Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 8 of 332
Found at i:2227344 original size:13 final size:13
Alignment explanation
Indices: 2227326--2227350 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2227316 ATGCTTTATG
2227326 TATTTTTTATTTT
1 TATTTTTTATTTT
2227339 TATTTTTTATTT
1 TATTTTTTATTT
2227351 ATTTTACAAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:2227420 original size:17 final size:17
Alignment explanation
Indices: 2227398--2227433 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
2227388 CTGTTTATGT
2227398 ATATATATTTATATATA
1 ATATATATTTATATATA
2227415 ATATATATTTATATATA
1 ATATATATTTATATATA
2227432 AT
1 AT
2227434 TTACCTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATATATTTATATATA
Found at i:2227676 original size:21 final size:21
Alignment explanation
Indices: 2227647--2227689 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2227637 ATATGTTTTC
* *
2227647 TCATATTTTCGTAGACCAAAA
1 TCATATTTTAGTAAACCAAAA
*
2227668 TCATGTTTTAGTAAACCAAAA
1 TCATATTTTAGTAAACCAAAA
2227689 T
1 T
2227690 GTTTTATTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (21 bp):
TCATATTTTAGTAAACCAAAA
Found at i:2229928 original size:16 final size:17
Alignment explanation
Indices: 2229907--2229946 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2229897 ATACATTCTC
2229907 AAATTACAAAAAA-ATT
1 AAATTACAAAAAACATT
*
2229923 AAATTATAAAAAATCATT
1 AAATTACAAAAAA-CATT
2229941 AAATTA
1 AAATTA
2229947 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
18 9 0.43
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATTACAAAAAACATT
Found at i:2229935 original size:15 final size:17
Alignment explanation
Indices: 2229907--2229950 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
2229897 ATACATTCTC
*
2229907 AAATTACAAAAAA-ATT
1 AAATTATAAAAAACATT
2229923 AAATTATAAAAAATCATT
1 AAATTATAAAAAA-CATT
2229941 AAATTATAAA
1 AAATTATAAA
2229951 TTTAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 12 0.48
18 13 0.52
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATTATAAAAAACATT
Found at i:2230181 original size:11 final size:11
Alignment explanation
Indices: 2230167--2230215 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
2230157 ATTAATTTCT
2230167 AATTTTTTATA
1 AATTTTTTATA
2230178 AATTTTTTAT-
1 AATTTTTTATA
** *
2230188 GGTTTTTAATA
1 AATTTTTTATA
2230199 AATTTTTTTATA
1 AA-TTTTTTATA
2230211 AATTT
1 AATTT
2230216 CATAAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
10 7 0.23
11 13 0.43
12 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (11 bp):
AATTTTTTATA
Found at i:2233029 original size:43 final size:43
Alignment explanation
Indices: 2232981--2233110 Score: 251
Period size: 43 Copynumber: 3.0 Consensus size: 43
2232971 AAGAGTGTGT
2232981 ATGATATGGTATGTATAGACCCTTGATAAGAAATCGAAAAAGA
1 ATGATATGGTATGTATAGACCCTTGATAAGAAATCGAAAAAGA
2233024 ATGATATGGTATGTATAGACCCTTGATAAGAAATCGAAAAAGA
1 ATGATATGGTATGTATAGACCCTTGATAAGAAATCGAAAAAGA
*
2233067 ATGATATGGTATGTATAGACCCTTGCTAAGAAATCGAAAAAGA
1 ATGATATGGTATGTATAGACCCTTGATAAGAAATCGAAAAAGA
2233110 A
1 A
2233111 AATTGTGTGA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 86 1.00
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.25
Consensus pattern (43 bp):
ATGATATGGTATGTATAGACCCTTGATAAGAAATCGAAAAAGA
Found at i:2235162 original size:31 final size:30
Alignment explanation
Indices: 2235112--2235170 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
2235102 TATTGATATA
** *
2235112 TTTGAGTTTAATTTTGATTTGAAATTCAAAG
1 TTTGAGTTTAATTCAGATTT-AAACTCAAAG
*
2235143 TTTGATTTTAATTCAGATTTAAACTCAA
1 TTTGAGTTTAATTCAGATTTAAACTCAA
2235171 TCTAATATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (30 bp):
TTTGAGTTTAATTCAGATTTAAACTCAAAG
Found at i:2237379 original size:21 final size:21
Alignment explanation
Indices: 2237340--2237379 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2237330 ATATTTTTTG
** *
2237340 AATAATTTTTATTTTTTTTAA
1 AATAATTTTTACATATTTTAA
2237361 AATAATTTTTACATATTTT
1 AATAATTTTTACATATTTT
2237380 TTAATTTGTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
AATAATTTTTACATATTTTAA
Found at i:2238403 original size:22 final size:21
Alignment explanation
Indices: 2238378--2238427 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
2238368 AAATTTAATC
2238378 TTATATTTT-TATTTTCAAGAAT
1 TTATATTTTATATTTT-AA-AAT
2238400 TTAT-TTTTATATTTTAAAAT
1 TTATATTTTATATTTTAAAAT
*
2238420 TTAAATTT
1 TTATATTT
2238428 AACTGATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.24
21 9 0.36
22 10 0.40
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTATATTTTATATTTTAAAAT
Found at i:2238406 original size:20 final size:20
Alignment explanation
Indices: 2238381--2238422 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
2238371 TTTAATCTTA
2238381 TATTTTTAT-TTTCAAGAATT
1 TATTTTTATATTTCAA-AATT
*
2238401 TATTTTTATATTTTAAAATT
1 TATTTTTATATTTCAAAATT
2238421 TA
1 TA
2238423 AATTTAACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (20 bp):
TATTTTTATATTTCAAAATT
Found at i:2238428 original size:20 final size:22
Alignment explanation
Indices: 2238382--2238428 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 22
2238372 TTAATCTTAT
* *
2238382 ATTTTTATTTTCAAGAATTTAT
1 ATTTATATTTTCAAGAATTTAA
*
2238404 TTTTATATTTT-AA-AATTTAA
1 ATTTATATTTTCAAGAATTTAA
2238424 ATTTA
1 ATTTA
2238429 ACTGATAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 10 0.48
21 2 0.10
22 9 0.43
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
ATTTATATTTTCAAGAATTTAA
Found at i:2239661 original size:23 final size:23
Alignment explanation
Indices: 2239617--2239666 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
2239607 ATCAAATTAA
2239617 AAAAAATAATTAAATCAAACCCT
1 AAAAAATAATTAAATCAAACCCT
2239640 AAAAAATAATTAAATCAAACCCT
1 AAAAAATAATTAAATCAAACCCT
2239663 AAAA
1 AAAA
2239667 GTTTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.64, C:0.16, G:0.00, T:0.20
Consensus pattern (23 bp):
AAAAAATAATTAAATCAAACCCT
Found at i:2242461 original size:28 final size:28
Alignment explanation
Indices: 2242399--2242462 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
2242389 GTAAACATTA
2242399 AAATT-ATCTAAATTCGAACATAAACCT
1 AAATTAATCTAAATTCGAACATAAACCT
* * * *
2242426 AAAATAATTTAAATTCGAA-ATAATCTT
1 AAATTAATCTAAATTCGAACATAAACCT
2242453 GAAATTAATC
1 -AAATTAATC
2242463 CAATAGGAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
27 10 0.34
28 19 0.66
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (28 bp):
AAATTAATCTAAATTCGAACATAAACCT
Found at i:2246977 original size:25 final size:26
Alignment explanation
Indices: 2246937--2246985 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
2246927 AACTAACATA
*
2246937 ATACTACAATATTGTTCATACCAATG
1 ATACTACAATATTGTTCAAACCAATG
2246963 ATACTAC-ATATTGTTCAAACCAA
1 ATACTACAATATTGTTCAAACCAA
2246986 ATAATCATAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.33
Consensus pattern (26 bp):
ATACTACAATATTGTTCAAACCAATG
Found at i:2258355 original size:152 final size:153
Alignment explanation
Indices: 2257698--2258381 Score: 1026
Period size: 153 Copynumber: 4.5 Consensus size: 153
2257688 AAATTCATCA
*
2257698 GGGTCTATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
1 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
* * ** *
2257763 GGGCCCTGCTTTT--A-CAT-AT-TTTTGCCAAGTCCGTCCAGAACTTTCATAG-TTTATACATG
66 GGGCCCT-TTTTTAAATTATAATGTTTTGCCAAGTCCGT-C----CTCCCAT-GCTTCATACATG
** *
2257822 TAGTA-ACCAAAGTAAAATTGCATCCCAAAG
124 TAG-AGACCAAAGTAAAATCACATCTCAAAG
2257852 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
1 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
* * * * *
2257917 GGGCCCTTTTTAAAATTTTAAAGTTTTGCCAAGTCCGTCCTCTCATGCTTCATACATGTAGAAAC
66 GGGCCCTTTTTTAAATTATAATGTTTTGCCAAGTCCGTCCTCCCATGCTTCATACATGTAGAGAC
2257982 CAAAGTAAAATCACATCTCAAAG
131 CAAAGTAAAATCACATCTCAAAG
2258005 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
1 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
* * * *
2258070 GGGCCCTTTTTTAAATTATAATGTTTTGCCAAGTCCGTCCTTCTATGCTTCATACATGAAGCGAC
66 GGGCCCTTTTTTAAATTATAATGTTTTGCCAAGTCCGTCCTCCCATGCTTCATACATGTAGAGAC
*
2258135 CAAAGTAAAATCACACCTCAAAG
131 CAAAGTAAAATCACATCTCAAAG
2258158 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
1 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
*
2258223 GGGCCCTTTTTTAAATTATAATGTTTTGCCAAGTCCGTCCTCCCATGCTTTATACATGTAGAGA-
66 GGGCCCTTTTTTAAATTATAATGTTTTGCCAAGTCCGTCCTCCCATGCTTCATACATGTAGAGAC
* *
2258287 CGAA-TATAAATCACATCTCAAAA
131 CAAAGTA-AAATCACATCTCAAAG
2258310 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
1 GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
2258375 GGGCCCT
66 GGGCCCT
2258382 GATTCTAATT
Statistics
Matches: 493, Mismatches: 29, Indels: 18
0.91 0.05 0.03
Matches are distributed among these distances:
151 2 0.00
152 91 0.18
153 310 0.63
154 71 0.14
155 1 0.00
156 1 0.00
157 2 0.00
158 15 0.03
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (153 bp):
GGGTCCATAGCTCAGTGGTAGAGCATTTGACTGCAGATCAAGAGGTCACCGGTTCGAACCCGGTT
GGGCCCTTTTTTAAATTATAATGTTTTGCCAAGTCCGTCCTCCCATGCTTCATACATGTAGAGAC
CAAAGTAAAATCACATCTCAAAG
Found at i:2263971 original size:21 final size:21
Alignment explanation
Indices: 2263925--2263971 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
2263915 CAATTTGGTA
* *
2263925 CTTTCCTTTTTCTCTTTTTTT
1 CTTTCCTTATTCTCTTTTTTG
*
2263946 TTTTCCTTATTCT-TTTTCTTG
1 CTTTCCTTATTCTCTTTT-TTG
2263967 CTTTC
1 CTTTC
2263972 ACGTTTTTCC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.72
Consensus pattern (21 bp):
CTTTCCTTATTCTCTTTTTTG
Found at i:2267331 original size:33 final size:34
Alignment explanation
Indices: 2267286--2267351 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
2267276 AAAGTTTTAA
* *
2267286 AAATTTTAATTAAA-CCCTCAAATTTTTTAAAAC
1 AAATTTTAATTAAATCCCTAAAATTTTTGAAAAC
* *
2267319 AAATTTTTATTAAATTCCTAAAATTTTTGAAAA
1 AAATTTTAATTAAATCCCTAAAATTTTTGAAAA
2267352 TTTTACTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (34 bp):
AAATTTTAATTAAATCCCTAAAATTTTTGAAAAC
Found at i:2270893 original size:16 final size:15
Alignment explanation
Indices: 2270872--2270919 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
2270862 GATGTGAATA
