
Consensus pattern (10 bp):
AAGGGTATGG
Found at i:11894006 original size:30 final size:30
Alignment explanation
Indices: 11893970--11894030 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
11893960 ACGTGGAAGT
11893970 AAGGGTCGAGTGATGCATAAGCTTCTTGGG
1 AAGGGTCGAGTGATGCATAAGCTTCTTGGG
11894000 AAGGGTCGAGTGATGCATAAGCTTCTTGGG
1 AAGGGTCGAGTGATGCATAAGCTTCTTGGG
11894030 A
1 A
11894031 CATCATAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.13, G:0.36, T:0.26
Consensus pattern (30 bp):
AAGGGTCGAGTGATGCATAAGCTTCTTGGG
Found at i:11896217 original size:28 final size:28
Alignment explanation
Indices: 11896177--11896234 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
11896167 GGATTTGGGG
11896177 TTTCTTGAGAGGAATTAGTTGGTATAAA
1 TTTCTTGAGAGGAATTAGTTGGTATAAA
11896205 TTTCTTGAGAGGAATTAGTTGGTATAAA
1 TTTCTTGAGAGGAATTAGTTGGTATAAA
11896233 TT
1 TT
11896235 ATGTGTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.24, T:0.41
Consensus pattern (28 bp):
TTTCTTGAGAGGAATTAGTTGGTATAAA
Found at i:11896546 original size:17 final size:18
Alignment explanation
Indices: 11896526--11896559 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11896516 TGTTTTTTCT
*
11896526 TTATTT-TTTTCTTTTAG
1 TTATTTATTTACTTTTAG
11896543 TTATTTATTTACTTTTA
1 TTATTTATTTACTTTTA
11896560 TCTCTCAACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (18 bp):
TTATTTATTTACTTTTAG
Found at i:11902547 original size:21 final size:24
Alignment explanation
Indices: 11902514--11902561 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 24
11902504 AAAATCTAAT
11902514 AAATTATTAATAAAACATA-TTTA
1 AAATTATTAATAAAACATATTTTA
*
11902537 AAATT-TT-ATAAAACCTATTTTA
1 AAATTATTAATAAAACATATTTTA
11902559 AAA
1 AAA
11902562 CTATACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 9 0.39
23 5 0.22
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
AAATTATTAATAAAACATATTTTA
Found at i:11902995 original size:12 final size:12
Alignment explanation
Indices: 11902978--11903004 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11902968 ATATTTATGA
11902978 TTTTTTATGATT
1 TTTTTTATGATT
11902990 TTTTTTATGATT
1 TTTTTTATGATT
11903002 TTT
1 TTT
11903005 ATGAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTTATGATT
Found at i:11903003 original size:9 final size:10
Alignment explanation
Indices: 11902971--11903008 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 10
11902961 ATATTTAATA
11902971 TTTATGATTT
1 TTTATGATTT
11902981 TTTATGATTTTT
1 TTTATGA--TTT
11902993 TTTATGA-TT
1 TTTATGATTT
11903002 TTTATGA
1 TTTATGA
11903009 AAAATATTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.35
10 7 0.27
12 10 0.38
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (10 bp):
TTTATGATTT
Found at i:11908659 original size:19 final size:20
Alignment explanation
Indices: 11908635--11908676 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
11908625 CATTCCAATC
*
11908635 CATTTCACATA-TTACATTT
1 CATTTCACATATTTAAATTT
11908654 CATTTCACATATTTAAATTT
1 CATTTCACATATTTAAATTT
11908674 CAT
1 CAT
11908677 AATTCATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (20 bp):
CATTTCACATATTTAAATTT
Found at i:11912562 original size:93 final size:93
Alignment explanation
Indices: 11912454--11912624 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
