Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 190 of 199
Found at i:60429486 original size:148 final size:149
Alignment explanation
Indices: 60429187--60429488 Score: 561
Period size: 148 Copynumber: 2.0 Consensus size: 149
60429177 AAATAAAAAA
*
60429187 TTACAAATTTGAAGAGGAAGATGATAATAACTAAGTTTAAATGTTACTGTTTAAAAGTAAAAAAG
1 TTACAAATTAGAAGAGGAAGATGATAATAACTAAGTTTAAATGTTACTGTTTAAAAGTAAAAAAG
*
60429252 AAAAAGAAAAAAAAAAGCTTACATAACTTTAAATAATCAATTTACATAAGTTACATAATACATAA
66 AAAAAGAAAAAAAAAAGCTTACATAACTTTAAATAATCAATTTACATAACTTACATAATACATAA
*
60429317 ATATATATCATATCATCAC
131 ATATATATCATATCATAAC
60429336 TTACAAATTAGAAGAGGAAGATGATAATAACTAAGTTTAAATGTTACTGTTTAAAAGTAAAAAAG
1 TTACAAATTAGAAGAGGAAGATGATAATAACTAAGTTTAAATGTTACTGTTTAAAAGTAAAAAAG
*
60429401 AAAAAG-AAAAAAAAAGCTTATATAACTTTAAATAATCAATTTACATAACTTACATAATACATAA
66 AAAAAGAAAAAAAAAAGCTTACATAACTTTAAATAATCAATTTACATAACTTACATAATACATAA
60429465 ATATATATCATATCATAAC
131 ATATATATCATATCATAAC
60429484 TTACA
1 TTACA
60429489 TAAAAATTTG
Statistics
Matches: 149, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
148 79 0.53
149 70 0.47
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (149 bp):
TTACAAATTAGAAGAGGAAGATGATAATAACTAAGTTTAAATGTTACTGTTTAAAAGTAAAAAAG
AAAAAGAAAAAAAAAAGCTTACATAACTTTAAATAATCAATTTACATAACTTACATAATACATAA
ATATATATCATATCATAAC
Found at i:60433491 original size:5 final size:5
Alignment explanation
Indices: 60433481--60433505 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
60433471 GGACTTTCTT
60433481 TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA
60433506 AATCATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:60437387 original size:12 final size:12
Alignment explanation
Indices: 60437370--60437401 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60437360 GTATGAATGA
60437370 AATAATAATAGT
1 AATAATAATAGT
*
60437382 AATAATAATATT
1 AATAATAATAGT
60437394 AATAATAA
1 AATAATAA
60437402 CAATAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AATAATAATAGT
Found at i:60438676 original size:89 final size:89
Alignment explanation
Indices: 60438583--60438970 Score: 537
Period size: 89 Copynumber: 4.4 Consensus size: 89
60438573 TATCGATATA
* * * * * *
60438583 GGAAGACAGGACCTGCTACCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTAT
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
** *
60438648 TTTATTTGCTTCGCCACCAGTATG
66 TCGATCTGCTTCGCCACCAGTATG
* * *
60438672 GGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCT
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
60438737 TCGATCTGCTTCGCC-CCAGTATG
66 TCGATCTGCTTCGCCACCAGTATG
* * * * *
60438760 GGAAGACAAGATCTATTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGTTTTCT
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
*
60438825 TCGATCTACTTCGCCACCAGTATG
66 TCGATCTGCTTCGCCACCAGTATG
*
60438849 GGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC-
* *
60438914 TTTGATCTGCTTCACCACCAGTATG
65 TTCGATCTGCTTCGCCACCAGTATG
* * *
60438939 GGAAGGCAAGATCTG-TATATTTGATCCACTTC
1 GGAAGACAAGATCTGTTATCTTTGATCTACTTC
60438971 GCTACCGATA
Statistics
Matches: 267, Mismatches: 30, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
88 83 0.31
89 148 0.55
90 36 0.13
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
GGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
TCGATCTGCTTCGCCACCAGTATG
Found at i:60438726 original size:44 final size:44
Alignment explanation
Indices: 60438582--60439137 Score: 431
Period size: 44 Copynumber: 12.5 Consensus size: 44
60438572 CTATCGATAT
* * * * * * *
60438582 AGGAAGACAGGACCTGCTACCTTTGATCTACTTCACGCTAATAC
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTAC
* * * * *
60438626 ATGAAGACAAGATCTGCTTTAT-TTT-ATTTGCTTCGCCACCAGTAT
1 AGGAAGACAAGATCTG--TTATCTTTGATCTACTTC-ACACCAGTAC
* * *
60438671 GGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTAC
* * * * * * *
60438715 ATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCCCAGTAT
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTAC
* * * *
60438759 GGGAAGACAAGATCTATTTTCTTTGATCTACTTCACGCCAGTAC
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTAC
* * * * * *
60438803 ATGAAGACAAGATCCGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTC-ACACCAGTAC
* * * *
60438848 GGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTAC
* * *
60438892 ATGAAGACAAGATCTGCTT-TCTTTTGATCTGCTTCACCACCAGTAT
1 AGGAAGACAAGATCTG-TTATC-TTTGATCTACTTCA-CACCAGTAC
* * * * * *
60438938 GGGAAGGCAAGATCTG-TATATTTGATCCACTTCGCTACC-GATAT
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTCAC-ACCAG-TAC
* **
60438982 AGGAAGACAAGACCTACTATCTTTGATCTACTTCAC-CCAGTAC
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTAC
* * * * * * *
60439025 ATGAAGACAAGATTTGTTTTCTTCGATCTGCTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTC-ACACCAGTAC
* * * * *
60439070 GGGAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCTAGTAC
1 AGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTAC
*
60439114 ATGAAGACAAGATCTGTTATCTTT
1 AGGAAGACAAGATCTGTTATCTTT
60439138 CAACTTGCTC
Statistics
Matches: 393, Mismatches: 103, Indels: 32
0.74 0.20 0.06
Matches are distributed among these distances:
43 36 0.09
44 210 0.53
45 126 0.32
46 21 0.05
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
AGGAAGACAAGATCTGTTATCTTTGATCTACTTCACACCAGTAC
Found at i:60438806 original size:177 final size:179
Alignment explanation
Indices: 60438602--60438952 Score: 544
Period size: 177 Copynumber: 2.0 Consensus size: 179
60438592 GACCTGCTAC
* * ** * *
60438602 CTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTTTATTTTATTTGCTTCGCCACCA
1 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTTTATTCGATCTACTTCGCCACCA
* * * *
60438667 GTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGT
66 GTATGGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
60438732 TTTC-TTCGATCTGCTTCGCC-CCAGTATGGGAAGACAAGATCTATTTT
131 TTTCTTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATCTATTTT
* * *
60438779 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGTTTTCTTCGATCTACTTCGCCACCA
1 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTTTATTCGATCTACTTCGCCACCA
60438844 GTATGGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
66 GTATGGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* *
60438909 TTTCTTTTGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCT
131 TTTCTTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATCT
60438953 GTATATTTGA
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
177 121 0.78
178 14 0.09
179 21 0.13
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (179 bp):
CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCCGCTTTATTCGATCTACTTCGCCACCA
GTATGGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
TTTCTTTCGATCTGCTTCACCACCAGTATGGGAAGACAAGATCTATTTT
Found at i:60439033 original size:177 final size:177
Alignment explanation
Indices: 60438656--60439042 Score: 453
Period size: 177 Copynumber: 2.2 Consensus size: 177
60438646 ATTTTATTTG
* ** * * *
60438656 CTTCGCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAG
1 CTTCGACACCAGTACAGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAG
* * * * *
60438721 ACAAGATCTGTTTTCTTCGATCTGCTTCGCCCCAGTATGGGAAGACAAGATCTATTTTCTTTGAT
66 ACAAGATCTGCTTTCTTCGATCTGCTTCACCCCAGTATGGGAAGACAAGATCTAGTATATTTGAT
* * * *
60438786 CTACTTCACGCCAGTACATGAAGACAAGATCCGTTTTCTTCGATCTA
131 CCACTTCACACCAGTACAGGAAGACAAGATCCGTTATCTTCGATCTA
* **
60438833 CTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAG
1 CTTCGACACCAGTACAGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAG
* *
60438898 ACAAGATCTGCTTTCTTTTGATCTGCTTCACCACCAGTATGGGAAGGCAAGATCT-GTATATTTG
66 ACAAGATCTGCTTTC-TTCGATCTGCTTCACC-CCAGTATGGGAAGACAAGATCTAGTATATTTG
* * *
60438962 ATCCACTTCGCTACC-GATATAGGAAGACAAGA-CC-TACTATCTTTGATCTA
129 ATCCACTTCAC-ACCAG-TACAGGAAGACAAGATCCGT--TATCTTCGATCTA
* *
60439012 CTTC-AC-CCAGTACATGAAGACAAGATTTGTT
1 CTTCGACACCAGTACAGGAAGACAAGATCTGTT
60439043 TTCTTCGATC
Statistics
Matches: 182, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
177 98 0.54
178 33 0.18
179 51 0.28
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (177 bp):
CTTCGACACCAGTACAGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAATACATGAAG
ACAAGATCTGCTTTCTTCGATCTGCTTCACCCCAGTATGGGAAGACAAGATCTAGTATATTTGAT
CCACTTCACACCAGTACAGGAAGACAAGATCCGTTATCTTCGATCTA
Found at i:60443992 original size:20 final size:20
Alignment explanation
Indices: 60443967--60444005 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
60443957 GCATTCATCT
60443967 CATCGCATCATATGCATTAG
1 CATCGCATCATATGCATTAG
*
60443987 CATCGCATTATATGCATTA
1 CATCGCATCATATGCATTA
60444006 AAGACTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (20 bp):
CATCGCATCATATGCATTAG
Found at i:60452247 original size:89 final size:89
Alignment explanation
Indices: 60452034--60452253 Score: 228
Period size: 89 Copynumber: 2.5 Consensus size: 89
60452024 AGTAGGTTGA
* * *
60452034 AAGATAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGATACCAGATCTTGCCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATAAAAGATACCAGATCCTGCCTTC
*
60452099 CCATACTGGTGGCGAAGCAGATCG
66 CCATACTGGTAGCGAAGCAGATCG
* * ** * *
60452123 AAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATAAAAGATAGTAGGTCCTGTCTTC
1 AAGAAAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATAAAAGATACCAGATCCTGCCTTC
** **
60452188 TTATA-TCGGTAGCGAAGTGGATCG
66 CCATACT-GGTAGCGAAGCAGATCG
* * * * * *
60452212 AA-TATACAGATCTTGCCTTCCTATACTGGTGGTGAAGCAGAT
1 AAGAAAACAGATCTTGTCTTCATGTACTGGT-GTGAAGTAGAT
60452254 CGAAAGAAAG
Statistics
Matches: 107, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
88 22 0.21
89 85 0.79
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (89 bp):
AAGAAAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATAAAAGATACCAGATCCTGCCTTC
CCATACTGGTAGCGAAGCAGATCG
Found at i:60452436 original size:223 final size:223
Alignment explanation
Indices: 60452032--60452499 Score: 638
Period size: 223 Copynumber: 2.1 Consensus size: 223
60452022 GGAGTAGGTT
* *
60452032 GAAAGATAA-CAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGATACCAGATCTTGCC
1 GAAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCC
*
60452096 TTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGT
65 TTCCCATACTGGTGGCGAAACAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGT
* ** * ** * * *
60452161 AGATAAAAGATAGTAGGTCCTGTCTTCTTATATCGGTAGCGAAGTGGATCGAATATA-CAGATCT
130 AGATAAAAGAAAACAGATCCTGTCTTCCCATATCGGTAGCGAAGTAGATCGAAGAAAGCAGATCT
* *
60452225 TGCCTTCCTATACTGGTGGTGAAGCAGATC
195 TGCCTTCATATACTGG-CGTGAAGCAGATC
* *
60452255 GAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGTCT
1 GAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCT
* *
60452320 TCCCATACTGGTGGCGAAATAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTA
66 TCCCATACTGGTGGCGAAACAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
* * * *
60452385 GATCAAAGAAAACAGATCTTGTCTTCCCATA-CTGGTGGCGAAGTAGATCGAAGAAAGCGGATCT
131 GATAAAAGAAAACAGATCCTGTCTTCCCATATC-GGTAGCGAAGTAGATCGAAGAAAGCAGATCT
* * *
60452449 TGTCTTCATGTACTGGCGTGAAGTAGATC
195 TGCCTTCATATACTGGCGTGAAGCAGATC
* *
60452478 -AAAGATAGCAGATCTTGCCTTC
1 GAAAGAAAGCAGATCTTGTCTTC
60452500 CCATACTGGG
Statistics
Matches: 215, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
222 23 0.11
223 173 0.80
224 19 0.09
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (223 bp):
GAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCT
TCCCATACTGGTGGCGAAACAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