2270872 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
2270888 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
2270903 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
2270919 A
1 A
2270920 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:2270902 original size:8 final size:8
Alignment explanation
Indices: 2270868--2270919 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
2270858 CAATGATGTG
*
2270868 AATAATAA
1 AATATTAA
2270876 AATATATAA
1 AATAT-TAA
2270885 AATA-TAA
1 AATATTAA
2270892 AATATTAA
1 AATATTAA
*
2270900 AATATCAA
1 AATATTAA
*
2270908 AATATTAG
1 AATATTAA
2270916 AATA
1 AATA
2270920 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:2270919 original size:24 final size:24
Alignment explanation
Indices: 2270867--2270923 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
2270857 ACAATGATGT
*
2270867 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
2270891 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
2270915 GAATAATAA
1 GAATAATAA
2270924 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:2271098 original size:25 final size:25
Alignment explanation
Indices: 2271070--2271134 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
2271060 CGTGATAATA
*
2271070 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAGTG
2271095 TTAAAAATATATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
2271118 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
2271135 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 21 0.55
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:2271185 original size:25 final size:25
Alignment explanation
Indices: 2271157--2271290 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
2271147 AAAAATATAT
2271157 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
2271182 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
2271207 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
2271233 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
2271255 -TATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
2271278 AAATAT-AATAATA
1 ATATATAAATAATA
2271291 ACAAAAAGGA
Statistics
Matches: 82, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
21 4 0.05
22 11 0.13
23 17 0.21
24 5 0.06
25 33 0.40
26 2 0.02
27 10 0.12
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:2271202 original size:14 final size:13
Alignment explanation
Indices: 2271148--2271204 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 13
2271138 AACATGTAGA
*
2271148 AAAATATATATAT
1 AAAATATATAAAT
2271161 ATAAATAATATAATATT
1 A-AAAT-ATATAA-A-T
2271178 AAAGATATATAAAT
1 AAA-ATATATAAAT
2271192 AAAATAGTATAAA
1 AAAATA-TATAAA
2271205 ATATATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
13 4 0.11
14 14 0.38
15 6 0.16
16 9 0.24
17 4 0.11
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:2271867 original size:60 final size:60
Alignment explanation
Indices: 2271774--2271886 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 60
2271764 TAGGTACAAG
* *
2271774 TGGTGGTGGAGAAGGTGTGGCTAATGGAGTTGGTAGTGGAAAAAGAGTGGCTAATGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAATAGAGTTGGTAGTGGAAAAAGAGTGGCTAATGGAGT
* * *
2271834 TGGTGGTGGAAAAGGTGTGGCTAGTAGAGTTGGTGGTGGAAAAGGAGTGGCTA
1 TGGTGGTGGAAAAGGTGTGGCTAATAGAGTTGGTAGTGGAAAAAGAGTGGCTA
2271887 GTTGAGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.26, C:0.04, G:0.46, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAATAGAGTTGGTAGTGGAAAAAGAGTGGCTAATGGAGT
Found at i:2271888 original size:30 final size:30
Alignment explanation
Indices: 2271774--2271886 Score: 163
Period size: 30 Copynumber: 3.8 Consensus size: 30
2271764 TAGGTACAAG
* *
2271774 TGGTGGTGGAGAAGGTGTGGCTAATGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAATGGAGT
* *
2271804 TGGTAGTGGAAAAAGAGTGGCTAATGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAATGGAGT
* * *
2271834 TGGTGGTGGAAAAGGTGTGGCTAGTAGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAATGGAGT
2271864 TGGTGGTGGAAAAGGAGTGGCTA
1 TGGTGGTGGAAAAGGAGTGGCTA
2271887 GTTGAGAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 73 1.00
ACGTcount: A:0.26, C:0.04, G:0.46, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAATGGAGT
Found at i:2272759 original size:77 final size:77
Alignment explanation
Indices: 2272600--2272848 Score: 369
Period size: 77 Copynumber: 3.3 Consensus size: 77
2272590 ATGTAAACCC
* *
2272600 AAGGCTCAACTCACATCTCGCAATATGAGTTGA--TTTTTGAAAAGCAGAAATTGAAAA-CGCCT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATAG-CT
** * *
2272662 CAGCGTGTGACCC
65 CAGCACGTGAGCA
* *
2272675 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAAAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATAGCTC
2272740 AGCACGTGAGCA
66 AGCACGTGAGCA
* *
2272752 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTC
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATAGCTC
2272817 AGCACGTGAGCA
66 AGCACGTGAGCA
*
2272829 AAGGCTCAACTCACTTCTCG
1 AAGGCTCAACTCACCTCTCG
2272849 TAAAAGTAGA
Statistics
Matches: 157, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
75 31 0.20
77 125 0.80
78 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (77 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATAGCTC
AGCACGTGAGCA
Found at i:2273153 original size:76 final size:74
Alignment explanation
Indices: 2272953--2273180 Score: 298
Period size: 76 Copynumber: 3.0 Consensus size: 74
2272943 AAAACAGAAA
* * * * *
2272953 TTGAAAAGCGGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTAAAAATACCTCAGC--GTG-TCCGAGGCTCAACTCACCTCTCGCAATAT
*
2273018 GAGTT-A-ATTT
63 GAGTTGATTTTT
* * * *
2273028 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGAAAAACAGAAATTAAAAATACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGA
2273093 GTTGATTTTT
65 GTTGATTTTT
2273103 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAATATG
2273168 AGTTGATTTTT
64 AGTTGATTTTT
2273179 TT
1 TT
2273181 TACCTCAGCA
Statistics
Matches: 134, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
73 34 0.25
74 1 0.01
75 42 0.31
76 57 0.43
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (74 bp):
TTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTT
Found at i:2273252 original size:312 final size:314
Alignment explanation
Indices: 2272636--2273254 Score: 770
Period size: 312 Copynumber: 2.0 Consensus size: 314
2272626 GAGTTGATTT
* * *
2272636 TTGAAAAGCAGAAATTGAAAACGCCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAGCAGAAATTGAAAAAGCCTCAGCATGTGACCCGAGACTCAACTCACCTCTCGCAATAT
* * *
2272701 GAGTTGATTTTTTTGAAAAGCAAAAATTGAAAATAGCTCAGCACGTGAGCAAAGGCTCAACTCAC
66 GAGTTGATATTTTTGAAAAGCAAAAATTGAAAATACCTCAG-ACGTGACCAAAGGCTCAACTCAC
* * * *
2272766 CTCTCACAATATGAGTTGATTCTTTTGAAAAGCAGAAATTGAAAATAGCTCAGCACGTGAGCAAA
130 CTCTCACAATATGAGTTGATTCTTTTGAAAAACAGAAATTAAAAATACCTCAG-ACGTGACCAAA
* *
2272831 GGCTCAACTCACTTCTCGTAAAAGTAGATTTTGAAAATACCTCGACATGTGAACCCAAGGCTCAA
194 GGCTCAACTCACCTCTCGCAAAAGTAGATTTT-AAAATACCTCGACATGTGAACCCAAGGCTCAA
* *
2272896 CTCACATCTCGCAATATGAGTTAATTTTTGAAAAATATAAATTGAAAAAAACAGAAA
258 CTCACATCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAAAAAACAGAAA
* *
2272953 TTGAAAAGCGGAAATT-AAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATA
1 TTGAAAAGCAGAAATTGAAAAAG-CCTCAGCATGTGACCCGAGACTCAACTCACCTCTCGCAATA
* * * **
2273017 TGAGTT-A-ATTTTTGACAAA-CAGAAATTGAAATTACCTCAG-CGTGTCCCGAGGCTCAACTCA
65 TGAGTTGATATTTTTGA-AAAGCAAAAATTGAAAATACCTCAGACGTGACCAAAGGCTCAACTCA
* * * * **
2273078 CCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATACCTCAG-CGTGTCCTG
129 CCTCTCACAATATGAGTTGATTCTTTTGAAAAACAGAAA-TTAAAAATACCTCAGACGTGACCAA
* *** * *
2273142 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTTTACCTC-AGCATGTG-AGCCGAGGC
193 AGGCTCAACTCACCTCTCGCAA-A--AGTAGATTTTAAAATACCTCGA-CATGTGAACCCAAGGC
* *
2273204 TCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAA
254 TCAACTCACATCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAA
2273255 TTACCTCAGC
Statistics
Matches: 260, Mismatches: 35, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
312 80 0.31
313 65 0.25
314 13 0.05
315 34 0.13
316 9 0.03
317 59 0.23
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (314 bp):
TTGAAAAGCAGAAATTGAAAAAGCCTCAGCATGTGACCCGAGACTCAACTCACCTCTCGCAATAT
GAGTTGATATTTTTGAAAAGCAAAAATTGAAAATACCTCAGACGTGACCAAAGGCTCAACTCACC
TCTCACAATATGAGTTGATTCTTTTGAAAAACAGAAATTAAAAATACCTCAGACGTGACCAAAGG
CTCAACTCACCTCTCGCAAAAGTAGATTTTAAAATACCTCGACATGTGAACCCAAGGCTCAACTC
ACATCTCGCAATATGAGTTAATTTTTGAAAAACAGAAATTGAAAAAAACAGAAA
Found at i:2273295 original size:131 final size:134
Alignment explanation
Indices: 2273063--2273309 Score: 410
Period size: 131 Copynumber: 1.9 Consensus size: 134
2273053 TCAGCGTGTC
* *
2273063 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTTAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAACAGAAATTTAAAAATAC
*
2273128 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACCTCAGCATG
66 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACCTCAGCATG
2273193 TGAG
131 TGAG
* * *
2273197 CCGAGGCTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGACAAACAGAAA-TTGAAATTAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAACAGAAATTTAAAAATAC
*
2273259 CTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTT
66 CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
2273310 GAAAAATATA
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
131 57 0.54
132 16 0.15
133 1 0.01
134 32 0.30
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (134 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTTGAAAAACAGAAATTTAAAAATAC
CTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACCTCAGCATG
TGAG
Found at i:2273327 original size:14 final size:14
Alignment explanation
Indices: 2273308--2273356 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
2273298 GAGTTGATTT
* *
2273308 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
2273322 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
2273337 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
2273351 TT-AAAA
1 TTGAAAA
2273357 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:2273463 original size:78 final size:74
Alignment explanation
Indices: 2273337--2273577 Score: 312
