Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 157 of 199
Found at i:51890018 original size:5 final size:5
Alignment explanation
Indices: 51890008--51890038 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
51889998 GAAGTCAGCA
51890008 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT TGTTT TGTTT T
51890039 TGCCATTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TGTTT
Found at i:51890183 original size:14 final size:14
Alignment explanation
Indices: 51890166--51890193 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51890156 CTCATTGCTT
51890166 TGAGTTCATTACAA
1 TGAGTTCATTACAA
51890180 TGAGTTCATTACAA
1 TGAGTTCATTACAA
51890194 GATTTCCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
TGAGTTCATTACAA
Found at i:51890247 original size:43 final size:43
Alignment explanation
Indices: 51890187--51890277 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
51890177 CAATGAGTTC
* * *
51890187 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCT-TTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATAT-TATTT
*
51890229 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTATTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATTATTT
51890272 ATTACC
1 ATTACC
51890278 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATTATTT
Found at i:51891247 original size:16 final size:19
Alignment explanation
Indices: 51891199--51891258 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
51891189 TTTAGTCATA
51891199 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
51891219 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
51891237 TAATAAATTATTTAATAT-T
1 TAATAAATTA-TTAATATAT
51891256 TAA
1 TAA
51891259 ATTTTATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
16 3 0.09
17 4 0.11
18 8 0.23
19 5 0.14
20 6 0.17
21 4 0.11
22 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:51891701 original size:43 final size:43
Alignment explanation
Indices: 51891641--51891731 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
51891631 CTTTGAGTTC
* * *
51891641 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
51891683 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
51891726 ATTACC
1 ATTACC
51891732 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:51892166 original size:43 final size:43
Alignment explanation
Indices: 51892111--51892309 Score: 219
Period size: 43 Copynumber: 4.7 Consensus size: 43
51892101 TTTTTGTGAG
* * * * *
51892111 AAGCGCCACTAAAAGGT-TTGTTCTATAGCGACGTTTGTGACAA
1 AAGCGCCGCTAAAA-GTCATGTTCTTTAGCGGCGTTTGTGATAA
*
51892154 AAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGATAA
* * * *
51892197 AAGCGTCGCTAAAGGTCA---TCTTTTGCGGCGTTTATGATAA
1 AAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGATAA
*
51892237 AAGCACCGCTAAAAGTCAT-TGTCTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAAGTCATGT-TCTTTAGCGGCGTTTGTGATAA
* * *
51892280 AAGCGCCACTAAAGGTCATGGTCTTTAGCG
1 AAGCGCCGCTAAAAGTCATGTTCTTTAGCG
51892310 ACCTTTTTTC
Statistics
Matches: 132, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
40 35 0.27
42 2 0.02
43 95 0.72
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGATAA
Found at i:51892246 original size:83 final size:83
Alignment explanation
Indices: 51892142--51892298 Score: 260
Period size: 83 Copynumber: 1.9 Consensus size: 83
51892132 TCTATAGCGA
* * * *
51892142 CGTTTGTGACAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGTCGCT
1 CGTTTATGACAAAAGCACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCACT
51892207 AAAGGTCATCTTTTGCGG
66 AAAGGTCATCTTTTGCGG
* *
51892225 CGTTTATGATAAAAGCACCGCTAAAAGTCATTGTCTTTAGCGGCGTTTGTGATAAAAGCGCCACT
1 CGTTTATGACAAAAGCACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCACT
51892290 AAAGGTCAT
66 AAAGGTCAT
51892299 GGTCTTTAGC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (83 bp):
CGTTTATGACAAAAGCACCGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGATAAAAGCGCCACT
AAAGGTCATCTTTTGCGG
Found at i:51892829 original size:43 final size:43
Alignment explanation
Indices: 51892719--51892940 Score: 234
Period size: 43 Copynumber: 5.1 Consensus size: 43
51892709 GCTTGTTATA
* * *
51892719 TAGCGGCGTTTGTGAAAAAAGCGCCGCTAAAAGTCATGTTCTT
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAATGTCATGGTCTT
* * ** * *
51892762 TAG-TGTGTTTGTGACCAAAGCGTCGCTAAATGTCATGGTTTT
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAATGTCATGGTCTT
* * *
51892804 TAGTGGCGTTTGTGATAAAAGCGTCG--AAAGGTCATGGTCTT
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAATGTCATGGTCTT
* * *
51892845 TAACGGTGTTTATGATTATGATAAAAGCGCTGCTAAATGTCATGGTCTT
1 TAGCGGCG-TT-TG----TGATAAAAGCGCCGCTAAATGTCATGGTCTT
51892894 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAATGTCATGGTCTT
1 TAGCGGCGTTTGTGATAAAAGCGCCGCTAAATGTCATGGTCTT
51892937 TAGC
1 TAGC
51892941 TATGTTTTTT
Statistics
Matches: 147, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
41 18 0.12
42 36 0.24
43 57 0.39
47 14 0.10
48 2 0.01
49 20 0.14
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
TAGCGGCGTTTGTGATAAAAGCGCCGCTAAATGTCATGGTCTT
Found at i:51892871 original size:47 final size:49
Alignment explanation
Indices: 51892816--51892909 Score: 129
Period size: 49 Copynumber: 2.0 Consensus size: 49
51892806 GTGGCGTTTG
*
51892816 TGATAAAAGCG-T-CGAAAGGTCATGGTCTTTAACGGTGTTTATGATTA
1 TGATAAAAGCGCTGCGAAAGGTCATGGTCTTTAACGGCGTTTATGATTA
* * * *
51892863 TGATAAAAGCGCTGCTAAATGTCATGGTCTTTAGCGGCGTTTGTGAT
1 TGATAAAAGCGCTGCGAAAGGTCATGGTCTTTAACGGCGTTTATGAT
51892910 AAAAGCGCCG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 11 0.28
48 1 0.03
49 28 0.70
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.34
Consensus pattern (49 bp):
TGATAAAAGCGCTGCGAAAGGTCATGGTCTTTAACGGCGTTTATGATTA
Found at i:51896340 original size:161 final size:162
Alignment explanation
Indices: 51895986--51896378 Score: 540
Period size: 161 Copynumber: 2.4 Consensus size: 162
51895976 CAATCCCCCA
*
51895986 ATACCTCAAATTATTGCAGTTT-TCAACTTTTACTTCCCTTAAACTTTGGAGGCTTATGTTTGAC
1 ATACCTCAAATTATTGCAGTTTCT-AACTTCTACTTCCCTTAAACTTTGGAGGCTTATGTTTGAC
* * *
51896050 ACTTCCGAACCTTGGATTATTTCGTCTAATTGGGAGCAATCACTTATCTGCAGAGTTTGCAACCT
65 ACTTCCGAACCTTGGATTATTTCGTCTAATTGGGAGCAATCACATATCTGCAAAGCTTGCAACCT
* *
51896115 CCTAAGGCTATTAGCAATAGACATTGGGAAGAG
130 CCCAAGGCTATTAGAAATAGACATTGGGAAGAG
* * *
51896148 ATACATCAAATTATTGCCGTTTCTGACTTCTACTTCCCTTAAACTTTGGAGGCTTATGTTTGACA
1 ATACCTCAAATTATTGCAGTTTCTAACTTCTACTTCCCTTAAACTTTGGAGGCTTATGTTTGACA
** * * * * * * *
51896213 CTTTTGAGCCTTGGATT-GTTC-TTTCAATTGGGAGCAGTCTCATATCTTCAAAGCTTGCAATCT
66 CTTCCGAACCTTGGATTATTTCGTCT-AATTGGGAGCAATCACATATCTGCAAAGCTTGCAACCT
* *
51896276 CCCAAGGCTATTAGAAATAGCCATTGGGAAGGG
130 CCCAAGGCTATTAGAAATAGACATTGGGAAGAG
* * *
51896309 ATACCTCAAATTATTGTAGTTTCTAACTTCTACTTCCCTTAAACTTTGGAGGTTTATGTCTGACA
1 ATACCTCAAATTATTGCAGTTTCTAACTTCTACTTCCCTTAAACTTTGGAGGCTTATGTTTGACA
51896374 CTTCC
66 CTTCC
51896379 AATTGGGAGC
Statistics
Matches: 201, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
160 2 0.01
161 125 0.62
162 73 0.36
163 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (162 bp):
ATACCTCAAATTATTGCAGTTTCTAACTTCTACTTCCCTTAAACTTTGGAGGCTTATGTTTGACA
CTTCCGAACCTTGGATTATTTCGTCTAATTGGGAGCAATCACATATCTGCAAAGCTTGCAACCTC
CCAAGGCTATTAGAAATAGACATTGGGAAGAG
Found at i:51912173 original size:4 final size:4
Alignment explanation
Indices: 51912166--51912210 Score: 56
Period size: 4 Copynumber: 10.8 Consensus size: 4
51912156 ATAAAAAAAA
51912166 TTAT TTATT TTAT TTAT TTATT TTAT TTAT CTTAT TTAT TT-T TTA
1 TTAT TTA-T TTAT TTAT TTA-T TTAT TTAT -TTAT TTAT TTAT TTA
51912211 AATTTGTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 3 0.08
4 22 0.59
5 12 0.32
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:51912180 original size:9 final size:9
Alignment explanation
Indices: 51912169--51912207 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
51912159 AAAAAAATTA
51912169 TTTATTT-T
1 TTTATTTAT
51912177 ATTTATTTAT
1 -TTTATTTAT
51912187 TTTATTTAT
1 TTTATTTAT
*
51912196 CTTATTTAT
1 TTTATTTAT
51912205 TTT
1 TTT
51912208 TTAAATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 26 0.96
10 1 0.04
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTAT
Found at i:51912184 original size:13 final size:13
Alignment explanation
Indices: 51912166--51912210 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
51912156 ATAAAAAAAA
51912166 TTATTTATTTTAT
1 TTATTTATTTTAT
51912179 TTATTTATTTTAT
1 TTATTTATTTTAT
51912192 TTATCTTA-TTTAT
1 TTAT-TTATTTTAT
51912205 TT-TTTA
1 TTATTTA
51912211 AATTTGTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
11 3 0.10
12 1 0.03
13 24 0.77
14 3 0.10
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (13 bp):
TTATTTATTTTAT
Found at i:51912215 original size:22 final size:22
Alignment explanation
Indices: 51912168--51912224 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
51912158 AAAAAAAATT
* *
51912168 ATTTATTTTATTTATTTATTTT
1 ATTTATATTATTTATTTATTTA
*
51912190 ATTTATCTTATTTATTT-TTTAA
1 ATTTATATTATTTATTTATTT-A
*
51912212 ATTTGTATTATTT
1 ATTTATATTATTT
51912225 GTCAAATTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (22 bp):
ATTTATATTATTTATTTATTTA
Found at i:51919464 original size:19 final size:19
Alignment explanation
Indices: 51919419--51919467 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
51919409 TGTTGTCCGA
*
51919419 AAAT-GATTTTTAAAAAAT
1 AAATAGATTTTAAAAAAAT
*
51919437 AAATTGATTTTAAAAAAAT
1 AAATAGATTTTAAAAAAAT
**
51919456 TGATAGATTTTA
1 AAATAGATTTTA
51919468 TTGTTTGGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.41
Consensus pattern (19 bp):
AAATAGATTTTAAAAAAAT
Found at i:51930090 original size:61 final size:61
Alignment explanation
Indices: 51929995--51930117 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
51929985 TCTAACCATG
51929995 ACCCATAGCCTCTATTAATGGTATCTAAGGGATAGTATAATAATACTTTGAGCCAGTTTTA
1 ACCCATAGCCTCTATTAATGGTATCTAAGGGATAGTATAATAATACTTTGAGCCAGTTTTA
51930056 ACCCATAGCCTCTATTAATGGTATCTAAGGGATAGTATAATAATACTTTGAGCCAGTTTTA
1 ACCCATAGCCTCTATTAATGGTATCTAAGGGATAGTATAATAATACTTTGAGCCAGTTTTA
51930117 A
1 A
51930118 TCTGGCTGCA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (61 bp):
ACCCATAGCCTCTATTAATGGTATCTAAGGGATAGTATAATAATACTTTGAGCCAGTTTTA
Found at i:51939099 original size:3 final size:3
Alignment explanation
Indices: 51939091--51939127 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
51939081 TTTTCAAAGC
51939091 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
51939128 GATACTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:51939293 original size:18 final size:19
Alignment explanation
Indices: 51939272--51939312 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
51939262 ATTTTATAAT
*
51939272 TTTTATAAA-TATTTTGAA
1 TTTTAAAAATTATTTTGAA
*
51939290 TTTTAAAAATTGTTTTGAA
1 TTTTAAAAATTATTTTGAA
51939309 TTTT
1 TTTT
