Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 80 of 205
Found at i:23703155 original size:10 final size:12
Alignment explanation
Indices: 23703127--23703154 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
23703117 TTTTATTTAA
23703127 TATATACATTTT
1 TATATACATTTT
23703139 TATATACATTTT
1 TATATACATTTT
23703151 TATA
1 TATA
23703155 CTCTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATACATTTT
Found at i:23703726 original size:106 final size:107
Alignment explanation
Indices: 23703461--23703896 Score: 556
Period size: 106 Copynumber: 4.1 Consensus size: 107
23703451 CATAAAAAAG
* * * * *
23703461 AAAATTTTCTAAATAAGGCAATGTTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACATGCTG
1 AAAA-TTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
*
23703526 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATACCCTTTT
65 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
*
23703569 AAAACTTTCAAAATAAGGCCATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCT-
1 AAAA-TTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
*
23703633 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATAGCCTTTT
65 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
* * *
23703676 AAAATTTCAAAATAAGGCCATATTTCGCGTTTGGAAACTCGAGAAAACGTGCCCTAACGTGTTGG
1 AAAATTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * * * * *
23703741 GTTTCGATTACTCGTTTGGCC-GAATAGTCGAATATCCTTTC
66 GTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
* ** * ** * *
23703782 GAAA-TTCTAAAACGAGGCAATGTTTTACGTTTGGAAATTCGAGAGAACGTGCCCTAACGCGCTG
1 AAAATTTC-AAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
* * *
23703846 GGTTTCAATTTCTCGTTTGA-CTAAATAGCCAAATATCCTCTT
65 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
*
23703888 AAAACTTCA
1 AAAATTTCA
23703897 TAGTATGGTT
Statistics
Matches: 287, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
105 4 0.01
106 157 0.55
107 69 0.24
108 57 0.20
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (107 bp):
AAAATTTCAAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
Found at i:23706085 original size:14 final size:15
Alignment explanation
Indices: 23706058--23706086 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23706048 TATAACATTT
23706058 ATTAAAATAAATATA
1 ATTAAAATAAATATA
23706073 ATTAAAA-AAATATA
1 ATTAAAATAAATATA
23706087 TTTACCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAATATA
Found at i:23712115 original size:14 final size:15
Alignment explanation
Indices: 23712091--23712120 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
23712081 TATAGAGGAG
23712091 AGGCATCATTCTCCT
1 AGGCATCATTCTCCT
23712106 AGGC-TCATTCTCCT
1 AGGCATCATTCTCCT
23712120 A
1 A
23712121 TTTTTTGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (15 bp):
AGGCATCATTCTCCT
Found at i:23714943 original size:50 final size:50
Alignment explanation
Indices: 23714870--23714966 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
23714860 ATAAACTTGA
* * * * * *
23714870 GAATTCTCTTGAAAGCCTTTGTGGCGTAGAATTTGGAAAGTCTTTGTGGC
1 GAATTATCTAGAAAACCTCTGTGGCGTAGAATTTCGAAAGCCTTTGTGGC
* **
23714920 GAATTATCTAGAAAACCTCTGTGGTGTATCATTTCGAAAGCCTTTGT
1 GAATTATCTAGAAAACCTCTGTGGCGTAGAATTTCGAAAGCCTTTGT
23714967 AGTGAAACTT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (50 bp):
GAATTATCTAGAAAACCTCTGTGGCGTAGAATTTCGAAAGCCTTTGTGGC
Found at i:23723799 original size:29 final size:29
Alignment explanation
Indices: 23723767--23723841 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
23723757 AACTTAATTT
*
23723767 TTCTTTAATTTAAAAATTAAAA-AATTAAA
1 TTCTTAAATTTAAAAA-TAAAATAATTAAA
*
23723796 TTCTTGAAA-ATAATAAATAAAATAATTAAA
1 TTCTT-AAATTTAA-AAATAAAATAATTAAA
23723826 TT-TTAAATTTATAAAA
1 TTCTTAAATTTA-AAAA
23723842 AATGGTATAG
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
28 3 0.08
29 20 0.53
30 15 0.39
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (29 bp):
TTCTTAAATTTAAAAATAAAATAATTAAA
Found at i:23736901 original size:432 final size:433
Alignment explanation
Indices: 23736060--23736920 Score: 1643
Period size: 432 Copynumber: 2.0 Consensus size: 433
23736050 AACAAGCTTG
*
23736060 TAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGGTAATTGTGGTTTAATTATGC
1 TAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGATAATTGTGGTTTAATTATGC
23736125 GCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAAT
66 GCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAAT
*
23736190 CGATGTTTATTTAGGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGACTATT
131 CGATGTTTATTTAAGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGACTATT
23736255 ATATATTTATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAAT
196 ATATA-TTATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAAT
23736320 GGTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGACTTAGT
260 GGTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGACTTAGT
* * *
23736385 TAGCTTAAACCTTGATGTGTTTTGGTTGTGGATTGTTAAAAATGGTAGTTTAATCATGTGGATAA
325 TAGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGATAGTTTAATCATGTGGATAA
23736450 TTGTTTAATTATGTATAATATTGATATTGGTTCGTATATACTCA
390 TTGTTTAATTATGTATAATATTGATATTGGTTCGTATATACTCA
23736494 TAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGATAATTGTGGTTTAATTATGC
1 TAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGATAATTGTGGTTTAATTATGC
23736559 GCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAAT
66 GCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAAT
*
23736624 CGATGTTTATTTAAGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGATTATT
131 CGATGTTTATTTAAGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGACTATT
23736689 ATATA-TATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAATG
196 ATATATTATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAATG
*
23736753 GTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGAGTTAGTT
261 GTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGACTTAGTT
23736818 AGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGATAGTTTAATCATGTGGATAAT
326 AGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGATAGTTTAATCATGTGGATAAT
23736883 TGTTTAATTATGTATAATATTGATATTGGTTCGTATAT
391 TGTTTAATTATGTATAATATTGATATTGGTTCGTATAT
23736921 GAATATTCAT
Statistics
Matches: 420, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
432 223 0.53
434 197 0.47
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (433 bp):
TAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGATAATTGTGGTTTAATTATGC
GCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAAT
CGATGTTTATTTAAGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGACTATT
ATATATTATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAATG
GTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGACTTAGTT
AGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGATAGTTTAATCATGTGGATAAT
TGTTTAATTATGTATAATATTGATATTGGTTCGTATATACTCA
Found at i:23739623 original size:21 final size:22
Alignment explanation
Indices: 23739599--23739639 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
23739589 TAGGTTAAAG
23739599 GAGGAAGAT-GAAAA-AAAAGAA
1 GAGG-AGATAGAAAAGAAAAGAA
23739620 GAGGAGATAGAAAAGAAAAG
1 GAGGAGATAGAAAAGAAAAG
23739640 GAAAATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (22 bp):
GAGGAGATAGAAAAGAAAAGAA
Found at i:23739635 original size:17 final size:18
Alignment explanation
Indices: 23739613--23739651 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
23739603 AAGATGAAAA
* *
23739613 AAAAGAAGAGG-AGATAG
1 AAAAGAAAAGGAAAATAG
23739630 AAAAGAAAAGGAAAATAG
1 AAAAGAAAAGGAAAATAG
23739648 AAAA
1 AAAA
23739652 AATAATAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAGGAAAATAG
Found at i:23743041 original size:137 final size:137
Alignment explanation
Indices: 23742788--23743312 Score: 507
Period size: 137 Copynumber: 3.8 Consensus size: 137
23742778 AGGGTAGCCT
* * * ** * * * *
23742788 TGCTAGCTATGTTGGATCTGCGAGCTTAATTCTATGAGCAT-TTATAGTATTAGTTGAGAGCGTA
1 TGCTAGCTGTGTCGGAGCTGCGAGCTTAACACTATGAAC-TCTTATAATATCAGTTGGGAGCGTA
**** * * *
23742852 GGTTTGTTAGTTGTTTTGGAGGTTGCAATCATAAACCGACAAA-CTTTAATGACATCAGCTGAGA
65 GGTCCACTAGCTATTTTGGAGGTTGCGATCATAAACCGACAAACCTTT-ATGACATCAGCTGAGA
23742916 GTGTAGGTC
129 GTGTAGGTC
* ** * * * *
23742925 TACTAGCTGTGTCAAAGCTGTGAGCATAACACTATGAACTCTTAAAATATCAGTTGGGAGCATAG
1 TGCTAGCTGTGTCGGAGCTGCGAGCTTAACACTATGAACTCTTATAATATCAGTTGGGAGCGTAG
* * * *
23742990 GTCCACTAGCTATTTTGGAGTTTGCGATCATAAACCCACAAACCATTATGACATCAG-TTAGGAG
66 GTCCACTAGCTATTTTGGAGGTTGCGATCATAAACCGACAAACCTTTATGACATCAGCTGA-GAG
23743054 TGTAGGTC
130 TGTAGGTC
* ** * * * *
23743062 CGCTAGCTGTGTCGGAGAGGCGAGCTTAACTCTGTGAGCTCTTATAATATCAGTTGGAAGCGTAG
1 TGCTAGCTGTGTCGGAGCTGCGAGCTTAACACTATGAACTCTTATAATATCAGTTGGGAGCGTAG
*** ** * * * *
23743127 GTTTGCTAGCTATTTTGGAGGTTGCGATCATAAATTGGCAAACCTTTGTGACATCAGCTGAAAGC
66 GTCCACTAGCTATTTTGGAGGTTGCGATCATAAACCGACAAACCTTTATGACATCAGCTGAGAGT
23743192 GTAGGTC
131 GTAGGTC
* * *
23743199 TGCTAGCTATGTCGGAGCTGCGAGCTTAACCCTATGAACTCTTATAATATCAGGTGGGAGCGTAG
1 TGCTAGCTGTGTCGGAGCTGCGAGCTTAACACTATGAACTCTTATAATATCAGTTGGGAGCGTAG
* * ** * * * * *
23743264 GTTCGCTAATTGTTTTAGAGGTTGCAATGATAAATCGACAAACCTTTAT
66 GTCCACTAGCTATTTTGGAGGTTGCGATCATAAACCGACAAACCTTTAT
23743313 ATAATACCAA
Statistics
Matches: 311, Mismatches: 73, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
136 3 0.01
137 303 0.97
138 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (137 bp):
TGCTAGCTGTGTCGGAGCTGCGAGCTTAACACTATGAACTCTTATAATATCAGTTGGGAGCGTAG
GTCCACTAGCTATTTTGGAGGTTGCGATCATAAACCGACAAACCTTTATGACATCAGCTGAGAGT
GTAGGTC
Found at i:23743307 original size:274 final size:274
Alignment explanation
Indices: 23742807--23743312 Score: 640
Period size: 274 Copynumber: 1.8 Consensus size: 274
23742797 TGTTGGATCT
* * * * * *
23742807 GCGAGCTTAATTCTATGAGCATTTATAGTATTAGTTGAGAGCGTAGGTTTGTTAGTTGTTTTGGA
1 GCGAGCTTAACTCTATGAGCATTTATAATATCAGTTGAGAGCGTAGGTTTGCTAGCTATTTTGGA
* * *
23742872 GGTTGCAATCATAAACCGACAAACTTTAATGACATCAGCTGAGAGTGTAGGTCTACTAGCTGTGT
66 GGTTGCAATCATAAACCGACAAACTTTAATGACATCAGCTGAAAGCGTAGGTCTACTAGCTATGT
* * *
23742937 CAAAGCTGTGAGCATAACACTATGAACTCTTAAAATATCAGTTGGGAGCATAGGTCCACTAGCTA
131 CAAAGCTGCGAGCATAACACTATGAACTCTTAAAATATCAGGTGGGAGCATAGGTCCACTAACTA
* * *
23743002 TTTTGGAGTTTGCGATCATAAACCCACAAACCATTATGACATCAGTTAGGAGTGTAGGTCCGCTA
196 TTTTAGAGGTTGCAATCATAAACCCACAAACCATTATGACATCAGTTAGGAGTGTAGGTCCGCTA
23743067 GCTGTGTCGGAGAG
261 GCTGTGTCGGAGAG
*
23743081 GCGAGCTTAACTCTGTGAGC-TCTTATAATATCAGTTG-GAAGCGTAGGTTTGCTAGCTATTTTG
1 GCGAGCTTAACTCTATGAGCAT-TTATAATATCAGTTGAG-AGCGTAGGTTTGCTAGCTATTTTG
* ** * * *
23743144 GAGGTTGCGATCATAAATTGGCAAACCTTT-GTGACATCAGCTGAAAGCGTAGGTCTGCTAGCTA
64 GAGGTTGCAATCATAAACCGACAAA-CTTTAATGACATCAGCTGAAAGCGTAGGTCTACTAGCTA
** * * * * * *
23743208 TGTCGGAGCTGCGAGCTTAACCCTATGAACTCTTATAATATCAGGTGGGAGCGTAGGTTCGCTAA
128 TGTCAAAGCTGCGAGCATAACACTATGAACTCTTAAAATATCAGGTGGGAGCATAGGTCCACTAA
* * * * * *
23743273 TTGTTTTAGAGGTTGCAATGATAAATCGACAAACCTTTAT
193 CTATTTTAGAGGTTGCAATCATAAACCCACAAACCATTAT
23743313 ATAATACCAA
Statistics
