Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 102 of 207
Found at i:30571283 original size:106 final size:106
Alignment explanation
Indices: 30570880--30571298 Score: 587
Period size: 107 Copynumber: 4.0 Consensus size: 106
30570870 AGGAATGTTT
*
30570880 TTCT-AAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTACCCTAACGTGTTGGGTTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTT
30570944 CGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
66 CGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
** * * *
30570985 TT-TCAAAGCGAGGCAATATTT-GCGTTTGGAAAATTGAGAAAACGTGCCCTAACGTGTTGGGTT
1 TTCTCAAA-TAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTT
* * *
30571048 TCAATTTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAAC
65 TCGACTTCTCGTTCGACCAAATAGCCAAATATCC-TTTTAAAA
* *
30571091 TTTTAAAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTT
*
30571156 CGACTTCTCGTTCGACCAAATAGCTAAATATCCTTTTAAAAA
66 CGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAAA
* * *
30571198 TTCTCAAATAAGGCAATGTTTCGCATTT-GAAAATTCGAGG-AACGTGCCCTAATGTGCTGGGTT
1 TTCTCAAATAAGGCAATATTTCGCATTTGGAAAA-TCGAGGAAACGTGCCCTAACGTGTTGGGTT
* * ** *
30571261 TTGATTTCTCGTTTAACTAAATAGCCAAATATCCTTTT
65 TCGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
30571299 GAATTTCAAT
Statistics
Matches: 277, Mismatches: 30, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
104 1 0.00
105 75 0.27
106 93 0.34
107 108 0.39
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (106 bp):
TTCTCAAATAAGGCAATATTTCGCATTTGGAAAATCGAGGAAACGTGCCCTAACGTGTTGGGTTT
CGACTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:30582074 original size:27 final size:26
Alignment explanation
Indices: 30582044--30582161 Score: 78
Period size: 27 Copynumber: 4.2 Consensus size: 26
30582034 TCATTCATTA
30582044 ATTAAAAGAATTTTTAATAATTAATAC
1 ATTAAAA-AATTTTTAATAATTAATAC
*
30582071 ATTAATATAAGATGTTATATAA-CATTAATAC
1 ATTAA-A-AA-AT-TT-T-TAATAATTAATAC
* * * *
30582102 ATTAATACATTAATATAA-CATTAATAC
1 ATTAAAAAATT--TTTAATAATTAATAC
30582129 ATTAATATAAATTTTTAATAATTAATAC
1 ATTAA-A-AAATTTTTAATAATTAATAC
30582157 ATTAA
1 ATTAA
30582162 TACATTAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
27 27 0.38
28 17 0.24
29 9 0.12
30 2 0.03
31 14 0.19
32 3 0.04
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.41
Consensus pattern (26 bp):
ATTAAAAAATTTTTAATAATTAATAC
Found at i:30582105 original size:8 final size:8
Alignment explanation
Indices: 30582092--30582171 Score: 78
Period size: 8 Copynumber: 10.1 Consensus size: 8
30582082 ATGTTATATA
30582092 ACATTAAT
1 ACATTAAT
30582100 ACATTAAT
1 ACATTAAT
30582108 ACATTAATAT
1 ACATT-A-AT
30582118 AACATTAAT
1 -ACATTAAT
30582127 ACATTAAT
1 ACATTAAT
*
30582135 --ATAAAT
1 ACATTAAT
**
30582141 -TTTTAAT
1 ACATTAAT
30582148 A-ATTAAT
1 ACATTAAT
30582155 ACATTAAT
1 ACATTAAT
30582163 ACATTAAT
1 ACATTAAT
30582171 A
1 A
30582172 TAACATTAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 12
0.79 0.05 0.15
Matches are distributed among these distances:
6 5 0.08
7 10 0.16
8 36 0.58
9 3 0.05
10 3 0.05
11 5 0.08
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (8 bp):
ACATTAAT
Found at i:30582166 original size:55 final size:58
Alignment explanation
Indices: 30582063--30582184 Score: 198
Period size: 55 Copynumber: 2.2 Consensus size: 58
30582053 ATTTTTAATA
*
30582063 ATTAATACATTAATATAAGATGTTATATAACATTAATACATTAATACATTAATATAAC
1 ATTAATACATTAATATAAGATGTTATATAAAATTAATACATTAATACATTAATATAAC
30582121 ATTAATACATTAATATAA-AT-TT-T-TAATAATTAATACATTAATACATTAATATAAC
1 ATTAATACATTAATATAAGATGTTATATAA-AATTAATACATTAATACATTAATATAAC
30582176 ATTAATACA
1 ATTAATACA
30582185 AGCTTACAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
54 3 0.05
55 37 0.60
56 2 0.03
57 2 0.03
58 18 0.29
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.39
Consensus pattern (58 bp):
ATTAATACATTAATATAAGATGTTATATAAAATTAATACATTAATACATTAATATAAC
Found at i:30582178 original size:47 final size:46
Alignment explanation
Indices: 30582057--30582182 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 46
30582047 AAAAGAATTT
* *
30582057 TTAATA-ATTAATACATTAATATAAGATGTTATATAACATTAATACA
1 TTAATACATTAATACATTAATATAACAT-TAATATAACATTAATACA
30582103 TTAATACATTAATATAACATT-A-AT-ACATTAATATAA-ATTTTTAATA-A
1 TTAATACATT-A-AT-ACATTAATATAACATTAATATAACA---TTAATACA
30582150 TTAATACATTAATACATTAATATAACATTAATA
1 TTAATACATTAATACATTAATATAACATTAATA
30582183 CAAGCTTACA
Statistics
Matches: 68, Mismatches: 2, Indels: 19
0.76 0.02 0.21
Matches are distributed among these distances:
44 5 0.07
45 4 0.06
46 16 0.24
47 26 0.38
48 9 0.13
49 3 0.04
50 5 0.07
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (46 bp):
TTAATACATTAATACATTAATATAACATTAATATAACATTAATACA
Found at i:30586513 original size:57 final size:57
Alignment explanation
Indices: 30586452--30586615 Score: 199
Period size: 57 Copynumber: 2.9 Consensus size: 57
30586442 ACATTAACCC
* * * **
30586452 ATAAGATTATACCAATTACA-ATTAAATCATTTCAATGACATATCCCA-TTATCAATTT
1 ATAAGGTTATACCAATTACACA-TAATTCATTTCAATGACATAT-CAAGTTATCAATCG
* * *
30586509 ATAAGGTTATACTATTTACACATAATTCATTTCAATTACATATCAAGTTATCAATCG
1 ATAAGGTTATACCAATTACACATAATTCATTTCAATGACATATCAAGTTATCAATCG
* *
30586566 ATAAGGTTATACCAATTACACATAATTCATTTCAAT-CCATATCAAATTAT
1 ATAAGGTTATACCAATTACACATAATTCATTTCAATGACATATCAAGTTAT
30586616 TTTACCAAAT
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
56 14 0.15
57 78 0.84
58 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (57 bp):
ATAAGGTTATACCAATTACACATAATTCATTTCAATGACATATCAAGTTATCAATCG
Found at i:30588121 original size:17 final size:19
Alignment explanation
Indices: 30588078--30588122 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
30588068 AAACTACCTC
30588078 AAACT-AATATAGACAAAA
1 AAACTAAATATAGACAAAA
*
30588096 AAATTTAAATATA-A-AAAA
1 AAA-CTAAATATAGACAAAA
30588114 AAACTAAAT
1 AAACTAAAT
30588123 TTACGGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 5 0.22
18 10 0.43
19 2 0.09
20 6 0.26
ACGTcount: A:0.69, C:0.07, G:0.02, T:0.22
Consensus pattern (19 bp):
AAACTAAATATAGACAAAA
Found at i:30588429 original size:14 final size:15
Alignment explanation
Indices: 30588405--30588433 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30588395 TTCGATTTCA
30588405 AAAATAAATTTAAAT
1 AAAATAAATTTAAAT
30588420 AAAA-AAATTTAAAT
1 AAAATAAATTTAAAT
30588434 CCATTTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAATAAATTTAAAT
Found at i:30599401 original size:45 final size:45
Alignment explanation
Indices: 30599337--30599423 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
30599327 AACAGATACT
* *
30599337 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
30599382 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
30599424 ATTCGGTTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.24
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:30599494 original size:51 final size:51
Alignment explanation
Indices: 30599427--30599622 Score: 227
Period size: 51 Copynumber: 3.9 Consensus size: 51
30599417 CAATGATATT
* * * *
30599427 CGGTTCACATAGTAGCCTGCACATAGTACTACGCATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * * *
30599478 CAGTACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA-AACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATTACCATC
** * * * *
30599529 CGGTATGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TT-TCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TC
30599579 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
30599623 CACTTTCACT
Statistics
Matches: 118, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
49 1 0.01
50 40 0.34
51 75 0.64
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
Found at i:30599605 original size:101 final size:102
Alignment explanation
Indices: 30599434--30599618 Score: 311
Period size: 101 Copynumber: 1.8 Consensus size: 102
30599424 ATTCGGTTCA
* *
30599434 CATAGTAGCCTGCACATAGTACTACGCATGTGACCATTACCATCCAGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCATCCAGTACACGTAGTAGCCTGCA
30599499 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
66 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
* *
30599536 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TT-TCATTCCGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCA-TCCAGTACACGTAGTAGCCTGC
30599599 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
30599619 CCATCACTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 2 0.03
101 43 0.55
102 33 0.42
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATTACCATCCAGTACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAACTATCCGGTATG
Found at i:30605304 original size:16 final size:15
Alignment explanation
Indices: 30605277--30605306 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
30605267 AAATTCACAT
30605277 TTATACTATATATAA
1 TTATACTATATATAA
30605292 TTATACATATATATA
1 TTATAC-TATATATA
30605307 TATTTCCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATACTATATATAA
Found at i:30610372 original size:27 final size:27
Alignment explanation
Indices: 30610334--30610389 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
30610324 ATAGGTTAAT
* * *
30610334 TTTAAAATAAATAATATGTAAAATAAC
1 TTTAAAAAAAATAACATATAAAATAAC
*
30610361 TTTAAAAAAAATGACATATAAAATAAC
1 TTTAAAAAAAATAACATATAAAATAAC
30610388 TT
1 TT
30610390 GAAACAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (27 bp):
TTTAAAAAAAATAACATATAAAATAAC
Found at i:30620742 original size:17 final size:16
Alignment explanation
Indices: 30620716--30620760 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 16
30620706 AGAACTGAGT
*
30620716 TTAGAAAATTATTTAA
1 TTAGAAAATTAATTAA
30620732 TTAGCAAAATTAATTAA
1 TTAG-AAAATTAATTAA
30620749 TT--AAAATTAATT
1 TTAGAAAATTAATT
30620761 TAATAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
14 10 0.37
16 4 0.15
17 13 0.48
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (16 bp):
TTAGAAAATTAATTAA
Found at i:30623111 original size:16 final size:17
Alignment explanation
Indices: 30623084--30623132 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
30623074 GTCTAAAATT
*
30623084 ATATGTATTAATTTATA
1 ATATATATTAATTTATA
30623101 ATATA-ATTAATTT-TA
1 ATATATATTAATTTATA
*
30623116 ATTTATATTCAATTTAT
1 ATATATATT-AATTTAT
30623133 TTTGGGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.22
16 11 0.41
17 9 0.33
18 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATATATATTAATTTATA
Found at i:30627271 original size:10 final size:10
Alignment explanation
Indices: 30627256--30627307 Score: 54
Period size: 10 Copynumber: 5.4 Consensus size: 10
30627246 TTAATAAATG
30627256 TTTTATATAT
1 TTTTATATAT