Period size: 78 Copynumber: 3.2 Consensus size: 74
2273327 AAAACAGAAA
* * * *
2273337 TTGAAAAGCAGAAATT-AAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATAT
2273401 GAGTTGATTTTT
64 GAGTTGA-TTTT
* * *
2273413 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTG-AAAACACCTCAGCATGT-AGCC-AGGCTCAACTCACCTCTCGCAATA
2273478 TGAGTTGATTTT
63 TGAGTTGATTTT
*
2273490 TTGAAAAATAGAAATTGAAAACACCTCAGCATGT-G--AGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATGA
2273552 GTTGA-TTT
66 GTTGATTTT
*
2273560 TTGAAAAACATAAATTGA
1 TTGAAAAACAGAAATTGA
2273578 GCAGAAATTG
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
70 19 0.13
71 32 0.21
74 1 0.01
76 29 0.19
77 19 0.13
78 49 0.33
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAACACCTCAGCATGTAGCCAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:2273544 original size:71 final size:71
Alignment explanation
Indices: 2273337--2273741 Score: 318
Period size: 71 Copynumber: 5.3 Consensus size: 71
2273327 AAAACAGAAA
* * *
2273337 TTGAAAAGCAGAAATT-AAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGA---G-G-CTCAACTCACCTCTCGCAATAT
2273401 GAGTTGATTTTT
61 GAGTTGA-TTTT
* *
2273413 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTG-AAAATACCTCAGCATGT--G---AGGCTCAACTCACCTCTCGCAATA
2273478 TGAGTTGATTTT
60 TGAGTTGATTTT
* *
2273490 TTGAAAAATAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
2273555 GA-TTT
66 GATTTT
** * *
2273560 TTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTC
1 TTG------A-AAA---A-CAGAAATTGAAAATACCTC-A-GCAT-GTGAGGCTCAACTCACCTC
2273625 TCGCAATATGAGTTGATTTT
52 TCGCAATATGAGTTGATTTT
** * * * *
2273645 TTG---ATGATAAATTGAAAATACCTCAATGTGACT-TGAGGTTCAACTCACCTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAATACCTC-A-G-CA-TGTGAGGCTCAACTCACCTCTCGCAATATG
2273706 AGTTGATTTT
62 AGTTGATTTT
2273716 TTGAATTAAAACAGAAATTGAAAATA
1 TTG-A--AAAACAGAAATTGAAAATA
2273742 GAAATGGAAA
Statistics
Matches: 275, Mismatches: 24, Indels: 59
0.77 0.07 0.16
Matches are distributed among these distances:
70 6 0.02
71 92 0.33
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
76 30 0.11
77 36 0.13
78 43 0.16
79 1 0.00
80 3 0.01
81 17 0.06
82 1 0.00
83 3 0.01
84 33 0.12
85 6 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (71 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTT
Found at i:2273645 original size:155 final size:158
Alignment explanation
Indices: 2273458--2273825 Score: 457
Period size: 155 Copynumber: 2.3 Consensus size: 158
2273448 AAGCCAAGGC
2273458 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTC-A-G-C
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAT--AAATTGAAAACACCTCAATGTC
* * *
2273520 A-TGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A-AAAACATAAATTG-AGC
64 ACT-TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAAC
* * *
2273580 AGAAATTGAAAATACCTCAACGGGTCTTGAGGT
128 AGAAATGGAAAACACCTC-A-GCGTCTTGAGGT
** * *
2273613 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGATAAATTGAAAATACCTCAATGTGAC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACACCTCAATGTCAC
* *
2273677 TTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAATA
66 TTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA-TAAAACAGAAATTG-AAACA
2273742 GAAATGGAAAACACCTCAGCGTCTTGAGGT
129 GAAATGGAAAACACCTCAGCGTCTTGAGGT
* *
2273772 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA-A-ATAAATTGAAAA
2273826 AAAAGAAATT
Statistics
Matches: 183, Mismatches: 16, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
152 15 0.08
153 1 0.01
154 4 0.02
155 68 0.37
156 7 0.04
157 1 0.01
159 50 0.27
160 8 0.04
161 18 0.10
163 11 0.06
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (158 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAATTGAAAACACCTCAATGTCAC
TTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAACAGA
AATGGAAAACACCTCAGCGTCTTGAGGT
Found at i:2273960 original size:75 final size:74
Alignment explanation
Indices: 2273869--2274151 Score: 365
Period size: 76 Copynumber: 3.8 Consensus size: 74
2273859 CGACGTGTGG
* *
2273869 CCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGCAAAAATTGAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAA-CAAAAATTGAAAATAC
2273934 CTCAGCGTGT
65 CTCAGCGTGT
* * *
2273944 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATAAAATAGAATTTGAAAATA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-A-AAAACAAAAATTGAAAATA
*
2274009 TCTCAGCGTGT
64 CCTCAGCGTGT
* * * *
2274020 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTGAAATTACC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTGAAAATACC
2274084 TCAGC--GT
66 TCAGCGTGT
** * ** * *
2274091 CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAA
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTGAAAA
2274152 AACGAAAATT
Statistics
Matches: 183, Mismatches: 22, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
71 36 0.20
72 18 0.10
73 20 0.11
74 1 0.01
75 46 0.25
76 58 0.32
77 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (74 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAAAAATTGAAAATACC
TCAGCGTGT
Found at i:2274097 original size:415 final size:414
Alignment explanation
Indices: 2273457--2274211 Score: 1008
Period size: 415 Copynumber: 1.8 Consensus size: 414
2273447 TAAGCCAAGG
* *
2273457 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCAT
1 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
2273522 GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAGCAGAAATT
66 GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT---AAACATAAA-T-AGCAGAAATT
* * **
2273587 GAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGATGA
126 GAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACA
* * *
2273652 TAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTT
191 AAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
* * * *
2273717 TGAATTAAAACAGAAATTGAAAATA-G-AAATGGAAAACACCTCAGC-GTCTTGAGGTTCAACTC
256 T---TTAAAACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCGGTCCTGAGGCTCAACTC
2273779 ACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGAAATTAAAAATAG
318 ACCTCTCGCAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGAAATTAAAAATAG
2273844 AATTTGAAAGGACCTCGACGTGTGGCCCGAGA
383 AATTTGAAAGGACCTCGACGTGTGGCCCGAGA
*
2273876 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTT-AAAAAGCAAAAATTGAAAATACCTCAGC
1 CTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTGAAAAA-CAAAAATTGAAAACACCTCAGC
* *** * *
2273940 GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGATAAA-A-TAGAATTT
64 ATGT---GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAACATAAATAGCAGAAATT
* * *
2274002 GAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAA
126 GAAAATACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG---A
* * * *
2274066 ACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
188 ACAAAAATTGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
* * * *
2274129 TTTTTTGAAACATAAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACT
253 TTTTTTAAAACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCG-GTCCTGAGGCTCAACT
2274194 CACCTCTCGCAATATGAG
317 CACCTCTCGCAATATGAG
2274212 TTGAAATTAA
Statistics
Matches: 293, Mismatches: 31, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
412 17 0.06
413 1 0.00
414 23 0.08
415 96 0.33
416 34 0.12
417 17 0.06
419 41 0.14
420 26 0.09
423 38 0.13
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (414 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAACACCTCAGCAT
GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAACATAAATAGCAGAAATTGAAAA
TACCTCAACGGGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAAAAAT
TGAAAATACCTCAATGCGACTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTAA
AACAGAAATTAAAAAAACGAAAATGGAAAACACCTCAGCGGTCCTGAGGCTCAACTCACCTCTCG
CAATATGAGCTGATTTTTTTGAAACACATAAATTAAAAAAAAAGAAATTAAAAATAGAATTTGAA
AGGACCTCGACGTGTGGCCCGAGA
Found at i:2274191 original size:160 final size:160
Alignment explanation
Indices: 2274000--2274291 Score: 453
Period size: 160 Copynumber: 1.8 Consensus size: 160
2273990 AAAATAGAAT
* ** *
2274000 TTGAAAATATCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAA
* ** * *
2274065 A-ACAAAAATTGAAATTACCTCAGCGT-CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGAT
64 ACACAAAAATTGAAAATACCTCAGCGTCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
2274128 TTTTTTTGAAACATAAATTAAAAAAACGAAAA
129 TTTTTTTGAAACATAAATTAAAAAAACGAAAA
2274160 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
1 TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
*
2274225 ACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGATT
66 ACAAAAATTGAAAATACCTCAGCGT-CCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATT
2274290 TT
130 TT
2274292 GAAAAAGTAG
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
158 3 0.03
159 26 0.22
160 55 0.46
161 35 0.29
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (160 bp):
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAAC
ACAAAAATTGAAAATACCTCAGCGTCCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTTGAAACATAAATTAAAAAAACGAAAA
Found at i:2274260 original size:72 final size:73
Alignment explanation
Indices: 2274142--2274283 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 73
2274132 TTTGAAACAT
* * *
2274142 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
2274207 ATGAGTTG
66 ATGAGTTG
* *
2274215 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
2274279 ATGAG
66 ATGAG
2274284 CTGATTTTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 59 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:2274740 original size:75 final size:74
Alignment explanation
Indices: 2274437--2274775 Score: 459
Period size: 75 Copynumber: 4.5 Consensus size: 74
2274427 AGTGTGTAAT
*
2274437 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT-AAAACAGAAATTGAAAATACC
*
2274502 TCAGCATGTGAAC
65 TCAGC--GTG-TC
*
2274515 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTT-AAAACAGAAATTGAAAATAC
*
2274579 CTCAACGTGTC
64 CTCAGCGTGTC
* ** * * * *
2274590 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCT
2274653 CAGCGTGTC
66 CAGCGTGTC
** *
2274662 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAA-AACAGAAATTGAAAATACC
