Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 101 of 290
Found at i:34528812 original size:16 final size:16
Alignment explanation
Indices: 34528788--34528824 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
34528778 AAAAAAAAGG
*
34528788 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
34528804 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
34528820 AAAAA
1 AAAAA
34528825 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:34531997 original size:40 final size:40
Alignment explanation
Indices: 34531897--34532161 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
34531887 GCTCCTCGTT
* * * *
34531897 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
34531937 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
34531976 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
34532016 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
34532056 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
34532096 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
34532137 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
34532162 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:34532121 original size:80 final size:80
Alignment explanation
Indices: 34531864--34532161 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
34531854 AAATCACGTA
* ** * * *
34531864 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
34531926 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
34531942 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
34532005 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
34532022 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
34532086 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
34532102 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
34532162 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:34532170 original size:41 final size:41
Alignment explanation
Indices: 34532093--34532170 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
34532083 TTTGTATCTC
* * *
34532093 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
34532134 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
34532171 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:34537755 original size:302 final size:302
Alignment explanation
Indices: 34537209--34537814 Score: 1212
Period size: 302 Copynumber: 2.0 Consensus size: 302
34537199 TCGTAAAGTG
34537209 TTCTAAGTCCATCTGCACAAAAAAGAGATATCATTACGCAACTTAGCCGTTTTAGCCGGCGAAAA
1 TTCTAAGTCCATCTGCACAAAAAAGAGATATCATTACGCAACTTAGCCGTTTTAGCCGGCGAAAA
34537274 ATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCAAAGTAGTGGTAGACCCTCATGGTAACAAAT
66 ATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCAAAGTAGTGGTAGACCCTCATGGTAACAAAT
34537339 TTAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGCGAATGACATCATCA
131 TTAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGCGAATGACATCATCA
34537404 GAAATGCTATTAATTTTGAAAGTGTCGCAAAATTCCAGAAAATTCGCCAAGTGGGTGTTGGGATC
196 GAAATGCTATTAATTTTGAAAGTGTCGCAAAATTCCAGAAAATTCGCCAAGTGGGTGTTGGGATC
34537469 CTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCAT
261 CTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCAT
34537511 TTCTAAGTCCATCTGCACAAAAAAGAGATATCATTACGCAACTTAGCCGTTTTAGCCGGCGAAAA
1 TTCTAAGTCCATCTGCACAAAAAAGAGATATCATTACGCAACTTAGCCGTTTTAGCCGGCGAAAA
34537576 ATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCAAAGTAGTGGTAGACCCTCATGGTAACAAAT
66 ATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCAAAGTAGTGGTAGACCCTCATGGTAACAAAT
34537641 TTAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGCGAATGACATCATCA
131 TTAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGCGAATGACATCATCA
34537706 GAAATGCTATTAATTTTGAAAGTGTCGCAAAATTCCAGAAAATTCGCCAAGTGGGTGTTGGGATC
196 GAAATGCTATTAATTTTGAAAGTGTCGCAAAATTCCAGAAAATTCGCCAAGTGGGTGTTGGGATC
34537771 CTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCAT
261 CTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCAT
34537813 TT
1 TT
34537815 GAATTGTGTT
Statistics
Matches: 304, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
302 304 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (302 bp):
TTCTAAGTCCATCTGCACAAAAAAGAGATATCATTACGCAACTTAGCCGTTTTAGCCGGCGAAAA
ATATTTTAGTAGAAATTTTTCGGTCATTTGTTCCAAAGTAGTGGTAGACCCTCATGGTAACAAAT
TTAACCACTGTTTAGCTTTGTTTCTTAGTGAAAAAGGGAATAACCGAAGGCGAATGACATCATCA
GAAATGCTATTAATTTTGAAAGTGTCGCAAAATTCCAGAAAATTCGCCAAGTGGGTGTTGGGATC
CTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCAT
Found at i:34549144 original size:321 final size:321
Alignment explanation
Indices: 34548562--34549202 Score: 1282
Period size: 321 Copynumber: 2.0 Consensus size: 321
34548552 GAATTATAAA
34548562 CTAGAAGGTCTTAAATAGCAATTTGCCCAATTTTAAGTTTTTGGACAAAAATGGGCATGCATAGA
1 CTAGAAGGTCTTAAATAGCAATTTGCCCAATTTTAAGTTTTTGGACAAAAATGGGCATGCATAGA
34548627 AAAATTTGGAAGTTTTGTAAGAAGGGGCATTTTGGTCATTTGGTAATAAACTTAATAAAAAGGGA
66 AAAATTTGGAAGTTTTGTAAGAAGGGGCATTTTGGTCATTTGGTAATAAACTTAATAAAAAGGGA
34548692 AAAAGAAAGCCAAAATCAGGCATCTTCTTCCGCATAGCTGCCGAAATTCCTAAAGCTCCATAAGC
131 AAAAGAAAGCCAAAATCAGGCATCTTCTTCCGCATAGCTGCCGAAATTCCTAAAGCTCCATAAGC
34548757 TAGGTTTTCAACATTTCAAGCTCAATAATAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTTATA
196 TAGGTTTTCAACATTTCAAGCTCAATAATAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTTATA
34548822 ATTTTGAAATCTTCGTAACATGCTCTATCCATTTCTACCCATATCTCAAGCTAGGGTTCAC
261 ATTTTGAAATCTTCGTAACATGCTCTATCCATTTCTACCCATATCTCAAGCTAGGGTTCAC
34548883 CTAGAAGGTCTTAAATAGCAATTTGCCCAATTTTAAGTTTTTGGACAAAAATGGGCATGCATAGA
1 CTAGAAGGTCTTAAATAGCAATTTGCCCAATTTTAAGTTTTTGGACAAAAATGGGCATGCATAGA
34548948 AAAATTTGGAAGTTTTGTAAGAAGGGGCATTTTGGTCATTTGGTAATAAACTTAATAAAAAGGGA
66 AAAATTTGGAAGTTTTGTAAGAAGGGGCATTTTGGTCATTTGGTAATAAACTTAATAAAAAGGGA
34549013 AAAAGAAAGCCAAAATCAGGCATCTTCTTCCGCATAGCTGCCGAAATTCCTAAAGCTCCATAAGC
131 AAAAGAAAGCCAAAATCAGGCATCTTCTTCCGCATAGCTGCCGAAATTCCTAAAGCTCCATAAGC
34549078 TAGGTTTTCAACATTTCAAGCTCAATAATAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTTATA
196 TAGGTTTTCAACATTTCAAGCTCAATAATAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTTATA
34549143 ATTTTGAAATCTTCGTAACATGCTCTATCCATTTCTACCCATATCTCAAGCTAGGGTTCA
261 ATTTTGAAATCTTCGTAACATGCTCTATCCATTTCTACCCATATCTCAAGCTAGGGTTCA
34549203 TGTTTGGAAA
Statistics
Matches: 320, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
321 320 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (321 bp):
CTAGAAGGTCTTAAATAGCAATTTGCCCAATTTTAAGTTTTTGGACAAAAATGGGCATGCATAGA
AAAATTTGGAAGTTTTGTAAGAAGGGGCATTTTGGTCATTTGGTAATAAACTTAATAAAAAGGGA
AAAAGAAAGCCAAAATCAGGCATCTTCTTCCGCATAGCTGCCGAAATTCCTAAAGCTCCATAAGC
TAGGTTTTCAACATTTCAAGCTCAATAATAAGTGCTCCCTAGCCCCGTTTTTAATGTTCTTTATA
ATTTTGAAATCTTCGTAACATGCTCTATCCATTTCTACCCATATCTCAAGCTAGGGTTCAC
Found at i:34557046 original size:48 final size:48
Alignment explanation
Indices: 34556936--34557344 Score: 482
Period size: 48 Copynumber: 8.5 Consensus size: 48
34556926 GATTCCGTGG
* * * * * **
34556936 AAGACCATGTCTGGGACATGGCTTCGGCATCCGAGATGTGTGCCTGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCGT-TGATATATGTGCCAATGT
* *
34556985 AAGACCATATCTGGGACATGGCATCGGCGTTGATATATGTGCCAGTGT
1 AAGACCATGTCTGGGACATGGCATCGGCGTTGATATATGTGCCAATGT
*
34557033 AAGACCATGTCTGGGACATGGTATCGGCGTTGATATATGTGCCAGA-GT
1 AAGACCATGTCTGGGACATGGCATCGGCGTTGATATATGTGCCA-ATGT
* * *
34557081 AAGACCATGTCTAGGACATGGCATCAGTGTTGATATATGTGCCAATGT
1 AAGACCATGTCTGGGACATGGCATCGGCGTTGATATATGTGCCAATGT
* *
34557129 AAGACCATGTTTGGGACATGGCATCGGCATTGATATATGTGCCAATGT
1 AAGACCATGTCTGGGACATGGCATCGGCGTTGATATATGTGCCAATGT
*
34557177 AAGACCATGTTTGGGACATGGCATCGGCGTTGATATATGTGCCAATGT
1 AAGACCATGTCTGGGACATGGCATCGGCGTTGATATATGTGCCAATGT
* * * * *
34557225 AAGACCATGTTTAGGACACGGCATTGGCATTGATATATGTGCCAATGT
1 AAGACCATGTCTGGGACATGGCATCGGCGTTGATATATGTGCCAATGT
* * * * * * * *
34557273 AAGACTATGTCTAGAATATGGCATCAGCGATGATATTTG-GATTC-ATGT
1 AAGACCATGTCTGGGACATGGCATCGGCGTTGATATATGTG--CCAATGT
* *
34557321 AAGACCATGTCTAGGACATAGCAT
1 AAGACCATGTCTGGGACATGGCAT
34557345 TGGTACTTTA
Statistics
Matches: 317, Mismatches: 39, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
47 2 0.01
48 287 0.91
49 28 0.09
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (48 bp):
AAGACCATGTCTGGGACATGGCATCGGCGTTGATATATGTGCCAATGT
Found at i:34562119 original size:2 final size:2
Alignment explanation
Indices: 34562112--34562153 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
34562102 GTTCACCAAT
34562112 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
34562154 ACTCAGAGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:34564949 original size:15 final size:15
Alignment explanation
Indices: 34564927--34564960 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
34564917 AAATCCAGGG
*
34564927 AAATAAATTA-TTAA
1 AAATAAAATATTTAA
34564941 AAATAAAATATTTAA
1 AAATAAAATATTTAA
34564956 AAATA
1 AAATA
34564961 GATAAATTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAATAAAATATTTAA
Found at i:34566160 original size:15 final size:14
Alignment explanation
Indices: 34566140--34566176 Score: 58
Period size: 13 Copynumber: 2.6 Consensus size: 14
34566130 TTTTGCTTCT
34566140 TCTTCCTTCACATCA
1 TCTTCCTTC-CATCA
34566155 TCTTCCTT-CATCA
1 TCTTCCTTCCATCA
34566168 TCTTCCTTC
1 TCTTCCTTC
34566177 TTCTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.62
15 8 0.38
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.46
Consensus pattern (14 bp):
TCTTCCTTCCATCA
Found at i:34567993 original size:12 final size:12
Alignment explanation
Indices: 34567973--34568006 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
34567963 GCAGGCTGAA
*
34567973 AAAGCAGCTACC
1 AAAGAAGCTACC
34567985 AAAGAAGCTACC
1 AAAGAAGCTACC
34567997 AAAGAAGCTA
1 AAAGAAGCTA
34568007 TAAGAGCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.50, C:0.24, G:0.18, T:0.09
Consensus pattern (12 bp):
AAAGAAGCTACC
Found at i:34568031 original size:12 final size:11
Alignment explanation
Indices: 34567985--34568040 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 11
34567975 AGCAGCTACC
*
34567985 AAAGAAGCTACC
1 AAAGAAGCT-CA
34567997 AAAGAAGCT-A
1 AAAGAAGCTCA
*
34568007 TAAG-AGCTCA
1 AAAGAAGCTCA
*
34568017 AAAGGAAGCTGA
1 AAA-GAAGCTCA
34568029 AAAGAAGCTCA
1 AAAGAAGCTCA
34568040 A
1 A
34568041 GGAAATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
9 4 0.11
10 6 0.17
11 9 0.25
12 17 0.47
ACGTcount: A:0.52, C:0.16, G:0.21, T:0.11
Consensus pattern (11 bp):
AAAGAAGCTCA
Found at i:34568928 original size:34 final size:37
Alignment explanation
Indices: 34568885--34568983 Score: 100
Period size: 37 Copynumber: 2.8 Consensus size: 37
34568875 TTAACTCATA
*
34568885 AATTATATTATG-ATTTT-TT-AATTCATA-TAATAAT
1 AATTATATTAAGAATTTTATTAAATT-ATATTAATAAT
*
34568919 AATTATATTAAGAATTTTATTAAATTATATTTAGTAAT
1 AATTATATTAAGAATTTTATTAAATTATA-TTAATAAT
* * *
34568957 AATTATAGTAA-AATATGATTAAATTAT
1 AATTATATTAAGAATTTTATTAAATTAT
34568984 TTATTATTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
34 11 0.20
35 5 0.09
36 5 0.09
37 18 0.33
38 16 0.29
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.48
Consensus pattern (37 bp):
AATTATATTAAGAATTTTATTAAATTATATTAATAAT
Found at i:34569165 original size:40 final size:42
Alignment explanation
Indices: 34569105--34569214 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 42
34569095 TTTTTTTCTT
*
34569105 ATTCTATTACAACG-TC-ATTCCATTCCAACCAA-ACACAA-GA
