Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 40 of 54
Found at i:9634414 original size:14 final size:14
Alignment explanation
Indices: 9634395--9634428 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
9634385 GAAATGAAAT
9634395 TCGCAACGACAAAA
1 TCGCAACGACAAAA
* *
9634409 TCGCAACGAGAGAA
1 TCGCAACGACAAAA
9634423 TCGCAA
1 TCGCAA
9634429 TGCGAAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.21, T:0.09
Consensus pattern (14 bp):
TCGCAACGACAAAA
Found at i:9635944 original size:24 final size:24
Alignment explanation
Indices: 9635917--9635963 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
9635907 ATCATCCCAA
9635917 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAGTATTGACCAAGATCAAAG
*
9635941 TCCGGGTATTGACCAAGATCAAA
1 TCCGAGTATTGACCAAGATCAAA
9635964 TTTCGAATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (24 bp):
TCCGAGTATTGACCAAGATCAAAG
Found at i:9635977 original size:24 final size:24
Alignment explanation
Indices: 9635917--9635977 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
9635907 ATCATCCCAA
* *
9635917 TCCGAGTATTGACCAAGATCAAAG
1 TCCGAATACTGACCAAGATCAAAG
** * *
9635941 TCCGGGTATTGACCAAGATCAAAT
1 TCCGAATACTGACCAAGATCAAAG
*
9635965 TTCGAATACTGAC
1 TCCGAATACTGAC
9635978 TAGTACTCAC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (24 bp):
TCCGAATACTGACCAAGATCAAAG
Found at i:9636893 original size:20 final size:19
Alignment explanation
Indices: 9636818--9636891 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 19
9636808 CGATAGTCAG
*
9636818 AATCTCGTTGCGATTACGT
1 AATCGCGTTGCGATTACGT
** *
9636837 AAATCGCAATGTGATTACGT
1 -AATCGCGTTGCGATTACGT
* *
9636857 ATTCGTGTTGCGATTTACGT
1 AATCGCGTTGCGA-TTACGT
9636877 AATCGCGTTGCGATT
1 AATCGCGTTGCGATT
9636892 TAGGAAAATC
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
19 10 0.24
20 32 0.76
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (19 bp):
AATCGCGTTGCGATTACGT
Found at i:9636910 original size:21 final size:20
Alignment explanation
Indices: 9636897--9636953 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
9636887 CGATTTAGGA
9636897 AAATCACAACGCGAATTTGTG
1 AAATCACAACGCG-ATTTGTG
*
9636918 AAATCGCAACGCGAATTTGTG
1 AAATCACAACGCG-ATTTGTG
* *
9636939 AAATCGCAATGCGAT
1 AAATCACAACGCGAT
9636954 AGTCAGAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (20 bp):
AAATCACAACGCGATTTGTG
Found at i:9636920 original size:22 final size:22
Alignment explanation
Indices: 9636895--9636941 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9636885 TGCGATTTAG
9636895 GAAAATCACAACGCGAATTTGT
1 GAAAATCACAACGCGAATTTGT
*
9636917 G-AAATCGCAACGCGAATTTGT
1 GAAAATCACAACGCGAATTTGT
9636938 GAAA
1 GAAA
9636942 TCGCAATGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (22 bp):
GAAAATCACAACGCGAATTTGT
Found at i:9637396 original size:10 final size:10
Alignment explanation
Indices: 9637381--9637406 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
9637371 TTTACTTGCT
9637381 TCAAAATAGA
1 TCAAAATAGA
9637391 TCAAAATAGA
1 TCAAAATAGA
9637401 TCAAAA
1 TCAAAA
9637407 CCCAACCCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.19
Consensus pattern (10 bp):
TCAAAATAGA
Found at i:9638302 original size:21 final size:23
Alignment explanation
Indices: 9638254--9638303 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
9638244 TGTGTTTAAT
*
9638254 ATAATATATAAATATGATGATAT
1 ATAATATATAAATATGATGATAC
*
9638277 A-AATATGT-AATATG-TGATAC
1 ATAATATATAAATATGATGATAC
9638297 ATAATAT
1 ATAATAT
9638304 CACATGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 6 0.25
21 11 0.46
22 6 0.25
23 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (23 bp):
ATAATATATAAATATGATGATAC
Found at i:9655281 original size:19 final size:20
Alignment explanation
Indices: 9655259--9655297 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
9655249 TTACACTTAT
9655259 TTTTCAAAATCAAA-ATAGA
1 TTTTCAAAATCAAAGATAGA
9655278 TTTTCAAAATCAAAGATAGA
1 TTTTCAAAATCAAAGATAGA
9655298 CTTTGTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (20 bp):
TTTTCAAAATCAAAGATAGA
Found at i:9655964 original size:8 final size:8
Alignment explanation
Indices: 9655946--9656004 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
9655936 TCACTATTCT
9655946 TTTCTCTTC
1 TTTC-CTTC
9655955 TTTCCTTC
1 TTTCCTTC
*
9655963 -TTACTTC
1 TTTCCTTC
9655970 TTTTCTCTTC
1 -TTTC-CTTC
9655980 TTTCCTTC
1 TTTCCTTC
*
9655988 -TTACTTC
1 TTTCCTTC
*
9655995 TTTTCTTC
1 TTTCCTTC
9656003 TT
1 TT
9656005 CCATCTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
7 12 0.29
8 16 0.38
9 10 0.24
10 4 0.10
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTCCTTC
Found at i:9655969 original size:7 final size:6
Alignment explanation
Indices: 9655942--9656018 Score: 51
Period size: 5 Copynumber: 13.5 Consensus size: 6
9655932 ACTTTCACTA
* *
9655942 TTCTT- TTC-TC TTCTT- TCCTTC TTACTTC TT-TTC -TCTTC TT-TCC
1 TTCTTC TTCTTC TTCTTC TTCTTC TT-CTTC TTCTTC TTCTTC TTCTTC
*
9655985 TTCTTAC TTCTT- TTCTTC TTCCATC TTCTTC TTC
1 TTCTT-C TTCTTC TTCTTC TT-CTTC TTCTTC TTC
9656019 AAGCTTTATG
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
4 2 0.04
5 25 0.45
6 12 0.21
7 17 0.30
ACGTcount: A:0.04, C:0.32, G:0.00, T:0.64
Consensus pattern (6 bp):
TTCTTC
Found at i:9655971 original size:15 final size:15
Alignment explanation
Indices: 9655951--9656004 Score: 64
Period size: 15 Copynumber: 3.9 Consensus size: 15
9655941 ATTCTTTTCT
9655951 CTTCTTTCCTTCTTA
1 CTTCTTTCCTTCTTA
9655966 CTTC-TT--TTC-T-
1 CTTCTTTCCTTCTTA
9655976 CTTCTTTCCTTCTTA
1 CTTCTTTCCTTCTTA
*
9655991 CTTCTTTTCTTCTT
1 CTTCTTTCCTTCTT
9656005 CCATCTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
10 4 0.12
11 3 0.09
12 3 0.09
13 3 0.09
14 3 0.09
15 17 0.52
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (15 bp):
CTTCTTTCCTTCTTA
Found at i:9656014 original size:25 final size:25
Alignment explanation
Indices: 9655942--9656005 Score: 119
Period size: 25 Copynumber: 2.5 Consensus size: 25
9655932 ACTTTCACTA
9655942 TTCTTTTCTCTTCTTTCCTTCTTAC
1 TTCTTTTCTCTTCTTTCCTTCTTAC
9655967 TTCTTTTCTCTTCTTTCCTTCTTAC
1 TTCTTTTCTCTTCTTTCCTTCTTAC
9655992 TTCTTTTCTTCTTC
1 TTCTTTTC-TCTTC
9656006 CATCTTCTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 33 0.87
26 5 0.13
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (25 bp):
TTCTTTTCTCTTCTTTCCTTCTTAC
Found at i:9656216 original size:20 final size:20
Alignment explanation
Indices: 9656191--9656230 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9656181 ATGTTTAATG
9656191 GGGATTTGGGTATTTGAGCA
1 GGGATTTGGGTATTTGAGCA
9656211 GGGATTTGGGTATTTGAGCA
1 GGGATTTGGGTATTTGAGCA
9656231 TGTTCAGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.40, T:0.35
Consensus pattern (20 bp):
GGGATTTGGGTATTTGAGCA
Found at i:9657537 original size:22 final size:19
Alignment explanation
Indices: 9657493--9657561 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 19
9657483 CAAAAATGGC
9657493 ATCGATACCATAGTAGAGT
1 ATCGATACCATAGTAGAGT
*
9657512 ATCGGTACCATAGTATAGTAGT
1 ATCGATACCATAG--TAG-AGT
* *
9657534 ATCGATACCATGGTAGGGGT
1 ATCGATACCATAGTA-GAGT
9657554 ATCGATAC
1 ATCGATAC
9657562 TGAGGAGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
19 12 0.29
20 12 0.29
21 4 0.10
22 14 0.33
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.28
Consensus pattern (19 bp):
ATCGATACCATAGTAGAGT
Found at i:9658043 original size:45 final size:45
Alignment explanation
Indices: 9657972--9658348 Score: 592
Period size: 45 Copynumber: 8.3 Consensus size: 45
9657962 CAAATGAACA
* * *
9657972 AAAATAATAATGCATATAGGTGCATTATCAGTATGAAAGGATGCC
1 AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
* * * *
9658017 AAAATAATAATGTATATGTGTACATTATCGGCATAAAAGGATGCC
1 AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
*
9658062 AAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGCC
1 AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
*
9658107 AAAATAATAATGCATATGGGTGCATTATCGGCATAAAAGGATGCC
1 AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
*
9658152 AAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCC
1 AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
*
9658197 AAAATAATAATGCATATGGGTGCATTATCGGCATAAAAGGATGCC
1 AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
*
9658242 AAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCC
1 AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
* *
9658287 AAAAATAATAATGCATATGGGTGTATTATCGGCATGAAAGGATGTC
1 -AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
* *
9658333 ATAACTAAAAATGCAT
1 A-AAATAATAATGCAT
9658349 GAAAGGATGC
Statistics
Matches: 305, Mismatches: 25, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
45 251 0.82
46 54 0.18
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.26
Consensus pattern (45 bp):
AAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCC
Found at i:9658356 original size:27 final size:27
Alignment explanation
Indices: 9658318--9658404 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
9658308 TGTATTATCG
9658318 GCATGAAAGGATGTCATAACTAAAAAT
1 GCATGAAAGGATGTCATAACTAAAAAT
9658345 GCATGAAAGGATG-CAT---T---AA-
1 GCATGAAAGGATGTCATAACTAAAAAT
9658364 GCCATGAAAGGATGTCATAACTAAAAAT
1 G-CATGAAAGGATGTCATAACTAAAAAT
9658392 GCATGAAAGGATG
1 GCATGAAAGGATG
9658405 CATTAATGCA
Statistics
Matches: 51, Mismatches: 0, Indels: 18
0.74 0.00 0.26
Matches are distributed among these distances:
19 1 0.02
20 14 0.27
21 3 0.06
23 1 0.02
24 1 0.02
26 3 0.06
27 27 0.53
28 1 0.02
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (27 bp):
GCATGAAAGGATGTCATAACTAAAAAT
Found at i:9658376 original size:47 final size:47
Alignment explanation
Indices: 9658318--9658419 Score: 188
Period size: 47 Copynumber: 2.2 Consensus size: 47
9658308 TGTATTATCG
9658318 GCATGAAAGGATGTCATAACTAAAAATGCATGAAAGGATGCATTAA-
1 GCATGAAAGGATGTCATAACTAAAAATGCATGAAAGGATGCATTAAT
9658364 GCCATGAAAGGATGTCATAACTAAAAATGCATGAAAGGATGCATTAAT
1 G-CATGAAAGGATGTCATAACTAAAAATGCATGAAAGGATGCATTAAT
9658412 GCATGAAA
1 GCATGAAA
9658420 AGAATGCTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
46 1 0.02
47 52 0.96
48 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.22
Consensus pattern (47 bp):
GCATGAAAGGATGTCATAACTAAAAATGCATGAAAGGATGCATTAAT
Found at i:9658414 original size:20 final size:20
Alignment explanation
Indices: 9658342--9658419 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
9658332 CATAACTAAA
9658342 AATGCATGAAAGGATGCATT
1 AATGCATGAAAGGATGCATT
9658362 AA-GCCATGAAAGGATGTCATAACT
1 AATG-CATGAAAGGATG-CAT---T
9658386 AAAAATGCATGAAAGGATGCATT
1 ---AATGCATGAAAGGATGCATT
9658409 AATGCATGAAA
1 AATGCATGAAA
9658420 AGAATGCTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 18
0.73 0.00 0.27
Matches are distributed among these distances:
19 1 0.02
20 25 0.51
21 3 0.06
23 1 0.02
24 1 0.02
26 3 0.06
27 14 0.29
28 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.22
Consensus pattern (20 bp):
AATGCATGAAAGGATGCATT
Found at i:9661993 original size:27 final size:27
Alignment explanation
Indices: 9661963--9662017 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
9661953 TATAATAGAT
9661963 ATATTAATATAAACACTATTATTAGTG
1 ATATTAATATAAACACTATTATTAGTG
*
9661990 ATATTAATATAGACACTATTATTAGTG
1 ATATTAATATAAACACTATTATTAGTG
9662017 A
1 A
9662018 CTTTGCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (27 bp):
ATATTAATATAAACACTATTATTAGTG
Found at i:9662881 original size:17 final size:18
Alignment explanation
Indices: 9662834--9662879 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
9662824 TTCTTACCTA
*
9662834 AAATAAGTATTTAATTATT
1 AAATAA-TATTTAATTATC
9662853 AAATAA-ATTTAATTATC
1 AAATAATATTTAATTATC
9662870 AAATAATATT
1 AAATAATATT
9662880 AAAACATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 16 0.64
18 3 0.12
19 6 0.24
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATAATATTTAATTATC
Found at i:9663246 original size:32 final size:32
Alignment explanation
Indices: 9663210--9663272 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
9663200 TGTTATCACT
* *
9663210 TTAGATTATAT-AGCACATACCACATCAATAAG
1 TTAGATAATATGA-CACATAACACATCAATAAG
*
9663242 TTAGATAATATGACACATAACACGTCAATAA
1 TTAGATAATATGACACATAACACATCAATAA
9663273 TTTAAGTGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 26 0.96
33 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (32 bp):
TTAGATAATATGACACATAACACATCAATAAG
Found at i:9664596 original size:75 final size:74
Alignment explanation
Indices: 9664502--9664833 Score: 470
Period size: 75 Copynumber: 4.4 Consensus size: 74
9664492 CTTAACCGGT
*
9664502 TAAAATAAAATAAGG-GCTACCTATTATGTTAAACTATCTACCGGTTTGTTTAAAGGTTACTAAT
1 TAAAATAAAAT-AGGCGCTACCTATTACGTTAAACTA-CTACCGGTTTGTTTAAAGGTTACTAAT
9664566 AATGTAAACGG
64 AATGTAAACGG
* ** *
9664577 TAAAATAAAATAGGCGCTACCTATTACGTTAAAATACATAATGGTTTGTTTAAATGTTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTAC-TACCGGTTTGTTTAAAGGTTACTAATA
9664642 ATGTAAACGG
65 ATGTAAACGG
* * * *
9664652 TAAAATAAAATAGACACTACCTATTACGTTAACCTACCTACAGGTTTGTTTAAAGGTTACTAATA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTA-CTACCGGTTTGTTTAAAGGTTACTAATA
9664717 ATGTAAACGG
65 ATGTAAACGG
* * *
9664727 TAAAATAAAATAGGC-TTACCTATTACGTTAAACTAGCTACCAGTTTGTTTAAAGGTTAATAATA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAACTA-CTACCGGTTTGTTTAAAGGTTACTAATA
*
9664791 ATGTAAATGG
65 ATGTAAACGG
* *
9664801 TAAAATAAAATAGGTGTTACCTATTACGTTAAA
1 TAAAATAAAATAGGCGCTACCTATTACGTTAAA
9664834 TAGGTGCTAC
Statistics
Matches: 232, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
74 70 0.30
75 161 0.69
76 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (74 bp):
TAAAATAAAATAGGCGCTACCTATTACGTTAAACTACTACCGGTTTGTTTAAAGGTTACTAATAA
TGTAAACGG
Found at i:9664834 original size:23 final size:23
Alignment explanation
Indices: 9664808--9664871 Score: 119
Period size: 23 Copynumber: 2.8 Consensus size: 23
9664798 TGGTAAAATA
*
9664808 AAATAGGTGTTACCTATTACGTT
1 AAATAGGTGCTACCTATTACGTT
9664831 AAATAGGTGCTACCTATTACGTT
1 AAATAGGTGCTACCTATTACGTT
9664854 AAATAGGTGCTACCTATT
1 AAATAGGTGCTACCTATT
9664872 GTTGAAATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (23 bp):
AAATAGGTGCTACCTATTACGTT
Found at i:9665019 original size:52 final size:52
Alignment explanation
Indices: 9664957--9665059 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
9664947 AAATTGGACA
9664957 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
9665009 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
9665060 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:9669622 original size:52 final size:52
Alignment explanation
Indices: 9669560--9669662 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
9669550 AAATTGGACA
9669560 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
*
9669612 CATAGAAATAGGAGACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
1 CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAG
9669663 AATATTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (52 bp):
CATAGAAATAGGAAACTAGCCTAGAGTTAGGGGATTACAACTAATTACAAGG
Found at i:9669840 original size:23 final size:23
Alignment explanation
Indices: 9669814--9669885 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
9669804 CGGTAAAATA
* *
9669814 AAATAGGCACTACTTATTATGTT
1 AAATAGGCACTACCTATTACGTT
*
9669837 AAATAGGCGCTACCTATTACGTT
1 AAATAGGCACTACCTATTACGTT
* * *
9669860 AAATAAGTACTACCTATTACATT
1 AAATAGGCACTACCTATTACGTT
9669883 AAA
1 AAA
9669886 CTAGCTACCG
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (23 bp):
AAATAGGCACTACCTATTACGTT
Found at i:9669967 original size:23 final size:23
Alignment explanation
Indices: 9669941--9670012 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
9669931 CGGTAAAATA
*
9669941 AAATAGGCGCTACCTATTATGTT
1 AAATAGGCGCTACCTATTACGTT
9669964 AAATAGGCGCTACCTATTACGTT
1 AAATAGGCGCTACCTATTACGTT
** *
9669987 AAATAAACGCTGCCTATTACGTT
1 AAATAGGCGCTACCTATTACGTT
9670010 AAA
1 AAA
9670013 CTAGCTACCG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (23 bp):
AAATAGGCGCTACCTATTACGTT
Found at i:9669969 original size:127 final size:127
Alignment explanation
Indices: 9669726--9670046 Score: 483
Period size: 127 Copynumber: 2.6 Consensus size: 127
9669716 AATTCTCTAA
* * *
9669726 TACCTATTACGTTAAATAGGTGCTACATATTACGTTAAACTAGCTATCGGTTTGTTTAAAGG---
1 TACCTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTA
* *
9669788 -C--TAATAATGATGTAAACGGTAAAATAAAATAGGCACTACTTATTATGTTAAATAGGCGC
66 ACAATAATAATAATGTAAACGGTAAAATAAAATAGGCACTACCTATTATGTTAAATAGGCGC
* * *
9669847 TACCTATTACGTTAAATAAGTACTACCTATTACATTAAACTAGCTACCGGGTTGTTTAAAGGTTA
1 TACCTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTA
*
9669912 ACAATAATAATAATGTAAACGGTAAAATAAAATAGGCGCTACCTATTATGTTAAATAGGCGC
66 ACAATAATAATAATGTAAACGGTAAAATAAAATAGGCACTACCTATTATGTTAAATAGGCGC
** *
9669974 TACCTATTACGTTAAATAAACGCTGCCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTA
1 TACCTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTA
*
9670039 ATAATAAT
66 ACAATAAT
9670047 GTAAACGGTC
Statistics
Matches: 178, Mismatches: 16, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
121 56 0.31
125 1 0.01
127 121 0.68
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.33
Consensus pattern (127 bp):
TACCTATTACGTTAAATAAGTGCTACCTATTACGTTAAACTAGCTACCGGTTTGTTTAAAGGTTA
ACAATAATAATAATGTAAACGGTAAAATAAAATAGGCACTACCTATTATGTTAAATAGGCGC
Found at i:9670794 original size:108 final size:108
Alignment explanation
Indices: 9670652--9670887 Score: 319
Period size: 108 Copynumber: 2.2 Consensus size: 108
9670642 ATTGGACGCA
* * * * * *
