Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 224 of 230
Found at i:66290691 original size:42 final size:43
Alignment explanation
Indices: 66290558--66291992 Score: 409
Period size: 44 Copynumber: 33.6 Consensus size: 43
66290548 TGTCTTCATG
*
66290558 TATTGGCGTGAAGTAGATCAAAGATATCAGATCCTATCTTCCTA
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * *
66290602 TATTG-GTAGGAAGTGGATCGAAGAT-GCAGATCTTATCTTCATG
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
*
66290645 TATTGCGTGAA-AAGATCGAAGATATCAGATCCTATCTTCCTA
1 TATTGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * *
66290687 TATTG-GTAGGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCC-A
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * *
66290729 TATTG-GTGGCGAAGTAGATCGAAGA-AGCAGATCTTGTCTTCATG
1 TATTGCGT---GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * *
66290773 TATCGGCGTGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCA
1 TAT-TGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * *
66290816 TATTG-GTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATG
1 TATTGCGT---GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * **
66290861 TATTGGCGTGAAGTAGATCGAAGAT-GCAGATTCTGCCTTCCTA
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * * *
66290904 TATTG-GTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATG
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* *
66290948 TATTGGCGTGAAGTAGATC-AA-AGAT-AG-TTCTATC-TCC--
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
**** ** * * *
66290985 CGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTA
1 TATTGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * *
66291028 TATTG-GTAGGAAATGGATCGAAGAT-GCAGATCTTGTCTTCC-A
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * *
66291070 TACTGGTG-GCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATG
1 TA-T--TGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* ** **
66291115 TATTGGCGTGAAGTAGATCGAAGAT-GCAGATTTTGCCTTCCTA
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * * *
66291158 TATTG-GTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATG
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* *
66291202 TATTGGCGTGAAGTAGATC-AA-AGAT-AG-TTCTATC-TCC--
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
**** ** * * *
66291239 CGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTA
1 TATTGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * *
66291282 TATTG-GTAGGAAATGGATCGAAGAT-GCAGATCTTGTCTTCCCA
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * *
66291325 TACTGGTG-GCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATG
1 TA-T--TGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * **
66291370 TATTGGCGTGAAGTAGATCGAAGAT-GCAGATTCTGCCTTCCTA
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * * *
66291413 TATTG-GTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATG
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* *
66291457 TATTGGCGTGAAGTAGATC-AA-AGAT-AG-TTCTATC-TCC--
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
**** ** * * *
66291494 CGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTA
1 TATTGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * *
66291537 TATTG-GTAGGAAATGGATCGAAGAT-GCAGATCTTGTCTTCCCA
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * *
66291580 TATTG-GTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATG
1 TATTGCGT---GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * **
66291625 TATTGGCGTGAAGTAGATCGAAGAT-GCAGATTCTGCCTTCCTA
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * * *
66291668 TATTG-GTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCGTG
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* *
66291712 TATTGGCGTGAAGTAGATC-AA-AGAT-AG-TTCTATC-TCC--
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
**** ** * * *
66291749 CGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTA
1 TATTGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * *
66291792 TATTG-GTAGGAAATGGATCGAAGAT-GCAGATCTTGTCTTCCCA
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * *
66291835 TACTGGTG-GCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATG
1 TA-T--TGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * **
66291880 TATTGGAGTGAAGTAGATCGAAGAT-GCAGATTCTGCCTTCCTA
1 TATT-GCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
* * * * * * *
66291923 TATTG-GTAGGAAGTAGGTCGAAGAAAGCAGATCTTGTCTTCATG
1 TATTGCGT--GAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
*
66291967 TATTGGCGTGAAGTAGATCAAAGATA
1 TATT-GCGTGAAGTAGATCGAAGATA
66291993 GTTCTATCTC
Statistics
Matches: 1027, Mismatches: 261, Indels: 206
0.69 0.17 0.14