2274727 TCAGCGTGTC
65 TCAGCGTGTC
*
2274737 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
2274776 GAAAAACAAA
Statistics
Matches: 237, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
72 62 0.26
73 4 0.02
74 6 0.03
75 66 0.28
76 34 0.14
77 31 0.13
78 34 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:2274784 original size:75 final size:74
Alignment explanation
Indices: 2274437--2274775 Score: 441
Period size: 72 Copynumber: 4.5 Consensus size: 74
2274427 AGTGTGTAAT
*
2274437 CTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAAACAGAAATTGAAAATACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAAACAGAAATTGAAAATACC
*
2274502 TCAGCATGTGAAC
65 TCAGC--GTG-TC
* *
2274515 C-GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTGAAAACAGAAATTGAAAATAC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTAAAAACAGAAATTGAAAATAC
*
2274579 CTCAACGTGTC
64 CTCAGCGTGTC
* ** * * * *
2274590 TTGAGGCTCAACTCATTTCTCGCAATATAAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
2274653 CAGCGTGTC
66 CAGCGTGTC
** * *
2274662 CTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATTGAAATTACC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTAAAAACAGAAATTGAAAATACC
2274727 TCAGCGTGTC
65 TCAGCGTGTC
*
2274737 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
2274776 GAAAAACAAA
Statistics
Matches: 237, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
72 67 0.28
74 4 0.02
75 67 0.28
76 34 0.14
77 31 0.13
78 34 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (74 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
CAGCGTGTC
Found at i:2274940 original size:70 final size:70
Alignment explanation
Indices: 2274793--2274967 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
2274783 AAAAATTAAA
* * * * * **
2274793 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
2274857 CCCCG
66 CCCCG
*
2274862 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
2274926 GTCTTG
65 GCCCCG
2274932 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
2274968 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:2283193 original size:14 final size:14
Alignment explanation
Indices: 2283174--2283204 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
2283164 GATAATAAAT
2283174 TATAAATATAAAAA
1 TATAAATATAAAAA
2283188 TATAAATATAAAAA
1 TATAAATATAAAAA
2283202 TAT
1 TAT
2283205 CAAAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TATAAATATAAAAA
Found at i:2283401 original size:27 final size:25
Alignment explanation
Indices: 2283371--2283437 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 25
2283361 GTGATAATTA
*
2283371 TTAAAAATATGGTACATAATAGTAGTG
1 TTAAAAATAT-ATACATAATA-TAGTG
2283398 TTAAAAATATATACATAATATA--G
1 TTAAAAATATATACATAATATAGTG
*
2283421 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
2283438 GATAACATGT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
25 2 0.05
26 9 0.24
27 10 0.26
ACGTcount: A:0.51, C:0.04, G:0.10, T:0.34
Consensus pattern (25 bp):
TTAAAAATATATACATAATATAGTG
Found at i:2283471 original size:13 final size:13
Alignment explanation
Indices: 2283453--2283517 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
2283443 CATGTAGAAA
2283453 AAATAATATATAT
1 AAATAATATATAT
*
2283466 AAATAATATAAAT
1 AAATAATATATAT
* *
2283479 ATA-AAGATATAT
1 AAATAATATATAT
*
2283491 -AATAAAATAGTAT
1 AAATAATATA-TAT
2283504 AAA-ATATATATAT
1 AAATA-ATATATAT
2283517 A
1 A
2283518 CGTAATATAG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
11 1 0.02
12 12 0.29
13 22 0.54
14 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
AAATAATATATAT
Found at i:2283474 original size:9 final size:10
Alignment explanation
Indices: 2283457--2283515 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
2283447 TAGAAAAAAT
2283457 AATATATATA
1 AATATATATA
2283467 AATA-ATATA
1 AATATATATA
2283476 AATATA-A-A
1 AATATATATA
*
2283484 GATATATAATA
1 AATATAT-ATA
2283495 AA-ATAGTATAA
1 AATATA-TAT-A
2283506 AATATATATA
1 AATATATATA
2283516 TACGTAATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
8 6 0.15
9 10 0.25
10 12 0.30
11 9 0.22
12 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
AATATATATA
Found at i:2283482 original size:15 final size:15
Alignment explanation
Indices: 2283453--2283511 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
2283443 CATGTAGAAA
2283453 AAATAATAT--ATAT
1 AAATAATATAAATAT
2283466 AAATAATATAAATAT
1 AAATAATATAAATAT
*
2283481 AAA-GATATATAATA-
1 AAATAATATA-AATAT
*
2283495 AAATAGTATAAAATAT
1 AAATAATAT-AAATAT
2283511 A
1 A
2283512 TATATACGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 9 0.24
14 8 0.22
15 18 0.49
16 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (15 bp):
AAATAATATAAATAT
Found at i:2284131 original size:29 final size:29
Alignment explanation
Indices: 2284072--2284181 Score: 118
Period size: 29 Copynumber: 3.8 Consensus size: 29
2284062 TAGGTACAAG
* * *
2284072 TGGTGGTGGAGAAGGTGTGGCTATGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTATGGAGT
2284101 TGGTGGTGGAAAAAGAG-GGCTATGGATGT
1 TGGTGGTGGAAAAAGAGTGGCTATGGA-GT
* *
2284130 TGGTGGTGG--AAGGTGTGGCTAAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCT-A-TGGAGT
*
2284159 TGGTGGTGGAAAAGGAGTGGCTA
1 TGGTGGTGGAAAAAGAGTGGCTA
2284182 GTTGAGAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
27 4 0.06
28 13 0.19
29 37 0.54
30 5 0.07
31 10 0.14
ACGTcount: A:0.22, C:0.04, G:0.49, T:0.25
Consensus pattern (29 bp):
TGGTGGTGGAAAAAGAGTGGCTATGGAGT
Found at i:2333986 original size:44 final size:43
Alignment explanation
Indices: 2333876--2334288 Score: 236
Period size: 44 Copynumber: 9.5 Consensus size: 43
2333866 ATTATACAGG
* *** * *
2333876 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
* *
2333922 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* ** *
2333966 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-ATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAG--A
* * * *
2334010 TCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG-GA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
* * * * *
2334049 TCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAGAGA
* * * ** * * *
2334090 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---GAGA
*
2334136 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * **
2334180 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-CTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAGAGA
* * * ** *
2334223 TCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCAGA-GA
* *
2334267 TCTTATCTCTCTGAGGTTACAG
1 TCTTATCTCCCTGAGATTACAG
2334289 CAGAGTAGAT
Statistics
Matches: 285, Mismatches: 62, Indels: 42
0.73 0.16 0.11
Matches are distributed among these distances:
38 2 0.01
39 24 0.08
40 1 0.00
41 28 0.10
42 9 0.03
43 32 0.11
44 123 0.43
45 1 0.00
46 63 0.22
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAGAGA
Found at i:2334230 original size:87 final size:87
Alignment explanation
Indices: 2334139--2334300 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 87
2334129 TTTCAGATCT
* * * *
2334139 TATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCTGAGATTACAGC
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCTGAGATTACAGC
*
2334203 GGAGCAGATCGAAGACACTATCC
65 AGAGCAGATCGAAGACACTATCC
* * * *
2334226 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
*
2334291 GAGTAGATCG
66 GAGCAGATCG
2334301 CATCAAGTCT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCCCTGAGATTACAGCA
GAGCAGATCGAAGACACTATCC
Found at i:2334404 original size:218 final size:214
Alignment explanation
Indices: 2333875--2334386 Score: 505
Period size: 214 Copynumber: 2.4 Consensus size: 214
2333865 TATTATACAG
* * * *** * * * *
2333875 GTCTTATCTCCCTG-AGATTACAGTGGAACAGACC-AAAGAATTTCAGATCTTATCTCCCTGAGG
1 GTCTTATTTCCCTGAAGA-TACAGTGGAATAGACCGGAA-AACAACAGATCATATCCCCCTAAAG
** *
2333938 TTACAGCGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG
64 TTACAGCGGAGCAGACAGAAGACAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG
* * *
2334003 ATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTA
129 ACACTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTA
* *
2334068 CAGTAGAGAAGATCACATCAG
194 CAGCAGAGAAGATCACATCAA
* * * * *** * * * *
2334089 GTCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTTCAGATCTTATCTCCCTGAGGTT
1 GTCTTATTTCCCTGAAGATACAGTGGAATAGACCGGAAAACAACAGATCATATCCCCCTAAAGTT
* ** * *
2334154 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
66 ACAGCGGAGCAGACAGAAGACAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAC
* *
2334219 ACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAG
131 ACTAATCCTATCTCCCTGAGA-TTACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAA
* *
2334282 GTTACAGCAGAGTAGATCGCATCAA
190 GTTACAGCAGAGAAGATCACATCAA
* * *
2334307 GTCTTATTTCCCTGAAGATGCAGTGGAATAGA-CTGAAAACAACA-AGTCATGTCCCCCTAAAGT
1 GTCTTATTTCCCTGAAGATACAGTGGAATAGACCGGAAAACAACAGA-TCATATCCCCCTAAAGT
** *
2334370 TGTAGCGGAGCGGACAG
65 TACAGCGGAGCAGACAG
2334387 TAGATAGCAA
Statistics
Matches: 251, Mismatches: 38, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
212 1 0.00
213 28 0.11
214 119 0.47
215 2 0.01
216 1 0.00
217 30 0.12
218 70 0.28
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (214 bp):
GTCTTATTTCCCTGAAGATACAGTGGAATAGACCGGAAAACAACAGATCATATCCCCCTAAAGTT
ACAGCGGAGCAGACAGAAGACAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAC
ACTAATCCTATCTCCCTGAGATTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACA
GCAGAGAAGATCACATCAA
Found at i:2336201 original size:35 final size:35
Alignment explanation
Indices: 2336165--2336228 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
2336155 ATTATTATTA
2336165 TTATTAT-TA-TTATAAC-TATTATATATATCATC
1 TTATTATATATTTATAACTTATTATATATATCATC
*
2336197 TTATTATATATTTATATCTTATTATATATATC
1 TTATTATATATTTATAACTTATTATATATATC
2336229 TATATATCTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 7 0.25
33 2 0.07
34 6 0.21
35 13 0.46
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (35 bp):
TTATTATATATTTATAACTTATTATATATATCATC
Found at i:2336217 original size:18 final size:17
Alignment explanation
Indices: 2336165--2336225 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 17
2336155 ATTATTATTA
*
2336165 TTATTAT-TATTATAAC
