Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 85 of 213
Found at i:23310120 original size:33 final size:33
Alignment explanation
Indices: 23310062--23310145 Score: 118
Period size: 33 Copynumber: 2.6 Consensus size: 33
23310052 ACCAAAAATT
*
23310062 TATTTTAAAAATT--AAAAAAATTATTTTAAAAA
1 TATTTT-AAAATTAAAAAAAAAGTATTTTAAAAA
*
23310094 TATTTTAAAATTAAAAAAAAAGTATTTTAAAAG
1 TATTTTAAAATTAAAAAAAAAGTATTTTAAAAA
*
23310127 TATTTTGAAATTAAAAAAA
1 TATTTTAAAATTAAAAAAA
23310146 TAAAAAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
31 6 0.13
32 6 0.13
33 35 0.74
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (33 bp):
TATTTTAAAATTAAAAAAAAAGTATTTTAAAAA
Found at i:23313263 original size:29 final size:29
Alignment explanation
Indices: 23313221--23313281 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
23313211 TCTAACTTGT
* *
23313221 ATCACTTCTTTACCCTTGAAGTCCGATGC
1 ATCACTCCTTTACCCTTGAAGTCCGATAC
23313250 ATCACTCCTTTACCCTTGAAGTCCGATAC
1 ATCACTCCTTTACCCTTGAAGTCCGATAC
23313279 ATC
1 ATC
23313282 GCCCATCTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.11, T:0.33
Consensus pattern (29 bp):
ATCACTCCTTTACCCTTGAAGTCCGATAC
Found at i:23317884 original size:18 final size:17
Alignment explanation
Indices: 23317861--23317897 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
23317851 ATTAATTTAG
23317861 ATCAAGAATGAATGGAAA
1 ATCAAGAA-GAATGGAAA
*
23317879 ATCAAGGAGAATGGAAA
1 ATCAAGAAGAATGGAAA
23317896 AT
1 AT
23317898 TACCAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.54, C:0.05, G:0.24, T:0.16
Consensus pattern (17 bp):
ATCAAGAAGAATGGAAA
Found at i:23319030 original size:20 final size:20
Alignment explanation
Indices: 23318983--23319038 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
23318973 AGTTTATGCT
* * * *
23318983 AAGTAAATGAAAGGGAAAGT
1 AAGTAAATGGAATGGTAAGA
*
23319003 AAGAAAATGGAATGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
23319023 AAGTAAATAGAATGGT
1 AAGTAAATGGAATGGT
23319039 TCATAGTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.54, C:0.00, G:0.29, T:0.18
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:23335188 original size:28 final size:29
Alignment explanation
Indices: 23335157--23335216 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
23335147 AAATTGATAT
*
23335157 AAACTTATGAAAATTA-AAAAAATCATAA
1 AAACTTATCAAAATTATAAAAAATCATAA
* * *
23335185 AAACTTATCAATATTATGAAAATTCATAA
1 AAACTTATCAAAATTATAAAAAATCATAA
23335214 AAA
1 AAA
23335217 ATCTAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.28
Consensus pattern (29 bp):
AAACTTATCAAAATTATAAAAAATCATAA
Found at i:23335241 original size:10 final size:10
Alignment explanation
Indices: 23335107--23335325 Score: 66
Period size: 9 Copynumber: 23.3 Consensus size: 10
23335097 ATTAACAAGT
23335107 TTATAAAAAA
1 TTATAAAAAA
*
23335117 -TAT-AAAAC
1 TTATAAAAAA
23335125 TTACT-AAAAA
1 TTA-TAAAAAA
23335135 TTA-AAAAAA
1 TTATAAAAAA
23335144 -T-T--AAAA
1 TTATAAAAAA
* *
23335150 TTGATATAAAC
1 TT-ATAAAAAA
*
23335161 TTAT-GAAAA
1 TTATAAAAAA
23335170 TTA-AAAAAA
1 TTATAAAAAA
* *
23335179 TCATAAAAAC
1 TTATAAAAAA
* *
23335189 TTAT-CAATA
1 TTATAAAAAA
*
23335198 TTAT-GAAAA
1 TTATAAAAAA
23335207 TTCATAAAAAA
1 TT-ATAAAAAA
* * *
23335218 -TCTAATATA
1 TTATAAAAAA
23335227 TTATAAAAAA
1 TTATAAAAAA
23335237 TTAT--AAAA
1 TTATAAAAAA
23335245 TTAATAAAACATA
1 TT-ATAAAA-A-A
*
23335258 TT-TAAAACA
1 TTATAAAAAA
**
23335267 TT-TAAAATT
1 TTATAAAAAA
*
23335276 TTATAAAAAT
1 TTATAAAAAA
*
23335286 TTAT-AGAAA
1 TTATAAAAAA
23335295 -T-TAAAAAA
1 TTATAAAAAA
23335303 -TATATAAAAA
1 TTATA-AAAAA
*
23335313 TTATGAAAAA
1 TTATAAAAAA
23335323 TTA
1 TTA
23335326 GAAATTATTA
Statistics
Matches: 156, Mismatches: 29, Indels: 48
0.67 0.12 0.21
Matches are distributed among these distances:
6 4 0.03
7 2 0.01
8 17 0.11
9 56 0.36
10 54 0.35
11 19 0.12
12 1 0.01
13 3 0.02
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:23335310 original size:28 final size:28
Alignment explanation
Indices: 23335277--23335339 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
23335267 TTTAAAATTT
*
23335277 TATAAAAATTTAT-AGAAATTAAAAAATA
1 TATAAAAA-TTATGAAAAATTAAAAAATA
* *
23335305 TATAAAAATTATGAAAAATTAGAAATTA
1 TATAAAAATTATGAAAAATTAAAAAATA
23335333 T-TAAAAA
1 TATAAAAA
23335340 ACTCATTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.32
28 21 0.68
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (28 bp):
TATAAAAATTATGAAAAATTAAAAAATA
Found at i:23339018 original size:23 final size:22
Alignment explanation
Indices: 23338975--23339018 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
23338965 TTCTAAGTCG
23338975 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
23338998 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
23339019 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:23339220 original size:51 final size:50
Alignment explanation
Indices: 23339162--23339348 Score: 238
Period size: 51 Copynumber: 3.7 Consensus size: 50
23339152 TCGGTTCACA
*
23339162 TAGTAGCCTGCACATAGTACTACACATGTGACCATTATCATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TATCATTCGATACACG
* * * *
23339213 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATCTGGTATGCA--
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATATC-AT-TCG-ATACACG
*
23339264 TAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATT-CGATACACG
23339314 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
23339349 CACTTTCACT
Statistics
Matches: 116, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
48 5 0.04
49 3 0.03
50 37 0.32
51 63 0.54
52 4 0.03
53 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATATCATTCGATACACG
Found at i:23339339 original size:101 final size:101
Alignment explanation
Indices: 23339160--23339344 Score: 345
Period size: 101 Copynumber: 1.8 Consensus size: 101
23339150 GTTCGGTTCA
23339160 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCATTCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCA-TATCATTCGATACACGTAGTAGCCTGCA
23339225 CATAGTACTACACACGTGATCGAAACTATCTGGTATG
65 CATAGTACTACACACGTGATCGAAACTATCTGGTATG
23339262 CATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATT-CGATACACGTAGTAGCCTGCA
23339326 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
23339345 CCATCACTTT
Statistics
Matches: 82, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
100 7 0.09
101 40 0.49
102 35 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGTGACCATATCATTCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCTGGTATG
Found at i:23341940 original size:4 final size:4
Alignment explanation
Indices: 23341896--23341924 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
23341886 CAAAATAAAT
23341896 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA A
23341925 ATCAACTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:23343859 original size:10 final size:10
Alignment explanation
Indices: 23343844--23344137 Score: 66
Period size: 10 Copynumber: 30.1 Consensus size: 10
23343834 TTCTTAAAAA
23343844 TTATAATTTT
1 TTATAATTTT
**
23343854 TTATAATTCA
1 TTATAATTTT
* * *
23343864 TTAGAACTTA
1 TTATAATTTT
*
23343874 TTATGAATCTT
1 TTAT-AATTTT
*
23343885 TTATAACTTT
1 TTATAATTTT
* *
23343895 TGAAAATTTTTT
1 TTATAA--TTTT
23343907 TTGATAA-TTT
1 TT-ATAATTTT
*
23343917 TTATAAGTTT
1 TTATAATTTT
* *
23343927 ATAGAATGTTT
1 TTATAAT-TTT
23343938 TTAT-ATTTT
1 TTATAATTTT
* *
23343947 TAAT-A-TGT
1 TTATAATTTT
*
23343955 TT-T-ATCTT
1 TTATAATTTT
23343963 TTATAATTACTT
1 TTATAATT--TT
*
23343975 TTATAATTTA
1 TTATAATTTT
23343985 TTAGT-A-TTT
1 TTA-TAATTTT
23343994 TTATAA-TTT
1 TTATAATTTT
*
23344003 TTATAA-TAT
1 TTATAATTTT
* *
23344012 TTAAAAGTTT
1 TTATAATTTT
23344022 TTATGAATTTT
1 TTAT-AATTTT
* *
23344033 TT-CAA-GTT
1 TTATAATTTT
*
23344041 TTATGATTTT
1 TTATAATTTT
* **
23344051 TTGT-AGCTT
1 TTATAATTTT
*
23344060 TTATAAGTTT
1 TTATAATTTT
* *
23344070 CTATAAATATT
1 TTAT-AATTTT
*
23344081 TCAT-ATTTT
1 TTATAATTTT
23344090 TTAATAA--TT
1 TT-ATAATTTT
*
23344099 TTA-AATTTG
1 TTATAATTTT
* *
23344108 TAATAATCTT
1 TTATAATTTT
*
23344118 TTATGA-TTT
1 TTATAATTTT
23344127 TTATAATTTT
1 TTATAATTTT
23344137 T
1 T
23344138 ATGAGAAAAA
Statistics
Matches: 200, Mismatches: 59, Indels: 50
0.65 0.19 0.16
Matches are distributed among these distances:
7 4 0.02
8 12 0.06
9 62 0.31
10 78 0.39
11 27 0.14
12 14 0.07
13 3 0.01
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.59
Consensus pattern (10 bp):
TTATAATTTT
Found at i:23343984 original size:19 final size:19
Alignment explanation
Indices: 23343962--23344002 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
23343952 TGTTTTATCT
*
23343962 TTTATAATTACTTTTATAA
1 TTTATAAGTACTTTTATAA
* *
23343981 TTTATTAGTATTTTTATAA
1 TTTATAAGTACTTTTATAA
23344000 TTT
1 TTT
23344003 TTATAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTATAAGTACTTTTATAA
Found at i:23345247 original size:20 final size:20
Alignment explanation
Indices: 23345224--23345266 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
23345214 CATTTTTTTA
23345224 TTTTCTTCTTTCT-TTTCCTC
1 TTTTCTT-TTTCTATTTCCTC
23345244 TTTTCTTTTTCTATTTCCTC
1 TTTTCTTTTTCTATTTCCTC
23345264 TTT
1 TTT
23345267 CAATTGAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTCTTTTTCTATTTCCTC
Found at i:23345247 original size:26 final size:27
Alignment explanation
Indices: 23345204--23345268 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 27
23345194 ACGTCAAATC
*
23345204 CTTTCCTTTTCAT-TTTTTTATTTTCTT
1 CTTTCCTTTTCATCTTTTCT-TTTTCTT
*
23345231 CTTT-CTTTTCCTCTTTTCTTTTTC-T
1 CTTTCCTTTTCATCTTTTCTTTTTCTT
*
23345256 ATTTCCTCTTTCA
1 CTTTCCT-TTTCA
23345269 ATTGAGTTCT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 4 0.13
26 14 0.45
27 13 0.42
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (27 bp):
CTTTCCTTTTCATCTTTTCTTTTTCTT
Found at i:23346269 original size:2 final size:2
Alignment explanation
Indices: 23346264--23346315 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
23346254 ACGTTATATA
23346264 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23346306 TG TG TG TG TG
1 TG TG TG TG TG