51939313 TTTTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TTTTAAAAATTATTTTGAA
Found at i:51939293 original size:19 final size:18
Alignment explanation
Indices: 51939257--51939313 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
51939247 TTTTAAAAAA
51939257 TATAAATTTTAT-AATTTT
1 TATAAATTTT-TGAATTTT
51939275 TATAAATATTTTGAA-TTT
1 TATAAAT-TTTTGAATTTT
*
51939293 TAAAAATTGTTTTGAATTTT
1 TATAAA-T-TTTTGAATTTT
51939313 T
1 T
51939314 TTTTTTGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 16 0.48
19 13 0.39
20 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TATAAATTTTTGAATTTT
Found at i:51944293 original size:13 final size:13
Alignment explanation
Indices: 51944257--51944286 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51944247 TCTCCACTAG
*
51944257 AATTATACTATTT
1 AATTATATTATTT
51944270 AATTATATTATTT
1 AATTATATTATTT
51944283 AATT
1 AATT
51944287 TTTTTATGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATATTATTT
Found at i:51946511 original size:15 final size:16
Alignment explanation
Indices: 51946481--51946515 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
51946471 TTCTATAGGG
*
51946481 ATTTTACTTTTATTTT
1 ATTTTACTTGTATTTT
51946497 ATTTTAC-TGTATTTT
1 ATTTTACTTGTATTTT
51946512 ATTT
1 ATTT
51946516 AAATAAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (16 bp):
ATTTTACTTGTATTTT
Found at i:51952941 original size:215 final size:216
Alignment explanation
Indices: 51952513--51952950 Score: 612
Period size: 215 Copynumber: 2.0 Consensus size: 216
51952503 GAGATAAGAT
* *
51952513 TTATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGACTACTGGCTTCAATCTGCTCCACTA
1 TTATTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTACTGGCTTCAATCTACTCCACTA
* * * ** * *
51952578 CTACTTAGGGAGATAAGATCTTCCATCTTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCT
66 CAACTCAGGGAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCC
* * *
51952643 GTTTCTTATGTCTGCTCCGCTGCAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACAGCA
131 CTTTCTTAGGTCTGCTCCGCTGCAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTACAGCA
51952708 ACTTCAGAGAGATAAGATCTG
196 ACTTCAGAGAGATAAGATCTG
* * * * *
51952729 TTATTTTAATCCGCTCCACTGCCACCTCAGGGAGATAGGATTAGTGGCTTCAATTTACTCCACTG
1 TTATTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTACTGGCTTCAATCTACTCCAC--
* *
51952794 TA-AACTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCGACTACTG-TTAGGGAGATAAGA-
64 TACAACTCAGGGAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
* * * *
51952856 CCCTTTCTTCGGTCTGCTCTGCTGCAACCTCAAGGAGATAAGACCTGATGCGATCTACTTTACTG
129 CCCTTTCTTAGGTCTGCTCCGCTGCAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTACAG
*
51952921 TAACTTCAGAGAGATAAGATCTG
194 CAACTTCAGAGAGATAAGATCTG
*
51952944 TAATTTT
1 TTATTTT
51952951 TTTTCAACCT
Statistics
Matches: 195, Mismatches: 25, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
215 85 0.44
216 70 0.36
217 38 0.19
218 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (216 bp):
TTATTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTACTGGCTTCAATCTACTCCACTA
CAACTCAGGGAGATAAAATCCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCC
CTTTCTTAGGTCTGCTCCGCTGCAACCTCAAGGAGATAAGACCTGATGCGATCTACTCTACAGCA
ACTTCAGAGAGATAAGATCTG
Found at i:51953162 original size:44 final size:44
Alignment explanation
Indices: 51953041--51953164 Score: 203
Period size: 44 Copynumber: 2.8 Consensus size: 44
51953031 TTTGTAATTT
* *
51953041 TTCAATCTATTCCACTACTGACCAGGGAGATAGAATCAACAATC
1 TTCAATCTATTCCACTACTGACCAGGGAGATAGGACCAACAATC
* *
51953085 TTCAACCTATTCCACTACTGACCAGGGAGATAGGACCTACAATC
1 TTCAATCTATTCCACTACTGACCAGGGAGATAGGACCAACAATC
*
51953129 TTCAATCTATTCCACTGCTGACCAGGGAGATAGGAC
1 TTCAATCTATTCCACTACTGACCAGGGAGATAGGAC
51953165 TAGTATCTTC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (44 bp):
TTCAATCTATTCCACTACTGACCAGGGAGATAGGACCAACAATC
Found at i:51955543 original size:23 final size:21
Alignment explanation
Indices: 51955517--51955587 Score: 79
Period size: 23 Copynumber: 3.2 Consensus size: 21
51955507 GTTATTTTCA
51955517 TTTTTTTGATTATGATTGATTTT
1 TTTTTTTGATTATGATT--TTTT
* *
51955540 TTTTTTTAATTTTGACTTTTTT
1 TTTTTTTGATTATGA-TTTTTT
*
51955562 TTATTTTTGATTCTGATTTTTT
1 TT-TTTTTGATTATGATTTTTT
51955584 TTTT
1 TTTT
51955588 GTGAATTGGA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
21 2 0.05
22 14 0.33
23 24 0.57
24 2 0.05
ACGTcount: A:0.14, C:0.03, G:0.08, T:0.75
Consensus pattern (21 bp):
TTTTTTTGATTATGATTTTTT
Found at i:51955559 original size:17 final size:17
Alignment explanation
Indices: 51955539--51955571 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51955529 TGATTGATTT
51955539 TTTTTTTTAATTTTGAC
1 TTTTTTTTAATTTTGAC
*
51955556 TTTTTTTTATTTTTGA
1 TTTTTTTTAATTTTGA
51955572 TTCTGATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTTTTAATTTTGAC
Found at i:51956679 original size:25 final size:25
Alignment explanation
Indices: 51956629--51956694 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
51956619 AAGAAAATCC
*
51956629 AAAAGAATGAAAGAATAATTATTCA
1 AAAAGAATGAAAGAATAATTACTCA
*
51956654 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
51956679 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
51956695 TGTATTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 3 0.08
25 23 0.64
26 5 0.14
27 5 0.14
ACGTcount: A:0.58, C:0.06, G:0.17, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:51964185 original size:44 final size:44
Alignment explanation
Indices: 51964101--51964214 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
51964091 GATGCGATCT
* * *
51964101 ACTCTACTGCAACTTCAGAGAGATAAGATCTGTTATTTTAATCC
1 ACTCTACTGCAACCTCAGAGAGATAAGATCTGTGACTTTAATCC
* * * *
51964145 ACTCCACTGCAACCTCAGAGAGATAGGAT-TAGTGGCTTTAATCT
1 ACTCTACTGCAACCTCAGAGAGATAAGATCT-GTGACTTTAATCC
* * *
51964189 ACTCTACTGTAACCTAAGGGAGATAA
1 ACTCTACTGCAACCTCAGAGAGATAA
51964215 AATCCACCAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 1 0.02
44 56 0.98
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (44 bp):
ACTCTACTGCAACCTCAGAGAGATAAGATCTGTGACTTTAATCC
Found at i:51964518 original size:132 final size:131
Alignment explanation
Indices: 51964361--51964653 Score: 304
Period size: 132 Copynumber: 2.2 Consensus size: 131
51964351 AATTTTTTTT
* * **** * * * *
51964361 TCAACCTACTCCACTGCTGCTCAGGGAGACAAG-GCTGGGGTCTTCGATCTGCTCCACTACTGCT
1 TCAACCTATTCCACTGCTGC-CAGGGAGACAAGACCTACAATCTTCAATCTACTCCACTACTACC
* * * * *
51964425 TAGAGAGATAAGATTTGT-AATTTTTCAATCTATTCCACTGCTGACCAGGGAGATA-GAATTCAC
65 CAGAGAGAT-AGAATTCTCAA-TCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAATT-AC
*
51964488 AATCT
127 AATCC
* * * *
51964493 TTAACCTATTCCACTGCTGACCAGGGAGATAAGACCTACAATCTTCAATCTATTCCACTATTACC
1 TCAACCTATTCCACTGCTG-CCAGGGAGACAAGACCTACAATCTTCAATCTACTCCACTACTACC
* *
51964558 CAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTTACAAT
65 CAGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAATTACAAT
51964623 CC
130 CC
*
51964625 TCAACCTATTCCACTGCTTTCCAGGGAGA
1 TCAACCTATTCCACTGC-TGCCAGGGAGA
51964654 TAGGACTAGT
Statistics
Matches: 132, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
132 97 0.73
133 35 0.27
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (131 bp):
TCAACCTATTCCACTGCTGCCAGGGAGACAAGACCTACAATCTTCAATCTACTCCACTACTACCC
AGAGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGAATTACAATC
C
Found at i:51964540 original size:88 final size:88
Alignment explanation
Indices: 51964448--51964656 Score: 321
Period size: 88 Copynumber: 2.4 Consensus size: 88
51964438 TTTGTAATTT
* *
51964448 TTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATCTTTAACCTATTCCACTGCTGA
1 TTCAATCTATTCCACTGCTTACCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGA
51964513 CCAGGGAGATAAGACCTACAATC
66 CCAGGGAGATAAGACCTACAATC
* *
51964536 TTCAATCTATTCCACT-ATTACCCAGGGAGATAGAATTCTCAATCTTCAACCTATTCCACTGCTG
1 TTCAATCTATTCCACTGCTTA-CCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTG
* *
51964600 ACCAGGGAGATAGGACTTACAATC
65 ACCAGGGAGATAAGACCTACAATC
* * *
51964624 CTCAACCTATTCCACTGCTTTCCAGGGAGATAG
1 TTCAATCTATTCCACTGCTTACCAGGGAGATAG
51964657 GACTAGTATC
Statistics
Matches: 109, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
87 2 0.02
88 105 0.96
89 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (88 bp):
TTCAATCTATTCCACTGCTTACCAGGGAGATAGAATTCACAATCTTCAACCTATTCCACTGCTGA
CCAGGGAGATAAGACCTACAATC
Found at i:51964660 original size:44 final size:44
Alignment explanation
Indices: 51964448--51964656 Score: 262
Period size: 44 Copynumber: 4.8 Consensus size: 44
51964438 TTTGTAATTT
* *
51964448 TTCAATCTATTCCACTGCTGACCAGGGAGATAGAATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGACTTCACAATC
* *
51964492 TTTAACCTATTCCACTGCTGACCAGGGAGATAAGACCT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGAT-AGACTTCACAATC
* * * * *
51964536 TTCAATCTATTCCACT-ATTACCCAGGGAGATAGAATTCTCAATC
1 TTCAACCTATTCCACTGCTGA-CCAGGGAGATAGACTTCACAATC
51964580 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATA-GACTTCACAATC
* **
51964624 CTCAACCTATTCCACTGCTTTCCAGGGAGATAG
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAG
51964657 GACTAGTATC
Statistics
Matches: 141, Mismatches: 19, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
43 7 0.05
44 124 0.88
45 10 0.07
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGACTTCACAATC
Found at i:51964718 original size:88 final size:88
Alignment explanation
Indices: 51964625--51964803 Score: 209
Period size: 88 Copynumber: 2.0 Consensus size: 88
51964615 CTTACAATCC
* *** *
51964625 TCAACCTATTCCACTGCTTTCCAGGGA-G-ATAGGACTAGTATCTTTGATCTACTTCGCTGTCAG
1 TCAACCTACTCCACTGCAACCCAGGGAGGCA-AGG-CTAGTATCTTCGATCTACTTCGCTGTCAG
** *
51964688 TATGGGAAGGCAAGATCTGTTCTTT
64 TACAGGAAGGCAAGATCTGCTCTTT
* * * * *
51964713 TCAACCTACTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTG
1 TCAACCTACTCCACTGCAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTACTTCGCTGTCAGTA
51964778 CAGGAAGGCAAGATCTGCTCTTT
66 CAGGAAGGCAAGATCTGCTCTTT
51964801 TCA
1 TCA
51964804 CTGATCTATT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
88 71 0.93
89 4 0.05
90 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (88 bp):
TCAACCTACTCCACTGCAACCCAGGGAGGCAAGGCTAGTATCTTCGATCTACTTCGCTGTCAGTA
CAGGAAGGCAAGATCTGCTCTTT
Found at i:51972198 original size:34 final size:33
Alignment explanation
Indices: 51972150--51972213 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
51972140 TTTCCCTTTC
*
51972150 TCAAACAATAATAAAAAGAAAAGAAAAAAAAGAA
1 TCAAAAAATAATAAAAA-AAAAGAAAAAAAAGAA
* **
51972184 TCAAAAAATGATAAAAAATGAGAAAAAAAA
1 TCAAAAAATAATAAAAAAAAAGAAAAAAAA
51972214 CTCGAAGTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 11 0.42
34 15 0.58
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (33 bp):
TCAAAAAATAATAAAAAAAAAGAAAAAAAAGAA
Found at i:51980872 original size:107 final size:107