9670652 ACCTAATACGTTAATATTTATTTATAACAAAATAAGAAATTAACCTATTTTGTTGCCGTCTGATT
1 ACCTAATATGTTGATA-ATATTAATAACAAAATAAGAAATTAACCTATTTTGTTACCGTCGGATT
* * *
9670717 TCGAAGGCCCCATCAGCTTAAACTTTGGTAACATTTTATGTACT
65 TCGAAGGCCCAATCAACTTAAACTTTGGTAACATTTTAGGTACT
* * *
9670761 ACCTAATATGTTGATAATATTAATAACAAAATAAGTAATTAATCTATTTTGTTATCGTCGGATTT
1 ACCTAATATGTTGATAATATTAATAACAAAATAAGAAATTAACCTATTTTGTTACCGTCGGATTT
* * *
9670826 CTAAGGCCTAATCAACTTAAACTTTGGTAATATTTTAGGTACT
66 CGAAGGCCCAATCAACTTAAACTTTGGTAACATTTTAGGTACT
*
9670869 ACCTAATATATTGATAATA
1 ACCTAATATGTTGATAATA
9670888 AATTAAGTAA
Statistics
Matches: 111, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
108 97 0.87
109 14 0.13
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (108 bp):
ACCTAATATGTTGATAATATTAATAACAAAATAAGAAATTAACCTATTTTGTTACCGTCGGATTT
CGAAGGCCCAATCAACTTAAACTTTGGTAACATTTTAGGTACT
Found at i:9693872 original size:16 final size:16
Alignment explanation
Indices: 9693819--9693873 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
9693809 CTTTAAAAAT
9693819 CAATAATATATGTTAAA
1 CAATAATATAT-TTAAA
* * *
9693836 -AATCATAT-TATAAT
1 CAATAATATATTTAAA
*
9693850 TAATAATATATTTAAA
1 CAATAATATATTTAAA
9693866 CAATAATA
1 CAATAATA
9693874 ATGTAATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
14 3 0.10
15 8 0.28
16 18 0.62
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (16 bp):
CAATAATATATTTAAA
Found at i:9693881 original size:31 final size:31
Alignment explanation
Indices: 9693820--9693881 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
9693810 TTTAAAAATC
* *
9693820 AATAATATATGTTAAAAATCATATTATAATT
1 AATAATATATGTTAAAAATAATAATATAATT
*
9693851 AATAATATAT-TTAAACAATAATAATGTAATT
1 AATAATATATGTTAAA-AATAATAATATAATT
9693882 TAAGTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 5 0.19
31 22 0.81
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (31 bp):
AATAATATATGTTAAAAATAATAATATAATT
Found at i:9700094 original size:30 final size:31
Alignment explanation
Indices: 9700060--9700123 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
9700050 ATATATATAT
*
9700060 ATTTAAGTAAT-AATT-TTATAATTTTTAATA
1 ATTTAAATAATGAATTATT-TAATTTTTAATA
9700090 ATTTAAATAATGAATTATTTAATTTTTAATA
1 ATTTAAATAATGAATTATTTAATTTTTAATA
9700121 ATT
1 ATT
9700124 AGAGTATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
30 10 0.32
31 19 0.61
32 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
ATTTAAATAATGAATTATTTAATTTTTAATA
Found at i:9700329 original size:17 final size:17
Alignment explanation
Indices: 9700295--9700355 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 17
9700285 AAACTCAACA
*
9700295 CAAACTCTA-AAAAACT
1 CAAACTCAACAAAAACT
* *
9700311 CAAATTCAACAAAATCT
1 CAAACTCAACAAAAACT
*
9700328 CAAACTC-A-AATAACT
1 CAAACTCAACAAAAACT
9700343 -AAACTCAA-AAAAA
1 CAAACTCAACAAAAA
9700356 TTTCAAAAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
14 6 0.17
15 10 0.28
16 8 0.22
17 12 0.33
ACGTcount: A:0.59, C:0.23, G:0.00, T:0.18
Consensus pattern (17 bp):
CAAACTCAACAAAAACT
Found at i:9700362 original size:31 final size:33
Alignment explanation
Indices: 9700295--9700362 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
9700285 AAACTCAACA
* *
9700295 CAAACTCTAAAAAACTCAAATTCAACAAAATCT
1 CAAACTCTAAAAAACTCAAACTCAAAAAAATCT
* *
9700328 CAAACTC-AAATAACT-AAACTCAAAAAAATTT
1 CAAACTCTAAAAAACTCAAACTCAAAAAAATCT
9700359 CAAA
1 CAAA
9700363 AACTCAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 17 0.55
32 7 0.23
33 7 0.23
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.21
Consensus pattern (33 bp):
CAAACTCTAAAAAACTCAAACTCAAAAAAATCT
Found at i:9700375 original size:11 final size:11
Alignment explanation
Indices: 9700361--9700428 Score: 82
Period size: 11 Copynumber: 6.0 Consensus size: 11
9700351 AAAAATTTCA
9700361 AAAACTCAATT
1 AAAACTCAATT
9700372 AAAACTCAAAATT
1 AAAACTC--AATT
*
9700385 CAAACTCAATT
1 AAAACTCAATT
*
9700396 ATAACTCAATT
1 AAAACTCAATT
*
9700407 ATAACTCAATT
1 AAAACTCAATT
*
9700418 ATAACTCAATT
1 AAAACTCAATT
9700429 CACACTTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
11 42 0.81
13 10 0.19
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAACTCAATT
Found at i:9700412 original size:22 final size:22
Alignment explanation
Indices: 9700362--9700430 Score: 95
Period size: 22 Copynumber: 3.0 Consensus size: 22
9700352 AAAATTTCAA
*
9700362 AAACTCAATTAAAACTCAAAATTC
1 AAACTCAATTATAACTC--AATTC
9700386 AAACTCAATTATAACTCAATT-
1 AAACTCAATTATAACTCAATTC
9700407 ATAACTCAATTATAACTCAATTC
1 A-AACTCAATTATAACTCAATTC
9700430 A
1 A
9700431 CACTTAATCA
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
21 1 0.02
22 24 0.57
23 1 0.02
24 16 0.38
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.30
Consensus pattern (22 bp):
AAACTCAATTATAACTCAATTC
Found at i:9701835 original size:2 final size:2
Alignment explanation
Indices: 9701828--9701860 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9701818 ATCAATTTTA
9701828 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9701861 CTTATACTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9701849 original size:15 final size:15
Alignment explanation
Indices: 9701829--9701858 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
9701819 TCAATTTTAA
9701829 TATATATATATATAT
1 TATATATATATATAT
9701844 TATATATATATATAT
1 TATATATATATATAT
9701859 ATCTTATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:9701866 original size:17 final size:17
Alignment explanation
Indices: 9701828--9701860 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9701818 ATCAATTTTA
9701828 ATATATATATATATATT
1 ATATATATATATATATT
9701845 ATATATATATATATAT
1 ATATATATATATATAT
9701861 CTTATACTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATATATATATATATT
Found at i:9702177 original size:14 final size:14
Alignment explanation
Indices: 9702160--9702198 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
9702150 GAATTTAGGG
*
9702160 TTTATGGTTTATGC
1 TTTAGGGTTTATGC
9702174 TTTAGGGTTTATGC
1 TTTAGGGTTTATGC
*
9702188 TTTAGGATTTA
1 TTTAGGGTTTA
9702199 AGGTTTAGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.18, C:0.05, G:0.23, T:0.54
Consensus pattern (14 bp):
TTTAGGGTTTATGC
Found at i:9702179 original size:21 final size:21
Alignment explanation
Indices: 9702152--9702205 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
9702142 ATATAATCGA
* *
9702152 ATTTAGGGTTTATGGTTTATG
1 ATTTAGGGTTTATGCTTTAGG
*
9702173 CTTTAGGGTTTATGCTTTAGG
1 ATTTAGGGTTTATGCTTTAGG
*
9702194 ATTTAAGGTTTA
1 ATTTAGGGTTTA
9702206 GACATTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.20, C:0.04, G:0.26, T:0.50
Consensus pattern (21 bp):
ATTTAGGGTTTATGCTTTAGG
Found at i:9702265 original size:14 final size:14
Alignment explanation
Indices: 9702246--9702310 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
9702236 ATGAGGTAAG
9702246 TATGATTTAATGTT
1 TATGATTTAATGTT
9702260 TATGATTTAGA-GTT
1 TATGATTTA-ATGTT
* *
9702274 TAGGGTTT-ATGGTT
1 TATGATTTAAT-GTT
* *
9702288 TAAGATTTATTGTT
1 TATGATTTAATGTT
*
9702302 TATGGTTTA
1 TATGATTTA
9702311 GGGTTTATGG
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
12 1 0.03
14 37 0.93
15 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.54
Consensus pattern (14 bp):
TATGATTTAATGTT
Found at i:9702316 original size:14 final size:14
Alignment explanation
Indices: 9702257--9702320 Score: 56
Period size: 14 Copynumber: 4.6 Consensus size: 14
9702247 ATGATTTAAT
* *
9702257 GTTTATGATTTAGA
1 GTTTATGGTTTAGG
* *
9702271 GTTTAGGGTTTATG
1 GTTTATGGTTTAGG
* * **
9702285 GTTTAAGATTTATT
1 GTTTATGGTTTAGG
9702299 GTTTATGGTTTAGG
1 GTTTATGGTTTAGG
9702313 GTTTATGG
1 GTTTATGG
9702321 CTCATTACAA
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (14 bp):
GTTTATGGTTTAGG
Found at i:9702318 original size:21 final size:21
Alignment explanation
Indices: 9702251--9702318 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
9702241 GTAAGTATGA
* * *
9702251 TTTAATGTTTATGATTTAGAG
1 TTTATTGTTTATGGTTTAGGG
** * *
9702272 TTTAGGGTTTATGGTTTAAGA
1 TTTATTGTTTATGGTTTAGGG
9702293 TTTATTGTTTATGGTTTAGGG
1 TTTATTGTTTATGGTTTAGGG
9702314 TTTAT
1 TTTAT
9702319 GGCTCATTAC
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (21 bp):
TTTATTGTTTATGGTTTAGGG
Found at i:9704556 original size:3 final size:3
Alignment explanation
Indices: 9704542--9704581 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
9704532 CGGATATTTT
9704542 TTA TTA TT- TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9704582 CTATTAATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:9705328 original size:12 final size:13
Alignment explanation
Indices: 9705294--9705335 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
9705284 AAAAGAAATC
9705294 AGAG-AGAAAGAAA
1 AGAGAAGAAAG-AA
9705307 AGAGAA-AAAGAA
1 AGAGAAGAAAGAA