*
30627266 TTTTATATTT
1 TTTTATATAT
*
30627276 TTTTGTA-AT
1 TTTTATATAT
* *
30627285 TTTTTTATAA
1 TTTTATATAT
30627295 TTTTATA-AT
1 TTTTATATAT
30627304 TTTT
1 TTTT
30627308 GCAAGTATTT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
9 12 0.35
10 22 0.65
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTATATAT
Found at i:30627286 original size:11 final size:11
Alignment explanation
Indices: 30627240--30627298 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
30627230 AAAATTTCCA
*
30627240 AATTTTTTAAT
1 AATTTTTTTAT
* *
30627251 AAATGTTTTAT
1 AATTTTTTTAT
*
30627262 -ATATTTTTAT
1 AATTTTTTTAT
*
30627272 -ATTTTTTTGT
1 AATTTTTTTAT
30627282 AATTTTTTTAT
1 AATTTTTTTAT
30627293 AATTTT
1 AATTTT
30627299 ATAATTTTTG
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
10 15 0.39
11 23 0.61
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:30627286 original size:19 final size:19
Alignment explanation
Indices: 30627256--30627307 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
30627246 TTAATAAATG
**
30627256 TTTTATATATTTTTATATTT
1 TTTTATA-ATTTTTATATAA
* *
30627276 TTTTGTAATTTTTTTATAA
1 TTTTATAATTTTTATATAA
30627295 TTTTATAATTTTT
1 TTTTATAATTTTT
30627308 GCAAGTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 21 0.78
20 6 0.22
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTATAATTTTTATATAA
Found at i:30635389 original size:17 final size:18
Alignment explanation
Indices: 30635343--30635390 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
30635333 AATTACAAAC
30635343 AAATAGAGAAAAATCATAA
1 AAATAG-GAAAAATCATAA
* * *
30635362 ATATA-AAAAAAACATAA
1 AAATAGGAAAAATCATAA
30635379 AAATAGGAAAAA
1 AAATAGGAAAAA
30635391 AGAACCACTC
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 14 0.61
18 5 0.22
19 4 0.17
ACGTcount: A:0.73, C:0.04, G:0.08, T:0.15
Consensus pattern (18 bp):
AAATAGGAAAAATCATAA
Found at i:30637200 original size:31 final size:31
Alignment explanation
Indices: 30637158--30637223 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
30637148 CTTAAATATA
* *
30637158 ATAAATTATATTTATATAATTTAATATAATG
1 ATAAATGATATTTAAATAATTTAATATAATG
*
30637189 ATAAATGATATTTAAATAATTTGATATAATG
1 ATAAATGATATTTAAATAATTTAATATAATG
30637220 ATAA
1 ATAA
30637224 TTTAATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (31 bp):
ATAAATGATATTTAAATAATTTAATATAATG
Found at i:30637223 original size:16 final size:16
Alignment explanation
Indices: 30637173--30637231 Score: 59
Period size: 16 Copynumber: 3.8 Consensus size: 16
30637163 TTATATTTAT
30637173 ATAATTTAATATAATG
1 ATAATTTAATATAATG
* * *
30637189 ATAAATGATATTTAA--
1 ATAATTTA-ATATAATG
*
30637204 ATAATTTGATATAATG
1 ATAATTTAATATAATG
30637220 ATAATTTAATAT
1 ATAATTTAATAT
30637232 TTTTTAGATT
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
14 5 0.16
15 5 0.16
16 17 0.53
17 5 0.16
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (16 bp):
ATAATTTAATATAATG
Found at i:30638077 original size:39 final size:39
Alignment explanation
Indices: 30638034--30638111 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
30638024 TAGTTATAAT
30638034 CACGATATGAGTGGTTTCATATAAAATCAATATCTAAAC
1 CACGATATGAGTGGTTTCATATAAAATCAATATCTAAAC
* *
30638073 CACGATATGAGTGGTTTCATATAAAATTAATATTTAAAC
1 CACGATATGAGTGGTTTCATATAAAATCAATATCTAAAC
30638112 ATCATTAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CACGATATGAGTGGTTTCATATAAAATCAATATCTAAAC
Found at i:30638484 original size:17 final size:17
Alignment explanation
Indices: 30638462--30638494 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
30638452 ATAATTTATT
30638462 TTTCTTTTTAAAAAATA
1 TTTCTTTTTAAAAAATA
30638479 TTTCTTTTTAAAAAAT
1 TTTCTTTTTAAAAAAT
30638495 CGTGGCTCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTCTTTTTAAAAAATA
Found at i:30643061 original size:10 final size:10
Alignment explanation
Indices: 30643048--30643075 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
30643038 CTAAATTTAT
30643048 TTAAATATAG
1 TTAAATATAG
30643058 TTAAATATAG
1 TTAAATATAG
30643068 TTAAATAT
1 TTAAATAT
30643076 TAATTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (10 bp):
TTAAATATAG
Found at i:30643697 original size:97 final size:96
Alignment explanation
Indices: 30643577--30643896 Score: 484
Period size: 96 Copynumber: 3.3 Consensus size: 96
30643567 TAATAGCTAC
* *
30643577 ATTTATTTGA-TTTTTCCTTAAAAACCCTAAATACTAAACCCCAATCTAATTTTTTTAAAATTTA
1 ATTTATTTAATTTTTTCCTTAAAAACCCTAAATACTAAACCCTAATCTAA-TTTTTTAAAATTTA
30643641 TAATTAATTTATTCAAGTAACCCTAAACCCTA
65 TAATTAATTTATTCAAGTAACCCTAAACCCTA
* * *
30643673 ATTTATTTAATTTTTTCCTTAAAAATCCTAAACACTAAACCCTAATCTAATTTTTAAAAATTTAT
1 ATTTATTTAATTTTTTCCTTAAAAACCCTAAATACTAAACCCTAATCTAATTTTTTAAAATTTAT
* *
30643738 AATTAATTTACTCAAGTAACCATAAACCCTA
66 AATTAATTTATTCAAGTAACCCTAAACCCTA
* * *
30643769 ATTTATTTGATTTTTTCCTTAAAAACCATAAATGCTAAACCCTAATCTAATTTTTTAAAATTTAT
1 ATTTATTTAATTTTTTCCTTAAAAACCCTAAATACTAAACCCTAATCTAATTTTTTAAAATTTAT
* *
30643834 AATTAATTTAATT-AAGAAACCCTAAACCCTT
66 AATTAATTT-ATTCAAGTAACCCTAAACCCTA
30643865 ATTTATTTAATTTTTTTCCTT-AAAACCCTAAA
1 ATTTATTTAA-TTTTTTCCTTAAAAACCCTAAA
30643897 ATCTAAAAAC
Statistics
Matches: 202, Mismatches: 19, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
96 154 0.76
97 48 0.24
ACGTcount: A:0.39, C:0.17, G:0.02, T:0.42
Consensus pattern (96 bp):
ATTTATTTAATTTTTTCCTTAAAAACCCTAAATACTAAACCCTAATCTAATTTTTTAAAATTTAT
AATTAATTTATTCAAGTAACCCTAAACCCTA
Found at i:30646111 original size:16 final size:16
Alignment explanation
Indices: 30646087--30646128 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
30646077 ATAATATGTG
*
30646087 ATTAATATTATTTAAA
1 ATTATTATTATTTAAA
30646103 ATTATTATT-TTTAAA
1 ATTATTATTATTTAAA
30646118 ATTTATTATTA
1 A-TTATTATTA
30646129 AAATAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTATTATTTAAA
Found at i:30646167 original size:16 final size:18
Alignment explanation
Indices: 30646142--30646200 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 18
30646132 TAAAATTGAA
30646142 ATATTAAATAATTTATTAT
1 ATATT-AATAATTTATTAT
30646161 -T-TTAATAAATTATATTTACT
1 ATATTAAT-AATT-TA-TTA-T
30646181 ATATTAATAATTTATTAT
1 ATATTAATAATTTATTAT
30646199 AT
1 AT
30646201 GACTACATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 3 0.09
17 6 0.18
18 6 0.18
19 6 0.18
20 3 0.09
21 5 0.15
22 5 0.15
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATTAATAATTTATTAT
Found at i:30646178 original size:22 final size:22
Alignment explanation
Indices: 30646152--30646195 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
30646142 ATATTAAATA
* *
30646152 ATTTATTATTTTAATAAATTAT
1 ATTTACTATATTAATAAATTAT
*
30646174 ATTTACTATATTAATAATTTAT
1 ATTTACTATATTAATAAATTAT
30646196 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTACTATATTAATAAATTAT
Found at i:30646280 original size:10 final size:9
Alignment explanation
Indices: 30646251--30646276 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30646241 TAAAAAATAT
30646251 AATATTTTA
1 AATATTTTA
30646260 AATATTTTA
1 AATATTTTA
30646269 AATATTTT
1 AATATTTT
30646277 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:30651615 original size:30 final size:29
Alignment explanation
Indices: 30651576--30651858 Score: 159
Period size: 30 Copynumber: 9.5 Consensus size: 29
30651566 AATGGTTGTC
30651576 ACCATCCCTTTTCATAGTTCGATAGCTGA
1 ACCATCCCTTTTCATAGTTCGATAGCTGA
* * * *
30651605 AGCTATCCCTTTTCATATTTCGAT-GGTCGTC
1 A-CCATCCCTTTTCATAGTTCGATAGCT-G-A
* * *
30651636 TCCATCCCTTTTCATTGTT-GATAGTCAT-C
1 ACCATCCCTTTTCATAGTTCGATAG-C-TGA
* *
30651665 ACCATCCGTTTTCATAATTCGATAGCTGA
1 ACCATCCCTTTTCATAGTTCGATAGCTGA
* * * * *
30651694 AGCTATCCCTTTTCATATTTCAATGGTCAT-T
1 A-CCATCCCTTTTCATAGTTCGATAG-C-TGA
* **
30651725 ACCATCCCTTTTCATAATTCGATAGCCAA
1 ACCATCCCTTTTCATAGTTCGATAGCTGA
* * *
30651754 AGCTATCCCTTTTCATAGTTCGAT-GGTCGTC
1 A-CCATCCCTTTTCATAGTTCGATAGCT-G-A
* * *
30651785 ACCATCCCTTTTCATGGTT-GAT-GGTCGTC
1 ACCATCCCTTTTCATAGTTCGATAGCT-G-A
30651814 ACCATCCCTTTTCATA-TTCTGATAGCTGA
1 ACCATCCCTTTTCATAGTTC-GATAGCTGA
*
30651843 AGCTATCCCTTTTCAT
1 A-CCATCCCTTTTCAT
30651859 TGGTCGATGA
Statistics
Matches: 197, Mismatches: 38, Indels: 37
0.72 0.14 0.14
Matches are distributed among these distances:
28 3 0.02
29 53 0.27
30 134 0.68
31 5 0.03
32 2 0.01
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (29 bp):
ACCATCCCTTTTCATAGTTCGATAGCTGA
Found at i:30651730 original size:89 final size:89
Alignment explanation
Indices: 30651574--30651739 Score: 280
Period size: 89 Copynumber: 1.9 Consensus size: 89
30651564 ACAATGGTTG
* * *
30651574 TCACCATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATATTTCGATGGTCGTCTCC
1 TCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATATTTCAATGGTCATCTCC
30651639 ATCCCTTTTCATTGTTGATAGTCA
66 ATCCCTTTTCATTGTTGATAGTCA
*
30651663 TCACCATCCGTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATATTTCAATGGTCAT-TAC
1 TCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATATTTCAATGGTCATCT-C
30651727 CATCCCTTTTCAT
65 CATCCCTTTTCAT
30651740 AATTCGATAG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
88 1 0.01
89 71 0.99
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.40
Consensus pattern (89 bp):
TCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTTTCATATTTCAATGGTCATCTCC
ATCCCTTTTCATTGTTGATAGTCA
Found at i:30651815 original size:29 final size:30
Alignment explanation
Indices: 30651567--30651829 Score: 207
Period size: 30 Copynumber: 8.8 Consensus size: 30
30651557 TAAAATTACA
*
30651567 ATGGTTGTCACCATCCCTTTTCATAGTTCG
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* * * *
30651597 ATAG-C-TGAAGCTATCCCTTTTCATATTTCG
1 ATGGTCGT-CA-CCATCCCTTTTCATAGTTCG
* *
30651627 ATGGTCGTCTCCATCCCTTTTCATTGTT-G
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* * * *
30651656 ATAGTCATCACCATCCGTTTTCATAATTCG
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* * * * *
30651686 ATAG-C-TGAAGCTATCCCTTTTCATATTTCA
1 ATGGTCGT-CA-CCATCCCTTTTCATAGTTCG
* * *
30651716 ATGGTCATTACCATCCCTTTTCATAATTCG
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
* *** *
30651746 ATAG-CCAAAGCTATCCCTTTTCATAGTTCG
1 ATGGTCGTCA-CCATCCCTTTTCATAGTTCG
*
30651776 ATGGTCGTCACCATCCCTTTTCATGGTT-G
1 ATGGTCGTCACCATCCCTTTTCATAGTTCG
30651805 ATGGTCGTCACCATCCCTTTTCATA
1 ATGGTCGTCACCATCCCTTTTCATA
30651830 TTCTGATAGC
Statistics
Matches: 182, Mismatches: 40, Indels: 23
0.74 0.16 0.09
Matches are distributed among these distances:
28 2 0.01
29 53 0.29
30 120 0.66
31 5 0.03
32 2 0.01
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.39
Consensus pattern (30 bp):
ATGGTCGTCACCATCCCTTTTCATAGTTCG
Found at i:30651824 original size:89 final size:90
Alignment explanation
