Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 277 of 322
Found at i:92012286 original size:13 final size:14
Alignment explanation
Indices: 92012237--92012285 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
92012227 TTTAAAAAGA
92012237 TAATTTATATTATAT
1 TAATTTATATT-TAT
*
92012252 TAATTTAATATTTAA
1 TAATTT-ATATTTAT
*
92012267 T-ATTTTTATTTAT
1 TAATTTATATTTAT
92012280 TAATTT
1 TAATTT
92012286 TTTTATATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 9 0.31
16 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TAATTTATATTTAT
Found at i:92012296 original size:13 final size:13
Alignment explanation
Indices: 92012237--92012296 Score: 50
Period size: 13 Copynumber: 4.3 Consensus size: 13
92012227 TTTAAAAAGA
92012237 TAATTTATATTATAT
1 TAATTT-TATT-TAT
*
92012252 TAATTTAATATTTAA
1 TAATTT--TATTTAT
*
92012267 TATTTTTATTTAT
1 TAATTTTATTTAT
92012280 TAATTTT-TTTAT
1 TAATTTTATTTAT
92012292 ATAAT
1 -TAAT
92012297 CATATAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.13
13 16 0.41
15 13 0.33
16 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TAATTTTATTTAT
Found at i:92014915 original size:21 final size:21
Alignment explanation
Indices: 92014858--92014915 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
92014848 AATTGTGAAT
92014858 ACCTATTAAAAT-A-TTTTTC
1 ACCTATTAAAATAATTTTTTC
* * *
92014877 ATCTATTAAATTATTTTTTTC
1 ACCTATTAAAATAATTTTTTC
*
92014898 ACCTATTAAAGTAATTTT
1 ACCTATTAAAATAATTTT
92014916 AACTTGATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 10 0.32
21 21 0.68
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (21 bp):
ACCTATTAAAATAATTTTTTC
Found at i:92018350 original size:18 final size:18
Alignment explanation
Indices: 92018327--92018367 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
92018317 TTCCATTAGG
*
92018327 TTAATTAAATTAGGTTAC
1 TTAATTAAATTAGGTTAA
* *
92018345 TTAATTTAATTAGTTTAA
1 TTAATTAAATTAGGTTAA
92018363 TTAAT
1 TTAAT
92018368 ATTCTAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (18 bp):
TTAATTAAATTAGGTTAA
Found at i:92019216 original size:45 final size:45
Alignment explanation
Indices: 92019166--92019420 Score: 510
Period size: 45 Copynumber: 5.7 Consensus size: 45
92019156 AAGAGGTGGA
92019166 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
92019211 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
92019256 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
92019301 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
92019346 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
92019391 CAACATCATGCATAATTCATGGAAGAATTT
1 CAACATCATGCATAATTCATGGAAGAATTT
92019421 NNNNNNNNNN
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 210 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
Found at i:92025086 original size:45 final size:45
Alignment explanation
Indices: 92025018--92025191 Score: 249
Period size: 45 Copynumber: 3.9 Consensus size: 45
92025008 AAGAGGTGGA
**
92025018 CAACATCATGCATAATTTGTGGAACAAATTAAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGAC
* * *
92025063 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGAC
* * *
92025108 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGAC
* * *
92025153 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCA
92025192 CCATGGCCGA
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 117 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAACAAATTAAGGAAGCATTTGAC
Found at i:92027742 original size:50 final size:50
Alignment explanation
Indices: 92027662--92027760 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
92027652 TACGAGTTAT
* ** * *
92027662 GAATCGGTATGCTCTCACGAGCTGTGAATCGGTAAGCTCATATGAGCTGA
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTGA
*
92027712 GAATCGTTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTG
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTG
92027761 TGGTATGTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTGA
Found at i:92027760 original size:25 final size:24
Alignment explanation
Indices: 92027663--92027760 Score: 97
Period size: 25 Copynumber: 4.0 Consensus size: 24
92027653 ACGAGTTATG
* * *
92027663 AATCGGTATGCTCTCACGAGCTGTG
1 AATCGGTAAGCTCACACGAGCTG-A
* *
92027688 AATCGGTAAGCTCATATGAGCTGA
1 AATCGGTAAGCTCACACGAGCTGA
* *
92027712 GAATCGTTAAGCTCTCACGAGCTGCA
1 -AATCGGTAAGCTCACACGAGCTG-A
*
92027738 AATCGGTAAGCTCAAACGAGCTG
1 AATCGGTAAGCTCACACGAGCTG
92027761 TGGTATGTCC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
25 58 0.98
26 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (24 bp):
AATCGGTAAGCTCACACGAGCTGA
Found at i:92032632 original size:46 final size:46
Alignment explanation
Indices: 92032569--92032797 Score: 273
Period size: 46 Copynumber: 5.0 Consensus size: 46
92032559 TTCGACATGA
* * * * * *
92032569 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
* * ** * * *
92032615 TGCCATGGTATCATTCAACCAAGGTCTTATTCATTTCCCCATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTT-TCTATCAGGT
* *
92032662 TGCCATGGTATCTTTTAACCATGGTCTTAAACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
*
92032708 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGT
92032754 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
92032798 AGAGCACACT
Statistics
Matches: 158, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
45 1 0.01
46 119 0.75
47 38 0.24
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGT
Found at i:92032728 original size:93 final size:92
Alignment explanation
Indices: 92032569--92032797 Score: 289
Period size: 93 Copynumber: 2.5 Consensus size: 92
92032559 TTCGACATGA
* * * * * *
92032569 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCATTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCATTCAAC
** *
92032634 CAAGGTCTTATTCATTTCCCCATCACGT
66 CAAGGTCTTACACATTT-CACATCACGT
* * *
92032662 TGCCATGGTATCTTTTAACCATGGTCTTAAACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAGGTTGCCATGGTATCATTCAA
* * * *
92032726 CCATGGTCTTACACGTTTCATATCAGGT
65 CCAAGGTCTTACACATTTCACATCACGT
92032754 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAG
92032798 AGAGCACACT
Statistics
Matches: 116, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
92 48 0.41
93 68 0.59
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTCTATCAGGTTGCCATGGTATCATTCAAC
CAAGGTCTTACACATTTCACATCACGT
Found at i:92034954 original size:11 final size:11
Alignment explanation
Indices: 92034938--92034989 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
92034928 TATACTAAAT
92034938 AAATAATAATA
1 AAATAATAATA
*
92034949 AAATAAT-ATT
1 AAATAATAATA
* *
92034959 AAATATCTCATA
1 AAATA-ATAATA
*
92034971 AAATATTAATA
1 AAATAATAATA
92034982 AAATAATA
1 AAATAATA
92034990 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:92038218 original size:12 final size:12
Alignment explanation
Indices: 92038197--92038240 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
92038187 TGTCATTAAC
92038197 ATATAAAACCAA
1 ATATAAAACCAA
*
92038209 ATATAGAACCTTAA
1 ATATAAAACC--AA
92038223 CATATAAAACCAA
1 -ATATAAAACCAA
92038236 ATATA
1 ATATA
92038241 GAACTTACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 14 0.52
13 2 0.07
14 2 0.07
15 9 0.33
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:92038223 original size:27 final size:27
Alignment explanation
Indices: 92038192--92038244 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
92038182 CAATATGTCA
92038192 TTAACATATAAAACCAAATATAGAACC
1 TTAACATATAAAACCAAATATAGAACC
92038219 TTAACATATAAAACCAAATATAGAAC
1 TTAACATATAAAACCAAATATAGAAC
92038245 TTACTCCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.23
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAGAACC
Found at i:92038233 original size:15 final size:15
Alignment explanation
Indices: 92038192--92038233 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 15
92038182 CAATATGTCA
92038192 TTAACATATAAAACC
1 TTAACATATAAAACC
*
92038207 --AA-ATATAGAACC
1 TTAACATATAAAACC
92038219 TTAACATATAAAACC
1 TTAACATATAAAACC
92038234 AAATATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 2 0.09
15 9 0.41
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (15 bp):
TTAACATATAAAACC
Found at i:92038262 original size:15 final size:15
Alignment explanation
Indices: 92038242--92038277 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
92038232 CCAAATATAG
92038242 AACTTACTCCCACTA
1 AACTTACTCCCACTA
92038257 AACTTACTCCCACTA
1 AACTTACTCCCACTA
92038272 AACTTA
1 AACTTA
92038278 TGGTATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (15 bp):
AACTTACTCCCACTA
Found at i:92040043 original size:23 final size:23
Alignment explanation
Indices: 92040001--92040044 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
92039991 GTAAAATCGA
*
92040001 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
92040024 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
92040045 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:92043219 original size:40 final size:40
Alignment explanation
Indices: 92043175--92043308 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 40