9705319 AGA-AAGAAAGAA
1 AGAGAAGAAAGAA
9705331 AGAGA
1 AGAGA
9705336 TCTTACCTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 14 0.54
13 9 0.35
14 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAGAA
Found at i:9705784 original size:12 final size:13
Alignment explanation
Indices: 9705750--9705791 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
9705740 AAAAGAAATC
9705750 AGAG-AGAAAGAAA
1 AGAGAAGAAAG-AA
9705763 AGAGAA-AAAGAA
1 AGAGAAGAAAGAA
9705775 AGA-AAGAAAGAA
1 AGAGAAGAAAGAA
9705787 AGAGA
1 AGAGA
9705792 TCTTACCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 14 0.54
13 9 0.35
14 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAAGAA
Found at i:9707566 original size:28 final size:27
Alignment explanation
Indices: 9707535--9707597 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
9707525 AGTTGATACA
*
9707535 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
9707563 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
9707591 ATATTTT
1 ATATTTT
9707598 CATATTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:9707697 original size:16 final size:18
Alignment explanation
Indices: 9707676--9707709 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
9707666 ATTTCTTATT
9707676 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
9707692 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
9707710 TACATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:9707884 original size:33 final size:34
Alignment explanation
Indices: 9707847--9707919 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
9707837 TTTTAGATTT
*
9707847 AATTGAAGTATTTTAG-AATTAGGG-TTAGAATAA
1 AATTGAAGTACTTTAGAAATT-GGGTTTAGAATAA
* * *
9707880 AATTGAATTACTTTGGAAATTGGGTTTAGAATGA
1 AATTGAAGTACTTTAGAAATTGGGTTTAGAATAA
9707914 AATTGA
1 AATTGA
9707920 TGACTGTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (34 bp):
AATTGAAGTACTTTAGAAATTGGGTTTAGAATAA
Found at i:9709171 original size:18 final size:18
Alignment explanation
Indices: 9709148--9709183 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
9709138 ATAATAAATT
9709148 CATAATTGATTT-TTTAAA
1 CATAATTG-TTTGTTTAAA
9709166 CATAATTGTTTGTTTAAA
1 CATAATTGTTTGTTTAAA
9709184 ATGGTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.36, C:0.06, G:0.08, T:0.50
Consensus pattern (18 bp):
CATAATTGTTTGTTTAAA
Found at i:9711253 original size:2 final size:2
Alignment explanation
Indices: 9711224--9711282 Score: 52
Period size: 2 Copynumber: 30.5 Consensus size: 2
9711214 TTTTGTAAAT
* * *
9711224 TA TA TA CA TA TA CA TA CTA TG T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
*
9711266 TA T- TA AA TA -A TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
9711283 GTAATGCCCC
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
1 3 0.07
2 41 0.89
3 2 0.04
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:9717509 original size:2 final size:2
Alignment explanation
Indices: 9717502--9717548 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
9717492 ATCTTGTATT
* *
9717502 TA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA TC TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9717544 TA TA T
1 TA TA T
9717549 TTCATGTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9721619 original size:2 final size:2
Alignment explanation
Indices: 9721612--9721680 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
9721602 ATAATGTAAT
9721612 TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9721653 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9721681 CACAATAAAG
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9724351 original size:2 final size:2
Alignment explanation
Indices: 9724344--9724381 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
9724334 ACTTTGCAAA
*
9724344 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9724382 GTCGTATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9724873 original size:16 final size:16
Alignment explanation
Indices: 9724824--9724874 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
9724814 CAAATTTATC
9724824 AAAATACCAATTTTCCA
1 AAAAT-CCAATTTTCCA
* * **
9724841 AAAAT-AAAGTTAACA
1 AAAATCCAATTTTCCA
9724856 AAAATCCAATTTTCCA
1 AAAATCCAATTTTCCA
9724872 AAA
1 AAA
9724875 TAAAGTTATA
Statistics
Matches: 25, Mismatches: 8, Indels: 3
0.69 0.22 0.08
Matches are distributed among these distances:
15 11 0.44
16 9 0.36
17 5 0.20
ACGTcount: A:0.55, C:0.18, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAATCCAATTTTCCA
Found at i:9724877 original size:30 final size:32
Alignment explanation
Indices: 9724824--9724882 Score: 104
Period size: 30 Copynumber: 1.9 Consensus size: 32
9724814 CAAATTTATC
9724824 AAAATACCAATTTTCCAAAAATAAAGTTAACA
1 AAAATACCAATTTTCCAAAAATAAAGTTAACA
9724856 AAAAT-CCAATTTTCC-AAAATAAAGTTA
1 AAAATACCAATTTTCCAAAAATAAAGTTA
9724883 TAATTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 12 0.44
31 10 0.37
32 5 0.19
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.27
Consensus pattern (32 bp):
AAAATACCAATTTTCCAAAAATAAAGTTAACA
Found at i:9726789 original size:21 final size:21
Alignment explanation
Indices: 9726760--9726812 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
9726750 ATTCTGACTA
9726760 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
9726781 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
9726802 TCGCAATGCGA
1 TCGCATTGCGA
9726813 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:9726827 original size:20 final size:20
Alignment explanation
Indices: 9726802--9726988 Score: 209
Period size: 20 Copynumber: 9.3 Consensus size: 20
9726792 TTTTCCTAAT
9726802 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
9726822 TCGCAATGCAAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
9726843 TCGCAATACGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
9726863 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
9726883 TCGCAATGCTATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
9726903 TCGCAATGCGAAT-C-TGACTA
1 TCGCAATGCGAATACGT-A-AA
*
9726923 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
*
9726943 TCGCAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
*
9726963 TCTCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
9726983 TCGCAA
1 TCGCAA
9726989 CGAGATTCTG
Statistics
Matches: 137, Mismatches: 24, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
18 1 0.01
19 3 0.02
20 116 0.85
21 16 0.12
22 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:9730356 original size:20 final size:20
Alignment explanation
Indices: 9730331--9730419 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
9730321 CAACGTGCAA
*
9730331 ATCGCAACGC-GAATATGATT
1 ATCGCAACGCGGAA-ATGACT
*
9730351 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
9730371 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
9730391 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
9730411 ATCGCAACG
1 ATCGCAACG
9730420 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 58 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:9730479 original size:34 final size:33
Alignment explanation
Indices: 9730391--9730486 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
9730381 GGAATTGACT
* **
9730391 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
9730425 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
9730458 CTCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
9730487 CGAAATTAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.41, C:0.22, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:9730563 original size:33 final size:33
Alignment explanation
Indices: 9730501--9730585 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 33
9730491 ATTAGTTTCG
* *
9730501 CGTTGCGATTTTCATTTTCGTATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTACGATTCACT
*
9730535 CGTTGCGATTTTCATTTCGCATTACGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTACGATTCACT
* **
9730568 CATTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
9730586 CGCGTTGCGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 31 0.69
34 14 0.31
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTACGATTCACT
Found at i:9730709 original size:14 final size:14
Alignment explanation
Indices: 9730690--9730726 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
9730680 CATCAATTAA
9730690 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
9730704 ACAAATCATCTTTT
1 ACAAATCAACATTT
9730718 ACAAATCAA
1 ACAAATCAA
9730727 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:9732653 original size:20 final size:20
Alignment explanation
Indices: 9732628--9732811 Score: 180
Period size: 20 Copynumber: 9.8 Consensus size: 20
9732618 TAGAATCTGC
9732628 AAATGACTATCGCAACGCGA
1 AAATGACTATCGCAACGCGA
*
9732648 AAATGACTATCGTAACGCGA