23346316 AATTTGGCGC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23348405 original size:14 final size:14
Alignment explanation
Indices: 23348386--23348419 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
23348376 ATAAAATGAA
23348386 AATAAAAATCTAAT
1 AATAAAAATCTAAT
23348400 AAT-AAAATCTAAT
1 AATAAAAATCTAAT
23348413 AGATAAA
1 A-ATAAA
23348420 TACTTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.61
14 5 0.28
15 2 0.11
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAAAAATCTAAT
Found at i:23348408 original size:13 final size:14
Alignment explanation
Indices: 23348390--23348419 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
23348380 AATGAAAATA
23348390 AAAATCTAATA-AT
1 AAAATCTAATAGAT
23348403 AAAATCTAATAGAT
1 AAAATCTAATAGAT
23348417 AAA
1 AAA
23348420 TACTTAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.63, C:0.07, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAATCTAATAGAT
Found at i:23355510 original size:139 final size:139
Alignment explanation
Indices: 23355260--23355517 Score: 421
Period size: 139 Copynumber: 1.9 Consensus size: 139
23355250 AGAAAATGGA
23355260 AAAACGAATACTTACCGAATCGAGCGAGTTCAACCGTCAAGCACGATGAAGGAATAAAAGAAATC
1 AAAACGAATACTTACCGAATCGAGCGAGTTCAACCGTCAAGCACGATGAAGGAATAAAAGAAATC
*
23355325 AAAAGAAAAGAGGGAGGAAACAATGAAAATTTGGCAGAAAAAGGGTGAATAAACATCAGAATGAT
66 AAAAGAAAAGAGGGAGGAAACAATGAAAATTCGGCAGAAAAAGGGTGAATAAACATCAGAATGAT
23355390 AGAAGTGGC
131 AGAAGTGGC
* * *
23355399 AAAACGAATACTTACCGAATCGAGCGAGTTCAATCGTCGAA-CACGAT-AGAGGCATAAAAGGAA
1 AAAACGAATACTTACCGAATCGAGCGAGTTCAACCGTC-AAGCACGATGA-AGGAATAAAAGAAA
* **
23355462 TCAAAAGAAAAGAGGGATGAAACAATGAAAATTCGTTAGAAAAAGGGTGAATAAAC
64 TCAAAAGAAAAGAGGGAGGAAACAATGAAAATTCGGCAGAAAAAGGGTGAATAAAC
23355518 GTCAAAACAA
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
138 1 0.01
139 107 0.97
140 2 0.02
ACGTcount: A:0.48, C:0.13, G:0.24, T:0.15
Consensus pattern (139 bp):
AAAACGAATACTTACCGAATCGAGCGAGTTCAACCGTCAAGCACGATGAAGGAATAAAAGAAATC
AAAAGAAAAGAGGGAGGAAACAATGAAAATTCGGCAGAAAAAGGGTGAATAAACATCAGAATGAT
AGAAGTGGC
Found at i:23356758 original size:28 final size:29
Alignment explanation
Indices: 23356715--23356770 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
23356705 TGTAAAGTAA
*
23356715 GGGATAAAATTGTAAAATCTAAA-AAATAG
1 GGGATAAAATTATAAAATC-AAAGAAATAG
23356744 GGGA-AAAATTATAAAATCAAAGAAATA
1 GGGATAAAATTATAAAATCAAAGAAATA
23356771 AAGAACAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 3 0.12
28 18 0.72
29 4 0.16
ACGTcount: A:0.59, C:0.04, G:0.16, T:0.21
Consensus pattern (29 bp):
GGGATAAAATTATAAAATCAAAGAAATAG
Found at i:23361033 original size:20 final size:21
Alignment explanation
Indices: 23361010--23361049 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23361000 TTTGTACTTA
*
23361010 TCTAATGTC-TTTTTCTTTCT
1 TCTAATGTCATTTATCTTTCT
*
23361030 TCTAATTTCATTTATCTTTC
1 TCTAATGTCATTTATCTTTC
23361050 CAAGTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.15, C:0.20, G:0.03, T:0.62
Consensus pattern (21 bp):
TCTAATGTCATTTATCTTTCT
Found at i:23361230 original size:20 final size:20
Alignment explanation
Indices: 23361207--23361244 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23361197 TATTTTCAAG
23361207 TTTATA-ATATATTTTTTTCT
1 TTTATATAT-TATTTTTTTCT
23361227 TTTATATATTATTTTTTT
1 TTTATATATTATTTTTTT
23361245 GGTATTCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATATATTATTTTTTTCT
Found at i:23363782 original size:29 final size:29
Alignment explanation
Indices: 23363749--23363816 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
23363739 ATCGACAAAT
** *
23363749 GAAAAGGGATAGTTTCGGCTATCGAATAC
1 GAAAAGGGATACCTTCAGCTATCGAATAC
* * *
23363778 GAAAAGTGATACCTTCAGCTATCGATTAT
1 GAAAAGGGATACCTTCAGCTATCGAATAC
23363807 GAAAAGGGAT
1 GAAAAGGGAT
23363817 GCTGACAACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (29 bp):
GAAAAGGGATACCTTCAGCTATCGAATAC
Found at i:23363837 original size:29 final size:29
Alignment explanation
Indices: 23363805--23363964 Score: 162
Period size: 30 Copynumber: 5.4 Consensus size: 29
23363795 GCTATCGATT
* *
23363805 ATGAAAAGGGATGCTGACAACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
*
23363834 ATGAAAAGGGATGGTGACGACCATCGACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
* ** * *
23363863 ATGAAAAGGGATAGCT-TTGGCTATCAA-A
1 ATGAAAAGGGAT-GGTGACGACCATCAACA
* *
23363891 TTATGAAAAGGGATGGTGATGACCATCAGATA
1 --ATGAAAAGGGATGGTGACGACCATCA-ACA
*
23363923 ATGAAAAGGGATGGTGACGACCATCGAACT
1 ATGAAAAGGGATGGTGACGACCATC-AACA
23363953 ATGAAAAGGGAT
1 ATGAAAAGGGAT
23363965 AACTTCAACT
Statistics
Matches: 108, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.01
29 46 0.43
30 58 0.54
31 2 0.02
32 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.19
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACA
Found at i:23363899 original size:30 final size:30
Alignment explanation
Indices: 23363863--23364054 Score: 120
Period size: 30 Copynumber: 6.4 Consensus size: 30
23363853 ACCATCGACA
* *
23363863 ATGAAAAGGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * * *
23363893 ATGAAAAGGGAT-GGTGAT-GACCATCAGATA
1 ATGAAAAGGGATAGCT--TCGACTATCAAATT
* * * * *
23363923 ATGAAAAGGGAT-GGTGACGACCATCGAACT
1 ATGAAAAGGGATAGCT-TCGACTATCAAATT
* *
23363953 ATGAAAAGGGATAACTTCAACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* * * * **
23363983 ATGAAAATGGATAGCTTCGGCTGTCGAACA
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
* ** *
23364013 ATGAAAAGGGATAACTTCGGTTATCAAATC
1 ATGAAAAGGGATAGCTTCGACTATCAAATT
*
23364043 ACGAAAAGGGAT
1 ATGAAAAGGGAT
23364055 GTGTCAACCA
Statistics
Matches: 124, Mismatches: 34, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
29 2 0.02
30 120 0.97
31 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCAAATT
Found at i:23363987 original size:60 final size:59
Alignment explanation
Indices: 23363923--23364055 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 59
23363913 CCATCAGATA
* * *
23363923 ATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGGATAACTTCAACTATCAAATT
1 ATGAAAAGGGATGCT-ACGACCATCGAACAATGAAAAGGGATAACTTCAACTATCAAATC
* * * ** ***
23363983 ATGAAAATGGATAGCTTCGGCTGTCGAACAATGAAAAGGGATAACTTCGGTTATCAAATC
1 ATGAAAAGGGAT-GCTACGACCATCGAACAATGAAAAGGGATAACTTCAACTATCAAATC
*
23364043 ACGAAAAGGGATG
1 ATGAAAAGGGATG
23364056 TGTCAACCAT
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 1 0.02
60 56 0.95
61 2 0.03
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (59 bp):
ATGAAAAGGGATGCTACGACCATCGAACAATGAAAAGGGATAACTTCAACTATCAAATC
Found at i:23364024 original size:90 final size:87
Alignment explanation
Indices: 23363778--23363994 Score: 265
Period size: 90 Copynumber: 2.5 Consensus size: 87
23363768 TATCGAATAC
* * * * **
23363778 GAAAAGTGATACCTTCAGCTATC-GATTATGAAAAGGGATGCTGACAACCATCAACAATGAAAAG
1 GAAAAGGGATAACTTCAACTATCAAATTATGAAAAGGGATGCT-ATGACCATCAACAATGAAAAG
23363842 GGATGGTGACGACCATCGACAAT
65 GGATGGTGACGACCATCGACAAT
* *** * *
23363865 GAAAAGGGATAGCTTTGGCTATCAAATTATGAAAAGGGATGGTGATGACCATCAGATAATGAAAA
1 GAAAAGGGATAACTTCAACTATCAAATTATGAAAAGGGATGCT-ATGACCATCA-ACAATGAAAA
*
23363930 GGGATGGTGACGACCATCGAACTAT
64 GGGATGGTGACGACCATCG-ACAAT
*
23363955 GAAAAGGGATAACTTCAACTATCAAATTATGAAAATGGAT
1 GAAAAGGGATAACTTCAACTATCAAATTATGAAAAGGGAT
23363995 AGCTTCGGCT
Statistics
Matches: 112, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
87 19 0.17
88 26 0.23
89 28 0.25
90 39 0.35
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (87 bp):
GAAAAGGGATAACTTCAACTATCAAATTATGAAAAGGGATGCTATGACCATCAACAATGAAAAGG
GATGGTGACGACCATCGACAAT
Found at i:23371613 original size:30 final size:30
Alignment explanation
Indices: 23371462--23371818 Score: 205
Period size: 30 Copynumber: 12.0 Consensus size: 30
23371452 TCATCGACAA
* * *
23371462 ATGAAAAGGGATAGTTTGGGCTATCGAA-T
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * *
23371491 ATGAAAAAGGATAGCTCCGACTATTG-ATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * **
23371520 ATGAAAAGGGAT-GGTGAT-GACCATC-AACA
1 ATGAAAAGGGATAGCT--TCGACTATCGAATT
* * * * *
23371549 ATGAAAAAGGAT-GGTAACGACCATCG-ACT
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* *
23371578 ATGAAAAGGGATAGCTTCGGCTATCCAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * *
23371608 ATGAAAAGGGAT-GGTGAT-GACCATCGAATA
1 ATGAAAAGGGATAGCT--TCGACTATCGAATT
* * * *
23371638 ATGAAAAGGGAT-GGTGACGACCATCGAACT
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* *
23371668 ATGAAAAGGAATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * * * *
23371698 ATGAAAAGGGAT-GGTGACGACCATTGAACT
1 ATGAAAAGGGATAGCT-TCGACTATCGAATT
* *
23371728 ATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* * * * *
23371758 ATGAAAAGGGATGGCTTTGGCTATTGAACT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
* **
23371788 ATGAAAAGGGATAACTTCGGTTATCGAATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATT
23371818 A
1 A
23371819 CAAAAAAGGA
Statistics
Matches: 251, Mismatches: 63, Indels: 27
0.74 0.18 0.08
Matches are distributed among these distances:
28 4 0.02
29 82 0.33
30 160 0.64
31 5 0.02
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATT
Found at i:23371791 original size:90 final size:90
Alignment explanation
Indices: 23371484--23371799 Score: 356
Period size: 90 Copynumber: 3.6 Consensus size: 90
23371474 AGTTTGGGCT
* * * *
23371484 ATCGAA-TATGAAAAAGGATAGCTCCGACTATTG-ATTATGAAAAGGGATGGTGATGACCA-TCA
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGATGACCATTGA
* *
23371546 ACAATGAAAAAGGATGGTAACGACC
66 ACTATGAAAAGGGATGGTAACGACC
* * *
23371571 ATCG-ACTATGAAAAGGGATAGCTTCGGCTATCCAATTATGAAAAGGGATGGTGATGACCATCGA
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGATGACCATTGA
*
23371635 A-TAATGAAAAGGGATGGTGACGACC
66 ACT-ATGAAAAGGGATGGTAACGACC
* * *
23371660 ATCGAACTATGAAAAGGAATAGCTTCGACTATCAAATTATGAAAAGGGATGGTGACGACCATTGA
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGATGACCATTGA
* * * *
23371725 ACTATGAAAAGGGATAGCT-TCGGCT
66 ACTATGAAAAGGGAT-GGTAACGACC
* * * * * * *
23371750 ATCAAATTATGAAAAGGGATGGCTTTGGCTATTGAACTATGAAAAGGGAT
1 ATCGAACTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGAT
23371800 AACTTCGGTT
Statistics