GATAAAAGAAAACAGATCCTGTCTTCCCATATCGGTAGCGAAGTAGATCGAAGAAAGCAGATCTT
GCCTTCATATACTGGCGTGAAGCAGATC
Found at i:60452694 original size:89 final size:89
Alignment explanation
Indices: 60452217--60452678 Score: 665
Period size: 89 Copynumber: 5.2 Consensus size: 89
60452207 GATCGAATAT
* * *
60452217 ACAGATCTTGCCTTCCTATACTGGTGGTGAAGCAGATCGAAAGAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCG-AAGAAAGCAGATCTTGTCTTCATGT
*
60452282 ACTGGCGTGAAGTAGATCAGAGATA
65 ACTGGCGTGAAGTAGATCAAAGATA
** *
60452307 ACAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGAAGAAAACAGATCTTGTCTTCATGTA
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
*
60452372 CTGGCGTGAAGTAGATCAAAGAAA
66 CTGGCGTGAAGTAGATCAAAGATA
* *
60452396 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTGTCTTCATGTA
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
60452461 CTGGCGTGAAGTAGATCAAAGATA
66 CTGGCGTGAAGTAGATCAAAGATA
* * * *
60452485 GCAGATCTTGCCTTCCCATACTGG-GGACAAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGT
1 ACAGATCTTGTCTTCCCATACTGGTGG-CGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGT
*
60452549 ACTGGCATGAAGTAGATCAAAGATA
65 ACTGGCGTGAAGTAGATCAAAGATA
* * * * * *
60452574 ACCGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCAAATAAAGCAGATATTGTCTTCATGTA
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
* *
60452639 TTAGCGTGAAGTAGATCAAAGATA
66 CTGGCGTGAAGTAGATCAAAGATA
* * *
60452663 GCAGGTCCTGTCTTCC
1 ACAGATCTTGTCTTCC
60452679 TATATCGGTA
Statistics
Matches: 335, Mismatches: 35, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
88 2 0.01
89 297 0.89
90 36 0.11
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTGTCTTCATGTA
CTGGCGTGAAGTAGATCAAAGATA
Found at i:60452760 original size:267 final size:268
Alignment explanation
Indices: 60452217--60452760 Score: 682
Period size: 267 Copynumber: 2.0 Consensus size: 268
60452207 GATCGAATAT
* ** *
60452217 ACAGATCTTGCCTTCCTATACTGGTGGTGAAGCAGATCGAAAGAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCGAAAGAAAACAGATCTTGTCTTCATGT
* * * * * *
60452282 ACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAATAGATCGA
66 ACTGGCATGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAACAAATCAA
* * *
60452347 AGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAAAACAGATCTTGTCTTCC
131 AGAAAACAGATATTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGAAAACAGATCCTGTCTTCC
* * * ** *
60452412 CATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTGTCTTCATGTACTGGCGTGAAGTAGAT
196 CATACTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCACATACTGGCGCGAAGTAGAT
*
60452477 CAAAGATA
261 CAAAGAAA
*
60452485 GCAGATCTTGCCTTCCCATACTGG-GGACAAAGCAGATCG-AAGAAAACAGATCTTGTCTTCATG
1 ACAGATCTTGCCTTCCCATACTGGTGG-CAAAGCAGATCGAAAGAAAACAGATCTTGTCTTCATG
* *
60452548 TACTGGCATGAAGTAGATCAAAGATAACCGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATCA
65 TACTGGCATGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAACAAATCA
* * * * * *
60452613 AATAAAGCAGATATTGTCTTCATGTATTAGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTC
130 AAGAAAACAGATATTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGAAAACAGATCCTGTCTTC
* * * * * * *
60452678 CTATA-TCGGTAGCGAAGTGGATCGAATATA-CAGATTTTATCTTCCCATACTGGTGGCGAAGTA
195 CCATACT-GGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCACATACTGG-CGCGAAGTA
* *
60452741 GATCGAGGAAA
258 GATCAAAGAAA
*
60452752 ATAGATCTT
1 ACAGATCTT
60452761 ACCTCCCTAA
Statistics
Matches: 233, Mismatches: 40, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
266 18 0.08
267 183 0.79
268 32 0.14
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (268 bp):
ACAGATCTTGCCTTCCCATACTGGTGGCAAAGCAGATCGAAAGAAAACAGATCTTGTCTTCATGT
ACTGGCATGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAACAAATCAA
AGAAAACAGATATTGTCTTCATGTACTAGCGTGAAGTAGATCAAAGAAAACAGATCCTGTCTTCC
CATACTGGTAGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCACATACTGGCGCGAAGTAGAT
CAAAGAAA
Found at i:60453563 original size:45 final size:44
Alignment explanation
Indices: 60453377--60454104 Score: 446
Period size: 44 Copynumber: 16.4 Consensus size: 44
60453367 TTAGGGAGGT
* ** * *
60453377 AAGATCTGTTTTCCTCCATCTACTTCGCCACCAGTATGGGAAGAT
1 AAGATCTGTTTTCTTTGATCTACTTC-CCACCAGTATAGGAAGAC
* * * * * * *
60453422 AAAATCT-ATATATTCGATCCACTTCGCTACC-GATATAGGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTC-CCACCAG-TATAGGAAGAC
* * * * * * *
60453466 AGGACCTGCTATTT-TTT-ATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTG-T-TTTCTTTGATCTACTTCCCACCAGTATAGGAAGAC
* * * * *
60453510 AATATCTGTTTTATTTGATTTACTTCTCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTTGATCTACTTC-CCACCAGTATAGGAAGAC
* * * * *
60453555 AAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTCCCACCAGTATAGGAAGAC
* * *
60453599 AAGATCTGTTTTCTTCGATCTGCTTCGTCC-CCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTC--CCACCAGTATAGGAAGAC
* * * * * * *
60453644 AAGATCTGCTATCTTTGATCTAATTCACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTCCCACCAGTATAGGAAGAC
* * * *
60453688 AAGATCCGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTC-CCACCAGTATAGGAAGAC
* * * * *
60453733 AAGATCTATTTTCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTCCCACCAGTATAGGAAGAC
* * * *
60453777 AAGATCCGTTTTCTTCGATCTA-TGTCGCCACCAATATGGGAAGAC
1 AAGATCTGTTTTCTTTGATCTACT-TC-CCACCAGTATAGGAAGAC
* * * * * *
60453822 AAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTCCCACCAGTATAGGAAGAC
* * * *
60453866 AAGAACTGCTTTCTTTCGATCTGCTTCACCACCAGTATAGGAAGGC
1 AAGATCTGTTTTCTTT-GATCTACTTC-CCACCAGTATAGGAAGAC
* * * * *
60453912 AAGATCTG-TATATTCGATCCACTTCGCTACC-GATATAGGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTC-CCACCAG-TATAGGAAGAC
* * ** * * * * * * *
60453956 AGGACCTACTATCTTTGATCTACTTCACGCTAGTACATGAAAAC
1 AAGATCTGTTTTCTTTGATCTACTTCCCACCAGTATAGGAAGAC
* * * * *
60454000 AAGATTTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGC
1 AAGATCTGTTTTCTTTGATCTACTTC-CCACCAGTATAGGAAGAC
* * * * * *
60454045 AAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGAC
1 AAGATCTGTTTTCTTTGATCTACTTCCCACCAGTATAGGAAGAC
*
60454089 AAGATCTGTTATCTTT
1 AAGATCTGTTTTCTTT
60454105 CAACCTACTC
Statistics
Matches: 505, Mismatches: 157, Indels: 43
0.72 0.22 0.06
Matches are distributed among these distances:
42 3 0.01
43 8 0.02
44 262 0.52
45 206 0.41
46 24 0.05
47 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (44 bp):
AAGATCTGTTTTCTTTGATCTACTTCCCACCAGTATAGGAAGAC
Found at i:60453576 original size:89 final size:89
Alignment explanation
Indices: 60453434--60453920 Score: 638
Period size: 89 Copynumber: 5.5 Consensus size: 89
60453424 AATCTATATA
* * * * * * * *
60453434 TTCGATCCACTTCGCTACC-GATATAGGAAGACAGGACCTGCTATTTTTTATCTACTTCACGCCA
1 TTCGATCTACTTCGCCACCAG-TATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCA
* * *
60453498 ATACATGAAGACAATATCTGTTTTA
65 GTACATGAAGACAAGATCTGTTTTC
* * * *
60453523 TTTGATTTACTTCTCCACCAGTATGGGAAGGCAAGATCTGTTATCTTTGATCTACTTCACGCCAG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAG
60453588 TACATGAAGACAAGATCTGTTTTC
66 TACATGAAGACAAGATCTGTTTTC
* * *
60453612 TTCGATCTGCTTCGTCC-CCAGTATGGGAAGACAAGATCTGCTATCTTTGATCTAATTCACGCCA
1 TTCGATCTACTTCG-CCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCA
* *
60453676 GTACATGAAGACAAGATCCGCTTTC
65 GTACATGAAGACAAGATCTGTTTTC
* *
60453701 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTATTTTCTTTGATCTACTTCACGCCAG
1 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAG
*
60453766 TACATGAAGACAAGATCCGTTTTC
66 TACATGAAGACAAGATCTGTTTTC
* *
60453790 TTCGATCTA-TGTCGCCACCAATATGGGAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCA
1 TTCGATCTACT-TCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCA
* *
60453854 GTACATGAAGACAAGAACTGCTTTC
65 GTACATGAAGACAAGATCTGTTTTC
* * * *
60453879 TTTCGATCTGCTTCACCACCAGTATAGGAAGGCAAGATCTGT
1 -TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
60453921 ATATTCGATC
Statistics
Matches: 350, Mismatches: 42, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
88 3 0.01
89 309 0.88
90 37 0.11
91 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAG
TACATGAAGACAAGATCTGTTTTC
Found at i:60453955 original size:223 final size:222
Alignment explanation
Indices: 60453593--60454105 Score: 622
Period size: 223 Copynumber: 2.3 Consensus size: 222
60453583 GCCAGTACAT
* * * * *** *
60453593 GAAGACAAGATCTGTTTTCTTCGATCTGCTTCGTCCCCAGTATGGGAAGACAAGATCTGCTATCT
1 GAAGACAAGATCTGTTATCTT-GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTCT
* * * * *
60453658 TT-GATCTAATTCACGCCAGTACATGAAGACAAGATCCGCTTTCTTCGATCTACTTCGCCACCAG
64 TTCGATCTAATTCACACCAGTACAGGAAGACAAGATCCGCTATATTCGATCCACTTCGCCACCAG
* * * * *
60453722 TATGGGAAGACAAGATCTATTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCCGTT
129 TATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAAACAAGATCCGTT
60453787 TTCTTCGATCT-ATGTCGCCACCAATATGG
194 TTCTTCGATCTGAT-TCGCCACCAATATGG
*
60453816 GAAGACAAGATCTGTTATCTCTGATCTACTTCACGCCAGTACATGAAGACAAGAACTGCTTTCTT
1 GAAGACAAGATCTGTTATCT-TGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTT
** * * * *
60453881 TCGATCTGCTTCACCACCAGTATAGGAAGGCAAGATCTG-TATATTCGATCCACTTCGCTACC-G
65 TCGATCTAATTCA-CACCAGTACAGGAAGACAAGATCCGCTATATTCGATCCACTTCGCCACCAG
* * **
60453944 ATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCTAGTACATGAAAACAAGATTTGT
129 -TATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAAACAAGATCCGT
* *
60454009 TTTCTTCGATCTGCTTCGCCACCAGTATGG
193 TTTCTTCGATCTGATTCGCCACCAATATGG
* *
60454039 GAAGGCAAGATCTGGTATCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTG-TTATCT
1 GAAGACAAGATCTGTTATC-TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTT-TCT
60454103 TTC
64 TTC
60454106 AACCTACTCC
Statistics
Matches: 249, Mismatches: 34, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
222 30 0.12
223 196 0.79
224 23 0.09
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (222 bp):
GAAGACAAGATCTGTTATCTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTT
CGATCTAATTCACACCAGTACAGGAAGACAAGATCCGCTATATTCGATCCACTTCGCCACCAGTA
TAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAGTACATGAAAACAAGATCCGTTTT
CTTCGATCTGATTCGCCACCAATATGG
Found at i:60454017 original size:89 final size:89
Alignment explanation
Indices: 60453820--60454103 Score: 252
Period size: 89 Copynumber: 3.2 Consensus size: 89
60453810 ATATGGGAAG
* * * * * * * *
60453820 ACAAGATCTGTTATC-TCTGATCTACTTC-ACGCCAGTACATGAAGACAAGAACTGCTTTCTTTC
1 ACAAGATCTGTTATCTTC-GATCCACTTCGCCACCAGTATAGGAAGACAAGACCTACTATCTTT-
* * * * *
60453883 GATCTGCTTCACCACCAGTATAGGAAG
64 GATCTACTTCA-CGCCAGTACATGAAA
* * * *
60453910 GCAAGATCTG-TATATTCGATCCACTTCGCTACC-GATATAGGAAGACAGGACCTACTATCTTTG
1 ACAAGATCTGTTATCTTCGATCCACTTCGCCACCAG-TATAGGAAGACAAGACCTACTATCTTTG
*
60453973 ATCTACTTCACGCTAGTACATGAAA
65 ATCTACTTCACGCCAGTACATGAAA
* * ** * * * **
60453998 ACAAGATTTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTATCTTTGA
1 ACAAGATCTGTTATCTTCGATCCACTTCGCCACCAGTATAGGAAGACAAGACCTACTATCTTTGA
*
60454063 TCTACTTCACGCCAGTACATGAAG
66 TCTACTTCACGCCAGTACATGAAA
60454087 ACAAGATCTGTTATCTT
1 ACAAGATCTGTTATCTT
60454104 TCAACCTACT
Statistics
Matches: 154, Mismatches: 35, Indels: 11
0.77 0.17 0.05
Matches are distributed among these distances:
88 18 0.12
89 101 0.66
90 35 0.23
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (89 bp):
ACAAGATCTGTTATCTTCGATCCACTTCGCCACCAGTATAGGAAGACAAGACCTACTATCTTTGA
TCTACTTCACGCCAGTACATGAAA
Found at i:60459582 original size:89 final size:88
Alignment explanation