11912444 GCCCCTAAGT
* * *
11912454 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTGAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11912519 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
11912547 GAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11912612 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11912625 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:11912621 original size:46 final size:46
Alignment explanation
Indices: 11912449--11912621 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
11912439 AACCCGCCCC
* * *
11912449 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
11912495 TAAGTGAACTCGGACTGAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
11912543 TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
11912588 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11912622 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:11914172 original size:15 final size:15
Alignment explanation
Indices: 11914127--11914339 Score: 142
Period size: 15 Copynumber: 14.3 Consensus size: 15
11914117 CTTTTTTGGC
11914127 TATT-TTAACTATT-T
1 TATTATTAA-TATTAT
*
11914141 TATCATTAA-ATTAAT
1 TATTATTAATATT-AT
11914156 TAATT-TTAATATTAT
1 T-ATTATTAATATTAT
*
11914171 TATTAGT-A-ATTA-
1 TATTATTAATATTAT
11914183 -ATT-TTAATATTAT
1 TATTATTAATATTAT
*
11914196 TATTATTATTATTAT
1 TATTATTAATATTAT
*
11914211 TATTATTACTATTAT
1 TATTATTAATATTAT
*
11914226 TATTATTACTATTAT
1 TATTATTAATATTAT
* *
11914241 CTTTTATTATTATTCCTAT
1 -TATTATTAATA-T--TAT
*
11914260 TATTATTAACA-TAT
1 TATTATTAATATTAT
**
11914274 TATTATTCTTATTAT
1 TATTATTAATATTAT
*
11914289 TATT-TTTATATTAT
1 TATTATTAATATTAT
* *
11914303 TATCATTATTAGCTTAT
1 TATTATTAATA--TTAT
*
11914320 TATTATTATTATTAT
1 TATTATTAATATTAT
11914335 TATTA
1 TATTA
11914340 CTATTTTTGT
Statistics
Matches: 160, Mismatches: 20, Indels: 37
0.74 0.09 0.17
Matches are distributed among these distances:
10 1 0.01
11 4 0.03
12 4 0.03
13 7 0.04
14 32 0.20
15 72 0.45
16 14 0.09
17 15 0.09
18 8 0.05
19 3 0.02
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (15 bp):
TATTATTAATATTAT
Found at i:11914173 original size:3 final size:3
Alignment explanation
Indices: 11914165--11914344 Score: 177
Period size: 3 Copynumber: 59.3 Consensus size: 3
11914155 TTAATTTTAA
* *
11914165 TAT TAT TAT TAGT AAT TAAT T-T TAA TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * **
11914211 TAT TAT TAC TAT TAT TAT TAT TAC TAT TAT CTTT TAT TAT TAT TCC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * *
11914257 TAT TAT TAT TAA CA- TAT TAT TAT TCT TAT TAT TAT TTT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
11914303 TAT CAT TAT TAGCT TAT TAT TAT TAT TAT TAT TAT TAC TAT T
1 TAT TAT TAT TA--T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11914345 TTTGTTATCT
Statistics
Matches: 144, Mismatches: 25, Indels: 16
0.78 0.14 0.09
Matches are distributed among these distances:
2 5 0.03
3 129 0.90
4 7 0.05
5 3 0.02
ACGTcount: A:0.32, C:0.06, G:0.01, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:11914184 original size:25 final size:25
Alignment explanation
Indices: 11914152--11914200 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
11914142 ATCATTAAAT
11914152 TAATTAATTTTAATATTATTATTAG