1 ATTCTATTAC-A-GTTCTATTCCATTCCAACCAACAAACAATGA
*
34569145 ATTCTATTACAGTTCTATTCCATTCCATCCAACCAAACAATTGA
1 ATTCTATTACAGTTCTATTCCATTCCAACCAA-CAAACAA-TGA
34569189 ATTACTTATTACAGTTCTATTCCATT
1 ATT-C-TATTACAGTTCTATTCCATT
34569215 ACAGCTCTAT
Statistics
Matches: 60, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
38 1 0.02
39 3 0.05
40 25 0.42
42 5 0.08
44 5 0.08
45 1 0.02
46 20 0.33
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.35
Consensus pattern (42 bp):
ATTCTATTACAGTTCTATTCCATTCCAACCAACAAACAATGA
Found at i:34569191 original size:44 final size:47
Alignment explanation
Indices: 34569120--34569214 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 47
34569110 ATTACAACGT
34569120 CATTCCATTCCAACCAAACACAAGAATT-C-TATTACAGTTCTATTC
1 CATTCCATTCCAACCAAACACAAGAATTACTTATTACAGTTCTATTC
*
34569165 CATTCCA-TCCAACCAAACA-ATTGAATTACTTATTACAGTTCTATTC
1 CATTCCATTCCAACCAAACACA-AGAATTACTTATTACAGTTCTATTC
34569211 CATT
1 CATT
34569215 ACAGCTCTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
43 1 0.02
44 17 0.37
45 8 0.17
46 20 0.43
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (47 bp):
CATTCCATTCCAACCAAACACAAGAATTACTTATTACAGTTCTATTC
Found at i:34569217 original size:16 final size:16
Alignment explanation
Indices: 34569196--34569250 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
34569186 TGAATTACTT
*
34569196 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
34569212 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
34569228 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
34569244 ATTACAG
1 ATTACAG
34569251 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:34570102 original size:30 final size:30
Alignment explanation
Indices: 34570059--34570116 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
34570049 CACCACTAAT
**
34570059 CATTTTTTGTTACAAACGTAACAGAGCTAC
1 CATTTTTCATTACAAACGTAACAGAGCTAC
* * *
34570089 CATTTTTCATTACAGACTTAACGGAGCT
1 CATTTTTCATTACAAACGTAACAGAGCT
34570117 GTCATTTTCC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.14, T:0.34
Consensus pattern (30 bp):
CATTTTTCATTACAAACGTAACAGAGCTAC
Found at i:34571028 original size:46 final size:47
Alignment explanation
Indices: 34570945--34571033 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 47
34570935 AGGGATCGTA
* * *
34570945 GGGGAGAGGGAAAGAATCAAAGCAGGAGGAGGAATGGTGGGGAAGAG
1 GGGGAGAGGGAAAGAACCAAAGCAAGAGGAGGAATGGTAGGGAAGAG
* * * *
34570992 GGGGAGAGGGAGAGAACCAAGGGAAG-GGAGGGATGGTAGGGA
1 GGGGAGAGGGAAAGAACCAAAGCAAGAGGAGGAATGGTAGGGA
34571034 GGAGAGAAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
46 14 0.40
47 21 0.60
ACGTcount: A:0.36, C:0.04, G:0.54, T:0.06
Consensus pattern (47 bp):
GGGGAGAGGGAAAGAACCAAAGCAAGAGGAGGAATGGTAGGGAAGAG
Found at i:34571133 original size:30 final size:30
Alignment explanation
Indices: 34571067--34571134 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
34571057 GTGGGGATGG
* *
34571067 AAAATGATAGCTGCATTAAGTCTATAACGA
1 AAAATGGTAGCTCCATTAAGTCTATAACGA
* *
34571097 AAAATGGTAGCTCCATTATGTCTCTAACGA
1 AAAATGGTAGCTCCATTAAGTCTATAACGA
34571127 AAAATGGT
1 AAAATGGT
34571135 TAGTAGTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.28
Consensus pattern (30 bp):
AAAATGGTAGCTCCATTAAGTCTATAACGA
Found at i:34571359 original size:2 final size:2
Alignment explanation
Indices: 34571352--34571376 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34571342 TTAGGTAATC
34571352 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
34571377 TATTCCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34573875 original size:29 final size:31
Alignment explanation
Indices: 34573819--34573877 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
34573809 AATACATGTA
* *
34573819 TGTATTTGTTTATTATTTAAGTAAATATTAG
1 TGTATTTGATTATTATTTAAATAAATATTAG
*
34573850 TGTATTT-ATTATT-TTTAAATTAATATTA
1 TGTATTTGATTATTATTTAAATAAATATTA
34573878 TATGATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 13 0.52
30 5 0.20
31 7 0.28
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (31 bp):
TGTATTTGATTATTATTTAAATAAATATTAG
Found at i:34574004 original size:20 final size:20
Alignment explanation
Indices: 34573979--34574018 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
34573969 ATTTAAGTAT
34573979 TAAAAGATATTTATTAATTA
1 TAAAAGATATTTATTAATTA
34573999 TAAAAGATATTTATTAATTA
1 TAAAAGATATTTATTAATTA
34574019 AATAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAAAGATATTTATTAATTA
Found at i:34574206 original size:20 final size:19
Alignment explanation
Indices: 34574169--34574207 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
34574159 GTATATATAT
*
34574169 AAAAAGAAATAAAGAGAAA
1 AAAAAGAAAGAAAGAGAAA
*
34574188 AAAAAGAATAGAAATAGAAA
1 AAAAAGAA-AGAAAGAGAAA
34574208 CAGAATAGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (19 bp):
AAAAAGAAAGAAAGAGAAA
Found at i:34574259 original size:20 final size:18
Alignment explanation
Indices: 34574230--34574274 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
34574220 AACGAAAAGC
34574230 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
34574248 AGGAGAAAAGAAAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
34574267 AGGGAAAA
1 AGGGAAAA
34574275 TTGAAGGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:34576761 original size:30 final size:30
Alignment explanation
Indices: 34576729--34576784 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
34576719 ATATTACATA
*
34576729 AAAATAAAA-GATATAAGTATGTATATCGT
1 AAAATAAAACAATATAAGTATGTATATCGT
*
34576758 AAAATAAAACAATGTAAGTATGTATAT
1 AAAATAAAACAATATAAGTATGTATAT
34576785 ATATATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (30 bp):
AAAATAAAACAATATAAGTATGTATATCGT
Found at i:34576927 original size:18 final size:18
Alignment explanation
Indices: 34576906--34576965 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
34576896 AAAATATGTT
*
34576906 TATAAAAAGATATATAGA
1 TATAAAAAGATATAAAGA
*
34576924 TATATAATAAGATATAAATA
1 TATA-AA-AAGATATAAAGA
*
34576944 TATAATAAGATATAAAGA
1 TATAAAAAGATATAAAGA
34576962 TATA
1 TATA
34576966 TATAAATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
18 19 0.53
19 3 0.08
20 14 0.39
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (18 bp):
TATAAAAAGATATAAAGA
Found at i:34581000 original size:17 final size:17
Alignment explanation
Indices: 34580980--34581013 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34580970 AAATAGGTTT
34580980 TTAATTAAAAATTTTAA
1 TTAATTAAAAATTTTAA
*
34580997 TTAATTAAAATTTTTAA
1 TTAATTAAAAATTTTAA
34581014 ACCTAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAAAAATTTTAA
Found at i:34586485 original size:19 final size:19
Alignment explanation
Indices: 34586443--34586485 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
34586433 TATTGTCATC
*
34586443 ATTATTATTATAGTATTCT
1 ATTATTATTATAGTATTAT
*
34586462 ATTATTATTATTATTATTAT
1 ATTATTATTA-TAGTATTAT
34586482 -TTAT
1 ATTAT
34586486 CATTTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTATTATTATAGTATTAT
Found at i:34590435 original size:21 final size:22
Alignment explanation
Indices: 34590411--34590471 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 22
34590401 CAAAGAAAAT
*
34590411 AGGGGC-ACATGCCCGTGTGAA
1 AGGGGCGACACGCCCGTGTGAA
34590432 A-GGGCGACACGCCCGTGTGAA
1 AGGGGCGACACGCCCGTGTGAA
*
34590453 A-GGGCGACACGCCCATGTG
1 AGGGGCGACACGCCCGTGTG
34590472 TCCTCTTAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.11
Consensus pattern (22 bp):
AGGGGCGACACGCCCGTGTGAA
Found at i:34591625 original size:48 final size:48
Alignment explanation
Indices: 34591565--34591790 Score: 227
Period size: 48 Copynumber: 4.7 Consensus size: 48
34591555 GGTAAATTGT
* **
34591565 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATGGC
* * * * * **
34591613 CGTTGTCATGTCCCAGACATGGTCTTACACTAGCGCACCTAACAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATGGC
* * * * *
34591661 TGATGCCATATCCCGGACATGGTCTTACACTAACTCTCATAACATTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATGGC
* * * * * * * *
34591709 CGATGTCATGTTCCAAATATGGTATTATACTGGCTCTCATATCATGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATGGC
**
34591757 CGACACCATGTCCCAGACATGGTCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
34591791 ACACATATCA
Statistics
Matches: 135, Mismatches: 43, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACATGGC
Found at i:34600987 original size:89 final size:88
Alignment explanation
Indices: 34600876--34601397 Score: 368
Period size: 89 Copynumber: 5.8 Consensus size: 88
34600866 TCATCATGGA
*
34600876 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATCTCTCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CAAATCTTATCTCCCTGAAGT
*
34600941 TGCAGTAGATCAGATTAAAGTTAT
65 TGCAGTAGAGCAGATTAAAGTTAT
* * ** * * *
34600965 AAACCTTATCTTCCC-GAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAAT
1 AAATCTTATC-TCCCTGAAGTTGCAGTGGAGTAGACTGAAGATACAAATCTTATCTCCCTGAAGT
* * * *
34601029 AGCAGTGGAGCAGACTAAAGATAGT
65 TGCAGTAGAGCAGATTAAAGTTA-T
* * * * * * *
34601054 GAATCTTATTTCTCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAAATTACAAATCTTATCTCCC
1 AAATCTTATCTCCCTGAAGTTGCAGTGG---AG--TAGA-CTGAAGA-TACAAATCTTATCTCCC
* * * *
34601119 TAAAGTTACAGTAGAACAGATTGAAGTTAT
59 TGAAGTTGCAGTAGAGCAGATTAAAGTTAT
* * * * *
34601149 AGATCTTATCTCCCTGAAGTTGGAGTGGGGTAGA-TCGAAGATAGCAAATTTTATCTCTCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-GAAGATA-CAAATCTTATCTCCCTGAAG
* * *
34601213 TTGCAATAGAGCAGATTAAAGCTAC
64 TTGCAGTAGAGCAGATTAAAGTTAT
* * * * * * * * *
34601238 ACA-CTTTATCTCCCTGAGGTTGTAGTGGAGCA-AGTTAAAAATAAACAAATCTTATCTTCCTAA
1 AAATC-TTATCTCCCTGAAGTTGCAGTGGAGTAGA-CTGAAGAT--ACAAATCTTATCTCCCTGA
* * ** *
34601301 AGTTGCGGTAGAGCAGATTGAAGACAC
62 AGTTGCAGTAGAGCAGATTAAAGTTAT
** * * * * ** *
34601328 AAATCTCGTCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAGCCTTATCTCCCTAAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATACAAATCTTATCTCCCTGAAGTT
*
34601393 ACAGT
66 GCAGT
34601398 GGAGTGGATC
Statistics
Matches: 330, Mismatches: 84, Indels: 39
0.73 0.19 0.09
Matches are distributed among these distances:
88 67 0.20
89 121 0.37
90 73 0.22
91 3 0.01
92 3 0.01
94 1 0.00
95 26 0.08
96 36 0.11
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (88 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATACAAATCTTATCTCCCTGAAGTT
GCAGTAGAGCAGATTAAAGTTAT
Found at i:34601006 original size:44 final size:44
Alignment explanation
Indices: 34600876--34601445 Score: 365
Period size: 44 Copynumber: 12.7 Consensus size: 44
34600866 TCATCATGGA
* * *
34600876 AAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* * * * *
34600921 AAATCTTATCTCTCTGAAGTTGCAGTAGATCAGATTAAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* *
34600965 AAACCTTATCTTCCC-GAAGTTGCAGTGGAGCAGGTTGAAGTTAC
1 AAATCTTATC-TCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * * * * *
34601009 AAGTCTTATCTCCCTGAAATAGCAGTGGAGCAGACTAAAGATAGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* * * * * *
34601054 GAATCTTATTTCTCTAAAGTTGCAGTGGAACAGATTAAAGCTAAAAATTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTAC
* * * * *
34601105 AAATCTTATCTCCCTAAAGTTACAGTAGAACAGATTGAAGTTAT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * * * *
34601149 AGATCTTATCTCCCTGAAGTTGGAGTGGGGTAGATCGAAGATAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* * * * * *
34601194 AAATTTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * * * *
34601238 ACA-CTTTATCTCCCTGAGGTTGTAGTGGAGCA-AGTTAAAAATAAAC
1 AAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TT-GAAGT-TAC
* * * * **
34601284 AAATCTTATCTTCCTAAAGTTGCGGTAGAGCAGATTGAAGACAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
** * *
34601328 AAATCTCGTCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
** * * ** * **
34601372 AAGCCTTATCTCCCTAAAGTTACAGTGGAGTGGATCGAAACTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* *
34601416 AAGTCTTATCTTCCC-GAAGTTGTAGTGGAG
1 AAATCTTATC-TCCCTGAAGTTGCAGTGGAG
34601446 TGGAACGAAG
Statistics
Matches: 400, Mismatches: 107, Indels: 37
0.74 0.20 0.07
Matches are distributed among these distances:
43 5 0.01
44 223 0.56
45 107 0.27
46 27 0.07
47 2 0.00
48 1 0.00
51 31 0.08
52 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
Found at i:34601190 original size:140 final size:135
Alignment explanation
Indices: 34600877--34601236 Score: 406
Period size: 140 Copynumber: 2.6 Consensus size: 135
34600867 CATCATGGAA
34600877 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTT
* * * * * * *
34600942 GCAGTAGATCAGATTAAAG---TTATAAACCTTATCTTCCCGAAGTTGCAGTGGAGCAGGTTGAA
66 GCAGTAGAACAGATTAAAGCTATTACAAACCTTATCTTCCCAAAGTTACAGTAGAACAGATTGAA
34601004 GTTAC
131 GTTAC
* * * * ** * *
34601009 AAGTCTTATCTCCCTGAAATAGCAGTGGAGCAGACTAAAGATAGTGAATCTTATTTCTCTAAAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATCTCTCTGAAGT
* *
34601074 TGCAGTGGAACAGATTAAAGCTAAAAATTACAAATCTTATC-TCCCTAAAGTTACAGTAGAACAG
65 TGCAGTAGAACAGATTAAAGCT----ATTACAAACCTTATCTTCCC-AAAGTTACAGTAGAACAG
*
34601138 ATTGAAGTTAT
125 ATTGAAGTTAC
* * *
34601149 AGATCTTATCTCCCTGAAGTTGGAGTGGGGTAGA-TCGAAGATAGCAAATTTTATCTCTCTGAAG
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT-GAAGATAGCAAATCTTATCTCTCTGAAG
* *
34601213 TTGCAATAGAGCAGATTAAAGCTA
64 TTGCAGTAGAACAGATTAAAGCTA
34601237 CACACTTTAT
Statistics
Matches: 185, Mismatches: 32, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
132 2 0.01
133 72 0.39
136 1 0.01
139 5 0.03
140 104 0.56
141 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (135 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTTATCTCTCTGAAGTT
GCAGTAGAACAGATTAAAGCTATTACAAACCTTATCTTCCCAAAGTTACAGTAGAACAGATTGAA
GTTAC
Found at i:34609966 original size:18 final size:18
Alignment explanation
Indices: 34609923--34609967 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
34609913 AAAAGCTATT
*
34609923 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
*
34609941 TGTCTATATATATTAGTAAA
1 T-T-TATATATATTAATAAA
34609961 TTTATAT
1 TTTATAT
34609968 TTTAAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.26
19 2 0.09
20 15 0.65
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:34610486 original size:15 final size:16
Alignment explanation
Indices: 34610466--34610495 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34610456 TTAATATGTT
34610466 ATTATGT-CAATTAAA
1 ATTATGTACAATTAAA
34610481 ATTATGTACAATTAA
1 ATTATGTACAATTAA
34610496 CATAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (16 bp):
ATTATGTACAATTAAA
Found at i:34621527 original size:49 final size:49
Alignment explanation
Indices: 34621466--34621781 Score: 206
Period size: 49 Copynumber: 6.6 Consensus size: 49
34621456 ACATCAAAGT
* *
34621466 CGATGCCATGTCCCAGATAGGTCTTACATTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * * * ** *
34621515 CGATGCCATGTCCCAGGCAGGTCTTACACTGGCTCTCATCTATCGCTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
*
34621564 CGATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGT-ATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTT-TCATATATCGAGGC
* * * * * * * *
34621613 CGATG-CTTGTCCCAGACATGTTTTACACT-AGCTCTCGTCT-T-AATGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTCATATATCGAGGC
* * * * * * *
34621659 CAATG-CATGTCCTAGAAATGTCTTACACTGGCTTGT-ACATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAGGC
* * * * * * *
34621707 CGATG-CATGTCCTAGACATGTCTTACCCTGGCTCTCACA-AT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* *
34621753 CGATG-CATGTCCCAAACATGTCTTACACT
1 CGATGCCATGTCCCAGACAGGTCTTACACT
34621782 AGCACACATA
Statistics
Matches: 213, Mismatches: 46, Indels: 19
0.77 0.17 0.07
Matches are distributed among these distances:
46 60 0.28
47 6 0.03
48 63 0.30
49 83 0.39
50 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
Found at i:34621642 original size:48 final size:48
Alignment explanation
Indices: 34621424--34621784 Score: 231
Period size: 48 Copynumber: 7.6 Consensus size: 48
34621414 ATGCCGACGC
* * * * *
34621424 CATGTCCCAGACATGGTCTTACACTAGCTAGCACA--TCAAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTTGTACATCTCGAGGCCGATG
* * * * *
34621471 CCATGTCCCAGATAGGTCTTACA-TTGACTT-TCATATATCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAG-CTTGT-ACATCTCGAGGCCGATG
* * * * ** *
34621520 CCATGTCCCAGGCAGGTCTTACACTGGC-TCT-CATCTATCGCTGTCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTTGTACATC--TCGAGGCCGATG
* *
34621569 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCGAGGCCGATG
* * * * ** * *
34621618 CTTGTCCCAGACATGTTTTACACTAGC-TCT-CGTCTTAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCGAGGCCGATG
* * *
34621664 CATGTCCTAGAAATGTCTTACACTGGCTTGTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCGAGGCCGATG
* * * * * *
34621712 CATGTCCTAGACATGTCTTACCCTGGCTCT-CACA-AT-GTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TGTACATCTCGAGGCCGATG
*
34621758 CATGTCCCAAACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
34621785 ACACATATCA
Statistics
Matches: 246, Mismatches: 54, Indels: 28
0.75 0.16 0.09
Matches are distributed among these distances:
46 66 0.27
47 19 0.08
48 77 0.31
49 77 0.31
50 4 0.02
51 3 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTGTACATCTCGAGGCCGATG
Found at i:34621686 original size:46 final size:46
Alignment explanation
Indices: 34621511--34621781 Score: 145
Period size: 46 Copynumber: 5.7 Consensus size: 46
34621501 TCATATATCG
* * * *
34621511 AGGCCGATGCCATGTCCCAGGCAGGTCTTACACTGGCTCTCATCT-A
1 AGGCCAATG-CATGTCCTAGACATGTCTTACACTGGCTCTCATCTCA
* * * * * * * * *
34621557 TCGCTGTCGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCG
1 -AG--GCCAATG-CATGTCCTAGACATGTCTTACACTGGC-TCT-CATCTCA
* * * * * * *
34621609 AGGCCGATGCTTGTCCCAGACATGTTTTACACTAGCTCTCGTCTTA
1 AGGCCAATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCA
* * * *
34621655 ATGCCAATGCATGTCCTAGAAATGTCTTACACTGGCTTGTACATCTCG
1 AGGCCAATGCATGTCCTAGACATGTCTTACACTGGC-TCT-CATCTCA
* *
34621703 AGGCCGATGCATGTCCTAGACATGTCTTACCCTGGCTCTCA---CA
1 AGGCCAATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCA
* * *
34621746 ATGTGGCCGATGCATGTCCCAAACATGTCTTACACT
1 A---GGCCAATGCATGTCCTAGACATGTCTTACACT
34621782 AGCACACATA
Statistics
Matches: 177, Mismatches: 37, Indels: 21
0.75 0.16 0.09
Matches are distributed among these distances:
43 2 0.01
46 63 0.36
47 7 0.04
48 60 0.34
49 38 0.21
50 2 0.01
51 5 0.03
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (46 bp):
AGGCCAATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCA
Found at i:34621693 original size:94 final size:97
Alignment explanation
Indices: 34621424--34621743 Score: 328
Period size: 94 Copynumber: 3.3 Consensus size: 97
34621414 ATGCCGACGC
* ** * * * *
34621424 CATGTCCCAGACATGGTCTTACACTAGCTAGCA-C-ATCAAAGTCGATGCCATGTCCCAGATAGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTATCAATGCCAATGCCATGTCCCAGAAAGG
* * *
34621487 TCTTACATTGACTT-TCATATATCGAGGCCGATG
65 TCTTACACTGGCTTGT-ATATCTCGAGGCCGATG
* * ** * * *
34621520 CCATGTCCCAGGCAGGTCTTACACTGGCTCTCATCTATCGCTGTCGATGCCATGTCCCAGACAGG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCATCTATCAATGCCAATGCCATGTCCCAGAAAGG
*
34621585 TCTTACACTAGCTTGTATATCTCGAGGCCGATG
65 TCTTACACTGGCTTGTATATCTCGAGGCCGATG
* * * * * *
34621618 CTTGTCCCAGACATGTTTTACACTAGCTCTCGTCT-T-AATGCCAATG-CATGTCCTAGAAATGT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATCTATCAATGCCAATGCCATGTCCCAGAAAGGT
*
34621680 CTTACACTGGCTTGTACATCTCGAGGCCGATG
66 CTTACACTGGCTTGTATATCTCGAGGCCGATG
* *
34621712 CATGTCCTAGACATGTCTTACCCTGGCTCTCA
1 CATGTCCCAGACATGTCTTACACTGGCTCTCA
34621744 CAATGTGGCC
Statistics
Matches: 186, Mismatches: 34, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
94 69 0.37
95 6 0.03
96 16 0.09
97 42 0.23
98 52 0.28
99 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (97 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATCTATCAATGCCAATGCCATGTCCCAGAAAGGT
CTTACACTGGCTTGTATATCTCGAGGCCGATG
Found at i:34621759 original size:94 final size:93
Alignment explanation
Indices: 34621424--34621784 Score: 304
Period size: 94 Copynumber: 3.8 Consensus size: 93
34621414 ATGCCGACGC
* * * * *
34621424 CATGTCCCAGACATGGTCTTACACTAGCTAGCACATCAAAGT--CGATGCCATGTCCCAGATAGG
1 CATGTCCCAGACAT-GTCTTACACTGGCT--CTCA-CAATGTGCCGATG-CATGTCCCAGAAATG
* * *
34621487 TCTTACA-TTGACTT-TCATATATCGAGGCCGATG
61 TCTTACACTAG-CTTGT-ACATCTCGAGGCCGATG
* * * * * *
34621520 CCATGTCCCAGGCAGGTCTTACACTGGCTCTCATCTATCGCTGTCGATGCCATGTCCCAGACAGG
1 -CATGTCCCAGACATGTCTTACACTGGCTCTCA-CAAT-G-TGCCGATG-CATGTCCCAGAAATG
*
34621585 TCTTACACTAGCTTGTATATCTCGAGGCCGATG
61 TCTTACACTAGCTTGTACATCTCGAGGCCGATG
* * * * * *
34621618 CTTGTCCCAGACATGTTTTACACTAGCTCTCGTCTTAA--TGCCAATGCATGTCCTAGAAATGTC
1 CATGTCCCAGACATGTCTTACACTGGCTCTC-AC--AATGTGCCGATGCATGTCCCAGAAATGTC
*
34621681 TTACACTGGCTTGTACATCTCGAGGCCGATG
63 TTACACTAGCTTGTACATCTCGAGGCCGATG
* *
34621712 CATGTCCTAGACATGTCTTACCCTGGCTCTCACAATGTGGCCGATGCATGTCCCA-AACATGTCT
1 CATGTCCCAGACATGTCTTACACTGGCTCTCACAATGT-GCCGATGCATGTCCCAGAA-ATGTCT
34621776 TACACTAGC
64 TACACTAGC
34621785 ACACATATCA
Statistics
Matches: 219, Mismatches: 32, Indels: 29
0.78 0.11 0.10
Matches are distributed among these distances:
91 2 0.01
93 4 0.02
94 103 0.47
95 7 0.03
96 14 0.06
97 39 0.18
98 46 0.21
99 4 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCACAATGTGCCGATGCATGTCCCAGAAATGTCTTA
CACTAGCTTGTACATCTCGAGGCCGATG
Found at i:34624369 original size:49 final size:49
Alignment explanation
Indices: 34624305--34624435 Score: 174
Period size: 49 Copynumber: 2.7 Consensus size: 49
34624295 ACATCAAAGT
* *
34624305 CGATGCCATGTCCCAGATAGGTCTTACATTGACTTTCATATATCGAG-GC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCG-GTGC
* * * * *
34624354 CGATGTCGTGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGTGC
*
34624403 CGATGCCATGTCCTAGATAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGATAGGTCTTACACTGAC
34624436 ACACAACAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
48 1 0.01
49 69 0.99
ACGTcount: A:0.21, C:0.26, G:0.22, T:0.31
Consensus pattern (49 bp):
CGATGCCATGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:34629841 original size:72 final size:72
Alignment explanation
Indices: 34629745--34629921 Score: 187
Period size: 72 Copynumber: 2.5 Consensus size: 72
34629735 ATGCCCGCAT
* * * * * * *
34629745 TTGAGCTACTCATGAGTCTGTACACAAAGTTAGCA-CCTGAACCCCAAAGCATTATCATG-TAAT
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGAA-CCCAAAGCATTAACATGAT-AT
34629808 GCCCACTCA
64 GCCCACTCA
* *
34629817 TTGAGCTACTCACGGGTTTATACACAAAGTCAGTACCCGGAACCTAAAGCATTAACATGATATGC
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGAACCCAAAGCATTAACATGATATGC
* *
34629882 TCGCTCA
66 CCACTCA
** * *
34629889 GCGAGTTACTCACTGGTTTATACACAAAGTCAG
1 TTGAGCTACTCACGGGTTTATACACAAAGTCAG
34629922 TACTCGGACC
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