Alignment explanation
Indices: 51980681--51980878 Score: 256
Period size: 107 Copynumber: 1.9 Consensus size: 107
51980671 TTGAGCTGGG
* * ** * * *
51980681 TGATCATTTAGCAGGTATTATGTACCGGTGATACAAATTGTAGCGATGGCTGAGATCCTGCATTT
1 TGATCATTTAACAGGTAATATGTACCGGTGATACAAACCGTAGCAATGGCTGAGATCCTACATTC
* *
51980746 GTTTCAGATTCTCTATAGCTTGTGTGCAACATTGTGAGTCGA
66 ATTGCAGATTCTCTATAGCTTGTGTGCAACATTGTGAGTCGA
*
51980788 TGATTATTTAACAGGTAATATGTACCGGTGATACAAACCGTTA-CAATGGCTTGAGATCCTACA-
1 TGATCATTTAACAGGTAATATGTACCGGTGATACAAACCG-TAGCAATGGC-TGAGATCCTACAT
* *
51980851 TCATTGCGGATTCTCTGTAGCTTGTGTG
64 TCATTGCAGATTCTCTATAGCTTGTGTG
51980879 AGCAGCATCG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
107 64 0.83
108 13 0.17
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (107 bp):
TGATCATTTAACAGGTAATATGTACCGGTGATACAAACCGTAGCAATGGCTGAGATCCTACATTC
ATTGCAGATTCTCTATAGCTTGTGTGCAACATTGTGAGTCGA
Found at i:51985293 original size:14 final size:14
Alignment explanation
Indices: 51985265--51985328 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 14
51985255 AAATAAAGGG
51985265 AGAAACAAAAGAGAAA
1 AGAAA-AAAA-AGAAA
*
51985281 GGAAAAAAAAGAAA
1 AGAAAAAAAAGAAA
51985295 AGAAAAAAAAGTTAAA
1 AGAAAAAAAAG--AAA
51985311 AGAACATAAAAGAGAAA
1 AGAA-A-AAAA-AGAAA
51985328 A
1 A
51985329 AATAAATTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
14 15 0.37
15 4 0.10
16 11 0.27
17 5 0.12
18 4 0.10
19 2 0.05
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (14 bp):
AGAAAAAAAAGAAA
Found at i:51989454 original size:15 final size:15
Alignment explanation
Indices: 51989434--51989467 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
51989424 TAAAAATTTT
51989434 AAATAAATATTGTAA
1 AAATAAATATTGTAA
*
51989449 AAATAAATATTTTAA
1 AAATAAATATTGTAA
51989464 AAAT
1 AAAT
51989468 CTTAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAATAAATATTGTAA
Found at i:51994006 original size:26 final size:26
Alignment explanation
Indices: 51993971--51994034 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
51993961 TCATACTATC
* * *
51993971 CATTTTATATATTCAATATCATAGCT
1 CATTTCATATACTCAACATCATAGCT
*
51993997 CATTTCATATACTCAACATTATAGCT
1 CATTTCATATACTCAACATCATAGCT
*
51994023 TATTTCATATAC
1 CATTTCATATAC
51994035 GTACCTTTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.44
Consensus pattern (26 bp):
CATTTCATATACTCAACATCATAGCT
Found at i:51995986 original size:25 final size:25
Alignment explanation
Indices: 51995955--51996003 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
51995945 GCACTTTCTC
*
51995955 GAGCCATATAATGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGT
*
51995980 GAGCCATGTAACGGGAAGCTCATG
1 GAGCCATATAACGGGAAGCTCATG
51996004 CGATCCAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:51996148 original size:25 final size:26
Alignment explanation
Indices: 51996092--51996149 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
51996082 CCTTATCAGA
51996092 AAGCTCACAAAGAGCCAATTAACGGG
1 AAGCTCACAAAGAGCCAATTAACGGG
51996118 AAGCTCACAAAGAGCC-A-TAATCGGG
1 AAGCTCACAAAGAGCCAATTAA-CGGG
51996143 AAGCTCA
1 AAGCTCA
51996150 TAAGATCTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 3 0.10
25 12 0.39
26 16 0.52
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.12
Consensus pattern (26 bp):
AAGCTCACAAAGAGCCAATTAACGGG
Found at i:51998635 original size:107 final size:107
Alignment explanation
Indices: 51998355--51998610 Score: 343
Period size: 107 Copynumber: 2.4 Consensus size: 107
51998345 ACGAGATTGT
* * * ** * * *
51998355 TCACACAAGCTGAT-GAGAATCCGCAACATATGCAAAATCTCAGCCATTTGAATGGACTATAACA
1 TCACACAAGCTG-TCGAGAATCCGCAACATATGTAGAATCTCAACCATCGGAACGGTCTATATCA
* * *
51998419 TCATAATAGAGTAGCCGTTCTATTCACCAGTTCACGATGCTAC
65 TCATAATAGAGTAGCCATTCAATTCACCAATTCACGATGCTAC
* * *
51998462 TCACACAAGCTGTCGAGAATCCGCAACATATGTAGGATCTTAACCATCGGAACGGTCTATGTCAT
1 TCACACAAGCTGTCGAGAATCCGCAACATATGTAGAATCTCAACCATCGGAACGGTCTATATCAT
*
51998527 CATAATAGAGTAGCCATTCAATTCACCAATTCACGATGCTGC
66 CATAATAGAGTAGCCATTCAATTCACCAATTCACGATGCTAC
* *
51998569 TCATACAAGCTGTCGAGATTCCGCAACATATGTAGAATCTCA
1 TCACACAAGCTGTCGAGAATCCGCAACATATGTAGAATCTCA
51998611 GACATCGCGA
Statistics
Matches: 129, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
106 1 0.01
107 128 0.99
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (107 bp):
TCACACAAGCTGTCGAGAATCCGCAACATATGTAGAATCTCAACCATCGGAACGGTCTATATCAT
CATAATAGAGTAGCCATTCAATTCACCAATTCACGATGCTAC
Found at i:52003047 original size:19 final size:19
Alignment explanation
Indices: 52003006--52003047 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
52002996 CTTCAATTAT
*
52003006 AATAAATATAATATAATAT
1 AATAAATATAATATAATAA
*
52003025 AATAAATA-AATTATAGTAA
1 AATAAATATAA-TATAATAA
52003044 AATA
1 AATA
52003048 TACCTGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AATAAATATAATATAATAA
Found at i:52006114 original size:16 final size:18
Alignment explanation
Indices: 52006093--52006126 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
52006083 TACTATAGGG
52006093 ATTTTACT-TT-TATTTT
1 ATTTTACTGTTGTATTTT
52006109 ATTTTACTGTTGTATTTT
1 ATTTTACTGTTGTATTTT
52006127 TTTAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (18 bp):
ATTTTACTGTTGTATTTT
Found at i:52009227 original size:26 final size:26
Alignment explanation
Indices: 52009191--52009245 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
52009181 AACACACTAA
*
52009191 TATCGCAGCAAAGCTACTAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
* *
52009217 TATCGTAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
52009243 TAT
1 TAT
52009246 ACTTCCTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTAACAG
Found at i:52009414 original size:27 final size:27
Alignment explanation
Indices: 52009392--52009645 Score: 364
Period size: 27 Copynumber: 9.4 Consensus size: 27
52009382 GAGTATAACA
* *
52009392 GTCATTTTACCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
52009419 GTCATTTTACCCTACGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
52009446 GTCATTTTACCCTATGGGGGTATTTGG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
52009473 GTCATTTTACCTTACGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
***
52009500 GTCATTTTACCCTACAAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
52009527 ATCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
52009554 ATCATTTTACCTTACGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
52009581 GTCATTATACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
52009608 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
52009635 GTCATTTTACC
1 GTCATTTTACC
52009646 TATTAGAGTA
Statistics
Matches: 204, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 204 1.00
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:52009501 original size:81 final size:81
Alignment explanation
Indices: 52009392--52009646 Score: 420
Period size: 81 Copynumber: 3.1 Consensus size: 81
52009382 GAGTATAACA
*
52009392 GTCATTTTACCTTATGGGGGTATTTTGGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCTTACGGGGGTATTTTGGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACC
*
52009457 CTATGGGGGTATTTGG
66 CTATGGGGGTATTTCG
** *
52009473 GTCATTTTACCTTACGGGGGTATTTTGGTCATTTTACCCTACAAGGGTATTTCGATCATTTTACC
1 GTCATTTTACCTTACGGGGGTATTTTGGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACC
*
52009538 CTATAGGGGTATTTCG
66 CTATGGGGGTATTTCG
* * * *
52009554 ATCATTTTACCTTACGGGGGTATTTCGGTCATTATACCCTATGGGGGTATTTCGGTCATTTTACC
1 GTCATTTTACCTTACGGGGGTATTTTGGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACC
52009619 CTATGGGGGTATTTCG
66 CTATGGGGGTATTTCG
52009635 GTCATTTTACCT
1 GTCATTTTACCT
52009647 ATTAGAGTAT
Statistics
Matches: 159, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 159 1.00
ACGTcount: A:0.17, C:0.18, G:0.24, T:0.41
Consensus pattern (81 bp):
GTCATTTTACCTTACGGGGGTATTTTGGTCATTTTACCCTACGGGGGTATTTCGGTCATTTTACC
CTATGGGGGTATTTCG
Found at i:52011179 original size:27 final size:27
Alignment explanation
Indices: 52011145--52011217 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
52011135 CATTCCAACA
52011145 TTACCCTATGAGGGTATTTTGGTCATT
1 TTACCCTATGAGGGTATTTTGGTCATT
*
52011172 TTACCCTA-CAGGGGTATTTTGGTCATT
1 TTACCCTATGA-GGGTATTTTGGTCATT
*
52011199 TTATCCTATGAGGGTATTT
1 TTACCCTATGAGGGTATTT
52011218 CAATCATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (27 bp):
TTACCCTATGAGGGTATTTTGGTCATT
Found at i:52013518 original size:27 final size:26
Alignment explanation
Indices: 52013484--52013696 Score: 212
Period size: 27 Copynumber: 7.9 Consensus size: 26
52013474 CCCTCCTGAT
* *
52013484 CGAAATACCCTCGAAGGGGAAAATGA
1 CGAAATACCCTCAAAGGGTAAAATGA
*
52013510 TCGAAATACCCTCAAAGGATAAAATGA
1 -CGAAATACCCTCAAAGGGTAAAATGA
*
52013537 CTGAAATACCCTCAAAGAGTAAAATGA
1 C-GAAATACCCTCAAAGGGTAAAATGA
* * *
52013564 CCAAAATACCCCCGAAGGGTAAAATGA
1 -CGAAATACCCTCAAAGGGTAAAATGA
*
52013591 CTGAAATACCCTCAAAGGGTAAGATGA
1 C-GAAATACCCTCAAAGGGTAAAATGA
* *
52013618 CCAAAATA-CCTCCGAAGGGTAAAATGA
1 -CGAAATACCCT-CAAAGGGTAAAATGA
*
52013645 CTGAAATACCCTTAAAGGGTAAAATGA
1 C-GAAATACCCTCAAAGGGTAAAATGA
* * * *
52013672 TCAAAATACCCCCATAGGTTAAAAT
1 -CGAAATACCCTCAAAGGGTAAAAT
52013697 AACTGTTTTA
Statistics
Matches: 154, Mismatches: 24, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
26 6 0.04
27 142 0.92
28 6 0.04
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.17
Consensus pattern (26 bp):
CGAAATACCCTCAAAGGGTAAAATGA
Found at i:52013549 original size:54 final size:54
Alignment explanation
Indices: 52013485--52013701 Score: 290
Period size: 54 Copynumber: 4.0 Consensus size: 54
52013475 CCTCCTGATC
* * * * * *
52013485 GAAATACCCTCGAAGGGGAAAATGATCGAAATACCCTCAAAGGATAAAATGACT
1 GAAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGACT
* *
52013539 GAAATACCCTCAAAGAGTAAAATGACCAAAATACCCCCGAAGGGTAAAATGACT
1 GAAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGACT
* * *
52013593 GAAATACCCTCAAAGGGTAAGATGACCAAAATACCTCCGAAGGGTAAAATGACT
1 GAAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGACT
* * * * *
52013647 GAAATACCCTTAAAGGGTAAAATGATCAAAATACCCCCATAGGTTAAAATAACT
1 GAAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGACT
52013701 G
1 G
52013702 TTTTACCCCT
Statistics
Matches: 144, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 144 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (54 bp):
GAAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGACT
Found at i:52013625 original size:81 final size:81
Alignment explanation
Indices: 52013486--52013696 Score: 246
Period size: 81 Copynumber: 2.6 Consensus size: 81
52013476 CTCCTGATCG
* **
52013486 AAATACCCTCGAAGGGGAAAATGATCGAAATACCCTCAAAGGATAAAATGACTGAAATACC-CTC
1 AAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGATAAAATGACCAAAATACCTC-C
52013550 AAAGAGTAAAATGACCA
65 AAAGAGTAAAATGACCA
* * *
52013567 AAATACCCCCGAAGGGTAAAATGA-CTGAAATACCCTCAAAGGGTAAGATGACCAAAATACCTCC