1 AAATGACTATCGCAACGCGA
*
9732668 AAATGACTATTGCAACGCGA
1 AAATGACTATCGCAACGCGA
9732688 AAATGACTATCGCAACGCGA
1 AAATGACTATCGCAACGCGA
9732708 AAATGACTATCGCAA--CG-
1 AAATGACTATCGCAACGCGA
* *
9732725 AGA-GA--ATCGCAATGCG-
1 AAATGACTATCGCAACGCGA
**
9732741 AAATGAAAATCGCAA--C-A
1 AAATGACTATCGCAACGCGA
9732758 ACAA--A--ATCGCAACGCGA
1 A-AATGACTATCGCAACGCGA
*
9732775 AAATGACTATCGCAATGCGA
1 AAATGACTATCGCAACGCGA
**
9732795 ATTTGACTATCGCAACG
1 AAATGACTATCGCAACG
9732812 AGAGAATCGC
Statistics
Matches: 140, Mismatches: 10, Indels: 28
0.79 0.06 0.16
Matches are distributed among these distances:
14 14 0.10
16 10 0.07
17 8 0.06
18 5 0.04
19 7 0.05
20 96 0.69
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGA
Found at i:9732753 original size:33 final size:33
Alignment explanation
Indices: 9732696--9732776 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
9732686 GAAAATGACT
** * * *
9732696 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
*
9732730 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
9732763 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
9732777 ATGACTATCG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 30 0.75
34 10 0.25
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:9732909 original size:73 final size:70
Alignment explanation
Indices: 9732818--9732976 Score: 176
Period size: 73 Copynumber: 2.2 Consensus size: 70
9732808 AACGAGAGAA
* ** *
9732818 TCGCAATGCGATTTTCATTTAT-CATTGCGATTCTTTCGTTGCGATAGTCAAATTCGCATTGAGA
1 TCGCATTGCGATAGTCATTT-TCCATTGCGATTCTCTCG-TGCGATAGTCAAATTCGCATTGAGA
9732882 TAGTCATTT
64 TA-TCA-TT
** * * *
9732891 TCGCATTGCGATAGTCATTTTCGCATTGCGATTCTCTCGTGCGATAGTCATTTTTGCGTTGGGAT
1 TCGCATTGCGATAGTCATTTTC-CATTGCGATTCTCTCGTGCGATAGTCAAATTCGCATTGAGAT
9732956 ATCATT
65 ATCATT
*
9732962 TCGCGTTGCGATAGT
1 TCGCATTGCGATAGT
9732977 AAATTATCTT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
71 16 0.22
72 4 0.05
73 39 0.53
74 15 0.20
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.40
Consensus pattern (70 bp):
TCGCATTGCGATAGTCATTTTCCATTGCGATTCTCTCGTGCGATAGTCAAATTCGCATTGAGATA
TCATT
Found at i:9732919 original size:20 final size:20
Alignment explanation
Indices: 9732856--9732922 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
9732846 GATTCTTTCG
**
9732856 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
9732876 TTGAGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
9732896 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
9732916 TTGCGAT
1 TTGCGAT
9732923 TCTCTCGTGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:9734871 original size:20 final size:20
Alignment explanation
Indices: 9734828--9734895 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
9734818 GAAACTTTAA
**
9734828 ATCGCAACACGAAAATGAAA
1 ATCGCAACACGAAAATGACT
9734848 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
* * **
9734868 ATCGTAACGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
9734888 ATCGCAAC
1 ATCGCAAC
9734896 GCAAGAATCG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:9734969 original size:20 final size:20
Alignment explanation
Indices: 9734944--9734987 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
9734934 TCTCTCGTTA
9734944 CGATAGTCAAATTCGCATTG
1 CGATAGTCAAATTCGCATTG
** *
9734964 CGATAGTCATTTTCGCGTTG
1 CGATAGTCAAATTCGCATTG
9734984 CGAT
1 CGAT
9734988 TCACTCGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.34
Consensus pattern (20 bp):
CGATAGTCAAATTCGCATTG
Found at i:9735375 original size:22 final size:22
Alignment explanation
Indices: 9735314--9735375 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
9735304 AGACTGTGAA
* *
9735314 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
9735336 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
9735354 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
9735376 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:9735590 original size:21 final size:20
Alignment explanation
Indices: 9735564--9735617 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
9735554 CGATAGTCAG
*
9735564 ATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACAA
* **
9735585 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACAA
9735605 ATTCGCATTGCGA
1 ATTCGCATTGCGA
9735618 ATTAGAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACAA
Found at i:9735638 original size:21 final size:21
Alignment explanation
Indices: 9735614--9735659 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
9735604 TATTCGCATT
9735614 GCGAATTAGAAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
* * *
9735635 GCGAATTTGAGAAATCGCAAT
1 GCGAATTAGAAAAATCGCAAC
9735656 GCGA
1 GCGA
9735660 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:9744241 original size:4 final size:4
Alignment explanation
Indices: 9744232--9744259 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
9744222 AGAAAACATC
9744232 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT
9744260 CTCTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:9746432 original size:212 final size:219
Alignment explanation
Indices: 9746040--9746466 Score: 778
Period size: 212 Copynumber: 2.0 Consensus size: 219
9746030 CCAATTTTTT
9746040 CACTTGTTCTAAATCCAATTCTATCACTTTGAATTTCTTATTTCTATTCATGACAAGTCAAATTT
1 CACTTGTTCTAAATCCAATTCTATCACTTTGAATTTCTTATTTC--TTCATGACAAGTCAAATTT
9746105 AACCTCAAAACTCAATTACTAACTTCTTTCCATAATTTCACTTAACCACTCCTTATCTTAAATCT
64 AACCTCAAAACTCAATTACTAACTTCTTTCCATAATTTCACTTAACCACTCCTTATCTTAAA-CT
9746170 TCCATAACTTCCTTATCTTTTGTTTTCTATCTCCTTTTAAGTTACCATAGTCATTTTTAATGCTC
128 TCCATAACTTCCTTATCTTTTGTTTTCTATCTCCTTTTAAGTTACCATAGTCATTTTTAATGCTC
9746235 CATCAATAAAAAAACATTCTTTAATTG
193 CATCAATAAAAAAACATTCTTTAATTG
9746262 CACTTGTTCTAAATCCAATTCTATCACTTTGAA-TTCTTATTTC-T-ATGACAAGTCAAATTTAA
1 CACTTGTTCTAAATCCAATTCTATCACTTTGAATTTCTTATTTCTTCATGACAAGTCAAATTTAA
9746324 CCTCAAAACTCAATTACTAACTTCTTTCC-TAATTTCACTTAACCACTCCTTATC-TAAA-TTCC
66 CCTCAAAACTCAATTACTAACTTCTTTCCATAATTTCACTTAACCACTCCTTATCTTAAACTTCC
9746386 -TAACTTCCTTATCTTTTGTTTTCTATCTCCTTTTAAGTTACCATAGTCATTTTTAATGCTCCAT
131 ATAACTTCCTTATCTTTTGTTTTCTATCTCCTTTTAAGTTACCATAGTCATTTTTAATGCTCCAT
9746450 CAATAAAAAAACATTCT
196 CAATAAAAAAACATTCT
9746467 ATGGACTTCT
Statistics
Matches: 205, Mismatches: 0, Indels: 10
0.95 0.00 0.05
Matches are distributed among these distances:
212 81 0.40
213 4 0.02
215 4 0.02
216 25 0.12
217 47 0.23
218 1 0.00
221 10 0.05
222 33 0.16
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.42
Consensus pattern (219 bp):
CACTTGTTCTAAATCCAATTCTATCACTTTGAATTTCTTATTTCTTCATGACAAGTCAAATTTAA
CCTCAAAACTCAATTACTAACTTCTTTCCATAATTTCACTTAACCACTCCTTATCTTAAACTTCC
ATAACTTCCTTATCTTTTGTTTTCTATCTCCTTTTAAGTTACCATAGTCATTTTTAATGCTCCAT
CAATAAAAAAACATTCTTTAATTG
Found at i:9747638 original size:24 final size:24
Alignment explanation
Indices: 9747611--9747686 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
9747601 TTAGGTCATA
* **
9747611 TATCCTAACAGAATCCAGGTTAAG
1 TATCCTAACAGAATCCAAGCCAAG
*
9747635 TAT-CAAATCAGAATCCAAGCCAAG
1 TATCCTAA-CAGAATCCAAGCCAAG
* * * *
9747659 TATCATATCAGAATCCAAGTCAGG
1 TATCCTAACAGAATCCAAGCCAAG
9747683 TATC
1 TATC
9747687 ATAGTATAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
23 3 0.07
24 37 0.90
25 1 0.02
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.24
Consensus pattern (24 bp):
TATCCTAACAGAATCCAAGCCAAG
Found at i:9747687 original size:24 final size:24
Alignment explanation
Indices: 9747619--9747689 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
9747609 TATATCCTAA
* * *
9747619 CAGAATCCAGGTTAAGTATCAAAT
1 CAGAATCCAAGTCAAGTATCATAT
*
9747643 CAGAATCCAAGCCAAGTATCATAT
1 CAGAATCCAAGTCAAGTATCATAT
*
9747667 CAGAATCCAAGTCAGGTATCATA
1 CAGAATCCAAGTCAAGTATCATA
9747690 GTATAATTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (24 bp):
CAGAATCCAAGTCAAGTATCATAT
Found at i:9748819 original size:18 final size:18
Alignment explanation
Indices: 9748798--9748837 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
9748788 TATTATCAAA
9748798 TTCAAACTTATCATTTAT
1 TTCAAACTTATCATTTAT
*
9748816 TTCAAACTTATTATTTAT
1 TTCAAACTTATCATTTAT
9748834 TTCA
1 TTCA
9748838 CTCCTTTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (18 bp):
TTCAAACTTATCATTTAT
Found at i:9750013 original size:30 final size:30
Alignment explanation
Indices: 9749977--9750047 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
9749967 TTTGGCCAAA
* * *
9749977 GTCAAAGTCAACGGTCAACGGGTTGACCTG
1 GTCAAAGTCAAAGGTCAACGGATTAACCTG
* *
9750007 GTCAAAGTCAAAGGTCAATGGATTAACTTG
1 GTCAAAGTCAAAGGTCAACGGATTAACCTG
9750037 GTCAAAGTCAA
1 GTCAAAGTCAA
9750048 TGAGTTGACC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (30 bp):
GTCAAAGTCAAAGGTCAACGGATTAACCTG
Found at i:9752284 original size:24 final size:24
Alignment explanation