Indices: 30651698--30651867 Score: 236
Period size: 89 Copynumber: 1.9 Consensus size: 90
30651688 AGCTGAAGCT
* *
30651698 ATCCCTTTTCATATTTCAATGGTCATTACCATCCCTTTTCATAATTC-GATAGCCAAAGCTATCC
1 ATCCCTTTTCATAGTTCAATGGTCATCACCATCCCTTTTCAT-ATTCTGATAGCCAAAGCTATCC
*
30651762 CTTTTCATAGTTCGATGGTCGTCACC
65 CTTTTCATAGGTCGATGGTCGTCACC
* * * **
30651788 ATCCCTTTTCATGGTT-GATGGTCGTCACCATCCCTTTTCATATTCTGATAGCTGAAGCTATCCC
1 ATCCCTTTTCATAGTTCAATGGTCATCACCATCCCTTTTCATATTCTGATAGCCAAAGCTATCCC
*
30651852 TTTTCATTGGTCGATG
66 TTTTCATAGGTCGATG
30651868 ATTGTCGATA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
88 4 0.06
89 52 0.74
90 14 0.20
ACGTcount: A:0.21, C:0.26, G:0.14, T:0.39
Consensus pattern (90 bp):
ATCCCTTTTCATAGTTCAATGGTCATCACCATCCCTTTTCATATTCTGATAGCCAAAGCTATCCC
TTTTCATAGGTCGATGGTCGTCACC
Found at i:30651838 original size:149 final size:149
Alignment explanation
Indices: 30651576--30651858 Score: 469
Period size: 149 Copynumber: 1.9 Consensus size: 149
30651566 AATGGTTGTC
* ** * *
30651576 ACCATCCCTTTTCATAGTTCGATAGCTGAAGCTATCCCTTTTCATATTTCGATGGTCGTCTCCAT
1 ACCATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAGTTCGATGGTCGTCACCAT
* *
30651641 CCCTTTTCATTGTTGATAGTCATCACCATCCGTTTTCATAATTCGATAGCTGAAGCTATCCCTTT
66 CCCTTTTCATGGTTGATAGTCATCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTT
30651706 TCATATTTCAATGGTCATT
131 TCATATTTCAATGGTCATT
30651725 ACCATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAGTTCGATGGTCGTCACCAT
1 ACCATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAGTTCGATGGTCGTCACCAT
* *
30651790 CCCTTTTCATGGTTGATGGTCGTCACCATCCCTTTTCAT-ATTCTGATAGCTGAAGCTATCCCTT
66 CCCTTTTCATGGTTGATAGTCATCACCATCCCTTTTCATAATTC-GATAGCTGAAGCTATCCCTT
30651854 TTCAT
130 TTCAT
30651859 TGGTCGATGA
Statistics
Matches: 124, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
148 4 0.03
149 120 0.97
ACGTcount: A:0.21, C:0.27, G:0.13, T:0.39
Consensus pattern (149 bp):
ACCATCCCTTTTCATAATTCGATAGCCAAAGCTATCCCTTTTCATAGTTCGATGGTCGTCACCAT
CCCTTTTCATGGTTGATAGTCATCACCATCCCTTTTCATAATTCGATAGCTGAAGCTATCCCTTT
TCATATTTCAATGGTCATT
Found at i:30655376 original size:18 final size:18
Alignment explanation
Indices: 30655353--30655387 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30655343 TCTTATTCCT
30655353 TCATTCATCATCCCTCAA
1 TCATTCATCATCCCTCAA
* *
30655371 TCATTCCTCATTCCTCA
1 TCATTCATCATCCCTCA
30655388 TTCTCTCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (18 bp):
TCATTCATCATCCCTCAA
Found at i:30661132 original size:60 final size:59
Alignment explanation
Indices: 30661065--30661315 Score: 181
Period size: 59 Copynumber: 4.2 Consensus size: 59
30661055 ACAATGGTTG
* * *
30661065 TCACCATCCCTTTTTATAGTTCGATAGTCGAAGCTATCCCTTTTCATATTTCGATGGTCA
1 TCACCATCCCTTTTCATAGTTCGATAGTCGAA-CCATCCCTTTTCATAGTTCGATGGTCA
* * * * ***
30661125 TCACCATCCCTTTTCATTGTT-GATGGTC-ATCACCATCCCTTTTTATAATTCGATAACCGA
1 TCACCATCCCTTTTCATAGTTCGATAGTCGA--ACCATCCCTTTTCATAGTTCGATGGTC-A
* * * * * * *
30661185 --AGCTATCCCTTTACATATTTTGATGGTCGTCACCATCCCTTTTCATGGTT-GATGGTCA
1 TCA-CCATCCCTTTTCATAGTTCGATAGTCG-AACCATCCCTTTTCATAGTTCGATGGTCA
* * * * * *
30661243 TCA-CAGTCCCATTTCATAATTCGATAGCCGAAGCTATCCTTTTTCATAGTTCGATGGTCG
1 TCACCA-TCCCTTTTCATAGTTCGATAGTCGAA-CCATCCCTTTTCATAGTTCGATGGTCA
30661303 TCACCATCCCTTT
1 TCACCATCCCTTT
30661316 CCATGGTTGA
Statistics
Matches: 145, Mismatches: 33, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
58 5 0.03
59 77 0.53
60 61 0.42
61 2 0.01
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.38
Consensus pattern (59 bp):
TCACCATCCCTTTTCATAGTTCGATAGTCGAACCATCCCTTTTCATAGTTCGATGGTCA
Found at i:30661139 original size:23 final size:24
Alignment explanation
Indices: 30661113--30661167 Score: 58
Period size: 29 Copynumber: 2.1 Consensus size: 24
30661103 CCTTTTCATA
30661113 TTTC-GATGGTCATCACCATCCCT
1 TTTCTGATGGTCATCACCATCCCT
30661136 TTTCATTGTTGATGGTCATCACCATCCCT
1 TTTC-----TGATGGTCATCACCATCCCT
30661165 TTT
1 TTT
30661168 TATAATTCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.15
29 22 0.85
ACGTcount: A:0.16, C:0.29, G:0.13, T:0.42
Consensus pattern (24 bp):
TTTCTGATGGTCATCACCATCCCT
Found at i:30661157 original size:29 final size:29
Alignment explanation
Indices: 30661065--30661362 Score: 169
Period size: 30 Copynumber: 10.1 Consensus size: 29
30661055 ACAATGGTTG
* *
30661065 TCACCATCCCTTTTTATAGTTCGATAGTCGA
1 TCACCATCCCTTTTCATAGTT-GATGGTC-A
* *
30661096 --AGCTATCCCTTTTCATATTTCGATGGTCA
1 TCA-CCATCCCTTTTCATAGTT-GATGGTCA
*
30661125 TCACCATCCCTTTTCATTGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
* * ***
30661154 TCACCATCCCTTTTTATAATTCGATAACCGA
1 TCACCATCCCTTTTCATAGTT-GATGGTC-A
* * * *
30661185 --AGCTATCCCTTTACATATTTTGATGGTCG
1 TCA-CCATCCCTTTTCATA-GTTGATGGTCA
*
30661214 TCACCATCCCTTTTCATGGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
* * * *
30661243 TCA-CAGTCCCATTTCATAATTCGATAGCCGA
1 TCACCA-TCCCTTTTCATAGTT-GATGGTC-A
* * *
30661274 --AGCTATCCTTTTTCATAGTTCGATGGTCG
1 TCA-CCATCCCTTTTCATAGTT-GATGGTCA
* *
30661303 TCACCATCCCTTTCCATGGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
* * ** *
30661332 TTACCGTCTATTTTCATGGTTGATGGTCA
1 TCACCATCCCTTTTCATAGTTGATGGTCA
30661361 TC
1 TC
30661363 CCTTTTCATT
Statistics
Matches: 202, Mismatches: 49, Indels: 34
0.71 0.17 0.12
Matches are distributed among these distances:
28 2 0.01
29 86 0.43
30 106 0.52
31 8 0.04
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.39
Consensus pattern (29 bp):
TCACCATCCCTTTTCATAGTTGATGGTCA
Found at i:30661210 original size:89 final size:89
Alignment explanation
Indices: 30661065--30661332 Score: 412
Period size: 89 Copynumber: 3.0 Consensus size: 89
30661055 ACAATGGTTG
* * *
30661065 TCACCATCCCTTTTTATAGTTCGATAGTCGAAGCTATCCCTTTTCATATTTCGATGGTCATCACC
1 TCACCATCCCTTTTTATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCACC
*
30661130 ATCCCTTTTCATTGTTGATGGTCA
66 ATCCCTTTTCATGGTTGATGGTCA
* * *
30661154 TCACCATCCCTTTTTATAATTCGATAACCGAAGCTATCCCTTTACATATTTTGATGGTCGTCACC
1 TCACCATCCCTTTTTATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCACC
30661219 ATCCCTTTTCATGGTTGATGGTCA
66 ATCCCTTTTCATGGTTGATGGTCA
* * * *
30661243 TCA-CAGTCCCATTTCATAATTCGATAGCCGAAGCTATCCTTTTTCATAGTTCGATGGTCGTCAC
1 TCACCA-TCCCTTTTTATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCAC
*
30661307 CATCCCTTTCCATGGTTGATGGTCA
65 CATCCCTTTTCATGGTTGATGGTCA
30661332 T
1 T
30661333 TACCGTCTAT
Statistics
Matches: 163, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
88 2 0.01
89 161 0.99
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (89 bp):
TCACCATCCCTTTTTATAATTCGATAGCCGAAGCTATCCCTTTTCATATTTCGATGGTCGTCACC
ATCCCTTTTCATGGTTGATGGTCA
Found at i:30661369 original size:23 final size:23
Alignment explanation
Indices: 30661307--30661371 Score: 67
Period size: 29 Copynumber: 2.6 Consensus size: 23
30661297 TGGTCGTCAC
*
30661307 CATCCCTTTCCATGGTTGATGGT
1 CATCCCTTTTCATGGTTGATGGT
30661330 CATTACCGTCTATTTTCATGGTTGATGGT
1 CA-T-CC--C--TTTTCATGGTTGATGGT
30661359 CATCCCTTTTCAT
1 CATCCCTTTTCAT
30661372 TGGTCGACGA
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
23 9 0.26
24 1 0.03
25 3 0.09
27 3 0.09
28 1 0.03
29 18 0.51
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (23 bp):
CATCCCTTTTCATGGTTGATGGT
Found at i:30671495 original size:17 final size:17
Alignment explanation
Indices: 30671475--30671517 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
30671465 CATATTATCG
*
30671475 TTGCATTTTTATTTTCA
1 TTGCATTTTTATTGTCA
30671492 TTGCATTTTTATTGTCA
1 TTGCATTTTTATTGTCA
30671509 TTGCATTTT
1 TTGCATTTT
30671518 AATGTTAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.63
Consensus pattern (17 bp):
TTGCATTTTTATTGTCA
Found at i:30675120 original size:19 final size:19
Alignment explanation
Indices: 30675093--30675129 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30675083 TGCACGCACG
* *
30675093 ATTCTACTAATCAAACACA
1 ATTCCACTAATAAAACACA
30675112 ATTCCACTAATAAAACAC
1 ATTCCACTAATAAAACAC
30675130 CATGAACGAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (19 bp):
ATTCCACTAATAAAACACA
Found at i:30687600 original size:12 final size:12
Alignment explanation
Indices: 30687583--30687608 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30687573 CACTATGACA
30687583 CCCAAGACAATG
1 CCCAAGACAATG
30687595 CCCAAGACAATG
1 CCCAAGACAATG
30687607 CC
1 CC
30687609 TTCATGGACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.38, G:0.15, T:0.08
Consensus pattern (12 bp):
CCCAAGACAATG
Found at i:30692774 original size:42 final size:42
Alignment explanation
Indices: 30692713--30692821 Score: 139
Period size: 42 Copynumber: 2.6 Consensus size: 42
30692703 ACGACCAAGC
*
30692713 CACACACCAATGTGCCAAGCTGTGTAACACTCGAAATGGCCT
1 CACACACCAATGTGCCAAGCCGTGTAACACTCGAAATGGCCT
** * *
30692755 CACACACCCGTGTGTCAAGCCGTGTAACACTTGAAATGGCCT
1 CACACACCAATGTGCCAAGCCGTGTAACACTCGAAATGGCCT
* *
30692797 CACACATCC-ACGTGCCAGGCCGTGT
1 CACACA-CCAATGTGCCAAGCCGTGT
30692822 GCTAGGCCGT
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.27, C:0.33, G:0.21, T:0.19
Consensus pattern (42 bp):
CACACACCAATGTGCCAAGCCGTGTAACACTCGAAATGGCCT
Found at i:30694289 original size:50 final size:50
Alignment explanation
Indices: 30694226--30694418 Score: 199
Period size: 50 Copynumber: 3.9 Consensus size: 50
30694216 CATTTGGGTA
* * *
30694226 AAGAGGTCACATGTAAGACCAAGTCTGGGACATGACGTTGGCACCGAGGT
1 AAGAGGTCCCATGTAAGACCAAGTCTGGGACATGACATTGGCACCGAGAT
* * * *
30694276 AAGAGGTCCCATGTAATACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCAAGTCTGGGACATGACATTGGCACCGAGAT
* ** * * * * *
30694326 GAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCAAGTCTGGGACATGACATTGGCACCGAGAT
* ** *
30694376 GAGAACTCCCATGTAAGACCATA-TCTGGGATATGACATTGGCA
1 AAGAGGTCCCATGTAAGACCA-AGTCTGGGACATGACATTGGCA
30694419 GTACAGAAAA
Statistics
Matches: 120, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
50 120 1.00
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCAAGTCTGGGACATGACATTGGCACCGAGAT
Found at i:30696106 original size:13 final size:13
Alignment explanation
Indices: 30696088--30696123 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
30696078 CATGATTCTC
30696088 AGGTTCCCCATGT
1 AGGTTCCCCATGT
30696101 AGGTTCCCCATGT
1 AGGTTCCCCATGT
*
30696114 AGCTTCCCCA
1 AGGTTCCCCA
30696124 GCCACAGGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.36, G:0.19, T:0.28
Consensus pattern (13 bp):
AGGTTCCCCATGT
Found at i:30699335 original size:47 final size:47
Alignment explanation
Indices: 30699260--30699414 Score: 159
Period size: 57 Copynumber: 3.1 Consensus size: 47
30699250 TGACAAGTGA
*
30699260 TAAGTGGTAGCTTAGCTACACTTATCTGATCGGTGACAAGTGACAAG