Matches are distributed among these distances:
36 48 0.05
37 4 0.00
38 8 0.01
39 12 0.01
40 40 0.04
41 44 0.04
42 52 0.05
43 344 0.33
44 372 0.36
45 79 0.08
46 20 0.02
47 4 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
TATTGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTA
Found at i:66291497 original size:255 final size:255
Alignment explanation
Indices: 66290788--66292162 Score: 2599
Period size: 255 Copynumber: 5.4 Consensus size: 255
66290778 GCGTGAAGTA
*
66290788 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
1 GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
66290853 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
66 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
66290918 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
131 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
66290983 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
196 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
66291043 GATCGAAGATGCAGATCTTGTCTT-CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
1 GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
*
66291107 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTTTGCCTTCCTATATTGGTAGGAAGT
66 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
66291172 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
131 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
66291237 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
196 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
66291297 GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
1 GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
66291362 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
66 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
66291427 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
131 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
66291492 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
196 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
*
66291552 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
1 GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
66291617 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
66 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
*
66291682 AGGTCGAAGAAAGCAGATCTTGTCTTCGTGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
131 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
66291747 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
196 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
66291807 GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
1 GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
*
66291872 TCTTCATGTATTGGAGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
66 TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
66291937 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
131 AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
66292002 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
196 CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
* * ** *
66292062 GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATTGAAGATTGCAGATCTTG
1 GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
* * * *
66292127 CCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGATG
66 TCTTCATGTA-TTGGC-GTGAAGTAGATCGAAGATG
66292163 GCGGATTTTA
Statistics
Matches: 1099, Mismatches: 18, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
254 252 0.23
255 826 0.75
256 4 0.00
257 17 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (255 bp):
GATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTA
TCTTCATGTATTGGCGTGAAGTAGATCGAAGATGCAGATTCTGCCTTCCTATATTGGTAGGAAGT
AGGTCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTTCTATCT
CCCGGGGCAAGAAGTAGATCGGAGATAGCTGATCCTATCTTCCTATATTGGTAGGAAATG
Found at i:66292150 original size:46 final size:46
Alignment explanation
Indices: 66292098--66292448 Score: 142
Period size: 46 Copynumber: 7.8 Consensus size: 46
66292088 CATATTGGTG
*
66292098 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCA
1 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
* * * * * * * *
66292144 GCGAAGTAGGTCGAAGATGGCGGATTTTACCTCCCTG-A-CT-ACA
1 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
* * * *
66292187 GTGGAGTACATTGAAGCCAAT--A-ATTCTAT--CTCCCTGTATTTGGCA
1 GCGAAGTAGATTGAAG--ATTGCAGA-TCT-TGCCTCCCTGTATTTGGCA
* * *
66292232 GTGGAA-TAGATTGAAAATTGCAGATCTTGCCTTCCTGTATTTGGCA
1 G-CGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
* ** * * * * ***
66292278 GCGAAGCAGATCAAAGATGGCAAATTTTACCTCCCTG-A--CCACA
1 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
* * * ** *
66292321 GTGGAGTACATTGAAG-CCG-ATAATTCTAT--CTCCCTGTATTTGGCA