72 82 0.93
73 6 0.07
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (72 bp):
TTGAGCTACTCACGGGTTTATACACAAAGTCAGCACCCGGAACCCAAAGCATTAACATGATATGC
CCACTCA
Found at i:34630638 original size:20 final size:20
Alignment explanation
Indices: 34630613--34630651 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34630603 AAAATTTCAA
34630613 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
34630633 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
34630652 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:34632555 original size:26 final size:26
Alignment explanation
Indices: 34632524--34632576 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
34632514 GCTTCGTACA
34632524 CATAGTATCAACTACCACATAGGTAT
1 CATAGTATCAACTACCACATAGGTAT
34632550 CATAGTATCAACTACCACATAGGTAT
1 CATAGTATCAACTACCACATAGGTAT
34632576 C
1 C
34632577 GTACATACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.11, T:0.26
Consensus pattern (26 bp):
CATAGTATCAACTACCACATAGGTAT
Found at i:34642280 original size:44 final size:44
Alignment explanation
Indices: 34642232--34642333 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
34642222 CTTTAATAAC
34642232 TCGCACACTTAGTG-CAT-AAATGTGTAACCGAAGCTATAACGATA
1 TCGCACACTTAGTGCCATCAAAT-TG-AACCGAAGCTATAACGATA
* *** *
34642276 TCGCACACTTAGTGCCATCACATTGAACCGAAGCTATCTTGGTA
1 TCGCACACTTAGTGCCATCAAATTGAACCGAAGCTATAACGATA
34642320 TCGCACACTTAGTG
1 TCGCACACTTAGTG
34642334 ACACATAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 43 0.84
45 5 0.10
46 3 0.06
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (44 bp):
TCGCACACTTAGTGCCATCAAATTGAACCGAAGCTATAACGATA
Found at i:34645234 original size:26 final size:26
Alignment explanation
Indices: 34645198--34645279 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
34645188 GTGGCTGCAG
34645198 ATACCTTCATGAACCTCCCGGATCAC
1 ATACCTTCATGAACCTCCCGGATCAC
* *
34645224 ATACCTTCATGAACTTCTCGGATCAC
1 ATACCTTCATGAACCTCCCGGATCAC
*
34645250 ATACCTTCATGAACCTCCCGAATCAC
1 ATACCTTCATGAACCTCCCGGATCAC
34645276 ATAC
1 ATAC
34645280 TTAGTGTCAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.26
Consensus pattern (26 bp):
ATACCTTCATGAACCTCCCGGATCAC
Found at i:34647234 original size:128 final size:128
Alignment explanation
Indices: 34647003--34647261 Score: 491
Period size: 128 Copynumber: 2.0 Consensus size: 128
34646993 ACAAGATGTT
*
34647003 TTATTTTGGGTAGGATTTATTCATGTTCGTGAAGTCCACACACATTTGCCATTTGTTTCTGGCTT
1 TTATTTTGGGTAGGATTTATTCATGTTCATGAAGTCCACACACATTTGCCATTTGTTTCTGGCTT
*
34647068 GGGGTACCATTACGACATTTGATACCCAATTTAGGTAAGTGATTACATAGATAAAACCTACAA
66 GGGGTACCATTACGACATTTGATACCCAATTTAAGTAAGTGATTACATAGATAAAACCTACAA
34647131 TTATTTTGGGTAGGATTTATTCATGTTCATGAAGTCCACACACATTTGCCATTTGTTTCTGGCTT
1 TTATTTTGGGTAGGATTTATTCATGTTCATGAAGTCCACACACATTTGCCATTTGTTTCTGGCTT
*
34647196 GGGGTACCATTATGACATTTGATACCCAATTTAAGTAAGTGATTACATAGATAAAACCTACAA
66 GGGGTACCATTACGACATTTGATACCCAATTTAAGTAAGTGATTACATAGATAAAACCTACAA
34647259 TTA
1 TTA
34647262 GCAACATATT
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (128 bp):
TTATTTTGGGTAGGATTTATTCATGTTCATGAAGTCCACACACATTTGCCATTTGTTTCTGGCTT
GGGGTACCATTACGACATTTGATACCCAATTTAAGTAAGTGATTACATAGATAAAACCTACAA
Found at i:34651610 original size:11 final size:11
Alignment explanation
Indices: 34651596--34651626 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
34651586 CGAGACTTAA
*
34651596 GAAAATTTTTG
1 GAAAATTTCTG
34651607 GAAAATTTCTG
1 GAAAATTTCTG
34651618 GAAAATTTC
1 GAAAATTTC
34651627 CTAGGTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (11 bp):
GAAAATTTCTG
Found at i:34654644 original size:42 final size:43
Alignment explanation
Indices: 34654597--34654718 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 43
34654587 AGCTCTTACA
* *
34654597 ATGCCATATCCTAGATATGGTCTTACATGTTATCACATAT-CG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCACATATGCG
* * *
34654639 ATGCCACTATCCCAAATA-GCGTCTTAAACG-AATCA-ATATGCG
1 ATGCCA-TATCCCAGATATG-GTCTTACATGTAATCACATATGCG
* *
34654681 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAATCACA
34654719 ACTCGATAAC
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
41 4 0.06
42 34 0.54
43 24 0.38
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCACATATGCG
Found at i:34656349 original size:20 final size:20
Alignment explanation
Indices: 34656324--34656364 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
34656314 GACTTAGTTT
34656324 GCCTTTACGACCAAATCGAA
1 GCCTTTACGACCAAATCGAA
34656344 GCCTTTACGACCAAATCGAA
1 GCCTTTACGACCAAATCGAA
34656364 G
1 G
34656365 TATTTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (20 bp):
GCCTTTACGACCAAATCGAA
Found at i:34673106 original size:34 final size:34
Alignment explanation
Indices: 34673063--34673127 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
34673053 CGCAACAATT
*
34673063 TTGTTCCCTAAACTTCTTTTTTAACCTTTAATAA
1 TTGTTCCCTAAACTTCGTTTTTAACCTTTAATAA
34673097 TTGTTCCCTAAACTTCGTTTTTAACCTTTAA
1 TTGTTCCCTAAACTTCGTTTTTAACCTTTAA
34673128 CTAGCTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.05, T:0.49
Consensus pattern (34 bp):
TTGTTCCCTAAACTTCGTTTTTAACCTTTAATAA
Found at i:34679057 original size:23 final size:23
Alignment explanation
Indices: 34679015--34679166 Score: 103
Period size: 23 Copynumber: 6.5 Consensus size: 23
34679005 TCTGTTCGAA
*
34679015 AGAGCTTACTGTTTTCAGCTCATT
1 AGAGCTTACCG-TTTCAGCTCATT
* *
34679039 GGAGCTTACCGTTTCAGCTC-GT
1 AGAGCTTACCGTTTCAGCTCATT
* *
34679061 ATGAGCTTACTG-TTCAGCTCGA-A
1 A-GAGCTTACCGTTTCAGCTC-ATT
* * *
34679084 AGAGCTTAACGTTTCAGCTTAAT
1 AGAGCTTACCGTTTCAGCTCATT
* * *
34679107 AGAGCTTACCATTTTAGCTCAAT
1 AGAGCTTACCGTTTCAGCTCATT
* * *
34679130 AGAGCTTACTGTTCATCAGCTTATG
1 AGAGCTTACCGTT--TCAGCTCATT
34679155 AGGAGCTTACCG
1 A-GAGCTTACCG
34679167 ATCATGGCTC
Statistics
Matches: 99, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
22 18 0.18
23 56 0.57
24 9 0.09
25 7 0.07
26 9 0.09
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (23 bp):
AGAGCTTACCGTTTCAGCTCATT
Found at i:34679079 original size:22 final size:23
Alignment explanation
Indices: 34678984--34679102 Score: 102
Period size: 22 Copynumber: 5.2 Consensus size: 23
34678974 GGATTCACCA
*
34678984 CAGCTCGTATGAGCTTATTG-TT
1 CAGCTCGTATGAGCTTACTGTTT
* * * *
34679006 CTGTTCGAAAGAGCTTACTGTTTT
1 CAGCTCGTATGAGCTTACTG-TTT
* *
34679030 CAGCTCAT-TGGAGCTTACCGTTT
1 CAGCTCGTAT-GAGCTTACTGTTT
34679053 CAGCTCGTATGAGCTTACTG-TT
1 CAGCTCGTATGAGCTTACTGTTT
* *
34679075 CAGCTCGAAAGAGCTTAAC-GTTT
1 CAGCTCGTATGAGCTT-ACTGTTT
34679098 CAGCT
1 CAGCT
34679103 TAATAGAGCT
Statistics
Matches: 76, Mismatches: 15, Indels: 11
0.75 0.15 0.11
Matches are distributed among these distances:
22 32 0.42
23 28 0.37
24 16 0.21
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACTGTTT
Found at i:34679136 original size:68 final size:69
Alignment explanation
Indices: 34678984--34679144 Score: 193
Period size: 68 Copynumber: 2.3 Consensus size: 69
34678974 GGATTCACCA
* * * * * *
34678984 CAGCTCGTATGAGCTTATTGTTCTGTTCGAAAGAGCTTACTGTTTTCAGCTCATTGGAGCTTACC
1 CAGCTCATATGAGCTTACTGTTCAGCTCGAAAGAGCTTACTGTTTTCAGCTCAATAGAGCTTACC
*
34679049 GTTT
66 ATTT
* *
34679053 CAGCTCGTATGAGCTTACTGTTCAGCTCGAAAGAGCTTAAC-G-TTTCAGCTTAATAGAGCTTAC
1 CAGCTCATATGAGCTTACTGTTCAGCTCGAAAGAGCTT-ACTGTTTTCAGCTCAATAGAGCTTAC
34679116 CATTT
65 CATTT
*
34679121 TAGCTCA-ATAGAGCTTACTGTTCA
1 CAGCTCATAT-GAGCTTACTGTTCA
34679145 TCAGCTTATG
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
67 2 0.02
68 41 0.51
69 36 0.44
70 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (69 bp):
CAGCTCATATGAGCTTACTGTTCAGCTCGAAAGAGCTTACTGTTTTCAGCTCAATAGAGCTTACC
ATTT
Found at i:34688116 original size:22 final size:22
Alignment explanation
Indices: 34688065--34688107 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
34688055 AAATGAGTAT
34688065 AAGATGGCACCATACGAAGCTA
1 AAGATGGCACCATACGAAGCTA
*
34688087 AAGATGGCACCGTACGAAGCT
1 AAGATGGCACCATACGAAGCT
34688108 TTATATGGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (22 bp):
AAGATGGCACCATACGAAGCTA
Found at i:34690402 original size:43 final size:43
Alignment explanation
Indices: 34690308--34690419 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
34690298 AATGTGATGG
* *
34690308 AATGGATTTAGCCTGGACGGGTAATCCATTGATCTCTGTATGG
1 AATGGATTTAGCCTGGACGGGTAATCCATTGATCTCAGTATGA
* * * *
34690351 AATGGATTTAGCCCGGATGGGTAATCCATTGATTTCAGTATATA
1 AATGGATTTAGCCTGGACGGGTAATCCATTGATCTCAGTAT-GA
*
34690395 AAT-GATTTAACCTGGACGGGTAATC
1 AATGGATTTAGCCTGGACGGGTAATC
34690420 TTGAGTTGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 56 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
AATGGATTTAGCCTGGACGGGTAATCCATTGATCTCAGTATGA
Found at i:34703002 original size:14 final size:14
Alignment explanation
Indices: 34702983--34703012 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
34702973 ACCCCTTCAT
*
34702983 TCCCTCATTCATCA
1 TCCCTCATCCATCA
34702997 TCCCTCATCCATCA
1 TCCCTCATCCATCA
34703011 TC
1 TC
34703013 ATTCTCTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (14 bp):
TCCCTCATCCATCA
Found at i:34723206 original size:20 final size:20
Alignment explanation
Indices: 34723181--34723218 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34723171 GTAAAATTTA
34723181 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
34723201 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
34723219 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:34739766 original size:8 final size:8
Alignment explanation
Indices: 34739753--34739790 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
34739743 AATCTTGATT
34739753 TTTAAAAA
1 TTTAAAAA
34739761 TTT-AAAA
1 TTTAAAAA
*
34739768 TTTAAAAT
1 TTTAAAAA
34739776 TTTAAAAA
1 TTTAAAAA
*
34739784 ATTAAAA
1 TTTAAAA
34739791 TTAAAAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TTTAAAAA
Found at i:34739773 original size:15 final size:15
Alignment explanation
Indices: 34739753--34739782 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34739743 AATCTTGATT
34739753 TTTAAAAATTTAAAA
1 TTTAAAAATTTAAAA
*
34739768 TTTAAAATTTTAAAA
1 TTTAAAAATTTAAAA
34739783 AATTAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTTAAAAATTTAAAA
Found at i:34739781 original size:23 final size:24
Alignment explanation
Indices: 34739752--34739807 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
34739742 TAATCTTGAT
* *
34739752 TTTTAAAAATTTAAAATTTAAAA-
1 TTTTAAAAAATTAAAATTAAAAAC
34739775 TTTTAAAAAATTAAAATTAAAAAC
1 TTTTAAAAAATTAAAATTAAAAAC
34739799 TATTTAAAA
1 T-TTTAAAA
34739808 GTTCATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 21 0.72
24 1 0.03
25 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
TTTTAAAAAATTAAAATTAAAAAC
Found at i:34740988 original size:7 final size:7
Alignment explanation
Indices: 34740976--34741015 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
34740966 TAGTCGATTC
34740976 GTATTTA
1 GTATTTA
34740983 GTATTTA
1 GTATTTA
34740990 GTATTTA
1 GTATTTA
*
34740997 GTATTTC
1 GTATTTA
34741004 GTATTTA
1 GTATTTA
*
34741011 TTATT
1 GTATT
34741016 ATGCATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.60
Consensus pattern (7 bp):
GTATTTA
Found at i:34745458 original size:126 final size:125
Alignment explanation
Indices: 34745233--34745732 Score: 793
Period size: 126 Copynumber: 4.0 Consensus size: 125
34745223 GCCAAATAGG
* *