1 TTATTATATATTATATC
2336181 -TATTATATA-TATCATC
1 TTATTATATATTAT-ATC
2336197 TTATTATATATTTATATC
1 TTATTATATA-TTATATC
2336215 TTATTATATAT
1 TTATTATATAT
2336226 ATCTATATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
15 9 0.23
16 4 0.10
17 10 0.26
18 13 0.33
19 3 0.08
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (17 bp):
TTATTATATATTATATC
Found at i:2350197 original size:26 final size:26
Alignment explanation
Indices: 2350140--2350197 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
2350130 TGGAGAAATA
*
2350140 TTTATTTTAATATTTTTAATGTATTT
1 TTTATATTAATATTTTTAATGTATTT
** *
2350166 AATATATT-ATATTTTTAAATTTATTT
1 TTTATATTAATATTTTT-AATGTATTT
2350192 TTTATA
1 TTTATA
2350198 AAAAATAATC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 8 0.32
26 17 0.68
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATATTAATATTTTTAATGTATTT
Found at i:2350837 original size:18 final size:17
Alignment explanation
Indices: 2350796--2350895 Score: 59
Period size: 18 Copynumber: 5.8 Consensus size: 17
2350786 TTGTCAGGTT
2350796 TTAATATTT-TTTTTTTAC
1 TTAAT-TTTATTTTTTT-C
2350814 TT--TTTTATTTTTTTC
1 TTAATTTTATTTTTTTC
* * *
2350829 TTATATTTTGTCTCTTTC
1 TTA-ATTTTATTTTTTTC
2350847 TTAGATTTT-TTTCTTTT-
1 TTA-ATTTTATTT-TTTTC
2350864 TTAAGTTTTATATTATTTTC
1 TTAA-TTTTAT-TT-TTTTC
2350884 TTAA-TTTATTTT
1 TTAATTTTATTTT
2350896 GCTTATTTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 20
0.71 0.08 0.22
Matches are distributed among these distances:
15 6 0.09
16 10 0.15
17 11 0.17
18 29 0.44
19 6 0.09
20 4 0.06
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (17 bp):
TTAATTTTATTTTTTTC
Found at i:2350912 original size:36 final size:36
Alignment explanation
Indices: 2350843--2350916 Score: 98
Period size: 36 Copynumber: 2.0 Consensus size: 36
2350833 ATTTTGTCTC
*
2350843 TTTCTTAGATTTTTTTCTTTTTTAAGTTTTATATTAT
1 TTTCTTAGATTTTTTTCTTATTTAAG-TTTATATTAT
2350880 TTTCTTA-ATTTATTTTGCTTATTTAA-TTTATATTAT
1 TTTCTTAGATTT-TTTT-CTTATTTAAGTTTATATTAT
2350916 T
1 T
2350917 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 15 0.44
37 11 0.32
38 8 0.24
ACGTcount: A:0.22, C:0.05, G:0.04, T:0.69
Consensus pattern (36 bp):
TTTCTTAGATTTTTTTCTTATTTAAGTTTATATTAT
Found at i:2350921 original size:18 final size:17
Alignment explanation
Indices: 2350870--2350917 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
2350860 TTTTTTAAGT
*
2350870 TTTATATTATTTTCTTAA
1 TTTATATTATTAT-TTAA
* *
2350888 TTTATTTTGCTTATTTAA
1 TTTATATT-ATTATTTAA
2350906 TTTATATTATTA
1 TTTATATTATTA
2350918 ATTTTAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 3 0.12
18 18 0.75
19 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TTTATATTATTATTTAA
Found at i:2350930 original size:23 final size:22
Alignment explanation
Indices: 2350904--2350994 Score: 62
Period size: 22 Copynumber: 4.1 Consensus size: 22
2350894 TTGCTTATTT
2350904 AATTTATATTATTAATTTTAAAA
1 AATTTATATTATT-ATTTTAAAA
* * *
2350927 AATTTGTA-AAATATATTTAAAA
1 AATTTATATTATTAT-TTTAAAA
** *
2350949 TGGTTTATAATATT-TTTTAAAA
1 -AATTTATATTATTATTTTAAAA
* *
2350971 ATTTTA-ATTATTATTTTTAAA
1 AATTTATATTATTATTTTAAAA
2350992 AAT
1 AAT
2350995 ATTTTTTAAC
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
20 5 0.10
21 15 0.29
22 16 0.31
23 13 0.25
24 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
AATTTATATTATTATTTTAAAA
Found at i:2351212 original size:16 final size:16
Alignment explanation
Indices: 2351191--2351223 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2351181 AATTTTAAAG
2351191 TTTAAATTAAAATATA
1 TTTAAATTAAAATATA
2351207 TTTAAATTAAAATATA
1 TTTAAATTAAAATATA
2351223 T
1 T
2351224 ATATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAATTAAAATATA
Found at i:2351328 original size:21 final size:21
Alignment explanation
Indices: 2351274--2351338 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 21
2351264 TATTAATAAA
*
2351274 TATAAATA-TAAATATAAATTT
1 TATAAATATTAAATAT-TATTT
*
2351295 TAAAAATATATTAAATATTATTT
1 T-ATAA-ATATTAAATATTATTT
2351318 TATAAATATTAAATA-TATTT
1 TATAAATATTAAATATTATTT
2351338 T
1 T
2351339 TTCTTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 6 0.16
21 11 0.29
22 6 0.16
23 8 0.21
24 7 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TATAAATATTAAATATTATTT
Found at i:2351515 original size:27 final size:26
Alignment explanation
Indices: 2351485--2351550 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
2351475 TTTTAAATAC
* *
2351485 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTAAATA-ATATAAAAAATCAT
* *
2351512 AATTTTTTAATAATATAAGAAATCAT
1 AATTTTTAAATAATATAAAAAATCAT
2351538 AATATTTTAAATA
1 AAT-TTTTAAATA
2351551 TTTTTTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (26 bp):
AATTTTTAAATAATATAAAAAATCAT
Found at i:2351534 original size:26 final size:27
Alignment explanation
Indices: 2351485--2351547 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
2351475 TTTTAAATAC
* * *
2351485 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
2351512 AATTTTTTAATA-ATATAAGAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
2351538 AATATTTTAA
1 AATTTTTTAA
2351548 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:2351714 original size:21 final size:21
Alignment explanation
Indices: 2351675--2351718 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2351665 ATTTAAAATG
2351675 TTTTATAATATATTTTTTACAA
1 TTTTATAATATATTTTTTA-AA
2351697 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATAT-TTTTTAAA
2351717 TT
1 TT
2351719 CTTTTTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.24
21 11 0.52
22 5 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTTATAATATATTTTTTAAA
Found at i:2351841 original size:18 final size:18
Alignment explanation
Indices: 2351818--2351865 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
2351808 GTGACTATTA
2351818 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
2351836 ATAAATTTTAA-A-AAAT
1 ATAAATTTAAATATAAAT
*
2351852 ATATA-TTAAATATA
1 ATAAATTTAAATATA
2351866 TTTTTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 4 0.16
16 9 0.36
17 2 0.08
18 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:2353097 original size:30 final size:30
Alignment explanation
Indices: 2353061--2353153 Score: 141
Period size: 30 Copynumber: 3.1 Consensus size: 30
2353051 GTCCCAGAGT
*
2353061 AGTTCATATAACCCGGACATAGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
*
2353091 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
* * *
2353121 AGTTCATATCACCGGGATATAGGCGGTTCG
1 AGTTCATATCACCCGGACATAGGTGGTTCG
2353151 AGT
1 AGT
2353154 CCATTTGACC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATAGGTGGTTCG
Found at i:2356621 original size:12 final size:12
Alignment explanation
Indices: 2356604--2356691 Score: 67
Period size: 13 Copynumber: 7.3 Consensus size: 12
2356594 ACTTGAAATG
2356604 TATTTTTTAAAA
1 TATTTTTTAAAA
2356616 TATTTTTTAAAAA
1 TATTTTTT-AAAA
* *
2356629 TATTTTATAATA
1 TATTTTTTAAAA
2356641 TATTTTTTTATAAA
1 TA-TTTTTTA-AAA
*
2356655 TA---TTAAAAA
1 TATTTTTTAAAA
* *
2356664 TATATTTTCAAAT
1 TAT-TTTTTAAAA
2356677 TATTTTTT-AAA
1 TATTTTTTAAAA
2356688 TATT
1 TATT
2356692 AAATATATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
9 5 0.08
10 3 0.05
11 6 0.10
12 17 0.28
13 25 0.42
14 4 0.07
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (12 bp):
TATTTTTTAAAA
Found at i:2356632 original size:25 final size:25
Alignment explanation
Indices: 2356604--2356691 Score: 76
Period size: 25 Copynumber: 3.6 Consensus size: 25
2356594 ACTTGAAATG
2356604 TATTTTTTAAAATATTTTTTAAAAA
1 TATTTTTTAAAATATTTTTTAAAAA
* * *
2356629 TATTTTATAATATATTTTTTTATAAA
1 TATTTTTTAAAATA-TTTTTTAAAAA
* * * *
2356655 TA---TTAAAAATATATTTTCAAAT
1 TATTTTTTAAAATATTTTTTAAAAA
2356677 TATTTTTT-AAATATT
1 TATTTTTTAAAATATT
2356692 AAATATATTT
Statistics
Matches: 47, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
22 9 0.19
23 6 0.13
24 6 0.13
25 14 0.30
26 12 0.26
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTTTTTAAAATATTTTTTAAAAA
Found at i:2356651 original size:15 final size:14
Alignment explanation
Indices: 2356606--2356658 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 14
2356596 TTGAAATGTA
2356606 TTTTTTA-AAATA-
1 TTTTTTATAAATAT
2356618 TTTTTTA-AAA-A-
1 TTTTTTATAAATAT
*
2356629 TATTTTATAATATAT
1 TTTTTTATAA-ATAT
2356644 TTTTTTATAAATAT
1 TTTTTTATAAATAT
2356658 T
1 T
2356659 AAAAATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 7 0.20
12 12 0.34
13 1 0.03
14 6 0.17
15 9 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTTTATAAATAT
Found at i:2356699 original size:31 final size:34
Alignment explanation
Indices: 2356622--2356711 Score: 98
Period size: 31 Copynumber: 2.7 Consensus size: 34
2356612 AAAATATTTT
* *
2356622 TTAAAA-ATATTTTATAATATATTTTTTTATAAATA
1 TTAAAATATATTTT-CAATAT-TATTTTTATAAATA
2356657 TTAAAAATATATTTTCAA-ATTATTTTT-TAAATA
1 TT-AAAATATATTTTCAATATTATTTTTATAAATA
*
2356690 TT-AAATATATTTTTAATATTAT
1 TTAAAATATATTTTCAATATTAT
2356712 AAAACATTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
31 13 0.27
32 5 0.10
33 8 0.16
34 6 0.12
35 4 0.08
36 6 0.12
37 7 0.14
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (34 bp):
TTAAAATATATTTTCAATATTATTTTTATAAATA
Found at i:2356705 original size:12 final size:12
Alignment explanation
Indices: 2356607--2356705 Score: 52
Period size: 12 Copynumber: 8.6 Consensus size: 12
2356597 TGAAATGTAT
2356607 TTTTTAAA-ATA
1 TTTTTAAATATA
*
2356618 TTTTTTAAAAATA
1 -TTTTTAAATATA
*
2356631 TTTTATAATATATT
1 TTTT-TAA-ATATA
2356645 TTTTTATAA-ATA
1 TTTTTA-AATATA
**
2356657 -TTAAAAATATA
1 TTTTTAAATATA
*
2356668 TTTTCAAAT-TA
1 TTTTTAAATATA
*
2356679 TTTTTTAA-ATA
1 TTTTTAAATATA
2356690 ---TTAAATATA
1 TTTTTAAATATA
2356699 TTTTTAA
1 TTTTTAA
2356706 TATTATAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 22
0.67 0.10 0.22
Matches are distributed among these distances:
8 4 0.06
9 3 0.05
10 2 0.03
11 16 0.24
12 24 0.36
13 9 0.14
14 8 0.12
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTTAAATATA
Found at i:2356732 original size:10 final size:10
Alignment explanation
Indices: 2356717--2356749 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
2356707 ATTATAAAAC
2356717 ATTTAAAATG
1 ATTTAAAATG
2356727 ATTTAAAATG