1 AAATACCCTCGAAGGGTAAAATGATC-GAAATACCCTCAAAGGATAAAATGACCAAAATACCTCC
* * **
52013631 GAAGGGTAAAATGACTG
65 AAAGAGTAAAATGACCA
** * * * *
52013648 AAATACCCTTAAAGGGTAAAATGATCAAAATACCCCCATAGGTTAAAAT
1 AAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGATAAAAT
52013697 AACTGTTTTA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
80 1 0.01
81 106 0.97
82 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (81 bp):
AAATACCCTCGAAGGGTAAAATGATCGAAATACCCTCAAAGGATAAAATGACCAAAATACCTCCA
AAGAGTAAAATGACCA
Found at i:52013945 original size:26 final size:26
Alignment explanation
Indices: 52013879--52013950 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
52013869 ACGTATACTG
** *
52013879 TTACTGGCAGCTTTAATGCGTTACTA
1 TTACTGGCAGCTTTGCTGCGTCACTA
* *
52013905 TTTCTGGCAGTTTTGCTGCGTCACTA
1 TTACTGGCAGCTTTGCTGCGTCACTA
52013931 TTACTGGCAGCTTTGCTGCG
1 TTACTGGCAGCTTTGCTGCG
52013951 ATATTGGTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.15, C:0.22, G:0.24, T:0.39
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCTGCGTCACTA
Found at i:52014166 original size:33 final size:32
Alignment explanation
Indices: 52014054--52014172 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 32
52014044 TTACTACATT
*
52014054 TTACTGATTATTGTATTGGGCTAAGGCCCACAC
1 TTACTGA-TATTGTATAGGGCTAAGGCCCACAC
* * * *
52014087 -TA-T--TACTATATTGGGTTAAGGCCCACAC
1 TTACTGATATTGTATAGGGCTAAGGCCCACAC
* *
52014115 --ATTGTTATTGTA-ACGGGCTAAGGCCCACAC
1 TTACTGATATTGTATA-GGGCTAAGGCCCACAC
*
52014145 TGTACTGATATTGTATAGGGCTCAGGCC
1 T-TACTGATATTGTATAGGGCTAAGGCC
52014173 TAGACTGATT
Statistics
Matches: 68, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
27 1 0.01
28 23 0.34
30 20 0.29
31 1 0.01
32 2 0.03
33 20 0.29
34 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (32 bp):
TTACTGATATTGTATAGGGCTAAGGCCCACAC
Found at i:52018873 original size:41 final size:41
Alignment explanation
Indices: 52018816--52018898 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
52018806 CTGGGATGGT
52018816 GAATGTTTCAATTGTGGCAAGAAGGGCCA-TTTTGCTCGTGA
1 GAATGTTTCAATTGTGGCAAGAAGGGCCAGTTTT-CTCGTGA
*
52018857 GAATGTTTCAATTGTGGCAAGAAGGGCTAGTTTTCTCGTGA
1 GAATGTTTCAATTGTGGCAAGAAGGGCCAGTTTTCTCGTGA
52018898 G
1 G
52018899 TGTAGATTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
41 36 0.90
42 4 0.10
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.33
Consensus pattern (41 bp):
GAATGTTTCAATTGTGGCAAGAAGGGCCAGTTTTCTCGTGA
Found at i:52025910 original size:27 final size:27
Alignment explanation
Indices: 52025880--52025931 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
52025870 ATCTTATAGA
52025880 GGTATCATAGTAATTTTACCCTATGAT
1 GGTATCATAGTAATTTTACCCTATGAT
** * *
52025907 GGTATTTTGGTCATTTTACCCTATG
1 GGTATCATAGTAATTTTACCCTATG
52025932 GGGGTATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.44
Consensus pattern (27 bp):
GGTATCATAGTAATTTTACCCTATGAT
Found at i:52026052 original size:26 final size:27
Alignment explanation
Indices: 52025892--52026121 Score: 297
Period size: 27 Copynumber: 8.7 Consensus size: 27
52025882 TATCATAGTA
**
52025892 ATTTTACCCTATGATGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
52025919 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* *
52025946 GTTTTACCCTATGGGGGTATTTTGTTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* *
52025973 ATTTTACCGTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
***
52026000 ATTTT--CCTATGGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTTGGTC
*
52026025 ATTTTATCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
52026051 ATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTC
* *
52026078 ATTTTACCCTAT-GGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTTGGTC
* * *
52026104 ATTCTACCATATGAGGGT
1 ATTTTACCCTATGGGGGT
52026122 CTTTCGATCA
Statistics
Matches: 177, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
25 20 0.11
26 44 0.25
27 113 0.64
ACGTcount: A:0.17, C:0.14, G:0.23, T:0.45
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTTGGTC
Found at i:52026080 original size:53 final size:54
Alignment explanation
Indices: 52025892--52026121 Score: 297
Period size: 53 Copynumber: 4.3 Consensus size: 54
52025882 TATCATAGTA
** *
52025892 ATTTTACCCTATGATGGTATTTTGGTCATTTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTTGGTC
* * *
52025946 GTTTTACCCTATGGGGGTATTTTGTTCATTTTACCGTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTTGGTC
*** *
52026000 ATTTT--CCTATGGGGGTATTTCAATCATTTTATCCTAT-GGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTTGGTC
* *
52026051 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTAT-GGGGTATTTCGGTT
1 ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTTGGTC
* * *
52026104 ATTCTACCATATGAGGGT
1 ATTTTACCCTATGGGGGT
52026122 CTTTCGATCA
Statistics
Matches: 153, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
51 19 0.12
52 27 0.18
53 55 0.36
54 52 0.34
ACGTcount: A:0.17, C:0.14, G:0.23, T:0.45
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTTGGTC
Found at i:52026190 original size:29 final size:29
Alignment explanation
Indices: 52026144--52026209 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
52026134 ATAGTGTAAA
52026144 TGGGCCCAAGGCCAATTACTCGACCTAAG
1 TGGGCCCAAGGCCAATTACTCGACCTAAG
*
52026173 TGGGCCCAAGGCCCATTACTCGACCTAAG
1 TGGGCCCAAGGCCAATTACTCGACCTAAG
52026202 TGGGCCCA
1 TGGGCCCA
52026210 CACACTCGTG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (29 bp):
TGGGCCCAAGGCCAATTACTCGACCTAAG
Found at i:52033778 original size:64 final size:65
Alignment explanation
Indices: 52033703--52033832 Score: 235
Period size: 64 Copynumber: 2.0 Consensus size: 65
52033693 GGATATTCTC
* *
52033703 TAGAAGGCTAGATATTATACATGAACATTCTAGTTATTAGAT-TTTTTTAAATTAATGGTAAGGA
1 TAGAAGACTAGATATTATACATGAACATTCTAGTTATTAGATATTTTTGAAATTAATGGTAAGGA
52033767 TAGAAGACTAGATATTATACATGAACATTCTAGTTATTAGATATTTTTGAAATTAATGGTAAGGA
1 TAGAAGACTAGATATTATACATGAACATTCTAGTTATTAGATATTTTTGAAATTAATGGTAAGGA
52033832 T
1 T
52033833 GTTGACATGT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
64 41 0.65
65 22 0.35
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.38
Consensus pattern (65 bp):
TAGAAGACTAGATATTATACATGAACATTCTAGTTATTAGATATTTTTGAAATTAATGGTAAGGA
Found at i:52040837 original size:9 final size:9
Alignment explanation
Indices: 52040804--52040870 Score: 50
Period size: 9 Copynumber: 7.3 Consensus size: 9
52040794 TAAAATGATA
52040804 AATGATAAAT
1 AATGAT-AAT
52040814 AAT-ATAAT
1 AATGATAAT
52040822 ACTATGATAAT
1 A--ATGATAAT
*
52040833 AATGAT-GT
1 AATGATAAT
*
52040841 AATTATAAT
1 AATGATAAT
*
52040850 AATGATAAC
1 AATGATAAT
52040859 AAT-ATTAAT
1 AATGA-TAAT
52040868 AAT
1 AAT
52040871 CAGATCGCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
8 11 0.24
9 24 0.52
10 5 0.11
11 6 0.13
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (9 bp):
AATGATAAT
Found at i:52042160 original size:5 final size:6
Alignment explanation
Indices: 52042145--52042169 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
52042135 TTTACAATAT
52042145 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
52042170 GTTTATGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:52043255 original size:11 final size:11
Alignment explanation
Indices: 52043219--52043281 Score: 85
Period size: 11 Copynumber: 5.7 Consensus size: 11
52043209 TAAATCCTTT
*
52043219 CTCTC-AATTT
1 CTCTCAAATTC
52043229 CTCTCCAATATT-
1 CTCT-CAA-ATTC
52043241 CTCTCAAATTC
1 CTCTCAAATTC
52043252 CTCTCAAATTC
1 CTCTCAAATTC
52043263 CTCTCAAATTC
1 CTCTCAAATTC
52043274 CTCTCAAA
1 CTCTCAAA
52043282 AAAGCTTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.14
11 34 0.69
12 5 0.10
13 3 0.06
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:52044499 original size:7 final size:7
Alignment explanation
Indices: 52044487--52044547 Score: 122
Period size: 7 Copynumber: 8.7 Consensus size: 7
52044477 TAGTCGATTG
52044487 GTATTTA
1 GTATTTA
52044494 GTATTTA
1 GTATTTA
52044501 GTATTTA
1 GTATTTA
52044508 GTATTTA
1 GTATTTA
52044515 GTATTTA
1 GTATTTA
52044522 GTATTTA
1 GTATTTA
52044529 GTATTTA
1 GTATTTA
52044536 GTATTTA
1 GTATTTA
52044543 GTATT
1 GTATT
52044548 ATGTATTATG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 54 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (7 bp):
GTATTTA
Found at i:52046888 original size:125 final size:125
Alignment explanation
Indices: 52046639--52046929 Score: 474
Period size: 126 Copynumber: 2.3 Consensus size: 125
52046629 TTAAGCCAAA
* **
52046639 CAGGAGCTACTGTAGCAAAAGCACGTCCACGTAAGAGCTTCTTTCAGTACTTTGCTGACAAAGCA
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTGCTGACAAAGCA
*
52046704 CCCTGCTTAAAGTGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
66 CCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
*
52046764 CTGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTAC-TTTGCTGACAAAGC
* * * *
52046829 ATCCTGCTTAAAGCGTTTTTGACACTATTTGGTTAGAAACGTCTTCTCGAAATTATTTTTT
65 ACCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
* *
52046890 CAGGAGCTACTGTAGCAAAAGAGCGTCCACATGGGAGCTT
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTT
52046930 TTTTAAATTA
Statistics
Matches: 153, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 46 0.30
126 107 0.70
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (125 bp):
CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTGCTGACAAAGCA
CCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT
Found at i:52047887 original size:17 final size:15
Alignment explanation
Indices: 52047857--52047886 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
52047847 AATTTTAAGC
52047857 AAAATTTATTTTTTA
1 AAAATTTATTTTTTA
52047872 AAAATATTATTTTTT
1 AAAAT-TTATTTTTT
52047887 TGTTTTTGAA
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AAAATTTATTTTTTA
Found at i:52049844 original size:85 final size:87
Alignment explanation
Indices: 52049754--52049929 Score: 234
Period size: 86 Copynumber: 2.0 Consensus size: 87
52049744 TTAAGGGTAT
* **
52049754 AAAAA-GCCCTCAAACTTTTTCAAAAAAA-AGCA-ATTAAGCCATTTTTTTTTGCATTCAATTGG
1 AAAAAGGCCCTCAAAATTTTTCAAAAAAAGAAAACATTAAGCCATTTTTTTTTGC--TCAATTGG
**
52049816 GTACTTGAAATTTCAAAATACA-C
64 GTACTTGAAATGCCAAAATACATC
*
52049839 AAAAAGGCCCTCAAAATTTTTCAAAAAAAGAAAACATTAAGCCCTTTTTTTTTGCTCAATTGGGT
1 AAAAAGGCCCTCAAAATTTTTCAAAAAAAGAAAACATTAAGCCATTTTTTTTTGCTCAATTGGGT
* *
52049904 ATTTGAACTGCCAAAATACATC
66 ACTTGAAATGCCAAAATACATC
52049926 AAAA
1 AAAA
52049930 GGCATCAGGT
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
85 5 0.06
86 48 0.61
87 7 0.09
88 19 0.24
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (87 bp):
AAAAAGGCCCTCAAAATTTTTCAAAAAAAGAAAACATTAAGCCATTTTTTTTTGCTCAATTGGGT
ACTTGAAATGCCAAAATACATC
Found at i:52050060 original size:21 final size:22
Alignment explanation
Indices: 52050014--52050069 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
52050004 ATAAAAGTTC