1 GCGAAGTAGATTGAAGATTGCA-GA-TCT-TGCCTCCCTGTATTTGGCA
* * *
66292366 GTGGAA-TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTCGGCA
1 G-CGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
** * * *
66292412 GCGAAGTAGATCAAAGATGGCAGATTTTACCTCCCTG
1 GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTG
66292449 ACTACAGTGG
Statistics
Matches: 213, Mismatches: 66, Indels: 52
0.64 0.20 0.16
Matches are distributed among these distances:
41 1 0.00
42 18 0.08
43 33 0.15
44 6 0.03
45 39 0.18
46 115 0.54
47 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (46 bp):
GCGAAGTAGATTGAAGATTGCAGATCTTGCCTCCCTGTATTTGGCA
Found at i:66292281 original size:134 final size:134
Alignment explanation
Indices: 66292104--66292517 Score: 702
Period size: 134 Copynumber: 3.1 Consensus size: 134
66292094 GGTGGCGAAG
* * *
66292104 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGGTCGAAGATGGCGGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGAT
*
66292169 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGTATTTGGCAGT
66 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
66292234 GGAA
131 GGAA
* * *
66292238 TAGATTGAAAATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCAAAGATGGCAAAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGAT
*
66292303 TTTACCTCCCTGACCACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
66 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
66292368 GGAA
131 GGAA
*
66292372 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTCGGCAGCGAAGTAGATCAAAGATGGCAGAT
1 TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGAT
* * * *
66292437 TTTACCTCCCTGACTACAGTGGAGTACATTAAAGCCGATAACTCTATCTCTCTGCATTTGGCAGT
66 TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
66292502 GGAA
131 GGAA
*
66292506 TAGATTAAAGAT
1 TAGATTGAAGAT
66292518 CAAAGATGGC
Statistics
Matches: 262, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
134 262 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (134 bp):
TAGATTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGTAGATCAAAGATGGCAGAT
TTTACCTCCCTGACTACAGTGGAGTACATTGAAGCCGATAATTCTATCTCCCTGTATTTGGCAGT
GGAA
Found at i:66292535 original size:95 final size:95
Alignment explanation
Indices: 66292419--66292612 Score: 336
Period size: 95 Copynumber: 2.0 Consensus size: 95
66292409 GCAGCGAAGT
66292419 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACA-GTGGAGTACATTAAAGCCGATAACTCTA
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACATG-GGAGTACATTAAAGCCGATAACTCTA
*
66292483 TCTCTCTGCATTTGGCAGTGGAATAGATTAA
65 TCTCCCTGCATTTGGCAGTGGAATAGATTAA
* *
66292514 AGATCAAAGATGGCAGATTTTACTTCCCTGACTACATGGGAGTACATTGAAGCCGATAACTCTAT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTAAAGCCGATAACTCTAT
*
66292579 CTCCCTGTATTTGGCAGTGGAATAGATTAA
66 CTCCCTGCATTTGGCAGTGGAATAGATTAA
66292609 AGAT
1 AGAT
66292613 TGTAGATCTT
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
95 93 0.99
96 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (95 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGACTACATGGGAGTACATTAAAGCCGATAACTCTAT
CTCCCTGCATTTGGCAGTGGAATAGATTAA
Found at i:66293154 original size:177 final size:177
Alignment explanation
Indices: 66292965--66293671 Score: 1234
Period size: 177 Copynumber: 4.0 Consensus size: 177
66292955 ATCCAAGATG
* *
66292965 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTAT
66293030 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
66 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
*
66293095 TGCAGATCTTGTCTTCTCATATTGGTGGCGAAGTAGATCGCAGAAAA
131 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
*
66293142 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTAT
*
66293207 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGAATCGAAGA
66 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
66293272 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
131 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
66293319 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTAT
*
66293384 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTAGATCGAAGA
66 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
*
66293449 TGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGCAGAAAA
131 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
* * * *
66293496 CAGATCTTGTCTTCTCATATTGGTGGCAAAGTAGATCGCAGAAAGCAGATCGTATCTTCATGTAT
1 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTAT
* * * * *
66293561 TGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGACGA
66 TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
* * * *
66293626 TGCATATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAA
131 TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA
66293672 GCCGATCGAC
Statistics
Matches: 508, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
177 508 1.00
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (177 bp):
CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTAT
TGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGA
TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAA
Found at i:66293492 original size:38 final size:38
Alignment explanation
Indices: 66293446--66293537 Score: 105
Period size: 45 Copynumber: 2.3 Consensus size: 38
66293436 AGTAGATCGA
66293446 AGAT-GCAGATCTTGTCTTCCCATATTGGTGGCAAAGT
1 AGATCGCAGATCTTGTCTTCCCATATTGGTGGCAAAGT
*
66293483 AGATCGCAGAAAACAGATCTTGTCTTCTCATATTGGTGGCAAAGT
1 AGAT--C-G----CAGATCTTGTCTTCCCATATTGGTGGCAAAGT
66293528 AGATCGCAGA
1 AGATCGCAGA
66293538 AAGCAGATCG
Statistics
Matches: 46, Mismatches: 1, Indels: 15
0.74 0.02 0.24
Matches are distributed among these distances:
37 4 0.09
38 4 0.09
41 1 0.02
42 1 0.02
43 1 0.02
45 35 0.76
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (38 bp):
AGATCGCAGATCTTGTCTTCCCATATTGGTGGCAAAGT
Found at i:66293679 original size:132 final size:132
Alignment explanation
Indices: 66292684--66293678 Score: 1106
Period size: 132 Copynumber: 7.5 Consensus size: 132
66292674 CCTGATTACA
* *
66292684 GAAGTGGATCGACGACGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
* * * * *
66292749 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTATTTTCCTATATTGAT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGT
66292814 AG
131 AG
*
66292816 GAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
* * * * *
66292881 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGGTCCTATTTTCCTATATTGAT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGT
66292946 AG
131 AG
*
66292948 GAAGTGGATCCAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
* *
66293013 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGT
66293078 AG
131 AG
* *
66293080 GAAGTGGATCGAAGATGCAGATCTTGTCTTCTCATATTGGTGGCGAAGTAGATCGCAGAAAACAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
*** * * * * * *
66293145 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
66 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGG
*
66293210 -CG
130 TAG
* * * * * * * *
66293212 TGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGT-GAATCGAAG-ATG
1 -GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG-ATCGCAGAAAG
*** * * * * * * *
66293274 CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAACAGATCTTGTCTTCCCATAT
63 CAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATAT
*
66293339 TGGTGG
127 TGGTAG
* * * *** * * * * *
66293345 CGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATC
1 -GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC
* * * * * * *
66293409 AGATCCTATCTTCCTATATTGGTAG-GAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATT
64 AGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
66293472 GGT-G
128 GGTAG
* * ** * *
66293476 GCAAAGTAGATCGCAGAAAACAGATCTTGTCTTCTCATATTGGTGGCAAAGTAGATCGCAGAAAG
1 G--AAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAG
* * * *
66293541 CAGATCGTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTCCTATATT
63 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATT
66293606 GGTAG
128 GGTAG
* * * * * *
66293611 GAAGTGGATCGACGATGCATATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCCG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
66293676 ATC
66 ATC
66293679 GACGATGGCA
Statistics
Matches: 760, Mismatches: 88, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
130 1 0.00
131 1 0.00
132 506 0.67
133 183 0.24
134 67 0.09
135 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (132 bp):
GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTGTCTTCCTATATTGGT
AG
Found at i:66295451 original size:3 final size:3
Alignment explanation
Indices: 66295440--66295530 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
66295430 ATTATTTTGT
*
66295440 TTA TT- TTA TTA TTA TTA TTA TTA TTA TTTA CTA TTA TTA TCT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA
* * * * * * *
66295485 CTA TTA TTG TTA GTA TTA TTA CTA CTA TTA TTA TTA CTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
66295531 ATTTATACCC
Statistics
Matches: 70, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 3 0.04
3 63 0.90
4 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:66295460 original size:12 final size:12
Alignment explanation
Indices: 66295446--66295530 Score: 89
Period size: 12 Copynumber: 6.8 Consensus size: 12
66295436 TTGTTTATTT
*
66295446 TATTATTATTAT
1 TATTATTATTAC
66295458 TATTATTATTTAC