Matches: 194, Mismatches: 28, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
86 1 0.01
87 26 0.13
88 26 0.13
89 26 0.13
90 112 0.58
91 3 0.02
ACGTcount: A:0.38, C:0.13, G:0.26, T:0.23
Consensus pattern (90 bp):
ATCGAACTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTGATGACCATTGA
ACTATGAAAAGGGATGGTAACGACC
Found at i:23371807 original size:60 final size:60
Alignment explanation
Indices: 23371638--23371818 Score: 256
Period size: 60 Copynumber: 3.0 Consensus size: 60
23371628 CCATCGAATA
* * *
23371638 ATGAAAAGGGATGGTGACGACCATCGAACTATGAAAAGGAATAGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATTGAACTATGAAAAGGGATAGCTTCGGCTATCAAATT
23371698 ATGAAAAGGGATGGTGACGACCATTGAACTATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATGGTGACGACCATTGAACTATGAAAAGGGATAGCTTCGGCTATCAAATT
** * * * * *
23371758 ATGAAAAGGGATGGCT-TTGGCTATTGAACTATGAAAAGGGATAACTTCGGTTATCGAATT
1 ATGAAAAGGGATGG-TGACGACCATTGAACTATGAAAAGGGATAGCTTCGGCTATCAAATT
23371818 A
1 A
23371819 CAAAAAAGGA
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
60 109 0.99
61 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (60 bp):
ATGAAAAGGGATGGTGACGACCATTGAACTATGAAAAGGGATAGCTTCGGCTATCAAATT
Found at i:23373904 original size:29 final size:29
Alignment explanation
Indices: 23373860--23373926 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
23373850 TTGAAAAATG
*
23373860 AAAAGGGATAGTTTCGGCTATCGAATACA
1 AAAAGGGATAGCTTCGGCTATCGAATACA
* **
23373889 AAAAGGGATAGCTTCGGCTATCGATTATG
1 AAAAGGGATAGCTTCGGCTATCGAATACA
23373918 AAAAGGGAT
1 AAAAGGGAT
23373927 GGTGACGACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (29 bp):
AAAAGGGATAGCTTCGGCTATCGAATACA
Found at i:23373951 original size:29 final size:29
Alignment explanation
Indices: 23373915--23374076 Score: 103
Period size: 30 Copynumber: 5.5 Consensus size: 29
23373905 GCTATCGATT
*
23373915 ATGAAAAGGGATGGTGACGACAATCAACA
1 ATGAAAAGGGATAGTGACGACAATCAACA
* * * *
23373944 ATGGAAAGGGATAGTGACGACCATCGACT
1 ATGAAAAGGGATAGTGACGACAATCAACA
* * * *
23373973 ATGAAAAGGGATAACT-TCGGCTATCAA-A
1 ATGAAAAGGGAT-AGTGACGACAATCAACA
* * * * *
23374001 TTATTAAAATGGATGGTGACGACCATCGAATA
1 --ATGAAAAGGGATAGTGACGACAATC-AACA
* * * *
23374033 ATGAAAAGGGATAGTGACTATCATTGAACT
1 ATGAAAAGGGATAGTGACGA-CAATCAACA
23374063 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
23374077 CTTCGACTAT
Statistics
Matches: 98, Mismatches: 28, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
29 43 0.44
30 50 0.51
31 4 0.04
32 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (29 bp):
ATGAAAAGGGATAGTGACGACAATCAACA
Found at i:23374158 original size:91 final size:89
Alignment explanation
Indices: 23373889--23374171 Score: 363
Period size: 91 Copynumber: 3.2 Consensus size: 89
23373879 ATCGAATACA
* * * *
23373889 AAAAGGGATAGCTTCGGCTATC-GATTATGAAAAGGGATGGTGACGACAATC-AACAATGGAAAG
1 AAAAGGGATAGCTTCGGCTATCAAATTATTAAAATGGATGGTGACGACCATCGAACAATGGAAAG
*
23373952 GGATAGTGACGACCATCGACTATG
66 GGATAGTGACGACCATCAACTATG
* * *
23373976 AAAAGGGATAACTTCGGCTATCAAATTATTAAAATGGATGGTGACGACCATCGAATAATGAAAAG
1 AAAAGGGATAGCTTCGGCTATCAAATTATTAAAATGGATGGTGACGACCATCGAACAATGGAAAG
* * *
23374041 GGATAGTGACTATCATTGAACTATG
66 GGATAGTGACGACCA-TCAACTATG
* * * *
23374066 AAAAGGGATAGCTTCGACTATCAAATTATTAAAAATGGATGGGGATGACCATCGAACAATGGAGA
1 AAAAGGGATAGCTTCGGCTATCAAATTATT-AAAATGGATGGTGACGACCATCGAACAATGGAAA
* *
23374131 GGGATGGTGACGACCATCAAATTATG
65 GGGATAGTGACGACCATC-AACTATG
*
23374157 AAAAAGGATAGCTTC
1 AAAAGGGATAGCTTC
23374172 AGCTGTCGAA
Statistics
Matches: 167, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
87 21 0.13
88 25 0.15
89 23 0.14
90 36 0.22
91 62 0.37
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (89 bp):
AAAAGGGATAGCTTCGGCTATCAAATTATTAAAATGGATGGTGACGACCATCGAACAATGGAAAG
GGATAGTGACGACCATCAACTATG
Found at i:23381513 original size:40 final size:39
Alignment explanation
Indices: 23381445--23381555 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 39
23381435 AGATTAGGGC
* *
23381445 ATACACAACCGACTTACATATA-TCAGGGCATATACACAAT
1 ATACACAA-CGACTAACACATACT-AGGGCATATACACAAT
23381485 ATACACAATCGACTAACACATACTAGGGCATATACACAAT
1 ATACACAA-CGACTAACACATACTAGGGCATATACACAAT
* * *
23381525 ATACATAACAGGCTAACACATACTAAGGCAT
1 ATACACAAC-GACTAACACATACTAGGGCAT
23381556 TTAAGCATTC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
39 1 0.02
40 61 0.97
41 1 0.02
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.21
Consensus pattern (39 bp):
ATACACAACGACTAACACATACTAGGGCATATACACAAT
Found at i:23383203 original size:32 final size:32
Alignment explanation
Indices: 23383167--23383231 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
23383157 TCTTTAAAAG
*
23383167 AAACATAA-TTATTCAATTAATATCTCTTAAAT
1 AAACATAACTT-TTCAAGTAATATCTCTTAAAT
* *
23383199 AAACATAACTTTTCAAGTAATATTTCTTGAAT
1 AAACATAACTTTTCAAGTAATATCTCTTAAAT
23383231 A
1 A
23383232 TTTATAATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (32 bp):
AAACATAACTTTTCAAGTAATATCTCTTAAAT
Found at i:23385531 original size:23 final size:23
Alignment explanation
Indices: 23385498--23385575 Score: 129
Period size: 23 Copynumber: 3.4 Consensus size: 23
23385488 TTTAAACGGA
*
23385498 TGTGTTTGGAGGGTATATTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
*
23385521 TGTGTTGGGAGGCTATATTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
*
23385544 TGTGTTTGGAGGCTATGTTTGGT
1 TGTGTTTGGAGGCTATATTTGGT
23385567 TGTGTTTGG
1 TGTGTTTGG
23385576 TGGATGATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.10, C:0.03, G:0.40, T:0.47
Consensus pattern (23 bp):
TGTGTTTGGAGGCTATATTTGGT
Found at i:23387465 original size:20 final size:20
Alignment explanation
Indices: 23387428--23387466 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23387418 TGGGCGGTTT
*
23387428 TAGGAGGAAAGTTTGGGATA
1 TAGGAGGAAAGTTAGGGATA
23387448 TAGGA-GAAAGTTAAGGGAT
1 TAGGAGGAAAGTT-AGGGAT
23387467 TGGGGGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (20 bp):
TAGGAGGAAAGTTAGGGATA
Found at i:23398679 original size:17 final size:17
Alignment explanation
Indices: 23398657--23398689 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23398647 CAGAAAATGG
23398657 GTCCACACACCCGTGTT
1 GTCCACACACCCGTGTT
23398674 GTCCACACACCCGTGT
1 GTCCACACACCCGTGT
23398690 GGCCCACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.42, G:0.18, T:0.21
Consensus pattern (17 bp):
GTCCACACACCCGTGTT
Found at i:23398696 original size:17 final size:17
Alignment explanation
Indices: 23398659--23398697 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
23398649 GAAAATGGGT
* *
23398659 CCACACACCCGTGTTGT
1 CCACACACCCGTGTGGC
23398676 CCACACACCCGTGTGGC
1 CCACACACCCGTGTGGC
23398693 CCACA
1 CCACA
23398698 TGGCTTACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.21, C:0.46, G:0.18, T:0.15
Consensus pattern (17 bp):
CCACACACCCGTGTGGC
Found at i:23401926 original size:254 final size:254
Alignment explanation
Indices: 23401477--23401985 Score: 948
Period size: 254 Copynumber: 2.0 Consensus size: 254
23401467 AAAAGCATTT
23401477 TAGGGTTCCTAACAAGAAAAAGACCATAAACGGTGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
1 TAGGGTTCCTAACAAGAAAAAGACCATAAACGGTGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
*
23401542 TATTAATTATAAAATGACATTAAAAGCATGTGGAAAAAATTAATGGTTAAAAAATCATACCGTTA
66 TATTAATTATAAAATGACATTAAAAGCATGTGGAAAAAAATAATGGTTAAAAAATCATACCGTTA
*
23401607 AGTTAACTAATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAATTTGACTAGT
131 AGTTAACTAATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAAATTGACTAGT
23401672 CAAGTGATCATTTTCTAACTTTTTAAAGTCAAGAAACCTAATAAGAAACTTTCTAATAA
196 CAAGTGATCATTTTCTAACTTTTTAAAGTCAAGAAACCTAATAAGAAACTTTCTAATAA
*
23401731 TAGGGTTCCTAACGAGAAAAAGACCATAAACGGTGTAG-TTTAATTTTGGGTTTAAGATTTTTTA
1 TAGGGTTCCTAACAAGAAAAAGACCATAAACGGTGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
*
23401795 TATTAATTATAAAATGACATTAAAAGCATGTGGAAAAAAAATAATGGTTAAAAAATCATACTGTT
66 TATTAATTATAAAATGACATTAAAAGCATGTGG-AAAAAAATAATGGTTAAAAAATCATACCGTT
*
23401860 AAGTTAACTGATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAAATTGACTAG
130 AAGTTAACTAATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAAATTGACTAG
*
23401925 TCAAGTGATCATTTTCTAACTTTTTAAAGTCAAGTAACCTAATAAGAAACTTTCTAATAA
195 TCAAGTGATCATTTTCTAACTTTTTAAAGTCAAGAAACCTAATAAGAAACTTTCTAATAA
23401985 T
1 T
23401986 CGGATGATCA
Statistics
Matches: 248, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
253 59 0.24
254 189 0.76
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (254 bp):
TAGGGTTCCTAACAAGAAAAAGACCATAAACGGTGTAGTTTTAATTTTGGGTTTAAGATTTTTTA
TATTAATTATAAAATGACATTAAAAGCATGTGGAAAAAAATAATGGTTAAAAAATCATACCGTTA
AGTTAACTAATGAGTCACCAAACTATTAGCATTTTAACAATTTTGGACTAAAAAAATTGACTAGT
CAAGTGATCATTTTCTAACTTTTTAAAGTCAAGAAACCTAATAAGAAACTTTCTAATAA
Found at i:23402765 original size:5 final size:5
Alignment explanation
Indices: 23402757--23402793 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
23402747 GTTTTGTTTC
*
23402757 TTTTA TTTTA TTTTA TTTTA TTTCA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
23402794 CTTTTGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:23420483 original size:11 final size:11
Alignment explanation
Indices: 23420467--23420491 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
23420457 TATATTTTAG
23420467 AAAAAAATAAT
1 AAAAAAATAAT
23420478 AAAAAAATAAT
1 AAAAAAATAAT
23420489 AAA
1 AAA
23420492 TAATAAAAGG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAAAATAAT
Found at i:23424462 original size:17 final size:16
Alignment explanation
Indices: 23424437--23424478 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
23424427 CTCTATAATC
23424437 ATTATTTTAATATATTAA
1 ATTA-TTTAATATA-TAA
*
23424455 ATTATTTAATATATCA
1 ATTATTTAATATATAA
23424471 ATTATTTA
1 ATTATTTA
23424479 TAAATAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.43
17 9 0.39
18 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTATTTAATATATAA
Found at i:23424680 original size:7 final size:7
Alignment explanation
Indices: 23424665--23424795 Score: 66
Period size: 7 Copynumber: 18.4 Consensus size: 7
23424655 CTTAATATAT
*