1 TAATTAATTTTAATATTATTATTAG
11914177 TAATTAATTTTAATATTATTATTA
1 TAATTAATTTTAATATTATTATTA
11914201 TTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TAATTAATTTTAATATTATTATTAG
Found at i:11914597 original size:26 final size:27
Alignment explanation
Indices: 11914568--11914632 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
11914558 ATATTATTTA
11914568 TTTTAAATTATT-TTT-AT-TATCACTTG
1 TTTTAAATT-TTCTTTCATATATCA-TTG
*
11914594 TTTTAAATTTTCTTTCATATATTATTG
1 TTTTAAATTTTCTTTCATATATCATTG
*
11914621 TTTTAAAATTTC
1 TTTTAAATTTTC
11914633 ATATTGTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 2 0.06
26 12 0.35
27 16 0.47
28 4 0.12
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (27 bp):
TTTTAAATTTTCTTTCATATATCATTG
Found at i:11914626 original size:27 final size:27
Alignment explanation
Indices: 11914536--11914632 Score: 94
Period size: 26 Copynumber: 3.7 Consensus size: 27
11914526 TATAAATTTG
* *
11914536 TACTTGTTTTAAA-TCTCTTAATATAT
1 TACTTGTTTTAAATTTTCTTTATATAT
* *
11914562 TATTTATTTTAAATTATT-TTTAT-TAT
1 TACTTGTTTTAAATT-TTCTTTATATAT
*
11914588 CACTTGTTTTAAATTTTCTTTCATATAT
1 TACTTGTTTTAAATTTTCTTT-ATATAT
*
11914616 TA-TTGTTTTAAAATTTC
1 TACTTGTTTTAAATTTTC
11914633 ATATTGTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.04
26 29 0.51
27 21 0.37
28 5 0.09
ACGTcount: A:0.29, C:0.08, G:0.03, T:0.60
Consensus pattern (27 bp):
TACTTGTTTTAAATTTTCTTTATATAT
Found at i:11919053 original size:21 final size:21
Alignment explanation
Indices: 11919027--11919067 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11919017 TTTATGCTAA
*
11919027 ATAAAAAAATTAAATTAATAC
1 ATAAAAAAATTAAAATAATAC
**
11919048 ATAAAACTATTAAAATAATA
1 ATAAAAAAATTAAAATAATA
11919068 TACAACTTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
ATAAAAAAATTAAAATAATAC
Found at i:11919747 original size:25 final size:27
Alignment explanation
Indices: 11919700--11919750 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
11919690 AAGCTAAATT
*
11919700 ATAATTATTTTTAAATGTGTAATTATC
1 ATAATTATTTTTAAATGTATAATTATC
11919727 ATAATT-TTTTTAAAT-TATAATTAT
1 ATAATTATTTTTAAATGTATAATTAT
11919751 TTTTAAATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 8 0.35
26 9 0.39
27 6 0.26
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (27 bp):
ATAATTATTTTTAAATGTATAATTATC
Found at i:11919748 original size:16 final size:18
Alignment explanation
Indices: 11919727--11919768 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
11919717 TGTAATTATC
11919727 ATAATT-TTTTTAAAT-T
1 ATAATTATTTTTAAATGT
11919743 ATAATTATTTTTAAATGT
1 ATAATTATTTTTAAATGT
11919761 ATAATTAT
1 ATAATTAT
11919769 GACAACTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
ATAATTATTTTTAAATGT
Found at i:11920983 original size:26 final size:26
Alignment explanation
Indices: 11920929--11920986 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
11920919 CAACATTCAC
*
11920929 AATAAT-GTAAATATTATTAAAATCA
1 AATAATAGTAAATATTATCAAAATCA
*
11920954 AATAATAGTAAA-ATTATCAAATATCT
1 AATAATAGTAAATATTATCAAA-ATCA
11920980 AATAATA
1 AATAATA
11920987 ATAACTAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (26 bp):
AATAATAGTAAATATTATCAAAATCA
Found at i:11924763 original size:39 final size:39
Alignment explanation
Indices: 11924720--11924840 Score: 118