1 TAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAAG
*
30699307 TAAGTGGTAGCTTTAGCTACAGTT-TCTGATCAGTGACAAGTGACAAGTGACAAGTG
1 TAAGTGGTAGC-TTAGCTACACTTATCTG---A-T--C-AGTGACAAGTGACAA--G
* *
30699363 ATAAGTGGTAGCTTTAGCTACACTTATCTGATAAGTGACAAGTGGCAAG
1 -TAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAGTGACAAG
30699412 TAA
1 TAA
30699415 CAAGTGACAA
Statistics
Matches: 91, Mismatches: 5, Indels: 23
0.76 0.04 0.19
Matches are distributed among these distances:
47 15 0.16
48 14 0.15
49 1 0.01
50 1 0.01
51 15 0.16
53 1 0.01
54 15 0.16
55 1 0.01
56 1 0.01
57 23 0.25
58 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (47 bp):
TAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACAAG
Found at i:30699350 original size:7 final size:7
Alignment explanation
Indices: 30699338--30699369 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
30699328 GTTTCTGATC
30699338 AGTGACA
1 AGTGACA
30699345 AGTGACA
1 AGTGACA
30699352 AGTGACA
1 AGTGACA
*
30699359 AGTGATA
1 AGTGACA
30699366 AGTG
1 AGTG
30699370 GTAGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:30699411 original size:7 final size:7
Alignment explanation
Indices: 30699395--30699435 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
30699385 CTTATCTGAT
30699395 AAGTGAC
1 AAGTGAC
*
30699402 AAGTGGC
1 AAGTGAC
*
30699409 AAGTAAC
1 AAGTGAC
30699416 AAGTGAC
1 AAGTGAC
30699423 AAGTGAC
1 AAGTGAC
30699430 AAGTGA
1 AAGTGA
30699436 TAAATGTGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.44, C:0.12, G:0.29, T:0.15
Consensus pattern (7 bp):
AAGTGAC
Found at i:30699412 original size:58 final size:57
Alignment explanation
Indices: 30699248--30699427 Score: 211
Period size: 58 Copynumber: 3.3 Consensus size: 57
30699238 ACTTTTGATC
*
30699248 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTG---A-T--C-GGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTT-TCTGATAAGTGACAAGTGACA
* *
30699298 AGTGACAA--G-TAAGTGGTAGCTTTAGCTACAGTTTCTGATCAGTGACAAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTTCTGATAAGTGACAAGTGACA
*
30699352 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATAAGTGACAAGTGGCA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTT-TCTGATAAGTGACAAGTGACA
* *
30699410 AGTAACAAGTGACAAGTG
1 AGTGACAAGTGATAAGTG
30699428 ACAAGTGATA
Statistics
Matches: 111, Mismatches: 7, Indels: 16
0.83 0.05 0.12
Matches are distributed among these distances:
47 15 0.14
48 12 0.11
50 9 0.08
51 1 0.01
53 1 0.01
54 14 0.13
56 1 0.01
57 23 0.21
58 35 0.32
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (57 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTTCTGATAAGTGACAAGTGACA
Found at i:30705075 original size:50 final size:50
Alignment explanation
Indices: 30705000--30705235 Score: 229
Period size: 50 Copynumber: 4.9 Consensus size: 50
30704990 CATTTGGGTA
30705000 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* **
30705050 AAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCGGCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * * * *
30705100 GAGAGGTCCTC-CGTAGGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * *
30705150 GAGAACTCCCATGTAAGACCATATCTGGGATATGACTTTGG---C-AG-T
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
30705195 ACAGA---ACCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 A-AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
30705236 TGTTATTATC
Statistics
Matches: 154, Mismatches: 27, Indels: 15
0.79 0.14 0.08
Matches are distributed among these distances:
43 30 0.19
45 1 0.01
46 4 0.03
47 1 0.01
49 1 0.01
50 116 0.75
51 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:30710185 original size:20 final size:20
Alignment explanation
Indices: 30710160--30710198 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30710150 TACTTTCTTC
30710160 TTTACTTACT-GTCTTACTTG
1 TTTACTTACTCG-CTTACTTG
30710180 TTTACTTACTCGCTTACTT
1 TTTACTTACTCGCTTACTT
30710199 AAATAATTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.15, C:0.23, G:0.08, T:0.54
Consensus pattern (20 bp):
TTTACTTACTCGCTTACTTG
Found at i:30710608 original size:56 final size:52
Alignment explanation
Indices: 30710495--30710637 Score: 164
Period size: 50 Copynumber: 2.7 Consensus size: 52
30710485 TATTTTATGG
* * * * **
30710495 ATGCCCATGCCATGTCCCAAACATAGTCTTACGCGGGACCTCTCATCTCGGT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAAT
30710547 A--CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATAACCTCAAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT---CTCAAT
* *
30710600 AATGCCAATGCCATGTCCTAGACATGGTCTTACATGGG
1 -ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGG
30710638 GTCTCATCCC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
50 39 0.51
52 1 0.01
53 4 0.05
54 1 0.01
56 32 0.42
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (52 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTCAAT
Found at i:30717757 original size:50 final size:49
Alignment explanation
Indices: 30717635--30717761 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 49
30717625 AATAACATGC
* * *
30717635 CAAA-GCCATGTCCCAGACATGGTCTCACATGAGATGTTTCCTGTACTG
1 CAAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATATACTG
* *
30717683 CAAATGCCATATCCCAGATATGGTCTTACATGAGA-GTTCTCATAT-CGGTG
1 CAAATGCCATGTCCCAGACATGGTCTTACATGAGATGTT-TCATATAC--TG
** *
30717733 CCCATGTCATGTCCCAGACATGGTCTTAC
1 CAAATGCCATGTCCCAGACATGGTCTTAC
30717762 GGGGGACCTC
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
48 8 0.12
49 31 0.48
50 26 0.40
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (49 bp):
CAAATGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATATACTG
Found at i:30729755 original size:39 final size:40
Alignment explanation
Indices: 30729538--30729801 Score: 331
Period size: 40 Copynumber: 6.7 Consensus size: 40
30729528 GCTACTCGTT
* *
30729538 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
30729578 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
30729618 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
30729658 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
30729698 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
30729737 CAAAT-CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
30729777 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
30729802 CATCATTCGA
Statistics
Matches: 199, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
37 2 0.01
38 5 0.03
39 39 0.20
40 148 0.74
41 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:30735758 original size:35 final size:35
Alignment explanation
Indices: 30735699--30735767 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
30735689 TTGGTTGGAT
*
30735699 AAATAGTCTACTGGCACTACGTAGTGGCATCATGA
1 AAATAGTCTACTGGCACTAAGTAGTGGCATCATGA
* *
30735734 AAATAGTCTATTGGCTCTAAGTAGTGGCATCATG
1 AAATAGTCTACTGGCACTAAGTAGTGGCATCATG
30735768 GAGTGATCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (35 bp):
AAATAGTCTACTGGCACTAAGTAGTGGCATCATGA
Found at i:30736318 original size:27 final size:28
Alignment explanation
Indices: 30736286--30736349 Score: 87
Period size: 27 Copynumber: 2.3 Consensus size: 28
30736276 TATACCAAGG
30736286 ACTATCTTATGATGGAA-GTCT-CCAAAA
1 ACTATCTTATG-TGGAATGTCTGCCAAAA
**
30736313 ACTATCTTATGTGGAATGTCTGCCAAGG
1 ACTATCTTATGTGGAATGTCTGCCAAAA
30736341 ACTATCTTA
1 ACTATCTTA
30736350 AATACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 15 0.45
28 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (28 bp):
ACTATCTTATGTGGAATGTCTGCCAAAA
Found at i:30736347 original size:28 final size:27
Alignment explanation
Indices: 30736254--30736349 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 27
30736244 GAAGCCTACT
* * *
30736254 AAGGACTATCTTATG-CGAGCTGTATACC
1 AAGGACTATCTTATGTGGA-ATGTCT-CC
30736282 AAGGACTATCTTATGATGGAA-GTCTCC
1 AAGGACTATCTTATG-TGGAATGTCTCC
**
30736309 AAAAACTATCTTATGTGGAATGTCTGCC
1 AAGGACTATCTTATGTGGAATGTCT-CC
30736337 AAGGACTATCTTA
1 AAGGACTATCTTA
30736350 AATACAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 5 0.09
27 19 0.33
28 31 0.54
30 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (27 bp):
AAGGACTATCTTATGTGGAATGTCTCC
Found at i:30739962 original size:27 final size:28
Alignment explanation
Indices: 30739891--30739965 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 28
30739881 AATCAGGGTA
* *
30739891 TGCCACAAAGGCA-GTCTATTTAGAGTT
1 TGCCACAAAGGCATTTCTATTCAGAGTT
* **
30739918 TTCCACAAA-GTTTATTCT-TTCAGAGTT
1 TGCCACAAAGGCAT-TTCTATTCAGAGTT
30739945 TGCCACAAAGGCATTTCTATT
1 TGCCACAAAGGCATTTCTATT
30739966 GTCAGGTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
26 1 0.03
27 28 0.78
28 7 0.19
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (28 bp):
TGCCACAAAGGCATTTCTATTCAGAGTT
Found at i:30747052 original size:12 final size:12
Alignment explanation
Indices: 30747027--30747065 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30747017 ACTCGCTTCT
* *
30747027 TTACTTACTCAC
1 TTACTTGCTTAC
*
30747039 TTACTTGTTTAC
1 TTACTTGCTTAC
30747051 TTACTTGCTTAC
1 TTACTTGCTTAC
30747063 TTA
1 TTA
30747066 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:30747499 original size:50 final size:50
Alignment explanation
Indices: 30747316--30747504 Score: 202
Period size: 50 Copynumber: 3.8 Consensus size: 50
30747306 TTCTGTACTA
* * * * ** * *
30747316 CCAATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTG
* * * * *
30747366 CCCATGCAATGTCCCAGCCATGGTCTTGCGAT-GGATCT-TTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTT-ATCTCGGTG
* *
30747416 CCAATGCCATGTCCCAAACATAGTCTTACATGGGACCTCTTATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTG
*
30747466 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTC
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC
30747505 ATTCCCTTAA
Statistics
Matches: 113, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
49 3 0.03
50 106 0.94
51 4 0.04
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTG
Found at i:30750979 original size:9 final size:9
Alignment explanation
Indices: 30750965--30750999 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
30750955 TTATTTATTC
*
30750965 AATTAATTT
1 AATTAATTA
30750974 AATTAATTA
1 AATTAATTA
*
30750983 AATTAACTA
1 AATTAATTA
30750992 AATTAATT
1 AATTAATT
30751000 CCTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTAATTA
Found at i:30755375 original size:28 final size:28
Alignment explanation
Indices: 30755341--30755395 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
30755331 TTGTACTGCA
*
30755341 ACTGTATTAGGCTAAGGCCCACACTGTT
1 ACTGTATCAGGCTAAGGCCCACACTGTT
* **
30755369 ACTGTATCGGGCTAAGGTTCACACTGT
1 ACTGTATCAGGCTAAGGCCCACACTGT