Indices: 60459372--60459879 Score: 337
Period size: 89 Copynumber: 5.7 Consensus size: 88
60459362 AGGTTGAAAG
** * * *
60459372 ATAACAGATCTTGTCTTCATGTACTGGT-GTGAAGTAGATCAAAGATACCAGATCTTGCCTTCCC
1 ATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
* *
60459436 ATACTGGTGGCGAAGCAGATCGAA
66 ATACTGGTAGCGAAGTAGATCG-A
* * ** * * * *
60459460 GAAAACAAATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGTAGGTCCTGTCTTCC
1 -ATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCC
*
60459524 TATA-TCGGTAGCGAAGTGGATCGA
65 TATACT-GGTAGCGAAGTAGATCGA
* * * *
60459548 ATATACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAAGAAAGCAGATCTTGTCTTC
1 ATA-ACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATC-AAAGATAGCAGATCTTGTCTTC
* * * *
60459613 ATGTACTGG-CGTGAAGTAGATCAGA
64 CTATACTGGTAGCGAAGTAGATC-GA
* * ** * * * *
60459638 GATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAACGGATCTTGTCTTCA
1 -ATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCC
* * * **
60459703 TGTACTGG-CGTGAAGTAGATTAAA
65 TATACTGGTAGCGAAGTAGA-TCGA
* * * * * * * *
60459727 GATATCAGATCTTGCCTTCCCATACTGG-GGACGAAGCAGATCGAAGAAAACAGATCTTGTCTTC
1 -ATAACAGATCTTGTCTTCACATACTGGTGG-TGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
* * * * *
60459791 ATGTACTGG-CGTGAAGTAGATCAAA
64 CTATACTGGTAGCGAAGTAGATC-GA
* * * * * * * *
60459816 GATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATTAAATAAAGCAGATCTTGTCTTC
1 -ATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTC
60459880 ATGTATTGGC
Statistics
Matches: 358, Mismatches: 49, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
87 2 0.01
88 24 0.07
89 266 0.74
90 62 0.17
91 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (88 bp):
ATAACAGATCTTGTCTTCACATACTGGTGGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
ATACTGGTAGCGAAGTAGATCGA
Found at i:60459771 original size:223 final size:223
Alignment explanation
Indices: 60459367--60459834 Score: 631
Period size: 223 Copynumber: 2.1 Consensus size: 223
60459357 GGAGCAGGTT
* *
60459367 GAAAGATAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATCAAAGATACCAGATCTTGCCT
1 GAAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCT
60459432 TCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
66 TCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
* * * * ** * *
60459497 GATCAAAGATAGTAGGTCCTGTCTTCCTATATCGGTAGCGAAGTGGATCGAA-TATACAGATCTT
131 GATCAAAGATAGTAGATCCTGCCTTCCCATATCGGGAGCGAAGCAGATCGAAGAAAACAGATCTT
* *
60459561 GCCTTCCCATACTGGTGGTGAAGCAGATC
196 GCCTTCACATACTGG-CGTGAAGCAGATC
* *
60459590 GAAAGA-AAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGTC
1 GAAAGATAA-CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCC
* * **
60459654 TTCCCATACTGGTGGCGAAGTAGATTGAAGAAAACGGATCTTGTCTTCATGTACTGGCGTGAAGT
65 TTCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGT
* * *
60459719 AGATTAAAGATA-TCAGATCTTGCCTTCCCATACTGGGGA-CGAAGCAGATCGAAGAAAACAGAT
130 AGATCAAAGATAGT-AGATCCTGCCTTCCCATA-TCGGGAGCGAAGCAGATCGAAGAAAACAGAT
* ** *
60459782 CTTGTCTTCATGTACTGGCGTGAAGTAGATC
193 CTTGCCTTCACATACTGGCGTGAAGCAGATC
*
60459813 -AAAGATAACAGATCTTGCCTTC
1 GAAAGATAACAGATCTTGTCTTC
60459835 CCATACTGGT
Statistics
Matches: 214, Mismatches: 26, Indels: 11
0.85 0.10 0.04
Matches are distributed among these distances:
222 21 0.10
223 168 0.79
224 25 0.12
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (223 bp):
GAAAGATAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCT
TCCCATACTGGTGGCGAAGCAGATCGAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTA
GATCAAAGATAGTAGATCCTGCCTTCCCATATCGGGAGCGAAGCAGATCGAAGAAAACAGATCTT
GCCTTCACATACTGGCGTGAAGCAGATC
Found at i:60459872 original size:45 final size:43
Alignment explanation
Indices: 60459368--60459924 Score: 351
Period size: 44 Copynumber: 12.5 Consensus size: 43
60459358 GAGCAGGTTG
*** *
60459368 AAAGATAACAGATCTTGTCTTCATGTACTGGTGTGAAGTAGATC
1 AAAGA-AACAGATCTTGTCTTCCCATACTGGGGTGAAGTAGATC
* * * *
60459412 AAAGATACCAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATC
1 AAAGA-AACAGATCTTGTCTTCCCATACTGG-GGTGAAGTAGATC
* * *** *
60459457 GAAGAAAACAAATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
1 AAAG-AAACAGATCTTGTCTTCCCATACTGGGGTGAAGTAGATC
** * * * * * *
60459501 AAAGATAGTAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATC
1 AAAGA-AACAGATCTTGTCTTCCCATACT-GG-GGTGAAGTAGATC
* * * * *
60459546 GAATATACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATC
1 AAAGAAACAGATCTTGTCTTCCCATACTGG-GGTGAAGTAGATC
*** *
60459590 GAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
1 -AAAGAAA-CAGATCTTGTCTTCCCATACTGGGGTGAAGTAGATC
* * *
60459635 AGAGATAACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATT
1 AAAGA-AACAGATCTTGTCTTCCCATACTGG-GGTGAAGTAGATC
* * *** * *
60459680 GAAGAAAACGGATCTTGTCTTCATGTACTGGCGTGAAGTAGATT
1 AAAG-AAACAGATCTTGTCTTCCCATACTGGGGTGAAGTAGATC
* * * *
60459724 AAAGATATCAGATCTTGCCTTCCCATACTGGGGACGAAGCAGATC
1 AAAGA-AACAGATCTTGTCTTCCCATACTGGGG-TGAAGTAGATC
* *** *
60459769 GAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC
1 AAAG-AAACAGATCTTGTCTTCCCATACTGGGGTGAAGTAGATC
* * * * *
60459813 AAAGATAACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATT
1 AAAGA-AACAGATCTTGTCTTCCCATACTGG-GGTGAAGTAGATC
* *** * *
60459858 AAATAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 AAAGAAA-CAGATCTTGTCTTCCCATACTGGGGTGAAGTAGATC
* * *
60459902 AAAGATAGCAGGTCCTGTCTTCC
1 AAAGA-AACAGATCTTGTCTTCC
60459925 TATATCGGTA
Statistics
Matches: 383, Mismatches: 112, Indels: 36
0.72 0.21 0.07
Matches are distributed among these distances:
43 4 0.01
44 198 0.52
45 159 0.42
46 22 0.06
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (43 bp):
AAAGAAACAGATCTTGTCTTCCCATACTGGGGTGAAGTAGATC
Found at i:60459924 original size:89 final size:89
Alignment explanation
Indices: 60459552--60459908 Score: 545
Period size: 89 Copynumber: 4.0 Consensus size: 89
60459542 GATCGAATAT
* * *
60459552 ACAGATCTTGCCTTCCCATACTGGTGGTGAAGCAGATCGAAAGAAAGCAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGAT-TAAAGAAAACAGATCTTGTCTTCATGT
*
60459617 ACTGGCGTGAAGTAGATCAGAGATA
65 ACTGGCGTGAAGTAGATCAAAGATA
* * * *
60459642 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAACGGATCTTGTCTTCATGTA
1 ACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTAAAGAAAACAGATCTTGTCTTCATGTA
*
60459707 CTGGCGTGAAGTAGATTAAAGATA
66 CTGGCGTGAAGTAGATCAAAGATA
* **
60459731 TCAGATCTTGCCTTCCCATACTGG-GGACGAAGCAGATCGAAGAAAACAGATCTTGTCTTCATGT
1 ACAGATCTTGCCTTCCCATACTGGTGG-CGAAGCAGATTAAAGAAAACAGATCTTGTCTTCATGT
60459795 ACTGGCGTGAAGTAGATCAAAGATA
65 ACTGGCGTGAAGTAGATCAAAGATA
* * *
60459820 ACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAAATTAAATAAAGCAGATCTTGTCTTCATGTA
1 ACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTAAAGAAAACAGATCTTGTCTTCATGTA
*
60459885 TTGGCGTGAAGTAGATCAAAGATA
66 CTGGCGTGAAGTAGATCAAAGATA
60459909 GCAGGTCCTG
Statistics
Matches: 243, Mismatches: 22, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
88 2 0.01
89 205 0.84
90 36 0.15
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (89 bp):
ACAGATCTTGCCTTCCCATACTGGTGGCGAAGCAGATTAAAGAAAACAGATCTTGTCTTCATGTA
CTGGCGTGAAGTAGATCAAAGATA
Found at i:60459987 original size:178 final size:178
Alignment explanation
Indices: 60459536--60459990 Score: 488
Period size: 178 Copynumber: 2.6 Consensus size: 178
60459526 TATCGGTAGC
* * * * ** *
60459536 GAAGTGGATCGAATATA-CAGATCTTGCCTTCCCATACT-GGTGGTGAAGCAGATCGAAAGAAAG
1 GAAGTAGATCAAAGATAGCAGATCCTGCCTTCCCATACTCGG-GACGAAGCAGATCG-AAGAAAA
* ** * * *
60459599 CAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAGAGATAACAGATCTTGTCTTCCCATACT
64 CAGATCTTATCTTCACATACTGGCGCGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACT
* * * *
60459664 GGTGGCGAAGTAGATTGAAGAAAACGGATCTTGTCTTCATGTACTGGCGT
129 GGTGGCGAAGCAAATTAAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
* * * *
60459714 GAAGTAGATTAAAGATATCAGATCTTGCCTTCCCATACTGGGGACGAAGCAGATCGAAGAAAACA
1 GAAGTAGATCAAAGATAGCAGATCCTGCCTTCCCATACTCGGGACGAAGCAGATCGAAGAAAACA
* ** *
60459779 GATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGG
66 GATCTTATCTTCACATACTGGCGCGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGG
* * *
60459844 TGGCGAAGCAAATTAAATAAAGCAGATCTTGTCTTCATGTATTGGCGT
131 TGGCGAAGCAAATTAAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
* * * * ** * *
60459892 GAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATA-TCGGTAGCGAAGTGGATCGAA-TATAC
1 GAAGTAGATCAAAGATAGCAGATCCTGCCTTCCCATACTCGGGA-CGAAGCAGATCGAAGAAAAC
* *
60459955 AGATTTTATCTTCCCATACTTGTG-GCGAAGTAGATC
65 AGATCTTATCTTCACATAC-TG-GCGCGAAGTAGATC
60459991 GAGGAAAACA
Statistics
Matches: 238, Mismatches: 34, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
177 21 0.09
178 181 0.76
179 34 0.14
180 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (178 bp):
GAAGTAGATCAAAGATAGCAGATCCTGCCTTCCCATACTCGGGACGAAGCAGATCGAAGAAAACA
GATCTTATCTTCACATACTGGCGCGAAGTAGATCAAAGATAACAGATCTTGCCTTCCCATACTGG
TGGCGAAGCAAATTAAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
Found at i:60460676 original size:12 final size:12
Alignment explanation
Indices: 60460661--60460690 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
60460651 TACAAAAGTT
60460661 TTTTTCTTTTCG
1 TTTTTCTTTTCG
60460673 TTTTTCTTTTCG
1 TTTTTCTTTTCG
60460685 TTTTTC
1 TTTTTC
60460691 ATAGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.17, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTTCTTTTCG
Found at i:60460750 original size:10 final size:11
Alignment explanation
Indices: 60460718--60460747 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
60460708 ATTTACATGT
60460718 GTTTTATTTTC
1 GTTTTATTTTC
60460729 -TTTTATTTTC
1 GTTTTATTTTC
60460739 GTTTTATTT
1 GTTTTATTT
60460748 CGTATAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (11 bp):
GTTTTATTTTC
Found at i:60461520 original size:16 final size:16
Alignment explanation
Indices: 60461491--60461532 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
60461481 TTCATACATT
60461491 TTTTTTTAAATTTT-G
1 TTTTTTTAAATTTTAG
*
60461506 TTTTTTTATAGTTTTCAG
1 TTTTTTTA-AATTTT-AG
60461524 TTTTTTTAA
1 TTTTTTTAA
60461533 CCTTCTCATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 8 0.35
16 5 0.22
17 1 0.04
18 9 0.39
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.71
Consensus pattern (16 bp):
TTTTTTTAAATTTTAG
Found at i:60463431 original size:18 final size:18
Alignment explanation
Indices: 60463394--60463435 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
60463384 TATTTAATTA
*
60463394 AAATATAAATTAAATCTT
1 AAATATAAATTAAATATT
**
60463412 AAATATAAATTTGATATT
1 AAATATAAATTAAATATT
60463430 AAATAT
1 AAATAT
60463436 GTTTAAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
AAATATAAATTAAATATT
Found at i:60469831 original size:16 final size:16
Alignment explanation
Indices: 60469812--60469859 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
60469802 AAAAAAAGGG
60469812 GAAAGAAAAGAAAAAA
1 GAAAGAAAAGAAAAAA
* *
60469828 GAAAAAAAACAAAAACA
1 GAAAGAAAAGAAAAA-A
*
60469845 AAAAG-AAAGAAAAAA
1 GAAAGAAAAGAAAAAA
60469860 ACTTCCACTG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
15 1 0.04
16 21 0.81
17 4 0.15
ACGTcount: A:0.83, C:0.04, G:0.12, T:0.00
Consensus pattern (16 bp):
GAAAGAAAAGAAAAAA
Found at i:60470368 original size:24 final size:22
Alignment explanation
Indices: 60470341--60470390 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
60470331 AAAGAAGAGA
60470341 AAAAAATGAATAAATGAAAAAGT
1 AAAAAATGAA-AAATGAAAAAGT
* *
60470364 GAAAAAATGAAAATTGGAAAAGT