Matches: 193, Mismatches: 36, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
273 2 0.01
274 187 0.97
275 4 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (274 bp):
GCGAGCTTAACTCTATGAGCATTTATAATATCAGTTGAGAGCGTAGGTTTGCTAGCTATTTTGGA
GGTTGCAATCATAAACCGACAAACTTTAATGACATCAGCTGAAAGCGTAGGTCTACTAGCTATGT
CAAAGCTGCGAGCATAACACTATGAACTCTTAAAATATCAGGTGGGAGCATAGGTCCACTAACTA
TTTTAGAGGTTGCAATCATAAACCCACAAACCATTATGACATCAGTTAGGAGTGTAGGTCCGCTA
GCTGTGTCGGAGAG
Found at i:23749862 original size:213 final size:212
Alignment explanation
Indices: 23749496--23749905 Score: 613
Period size: 213 Copynumber: 1.9 Consensus size: 212
23749486 AAGTTAATAA
* *
23749496 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCCAGCACATTAGGGCACGTTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCAAAT
* * *
23749561 TTCCGAACACAAATATTGCCTCACTTCGAAAGTTTAAAAGGATATTTGGCTATTTGGTCAAATGA
66 TTCCAAACACAAATATTACCTCACTTCAAAAGTTTAAAAGGATATTTGGCTATTTGGTCAAATGA
* * *
23749626 GAAGTCGAAACCCAACACGTTAGGGTACGTTTCCTCGATTTTCCAAATGCGAAATATTGCCTTAT
131 GAAATCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTAT
23749691 TTTAAAAGTTTAAAAAG
196 TTTAAAAGTTTAAAAAG
* * * * *
23749708 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCAAAT
* ** * * * *
23749773 TTTCAAACGTGAAATATTACCTTATTTTAAAAGTTTAAAAGGATATTTGGCTATTTGGTCCAATG
66 TTCCAAAC-ACAAATATTACCTCACTTCAAAAGTTTAAAAGGATATTTGGCTATTTGGTCAAATG
* *
23749838 AGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATTTTCCAAACGCGAAATATTGCCTTA
130 AGAAATCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTA
23749903 TTT
195 TTT
23749906 AGAAAAACCT
Statistics
Matches: 175, Mismatches: 22, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
212 64 0.37
213 111 0.63
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (212 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCTCTCAAAT
TTCCAAACACAAATATTACCTCACTTCAAAAGTTTAAAAGGATATTTGGCTATTTGGTCAAATGA
GAAATCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTAT
TTTAAAAGTTTAAAAAG
Found at i:23749864 original size:106 final size:106
Alignment explanation
Indices: 23749496--23749905 Score: 588
Period size: 106 Copynumber: 3.9 Consensus size: 106
23749486 AAGTTAATAA
* * * * * *
23749496 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCCAGCACATTAGGGCACGTTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* * * * **
23749561 TTCCGAACAC-AAATATTGCCTCACTTCGAAAGTTTAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAG
* * * * *
23749601 GATATTTGGCTATTTGGTCAAATGAGAAGTCGAAACCCAACACGTTAGGGTACGTTTCCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
23749666 TTCCAAATGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTT-AAAAG
*
23749708 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* * *
23749773 TTTCAAACGTGAAATATTACCTTATTTTAAAAGTTTAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAG
* *
23749814 GATATTTGGCTATTTGGTCCAATGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
23749879 TTCCAAACGCGAAATATTGCCTTATTT
66 TTCCAAACGCGAAATATTGCCTTATTT
23749906 AGAAAAACCT
Statistics
Matches: 270, Mismatches: 33, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
105 61 0.23
106 113 0.42
107 96 0.36
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (106 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAG
Found at i:23750640 original size:15 final size:15
Alignment explanation
Indices: 23750613--23750647 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
23750603 AAATATTTTA
23750613 ATAT-AGATAATAAT
1 ATATAAGATAATAAT
*
23750627 ATATAAGATGATAAT
1 ATATAAGATAATAAT
23750642 ATATAA
1 ATATAA
23750648 ATTTAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
ATATAAGATAATAAT
Found at i:23752324 original size:44 final size:44
Alignment explanation
Indices: 23752208--23752970 Score: 234
Period size: 44 Copynumber: 17.4 Consensus size: 44
23752198 ACCAGTATGA
* * * *
23752208 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * * *
23752251 GAAGATAGGACCTGC-ATCTTCGATTTACTTCACGGAAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCAAATACAT
* * *
23752294 GAAGACAAGATTTGCTTTCTTCGCTCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCAAATACAT
* * ***
23752338 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGC-CACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCA--AATACAT
* * * *
23752383 GAAGACAAGATCTGC-ATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * * * *
23752426 GAAGATAGGACCTGCTATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * * * *
23752470 GAAGATAGGACCTGCTATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * * * *
23752514 GAAGATAGGACCTGCTATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * * * *
23752558 GAAGATAGGACCTGCTATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * * * *
23752602 GAAGATAGGACCTGCTATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * * * *
23752646 GAAGATAGGACCTGCTATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * * * *
23752690 GAAGATAGGACCTGCTATCTTCGATCCACTTCCTAC-C-AATATAG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAAATACAT
* * * * *
23752734 GAAGATAGGACCTGC-ATCTTCGATTTACTTCACGCAAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCAAATACAT
* * *
23752777 GAAGACAAGATTTGCTTTCTTCGATCTACTTCAAGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCAAATACAT
* * * ***
23752821 GAAGATAAGATCTGCTTTCTTCGATCTACTTCGC-CACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCA--AATACAT
* * * *
23752866 GAAGACAATATCTGC-ATCTTTGATCCACTTCCTAC-CAATATA-A-
1 GAAGACAAGATCTGCTTTCTTCGATCTACTT-C-ACGCAA-ATACAT
* * * * *
23752909 GAATACAGGA-CTTGCTATCTTCGATTTACTTCACGCCAATACAT
1 GAAGACAAGATC-TGCTTTCTTCGATCTACTTCACGCAAATACAT
*
23752953 GAAGACAAGATTTGCTTT
1 GAAGACAAGATCTGCTTT
23752971 AATGACTTCA
Statistics
Matches: 625, Mismatches: 73, Indels: 43
0.84 0.10 0.06
Matches are distributed among these distances:
41 4 0.01
42 9 0.01
43 103 0.16
44 466 0.75
45 38 0.06
46 5 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCAAATACAT
Found at i:23752447 original size:132 final size:132
Alignment explanation
Indices: 23752219--23752933 Score: 786
Period size: 132 Copynumber: 5.4 Consensus size: 132
23752209 AAGACAAGAT
**
23752219 CTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGC-ATCTTCGATTTACTT-
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
* * * * * ** * * * * * * *
23752281 C-ACGGAAATACATGAAGACAAGATTTGCTTTCTTCGCTCTACTTCAC-GCCAATACATGAAGAC
66 CTAC--CAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC-CTACCAATATAGGAAGAT
* *
23752344 AAGAT
128 AGGAC
* * * * * * * *
23752349 CTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTT
1 CTGCTATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTT
23752413 CCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
65 CCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAG
23752478 GAC
130 GAC
23752481 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
23752546 CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
66 CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
23752611 AC
131 AC
23752613 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
23752678 CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
66 CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
23752743 AC
131 AC
** * * * * ** * *
23752745 CTGC-ATCTTCGATTTACTT-C-ACGCAAATACATGAAGACAAGATTTGCTTTCTTCGATCTACT
1 CTGCTATCTTCGATCCACTTCCTAC-C-AATATAGGAAGATAGGACCTGCTATCTTCGATCCACT
* * * * * * * * * *
23752807 T-CAAGCCAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGA
64 TCCTA-CCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC-CTACCAATATAGGAAGA
* ** *
23752871 CAATAT
127 TAGGAC
* * * * *
23752877 CTGC-ATCTTTGATCCACTTCCTACCAATATAAGAATACAGGACTTGCTATCTTCGAT
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGAT
23752934 TTACTTCACG
Statistics
Matches: 506, Mismatches: 67, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
129 2 0.00
130 8 0.02
131 114 0.23
132 375 0.74
133 3 0.01
134 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (132 bp):
CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
AC
Found at i:23752940 original size:88 final size:88
Alignment explanation
Indices: 23752219--23752933 Score: 786
Period size: 88 Copynumber: 8.2 Consensus size: 88
23752209 AAGACAAGAT
**
23752219 CTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGC-ATCTTCGATTTACTT-
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
* * * * * *
23752281 C-ACGGAAATACATGAAGACAAGAT
66 CTAC--CAATATAGGAAGATAGGAC
* * * * * * * * * * * *
23752305 TTGCTTTCTTCGCTCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 CTGCTATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTT
* * * * * *
23752369 CGCCACCAGTATGGGAAGACAAGAT
65 C-CTACCAATATAGGAAGATAGGAC
23752394 CTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
23752458 CTACCAATATAGGAAGATAGGAC
66 CTACCAATATAGGAAGATAGGAC
23752481 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
23752546 CTACCAATATAGGAAGATAGGAC
66 CTACCAATATAGGAAGATAGGAC
23752569 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
23752634 CTACCAATATAGGAAGATAGGAC
66 CTACCAATATAGGAAGATAGGAC
23752657 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
1 CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
23752722 CTACCAATATAGGAAGATAGGAC
66 CTACCAATATAGGAAGATAGGAC
** * * * * ** * *
23752745 CTGC-ATCTTCGATTTACTT-C-ACGCAAATACATGAAGACAAGATTTGCTTTCTTCGATCTACT
1 CTGCTATCTTCGATCCACTTCCTAC-C-AATATAGGAAGATAGGACCTGCTATCTTCGATCCACT
* * * * *
23752807 T-CAAGCCAATACATGAAGATAAGAT
64 TCCTA-CCAATATAGGAAGATAGGAC
* * * * * * ** * *
23752832 CTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAATATCTGC-ATCTTTGATCCACTT
1 CTGCTATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTT
* * *
23752896 CCTACCAATATAAGAATACAGGAC
65 CCTACCAATATAGGAAGATAGGAC
*
23752920 TTGCTATCTTCGAT
1 CTGCTATCTTCGAT
23752934 TTACTTCACG
Statistics
Matches: 543, Mismatches: 70, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
85 2 0.00
86 7 0.01
87 117 0.22
88 375 0.69
89 35 0.06
90 3 0.01
91 4 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (88 bp):
CTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTATCTTCGATCCACTTC
CTACCAATATAGGAAGATAGGAC
Found at i:23759797 original size:12 final size:12
Alignment explanation
Indices: 23759780--23759824 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
23759770 GAAGTCTCTC
*
23759780 TGTGTTAGGCCT
1 TGTGTTGGGCCT
23759792 TGTGTTGGGCCT
1 TGTGTTGGGCCT
*
23759804 TGGGTTGGGCCT
1 TGTGTTGGGCCT
23759816 TGTGTTGGG
1 TGTGTTGGG
23759825 TTCTTGCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.02, C:0.13, G:0.44, T:0.40
Consensus pattern (12 bp):
TGTGTTGGGCCT
Found at i:23764287 original size:107 final size:107
Alignment explanation
Indices: 23764055--23764465 Score: 603
Period size: 107 Copynumber: 3.9 Consensus size: 107
23764045 AAGTTAATAA
* * * * * *
23764055 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCCAGCACATTAGGGCACGTTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* * * * * **
23764120 TTCCGAACAC-AAATATTGCCTCACTTCGAAAGTTT-AAAAG