*
52050014 TAAAAAATATT-AAATTTTAGT
1 TAAAAAATATTAAAAATTTAGT
*
52050035 AAAAAAATATTAAAAATTTA-T
1 TAAAAAATATTAAAAATTTAGT
*
52050056 TAAAAATTA-TAAAA
1 TAAAAAATATTAAAA
52050070 TATATAGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 18 0.60
22 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAAAATATTAAAAATTTAGT
Found at i:52050100 original size:10 final size:10
Alignment explanation
Indices: 52050038--52050109 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 10
52050028 TTTTAGTAAA
52050038 AAAATATTA-
1 AAAATATTAT
52050047 AAAAT-TTATT
1 AAAATATTA-T
52050057 AAAA-ATTAT
1 AAAATATTAT
52050066 AAAATA-TAT
1 AAAATATTAT
*
52050075 AGAAATA-TAG
1 A-AAATATTAT
*
52050085 AAAAAAGTTTAT
1 AAAATA--TTAT
52050097 AAAATATTAT
1 AAAATATTAT
52050107 AAA
1 AAA
52050110 GTCATAAGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
8 3 0.06
9 18 0.35
10 23 0.45
12 7 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (10 bp):
AAAATATTAT
Found at i:52050130 original size:41 final size:40
Alignment explanation
Indices: 52050037--52050131 Score: 97
Period size: 41 Copynumber: 2.4 Consensus size: 40
52050027 ATTTTAGTAA
* *
52050037 AAAAATATTAAAAATTTATTAAAAATTATAAAATATATAG
1 AAAATTATAAAAAATTTATTAAAAATTATAAAATATATAG
* *
52050077 -AAATATAGAAAAAAGTTTA-TAAAATATTATAAAGTCATA-AG
1 AAAAT-TATAAAAAA-TTTATTAAAA-ATTATAAAAT-ATATAG
52050118 AAAATTATAAAAAA
1 AAAATTATAAAAAA
52050132 AATAAAGAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
39 3 0.07
40 12 0.27
41 23 0.51
42 7 0.16
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (40 bp):
AAAATTATAAAAAATTTATTAAAAATTATAAAATATATAG
Found at i:52050395 original size:10 final size:10
Alignment explanation
Indices: 52050380--52050406 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
52050370 CTTTTATGAT
52050380 TTTTATAAAA
1 TTTTATAAAA
52050390 TTTTATAAAA
1 TTTTATAAAA
52050400 TTTTATA
1 TTTTATA
52050407 TTTTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTATAAAA
Found at i:52050440 original size:19 final size:19
Alignment explanation
Indices: 52050390--52050441 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
52050380 TTTTATAAAA
52050390 TTTTATAAAATTT-TATAT
1 TTTTATAAAATTTATATAT
* *
52050408 TTTTAATGATATTTATAT-T
1 TTTT-ATAAAATTTATATAT
52050427 TTTTATTAAAATTTA
1 TTTTA-TAAAATTTA
52050442 ATAAATTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 5 0.19
19 19 0.70
20 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAAAATTTATATAT
Found at i:52050467 original size:38 final size:37
Alignment explanation
Indices: 52050360--52050471 Score: 111
Period size: 38 Copynumber: 3.0 Consensus size: 37
52050350 TTCTTTATGC
* * **
52050360 ATTTAATAATCTTTTATGATTTTTATAAAATTTTATAAA
1 ATTTAATAAT-TTTAATGATATTTAT-ATTTTTTATAAA
* *
52050399 ATTTTATATTTTTAATGATATTTATATTTTTTATTAAA
1 ATTTAATAATTTTAATGATATTTATATTTTTTA-TAAA
*
52050437 ATTTAATAAATTTTATTGAT-TTT-TATTTTTTATAA
1 ATTTAAT-AATTTTAATGATATTTATATTTTTTATAA
52050472 TTTTTCCTGC
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
36 3 0.05
37 15 0.24
38 26 0.42
39 18 0.29
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.60
Consensus pattern (37 bp):
ATTTAATAATTTTAATGATATTTATATTTTTTATAAA
Found at i:52050475 original size:47 final size:46
Alignment explanation
Indices: 52050361--52050476 Score: 114
Period size: 48 Copynumber: 2.5 Consensus size: 46
52050351 TCTTTATGCA
*
52050361 TTTAATAATCTTTTATGA-TTTTTATAAAATTTTATAAAATTTTATATT
1 TTTAAT-AT-TTTTAT-ATTTTTTATAAAATTTAATAAAATTTTATATT
*
52050409 TTTAATGATATTTATATTTTTTATTAAAATTTAAT-AAATTTTATTGATT
1 TTTAAT-ATTTTTATATTTTTTA-TAAAATTTAATAAAATTTTA-T-ATT
*
52050458 TTT-AT-TTTTTATAATTTTT
1 TTTAATATTTTTATATTTTTT
52050477 CCTGCATGTC
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
46 13 0.22
47 19 0.32
48 21 0.36
49 6 0.10
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (46 bp):
TTTAATATTTTTATATTTTTTATAAAATTTAATAAAATTTTATATT
Found at i:52051099 original size:26 final size:26
Alignment explanation
Indices: 52051070--52051126 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
52051060 TGACTTTTAG
52051070 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
52051096 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
52051122 TCTTT
1 TCTTT
52051127 CTTCGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (26 bp):
TCTTTATTCCGACTTGATTTTCATTT
Found at i:52051846 original size:14 final size:14
Alignment explanation
Indices: 52051829--52051855 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52051819 TTCATTTTTG
52051829 TTTTTTTTTATTTA
1 TTTTTTTTTATTTA
52051843 TTTTTTTTTATTT
1 TTTTTTTTTATTT
52051856 CACTATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTATTTA
Found at i:52058995 original size:46 final size:46
Alignment explanation
Indices: 52058819--52059552 Score: 247
Period size: 46 Copynumber: 16.3 Consensus size: 46
52058809 TTGAAGTTAT
* * * *
52058819 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * **
52058865 CAGATTTTACCTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * *
52058907 -ATAACTCTATCTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTG
1 CAGATCT-TACCTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGG
* * * *
52058953 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * **
52058999 CAGATTTTACCTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * *
52059041 -ATAACTCTATCTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTG
1 CAGATCT-TACCTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGG
* * * * *
52059087 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * **
52059133 CAGATTTTACCTCCCTG-ACTA--CAGTGGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * *
52059175 -ATAACTCTATCTCCCTGTATCT-GGCAGTGGAA-TAGATTGAAGATTG
1 CAGATCT-TACCTCCCTGTAT-TAGGCAG-CGAAGTAGATTGAAGATGG
* * * **
52059221 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * **
52059267 CAGATTTTACCTCCCTGTGACTA--CAGTGGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGT-ATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * *
52059311 -ATAACTCTATCTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTG
1 CAGATCT-TACCTCCCTGTATTAGGCAG-CGAAGTAGATTGAAGATGG
* * * * **
52059357 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* * * * * * **
52059403 CGGATTTTACCTCCCT-AACTA--CAG-TAGAGTACATTGAAG-CCG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGA-AGTAGATTGAAGATGG
* * * * * *
52059445 -ATAACTCTATCTCCCTGTATTTGGCAGTGGAA-TAGATTGAAGATTG
1 CAGATCT-TACCTCCCTGTATTAGGCAG-CGAAGTAGATTGAAGATGG
* * * * **
52059491 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGG
1 CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
* *
52059537 CGGATTTTACCTCCCT
1 CAGATCTTACCTCCCT
52059553 AACTACAGTG
Statistics
Matches: 475, Mismatches: 165, Indels: 96
0.65 0.22 0.13
Matches are distributed among these distances:
41 11 0.02
42 40 0.08
43 61 0.13
44 14 0.03
45 99 0.21
46 226 0.48
47 24 0.05
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (46 bp):
CAGATCTTACCTCCCTGTATTAGGCAGCGAAGTAGATTGAAGATGG
Found at i:52059049 original size:134 final size:134
Alignment explanation
Indices: 52058819--52059622 Score: 1464
Period size: 134 Copynumber: 6.0 Consensus size: 134
52058809 TTGAAGTTAT
* *
52058819 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAC
52058884 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
52058949 ATTG
131 ATTG
* *
52058953 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAC
52059018 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
52059083 ATTG
131 ATTG
*
52059087 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAC
52059152 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
52059217 ATTG
131 ATTG
*
52059221 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTG
1 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCC--TG
*
52059286 ACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
64 ACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGA
52059351 AGATTG
129 AGATTG
* *
52059357 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCGGATTTTACCTCCCTAAC
1 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAC
* *
52059422 TACAGTAGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
52059487 ATTG
131 ATTG
* *
52059491 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCGGATTTTACCTCCCTAAC
1 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAC
*
52059556 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
52059621 AT
131 AT
52059623 CAAAGATGGC
Statistics
Matches: 657, Mismatches: 11, Indels: 4
0.98 0.02 0.01
Matches are distributed among these distances:
134 526 0.80
136 131 0.20
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (134 bp):
CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAC
TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
ATTG
Found at i:52059566 original size:404 final size:402
Alignment explanation
Indices: 52058819--52059622 Score: 1464
Period size: 404 Copynumber: 2.0 Consensus size: 402
52058809 TTGAAGTTAT
* * *
52058819 CAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCGAAGATGGCAGATTTTACCTCCCTGAC
1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAC
52058884 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
66 TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
*
52058949 ATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCC
131 ATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCC
* *
52059014 TGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATT
196 TAACTACAGTAGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATT
*
52059079 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACC
261 GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
*
52059144 TCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATA
326 TCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATA
52059209 GATTGAAGATTG
391 GATTGAAGATTG
52059221 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGTG
1 CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCC--TG
*
52059286 ACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
64 ACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGA
* *
52059351 AGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCGGATTTTACCTC
129 AGATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTC
*
52059416 CCTAACTACAGTAGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAATAGA
194 CCTAACTACAGTAGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGA
*
52059481 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCGGATTTTA
259 TTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTA
*
52059546 CCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGGCAGTGGAA
324 CCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAA
52059611 TAGATTGAAGAT
389 TAGATTGAAGAT
52059623 CAAAGATGGC
Statistics
Matches: 386, Mismatches: 14, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
402 58 0.15