Period size: 39 Copynumber: 3.1 Consensus size: 39
11924710 AGTCTAGCTG
* * * * * *
11924720 AAGCACATAAGTGCCAAACGAAAGATCGAAGGTTAACTA
1 AAGCACACAAGTGCTAAACAAAAGACCAAAGGCTAACTA
* * *
11924759 AAGCACACAAGTGTTAAACAAAAGCCCAAAGGCTAACTG
1 AAGCACACAAGTGCTAAACAAAAGACCAAAGGCTAACTA
* * *
11924798 AAGCACACAAGTGCTAAACAGAAG-CCTGAAGGCTAACTG
1 AAGCACACAAGTGCTAAACAAAAGACC-AAAGGCTAACTA
11924837 AAGC
1 AAGC
11924841 TCATCAGAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
38 2 0.03
39 67 0.97
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (39 bp):
AAGCACACAAGTGCTAAACAAAAGACCAAAGGCTAACTA
Found at i:11924783 original size:21 final size:21
Alignment explanation
Indices: 11924758--11924822 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
11924748 AAGGTTAACT
*
11924758 AAAGCACACAAGTGTTAAACA
1 AAAGCACACAAGTGCTAAACA
* *
11924779 AAAGCCCA-AAG-GCT-AACT
1 AAAGCACACAAGTGCTAAACA
*
11924797 GAAGCACACAAGTGCTAAACA
1 AAAGCACACAAGTGCTAAACA
*
11924818 GAAGC
1 AAAGC
11924823 CTGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.26
19 5 0.14
20 6 0.17
21 15 0.43
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (21 bp):
AAAGCACACAAGTGCTAAACA
Found at i:11927411 original size:40 final size:40
Alignment explanation
Indices: 11927356--11927439 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
11927346 AAAATCGAAT
* * * *
11927356 AGATCGAGTATTAGCGGCATTTTTATGAAAGTGCCGCTAA
1 AGATCGAGCATTAGCGGCATTTTTAAGAAAGCGCCACTAA
* *
11927396 AGATCGAGCATTAGCGGCTTTTTTAAGGAAGCGCCACTAA
1 AGATCGAGCATTAGCGGCATTTTTAAGAAAGCGCCACTAA
11927436 AGAT
1 AGAT
11927440 TGACCTATAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (40 bp):
AGATCGAGCATTAGCGGCATTTTTAAGAAAGCGCCACTAA
Found at i:11927643 original size:153 final size:154
Alignment explanation
Indices: 11927404--11927683 Score: 393
Period size: 153 Copynumber: 1.8 Consensus size: 154
11927394 AAAGATCGAG
* * ** * * *
11927404 CATTAGCGGCTTTTTTAAGGAAGCGCCACTAAAGATTGACCTATAGCGACGTTTTTTTAAAAATG
1 CATTAGAGGCGTTTTTAACAAAGCGCCACTAAAGATTGACCTATAGCGACGCTTTCTTAAAAACG
*
11927469 ACGCTAAAAGATTAAAGAGAACGACATCGT-T-TTTCTGAGCTTCAGTGGCATTAGCGGCGCTAC
66 ACGCTAAAAGATTAAACAGAACGACATCGTCTGTTT-TGAGCTTCAGTGGCATTAGCGGCGCTAC
11927532 CCGAAAAACGCAGCAATAGATCCAA
130 CCGAAAAACGCAGCAATAGATCCAA
* * * * *
11927557 CATTAGAGGCGTTTTTAACAAAGCGCCGCTATAGGTTGATCTATAGCGGCGCTTTCTTAAAAACG
1 CATTAGAGGCGTTTTTAACAAAGCGCCACTAAAGATTGACCTATAGCGACGCTTTCTTAAAAACG
* * *
11927622 CCGCTAAAAGATTAAACAGAACGACGTCGTCTGTTTTGAGCTTCAGTGGCATTAGTGGCGCT
66 ACGCTAAAAGATTAAACAGAACGACATCGTCTGTTTTGAGCTTCAGTGGCATTAGCGGCGCT
11927684 TCCTCAGAAA
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
153 80 0.73
154 26 0.24
155 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (154 bp):
CATTAGAGGCGTTTTTAACAAAGCGCCACTAAAGATTGACCTATAGCGACGCTTTCTTAAAAACG
ACGCTAAAAGATTAAACAGAACGACATCGTCTGTTTTGAGCTTCAGTGGCATTAGCGGCGCTACC
CGAAAAACGCAGCAATAGATCCAA
Found at i:11928344 original size:21 final size:21
Alignment explanation
Indices: 11928320--11928379 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
11928310 TTTATAGTCG
*
11928320 TAAATCATAAACTATAAACCT
1 TAAATCCTAAACTATAAACCT
*
11928341 TAAACCCTAAA-TATTAAACCT
1 TAAATCCTAAACTA-TAAACCT
* *
11928362 TGAATCCTAAACCATAAA
1 TAAATCCTAAACTATAAA