92043165 AAAACACACC
* *
92043175 AATTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAGT
1 AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
* * * *
92043215 AATTTGACACCCAGTGTCTCATCGGCTAAACCGAAGTA--
1 AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
* *
92043253 AA-TTGGCACCCAGTGCCTCATCGAATTAATCCAAAGTAGT
1 AATTTGACACCCAGTGCCTCATCGGA-TAATCCAAAGTAGT
*
92043293 AAATTGACACCCAGTG
1 AATTTGACACCCAGTG
92043309 TCTTATTGAC
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
37 19 0.25
38 12 0.16
40 34 0.44
41 12 0.16
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (40 bp):
AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
Found at i:92045943 original size:31 final size:31
Alignment explanation
Indices: 92045878--92045936 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
92045868 GTCATTAAAT
* *
92045878 TATTCAAAATTTTTTATTTATGTTACTGAAC
1 TATTCAAAAGTTTTTATTTAAGTTACTGAAC
*
92045909 TATTTAAAAGTTTTTATTTAAGTTACTG
1 TATTCAAAAGTTTTTATTTAAGTTACTG
92045937 GGCTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (31 bp):
TATTCAAAAGTTTTTATTTAAGTTACTGAAC
Found at i:92056691 original size:15 final size:16
Alignment explanation
Indices: 92056664--92056693 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
92056654 ATTTTATTTT
92056664 AATAATGAATTTTAAC
1 AATAATGAATTTTAAC
92056680 AATAAT-AATTTTAA
1 AATAATGAATTTTAA
92056694 AATTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
AATAATGAATTTTAAC
Found at i:92063096 original size:19 final size:20
Alignment explanation
Indices: 92063072--92063109 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
92063062 TAATTAAATT
92063072 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
92063091 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
92063110 TGAAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:92063314 original size:17 final size:17
Alignment explanation
Indices: 92063272--92063314 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
92063262 ATGTATTTAC
*
92063272 TTATATAAT-AAGTAAA
1 TTATATTATAAAGTAAA
* *
92063288 TAATAATATAAAGTAAA
1 TTATATTATAAAGTAAA
92063305 TTATATTATA
1 TTATATTATA
92063315 TTATATTATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TTATATTATAAAGTAAA
Found at i:92063390 original size:31 final size:32
Alignment explanation
Indices: 92063353--92063417 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
92063343 TAAATAAAGA
*
92063353 AGGAATAAAG-AAAATAAAAGAAATAAAACAT
1 AGGAATAAAGAAAAAAAAAAGAAATAAAACAT
92063384 AGGAATAAAGATAAAAAAAAAGAAATAAAACAT
1 AGGAATAAAGA-AAAAAAAAAGAAATAAAACAT
92063417 A
1 A
92063418 AAGAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 10 0.32
33 21 0.68
ACGTcount: A:0.72, C:0.03, G:0.12, T:0.12
Consensus pattern (32 bp):
AGGAATAAAGAAAAAAAAAAGAAATAAAACAT
Found at i:92063427 original size:33 final size:33
Alignment explanation
Indices: 92063355--92063427 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
92063345 AATAAAGAAG
* *
92063355 GAATAAAG--AAAATAAAAGAAATAAAACATAG
1 GAATAAAGATAAAAAAAAAGAAATAAAACATAA
92063386 GAATAAAGATAAAAAAAAAGAAATAAAACATAAA
1 GAATAAAGATAAAAAAAAAGAAATAAAACAT-AA
92063420 GAA-AAAGA
1 GAATAAAGA
92063428 GAAAGAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 8 0.22
33 25 0.68
34 4 0.11
ACGTcount: A:0.74, C:0.03, G:0.12, T:0.11
Consensus pattern (33 bp):
GAATAAAGATAAAAAAAAAGAAATAAAACATAA
Found at i:92063550 original size:26 final size:26
Alignment explanation
Indices: 92063514--92063564 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
92063504 GAGTTTCAAG
92063514 CTTGATTGGTAAGCCAATTTAATCCT
1 CTTGATTGGTAAGCCAATTTAATCCT
*
92063540 CTTGATTGGTAAGTCAATTTAATCC
1 CTTGATTGGTAAGCCAATTTAATCC
92063565 CTTTTCTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (26 bp):
CTTGATTGGTAAGCCAATTTAATCCT
Found at i:92065406 original size:22 final size:22
Alignment explanation
Indices: 92065351--92065406 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
92065341 CGGGTTAATG
* *
92065351 ACACGAGCGTGTCACATCAGCC
1 ACACGGGCGTGTCACACCAGCC
*
92065373 ATACGGGCGTGTCACACCAGCC
1 ACACGGGCGTGTCACACCAGCC
* *
92065395 ACATGGGTGTGT
1 ACACGGGCGTGT
92065407 GGTACTATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACACCAGCC
Found at i:92070797 original size:17 final size:18
Alignment explanation
Indices: 92070756--92070798 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
92070746 TGTATTTACT
*
92070756 TATTATATAAGTACATAA
1 TATTATATAAGTAAATAA
* *
92070774 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
92070791 TATTATAT
1 TATTATAT
92070799 TGTATAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:92073983 original size:24 final size:24
Alignment explanation
Indices: 92073955--92074006 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
92073945 TTAGTAAGTC
* *
92073955 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
92073979 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
92074003 AAAT
1 AAAT
92074007 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:92085829 original size:20 final size:20
Alignment explanation
Indices: 92085806--92085845 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
92085796 CATGCCATAG
92085806 ATTGAAATTTGTCTCACCAT
1 ATTGAAATTTGTCTCACCAT
92085826 ATTGAAATTTGTCTCACCAT
1 ATTGAAATTTGTCTCACCAT
92085846 CGAACTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTGAAATTTGTCTCACCAT
Found at i:92085839 original size:95 final size:95
Alignment explanation
Indices: 92085731--92085981 Score: 493
Period size: 95 Copynumber: 2.6 Consensus size: 95
92085721 CATGCCATAG
92085731 ATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACCTTGTTGCTGCCATCTCTGAACGGA
1 ATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACCTTGTTGCTGCCATCTCTGAACGGA
92085796 CATGCCATAGATTGAAATTTGTCTCACCAT
66 CATGCCATAGATTGAAATTTGTCTCACCAT
92085826 ATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACCTTGTTGCTGCCATCTCTGAACGGA
1 ATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACCTTGTTGCTGCCATCTCTGAACGGA
92085891 CATGCCATAGATTGAAATTTGTCTCACCAT
66 CATGCCATAGATTGAAATTTGTCTCACCAT
*
92085921 ATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACCTTATTGCTGCCATCTCTGAA
1 ATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACCTTGTTGCTGCCATCTCTGAA
92085982 GGGGCTGATC
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 155 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (95 bp):
ATTGAAATTTGTCTCACCATCGAACTTCTCAATTTCAAACCTTGTTGCTGCCATCTCTGAACGGA
CATGCCATAGATTGAAATTTGTCTCACCAT
Found at i:92085924 original size:20 final size:20
Alignment explanation
Indices: 92085901--92085940 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
92085891 CATGCCATAG
92085901 ATTGAAATTTGTCTCACCAT
1 ATTGAAATTTGTCTCACCAT
92085921 ATTGAAATTTGTCTCACCAT
1 ATTGAAATTTGTCTCACCAT
92085941 CGAACTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTGAAATTTGTCTCACCAT
Found at i:92088430 original size:15 final size:16
Alignment explanation
Indices: 92088410--92088440 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
92088400 AATATTATGA
92088410 TTTAAAATTT-TTATT
1 TTTAAAATTTATTATT
92088425 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
92088441 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:92088669 original size:16 final size:16
Alignment explanation
Indices: 92088648--92088717 Score: 104
Period size: 16 Copynumber: 4.4 Consensus size: 16
92088638 TTTGGTTCGC
*
92088648 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
92088664 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
92088680 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
92088696 TGTAATAGAATAGAGG
1 TGTAATGGATTAGAGG
92088712 TGTAAT
1 TGTAAT
92088718 AGCAAATCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 51 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:92088752 original size:45 final size:41
Alignment explanation
Indices: 92088696--92088805 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
92088686 GGATTAGAGG
*
92088696 TGTAATAGAATAGAGGTGTAATAGCAAATCAAATGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGG-T
* * ***
92088738 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
92088781 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
92088806 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAAATGTTTGGT
Found at i:92088972 original size:18 final size:17
Alignment explanation
Indices: 92088951--92088985 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
92088941 TTATTATTAA
*
92088951 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
92088969 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
92088986 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:92089051 original size:157 final size:157
Alignment explanation
Indices: 92088838--92089152 Score: 585
Period size: 157 Copynumber: 2.0 Consensus size: 157
92088828 TAGAATACCC
*
92088838 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
92088903 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