30755396 ACTATTACTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (28 bp):
ACTGTATCAGGCTAAGGCCCACACTGTT
Found at i:30762446 original size:27 final size:27
Alignment explanation
Indices: 30762402--30762608 Score: 198
Period size: 27 Copynumber: 7.3 Consensus size: 27
30762392 ATGTGCCACG
* *
30762402 AATGGCCGAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTCAAAGGGTAA
* * *
30762429 AATAATCGAAATACCCTCGAAGGGTAA
1 AATGACCGAAATACCCTCAAAGGGTAA
* *
30762456 AATGACCAAAATACCGTCAAAGGGTAA
1 AATGACCGAAATACCCTCAAAGGGTAA
* *
30762483 AATGAACGAAATAACTGAAATACCTTCGAAGGGTAA
1 AATG-AC-------C-GAAATACCCTCAAAGGGTAA
* * *
30762519 AATGGCCGAAATACCGTCAAAAGGTAA
1 AATGACCGAAATACCCTCAAAGGGTAA
*
30762546 AATGACCGAAATACCCTCAAAGGGTTA
1 AATGACCGAAATACCCTCAAAGGGTAA
* *
30762573 AATGATCGAAATACCCTCCAAGGGTAA
1 AATGACCGAAATACCCTCAAAGGGTAA
30762600 AATGACCGA
1 AATGACCGA
30762609 TTTGCTCTAT
Statistics
Matches: 148, Mismatches: 23, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
27 122 0.82
28 3 0.02
35 2 0.01
36 21 0.14
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (27 bp):
AATGACCGAAATACCCTCAAAGGGTAA
Found at i:30762531 original size:63 final size:63
Alignment explanation
Indices: 30762428--30762558 Score: 201
Period size: 63 Copynumber: 2.1 Consensus size: 63
30762418 TCGAAGGGTA
*
30762428 AAATAATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTCAAAGGGTAAAATGAACG
1 AAATAATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTCAAAAGGTAAAATGAACG
* * * *
30762491 AAATAA-CTGAAATACCTTCGAAGGGTAAAATGGCCGAAATACCGTCAAAAGGTAAAATGACCG
1 AAATAATC-GAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTCAAAAGGTAAAATGAACG
30762554 AAATA
1 AAATA
30762559 CCCTCAAAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
62 1 0.02
63 61 0.98
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (63 bp):
AAATAATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTCAAAAGGTAAAATGAACG
Found at i:30762566 original size:90 final size:90
Alignment explanation
Indices: 30762409--30762585 Score: 255
Period size: 90 Copynumber: 2.0 Consensus size: 90
30762399 ACGAATGGCC
* * * *
30762409 GAAATACCCTCGAAGGGTAAAATAATCGAAATACCCTCGAAGGGTAAAATGACCAAAATACCGTC
1 GAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCAAAAGGTAAAATGACCAAAATACCCTC
30762474 AAAGGGTAAAATGAACGAAATAACT
66 AAAGGGTAAAATGAACGAAATAACT
* ** * *
30762499 GAAATACCTTCGAAGGGTAAAATGGCCGAAATACCGTCAAAAGGTAAAATGACCGAAATACCCTC
1 GAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCAAAAGGTAAAATGACCAAAATACCCTC
* *
30762564 AAAGGGTTAAATGATCGAAATA
66 AAAGGGTAAAATGAACGAAATA
30762586 CCCTCCAAGG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.18
Consensus pattern (90 bp):
GAAATACCCTCGAAGGGTAAAATAACCGAAATACCCTCAAAAGGTAAAATGACCAAAATACCCTC
AAAGGGTAAAATGAACGAAATAACT
Found at i:30765908 original size:410 final size:409
Alignment explanation
Indices: 30765260--30766263 Score: 1116
Period size: 411 Copynumber: 2.4 Consensus size: 409
30765250 TTGGGAGGAG
* * * * * *
30765260 TCATCATAAGTGGTTGGGTTGACTCAAGAATAGAGGTGCCAACAATTGTAAAGTTAGGTTGAATT
1 TCATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGTGTCAACAATTGTAAAGTTAGGTTGAATC
* * * * ** *
30765325 GAGGGAGAATCC-ATGGCTTTTTAGTTCAGTATTTTCCCAGATTGTGCCAATTATTGATGTCTCT
66 GAGGGAGAA-CCTATGGC-TTTTAGTTCAATATTCTCACAAACAGTGCCAATTGTTGATGTCTCT
* * * *
30765389 TTCACTGGGCTTGGAGATTGGTTGAGCTAAACTTTATAGCTAGAAAATCTACAAAGTGTACTAGC
129 TTTATTGGGCTTGGAGATTAGTTGAGCT-AACTTTATAGCTAGAAAATCTACAAAGTATACTAGC
* *
30765454 AATATGGGTAGTCATGGTTGATGGTAGATATGATTGTGAGAACTTGTACTC-AATA-TTTGGTAA
193 AATATGGATAGTCATGGTTGATGGTAGAGATGATTGTGAGAACTTGTACTCAAATATTTTGGTAA
* * * * *
30765517 TGATCTTATGGCAACCAATTA-TTTTTAGAAGTATCTCAGAAAAACATACAAATTAGTTGGAGCT
258 TGACCGTATGGAAACCAATTACTATTGA-AAGTATCT-A-AAAAACATACAAATTAGTTGGAGCT
* * * * *
30765581 GAGATTATTGGT-GGACTGGTCTTTCTGGAACTTGTCACCACGTAGGAAAATGTTTCGGCTCA-A
320 AAGATTATAGGTAGG-CTAGTCTTTCTGAAACTTGTAACCACGTAGGAAAATGTTTCGGCT-AGA
30765644 ACTCTCAATCAAAA-GCTTAAGAACAGC
383 ACTCTCAATCAAAAGGC-TAAGAACAGC
* * * *
30765671 -CATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGCGTTAGCAATTGTAAAGTTAGCTTGAATC
1 TCATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGTGTCAACAATTGTAAAGTTAGGTTGAATC
* * *
30765735 GAGGGAGAACCTA-GAGCTTTTAGTTTAATATTCTCATAAACAGTGCCACTTGTTGATGTCTCTT
66 GAGGGAGAACCTATG-GCTTTTAGTTCAATATTCTCACAAACAGTGCCAATTGTTGATGTCTCTT
* * * * * *
30765799 TTATTGGGCTTAGAGACTAGTTGAGCTACACTTTATAGC-CGAACAATTTGCAAAGTATTCTAGC
130 TTATTGGGCTTGGAGATTAGTTGAGCTA-ACTTTATAGCTAGAA-AATCTACAAAGTATACTAGC
*
30765863 AATATGGATAGTCATGGTTGATGGTAGAGATGGTTGTGAAGAACTTGTACTCAAAATATTTTGGT
193 AATATGGATAGTCATGGTTGATGGTAGAGATGATTGTG-AGAACTTGTACTC-AAATATTTTGGT
* *** *
30765928 AATGACCGTATGGAAACCGATTACTATTGAAAGTATCTAAAAAACATATTGATTGGTTGGAGCTA
256 AATGACCGTATGGAAACCAATTACTATTGAAAGTATCTAAAAAACATACAAATTAGTTGGAGCTA
* * * ** * *
30765993 AGATTCTAGGTAGGTTAGTCTTTTTGAAACTTGTAACCACGTAGGGTAATGTTTGGGCTAGTACT
321 AGATTATAGGTAGGCTAGTCTTTCTGAAACTTGTAACCACGTAGGAAAATGTTTCGGCTAGAACT
* ** **
30766058 CTCTATCAAAAGGCTGGGAGGAGC
386 CTCAATCAAAAGGCTAAGAACAGC
* * * * * * ** * *
30766082 TGA-CGTAAGTAGATGGGCTAATTAAAGAACAGGGGTGTCAATTACTATAAAGTTAGGTTGAATC
1 TCATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGTGTCAACAATTGTAAAGTTAGGTTGAATC
*
30766146 GAGAGAGAACCTATGGCTTTTAGTTCAATATTCTCACAAACAGTGCCAATTGTTGATGTCTCTTT
66 GAGGGAGAACCTATGGCTTTTAGTTCAATATTCTCACAAACAGTGCCAATTGTTGATGTCTCTTT
*
30766211 TTTTGGGCTTGGATG-TTAGTTGAGCTAAGCTTTATAGCT-GAAAAATCTACAAA
131 TATTGGGCTTGGA-GATTAGTTGAGCTAA-CTTTATAGCTAG-AAAATCTACAAA
30766264 AAAAAAGGAT
Statistics
Matches: 492, Mismatches: 83, Indels: 36
0.81 0.14 0.06
Matches are distributed among these distances:
408 4 0.01
409 123 0.25
410 81 0.16
411 233 0.47
412 14 0.03
413 33 0.07
414 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (409 bp):
TCATCATAAGTGGTTGGGCTAACTCAAGAACAGGGGTGTCAACAATTGTAAAGTTAGGTTGAATC
GAGGGAGAACCTATGGCTTTTAGTTCAATATTCTCACAAACAGTGCCAATTGTTGATGTCTCTTT
TATTGGGCTTGGAGATTAGTTGAGCTAACTTTATAGCTAGAAAATCTACAAAGTATACTAGCAAT
ATGGATAGTCATGGTTGATGGTAGAGATGATTGTGAGAACTTGTACTCAAATATTTTGGTAATGA
CCGTATGGAAACCAATTACTATTGAAAGTATCTAAAAAACATACAAATTAGTTGGAGCTAAGATT
ATAGGTAGGCTAGTCTTTCTGAAACTTGTAACCACGTAGGAAAATGTTTCGGCTAGAACTCTCAA
TCAAAAGGCTAAGAACAGC
Found at i:30768196 original size:21 final size:21
Alignment explanation
Indices: 30768170--30768241 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
30768160 TCATATGAGT
30768170 TTTCGTTCAGCTCTTACGAGC
1 TTTCGTTCAGCTCTTACGAGC
* * * *
30768191 TTTCGTTCAACCCTTATG-GG
1 TTTCGTTCAGCTCTTACGAGC
30768211 TTTCCGTTCAGCTCTTACGAGC
1 TTT-CGTTCAGCTCTTACGAGC
*
30768233 TTCCGTTCA
1 TTTCGTTCA
30768242 ACCCTTATGG
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 4 0.10
21 33 0.82
22 3 0.08
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (21 bp):
TTTCGTTCAGCTCTTACGAGC
Found at i:30768256 original size:42 final size:42
Alignment explanation
Indices: 30768131--30768256 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 42
30768121 GTTTACTTTT
* * ** * * * * *
30768131 CGTTTAGCTCTCACGAGCTTCTATTTAACTCATATGAGTTTT
1 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
*
30768173 CGTTCAGCTCTTACGAGCTTTCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
30768215 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
30768257 TGTTTAGTTC
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.17, C:0.27, G:0.17, T:0.39
Consensus pattern (42 bp):
CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
Found at i:30768275 original size:42 final size:42
Alignment explanation
Indices: 30768131--30768275 Score: 155
Period size: 42 Copynumber: 3.5 Consensus size: 42
30768121 GTTTACTTTT
* ** * * * * *
30768131 CGTTTAGCTCTCACGAGCTTCTATTTAACTCATATGAGTTTT
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
* *
30768173 CGTTCAGCTCTTACGAGCTTTCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
*
30768215 CGTTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTC
1 CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
* * * *
30768257 TGTTTAGTTCTCATGAGCT
1 CGTTCAGCTCTCACGAGCT
30768276 ACTATTCAGC
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.40
Consensus pattern (42 bp):
CGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGGTTTC
Found at i:30771971 original size:21 final size:21
Alignment explanation
Indices: 30771947--30772008 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
30771937 GACGAGCTTT
30771947 CGTTCAACCTTTATGGGTTTC
1 CGTTCAACCTTTATGGGTTTC
* *** *
30771968 CGTTC-AGCTCTTACAAGCTTC
1 CGTTCAACCT-TTATGGGTTTC
*
30771989 CGTTCAACCCTTATGGGTTT
1 CGTTCAACCTTTATGGGTTT
30772009 TTGTTTAGCT
Statistics
Matches: 28, Mismatches: 11, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
20 3 0.11
21 23 0.82
22 2 0.07
ACGTcount: A:0.16, C:0.27, G:0.18, T:0.39
Consensus pattern (21 bp):
CGTTCAACCTTTATGGGTTTC
Found at i:30772019 original size:42 final size:42
Alignment explanation
Indices: 30771880--30772030 Score: 158
Period size: 42 Copynumber: 3.6 Consensus size: 42
30771870 TCGTGTTTAC
* ** * * * *
30771880 TTTTCGTTTAGCTCTCACGAGCTTCTATTTAACTCATATGAG
1 TTTTCGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGG
* * *
30771922 TTTTCGTTCAGCTCTGACGAGCTTTCGTTCAACCTTTATGGG
1 TTTTCGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGG
* * *
30771964 TTTCCGTTCAGCTCTTACAAGCTTCCGTTCAACCCTTATGGG
1 TTTTCGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGG
* * *
30772006 TTTTTGTTTAGCTCTCATGAGCTTC
1 TTTTCGTTCAGCTCTCACGAGCTTC
30772031 TATTCAGCCT
Statistics
Matches: 88, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.42
Consensus pattern (42 bp):
TTTTCGTTCAGCTCTCACGAGCTTCCGTTCAACCCTTATGGG
Found at i:30773695 original size:24 final size:24
Alignment explanation
Indices: 30773666--30773739 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
30773656 AATAGTTGTG
30773666 ATAATTATACATTTAAAAATAATT
1 ATAATTATACATTTAAAAATAATT
* ** *
30773690 ATAATT-TA-A--TAAAAGTTGTG
1 ATAATTATACATTTAAAAATAATT
*
30773710 ATAATTACACATTTAAAAATAATT
1 ATAATTATACATTTAAAAATAATT
*
30773734 AGAATT
1 ATAATT
30773740 CAAATTCAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 8
0.67 0.19 0.15
Matches are distributed among these distances:
20 13 0.36
21 1 0.03
22 2 0.06
23 2 0.06
24 18 0.50
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.39
Consensus pattern (24 bp):
ATAATTATACATTTAAAAATAATT
Found at i:30773709 original size:44 final size:47
Alignment explanation
Indices: 30773645--30773739 Score: 151
Period size: 44 Copynumber: 2.1 Consensus size: 47
30773635 TTAGTTAAAA
* *
30773645 AATTTAAGTAAAATAGTTGTGATAATTATACATTTAAAAATAATTAT
1 AATTTAAGTAAAATAGTTGTGATAATTACACATTTAAAAATAATTAG