66 TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
* * * *
23764160 GATATTTGGCTATTTGGTCAAACAAGAAGTCGAAACCCAACACGTTAGGGTACG-TTTCTTCGAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTC-TCGAT
23764224 TTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
65 TTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
23764267 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
23764332 TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAA
66 TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
* *
23764374 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGTACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
23764439 TTCCAAACGCGAAATATTGCCTTATTT
66 TTCCAAACGCGAAATATTACCTTATTT
23764466 AGAAAAACCT
Statistics
Matches: 277, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
104 3 0.01
105 59 0.21
106 20 0.07
107 191 0.69
108 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.31
Consensus pattern (107 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAG
Found at i:23767400 original size:16 final size:16
Alignment explanation
Indices: 23767381--23767436 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
23767371 AGCTTTATAT
*
23767381 TTTTTAAGGTTTAGTG
1 TTTTTAAGGTTTAGGG
*
23767397 TTTTTACGAGTTTAGGG
1 TTTTTAAG-GTTTAGGG
* *
23767414 ATTTTTATGGTTCAGGG
1 -TTTTTAAGGTTTAGGG
23767431 TTTTTA
1 TTTTTA
23767437 CTGGGTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 13 0.38
17 14 0.41
18 7 0.21
ACGTcount: A:0.18, C:0.04, G:0.25, T:0.54
Consensus pattern (16 bp):
TTTTTAAGGTTTAGGG
Found at i:23767418 original size:18 final size:17
Alignment explanation
Indices: 23767381--23767452 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
23767371 AGCTTTATAT
* *
23767381 TTTTTAAGGTTTAGTG-
1 TTTTTACGGTTTAGGGA
23767397 TTTTTACGAGTTTAGGGA
1 TTTTTACG-GTTTAGGGA
* *
23767415 TTTTTATGGTTCAGGG-
1 TTTTTACGGTTTAGGGA
23767431 TTTTTACTGGGTTTAGGGA
1 TTTTTAC--GGTTTAGGGA
23767450 TTT
1 TTT
23767453 GATGTAGACA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
16 13 0.29
17 14 0.31
18 15 0.33
19 3 0.07
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (17 bp):
TTTTTACGGTTTAGGGA
Found at i:23767420 original size:34 final size:35
Alignment explanation
Indices: 23767381--23767452 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 35
23767371 AGCTTTATAT
* *
23767381 TTTTTAAGGTTTAGTGTTTTTAC-GAGTTTAGGGA
1 TTTTTAAGGTTCAGGGTTTTTACTGAGTTTAGGGA
* *
23767415 TTTTTATGGTTCAGGGTTTTTACTGGGTTTAGGGA
1 TTTTTAAGGTTCAGGGTTTTTACTGAGTTTAGGGA
23767450 TTT
1 TTT
23767453 GATGTAGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
34 20 0.61
35 13 0.39
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (35 bp):
TTTTTAAGGTTCAGGGTTTTTACTGAGTTTAGGGA
Found at i:23770978 original size:14 final size:15
Alignment explanation
Indices: 23770959--23770996 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
23770949 AAAATAATAC
23770959 TAATAATATAG-TAT
1 TAATAATATAGATAT
*
23770973 TAATAAAAT-GATAT
1 TAATAATATAGATAT
23770987 TAATAATATA
1 TAATAATATA
23770997 ACTACTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (15 bp):
TAATAATATAGATAT
Found at i:23770979 original size:28 final size:27
Alignment explanation
Indices: 23770935--23770996 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
23770925 GGGTAATATA
*
23770935 AATATAAGATTATTAAAATAATACTAAT
1 AATAT-AGATTAATAAAATAATACTAAT
* *
23770963 AATATAGTATTAATAAAATGATATTAAT
1 AATATAG-ATTAATAAAATAATACTAAT
23770991 AATATA
1 AATATA
23770997 ACTACTTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (27 bp):
AATATAGATTAATAAAATAATACTAAT
Found at i:23771271 original size:12 final size:12
Alignment explanation
Indices: 23771254--23771278 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23771244 CAACACAGGC
23771254 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23771266 TTTTAGCGGCGT
1 TTTTAGCGGCGT
23771278 T
1 T
23771279 CTATCAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:23771476 original size:114 final size:111
Alignment explanation
Indices: 23771307--23771597 Score: 284
Period size: 114 Copynumber: 2.6 Consensus size: 111
23771297 AAAATAAACA
** * *
23771307 TTAGCGGCGATTTCCAGAAAGCGCCGCTAAAAATCTAAGCCCAACGACG-TCGTTTTCGGAG-TT
1 TTAGCGGCG-TTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCT-GTTTTCGGAGCTT
*
23771370 TCGGGGATTTTAGCGGCATTTTCAAG-AAAGCGCCCCAAAAGATC-AGGGCT
64 TCGGGGA-TTTAGAGGCATTTT-AAGTAAAGCGCCCCAAAAG--CGAGGGCT
* *
23771420 TTAGCGGGGTTTCTAAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTT-TAAGAAAGCGCCGCAAA-AAACCTAAGCCCAACGACGCTGTTTTCGGAGCTT
* ** * * * *
23771485 TTGGGGATTTAGAGGTGTTTTTAGTAAAGCGCCGCTAATGCGAGGGCT
64 TCGGGGATTTAGAGGCATTTTAAGTAAAGCGCCCCAAAAGCGAGGGCT
** * * * **
23771533 TTAGCGGCGTTTTGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTT
1 TTAGCGGCGTTTTAAGAAAGCGCCGC-AAAAAACCTAAGCCCAACGACGCTGTTTTCGGAGCTTT
23771598 TGTGGATATA
Statistics
Matches: 150, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
112 47 0.31
113 44 0.29
114 50 0.33
115 9 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (111 bp):
TTAGCGGCGTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGCTGTTTTCGGAGCTTTC
GGGGATTTAGAGGCATTTTAAGTAAAGCGCCCCAAAAGCGAGGGCT
Found at i:23771588 original size:112 final size:113
Alignment explanation
Indices: 23771307--23771631 Score: 320
Period size: 112 Copynumber: 2.9 Consensus size: 113
23771297 AAAATAAACA
* * * * *
23771307 TTAGCGGCGATTTC-CAGAAAGCGCCGC-TAAAAATCTAAGCCCAACGACGTCGTTTTCGGAG-T
1 TTAGCGGCG-TTTCTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
* * * * * * * * *
23771369 TTCGGGGATTTTAGCGGCATTTTCAAGAAAGCGCCCCAAAAGATC-AGGGCT
65 TTTGGGGA-TATAGAGACGTTTTTAAGAAAGCGCCGCTAATG--CGAGGGCT
* * *
23771420 TTAGCGGGGTTTCTAAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGCTGTTTTCTGAGCTT
1 TTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* **
23771485 TTGGGGATTTAGAGGTGTTTTT-AGTAAAGCGCCGCTAATGCGAGGGCT
66 TTGGGGATATAGAGACGTTTTTAAG-AAAGCGCCGCTAATGCGAGGGCT
** * * *
23771533 TTAGCGGCGTTT-TGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
23771597 TTGTGGATATAGTGACGTTTTTAAGAAAGCGCCGC
66 TTGGGGATATAGAGACGTTTTTAAGAAAGCGCCGC
23771632 AAAAAAACCT
Statistics
Matches: 177, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
112 77 0.44
113 41 0.23
114 51 0.29
115 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (113 bp):
TTAGCGGCGTTTCTAAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TTGGGGATATAGAGACGTTTTTAAGAAAGCGCCGCTAATGCGAGGGCT
Found at i:23771779 original size:72 final size:73
Alignment explanation
Indices: 23771534--23771776 Score: 301
Period size: 73 Copynumber: 3.4 Consensus size: 73
23771524 GCGAGGGCTT
* * * *
23771534 TAGCGGCG-TTTTGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
23771598 TGTGGATA
66 TGTGGATA
* * * * * *
23771606 TAGTGACGTTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTTCTGATCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
* *
23771671 TGGGGATT
66 TGTGGATA
* * * **
23771679 TAGCGGCGTTTTTGGGAAAGCGTCGC-TAAAAACCTAAACGAAACGATGTCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
*
23771743 CGTGGATA
66 TGTGGATA
*
23771751 TAGCGGTGTTTTTAGGAAAGCGCCGC
1 TAGCGGCGTTTTTAGGAAAGCGCCGC
23771777 TAATGCTCAG
Statistics
Matches: 141, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
72 66 0.47
73 75 0.53
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (73 bp):
TAGCGGCGTTTTTAGGAAAGCGCCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
TGTGGATA
Found at i:23771914 original size:10 final size:10
Alignment explanation
Indices: 23771899--23771923 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23771889 GCTAATGCTC
23771899 AAATAGTTTA
1 AAATAGTTTA
23771909 AAATAGTTTA
1 AAATAGTTTA
23771919 AAATA
1 AAATA
23771924 TTTGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAATAGTTTA
Found at i:23772177 original size:22 final size:22
Alignment explanation
Indices: 23772113--23772173 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
23772103 AGGGTTAGGA
*
23772113 GCTTATGATTTAGGGGTT-ATGG
1 GCTTATGGTTTA-GGGTTAATGG
* *
23772135 GCTTAAGGTCTATGGGTTAAT-G
1 GCTTATGGTTTA-GGGTTAATGG
23772157 GCTTATGGTTTAGGGTT
1 GCTTATGGTTTAGGGTT
23772174 TAATTAAGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 5 0.16
22 25 0.78
23 2 0.06
ACGTcount: A:0.18, C:0.07, G:0.34, T:0.41
Consensus pattern (22 bp):
GCTTATGGTTTAGGGTTAATGG
Found at i:23772201 original size:7 final size:7
Alignment explanation
Indices: 23772177--23772246 Score: 68
Period size: 7 Copynumber: 9.4 Consensus size: 7
23772167 TAGGGTTTAA
23772177 TTAAGAGT
1 TTAAG-GT
* *
23772185 TTATGAT
1 TTAAGGT
23772192 TTAAGGT
1 TTAAGGT
23772199 TTAAGGGT
1 TTAA-GGT
* *
23772207 TTATGCT
1 TTAAGGT
23772214 TTAGAGGT
1 TTA-AGGT
23772222 TTAAGGT
1 TTAAGGT
23772229 TTAAAGGT
1 TT-AAGGT
23772237 TTAAGGT
1 TTAAGGT
23772244 TTA
1 TTA
23772247 GGGGTTTAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
7 29 0.57
8 22 0.43
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (7 bp):
TTAAGGT
Found at i:23772209 original size:15 final size:15
Alignment explanation
Indices: 23772191--23772258 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
23772181 GAGTTTATGA
23772191 TTTAAGGTTTAAGGG
1 TTTAAGGTTTAAGGG
* *
23772206 TTTATGCTTT-AGAGG
1 TTTAAGGTTTAAG-GG
*
23772221 TTTAAGGTTTAAAGG
1 TTTAAGGTTTAAGGG
*
23772236 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAAGGG
23772251 TTT-AGGTT
1 TTTAAGGTT
23772259 ATCGTCTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 7 0.16
15 36 0.82
16 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (15 bp):
TTTAAGGTTTAAGGG
Found at i:23772226 original size:30 final size:30
Alignment explanation
Indices: 23772191--23772258 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
23772181 GAGTTTATGA
* *
23772191 TTTAAGGTTTAAGGGTTTATGCTTTAGAGG
1 TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
* *
23772221 TTTAAGGTTTAAAGGTTTAAGGTTTAGGGG
1 TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
23772251 TTT-AGGTT
1 TTTAAGGTT
23772259 ATCGTCTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (30 bp):
TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
Found at i:23772371 original size:28 final size:26
Alignment explanation
Indices: 23772340--23772424 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 26
23772330 TAAGTATGCA
*
23772340 GTTTATGATTTAGTGTTAAGAGTTTAGT
1 GTTTATG-TTTAGTGTT-AGAGTTTAGG
* *
23772368 GTTTATGGTTTAGGGTGTAGGGTTTAGG
1 GTTTAT-GTTTAGTGT-TAGAGTTTAGG
*
23772396 GTTTATTGTTTATTGTTTAGAGTTTAGG
1 GTTTA-TGTTTAGTG-TTAGAGTTTAGG
23772424 G
1 G
23772425 ATTAATACGG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 43 0.91
29 4 0.09
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (26 bp):
GTTTATGTTTAGTGTTAGAGTTTAGG
Found at i:23772378 original size:7 final size:7
Alignment explanation
Indices: 23772361--23772424 Score: 56
Period size: 7 Copynumber: 9.1 Consensus size: 7
23772351 AGTGTTAAGA
*
23772361 GTTTAGT
1 GTTTAGG
*
23772368 GTTTATG
1 GTTTAGG
23772375 GTTTAGG
1 GTTTAGG
*