1 ATTTAAAATG
2356737 ATTTAAAAT-
1 ATTTAAAATG
2356746 ATTT
1 ATTT
2356750 TTTAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.45
Consensus pattern (10 bp):
ATTTAAAATG
Found at i:2357524 original size:37 final size:36
Alignment explanation
Indices: 2357454--2357524 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
2357444 AATAATTATT
*
2357454 TTTTTAAAATTTTAAAAAATTAATTTGAAAAATACA
1 TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
* *
2357490 TTTTTAAAATTTATAAATAATTAATTTCACAAATA
1 TTTTTAAAATTT-TAAAAAATTAATTTCAAAAATA
2357525 TATATAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 12 0.39
37 19 0.61
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
TTTTTAAAATTTTAAAAAATTAATTTCAAAAATACA
Found at i:2357591 original size:22 final size:21
Alignment explanation
Indices: 2357546--2357586 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2357536 AAAAAATATT
2357546 TTTAAAAATAATAATTAAAAA
1 TTTAAAAATAATAATTAAAAA
2357567 TTTAAAAA-AAT-ATTATAAAA
1 TTTAAAAATAATAATTA-AAAA
2357587 CATTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TTTAAAAATAATAATTAAAAA
Found at i:2357593 original size:23 final size:22
Alignment explanation
Indices: 2357545--2357618 Score: 62
Period size: 23 Copynumber: 3.4 Consensus size: 22
2357535 TAAAAAATAT
*
2357545 TTTTAAAAATAATAAT-TAAAAA
1 TTTTAAAAA-AATATTATAAAAA
2357567 -TTTAAAAAAATATTATAAAACA
1 TTTTAAAAAAATATTATAAAA-A
* * * **
2357589 TTTTAAATATATATTACAAATT
1 TTTTAAAAAAATATTATAAAAA
2357611 TTTTAAAA
1 TTTTAAAA
2357619 TTAATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
20 5 0.12
21 13 0.31
22 8 0.19
23 16 0.38
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTTAAAAAAATATTATAAAAA
Found at i:2357666 original size:18 final size:18
Alignment explanation
Indices: 2357616--2357667 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
2357606 AAATTTTTTA
*
2357616 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
2357634 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
2357652 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
2357668 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:2357684 original size:9 final size:9
Alignment explanation
Indices: 2357672--2357760 Score: 69
Period size: 9 Copynumber: 9.7 Consensus size: 9
2357662 TATAAAACTT
2357672 AAAAAAGTA
1 AAAAAAGTA
**
2357681 AAAAATCTA
1 AAAAAAGTA
*
2357690 AGAAAGAGATA
1 A-AAAAAG-TA
2357701 AAATATAAG-A
1 AAA-A-AAGTA
2357711 AAAAAAGT-
1 AAAAAAGTA
2357719 AAAAAAGTTA
1 AAAAAAG-TA
2357729 AAAAAA-TAA
1 AAAAAAGT-A
2357738 AAAAAAGTA
1 AAAAAAGTA
2357747 AAAAAA-TA
1 AAAAAAGTA
2357755 AAAAAA
1 AAAAAA
2357761 TATAAGAACT
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
8 19 0.29
9 24 0.37
10 16 0.25
11 4 0.06
12 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.09, T:0.13
Consensus pattern (9 bp):
AAAAAAGTA
Found at i:2357724 original size:8 final size:8
Alignment explanation
Indices: 2357711--2357759 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
2357701 AAATATAAGA
2357711 AAAAAAGT
1 AAAAAAGT
2357719 AAAAAAGTT
1 AAAAAAG-T
*
2357728 AAAAAAAT
1 AAAAAAGT
2357736 AAAAAAAAGT
1 --AAAAAAGT
*
2357746 AAAAAAAT
1 AAAAAAGT
2357754 AAAAAA
1 AAAAAA
2357760 ATATAAGAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
8 21 0.60
9 7 0.20
10 7 0.20
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (8 bp):
AAAAAAGT
Found at i:2357760 original size:18 final size:19
Alignment explanation
Indices: 2357719--2357760 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
2357709 GAAAAAAAGT
2357719 AAAAAAGTTAAAAAAATAA
1 AAAAAAGTTAAAAAAATAA
2357738 AAAAAAG-TAAAAAAATAA
1 AAAAAAGTTAAAAAAATAA
2357756 AAAAA
1 AAAAA
2357761 TATAAGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAAAAGTTAAAAAAATAA
Found at i:2359466 original size:13 final size:13
Alignment explanation
Indices: 2359448--2359475 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2359438 CACATCTAAG
2359448 TTATCAAATTGAA
1 TTATCAAATTGAA
2359461 TTATCAAATTGAA
1 TTATCAAATTGAA
2359474 TT
1 TT
2359476 GTGACCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (13 bp):
TTATCAAATTGAA
Found at i:2369624 original size:17 final size:17
Alignment explanation
Indices: 2369604--2369639 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2369594 TAATTTTTTT
* *
2369604 TTCTTATTGATTTGTGA
1 TTCTCATTGATTTGCGA
2369621 TTCTCATTGATTTGCGA
1 TTCTCATTGATTTGCGA
2369638 TT
1 TT
2369640 GTTCTACTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.11, G:0.17, T:0.56
Consensus pattern (17 bp):
TTCTCATTGATTTGCGA
Found at i:2373164 original size:15 final size:15
Alignment explanation
Indices: 2373132--2373170 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2373122 ATTTCAAAAA
* *
2373132 TAAATTAGAAAATGT
1 TAAATTATAAAATCT
*
2373147 TAATTTATAAAATCT
1 TAAATTATAAAATCT
2373162 TAAATTATA
1 TAAATTATA
2373171 TTTACATTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (15 bp):
TAAATTATAAAATCT
Found at i:2375485 original size:24 final size:25
Alignment explanation
Indices: 2375457--2375511 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
2375447 GGTGTGTTTC
2375457 ATTATATATTGAAAAT-TTTTAATA
1 ATTATATATTGAAAATGTTTTAATA
* * * *
2375481 TTTAT-TTTTGTAAATGTTTTTATA
1 ATTATATATTGAAAATGTTTTAATA
2375505 ATTATAT
1 ATTATAT
2375512 TAACTTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
23 8 0.33
24 15 0.62
25 1 0.04
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (25 bp):
ATTATATATTGAAAATGTTTTAATA
Found at i:2375612 original size:14 final size:14
Alignment explanation
Indices: 2375595--2375625 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2375585 ATATTAAATT
*
2375595 AATTTTATTTTTAA
1 AATTTTATTTATAA
2375609 AATTTTATTTATAA
1 AATTTTATTTATAA
2375623 AAT
1 AAT
2375626 AAATTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTTATTTATAA
Found at i:2387366 original size:11 final size:11
Alignment explanation
Indices: 2387352--2387376 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2387342 TGCTACTAAC
2387352 GAAAATCTAGT
1 GAAAATCTAGT
2387363 GAAAATCTAGT
1 GAAAATCTAGT
2387374 GAA
1 GAA
2387377 TCTCATGCAC
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:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (11 bp):
GAAAATCTAGT
Found at i:2388222 original size:21 final size:20
Alignment explanation
Indices: 2388198--2388249 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2388188 TTATGCCACA
*
2388198 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTAAATT
* *
2388219 TCAGGATTTTATCTTAAATT
1 TCAGTATTTTATCCTAAATT
*
2388239 TTAGTATTTTA
1 TCAGTATTTTA
2388250 ATTTGGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.52
Consensus pattern (20 bp):
TCAGTATTTTATCCTAAATT
Found at i:2397974 original size:20 final size:21
Alignment explanation
Indices: 2397924--2397977 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
2397914 TTTAAAATTT
2397924 TTAGGAGGAAAAAGTTGAAAAC
1 TTAGG-GGAAAAAGTTGAAAAC
* *
2397946 CT-GAAGGAAAAAGTTGAAAA-
1 TTAG-GGGAAAAAGTTGAAAAC
2397966 TTAGGGGAAAAA
1 TTAGGGGAAAAA
2397978 ATCTGATTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
20 8 0.31
21 17 0.65
22 1 0.04
ACGTcount: A:0.52, C:0.04, G:0.28, T:0.17
Consensus pattern (21 bp):
TTAGGGGAAAAAGTTGAAAAC
Found at i:2399216 original size:23 final size:24
Alignment explanation
Indices: 2399178--2399223 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
2399168 TAGGAAAAGC
*
2399178 TCTTGATTTCTGGGTTTTTTATTG
1 TCTTGATTTCTGGGTTTTGTATTG
*
2399202 TCTTGA-TTCTTGGTTTTGTATT
1 TCTTGATTTCTGGGTTTTGTATT
2399224 ATTTTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.09, C:0.09, G:0.20, T:0.63
Consensus pattern (24 bp):
TCTTGATTTCTGGGTTTTGTATTG
Found at i:2401714 original size:16 final size:16
Alignment explanation
Indices: 2401693--2401727 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
2401683 ATTATCTAGA
2401693 AAACATGTTCAATGTC
1 AAACATGTTCAATGTC
2401709 AAACATGTTCAATGTC
1 AAACATGTTCAATGTC
2401725 AAA
1 AAA
2401728 ATGGCTTCAT
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:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (16 bp):
AAACATGTTCAATGTC
Found at i:2405772 original size:20 final size:20
Alignment explanation
Indices: 2405747--2405787 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2405737 ATTTAATTTT
2405747 AATTTTTTATTTAAATACTA
1 AATTTTTTATTTAAATACTA
2405767 AATTTTTTATTTAAATACTA
1 AATTTTTTATTTAAATACTA
2405787 A
1 A
2405788 CTTTATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTTTTTATTTAAATACTA
Found at i:2406658 original size:374 final size:376
Alignment explanation
Indices: 2405967--2406716 Score: 1486
Period size: 374 Copynumber: 2.0 Consensus size: 376
2405957 AAGGCTGTAG
2405967 CACCTATGAATGTTCCACGAGAACCGAATGGACGCATTGAAGCATGGAGGTATAAATTTCACAGC
1 CACCTATGAATGTTCCACGAGAACCGAATGGACGCATTGAAGCATGGAGGTATAAATTTCACAGC
2406032 ATTCACAATTTTTACTAGGGATAGTATTAGTAATAAGGCGAGGTGGAGTGGATTTTATCTCCTTA
66 ATTCACAATTTTTACTAGGGATAGTATTAGTAATAAGGCGAGGTGGAGTGGATTTTATCTCCTTA
2406097 CCTCGACTCTAAAGAAAAAATTCACCTTAAACTTAAATTCGAAATTTAGTAAAAGGTTCGATTTT
131 CCTCGACTCTAAAGAAAAAATTCACCTTAAACTTAAATTCGAAATTTAGTAAAAGGTTCGATTTT
2406162 GTTTTGTCTCATATCGAATTTTATTTTATTATTTTATTTTTATTTTGAAGTTATATATTTATTTA
196 GTTTTGTCTCATATCGAATTTTATTTTATTATTTTATTTTTATTTTGAAGTTATATATTTATTTA
2406227 TTGAAAGTAAAATTTTAGTATATATATTAGGGGTATTTTTGTGAATATCTCAAGAAAGGGCGGGA
261 TTGAAAGTAAAATTTTAGTATATATATTAGGGGTATTTTTGTGAATATCTCAAGAAAGGGCGGGA
2406292 CAGATTTATCTTAAATCCGACCCTGGCCCATCTTGAACCTGATTTTTCAAA
326 CAGATTTATCTTAAATCCGACCCTGGCCCATCTTGAACCTGATTTTTCAAA
2406343 CACCTATGAATGTTCCACGAGAACCGAATGGACGCATTGAAGCATGGAGGTATAAATTTCACAGC
1 CACCTATGAATGTTCCACGAGAACCGAATGGACGCATTGAAGCATGGAGGTATAAATTTCACAGC
2406408 ATTCACAATTTTTACTAGGGATAGTATTAGTAATAAGGCGAGGTGGAGTGGA-TTTATCTCCTTA
66 ATTCACAATTTTTACTAGGGATAGTATTAGTAATAAGGCGAGGTGGAGTGGATTTTATCTCCTTA
2406472 CCTCGACTCTAAAG-AAAAATTCACCTTAAACTTAAATTCGAAATTTAGTAAAAGGTTCGATTTT
131 CCTCGACTCTAAAGAAAAAATTCACCTTAAACTTAAATTCGAAATTTAGTAAAAGGTTCGATTTT
2406536 GTTTTGTCTCATATCGAATTTTATTTTATTATTTTATTTTTATTTTGAAGTTATATATTTATTTA
196 GTTTTGTCTCATATCGAATTTTATTTTATTATTTTATTTTTATTTTGAAGTTATATATTTATTTA
2406601 TTGAAAGTAAAATTTTAGTATATATATTAGGGGTATTTTTGTGAATATCTCAAGAAAGGGCGGGA