34745233 AACTACTGTAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAA-AACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* *
34745298 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTATCAGA
65 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
*
34745359 AACTACTGTAGAAAAAGAACGTCCACGTGGGAGCTTTTTTTAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAAA-AACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* *
34745424 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
65 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* * *
34745485 AACTACTGTAGAAAAAAAGCGTCAACGTGGGATCTTTTTTCAGTACTTTTGCTAACAGTGCATCC
1 AACTACTGTAGAAAAAAA-CGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * *
34745550 TTCTTGAAGCATTTTTGACACTATTTGTTCAGAATCATCTTCTCAAAAATATTTTTTCAGA
65 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
* *
34745611 AATTACTGTAGAAAACAAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
1 AACTACTGTAGAAAA-AAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCC
* * * *
34745676 TGCTTGAAGCATTTTTAACACTTTTTGTTCAGAAACAACTTCGCAAAATTATTTTTT
65 TGCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTT
34745733 TAGATACGCC
Statistics
Matches: 346, Mismatches: 26, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
125 2 0.01
126 342 0.99
127 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (125 bp):
AACTACTGTAGAAAAAAACGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAGTGCATCCT
GCTTGAAGCATTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGA
Found at i:34745755 original size:28 final size:28
Alignment explanation
Indices: 34745724--34745790 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
34745714 CTTCGCAAAA
*
34745724 TTATTTTTTTAGATACGCCTTCTCTAAT
1 TTATTTTTTCAGATACGCCTTCTCTAAT
*
34745752 TTATTTTTTCAGATACGTCTTCTCTAAT
1 TTATTTTTTCAGATACGCCTTCTCTAAT
34745780 TTATTTTTTCA
1 TTATTTTTTCA
34745791 AAAATTACTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.21, C:0.16, G:0.06, T:0.57
Consensus pattern (28 bp):
TTATTTTTTCAGATACGCCTTCTCTAAT
Found at i:34746005 original size:14 final size:14
Alignment explanation
Indices: 34745986--34746030 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
34745976 TTTTTTAAAA
* *
34745986 AAATTCTAAATCTT
1 AAATTCTAAACCCT
34746000 AAATTCTAAACCCT
1 AAATTCTAAACCCT
*
34746014 AAACTCTAAACCCT
1 AAATTCTAAACCCT
34746028 AAA
1 AAA
34746031 CACTAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATTCTAAACCCT
Found at i:34746023 original size:21 final size:21
Alignment explanation
Indices: 34745991--34746037 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
34745981 TAAAAAAATT
** *
34745991 CTAAATCTTAAATTCTAAACC
1 CTAAATCTTAAACCCTAAACA
34746012 CTAAA-CTCTAAACCCTAAACA
1 CTAAATCT-TAAACCCTAAACA
34746033 CTAAA
1 CTAAA
34746038 ACAATAACCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.26
Consensus pattern (21 bp):
CTAAATCTTAAACCCTAAACA
Found at i:34746031 original size:14 final size:14
Alignment explanation
Indices: 34745999--34746037 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
34745989 TTCTAAATCT
*
34745999 TAAATTCTAAACCC
1 TAAACTCTAAACCC
34746013 TAAACTCTAAACCC
1 TAAACTCTAAACCC
*
34746027 TAAACACTAAA
1 TAAACTCTAAA
34746038 ACAATAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACTCTAAACCC
Found at i:34754189 original size:48 final size:48
Alignment explanation
Indices: 34754131--34754507 Score: 284
Period size: 48 Copynumber: 8.0 Consensus size: 48
34754121 CGGCCACATT
* *
34754131 ATGAGAGCTAGTTTAAGACCATGTCTGGGACATGGAATCGGCATTGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * *
34754179 ACGAGAGCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* *
34754225 ATGTA-AGAC-AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-TACGAG
1 ATG-AGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAG
* *
34754271 ATGTG-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTAT-AG
1 ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TGAG
* * * *
34754319 A-G-GTG-TCAGTGTAAGACCATGTCCGGGACATGGCATCGGCATGGAT
1 ATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * * * *
34754365 ATGTGAGAGCTAGTGTAAGACCATGT-TTGGACATGGCGTCAGCCTCGAT
1 A--TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* * * **
34754414 TTCGATAGTTAGTGTAAGACCATGTCTGGGACATGGCATC-AAATT--G
1 AT-GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
* *
34754460 ATGGATGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTG
1 AT-GA-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTG
34754508 TGTAGCAGCC
Statistics
Matches: 265, Mismatches: 41, Indels: 45
0.75 0.12 0.13
Matches are distributed among these distances:
44 10 0.04
45 14 0.05
46 66 0.25
47 49 0.18
48 76 0.29
49 32 0.12
50 17 0.06
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (48 bp):
ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG
Found at i:34754622 original size:14 final size:14
Alignment explanation
Indices: 34754603--34754629 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
34754593 CCATTTTTAT
34754603 TATGTGTGAAATTA
1 TATGTGTGAAATTA
34754617 TATGTGTGAAATT
1 TATGTGTGAAATT
34754630 TTCGTGATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TATGTGTGAAATTA
Found at i:34755160 original size:15 final size:15
Alignment explanation
Indices: 34755140--34755170 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34755130 AATTATGAAA
34755140 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
34755155 GATATGTTTTGTATT
1 GATATGTTTTGGATT
34755170 G
1 G
34755171 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:34756653 original size:27 final size:27
Alignment explanation
Indices: 34756587--34756710 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
34756577 CAAAGCAAAC
* *
34756587 TCGCACACTTAGTGCTACATAGTCAAAC
1 TCGCACACTTAGTGCAACATAGTC-AAT
** *
34756615 TCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCAACATAGTCAAT
* * *
34756642 TCGCACACTTAGTGCATCATATTCATT
1 TCGCACACTTAGTGCAACATAGTCAAT
**
34756669 TCGCACACTTAGTGCAACATAGTCAGG
1 TCGCACACTTAGTGCAACATAGTCAAT
34756696 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
34756711 TGTACAATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 62 0.75
28 21 0.25
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (27 bp):
TCGCACACTTAGTGCAACATAGTCAAT
Found at i:34756683 original size:54 final size:55
Alignment explanation
Indices: 34756587--34756739 Score: 159
Period size: 54 Copynumber: 2.8 Consensus size: 55
34756577 CAAAGCAAAC
** * *
34756587 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAAT
1 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAG
* ** *
34756642 TCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAGG
1 TCGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAG
* * *
34756696 TCGCACACTTAGTGCTGTACA-ATTTAAACCCGCACACTTAGTGC
1 TCGCACACTTAGTGC--TACATAGTCAAACTCGCACACTTAGTGC
34756740 CAATCTCATG
Statistics
Matches: 81, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
54 39 0.48
55 24 0.30
56 17 0.21
57 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (55 bp):
TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAG
Found at i:34758371 original size:43 final size:43
Alignment explanation
Indices: 34758307--34758398 Score: 141
Period size: 43 Copynumber: 2.1 Consensus size: 43
34758297 GGCTATCACA
34758307 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACGA-GT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTAC-ATGT
* * *
34758350 AAGACCTTGTCTGGGATAGTGGCATTGATATGTGATTACATGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGT
34758393 AAGACC
1 AAGACC
34758399 ACGTTAGGGA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 1 0.02
43 44 0.98
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (43 bp):
AAGACCCTGTCTGGGACAGTGGCATCGATATGTGATTACATGT
Found at i:34765182 original size:47 final size:47
Alignment explanation
Indices: 34765128--34765258 Score: 201
Period size: 47 Copynumber: 2.8 Consensus size: 47
34765118 GTGAAAATAA
*
34765128 TACCTTGATTTGTCTACGGGCCATGGTATAGGTA-TTCAGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTC-GAGAGGAGT
* * *
34765175 TACCTTGATTTGGCTACGGGCAATGGTATAGGTACTTCGGGATGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGAGGAGT
*
34765222 TACCTTGATTTGGCTACGGGCCATGATATAGGTACTT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTT
34765259 ATCGATTGAG
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
47 74 0.96
48 3 0.04
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTCGAGAGGAGT
Found at i:34772414 original size:40 final size:40
Alignment explanation
Indices: 34772162--34772407 Score: 431
Period size: 40 Copynumber: 6.2 Consensus size: 40
34772152 AACCCAAGTA
* *
34772162 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34772201 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34772241 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34772281 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34772321 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34772361 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
34772401 CCTTCGG
1 CCTTCGG
34772408 ATCTTAGTCC
Statistics
Matches: 202, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
39 13 0.06
40 189 0.94
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34773733 original size:13 final size:13
Alignment explanation
Indices: 34773710--34773743 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34773700 TTATTTTATT
34773710 ATTTCTAACACAAA
1 ATTT-TAACACAAA
34773724 ATTTTAACACAAA
1 ATTTTAACACAAA
34773737 ATGTTTA
1 AT-TTTA
34773744 TAATATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (13 bp):
ATTTTAACACAAA
Found at i:34774314 original size:103 final size:103
Alignment explanation
Indices: 34774135--34774340 Score: 340
Period size: 103 Copynumber: 2.0 Consensus size: 103
34774125 AGTTCTCGGT
* * *
34774135 TTCCCAAGTAGCTTCTTCGATCCCGTGTTTGAGCCATAACACCTTTACTAACGGAACCCTTTTGT
1 TTCCCAAGTAGCTTCTTCCATCCCGTGTTTGAACCATAACACCTTTACTAAAGGAACCCTTTTGT
34774200 TTCGCAACTCTTTCACTTCACGAGCTAGGATACGAATC
66 TTCGCAACTCTTTCACTTCACGAGCTAGGATACGAATC
* * *
34774238 TTCCCAAGTAGCTTCTTCCATCTCGTGTTTGAACCATAACACTTTTACTAAAGGAACCTTTTTGT
1 TTCCCAAGTAGCTTCTTCCATCCCGTGTTTGAACCATAACACCTTTACTAAAGGAACCCTTTTGT
* *
34774303 TTTGTAACTCTTTCACTTCACGAGCTAGGATACGAATC
66 TTCGCAACTCTTTCACTTCACGAGCTAGGATACGAATC
34774341 GGTTCTTCTT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 95 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (103 bp):
TTCCCAAGTAGCTTCTTCCATCCCGTGTTTGAACCATAACACCTTTACTAAAGGAACCCTTTTGT
TTCGCAACTCTTTCACTTCACGAGCTAGGATACGAATC
Found at i:34782319 original size:40 final size:40
Alignment explanation
Indices: 34782147--34782312 Score: 237
Period size: 40 Copynumber: 4.2 Consensus size: 40
34782137 AAACCAAGTA
* *
34782147 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATG
** * *
34782186 CCTTCGGGACTTAGTTCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
34782226 CCTTCGGGACTTAGCCTGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
34782266 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
34782306 CCTTCGG
1 CCTTCGG
34782313 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 14 0.12
40 101 0.88
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:34787544 original size:43 final size:41
Alignment explanation
Indices: 34787496--34787613 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 41
34787486 AACATATACA
* *