23424665 AACCTTA
1 AACCATA
23424672 AACCATA
1 AACCATA
*
23424679 AATCATA
1 AACCATA
* *
23424686 ACCCCTA
1 AACCATA
23424693 AATCC-TA
1 AA-CCATA
*
23424700 AACCTTA
1 AACCATA
23424707 AACCATA
1 AACCATA
**
23424714 AACTTTAA
1 AACCAT-A
23424722 AACCATA
1 AACCATA
* *
23424729 ACCCCTA
1 AACCATA
23424736 AACCCATA
1 AA-CCATA
*
23424744 ATCCATA
1 AACCATA
*
23424751 AACCTTA
1 AACCATA
*
23424758 AACTATA
1 AACCATA
**
23424765 TGCCATA
1 AACCATA
* *
23424772 TACCCTA
1 AACCATA
*
23424779 AACCAAA
1 AACCATA
*
23424786 AACCTTA
1 AACCATA
23424793 AAC
1 AAC
23424796 TATAGAGATA
Statistics
Matches: 90, Mismatches: 30, Indels: 8
0.70 0.23 0.06
Matches are distributed among these distances:
6 2 0.02
7 76 0.84
8 12 0.13
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.22
Consensus pattern (7 bp):
AACCATA
Found at i:23424771 original size:43 final size:43
Alignment explanation
Indices: 23424665--23424764 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 43
23424655 CTTAATATAT
* * * * *
23424665 AACCTTAAACCAT-AAATCATAACCCCTAAATCCTAAACCTTA
1 AACCATAAACTATAAAACCATAACCCCTAAACCCTAAACCATA
* *
23424707 AACCATAAACTTTAAAACCATAACCCCTAAACCCATAATCCATA
1 AACCATAAACTATAAAACCATAACCCCTAAACCC-TAAACCATA
*
23424751 AACCTTAAACTATA
1 AACCATAAACTATA
23424765 TGCCATATAC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 10 0.21
43 18 0.38
44 19 0.40
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (43 bp):
AACCATAAACTATAAAACCATAACCCCTAAACCCTAAACCATA
Found at i:23425275 original size:42 final size:41
Alignment explanation
Indices: 23425102--23425301 Score: 310
Period size: 41 Copynumber: 4.9 Consensus size: 41
23425092 AAATGTTTTT
* * *
23425102 GCGGCGCTTTTACAAGAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
23425143 GCGGCGCTTCTCAAAAAACGCCGCTAAAGCCCTAAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
23425184 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
23425225 GCGGCGCTTCTCCAAAAACGCCGCTAAATCCCTTGAGCATTA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCC-TGAGCATTA
* *
23425267 GCGGCGCTTCTCCAAAAACACCTCTAAAGCCCTGA
1 GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGA
23425302 AAGGTCAAAA
Statistics
Matches: 145, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 107 0.74
42 38 0.26
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTCTCCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:23428855 original size:3 final size:3
Alignment explanation
Indices: 23428847--23428907 Score: 52
Period size: 3 Copynumber: 19.3 Consensus size: 3
23428837 ATATATAGGT
* * *
23428847 ATA ATA ATA TTA ATA TTTA AT- ATA ATA ATAA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
23428893 ATA CAGTA ATA ATA A
1 ATA -A-TA ATA ATA A
23428908 CAATTTAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 36 0.77
4 7 0.15
5 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:23428890 original size:16 final size:15
Alignment explanation
Indices: 23428864--23428893 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
23428854 TATTAATATT
23428864 TAATATAATAATAAA
1 TAATATAATAATAAA
23428879 TAATACTAATAATAA
1 TAATA-TAATAATAA
23428894 TACAGTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATATAATAATAAA
Found at i:23429465 original size:11 final size:11
Alignment explanation
Indices: 23429436--23429470 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
23429426 ACAGAGTATC
23429436 AAAGGAAAA-A
1 AAAGGAAAATA
*
23429446 AAAGAAAAATA
1 AAAGGAAAATA
23429457 AAAGGAAAATA
1 AAAGGAAAATA
23429468 AAA
1 AAA
23429471 CACAAAGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (11 bp):
AAAGGAAAATA
Found at i:23430872 original size:88 final size:88
Alignment explanation
Indices: 23430716--23431031 Score: 429
Period size: 88 Copynumber: 3.6 Consensus size: 88
23430706 AAGACTGATG
* * * * *
23430716 TCTTTGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCT-GTCATTTTC-GACCTACTCCACT
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTACT-ATCTTCAG-CCTACTCCACT
* **
23430779 GCTGCCCAGTAAGACAAGGCTGGTA
64 ACTGCCCAGGGAGACAAGGCTGGTA
* *
23430804 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAAATCTACTATCTTCAGCCTACTCTACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTACTATCTTCAGCCTACTCCACTAC
*
23430869 TGCCTAGGGAGACAAGGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* * * * *
23430892 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATTTGCTATTTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTACTATCTTCAGCCTACTCCACTAC
*
23430957 TGCCCAGGGAGACAAAGCTGGTA
66 TGCCCAGGGAGACAAGGCTGGTA
* *
23430980 TCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAATATCTACTATCTTCAG
1 TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTACTATCTTCAG
23431032 TCTGGTCAGT
Statistics
Matches: 200, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
88 198 0.99
89 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATCTACTATCTTCAGCCTACTCCACTAC
TGCCCAGGGAGACAAGGCTGGTA
Found at i:23431029 original size:45 final size:44
Alignment explanation
Indices: 23430802--23431029 Score: 133
Period size: 44 Copynumber: 5.2 Consensus size: 44
23430792 ACAAGGCTGG
* *
23430802 TATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAAATCTAC
1 TATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGC-AAATCTGC
* * * * * * ** *
23430847 TATCTTC-AGC--CTACTCTA-CTACTGCCTAGGGAGACAAGGCTGG
1 TATCTTCGATCTGCTTCTCTATC-AGT-AC-AGGAAGGCAAATCTGC
* *
23430890 TATCTTCGATCTGCTTCTCTGTCAGTACAGGAAGGCAAGATTTGC
1 TATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAA-ATCTGC
* * * * * * ** * * * *
23430935 TATTTTCAACCTGCTCCACTA-CTGCCCAGGGAGACAAAGCTGG
1 TATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAAATCTGC
*
23430978 TATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAATATCTAC
1 TATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAA-ATCTGC
23431023 TATCTTC
1 TATCTTC
23431030 AGTCTGGTCA
Statistics
Matches: 124, Mismatches: 49, Indels: 20
0.64 0.25 0.10
Matches are distributed among these distances:
41 1 0.01
42 8 0.06
43 31 0.25
44 40 0.32
45 35 0.28
46 8 0.06
47 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
TATCTTCGATCTGCTTCTCTATCAGTACAGGAAGGCAAATCTGC
Found at i:23432302 original size:7 final size:6
Alignment explanation
Indices: 23432300--23432341 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
23432290 TTTTTTCCAT
*
23432300 TTTTCA TTTTTCA TTTTTCA TTTTCA TTTTTA TTTTCA TTTT
1 TTTTCA -TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTT
23432342 TTCACATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 20 0.61
7 13 0.39
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTCA
Found at i:23432309 original size:14 final size:13
Alignment explanation
Indices: 23432292--23432342 Score: 77
Period size: 12 Copynumber: 3.8 Consensus size: 13
23432282 CATTTTTATT
23432292 TTTTCCATTTTTCA
1 TTTT-CATTTTTCA
23432306 TTTTTCATTTTTCA
1 -TTTTCATTTTTCA
23432320 TTTTCATTTTT-A
1 TTTTCATTTTTCA
23432332 TTTTCATTTTT
1 TTTTCATTTTT
23432343 TCACATTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.33
13 11 0.31
14 9 0.25
15 4 0.11
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:23432342 original size:7 final size:7
Alignment explanation
Indices: 23432282--23432342 Score: 76
Period size: 7 Copynumber: 9.0 Consensus size: 7
23432272 TTAGCCTCTC
23432282 CATTTTT
1 CATTTTT
23432289 -ATTTTTT
1 CA-TTTTT
23432296 CCATTTTT
1 -CATTTTT
23432304 CATTTTT
1 CATTTTT
23432311 CATTTTT
1 CATTTTT
23432318 CA-TTTT
1 CATTTTT
23432324 CATTTTT
1 CATTTTT
23432331 -A-TTTT
1 CATTTTT
23432336 CATTTTT
1 CATTTTT
23432343 TCACATTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
5 4 0.08
6 9 0.19
7 29 0.60
8 5 0.10
9 1 0.02
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:23432345 original size:20 final size:21
Alignment explanation
Indices: 23432282--23432342 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
23432272 TTAGCCTCTC
23432282 CATTTTT-ATTTTTTCCATTTTT
1 CATTTTTCA-TTTTT-CATTTTT
23432304 CATTTTTCATTTTTCA-TTTT
1 CATTTTTCATTTTTCATTTTT
23432324 CATTTTT-A-TTTTCATTTTT
1 CATTTTTCATTTTTCATTTTT
23432343 TCACATTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
18 6 0.16
19 5 0.14
20 11 0.30
21 2 0.05
22 12 0.32
23 1 0.03
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (21 bp):
CATTTTTCATTTTTCATTTTT
Found at i:23432868 original size:19 final size:19
Alignment explanation
Indices: 23432844--23432910 Score: 75
Period size: 19 Copynumber: 3.4 Consensus size: 19
23432834 CCGGTAGAGG
23432844 TTTTTTTGTTTCTTTT-TTC
1 TTTTTTTGTTT-TTTTGTTC
23432863 TTTTTTTTGTTCTTTTTTGTTC
1 -TTTTTTTG-T-TTTTTTGTTC
23432885 TTTTCTTT-TTTTTTTGTTC
1 TTTT-TTTGTTTTTTTGTTC
23432904 TTTTTTT
1 TTTTTTT
23432911 TGCATTGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.07
19 14 0.33
20 9 0.21
21 9 0.21
22 8 0.19
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTGTTC
Found at i:23432869 original size:10 final size:10
Alignment explanation
Indices: 23432845--23432909 Score: 82
Period size: 10 Copynumber: 6.6 Consensus size: 10
23432835 CGGTAGAGGT
23432845 TTTTTTGTTTC
1 TTTTTTG-TTC
*
23432856 TTTTTTCTT-
1 TTTTTTGTTC
23432865 TTTTTTGTTC
1 TTTTTTGTTC
23432875 TTTTTTGTTC
1 TTTTTTGTTC
23432885 TTTTCTT-TT-
1 TTTT-TTGTTC
23432894 TTTTTTGTTC
1 TTTTTTGTTC
23432904 TTTTTT
1 TTTTTT
23432910 TTGCATTGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
8 2 0.04
9 14 0.29
10 24 0.50
11 8 0.17
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (10 bp):
TTTTTTGTTC
Found at i:23432888 original size:29 final size:30
Alignment explanation
Indices: 23432845--23432909 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 30
23432835 CGGTAGAGGT
23432845 TTTTTTGTTTCTTTT-TTCTTTTTTTTGTTC
1 TTTTTTGTTTCTTTTCTT-TTTTTTTTGTTC
23432875 TTTTTTG-TTCTTTTCTTTTTTTTTTGTTC
1 TTTTTTGTTTCTTTTCTTTTTTTTTTGTTC
23432904 TTTTTT
1 TTTTTT
23432910 TTGCATTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (30 bp):
TTTTTTGTTTCTTTTCTTTTTTTTTTGTTC
Found at i:23444124 original size:23 final size:23
Alignment explanation
Indices: 23444098--23444144 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
23444088 CGATTCATCA
* * *
23444098 AGAAAATACATGTTAAATTTCAC