30773692 AATTTAA-T-AAA-AGTTGTGATAATTACACATTTAAAAATAATTAG
1 AATTTAAGTAAAATAGTTGTGATAATTACACATTTAAAAATAATTAG
30773736 AATT
1 AATT
30773740 CAAATTCAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
44 35 0.76
45 3 0.07
46 1 0.02
47 7 0.15
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.39
Consensus pattern (47 bp):
AATTTAAGTAAAATAGTTGTGATAATTACACATTTAAAAATAATTAG
Found at i:30783174 original size:98 final size:98
Alignment explanation
Indices: 30783062--30783243 Score: 260
Period size: 98 Copynumber: 1.9 Consensus size: 98
30783052 TTAAAAAATA
* * *
30783062 AAATATATTTAACATAACGATAAATGTAAAAATA-ATTTT-ATTATATAATTGCATATTTATATT
1 AAATATATTTAACATAACAATAAATATAAAAATATATTTTCATTATATAATTACATA-TT-TATT
30783125 AATTTATTTATATAAATAAATGAGTTACTAATTAT
64 AATTTATTTATATAAATAAATGAGTTACTAATTAT
* * * * *
30783160 AAATATTTTTAACATAATAATATATATATAAATATATTTTCATTATATAATTACATATTTATTAT
1 AAATATATTTAACATAACAATAAATATAAAAATATATTTTCATTATATAATTACATATTTATTAA
30783225 TTTATTTATATAAATAAAT
66 TTTATTTATATAAATAAAT
30783244 AAAATTATTA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
98 52 0.70
99 7 0.09
100 15 0.20
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.47
Consensus pattern (98 bp):
AAATATATTTAACATAACAATAAATATAAAAATATATTTTCATTATATAATTACATATTTATTAA
TTTATTTATATAAATAAATGAGTTACTAATTAT
Found at i:30783331 original size:14 final size:13
Alignment explanation
Indices: 30783298--30783336 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
30783288 CAACATATTT
30783298 ATTAATTAAAAAC
1 ATTAATTAAAAAC
*
30783311 ATTAATTAAAAAT
1 ATTAATTAAAAAC
*
30783324 TTTAAATTAAAAA
1 ATT-AATTAAAAA
30783337 AAAACTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:30783562 original size:15 final size:15
Alignment explanation
Indices: 30783522--30783562 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
30783512 TTTGCTCCAC
*
30783522 AAAAATAATTTTTAG
1 AAAAATAAATTTTAG
*
30783537 AAAAA-AGATTTTAG
1 AAAAATAAATTTTAG
30783551 AAAAATAAATTT
1 AAAAATAAATTT
30783563 ATTTTTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
AAAAATAAATTTTAG
Found at i:30784265 original size:39 final size:39
Alignment explanation
Indices: 30784222--30784299 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
30784212 TTTAAGCCCA
30784222 ACAGTGACCTTAATTGTTACAAATCAATTACCCCAAAAC
1 ACAGTGACCTTAATTGTTACAAATCAATTACCCCAAAAC
30784261 ACAGTGACCTTAATTGTTACAAATCAATTACCCCAAAAC
1 ACAGTGACCTTAATTGTTACAAATCAATTACCCCAAAAC
30784300 CTCACTTACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.26
Consensus pattern (39 bp):
ACAGTGACCTTAATTGTTACAAATCAATTACCCCAAAAC
Found at i:30788285 original size:549 final size:549
Alignment explanation
Indices: 30787247--30788347 Score: 2087
Period size: 549 Copynumber: 2.0 Consensus size: 549
30787237 TTCCAACATC
30787247 GTGAGTCATATATTTTGATACAATCAAACGTCTACCGTAACAGGTTGTACCATAAAGATTGATGT
1 GTGAGTCATATATTTTGATACAATCAAACGTCTACCGTAACAGGTTGTACCATAAAGATTGATGT
30787312 TGTATATACCACAATCCATGTAGTGGGATATGATTGATCAAGATAGGATTTATCCCTCCTACATA
66 TGTATATACCACAATCCATGTAGTGGGATATGATTGATCAAGATAGGATTTATCCCTCCTACATA
* *
30787377 ATAGGAGTAATATCTTAGGTCATTTAATAGGGTGAGACTAGAAATGCAGGGTCATACTCAAATAA
131 ATAGGAGTAATATCTTAGCTCATTTAATAGAGTGAGACTAGAAATGCAGGGTCATACTCAAATAA
30787442 GTTGATATGAGATATTACACTTATTTATTTATTATAGTCTACTCAGAATATCAAGAAATATAAGA
196 GTTGATATGAGATATTACACTTATTTATTTATTATAGTCTACTCAGAATATCAAGAAATATAAGA
30787507 TTGGACTATACAAGTGTGACTATACCATGACTTGTGTCCAATCTAAATATAAATGATAAAATGAT
261 TTGGACTATACAAGTGTGACTATACCATGACTTGTGTCCAATCTAAATATAAATGATAAAATGAT
30787572 ATAATACATGAAAAATTTATCATGGAAAGGTTATGTTAAATCATGACTTCTTGTAACTTAGGTAG
326 ATAATACATGAAAAATTTATCATGGAAAGGTTATGTTAAATCATGACTTCTTGTAACTTAGGTAG
*
30787637 CAATGATACATTATTAGATGCCACTCATTGCTTGTAACATTAGAAATGTTCTAGTATTATTACCA
391 CAATGATACATTACTAGATGCCACTCATTGCTTGTAACATTAGAAATGTTCTAGTATTATTACCA
*
30787702 ATGTTACAAGAACCTACAAGGTCACACCCTATGGTTAAAATGAACAGACTTCACGCCAATAGAAT
456 ACGTTACAAGAACCTACAAGGTCACACCCTATGGTTAAAATGAACAGACTTCACGCCAATAGAAT
30787767 GGGCGTATACCCTCCTACATACCACTATG
521 GGGCGTATACCCTCCTACATACCACTATG
* * *
30787796 GTGAGTCGTATATTTTGATACAATCAAATGTCTACCGTAACAGGTTGTACCATAAATATTGATGT
1 GTGAGTCATATATTTTGATACAATCAAACGTCTACCGTAACAGGTTGTACCATAAAGATTGATGT
30787861 TGTATATACCACAATCCATGTAGTGGGATATGATTGATCAAGATAGGATTTATCCCTCCTACATA
66 TGTATATACCACAATCCATGTAGTGGGATATGATTGATCAAGATAGGATTTATCCCTCCTACATA
30787926 ATAGGAGTAATATCTTAAGCT-ATTTAATAGAGTGAGACTAGAAATGCAGGGTCATACTCAAATA
131 ATAGGAGTAATATCTT-AGCTCATTTAATAGAGTGAGACTAGAAATGCAGGGTCATACTCAAATA
*
30787990 AGTTGATATGAGATATTACACTTATTTGTTTATTATAGTCTACTCAGAATATCAAGAAATATAAG
195 AGTTGATATGAGATATTACACTTATTTATTTATTATAGTCTACTCAGAATATCAAGAAATATAAG
30788055 ATTGGACTATACAAGTGTGACTATACCATGACTTGTGTCCAATCTAAATATAAATGATAAAATGA
260 ATTGGACTATACAAGTGTGACTATACCATGACTTGTGTCCAATCTAAATATAAATGATAAAATGA
30788120 TATAATACATGAAAAATTTATCATGGAAAGGTTATGTTAAATCATGACTTCTTGTAACTTAGGTA
325 TATAATACATGAAAAATTTATCATGGAAAGGTTATGTTAAATCATGACTTCTTGTAACTTAGGTA
*
30788185 GCAATGATACATTACTAGATGCCATTCATTGCTTGTAACATTAGAAATGTTCTAGTATTATTACC
390 GCAATGATACATTACTAGATGCCACTCATTGCTTGTAACATTAGAAATGTTCTAGTATTATTACC
30788250 AACGTTACAAGAACCTACAAGGTCACACCCTATGGTTAAAATGAACAGACTTCACGCCAATAGAA
455 AACGTTACAAGAACCTACAAGGTCACACCCTATGGTTAAAATGAACAGACTTCACGCCAATAGAA
* *
30788315 TGGGCGTATACCCTCTTACATACCATTATG
520 TGGGCGTATACCCTCCTACATACCACTATG
30788345 GTG
1 GTG
30788348 GATTCTTATC
Statistics
Matches: 540, Mismatches: 11, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
549 537 0.99
550 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (549 bp):
GTGAGTCATATATTTTGATACAATCAAACGTCTACCGTAACAGGTTGTACCATAAAGATTGATGT
TGTATATACCACAATCCATGTAGTGGGATATGATTGATCAAGATAGGATTTATCCCTCCTACATA
ATAGGAGTAATATCTTAGCTCATTTAATAGAGTGAGACTAGAAATGCAGGGTCATACTCAAATAA
GTTGATATGAGATATTACACTTATTTATTTATTATAGTCTACTCAGAATATCAAGAAATATAAGA
TTGGACTATACAAGTGTGACTATACCATGACTTGTGTCCAATCTAAATATAAATGATAAAATGAT
ATAATACATGAAAAATTTATCATGGAAAGGTTATGTTAAATCATGACTTCTTGTAACTTAGGTAG
CAATGATACATTACTAGATGCCACTCATTGCTTGTAACATTAGAAATGTTCTAGTATTATTACCA
ACGTTACAAGAACCTACAAGGTCACACCCTATGGTTAAAATGAACAGACTTCACGCCAATAGAAT
GGGCGTATACCCTCCTACATACCACTATG
Found at i:30789530 original size:39 final size:39
Alignment explanation
Indices: 30789490--30789625 Score: 182
Period size: 39 Copynumber: 3.5 Consensus size: 39
30789480 ATTCACTTTT
* * * * * * *
30789490 AAGCATATACCATATTACACATATAACCACATAACCTTT
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
30789529 AAGAATATATCACAATACTCATATAATTACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
30789568 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
*
30789607 AAGCATACATCACAATACT
1 AAGCATATATCACAATACT
30789626 AAAAAACATG
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:30797988 original size:46 final size:43
Alignment explanation
Indices: 30797923--30798030 Score: 121
Period size: 46 Copynumber: 2.4 Consensus size: 43
30797913 ACACTTTGGA
30797923 ATAAT-AATAGATACACGGT-GGATTCAGCACACAGCAACCACCCTTT
1 ATAATCAAT-GATAC-CGGTGGGA-TCAGCACACAGCAACCA-CC-TT
* *
30797969 GTAATCAATGATATCCGGTGGGATCAGCACATAGCAACCACCTT
1 ATAATCAATGATA-CCGGTGGGATCAGCACACAGCAACCACCTT
*
30798013 ATAATTAATGATACCGGT
1 ATAATCAATGATACCGGT
30798031 TCACATAGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
43 5 0.09
44 13 0.24
45 2 0.04
46 28 0.51
47 7 0.13
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (43 bp):
ATAATCAATGATACCGGTGGGATCAGCACACAGCAACCACCTT
Found at i:30798092 original size:51 final size:51
Alignment explanation
Indices: 30798032--30798226 Score: 218
Period size: 51 Copynumber: 3.8 Consensus size: 51
30798022 GATACCGGTT
* ** * *
30798032 CACATAGTAGCCCGTGCATAGTCCTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
* *
30798083 CACATAGTAGCCTGCACATAGTAGTACACACGTGATCGA--AGCTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATA
* * * * * *
30798134 CGCATAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGATA
30798184 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
30798227 TTCACTTTCA
Statistics
Matches: 119, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.34
51 71 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
Found at i:30798242 original size:101 final size:102
Alignment explanation
Indices: 30798030--30798218 Score: 247
Period size: 101 Copynumber: 1.9 Consensus size: 102
30798020 ATGATACCGG
** * *
30798030 TTCACATAGTAGCCCGTGCATAGTCCTACACATGTGACCATCACTATCCGATACACATAGTAGCC
1 TTCACATAGTAGCCCGCACATAGTACTACACATGCGACCATCACTATCCGATACACATAGTAGCC
* *
30798095 TGCACATAGTAGTACACACGTGATCGAAGCTATCCGA
66 TGCACATAGTACTACACACGTGATCCAAGCTATCCGA
* * ** * *
30798132 TACGCATAGTAGCTTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACATAGTAGC
1 TTCACATAGTAGCCCGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACATAGTAGC
30798195 CTGCACATAGTACTACACACGTGA
65 CTGCACATAGTACTACACACGTGA
30798219 CCATCACTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
101 39 0.52
102 32 0.43
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (102 bp):
TTCACATAGTAGCCCGCACATAGTACTACACATGCGACCATCACTATCCGATACACATAGTAGCC
TGCACATAGTACTACACACGTGATCCAAGCTATCCGA
Found at i:30828893 original size:28 final size:28
Alignment explanation
Indices: 30828855--30828912 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
30828845 TTACCCTTGT
*
30828855 TCTCCGGTCCTCACTTCTCTTTCCAATC
1 TCTCCAGTCCTCACTTCTCTTTCCAATC
30828883 TCTCCAGTCCTCACTTCTCTTTCCAATC
1 TCTCCAGTCCTCACTTCTCTTTCCAATC
30828911 TC
1 TC
30828913 AATATTCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.12, C:0.43, G:0.05, T:0.40
Consensus pattern (28 bp):
TCTCCAGTCCTCACTTCTCTTTCCAATC
Found at i:30834886 original size:16 final size:16
Alignment explanation
Indices: 30834865--30834932 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
30834855 TTTGGTTCGC
30834865 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
30834881 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
30834897 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
30834913 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
30834929 TGTA
1 TGTA
30834933 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:30835189 original size:18 final size:17
Alignment explanation
Indices: 30835168--30835202 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30835158 TTATTATTAA
*
30835168 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30835186 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30835203 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:30835268 original size:157 final size:157
Alignment explanation
Indices: 30835055--30835339 Score: 516
Period size: 157 Copynumber: 1.8 Consensus size: 157
30835045 TAGAATACCC