92088968 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
* *
92088995 TTAGCAGAAATTTGTTTTGGTAAATTATTGTTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
92089060 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
92089125 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
92089152 T
1 T
92089153 CAATATTCTT
Statistics
Matches: 153, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:92089125 original size:16 final size:16
Alignment explanation
Indices: 92089088--92089129 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
92089078 TTAATCATAT
*
92089088 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
92089104 TT-AAATATATTATAA
1 TTAAAATATATTATAA
92089119 TTAAAATATAT
1 TTAAAATATAT
92089130 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:92089136 original size:14 final size:15
Alignment explanation
Indices: 92089097--92089138 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
92089087 TTTAAACATA
*
92089097 ATTATTATTAAATAT
1 ATTATAATTAAATAT
92089112 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
92089126 A-TATAATTTAATA
1 ATTATAATTAAATA
92089139 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:92089188 original size:61 final size:61
Alignment explanation
Indices: 92089123--92089309 Score: 183
Period size: 54 Copynumber: 3.1 Consensus size: 61
92089113 TTATAATTAA
*
92089123 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * ** *
92089184 AATATATGATACTATAAAAGATAATT-TGAAATAATTAATATT-AAATAT--ATTT--T--AATT
1 AATATAT-A-A-TTTAATA-A-AATTCT-TAATAATTAATATTCTTATATGAATTTACTCAAATC
*
92089241 AA
60 AT
*
92089243 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
92089304 AATATA
1 AATATA
92089310 NNNNNNNNNN
Statistics
Matches: 96, Mismatches: 16, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
54 17 0.18
55 6 0.06
56 5 0.05
57 5 0.05
58 1 0.01
59 12 0.12
61 17 0.18
62 1 0.01
63 5 0.05
64 5 0.05
65 6 0.06
66 16 0.17
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:92089230 original size:120 final size:120
Alignment explanation
Indices: 92089094--92089309 Score: 396
Period size: 120 Copynumber: 1.8 Consensus size: 120
92089084 ATATTTAAAC
*
92089094 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
1 ATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
*
92089159 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTGAA
66 TCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAAGATAATTTGAA
* *
92089214 ATAATTAATATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
92089279 TCTTATATGAATTTACTCAAACCATAATATA
66 TCTTATATGAATTTACTCAAACCATAATATA
92089310 NNNNNNNNNN
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 92 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
ATAATTAATATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATAT
TCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAAGATAATTTGAA
Found at i:92089255 original size:18 final size:17
Alignment explanation
Indices: 92089228--92089262 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
92089218 TTAATATTAA
*
92089228 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
92089246 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
92089263 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:92093931 original size:21 final size:21
Alignment explanation
Indices: 92093905--92093947 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
92093895 TTGGGTGGAA
92093905 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
92093926 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
92093947 T
1 T
92093948 GGCATATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:92094201 original size:21 final size:21
Alignment explanation
Indices: 92094176--92094220 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
92094166 ATTTATATAG
*
92094176 TTAGTTCGGTAAGATTTTTGT
1 TTAGTTCAGTAAGATTTTTGT
*
92094197 TTAGTTTAGTAAGATTTTTGT
1 TTAGTTCAGTAAGATTTTTGT
92094218 TTA
1 TTA
92094221 TCTTGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.56
Consensus pattern (21 bp):
TTAGTTCAGTAAGATTTTTGT
Found at i:92105081 original size:16 final size:16
Alignment explanation
Indices: 92105060--92105091 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
92105050 AATGTGTAAG
92105060 CTATGTATGTGATATA
1 CTATGTATGTGATATA
92105076 CTATGTATGTGATATA
1 CTATGTATGTGATATA
92105092 TTGTAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (16 bp):
CTATGTATGTGATATA
Found at i:92108932 original size:13 final size:13
Alignment explanation
Indices: 92108914--92108938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92108904 TGGATCCATA
92108914 CCAAAACAATCAG
1 CCAAAACAATCAG
92108927 CCAAAACAATCA
1 CCAAAACAATCA
92108939 TGAAGCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.32, G:0.04, T:0.08
Consensus pattern (13 bp):
CCAAAACAATCAG
Found at i:92109962 original size:43 final size:43
Alignment explanation
Indices: 92109896--92110025 Score: 145
Period size: 44 Copynumber: 3.0 Consensus size: 43
92109886 AGCTCGTACA
* *** *
92109896 ATGCCAACATCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAATCACATATCG
*
92109939 ATGCC-ACTGTCCCAGACAAGGTCTTACACGTAAATCACAAATCG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACACGT-AATCACATATCG
** * *
92109983 ATGCCAACGTCCCAGACGTGATCTTACACGAAATCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAATCACATATCG
92110026 GAACCCTATG
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 2 0.03
43 34 0.47
44 35 0.48
45 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAAGGTCTTACACGTAATCACATATCG
Found at i:92109987 original size:44 final size:44
Alignment explanation
Indices: 92109896--92110025 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 44
92109886 AGCTCGTACA
* *** *
92109896 ATGCCAACATCCCAGATGTGGTCTTACATGT-AATCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAAATCACATATCG
*
92109939 ATGCC-ACTGTCCCAGACAAGGTCTTACACGTAAATCACAAATCG
1 ATGCCAAC-GTCCCAGACAAGGTCTTACACGTAAATCACATATCG
** *
92109983 ATGCCAACGTCCCAGACGTGATCTTACACG-AAATCACATATCG
1 ATGCCAACGTCCCAGACAAGGTCTTACACGTAAATCACATATCG
92110026 GAACCCTATG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.03
43 35 0.47
44 35 0.47
45 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAAGGTCTTACACGTAAATCACATATCG
Found at i:92112565 original size:13 final size:14
Alignment explanation
Indices: 92112523--92112567 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
92112513 TAATAATGAT
92112523 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
92112538 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
92112551 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
92112564 TAAA
1 TAAA
92112568 AAAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:92112607 original size:13 final size:13
Alignment explanation
Indices: 92112561--92112601 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
92112551 TAAAGTAATT
*
92112561 AAATAAAA-AAATA
1 AAATAAAAGAAA-G
92112574 AAATAAAAGAAAG
1 AAATAAAAGAAAG
92112587 AAATAAAAGAAAG
1 AAATAAAAGAAAG
92112600 AA
1 AA
92112602 TGAAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAATAAAAGAAAG
Found at i:92114403 original size:762 final size:762
Alignment explanation
Indices: 92112940--92114464 Score: 3032
Period size: 762 Copynumber: 2.0 Consensus size: 762
92112930 TTCAAGTTAG
92112940 AAGTGGGAGAAGGATTAAATTGTAAAAGAAAATATAGGTCTTGCAATAATAGGGATTGAATTGAG
1 AAGTGGGAGAAGGATTAAATTGTAAAAGAAAATATAGGTCTTGCAATAATAGGGATTGAATTGAG
*
92113005 AAGATGTTATAATTAGTGTTTTATGCTGTAAATTTAAGAGTTGGAATAGTTTAAAATGATAATTG
66 AAGATGTTATAATTAGTGTTTTATGCAGTAAATTTAAGAGTTGGAATAGTTTAAAATGATAATTG
92113070 GATGAAAATATATGATTTGTTTTGAAGAAAAAGAATAGTTATGGTGGAAGGACTAAATTGGAATT
131 GATGAAAATATATGATTTGTTTTGAAGAAAAAGAATAGTTATGGTGGAAGGACTAAATTGGAATT
92113135 TAAGTAAAAGATACATGGAAAAACAAGAGTGTGTTATTAAATAATATATATTGATAATTTTAAAT
196 TAAGTAAAAGATACATGGAAAAACAAGAGTGTGTTATTAAATAATATATATTGATAATTTTAAAT
92113200 GTTAAATTTTATGTAGCCAACGTAGCACCGGAAACATCATCAAAAAAGGGAAAGGAGAAAGTGAA
261 GTTAAATTTTATGTAGCCAACGTAGCACCGGAAACATCATCAAAAAAGGGAAAGGAGAAAGTGAA
92113265 CGAGGATATCGAGTAAACTCGAGAAATTCGGTTTGTATTTCTATAAACTATGCTTAATGATTTAA
326 CGAGGATATCGAGTAAACTCGAGAAATTCGGTTTGTATTTCTATAAACTATGCTTAATGATTTAA
92113330 TACAATGTAATTGCTATTCTTAGTAGTTAGAATGTATAATGAATGATATGATAGAAATTATTACT
391 TACAATGTAATTGCTATTCTTAGTAGTTAGAATGTATAATGAATGATATGATAGAAATTATTACT
92113395 GCTTTTGTATTGAAACGTAACGATTTGTACACCCTATTAACAAGTGTCGGACTAGTCGGATATAA
456 GCTTTTGTATTGAAACGTAACGATTTGTACACCCTATTAACAAGTGTCGGACTAGTCGGATATAA
92113460 TTGGCATGCCATAGGATTGGAAGTGTTCAGGGATATTCCGAATGTATGTCGATGGGACACTATAT
521 TTGGCATGCCATAGGATTGGAAGTGTTCAGGGATATTCCGAATGTATGTCGATGGGACACTATAT
92113525 GTGTCGACTACTGTAACTATTCCGGATTCGTTCCGAAGAGGTACTCTGTACCTGACTATGACTGT
586 GTGTCGACTACTGTAACTATTCCGGATTCGTTCCGAAGAGGTACTCTGTACCTGACTATGACTGT
92113590 TACTGCTACTGTTACTGTTACCCTTACGGTGTACTCCGGCTTCGGCCGATGAAACACTGTACATT
651 TACTGCTACTGTTACTGTTACCCTTACGGTGTACTCCGGCTTCGGCCGATGAAACACTGTACATT
92113655 ATCCCCAGTGTGTGGGTTGGATCCATGTATTCGTCCAAGTCCGAGTT
716 ATCCCCAGTGTGTGGGTTGGATCCATGTATTCGTCCAAGTCCGAGTT
*