11928380 ACCCTAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 29 0.91
22 1 0.03
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAATCCTAAACTATAAACCT
Found at i:11928515 original size:21 final size:21
Alignment explanation
Indices: 11928485--11928545 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
11928475 AAAATGTCTT
* *
11928485 AAAACTATAAACCTTAAATAT
1 AAAACCATAAACCTTAAATAC
* * *
11928506 TAAACCATAAACCCTAAATCC
1 AAAACCATAAACCTTAAATAC
11928527 AAAACCATAAAACCTTAAA
1 AAAACCAT-AAACCTTAAA
11928546 CTATAGACAG
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 23 0.72
22 9 0.28
ACGTcount: A:0.56, C:0.23, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAACCATAAACCTTAAATAC
Found at i:11928904 original size:3 final size:3
Alignment explanation
Indices: 11928896--11928939 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11928886 ATTAATAGTA
11928896 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11928940 GGATTTATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11929162 original size:72 final size:73
Alignment explanation
Indices: 11929028--11929206 Score: 204
Period size: 72 Copynumber: 2.4 Consensus size: 73
11929018 TGAAGCTTTG
*
11929028 TTATTAGTGGCGCTTTTA-AAAAATGCCACAAAACATCTATTAAGAGAATGTAAAACGGCATCG-
1 TTATTAGTGGCGCTTTTATAAACA--CCACAAAACATCTA-TAAGAGAATGTAAAACGGCATCGT
*
11929091 TTTACATCATT
63 TTTACAGCATT
* * * *
11929102 CTTATTAGTGGCGCTTCTATAAACACCGCAAAACATCTA-AAGAG-ATTTCAAAACGTCATCGTT
1 -TTATTAGTGGCGCTTTTATAAACACCACAAAACATCTATAAGAGAATGT-AAAACGGCATCGTT
* *
11929165 TTATAGCCTT
64 TTACAGCATT
*
11929175 TTATTAGTGGCGCTTTTATAAACGCCACAAAA
1 TTATTAGTGGCGCTTTTATAAACACCACAAAA
11929207 GATGTGAAAT
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
71 3 0.03
72 45 0.50
73 8 0.09
74 13 0.14
75 17 0.19
76 4 0.04
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (73 bp):
TTATTAGTGGCGCTTTTATAAACACCACAAAACATCTATAAGAGAATGTAAAACGGCATCGTTTT
ACAGCATT
Found at i:11935798 original size:31 final size:31
Alignment explanation
Indices: 11935762--11935827 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
11935752 TATATTTTTT
* *
11935762 ATGCTATATTTGCTATTTTTGGTTGGATTTC
1 ATGCTATATTTGCTATTTTTGGTTGAATTTA
11935793 ATGCTATATTTGCTATTTTTGGTTGAATTTA
1 ATGCTATATTTGCTATTTTTGGTTGAATTTA
11935824 ATGC
1 ATGC
11935828 AGGAAGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (31 bp):
ATGCTATATTTGCTATTTTTGGTTGAATTTA
Found at i:11938317 original size:39 final size:39
Alignment explanation
Indices: 11938255--11938394 Score: 199
Period size: 39 Copynumber: 3.6 Consensus size: 39
11938245 ATCGTGATTT
* * *
11938255 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
* * * * * *
11938294 GAAGCCTGAAGGTTAACTAAAGCACAGAAGTGTTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
11938333 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
11938372 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
11938395 TCATCAGAGC
Statistics
Matches: 87, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.14
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACG
Found at i:11949194 original size:24 final size:25
Alignment explanation
Indices: 11949167--11949223 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 25
11949157 AAGCTCTTCT
*
11949167 GAGCTGAATAACAGGAAGCT-ATGA