404 328 0.85
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (402 bp):
CAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAC
TACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATTGAAG
ATTGCAGATCTTGCCTTCCTGTATTAGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACCTCCC
TAACTACAGTAGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATAGATT
GAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAGATTTTACC
TCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATCTGGCAGTGGAATA
GATTGAAGATTG
Found at i:52059608 original size:45 final size:45
Alignment explanation
Indices: 52059558--52059715 Score: 133
Period size: 45 Copynumber: 3.4 Consensus size: 45
52059548 TCCCTAACTA
* *
52059558 CAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
* * * * * *
52059603 CAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTG-A-CT-A
1 CAGTGGAATACATTGAAG--C--CGAT---A-ATTCTATCTCCCTGTATTTGG
*
52059653 CAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
1 CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
*
52059698 CAGTGGAATAGATTGAAG
1 CAGTGGAATACATTGAAG
52059716 ATTGCAGATC
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
42 12 0.14
43 2 0.02
44 1 0.01
45 32 0.38
46 3 0.04
47 1 0.01
48 1 0.01
49 3 0.04
50 16 0.19
51 1 0.01
52 2 0.02
53 11 0.13
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (45 bp):
CAGTGGAATACATTGAAGCCGATAATTCTATCTCCCTGTATTTGG
Found at i:52059622 original size:88 final size:88
Alignment explanation
Indices: 52059504--52059724 Score: 291
Period size: 95 Copynumber: 2.4 Consensus size: 88
52059494 ATCTTGCCTT
* * ** *
52059504 CCTGTATTTGGCAG-CGAAGCAGATCAAAGATGGCGGATTTTACCTCCCTAACTACAGTGGAGTA
1 CCTGTATTTGGCAGTGGAA-TAGATTGAAGATGGCAGATTTTACCTCCCTAACTACAGTGGAGTA
52059568 CATTGAAGCCGATAACTCTATCTC
65 CATTGAAGCCGATAACTCTATCTC
*
52059592 CCTGTATTTGGCAGTGGAATAGATTGAAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGT
1 CCTGTATTTGGCAGTGGAATAGATT---G----AAGATGGCAGATTTTACCTCCCTAACTACAGT
*
52059657 GGAGTACATTGAAGCCGATAATTCTATCTC
59 GGAGTACATTGAAGCCGATAACTCTATCTC
*
52059687 CCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGAT
1 CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGAT
52059725 CTTGCCTTCC
Statistics
Matches: 117, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
88 29 0.25
89 3 0.03
92 1 0.01
95 84 0.72
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (88 bp):
CCTGTATTTGGCAGTGGAATAGATTGAAGATGGCAGATTTTACCTCCCTAACTACAGTGGAGTAC
ATTGAAGCCGATAACTCTATCTC
Found at i:52059638 original size:95 final size:95
Alignment explanation
Indices: 52059524--52059717 Score: 361
Period size: 95 Copynumber: 2.0 Consensus size: 95
52059514 GCAGCGAAGC
*
52059524 AGATCAAAGATGGCGGATTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
52059589 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
* *
52059619 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
52059684 CTCCCTGTATTTGGCAGTGGAATAGATTGA
66 CTCCCTGTATTTGGCAGTGGAATAGATTGA
52059714 AGAT
1 AGAT
52059718 TGCAGATCTT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:52059791 original size:229 final size:229
Alignment explanation
Indices: 52059390--52060076 Score: 1259
Period size: 229 Copynumber: 3.0 Consensus size: 229
52059380 GCAGCGAAGC
* * * *
52059390 AGATCAAAGATGGCGGATTTTACCTCCCTAACTACAGTAGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
52059455 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* *
52059520 AAGCAGATCAAAGATGGCGGATTTTACCTCCCTAACTACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
52059585 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
52059619 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
52059684 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
* *
52059749 AAGCAGATCAAAGATGGCAGATTTTTCCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
*
52059814 CTATCTCCCTGCATTTGGCAGTGGAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
52059848 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
52059913 CTCCCTGTATTTGGCAGTGGAAT-GATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
66 CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
*
52059977 AAGCAGATCAAAAATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
131 AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
* *
52060042 CTATCTCCCTATATTTGGCAGTGAAATAGATTGA
196 CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
52060076 A
1 A
52060077 AATTACAGAT
Statistics
Matches: 443, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
228 135 0.30
229 308 0.70
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (229 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
CTCCCTGTATTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCG
AAGCAGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACT
CTATCTCCCTGTATTTGGCAGTGGAATAGATTGA
Found at i:52059861 original size:95 final size:94
Alignment explanation
Indices: 52059753--52059945 Score: 341
Period size: 95 Copynumber: 2.0 Consensus size: 94
52059743 GCAGCGAAGC
*
52059753 AGATCAAAGATGGCAGATTTTTCCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
52059818 CTCCCTGCATTTGGCAGTGGAATAGATTGA
66 CTCCCTGCATTTGGCAGTGGAAT-GATTGA
* *
52059848 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
*
52059913 CTCCCTGTATTTGGCAGTGGAATGATTGA
66 CTCCCTGCATTTGGCAGTGGAATGATTGA
52059942 AGAT
1 AGAT
52059946 TGCAGATCTT
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
94 10 0.11
95 84 0.89
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (94 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATGATTGA
Found at i:52060183 original size:132 final size:129
Alignment explanation
Indices: 52059996--52060243 Score: 302
Period size: 132 Copynumber: 1.9 Consensus size: 129
52059986 AAAAATGGCA
* **
52059996 GATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCT-ATATTTGG
1 GATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGAGA---AA
* *
52060060 CAGTGAAATAGATTGAAAATTACAGATCTTATCTCCCTAAGCAATATTGGAGTAGGTTGAAGACG
63 CAGTGAAATAGATCGAAAATTACA-ATCTTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGACG
52060125 GCG
127 GCG
* * * * ** *
52060128 GATTTTACCTCCTTGATTACAGTGGAGTACATTGAAGCTGGTAGTTCTA-CTTCCCTGGGAAACA
1 GATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATC-TCCCTGAGAAACA
* * *
52060192 GTGGAATAGATCGAAGATTACAATCTTATCTCCCTAAGCAGTAGTGGAGTAG
65 GTGAAATAGATCGAAAATTACAATCTTATCTCCCTAAGCAATAGTGGAGTAG
52060244 ATCGCATTAA
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
129 28 0.28
130 21 0.21
131 1 0.01
132 48 0.48
133 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (129 bp):
GATTTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAACTCTATCTCCCTGAGAAACAG
TGAAATAGATCGAAAATTACAATCTTATCTCCCTAAGCAATAGTGGAGTAGGTTGAAGACGGCG
Found at i:52060269 original size:40 final size:40
Alignment explanation
Indices: 52060215--52060360 Score: 197
Period size: 40 Copynumber: 3.6 Consensus size: 40
52060205 AAGATTACAA
*
52060215 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCAAG
* *
52060255 TCTTATCTCCCTAAGCAGTAGTGGAGTAGA-C-AACCACAG
1 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCA-AG
* * *
52060294 ATCTTATTTCCCTAAGCAATAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCAAG
*
52060335 TCTTATCTCCCTAAGTAGTAGTGGAG
1 TCTTATCTCCCTAAGCAGTAGTGGAG
52060361 CAGACTAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 80 0.88
41 3 0.03
42 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATCAAG
Found at i:52060306 original size:80 final size:80
Alignment explanation
Indices: 52060214--52060365 Score: 250
Period size: 80 Copynumber: 1.9 Consensus size: 80
52060204 GAAGATTACA
* * *
52060214 ATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGCATTAAGTCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGG
*
52060279 AGTAGACAACCACAG
66 AGCAGACAACCACAG
* *
52060294 ATCTTATTTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGTAGTAGTGG
1 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGG
52060359 AGCAGAC
66 AGCAGAC
52060366 TAAAAACACA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (80 bp):
ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGG
AGCAGACAACCACAG
Found at i:52061078 original size:26 final size:26
Alignment explanation
Indices: 52061049--52061105 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
52061039 TGACTTTTAG
52061049 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
52061075 TCTTTATTCCGACTTGATTTTCATTT
1 TCTTTATTCCGACTTGATTTTCATTT
52061101 TCTTT
1 TCTTT
52061106 CTTCGTGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (26 bp):
TCTTTATTCCGACTTGATTTTCATTT
Found at i:52061825 original size:14 final size:14
Alignment explanation
Indices: 52061808--52061834 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52061798 TTCATTTTTG
52061808 TTTTTTTTTATTTA
1 TTTTTTTTTATTTA
52061822 TTTTTTTTTATTT
1 TTTTTTTTTATTT
52061835 CACTATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTATTTA
Found at i:52061957 original size:13 final size:12
Alignment explanation
Indices: 52061934--52061980 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
52061924 TCACGTTTTC
52061934 TTTTTTG-TTAT
1 TTTTTTGTTTAT
52061945 TTTTTTGTCTTAT
1 TTTTTTGT-TTAT
*
52061958 TTGTTTTATTTAT
1 TT-TTTTGTTTAT
*
52061971 TTTATTGTTT
1 TTTTTTGTTT
52061981 CTAATTTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 7 0.23
12 6 0.20
13 12 0.40
14 5 0.17
ACGTcount: A:0.11, C:0.02, G:0.09, T:0.79
Consensus pattern (12 bp):
TTTTTTGTTTAT
Found at i:52068498 original size:32 final size:32
Alignment explanation
Indices: 52068462--52068524 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
52068452 CAGTTAATCA
* *
52068462 ATGAGTTATCAAATTAAATTTATTAATTTATC
1 ATGAGTTATCAAATTAAAGTAATTAATTTATC
* *
52068494 ATGAGTTATTAAATTTAAGTAATTAATTTAT
1 ATGAGTTATCAAATTAAAGTAATTAATTTAT
52068525 AAGTTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (32 bp):
ATGAGTTATCAAATTAAAGTAATTAATTTATC
Found at i:52068873 original size:18 final size:17
Alignment explanation
Indices: 52068850--52068884 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
52068840 AGATGGTAGT
52068850 TTATAAATAAAAAAAATA
1 TTATAAA-AAAAAAAATA
*
52068868 TTATAAAAAATAAAATA
1 TTATAAAAAAAAAAATA
52068885 AAATATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TTATAAAAAAAAAAATA
Found at i:52068891 original size:19 final size:21
Alignment explanation
Indices: 52068854--52068897 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
52068844 GGTAGTTTAT
52068854 AAATAAAAAAAATATTATAAA
1 AAATAAAAAAAATATTATAAA
*
52068875 AAATAAAATAAA-A-TATAAA
1 AAATAAAAAAAATATTATAAA
52068894 AAAT
1 AAAT
52068898 TAATTCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
21 11 0.50
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAAAAAAAATATTATAAA
Found at i:52075425 original size:16 final size:15
Alignment explanation