34787496 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACGTCCCAGACATGGTCTTACACGTAATCAAACA-CG
* * * *
34787539 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCAGATACG
1 ATGCCAC-GTCCCAGACATGGTCTTACACGTAATCAAACACG
*
34787581 ATGCCGATGTCCCAGACATGGTCTTACACGTAA
1 ATGCC-ACGTCCCAGACATGGTCTTACACGTAA
34787614 AACAAAAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 32 0.50
43 32 0.50
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (41 bp):
ATGCCACGTCCCAGACATGGTCTTACACGTAATCAAACACG
Found at i:34787596 original size:42 final size:43
Alignment explanation
Indices: 34787496--34787660 Score: 140
Period size: 43 Copynumber: 3.8 Consensus size: 43
34787486 AACATATACA
* * *
34787496 ATGCCAAC-GTCCCAGACGTGGTCTTACATGTAATCAAACATCG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCAAACATCG
* * *
34787539 ATGCCACTGTCCCAGACAAGGTCTTACACGAAATCAGATA-CG
1 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAACATCG
* * *
34787581 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAAAACAAAAATTG
1 ATGCC-ACTGTCCCAGACATGGTCTTACACG-AAATCAAACATCG
* * * * *
34787625 ATTCCAAC-ATCCCAGGCCTAGTCTTACACGAAATCA
1 ATGCC-ACTGTCCCAGACATGGTCTTACACGAAATCA
34787661 CATAACGAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 31 0.31
43 44 0.44
44 24 0.24
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAACATCG
Found at i:34794074 original size:34 final size:33
Alignment explanation
Indices: 34794036--34794100 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 33
34794026 GTAACAGTTA
* *
34794036 GGGCCTTAGCCCAATACATTATCAGTAGCAGTGT
1 GGGCCTTAGCCCAATACAGTAACAGTA-CAGTGT
34794070 GGGCCTTAGCCCAATACAGTAACAGTACAGT
1 GGGCCTTAGCCCAATACAGTAACAGTACAGT
34794101 AATGCATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 4 0.14
34 25 0.86
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (33 bp):
GGGCCTTAGCCCAATACAGTAACAGTACAGTGT
Found at i:34802773 original size:27 final size:27
Alignment explanation
Indices: 34802741--34802917 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
34802731 GATCATACAT
* * *
34802741 AAATAGTCATCTTACCAGATAAGGGTA
1 AAATAGTCATTTTACCACATAAGGGCA
* * * *
34802768 AAATAGTCATTTTATCATAAATAGGGTA
1 AAATAGTCATTTTACCACATA-AGGGCA
* *
34802796 AAAGAGTCATTCTACCACATAAGGGCA
1 AAATAGTCATTTTACCACATAAGGGCA
* * *
34802823 AAACAGTCATTTTACCATATAAGGGGA
1 AAATAGTCATTTTACCACATAAGGGCA
* * *
34802850 ATACAATCATTTTACCACATAAGGGCA
1 AAATAGTCATTTTACCACATAAGGGCA
*
34802877 AAATAGTCATTTTACCACATAATGGCA
1 AAATAGTCATTTTACCACATAAGGGCA
*
34802904 AAATAATCATTTTA
1 AAATAGTCATTTTA
34802918 TCAATTAGGG
Statistics
Matches: 126, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
27 104 0.83
28 22 0.17
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (27 bp):
AAATAGTCATTTTACCACATAAGGGCA
Found at i:34805297 original size:142 final size:142
Alignment explanation
Indices: 34805099--34805382 Score: 568
Period size: 142 Copynumber: 2.0 Consensus size: 142
34805089 CGGCACTATA
34805099 CAGTAATATGGAGCTGGGCTGCCAGTAATTTAGGCTCGAAGCCTTTCAGTACACTTCCTCCGATC
1 CAGTAATATGGAGCTGGGCTGCCAGTAATTTAGGCTCGAAGCCTTTCAGTACACTTCCTCCGATC
34805164 AGTATAAACTCATCCCCATGATATACATCATACAGTCATGTCATGTCATATCATAGAATCATACA
66 AGTATAAACTCATCCCCATGATATACATCATACAGTCATGTCATGTCATATCATAGAATCATACA
34805229 TGTATCCATTAC
131 TGTATCCATTAC
34805241 CAGTAATATGGAGCTGGGCTGCCAGTAATTTAGGCTCGAAGCCTTTCAGTACACTTCCTCCGATC
1 CAGTAATATGGAGCTGGGCTGCCAGTAATTTAGGCTCGAAGCCTTTCAGTACACTTCCTCCGATC
34805306 AGTATAAACTCATCCCCATGATATACATCATACAGTCATGTCATGTCATATCATAGAATCATACA
66 AGTATAAACTCATCCCCATGATATACATCATACAGTCATGTCATGTCATATCATAGAATCATACA
34805371 TGTATCCATTAC
131 TGTATCCATTAC
34805383 AATTCAAATA
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
142 142 1.00
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (142 bp):
CAGTAATATGGAGCTGGGCTGCCAGTAATTTAGGCTCGAAGCCTTTCAGTACACTTCCTCCGATC
AGTATAAACTCATCCCCATGATATACATCATACAGTCATGTCATGTCATATCATAGAATCATACA
TGTATCCATTAC
Found at i:34805469 original size:27 final size:27
Alignment explanation
Indices: 34805431--34805591 Score: 171
Period size: 27 Copynumber: 6.0 Consensus size: 27
34805421 ATATATATGT
* *
34805431 CACATAGGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
34805458 CATATAAGGGCAAAACAGTCATTTTAT
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
34805485 CATAAATAGGGCAAAATAGTCATTCTAC
1 CACATA-AGGGCAAAACAGTCATTTTAC
* *
34805513 CACATAA-GGCAAAATAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
34805539 CACATAAGGGTAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
34805566 TAGATAAAGGCAAAACAATCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
34805592 TCAATTAGGG
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 24 0.21
27 66 0.59
28 22 0.20
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:34808790 original size:49 final size:49
Alignment explanation
Indices: 34808685--34808813 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
34808675 CTTCGGGACT
* * * *
34808685 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
34808732 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
34808781 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
34808814 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:34840324 original size:567 final size:567
Alignment explanation
Indices: 34839250--34840385 Score: 2272
Period size: 567 Copynumber: 2.0 Consensus size: 567
34839240 AAAGATAACA
34839250 ATGTAACACCCCTAACCGACATCCGTCGCTGGACTAGGGTTACGAGACATTACCGATCATACAAA
1 ATGTAACACCCCTAACCGACATCCGTCGCTGGACTAGGGTTACGAGACATTACCGATCATACAAA
34839315 TTACTTATACGAATATTTATTAATATAGATGTCTATACCAACTTCATTAATAAATCGGGAACATT
66 TTACTTATACGAATATTTATTAATATAGATGTCTATACCAACTTCATTAATAAATCGGGAACATT
34839380 TCATACGATAGTATAAACTTTACATACAATTATCCCTATCAAAGTTTGAAACATTTTGAACACCT
131 TCATACGATAGTATAAACTTTACATACAATTATCCCTATCAAAGTTTGAAACATTTTGAACACCT
34839445 AAAATAAATGAGACAAGATAAATTGTACTTAAACCACTAAATTACCTAAATTATGTTCGATCATT
196 AAAATAAATGAGACAAGATAAATTGTACTTAAACCACTAAATTACCTAAATTATGTTCGATCATT
34839510 TTATGCATTATATTAAATCATTGGTGCAGCTTTTATTCCTAAATTTTTATCAACTTTGCATGTAT
261 TTATGCATTATATTAAATCATTGGTGCAGCTTTTATTCCTAAATTTTTATCAACTTTGCATGTAT
34839575 TATATAATTACACAAACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTTT
326 TATATAATTACACAAACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTTT
34839640 AGCTATTCGGTTATCACAAGCTAAATTGCATAATTTCGTAGCTTTACAAAAAAAATCAACGAATC
391 AGCTATTCGGTTATCACAAGCTAAATTGCATAATTTCGTAGCTTTACAAAAAAAATCAACGAATC
34839705 AATATAATCATGCATGTTTGCAACCCAATCATCATACAAACATCTATAAATATATGTGACAAGAC
456 AATATAATCATGCATGTTTGCAACCCAATCATCATACAAACATCTATAAATATATGTGACAAGAC
34839770 ATATAAGGATCCATCTGTATGTCATGATCAAATACTCAGTCACATAT
521 ATATAAGGATCCATCTGTATGTCATGATCAAATACTCAGTCACATAT
34839817 ATGTAACACCCCTAACCGACATCCGTCGCTGGACTAGGGTTACGAGACATTACCGATCATACAAA
1 ATGTAACACCCCTAACCGACATCCGTCGCTGGACTAGGGTTACGAGACATTACCGATCATACAAA
34839882 TTACTTATACGAATATTTATTAATATAGATGTCTATACCAACTTCATTAATAAATCGGGAACATT
66 TTACTTATACGAATATTTATTAATATAGATGTCTATACCAACTTCATTAATAAATCGGGAACATT
34839947 TCATACGATAGTATAAACTTTACATACAATTATCCCTATCAAAGTTTGAAACATTTTGAACACCT
131 TCATACGATAGTATAAACTTTACATACAATTATCCCTATCAAAGTTTGAAACATTTTGAACACCT
34840012 AAAATAAATGAGACAAGATAAATTGTACTTAAACCACTAAATTACCTAAATTATGTTCGATCATT
196 AAAATAAATGAGACAAGATAAATTGTACTTAAACCACTAAATTACCTAAATTATGTTCGATCATT
34840077 TTATGCATTATATTAAATCATTGGTGCAGCTTTTATTCCTAAATTTTTATCAACTTTGCATGTAT
261 TTATGCATTATATTAAATCATTGGTGCAGCTTTTATTCCTAAATTTTTATCAACTTTGCATGTAT
34840142 TATATAATTACACAAACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTTT
326 TATATAATTACACAAACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTTT
34840207 AGCTATTCGGTTATCACAAGCTAAATTGCATAATTTCGTAGCTTTACAAAAAAAATCAACGAATC
391 AGCTATTCGGTTATCACAAGCTAAATTGCATAATTTCGTAGCTTTACAAAAAAAATCAACGAATC
34840272 AATATAATCATGCATGTTTGCAACCCAATCATCATACAAACATCTATAAATATATGTGACAAGAC
456 AATATAATCATGCATGTTTGCAACCCAATCATCATACAAACATCTATAAATATATGTGACAAGAC
34840337 ATATAAGGATCCATCTGTATGTCATGATCAAATACTCAGTCACATAT
521 ATATAAGGATCCATCTGTATGTCATGATCAAATACTCAGTCACATAT
34840384 AT
1 AT
34840386 CCATTTATAA
Statistics
Matches: 569, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
567 569 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (567 bp):
ATGTAACACCCCTAACCGACATCCGTCGCTGGACTAGGGTTACGAGACATTACCGATCATACAAA
TTACTTATACGAATATTTATTAATATAGATGTCTATACCAACTTCATTAATAAATCGGGAACATT
TCATACGATAGTATAAACTTTACATACAATTATCCCTATCAAAGTTTGAAACATTTTGAACACCT
AAAATAAATGAGACAAGATAAATTGTACTTAAACCACTAAATTACCTAAATTATGTTCGATCATT
TTATGCATTATATTAAATCATTGGTGCAGCTTTTATTCCTAAATTTTTATCAACTTTGCATGTAT
TATATAATTACACAAACTAAAGTCAAACATTTAGGAATATACAAAGAAAATCTGTTCCATTCTTT
AGCTATTCGGTTATCACAAGCTAAATTGCATAATTTCGTAGCTTTACAAAAAAAATCAACGAATC
AATATAATCATGCATGTTTGCAACCCAATCATCATACAAACATCTATAAATATATGTGACAAGAC
ATATAAGGATCCATCTGTATGTCATGATCAAATACTCAGTCACATAT
Found at i:34851007 original size:210 final size:210
Alignment explanation
Indices: 34850645--34851044 Score: 800
Period size: 210 Copynumber: 1.9 Consensus size: 210
34850635 CAAAAACTCC
34850645 AATATGTTAATCTAAAACATATCTTTCATTTTTCATCATCAACAAAAAATATCAAAAGTTATCAA
1 AATATGTTAATCTAAAACATATCTTTCATTTTTCATCATCAACAAAAAATATCAAAAGTTATCAA
34850710 CAATGGAACAAATCAAAATATCCATCAAAATCAAAAATTCAAGCATGGGTTTTGTAGTACTCGAA
66 CAATGGAACAAATCAAAATATCCATCAAAATCAAAAATTCAAGCATGGGTTTTGTAGTACTCGAA
34850775 GCAACGATCTCAAAAACGTAGAAATTATCAAAAATCGATAAAGAACGAACCTTGATTTTTCTCAA
131 GCAACGATCTCAAAAACGTAGAAATTATCAAAAATCGATAAAGAACGAACCTTGATTTTTCTCAA
34850840 AAAACTCCAATACAA
196 AAAACTCCAATACAA
34850855 AATATGTTAATCTAAAACATATCTTTCATTTTTCATCATCAACAAAAAATATCAAAAGTTATCAA
1 AATATGTTAATCTAAAACATATCTTTCATTTTTCATCATCAACAAAAAATATCAAAAGTTATCAA
34850920 CAATGGAACAAATCAAAATATCCATCAAAATCAAAAATTCAAGCATGGGTTTTGTAGTACTCGAA
66 CAATGGAACAAATCAAAATATCCATCAAAATCAAAAATTCAAGCATGGGTTTTGTAGTACTCGAA
34850985 GCAACGATCTCAAAAACGTAGAAATTATCAAAAATCGATAAAGAACGAACCTTGATTTTT
131 GCAACGATCTCAAAAACGTAGAAATTATCAAAAATCGATAAAGAACGAACCTTGATTTTT
34851045 GCTTGAAAGA
Statistics
Matches: 190, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 190 1.00
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.28
Consensus pattern (210 bp):
AATATGTTAATCTAAAACATATCTTTCATTTTTCATCATCAACAAAAAATATCAAAAGTTATCAA
CAATGGAACAAATCAAAATATCCATCAAAATCAAAAATTCAAGCATGGGTTTTGTAGTACTCGAA
GCAACGATCTCAAAAACGTAGAAATTATCAAAAATCGATAAAGAACGAACCTTGATTTTTCTCAA
AAAACTCCAATACAA
Found at i:34856178 original size:37 final size:36
Alignment explanation
Indices: 34856131--34856273 Score: 164
Period size: 37 Copynumber: 3.9 Consensus size: 36
34856121 ATACATGTGG
*
34856131 TACGTGTAAGACCATAGCTGGGCTATGGCATCGTAA
1 TACGTGTAAGACCATAGCTGGGCTATGGCATCGTGA
* *
34856167 TAACGTATAAGACCATAGCTGGGCTATGGCATCATGA
1 T-ACGTGTAAGACCATAGCTGGGCTATGGCATCGTGA
* ** * *
34856204 TGACATGTAAGACCATAGCTATGTTATGGCATTGTGA
1 T-ACGTGTAAGACCATAGCTGGGCTATGGCATCGTGA
34856241 TACGTGTAAGACCAT-GTCTGGGAC-ATGGCATCG
1 TACGTGTAAGACCATAG-CTGGG-CTATGGCATCG
34856274 ATATGAGATC
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
35 1 0.01
36 25 0.28
37 62 0.70
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (36 bp):
TACGTGTAAGACCATAGCTGGGCTATGGCATCGTGA
Found at i:34856291 original size:42 final size:42
Alignment explanation
Indices: 34856244--34856583 Score: 190
Period size: 42 Copynumber: 7.7 Consensus size: 42
34856234 ATTGTGATAC
* *
34856244 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
* * *
34856286 GTGTAAGACCATATCTGCGATATGGCATCACCATCATATGAGATCTT