1 GAGCTGAATAACAGGAAGCTCATAA
* *
11949191 GAGCTGAATAACTGGAAGTTCATAA
1 GAGCTGAATAACAGGAAGCTCATAA
11949216 GAGCTGAA
1 GAGCTGAA
11949224 ATTGGTGACC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 18 0.62
25 11 0.38
ACGTcount: A:0.40, C:0.12, G:0.28, T:0.19
Consensus pattern (25 bp):
GAGCTGAATAACAGGAAGCTCATAA
Found at i:11955416 original size:24 final size:24
Alignment explanation
Indices: 11955371--11955421 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
11955361 GAGTTCAAGT
*
11955371 GAGCCATGTCAGGAAGCCCATA-A
1 GAGCCATATCAGGAAGCCCATATA
* *
11955394 GAGCCTATATCAGGACGCTCATATA
1 GAGCC-ATATCAGGAAGCCCATATA
11955419 GAG
1 GAG
11955422 TATCATTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 5 0.22
24 14 0.61
25 4 0.17
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (24 bp):
GAGCCATATCAGGAAGCCCATATA
Found at i:11957735 original size:46 final size:47
Alignment explanation
Indices: 11957630--11957756 Score: 148
Period size: 46 Copynumber: 2.7 Consensus size: 47
11957620 ACCATATTAT
* * *
11957630 GAGAGCCAGTGTAAGACCATGTTTGGGAAATGGAATTGGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTTTGGGACATGCAATCGGCATTGAGAC
* * * *
11957678 GAGGGCTAGTGTAAGTCATGTTTGGGACATGCAA-CGGCCTTGAGAC
1 GAGAGCCAGTGTAAGACATGTTTGGGACATGCAATCGGCATTGAGAC
** *
11957724 GTTAGCCAGTGTAAGACATGTTTGAGACATGCA
1 GAGAGCCAGTGTAAGACATGTTTGGGACATGCA
11957757 TCAGCTATGA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 37 0.56
47 16 0.24
48 13 0.20
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.24
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACATGTTTGGGACATGCAATCGGCATTGAGAC
Found at i:11957815 original size:47 final size:47
Alignment explanation
Indices: 11957735--11957853 Score: 118
Period size: 47 Copynumber: 2.5 Consensus size: 47
11957725 TTAGCCAGTG
* * * * *
11957735 TAAGA-CATGTTTGAGACATGCATCAGCTATGAGATGA-TAGTTAGTA
1 TAAGACCATGTCTGGGACATGCATCAACTATGAGAT-ACGAGCTAGTA
11957781 TAAGACCATGTCTGGGACATGACATCAACT-TGAGATACGAGCTAGTA
1 TAAGACCATGTCTGGGACATG-CATCAACTATGAGATACGAGCTAGTA
* * *
11957828 TAATACCGTGTCTAGGACATGGCATC
1 TAAGACCATGTCTGGGACAT-GCATC
11957854 GACACCTTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
46 6 0.10
47 47 0.77
48 8 0.13
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGCATCAACTATGAGATACGAGCTAGTA
Found at i:11962736 original size:21 final size:21
Alignment explanation
Indices: 11962680--11962730 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
11962670 CCCCTATCAG
11962680 TCAACTCTTGCAACTGTGCTT
1 TCAACTCTTGCAACTGTGCTT
11962701 TCAACTCTTGCAACTGTGCTT
1 TCAACTCTTGCAACTGTGCTT
11962722 TCAACTCTT
1 TCAACTCTT
11962731 TTAACTTAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (21 bp):
TCAACTCTTGCAACTGTGCTT
Found at i:11966200 original size:49 final size:49
Alignment explanation
Indices: 11966128--11966315 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
11966118 TGAGGTCACG
*
11966128 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * * * * *
11966177 TGTGTAGTGCTAACTGCAGGCTACTATGCGTACCCGAAAATTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTG-G-TCGCA
* *
11966228 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGCCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * *
11966277 TGTGTAGTACTAAGTTCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