Indices: 9752256--9752314 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
9752246 ATAGTATAAG
* *
9752256 AGAATCCATGTCAAGTATCAAATC
1 AGAATCCAAGTAAAGTATCAAATC
*
9752280 AGAATCCAAGTAAAGTATCATATC
1 AGAATCCAAGTAAAGTATCAAATC
*
9752304 AGAATACAAGT
1 AGAATCCAAGT
9752315 CAGATATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.24
Consensus pattern (24 bp):
AGAATCCAAGTAAAGTATCAAATC
Found at i:9756746 original size:24 final size:24
Alignment explanation
Indices: 9756669--9756744 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
9756659 TCATGTCATA
9756669 TATCAAATAA-AATCCAGGTCAAG
1 TATCAAATAAGAATCCAGGTCAAG
* *
9756692 TATCAAATCAGAATCTAGGTCAAG
1 TATCAAATAAGAATCCAGGTCAAG
* * *
9756716 TATCATATAAGAATCCAAGTCAGG
1 TATCAAATAAGAATCCAGGTCAAG
9756740 TATCA
1 TATCA
9756745 TAACATAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 9 0.20
24 36 0.80
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.25
Consensus pattern (24 bp):
TATCAAATAAGAATCCAGGTCAAG
Found at i:9759161 original size:18 final size:18
Alignment explanation
Indices: 9759118--9759188 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
9759108 CGTAGGTTGA
* *
9759118 CTTAGTCGACTTGGCTCCG
1 CTTAG-CGACTCGGCTCGG
* * *
9759137 CTCAGCGGCTCGGCTTGG
1 CTTAGCGACTCGGCTCGG
*
9759155 CTTAGCGACTCAGCTCGG
1 CTTAGCGACTCGGCTCGG
* *
9759173 CTTAGTGCCTCGGCTC
1 CTTAGCGACTCGGCTC
9759189 AACTGTCACC
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
18 36 0.90
19 4 0.10
ACGTcount: A:0.10, C:0.34, G:0.30, T:0.27
Consensus pattern (18 bp):
CTTAGCGACTCGGCTCGG
Found at i:9761304 original size:24 final size:23
Alignment explanation
Indices: 9761277--9761353 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 23
9761267 ATATCATAAG
9761277 AGAATCCATGTCAAGTATCAAATC
1 AGAATCCA-GTCAAGTATCAAATC
*
9761301 AGAATCCCAGTCAAGTATCATATC
1 AGAAT-CCAGTCAAGTATCAAATC
*
9761325 AGAATCCAAGTCAGGTATCATAA-C
1 AGAATCC-AGTCAAGTATCA-AATC
9761349 AGAAT
1 AGAAT
9761354 TCAAATAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
23 2 0.04
24 41 0.87
25 4 0.09
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (23 bp):
AGAATCCAGTCAAGTATCAAATC
Found at i:9765455 original size:24 final size:24
Alignment explanation
Indices: 9765413--9765488 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
9765403 TCATGTCATA
*
9765413 TATCAAA-CAAAATCCAGGTCAAG
1 TATCAAATCAGAATCCAGGTCAAG
9765436 TATCAAATCAGAATCCAGGTCAAG
1 TATCAAATCAGAATCCAGGTCAAG
* * *
9765460 TATCATATCAGAATCCAAGTCAGG
1 TATCAAATCAGAATCCAGGTCAAG
9765484 TATCA
1 TATCA
9765489 TAACAAAATT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
23 7 0.15
24 41 0.85
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.22
Consensus pattern (24 bp):
TATCAAATCAGAATCCAGGTCAAG
Found at i:9773677 original size:3 final size:3
Alignment explanation
Indices: 9773669--9773716 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
9773659 TTCAGTTTGC
*
9773669 TAT TAT TAT TAT TAT TAT TAT TAT TAT ACAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
9773715 TA
1 TA
9773717 AATAAAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9775249 original size:152 final size:146
Alignment explanation
Indices: 9775057--9775461 Score: 419
Period size: 149 Copynumber: 2.7 Consensus size: 146
9775047 TAAATTAATA
* * ** ** *
9775057 ATATTTATTTTATTTTTAAATATTCAGTTAG-GGCAT-TCTTAAAATAACTAGATGTCATATTT-
1 ATATTTA-TTTATTTTTTAATATTAAGAAAGAGGC-TGTCTTAAAGCAACTAGAAGTCAT-TTTC
* * * *
9775119 TGGTATTTTAAAAATAAACAAATATCTTGTTTATAAATATATATATATATTTGCTTTAATTTTAT
63 TGATATTTT--AAATAAATAAATATCTTATTTATAAATATATATATA-ATTT-ATTT--TTTTA-
* **
9775184 ATAAATTATTT-TAATCATGTTTTTATT
121 ATAAATT-TTTAGAAAAATG-TTTTATT
* *
9775211 -TATTTATTTA-TTTTTAATATTAAGAAAGAGGTTGTCTTAAAGCAACTAGAAGTCCTTTTCTGA
1 ATATTTATTTATTTTTTAATATTAAGAAAGAGGCTGTCTTAAAGCAACTAGAAGTCATTTTCTGA
**
9775274 TATTTTTAAATAAATAAATATCTTACTTTTATAAAT-TATATATAATTTATTTTTTTAATTTATT
66 TA-TTTTAAATAAATAAATATCTTA--TTTATAAATATATATATAATTTATTTTTTTAATAAATT
9775338 TTTAGAAAAATGTTTTATT
128 TTTAGAAAAATGTTTTATT
*
9775357 AATATTTATTTATTTTTTAATATTAAGAAAGGGGCTGTCTTAAAGCAACTAGAAGTCATTTTCTG
1 -ATATTTATTTATTTTTTAATATTAAGAAAGAGGCTGTCTTAAAGCAACTAGAAGTCATTTTCTG
* *
9775422 ATATTTCTAAGTAAATAAATATCTTATTTATAAAAATATA
65 ATATTT-TAAATAAATAAATATCTTATTTATAAATATATA
9775462 AAAAATAAAT
Statistics
Matches: 216, Mismatches: 23, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
146 10 0.05
147 18 0.08
148 22 0.10
149 70 0.32
150 3 0.01
151 38 0.18
152 36 0.17
153 19 0.09
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.48
Consensus pattern (146 bp):
ATATTTATTTATTTTTTAATATTAAGAAAGAGGCTGTCTTAAAGCAACTAGAAGTCATTTTCTGA
TATTTTAAATAAATAAATATCTTATTTATAAATATATATATAATTTATTTTTTTAATAAATTTTT
AGAAAAATGTTTTATT
Found at i:9775334 original size:13 final size:13
Alignment explanation
Indices: 9775316--9775340 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9775306 AAATTATATA
9775316 TAATTTATTTTTT
1 TAATTTATTTTTT
9775329 TAATTTATTTTT
1 TAATTTATTTTT
9775341 AGAAAAATGT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TAATTTATTTTTT
Found at i:9776611 original size:30 final size:30
Alignment explanation
Indices: 9776575--9776636 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
9776565 TATACCATGA
9776575 TAGATAGAATATTTTCTTTCCATTAATTGG
1 TAGATAGAATATTTTCTTTCCATTAATTGG
9776605 TAGATAGAATATTTTCTTTCCATTAATTGG
1 TAGATAGAATATTTTCTTTCCATTAATTGG
9776635 TA
1 TA
9776637 CTAACTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.47
Consensus pattern (30 bp):
TAGATAGAATATTTTCTTTCCATTAATTGG
Found at i:9777711 original size:20 final size:20
Alignment explanation
Indices: 9777682--9777740 Score: 100
Period size: 20 Copynumber: 2.9 Consensus size: 20
9777672 AGATTATTCA
9777682 GGGGATACAGATTCCCCCTAG
1 GGGGA-ACAGATTCCCCCTAG
*
9777703 GGGGAACAGATTCCCCCCAG
1 GGGGAACAGATTCCCCCTAG
9777723 GGGGAACAGATTCCCCCT
1 GGGGAACAGATTCCCCCT
9777741 GTCTAACGGT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 31 0.86
21 5 0.14
ACGTcount: A:0.24, C:0.32, G:0.29, T:0.15
Consensus pattern (20 bp):
GGGGAACAGATTCCCCCTAG
Found at i:9779369 original size:21 final size:21
Alignment explanation
Indices: 9779345--9779389 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9779335 TGCATTCGTA
9779345 TTTTT-TCATTACATTTGCAT
1 TTTTTATCATTACATTTGCAT
** *
9779365 TTTTTATGTTTGCATTTGCAT
1 TTTTTATCATTACATTTGCAT
9779386 TTTT
1 TTTT
9779390 ATATTTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (21 bp):
TTTTTATCATTACATTTGCAT
Found at i:9779388 original size:20 final size:21
Alignment explanation
Indices: 9779356--9779401 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
9779346 TTTTTCATTA
*
9779356 CATTTGCATTTTTTATGTTTG
1 CATTTGCATTTTTTATATTTG
*
9779377 CATTTGCA-TTTTTATATTTT
1 CATTTGCATTTTTTATATTTG
9779397 CATTT
1 CATTT
9779402 TATATTTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.63
Consensus pattern (21 bp):
CATTTGCATTTTTTATATTTG
Found at i:9779400 original size:14 final size:13
Alignment explanation
Indices: 9779378--9779412 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
9779368 TTATGTTTGC
9779378 ATTTGCATTTTTAT
1 ATTTGCA-TTTTAT
*
9779392 ATTTTCATTTTAT
1 ATTTGCATTTTAT
9779405 ATTTGCAT
1 ATTTGCAT
9779413 CTTTGCATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.63
Consensus pattern (13 bp):
ATTTGCATTTTAT
Found at i:9784978 original size:52 final size:53
Alignment explanation
Indices: 9784899--9785050 Score: 191
Period size: 52 Copynumber: 2.8 Consensus size: 53
9784889 AAACCTGGGA
* * * **
9784899 AGAAACCACAGGAAAGAATGAATGTGTTGTCAAATATTTTACGAACATCTGGGC
1 AGAAACCACATGAGAG-ATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGC
* * *
9784953 AGAAGCCACA-GCTG-GATGAATGTGTTGTCAAATGTTTTACGAGCATCTAAGC
1 AGAAACCACATG-AGAGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGC
9785005 AGAAACCACATGAGATGATGAATGTGTTGTCAAATGTTTTACGAAC
1 AGAAACCACATGAGA-GATGAATGTGTTGTCAAATGTTTTACGAAC
9785051 CAGTGATTAT
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
52 43 0.51
53 3 0.04
54 38 0.45
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (53 bp):
AGAAACCACATGAGAGATGAATGTGTTGTCAAATGTTTTACGAACATCTAAGC
Found at i:9785436 original size:22 final size:22
Alignment explanation
Indices: 9785411--9785468 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
9785401 TACATCTACA
9785411 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
9785433 CTCTTCAAAAATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
9785455 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
9785469 AAGCTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:9786241 original size:45 final size:45
Alignment explanation
Indices: 9786190--9786299 Score: 141
Period size: 45 Copynumber: 2.4 Consensus size: 45
9786180 GCTTTTTGAA
* * *