1 GTGTAAGACCATATCTGGGACATGGCAT---C--GATATGAGATCTT
* *
34856333 GTGTAAGACCATATCTTGGATATGGCATCAGCATCGATATGAGATCTT
1 GTGTAAGACCATATC-TGG----GACAT-GGCATCGATATGAGATCTT
*
34856381 GTGTAAGACCATATCTGGGATATGACATCGGCATCGATATGAGAT-TAC
1 GTGTAAGACCATATCT-GG----GACAT-GGCATCGATATGAGATCT-T
* * * *
34856429 ATGTAAGACCATATCTGGGATATGGCTTC-AGTATGAGAT-TCC
1 GTGTAAGACCATATCTGGGACATGGCATCGA-TATGAGATCT-T
* * * *** **
34856471 GTATAAGACCGTGTCTGGGATGCGGCATCGATATCTGAT-TT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
** * * *
34856512 CGTACAAGACCATGTCTGGGACATGGCATCGATGTCAGA-CTTT
1 -GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATC-TT
34856555 GTGTAAGACCATAGT-T-GGACTATGGCATC
1 GTGTAAGACCATA-TCTGGGAC-ATGGCATC
34856584 AAGTAAACGA
Statistics
Matches: 241, Mismatches: 37, Indels: 40
0.76 0.12 0.13
Matches are distributed among these distances:
41 5 0.02
42 119 0.49
43 8 0.03
45 1 0.00
47 30 0.12
48 70 0.29
50 1 0.00
52 3 0.01
53 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCTT
Found at i:34856392 original size:48 final size:48
Alignment explanation
Indices: 34856268--34856459 Score: 280
Period size: 48 Copynumber: 4.0 Consensus size: 48
34856258 CTGGGACATG
* *
34856268 GCATCGATATGAGATCCTGTGTAAGACCATATCTGCGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* *
34856316 CCATC-ATATGAGATCTTGTGTAAGACCATATCTTGGATATGGCATCA
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
* *
34856363 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCG
1 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
** *
34856411 GCATCGATATGAGAT-TACATGTAAGACCATATCTGGGATATGGCTTCA
1 GCATCGATATGAGATCT-TGTGTAAGACCATATCTGGGATATGGCATCA
34856459 G
1 G
34856460 TATGAGATTC
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 44 0.34
48 85 0.66
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (48 bp):
GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGGCATCA
Found at i:34856403 original size:95 final size:96
Alignment explanation
Indices: 34856268--34856459 Score: 280
Period size: 95 Copynumber: 2.0 Consensus size: 96
34856258 CTGGGACATG
*
34856268 GCATCGATATGAGATCCTGTGTAAGACCATATCTGCGATATGGCATCACCATC-ATATGAGATCT
1 GCATCGATATGAGATCCTGTGTAAGACCATATCTGCGATATGACATCACCATCGATATGAGAT-T
** *
34856332 -TGTGTAAGACCATATCTTGGATATGGCATCA
65 ACATGTAAGACCATATCTGGGATATGGCATCA
* * **
34856363 GCATCGATATGAGATCTTGTGTAAGACCATATCTGGGATATGACATCGGCATCGATATGAGATTA
1 GCATCGATATGAGATCCTGTGTAAGACCATATCTGCGATATGACATCACCATCGATATGAGATTA
*
34856428 CATGTAAGACCATATCTGGGATATGGCTTCA
66 CATGTAAGACCATATCTGGGATATGGCATCA
34856459 G
1 G
34856460 TATGAGATTC
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
95 49 0.57
96 37 0.43
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (96 bp):
GCATCGATATGAGATCCTGTGTAAGACCATATCTGCGATATGACATCACCATCGATATGAGATTA
CATGTAAGACCATATCTGGGATATGGCATCA
Found at i:34859307 original size:7 final size:8
Alignment explanation
Indices: 34859289--34859313 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
34859279 TAATATTTTT
34859289 AAAAGGTA
1 AAAAGGTA
34859297 AAAAGGTA
1 AAAAGGTA
34859305 AAAAGGTA
1 AAAAGGTA
34859313 A
1 A
34859314 TTAAAGTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (8 bp):
AAAAGGTA
Found at i:34875900 original size:20 final size:20
Alignment explanation
Indices: 34875875--34875914 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
34875865 AGTTTGATTA
34875875 GTTAAAAGAC-TTTTAACTTG
1 GTTAAAA-ACATTTTAACTTG
*
34875895 GTTAAAAACATTTTATCTTG
1 GTTAAAAACATTTTAACTTG
34875915 ATTTTAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (20 bp):
GTTAAAAACATTTTAACTTG
Found at i:34877684 original size:40 final size:39
Alignment explanation
Indices: 34877586--34877808 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
34877576 TCCTCGTTCA
* * * * *
34877586 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
34877625 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
34877664 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
34877704 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
34877744 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
34877785 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
34877809 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:34877808 original size:120 final size:119
Alignment explanation
Indices: 34877586--34877808 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
34877576 TCCTCGTTCA
* * * *
34877586 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
34877651 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
34877705 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
34877769 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
34877809 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:34898196 original size:43 final size:43
Alignment explanation
Indices: 34898148--34898263 Score: 153
Period size: 43 Copynumber: 2.7 Consensus size: 43
34898138 TGTGATTAAA
*
34898148 TGTAAGACCATGTCTGGGACATTGGCATTGTGT-TGAGAATACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGT-TATGAGAATACG
** * *
34898191 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTATGAGAATACG
* *
34898234 TGTAAGACCCTGTCTGGGACAGTGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
34898264 ATATATAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 1 0.02
43 64 0.98
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTATGAGAATACG
Found at i:34899838 original size:258 final size:258
Alignment explanation
Indices: 34899381--34899897 Score: 1034
Period size: 258 Copynumber: 2.0 Consensus size: 258
34899371 GCCTAGACAC
34899381 ATAGGCTTGTCTTCTGGTCGTGTGTGGCACACGGGTTGGCACATGGGCGTATGGTCGGCCGTGTG
1 ATAGGCTTGTCTTCTGGTCGTGTGTGGCACACGGGTTGGCACATGGGCGTATGGTCGGCCGTGTG
34899446 ACCCAAGTCAGTAACTCCCTTAGATTTCACACGGCCTGGCACACGGGAGTGTCTTCGGCCATGTG
66 ACCCAAGTCAGTAACTCCCTTAGATTTCACACGGCCTGGCACACGGGAGTGTCTTCGGCCATGTG
34899511 GTACAAGTCAGTATGTATGCTCTATTTTCACACGGGCGTGTGTCCTTTTAAAGTTTGAAAATTTT
131 GTACAAGTCAGTATGTATGCTCTATTTTCACACGGGCGTGTGTCCTTTTAAAGTTTGAAAATTTT
34899576 ATAAGTTTCTCAAAGTTTGTGAATGTTATTGGTTTAGTCCCGAACCACTTCTAAGCATGTTTT
196 ATAAGTTTCTCAAAGTTTGTGAATGTTATTGGTTTAGTCCCGAACCACTTCTAAGCATGTTTT
34899639 ATAGGCTTGTCTTCTGGTCGTGTGTGGCACACGGGTTGGCACATGGGCGTATGGTCGGCCGTGTG
1 ATAGGCTTGTCTTCTGGTCGTGTGTGGCACACGGGTTGGCACATGGGCGTATGGTCGGCCGTGTG
34899704 ACCCAAGTCAGTAACTCCCTTAGATTTCACACGGCCTGGCACACGGGAGTGTCTTCGGCCATGTG
66 ACCCAAGTCAGTAACTCCCTTAGATTTCACACGGCCTGGCACACGGGAGTGTCTTCGGCCATGTG
34899769 GTACAAGTCAGTATGTATGCTCTATTTTCACACGGGCGTGTGTCCTTTTAAAGTTTGAAAATTTT
131 GTACAAGTCAGTATGTATGCTCTATTTTCACACGGGCGTGTGTCCTTTTAAAGTTTGAAAATTTT
34899834 ATAAGTTTCTCAAAGTTTGTGAATGTTATTGGTTTAGTCCCGAACCACTTCTAAGCATGTTTT
196 ATAAGTTTCTCAAAGTTTGTGAATGTTATTGGTTTAGTCCCGAACCACTTCTAAGCATGTTTT
34899897 A
1 A
34899898 AGGTCTCATA
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
258 259 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.33
Consensus pattern (258 bp):
ATAGGCTTGTCTTCTGGTCGTGTGTGGCACACGGGTTGGCACATGGGCGTATGGTCGGCCGTGTG
ACCCAAGTCAGTAACTCCCTTAGATTTCACACGGCCTGGCACACGGGAGTGTCTTCGGCCATGTG
GTACAAGTCAGTATGTATGCTCTATTTTCACACGGGCGTGTGTCCTTTTAAAGTTTGAAAATTTT
ATAAGTTTCTCAAAGTTTGTGAATGTTATTGGTTTAGTCCCGAACCACTTCTAAGCATGTTTT
Found at i:34906379 original size:48 final size:50
Alignment explanation
Indices: 34906248--34906380 Score: 157
Period size: 48 Copynumber: 2.7 Consensus size: 50
34906238 GGGTTGATGA
* * * * *
34906248 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATTGATATATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATTCATATATGT
* *
34906298 --TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-TCAT-TATGT
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATTCATATATGT
* *
34906344 GATCCCATATAAGACCATGTCTAGGACATGCCATTGG
1 GATCCCATATAAGACCATGTCTGGGACATGGCATTGG
34906381 TATCGATATG
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
46 5 0.07
47 3 0.04
48 62 0.89
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (50 bp):
GATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATTCATATATGT
Found at i:34907812 original size:46 final size:46
Alignment explanation
Indices: 34907762--34907936 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
34907752 TGGTTGAGCA
34907762 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
34907808 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
34907854 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
34907900 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34907937 GCGGGTTACA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:34923190 original size:18 final size:19
Alignment explanation
Indices: 34923167--34923207 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
34923157 CTTGTTTTTA
*
34923167 AATTTTATAATATTTA-AT
1 AATTTTAAAATATTTATAT
34923185 AATTTTAAAATATTTATAT
1 AATTTTAAAATATTTATAT
34923204 AATT
1 AATT
34923208 AATTCTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
AATTTTAAAATATTTATAT
Found at i:34923190 original size:26 final size:26
Alignment explanation
Indices: 34923161--34923210 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
34923151 AAAAGTCTTG
* *
34923161 TTTTTAAAT-TTTATAATATTTAATAA
1 TTTTAAAATATTTAT-ATAATTAATAA
34923187 TTTTAAAATATTTATATAATTAAT
1 TTTTAAAATATTTATATAATTAAT
34923211 TCTATCATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTAAAATATTTATATAATTAATAA
Found at i:34933739 original size:58 final size:58
Alignment explanation
Indices: 34933636--34933745 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
34933626 TTAATTCATA
* *
34933636 TAATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTATTAAATTATATT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATT
* * * *
34933694 TAATAATAATTATGTTAA-AATATGGTTAAATTATTTTTTATTTTTATTAAAT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATATTA-TTTTATTAAAT
34933746 CTGCAAAGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
57 17 0.38
58 28 0.62
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (58 bp):
TAATAATAATTATATTAAGAATATGATTAAATTATATATTATTTTATTAAATTATATT
Found at i:34935143 original size:182 final size:182
Alignment explanation
Indices: 34934828--34935194 Score: 648
Period size: 182 Copynumber: 2.0 Consensus size: 182
34934818 AAAGATATCA
34934828 TATGAAGGTAACACACTTATGACAAGGTCACTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
1 TATGAAGGTAACACACTTATGACAAGGTCACTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
*
34934893 TATATAATAAATGAGAGTTCAATCATTGTACTTTAGTGAAATGACTCCATGATTAAATAATATTG
66 TATATAATAAATGAGAGTTCAATCATTGTACATTAGTGAAATGACTCCATGATTAAATAATATTG
34934958 TAATTAATAGACGAAGAGTCAAAACTTAATTACAAATTATTTGA-GCCCTAAT
131 TAATTAATAGACGAAGAGTCAAAACTTAATTACAAATTATTT-ATGCCCTAAT
* *
34935010 TATGAGGGTAACACACTTATGACAAGGTCATTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
1 TATGAAGGTAACACACTTATGACAAGGTCACTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
* *
34935075 TATATAATAAGA-GAGAGTTGAATCATTGTACATTAGTGAAATGACTCCATGATTAAATAATTTT
66 TATATAATAA-ATGAGAGTTCAATCATTGTACATTAGTGAAATGACTCCATGATTAAATAATATT
*
34935139 GTAATTAATAGACGAAGAGTCAGAACTTAATTACAAATTATTTATGCCCTAAT
130 GTAATTAATAGACGAAGAGTCAAAACTTAATTACAAATTATTTATGCCCTAAT
34935192 TAT
1 TAT
34935195 ATGTGTCCAA
Statistics
Matches: 177, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
181 1 0.01
182 175 0.99
183 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (182 bp):