11966316 GCTTCGGCTA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
49 74 0.64
50 2 0.02
51 39 0.34
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:11966297 original size:100 final size:101
Alignment explanation
Indices: 11966114--11966310 Score: 324
Period size: 100 Copynumber: 2.0 Consensus size: 101
11966104 CAAATGAACT
* *
11966114 ATTGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATG
1 ATTGTGA-GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATG
*
11966179 TGTAGTGCTAACTGCAGGCTACTATGCGTACCCGAAA
65 TGTAGTACTAACTGCAGGCTACTATGCGTACCCGAAA
*
11966216 ATTGTGA-TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGCCGCATGT
1 ATTGTGAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGT
* *
11966280 GTAGTACTAAGTTCAGGCTACTATGCGTACC
66 GTAGTACTAACTGCAGGCTACTATGCGTACC
11966311 AGATAGCTTC
Statistics
Matches: 89, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
100 82 0.92
102 7 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (101 bp):
ATTGTGAGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGT
GTAGTACTAACTGCAGGCTACTATGCGTACCCGAAA
Found at i:11969357 original size:16 final size:16
Alignment explanation
Indices: 11969321--11969377 Score: 75
Period size: 15 Copynumber: 3.7 Consensus size: 16
11969311 GTATCTTGGG
11969321 TTTCTTTATTCTG-GA
1 TTTCTTTATTCTGAGA
*
11969336 TTTCTTTATTCTGAGT
1 TTTCTTTATTCTGAGA
11969352 TTTCTTTA-TCTTGA-A
1 TTTCTTTATTC-TGAGA
11969367 TTTCTTTATTC
1 TTTCTTTATTC
11969378 AGTTTTCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
15 23 0.62
16 14 0.38
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.63
Consensus pattern (16 bp):
TTTCTTTATTCTGAGA
Found at i:11969394 original size:31 final size:30
Alignment explanation
Indices: 11969321--11969386 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
11969311 GTATCTTGGG
*
11969321 TTTCTTTAT-TCTGGATTTCTTTATTCTGAGT
1 TTTCTTTATCT-TGAATTTCTTTATTC-GAGT
11969352 TTTCTTTATCTTGAATTTCTTTATTC-AGT
1 TTTCTTTATCTTGAATTTCTTTATTCGAGT
11969381 TTTCTT
1 TTTCTT
11969387 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
29 9 0.27
31 23 0.70
32 1 0.03
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.64
Consensus pattern (30 bp):
TTTCTTTATCTTGAATTTCTTTATTCGAGT
Found at i:11980791 original size:25 final size:25
Alignment explanation
Indices: 11980763--11980831 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
11980753 TCTTCTGAGT
*
11980763 TGAATAACGGGAAGCTCATGCAAGC
1 TGAAGAACGGGAAGCTCATGCAAGC
* *
11980788 TGAAGAATGGGAAGCTCATGCGAGC
1 TGAAGAACGGGAAGCTCATGCAAGC
*
11980813 CGAAGAACGGGAAGCTCAT
1 TGAAGAACGGGAAGCTCAT
11980832 AAGAGCTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.35, C:0.19, G:0.32, T:0.14
Consensus pattern (25 bp):
TGAAGAACGGGAAGCTCATGCAAGC
Found at i:11986596 original size:43 final size:42
Alignment explanation
Indices: 11986498--11986607 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
11986488 TGATTACATG
* *
11986498 TAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTATGTG
1 TAAGACCATGTCTGGGACATTGGCATCGTATT-AGATTATGTA
* *
11986541 TAAGACCATGTCTAGGACATTGGCATCGTTAATT-GATTTTGTA
1 TAAGACCATGTCTGGGACATTGGCATCG-T-ATTAGATTATGTA
* * *
11986584 TAAGTCCCTGTCTGGGACAATGGC
1 TAAGACCATGTCTGGGACATTGGC