9786190 GTTTTCAAAACCTTCGGGTCATCTGTAAGCTCTTCAATGCATG-AT
1 GTTTTCAAAACCTTCGGGTCATCTGCAAGCCCTACAATGCA-GAAT
* *
9786235 GTTTTCAAAACCTTCGGATCATCTGCAAGCCCTACAGTGCAGAAT
1 GTTTTCAAAACCTTCGGGTCATCTGCAAGCCCTACAATGCAGAAT
9786280 GTTTTCAAAAAGCCTTCGGG
1 GTTTTC-AAAA-CCTTCGGG
9786300 AGCTTTTTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 1 0.02
45 44 0.79
46 4 0.07
47 7 0.12
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (45 bp):
GTTTTCAAAACCTTCGGGTCATCTGCAAGCCCTACAATGCAGAAT
Found at i:9786311 original size:76 final size:74
Alignment explanation
Indices: 9786231--9786373 Score: 198
Period size: 76 Copynumber: 1.9 Consensus size: 74
9786221 CTTCAATGCA
*
9786231 TGATGTTTTCAAAACCTTCGGATCATCTGCAAGCCCTACAGTGCA-GAATGTTTTCAAAAAGCCT
1 TGATGTTTTCAAAACCTTCGGATCATCTACAAGCCCTACAGTGCATG-ATGTTTTC-AAAA-CCT
9786295 TCGGGAGCTTTT
63 TCGGGAGCTTTT
* * * * *
9786307 TGATGTTTTTAAAACCTTTGGGTCATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCGGATCATCTACAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
9786372 GG
66 GG
9786374 TCATCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
74 8 0.13
75 4 0.07
76 47 0.78
77 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (74 bp):
TGATGTTTTCAAAACCTTCGGATCATCTACAAGCCCTACAGTGCATGATGTTTTCAAAACCTTCG
GGAGCTTTT
Found at i:9786356 original size:45 final size:45
Alignment explanation
Indices: 9786307--9786420 Score: 147
Period size: 45 Copynumber: 2.5 Consensus size: 45
9786297 GGGAGCTTTT
* *
9786307 TGATGTTTTTAAAACCTTTGGGTCATCTATAAGCCCTTCAGTGCA
1 TGATGTTTTTAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCA
* * * *
9786352 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCTCTAGAGTGCA
1 TGATGTTTTTAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCA
*
9786397 GGATGTTTTTAAAAAGCCTTCGGG
1 TGATGTTTTT-AAAA-CCTTCGGG
9786421 AGCTTTTTGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
45 47 0.80
46 4 0.07
47 8 0.14
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (45 bp):
TGATGTTTTTAAAACCTTCGGGTCATCTATAAGCCCTACAGTGCA
Found at i:9786358 original size:121 final size:120
Alignment explanation
Indices: 9786144--9786593 Score: 491
Period size: 121 Copynumber: 3.8 Consensus size: 120
9786134 ATGTGTAAGA
* *
9786144 CCTACAGTGCATGATGTTTTCAAAAAGCTTTCGGGAGCTTTTTGAAGTTTTCAAAACCTTCGGGT
1 CCTACAGTGCA-GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
* *
9786209 CATCTGTAAGCTCTTCAATGCATGATGTTTTCAAAACCTTCGGATCATCTGCAAGC
65 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGATCATCTGCAAGC
* *
9786265 CCTACAGTGCAGAATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAAAACCTTTGGGT
1 CCTACAGTGCAG-ATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
* * *
9786330 CATCTATAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGC
65 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGATCATCTGCAAGC
* * * * *
9786386 TCTAGAGTGCAGGATGTTTTTAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
1 CCTACAGTGCA-GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
* * * * ** *** *
9786451 CATCTGTAAGACCTACAGTGCA--A-GTTGAT-AAGACC-TCAGGGCCATCCATAAGA
65 CATCTGTAAGCCCTTCAGTGCATGATGTT-TTCAAAACCTTC-GGATCATCTGCAAGC
* * * * * * *
9786504 CCTACAGTGCAGGATGTTTTTAAAATGCCTTCGGGAACGTTTTGAT-ATTT-AAAGCCTCCGGGT
1 CCTACAGTGCA-GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
* * *
9786567 CATCTGTAAGACCTACAGTGCAAGATG
65 CATCTGTAAGCCCTTCAGTGCATGATG
9786594 ATAAGACCTC
Statistics
Matches: 290, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
116 34 0.12
117 5 0.02
118 61 0.21
119 3 0.01
120 1 0.00
121 185 0.64
122 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (120 bp):
CCTACAGTGCAGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGTC
ATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGATCATCTGCAAGC
Found at i:9786485 original size:22 final size:21
Alignment explanation
Indices: 9786457--9786514 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9786447 GGGTCATCTG
**
9786457 TAAGACCTACAGTGCAAGTTGA
1 TAAGACCTACAGTGCAA-TCCA
* *
9786479 TAAGACCT-CAGGGCCATCCA
1 TAAGACCTACAGTGCAATCCA
9786499 TAAGACCTACAGTGCA
1 TAAGACCTACAGTGCA
9786515 GGATGTTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 10 0.34
21 11 0.38
22 8 0.28
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (21 bp):
TAAGACCTACAGTGCAATCCA
Found at i:9786776 original size:3 final size:3
Alignment explanation
Indices: 9786768--9786810 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
9786758 CAGTTTGCTT
*
9786768 TTA TTA TTA TTA TTA TACA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
9786811 AATAAAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 35 0.95
4 2 0.05
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:9788364 original size:147 final size:139
Alignment explanation
Indices: 9788149--9788549 Score: 369
Period size: 149 Copynumber: 2.7 Consensus size: 139
9788139 TAAAATAATA
* * * ** * *
9788149 ATATTTATTTATTTTTAAATATTTAGTAAGGGCA-GTCTTAAAATAACTAGATGTCTTATTCTGG
1 ATATTTATTTATTTTT-AATATTAAGGAAGGGGATGTCTTAAAGCAACTAGAAGTCTT-TTCTGA
* * *
9788213 TATTTTAAAAATAAACAAATATCTTTTTTATAAAATTATATATTTTCTTTAATTTTATATAAATT
64 TATTTT--AAATAAATAAATATCTTTTTTATAAAATTATAAATTAT-TTT--TTTTA-AT-AATT
**
9788278 ATTT-AATCATGTTTTTATT
122 -TTTAAAAAATG-TTTTATT
*
9788297 -TATTTATTTATTTTTAATAATAAGGAAGGGGATGTCTTAAAGCAACTAGAAGTCATTTTCTGAT
1 ATATTTATTTATTTTTAATATTAAGGAAGGGGATGTCTTAAAGCAACTAGAAGTC-TTTTCTGAT
* *
9788361 ATTTTTAAATAAATAAATATCCTACTTTTATAAATTATTTATAAATTATTTTTTTTAATTATTTT
65 A-TTTTAAATAAATAAATAT-CT-TTTTTATAAA--A-TTATAAATTATTTTTTTTAATAATTTT
9788426 TAGAAAAATGTTTTATT
124 TA-AAAAATGTTTTATT
* * *
9788443 AATATTTATTTATTTTTTAATATTAA-GAATAGGGCTATCTTAAAGCAACTAGAAGTCTTTTTCT
1 -ATATTTATTTA-TTTTTAATATTAAGGAA-GGGGATGTCTTAAAGCAACTAGAAGTC-TTTTCT
* * *
9788507 GATATTTCTAAGTAAATAAATATCTTATTTATAAAAATATAAA
62 GATATTT-TAAATAAATAAATATCTTTTTTATAAAATTATAAA
9788550 AAATATATAT
Statistics
Matches: 214, Mismatches: 24, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
144 6 0.03
145 4 0.02
146 36 0.17
147 57 0.27
148 38 0.18
149 60 0.28
150 4 0.02
151 9 0.04
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (139 bp):
ATATTTATTTATTTTTAATATTAAGGAAGGGGATGTCTTAAAGCAACTAGAAGTCTTTTCTGATA
TTTTAAATAAATAAATATCTTTTTTATAAAATTATAAATTATTTTTTTTAATAATTTTTAAAAAA
TGTTTTATT
Found at i:9788403 original size:11 final size:11
Alignment explanation
Indices: 9788387--9788411 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9788377 ATATCCTACT
9788387 TTTATAAATTA
1 TTTATAAATTA
9788398 TTTATAAATTA
1 TTTATAAATTA
9788409 TTT
1 TTT
9788412 TTTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATAAATTA
Found at i:9788562 original size:27 final size:27
Alignment explanation
Indices: 9788519--9788571 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
9788509 TATTTCTAAG
*
9788519 TAAATAAATATCTTATTTATAAAAATA
1 TAAATAAATATATTATTTATAAAAATA
9788546 TAAA-AAATATATATATTTATAAAAAT
1 TAAATAAATATAT-TATTTATAAAAAT
9788572 TAATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAATAAATATATTATTTATAAAAATA
Found at i:9788566 original size:19 final size:18
Alignment explanation
Indices: 9788544--9788581 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9788534 TTTATAAAAA
9788544 TATAAAAAATATATATATT
1 TATAAAAAATA-ATATATT
*
9788563 TATAAAAATTAATATATT
1 TATAAAAAATAATATATT
9788581 T
1 T
9788582 TCTTGGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATAAAAAATAATATATT
Found at i:9791252 original size:19 final size:18
Alignment explanation
Indices: 9791223--9791272 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
9791213 TTAAACTATA
*
9791223 ATAAAAAAATATAAAATT
1 ATAATAAAATATAAAATT
*
9791241 -TCAAATAAAATATATAATT
1 AT--AATAAAATATAAAATT
9791260 ATAATAAAATATA
1 ATAATAAAATATA
9791273 TTTTATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 14 0.52
20 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAATAAAATATAAAATT
Found at i:9794128 original size:23 final size:22
Alignment explanation
Indices: 9794073--9794124 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
9794063 AAGTCTCTAG
9794073 GCATCACCTTGCTCTCCCCCAA
1 GCATCACCTTGCTCTCCCCCAA
*
9794095 GCATTACCTTGCTCTCCCCCAA
1 GCATCACCTTGCTCTCCCCCAA
9794117 GCATCACC
1 GCATCACC
9794125 CTTGGTCTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.48, G:0.10, T:0.23
Consensus pattern (22 bp):
GCATCACCTTGCTCTCCCCCAA
Found at i:9797473 original size:24 final size:25
Alignment explanation
Indices: 9797437--9797497 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
9797427 ATTTTTACGG
* *
9797437 ATATTTTCAAATTT-TTA-TTTATA
1 ATATTTTTAAATTTATGATTTTATA
*
9797460 TATATTTTTTAATTTATGATTTTATA
1 -ATATTTTTAAATTTATGATTTTATA
9797486 ATATTTTTAAAT
1 ATATTTTTAAAT
9797498 AAGGGGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 12 0.39
25 13 0.42
26 6 0.19