1 -AAAAAATGAAAAATGAAAAAGT
60470387 AAAA
1 AAAA
60470391 TGGAGAGGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 4 0.17
23 10 0.42
24 10 0.42
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (22 bp):
AAAAAATGAAAAATGAAAAAGT
Found at i:60470384 original size:15 final size:16
Alignment explanation
Indices: 60470341--60470376 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
60470331 AAAGAAGAGA
* *
60470341 AAAAAATGAATAAATG
1 AAAAAGTGAAAAAATG
60470357 AAAAAGTGAAAAAATG
1 AAAAAGTGAAAAAATG
60470373 AAAA
1 AAAA
60470377 TTGGAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (16 bp):
AAAAAGTGAAAAAATG
Found at i:60471879 original size:44 final size:42
Alignment explanation
Indices: 60471851--60472593 Score: 240
Period size: 44 Copynumber: 16.9 Consensus size: 42
60471841 ATTGAAGATT
* * *
60471851 TCAGATCTTATCTCCTTAGGCATT-AGTGGAGCAGATCGAAGATG
1 TCAGATCTTATCTCCCT-GG--TTCAGTGGAGTAGATTGAAGATG
* * * * **
60471895 GCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCG
1 TCAGATCTTATCTCCC--TGGTT-CAGTGGAGTAGATTGAAGATG
* *
60471940 T-A-AT-TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATT
1 TCAGATCT-TATCTCCCTGGTT--CAGTGGAGTAGATTGAAGATG
*
60471982 TCAGATCTTATCTCCCTGGGCATT-AGTGGAGTAGATCGAAGATG
1 TCAGATCTTATCTCCCT-GG--TTCAGTGGAGTAGATTGAAGATG
** * * * * **
60472026 GAAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCCG
1 TCAGATCTTATC-TCC-CTGGTT-CAGTGGAGTAGATTGAAGATG
* *
60472071 T-A-AT-TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATT
1 TCAGATCT-TATCTCCCTGGTT--CAGTGGAGTAGATTGAAGATG
* ** **
60472113 TCAGATCTTATCTCCGTAGGCATT-AGTAAAGTAGATCAAAGATG
1 TCAGATCTTATCTCCCT-GG--TTCAGTGGAGTAGATTGAAGATG
* * * * *
60472157 GCAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCCA-G
1 TCAGATCTTATCTCCCT--GGTT-CAGTGGAGTAGATTGAAG--ATG
* *
60472203 T-A-AT-TCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATT
1 TCAGATCT-TATCTCCCTGGTT--CAGTGGAGTAGATTGAAGATG
* * *
60472245 TCAGATCTTATCTCCCTAAGTGGT-AGTGGAGCAGATCGAAGATG
1 TCAGATCTTATCTCCCT--G-GTTCAGTGGAGTAGATTGAAGATG
* * * * **
60472289 GCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCG
1 TCAGATCTTATCTCCC--TGGTT-CAGTGGAGTAGATTGAAGATG
* * *
60472334 T-A-AT-TCTATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATT
1 TCAGATCT-TATCTCCCTGGTT--CAGTGGAGTAGATTGAAGATG
* *
60472376 TCAGATCTTATCTCCCTAGGCAGT-AGTGGAGTAGATCGAAGATG
1 TCAGATCTTATCTCCCT-GG--TTCAGTGGAGTAGATTGAAGATG
* * * *
60472420 GCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA-G
1 TCAGATCTTATCTCCC--TGGTT-CAGTGGAGTAGATTGAAG--ATG
** * *
60472466 T-A-AT-TCTATCTCCCTAGGCAGCAGTGGAATAGATTGAGGAT-
1 TCAGATCT-TATCTCCCT-GG-TTCAGTGGAGTAGATTGAAGATG
* *
60472507 TACAGATCTTATCTCCCTAAGCAG-T-AGTGGAGCAGATTAAAGATG
1 T-CAGATCTTATCTCCCT--G--GTTCAGTGGAGTAGATTGAAGATG
* * * *
60472552 GCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAG
1 TCAGATCTTATCTCCCT--GGTT-CAGTGGAGTAGATTGAAG
60472594 CCAGTAATTC
Statistics
Matches: 513, Mismatches: 115, Indels: 141
0.67 0.15 0.18
Matches are distributed among these distances:
41 17 0.03
42 64 0.12
43 73 0.14
44 229 0.45
45 113 0.22
46 7 0.01
47 10 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TCAGATCTTATCTCCCTGGTTCAGTGGAGTAGATTGAAGATG
Found at i:60472281 original size:132 final size:131
Alignment explanation
Indices: 60471678--60472715 Score: 1592
Period size: 131 Copynumber: 7.9 Consensus size: 131
60471668 TCGAAGATAC
** * * *
60471678 TAATTCTATCTCCCTTATTGGCAGTGGGATAGATTGAAAATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
* * *
60471743 TGGTGGAGCAGATTGAAGATGGCAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
60471808 G
131 G
* *
60471809 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
60471874 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
60471939 G
131 G
* *
60471940 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTGGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
* * *
60472005 TAGTGGAGTAGATCGAAGATGGAAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
60472070 G
131 G
* *
60472071 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCGTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
** * * * *
60472136 TAGTAAAGTAGATCAAAGATGGCAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
60472201 AG
131 -G
* **
60472203 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTGG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
60472268 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
60472333 G
131 G
*
60472334 TAATTCTATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
*
60472399 TAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
60472464 AG
131 -G
** * * *
60472466 TAATTCTATCTCCCTAGG-CAGCAGTGGAATAGATTGAGGATTACAGATCTTATCTCCCTAAGCA
1 TAATTCTATCTCCCT-GGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
** *
60472530 GTAGTGGAGCAGATTAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
65 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
60472595 CAG
130 C-G
*** * * * *
60472598 TAATTCTATCTCCCTGGACAGCAGTGGAATTGATTGAAGATTTCAGATCTTGTCTCCCCAAGCAG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
* * * ** *
60472663 TAGTGGAGCAGGTCAAAGATAGCAGATTTTACCTCCCTGAAGTTGCAGTGGAG
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAG
60472716 CAGACAGAAG
Statistics
Matches: 845, Mismatches: 58, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
131 498 0.59
132 346 0.41
133 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (131 bp):
TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCAG
TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
G
Found at i:60472367 original size:263 final size:263
Alignment explanation
Indices: 60471678--60472715 Score: 1603
Period size: 263 Copynumber: 3.9 Consensus size: 263
60471668 TCGAAGATAC
** * * * *
60471678 TAATTCTATCTCCCTTATTGGCAGTGGGATAGATTGAAAATTTCAGATCTTATCTCCCTAGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
* * *
60471743 TGGTGGAGCAGATTGAAGATGGCAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
*
60471808 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAGGCA
131 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
* * *
60471873 TTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
196 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
60471938 C-G
261 CAG
** *
60471940 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTGGGCAT
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
* * *
60472005 TAGTGGAGTAGATCGAAGATGGAAGATTTTACCTTCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
*
60472070 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCGTAGGCA
131 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
* ** * *
60472135 TTAGTAAAGTAGATCAAAGATGGCAGATTTTACCTCTCTGAGGTTACAGTGGAGTACATTGAAGC
196 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
60472200 CAG
261 CAG
**
60472203 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGTGG
1 TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
60472268 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
66 TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
*
60472333 GTAATTCTATCTCCCTAGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
131 GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
* * *
60472398 GTAGTGGAGTAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
196 GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
60472463 CAG
261 CAG
** * *
60472466 TAATTCTATCTCCCTAGG-CAGCAGTGGAATAGATTGAGGATTACAGATCTTATCTCCCTAAGCA
1 TAATTCTATCTCCCT-GGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCA
** *
60472530 GTAGTGGAGCAGATTAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
65 GTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGC
*** * * * *
60472595 CAGTAATTCTATCTCCCTGGACAGCAGTGGAATTGATTGAAGATTTCAGATCTTGTCTCCCCAAG
130 C-GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGG
* * * *
60472660 CAGTAGTGGAGCAGGTCAAAGATAGCAGATTTTACCTCCCTGAAGTTGCAGTGGAG
194 CAGTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAG
60472716 CAGACAGAAG
Statistics
Matches: 717, Mismatches: 56, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
262 245 0.34
263 366 0.51
264 106 0.15
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (263 bp):
TAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
GTAATTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAGGCA
GTAGTGGAGCAGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGC
CAG
Found at i:60485360 original size:14 final size:14
Alignment explanation
Indices: 60485341--60485373 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
60485331 TTGACTATAA
60485341 ATTTTGATTTTTTG
1 ATTTTGATTTTTTG
60485355 ATTTTGATTTTTTG
1 ATTTTGATTTTTTG
*
60485369 GTTTT
1 ATTTT
60485374 TATGGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (14 bp):
ATTTTGATTTTTTG
Found at i:60485993 original size:26 final size:26
Alignment explanation
Indices: 60485964--60486016 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
60485954 AAATTTAGTT
* *
60485964 TTTAATGTTTATCTTTTTT-TTATCAA
1 TTTAATCTTTAT-TTTTTTGTGATCAA
60485990 TTTAATCTTTATTTTTTTGTGATCAA
1 TTTAATCTTTATTTTTTTGTGATCAA
60486016 T
1 T
60486017 CTTATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.64
Consensus pattern (26 bp):
TTTAATCTTTATTTTTTTGTGATCAA
Found at i:60486561 original size:16 final size:16
Alignment explanation
Indices: 60486540--60486571 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
60486530 ACCCCTTTAA
60486540 TAATGGGTGTCATGAG
1 TAATGGGTGTCATGAG
60486556 TAATGGGTGTCATGAG
1 TAATGGGTGTCATGAG
60486572 GATGCTAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.38, T:0.31
Consensus pattern (16 bp):
TAATGGGTGTCATGAG
Found at i:60488415 original size:65 final size:65
Alignment explanation
Indices: 60488311--60488442 Score: 264
Period size: 65 Copynumber: 2.0 Consensus size: 65
60488301 TAGACTTAAA
60488311 TTGCCTGGTTTCTCTTCTTCCTGGGATTTCTAATCTGTTCTATTTTTTTACTGAATTTTGCAGTT
1 TTGCCTGGTTTCTCTTCTTCCTGGGATTTCTAATCTGTTCTATTTTTTTACTGAATTTTGCAGTT
60488376 TTGCCTGGTTTCTCTTCTTCCTGGGATTTCTAATCTGTTCTATTTTTTTACTGAATTTTGCAGTT
1 TTGCCTGGTTTCTCTTCTTCCTGGGATTTCTAATCTGTTCTATTTTTTTACTGAATTTTGCAGTT
60488441 TT
1 TT
60488443 TTTTCCTTCC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (65 bp):
TTGCCTGGTTTCTCTTCTTCCTGGGATTTCTAATCTGTTCTATTTTTTTACTGAATTTTGCAGTT
Found at i:60490967 original size:59 final size:58
Alignment explanation
Indices: 60490787--60491070 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
60490777 ATGATAAATT
* ** * *
60490787 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
60490846 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
60490907 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
60490966 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
60491028 T
58 C
*
60491029 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
60491071 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:60490994 original size:120 final size:122
Alignment explanation
Indices: 60490780--60491070 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
60490770 TAGTATGATG
* **
60490780 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
60490845 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
60490901 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
60490964 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
60491022 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
60491071 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:60491049 original size:18 final size:19
Alignment explanation