261 TTGAAAGTAAAATTTTAGTATATATATTAGGGGTATTTTTGTGAATATCTCAAGAAAGGGCGGGA
2406666 CAGATTTATCTTAAATCCGACCCTGGCCCATCTTGAACCTGATTTTTCAAA
326 CAGATTTATCTTAAATCCGACCCTGGCCCATCTTGAACCTGATTTTTCAAA
2406717 AAAAAAAAAT
Statistics
Matches: 374, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
374 231 0.62
375 26 0.07
376 117 0.31
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (376 bp):
CACCTATGAATGTTCCACGAGAACCGAATGGACGCATTGAAGCATGGAGGTATAAATTTCACAGC
ATTCACAATTTTTACTAGGGATAGTATTAGTAATAAGGCGAGGTGGAGTGGATTTTATCTCCTTA
CCTCGACTCTAAAGAAAAAATTCACCTTAAACTTAAATTCGAAATTTAGTAAAAGGTTCGATTTT
GTTTTGTCTCATATCGAATTTTATTTTATTATTTTATTTTTATTTTGAAGTTATATATTTATTTA
TTGAAAGTAAAATTTTAGTATATATATTAGGGGTATTTTTGTGAATATCTCAAGAAAGGGCGGGA
CAGATTTATCTTAAATCCGACCCTGGCCCATCTTGAACCTGATTTTTCAAA
Found at i:2409386 original size:305 final size:304
Alignment explanation
Indices: 2408701--2409635 Score: 1547
Period size: 305 Copynumber: 3.0 Consensus size: 304
2408691 GAAAACTAAT
2408701 TTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCGATTT
1 TTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCGATTT
* *
2408766 CAGGTATATTCGAGCTCCATTTTCATTGAAATTTTCATTTTTATTTTTATGATTTTTTATTTTTT
66 CAGGTATATTCAAGCTCCATTTTCATTGAAATTTTCATTTTTA--TTT-TGA----TGA--TTTT
*
2408831 ATTTGTGATCAAGATCTTATTGAATTTCATCACGGTTTGGTTTAGTAATCGAGGATTGTGCTATC
122 -TTTGTGATCAAGATCTTAATGAATTTCATCACGGTTTGGTTTAGTAATCGAGGATTGTGCTATC
* * * *
2408896 TGGCTGCTAGCTATTTAATTTTGTTTATTTGTTTGTTTGTTTTTATGAGAACGTTGTTTGAAGTT
186 TGGTTGCTAGCGATTTAATTTTG----TTTGTTTCTTTATTTTTATGAGAACGTTGTTTGAAGTT
2408961 TGTGATCTTTCATTGAGAAAAAAAAGTTTCATGGAACCTGGTGTGATGTTTGTCCAAA
247 TGTGATCTTTCATTGAGAAAAAAAAGTTTCATGGAACCTGGTGTGATGTTTGTCCAAA
*
2409019 TTGAGTGGAAAATATGAGCATATGTTGTTTTTTACCGTAACTCGGCAATCTTCGGATGCCGATTT
1 TTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCGATTT
2409084 CAGGTATATTCAAGCTCCATTTTCATTGAAATTTTCATTTTTATTTTGATGATTTTTTTGTGATC
66 CAGGTATATTCAAGCTCCATTTTCATTGAAATTTTCATTTTTATTTTGATGATTTTTTTGTGATC
*
2409149 AAGATCTTAATGAATTTCATCACGGTTTGTTTTAGTAATCGAGGATTGTGCTATCTGGTTGCTAG
131 AAGATCTTAATGAATTTCATCACGGTTTGGTTTAGTAATCGAGGATTGTGCTATCTGGTTGCTAG
*
2409214 CGATTTAATTTTGTTTGTTTCTTTATTTTTATGAGAACTTTGTTTGAAGTTTGTGATCTTTCATT
196 CGATTTAATTTTGTTTGTTTCTTTATTTTTATGAGAACGTTGTTTGAAGTTTGTGATCTTTCATT
*
2409279 GAGAAAAAAAAAGTTTCATGGAACCTGGTGTGGTGTTTGTCCAAA
261 GAG-AAAAAAAAGTTTCATGGAACCTGGTGTGATGTTTGTCCAAA
2409324 TTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCGATTT
1 TTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCGATTT
*
2409389 CAGGTATATTCAAGCTCCATTTTCATTGAAATTGTCATTTTTATTTTGATGATTTTTTTGTGATC
66 CAGGTATATTCAAGCTCCATTTTCATTGAAATTTTCATTTTTATTTTGATGATTTTTTTGTGATC
*
2409454 AAGACCTTAATGAATTTCATCACGGTTTGGTTTAGTAATCGAGGA-----CTATCTGGTTGCTAG
131 AAGATCTTAATGAATTTCATCACGGTTTGGTTTAGTAATCGAGGATTGTGCTATCTGGTTGCTAG
2409514 CGATTTAATTTTGTTTGTTTCTTTATTTTTATGAGAACGTTGTTTGAAGTTTGTGATCTTTCATT
196 CGATTTAATTTTGTTTGTTTCTTTATTTTTATGAGAACGTTGTTTGAAGTTTGTGATCTTTCATT
* * *
2409579 GAGAAAAAAAAGTTTCATGAAACCGGGTGTGATATTTGTCCAAA
261 GAGAAAAAAAAGTTTCATGGAACCTGGTGTGATGTTTGTCCAAA
*
2409623 TTGAGCGGAAAAT
1 TTGAGTGGAAAAT
2409636 GGTGATAATA
Statistics
Matches: 595, Mismatches: 21, Indels: 21
0.93 0.03 0.03
Matches are distributed among these distances:
299 49 0.08
300 82 0.14
304 52 0.09
305 211 0.35
308 83 0.14
309 4 0.01
311 2 0.00
315 3 0.01
316 3 0.01
318 106 0.18
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (304 bp):
TTGAGTGGAAAATATGAGCATATGTTGTTTTCTACCGTAACTCGGCAATCTTCGGATGCCGATTT
CAGGTATATTCAAGCTCCATTTTCATTGAAATTTTCATTTTTATTTTGATGATTTTTTTGTGATC
AAGATCTTAATGAATTTCATCACGGTTTGGTTTAGTAATCGAGGATTGTGCTATCTGGTTGCTAG
CGATTTAATTTTGTTTGTTTCTTTATTTTTATGAGAACGTTGTTTGAAGTTTGTGATCTTTCATT
GAGAAAAAAAAGTTTCATGGAACCTGGTGTGATGTTTGTCCAAA
Found at i:2417411 original size:11 final size:10
Alignment explanation
Indices: 2417390--2417431 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
2417380 TAATAATTCA
2417390 TTTTATTTTT
1 TTTTATTTTT
2417400 TTTTATTTTT
1 TTTTATTTTT
*
2417410 TTTT-TTTATG
1 TTTTATTT-TT
*
2417420 TTTTAGTTTT
1 TTTTATTTTT
2417430 TT
1 TT
2417432 CTCGTATCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.81
11 2 0.07
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.86
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:2417413 original size:13 final size:14
Alignment explanation
Indices: 2417395--2417423 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2417385 ATTCATTTTA
2417395 TTTTTTTTTAT-TT
1 TTTTTTTTTATGTT
2417408 TTTTTTTTTATGTT
1 TTTTTTTTTATGTT
2417422 TT
1 TT
2417424 AGTTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTATGTT
Found at i:2420167 original size:10 final size:11
Alignment explanation
Indices: 2420116--2420169 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 11
2420106 ATTTTTTATA
2420116 ATTAAAATAAT
1 ATTAAAATAAT
*
2420127 AATAAAATAACT
1 ATTAAAATAA-T
* *
2420139 AAATAAAATATT
1 -ATTAAAATAAT
2420151 ATTAAAATAAT
1 ATTAAAATAAT
2420162 -TTAAAATA
1 ATTAAAATA
2420170 TCACTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
10 8 0.22
11 18 0.49
12 2 0.05
13 9 0.24
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
ATTAAAATAAT
Found at i:2420181 original size:21 final size:21
Alignment explanation
Indices: 2420142--2420182 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2420132 AATAACTAAA
* *
2420142 TAAAATATTATTAAAATAATT
1 TAAAATATCACTAAAATAATT
*
2420163 TAAAATATCACTAATATAAT
1 TAAAATATCACTAAAATAAT
2420183 GATTACAATC
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:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAATATCACTAAAATAATT
Found at i:2420432 original size:29 final size:30
Alignment explanation
Indices: 2420366--2420432 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
2420356 TTTGGGCATT
* * * *
2420366 TTCACTTTTAATGCTTTAACTTTTTAAATC
1 TTCACATTTAATCCTTCAACTTTTTAAATA
*
2420396 TACA-ATTTAATCCTTCAAC-TTTTAAATA
1 TTCACATTTAATCCTTCAACTTTTTAAATA
2420424 TTCACATTT
1 TTCACATTT
2420433 TGACCCATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 11 0.37
29 16 0.53
30 3 0.10
ACGTcount: A:0.31, C:0.18, G:0.01, T:0.49
Consensus pattern (30 bp):
TTCACATTTAATCCTTCAACTTTTTAAATA
Found at i:2421250 original size:2 final size:2
Alignment explanation
Indices: 2421243--2421273 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2421233 TTGTATACTA
2421243 AT 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 AT A
2421274 AAGCATTGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2424388 original size:56 final size:56
Alignment explanation
Indices: 2424311--2424423 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
2424301 TTTGCCTAAA
2424311 TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAGGCTATTAAATTGTC
1 TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAGGCTATTAAATTGTC
2424367 TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAGGCTATTAAATTGTC
1 TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAGGCTATTAAATTGTC
2424423 T
1 T
2424424 TTGTGCTGCT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (56 bp):
TCCTGTATGTGGTGCTGCATACCATTAGATTATGCTTGGCAGGCTATTAAATTGTC
Found at i:2427233 original size:27 final size:28
Alignment explanation
Indices: 2427170--2427236 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 28
2427160 TATAATATAT
2427170 AAATTAATAAAAAAATAAAAAAATTTAC
1 AAATTAATAAAAAAATAAAAAAATTTAC
* * *
2427198 AAA-AAATAAAAGAATTAAAAAA-TTAC
1 AAATTAATAAAAAAATAAAAAAATTTAC
*
2427224 AAATTTATAAAAA
1 AAATTAATAAAAA
2427237 TATATATATA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 7 0.22
27 22 0.69
28 3 0.09
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.24
Consensus pattern (28 bp):
AAATTAATAAAAAAATAAAAAAATTTAC
Found at i:2431835 original size:19 final size:20
Alignment explanation
Indices: 2431799--2431836 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2431789 GGTTTTTGTT
**
2431799 AATTCAATTGTTTTTTTTTC
1 AATTCAATTGTTGGTTTTTC
2431819 AATT-AATTGTTGGTTTTT
1 AATTCAATTGTTGGTTTTT
2431837 TAATGGAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.21, C:0.05, G:0.11, T:0.63
Consensus pattern (20 bp):
AATTCAATTGTTGGTTTTTC
Found at i:2431835 original size:20 final size:21
Alignment explanation
Indices: 2431789--2431837 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
2431779 TTCTCCACCA
*
2431789 GGTTTTTGTTAATTCAATTGTT
1 GGTTTTT-TCAATTCAATTGTT
*
2431811 -TTTTTTTCAATT-AATTGTT
1 GGTTTTTTCAATTCAATTGTT
2431830 GGTTTTTT
1 GGTTTTTT
2431838 AATGGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 11 0.48
21 5 0.22
ACGTcount: A:0.16, C:0.04, G:0.14, T:0.65
Consensus pattern (21 bp):
GGTTTTTTCAATTCAATTGTT
Found at i:2435305 original size:17 final size:18
Alignment explanation
Indices: 2435283--2435322 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
2435273 ATGATAAGGG
2435283 TTCATACATA-TTTGACT
1 TTCATACATATTTTGACT
*
2435300 TTCATATATATTTTGACT
1 TTCATACATATTTTGACT
2435318 TTCAT
1 TTCAT
2435323 TTTCCTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.53
Consensus pattern (18 bp):
TTCATACATATTTTGACT
Found at i:2436437 original size:328 final size:328
Alignment explanation
Indices: 2435840--2436497 Score: 1316
Period size: 328 Copynumber: 2.0 Consensus size: 328
2435830 ACTATTAATC
2435840 ATAATCTATCATTCAATTATCTATCTAAAGCACTAGTAAAACTTCCAAATTAAACCAATTAAATA
1 ATAATCTATCATTCAATTATCTATCTAAAGCACTAGTAAAACTTCCAAATTAAACCAATTAAATA
2435905 GTCTATAGCGTCCAATTACAACTCGAAAATTGTAACTAAGTCTAATTTTAAATCTCATAATTTAG
66 GTCTATAGCGTCCAATTACAACTCGAAAATTGTAACTAAGTCTAATTTTAAATCTCATAATTTAG
2435970 CCTCACATTGCTTTTCTTATTGGGTTTGGGAACACAACAACATACTTAGGTGTAGCATCGTTATG
131 CCTCACATTGCTTTTCTTATTGGGTTTGGGAACACAACAACATACTTAGGTGTAGCATCGTTATG
2436035 GATCACTTGCACACTATATCACTGTAATATTATAAAAGATTGTGTAAGTTTATAAAAACTCAGTG
196 GATCACTTGCACACTATATCACTGTAATATTATAAAAGATTGTGTAAGTTTATAAAAACTCAGTG
2436100 AGTAGTTTGACATACTACATTTAAACTCCTATGCATAGGCTAAGATAACATATGCGAACCTCTAC
261 AGTAGTTTGACATACTACATTTAAACTCCTATGCATAGGCTAAGATAACATATGCGAACCTCTAC
2436165 TTA
326 TTA
2436168 ATAATCTATCATTCAATTATCTATCTAAAGCACTAGTAAAACTTCCAAATTAAACCAATTAAATA
1 ATAATCTATCATTCAATTATCTATCTAAAGCACTAGTAAAACTTCCAAATTAAACCAATTAAATA
2436233 GTCTATAGCGTCCAATTACAACTCGAAAATTGTAACTAAGTCTAATTTTAAATCTCATAATTTAG
66 GTCTATAGCGTCCAATTACAACTCGAAAATTGTAACTAAGTCTAATTTTAAATCTCATAATTTAG