23772382 GTGTAGG
1 GTTTAGG
23772389 GTTTAGG
1 GTTTAGG
**
23772396 GTTTATT
1 GTTTAGG
**
23772403 GTTTATT
1 GTTTAGG
*
23772410 GTTTAGA
1 GTTTAGG
23772417 GTTTAGG
1 GTTTAGG
23772424 G
1 G
23772425 ATTAATACGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:23772378 original size:14 final size:14
Alignment explanation
Indices: 23772340--23772414 Score: 62
Period size: 14 Copynumber: 5.4 Consensus size: 14
23772330 TAAGTATGCA
*
23772340 GTTTATGATTTAGT
1 GTTTATGGTTTAGT
*
23772354 G-TTAAGAGTTTAGT
1 GTTTATG-GTTTAGT
*
23772368 GTTTATGGTTTAGG
1 GTTTATGGTTTAGT
* * *
23772382 GTGTAGGGTTTAGG
1 GTTTATGGTTTAGT
* *
23772396 GTTTATTGTTTATT
1 GTTTATGGTTTAGT
23772410 GTTTA
1 GTTTA
23772415 GAGTTTAGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
13 4 0.08
14 40 0.83
15 4 0.08
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
GTTTATGGTTTAGT
Found at i:23772542 original size:103 final size:103
Alignment explanation
Indices: 23772412--23772603 Score: 339
Period size: 103 Copynumber: 1.9 Consensus size: 103
23772402 TGTTTATTGT
* * *
23772412 TTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTT
1 TTAGAGTTTAGGGATTAATACAGGCATAAGGTATATGGGTTAAGAAGGCATATCGTTTAGGGTTT
23772477 AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
66 AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
*
23772515 TTAGAGTTTAGGGATTAATACAGGCATAAGGTATATGGGTTAAGAGGGCATATCGTTTAGGGTTT
1 TTAGAGTTTAGGGATTAATACAGGCATAAGGTATATGGGTTAAGAAGGCATATCGTTTAGGGTTT
*
23772580 AAATTTTATATTTTAGGGTTTAGG
66 AAATTTTATATTTTAAGGTTTAGG
23772604 ATTATGGTAA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (103 bp):
TTAGAGTTTAGGGATTAATACAGGCATAAGGTATATGGGTTAAGAAGGCATATCGTTTAGGGTTT
AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
Found at i:23773137 original size:116 final size:114
Alignment explanation
Indices: 23772845--23773143 Score: 327
Period size: 116 Copynumber: 2.6 Consensus size: 114
23772835 TTAGTTTTCA
* *
23772845 TTTTAGTGGCGTTTCTTC-ATAAACGCCGCAATTATGTTTTAAGTCTTTGCTAAACACTGTCG-T
1 TTTTAGTGGCGTTT-TTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
* * ** ** *
23772908 TTTAAATTGCGTTTTAGTGGCGTTTTCTCTTATGCGCCGCAAAATTTCGG
65 TTTATATTGCATTTTAGTGGCGTTTTCTCTTAAACGCCGCAAAAGGTAGG
* * *
23772958 TTTTTGTGGCGTTTTT-ATGATAAACGCCGCAGTTATGTTTTAAGTATTTGCTAAACGCAGTCGT
1 TTTTAGTGGCGTTTTTCA--ATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGT
* * * *
23773022 TTTTATTTTGCATTATTAGTGGTGTTTT-TCGTTAAACGCCGCAATAGGTATG
64 TTTTATATTGCATT-TTAGTGGCGTTTTCTC-TTAAACGCCGCAAAAGGTAGG
* * * * *
23773074 TTTTAGTGGCATTTTGTCAATAAACGCCGCAAATATGTTTTAAGTGTTTGCTAAACGGTGTCGTA
1 TTTTAGTGGCGTTTT-TCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
23773139 TTTAT
65 TTTAT
23773144 CTGCCATTTT
Statistics
Matches: 154, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
112 2 0.01
113 13 0.08
114 40 0.26
115 13 0.08
116 84 0.55
117 1 0.01
118 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (114 bp):
TTTTAGTGGCGTTTTTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTTT
TTATATTGCATTTTAGTGGCGTTTTCTCTTAAACGCCGCAAAAGGTAGG
Found at i:23773279 original size:14 final size:14
Alignment explanation
Indices: 23773262--23773289 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23773252 CCCCACTCAG
23773262 ATTTCCCCAATTTC
1 ATTTCCCCAATTTC
23773276 ATTTCCCCAATTTC
1 ATTTCCCCAATTTC
23773290 CCAAATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.43
Consensus pattern (14 bp):
ATTTCCCCAATTTC
Found at i:23775575 original size:36 final size:36
Alignment explanation
Indices: 23775530--23776484 Score: 936
Period size: 36 Copynumber: 26.7 Consensus size: 36
23775520 AACATAATAT
* * *
23775530 CTTACATAACTTACATAAATTACATAAATTAAATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
23775566 CTTACATAACTTACATAAATTAAATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775602 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775638 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775674 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775710 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775746 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775782 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775818 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775854 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775890 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775926 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775962 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23775998 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23776034 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23776070 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23776106 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23776142 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23776178 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23776214 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
* * * *
23776250 CTTACATAAATTAAATAACTTACATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
*
23776286 CTTACATAAATTACATAAA-T---T-A---A-ATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
23776313 CTTACATAACTTACATAAATTAAATAACTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
*
23776349 CTTACATAACTTACATAAATTAAAAAACTTACTTATTAA
1 CTTACATAACTTACATAAATTAAATAACTTAC--A-TAA
* *
23776388 CTTACATAAGTTATC-TACAAGCTTATATATAAACTTGCATAA
1 CTTACATAACTTA-CATA-AA--TTA-A-AT-AACTTACATAA
*
23776430 CTTACATAA-TAACAT-AA-T--AT--CTTACATAA
1 CTTACATAACTTACATAAATTAAATAACTTACATAA
*
23776459 CTTACATAAATTACATAAATTAAATA
1 CTTACATAACTTACATAAATTAAATA
23776485 TCTGGCGTTT
Statistics
Matches: 876, Mismatches: 17, Indels: 53
0.93 0.02 0.06
Matches are distributed among these distances:
27 22 0.03
28 2 0.00
29 17 0.02
30 5 0.01
31 4 0.00
32 5 0.01
34 2 0.00
35 2 0.00
36 766 0.87
38 1 0.00
39 19 0.02
40 4 0.00
41 3 0.00
42 15 0.02
43 2 0.00
44 1 0.00
45 6 0.01
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (36 bp):
CTTACATAACTTACATAAATTAAATAACTTACATAA
Found at i:23775625 original size:72 final size:72
Alignment explanation
Indices: 23775530--23776484 Score: 1611
Period size: 72 Copynumber: 13.2 Consensus size: 72
23775520 AACATAATAT
* * * * * * * * *
23775530 CTTACATAACTTACATAAATTACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775595 TACATAA
66 TACATAA
23775602 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775667 TACATAA
66 TACATAA
23775674 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775739 TACATAA
66 TACATAA
23775746 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775811 TACATAA
66 TACATAA
23775818 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775883 TACATAA
66 TACATAA
23775890 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775955 TACATAA
66 TACATAA
23775962 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23776027 TACATAA
66 TACATAA
23776034 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23776099 TACATAA
66 TACATAA
23776106 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23776171 TACATAA
66 TACATAA
23776178 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23776243 TACATAA
66 TACATAA
* * *
23776250 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTACATAAATTAAATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23776315 TACATAA
66 TACATAA
*
23776322 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAAAAACTTACTTATTA
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTAC--A-TA
23776387 ACTTACATAA
63 ACTTACATAA
* * *
23776397 GTTATC-TACAAGCTTATATATAAACTTGCATAACTTACATAA-TAACAT-AA-T--AT--CTTA
1 CTTA-CATA-AA--TTA-A-AT-AACTTACATAACTTACATAACTTACATAAATTAAATAACTTA
23776454 CATAACTTACATAA
59 CATAACTTACATAA
*
23776468 ATTACATAAATTAAATA
1 CTTACATAAATTAAATA
23776485 TCTGGCGTTT
Statistics
Matches: 851, Mismatches: 21, Indels: 29
0.94 0.02 0.03
Matches are distributed among these distances:
65 1 0.00
66 2 0.00
67 1 0.00
68 3 0.00
70 3 0.00
71 17 0.02
72 764 0.90
74 6 0.01
75 17 0.02
76 4 0.00
78 4 0.00
79 3 0.00
80 7 0.01
81 19 0.02
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (72 bp):
CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
TACATAA
Found at i:23775674 original size:108 final size:108
Alignment explanation
Indices: 23775530--23776484 Score: 1611
Period size: 108 Copynumber: 8.8 Consensus size: 108
23775520 AACATAATAT
* * * * * * * * *
23775530 CTTACATAACTTACATAAATTACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775595 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
66 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
23775638 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775703 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
66 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
23775746 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775811 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
66 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
23775854 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23775919 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
66 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
23775962 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23776027 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
66 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
23776070 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23776135 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
66 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
23776178 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
23776243 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
66 TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
* * *
23776286 CTTACATAAATTACATAAATTAAATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
1 CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
*
23776351 TACATAACTTACATAAATTAAAAAACTTACTTATTAACTTACATAA
66 TACATAACTTACATAAATTAAATAACTTAC--A-TAACTTACATAA
* * *
23776397 GTTATC-TACAAGCTTATATATAAACTTGCATAACTTACATAA-TAACAT-AA-T--AT--CTTA
1 CTTA-CATA-AA--TTA-A-AT-AACTTACATAACTTACATAACTTACATAAATTAAATAACTTA
*
23776454 CATAACTTACATAAATTACATAAATTAAATA
59 CATAACTTACATAACTTACATAAATTAAATA
23776485 TCTGGCGTTT
Statistics
Matches: 816, Mismatches: 21, Indels: 18
0.95 0.02 0.02
Matches are distributed among these distances:
108 730 0.89
110 34 0.04
111 17 0.02
112 5 0.01
114 4 0.00
115 2 0.00
116 7 0.01
117 17 0.02
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (108 bp):
CTTACATAAATTAAATAACTTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACT
TACATAACTTACATAAATTAAATAACTTACATAACTTACATAA
Found at i:23776477 original size:9 final size:9
Alignment explanation
Indices: 23776451--23776480 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
23776441 ACATAATATC
*
23776451 TTACATAAC
1 TTACATAAA
23776460 TTACATAAA
1 TTACATAAA
23776469 TTACATAAA
1 TTACATAAA
23776478 TTA
1 TTA
23776481 AATATCTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAA
Found at i:23783671 original size:21 final size:21