Indices: 60491014--60491050 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
60491004 ATTATTAAGA
60491014 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
60491033 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
60491051 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:60491280 original size:44 final size:45
Alignment explanation
Indices: 60491215--60491305 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
60491205 ACCTCTATTC
* * *
60491215 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
60491259 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
60491304 CA
1 CA
60491306 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:60491320 original size:17 final size:16
Alignment explanation
Indices: 60491286--60491338 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
60491276 GATTAGCTAT
60491286 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60491302 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
60491319 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
60491335 TACA
1 TACA
60491339 GCAAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:60492489 original size:17 final size:16
Alignment explanation
Indices: 60492467--60492509 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
60492457 TCTTAAAATA
60492467 TTAATTAATAACTTAAT
1 TTAATTAATAA-TTAAT
*
60492484 TTAATTAACTAATTAGT
1 TTAATTAA-TAATTAAT
*
60492501 TAAATTAAT
1 TTAATTAAT
60492510 TTCACAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 3 0.13
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (16 bp):
TTAATTAATAATTAAT
Found at i:60492491 original size:21 final size:21
Alignment explanation
Indices: 60492458--60492510 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
60492448 TTTTCTATTT
* *
60492458 CTTAAAAT-ATTAATTAATAA
1 CTTAAATTAATTAACTAATAA
* *
60492478 CTTAATTTAATTAACTAATTA
1 CTTAAATTAATTAACTAATAA
*
60492499 GTTAAATTAATT
1 CTTAAATTAATT
60492511 TCACAATTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (21 bp):
CTTAAATTAATTAACTAATAA
Found at i:60498588 original size:15 final size:15
Alignment explanation
Indices: 60498569--60498670 Score: 77
Period size: 15 Copynumber: 7.0 Consensus size: 15
60498559 ATACATAAGC
*
60498569 AGGGTTTGCACATAC
1 AGGGTTTGCACATAT
60498584 AGGGTTCT-CACATAT
1 AGGGTT-TGCACATAT
*
60498599 A-GGATTGCACATAT
1 AGGGTTTGCACATAT
* * *
60498613 -GGGTTAGCGCATGT
1 AGGGTTTGCACATAT
*
60498627 AGGGTTTGCACCTA-
1 AGGGTTTGCACATAT
* * * *
60498641 GGGGTTCGTACATGT
1 AGGGTTTGCACATAT
60498656 AGGGTTTGCACATAT
1 AGGGTTTGCACATAT
60498671 GCTACAGTTC
Statistics
Matches: 63, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
13 1 0.02
14 28 0.44
15 33 0.52
16 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (15 bp):
AGGGTTTGCACATAT
Found at i:60498635 original size:29 final size:29
Alignment explanation
Indices: 60498569--60498671 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
60498559 ATACATAAGC
* ** *
60498569 AGGGTTTGCACATACAGGGTTCTCACATAT
1 AGGGTTTGCACATA-TGGGTTAGCACATGT
* *
60498599 A-GGATTGCACATATGGGTTAGCGCATGT
1 AGGGTTTGCACATATGGGTTAGCACATGT
* * * *
60498627 AGGGTTTGCACCTAGGGGTTCGTACATGT
1 AGGGTTTGCACATATGGGTTAGCACATGT
60498656 AGGGTTTGCACATATG
1 AGGGTTTGCACATATG
60498672 CTACAGTTCA
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
28 11 0.19
29 46 0.79
30 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (29 bp):
AGGGTTTGCACATATGGGTTAGCACATGT
Found at i:60501938 original size:2 final size:2
Alignment explanation
Indices: 60501931--60501961 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
60501921 CCTTTAATTA
60501931 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60501962 GGTTTTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60504785 original size:3 final size:3
Alignment explanation
Indices: 60504777--60504821 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
60504767 TACAAGAGAG
60504777 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
60504822 AACTACGGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:60505133 original size:18 final size:18
Alignment explanation
Indices: 60505110--60505151 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
60505100 TTCTTTTTGG
60505110 AATTTTAGGTTTGTAGAA
1 AATTTTAGGTTTGTAGAA
*
60505128 AATTTTAGGTTTTTAGAA
1 AATTTTAGGTTTGTAGAA
60505146 AATTTT
1 AATTTT
60505152 GGAATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (18 bp):
AATTTTAGGTTTGTAGAA
Found at i:60505159 original size:18 final size:18
Alignment explanation
Indices: 60505110--60505160 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
60505100 TTCTTTTTGG
60505110 AATTTTAGG-TTTGTAGAA
1 AATTTTAGGATTT-TAGAA
*
60505128 AATTTTAGGTTTTTAGAA
1 AATTTTAGGATTTTAGAA
60505146 AATTTT-GGAATTTTA
1 AATTTTAGG-ATTTTA
60505161 TTAAAATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.83
19 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (18 bp):
AATTTTAGGATTTTAGAA
Found at i:60505264 original size:18 final size:21
Alignment explanation
Indices: 60505219--60505258 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
60505209 TAAAAATTAC
60505219 CATAAAATTCTTAAATTTTTT
1 CATAAAATTCTTAAATTTTTT
*
60505240 CATAAAATTC-TATATTTTT
1 CATAAAATTCTTAAATTTTT
60505259 ATAAAACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (21 bp):
CATAAAATTCTTAAATTTTTT
Found at i:60513041 original size:22 final size:21
Alignment explanation
Indices: 60513013--60513080 Score: 81
Period size: 22 Copynumber: 3.3 Consensus size: 21
60513003 CAATTAATTA
60513013 ATTTTTAAAATTTTCAAAATAT
1 ATTTTTAAAATTTT-AAAATAT
*
60513035 ATTTTTAAAATTTTTAAAAT-G
1 ATTTTTAAAA-TTTTAAAATAT
60513056 A-TTTT-AAATTTTAAAATAT
1 ATTTTTAAAATTTTAAAATAT
60513075 -TTTTTA
1 ATTTTTA
60513081 TATATTTTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
18 9 0.22
19 7 0.17
20 4 0.10
21 1 0.03
22 15 0.38
23 4 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (21 bp):
ATTTTTAAAATTTTAAAATAT
Found at i:60514481 original size:18 final size:17
Alignment explanation
Indices: 60514443--60514481 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
60514433 AATTTTTCAT
*
60514443 AATTTCGTAAATTACTA
1 AATTTCGTAAAATACTA
*
60514460 AATTTCGTAAAAATACTG
1 AATTTCGT-AAAATACTA
60514478 AATT
1 AATT
60514482 ACTAAAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (17 bp):
AATTTCGTAAAATACTA
Found at i:60514496 original size:26 final size:28
Alignment explanation
Indices: 60514452--60514512 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 28
60514442 TAATTTCGTA
**
60514452 AATTACTAAATTTCGTAAA-AA-TACTG
1 AATTACTAAAACTCGTAAAGAATTACTG
* *
60514478 AATTACTAAAACTCTTAAAGAATTATTG
1 AATTACTAAAACTCGTAAAGAATTACTG
60514506 AATTACT
1 AATTACT
60514513 GATAGAATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 16 0.55
27 2 0.07
28 11 0.38
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (28 bp):
AATTACTAAAACTCGTAAAGAATTACTG
Found at i:60515311 original size:16 final size:15
Alignment explanation
Indices: 60515260--60515312 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
60515250 GGAGTGGAAA
*
60515260 GAAAATTGGAAAGATG
1 GAAAATT-GAAGGATG
* *
60515276 GAAAATTGAAGGGGTT
1 GAAAATTGAA-GGATG
60515292 GAAAATTAGAAGGATG
1 GAAAATT-GAAGGATG
60515308 GAAAA
1 GAAAA
60515313 CATAAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
GAAAATTGAAGGATG
Found at i:60524761 original size:9 final size:9
Alignment explanation
Indices: 60524747--60524778 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
60524737 AACTATGACG
60524747 TAATATTTA
1 TAATATTTA
60524756 TAATATTTA
1 TAATATTTA
60524765 TAATATTTA
1 TAATATTTA
60524774 TAATA
1 TAATA
60524779 ATTTTTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
TAATATTTA
Found at i:60527474 original size:27 final size:28
Alignment explanation
Indices: 60527422--60527474 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
60527412 TCATACTTTG
*
60527422 TTTTTTGAATTTTTATAATTTTTTTTTA
1 TTTTTTGAATTTTTATAATTTATTTTTA
60527450 TTTTTT-AATTTTTA-AATTATATTTT
1 TTTTTTGAATTTTTATAATT-TATTTT
60527475 GGTGTGGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 13 0.57
28 6 0.26
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (28 bp):
TTTTTTGAATTTTTATAATTTATTTTTA
Found at i:60528113 original size:9 final size:9
Alignment explanation
Indices: 60528084--60528157 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 9
60528074 ATTCATTTCG
60528084 AAATTATAA
1 AAATTATAA
**
60528093 AAAAAATAAA
1 AAATTAT-AA
60528103 AAATTATAA
1 AAATTATAA
* *
60528112 AATATAATTA
1 AA-ATTATAA
60528122 AAATT-TATA
1 AAATTATA-A
60528131 AAATTATTATA
1 AAATTA-TA-A
*
60528142 AAATTATTA
1 AAATTATAA
60528151 AAATTAT
1 AAATTAT
60528158 TTTTTAAAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
8 1 0.02
9 25 0.49
10 15 0.29
11 10 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAATTATAA
Found at i:60528129 original size:20 final size:20
Alignment explanation
Indices: 60528084--60528134 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
60528074 ATTCATTTCG
60528084 AAATTATAAAA-AAAATAAA
1 AAATTATAAAATAAAATAAA
* *
60528103 AAATTATAAAATATAATTAA
1 AAATTATAAAATAAAATAAA
*
60528123 AATTTATAAAAT
1 AAATTATAAAAT
60528135 TATTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATTATAAAATAAAATAAA
Found at i:60528140 original size:11 final size:11
Alignment explanation
Indices: 60528105--60528195 Score: 59
Period size: 11 Copynumber: 8.4 Consensus size: 11
60528095 AAAATAAAAA
60528105 ATTATAAAA-T
1 ATTATAAAATT
*
60528115 ATAATTAAAA-T
1 ATTA-TAAAATT
60528126 -TTATAAAATT
1 ATTATAAAATT
60528136 ATTATAAAATT
1 ATTATAAAATT
60528147 A-T-TAAAATT
1 ATTATAAAATT
*
60528156 ATTTTTTAAAAGTTT
1 A--TTATAAAA--TT
* *
60528171 TTTTTAAAATT
1 ATTATAAAATT
60528182 ATTA-AAAATT
1 ATTATAAAATT
60528192 ATTA
1 ATTA
60528196 AAACGTATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 18
0.74 0.06 0.20
Matches are distributed among these distances:
9 13 0.19
10 17 0.25
11 21 0.31
12 1 0.01
13 13 0.19
15 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (11 bp):
ATTATAAAATT
Found at i:60528143 original size:20 final size:20
Alignment explanation
Indices: 60528102--60528158 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
60528092 AAAAAAATAA
*
60528102 AAAATTATAAAA-TATAATT
1 AAAATTATAAAATTATTATT
60528121 AAAATTTATAAAATTATTA-T
1 AAAA-TTATAAAATTATTATT
60528141 AAAATTATTAAAATTATT
1 AAAATTA-TAAAATTATT
60528159 TTTTAAAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 7 0.21
20 23 0.68
21 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTATAAAATTATTATT
Found at i:60528158 original size:9 final size:9
Alignment explanation
Indices: 60528102--60528158 Score: 55
Period size: 9 Copynumber: 6.0 Consensus size: 9
60528092 AAAAAAATAA
60528102 AAAATTA-T
1 AAAATTATT
60528110 AAAATATAATT
1 AAAAT-T-ATT
60528121 AAAATT-TAT
1 AAAATTAT-T
60528130 AAAATTATTAT
1 AAAATTA-T-T
60528141 AAAATTATT
1 AAAATTATT
60528150 AAAATTATT
1 AAAATTATT
60528159 TTTTAAAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
8 6 0.14
9 18 0.42
10 3 0.07
11 16 0.37
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATTATT
Found at i:60528166 original size:13 final size:13
Alignment explanation
Indices: 60528148--60528184 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
60528138 TATAAAATTA
60528148 TTAAAATTATTTT
1 TTAAAATTATTTT
60528161 TTAAAAGTT-TTTT
1 TTAAAA-TTATTTT
60528174 TTAAAATTATT
1 TTAAAATTATT
60528185 AAAAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTAAAATTATTTT
Found at i:60528472 original size:28 final size:29
Alignment explanation