1 TATTATTA-TTAC
66295471 TATTATTATCTTTAC
1 TATTATTA---TTAC
* *
66295486 TATTATTGTTAG
1 TATTATTATTAC
*
66295498 TATTATTACTAC
1 TATTATTATTAC
66295510 TATTATTATTAC
1 TATTATTATTAC
*
66295522 TATCATTAT
1 TATTATTAT
66295531 ATTTATACCC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
12 39 0.63
13 11 0.18
15 12 0.19
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:66299700 original size:29 final size:28
Alignment explanation
Indices: 66299642--66299700 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
66299632 GTAATTTTTA
*
66299642 AAGGGTTAAATTAAATTTTTATCATTTT
1 AAGGGTTAAATTAAATTTTTATCATATT
66299670 AAGGGTTAAAGTGT-AA-TTTTATCACTATT
1 AAGGGTTAAA-T-TAAATTTTTATCA-TATT
66299699 AA
1 AA
66299701 TTTAAATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 18 0.67
29 8 0.30
30 1 0.04
ACGTcount: A:0.37, C:0.05, G:0.14, T:0.44
Consensus pattern (28 bp):
AAGGGTTAAATTAAATTTTTATCATATT
Found at i:66301927 original size:14 final size:14
Alignment explanation
Indices: 66301903--66301936 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
66301893 TAGATTGGGT
66301903 TTCTT-TTGTATTC
1 TTCTTGTTGTATTC
*
66301916 TTTTTGTTGTATTC
1 TTCTTGTTGTATTC
66301930 TTCTTGT
1 TTCTTGT
66301937 AGTGTATAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.06, C:0.12, G:0.12, T:0.71
Consensus pattern (14 bp):
TTCTTGTTGTATTC
Found at i:66321839 original size:34 final size:35
Alignment explanation
Indices: 66321773--66321840 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
66321763 GGGTGTGTGA
66321773 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
66321808 TGGTGCTGGTGGCAGACAGCAT-GGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
66321841 AGAGGCAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 11 0.33
35 22 0.67
ACGTcount: A:0.21, C:0.12, G:0.50, T:0.18
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGAG
Found at i:66322592 original size:76 final size:76
Alignment explanation
Indices: 66322423--66322619 Score: 270
Period size: 76 Copynumber: 2.7 Consensus size: 76
66322413 CTCAACTCAT
66322423 TCAGCGTGTCCTGAGGCTCAA-TCA-CTCTCGCAATATGAGTTGA--TT----TTTGAAAAACAA
1 TCAGC-TGTCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAATTTGAAAAACAA
66322480 AAATTGAAATACC
64 AAATTGAAATACC
*
66322493 TCAG-TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAATTTGAAAAAC-AA
1 TCAGCTGTC-CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAATTTGAAAAACAAA
66322556 AATTGAAATACC
65 AATTGAAATACC
*
66322568 TCAGCATGTCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTGAAA
1 TCAGC-TGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA
66322620 AACAAAAATT
Statistics
Matches: 113, Mismatches: 3, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
68 13 0.12
69 3 0.03
70 23 0.20
72 2 0.02
75 18 0.16
76 50 0.44
77 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.30
Consensus pattern (76 bp):
TCAGCTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAATTTGAAAAACAAAA
ATTGAAATACC
Found at i:66322913 original size:69 final size:67
Alignment explanation
Indices: 66322819--66323007 Score: 231
Period size: 68 Copynumber: 2.7 Consensus size: 67
66322809 AAAAATTAAA
* * * *
66322819 AGGCTTAACTCACCTTCGCAATATGAGTTGAATTTAAAACAGAAATT-GAAA-TACCTCAGCGTG
1 AGGCTCAACTCATC-TCGCAATATGAGTTGATTTTAAAACA-AAATTAAAAATTACCTCAGCGTG
66322882 TCCTG
64 T-CTG
*
66322887 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTAAA-AAAATTAAAAATTACCTCAGCG
1 AGGCTCAACTCA--TCTCGCAATATGAGTTGA--TTTTAAAACAAAATTAAAAATTACCTCAGCG
66322951 TGTCTG
62 TGTCTG
66322957 AGGCTCAACTCATCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAAA
1 AGGCTCAACTCATCTCGCAATATGAGTTGATTTT--AAAACAAAATTAAAA
66323008 GGCTTAACTC
Statistics
Matches: 106, Mismatches: 6, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
66 4 0.04
68 32 0.30
69 31 0.29
70 20 0.19
71 19 0.18
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (67 bp):
AGGCTCAACTCATCTCGCAATATGAGTTGATTTTAAAACAAAATTAAAAATTACCTCAGCGTGTC
TG
Found at i:66323034 original size:189 final size:189
Alignment explanation
Indices: 66322473--66323102 Score: 870
Period size: 189 Copynumber: 3.3 Consensus size: 189
66322463 TGATTTTTGA
* * * *
66322473 AAAACAAAAATTGAAATACCTCA--GTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAAACATAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
* * * *
66322536 TTTTGAAATTTGAAAAACAAAATT-GAAATACCTCAGCATGTCCGAGGCTCAACTCACCTCTTGC
66 TTTT----TTT---AAA-AAAATTAAAAATACCTCAGCGTGTCTGAGGCTCAACTCA-CTCTCGC
66322600 AATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAA
122 AATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAA
66322665 TTT
187 TTT
*