1 AGAAAACACATATTAAAGTTCAC
*
23444121 AGAAAACACGTATTAAAGTTCAC
1 AGAAAACACATATTAAAGTTCAC
23444144 A
1 A
23444145 ATATAGATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.26
Consensus pattern (23 bp):
AGAAAACACATATTAAAGTTCAC
Found at i:23450116 original size:44 final size:45
Alignment explanation
Indices: 23450035--23450132 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 45
23450025 AAGACTTGTA
**
23450035 TCTTCGATCTACTTCACCACCAATATGGGAAGACAAGATCTATTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTATTT
* * * *
23450080 TCTTCTATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTTT
1 TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCT-ATTT
23450125 T-TTCGATC
1 TCTTCGATC
23450133 GATTCCACTG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
44 26 0.58
45 19 0.42
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.34
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAATACAGGAAGACAAGATCTATTT
Found at i:23450259 original size:44 final size:45
Alignment explanation
Indices: 23450168--23450265 Score: 108
Period size: 44 Copynumber: 2.2 Consensus size: 45
23450158 GAATTACTGG
* * * * *
23450168 CTTCAATATACTCCACTGCAGCTTCAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTGCTCCACTACAGCTTCAGGGAGGCAAAATCTGCAAT
* * * *
23450213 CTTCGATCTGCTCCACTACTGCTT-AGGGAGGCAAGATCTGTAAT
1 CTTCAATCTGCTCCACTACAGCTTCAGGGAGGCAAAATCTGCAAT
23450257 CTTCAATCT
1 CTTCAATCT
23450266 ACTTTGCCAC
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
44 24 0.56
45 19 0.44
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.30
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTACAGCTTCAGGGAGGCAAAATCTGCAAT
Found at i:23450377 original size:88 final size:88
Alignment explanation
Indices: 23450284--23450689 Score: 226
Period size: 89 Copynumber: 4.6 Consensus size: 88
23450274 ACCAGTATGG
* * * *
23450284 GAAGATAAAATATG-TATATTCGATCCACTTCGCTACC-GATATAGGAAGACATGACCTACTATC
1 GAAGATAAAATATGCTATATTCGATCCACTCCACCACCAG-TATAGGAAGACAAGACCT-CTATC
23450347 TTTGATCTACTTCACGCCAGTACAT
64 TTTGATCTACTTCACGCCAGTACAT
* * * * * * * * * *
23450372 GAAGATAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTT
1 GAAGATAAAATATGCTATATTCGATCCACTCCACCACCAGTATAGGAAGACAAGACCTCTATCTT
23450437 TGATCTACTTCACGCCAGTACAT
66 TGATCTACTTCACGCCAGTACAT
* * * * * * * * * * * *
23450460 GAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTTTCT
1 GAAGATAAAATATGCTATATTCGATCCACTCCACCACCAGTATAGGAAGACAAGACCT-CTATCT
* * ***
23450525 TCGATCTACTTCACCACCAGTATGG
65 TTGATCTACTTCA-CGCCAGTACAT
* * * * * * * * * * * *
23450550 GAAGACAAGATCTGCTATCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTTCT
1 GAAGATAAAATATGCTATATTCGATCCACTCCACCACCAGTATAGGAAGACAAGACCT-CTATCT
* * * ***
23450614 TCGATCTACTCCACCACCAGTATGG
65 TTGATCTACTTCA-CGCCAGTACAT
* * * * * * *
23450639 GGAGACAAGATCTG-TATATTCGATCCACTTCACTACCAATATAGGAAGACA
1 GAAGATAAAATATGCTATATTCGATCCACTCCACCACCAGTATAGGAAGACA
23450690 GGATCTGCTG
Statistics
Matches: 271, Mismatches: 42, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
88 111 0.41
89 123 0.45
90 37 0.14
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (88 bp):
GAAGATAAAATATGCTATATTCGATCCACTCCACCACCAGTATAGGAAGACAAGACCTCTATCTT
TGATCTACTTCACGCCAGTACAT
Found at i:23450427 original size:45 final size:45
Alignment explanation
Indices: 23450256--23450698 Score: 396
Period size: 44 Copynumber: 10.0 Consensus size: 45
23450246 AGATCTGTAA
* ** * * * *
23450256 TCTTCAATCTACTTTGCCACCAGTATGGGAAGATAAAATATG-TA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
* * * * * * * * *
23450300 TATTCGATCCACTTCGCTACC-GATATAGGAAGACATGACCTACTA
1 TCTTCGATCTACTTCACCACCAG-TATGGGAAGACAAGATCTGCTT
* * *** *
23450345 TCTTTGATCTACTTCA-CGCCAGTACATGAAGATAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
* *
23450389 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
* * *** *
23450433 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
* * *
23450477 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
*
23450522 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
* * ***
23450567 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
* * *
23450611 TCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TA
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
* * * * * *
23450655 TATTCGATCCACTTCACTACCAATATAGGAAGACAGGATCTGCT
1 TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCT
23450699 GCTTTTCAAC
Statistics
Matches: 315, Mismatches: 76, Indels: 15
0.78 0.19 0.04
Matches are distributed among these distances:
43 20 0.06
44 163 0.52
45 132 0.42
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTT
Found at i:23450623 original size:134 final size:133
Alignment explanation
Indices: 23450378--23450698 Score: 518
Period size: 133 Copynumber: 2.4 Consensus size: 133
23450368 ACATGAAGAT
* * *
23450378 AAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTG-TTTCTTTGATC
1 AAGATCTG-TTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATC
23450442 TACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCAGTATGGGG
65 TACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCAGTATGGGG
23450507 AGAC
130 AGAC
23450511 AAGATCTGTTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATC
1 AAGATCTG-TTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATC
*
23450576 TACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTCCACCACCAGTATGGGG
65 TACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCAGTATGGGG
23450641 AGAC
130 AGAC
* * * * * * *
23450645 AAGATCTGTATATTCGATCCACTTCACTACCAATATAGGAAGACAGGATCTGCT
1 AAGATCTGTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCT
23450699 GCTTTTCAAC
Statistics
Matches: 175, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
133 89 0.51
134 86 0.49
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (133 bp):
AAGATCTGTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTTGATCT
ACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCGATCTACTCCACCACCAGTATGGGGA
GAC
Found at i:23458789 original size:20 final size:20
Alignment explanation
Indices: 23458760--23458799 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23458750 TAAAGGTCTT
*
23458760 TAATGTATATAATGCGATGC
1 TAATGCATATAATGCGATGC
*
23458780 TAATGCATATGATGCGATGC
1 TAATGCATATAATGCGATGC
23458800 ATGAGGTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (20 bp):
TAATGCATATAATGCGATGC
Found at i:23463813 original size:34 final size:34
Alignment explanation
Indices: 23463761--23463828 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
23463751 TACATTTATT
23463761 AAGGCTAAATTTATAGTAAATAGTGAAAATTGAA
1 AAGGCTAAATTTATAGTAAATAGTGAAAATTGAA
* *
23463795 AAGGTTAAGTTTATAGTAAATAGTGAAAATTGAA
1 AAGGCTAAATTTATAGTAAATAGTGAAAATTGAA
23463829 CTGCAGAAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.49, C:0.01, G:0.19, T:0.31
Consensus pattern (34 bp):
AAGGCTAAATTTATAGTAAATAGTGAAAATTGAA
Found at i:23469637 original size:29 final size:29
Alignment explanation
Indices: 23469594--23469701 Score: 114
Period size: 29 Copynumber: 3.8 Consensus size: 29
23469584 AACATGCCAG
* *
23469594 AAAAAGGAAGTCTTTATGGCAATCTATGA
1 AAAAAGGAAGCCTTTGTGGCAATCTATGA
* * *
23469623 AAAAATGAAGCCTTTGTGGCGATATATG-
1 AAAAAGGAAGCCTTTGTGGCAATCTATGA
23469651 AAAAAGGAAGCCTTTTGTGGCGAA-CTAT-A
1 AAAAAGGAAGCC-TTTGTGGC-AATCTATGA
**
23469680 AAAAAAAAAGCCTTTGTGGCAA
1 AAAAAGGAAGCCTTTGTGGCAA
23469702 ACTCTTTATA
Statistics
Matches: 66, Mismatches: 10, Indels: 8
0.79 0.12 0.10
Matches are distributed among these distances:
27 2 0.03
28 19 0.29
29 44 0.67
30 1 0.02
ACGTcount: A:0.41, C:0.12, G:0.22, T:0.25
Consensus pattern (29 bp):
AAAAAGGAAGCCTTTGTGGCAATCTATGA
Found at i:23472301 original size:17 final size:17
Alignment explanation
Indices: 23472279--23472311 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23472269 GTAATAAAAT
23472279 GGGTGAACGAACCACCG
1 GGGTGAACGAACCACCG
23472296 GGGTGAACGAACCACC
1 GGGTGAACGAACCACC
23472312 AAGGTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.33, T:0.06
Consensus pattern (17 bp):
GGGTGAACGAACCACCG
Found at i:23472681 original size:15 final size:15
Alignment explanation
Indices: 23472661--23472692 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23472651 CATTTCACTA
*
23472661 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
23472676 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
23472691 TT
1 TT
23472693 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:23476056 original size:28 final size:28
Alignment explanation
Indices: 23476014--23476076 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
23476004 TAAAGAGTTA
23476014 ATGATATCTTCTCATTGGCATTATGTTG
1 ATGATATCTTCTCATTGGCATTATGTTG
*
23476042 ATGATATCCTT-TCATTGGCATTGTGTTG
1 ATGATAT-CTTCTCATTGGCATTATGTTG
23476070 ATTGATA
1 A-TGATA
23476077 AATATGAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (28 bp):
ATGATATCTTCTCATTGGCATTATGTTG
Found at i:23476982 original size:20 final size:20
Alignment explanation
Indices: 23476957--23477004 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
23476947 ACACATATTC
23476957 TCATACTTATGCTAAATATA
1 TCATACTTATGCTAAATATA
23476977 TCATACTTATGCTAAATATA
1 TCATACTTATGCTAAATATA
23476997 TCATACTT
1 TCATACTT
23477005 TCTCAATCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (20 bp):
TCATACTTATGCTAAATATA
Found at i:23477632 original size:42 final size:42
Alignment explanation
Indices: 23477577--23477715 Score: 127
Period size: 42 Copynumber: 3.3 Consensus size: 42
23477567 GCATATAAGT
* *
23477577 GCTAAACGGAAACCCATAAGGGTTGAACAAAAGCTCGTAAAA
1 GCTAAACGAAAACCCATAAGGGTTGAACAGAAGCTCGTAAAA
* * * *
23477619 GCTTAACGAAAACCCATAAAGGTTAAATAGAAGCTC-TAAAATA
1 GCTAAACGAAAACCCATAAGGGTTGAACAGAAGCTCGT-AAA-A
* * * * ** * *
23477662 GCTGAACGGAAACTCATATGAATTGAACGGAAGCTCGTAAGA
1 GCTAAACGAAAACCCATAAGGGTTGAACAGAAGCTCGTAAAA
23477704 GCTAAACGAAAA
1 GCTAAACGAAAA
23477716 GTCAACACAA
Statistics
Matches: 75, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 44 0.59
43 29 0.39
44 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.17
Consensus pattern (42 bp):
GCTAAACGAAAACCCATAAGGGTTGAACAGAAGCTCGTAAAA