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
ATATTTTTAAATTTATGATTTTATA
Found at i:9801765 original size:18 final size:18
Alignment explanation
Indices: 9801742--9801781 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
9801732 TTTAGGCCTG
9801742 GCCTGGGCCTGTTTAAAA
1 GCCTGGGCCTGTTTAAAA
9801760 GCCT-GGCCTGTTTAAAA
1 GCCTGGGCCTGTTTAAAA
9801777 GCCTG
1 GCCTG
9801782 TTTAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (18 bp):
GCCTGGGCCTGTTTAAAA
Found at i:9807738 original size:81 final size:83
Alignment explanation
Indices: 9807578--9807784 Score: 289
Period size: 81 Copynumber: 2.5 Consensus size: 83
9807568 AAATGTTAAG
* * * *
9807578 TGCTATCTAAAACATTATTTTTTTT-TACTGGAAATGTTAATATTGGGCGCTACCTAAATTAATG
1 TGCTATCTAAAATATTATTTTTTTTCTACCGGAAATGTTAATATTAGGCACTACCTAAA-TAATG
9807642 TTTAACATTTCCGGTAAAA
65 TTTAACATTTCCGGTAAAA
* *
9807661 TGCTACCTAAAATATTATTTTTTTTCTACCGGAAATGTTAATATTAGGCACTATCT-AA-AATGT
1 TGCTATCTAAAATATTATTTTTTTTCTACCGGAAATGTTAATATTAGGCACTACCTAAATAATGT
*
9807724 TTAACATTTCCGGTAAAG
66 TTAACATTTCCGGTAAAA
* *
9807742 CGCTATCTAAAATA-T-TTTTTATTCTACCGGAAATGTTAATATT
1 TGCTATCTAAAATATTATTTTTTTTCTACCGGAAATGTTAATATT
9807785 GAGCTGTTGA
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
79 27 0.24
80 1 0.01
81 34 0.30
83 25 0.22
84 26 0.23
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (83 bp):
TGCTATCTAAAATATTATTTTTTTTCTACCGGAAATGTTAATATTAGGCACTACCTAAATAATGT
TTAACATTTCCGGTAAAA
Found at i:9813307 original size:16 final size:18
Alignment explanation
Indices: 9813276--9813310 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
9813266 ATATCAAAAA
9813276 CAAATTATATAACTCTGT
1 CAAATTATATAACTCTGT
9813294 CAAA-TATA-AACTCTGT
1 CAAATTATATAACTCTGT
9813310 C
1 C
9813311 TCTCTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 4 0.24
18 4 0.24
ACGTcount: A:0.40, C:0.20, G:0.06, T:0.34
Consensus pattern (18 bp):
CAAATTATATAACTCTGT
Found at i:9813460 original size:19 final size:18
Alignment explanation
Indices: 9813428--9813467 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
9813418 TTTTTGCTCG
*
9813428 AATTTATTTTATTTTTAA
1 AATTTATTTGATTTTTAA
*
9813446 AATTTCATTTGATTTTTTA
1 AATTT-ATTTGATTTTTAA
9813465 AAT
1 AAT
9813468 CAAGTTTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
AATTTATTTGATTTTTAA
Found at i:9813764 original size:12 final size:14
Alignment explanation
Indices: 9813747--9813778 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
9813737 TATTTGAAAA
9813747 TTTTGAAT-TTT-G
1 TTTTGAATATTTGG
9813759 TTTTGAATATTTGG
1 TTTTGAATATTTGG
9813773 TTTTGA
1 TTTTGA
9813779 GGATCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
13 3 0.17
14 7 0.39
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (14 bp):
TTTTGAATATTTGG
Found at i:9814643 original size:21 final size:21
Alignment explanation
Indices: 9814605--9814644 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9814595 ATTAAAAGTT
*
9814605 AAAAATAAAAATATTTTATAG
1 AAAAATAAAAATACTTTATAG
9814626 AAAAATAAATAAT-CTTTAT
1 AAAAATAAA-AATACTTTAT
9814645 TATCAATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
AAAAATAAAAATACTTTATAG
Found at i:9816704 original size:2 final size:2
Alignment explanation
Indices: 9816697--9816742 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
9816687 GCATTTCATA
9816697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9816739 AT AT
1 AT AT
9816743 TCTTAATTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9821648 original size:43 final size:43
Alignment explanation
Indices: 9821587--9821707 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
9821577 CGAAGGGGCC
* *
9821587 ATCCACGATTTTAACTCCACGACGGAGGATATCGTACCCACAG
1 ATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACAG
* * **
9821630 ATCCACGATTTCAACTCCACAATGGAGGATATCGTGCCCACTT
1 ATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACAG
* ** * * *
9821673 AACCATAATTTCAACTTCACAATGAAGGATATCGT
1 ATCCACGATTTCAACTCCACAACGGAGGATATCGT
9821708 GCCAACTCTA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 67 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
ATCCACGATTTCAACTCCACAACGGAGGATATCGTACCCACAG
Found at i:9822002 original size:124 final size:123
Alignment explanation
Indices: 9821850--9822093 Score: 330
Period size: 124 Copynumber: 2.0 Consensus size: 123
9821840 CAGTACAAGC
* * *
9821850 TTGGATTTCAACTTCACGACGAAGGATATTAAAGTCAAGGCTCAACTTCACGACGAAT-GTGCCA
1 TTGGATTTCAACTTCACGACGAAGGATATCAAAGTCAAGGCTAAACTTCACAACGAATGGT-CCA
* **
9821914 TCCATGGTTTCAACTTCACGACGAAGGGAATCGTGTACACA-AACAACATTCATCTTTAGA
65 TCCACGGTTTCAACTTCACGACGAACAGAATC--GTACACACAACAACATTCATCTTTAGA
* * * *
9821974 TTGGATTTCAACTTCACGACTAAGGATATCCAATTCAAGGCTAAACTTTACAACGAATGGTCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCAAAGTCAAGGCTAAACTTCACAACGAATGGTCCAT
* *
9822039 CTACGGTTTCAACTTCACGACGAACAGAATCGTACCCATCAACAACATTCATCTT
66 CCACGGTTTCAACTTCACGACGAACAGAATCGTACACA-CAACAACATTCATCTT
9822094 CAAGAACAAG
Statistics
Matches: 105, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
122 6 0.06
124 97 0.92
125 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (123 bp):
TTGGATTTCAACTTCACGACGAAGGATATCAAAGTCAAGGCTAAACTTCACAACGAATGGTCCAT
CCACGGTTTCAACTTCACGACGAACAGAATCGTACACACAACAACATTCATCTTTAGA
Found at i:9822233 original size:36 final size:36
Alignment explanation
Indices: 9822186--9822286 Score: 159
Period size: 36 Copynumber: 2.8 Consensus size: 36
9822176 AAGTTCTGTA
*
9822186 TCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATC
1 TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATC
* *
9822222 TCTCTTGAGACAGTTTCCCTTGAAGCAAATTTTGTC
1 TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATC
9822258 TCTC-TGAAGACAGTTTCCCTTGAAACAAA
1 TCTCTTG-AGACAGTTTCCCTTGAAACAAA
9822287 ATCTTTGAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
35 2 0.03
36 58 0.97
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (36 bp):
TCTCTTGAGACAGTTTCCCTTGAAACAAATTTTATC
Found at i:9822387 original size:102 final size:100
Alignment explanation
Indices: 9822199--9822548 Score: 437
Period size: 102 Copynumber: 3.5 Consensus size: 100
9822189 CTTGAGACAG
** * **
9822199 TTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCCCTT-GAAGCAAATTTTGTCTCTC-
1 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAA-C-AATTTTGTCTCTCT
9822262 TGAAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
63 TG-AGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
*
9822301 TTTCCTTGAAACAAATTCCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTT
1 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAAC-AA-TTTTGTCTCTCTT
* * *
9822366 GGGACATTTTCCCTTGAAACAAAATCTTTGAAGCTGT
64 GAGACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
*
9822403 TTTCCTTGAAACAAATTTCGCCTCCCTTGAGACAGTTTCTTTTGG---AA--TTGTCTCTCTTGA
1 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACAATTTTGTCTCTCTTGA
* * *
9822463 GACAGTTTCCTTTAAAACAAAATCTTTGAAGT-TAT
66 GACAGTTTCCCTTGAAACAAAATCTTTGAA-TCTGT
* *
9822498 TTTCCTTAAAACAAATTTCGTTTCCCTTGAGACAGTTTTCTTTTGGAACAA
1 TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAG-TTTCTTTTGGAACAA
9822549 AAATCTTTGA
Statistics
Matches: 219, Mismatches: 21, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
95 73 0.33
96 10 0.05
98 2 0.01
99 2 0.01
101 36 0.16
102 94 0.43
103 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (100 bp):
TTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACAATTTTGTCTCTCTTGA
GACAGTTTCCCTTGAAACAAAATCTTTGAATCTGT
Found at i:9822566 original size:67 final size:63
Alignment explanation
Indices: 9822452--9822651 Score: 238
Period size: 65 Copynumber: 3.0 Consensus size: 63
9822442 TTTTGGAATT
* * *
9822452 GTCTCTCTTGAGACAGTTTCCTTTAAAACAAAATCTTTGAAGTTATTTTCCTTAAAACAAATTTC
1 GTCTCCCTTGAGACAGTTTCTTTTGAAACAAAATCTTTGAA-TTATTTTCCTT-AAACAAATTTC
* * *
9822517 GTTTCCCTTGAGACAGTTTTCTTTTGGAACAAAAATCTTTGAATCTATTTCCCTTGAAACAAATT
1 GTCTCCCTTGAGACAG-TTTCTTTTGAAAC-AAAATCTTTGAAT-TATTTTCCTT-AAACAAATT
*
9822582 TT
62 TC
* * *
9822584 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTTGAATATATTTTCCATTAAACAAATTCC
1 GTCTCCCTTGAGACAGTTTCTTTTGAAACAAAATCTTTGAAT-TATTTTCC-TTAAACAAATTTC
9822649 GTC
1 GTC
9822652 CCACTCAAGA
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
65 46 0.40
66 24 0.21
67 45 0.39
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.40
Consensus pattern (63 bp):
GTCTCCCTTGAGACAGTTTCTTTTGAAACAAAATCTTTGAATTATTTTCCTTAAACAAATTTC
Found at i:9824480 original size:2 final size:2
Alignment explanation
Indices: 9824473--9824522 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
9824463 GCATTTCATA
9824473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9824515 AT AT AT AT
1 AT AT AT AT
9824523 TACTTCATGC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.