2436298 CCTCACATTGCTTTTCTTATTGGGTTTGGGAACACAACAACATACTTAGGTGTAGCATCGTTATG
131 CCTCACATTGCTTTTCTTATTGGGTTTGGGAACACAACAACATACTTAGGTGTAGCATCGTTATG
2436363 GATCACTTGCACACTATATCACTGTAATATTATAAAAGATTGTGTAAGTTTATAAAAACTCAGTG
196 GATCACTTGCACACTATATCACTGTAATATTATAAAAGATTGTGTAAGTTTATAAAAACTCAGTG
2436428 AGTAGTTTGACATACTACATTTAAACTCCTATGCATAGGCTAAGATAACATATGCGAACCTCTAC
261 AGTAGTTTGACATACTACATTTAAACTCCTATGCATAGGCTAAGATAACATATGCGAACCTCTAC
2436493 TTA
326 TTA
2436496 AT
1 AT
2436498 TAATATGCGA
Statistics
Matches: 330, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
328 330 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (328 bp):
ATAATCTATCATTCAATTATCTATCTAAAGCACTAGTAAAACTTCCAAATTAAACCAATTAAATA
GTCTATAGCGTCCAATTACAACTCGAAAATTGTAACTAAGTCTAATTTTAAATCTCATAATTTAG
CCTCACATTGCTTTTCTTATTGGGTTTGGGAACACAACAACATACTTAGGTGTAGCATCGTTATG
GATCACTTGCACACTATATCACTGTAATATTATAAAAGATTGTGTAAGTTTATAAAAACTCAGTG
AGTAGTTTGACATACTACATTTAAACTCCTATGCATAGGCTAAGATAACATATGCGAACCTCTAC
TTA
Found at i:2444117 original size:19 final size:19
Alignment explanation
Indices: 2444093--2444165 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
2444083 TACAATGTTT
*
2444093 ATATATCTTTTTTGCTTAA
1 ATATATATTTTTTGCTTAA
* **
2444112 ATATATATTTTTTGGATGTTT
1 ATATATATTTTTT-GCT-TAA
*
2444133 ATATATCTTTTTTGCTTAA
1 ATATATATTTTTTGCTTAA
2444152 ATATATATTTTTTG
1 ATATATATTTTTTG
2444166 GATTCTGTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
19 26 0.60
20 4 0.09
21 13 0.30
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.60
Consensus pattern (19 bp):
ATATATATTTTTTGCTTAA
Found at i:2444118 original size:21 final size:20
Alignment explanation
Indices: 2444092--2444164 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
2444082 GTACAATGTT
2444092 TATATATCTTTTTTGCTTAAA
1 TATATAT-TTTTTTGCTTAAA
* * *
2444113 TATATATTTTTTGGATGT--T
1 TATATATTTTTTTGCT-TAAA
2444132 TATATATCTTTTTTGCTTAAA
1 TATATAT-TTTTTTGCTTAAA
2444153 TATATATTTTTT
1 TATATATTTTTT
2444165 GGATTCTGTT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
19 8 0.19
20 19 0.45
21 15 0.36
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.62
Consensus pattern (20 bp):
TATATATTTTTTTGCTTAAA
Found at i:2444142 original size:40 final size:40
Alignment explanation
Indices: 2444087--2444168 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
2444077 TACTCGTACA
2444087 ATGTTTATATATCTTTTTTGCTTAAATATATATTTTTTGG
1 ATGTTTATATATCTTTTTTGCTTAAATATATATTTTTTGG
2444127 ATGTTTATATATCTTTTTTGCTTAAATATATATTTTTTGG
1 ATGTTTATATATCTTTTTTGCTTAAATATATATTTTTTGG
2444167 AT
1 AT
2444169 TCTGTTTGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (40 bp):
ATGTTTATATATCTTTTTTGCTTAAATATATATTTTTTGG
Found at i:2459844 original size:22 final size:23
Alignment explanation
Indices: 2459818--2459862 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
2459808 AAGTAAATTA
*
2459818 AATATTTAAATATAAT-TTTTTT
1 AATATTTAAATAAAATATTTTTT
2459840 AATATTTAAATAAAATATTTTTT
1 AATATTTAAATAAAATATTTTTT
2459863 CCTATATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
AATATTTAAATAAAATATTTTTT
Found at i:2461877 original size:20 final size:20
Alignment explanation
Indices: 2461821--2461877 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
2461811 TTTTTGTTTC
* *
2461821 TATTTTTTAAAAAATTTATA
1 TATTTTTTTAAAATTTTATA
** *
2461841 TATTTTTTCTTTGAATTTTATG
1 TA-TTTTT-TTAAAATTTTATA
2461863 TATTTTTTTAAAATT
1 TATTTTTTTAAAATT
2461878 CTGAAGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
20 8 0.29
21 10 0.36
22 10 0.36
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TATTTTTTTAAAATTTTATA
Found at i:2463460 original size:27 final size:25
Alignment explanation
Indices: 2463430--2463512 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 25
2463420 TATTGGTTAA
*
2463430 TTTAAACTATTTTCATGTATTATTTAT
1 TTTAAA-T-TTTTTATGTATTATTTAT
* *
2463457 TTT-ATTTTTTTACGTATTATTTAT
1 TTTAAATTTTTTATGTATTATTTAT
2463481 TTTAAAAGTTGTTTTATG-ATTATTTAT
1 TTT-AAA-TT-TTTTATGTATTATTTAT
2463508 TTTAA
1 TTTAA
2463513 GATATTGTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 19 0.40
25 1 0.02
26 4 0.09
27 17 0.36
28 6 0.13
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.63
Consensus pattern (25 bp):
TTTAAATTTTTTATGTATTATTTAT
Found at i:2465137 original size:17 final size:17
Alignment explanation
Indices: 2465117--2465178 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 17
2465107 CTACCATAAA
2465117 TATAATAAATATTTTAT
1 TATAATAAATATTTTAT
* ** * *
2465134 TATATTAAA-AAGTAAA
1 TATAATAAATATTTTAT
2465150 TATAATAAATATTTTAT
1 TATAATAAATATTTTAT
* *
2465167 TGTATTAAATAT
1 TATAATAAATAT
2465179 AATTTTTAAA
Statistics
Matches: 32, Mismatches: 12, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
16 11 0.34
17 21 0.66
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATAATAAATATTTTAT
Found at i:2465150 original size:33 final size:33
Alignment explanation
Indices: 2465113--2465175 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
2465103 AATACTACCA
2465113 TAAATATAATAAATATTTTATTATATTAAAAAG
1 TAAATATAATAAATATTTTATTATATTAAAAAG
*
2465146 TAAATATAATAAATATTTTATTGTATTAAA
1 TAAATATAATAAATATTTTATTATATTAAA
2465176 TATAATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (33 bp):
TAAATATAATAAATATTTTATTATATTAAAAAG
Found at i:2466926 original size:14 final size:14
Alignment explanation
Indices: 2466900--2466941 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
2466890 TCAATAATAA
2466900 TTTATTAAAATATT
1 TTTATTAAAATATT
2466914 TTTA-TAAATATATT
1 TTTATTAAA-ATATT
2466928 TTTAATGTAAAATA
1 TTT-AT-TAAAATA
2466942 ATTTCATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 4 0.17
14 12 0.50
15 1 0.04
16 3 0.12
17 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TTTATTAAAATATT
Found at i:2468161 original size:3 final size:3
Alignment explanation
Indices: 2468153--2468188 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
2468143 AATCTAGTCC
* *
2468153 TAT TAT TAT TAT TAT TAT TAT CAT TAT TGT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2468189 CCTTTTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2539253 original size:13 final size:14
Alignment explanation
Indices: 2539236--2539268 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
2539226 TTTTTCTGTC
2539236 CTTTTTTTTGTTTT
1 CTTTTTTTTGTTTT
2539250 -TTTTTTTTGTTTT
1 CTTTTTTTTGTTTT
2539263 CTTTTT
1 CTTTTT
2539269 CTTTTCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (14 bp):
CTTTTTTTTGTTTT
Found at i:2543676 original size:12 final size:12
Alignment explanation
Indices: 2543659--2543713 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
2543649 ACATATATGT
2543659 ATAATAATGATGA
1 ATAATAATGAT-A
*
2543672 A-AATAATAATA
1 ATAATAATGATA
*
2543683 ATAATAATGAAA
1 ATAATAATGATA
2543695 ATAAATAAT-ATA
1 AT-AATAATGATA
2543707 ATAATAA
1 ATAATAA
2543714 ATATAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 7 0.19
12 22 0.61
13 7 0.19
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (12 bp):
ATAATAATGATA
Found at i:2543679 original size:3 final size:3
Alignment explanation
Indices: 2543659--2543713 Score: 53
Period size: 3 Copynumber: 18.3 Consensus size: 3
2543649 ACATATATGT
*
2543659 ATA ATA ATG ATGA A-A ATA ATA ATA ATA ATA ATGA A-A ATAA ATA AT-
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA AT-A ATA AT-A ATA ATA
2543704 ATA ATA ATA A
1 ATA ATA ATA A
2543714 ATATAATAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
2 6 0.14
3 32 0.73
4 6 0.14
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:2543685 original size:21 final size:21
Alignment explanation
Indices: 2543659--2543721 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
2543649 ACATATATGT
*
2543659 ATAATAATGATGAAAATAATA
1 ATAATAATAATGAAAATAATA
2543680 ATAATAATAATGAAAATAAATA
1 ATAATAATAATGAAAAT-AATA
2543702 AT-ATAATAAT-AAATATAATA
1 ATAATAATAATGAAA-ATAATA
2543722 GTAAAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 7 0.18
21 26 0.67
22 6 0.15
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (21 bp):
ATAATAATAATGAAAATAATA
Found at i:2543886 original size:26 final size:26
Alignment explanation
Indices: 2543826--2543890 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 26
2543816 TACGAAGAAG
*
2543826 TATATATAATATAATAATAATATTAA
1 TATAAATAATATAATAATAATATTAA
*
2543852 AATACAATAAT-TAA-AAGTAATATTATA
1 TATA-AATAATATAATAA-TAATATTA-A
2543879 TATAAAT-ATATA
1 TATAAATAATATA
2543891 CAATATTCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
25 4 0.12
26 19 0.59
27 9 0.28
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (26 bp):
TATAAATAATATAATAATAATATTAA
Found at i:2546051 original size:16 final size:16
Alignment explanation
Indices: 2545997--2546042 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
2545987 TTGAATTACT
*
2545997 AATTACAGCTCTATTC
1 AATTACAACTCTATTC
* *
2546013 TATTATAACTCTATTC
1 AATTACAACTCTATTC
2546029 AATTACAACTCTAT
1 AATTACAACTCTAT
2546043 ACCATTACAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.41
Consensus pattern (16 bp):
AATTACAACTCTATTC
Found at i:2547579 original size:21 final size:21
Alignment explanation
Indices: 2547555--2547596 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2547545 TATATGTAAA
2547555 TTATTACATATTATATTATTT
1 TTATTACATATTATATTATTT
**
2547576 TTATTATTTATTATATTATTT
1 TTATTACATATTATATTATTT
2547597 ATATATCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTACATATTATATTATTT
Found at i:2547592 original size:12 final size:12
Alignment explanation
Indices: 2547503--2547614 Score: 61
Period size: 12 Copynumber: 9.0 Consensus size: 12
2547493 TTTGCATAAT
2547503 TTATTTATTA-A
1 TTATTTATTATA
*
2547514 ATACTTTA-TATA
1 TTA-TTTATTATA
*
2547526 TTATTTATTTTA
1 TTATTTATTATA
*
2547538 CTATATTTA-TATG
1 -T-TATTTATTATA
* *
2547551 TAAATTATTACATA
1 TTATTTATT--ATA
*
2547565 TTATATTATTTTTA
1 TTAT-TTA-TTATA
2547579 TTATTTATTATA
1 TTATTTATTATA
2547591 TTATTTA-TATA
1 TTATTTATTATA
*
2547602 TCATTTTATTATA
1 TTA-TTTATTATA
2547615 AACTATTTAT
Statistics
Matches: 76, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
11 18 0.24
12 27 0.36
13 10 0.13
14 16 0.21
15 3 0.04
16 2 0.03
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (12 bp):
TTATTTATTATA
Done.