30835055 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
30835120 TTATCAATAATAAATATTTTAATCACATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCACATTTAAACATAATTATTATTAAATATATTATAATTAAAA
30835185 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
30835212 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
30835277 ATATCAATAATAAATAATTTAATCATATTTAAATATAATTATTATTAAATATATTATAATTAA
66 ATATCAATAATAAATAATTTAATCACATTTAAACATAATTATTATTAAATATATTATAATTAA
30835340 TAAGGAACCA
Statistics
Matches: 122, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 122 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCACATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:30835338 original size:15 final size:16
Alignment explanation
Indices: 30835305--30835339 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
30835295 TTAATCATAT
*
30835305 TTAAATATAATTATTA
1 TTAAATATAATTATAA
30835321 TTAAATAT-ATTATAA
1 TTAAATATAATTATAA
30835336 TTAA
1 TTAA
30835340 TAAGGAACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAATATAATTATAA
Found at i:30838587 original size:28 final size:28
Alignment explanation
Indices: 30838556--30838610 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
30838546 GCAAACCGGT
*
30838556 AGAAAAGAAAAGAAAATAAACAGAGGGC
1 AGAAAAGAAAAGAAAAGAAACAGAGGGC
*
30838584 AGAAAAGAAAAGAAAAGAAACGGAGGG
1 AGAAAAGAAAAGAAAAGAAACAGAGGG
30838611 AGCAAATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.64, C:0.05, G:0.29, T:0.02
Consensus pattern (28 bp):
AGAAAAGAAAAGAAAAGAAACAGAGGGC
Found at i:30843388 original size:22 final size:22
Alignment explanation
Indices: 30843360--30843404 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30843350 ACACATGAAA
30843360 GTTGTCTTCTCTTGGTTTTTAG
1 GTTGTCTTCTCTTGGTTTTTAG
30843382 GTTGTCTTCTCTTGGTTTTTAG
1 GTTGTCTTCTCTTGGTTTTTAG
30843404 G
1 G
30843405 CGCTATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.04, C:0.13, G:0.24, T:0.58
Consensus pattern (22 bp):
GTTGTCTTCTCTTGGTTTTTAG
Found at i:30848955 original size:176 final size:176
Alignment explanation
Indices: 30848661--30849011 Score: 567
Period size: 176 Copynumber: 2.0 Consensus size: 176
30848651 ATCTAGATTG
* * *
30848661 GGTTGGGGAGGTTACACTAGAGGAGAAAGGCAAACTAACATTGACCAAAACACTAAGAGGTTTAG
1 GGTTGGGGAGGTTACACTAGAGGAGAAAGGCAAACTAACACTAACCAAAACAATAAGAGGTTTAG
* *
30848726 AAACTAACCAAAGATGTTGATTGAGTCTTAACTCAATTGGCATCAGCATTGTTGCCAATGCAAGA
66 AAACTAACCAAAGATATTGATTGAGTCTTAACTCAATTGGCATCAACATTGTTGCCAATGCAAGA
30848791 GGACATGGGTTTGAGTGTGCTGAACCACATTATCCTCTTATTTAAA
131 GGACATGGGTTTGAGTGTGCTGAACCACATTATCCTCTTATTTAAA
* * * *
30848837 GGTTGGGGAGGTTACACTAGAGGAGAAAGGCAAATTAACACTAACCACAACAATAGGATGTTTAG
1 GGTTGGGGAGGTTACACTAGAGGAGAAAGGCAAACTAACACTAACCAAAACAATAAGAGGTTTAG
* * *
30848902 AAACTAACCAAATATATTGATTGAGTCTTAGCTCAATTGGCATCAACATTGTTGCCAATGTAAGA
66 AAACTAACCAAAGATATTGATTGAGTCTTAACTCAATTGGCATCAACATTGTTGCCAATGCAAGA
* * *
30848967 GGACGTGGGTTTGAGTGTGCTGAAGCGCATTATCCTCTTATTTAA
131 GGACATGGGTTTGAGTGTGCTGAACCACATTATCCTCTTATTTAA
30849012 GGCTTGGAAA
Statistics
Matches: 160, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
176 160 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (176 bp):
GGTTGGGGAGGTTACACTAGAGGAGAAAGGCAAACTAACACTAACCAAAACAATAAGAGGTTTAG
AAACTAACCAAAGATATTGATTGAGTCTTAACTCAATTGGCATCAACATTGTTGCCAATGCAAGA
GGACATGGGTTTGAGTGTGCTGAACCACATTATCCTCTTATTTAAA
Found at i:30853632 original size:92 final size:92
Alignment explanation
Indices: 30853528--30853711 Score: 350
Period size: 92 Copynumber: 2.0 Consensus size: 92
30853518 TATATATTTT
*
30853528 TTAAATTATTAAAAATCATATATATCTAATATATATCATTCATATATATTCTAAGTTAGTTTAAG
1 TTAAATTATTAAAAATAATATATATCTAATATATATCATTCATATATATTCTAAGTTAGTTTAAG
30853593 TTTTAATATATATTTAATTCTATTTAA
66 TTTTAATATATATTTAATTCTATTTAA
*
30853620 TTAAATTATTAAAAATAATATATATCTAATATATATCATTCATATTTATTCTAAGTTAGTTTAAG
1 TTAAATTATTAAAAATAATATATATCTAATATATATCATTCATATATATTCTAAGTTAGTTTAAG
30853685 TTTTAATATATATTTAATTCTATTTAA
66 TTTTAATATATATTTAATTCTATTTAA
30853712 AATTGATCCC
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.49
Consensus pattern (92 bp):
TTAAATTATTAAAAATAATATATATCTAATATATATCATTCATATATATTCTAAGTTAGTTTAAG
TTTTAATATATATTTAATTCTATTTAA
Found at i:30856464 original size:125 final size:123
Alignment explanation
Indices: 30856271--30856617 Score: 586
Period size: 123 Copynumber: 2.8 Consensus size: 123
30856261 TTTCGAGTTG
* * *
30856271 ACGTTTCTAATCAAATAGTATAAAATCGCTTTTAGCTGAATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTGAAA
30856336 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTTTTC
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAG-AA-AATTTTTTTTTC
* *
30856396 ACGTTTCTAAGGAAATAGTATAAAATCGCTTCTAGTTGGATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTGAAA
* *
30856461 TCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAGAAAATTTTTTTTTG
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAAATTTTTTTTTC
* *
30856519 ACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAA
1 ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTGAAA
*
30856584 TCACGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
30856618 TATGTTTGGG
Statistics
Matches: 209, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
123 104 0.50
124 2 0.01
125 103 0.49
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (123 bp):
ACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTGAAA
TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAAATTTTTTTTTC
Found at i:30856593 original size:123 final size:125
Alignment explanation
Indices: 30856268--30856613 Score: 588
Period size: 125 Copynumber: 2.8 Consensus size: 125
30856258 TAATTTCGAG
* * *
30856268 TTGACGTTTCTAATCAAATAGTATAAAATCGCTTTTAGCTGAATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
*
30856333 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAGAAATAATTTTTTT
* * *
30856393 TTCACGTTTCTAAGGAAATAGTATAAAATCGCTTCTAGTTGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
30856458 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAG-AA-AATTTTTTT
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAGAAATAATTTTTTT
* *
30856516 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
*
30856581 AAATCACGCCCTCGTGGACGCGCTTTTGCTACA
66 AAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
30856614 GTAGTATGTT
Statistics
Matches: 208, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
123 101 0.49
124 2 0.01
125 105 0.50
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (125 bp):
TTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCTGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGGACGCGCTTTTGCTACAATAGGTCATGGAAGAAATAATTTTTTT
Found at i:30861248 original size:22 final size:22
Alignment explanation
Indices: 30861220--30861272 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
30861210 TAATAGGGGA
*
30861220 TAAAATATAAATTTTATGTGGC
1 TAAAATATAAATATTATGTGGC
* *
30861242 TAAAATACAAAATATTATGTGGT
1 TAAAATA-TAAATATTATGTGGC
*
30861265 TGAAATAT
1 TAAAATAT
30861273 GAAAATGACT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 7 0.28
23 18 0.72
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (22 bp):
TAAAATATAAATATTATGTGGC
Found at i:30861271 original size:23 final size:23
Alignment explanation
Indices: 30861220--30861263 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
30861210 TAATAGGGGA
* *
30861220 TAAAATA-TAAATTTTATGTGGC
1 TAAAATACAAAATATTATGTGGC
30861242 TAAAATACAAAATATTATGTGG
1 TAAAATACAAAATATTATGTGG
30861264 TTGAAATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (23 bp):
TAAAATACAAAATATTATGTGGC
Found at i:30862708 original size:27 final size:27
Alignment explanation
Indices: 30862669--30862781 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
30862659 AACTGTGAAC
* *
30862669 TGTCCCGTAGACACCTATATTGCGGAA
1 TGTCCTGTAGACACCTATATTGCAGAA
* **
30862696 TGTCCTGTGGACACCTATATTGTGGAA
1 TGTCCTGTAGACACCTATATTGCAGAA
* * * *
30862723 GGTCTTGCA-ATCACCTATGTTGCAGAA
1 TGTCCTGTAGA-CACCTATATTGCAGAA
* *
30862750 TGTCCTGCAGACACCTATATTGTAGAA
1 TGTCCTGTAGACACCTATATTGCAGAA
30862777 TGTCC
1 TGTCC
30862782 CATAGACATT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
26 1 0.01
27 68 0.97
28 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (27 bp):
TGTCCTGTAGACACCTATATTGCAGAA
Found at i:30872807 original size:16 final size:16
Alignment explanation
Indices: 30872788--30872832 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
30872778 TCCATTCCAC
30872788 ATCCTTAATGTATAAT
1 ATCCTTAATGTATAAT
30872804 ATCCTTAATGTATAAT
1 ATCCTTAATGTATAAT
*
30872820 ATGCTTATATGTA
1 ATCCTTA-ATGTA
30872833 ACATTATCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.36, C:0.11, G:0.09, T:0.44
Consensus pattern (16 bp):
ATCCTTAATGTATAAT
Found at i:30885819 original size:20 final size:20
Alignment explanation
Indices: 30885794--30885836 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
30885784 AGCATTAAAA
*
30885794 TGCTAACAGAGGCACCGAAG
1 TGCTAACAGAGGCACCAAAG
*
30885814 TGCTAACATAGGCACCAAAG
1 TGCTAACAGAGGCACCAAAG
30885834 TGC
1 TGC
30885837 AATCCCGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.26, T:0.14
Consensus pattern (20 bp):
TGCTAACAGAGGCACCAAAG
Found at i:30890899 original size:17 final size:15
Alignment explanation
Indices: 30890857--30890923 Score: 64
Period size: 14 Copynumber: 4.3 Consensus size: 15
30890847 GTAAGTAATC
30890857 TAGATGTGAAAA-TA
1 TAGATGTGAAAACTA
*
30890871 TAGATTTGAAAACTA
1 TAGATGTGAAAACTA
*
30890886 TAGAACTGTGAAAAACTC
1 TAG-A-TGTG-AAAACTA
*
30890904 TAGATTGTGAAAACAA
1 TAGA-TGTGAAAACTA
30890920 TAGA
1 TAGA
30890924 AACTTTAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 11 0.26
15 5 0.12
16 10 0.23
17 8 0.19
18 9 0.21
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (15 bp):
TAGATGTGAAAACTA
Found at i:30898532 original size:15 final size:15
Alignment explanation
Indices: 30898512--30898543 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
30898502 TTAATCTTAG
30898512 TAAGTTCGTATAACA
1 TAAGTTCGTATAACA
30898527 TAAGTTCGTATAACA
1 TAAGTTCGTATAACA
30898542 TA
1 TA
30898544 GAATTTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (15 bp):
TAAGTTCGTATAACA
Found at i:30898970 original size:25 final size:25
Alignment explanation
Indices: 30898909--30898971 Score: 76
Period size: 25 Copynumber: 2.5 Consensus size: 25
30898899 GTACATGTAT
*
30898909 GCTCATACGAGCTATAAATCAGTAT
1 GCTCATACGAGCTATAAATCAGTAA
*
30898934 GCTTTCAT--GAGCTATAAATCGGTAA
1 GC--TCATACGAGCTATAAATCAGTAA
30898959 GCTCATACGAGCT
1 GCTCATACGAGCT
30898972 GAGAATCGAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
23 4 0.12
25 24 0.75
27 4 0.12
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (25 bp):