TATGAAGGTAACACACTTATGACAAGGTCACTGGGCAAACATCTAAAAAGTTGCTTTTATAATGA
TATATAATAAATGAGAGTTCAATCATTGTACATTAGTGAAATGACTCCATGATTAAATAATATTG
TAATTAATAGACGAAGAGTCAAAACTTAATTACAAATTATTTATGCCCTAAT
Found at i:34937299 original size:15 final size:16
Alignment explanation
Indices: 34937279--34937311 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34937269 GACACGGCCA
34937279 TGTGTCTC-AACCGTG
1 TGTGTCTCTAACCGTG
*
34937294 TGTGTCTCTACCCGTG
1 TGTGTCTCTAACCGTG
34937310 TG
1 TG
34937312 GAGGACATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.09, C:0.27, G:0.27, T:0.36
Consensus pattern (16 bp):
TGTGTCTCTAACCGTG
Found at i:34941704 original size:48 final size:48
Alignment explanation
Indices: 34941648--34941861 Score: 254
Period size: 48 Copynumber: 4.5 Consensus size: 48
34941638 AAGCTGACGC
* * ** * * * *
34941648 CATGTCCCAGACAGGCCTTACACTAGCTTGTATATCGCCAGGCCTATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGCCGATG
* * * *
34941696 CATGTCCCAGATATGTCTTACACTAGCTCT---CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TAAACATCTCGAGGCCGATG
* * *
34941742 CATGTCCCAAACATGCCTTACACTAGCTTAAACATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGCCGATG
*
34941790 CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGCCGATG
34941838 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
34941862 GGCTCTCATG
Statistics
Matches: 144, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
45 1 0.01
46 35 0.24
48 107 0.74
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGCCGATG
Found at i:34941767 original size:94 final size:94
Alignment explanation
Indices: 34941648--34941861 Score: 259
Period size: 94 Copynumber: 2.3 Consensus size: 94
34941638 AAGCTGACGC
* ** * * *
34941648 CATGTCCCAGACAGGCCTTACACTAGCTTGTATATCGCCAGGCCTATGCATGTCCCAGATATGTC
1 CATGTCCCAGACATGCCTTACACTAGCTTAAACATCGCCAGGCCGATGCATGTCCCAGACATGTC
* *
34941713 TTACACTAGCTCT-CGTCTCAATGCCGATG
66 TTACACTAGCT-TACATCTCAAGGCCGATG
* * * *
34941742 CATGTCCCAAACATGCCTTACACTAGCTTAAACATCTCGAGGTCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGCCTTACACTAGCTTAAACATCGCCAGGCCGATGCATGTCCCAGACATGTC
* *
34941807 TTACACTAGCTTAAACATCTCGAGGTCGATG
66 TTACACTAGCTT--ACATCTCAAGGCCGATG
*
34941838 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGCCTTACACT
34941862 GGCTCTCATG
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
93 1 0.01
94 66 0.65
96 34 0.34
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATGCCTTACACTAGCTTAAACATCGCCAGGCCGATGCATGTCCCAGACATGTC
TTACACTAGCTTACATCTCAAGGCCGATG
Found at i:34941884 original size:94 final size:91
Alignment explanation
Indices: 34941648--34941910 Score: 244
Period size: 94 Copynumber: 2.8 Consensus size: 91
34941638 AAGCTGACGC
* * * * * * *
34941648 CATGTCCCAGACAGGCCTTACACTAGCTTGTATATCGCCAGGCCTATGCATGTCCCAGATATGTC
1 CATGTCCCAAACATGCCTTACACTAGC-T-TACATC-TCAGGTCGATGCATGTCCCAGACATGTC
* *
34941713 TTACACTAGCTCTCGTCTCAATGCCGATG
63 TTACACTAGCTCTCATCTCAAGGCCGATG
34941742 CATGTCCCAAACATGCCTTACACTAGCTTAAACATCTCGAGGTCGATGCATGTCCCAGACATGTC
1 CATGTCCCAAACATGCCTTACACTAGCTT--ACATCTC-AGGTCGATGCATGTCCCAGACATGTC
* *
34941807 TTACACTAGCT-TAAACATCTCGAGGTCGATG
63 TTACACTAGCTCT---CATCTCAAGGCCGATG
* * * * * *
34941838 CATGTCCCAGACATGTCTTACACTGGCTCT-CATGCT-ATGGTTGATGCATTTCCCATACATGTC
1 CATGTCCCAAACATGCCTTACACTAGCT-TACAT-CTCA-GGTCGATGCATGTCCCAGACATGTC
34941901 TTACACTAGC
63 TTACACTAGC
34941911 ACACATATCA
Statistics
Matches: 143, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
92 1 0.01
93 4 0.03
94 98 0.69
95 2 0.01
96 37 0.26
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (91 bp):
CATGTCCCAAACATGCCTTACACTAGCTTACATCTCAGGTCGATGCATGTCCCAGACATGTCTTA
CACTAGCTCTCATCTCAAGGCCGATG
Found at i:34941904 original size:142 final size:139
Alignment explanation
Indices: 34941500--34941911 Score: 382
Period size: 142 Copynumber: 2.9 Consensus size: 139
34941490 TTAAGATGCC
** * ***
34941500 GACGCCATGTCCCAGACATAGTCTTACACTAGCTTTCATATAGCGAGGTCGATGCCATGTTTTAG
1 GACGCCATGTCCCAGACAT-GTCTTACACTAGCTTAAATATCGCGAGGTCGATG-CATGTCCCAG
* * * * *
34941565 ACAGGTCTTACACTGACTCTTATCTATCAGTGTTGATGCCATGTCCCAGACAAGTCTTACACT-G
64 ACATGTCTTACACTGGCTCTCATCTAT--G-GTTGATG-CATGTCCCAAACATGTCTTACACTAG
*
34941629 -ACACACCACAAGCT
125 CAAACACCACAAGCT
* * ** * * * *
34941643 GACGCCATGTCCCAGACAGGCCTTACACTAGCTTGTATATCGCCAGGCCTATGCATGTCCCAGAT
1 GACGCCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCCAGAC
* * ** *
34941708 ATGTCTTACACTAGCTCTCGTCTCAAT-GCCGATGCATGTCCCAAACATGCCTTACACTAGCTTA
66 ATGTCTTACACTGGCTCTCATCT--ATGGTTGATGCATGTCCCAAACATGTCTTACACTAGC--A
* * * *
34941772 AACATCTCGAGGT
127 AACACCACAAGCT
* * *
34941785 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTAAACATCTCGAGGTCGATGCATGTCCCAGA
1 -GACGCCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCCAGA
* *
34941849 CATGTCTTACACTGGCTCTCATGCTATGGTTGATGCATTTCCCATACATGTCTTACACTAGCA
65 CATGTCTTACACTGGCTCTCAT-CTATGGTTGATGCATGTCCCAAACATGTCTTACACTAGCA
34941912 CACATATCAC
Statistics
Matches: 215, Mismatches: 45, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
138 21 0.10
139 6 0.03
140 1 0.00
141 28 0.13
142 134 0.62
143 25 0.12
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (139 bp):
GACGCCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGTCGATGCATGTCCCAGAC
ATGTCTTACACTGGCTCTCATCTATGGTTGATGCATGTCCCAAACATGTCTTACACTAGCAAACA
CCACAAGCT
Found at i:34955280 original size:14 final size:14
Alignment explanation
Indices: 34955261--34955291 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
34955251 GCCAAATGAG
34955261 AATTATGAGTACAT
1 AATTATGAGTACAT
34955275 AATTATGAGTACAT
1 AATTATGAGTACAT
34955289 AAT
1 AAT
34955292 GTCAAATAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (14 bp):
AATTATGAGTACAT
Found at i:34956326 original size:66 final size:66
Alignment explanation
Indices: 34956256--34956388 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
34956246 ATTGATATGA
* *
34956256 TTGAAACTTTGTAACATGGTCTGATTATGTATTATAATTAATAAAATATAATTGACTATATTTGG
1 TTGAAACTTTGTAACATGGTCTGATTATGTACTATAATTAATAAAATACAATTGACTATATTTGG
34956321 T
66 T
* * *
34956322 TTGAAACTTTGTAACATGGTTTGTTTATGTACTATAATTAATAAAATACAATTGATTATATTTGG
1 TTGAAACTTTGTAACATGGTCTGATTATGTACTATAATTAATAAAATACAATTGACTATATTTGG
34956387 T
66 T
34956388 T
1 T
34956389 AAGTGTTTCC
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (66 bp):
TTGAAACTTTGTAACATGGTCTGATTATGTACTATAATTAATAAAATACAATTGACTATATTTGG
T
Found at i:34970387 original size:9 final size:9
Alignment explanation
Indices: 34970373--34970398 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
34970363 GTTCATGCTT
34970373 AAAAAAAAG
1 AAAAAAAAG
34970382 AAAAAAAAG
1 AAAAAAAAG
34970391 AAAAAAAA
1 AAAAAAAA
34970399 AGAGAGAAGA
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:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:34970388 original size:10 final size:10
Alignment explanation
Indices: 34970373--34970401 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
34970363 GTTCATGCTT
34970373 AAAAAAAAG-
1 AAAAAAAAGA
34970382 AAAAAAAAGA
1 AAAAAAAAGA
34970392 AAAAAAAAGA
1 AAAAAAAAGA
34970402 GAGAAGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:34984073 original size:57 final size:56
Alignment explanation
Indices: 34984012--34984198 Score: 207
Period size: 57 Copynumber: 3.3 Consensus size: 56
34984002 TACCAGTCTA
*
34984012 GGCTAAATCCTCTTTATGACATATGCTCCAAGGAGCTTGATCTGGATTACCCATCCG
1 GGCTAAATCCT-TTTATGACATATGCTCAAAGGAGCTTGATCTGGATTACCCATCCG
* *
34984069 GGCTAAATCCTTTTTATGACATATGCTCTAAA-GAGCTTGATCTGGATTACCCGTCTG
1 GGCTAAATCC-TTTTATGACATATGCTC-AAAGGAGCTTGATCTGGATTACCCATCCG
* ** * * * *
34984126 GGCTAAATCCAATACATAACATATGCTCAAGAGGA-CTTATATCAGGATTACTCATCCG
1 GGCTAAATCC-TTTTATGACATATGCTCAA-AGGAGCTT-GATCTGGATTACCCATCCG
*
34984184 GGATAAATCCTTTTA
1 GGCTAAATCCTTTTA
34984199 GAAATGTGGT
Statistics
Matches: 108, Mismatches: 17, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
56 2 0.02
57 78 0.72
58 28 0.26
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (56 bp):
GGCTAAATCCTTTTATGACATATGCTCAAAGGAGCTTGATCTGGATTACCCATCCG
Found at i:34984478 original size:17 final size:17
Alignment explanation
Indices: 34984436--34984478 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
34984426 TATCATTTAC
34984436 CATTTATCGGGCATTAT
1 CATTTATCGGGCATTAT
* *
34984453 TATTGATCGGGCACTT-T
1 CATTTATCGGGCA-TTAT
34984470 CATTTATCG
1 CATTTATCG
34984479 AGTTATAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (17 bp):
CATTTATCGGGCATTAT
Found at i:34984787 original size:11 final size:11
Alignment explanation
Indices: 34984771--34984797 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34984761 GCATTCCAAA
34984771 AATTTTAAAAT
1 AATTTTAAAAT
34984782 AATTTTAAAAT
1 AATTTTAAAAT
34984793 AATTT
1 AATTT
34984798 ATGTAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATTTTAAAAT
Found at i:34991554 original size:43 final size:43
Alignment explanation
Indices: 34991507--34991599 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 43
34991497 TACATGTAAT
*
34991507 CACATATAGATGCC-ACTATCCCAGACAGT-GTCTTACACGAGAA
1 CACATATAGATGCCAAC-ATCACAGAC-GTGGTCTTACACGAGAA
* *
34991550 CACATATCGATGCCAACGTCACAGACGTGGTCTTACACGAGAA
1 CACATATAGATGCCAACATCACAGACGTGGTCTTACACGAGAA
34991593 CACATAT
1 CACATAT
34991600 CGAAAATCCT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 2 0.04
43 41 0.91
44 2 0.04
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.20
Consensus pattern (43 bp):
CACATATAGATGCCAACATCACAGACGTGGTCTTACACGAGAA
Found at i:34992747 original size:14 final size:15
Alignment explanation
Indices: 34992730--34992758 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34992720 ACACGAAAAT
34992730 TTCACACA-TATAAA
1 TTCACACATTATAAA
34992744 TTCACACATTATAAA
1 TTCACACATTATAAA
34992759 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
TTCACACATTATAAA
Found at i:35004415 original size:18 final size:18
Alignment explanation
Indices: 35004392--35004429 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
35004382 AGATATTTCA
*
35004392 TCACTCGAGCATGTTCCT
1 TCACTCGAACATGTTCCT
35004410 TCACTCGAACATGTTCCT
1 TCACTCGAACATGTTCCT
35004428 TC
1 TC
35004430 TCCAACAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.34, G:0.13, T:0.34
Consensus pattern (18 bp):
TCACTCGAACATGTTCCT
Found at i:35007793 original size:17 final size:17
Alignment explanation
Indices: 35007767--35007829 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
35007757 GAATCGAGGT
*
35007767 TGAATTGAAAAATTGCC
1 TGAATAGAAAAATTGCC
** **
35007784 TGAATAGAAAAAGAGTT
1 TGAATAGAAAAATTGCC
*
35007801 TGAATTGAAAAATTGCC
1 TGAATAGAAAAATTGCC
35007818 T-AACTAGAAAAA
1 TGAA-TAGAAAAA
35007830 GAGTTAATCT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
16 2 0.06
17 32 0.94
ACGTcount: A:0.49, C:0.08, G:0.17, T:0.25
Consensus pattern (17 bp):
TGAATAGAAAAATTGCC
Found at i:35007804 original size:34 final size:34
Alignment explanation
Indices: 35007766--35007834 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 34
35007756 AGAATCGAGG
35007766 TTGAATTGAAAAATTGCCTGAA-TAGAAAAAGAGT
1 TTGAATTGAAAAATTGCCT-AACTAGAAAAAGAGT
35007800 TTGAATTGAAAAATTGCCTAACTAGAAAAAGAGT
1 TTGAATTGAAAAATTGCCTAACTAGAAAAAGAGT
35007834 T
1 T
35007835 AATCTTCACT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 2 0.06
34 32 0.94
ACGTcount: A:0.46, C:0.07, G:0.19, T:0.28
Consensus pattern (34 bp):
TTGAATTGAAAAATTGCCTAACTAGAAAAAGAGT
Done.