66322668 AAAACATAAA-TAAAATACCTC-GCGTG-CC-GAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAAACATAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
* *
66322729 TTTTTTT--AAAAATTGAAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
66 TTTTTTTAAAAAAATT-AAAAATACCTCAGCGTGTC-TGAGGCTCAACTCA-CTCTCGCAATATG
*
66322792 AGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCT-TCGCAATATGAGTTGAATTT
128 AGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT
* * *
66322854 AAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 AAAACATAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
66322919 TTTTTTTAAAAAAATTAAAAATTACCTCAGCGTGTCTGAGGCTCAACTCA-TCTCGCAATATGAG
66 TTTTTTTAAAAAAATTAAAAA-TACCTCAGCGTGTCTGAGGCTCAACTCACTCTCGCAATATGAG
66322983 TTGATTTTGAAAAAC-AAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
130 TTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
* * * *
66323042 AAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGA
1 AAAACATAAA-TTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
66323103 ATTTTTAAAA
Statistics
Matches: 396, Mismatches: 24, Indels: 36
0.87 0.05 0.08
Matches are distributed among these distances:
183 6 0.02
184 1 0.00
185 27 0.07
186 81 0.20
187 10 0.03
188 44 0.11
189 90 0.23
190 40 0.10
191 19 0.05
192 20 0.05
193 35 0.09
194 11 0.03
195 12 0.03
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (189 bp):
AAAACATAAATTAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
TTTTTTTAAAAAAATTAAAAATACCTCAGCGTGTCTGAGGCTCAACTCACTCTCGCAATATGAGT
TGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTT
Found at i:66323057 original size:50 final size:49
Alignment explanation
Indices: 66322957--66323057 Score: 116
Period size: 50 Copynumber: 2.0 Consensus size: 49
66322947 AGCGTGTCTG
* * *
66322957 AGGCTCAACTCATCTCGCAATATGAGTTGATTTTGAAAAACAAAATTAAA
1 AGGCTCAACTCATCTCGCAATATGAGTTCAATTT-AAAAACAAAACTAAA
*
66323007 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AAAACATAAACTAAA
1 AGGCTCAACTCA--TCTCGCAATATGAGTTCAATTTAAAAACA-AAACTAAA
66323057 A
1 A
66323058 ATACCTCGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
49 6 0.14
50 19 0.43
51 5 0.11
52 14 0.32
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.27
Consensus pattern (49 bp):
AGGCTCAACTCATCTCGCAATATGAGTTCAATTTAAAAACAAAACTAAA
Found at i:66328525 original size:15 final size:16
Alignment explanation
Indices: 66328500--66328530 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
66328490 AGTATGGGAT
66328500 ATGCAATGAATGAATG
1 ATGCAATGAATGAATG
66328516 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
66328531 CATAAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
ATGCAATGAATGAATG
Found at i:66330021 original size:23 final size:25
Alignment explanation
Indices: 66329988--66330037 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
66329978 ATCGTAATAA
*
66329988 GACAACATTTTAAAAA-TAATATAT
1 GACAACATTTTAAAAACAAATATAT
66330012 GACAA-ATTTTAAAAACAAATATAT
1 GACAACATTTTAAAAACAAATATAT
66330036 GA
1 GA
66330038 TAATAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (25 bp):
GACAACATTTTAAAAACAAATATAT
Found at i:66330150 original size:4 final size:4
Alignment explanation
Indices: 66330135--66330166 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
66330125 TAAAATCATA
66330135 AAAT ATAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAA
66330167 AGGTATAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:66331665 original size:20 final size:21
Alignment explanation
Indices: 66331634--66331672 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
66331624 CTTATTTTTT
66331634 AAAATTATTAAAATTATAAGA
1 AAAATTATTAAAATTATAAGA
66331655 AAAATTA-TAAAATTATAA
1 AAAATTATTAAAATTATAA
66331673 AAATTAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATTATTAAAATTATAAGA
Found at i:66332371 original size:38 final size:35
Alignment explanation
Indices: 66332294--66332382 Score: 115
Period size: 35 Copynumber: 2.5 Consensus size: 35
66332284 TTTTAATAAT
* *
66332294 TTTTTACAATCTTTTACAATTTCTAATAATTTATA
1 TTTTTACATTATTTTACAATTTCTAATAATTTATA
66332329 TTTTTACATTATTTTACAATTTCTAATAATATTTATA
1 TTTTTACATTATTTTACAATTTCTAAT-A-ATTTATA
**
66332366 GTTTTTTTATTATTTTA
1 -TTTTTACATTATTTTA
66332383 TAGAATTCTA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
35 25 0.53
36 1 0.02
37 7 0.15
38 14 0.30
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (35 bp):
TTTTTACATTATTTTACAATTTCTAATAATTTATA
Found at i:66332452 original size:19 final size:20
Alignment explanation
Indices: 66332407--66332473 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 20
66332397 ATTTTTATTT
66332407 TTTTTAAATATATCATTTTATAA
1 TTTTT-AATA-AT-ATTTTATAA
* *
66332430 -TTTTATTAATATTTTGT-A