92113702 AAGTGGGAGAAGGATTAAATTGTGAAAGAAAATATAGGTCTTGCAATAATAGGGATTGAATTGAG
1 AAGTGGGAGAAGGATTAAATTGTAAAAGAAAATATAGGTCTTGCAATAATAGGGATTGAATTGAG
92113767 AAGATGTTATAATTAGTGTTTTATGCAGTAAATTTAAGAGTTGGAATAGTTTAAAATGATAATTG
66 AAGATGTTATAATTAGTGTTTTATGCAGTAAATTTAAGAGTTGGAATAGTTTAAAATGATAATTG
92113832 GATGAAAATATATGATTTGTTTTGAAGAAAAAGAATAGTTATGGTGGAAGGACTAAATTGGAATT
131 GATGAAAATATATGATTTGTTTTGAAGAAAAAGAATAGTTATGGTGGAAGGACTAAATTGGAATT
92113897 TAAGTAAAAGATACATGGAAAAACAAGAGTGTGTTATTAAATAATATATATTGATAATTTTAAAT
196 TAAGTAAAAGATACATGGAAAAACAAGAGTGTGTTATTAAATAATATATATTGATAATTTTAAAT
92113962 GTTAAATTTTATGTAGCCAACGTAGCACCGGAAACATCATCAAAAAAGGGAAAGGAGAAAGTGAA
261 GTTAAATTTTATGTAGCCAACGTAGCACCGGAAACATCATCAAAAAAGGGAAAGGAGAAAGTGAA
92114027 CGAGGATATCGAGTAAACTCGAGAAATTCGGTTTGTATTTCTATAAACTATGCTTAATGATTTAA
326 CGAGGATATCGAGTAAACTCGAGAAATTCGGTTTGTATTTCTATAAACTATGCTTAATGATTTAA
92114092 TACAATGTAATTGCTATTCTTAGTAGTTAGAATGTATAATGAATGATATGATAGAAATTATTACT
391 TACAATGTAATTGCTATTCTTAGTAGTTAGAATGTATAATGAATGATATGATAGAAATTATTACT
92114157 GCTTTTGTATTGAAACGTAACGATTTGTACACCCTATTAACAAGTGTCGGACTAGTCGGATATAA
456 GCTTTTGTATTGAAACGTAACGATTTGTACACCCTATTAACAAGTGTCGGACTAGTCGGATATAA
92114222 TTGGCATGCCATAGGATTGGAAGTGTTCAGGGATATTCCGAATGTATGTCGATGGGACACTATAT
521 TTGGCATGCCATAGGATTGGAAGTGTTCAGGGATATTCCGAATGTATGTCGATGGGACACTATAT
92114287 GTGTCGACTACTGTAACTATTCCGGATTCGTTCCGAAGAGGTACTCTGTACCTGACTATGACTGT
586 GTGTCGACTACTGTAACTATTCCGGATTCGTTCCGAAGAGGTACTCTGTACCTGACTATGACTGT
92114352 TACTGCTACTGTTACTGTTACCCTTACGGTGTACTCCGGCTTCGGCCGATGAAACACTGTACATT
651 TACTGCTACTGTTACTGTTACCCTTACGGTGTACTCCGGCTTCGGCCGATGAAACACTGTACATT
92114417 ATCCCCAGTGTGTGGGTTGGATCCATGTATTCGTCCAAGTCCGAGTT
716 ATCCCCAGTGTGTGGGTTGGATCCATGTATTCGTCCAAGTCCGAGTT
92114464 A
1 A
92114465 TGTTAATAGG
Statistics
Matches: 761, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
762 761 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (762 bp):
AAGTGGGAGAAGGATTAAATTGTAAAAGAAAATATAGGTCTTGCAATAATAGGGATTGAATTGAG
AAGATGTTATAATTAGTGTTTTATGCAGTAAATTTAAGAGTTGGAATAGTTTAAAATGATAATTG
GATGAAAATATATGATTTGTTTTGAAGAAAAAGAATAGTTATGGTGGAAGGACTAAATTGGAATT
TAAGTAAAAGATACATGGAAAAACAAGAGTGTGTTATTAAATAATATATATTGATAATTTTAAAT
GTTAAATTTTATGTAGCCAACGTAGCACCGGAAACATCATCAAAAAAGGGAAAGGAGAAAGTGAA
CGAGGATATCGAGTAAACTCGAGAAATTCGGTTTGTATTTCTATAAACTATGCTTAATGATTTAA
TACAATGTAATTGCTATTCTTAGTAGTTAGAATGTATAATGAATGATATGATAGAAATTATTACT
GCTTTTGTATTGAAACGTAACGATTTGTACACCCTATTAACAAGTGTCGGACTAGTCGGATATAA
TTGGCATGCCATAGGATTGGAAGTGTTCAGGGATATTCCGAATGTATGTCGATGGGACACTATAT
GTGTCGACTACTGTAACTATTCCGGATTCGTTCCGAAGAGGTACTCTGTACCTGACTATGACTGT
TACTGCTACTGTTACTGTTACCCTTACGGTGTACTCCGGCTTCGGCCGATGAAACACTGTACATT
ATCCCCAGTGTGTGGGTTGGATCCATGTATTCGTCCAAGTCCGAGTT
Found at i:92117688 original size:19 final size:19
Alignment explanation
Indices: 92117664--92117701 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
92117654 TCTTTGTTTT
92117664 GCAGTAGTAATTTTTTAAC
1 GCAGTAGTAATTTTTTAAC
*
92117683 GCAGTAGTCATTTTTTAAC
1 GCAGTAGTAATTTTTTAAC
92117702 ATGTTACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (19 bp):
GCAGTAGTAATTTTTTAAC
Found at i:92117793 original size:27 final size:27
Alignment explanation
Indices: 92117761--92117816 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
92117751 AAGGCATACA
92117761 TGTTACTTTCTAACATGTTAAATACCT
1 TGTTACTTTCTAACATGTTAAATACCT
92117788 TGTTACTTTCTAACATGTTAAATACCT
1 TGTTACTTTCTAACATGTTAAATACCT
92117815 TG
1 TG
92117817 GAAATCATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.45
Consensus pattern (27 bp):
TGTTACTTTCTAACATGTTAAATACCT
Found at i:92120831 original size:22 final size:22
Alignment explanation
Indices: 92120797--92120857 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
92120787 ACAATATCTA
*
92120797 AACAGTAAAAATAAAATAATAGC
1 AACA-TAATAATAAAATAATAGC
* *
92120820 AACATAATAATAAAATTATAGT
1 AACATAATAATAAAATAATAGC
*
92120842 AAAATAATAAATAAAA
1 AACATAAT-AATAAAA
92120858 AAACAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 22 0.67
23 11 0.33
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (22 bp):
AACATAATAATAAAATAATAGC
Found at i:92120896 original size:18 final size:19
Alignment explanation
Indices: 92120804--92120898 Score: 72
Period size: 19 Copynumber: 5.1 Consensus size: 19
92120794 CTAAACAGTA
*
92120804 AAAATAA-AATAATAGCAAC
1 AAAATAATAA-AATAACAAC
* * * **
92120823 ATAATAATAAAATTATAGT
1 AAAATAATAAAATAACAAC
*
92120842 AAAATAAT-AAATAA-AAA
1 AAAATAATAAAATAACAAC
92120859 AACAATAATAAAATAACAAC
1 AA-AATAATAAAATAACAAC
*
92120879 AAAATAGTAAAA-AACAAC
1 AAAATAATAAAATAACAAC
92120897 AA
1 AA
92120899 TAAAAACAGT
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
17 3 0.05
18 19 0.32
19 32 0.53
20 6 0.10
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.19
Consensus pattern (19 bp):
AAAATAATAAAATAACAAC
Found at i:92120909 original size:22 final size:21
Alignment explanation
Indices: 92120854--92120914 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
92120844 AATAATAAAT
* *
92120854 AAAAAAACAATAATAAAATAAC
1 AAAAAAACAGTAA-AAAACAAC
* *
92120876 AACAAAATAGTAAAAAACAAC
1 AAAAAAACAGTAAAAAACAAC
92120897 AATAAAAACAGTAAAAAA
1 AA-AAAAACAGTAAAAAA
92120915 AGTCTTATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.75, C:0.10, G:0.03, T:0.11
Consensus pattern (21 bp):
AAAAAAACAGTAAAAAACAAC
Found at i:92122152 original size:51 final size:51
Alignment explanation
Indices: 92122084--92122187 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
92122074 TCTATAATAA
92122084 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
1 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
92122135 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
1 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
92122186 CA
1 CA
92122188 ACCTCTGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.32, G:0.15, T:0.15
Consensus pattern (51 bp):
CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
Found at i:92127448 original size:50 final size:51
Alignment explanation
Indices: 92127381--92127517 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 51
92127371 TGTATAAATG
* * *
92127381 TTGATAGAAAGTATAAATATTGAAGGCTAAATTTATTAAATCAATATC-AA
1 TTGATAGAATGTGTAAATATTGAAGGCTAAATTTATTAAATCAAAATCAAA
* * *
92127431 TTGATAGGATGTGTAAATATTGCAA-GCTAAATTTATTAATTGAAAATCAAA
1 TTGATAGAATGTGTAAATATTG-AAGGCTAAATTTATTAAATCAAAATCAAA
* *
92127482 TTGATAGAATGTGTAAATTTTAAAGGCTAAATTTAT
1 TTGATAGAATGTGTAAATATTGAAGGCTAAATTTAT
92127518 CATTATATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 41 0.55
51 34 0.45
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (51 bp):
TTGATAGAATGTGTAAATATTGAAGGCTAAATTTATTAAATCAAAATCAAA
Found at i:92133719 original size:18 final size:18
Alignment explanation
Indices: 92133696--92133788 Score: 150
Period size: 18 Copynumber: 5.2 Consensus size: 18
92133686 CCCAACTACT
*
92133696 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
92133714 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
92133732 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
92133750 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
92133768 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
92133786 GTA
1 GTA
92133789 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:92133748 original size:36 final size:36
Alignment explanation
Indices: 92133696--92133788 Score: 168
Period size: 36 Copynumber: 2.6 Consensus size: 36
92133686 CCCAACTACT
*
92133696 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
92133732 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
92133768 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
92133789 AACGGTCGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:92142139 original size:38 final size:38
Alignment explanation
Indices: 92142084--92142168 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
92142074 AGTACATAGT
* *
92142084 CAACAGAAGCTCATAAGAGCTGGTCCTCCCGAAT-ACGC
1 CAACAGAAGCTCATAAGAGCTGATCCACCC-AATCACGC
* *
92142122 CAACAGAAGCTCGTAAGAGTTGATCCACCCAATCACGC
1 CAACAGAAGCTCATAAGAGCTGATCCACCCAATCACGC
92142160 CAAACAGAA
1 C-AACAGAA
92142169 AGTAAAACAC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 3 0.07
38 31 0.76
39 7 0.17
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (38 bp):
CAACAGAAGCTCATAAGAGCTGATCCACCCAATCACGC
Found at i:92142839 original size:196 final size:196
Alignment explanation
Indices: 92142505--92142897 Score: 759
Period size: 196 Copynumber: 2.0 Consensus size: 196
92142495 ATCTGCGGGA
92142505 TCTTGATCTAAAATATAAAATTACTCATTTATTAGCATATATTTCATTTTCAATCTATTTTACAA
1 TCTTGATCTAAAATATAAAATTACTCATTTATTAGCATATATTTCATTTTCAATCTATTTTACAA
* *
92142570 TTAATACTTTTTTTATTTTTTAAATTCATGCAATTCCCCCAACCTTTTACAACTTTTGCAATTTA
66 TTAATACTTTTTTTATTTTTTAAATTCATGCAATTACCCCAAACTTTTACAACTTTTGCAATTTA
92142635 ATCCCTTAATTAGTTAATCTATCAAATTAACTAATTTTCTAAAATCAATAATCTATCTAAATATT
131 ATCCCTTAATTAGTTAATCTATCAAATTAACTAATTTTCTAAAATCAATAATCTATCTAAATATT
92142700 T
196 T
92142701 TCTTGATCTAAAATATAAAATTACTCATTTATTAGCATATATTTCATTTTCAATCTATTTTACAA