11986608 GTCGATATGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
43 53 0.93
44 1 0.02
45 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.34
Consensus pattern (42 bp):
TAAGACCATGTCTGGGACATTGGCATCGTATTAGATTATGTA
Found at i:11988236 original size:4 final size:4
Alignment explanation
Indices: 11988229--11988303 Score: 132
Period size: 4 Copynumber: 18.8 Consensus size: 4
11988219 TTCATGTATG
* *
11988229 TGTA TGTA AGTA TGTA TGTA AGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
11988277 TGTA TGTA TGTA TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGTA TGT
11988304 GAATAAAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (4 bp):
TGTA
Found at i:11989133 original size:16 final size:16
Alignment explanation
Indices: 11989108--11989145 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
11989098 CCAGGAACAT
*
11989108 AAAGAATTTTTCGGGA
1 AAAGATTTTTTCGGGA
*
11989124 AAAGATTTTTTTGGGA
1 AAAGATTTTTTCGGGA
11989140 AAAGAT
1 AAAGAT
11989146 GAAAATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (16 bp):
AAAGATTTTTTCGGGA
Found at i:11992860 original size:23 final size:23
Alignment explanation
Indices: 11992834--11992881 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
11992824 ATTAAATGAT
11992834 TTCTCCAGCAAAAAACCTCCTAA
1 TTCTCCAGCAAAAAACCTCCTAA
** **
11992857 TTCTCCTTCTCAAAACCTCCTAA
1 TTCTCCAGCAAAAAACCTCCTAA
11992880 TT
1 TT
11992882 TTTTTTCGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.31, C:0.35, G:0.02, T:0.31
Consensus pattern (23 bp):
TTCTCCAGCAAAAAACCTCCTAA
Found at i:11995539 original size:79 final size:79
Alignment explanation
Indices: 11995445--11995655 Score: 323
Period size: 79 Copynumber: 2.7 Consensus size: 79
11995435 CAATTATACT
* * * *
11995445 TAAGGATACAAAAGATCATAAAATCAACTTATATATTCATGGATTGTATATATCAATATATAATC
1 TAAGGATACAAAAGATCATAAAGTCAGCTCATATATTCATGGATTGTATATATCAATATATAACC
11995510 AATTATCCTTAATA
66 AATTATCCTTAATA
* * *
11995524 TAAGGATACAAAAGATCATAAAGTCAGCTCATATATTTATGGATTGCATATCTCAATATATAACC
1 TAAGGATACAAAAGATCATAAAGTCAGCTCATATATTCATGGATTGTATATATCAATATATAACC
*
11995589 AATTGTCCTTAATA
66 AATTATCCTTAATA
* * *
11995603 TAAGGATACAATAGATCATAAAGTTAGCTCATATATTCATGGATTGTACATAT
1 TAAGGATACAAAAGATCATAAAGTCAGCTCATATATTCATGGATTGTATATAT
11995656 ATTCATGGAT
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 118 1.00
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (79 bp):
TAAGGATACAAAAGATCATAAAGTCAGCTCATATATTCATGGATTGTATATATCAATATATAACC
AATTATCCTTAATA
Found at i:11995656 original size:19 final size:19
Alignment explanation
Indices: 11995632--11995669 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11995622 AAAGTTAGCT
11995632 CATATATTCATGGATTGTA
1 CATATATTCATGGATTGTA
11995651 CATATATTCATGGATTGTA
1 CATATATTCATGGATTGTA
11995670 TATCTCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (19 bp):
CATATATTCATGGATTGTA
Found at i:11997217 original size:16 final size:15
Alignment explanation
Indices: 11997191--11997222 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
11997181 ACTAGATCAG
11997191 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
11997206 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
11997222 C
1 C
11997223 GGTATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Done.