Indices: 52075406--52075463 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
52075396 TAATAAATAA
52075406 TAAATAAACTAAAAAT
1 TAAA-AAACTAAAAAT
* *
52075422 TAAAATACTCAAAAT
1 TAAAAAACTAAAAAT
*
52075437 T--AAAACTAAAAAA
1 TAAAAAACTAAAAAT
52075450 TAAAAATACTAAAA
1 TAAAAA-ACTAAAA
52075464 TTATTATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 10 0.29
15 13 0.38
16 11 0.32
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAAAAACTAAAAAT
Found at i:52075437 original size:15 final size:14
Alignment explanation
Indices: 52075417--52075466 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
52075407 AAATAAACTA
52075417 AAAATTAAAATACT
1 AAAATTAAAATACT
*
52075431 CAAAATTAAAACTA-A
1 -AAAATTAAAA-TACT
*
52075446 AAAATAAAAATACT
1 AAAATTAAAATACT
52075460 AAAATTA
1 AAAATTA
52075467 TTATATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.07
14 15 0.52
15 10 0.34
16 2 0.07
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATTAAAATACT
Found at i:52075443 original size:28 final size:28
Alignment explanation
Indices: 52075411--52075466 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
52075401 AATAATAAAT
*
52075411 AAACT-AAAAATTAAAATACTCAAAATTA
1 AAACTAAAAAATAAAAATACT-AAAATTA
52075439 AAACTAAAAAATAAAAATACTAAAATTA
1 AAACTAAAAAATAAAAATACTAAAATTA
52075467 TTATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (28 bp):
AAACTAAAAAATAAAAATACTAAAATTA
Found at i:52075483 original size:29 final size:29
Alignment explanation
Indices: 52075451--52075506 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
52075441 ACTAAAAAAT
* * *
52075451 AAAAATAC-TAAAATTATTATATTAATGA
1 AAAAATACTTAAAAGTAATACATTAATGA
52075479 AAAAATACTTAAAAGTAATACATTAATG
1 AAAAATACTTAAAAGTAATACATTAATG
52075507 GCAAAACACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (29 bp):
AAAAATACTTAAAAGTAATACATTAATGA
Found at i:52092498 original size:14 final size:14
Alignment explanation
Indices: 52092481--52092519 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
52092471 ACATATGTTT
*
52092481 TAATTTTTTATTTA
1 TAATTTTTAATTTA
*
52092495 TAATTTATAATTTA
1 TAATTTTTAATTTA
52092509 TATATTTTTAA
1 TA-ATTTTTAA
52092520 ATATTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TAATTTTTAATTTA
Found at i:52099845 original size:2 final size:2
Alignment explanation
Indices: 52099840--52099924 Score: 170
Period size: 2 Copynumber: 42.5 Consensus size: 2
52099830 ACTTAAAGCA
52099840 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
52099882 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
52099924 A
1 A
52099925 TATATATATG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 83 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:52106800 original size:38 final size:38
Alignment explanation
Indices: 52106758--52106836 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
52106748 CTAACCCGGG
52106758 TCTGATTTTCACGAACACAGTACCCTAACTTTTCAAAA
1 TCTGATTTTCACGAACACAGTACCCTAACTTTTCAAAA
52106796 TCTGATTTTCACGAACACAGTACCCTAACTTTTCAAAA
1 TCTGATTTTCACGAACACAGTACCCTAACTTTTCAAAA
52106834 TCT
1 TCT
52106837 AAATCCAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (38 bp):
TCTGATTTTCACGAACACAGTACCCTAACTTTTCAAAA
Found at i:52109892 original size:46 final size:46
Alignment explanation
Indices: 52109823--52109978 Score: 264
Period size: 46 Copynumber: 3.5 Consensus size: 46
52109813 TGATTAGTGA
52109823 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
52109869 CAAGTGACAAAGTGATAAATGGTAGCTTTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
52109915 CAAGTGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGAT
1 CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
*
52109960 C-AGGGAC-AAGTGATAAGTG
1 CAAGTGACAAAGTGATAAGTG
52109979 ATCATACGTA
Statistics
Matches: 106, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
43 12 0.11
44 5 0.05
45 19 0.18
46 70 0.66
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
CAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT
Found at i:52115207 original size:30 final size:30
Alignment explanation
Indices: 52115173--52115231 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
52115163 CAGTGCATAT
52115173 GAAGAAACACCAGCCTGGAAAGATGTACAA
1 GAAGAAACACCAGCCTGGAAAGATGTACAA
* ** * *
52115203 GAAGACACTTCAGCTTGGAAGGATGTACA
1 GAAGAAACACCAGCCTGGAAAGATGTACA
52115232 TGAGGAGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.41, C:0.19, G:0.25, T:0.15
Consensus pattern (30 bp):
GAAGAAACACCAGCCTGGAAAGATGTACAA
Found at i:52115440 original size:36 final size:36
Alignment explanation
Indices: 52115400--52115473 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
52115390 AGTTAGCTTT
52115400 TACTTTAGTATGAGTCATTGTACTATGATTTATCTG
1 TACTTTAGTATGAGTCATTGTACTATGATTTATCTG
52115436 TACTTTAGTATGAGTCATTGTACTATGATTTATCTG
1 TACTTTAGTATGAGTCATTGTACTATGATTTATCTG
52115472 TA
1 TA
52115474 TGTCCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (36 bp):
TACTTTAGTATGAGTCATTGTACTATGATTTATCTG
Found at i:52115459 original size:20 final size:20
Alignment explanation
Indices: 52115400--52115459 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
52115390 AGTTAGCTTT
52115400 TACTTTAGTATGAGTCATTG
1 TACTTTAGTATGAGTCATTG
* *
52115420 TAC-----TATGATTTATCTG
1 TACTTTAGTATGAGTCAT-TG
52115436 TACTTTAGTATGAGTCATTG
1 TACTTTAGTATGAGTCATTG
52115456 TACT
1 TACT
52115460 ATGATTTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 8 0.27
16 5 0.17
20 9 0.30
21 8 0.27
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.47
Consensus pattern (20 bp):
TACTTTAGTATGAGTCATTG
Found at i:52118891 original size:49 final size:49
Alignment explanation
Indices: 52118819--52118918 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
52118809 GGGTTTAGAT
52118819 ATCACCCATGCAAGATTTAAATATGTCCACACTACTGTTGAAACAAGAC
1 ATCACCCATGCAAGATTTAAATATGTCCACACTACTGTTGAAACAAGAC
*
52118868 ATCACCCATGCAAGGTTTAAATATGTCCACACTACTGTTGAAACAAGAC
1 ATCACCCATGCAAGATTTAAATATGTCCACACTACTGTTGAAACAAGAC
52118917 AT
1 AT
52118919 TCTCTAAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (49 bp):
ATCACCCATGCAAGATTTAAATATGTCCACACTACTGTTGAAACAAGAC
Found at i:52119490 original size:17 final size:17
Alignment explanation
Indices: 52119470--52119506 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
52119460 GAACGTGATG
52119470 GGCTCAAATTACCACAA
1 GGCTCAAATTACCACAA
52119487 GGCTCAAATTACCACAA
1 GGCTCAAATTACCACAA
52119504 GGC
1 GGC
52119507 CCAATAACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.38, C:0.30, G:0.16, T:0.16
Consensus pattern (17 bp):
GGCTCAAATTACCACAA
Found at i:52128139 original size:66 final size:66
Alignment explanation
Indices: 52128033--52128164 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
52128023 CAAACACAAA
*
52128033 TATTTTAATACAAGACCAAATGGTAAGTTGCAGCCTTACCACTGAACTAGCAAACCCATTCTTGT
1 TATTTTAATACAAGACCAAATGGTAAGTTGCAGCCTTACCACTGAACTAGCAAACACATTCTTGT
52128098 C
66 C
*
52128099 TATTTTAATACAAGACCAAATGGTAAGTTGCAGCCTTACCACTGAACTAGCAAACACGTTCTTGT
1 TATTTTAATACAAGACCAAATGGTAAGTTGCAGCCTTACCACTGAACTAGCAAACACATTCTTGT
52128164 C
66 C
52128165 AACACAATTG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (66 bp):
TATTTTAATACAAGACCAAATGGTAAGTTGCAGCCTTACCACTGAACTAGCAAACACATTCTTGT
C
Found at i:52132244 original size:22 final size:23
Alignment explanation
Indices: 52132203--52132260 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
52132193 TAAAATAAAT
52132203 AAATAAAACTTTAAAACAAAAC-A
1 AAATAAAAC-TTAAAACAAAACTA
*
52132226 AAATAAAACTTAAACCAAAACTA
1 AAATAAAACTTAAAACAAAACTA
*
52132249 GAATAAAA-TTAA
1 AAATAAAACTTAA
52132261 TTCCACTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.67, C:0.12, G:0.02, T:0.19
Consensus pattern (23 bp):
AAATAAAACTTAAAACAAAACTA
Found at i:52132823 original size:38 final size:37
Alignment explanation
Indices: 52132781--52132852 Score: 135
Period size: 38 Copynumber: 1.9 Consensus size: 37
52132771 GTATTGTTGA
52132781 GCTTTTCAGAATCAAGTTCATAACGATAAAGTTGATTG
1 GCTTTTCAGAATCAAGTTCATAACGAT-AAGTTGATTG
52132819 GCTTTTCAGAATCAAGTTCATAACGATAAGTTGA
1 GCTTTTCAGAATCAAGTTCATAACGATAAGTTGA
52132853 GGCACGTTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 7 0.21
38 27 0.79
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (37 bp):
GCTTTTCAGAATCAAGTTCATAACGATAAGTTGATTG
Found at i:52142480 original size:27 final size:27
Alignment explanation
Indices: 52142445--52142538 Score: 98
Period size: 27 Copynumber: 3.5 Consensus size: 27
52142435 GTCAATAAAT
*
52142445 GACCAAATTACCCCTACAAGGTAAAAA
1 GACCGAATTACCCCTACAAGGTAAAAA
* * * *
52142472 GATCGAATTACCCCTATAGGGTAAAAT
1 GACCGAATTACCCCTACAAGGTAAAAA
* * *
52142499 GACCGAATTACCCCCACAAGATAAAAT
1 GACCGAATTACCCCTACAAGGTAAAAA
* *
52142526 GACTGAAATACCC
1 GACCGAATTACCC
52142539 TCCTAGGGTA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.18
Consensus pattern (27 bp):
GACCGAATTACCCCTACAAGGTAAAAA
Found at i:52142538 original size:54 final size:54
Alignment explanation
Indices: 52142441--52142552 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 54
52142431 AGAGGTCAAT
* * *
52142441 AAATGACCAAATTACCCCTACAAGGTAAAAAGATCGAATTACCC-CTATAGGGTA
1 AAATGACCAAATTACCCCCACAAGATAAAAAGATCGAAATACCCTC-ATAGGGTA
* * *
52142495 AAATGACCGAATTACCCCCACAAGATAAAATGA-CTGAAATACCCTCCTAGGGTA
1 AAATGACCAAATTACCCCCACAAGATAAAAAGATC-GAAATACCCTCATAGGGTA
52142549 AAAT
1 AAAT
52142553 AACTGTTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
53 1 0.02
54 48 0.96
55 1 0.02
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (54 bp):
AAATGACCAAATTACCCCCACAAGATAAAAAGATCGAAATACCCTCATAGGGTA
Found at i:52142550 original size:27 final size:27
Alignment explanation
Indices: 52142480--52142566 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
52142470 AAGATCGAAT
* * *
52142480 TACCCCTATAGGGTAAAATGACCGAAT
1 TACCCCCATAGGGTAAAATGACTGAAA
* * *
52142507 TACCCCCACAAGATAAAATGACTGAAA
1 TACCCCCATAGGGTAAAATGACTGAAA
* **
52142534 TACCCTCC-TAGGGTAAAATAACTGTTA
1 TACCC-CCATAGGGTAAAATGACTGAAA
52142561 TACCCC
1 TACCCC
52142567 TAGGAGATGA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
26 1 0.02
27 44 0.94
28 2 0.04
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (27 bp):
TACCCCCATAGGGTAAAATGACTGAAA
Found at i:52142984 original size:27 final size:28
Alignment explanation
Indices: 52142922--52143023 Score: 179
Period size: 28 Copynumber: 3.7 Consensus size: 28
52142912 ACTGTACCGA
52142922 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
52142950 TACTGTATTGGGCTAAGGCCCAC-TTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
52142977 TACTGTATTGGGCTAAGGCCCACATTGT
1 TACTGTATTGGGCTAAGGCCCACATTGT
* *
52143005 TACTCTTTTGGGCTAAGGC
1 TACTGTATTGGGCTAAGGC
52143024 TAACACTGTA
Statistics
Matches: 71, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
27 27 0.38
28 44 0.62
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTGT
Found at i:52143923 original size:23 final size:22
Alignment explanation