1 TCTTGATCTAAAATATAAAATTACTCATTTATTAGCATATATTTCATTTTCAATCTATTTTACAA
*
92142766 TTAATACTTTTTTTATTTTTTAAATTTATGCAATTACCCCAAACTTTTACAACTTTTGCAATTTA
66 TTAATACTTTTTTTATTTTTTAAATTCATGCAATTACCCCAAACTTTTACAACTTTTGCAATTTA
92142831 ATCCCTTAATTAGTTAATCTATCAAATTAACTAATTTTCTAAAATCAATAATCTATCTAAATATT
131 ATCCCTTAATTAGTTAATCTATCAAATTAACTAATTTTCTAAAATCAATAATCTATCTAAATATT
92142896 T
196 T
92142897 T
1 T
92142898 AGGCCCTCAT
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
196 194 1.00
ACGTcount: A:0.36, C:0.16, G:0.03, T:0.46
Consensus pattern (196 bp):
TCTTGATCTAAAATATAAAATTACTCATTTATTAGCATATATTTCATTTTCAATCTATTTTACAA
TTAATACTTTTTTTATTTTTTAAATTCATGCAATTACCCCAAACTTTTACAACTTTTGCAATTTA
ATCCCTTAATTAGTTAATCTATCAAATTAACTAATTTTCTAAAATCAATAATCTATCTAAATATT
T
Found at i:92144009 original size:12 final size:14
Alignment explanation
Indices: 92143980--92144015 Score: 58
Period size: 12 Copynumber: 2.7 Consensus size: 14
92143970 CTCAAATTGT
92143980 AATTTATCATATTC
1 AATTTATCATATTC
92143994 AATTTATCA-A-TC
1 AATTTATCATATTC
92144006 AATTTATCAT
1 AATTTATCAT
92144016 TTCTTTACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTATCATATTC
Found at i:92156221 original size:27 final size:25
Alignment explanation
Indices: 92156167--92156221 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
92156157 CAGATGGCCC
* **
92156167 AAAGTAAAAAAATCTAAATATTTTT
1 AAAGTAAAAAAATCTAAATAATCCT
92156192 AAAGTAAAAAAATCTAGATATAATCCT
1 AAAGTAAAAAAATCTA-A-ATAATCCT
92156219 AAA
1 AAA
92156222 AAAAGGCACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 16 0.64
26 1 0.04
27 8 0.32
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.29
Consensus pattern (25 bp):
AAAGTAAAAAAATCTAAATAATCCT
Found at i:92161535 original size:14 final size:15
Alignment explanation
Indices: 92161510--92161547 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
92161500 TAAGGTATAA
92161510 TATATTAT-TTTATT
1 TATATTATATTTATT
92161524 TATA-TATATTTATT
1 TATATTATATTTATT
92161538 TATATTATAT
1 TATATTATAT
92161548 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.64
15 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTATATTTATT
Found at i:92161536 original size:19 final size:18
Alignment explanation
Indices: 92161509--92161548 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
92161499 ATAAGGTATA
92161509 ATATATTATTT-TATTTAT
1 ATATATTATTTATA-TTAT
92161527 ATATATTTATTTATATTAT
1 ATATA-TTATTTATATTAT
92161546 ATA
1 ATA
92161549 AAAATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 13 0.65
20 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATATTATTTATATTAT
Found at i:92162167 original size:23 final size:23
Alignment explanation
Indices: 92162129--92162177 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
92162119 TAATTTATGA
* *
92162129 AATTATATTTATAA-TTATTATAT
1 AATTATATTAAAAATTTATTA-AT
92162152 AATTATATTAAAAATTTATTAAT
1 AATTATATTAAAAATTTATTAAT
92162175 AAT
1 AAT
92162178 AATAAAAGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTATATTAAAAATTTATTAAT
Found at i:92162183 original size:20 final size:21
Alignment explanation
Indices: 92162146--92162184 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
92162136 TTTATAATTA
* *
92162146 TTATATAATTATATTAAAAAT
1 TTATATAATAATAATAAAAAT
92162167 TTAT-TAATAATAATAAAA
1 TTATATAATAATAATAAAA
92162185 GTAATTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATATAATAATAATAAAAAT
Found at i:92163881 original size:3 final size:3
Alignment explanation
Indices: 92163873--92163928 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
92163863 TAACTAACAT
92163873 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
92163921 ATA ATA AT
1 ATA ATA AT
92163929 TAAATCTAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:92164048 original size:21 final size:21
Alignment explanation
Indices: 92164024--92164086 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
92164014 CACTAAAAGG
92164024 AAGATACTAATAAATATAAAT
1 AAGATACTAATAAATATAAAT
*
92164045 AAGATA--AAGAAATAAATAAAT
1 AAGATACTAATAAAT--ATAAAT
92164066 AAG-TACGTAAATAAATATAAA
1 AAGATAC-T-AATAAATATAAA
92164087 GAAAATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
19 6 0.18
20 2 0.06
21 15 0.44
22 5 0.15
24 6 0.18
ACGTcount: A:0.65, C:0.03, G:0.08, T:0.24
Consensus pattern (21 bp):
AAGATACTAATAAATATAAAT
Found at i:92178387 original size:21 final size:21
Alignment explanation
Indices: 92178361--92178401 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
92178351 CCCCTGCCTA
92178361 TGGTCAAAATTGGGGGTCTCC
1 TGGTCAAAATTGGGGGTCTCC
*
92178382 TGGTCAAAATTGGTGGTCTC
1 TGGTCAAAATTGGGGGTCTC
92178402 ACGATCGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (21 bp):
TGGTCAAAATTGGGGGTCTCC
Found at i:92187039 original size:82 final size:82
Alignment explanation
Indices: 92186944--92187108 Score: 312
Period size: 82 Copynumber: 2.0 Consensus size: 82
92186934 CAATAGCCAT
92186944 CCTATCTTTTTCCCTTTTCCTTTCCCTCTCCTTCTCTCTTTCTTCTATTGTTTTAAGACGTTCAT
1 CCTATCTTTTTCCCTTTTCCTTTCCCTCTCCTTCTCTCTTTCTTCTATTGTTTTAAGACGTTCAT
92187009 TTTCCAGTTCTCTTTCC
66 TTTCCAGTTCTCTTTCC
*
92187026 CCTATCTTTTTCCCTTTTCCTTTCCCTCTCCTTCTCTCTTTCTTCTATTGTTTTAAGACTTTCAT
1 CCTATCTTTTTCCCTTTTCCTTTCCCTCTCCTTCTCTCTTTCTTCTATTGTTTTAAGACGTTCAT
*
92187091 TTTTCAGTTCTCTTTCC
66 TTTCCAGTTCTCTTTCC
92187108 C
1 C
92187109 TTTTCATCCT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 81 1.00
ACGTcount: A:0.08, C:0.33, G:0.04, T:0.55
Consensus pattern (82 bp):
CCTATCTTTTTCCCTTTTCCTTTCCCTCTCCTTCTCTCTTTCTTCTATTGTTTTAAGACGTTCAT
TTTCCAGTTCTCTTTCC
Found at i:92189395 original size:10 final size:10
Alignment explanation
Indices: 92189374--92189435 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
92189364 AATTAAATTC
92189374 TAAAAGATAAA
1 TAAAA-ATAAA
92189385 TAAAAATAAA
1 TAAAAATAAA
* *
92189395 TAAAGATAAT
1 TAAAAATAAA
* *
92189405 TAAAGATAGA
1 TAAAAATAAA
*
92189415 TAAAGATAAA
1 TAAAAATAAA
*
92189425 TGAAAATAAA
1 TAAAAATAAA
92189435 T
1 T
92189436 CCTAAATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
10 39 0.89
11 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:92189399 original size:20 final size:20
Alignment explanation
Indices: 92189376--92189435 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
92189366 TTAAATTCTA
92189376 AAAGATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
* * *
92189396 AAAGATAATTAAAGATAGAT
1 AAAGATAAATAAAAATAAAT
*
92189416 AAAGATAAATGAAAATAAAT
1 AAAGATAAATAAAAATAAAT
92189436 CCTAAATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:92189410 original size:30 final size:30
Alignment explanation
Indices: 92189376--92189433 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
92189366 TTAAATTCTA
92189376 AAAGATAAATAAAAATAAAT-AAAGATAATT
1 AAAGATAAATAAAAATAAATGAAA-ATAATT
* *
92189406 AAAGATAGATAAAGATAAATGAAAATAA
1 AAAGATAAATAAAAATAAATGAAAATAA
92189434 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (30 bp):
AAAGATAAATAAAAATAAATGAAAATAATT
Found at i:92193785 original size:34 final size:34
Alignment explanation
Indices: 92193742--92193827 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
92193732 CGCATTCCTA
* *
92193742 AAAAATAAAAATAGAATTAAGATTTTCGATCTGG
1 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
92193776 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
1 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
92193810 AAAAATAAAAACAGAATT
1 AAAAATAAAAACAGAATT
92193828 TTAAGTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (34 bp):
AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
Found at i:92194625 original size:10 final size:10
Alignment explanation
Indices: 92194598--92194645 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
92194588 TTAAATTCTA
*
92194598 AAAGATAAAT
1 AAAGATAATT
92194608 ACAA-ATAATT
1 A-AAGATAATT
92194618 AAAGATAATT
1 AAAGATAATT
92194628 AAAGATAGA-T
1 AAAGATA-ATT
92194638 AAAGATAA
1 AAAGATAA
92194646 ATGAAAATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
9 3 0.09
10 28 0.82
11 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (10 bp):
AAAGATAATT
Found at i:92198004 original size:18 final size:18
Alignment explanation
Indices: 92197981--92198018 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
92197971 TCTTAGGATA
92197981 AATATAATTAAATTACCT
1 AATATAATTAAATTACCT
*
92197999 AATATATTTAAATTACCT
1 AATATAATTAAATTACCT
92198017 AA
1 AA
92198019 CCTTTTTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATAATTAAATTACCT
Found at i:92200554 original size:59 final size:59
Alignment explanation
Indices: 92200489--92200608 Score: 204
Period size: 59 Copynumber: 2.0 Consensus size: 59
92200479 TCTTATTGAT
* *
92200489 TTCATGCCCTTGCCATCCAGCCCAAATAGACCTTGGGTTTATTTGCCTTTTAAACCATC
1 TTCATGCCCTTGCCATCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCATC
* *
92200548 TTCATGCCCTTGCCGTCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCCTC
1 TTCATGCCCTTGCCATCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCATC
92200607 TT
1 TT
92200609 TCTTTTATCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (59 bp):
TTCATGCCCTTGCCATCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCATC
Found at i:92203859 original size:12 final size:12
Alignment explanation
Indices: 92203826--92203860 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
92203816 ATATTTTCAG
92203826 AAAATATTAATAA
1 AAAATA-TAATAA
*
92203839 AAAATATAATAT
1 AAAATATAATAA
92203851 AAAATATAAT
1 AAAATATAAT
92203861 TTGGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATATAATAA
Found at i:92204311 original size:18 final size:19
Alignment explanation
Indices: 92204270--92204322 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
92204260 AACTAATTCA
*
92204270 AAAAATATTATTTAAAAAT
1 AAAAATATTATATAAAAAT
* *
92204289 TAAAATA-TATATATAAAT
1 AAAAATATTATATAAAAAT
*
92204307 AAAAA-ATTATAGAAAA
1 AAAAATATTATATAAAA
92204323 TATATAGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
17 1 0.04
18 20 0.74
19 6 0.22
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATATTATATAAAAAT
Found at i:92205383 original size:30 final size:28
Alignment explanation
Indices: 92205348--92205436 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 28
92205338 TATTGAGCTT
92205348 TTATAT-TATTAAATTACATTATTACCC
1 TTATATATATTAAATTACATTATTACCC
92205375 TTA-ATATA-T--ATT--ATTA--ACCC
1 TTATATATATTAAATTACATTATTACCC
*
92205395 TTTTATATTATTAAATTACATTATTACCC
1 TTATATA-TATTAAATTACATTATTACCC
92205424 TTAATATATATTA
1 TT-ATATATATTA
92205437 TTAACCTTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
20 6 0.12
21 3 0.06
22 6 0.12
23 1 0.02
24 3 0.06
25 3 0.06
26 3 0.06
27 9 0.18
29 11 0.22
30 4 0.08
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.49
Consensus pattern (28 bp):
TTATATATATTAAATTACATTATTACCC
Found at i:92205387 original size:19 final size:18
Alignment explanation
Indices: 92205359--92205446 Score: 73
Period size: 19 Copynumber: 5.1 Consensus size: 18
92205349 TATATTATTA
*
92205359 AATTACATTATTACCCTT
1 AATTATATTATTACCCTT
92205377 AATATATATTATTAACCCTT
1 AAT-TATATTATT-ACCCTT
92205397 --TTATATTATTA-----
1 AATTATATTATTACCCTT
*
92205408 AATTACATTATTACCCTT
1 AATTATATTATTACCCTT
*
92205426 AATATATATTATTAACCTT
1 AAT-TATATTATTACCCTT
92205445 AA
1 AA
92205447 ATTTAATTAT
Statistics
Matches: 56, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
13 10 0.18
16 1 0.02
17 9 0.16
18 7 0.12
19 23 0.41
20 6 0.11
ACGTcount: A:0.39, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
AATTATATTATTACCCTT
Found at i:92205408 original size:49 final size:49
Alignment explanation
Indices: 92205345--92205442 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
92205335 CCTTATTGAG
92205345 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
1 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
92205394 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
1 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
92205443 TTAAATTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (49 bp):
CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
Found at i:92205455 original size:19 final size:20
Alignment explanation
Indices: 92205405--92205457 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
92205395 TTTTATATTA
*
92205405 TTAAA-TTACATTATTACCC
1 TTAAATTTACATTATTAACC
* *
92205424 TT-AATATATATTATTAACC
1 TTAAATTTACATTATTAACC
92205443 TTAAATTTA-ATTATT
1 TTAAATTTACATTATT
92205458 GAGCCAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 21 0.75
20 5 0.18
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATTTACATTATTAACC
Found at i:92209866 original size:19 final size:18
Alignment explanation
Indices: 92209838--92209879 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
92209828 TTTTTTTTCC
92209838 TTTTTA-TTTTCTCGTTTT
1 TTTTTATTTTTCTC-TTTT
*
92209856 TTTTTACTTTTTTTCTTTT
1 TTTTTA-TTTTTCTCTTTT
92209875 TTTTT
1 TTTTT
92209880 GCCCCCACTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 9 0.43
20 6 0.29
ACGTcount: A:0.05, C:0.10, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTATTTTTCTCTTTT
Found at i:92214512 original size:14 final size:15
Alignment explanation
Indices: 92214493--92214524 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
92214483 GTGGTTATAG
92214493 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
92214507 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
92214522 TTA
1 TTA
92214525 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:92215842 original size:17 final size:17
Alignment explanation
Indices: 92215820--92215852 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92215810 ACTCGAAAAA
*
92215820 ATTATTATTTTATCGAG
1 ATTATTAGTTTATCGAG
92215837 ATTATTAGTTTATCGA
1 ATTATTAGTTTATCGA
92215853 TAAATAAATA
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:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (17 bp):
ATTATTAGTTTATCGAG
Found at i:92219255 original size:23 final size:23
Alignment explanation
Indices: 92219173--92219259 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
92219163 CCTGATCAGT
*
92219173 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
92219195 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
92219215 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
92219238 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
92219260 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:92219656 original size:15 final size:15
Alignment explanation
Indices: 92219631--92219688 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
92219621 TCATATATAT
92219631 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
92219647 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
92219662 AATAATTTCAATCAA
1 TATAAATTCAATCAA
92219677 TATAAATTCAAT
1 TATAAATTCAAT
92219689 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:92220976 original size:5 final size:5
Alignment explanation
Indices: 92220966--92220999 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
92220956 TTACTTATTT
92220966 ATATA ATATAA TATATA ATATA ATATA ATATA AT
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA AT
92221000 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 21 0.78
6 2 0.07
7 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:92221035 original size:8 final size:8
Alignment explanation
Indices: 92221022--92221050 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
92221012 TATCTTTATT
92221022 ATATAATA
1 ATATAATA
92221030 ATATAATA
1 ATATAATA
92221038 ATATAATA
1 ATATAATA
92221046 ATATA
1 ATATA
92221051 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:92221069 original size:52 final size:56
Alignment explanation
Indices: 92220964--92221069 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 56
92220954 CTTTACTTAT
*
92220964 TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAATATCTTTA
1 TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAAAATCTTTA
92221020 TTATAT-A-ATAATATAATAATAT-A-ATAATAT-ATT-AAACATAAAAAAATCTT
1 TTATATAATATAATAT-ATAATATAATATAATATAATTAAAACAT-AAAAAATCTT
92221070 AAATTTTCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
51 6 0.13
52 12 0.26
53 7 0.15
54 8 0.17
55 8 0.17
56 6 0.13
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (56 bp):
TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAAAATCTTTA
Found at i:92225651 original size:23 final size:22
Alignment explanation
Indices: 92225599--92225673 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
92225589 CCTGATCAGT
** *
92225599 ATACGACACATAAAGTGCCT-A
1 ATACGACACACGAGGTGCCTGA
*
92225620 AAACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
92225641 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
92225663 TATACGACACA
1 -ATACGACACA
92225674 TAAAGTGCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 36 0.78
23 10 0.22
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:92225681 original size:23 final size:23
Alignment explanation
Indices: 92225598--92225686 Score: 87
Period size: 21 Copynumber: 4.0 Consensus size: 23
92225588 ACCTGATCAG
*
92225598 TATACGACACATAAAGTGCCT-A
1 TATACGACACACAAAGTGCCTGA
* * *
92225620 -AAACGACACACGAGGTGCCTG-
1 TATACGACACACAAAGTGCCTGA
* *
92225641 -ATACGACACACGAGGTGCCTGA
1 TATACGACACACAAAGTGCCTGA
*
92225663 TATACGACACATAAAGTGCCTGA
1 TATACGACACACAAAGTGCCTGA
92225686 T
1 T
92225687 CGATAAAGCC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
21 36 0.64
23 20 0.36
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (23 bp):
TATACGACACACAAAGTGCCTGA
Found at i:92226081 original size:15 final size:15
Alignment explanation
Indices: 92226056--92226113 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
92226046 TCATATATAT
92226056 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
92226072 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
92226087 AATAATTTCAATCAA
1 TATAAATTCAATCAA
92226102 TATAAATTCAAT
1 TATAAATTCAAT
92226114 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:92227401 original size:5 final size:5
Alignment explanation
Indices: 92227391--92227424 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
92227381 TTACTTATTT