1 TTTTTAATAATATTTTATAA
*
66332448 TTTTTAATAATTTTTTATAA
1 TTTTTAATAATATTTTATAA
66332468 TTTTTA
1 TTTTTA
66332474 GAGATTTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.03
19 20 0.54
20 9 0.24
21 3 0.08
22 4 0.11
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (20 bp):
TTTTTAATAATATTTTATAA
Found at i:66332462 original size:11 final size:10
Alignment explanation
Indices: 66332422--66332472 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
66332412 AAATATATCA
66332422 TTTTATAATT
1 TTTTATAATT
* *
66332432 TTAT-TAATA
1 TTTTATAATT
*
66332441 TTTTGT-ATT
1 TTTTATAATT
*
66332450 TTTAATAATT
1 TTTTATAATT
66332460 TTTTATAATT
1 TTTTATAATT
66332470 TTT
1 TTT
66332473 AGAGATTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
9 13 0.41
10 19 0.59
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTATAATT
Found at i:66332471 original size:9 final size:9
Alignment explanation
Indices: 66332422--66332491 Score: 54
Period size: 9 Copynumber: 7.4 Consensus size: 9
66332412 AAATATATCA
66332422 TTTTATAA-
1 TTTTATAAT
66332430 TTTTATTAAT
1 TTTTA-TAAT
*
66332440 ATTTTGT-AT
1 -TTTTATAAT
66332449 TTTTAATAATT
1 TTTT-ATAA-T
66332460 TTTTATAAT
1 TTTTATAAT
*
66332469 TTTTAGAGAT
1 TTTTATA-AT
*
66332479 TTTTATGAT
1 TTTTATAAT
66332488 TTTT
1 TTTT
66332492 TGGATGATGA
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
8 9 0.18
9 19 0.38
10 13 0.26
11 9 0.18
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:66333292 original size:32 final size:32
Alignment explanation
Indices: 66333256--66333320 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
66333246 AGTTACGAGA
*
66333256 ACAAATATGAGAATAAACATAAAAACAACAAT
1 ACAAATACGAGAATAAACATAAAAACAACAAT
66333288 ACAAATACGAGAATAAACATAAAAACAACAAT
1 ACAAATACGAGAATAAACATAAAAACAACAAT
66333320 A
1 A
66333321 AAAACTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.66, C:0.14, G:0.06, T:0.14
Consensus pattern (32 bp):
ACAAATACGAGAATAAACATAAAAACAACAAT
Found at i:66334490 original size:16 final size:15
Alignment explanation
Indices: 66334464--66334498 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
66334454 TGATGTGAAT
66334464 AATATAAAATATTAA
1 AATATAAAATATTAA
*
66334479 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
66334495 AATA
1 AATA
66334499 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:66334681 original size:20 final size:21
Alignment explanation
Indices: 66334639--66334681 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
66334629 CCTTTTTTAG
* *
66334639 AATAATAATTAAATATACGAA
1 AATAATAATTAAATACACAAA
*
66334660 AATAAT-ATTATATACACAAA
1 AATAATAATTAAATACACAAA
66334680 AA
1 AA
66334682 GGTATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAATTAAATACACAAA
Found at i:66334853 original size:21 final size:23
Alignment explanation
Indices: 66334811--66334853 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
66334801 AGTATTTCGG
*
66334811 AGTATGTACATGAGACAATATAA
1 AGTATATACATGAGACAATATAA
66334834 AGTATATACAT-AGA-AATATA
1 AGTATATACATGAGACAATATA
66334854 CAAGAAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.28
Consensus pattern (23 bp):
AGTATATACATGAGACAATATAA
Found at i:66334864 original size:23 final size:23
Alignment explanation
Indices: 66334817--66334866 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
66334807 TCGGAGTATG
*
66334817 TACATGAGACAATATAAAGTATA
1 TACATGAGACAATATAAAGAATA
66334840 TACAT-AGA-AATATACAAGAAGTA
1 TACATGAGACAATATA-AAGAA-TA
66334863 TACA
1 TACA
66334867 ACTAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 6 0.25
22 7 0.29
23 11 0.46
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (23 bp):
TACATGAGACAATATAAAGAATA
Found at i:66335438 original size:13 final size:13
Alignment explanation
Indices: 66335420--66335444 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66335410 AAAAAAGGAA
66335420 AAAAATAAAAAAT
1 AAAAATAAAAAAT
66335433 AAAAATAAAAAA
1 AAAAATAAAAAA
66335445 GGGTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:66335452 original size:29 final size:30
Alignment explanation
Indices: 66335410--66335466 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
66335400 TAATAGATTC
66335410 AAAAAAGGAAAAAAATAAA-AA-ATAAAAAT
1 AAAAAAGG-AAAAAATAAAGAAGATAAAAAT
**
66335439 AAAAAAGGGTAAAATAAAGAAGATAAAA
1 AAAAAAGGAAAAAATAAAGAAGATAAAA
66335467 TCACCTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 10 0.42
30 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.11
Consensus pattern (30 bp):
AAAAAAGGAAAAAATAAAGAAGATAAAAAT
Found at i:66335708 original size:23 final size:24
Alignment explanation
Indices: 66335681--66335734 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
66335671 GGTTTCTTGG