Alignment explanation
Indices: 23783647--23783691 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
23783637 TTAAGCATTC
23783647 AAAATAAAAAGTTTTCAATTT
1 AAAATAAAAAGTTTTCAATTT
*
23783668 AAAATAAAAAGTTTTTAATTT
1 AAAATAAAAAGTTTTCAATTT
23783689 AAA
1 AAA
23783692 CACCTACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
AAAATAAAAAGTTTTCAATTT
Found at i:23787541 original size:45 final size:45
Alignment explanation
Indices: 23787477--23787568 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 45
23787467 AGTGGGATAC
*
23787477 TTAGTATTGCAGGCGATAATGGAAG-TAGGAATGTGTTGGATGCTT
1 TTAGTATTGCAGGCGATAATGGAAGCT-GGAATGTGCTGGATGCTT
* *
23787522 TTAGTATTGCTGGTGATAATGGAAGCTGGAATGTGCTGGATGCTT
1 TTAGTATTGCAGGCGATAATGGAAGCTGGAATGTGCTGGATGCTT
23787567 TT
1 TT
23787569 TTCTTAAGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 42 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.08, G:0.33, T:0.36
Consensus pattern (45 bp):
TTAGTATTGCAGGCGATAATGGAAGCTGGAATGTGCTGGATGCTT
Found at i:23790454 original size:25 final size:25
Alignment explanation
Indices: 23790401--23790455 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
23790391 AAAAAAGTTT
**
23790401 TGTGTGTTTATTTTTATTTAAATTT
1 TGTGTGTTTATTTTTATTTAAATAA
*
23790426 TGTGCTGTTTATTTTTATTT-GATAA
1 TGTG-TGTTTATTTTTATTTAAATAA
23790451 TGTGT
1 TGTGT
23790456 AATTGCAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 10 0.38
26 15 0.58
ACGTcount: A:0.18, C:0.02, G:0.16, T:0.64
Consensus pattern (25 bp):
TGTGTGTTTATTTTTATTTAAATAA
Found at i:23792835 original size:24 final size:25
Alignment explanation
Indices: 23792800--23792847 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
23792790 TTATGAAATT
23792800 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
23792824 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
23792848 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:23792915 original size:17 final size:17
Alignment explanation
Indices: 23792890--23792923 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23792880 ATAATTTTAA
*
23792890 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
23792907 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
23792924 TTAATATTAA
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:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:23792925 original size:15 final size:16
Alignment explanation
Indices: 23792890--23792928 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
23792880 ATAATTTTAA
*
23792890 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
23792907 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
23792922 ATTTAAT
1 ATTTAAT
23792929 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:23792932 original size:17 final size:18
Alignment explanation
Indices: 23792894--23792933 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
23792884 TTTTAAATTT
*
23792894 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
23792912 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
23792928 TATTAA
1 TATTAA
23792934 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:23793037 original size:18 final size:17
Alignment explanation
Indices: 23793009--23793043 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23792999 TTTATTAAGA
*
23793009 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23793026 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23793044 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23793050 original size:120 final size:120
Alignment explanation
Indices: 23792889--23793177 Score: 483
Period size: 120 Copynumber: 2.4 Consensus size: 120
23792879 AATAATTTTA
* * *
23792889 AATTTTATTAAATCATATA-TTTAATT-AAATCATATTTAATATTAATTATTTGAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAAT-ATATTTAATATTAATTATTTCAAATTATCTTT
* *
23792952 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
23793008 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
*
23793073 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
* *
23793128 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
23793178 GTTTAAATAT
Statistics
Matches: 160, Mismatches: 8, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
119 18 0.11
120 138 0.86
121 4 0.03
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
Found at i:23793145 original size:59 final size:59
Alignment explanation
Indices: 23792962--23793145 Score: 164
Period size: 66 Copynumber: 3.1 Consensus size: 59
23792952 TATAGTATCA
* * *
23792962 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* * * ** * *
23793021 TATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATTATTTCA-AATTATCTTTTATAGTAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTA-A--AT
23793080 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
23793141 TATAT
1 TATAT
23793146 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
54 13 0.14
55 7 0.07
56 13 0.14
57 1 0.01
58 3 0.03
59 11 0.12
61 6 0.06
62 3 0.03
63 1 0.01
64 13 0.14
65 8 0.09
66 15 0.16
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:23793163 original size:16 final size:16
Alignment explanation
Indices: 23793142--23793183 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
23793132 TTATTAAATT
*
23793142 ATATATTTTAATTATA
1 ATATATTTTAATAATA
23793158 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
23793173 AT-TATGTTTAA
1 ATATAT-TTTAA
23793184 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:23793168 original size:15 final size:15
Alignment explanation
Indices: 23793133--23793174 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23793123 TTAAGAATTT
*
23793133 TATTAAATTAT-ATA
1 TATTTAATTATAATA
23793147 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
23793161 TATTTAATAATAAT
1 TATTTAATTATAAT
23793175 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:23793291 original size:157 final size:157
Alignment explanation
Indices: 23793117--23793433 Score: 580
Period size: 157 Copynumber: 2.0 Consensus size: 157
23793107 ATAAGAATAT
*
23793117 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
23793182 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
23793247 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTCTGC
*
23793274 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTGATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
23793339 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
* * *
23793404 TAATCATTTATCAAAACAAATTTTTGC
131 TAATAATTTACCAAAACAAATTTCTGC
23793431 TAA
1 TAA
23793434 GGGTATTCTA
Statistics
Matches: 154, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 154 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGC
Found at i:23793314 original size:18 final size:17
Alignment explanation
Indices: 23793286--23793320 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23793276 ATTATTAAGA
*
23793286 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
23793303 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
23793321 TTGATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:23793579 original size:15 final size:15
Alignment explanation
Indices: 23793559--23793588 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
23793549 TTGCTATTAC
23793559 ACCTCTAATCCAATA
1 ACCTCTAATCCAATA
23793574 ACCTCTAATCCAATA
1 ACCTCTAATCCAATA
23793589 CAGCGAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (15 bp):
ACCTCTAATCCAATA
Found at i:23806034 original size:27 final size:27
Alignment explanation
Indices: 23805993--23806252 Score: 265
Period size: 27 Copynumber: 9.7 Consensus size: 27
23805983 GTAATAGGTC
*
23805993 TAAAATGAC-AGAAATACCCTTGAAGGG
1 TAAAATGACTA-AAATACCCTCGAAGGG
* **
23806020 TAAAATGACTAAAATGCCCTTAAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
* * *
23806047 TAAAATGACTAAAATGCCATCGAAGTG
1 TAAAATGACTAAAATACCCTCGAAGGG
23806074 TAAAATGACTAAAATACCCTCGAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
* * *
23806101 TAAAATAACTGAAATACCCTCAAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
*
23806128 TAAAATGACTGAAATACCCTCGAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
* ** *
23806155 TAAAATTACCGAAATACCCTCGAAAGG
1 TAAAATGACTAAAATACCCTCGAAGGG
* ** *
23806182 TACAATGACCGAAATTCCC-CGAAGGG
1 TAAAATGACTAAAATACCCTCGAAGGG
* ** *
23806208 TAAAATAACCGAAATACCC-CTGAAGGA
1 TAAAATGACTAAAATACCCTC-GAAGGG
*
23806235 TAAAATGACCAAAATACC
1 TAAAATGACTAAAATACC
23806253 ACTATAGGGT
Statistics
Matches: 204, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 23 0.11
27 180 0.88
28 1 0.00
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (27 bp):
TAAAATGACTAAAATACCCTCGAAGGG
Found at i:23806676 original size:28 final size:28
Alignment explanation
Indices: 23806618--23806722 Score: 124
Period size: 28 Copynumber: 3.8 Consensus size: 28
23806608 TTCTGTATTG
* *
23806618 GGCTAAGGCC-ACACTGTTACTGCTT-T
1 GGCTAAGGCCTAGACTATTACTGCTTAT
23806644 GGGCTAAGGCCTAGACTATTACTGCTTAT
1 -GGCTAAGGCCTAGACTATTACTGCTTAT
* * *
23806673 GGCTCAGGCCCAGACTATTACTGCTTAG
1 GGCTAAGGCCTAGACTATTACTGCTTAT
* *
23806701 GGCTCAGGCCTAGACTGTTACT
1 GGCTAAGGCCTAGACTATTACT
23806723 ACCAGACTGT
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
27 10 0.14
28 58 0.84
29 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.29
Consensus pattern (28 bp):
GGCTAAGGCCTAGACTATTACTGCTTAT
Found at i:23806731 original size:14 final size:14
Alignment explanation
Indices: 23806712--23806738 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23806702 GCTCAGGCCT
23806712 AGACTGTTACTACC
1 AGACTGTTACTACC
23806726 AGACTGTTACTAC
1 AGACTGTTACTAC
23806739 TTAGGGATCA
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:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (14 bp):
AGACTGTTACTACC
Found at i:23806742 original size:42 final size:42
Alignment explanation
Indices: 23806682--23806764 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
23806672 TGGCTCAGGC
* * *
23806682 CCAGACTATTACTGCTTAGGGCTCAGGCCTAGACTGTTACTA
1 CCAGACTATTACTACTTAGGGATCAGGCCCAGACTGTTACTA
* * *
23806724 CCAGACTGTTACTACTTAGGGATCAGTCCCAGATTGTTACT
1 CCAGACTATTACTACTTAGGGATCAGGCCCAGACTGTTACT
23806765 GTATGTTGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.30
Consensus pattern (42 bp):
CCAGACTATTACTACTTAGGGATCAGGCCCAGACTGTTACTA
Found at i:23811055 original size:18 final size:18
Alignment explanation
Indices: 23811032--23811068 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23811022 TTTTGCTGAT
23811032 TTTGATTTTGAGGGTTTG
1 TTTGATTTTGAGGGTTTG
*
23811050 TTTGATTTTGTGGGTTTG
1 TTTGATTTTGAGGGTTTG
23811068 T
1 T
23811069 GTTCTGGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.59
Consensus pattern (18 bp):
TTTGATTTTGAGGGTTTG
Found at i:23817100 original size:41 final size:41
Alignment explanation
Indices: 23817038--23817157 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
23817028 TATATATATN
* *
23817038 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
*
23817079 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
* * * * * * *
23817120 CATTTCGGACTATAGGTCTAGCAGGCTAAAAGCCGGTG