92227391 ATATA ATATAA TATATA ATATA ATATA ATATA AT
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA AT
92227425 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 21 0.78
6 2 0.07
7 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:92227460 original size:8 final size:8
Alignment explanation
Indices: 92227447--92227475 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
92227437 TATCTTTATT
92227447 ATATAATA
1 ATATAATA
92227455 ATATAATA
1 ATATAATA
92227463 ATATAATA
1 ATATAATA
92227471 ATATA
1 ATATA
92227476 TTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:92227494 original size:52 final size:56
Alignment explanation
Indices: 92227389--92227494 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 56
92227379 CTTTACTTAT
*
92227389 TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAATATCTTTA
1 TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAAAATCTTTA
92227445 TTATAT-A-ATAATATAATAATAT-A-ATAATAT-ATT-AAACATAAAAAAATCTT
1 TTATATAATATAATAT-ATAATATAATATAATATAATTAAAACAT-AAAAAATCTT
92227495 AAATTTTCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
51 6 0.13
52 12 0.26
53 7 0.15
54 8 0.17
55 8 0.17
56 6 0.13
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (56 bp):
TTATATAATATAATATATAATATAATATAATATAATTAAAACATAAAAAATCTTTA
Found at i:92232814 original size:22 final size:23
Alignment explanation
Indices: 92232766--92232814 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
92232756 TTTTTAAAAT
**
92232766 TTTAAAAATTTTAAAAATATATT
1 TTTAAAAATTTTAAAAATATAAA
92232789 TTTAAAAA-TTT-AAAATATTAAA
1 TTTAAAAATTTTAAAAATA-TAAA
92232811 TTTA
1 TTTA
92232815 TTGTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 6 0.26
22 9 0.39
23 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTAAAAATTTTAAAAATATAAA
Found at i:92250446 original size:44 final size:44
Alignment explanation
Indices: 92250396--92251005 Score: 835
Period size: 44 Copynumber: 13.9 Consensus size: 44
92250386 GGCAAAGCCT
* *
92250396 GCAGATTTGGCATCTCTGTATTGGCGGAGAGTAAATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
92250440 GCAGATTTGGCATCTCTGTATTAGCGGAGAGCAGATCGAATATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
92250484 GCAGATTTGGCATCTCTATATTGGCGGAGAACAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
92250528 GCAGATTTGGCGTCTCTGTATTGGCGGAGGGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
92250572 ACAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
92250616 GCAGATTTGGCACCTCTATATTGGCGGAGAGCAGATC-AAGGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAA-GATA
* ** * *
92250660 GCAGATTTAGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
92250704 GCAGATTTGGCGTTTCTGTATTAGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
92250748 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
** * *
92250792 GCAGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * * **
92250836 GCAGATTTGGCGTCTCTGTATTGGCAGAAAGCAGATTAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
92250880 GCAGATTTGGCATCTCTGTATTGGCGAAGAGTAGATTGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* ** * ** *
92250924 GCAGATTTGGCGTCTCTGTATTATCAGAGAGTGGATCGAACATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
92250968 GTAGATTTGGCATCTCTGTGTTGGCAGAGAGCAGATCG
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCG
92251006 GAAATAACAG
Statistics
Matches: 500, Mismatches: 64, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
43 2 0.00
44 496 0.99
45 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:92252081 original size:22 final size:22
Alignment explanation
Indices: 92252056--92252099 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
92252046 TGATTGATTC
92252056 TCGAATGAGTCAAAAAGAGAGG
1 TCGAATGAGTCAAAAAGAGAGG
*
92252078 TCGAATGAGTCAAAAGGAGAGG
1 TCGAATGAGTCAAAAAGAGAGG
92252100 CAGGAGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.34, T:0.14
Consensus pattern (22 bp):
TCGAATGAGTCAAAAAGAGAGG
Found at i:92253777 original size:134 final size:133
Alignment explanation
Indices: 92253534--92253893 Score: 352
Period size: 134 Copynumber: 2.7 Consensus size: 133
92253524 TTATTCATTC
* * * *
92253534 AAAAATTCTTCAAAATG-AAGACGAGATTCGATGTTTGACAATTCGCGGAATCGTGCCCTAACGT
1 AAAAATTCTTTAAAACGAAAG-CGAAATTCGATGTTTGACAATTCGCGGAATAGTGCCCTAACGT
* * * * * *
92253598 GTTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCAAATGTCCCTTCAAGATTTCCCTCATGCCT
65 GTTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAAATTCACTCATACAT
92253663 TTTA
130 TTTA
* *
92253667 AAAGAATTCTTTAAAACGAAAGCGAAATTCGATATTTTG-CAATTCGCGGAATAGTGCCTTAACG
1 AAA-AATTCTTTAAAACGAAAGCGAAATTCGAT-GTTTGACAATTCGCGGAATAGTGCCCTAACG
* * * * * * * * *
92253731 TGTTGGGTTGTAATTTCGTGTTTGCTTAAAATGATCGAGTATCCCTTCAAAAATTCATTCATATA
64 TGTTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAAATTCACTCATACA
92253796 TTTTA
129 TTTTA
* ** * *
92253801 AAAAATTATTTAAAACGAAAGC-AATATTCGGCGTTTGACAATTCG-AGAATCA-TGCCCTATCG
1 AAAAATTCTTTAAAACGAAAGCGAA-ATTCGATGTTTGACAATTCGCGGAAT-AGTGCCCTAACG
* * ** * *
92253863 TGCTGGGTTGTGATTTCACGTTTGTTCAAAA
64 TGTTGGGTGGCAATTTCGCGTTTGCTCAAAA
92253894 CGATCGAATA
Statistics
Matches: 187, Mismatches: 34, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
132 43 0.23
133 34 0.18
134 103 0.55
135 7 0.04
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (133 bp):
AAAAATTCTTTAAAACGAAAGCGAAATTCGATGTTTGACAATTCGCGGAATAGTGCCCTAACGTG
TTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCAAATATCCCTTCAAAAATTCACTCATACATT
TTA
Found at i:92271270 original size:12 final size:12
Alignment explanation
Indices: 92271253--92271289 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
92271243 CAACCCAATC
92271253 TTTCTTTTTATT
1 TTTCTTTTTATT
92271265 TTTCTTTTTATT
1 TTTCTTTTTATT
*
92271277 TTTATTATTTATT
1 TTTCTT-TTTATT
92271290 ATTTATTATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.74
13 6 0.26
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (12 bp):
TTTCTTTTTATT
Found at i:92271298 original size:7 final size:6
Alignment explanation
Indices: 92271257--92271296 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
92271247 CCAATCTTTC
*
92271257 TTTTTA TTTTTC TTTTTA TTTTTA TTATTTA TTATTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TT-TTTA TT
92271297 ATCTGTCGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 18 0.58
7 13 0.42
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:92271375 original size:96 final size:94
Alignment explanation
Indices: 92271205--92271392 Score: 315
Period size: 96 Copynumber: 2.0 Consensus size: 94
92271195 CGTTCAAGGC
*
92271205 GTCGAGCTAACGACGTTAAACAAGCACTTGTTGGGAGGCAACCCAATCTTTCTTTTTATTTTTCT
1 GTCGAGCTAACGACGTTAAACAAGCACTTGTTGGGAGGCAACCCAATCTTTCTTTTTATTTTTAT
*
92271270 TTTTATTTTTATTATTTATTATTTATTATCT
66 TTTTATTTTT-CT-TTTATTATTTATTATCT
*
92271301 GTCGAGCTAACGACGTTAAACAAGCGCTTGTTGGGAGGCAACCCAATCTTTCTTTTTATTTTTAT
1 GTCGAGCTAACGACGTTAAACAAGCACTTGTTGGGAGGCAACCCAATCTTTCTTTTTATTTTTAT
92271366 TTATT-TTTTTCTTTTATTATTTATTAT
66 TT-TTATTTTTCTTTTATTATTTATTAT
92271393 TTTCTTTTAT
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
94 15 0.17
95 1 0.01
96 70 0.80
97 2 0.02
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.48
Consensus pattern (94 bp):
GTCGAGCTAACGACGTTAAACAAGCACTTGTTGGGAGGCAACCCAATCTTTCTTTTTATTTTTAT
TTTTATTTTTCTTTTATTATTTATTATCT
Found at i:92271410 original size:16 final size:15
Alignment explanation
Indices: 92271353--92271417 Score: 69
Period size: 16 Copynumber: 4.0 Consensus size: 15
92271343 CCAATCTTTC
92271353 TTTTTATTTTTATTTA
1 TTTTTATTTTT-TTTA
92271369 TTTTT-TTCTTTTATTA
1 TTTTTATT-TTTT-TTA
92271385 TTTATTATTTTCTTTTA
1 TTT-TTATTTT-TTTTA
92271402 TTTTTATTTTATTTTA
1 TTTTTATTTT-TTTTA
92271418 GTTAAATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
15 3 0.07
16 26 0.60
17 10 0.23
18 4 0.09
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTTTTTA
Found at i:92271410 original size:23 final size:23
Alignment explanation
Indices: 92271349--92271410 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 23
92271339 CAACCCAATC
*
92271349 TTTCTTTTTATTTTTATTTATTTT
1 TTTC-TTTTATTTTTATTTATTAT
92271373 TTTCTTTTA---TTATTTATTAT
1 TTTCTTTTATTTTTATTTATTAT
92271393 TTTCTTTTATTTTTATTT
1 TTTCTTTTATTTTTATTT
92271411 TATTTTAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 19 0.56
23 11 0.32
24 4 0.12
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTCTTTTATTTTTATTTATTAT
Found at i:92271614 original size:43 final size:41
Alignment explanation
Indices: 92271523--92271614 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 41
92271513 TATCCATGCT
* * *
92271523 GCCAAACAGTTCTATTCCAGCCCAGAATGCCATACTCTGCA
1 GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAACTCTGCA
* *
92271564 GCTAAACAGTCCTATTCCAGCCTTAGAATCCCCAAAAC-CTGCA
1 GCCAAACAGTCCTATTCCAGCC-CAGAAT-CCC-AAACTCTGCA
92271607 GCCAAACA
1 GCCAAACA
92271615 CCCCTTTTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
41 20 0.48
42 5 0.12
43 14 0.33
44 3 0.07
ACGTcount: A:0.33, C:0.35, G:0.13, T:0.20
Consensus pattern (41 bp):