Indices: 60528429--60528502 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
60528419 AAAAGCTGTG
*
60528429 TTTTAATTTATTTTATAA-AATTTTATGAT
1 TTTTAA-TTAATTTATAATAATTTTATGAT
*
60528458 TTTTAATTAATTTATAATAATTTTATTAT
1 TTTTAATTAATTTATAATAATTTTATGAT
*
60528487 TTTTTA-TAATTT-TAAT
1 TTTTAATTAATTTATAAT
60528503 TATTCTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 4 0.10
28 16 0.39
29 21 0.51
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTTAATTAATTTATAATAATTTTATGAT
Found at i:60528488 original size:18 final size:19
Alignment explanation
Indices: 60528458--60528506 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
60528448 ATTTTATGAT
60528458 TTTTAATTAATTTATAATAA
1 TTTTAATT-ATTTATAATAA
* *
60528478 TTTT-ATTATTTTTTATAA
1 TTTTAATTATTTATAATAA
60528496 TTTTAATTATT
1 TTTTAATTATT
60528507 CTTTATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 13 0.50
19 9 0.35
20 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAATTATTTATAATAA
Found at i:60528504 original size:19 final size:19
Alignment explanation
Indices: 60528458--60528518 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
60528448 ATTTTATGAT
* *
60528458 TTTTAATTAATTTATAATAA
1 TTTTAATT-ATTTTTTATAA
60528478 TTTT-ATTATTTTTTATAA
1 TTTTAATTATTTTTTATAA
*
60528496 TTTTAATTATTCTTTATAA
1 TTTTAATTATTTTTTATAA
60528515 TTTT
1 TTTT
60528519 TTTCTTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.35
19 20 0.54
20 4 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTAATTATTTTTTATAA
Found at i:60534339 original size:16 final size:15
Alignment explanation
Indices: 60534305--60534347 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
60534295 AAATTTTGAT
60534305 GAAAAGAAAAGCAAA
1 GAAAAGAAAAGCAAA
**
60534320 GAAAAGAAATAGGGAA
1 GAAAAGAAA-AGCAAA
60534336 GAAATAGAAAAG
1 GAAA-AGAAAAG
60534348 ATGGAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.38
16 10 0.42
17 5 0.21
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (15 bp):
GAAAAGAAAAGCAAA
Found at i:60543932 original size:18 final size:18
Alignment explanation
Indices: 60543909--60543945 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
60543899 GAATTCTGGG
*
60543909 CCCACATGCCCGTGTGGC
1 CCCACACGCCCGTGTGGC
60543927 CCCACACGCCCGTGTGGC
1 CCCACACGCCCGTGTGGC
60543945 C
1 C
60543946 TACTAGCTTA
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:0.11, C:0.49, G:0.27, T:0.14
Consensus pattern (18 bp):
CCCACACGCCCGTGTGGC
Found at i:60545140 original size:18 final size:18
Alignment explanation
Indices: 60545117--60545160 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
60545107 ATCCTCCTAT
60545117 TTATGGGTTGGA-GAGGGG
1 TTATGGGTT-GATGAGGGG
60545135 TTATGGGTTGATGAGGGG
1 TTATGGGTTGATGAGGGG
60545153 TTATGGGT
1 TTATGGGT
60545161 AGTTCTTGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 2 0.08
18 23 0.92
ACGTcount: A:0.16, C:0.00, G:0.50, T:0.34
Consensus pattern (18 bp):
TTATGGGTTGATGAGGGG
Found at i:60545627 original size:14 final size:14
Alignment explanation
Indices: 60545608--60545642 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
60545598 AAGCTTTATT
60545608 TTAAATTCATCAAG
1 TTAAATTCATCAAG
*
60545622 TTAAATTTATCAAG
1 TTAAATTCATCAAG
*
60545636 TCAAATT
1 TTAAATT
60545643 TTTAGTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (14 bp):
TTAAATTCATCAAG
Found at i:60547843 original size:24 final size:24
Alignment explanation
Indices: 60547788--60547843 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
60547778 GAATTATAAA
60547788 ATATAT-AAAATATGTACATATAT
1 ATATATAAAAATATGTACATATAT
* **
60547811 ATATGTAAAAATATGTATTTATAT
1 ATATATAAAAATATGTACATATAT
*
60547835 ATTTATAAA
1 ATATATAAA
60547844 GGTTAGAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 5 0.19
24 22 0.81
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (24 bp):
ATATATAAAAATATGTACATATAT
Found at i:60550092 original size:168 final size:168
Alignment explanation
Indices: 60549775--60550150 Score: 535
Period size: 173 Copynumber: 2.2 Consensus size: 168
60549765 ATTGTTTTCA
* * * *
60549775 GTCTGTTCCACTG-CATCTTCAGGGAAATAAGACTTGATGCGATCTACTCTGCTGTAACCTCAGA
1 GTCTGTTCCACTGTAATC-TCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGA
* * *
60549839 GAGATAAGATCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGAT
65 GAGATAAGATC----TTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGAT
*
60549904 CTGCTCCGCTGTAATCTCAGGGGGATAAGATCTGAAATTCTTTG
126 CTGCTCCGCTGTAATCTCA-GGAGATAAGATCTGAAATTCTTTG
* * * *
60549948 GTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTCAGAG
1 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
*
60550013 AGATAAGATC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTT-GATCTG
66 AGATAAGATCTTTTAATCCGCTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCTG
60550075 CTCCGCTGTAATCTCAGGAGATAAGATCTGAAATTCTTTG
129 CTCCGCTGTAATCTCAGGAGATAAGATCTGAAATTCTTTG
60550115 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
1 GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
60550151 TATAATAAAC
Statistics
Matches: 186, Mismatches: 14, Indels: 12
0.88 0.07 0.06
Matches are distributed among these distances:
167 59 0.32
168 54 0.29
169 7 0.04
173 63 0.34
174 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (168 bp):
GTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACCTCAGAG
AGATAAGATCTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCT
CCGCTGTAATCTCAGGAGATAAGATCTGAAATTCTTTG
Found at i:60565004 original size:14 final size:14
Alignment explanation
Indices: 60564981--60565014 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
60564971 GCTTTATTTT
*
60564981 AAATTGATCAAGTA
1 AAATTTATCAAGTA
*
60564995 AAATTTATCAAGTC
1 AAATTTATCAAGTA
60565009 AAATTT
1 AAATTT
60565015 TGAGTTAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (14 bp):
AAATTTATCAAGTA
Found at i:60567102 original size:15 final size:17
Alignment explanation
Indices: 60567072--60567109 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
60567062 TAAATTAATA
*
60567072 TAAAATACATTAAAAAT
1 TAAAATACATTAAAAAC
60567089 TAAAATA-ATT-AAAAC
1 TAAAATACATTAAAAAC
60567104 TAAAAT
1 TAAAAT
60567110 TGATTCATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 3 0.15
17 7 0.35
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATACATTAAAAAC
Found at i:60567432 original size:21 final size:20
Alignment explanation
Indices: 60567390--60567434 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
60567380 ATTTACATAT
* *
60567390 AAATACAAAATTACAAATCC
1 AAATAAAAAATTACAAACCC
*
60567410 AAATAAAAATATTACAAGCCC
1 AAATAAAAA-ATTACAAACCC
60567431 AAAT
1 AAAT
60567435 GTAAAAAGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.60, C:0.18, G:0.02, T:0.20
Consensus pattern (20 bp):
AAATAAAAAATTACAAACCC
Found at i:60569975 original size:18 final size:18
Alignment explanation
Indices: 60569954--60569988 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
60569944 AGAATTATAG
60569954 ATAATAT-TACATATAAGC
1 ATAATATATACAT-TAAGC
60569972 ATAATATATACATTAAG
1 ATAATATATACATTAAG
60569989 GATGTGGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (18 bp):
ATAATATATACATTAAGC
Found at i:60570010 original size:3 final size:3
Alignment explanation
Indices: 60570002--60570030 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
60569992 GTGGAATGGA
60570002 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
60570031 AAATATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:60570685 original size:33 final size:33
Alignment explanation
Indices: 60570641--60570717 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
60570631 TAGATACATG
** * *
60570641 TGTAAGACCATAGCTGGGTTATGGCA-TTCTAA
1 TGTAAGACCATAAATGGGTTATGGCACTACAAA
60570673 TGATAAGACCATAAATGGGTTATGGCACTACAAA
1 TG-TAAGACCATAAATGGGTTATGGCACTACAAA
60570707 TGTAAGACCAT
1 TGTAAGACCAT
60570718 GGTAGGGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
32 2 0.05
33 31 0.79
34 6 0.15
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (33 bp):
TGTAAGACCATAAATGGGTTATGGCACTACAAA
Found at i:60571425 original size:13 final size:13
Alignment explanation
Indices: 60571403--60571463 Score: 104
Period size: 13 Copynumber: 4.7 Consensus size: 13
60571393 AGATTTTCAT
60571403 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
60571416 TGCTTCTGAGAAG
1 TGCTTTTGAGAAG
60571429 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
*
60571442 TGCTTTTTAGAAG
1 TGCTTTTGAGAAG
60571455 TGCTTTTGA
1 TGCTTTTGA
60571464 AAAATTTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.21, C:0.10, G:0.28, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:60574652 original size:30 final size:29
Alignment explanation
Indices: 60574595--60574652 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
60574585 CTCCAATTTC
60574595 ACCAGCAGAGGGGAAAGAAAATTTGGGGA
1 ACCAGCAGAGGGGAAAGAAAATTTGGGGA
60574624 ACCAGCAGAGGGGAAA-AAAACGTTTGGGG
1 ACCAGCAGAGGGGAAAGAAAA--TTTGGGG
60574653 GAGAATTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 4 0.15
29 16 0.59
30 7 0.26
ACGTcount: A:0.40, C:0.12, G:0.38, T:0.10
Consensus pattern (29 bp):
ACCAGCAGAGGGGAAAGAAAATTTGGGGA
Found at i:60577663 original size:35 final size:35
Alignment explanation
Indices: 60577612--60577678 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
60577602 ATTATATAAG
60577612 TAAAATGAAATAGGTGAAAAAGATGAATCTAAAGT
1 TAAAATGAAATAGGTGAAAAAGATGAATCTAAAGT
60577647 TAAAATGAAA-ATGGTGAAAAAGATGAATCTAA
1 TAAAATGAAATA-GGTGAAAAAGATGAATCTAA
60577679 GGTTCATGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 1 0.03
35 30 0.97
ACGTcount: A:0.55, C:0.03, G:0.19, T:0.22
Consensus pattern (35 bp):
TAAAATGAAATAGGTGAAAAAGATGAATCTAAAGT
Found at i:60580393 original size:15 final size:15
Alignment explanation
Indices: 60580373--60580403 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
60580363 GATACAATAG
60580373 TCAACCTTGTCATTT
1 TCAACCTTGTCATTT
60580388 TCAACCTTGTCATTT
1 TCAACCTTGTCATTT
60580403 T
1 T
60580404 AAACTTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.48
Consensus pattern (15 bp):
TCAACCTTGTCATTT
Found at i:60594758 original size:40 final size:40
Alignment explanation
Indices: 60594713--60594799 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
60594703 GTGTACCCTA
*
60594713 AACACGATCATGTGAATGTCGTTA-GTGTGGCCATGTGTGG
1 AACACGATCATGTGAATGTCG-TAGGTGTGGCCATGTGCGG
* *
60594753 GACACGATCATGTGAATGTCGTAGGTGTGGCCGTGTGCGG
1 AACACGATCATGTGAATGTCGTAGGTGTGGCCATGTGCGG
60594793 AACACGA
1 AACACGA
60594800 CCGTGTGGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 2 0.05
40 40 0.95
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.25
Consensus pattern (40 bp):
AACACGATCATGTGAATGTCGTAGGTGTGGCCATGTGCGG
Found at i:60595698 original size:13 final size:13
Alignment explanation
Indices: 60595680--60595705 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60595670 ACTTTACGCA
60595680 AACAAATGGTTTT
1 AACAAATGGTTTT
60595693 AACAAATGGTTTT
1 AACAAATGGTTTT
60595706 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:60596957 original size:12 final size:11
Alignment explanation
Indices: 60596925--60596953 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
60596915 ATAATTTTAT
60596925 TTTTAAAATT-
1 TTTTAAAATTA
60596935 TTTTAAAATTA
1 TTTTAAAATTA
60596946 TTTTAAAA
1 TTTTAAAA
60596954 ATTAATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATTA
Found at i:60596962 original size:22 final size:22
Alignment explanation
Indices: 60596921--60596962 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
60596911 TTATATAATT
* **