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTG
23817158 TACTGAATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:23820283 original size:20 final size:20
Alignment explanation
Indices: 23820258--23820346 Score: 65
Period size: 20 Copynumber: 4.5 Consensus size: 20
23820248 GCTTGTACGA
23820258 GTTTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* *
23820278 GTTTGCATTTTGGTGCCTCT
1 GTTTGCACTTCGGTGCCTCT
* * * *
23820298 -TTTCACACTTTGTTGTCTCT
1 GTTT-GCACTTCGGTGCCTCT
* *
23820318 ATTTGCAC-TCTAGTGCCTCT
1 GTTTGCACTTC-GGTGCCTCT
*
23820338 GATTGCACT
1 GTTTGCACT
23820347 ATGATTGATA
Statistics
Matches: 52, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
19 4 0.08
20 45 0.87
21 3 0.06
ACGTcount: A:0.10, C:0.26, G:0.19, T:0.45
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCCTCT
Found at i:23831162 original size:15 final size:14
Alignment explanation
Indices: 23831140--23831179 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
23831130 AACCTGTAGA
23831140 AATTAAATTAAACT
1 AATTAAATTAAACT
*
23831154 AAGTTAAATAAAACT
1 AA-TTAAATTAAACT
*
23831169 AATGAAATTAA
1 AATTAAATTAA
23831180 GTAAAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (14 bp):
AATTAAATTAAACT
Found at i:23831419 original size:152 final size:152
Alignment explanation
Indices: 23831143--23831449 Score: 524
Period size: 152 Copynumber: 2.0 Consensus size: 152
23831133 CTGTAGAAAT
23831143 TAAATTAAACTAAGTTAAATAAAACTAATGAAATTAAGTAAAATAACCAAACCAAATTACACCAA
1 TAAATTAAACTAAGTTAAATAAAACTAATGAAATTAAGTAAAATAACCAAACCAAATTACACCAA
* ** * *
23831208 ATTGTTGATCCCTGGCAACGGCGCCAAAAACTTGTCACGTGTGAAATGATATGTGATTTGTGCAA
66 ATTGTTGATCCCCGGCAACAACGCCAAAAACTTGTCACGTGTGAAATGATACGTGATTTGTACAA
23831273 GTATACACATCGAATCAAGTAA
131 GTATACACATCGAATCAAGTAA
* *
23831295 TAAATTAAACTAAGTTAAATAAAACTAATGGAATTAAGTAAAATAACCAAACCAAATTACATCAA
1 TAAATTAAACTAAGTTAAATAAAACTAATGAAATTAAGTAAAATAACCAAACCAAATTACACCAA
* *
23831360 ATTGTTGATCCCCGGTAACAACGCCAAAAACTTTTCACGTGTGAAATGATACGTGATTTGTACAA
66 ATTGTTGATCCCCGGCAACAACGCCAAAAACTTGTCACGTGTGAAATGATACGTGATTTGTACAA
*
23831425 GTATACACGTCGAATCAAGTAA
131 GTATACACATCGAATCAAGTAA
23831447 TAA
1 TAA
23831450 GGTGATATGT
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
152 145 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (152 bp):
TAAATTAAACTAAGTTAAATAAAACTAATGAAATTAAGTAAAATAACCAAACCAAATTACACCAA
ATTGTTGATCCCCGGCAACAACGCCAAAAACTTGTCACGTGTGAAATGATACGTGATTTGTACAA
GTATACACATCGAATCAAGTAA
Found at i:23832858 original size:15 final size:14
Alignment explanation
Indices: 23832836--23832875 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
23832826 AACCTGTAGA
23832836 AATTAAATTAAACT
1 AATTAAATTAAACT
*
23832850 AAGTTAAATAAAACT
1 AA-TTAAATTAAACT
*
23832865 AATGAAATTAA
1 AATTAAATTAA
23832876 GTAAAATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (14 bp):
AATTAAATTAAACT
Found at i:23833115 original size:152 final size:152
Alignment explanation
Indices: 23832839--23833145 Score: 524
Period size: 152 Copynumber: 2.0 Consensus size: 152
23832829 CTGTAGAAAT
23832839 TAAATTAAACTAAGTTAAATAAAACTAATGAAATTAAGTAAAATAACCAAACCAAATTACACCAA
1 TAAATTAAACTAAGTTAAATAAAACTAATGAAATTAAGTAAAATAACCAAACCAAATTACACCAA
* ** * *
23832904 ATTGTTGATCCCTGGCAACGGCGCCAAAAACTTGTCACGTGTGAAATGATATGTGATTTGTGCAA
66 ATTGTTGATCCCCGGCAACAACGCCAAAAACTTGTCACGTGTGAAATGATACGTGATTTGTACAA
23832969 GTATACACATCGAATCAAGTAA
131 GTATACACATCGAATCAAGTAA
* *
23832991 TAAATTAAACTAAGTTAAATAAAACTAATGGAATTAAGTAAAATAACCAAACCAAATTACATCAA
1 TAAATTAAACTAAGTTAAATAAAACTAATGAAATTAAGTAAAATAACCAAACCAAATTACACCAA
* *
23833056 ATTGTTGATCCCCGGTAACAACGCCAAAAACTTTTCACGTGTGAAATGATACGTGATTTGTACAA
66 ATTGTTGATCCCCGGCAACAACGCCAAAAACTTGTCACGTGTGAAATGATACGTGATTTGTACAA
*
23833121 GTATACACGTCGAATCAAGTAA
131 GTATACACATCGAATCAAGTAA
23833143 TAA
1 TAA
23833146 GGTGATATGT
Statistics
Matches: 145, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
152 145 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (152 bp):
TAAATTAAACTAAGTTAAATAAAACTAATGAAATTAAGTAAAATAACCAAACCAAATTACACCAA
ATTGTTGATCCCCGGCAACAACGCCAAAAACTTGTCACGTGTGAAATGATACGTGATTTGTACAA
GTATACACATCGAATCAAGTAA
Found at i:23834501 original size:54 final size:54
Alignment explanation
Indices: 23834418--23834545 Score: 184
Period size: 54 Copynumber: 2.4 Consensus size: 54
23834408 CAGCTCGTGC
* * *
23834418 CCCTGCCCATGTAACTCACTGATTTGGGCCACACGGTCAAGTCCCAGCCTATGT
1 CCCTGCCCGTGTAACTCACTCATTCGGGCCACACGGTCAAGTCCCAGCCTATGT
* * * * *
23834472 CCCTGCCCGTGTAACTGACTCATTCGGGCCATACTGTCATGTCCTAGCCTATGT
1 CCCTGCCCGTGTAACTCACTCATTCGGGCCACACGGTCAAGTCCCAGCCTATGT
23834526 CCCTGCCCGTGTAACTCACT
1 CCCTGCCCGTGTAACTCACT
23834546 GAGTCAAGCC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.18, C:0.36, G:0.20, T:0.27
Consensus pattern (54 bp):
CCCTGCCCGTGTAACTCACTCATTCGGGCCACACGGTCAAGTCCCAGCCTATGT
Found at i:23835618 original size:37 final size:36
Alignment explanation
Indices: 23835577--23835683 Score: 151
Period size: 37 Copynumber: 2.9 Consensus size: 36
23835567 ACATCAATTT
23835577 CTCATAAGAGCTAATCCACCTGATAACACGCCAAACG
1 CTCATAAGAGCTAATCCACC-GATAACACGCCAAACG
* * *
23835614 CTCATAAGAGATAATCCAACCGATAACACGCTAAATG
1 CTCATAAGAGCTAATCC-ACCGATAACACGCCAAACG
*
23835651 CTCATAAGAGCTAATCCAACAGATAACACGCCA
1 CTCATAAGAGCTAATCC-ACCGATAACACGCCA
23835684 CAGCACTAAG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
37 60 0.95
38 3 0.05
ACGTcount: A:0.41, C:0.29, G:0.13, T:0.17
Consensus pattern (36 bp):
CTCATAAGAGCTAATCCACCGATAACACGCCAAACG
Found at i:23839215 original size:34 final size:34
Alignment explanation
Indices: 23839177--23839241 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
23839167 AACTATTAAC
23839177 CTATTCCAACTATATATATACCGATTCACATTCT
1 CTATTCCAACTATATATATACCGATTCACATTCT
* * *
23839211 CTATTCTAACTATATGTATATCGATTCACAT
1 CTATTCCAACTATATATATACCGATTCACAT
23839242 CTAAAGCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (34 bp):
CTATTCCAACTATATATATACCGATTCACATTCT
Found at i:23840268 original size:21 final size:22
Alignment explanation
Indices: 23840243--23840285 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
23840233 CATAAATAAC
23840243 AACACATT-GAACA-ATGAAATT
1 AACACATTCGAACAGAT-AAATT
*
23840264 AACACGTTCGAACAGATAAATT
1 AACACATTCGAACAGATAAATT
23840286 TTAAGGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 10 0.53
23 2 0.11
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (22 bp):
AACACATTCGAACAGATAAATT
Found at i:23852942 original size:18 final size:17
Alignment explanation
Indices: 23852918--23852964 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
23852908 AGAATCCTAG
*
23852918 GCCCACATGCCCGTGTG
1 GCCCACATGCCCGTGTA
* *
23852935 GACCCACACGCACGTGTA
1 G-CCCACATGCCCGTGTA
23852953 GCCCACATGCCC
1 GCCCACATGCCC
23852965 AGATTGGCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.19, C:0.45, G:0.23, T:0.13
Consensus pattern (17 bp):
GCCCACATGCCCGTGTA
Found at i:23853679 original size:12 final size:13
Alignment explanation
Indices: 23853662--23853690 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23853652 GAAGGAGAGA
23853662 AAAAAT-AAAAAT
1 AAAAATAAAAAAT
23853674 AAAAATAAAAAAT
1 AAAAATAAAAAAT
23853687 AAAA
1 AAAA
23853691 CATTATCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:23869573 original size:8 final size:8
Alignment explanation
Indices: 23869560--23869604 Score: 72
Period size: 8 Copynumber: 5.5 Consensus size: 8
23869550 TTTCAAAACC
23869560 TTTCTACT
1 TTTCTACT
23869568 TTTCTACT
1 TTTCTACT
23869576 TTTCTACT
1 TTTCTACT
23869584 TTTCTACTT
1 TTTCTAC-T
*
23869593 TTTCTATT
1 TTTCTACT
23869601 TTTC
1 TTTC
23869605 ATCTTTCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 28 0.80
9 7 0.20
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTCTACT
Found at i:23869611 original size:24 final size:23
Alignment explanation
Indices: 23869559--23869604 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
23869549 CTTTCAAAAC
23869559 CTTTCTACTTTTCTACTTTTCTA
1 CTTTCTACTTTTCTACTTTTCTA
*
23869582 CTTTTCTACTTTTTCTATTTTTC
1 C-TTTCTAC-TTTTCTACTTTTC
23869605 ATCTTTCGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 7 0.35
25 12 0.60
ACGTcount: A:0.11, C:0.24, G:0.00, T:0.65
Consensus pattern (23 bp):
CTTTCTACTTTTCTACTTTTCTA
Found at i:23879440 original size:20 final size:23
Alignment explanation
Indices: 23879391--23879441 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
23879381 TCAATCATGC
23879391 CAATTTTTAATTATACAAAGATA
1 CAATTTTTAATTATACAAAGATA
* *
23879414 AAATTTTTAA-TATA-AATGAT-
1 CAATTTTTAATTATACAAAGATA
23879434 CAATTTTT
1 CAATTTTT
23879442 TCTTTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.28
21 5 0.20
22 4 0.16
23 9 0.36
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
CAATTTTTAATTATACAAAGATA
Found at i:23885104 original size:22 final size:22
Alignment explanation
Indices: 23885078--23885120 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
23885068 CTCGTTAACA
23885078 AATTTATTCATTTTTTATAGAC
1 AATTTATTCATTTTTTATAGAC
23885100 AATTTATTCATTTTTTATAGA
1 AATTTATTCATTTTTTATAGA
23885121 TGATCTGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.56
Consensus pattern (22 bp):
AATTTATTCATTTTTTATAGAC
Found at i:23902264 original size:15 final size:15
Alignment explanation
Indices: 23902246--23902276 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23902236 ATTTTAATTT
23902246 ATTTTTTAATTAATA
1 ATTTTTTAATTAATA
*
23902261 ATTTTTTAATTTATA
1 ATTTTTTAATTAATA
23902276 A
1 A
23902277 AGTTAAATAA
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:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTTAATTAATA
Found at i:23904584 original size:13 final size:13
Alignment explanation
Indices: 23904568--23904592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23904558 ACTATGACAC
23904568 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
23904581 AAAAAGAAAAAA
1 AAAAAGAAAAAA
23904593 AACCCAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:23905300 original size:20 final size:21
Alignment explanation
Indices: 23905275--23905313 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23905265 GAATTGAAAA
23905275 TTTTTAAT-TCGATTTTTTGG
1 TTTTTAATATCGATTTTTTGG
*
23905295 TTTTTAATATGGATTTTTT
1 TTTTTAATATCGATTTTTT
23905314 TAATTCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.67
Consensus pattern (21 bp):
TTTTTAATATCGATTTTTTGG
Found at i:23910224 original size:89 final size:90
Alignment explanation
Indices: 23910055--23910224 Score: 270
Period size: 90 Copynumber: 1.9 Consensus size: 90
23910045 TCTTTTTTTG
* * * *
23910055 CACTCAATTGGGCACTTGAACTTTCAAAATGCATTAAAAAGACCCTTAAACTTCTTCAAAAAAAG
1 CACTCAATTGGCCACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTCTTCAAAAAAAG
23910120 CAATTAAGCCCCTGCTTTTTTCCCC
66 CAATTAAGCCCCTGCTTTTTTCCCC
* * *
23910145 CACTCAATTGGCCACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAATTTTTTC-AAAAATG
1 CACTCAATTGGCCACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTCTTCAAAAAAAG
23910209 CAATTAAGCCCCTGCT
66 CAATTAAGCCCCTGCT
23910225 CTTATTAAAA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 22 0.30