Found at i:23480763 original size:13 final size:14
Alignment explanation
Indices: 23480737--23480771 Score: 63
Period size: 13 Copynumber: 2.6 Consensus size: 14
23480727 ATATATACTT
23480737 TTATTTTTTAAAAA
1 TTATTTTTTAAAAA
23480751 TTATTTTTT-AAAA
1 TTATTTTTTAAAAA
23480764 TTATTTTT
1 TTATTTTT
23480772 AGTTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTTTAAAAA
Found at i:23481373 original size:14 final size:14
Alignment explanation
Indices: 23481354--23481383 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23481344 CACGCGCACC
23481354 TCCGTACGGCCACA
1 TCCGTACGGCCACA
*
23481368 TCCGTACTGCCACA
1 TCCGTACGGCCACA
23481382 TC
1 TC
23481384 GACCTCCGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (14 bp):
TCCGTACGGCCACA
Found at i:23482483 original size:24 final size:22
Alignment explanation
Indices: 23482440--23482499 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
23482430 AATATTATTT
23482440 AAATTTATCATGCATCATAGTTTA
1 AAATTTATCAT--ATCATAGTTTA
*
23482464 AAATTTATCATATACTATAGTTTT
1 AAATTTATCATAT-C-ATAGTTTA
*
23482488 AAACTTATCATA
1 AAATTTATCATA
23482500 GATTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 29 0.91
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTTATCATATCATAGTTTA
Found at i:23486949 original size:22 final size:23
Alignment explanation
Indices: 23486923--23486986 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
23486913 TCAACCAATA
23486923 AAAAAAACAAAATCAAAAAAATG
1 AAAAAAACAAAATCAAAAAAATG
**
23486946 AAAATCA-AAAATCAAAAAAATG
1 AAAAAAACAAAATCAAAAAAATG
23486968 AAAAAAATCAAAATCAAAA
1 AAAAAAA-CAAAATCAAAA
23486987 TGAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.57
23 5 0.14
24 10 0.29
ACGTcount: A:0.77, C:0.09, G:0.03, T:0.11
Consensus pattern (23 bp):
AAAAAAACAAAATCAAAAAAATG
Found at i:23486995 original size:15 final size:15
Alignment explanation
Indices: 23486906--23486986 Score: 76
Period size: 15 Copynumber: 5.3 Consensus size: 15
23486896 GATTCAGTAT
23486906 AAAAAAATCAACCAAT-
1 AAAAAAATCAA--AATC
*
23486922 AAAAAAAACAAAATC
1 AAAAAAATCAAAATC
*
23486937 AAAAAAATGAAAATC
1 AAAAAAATCAAAATC
* *
23486952 AAAAATCAA-AAAAATG
1 AAAAA--AATCAAAATC
23486968 AAAAAAATCAAAATC
1 AAAAAAATCAAAATC
23486983 AAAA
1 AAAA
23486987 TGAAAAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
14 5 0.09
15 27 0.50
16 20 0.37
17 2 0.04
ACGTcount: A:0.75, C:0.11, G:0.02, T:0.11
Consensus pattern (15 bp):
AAAAAAATCAAAATC
Found at i:23486996 original size:31 final size:30
Alignment explanation
Indices: 23486906--23486996 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 30
23486896 GATTCAGTAT
23486906 AAAAAAATCAACCAAT-AAAA-AAAACAAAATC
1 AAAAAAATCAA--AATCAAAATAAAA-AAAATC
* * *
23486937 AAAAAAATGAAAATCAAAAATCAAAAAAATG
1 AAAAAAATCAAAATC-AAAATAAAAAAAATC
23486968 AAAAAAATCAAAATCAAAATGAAAAAAAA
1 AAAAAAATCAAAATCAAAAT-AAAAAAAA
23486997 AAGGAGAGGC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.06
30 5 0.10
31 40 0.78
32 3 0.06
ACGTcount: A:0.76, C:0.10, G:0.03, T:0.11
Consensus pattern (30 bp):
AAAAAAATCAAAATCAAAATAAAAAAAATC
Found at i:23487851 original size:50 final size:49
Alignment explanation
Indices: 23487790--23487885 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 49
23487780 GAGAAGGGAT
* *
23487790 CAAGGTGAAAACCCGCAAAGGGCGCTTTGATTCCTAAAGAAA-AAAAAGAC
1 CAAGGTGAAAACCCGCAAAAGGCGCTTTGAATCC-AAA-AAATAAAAAGAC
23487840 CAAGGTGAAAACCCGCAAAAGGCGCTTTGAATCCAAAAAATAAAAA
1 CAAGGTGAAAACCCGCAAAAGGCGCTTTGAATCCAAAAAATAAAAA
23487886 TAAATCAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 3 0.07
49 8 0.19
50 32 0.74
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.14
Consensus pattern (49 bp):
CAAGGTGAAAACCCGCAAAAGGCGCTTTGAATCCAAAAAATAAAAAGAC
Found at i:23489322 original size:44 final size:44
Alignment explanation
Indices: 23489264--23489366 Score: 120
Period size: 44 Copynumber: 2.3 Consensus size: 44
23489254 AGAATTACAG
* * *
23489264 ATCTTATCTCCCTGA-GCAGTAGTGGAGC-AGATTGAAGGTGGTGA
1 ATCTTATCTCCCTGAGGCAGTAGTGGAGCTA-ATTAAAGCTAGT-A
**
23489308 ATCTTATCTCCCTGAGGTTGTAGTGGAGCTAATTAAAGCTAGTA
1 ATCTTATCTCCCTGAGGCAGTAGTGGAGCTAATTAAAGCTAGTA
*
23489352 ATCCTATCTCCCTGA
1 ATCTTATCTCCCTGA
23489367 AGTTGCAGTG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
44 30 0.59
45 20 0.39
46 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (44 bp):
ATCTTATCTCCCTGAGGCAGTAGTGGAGCTAATTAAAGCTAGTA
Found at i:23489404 original size:44 final size:43
Alignment explanation
Indices: 23489307--23489418 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 43
23489297 GAAGGTGGTG
* * * *
23489307 AATCTTATCTCCCTGAGGTTGTAGTGGAGCTAATTAAAGCTAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAA-CTAAT
* *
23489351 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAA-TAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCGAATT-AAACTAAT
*
23489394 AAATCTTATCTCTCTGAAGTTGCAG
1 -AATCTTATCTCCCTGAAGTTGCAG
23489419 CAGAGTGGAT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 3 0.05
44 52 0.90
45 3 0.05
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCGAATTAAACTAAT
Found at i:23489597 original size:218 final size:217
Alignment explanation
Indices: 23489218--23489666 Score: 539
Period size: 218 Copynumber: 2.1 Consensus size: 217
23489208 AAGATTGTAG
* *
23489218 GTCTTATCTCCCTGAGGTTGCAGAGGAGTAGACCGAAGAATTACAGATCTTATCTCCCTGAGCAG
1 GTCTTATCTCCCTAAGGTTGCAGAGGAGTAGACCGAAGAA-TACAGATCTTATCCCCCTGAGCAG
* * * * *
23489283 TAGTGGAGCAGATTGAAGGTGGTGAATCTTATCTCCCTGAGGTTGTAGTGGAGCTAATTAAAGCT
65 TAGTGGAGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGGTTGCAGGGGAGCTAATTAAAGCC
* * * *
23489348 AGTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTCAAATAATAAATCTTATCTCTCTGAAG
130 AGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAATAAATATTATCTCTCTGAAG
*
23489413 TTGCAGCAGAGTGGATCGCATCAA
195 TTGCAGCAGAGTAGATCGCATC-A
* *
23489437 GTCTTATCTCCCTAAGGTTGCAGCGGAGTAGACC-AAGAA-AGCA-AGTCTTATCCCCCTGAAGT
1 GTCTTATCTCCCTAAGGTTGCAGAGGAGTAGACCGAAGAATA-CAGA-TCTTATCCCCCTG-AGC
* * * * * *
23489499 TGCT-GTGGGGTAGACTGAAGATGGTGGATCTTATCTCCCTGAGTTTGCAGGGGAGC-AGATTGA
63 AG-TAGTGGAGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGGTTGCAGGGGAGCTA-ATTAA
* * * *
23489562 GGCCAGTAATCCTATCTCCTTGAAGTTACAGTGGAGTGGATTAAAACAATAGATATTATCTCTCT
126 AGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAATAAATATTATCTCTCT
* * *
23489627 GAGGTTGCAGTAGGGTAGATCGCATCA
191 GAAGTTGCAGCAGAGTAGATCGCATCA
*
23489654 GATCTTATTTCCC
1 G-TCTTATCTCCC
23489667 AGACGATGCA
Statistics
Matches: 196, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
216 2 0.01
217 17 0.09
218 144 0.73
219 33 0.17
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (217 bp):
GTCTTATCTCCCTAAGGTTGCAGAGGAGTAGACCGAAGAATACAGATCTTATCCCCCTGAGCAGT
AGTGGAGCAGACTGAAGATGGTGAATCTTATCTCCCTGAGGTTGCAGGGGAGCTAATTAAAGCCA
GTAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACAATAAATATTATCTCTCTGAAGT
TGCAGCAGAGTAGATCGCATCA
Found at i:23489777 original size:50 final size:49
Alignment explanation
Indices: 23489681--23489778 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 49
23489671 GATGCAGTGG
* * * *
23489681 AAAAAATTGAAGCTACAACGGCGAATCTTGCGTCCCCGACATTGTAGTT
1 AAAAAATTGAAGCTACAACAGCGAATCATACGTCCCCGACAGTGTAGTT
* * * *
23489730 AAAAAGATTGAAGCTACAACAGTGAATCATACTTCCCTGACGGTGTAGT
1 AAAAA-ATTGAAGCTACAACAGCGAATCATACGTCCCCGACAGTGTAGT
23489779 GGAGCGTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
49 5 0.12
50 35 0.88
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (49 bp):
AAAAAATTGAAGCTACAACAGCGAATCATACGTCCCCGACAGTGTAGTT
Found at i:23490407 original size:22 final size:18
Alignment explanation
Indices: 23490358--23490399 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
23490348 ACAACGCAAT
23490358 AGAAACAACAAAAAAGAA
1 AGAAACAACAAAAAAGAA
23490376 AGAAACAACAAAAAAGAA
1 AGAAACAACAAAAAAGAA
23490394 AGAAAC
1 AGAAAC
23490400 GAATAACAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (18 bp):
AGAAACAACAAAAAAGAA
Found at i:23491396 original size:47 final size:45
Alignment explanation
Indices: 23491342--23491444 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 45
23491332 TTATTAAATA
* * * * *
23491342 TAGTATTATTTTAGTATTTAATCTTAAC-ATTGTTTTAAATTTCTCAT
1 TAGTATTATTTTAATATATAAT-AT-ACTATTATTTTAAATTGC-CAT
23491389 TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
1 TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
*
23491434 TAATATTATTT
1 TAGTATTATTT
23491445 AAATTTATCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 15 0.31
46 14 0.29
47 20 0.41
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.54
Consensus pattern (45 bp):
TAGTATTATTTTAATATATAATATACTATTATTTTAAATTGCCAT
Found at i:23491474 original size:24 final size:24
Alignment explanation
Indices: 23491445--23491500 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
23491435 AATATTATTT
23491445 AAATTTATCATGCAT-C-ATAGTTTA
1 AAATTTATCAT--ATACTATAGTTTA
*
23491469 AAATTTATCATATACTATAGTTTT
1 AAATTTATCATATACTATAGTTTA
23491493 AAATTTAT
1 AAATTTAT
23491501 TATAGATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 2 0.07
23 1 0.03
24 26 0.90
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (24 bp):
AAATTTATCATATACTATAGTTTA
Found at i:23505296 original size:24 final size:24
Alignment explanation
Indices: 23505264--23505310 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
23505254 AACAATCTTA
* *
23505264 ACCCTTTAATTCAGATTTTTATTC
1 ACCCTTTAAATCAAATTTTTATTC
23505288 ACCCTTTAAATCAAATTTTTATT
1 ACCCTTTAAATCAAATTTTTATT
23505311 TTTAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.02, T:0.49
Consensus pattern (24 bp):
ACCCTTTAAATCAAATTTTTATTC
Found at i:23506706 original size:5 final size:5
Alignment explanation
Indices: 23506696--23506722 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23506686 TATCAAATTA
23506696 TTTGT TTTGT TTTGT TTTGT TTTGT TT
1 TTTGT TTTGT TTTGT TTTGT TTTGT TT
23506723 GAATGTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TTTGT
Found at i:23513892 original size:18 final size:18
Alignment explanation
Indices: 23513846--23513896 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