GCCAAACAGTCCTATTCCAGCCCAGAATCCCAAACTCTGCA
Found at i:92273814 original size:13 final size:13
Alignment explanation
Indices: 92273775--92273814 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
92273765 TCAAACTATA
92273775 TTATATTATTATT
1 TTATATTATTATT
*
92273788 TTAGATT-TTAATT
1 TTATATTATT-ATT
92273801 TTATATTATTATT
1 TTATATTATTATT
92273814 T
1 T
92273815 ACTCTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:92281904 original size:19 final size:19
Alignment explanation
Indices: 92281880--92281917 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
92281870 TGTGATGTTA
* *
92281880 TTAAAATGAGAAATATTTT
1 TTAAAATAAAAAATATTTT
92281899 TTAAAATAAAAAATATTTT
1 TTAAAATAAAAAATATTTT
92281918 CTCAACCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAAAATAAAAAATATTTT
Found at i:92282525 original size:21 final size:22
Alignment explanation
Indices: 92282461--92282525 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 22
92282451 TAAATTAAAT
* *
92282461 TTTATATTAA-ATTTTTTATCA
1 TTTAAATTAATATTTTTTATAA
*
92282482 -TAAAATTAAT-TTTTTTA-AGA
1 TTTAAATTAATATTTTTTATA-A
92282502 TTTAAA-TAATATTTTTTATAA
1 TTTAAATTAATATTTTTTATAA
92282523 TTT
1 TTT
92282526 TATAAAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
20 19 0.54
21 15 0.43
22 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTAAATTAATATTTTTTATAA
Found at i:92286893 original size:17 final size:17
Alignment explanation
Indices: 92286851--92286961 Score: 72
Period size: 17 Copynumber: 6.5 Consensus size: 17
92286841 TCAAAAATAA
*
92286851 TAATATTTTAA-TAAATT
1 TAATA-TTTAATTTAATT
92286868 TAATATTTAATTTAATT
1 TAATATTTAATTTAATT
*
92286885 TAATATTT-ATCCTAA--
1 TAATATTTAAT-TTAATT
*
92286900 TAATATTTTA-TTAATT
1 TAATATTTAATTTAATT
*
92286916 TAATATTAAAGTGATT-ATCT
1 TAATATTTAA-T--TTAAT-T
* *
92286936 TAATATTAAATTTAATC
1 TAATATTTAATTTAATT
92286953 TAATATTTA
1 TAATATTTA
92286962 TCTTGATAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
14 3 0.04
15 8 0.11
16 16 0.21
17 31 0.41
18 2 0.03
19 3 0.04
20 13 0.17
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (17 bp):
TAATATTTAATTTAATT
Found at i:92286939 original size:68 final size:69
Alignment explanation
Indices: 92286867--92287001 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
92286857 TTTAATAAAT
* * **
92286867 TTAATATTTAATTTAATTTAATATTTATCCTAATAA-TATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
92286931 TATC
66 TATC
* * * *
92286935 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTACATTAATTTAATTTTAAAGTTAT
1 TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
92287000 TA
66 TA
92287002 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 32 0.55
69 26 0.45
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
TATC
Found at i:92287836 original size:31 final size:31
Alignment explanation
Indices: 92287798--92287861 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
92287788 TTTTTAAAAG
92287798 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
1 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
92287829 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
1 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
92287860 CA
1 CA
92287862 CTTTCAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (31 bp):
CAGGCAAGCTTACTTTTCCTAAGCACACCCA
Found at i:92315293 original size:47 final size:45
Alignment explanation
Indices: 92315221--92315533 Score: 215
Period size: 47 Copynumber: 6.6 Consensus size: 45
92315211 GTGTAATGCT
* *
92315221 GATGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCAT-CATCAAGCC
* * * *
92315268 AATGCCATGTCCCAGACATGATCTTACACTGACT-ATCAAAATCGAGGCT
1 GATGCCATGTCCCAGACATG-TCTTACACTGGCTCATC---ATC-AAGCC
* * **
92315317 GACGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCACATCTCCGTACC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCAT--CATC-AAG--CC
* * * *
92315367 CATGGCATGTCCCAGACATGGTCTTACACTGACACATC-TCATAGCC
1 GATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCA-AGCC
* * *
92315413 GATG-CATGTCCCAGACATGTCTTACACTGGCTTACATCTTGAGGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGC-T-CATCATCAAGCC
* * * *
92315459 TATG-CATGTCCCAGACGTGTCTTACATTAGCTC-TCATCTCAATGCC
1 GATGCCATGTCCCAGACATGTCTTACACTGGCTCATCA--TCAA-GCC
92315505 GATGCCATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACATGTCTTACACT
92315534 AGCGCACAAA
Statistics
Matches: 209, Mismatches: 37, Indels: 40
0.73 0.13 0.14
Matches are distributed among these distances:
43 2 0.01
44 13 0.06
45 18 0.09
46 48 0.23
47 53 0.25
48 10 0.05
49 32 0.15
50 31 0.15
51 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCAAGCC
Found at i:92315399 original size:99 final size:96
Alignment explanation
Indices: 92315218--92315399 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 96
92315208 AAGGTGTAAT
*
92315218 GCTGATGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGCCATGTCCCAG
1 GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGCCATGTCCCAG
92315283 ACATGATCTTACACTGACTATCAAAATCGAG
66 ACATGATCTTACACTGACTATCAAAATCGAG
* * ** * *
92315314 GCTGACGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCACATCTCCGTACCCATGGCATGTC
1 GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AAGT--CAATGCCATGTC
*
92315378 CCAGACATGGTCTTACACTGAC
62 CCAGACATGATCTTACACTGAC
92315400 ACATCTCATA
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
95 2 0.03
96 39 0.53
97 2 0.03
99 31 0.42
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (96 bp):
GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCAATGCCATGTCCCAG
ACATGATCTTACACTGACTATCAAAATCGAG
Found at i:92315450 original size:46 final size:48
Alignment explanation
Indices: 92315229--92315533 Score: 203
Period size: 46 Copynumber: 6.4 Consensus size: 48
92315219 CTGATGCCAC
* * *
92315229 GTCCCAGACATGGTCTTACACTGG--CT-CATC-CATCAAGTCAATGCCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCTACATCTCAT-AGGCCGATG-CAT
* * ** * * *
92315276 GTCCCAGACATGATCTTACACTGACTAT-CAAAATC-GAGGCTGACGCCAT
1 GTCCCAGACATG-TCTTACACTGGCTCTAC-ATCTCATAGGCCGATG-CAT
* * *
92315325 GTCCTAGACATGGTCTTACACTGGCTCTCACATCTCCGTA--CCCATGGCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCT-ACATCT-CATAGGCCGAT-GCAT
*
92315375 GTCCCAGACATGGTCTTACACT-G-AC-ACATCTCATA-GCCGATGCAT
1 GTCCCAGACAT-GTCTTACACTGGCTCTACATCTCATAGGCCGATGCAT
*
92315420 GTCCCAGACATGTCTTACACTGGCT-TACATCT--TGAGGCCTATGCAT
1 GTCCCAGACATGTCTTACACTGGCTCTACATCTCAT-AGGCCGATGCAT
* * * *
92315466 GTCCCAGACGTGTCTTACATTAGCTCT-CATCTCA-ATGCCGATGCCAT
1 GTCCCAGACATGTCTTACACTGGCTCTACATCTCATAGGCCGATG-CAT
92315513 GTCCCAGACATGTCTTACACT
1 GTCCCAGACATGTCTTACACT
92315534 AGCGCACAAA
Statistics
Matches: 205, Mismatches: 32, Indels: 42
0.73 0.11 0.15
Matches are distributed among these distances:
44 11 0.05
45 20 0.10
46 60 0.29
47 44 0.21
48 1 0.00
49 34 0.17
50 30 0.15
51 4 0.02
52 1 0.00
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (48 bp):
GTCCCAGACATGTCTTACACTGGCTCTACATCTCATAGGCCGATGCAT
Found at i:92318903 original size:27 final size:27
Alignment explanation
Indices: 92318872--92319049 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
92318862 TAAATTGTAC
92318872 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
92318899 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
92318925 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
92318953 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
92318981 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
92319008 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
92319035 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
92319050 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:92318986 original size:82 final size:81
Alignment explanation
Indices: 92318873--92319028 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
92318863 AAATTGTACA
* *
92318873 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
92318937 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
92318954 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
92319019 TGCGAGTTGA
65 TGCGAATTGA
92319029 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:92319040 original size:82 final size:81
Alignment explanation
Indices: 92318869--92319049 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
92318859 GATTAAATTG
* *
92318869 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
92318934 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
92318950 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
92319014 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
92319032 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
92319050 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:92322083 original size:16 final size:14
Alignment explanation
Indices: 92322062--92322095 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
92322052 AACATTTTTT
92322062 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
92322078 TTATAAATTTTATA
1 TTATAAATTTTATA
92322092 TTAT
1 TTAT
92322096 TTTGTACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Done.