90 51 0.70
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.28
Consensus pattern (90 bp):
CACTCAATTGGCCACTTAAACTTTCAAAATGCATAAAAAAGACCCTCAAACTTCTTCAAAAAAAG
CAATTAAGCCCCTGCTTTTTTCCCC
Found at i:23910277 original size:19 final size:18
Alignment explanation
Indices: 23910244--23910325 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
23910234 AATTATAAAA
*
23910244 ATAATAAATAATAAATTTT
1 ATAA-AAATTATAAATTTT
23910263 ATAAAAATTATTAAATTTT
1 ATAAAAATTA-TAAATTTT
*
23910282 AATAAAAA-TATAAAATTT
1 -ATAAAAATTATAAATTTT
* **
23910300 ATTAAAATTTATATTTTTT
1 A-TAAAAATTATAAATTTT
23910319 ATAAAAA
1 ATAAAAA
23910326 CGTAAAAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
17 1 0.02
18 22 0.42
19 22 0.42
20 7 0.13
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAAAATTATAAATTTT
Found at i:23910288 original size:20 final size:18
Alignment explanation
Indices: 23910244--23910316 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 18
23910234 AATTATAAAA
*
23910244 ATAATAAATAATAAATTTT
1 ATAA-AAATATTAAATTTT
23910263 ATAAAAATTATTAAATTTT
1 ATAAAAA-TATTAAATTTT
*
23910282 AATAAAAATA-TAAAATTT
1 -ATAAAAATATTAAATTTT
* *
23910300 ATTAAAAT-TTATATTTT
1 ATAAAAATATTAAATTTT
23910317 TTATAAAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
17 13 0.28
18 10 0.22
19 16 0.35
20 7 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAAAAATATTAAATTTT
Found at i:23910369 original size:19 final size:18
Alignment explanation
Indices: 23910256--23910369 Score: 70
Period size: 19 Copynumber: 6.2 Consensus size: 18
23910246 AATAAATAAT
*
23910256 AAATTTTATAAAAATTATT
1 AAATTTTATAAAAA-TATA
23910275 AAATTTTAATAAAAATATA
1 AAATTTT-ATAAAAATATA
* *
23910294 AAA-TTTATTAAAATTTA
1 AAATTTTATAAAAATATA
** **
23910311 TATTTTTTATAAAAACGTA
1 -AAATTTTATAAAAATATA
*** *
23910330 AAAAAATA-AAAAATTACA
1 AAATTTTATAAAAA-TATA
23910348 AAATTTTATAAAAATCATA
1 AAATTTTATAAAAAT-ATA
23910367 AAA
1 AAA
23910370 AAATTAACGA
Statistics
Matches: 69, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
17 14 0.20
18 14 0.20
19 34 0.49
20 7 0.10
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (18 bp):
AAATTTTATAAAAATATA
Found at i:23910630 original size:21 final size:21
Alignment explanation
Indices: 23910589--23910673 Score: 61
Period size: 21 Copynumber: 4.1 Consensus size: 21
23910579 TATAATTTTT
* *
23910589 TTATATTTCTA-GATATATATA
1 TTATATTT-TATGATTTTTATA
23910610 TTATATTTTATGATTTTTATA
1 TTATATTTTATGATTTTTATA
* **
23910631 --AAATTTTACAATTTTT-TA
1 TTATATTTTATGATTTTTATA
*
23910649 TATATATTTTTATGAATTTTATA
1 T-TATA-TTTTATGATTTTTATA
23910672 TT
1 TT
23910674 TTTTCTAATT
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
18 2 0.04
19 13 0.27
20 2 0.04
21 18 0.37
22 11 0.22
23 3 0.06
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATATTTTATGATTTTTATA
Found at i:23910638 original size:19 final size:21
Alignment explanation
Indices: 23910604--23910672 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 21
23910594 TTTCTAGATA
23910604 TATATATTATATTTTATGATTTT
1 TATATA-TA-ATTTTATGATTTT
**
23910627 TATA-A-AATTTTACAATTTTT
1 TATATATAATTTTATGA-TTTT
* *
23910647 TATATATATTTTTATGAATTT
1 TATATATAATTTTATGATTTT
23910668 TATAT
1 TATAT
23910673 TTTTTCTAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
19 7 0.19
20 9 0.24
21 9 0.24
22 8 0.22
23 4 0.11
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
TATATATAATTTTATGATTTT
Found at i:23910885 original size:92 final size:90
Alignment explanation
Indices: 23910782--23911015 Score: 342
Period size: 92 Copynumber: 2.6 Consensus size: 90
23910772 AATTTTTAAT
* * *
23910782 AAAAGCAGGGGCTTAATTACTTTTTTTTTAATAAGTTTGAGGGTATTTTTTTATGCATTTTGAAG
1 AAAAGCAGGGGCTTAATTGCTTTTTTTTTAA-AAGTTTGAGGGT-TTTTTTGATGCATTTTGAAA
23910847 GTTCAAGTACCCAATTGAGTGCAAAAA
64 GTTCAAGTACCCAATTGAGTGCAAAAA
* **
23910874 AAAAGTAGGGGCTTAATTGCTTTTTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAA
1 AAAAGCAGGGGCTTAATTGCTTTTTTTTT-AAAA-GTTTGAGGGTTTTTTTGATGCATTTTGAAA
23910939 GTTCAAGTACCCAATTGAGTGCAAAAA
64 GTTCAAGTACCCAATTGAGTGCAAAAA
* * **
23910966 AAAAGCAGAGGCTAAATTGCTTTTTTTGAAAAAGTTTGAGGGTTTTTTTG
1 AAAAGCAGGGGCTTAATTGCTTTTTTTTTAAAAGTTTGAGGGTTTTTTTG
23911016 CACCATTAAG
Statistics
Matches: 127, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
90 15 0.12
91 4 0.03
92 97 0.76
93 11 0.09
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (90 bp):
AAAAGCAGGGGCTTAATTGCTTTTTTTTTAAAAGTTTGAGGGTTTTTTTGATGCATTTTGAAAGT
TCAAGTACCCAATTGAGTGCAAAAA
Found at i:23911808 original size:12 final size:12
Alignment explanation
Indices: 23911774--23911811 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23911764 TATTGATAAT
23911774 TTTTCACAAAAA
1 TTTTCACAAAAA
*
23911786 -TTTCGCAAAAAA
1 TTTTCAC-AAAAA
23911798 TTTTCACAAAAA
1 TTTTCACAAAAA
23911810 TT
1 TT
23911812 ACCAGCCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 5 0.23
12 12 0.55
13 5 0.23
ACGTcount: A:0.47, C:0.16, G:0.03, T:0.34
Consensus pattern (12 bp):
TTTTCACAAAAA
Found at i:23912556 original size:19 final size:19
Alignment explanation
Indices: 23912520--23912559 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23912510 AAAATATCAT
*
23912520 ATTAATTTTAATTAATTTG
1 ATTAATTTCAATTAATTTG
* *
23912539 ATTAATTTCATTTCATTTG
1 ATTAATTTCAATTAATTTG
23912558 AT
1 AT
23912560 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
ATTAATTTCAATTAATTTG
Found at i:23918311 original size:23 final size:23
Alignment explanation
Indices: 23918285--23918328 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
23918275 ACTAATAAAA
23918285 ATTTATAGCGATTAAGT-TTTACG
1 ATTTATA-CGATTAAGTCTTTACG
* *
23918308 ATTTTTACGATTTAGTCTTTA
1 ATTTATACGATTAAGTCTTTA
23918329 TACCCTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (23 bp):
ATTTATACGATTAAGTCTTTACG
Found at i:23933946 original size:17 final size:17
Alignment explanation
Indices: 23933910--23933952 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
23933900 ATTATTTTAT
23933910 TTTAGTTTTTTTAAGAAG
1 TTTA-TTTTTTTAAGAAG
*
23933928 TTATATTTTTTTAA-CAG
1 TT-TATTTTTTTAAGAAG
23933945 TTTATTTT
1 TTTATTTT
23933953 AATTTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 4 0.17
18 11 0.48
19 2 0.09
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (17 bp):
TTTATTTTTTTAAGAAG
Found at i:23936080 original size:5 final size:5
Alignment explanation
Indices: 23936063--23936092 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
23936053 AGCTTAATAA
*
23936063 ATAGT ATAAT ATAGT ATAGT ATAGT ATAGT
1 ATAGT ATAGT ATAGT ATAGT ATAGT ATAGT
23936093 CTAGATTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (5 bp):
ATAGT
Found at i:23937326 original size:13 final size:14
Alignment explanation
Indices: 23937310--23937349 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
23937300 TTAAAGTAGG
23937310 TTTTCTCTTCTTCT
1 TTTTCTCTTCTTCT
*
23937324 TTTT-TCTTTTTTCT
1 TTTTCTC-TTCTTCT
23937338 TTTTCTCTTCTT
1 TTTTCTCTTCTT
23937350 TTAGTTGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 18 0.82
15 2 0.09
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTCTCTTCTTCT
Found at i:23940121 original size:12 final size:12
Alignment explanation
Indices: 23940104--23940142 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 12
23940094 AACAGAGGAG
23940104 TATTTTTATTTT
1 TATTTTTATTTT
23940116 TATTTTTATTTTT
1 TATTTTTA-TTTT
23940129 TATTTTTTATTTT
1 TA-TTTTTATTTT
23940142 T
1 T
23940143 TTATTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.32
13 11 0.44
14 6 0.24
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TATTTTTATTTT
Found at i:23940122 original size:7 final size:7
Alignment explanation
Indices: 23940106--23940158 Score: 74
Period size: 7 Copynumber: 7.7 Consensus size: 7
23940096 CAGAGGAGTA
23940106 TTTTTA-
1 TTTTTAT
23940112 TTTTTA-
1 TTTTTAT
23940118 TTTTTAT
1 TTTTTAT
23940125 TTTTTAT
1 TTTTTAT
23940132 TTTTTATT
1 TTTTTA-T
23940140 TTTTTAT
1 TTTTTAT
*
23940147 TTTTTGT
1 TTTTTAT
23940154 TTTTT
1 TTTTT
23940159 TGTTGAAAAG
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
6 12 0.27
7 25 0.57
8 7 0.16
ACGTcount: A:0.11, C:0.00, G:0.02, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:23940135 original size:14 final size:14
Alignment explanation
Indices: 23940106--23940158 Score: 74
Period size: 15 Copynumber: 3.9 Consensus size: 14
23940096 CAGAGGAGTA
23940106 TTTTTA-TTTTTA-
1 TTTTTATTTTTTAT
23940118 TTTTTATTTTTTAT
1 TTTTTATTTTTTAT
23940132 TTTTTATTTTTTTAT
1 TTTTTA-TTTTTTAT
*
23940147 TTTTTGTTTTTT
1 TTTTTATTTTTT
23940159 TGTTGAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 6 0.16
13 6 0.16
14 12 0.32
15 13 0.35
ACGTcount: A:0.11, C:0.00, G:0.02, T:0.87
Consensus pattern (14 bp):
TTTTTATTTTTTAT
Found at i:23940150 original size:6 final size:6
Alignment explanation
Indices: 23940104--23940142 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
23940094 AACAGAGGAG
23940104 TATTTT TATTTT TATTTT TATTTTT TATTTTT TATTTT T
1 TATTTT TATTTT TATTTT TA-TTTT TA-TTTT TATTTT T
23940143 TTATTTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 19 0.59
7 13 0.41
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TATTTT
Found at i:23940553 original size:83 final size:82
Alignment explanation
Indices: 23940442--23940606 Score: 303
Period size: 83 Copynumber: 2.0 Consensus size: 82
23940432 TAAAAGTAAA
*
23940442 GATAAATAGGAGAAAGAGAAAAAGAAAGAAACTCCCCATGTATATCAACGTCGTGGAGGGTGGTC
1 GATAAATAGGAGAAAGAGAAAAAAAAAGAAACTCCCCATGTATATCAACGTCGTGGAGGGTGGTC
23940507 TCGTAGGTAGAGTGGGC
66 TCGTAGGTAGAGTGGGC
*
23940524 NGATAAATAGGAGAAAGAGAAAAAAAAAGAAACTCCCCATGTATTTCAACGTCGTGGAGGGTGGT
1 -GATAAATAGGAGAAAGAGAAAAAAAAAGAAACTCCCCATGTATATCAACGTCGTGGAGGGTGGT
23940589 CTCGTAGGTAGAGTGGGC
65 CTCGTAGGTAGAGTGGGC
23940607 ATTGGCTGAA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.19
Consensus pattern (82 bp):
GATAAATAGGAGAAAGAGAAAAAAAAAGAAACTCCCCATGTATATCAACGTCGTGGAGGGTGGTC
TCGTAGGTAGAGTGGGC
Found at i:23955606 original size:13 final size:13
Alignment explanation
Indices: 23955570--23955605 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
23955560 TTCAAATTGA
23955570 TTTTTCTTTGTTT
1 TTTTTCTTTGTTT
*
23955583 TTTTTCTTTTTTT
1 TTTTTCTTTGTTT
23955596 TTCTTTCTTT
1 TT-TTTCTTT
23955606 TGTCCTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (13 bp):
TTTTTCTTTGTTT
Found at i:23956168 original size:29 final size:29
Alignment explanation
Indices: 23956131--23956189 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
23956121 CCGTGTGCCA
*
23956131 GGCCTTGTGGTAGGATGTGTGTAACACAT
1 GGCCGTGTGGTAGGATGTGTGTAACACAT
* *
23956160 GGCCGTGTGGTAGGCTGTGTGTGACACAT
1 GGCCGTGTGGTAGGATGTGTGTAACACAT
23956189 G
1 G
23956190 ACCATGTGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.17, C:0.15, G:0.39, T:0.29
Consensus pattern (29 bp):
GGCCGTGTGGTAGGATGTGTGTAACACAT
Found at i:23956197 original size:29 final size:29
Alignment explanation
Indices: 23956136--23956197 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
23956126 TGCCAGGCCT
* *
23956136 TGTGGTAGGATGTGTGTAACACATGGCCG