GCTCATACGAGCTATAAATCAGTAA
Found at i:30905754 original size:23 final size:22
Alignment explanation
Indices: 30905702--30905755 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
30905692 GATTTATCAG
*
30905702 TATGGATATGTGTGGTATTGAAT
1 TATGG-TATGTCTGGTATTGAAT
*
30905725 TAAGGTATGTCTGAGTA-TGAATT
1 TATGGTATGTCTG-GTATTGAA-T
30905748 TATGGTAT
1 TATGGTAT
30905756 TATATTCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.43
Consensus pattern (22 bp):
TATGGTATGTCTGGTATTGAAT
Found at i:30907448 original size:50 final size:50
Alignment explanation
Indices: 30907345--30907537 Score: 215
Period size: 50 Copynumber: 3.7 Consensus size: 50
30907335 GGGAATGAGA
*
30907345 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
30907401 TCCCATGTAAGACCATGCCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*** * * **
30907451 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
30907501 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
30907538 GTACAGAAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 79 0.67
53 3 0.03
55 1 0.01
56 35 0.30
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:30907536 original size:100 final size:103
Alignment explanation
Indices: 30907352--30907537 Score: 243
Period size: 100 Copynumber: 1.8 Consensus size: 103
30907342 AGATCCCATG
* **
30907352 TAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTAAGACCAT
1 TAAGACCATGTCTGGGACATGGCATGGGCATC--T-AGATTATGAGAACTCCCATGTAAGACCAT
* * *
30907417 GCCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCCA
63 ACCTGGGACATGACATTGGCACCGAGATGAGAGGTCCCCCA
* *
30907458 TAAGACCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAAGACCATATC
1 TAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATACC
*
30907520 TGGGATATGACATTGGCA
66 TGGGACATGACATTGGCA
30907538 GTACAGAAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 39 0.55
101 2 0.03
105 1 0.01
106 29 0.41
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (103 bp):
TAAGACCATGTCTGGGACATGGCATGGGCATCTAGATTATGAGAACTCCCATGTAAGACCATACC
TGGGACATGACATTGGCACCGAGATGAGAGGTCCCCCA
Found at i:30907803 original size:12 final size:12
Alignment explanation
Indices: 30907786--30907824 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
30907776 ATGAGTTATT
30907786 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
30907798 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
30907810 TAAGTGAGTAAG
1 TAAGTAAGCAAG
30907822 TAA
1 TAA
30907825 AAAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:30914507 original size:25 final size:25
Alignment explanation
Indices: 30914479--30914569 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 25
30914469 TCATGTACAT
*
30914479 GTATGCTCATACGAGCTGTGAATCG
1 GTATGCTCATACGAGCTATGAATCG
* *
30914504 GTATGCTCACT-CAAGCTAT-AGATCA
1 GTATGCTCA-TACGAGCTATGA-ATCG
* *
30914529 GTAGGCTC-TCACGAGCTATAAATCG
1 GTATGCTCAT-ACGAGCTATGAATCG
*
30914554 GTATGCT-ACACGAGCT
1 GTATGCTCATACGAGCT
30914570 GTGGGTCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
23 1 0.02
24 8 0.15
25 41 0.79
26 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATCG
Found at i:30955876 original size:22 final size:24
Alignment explanation
Indices: 30955842--30955902 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 24
30955832 GAGCTAAGCA
* *
30955842 TTATTTAAATAAA-TACTCATA-T
1 TTATATAATTAAAGTACTCATATT
*
30955864 TTATATAATTAAAGTATTCATATT
1 TTATATAATTAAAGTACTCATATT
30955888 TTATATCAAGTTAAA
1 TTATAT-AA-TTAAA
30955903 ATATGTCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 11 0.34
23 7 0.22
24 7 0.22
25 2 0.06
26 5 0.16
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (24 bp):
TTATATAATTAAAGTACTCATATT
Found at i:30955901 original size:26 final size:24
Alignment explanation
Indices: 30955858--30955912 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
30955848 AAATAAATAC
*
30955858 TCATATTTATATAATTAAAGTAT-
1 TCATATTTATATAATTAAAATATG
30955881 TCATATTTTATATCAAGTTAAAATATG
1 TCATA-TTTATAT-AA-TTAAAATATG
30955908 TCATA
1 TCATA
30955913 AGTCCTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 5 0.19
24 7 0.26
25 2 0.07
26 8 0.30
27 5 0.19
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.45
Consensus pattern (24 bp):
TCATATTTATATAATTAAAATATG
Found at i:30956310 original size:19 final size:19
Alignment explanation
Indices: 30956286--30956322 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30956276 TATTATTAAT
*
30956286 ATATTTATAATTTTAATAA
1 ATATTTATAATTTAAATAA
*
30956305 ATATTTATTATTTAAATA
1 ATATTTATAATTTAAATA
30956323 TTAATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTATAATTTAAATAA
Found at i:30958221 original size:30 final size:31
Alignment explanation
Indices: 30958176--30958239 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
30958166 GATGAAAAAT
* * *
30958176 TAAAATATAAACTAAT-TAAATTAATTATCC
1 TAAAAAATAAACTAATGGAAATTAATTAACC
* *
30958206 TAAAAAATAACCTAATGGAATTTAATTAACC
1 TAAAAAATAAACTAATGGAAATTAATTAACC
30958237 TAA
1 TAA
30958240 GATATCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.33
Consensus pattern (31 bp):
TAAAAAATAAACTAATGGAAATTAATTAACC
Found at i:30963549 original size:19 final size:19
Alignment explanation
Indices: 30963525--30963566 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
30963515 TTTAACTAGG
30963525 ATTAGGTGGGGCGACAACC
1 ATTAGGTGGGGCGACAACC
30963544 ATTAGGTGGGGCGACAACC
1 ATTAGGTGGGGCGACAACC
30963563 -TTAG
1 ATTAG
30963567 TTAAACAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.26, C:0.19, G:0.36, T:0.19
Consensus pattern (19 bp):
ATTAGGTGGGGCGACAACC
Found at i:30968277 original size:17 final size:17
Alignment explanation
Indices: 30968255--30968290 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
30968245 TATCTAACAT
*
30968255 CCTTCTTTTACGAATAC
1 CCTTCTTTTACGAAAAC
30968272 CCTTCTTTTACGAAAAC
1 CCTTCTTTTACGAAAAC
30968289 CC
1 CC
30968291 ATTTACTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.36
Consensus pattern (17 bp):
CCTTCTTTTACGAAAAC
Found at i:30969226 original size:35 final size:35
Alignment explanation
Indices: 30969111--30969227 Score: 128
Period size: 35 Copynumber: 3.3 Consensus size: 35
30969101 GTAGCTTTGT
* * *
30969111 AGAGCCTGTAGATCGTTTACACGGTGTCGCTCCAA
1 AGAGCCTGTAGACCATTTACATGGTGTCGCTCCAA
* * * ** *
30969146 AGAACTTGCA-AGCCATTTACATGGTGTCATTCCGA
1 AGAGCCTGTAGA-CCATTTACATGGTGTCGCTCCAA
30969181 AGAGCCTGTAGACCATTTACATGGTGTCGCTCCAA
1 AGAGCCTGTAGACCATTTACATGGTGTCGCTCCAA
*
30969216 AGAGCTTGTAGA
1 AGAGCCTGTAGA
30969228 TAACATTTCC
Statistics
Matches: 64, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
34 1 0.02
35 62 0.97
36 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (35 bp):
AGAGCCTGTAGACCATTTACATGGTGTCGCTCCAA
Found at i:30972027 original size:50 final size:49
Alignment explanation
Indices: 30971952--30972053 Score: 150
Period size: 50 Copynumber: 2.1 Consensus size: 49
30971942 AAACTTGGTA
* * *
30971952 GTTATCATTCTTTTTGGAAAGAATATAACGTTTTTTAATACTTTCCATAT
1 GTTATAATTATTTTTGGAAAGAATATAACG-TGTTTAATACTTTCCATAT
* *
30972002 GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTTCATGT
1 GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATAT
30972051 GTT
1 GTT
30972054 CTCTATAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 19 0.40
50 28 0.60
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (49 bp):
GTTATAATTATTTTTGGAAAGAATATAACGTGTTTAATACTTTCCATAT
Found at i:30973341 original size:71 final size:70
Alignment explanation
Indices: 30973199--30973343 Score: 173
Period size: 71 Copynumber: 2.1 Consensus size: 70
30973189 CTATAGCTGG
* * * *
30973199 TGTCGTGACTTTGATGGCAATATGATCCCCTTTGGACTCAAAGTTGGATGTTGCGAATTTAGCTT
1 TGTCGTGACATCGATGGCAATATGATCCCCTTTGGAATCAAAGTTGGATGTCGCGAATTTAGCTT
*
30973264 ATGGA
66 AAGGA
* * * ** * *
30973269 TGTCGTGACATCGATGGCAGTATGCTCTTCCTTTGGAATCAAAGTTGGATGTCGCGGCTTTGGTT
1 TGTCGTGACATCGATGGCAATATGATC-CCCTTTGGAATCAAAGTTGGATGTCGCGAATTTAGCT
30973334 TAAGGA
65 TAAGGA
30973340 TGTC
1 TGTC
30973344 ACGACATTGT
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
70 23 0.37
71 39 0.63
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.35
Consensus pattern (70 bp):
TGTCGTGACATCGATGGCAATATGATCCCCTTTGGAATCAAAGTTGGATGTCGCGAATTTAGCTT
AAGGA
Found at i:30976042 original size:18 final size:18
Alignment explanation
Indices: 30976021--30976056 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
30976011 TCTTCTCTTT
30976021 CTTTCTCTTCTTCAACAA
1 CTTTCTCTTCTTCAACAA
*
30976039 CTTTTTCTTCTTCAACAA
1 CTTTCTCTTCTTCAACAA
30976057 TGATTTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (18 bp):
CTTTCTCTTCTTCAACAA
Found at i:30976063 original size:18 final size:18
Alignment explanation
Indices: 30976026--30976069 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
30976016 TCTTTCTTTC
*
30976026 TCTTCTTCAACAACTTTT
1 TCTTCTTCAACAACTATT
30976044 TCTTCTTCAACAA-TGATT
1 TCTTCTTCAACAACT-ATT
*
30976062 TCCTCTTC
1 TCTTCTTC
30976070 TATAGCAGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (18 bp):
TCTTCTTCAACAACTATT
Found at i:30989158 original size:50 final size:48
Alignment explanation
Indices: 30989021--30989164 Score: 155
Period size: 50 Copynumber: 2.9 Consensus size: 48
30989011 GATAATAACA
** * *
30989021 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC
1 TGCCAAA-CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC
* * **
30989070 TACCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCT-C
1 TGCCAA-ACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC
*
30989118 GGTGCCAACACCATGTCCCAGACATGGTCTTACATTGGACCTCTCAT
1 --TGCCAA-ACCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
30989165 GATCTCAAGG
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.49
50 39 0.50
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (48 bp):
TGCCAAACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAC
Found at i:30989196 original size:56 final size:50
Alignment explanation
Indices: 30989023--30989217 Score: 196
Period size: 49 Copynumber: 3.8 Consensus size: 50
30989013 TAATAACATG
* ** * *
30989023 CCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCATGTAC--TA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTA
** *
30989072 CCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTA
** *
30989122 CCAACACCATGTCCCAGACATGGTCTTACATTGGACCTCTCATGATCTCAAGGATA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TA
* *
30989178 CCAATGTCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
30989218 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.32
50 37 0.31
53 5 0.04
55 2 0.02
56 36 0.30
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTA
Done.