60596921 TTATTTTTAAAATTTTTTAAAA
1 TTATTTTAAAAATTAATTAAAA
60596943 TTATTTTAAAAATTAATTAA
1 TTATTTTAAAAATTAATTAA
60596963 GTACTTATGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATTTTAAAAATTAATTAAAA
Found at i:60602486 original size:28 final size:28
Alignment explanation
Indices: 60602455--60602508 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
60602445 TTAAGGTTCC
* *
60602455 AGATTCAAGGTTTATGGTTTAGGATTTA
1 AGATTCAAGGTTCAAGGTTTAGGATTTA
*
60602483 AGATTCATGGTTCAAGGTTTAGGATT
1 AGATTCAAGGTTCAAGGTTTAGGATT
60602509 AAAAAATTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.28, C:0.06, G:0.26, T:0.41
Consensus pattern (28 bp):
AGATTCAAGGTTCAAGGTTTAGGATTTA
Found at i:60606894 original size:18 final size:19
Alignment explanation
Indices: 60606863--60606900 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
60606853 AGTATACATA
60606863 TTTAAAATTCATCTTCAATT
1 TTTAAAATTCATCTT-AATT
60606883 TTTAAAA-T-ATCTTAATT
1 TTTAAAATTCATCTTAATT
60606900 T
1 T
60606901 AGTCTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 5 0.28
19 1 0.06
20 7 0.39
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAAATTCATCTTAATT
Found at i:60612587 original size:34 final size:34
Alignment explanation
Indices: 60612536--60612655 Score: 125
Period size: 34 Copynumber: 3.5 Consensus size: 34
60612526 CTAATTCATG
* * *
60612536 ATAAGCATGA-CTTTTGCTACAGCATTGATTTGTT
1 ATAAGCAT-ATCTATTGCTACAGTATTGATATGTT
* *
60612570 ATAAGCATATCTATTGCTACCGTATTGATCTGTT
1 ATAAGCATATCTATTGCTACAGTATTGATATGTT
* * **
60612604 ATAAGCATGTCCATTGCTATTGTATTGATATGTT
1 ATAAGCATATCTATTGCTACAGTATTGATATGTT
*
60612638 ATAAGCATGTCATATTGC
1 ATAAGCATATC-TATTGC
60612656 ATTGCATAGG
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
33 1 0.01
34 68 0.92
35 5 0.07
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.41
Consensus pattern (34 bp):
ATAAGCATATCTATTGCTACAGTATTGATATGTT
Found at i:60617447 original size:4 final size:4
Alignment explanation
Indices: 60617438--60617462 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
60617428 TAAATCAAGC
60617438 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
60617463 TCTAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:60621726 original size:6 final size:6
Alignment explanation
Indices: 60621715--60621746 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
60621705 TGATATTACT
60621715 AAAATA AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AA
60621747 TCGTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:60622163 original size:37 final size:36
Alignment explanation
Indices: 60622104--60622177 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
60622094 TTTAATTCTA
* *
60622104 ATGATTTTGGAATTTAGGTTTTACTTTAAGTATTTTT
1 ATGATTTGGGAATTTAGATTTTACTTTAAGT-TTTTT
* * *
60622141 ATGATTTGGGAATTTATATTTTAGTTTTAGTTTTTT
1 ATGATTTGGGAATTTAGATTTTACTTTAAGTTTTTT
60622177 A
1 A
60622178 ATTATTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.24, C:0.01, G:0.16, T:0.58
Consensus pattern (36 bp):
ATGATTTGGGAATTTAGATTTTACTTTAAGTTTTTT
Found at i:60622190 original size:23 final size:22
Alignment explanation
Indices: 60622164--60622207 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
60622154 TTATATTTTA
*
60622164 GTTTTAGTTTTTTAATTATTAAT
1 GTTTAAGTTTTTTAA-TATTAAT
*
60622187 GTTTAATTTTTTTAATATTAA
1 GTTTAAGTTTTTTAATATTAA
60622208 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.64
Consensus pattern (22 bp):
GTTTAAGTTTTTTAATATTAAT
Found at i:60624796 original size:23 final size:23
Alignment explanation
Indices: 60624753--60624797 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
60624743 ACAGATATAG
* * *
60624753 ATACAAATGCTTAATAGATACAA
1 ATACAAATGCATAACAAATACAA
60624776 ATACAAATGCATAACAAATACA
1 ATACAAATGCATAACAAATACA
60624798 TAACAAACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.16, G:0.07, T:0.22
Consensus pattern (23 bp):
ATACAAATGCATAACAAATACAA
Found at i:60630613 original size:42 final size:42
Alignment explanation
Indices: 60630554--60630634 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
60630544 GCAAACTCTA
60630554 TATCCGAGGCCTGTTGGGTCACAAATCTTCTTCTAGAATCTG
1 TATCCGAGGCCTGTTGGGTCACAAATCTTCTTCTAGAATCTG
60630596 TATCCGAGGCCTGTTGGGTCACAAATCTTCTTCTAGAAT
1 TATCCGAGGCCTGTTGGGTCACAAATCTTCTTCTAGAAT
60630635 TGCGAGTTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (42 bp):
TATCCGAGGCCTGTTGGGTCACAAATCTTCTTCTAGAATCTG
Found at i:60636471 original size:12 final size:13
Alignment explanation
Indices: 60636449--60636477 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
60636439 GATTCATTCT
60636449 ATAATTATAAAAA
1 ATAATTATAAAAA
60636462 ATAA-TATAAAAA
1 ATAATTATAAAAA
60636474 ATAA
1 ATAA
60636478 AAAAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAATTATAAAAA
Found at i:60636588 original size:9 final size:9
Alignment explanation
Indices: 60636576--60636600 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
60636566 ATTTTTATAA
60636576 ATTTTAATG
1 ATTTTAATG
60636585 ATTTTAATG
1 ATTTTAATG
60636594 ATTTTAA
1 ATTTTAA
60636601 ATAAAATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (9 bp):
ATTTTAATG
Found at i:60637027 original size:11 final size:12
Alignment explanation
Indices: 60637009--60637037 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
60636999 AATTTGAATT
60637009 TTATTTTTAGGA
1 TTATTTTTAGGA
60637021 TTATTTTTAGGA
1 TTATTTTTAGGA
60637033 TTATT
1 TTATT
60637038 ATGATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (12 bp):
TTATTTTTAGGA
Found at i:60638066 original size:161 final size:161
Alignment explanation
Indices: 60637869--60638256 Score: 717
Period size: 161 Copynumber: 2.4 Consensus size: 161
60637859 GCACGAGTTG
*
60637869 AATATTCAGTCATTTCA-AAAA-AAAAGCATTAATTTTGTATTTTATTTTTCGTTTCTTTTAGTC
1 AATATTCAGCCATTTCATAAAACAAAAGCATTAATTTTGTATTTTATTTTTCGTTTCTTTTAGTC
*
60637932 ATTAAATGTGGATTAATTATTAAACCGCCCTTGCTTAAATGCAAGAAAATATCAATGTAATGTTT
66 ATTAAATGTGGATTAATTATTAAACCGCCATTGCTTAAATGCAAGAAAATATCAATGTAATGTTT
60637997 CAAAATGACATGAAAAGAAAGAGAAAAGTCA
131 CAAAATGACATGAAAAGAAAGAGAAAAGTCA
60638028 AATATTCAGCCATTTCATAAAACAAAAGCATTAATTTTGTATTTTATTTTTCGTTTCTTTTAGTC
1 AATATTCAGCCATTTCATAAAACAAAAGCATTAATTTTGTATTTTATTTTTCGTTTCTTTTAGTC
* *
60638093 ATTAAATTTGGATTAATTATTAAACCGCCATTGCTTAAATGCTAGAAAATATCAATGTAATGTTT
66 ATTAAATGTGGATTAATTATTAAACCGCCATTGCTTAAATGCAAGAAAATATCAATGTAATGTTT
60638158 CAAAATGACATGAAAAGAAAGAGAAAAGTCA
131 CAAAATGACATGAAAAGAAAGAGAAAAGTCA
*
60638189 AATATTCAGCCATTTCATAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTTTTAGTC
1 AATATTCAGCCATTTCATAAAACAAAAGCATTAATTTTGTATTTTATTTTTCGTTTCTTTTAGTC
60638254 ATT
66 ATT
60638257 GAATTTAGAT
Statistics
Matches: 222, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
159 16 0.07
160 4 0.02
161 202 0.91
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (161 bp):
AATATTCAGCCATTTCATAAAACAAAAGCATTAATTTTGTATTTTATTTTTCGTTTCTTTTAGTC
ATTAAATGTGGATTAATTATTAAACCGCCATTGCTTAAATGCAAGAAAATATCAATGTAATGTTT
CAAAATGACATGAAAAGAAAGAGAAAAGTCA
Found at i:60639061 original size:161 final size:161
Alignment explanation
Indices: 60638780--60639829 Score: 1663
Period size: 161 Copynumber: 6.6 Consensus size: 161
60638770 GGGTCGCACG
* *
60638780 AGTCAAATATTCAGTCATTTCAAAAAAACAAAAGCATTAATTTTGTATTTTATTTTTCGTTTCTT
1 AGTCAAATATTCAGCCATTTC-AAAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTT
**
60638845 TTAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGGAAGAAAATATCAATGTA
65 TTAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTAGAAAATATCAATGTA
60638910 ATGTTTCAAAATGACATGAAAAGAAAGAGAAA
130 ATGTTTCAAAATGACATGAAAAGAAAGAGAAA
*
60638942 AGTCAAATATTCAGCCATTTCATAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTTT
1 AGTCAAATATTCAGCCATTTCAAAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTTT
* * *
60639007 TAGTCATTAAATTTGGATTAATTATTAAACCGCCATTACTTATATGCTAGAAAATATCAATGTAA
66 TAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTAGAAAATATCAATGTAA
* *
60639072 TGTTTCAAAATGGCATTAAAAGAAAGAGAAA
131 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
* *
60639103 AGTCAAATATTCAGCCATTTCATAAAACAAAAGCATTAATTTTGTATTTGATTTTTGGTTTCTTT
1 AGTCAAATATTCAGCCATTTCAAAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTTT
*
60639168 TAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTTGAAAATATCAATGTAA
66 TAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTAGAAAATATCAATGTAA
60639233 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
131 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
* *
60639264 AGTCATATATTCAGCCATTTCAAAAAACAAAAGCATTAATTTTGTATTTGATTTTTCATTTCTTT
1 AGTCAAATATTCAGCCATTTCAAAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTTT
* *
60639329 TAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTGGAAAATATGAATG-AA
66 TAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTAGAAAATATCAATGTAA
60639393 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
131 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
* *
60639424 AGTCAAATATTCAGCAATTTCAAAAAACAAAAGCATTAATTTTGTATTTGATTTTTTGTTTCTTT
1 AGTCAAATATTCAGCCATTTCAAAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTTT
*
60639489 TAGTCATTAAATTTGGATTAATTATTAAACCGTCCTTGCTTAAATGCTAGAAAATATCAATGTAA
66 TAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTAGAAAATATCAATGTAA
60639554 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
131 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
* *
60639585 AGTCAAATATTCAGTCATTT----AAA-AAAA-CATTAATTTTGTATTTGATTTTTGGTTTCTTT
1 AGTCAAATATTCAGCCATTTCAAAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTTT
* * * *
60639644 TAGTCATTAAATTTAGATTAAGTATTAAATCGCCCTTGCTTAAATGCTAGAAAATATTAATGTAA
66 TAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTAGAAAATATCAATGTAA
60639709 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
131 TGTTTCAAAATGACATGAAAAGAAAGAGAAA
* * ** * *
60639740 AGTCAAATA-TCAACGATTTCAAAAAA-ATATATA-TTTTACTGTTGTATTTGATTTTTCGTTTC
1 AGTCAAATATTCAGCCATTTCAAAAAACA-A-A-AGCATTAATTTTGTATTTGATTTTTCGTTTC
* * *
60639802 TTTT-TTACATTAAATTTGCATTGATTAT
63 TTTTAGT-CATTAAATTTGGATTAATTAT
60639830 CAAATCACCT
Statistics
Matches: 828, Mismatches: 51, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
154 7 0.01
155 131 0.16
156 4 0.00
157 3 0.00
158 4 0.00
159 1 0.00
160 155 0.19
161 503 0.61
162 20 0.02
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (161 bp):
AGTCAAATATTCAGCCATTTCAAAAAACAAAAGCATTAATTTTGTATTTGATTTTTCGTTTCTTT
TAGTCATTAAATTTGGATTAATTATTAAACCGCCCTTGCTTAAATGCTAGAAAATATCAATGTAA
TGTTTCAAAATGACATGAAAAGAAAGAGAAA
Found at i:60648528 original size:22 final size:22
Alignment explanation
Indices: 60648479--60648529 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
60648469 CGTAGGACAC
*
60648479 GGCCATGTGATGGTGTAAGTGT
1 GGCCGTGTGATGGTGTAAGTGT
* **
60648501 GACCGTGTGATGGTGTGGGTGT
1 GGCCGTGTGATGGTGTAAGTGT
60648523 GGCCGTG
1 GGCCGTG
60648530 AGGGCCCACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.12, C:0.12, G:0.47, T:0.29
Consensus pattern (22 bp):
GGCCGTGTGATGGTGTAAGTGT
Found at i:60653318 original size:4 final size:4
Alignment explanation
Indices: 60653309--60653341 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
60653299 AAGGACAAGG
60653309 AAAT AAAT AAAT AAA- AACAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT A
60653342 TGGAGGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 2 0.07
4 23 0.85
5 2 0.07
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:60665902 original size:110 final size:110
Alignment explanation
Indices: 60665709--60665928 Score: 440