23513836 AGCTCTCAGG
23513846 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* ***
23513864 CAGTAAGCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
23513882 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
23513897 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.14, C:0.43, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:23516734 original size:20 final size:20
Alignment explanation
Indices: 23516709--23516748 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23516699 AATATTTTCC
*
23516709 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
23516729 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
23516749 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:23516754 original size:34 final size:35
Alignment explanation
Indices: 23516697--23516763 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
23516687 CAAACACTAG
*
23516697 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
23516732 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
23516764 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:23516755 original size:14 final size:14
Alignment explanation
Indices: 23516732--23516771 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23516722 ACAGAAAAGT
*
23516732 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
23516746 AAATCATTTTACGG
1 AAAACATTTTACAG
23516760 AAAACATTTTAC
1 AAAACATTTTAC
23516772 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:23526551 original size:20 final size:20
Alignment explanation
Indices: 23526526--23526565 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
23526516 AGGAGCTTGA
23526526 ACACAAGCATTTTGGTTAAG
1 ACACAAGCATTTTGGTTAAG
23526546 ACACAAGCATTTTGGTTAAG
1 ACACAAGCATTTTGGTTAAG
23526566 TTTTAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (20 bp):
ACACAAGCATTTTGGTTAAG
Found at i:23546057 original size:14 final size:14
Alignment explanation
Indices: 23546040--23546075 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
23546030 AATTTTTAAT
23546040 TTTTTTTCGGGAAA
1 TTTTTTTCGGGAAA
23546054 TTTTTTTCGGGAAA
1 TTTTTTTCGGGAAA
23546068 TTTTTTTC
1 TTTTTTTC
23546076 ATAAATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.17, C:0.08, G:0.17, T:0.58
Consensus pattern (14 bp):
TTTTTTTCGGGAAA
Found at i:23551869 original size:3 final size:3
Alignment explanation
Indices: 23551861--23551888 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23551851 TCCAAAAATT
23551861 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23551889 AGAAGTTACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:23560796 original size:18 final size:18
Alignment explanation
Indices: 23560773--23560815 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
23560763 ATTCAAGGTG
23560773 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
23560791 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
23560809 TAATTAA
1 TAATTAA
23560816 AAACTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:23566267 original size:16 final size:16
Alignment explanation
Indices: 23566240--23566288 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
23566230 TTGATTTGCT
*
23566240 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
* *
23566256 ATTATGCTTCTATTCC
1 ATTACGCCTCTATTCC
23566272 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
23566288 A
1 A
23566289 ATACAGCGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.22, C:0.33, G:0.04, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:23567836 original size:11 final size:11
Alignment explanation
Indices: 23567814--23567924 Score: 72
Period size: 11 Copynumber: 10.4 Consensus size: 11
23567804 AACTAATCCT
23567814 CTCTCAAATTTC
1 CTCTC-AATTTC
*
23567826 CTTTCAATTTC
1 CTCTCAATTTC
*
23567837 CTCTAAATTTC
1 CTCTCAATTTC
*
23567848 CTCTCAATTTG
1 CTCTCAATTTC
*
23567859 CTCTCAAATTC
1 CTCTCAATTTC
23567870 CT-TCCAAATTT-
1 CTCT-C-AATTTC
*
23567881 CTCTCAA-ATC
1 CTCTCAATTTC
* *
23567891 C-AT--ATTTA
1 CTCTCAATTTC
*
23567899 ATCTCAATTTC
1 CTCTCAATTTC
*
23567910 CTCTCAAGTTC
1 CTCTCAATTTC
23567921 CTCT
1 CTCT
23567925 TAAATTTCTC
Statistics
Matches: 74, Mismatches: 17, Indels: 17
0.69 0.16 0.16
Matches are distributed among these distances:
7 1 0.01
8 1 0.01
9 3 0.04
10 4 0.05
11 56 0.76
12 9 0.12
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:23567847 original size:22 final size:22
Alignment explanation
Indices: 23567813--23567889 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
23567803 AAACTAATCC
23567813 TCTCTCAAATTTCCTTTCAATT
1 TCTCTCAAATTTCCTTTCAATT
*
23567835 TC-CTCTAAATTTCCTCTCAATT
1 TCTCTC-AAATTTCCTTTCAATT
*
23567857 TGCTCTCAAA-TTCCTTCCAAATT
1 T-CTCTCAAATTTCCTTTC-AATT
23567880 TCTCTCAAAT
1 TCTCTCAAAT
23567890 CCATATTTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.06
22 32 0.68
23 9 0.19
24 3 0.06
ACGTcount: A:0.25, C:0.30, G:0.01, T:0.44
Consensus pattern (22 bp):
TCTCTCAAATTTCCTTTCAATT
Found at i:23567871 original size:33 final size:33
Alignment explanation
Indices: 23567813--23567887 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
23567803 AAACTAATCC
* * *
23567813 TCTCTCAAATTTCCTTTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
23567846 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
23567880 TCTCTCAA
1 TCTCTCAA
23567888 ATCCATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.64
34 13 0.36
ACGTcount: A:0.24, C:0.31, G:0.01, T:0.44
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:23567907 original size:51 final size:51
Alignment explanation
Indices: 23567849--23567948 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
23567839 CTAAATTTCC
*
23567849 TCTCAATTTGCTCTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTCCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
23567900 TCTCAATTTCCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
23567949 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.02, T:0.44
Consensus pattern (51 bp):
TCTCAATTTCCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:23569800 original size:18 final size:18
Alignment explanation
Indices: 23569758--23569800 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
23569748 TGCTAAGTGC
* *
23569758 GTTTCCTAGCCCTTTTAT
1 GTTTCCTAACCCTTATAT
* *
23569776 ATATCCTAACCCTTATAT
1 GTTTCCTAACCCTTATAT
23569794 GTTTCCT
1 GTTTCCT
23569801 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.19, C:0.28, G:0.07, T:0.47
Consensus pattern (18 bp):
GTTTCCTAACCCTTATAT
Found at i:23570332 original size:14 final size:14
Alignment explanation
Indices: 23570315--23570363 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
23570305 TTAATTGACA
23570315 AACCTTAAACCCTT
1 AACCTTAAACCCTT
*
23570329 AACCTAAAAACCC-T
1 AACCT-TAAACCCTT
*
23570343 AACCCT-AACCCTT
1 AACCTTAAACCCTT
23570356 AA-CTTAAA
1 AACCTTAAA
23570364 AACTGTAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
12 7 0.25
13 5 0.18
14 10 0.36
15 6 0.21
ACGTcount: A:0.43, C:0.35, G:0.00, T:0.22
Consensus pattern (14 bp):
AACCTTAAACCCTT
Found at i:23570348 original size:21 final size:21
Alignment explanation
Indices: 23570343--23570469 Score: 146
Period size: 21 Copynumber: 6.0 Consensus size: 21
23570333 TAAAAACCCT
23570343 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
** *
23570364 AACTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
23570385 AACCCTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
** * *
23570407 AACTGTAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
* *
23570428 AACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
23570449 AACCCTAACCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
23570470 TATAATTTGA
Statistics
Matches: 86, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
21 69 0.80
22 17 0.20
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.27
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:23570354 original size:27 final size:27
Alignment explanation
Indices: 23570322--23570375 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
23570312 ACAAACCTTA
23570322 AACCCTTAACCTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
* **
23570349 AACCCTTAACTTAAAAACTGTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
23570376 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCCT
Found at i:23570399 original size:43 final size:42
Alignment explanation
Indices: 23570343--23570469 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 42
23570333 TAAAAACCCT
23570343 AACCCTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAA
* *
23570385 AACCCTAAACCCTTAACTTTAAAACTGTAACCCTTAAATAAAA
1 AACCCT-AACCCTTAACTTAAAAACTGTAACCCTTAAATTAAA
* * ** * *
23570428 AACTCTAACACTTAACTTAAAAACCCTAACCTTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAA
23570470 TATAATTTGA
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 35 0.47
43 39 0.53
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.27
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAA
Found at i:23570420 original size:64 final size:63
Alignment explanation
Indices: 23570348--23570466 Score: 175
Period size: 64 Copynumber: 1.9 Consensus size: 63
23570338 ACCCTAACCC
* * * *
23570348 TAACCCTTAACTTAAAAACTGTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTTAAAACTG
1 TAACCCTTAAATAAAAAACTCTAACACTTAAATTAAAAACCCT-AACCCTTAACTTTAAAACTG
* *
23570412 TAACCCTTAAATAAAAAACTCTAACACTTAACTTAAAAACCCTAACCTTTAACTT
1 TAACCCTTAAATAAAAAACTCTAACACTTAAATTAAAAACCCTAACCCTTAACTT
23570467 AAATATAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 11 0.22
64 38 0.78
ACGTcount: A:0.45, C:0.25, G:0.02, T:0.29
Consensus pattern (63 bp):
TAACCCTTAAATAAAAAACTCTAACACTTAAATTAAAAACCCTAACCCTTAACTTTAAAACTG
Found at i:23573922 original size:127 final size:125
Alignment explanation
Indices: 23573636--23574203 Score: 759
Period size: 127 Copynumber: 4.5 Consensus size: 125
23573626 CCCAAACATG
** * * *
23573636 CTACTGTAGCAAAAGCGATTCTACGAGGGCGCGATTTCACAAATTATTCTCAAATAGCATCCAGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
23573701 TAGAAGC-GTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGAC
66 TTGAAGCAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* *
23573760 CTACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACACATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
23573825 TTGAAGCATGTTTTTAAACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTATTCCAGGAC
66 TTGAAGCA-GTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
*
23573887 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* ***
23573952 TTGAAG-GGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCTTGGAC
66 TTGAAGCAG--TTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * * * *
23574014 ATACTGTAGCAAAAGCGCATCCACGAAGGCGTGATTTCACAAATTCTTCTCATAA-AGTATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
*
23574078 CTTGAAGCA-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
65 CTTGAAGCAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * * * * * *
23574138 TTACTGTAGCAAAAGCGCGTACACGTGGGTGCGACTTCAGAAATCCTTCTGATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
23574202 CT
65 CT
23574204 CTGATTTTAT
Statistics
Matches: 395, Mismatches: 42, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
124 124 0.31
125 42 0.11
126 40 0.10
127 187 0.47
128 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:23574147 original size:251 final size:250
Alignment explanation
Indices: 23573636--23574187 Score: 768
Period size: 251 Copynumber: 2.2 Consensus size: 250
23573626 CCCAAACATG
** * * *
23573636 CTACTGTAGCAAAAGCGATTCTACGAGGGCGCGATTTCACAAATTATTCTCAAATAGCATCCAGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCAGC
* *
23573701 TAGAAGCGTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGACCTACTG
66 TAGAAGCGTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGACATACTG
* * *
23573766 TAGCAAAAGCGCGTCCACGAGGGCACGATTTCACACATTCTTCTCAAATAGCATCCTGCTTGAAG
131 TAGCAAAAGCGCATCCACGAAGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
* *
23573831 CATGTTTTTAAACTATTTGCTCAGAAAGGTCAACTCGAAATTATTTATTCCAGGAC
196 CA-GTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAAGAC
*
23573887 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCAGC
* * * ***
23573952 TTGAAGGGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCTTGGACATA
66 TAGAAGCG--TTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTT-TTCCAAGACATA
** *
23574017 CTGTAGCAAAAGCGCATCCACGAAGGCGTGATTTCACAAATTCTTCTCATAA-AGTATCCTGCTT
128 CTGTAGCAAAAGCGCATCCACGAAGGCACGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTT
*
23574081 GAAGCA-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
192 GAAGCAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAAGAC
* * * * * * *
23574138 TTACTGTAGCAAAAGCGCGTACACGTGGGTGCGACTTCAGAAATCCTTCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCT
23574188 GATAAAGCAT
Statistics
Matches: 267, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
251 116 0.43
252 40 0.15
253 40 0.15
254 69 0.26
255 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (250 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCAGC
TAGAAGCGTTTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCCAAGACATACTG
TAGCAAAAGCGCATCCACGAAGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
CAGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAAGAC
Found at i:23583344 original size:18 final size:18
Alignment explanation
Indices: 23583321--23583362 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
23583311 ACACACGGCC
*
23583321 GTGCCCCAGCCCGTGTCT
1 GTGCCCCAACCCGTGTCT
23583339 GTGCCCCAACCCGTGTCT
1 GTGCCCCAACCCGTGTCT
23583357 GTGCCC
1 GTGCCC
23583363 GTGTAACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.07, C:0.45, G:0.26, T:0.21
Consensus pattern (18 bp):
GTGCCCCAACCCGTGTCT
Found at i:23587487 original size:3 final size:3
Alignment explanation
Indices: 23587479--23587530 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
23587469 ATAAAGAAGG
*
23587479 AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23587527 AAT A
1 AAT A
23587531 GGATTAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23587574 original size:5 final size:6
Alignment explanation
Indices: 23587555--23587612 Score: 71
Period size: 6 Copynumber: 9.2 Consensus size: 6
23587545 TTTGGAATTC
*
23587555 AAATAA AAATAA AAATAA AACATTAC AAATAA AAATAA AAATAAA AAATAA
1 AAATAA AAATAA AAATAA AA-A-TAA AAATAA AAATAA AAAT-AA AAATAA
*
23587606 AGATAA A
1 AAATAA A
23587613 CTAAATTGGT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
6 34 0.74
7 8 0.17
8 4 0.09
ACGTcount: A:0.78, C:0.03, G:0.02, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:23591945 original size:6 final size:6
Alignment explanation
Indices: 23591936--23591987 Score: 68
Period size: 6 Copynumber: 8.5 Consensus size: 6
23591926 TATTAAAGTT
* * *
23591936 AAAATA AAAATA AAAATA AAAATA AAAATG AAAATG AAAATG AAAATGA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A
23591985 AAA
1 AAA
23591988 CAAACACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
6 40 0.93
7 3 0.07
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:23592759 original size:29 final size:29
Alignment explanation
Indices: 23592726--23592784 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
23592716 TATAGAATGT
23592726 TTGTAAGTTTGTAATCAAGTTGAACATGA
1 TTGTAAGTTTGTAATCAAGTTGAACATGA
23592755 TTGTAAGTTTGTAATCAAGTTGAACATGA
1 TTGTAAGTTTGTAATCAAGTTGAACATGA
23592784 T
1 T
23592785 ATATGATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (29 bp):
TTGTAAGTTTGTAATCAAGTTGAACATGA
Found at i:23593540 original size:75 final size:79
Alignment explanation
Indices: 23593460--23593697 Score: 260
Period size: 75 Copynumber: 3.0 Consensus size: 79
23593450 TCATATATAT
*
23593460 ATATATATGAATTAAGCATGCATCTCATATGTTGAATCAATCAAAACAT-ATATA-TAT-TA-TG
1 ATATATATGAATTAAGCATGCATCTCATATGTTGAATCAATCAAAACATCATATATTATATATTA
23593521 TATATAACCGAAAC
66 TATATAACCGAAAC
* *
23593535 ATATATATGAATTAAGCATACATCTCAT-TCATTGAATCAATCAAAACATGCATATATTATATAT
1 ATATATATGAATTAAGCATGCATCTCATAT-GTTGAATCAATCAAAACAT-CATATATTATATA-
**
23593599 TTATATATAATTGAAAC
63 TTATATATAACCGAAAC
* *
23593616 ATATATA--AATTAAGCATGCATCTAATA-GATTGAATCAATCAAAAACGTTGCATATATTATAT
1 ATATATATGAATTAAGCATGCATCTCATATG-TTGAATCAATC-AAAAC-AT-CATATATTATAT
* *
23593678 ATT-TATTATAATCAAAAC
62 ATTATA-TATAACCGAAAC
23593696 AT
1 AT
23593698 GAATAAATTT
Statistics
Matches: 140, Mismatches: 11, Indels: 19
0.82 0.06 0.11
Matches are distributed among these distances:
74 1 0.01
75 45 0.32
77 5 0.04
78 3 0.02
79 32 0.23
80 19 0.14
81 35 0.25
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (79 bp):
ATATATATGAATTAAGCATGCATCTCATATGTTGAATCAATCAAAACATCATATATTATATATTA
TATATAACCGAAAC
Found at i:23593620 original size:79 final size:82
Alignment explanation
Indices: 23593510--23593696 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
23593500 TCAAAACATA
* * * * *
23593510 TATATATTATGTATATAACCGAAACATATATATGAATTAAGCATACATCTCATTCATTGAATCAA
1 TATATATT-TATATATAATCGAAACA-ATATATAAATTAAGCATACATCTAATACATTGAATCAA
23593575 TC-AAAAC-ATGCATATAT
64 TCAAAAACGATGCATATAT
* * *
23593592 TATATATTTATATATAATTGAAAC-ATATATAAATTAAGCATGCATCTAATAGATTGAATCAATC
1 TATATATTTATATATAATCGAAACAATATATAAATTAAGCATACATCTAATACATTGAATCAATC
*
23593656 AAAAACGTTGCATATAT
66 AAAAACGATGCATATAT
*
23593673 TATATATTTAT-TATAATCAAAACA
1 TATATATTTATATATAATCGAAACA
23593697 TGAATAAATT
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
79 35 0.38
80 15 0.16
81 33 0.36
82 8 0.09
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (82 bp):
TATATATTTATATATAATCGAAACAATATATAAATTAAGCATACATCTAATACATTGAATCAATC
AAAAACGATGCATATAT
Found at i:23593673 original size:81 final size:79
Alignment explanation
Indices: 23593510--23593706 Score: 245
Period size: 81 Copynumber: 2.4 Consensus size: 79
23593500 TCAAAACATA
* * * *
23593510 TATATATTATGTATATAACCGAAACATATATATGAATTAAGCATACATCTCATTCATTGAATCAA
1 TATATATT-TATATATAATCGAAACATATATA--AATTAAGCATACATCTAATACATTGAATCAA
23593575 TCAAAACATGCATATAT
63 TCAAAACATGCATATAT
* * *
23593592 TATATATTTATATATAATTGAAACATATATAAATTAAGCATGCATCTAATAGATTGAATCAATCA
1 TATATATTTATATATAATCGAAACATATATAAATTAAGCATACATCTAATACATTGAATCAATC-
*
23593657 AAAACGTTGCATATAT
65 AAAAC-ATGCATATAT
*
23593673 TATATATTTAT-TATAATCAAAACATGA-ATAAATT
1 TATATATTTATATATAATCGAAACAT-ATATAAATT
23593707 TTTATACTGT
Statistics
Matches: 102, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
79 29 0.28
80 24 0.24
81 41 0.40
82 8 0.08
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (79 bp):
TATATATTTATATATAATCGAAACATATATAAATTAAGCATACATCTAATACATTGAATCAATCA
AAACATGCATATAT
Found at i:23599847 original size:18 final size:18
Alignment explanation
Indices: 23599824--23599859 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23599814 CACCTATTTT
23599824 TACTGTTAAAAATTGATC
1 TACTGTTAAAAATTGATC
23599842 TACTGTTAAAAATTGATC
1 TACTGTTAAAAATTGATC
23599860 GTGGCTAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (18 bp):
TACTGTTAAAAATTGATC
Found at i:23601995 original size:22 final size:20
Alignment explanation
Indices: 23601959--23602049 Score: 66
Period size: 20 Copynumber: 4.5 Consensus size: 20
23601949 TAATTTTTTA
23601959 AATTATAAAAAAATATTAAT
1 AATTATAAAAAAATATTAAT
23601979 AATTACTAAATAAAATATT-AT
1 AATTA-TAAA-AAAATATTAAT
* * *
23602000 AA-AACTAAAATAAAGA--AAG
1 AATTA-TAAAA-AAATATTAAT
*
23602019 AAAT-TAAAAAAATATTAAT
1 AATTATAAAAAAATATTAAT
23602038 AATTTATAAAAA
1 AA-TTATAAAAA
23602050 TTAATAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 17
0.70 0.09 0.22
Matches are distributed among these distances:
17 4 0.07
18 5 0.09
19 8 0.15
20 16 0.29
21 14 0.25
22 8 0.15
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AATTATAAAAAAATATTAAT
Found at i:23602010 original size:21 final size:22
Alignment explanation
Indices: 23601964--23602013 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
23601954 TTTTAAATTA
*
23601964 TAAA-AAAATATTAATAATTAC
1 TAAATAAAATATTAATAATAAC
23601985 TAAATAAAATATT-ATAA-AAC
1 TAAATAAAATATTAATAATAAC
23602005 TAAAATAAA
1 T-AAATAAA
23602014 GAAAGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 3 0.12
21 15 0.58
22 8 0.31
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAATAAAATATTAATAATAAC
Done.