Indices: 52143882--52143924 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
52143872 TTTTTTAGTT
* *
52143882 AAATTTGACCTCAATCTTTTTC
1 AAATTTGACATCAACCTTTTTC
52143904 AAATTTGACAATCAACCTTTT
1 AAATTTGAC-ATCAACCTTTT
52143925 GAAAAAGAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (22 bp):
AAATTTGACATCAACCTTTTTC
Found at i:52144096 original size:17 final size:18
Alignment explanation
Indices: 52144076--52144111 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
52144066 ATTTTGAATT
*
52144076 TAATTTTTTGATT-TTTA
1 TAATTTTTTAATTATTTA
52144093 TAATTTTTTAATTATTTA
1 TAATTTTTTAATTATTTA
52144111 T
1 T
52144112 TGACATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TAATTTTTTAATTATTTA
Found at i:52144565 original size:7 final size:7
Alignment explanation
Indices: 52144555--52144753 Score: 70
Period size: 7 Copynumber: 28.6 Consensus size: 7
52144545 CCCTAAACAC
52144555 TAAACCA
1 TAAACCA
*
52144562 TAAACCC
1 TAAACCA
*
52144569 TAAGCCCA
1 TAA-ACCA
*
52144577 TAAACCC
1 TAAACCA
52144584 TAAACCA
1 TAAACCA
**
52144591 TAAACTT
1 TAAACCA
* *
52144598 TAAATCT
1 TAAACCA
*
52144605 TAAACCC
1 TAAACCA
* *
52144612 TAAGCCCC
1 TAA-ACCA
* *
52144620 TAAGCCT
1 TAAACCA
52144627 TAAACCA
1 TAAACCA
52144634 TAAACC-
1 TAAACCA
* *
52144640 TACACCC
1 TAAACCA
*
52144647 TAAGCCA
1 TAAACCA
52144654 TAAACC-
1 TAAACCA
* *
52144660 TACACCC
1 TAAACCA
*
52144667 TAAACCG
1 TAAACCA
52144674 TAAA-CA
1 TAAACCA
52144680 CTAAACTC-
1 -TAAAC-CA
*
52144688 TTAA-CA
1 TAAACCA
*
52144694 TTAAATCA
1 -TAAACCA
*
52144702 TAAACCT
1 TAAACCA
*
52144709 TAAACCT
1 TAAACCA
52144716 TAAACTC-
1 TAAAC-CA
52144723 TAAACCA
1 TAAACCA
52144730 TAAACC-
1 TAAACCA
** *
52144736 TACGCCC
1 TAAACCA
52144743 TAAACCA
1 TAAACCA
52144750 TAAA
1 TAAA
52144754 TATATATTAC
Statistics
Matches: 144, Mismatches: 35, Indels: 26
0.70 0.17 0.13
Matches are distributed among these distances:
5 1 0.01
6 16 0.11
7 112 0.78
8 14 0.10
9 1 0.01
ACGTcount: A:0.44, C:0.32, G:0.03, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:52144568 original size:21 final size:21
Alignment explanation
Indices: 52144544--52144753 Score: 88
Period size: 21 Copynumber: 10.0 Consensus size: 21
52144534 TTAAAATTAG
52144544 ACCCTAAACACTAAACCATAA
1 ACCCTAAACACTAAACCATAA
* * *
52144565 ACCCTAAGCCCATAAACCCTAA
1 ACCCTAAACAC-TAAACCATAA
* ** * *
52144587 ACCATAAACTTTAAATCTTAA
1 ACCCTAAACACTAAACCATAA
* * * *
52144608 ACCCTAAGCCCCTAAGCCTTAA
1 ACCCTAA-ACACTAAACCATAA
* * *
52144630 ACCATAAAC-CTACACCCTAA
1 ACCCTAAACACTAAACCATAA
* * * *
52144650 GCCATAAAC-CTACACCCTAA
1 ACCCTAAACACTAAACCATAA
* *
52144670 ACCGTAAACACTAAACTC-TTA
1 ACCCTAAACACTAAAC-CATAA
** *
52144691 ACATTAAATCA-TAAACCTTAA
1 ACCCTAAA-CACTAAACCATAA
* *
52144712 ACCTTAAACTCTAAACCATAA
1 ACCCTAAACACTAAACCATAA
** *
52144733 A-CCTACGCCCTAAACCATAA
1 ACCCTAAACACTAAACCATAA
52144753 A
1 A
52144754 TATATATTAC
Statistics
Matches: 147, Mismatches: 35, Indels: 15
0.75 0.18 0.08
Matches are distributed among these distances:
20 52 0.35
21 61 0.41
22 34 0.23
ACGTcount: A:0.44, C:0.33, G:0.03, T:0.20
Consensus pattern (21 bp):
ACCCTAAACACTAAACCATAA
Found at i:52144579 original size:15 final size:14
Alignment explanation
Indices: 52144548--52144735 Score: 112
Period size: 14 Copynumber: 13.4 Consensus size: 14
52144538 AATTAGACCC
*
52144548 TAAACACTAAACCA
1 TAAACCCTAAACCA
*
52144562 TAAACCCTAAGCCCA
1 TAAACCCTAA-ACCA
52144577 TAAACCCTAAACCA
1 TAAACCCTAAACCA
** * *
52144591 TAAACTTTAAATCT
1 TAAACCCTAAACCA
* *
52144605 TAAACCCTAAGCCCC
1 TAAACCCTAA-ACCA
* *
52144620 TAAGCCTTAAACCA
1 TAAACCCTAAACCA
* *
52144634 TAAA-CCTACACCC
1 TAAACCCTAAACCA
* *
52144647 TAAGCCATAAACC-
1 TAAACCCTAAACCA
* *
52144660 TACACCCTAAACCG
1 TAAACCCTAAACCA
*
52144674 TAAACACTAAACTC-
1 TAAACCCTAAAC-CA
* ** *
52144688 TTAACATTAAATCA
1 TAAACCCTAAACCA
* *
52144702 TAAACCTTAAACCT
1 TAAACCCTAAACCA
*
52144716 TAAACTCTAAACCA
1 TAAACCCTAAACCA
52144730 TAAACC
1 TAAACC
52144736 TACGCCCTAA
Statistics
Matches: 129, Mismatches: 39, Indels: 12
0.72 0.22 0.07
Matches are distributed among these distances:
13 20 0.16
14 86 0.67
15 23 0.18
ACGTcount: A:0.45, C:0.32, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:52144677 original size:20 final size:20
Alignment explanation
Indices: 52144627--52144753 Score: 97
Period size: 20 Copynumber: 6.5 Consensus size: 20
52144617 CCCTAAGCCT
52144627 TAAACCATAAACCTACACCC
1 TAAACCATAAACCTACACCC
*
52144647 TAAGCCATAAACCTACACCC
1 TAAACCATAAACCTACACCC
* * *
52144667 TAAACCGTAAACACTAAACTC
1 TAAACCATAAAC-CTACACCC
*
52144688 TTAA-CATTAAA--T-CA---
1 TAAACCA-TAAACCTACACCC
* * *
52144702 TAAACCTTAAACCTTAAACTC
1 TAAACCATAAACC-TACACCC
*
52144723 TAAACCATAAACCTACGCCC
1 TAAACCATAAACCTACACCC
52144743 TAAACCATAAA
1 TAAACCATAAA
52144754 TATATATTAC
Statistics
Matches: 82, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
14 7 0.09
15 1 0.01
17 2 0.02
18 2 0.02
20 45 0.55
21 25 0.30
ACGTcount: A:0.46, C:0.31, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAACCATAAACCTACACCC
Found at i:52145195 original size:41 final size:40
Alignment explanation
Indices: 52145150--52145254 Score: 106
Period size: 40 Copynumber: 2.6 Consensus size: 40
52145140 TTTTGCGGTA
52145150 TTTTCTAAAAAGCGATGCTAATGCTCGATCTA-TATTGGCAT
1 TTTTCTAAAAAGCG-TGCTAATGCTCGATCTATTA-TGGCAT
* * * **
52145191 TTTTC-AAATAGGGCCGCTAATGCTCGATCTATTATGGTGT
1 TTTTCTAAAAAGCG-TGCTAATGCTCGATCTATTATGGCAT
*
52145231 TTTTTTAAAAAGCGTCGCTAATGC
1 TTTTCTAAAAAGCGT-GCTAATGC
52145255 CACTAAAGCT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
40 30 0.59
41 21 0.41
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (40 bp):
TTTTCTAAAAAGCGTGCTAATGCTCGATCTATTATGGCAT
Found at i:52145235 original size:155 final size:155
Alignment explanation
Indices: 52144936--52145270 Score: 360
Period size: 155 Copynumber: 2.2 Consensus size: 155
52144926 TCACAAACAC
*
52144936 CGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTCTTAACTTTTTTACGGCATTTTGC
1 CGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTCTCAACTTTTTTACGGCATTTTGC
* * * * *
52145001 GAAAAGTGCCACTAACGCTCGATCTATAGCGGCGTTTTTCGACAAAGCATCACTAATTCTTGATC
66 GAAAAGAGCCACTAACGCTCGATCTATAGCGGCATTTTTCGACAAAGCACCACTAATGCTCGATC
*
52145066 TATTGCGGCATTTTTT-AAAAG-GTT
131 TATTACGGCATTTTTTAAAAAGCG-T
* * * *
52145090 CCGTTAATGCCACTAAAG-TCAACAACAAACGATGTCGTTTTGCTCAACTTTTTTGCGGTATTTT
1 -CGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTT-CTCAACTTTTTTACGGCATTTT
* * * ** ** *
52145154 -CTAAAA-AGCGATGCTAATGCTCGATCTATATTGGCATTTTTC-A-AATAGGGCCGCTAATGCT
64 GCGAAAAGAGCCA--CTAACGCTCGATCTATAGCGGCATTTTTCGACAA-AGCACCACTAATGCT
* **
52145215 CGATCTATTATGGTGTTTTTTTAAAAAGCGT
126 CGATCTATTACGG-CATTTTTTAAAAAGCGT
52145246 CGCTAATGCCACTAAAGCTCAACAA
1 CGCTAATGCCACTAAAGCTCAACAA
52145271 GTTTTACTCA
Statistics
Matches: 149, Mismatches: 23, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
153 5 0.03
154 48 0.32
155 82 0.55
156 13 0.09
157 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (155 bp):
CGCTAATGCCACTAAAGCTCAACAACAAACGACGTCGTTTTCTCAACTTTTTTACGGCATTTTGC
GAAAAGAGCCACTAACGCTCGATCTATAGCGGCATTTTTCGACAAAGCACCACTAATGCTCGATC
TATTACGGCATTTTTTAAAAAGCGT
Found at i:52145333 original size:40 final size:40
Alignment explanation
Indices: 52145289--52145406 Score: 130
Period size: 40 Copynumber: 2.9 Consensus size: 40
52145279 CAACTTTTTT
* *
52145289 GTGGCGTTTTTTGAAAAGCGCCGCTAATGCTTGATCTATA
1 GTGGCGTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATA
* * *
52145329 GTGGCGTTTTTCAAAAAGTGCCGCTAATGCTCGACCTATA
1 GTGGCGTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATA
* ** *
52145369 GCGAAGTTTGTTTTAGAAA-CGCCGCTAATGCTTGACCT
1 GTGGCG-TT-TTTTAAAAAGCGCCGCTAATGCTTGACCT
52145407 TTTACGACGT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 38 0.59
41 19 0.30
42 7 0.11
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (40 bp):
GTGGCGTTTTTTAAAAAGCGCCGCTAATGCTTGACCTATA
Found at i:52145395 original size:145 final size:145
Alignment explanation
Indices: 52145126--52145399 Score: 347
Period size: 145 Copynumber: 1.9 Consensus size: 145
52145116 AAACGATGTC
* * * *
52145126 GTTTTGCTCAACTTTTTTGCGGTATTTTCTAAAAAGCGATGCTAATGCTCGATCTATATTGGCAT
1 GTTTTACTCAACTTTTTTGCGGCATTTTCTAAAAAGCGACGCTAATGCTCGATCTATAGTGGCAT
* * * *
52145191 TTTTCAAATAGGGCCGCTAATGCTCGATCTATTATGGTGTTTTTTTAAAAAGCGTCGCTAATGCC
66 TTTTCAAAAAGGGCCGCTAATGCTCGACCTATTATGGAGTTTTTTTAAAAAGCGCCGCTAATGCC
52145256 ACTAAAGCTCAACAA
131 ACTAAAGCTCAACAA
* * * * * * *
52145271 GTTTTACTCAACTTTTTTGTGGCGTTTTTTGAAAAGCGCCGCTAATGCTTGATCTATAGTGGCGT
1 GTTTTACTCAACTTTTTTGCGGCATTTTCTAAAAAGCGACGCTAATGCTCGATCTATAGTGGCAT
* *
52145336 TTTTCAAAAAGTGCCGCTAATGCTCGACCTA-TA-GCGAAGTTTGTTTTAGAAA-CGCCGCTAAT
66 TTTTCAAAAAGGGCCGCTAATGCTCGACCTATTATG-G-AGTTT-TTTTAAAAAGCGCCGCTAAT
52145398 GC
128 GC
52145400 TTGACCTTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
143 1 0.01
144 3 0.03
145 97 0.89
146 8 0.07
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (145 bp):
GTTTTACTCAACTTTTTTGCGGCATTTTCTAAAAAGCGACGCTAATGCTCGATCTATAGTGGCAT
TTTTCAAAAAGGGCCGCTAATGCTCGACCTATTATGGAGTTTTTTTAAAAAGCGCCGCTAATGCC
ACTAAAGCTCAACAA
Found at i:52152412 original size:40 final size:40
Alignment explanation
Indices: 52152356--52153019 Score: 1080
Period size: 40 Copynumber: 16.6 Consensus size: 40
52152346 CATTTGAATG
*
52152356 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52152396 ATATCCGGGTTTAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
52152436 ATATCCGGGCTAAGA-CCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
52152475 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
52152515 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* * *
52152555 ATATCCGGGCTAAGACCCGATGGCGTTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
52152595 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52152635 ACATCCGGGATAAGACTCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
52152675 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
52152715 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
52152755 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
52152795 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
*
52152835 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAACTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* * * * *
52152875 ATATCCGGGCTAAGACCTGATGGCGTTTCTGCGAATTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52152915 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA-TTGAT
* * * *
52152955 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCT
1 ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
* *
52152995 ATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGATAAGACCCGAAGGCA
52153020 ATTGAGCTTG
Statistics
Matches: 586, Mismatches: 35, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
39 40 0.07
40 545 0.93
41 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGAT
Done.