Period size: 110 Copynumber: 2.0 Consensus size: 110
60665699 AAATTCGAGT
60665709 TTTATTTCACTCTCACGTTGTATCACTTCAAAGCCATCTATTGATATGGATTTATCTTATAAATG
1 TTTATTTCACTCTCACGTTGTATCACTTCAAAGCCATCTATTGATATGGATTTATCTTATAAATG
60665774 GGTATAGGATGTAAACATAAAACAAAATGTAGTTAATCTCTCGCA
66 GGTATAGGATGTAAACATAAAACAAAATGTAGTTAATCTCTCGCA
60665819 TTTATTTCACTCTCACGTTGTATCACTTCAAAGCCATCTATTGATATGGATTTATCTTATAAATG
1 TTTATTTCACTCTCACGTTGTATCACTTCAAAGCCATCTATTGATATGGATTTATCTTATAAATG
60665884 GGTATAGGATGTAAACATAAAACAAAATGTAGTTAATCTCTCGCA
66 GGTATAGGATGTAAACATAAAACAAAATGTAGTTAATCTCTCGCA
60665929 CGCACACATT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
110 110 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (110 bp):
TTTATTTCACTCTCACGTTGTATCACTTCAAAGCCATCTATTGATATGGATTTATCTTATAAATG
GGTATAGGATGTAAACATAAAACAAAATGTAGTTAATCTCTCGCA
Found at i:60667962 original size:57 final size:57
Alignment explanation
Indices: 60667867--60667979 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
60667857 CCTTTATGAG
** *
60667867 TGACATACCATTATGACCCAATGTGATTGGATGAAAGGACTCTTCCAGTCCTAATTA
1 TGACATACCACCATGACCCAATGTGATTAGATGAAAGGACTCTTCCAGTCCTAATTA
* * **
60667924 TGACATACCACCATGACCCGATGTGATTAGATGGAAGGACTCTTGTAGTCCTAATT
1 TGACATACCACCATGACCCAATGTGATTAGATGAAAGGACTCTTCCAGTCCTAATT
60667980 GGTGTGGTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (57 bp):
TGACATACCACCATGACCCAATGTGATTAGATGAAAGGACTCTTCCAGTCCTAATTA
Found at i:60668730 original size:32 final size:32
Alignment explanation
Indices: 60668683--60668748 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
60668673 AATTTCTGAA
* *
60668683 AGTTTCCATTGTTTTATAAGTAAATGTTTAAG
1 AGTTTCCACTATTTTATAAGTAAATGTTTAAG
*
60668715 AGTTTCCACTATTTTATAAGTCAATGTTTAAG
1 AGTTTCCACTATTTTATAAGTAAATGTTTAAG
60668747 AG
1 AG
60668749 ATTGTGTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (32 bp):
AGTTTCCACTATTTTATAAGTAAATGTTTAAG
Found at i:60673220 original size:57 final size:57
Alignment explanation
Indices: 60673113--60673221 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 57
60673103 CGGCAAAATT
* * *
60673113 AAAATTATGAAACAAAATCAAAATCAATTTTGTTAAACGACTGGACTAAATCCTAAC
1 AAAATTATGAAACAAAATCAAAATAAATTCTGTTAAACGACTGGAATAAATCCTAAC
* ** *
60673170 AAAATTATGTAATTAAATCAAAATAAATTCTGTTAAACG-GTGGGAATAAATC
1 AAAATTATGAAACAAAATCAAAATAAATTCTGTTAAACGACT-GGAATAAATC
60673222 TCGAAACAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
56 1 0.02
57 43 0.98
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (57 bp):
AAAATTATGAAACAAAATCAAAATAAATTCTGTTAAACGACTGGAATAAATCCTAAC
Found at i:60673366 original size:90 final size:88
Alignment explanation
Indices: 60673194--60673598 Score: 331
Period size: 87 Copynumber: 4.6 Consensus size: 88
60673184 AAATCAAAAT
* ** * * *
60673194 AAATTCTGTTAAACGGTGGGAATAAATCTCGAAACAG-TATTATTTGAC--TAA-GT-CTTCG-T
1 AAATTC-GTTAAACAGCAGGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTAC-TCGTT
*
60673253 TTGGAAAC-AAATTAATATAGAATA
64 TTGGAAACAAAATTAAAATAGAATA
* * *
60673277 AAATCTTGTTAAACGGC-GAGAATAAATCTC-AGAACAGATTTTATTTAA-TTTAATTTAATTC-
1 AAAT-TCGTTAAACAGCAG-GAATAAATCTCGA-AACAGATTTTATTTAACTTTAATTT-ACTCG
*
60673338 TAATTTGGAAACAAAATTAAAATTGAATA
62 T--TTTGGAAACAAAATTAAAATAGAATA
** * * * *
60673367 AAATATTTTTAATCAGCGGGAATAAATCTCGAAATAGATTTTATTTAATTTTAATTT-CTCGTTT
1 AAAT-TCGTTAAACAGCAGGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTACTCG-TT
* *
60673431 TTGGAAATAAAA-TAAAAAAGAATA
64 TTGGAAACAAAATTAAAATAGAATA
* * * * *
60673455 AAATTCATTGAAC-GACAGGAATAAATCTCGAAATAGATTTTATTT-TCATTTAA-ATACTCGTT
1 AAATTCGTTAAACAG-CAGGAATAAATCTCGAAACAGATTTTATTTAAC-TTTAATTTACTCGTT
* * *
60673517 TTGGAAATAAAATCAAAATGGAATA
64 TTGGAAACAAAATTAAAATAGAATA
60673542 AAATTCGTTAAACAGCAGGAATAAAT-TCCGAAACAGATTTTATTTAACTTTAATTTA
1 AAATTCGTTAAACAGCAGGAATAAATCT-CGAAACAGATTTTATTTAACTTTAATTTA
60673599 GAAACAAAAT
Statistics
Matches: 263, Mismatches: 33, Indels: 47
0.77 0.10 0.14
Matches are distributed among these distances:
82 2 0.01
83 29 0.11
84 9 0.03
85 3 0.01
86 18 0.07
87 97 0.37
88 18 0.07
89 23 0.09
90 53 0.20
91 11 0.04
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.35
Consensus pattern (88 bp):
AAATTCGTTAAACAGCAGGAATAAATCTCGAAACAGATTTTATTTAACTTTAATTTACTCGTTTT
GGAAACAAAATTAAAATAGAATA
Found at i:60680077 original size:13 final size:13
Alignment explanation
Indices: 60680059--60680083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60680049 TAAAACAATA
60680059 ATAAAATATATAT
1 ATAAAATATATAT
60680072 ATAAAATATATA
1 ATAAAATATATA
60680084 CATGAGTTTA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATAAAATATATAT
Found at i:60680781 original size:13 final size:14
Alignment explanation
Indices: 60680763--60680791 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
60680753 TTCTTCCTTG
60680763 TTTTATTTTAT-TT
1 TTTTATTTTATCTT
60680776 TTTTATTTTATCTT
1 TTTTATTTTATCTT
60680790 TT
1 TT
60680792 ACATAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTATCTT
Found at i:60683102 original size:3 final size:3
Alignment explanation
Indices: 60683094--60683135 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
60683084 ATATGTAAGT
*
60683094 ATA ATA ATA ATA ATA ATA ATA ATA ACA A-A ATTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA A
60683136 ACTAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.83
4 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:60686619 original size:13 final size:11
Alignment explanation
Indices: 60686583--60686613 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
60686573 CCGGCTGTAT
60686583 TAATTTTTATA
1 TAATTTTTATA
*
60686594 TGATTTTTATA
1 TAATTTTTATA
60686605 TAATTTTTA
1 TAATTTTTA
60686614 ATTATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:60692627 original size:27 final size:27
Alignment explanation
Indices: 60692597--60692655 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
60692587 ACCAATAGGT
60692597 GGCACCAAAGGTGCCATTCCCATGGGC
1 GGCACCAAAGGTGCCATTCCCATGGGC
***
60692624 GGCACCGGTGGTGCCATTCCCATGGGC
1 GGCACCAAAGGTGCCATTCCCATGGGC
60692651 GGCAC
1 GGCAC
60692656 TACCCATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.34, G:0.34, T:0.15
Consensus pattern (27 bp):
GGCACCAAAGGTGCCATTCCCATGGGC
Found at i:60692724 original size:4 final size:4
Alignment explanation
Indices: 60692710--60692746 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
60692700 GAAGGAGAGC
60692710 GAAA G-AA GAAA GAAA GAAA GAAA G-AA -AAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
60692747 AGGAGAGGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 7 0.23
4 23 0.77
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:60692741 original size:10 final size:10
Alignment explanation
Indices: 60692710--60692850 Score: 69
Period size: 10 Copynumber: 14.3 Consensus size: 10
60692700 GAAGGAGAGC
60692710 GAAAGAAGAAA
1 GAAAGAA-AAA
60692721 GAAAG--AAA
1 GAAAGAAAAA
60692729 GAAAGAAAAA
1 GAAAGAAAAA
*
60692739 GAAAGAAAAG
1 GAAAGAAAAA
* * * *
60692749 GAGAGGAGAG
1 GAAAGAAAAA
*
60692759 GAAAGAAAAT
1 GAAAGAAAAA
* *
60692769 GAAAGGAGAA
1 GAAAGAAAAA
60692779 G-AAGAAAAAA
1 GAAAG-AAAAA
*
60692789 GAAAGAAAAT
1 GAAAGAAAAA
* *
60692799 GAAGGAAAGA
1 GAAAGAAAAA
* *
60692809 -AAAGGAAAG
1 GAAAGAAAAA
*
60692818 GAGAAG-ACAA
1 GA-AAGAAAAA
60692828 GAGAAGAAAAA
1 GA-AAGAAAAA
*
60692839 G-AAGAAGAA
1 GAAAGAAAAA
60692848 GAA
1 GAA
60692851 GAGGGGAGGA
Statistics
Matches: 97, Mismatches: 25, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
8 8 0.08
9 16 0.16
10 58 0.60
11 15 0.15
ACGTcount: A:0.67, C:0.01, G:0.30, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:60692764 original size:20 final size:20
Alignment explanation
Indices: 60692719--60692829 Score: 84
Period size: 20 Copynumber: 5.4 Consensus size: 20
60692709 CGAAAGAAGA
* *
60692719 AAGAAAG-AAA-GAAAGAAA
1 AAGAAAGAAAAGGAAAGGAG
*
60692737 AAGAAAGAAAAGGAGAGGAG
1 AAGAAAGAAAAGGAAAGGAG
* *
60692757 AGGAAAGAAAATGAAAGGAG
1 AAGAAAGAAAAGGAAAGGAG
* *
60692777 AAG-AAGAAAAAAGAAAGAAAATG
1 AAGAAAG-AAAAGGAAAG--GA-G
60692800 AAGGAAAGAAAAGGAAAGGAG
1 AA-GAAAGAAAAGGAAAGGAG
60692821 AAGACAAGA
1 AAGA-AAGA
60692830 GAAGAAAAAG
Statistics
Matches: 73, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
18 7 0.10
19 6 0.08
20 35 0.48
21 7 0.10
22 2 0.03
23 3 0.04
24 10 0.14
25 3 0.04
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.02
Consensus pattern (20 bp):
AAGAAAGAAAAGGAAAGGAG
Found at i:60692765 original size:30 final size:30
Alignment explanation
Indices: 60692729--60692876 Score: 84
Period size: 30 Copynumber: 4.6 Consensus size: 30
60692719 AAGAAAGAAA
*
60692729 GAAAGAAAAAGAAAGAAAAGGAGAGGAGAG
1 GAAAGAAAAAGAAAGAAAAGAAGAGGAGAG
* * * * *
60692759 GAAAGAAAATGAAAGGAGAAGAAGA-AAAAA
1 GAAAGAAAAAGAAA-GAAAAGAAGAGGAGAG
60692789 GAAAGAAAATGAAGGAAAGAAAAGGAA-AGGAGAAG
1 GAAAG-AAA--AA-GAAAGAAAA-GAAGAGGAG-AG
* * *
60692824 ACAAGAGAAGAAAAAGAAGAAGAAGAAGAGGGGAG
1 -GAA-AGAA-AAAGA-AAGAA-AAGAAGAGGAGAG
*
60692859 GAAGGAAAAAGAAAGAAA
1 GAAAGAAAAAGAAAGAAA
60692877 GAAAAGGTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
30 21 0.24
31 16 0.18
32 4 0.05
33 9 0.10
34 11 0.13
35 13 0.15
36 10 0.11
37 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.33, T:0.01
Consensus pattern (30 bp):
GAAAGAAAAAGAAAGAAAAGAAGAGGAGAG
Found at i:60694185 original size:5 final size:5
Alignment explanation
Indices: 60694170--60694202 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
60694160 TATCTACTTA
60694170 TTTATT TTTAT TTTAT TTTA- TTTAT TTTAT TTT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT
60694203 TGTTTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:60694195 original size:14 final size:14
Alignment explanation
Indices: 60694176--60694202 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60694166 CTTATTTATT
60694176 TTTATTTTATTTTA
1 TTTATTTTATTTTA
60694190 TTTATTTTATTTT
1 TTTATTTTATTTT
60694203 TGTTTGTTTT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:60695251 original size:12 final size:12
Alignment explanation
Indices: 60695207--60695262 Score: 57
Period size: 12 Copynumber: 5.0 Consensus size: 12
60695197 TCTTATCTTC
60695207 ATTATTACTATT
1 ATTATTACTATT
*
60695219 ACTATTACTATT
1 ATTATTACTATT
60695231 ATTA--A-TATT
1 ATTATTACTATT
*
60695240 ATTATTGCTATT
1 ATTATTACTATT
*
60695252 GTTATTA-TATT
1 ATTATTACTATT
60695263 TTTACAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
9 8 0.22
10 1 0.03
11 4 0.11
12 23 0.64
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (12 bp):
ATTATTACTATT
Found at i:60698907 original size:11 final size:11
Alignment explanation
Indices: 60698891--60698917 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
60698881 TTTATAACTT
60698891 AATTTGGATAC
1 AATTTGGATAC
60698902 AATTTGGATAC
1 AATTTGGATAC
60698913 AATTT
1 AATTT
60698918 AAGTATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:60701827 original size:3 final size:3
Alignment explanation
Indices: 60701819--60701844 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
60701809 ATCTAAACCC
60701819 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
60701845 CTAACTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:60701915 original size:22 final size:22
Alignment explanation
Indices: 60701889--60701932 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
60701879 CTTAATAACT
60701889 AAATTA-ACAACAAAAAAAATAA
1 AAATTATACAA-AAAAAAAATAA
*
60701911 AAATTATACAAAAAAAACATAA
1 AAATTATACAAAAAAAAAATAA
60701933 CAACATAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (22 bp):
AAATTATACAAAAAAAAAATAA
Done.