1 TGTGGTAGGATGTGTGTAACACATGACCA
* *
23956165 TGTGGTAGGCTGTGTGTGACACATGACCA
1 TGTGGTAGGATGTGTGTAACACATGACCA
23956194 TGTG
1 TGTG
23956198 ACAGACTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.19, C:0.15, G:0.37, T:0.29
Consensus pattern (29 bp):
TGTGGTAGGATGTGTGTAACACATGACCA
Found at i:23956206 original size:29 final size:29
Alignment explanation
Indices: 23956146--23956209 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
23956136 TGTGGTAGGA
* * ** *
23956146 TGTGTGTAACACATGGCCGTGTGGTAGGC
1 TGTGTGTAACACATGACCATGTGACAGAC
*
23956175 TGTGTGTGACACATGACCATGTGACAGAC
1 TGTGTGTAACACATGACCATGTGACAGAC
23956204 TGTGTG
1 TGTGTG
23956210 CTAGACTGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.28
Consensus pattern (29 bp):
TGTGTGTAACACATGACCATGTGACAGAC
Found at i:23958624 original size:22 final size:23
Alignment explanation
Indices: 23958598--23958643 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
23958588 TCGAGGGGAA
23958598 TTGCA-ATTTATC-GCATTTTTAC
1 TTGCAGATTT-TCTGCATTTTTAC
*
23958620 TTGCAGCTTTTCTGCATTTTTAC
1 TTGCAGATTTTCTGCATTTTTAC
23958643 T
1 T
23958644 GGTAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.17, C:0.20, G:0.11, T:0.52
Consensus pattern (23 bp):
TTGCAGATTTTCTGCATTTTTAC
Found at i:23959142 original size:28 final size:28
Alignment explanation
Indices: 23959108--23959163 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
23959098 AGGACCAGAC
*
23959108 TCGGCATTTGGAGAATCACCTTGGACCT
1 TCGGCATTCGGAGAATCACCTTGGACCT
23959136 TCGGCATTCGGAGAATCACCTTGGACCT
1 TCGGCATTCGGAGAATCACCTTGGACCT
23959164 CGAATTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (28 bp):
TCGGCATTCGGAGAATCACCTTGGACCT
Found at i:23960719 original size:71 final size:71
Alignment explanation
Indices: 23960626--23960867 Score: 229
Period size: 71 Copynumber: 3.4 Consensus size: 71
23960616 GCGTCTTGCG
* * * * * *
23960626 CTGGTCGGTAGAACCAAAAAATATGTGTGCACAGCACTGGTCGGTATAATTGACAATAAATGCAC
1 CTGGTCGATAAAACCGATAAATATGTGTGCCCAGCACTGGTCGGTATAACTGACAATAAATGCAC
23960691 CCTGCA
66 CCTGCA
* ** *
23960697 CTAGTCGATAAAACCGATAAATATGTGTGCCCAGCACTGGTCGGTATAACCAACAATAAATGTGA
1 CTGGTCGATAAAACCGATAAATATGTGTGCCCAGCACTGGTCGGTATAACTGACAATAAATG-CA
** * *
23960762 -TGTACG
65 CCCTGCA
* * * * * ** *
23960768 CTGGTCGGTAAAACTGACAAATATGTGTTCCCCGCACTGGTCAATATAACTGACAATAAATGCGC
1 CTGGTCGATAAAACCGATAAATATGTGTGCCCAGCACTGGTCGGTATAACTGACAATAAATGCAC
23960833 CCTGCA
66 CCTGCA
*
23960839 TTGGTC-AGTAAAACCGACT-AATATGTGTG
1 CTGGTCGA-TAAAACCGA-TAAATATGTGTG
23960868 AAATCATTTC
Statistics
Matches: 132, Mismatches: 35, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
71 131 0.99
72 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (71 bp):
CTGGTCGATAAAACCGATAAATATGTGTGCCCAGCACTGGTCGGTATAACTGACAATAAATGCAC
CCTGCA
Found at i:23960851 original size:142 final size:142
Alignment explanation
Indices: 23960587--23960867 Score: 343
Period size: 142 Copynumber: 2.0 Consensus size: 142
23960577 GAGTGTTCGT
* * * * *
23960587 AGCATTGGTCGGTATAAACAATAATAAATGCGTCTTGCGCTGGTCGGTAGAACCAAAAAATATGT
1 AGCACTGGTCGGTATAAACAACAATAAATGCGTCGTACGCTGGTCGGTAAAACCAAAAAATATGT
** *
23960652 GTGCACAGCACTGGTCGGTATAATTGACAATAAATGCACCCTGCACTAGTCGATAAAACCGA-TA
66 GTGCACAGCACTGGTCAATATAACTGACAATAAATGCACCCTGCACTAGTCGATAAAACCGACT-
23960716 AATATGTGTGCCC
130 AATATGTGTGCCC
* * ** *
23960729 AGCACTGGTCGGTATAACCAACAATAAATGTGAT-GTACGCTGGTCGGTAAAACTGACAAATATG
1 AGCACTGGTCGGTATAAACAACAATAAATGCG-TCGTACGCTGGTCGGTAAAACCAAAAAATATG
* * * * * *
23960793 TGTTCCCCGCACTGGTCAATATAACTGACAATAAATGCGCCCTGCATTGGTC-AGTAAAACCGAC
65 TGTGCACAGCACTGGTCAATATAACTGACAATAAATGCACCCTGCACTAGTCGA-TAAAACCGAC
23960857 TAATATGTGTG
129 TAATATGTGTG
23960868 AAATCATTTC
Statistics
Matches: 117, Mismatches: 19, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
141 1 0.01
142 114 0.97
143 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (142 bp):
AGCACTGGTCGGTATAAACAACAATAAATGCGTCGTACGCTGGTCGGTAAAACCAAAAAATATGT
GTGCACAGCACTGGTCAATATAACTGACAATAAATGCACCCTGCACTAGTCGATAAAACCGACTA
ATATGTGTGCCC
Found at i:23963156 original size:92 final size:92
Alignment explanation
Indices: 23963037--23963217 Score: 249
Period size: 92 Copynumber: 2.0 Consensus size: 92
23963027 ATGATAAATA
*
23963037 TATTGATGGATGAACCATCCATCTGTGTAGATAAAAAAATGCTAATA-AGTTGTTGATAAACCAC
1 TATTGATGGATGAACCATCCATCTGTGTAGAT-AAAAAATGCTAATATA-TTGTGGATAAACCAC
*
23963101 TAGTCGAGCAGATG-ACTGCCGACTAGAG
64 TAGTCGAGCAAATGAACTGCCGACTAGAG
* * * ** *
23963129 TATTGGTGGATGAACCATTCATTTGTGTAGATAAAAGTTGCTAATATATTGTGGATAAACCACTG
1 TATTGATGGATGAACCATCCATCTGTGTAGATAAAAAATGCTAATATATTGTGGATAAACCACTA
*
23963194 GTCGAGCAAATGAACTGTCGACTA
66 GTCGAGCAAATGAACTGCCGACTA
23963218 CTTCCTCTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
91 38 0.49
92 40 0.51
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (92 bp):
TATTGATGGATGAACCATCCATCTGTGTAGATAAAAAATGCTAATATATTGTGGATAAACCACTA
GTCGAGCAAATGAACTGCCGACTAGAG
Found at i:23969082 original size:37 final size:37
Alignment explanation
Indices: 23969041--23969113 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
23969031 AAAACAAACC
*
23969041 ATAG-TTATAAAATAATATATA-ATAAATAATAAAATAT
1 ATAGTTTA-AAAATAAAATATATA-AAATAATAAAATAT
*
23969078 ATAGTTTAAAAATAAAATATATAAAATATTAAAATA
1 ATAGTTTAAAAATAAAATATATAAAATAATAAAATA
23969114 AAAAAGATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 28 0.88
38 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (37 bp):
ATAGTTTAAAAATAAAATATATAAAATAATAAAATAT
Found at i:23970699 original size:25 final size:25
Alignment explanation
Indices: 23970652--23970700 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
23970642 TTAACACAAT
*
23970652 AATTATTTAAATATTATTATAAAAA
1 AATTATTTAAATATTAATATAAAAA
23970677 AATTATTTAAATATGTAAT-TAAAA
1 AATTATTTAAATAT-TAATATAAAA
23970701 TTTTTTAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATTATTTAAATATTAATATAAAAA
Found at i:23976865 original size:26 final size:26
Alignment explanation
Indices: 23976836--23976886 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
23976826 TTTTAAGCAA
*
23976836 TGTTCGTTGGGGTATATAA-CAGTTCT
1 TGTTCATTGGGGTAT-TAAGCAGTTCT
23976862 TGTTCATTGGGGTATTAAGCAGTTC
1 TGTTCATTGGGGTATTAAGCAGTTC
23976887 ATGGGTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.13
26 20 0.87
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.41
Consensus pattern (26 bp):
TGTTCATTGGGGTATTAAGCAGTTCT
Found at i:23978632 original size:23 final size:23
Alignment explanation
Indices: 23978606--23978656 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
23978596 TTATGGTTAC
*
23978606 TTTTGGATTGAAATG-TCTTAATG
1 TTTTAGATTGAAATGCT-TTAATG
* *
23978629 TTTTATATTGGAATGCTTTAATG
1 TTTTAGATTGAAATGCTTTAATG
23978652 TTTTA
1 TTTTA
23978657 CTTAATTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.25, C:0.04, G:0.18, T:0.53
Consensus pattern (23 bp):
TTTTAGATTGAAATGCTTTAATG
Found at i:23979972 original size:3 final size:3
Alignment explanation
Indices: 23979964--23980004 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
23979954 AGGGACAAAG
*
23979964 AGA AGA AGA AGA AGA AGA AGG AGA AGA AGA AGGA AG- AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A-GA AGA AGA AG
23980005 GCAAAGGCGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 29 0.85
4 3 0.09
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:23982274 original size:20 final size:20
Alignment explanation
Indices: 23982251--23982295 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
23982241 ATTTATTTAT
*
23982251 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
* *
23982271 TAAAATTATAATCTTATCAA
1 TAAAATAATAATCTTATAAA
23982291 TAAAA
1 TAAAA
23982296 CAATTCATGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:23983680 original size:18 final size:18
Alignment explanation
Indices: 23983657--23983695 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
23983647 GACACCTTCA
*
23983657 TTTATTTATCTATTTATT
1 TTTATTTATCTAATTATT
* *
23983675 TTTATTTTTTTAATTATT
1 TTTATTTATCTAATTATT
23983693 TTT
1 TTT
23983696 TCATTTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTATCTAATTATT
Found at i:23984826 original size:15 final size:15
Alignment explanation
Indices: 23984806--23984846 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
23984796 GCCCAGTAAA
*
23984806 CTAAACCCTATTAGC
1 CTAAACCCAATTAGC
23984821 CTAAACCCAATTAGC
1 CTAAACCCAATTAGC
*
23984836 CTAAGCCCAAT
1 CTAAACCCAAT
23984847 ACCCCTAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.37, C:0.34, G:0.07, T:0.22
Consensus pattern (15 bp):
CTAAACCCAATTAGC
Found at i:24000763 original size:78 final size:78
Alignment explanation
Indices: 24000634--24000948 Score: 603
Period size: 78 Copynumber: 4.0 Consensus size: 78
24000624 AAATACTCCA
24000634 AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATCAAATAGGGACAAGAAACATGCAA
1 AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATCAAATAGGGACAAGAAACATGCAA
*
24000699 AGTCATGCATGTC
66 AGTCATGCATGGC
*
24000712 AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATAAAATAGGGACAAGAAACATGCAA
1 AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATCAAATAGGGACAAGAAACATGCAA
24000777 AGTCATGCATGGC
66 AGTCATGCATGGC
24000790 AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATCAAATAGGGACAAGAAACATGCAA
1 AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATCAAATAGGGACAAGAAACATGCAA
*
24000855 AGTCATGCATGTC
66 AGTCATGCATGGC
24000868 AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATCAAATAGGGACAAGAAACATGCAA
1 AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATCAAATAGGGACAAGAAACATGCAA
24000933 AGTCATGCATGGC
66 AGTCATGCATGGC
24000946 AAG
1 AAG
24000949 TGACAGCTAA
Statistics
Matches: 232, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 232 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.23
Consensus pattern (78 bp):
AAGGTTTGAATATTAAAAGATCCACGTATTATATAGACAATCAAATAGGGACAAGAAACATGCAA
AGTCATGCATGGC
Found at i:24002305 original size:22 final size:22
Alignment explanation
Indices: 24002278--24002328 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
24002268 GCAGTATAAT
24002278 AGCAAAATGACAGCAAAACAACA
1 AGCAAAATGACAGCAAAACAA-A
* *
24002301 A-CAAAATGATAGTAAAACAAA
1 AGCAAAATGACAGCAAAACAAA
24002322 AGCAAAA
1 AGCAAAA
24002329 AAAAATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.08
22 22 0.88
23 1 0.04
ACGTcount: A:0.65, C:0.16, G:0.12, T:0.08
Consensus pattern (22 bp):
AGCAAAATGACAGCAAAACAAA
Found at i:24004882 original size:28 final size:28
Alignment explanation
Indices: 24004806--24004882 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
24004796 TGAGATTACT
24004806 AATATAATTATAAATTT-AAAA-AATTAAC
1 AATATAA-TAT-AATTTAAAAATAATTAAC
*
24004834 AATATAATA-AA-TTAAAGATAAGTTAA-
1 AATATAATATAATTTAAAAATAA-TTAAC
24004860 AATATAATATAATTTAAAAATAA
1 AATATAATATAATTTAAAAATAA
24004883 ATACTAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
24 2 0.05
25 5 0.12
26 11 0.26
27 8 0.19
28 16 0.38
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (28 bp):
AATATAATATAATTTAAAAATAATTAAC
Done.