66335681 TTTTTTGGGGTGTTAGG-TTTTTCT
1 TTTTTTGGGG-GTTAGGTTTTTTCT
**
66335705 TTTTTTTTGGGTTAGGTTTTTTCT
1 TTTTTTGGGGGTTAGGTTTTTTCT
66335729 TTTTTT
1 TTTTTT
66335735 TTTTGTTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.04, C:0.04, G:0.22, T:0.70
Consensus pattern (24 bp):
TTTTTTGGGGGTTAGGTTTTTTCT
Found at i:66335752 original size:26 final size:24
Alignment explanation
Indices: 66335692--66335750 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
66335682 TTTTTGGGGT
66335692 GTTAGG-TTTTTCTTTTTTTTTGG
1 GTTAGGTTTTTTCTTTTTTTTTGG
**
66335715 GTTAGGTTTTTTCTTTTTTTTTTT
1 GTTAGGTTTTTTCTTTTTTTTTGG
66335739 GTTAGGTTTTTT
1 GTTAGGTTTTTT
66335751 TTGGGGAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
23 6 0.18
24 27 0.82
ACGTcount: A:0.05, C:0.03, G:0.19, T:0.73
Consensus pattern (24 bp):
GTTAGGTTTTTTCTTTTTTTTTGG
Found at i:66347595 original size:15 final size:15
Alignment explanation
Indices: 66347571--66347626 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
66347561 CCCTTTTTTT
66347571 ATTTTT-ATTTTAAA
1 ATTTTTAATTTTAAA
* *
66347585 ATTTTTAATTTTTAT
1 ATTTTTAATTTTAAA
**
66347600 ATTTCAAATTTTAAA
1 ATTTTTAATTTTAAA
66347615 A--TTTAATTTTAA
1 ATTTTTAATTTTAA
66347627 TTATTAGTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
13 9 0.27
14 6 0.18
15 18 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTTTAATTTTAAA
Found at i:66347595 original size:21 final size:21
Alignment explanation
Indices: 66347565--66347626 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
66347555 CCTCCTCCCT
*
66347565 TTTTTTATTTTTATTTTAAAA
1 TTTTTAATTTTTATTTTAAAA
*
66347586 TTTTTAATTTTTATATTTCAAA
1 TTTTTAATTTTTAT-TTTAAAA
* * *
66347608 TTTTAAAATTTAATTTTAA
1 TTTTTAATTTTTATTTTAA
66347627 TTATTAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTAATTTTTATTTTAAAA
Found at i:66353766 original size:37 final size:37
Alignment explanation
Indices: 66353710--66353851 Score: 135
Period size: 37 Copynumber: 3.8 Consensus size: 37
66353700 TATTTTTGGT
*
66353710 TGGACTAGCTCTTATGAGC-ATCTAACGTGTTATCGAG
1 TGGACTAGCTCTTAGGAGCAAT-TAACGTGTTATCGAG
* ** *
66353747 TGGACTAGCTCTTCGGAGCAATTGGCGTGTTATTGAG
1 TGGACTAGCTCTTAGGAGCAATTAACGTGTTATCGAG
* ** *
66353784 TGGACTAGCTCTTTA-GAGTAATTAGTGTGTTATCGAA
1 TGGACTAGCTC-TTAGGAGCAATTAACGTGTTATCGAG
* ** *
66353821 TGGATTAGCTCTTACTAGCAATTAGCGTGTT
1 TGGACTAGCTCTTAGGAGCAATTAACGTGTT
66353852 TCGGTTGGAA
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
36 3 0.03
37 80 0.92
38 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.35
Consensus pattern (37 bp):
TGGACTAGCTCTTAGGAGCAATTAACGTGTTATCGAG
Found at i:66373419 original size:14 final size:16
Alignment explanation
Indices: 66373380--66373418 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
66373370 CATAATTGTT
66373380 AAATATATACACAATG
1 AAATATATACACAATG
66373396 AAATATATACACAATG
1 AAATATATACACAATG
66373412 AAATATA
1 AAATATA
66373419 CTAATATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.26
Consensus pattern (16 bp):
AAATATATACACAATG
Found at i:66380422 original size:23 final size:23
Alignment explanation
Indices: 66380392--66380440 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
66380382 GTACTCCTGC
66380392 AAAGCCAGAACTAGCAGACCAGA
1 AAAGCCAGAACTAGCAGACCAGA
*
66380415 AAAGCCAGAACTAGCAGACTAGA
1 AAAGCCAGAACTAGCAGACCAGA
66380438 AAA
1 AAA
66380441 CCCTTGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.22, G:0.20, T:0.06
Consensus pattern (23 bp):
AAAGCCAGAACTAGCAGACCAGA
Found at i:66381015 original size:26 final size:26
Alignment explanation
Indices: 66380982--66381034 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
66380972 TCAATGGATC
*
66380982 TACCTCACTCCAAACTCAAACTATCT
1 TACCTCACTCCAAACACAAACTATCT
66381008 TACCTCACTCCAAACACAAACTATCT
1 TACCTCACTCCAAACACAAACTATCT
66381034 T
1 T
66381035 CTCTTTTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (26 bp):
TACCTCACTCCAAACACAAACTATCT
Found at i:66381716 original size:69 final size:68
Alignment explanation
Indices: 66381621--66381854 Score: 299
Period size: 69 Copynumber: 3.4 Consensus size: 68
66381611 AACTTTCAAG
* * * *
66381621 GGCAGATATATTTCCAGAGAACTGATTAGAGGATAGGTGCAAAGTTTCAAGCAATGTTAGGCTCT
1 GGCAGATATATTTCCAGAAAACTGATTAGAAGAGAGGTCCAAAGTTTCAAGCAATGTTAGGCTCT
66381686 GAA
66 GAA
* * *
66381689 CGGCAGATATATTTCTAGAAAACTGATTAAAAGAGAGGTCCAAA-TATGCAAGCAATGTTAGGCT
1 -GGCAGATATATTTCCAGAAAACTGATTAGAAGAGAGGTCCAAAGT-TTCAAGCAATGTTAGGCT
66381753 CTGAA
64 CTGAA
* * *
66381758 TGGCAGATATATTTCCAGAGAACTGATTAGAAGAGAGGTCCAAAGATTCAAGCAATTTTAGGCTC
1 -GGCAGATATATTTCCAGAAAACTGATTAGAAGAGAGGTCCAAAGTTTCAAGCAATGTTAGGCTC
*
66381823 TTAA
65 TGAA
* * *
66381827 GGATAGATATATTTTCGGAAAACTGATT
1 GG-CAGATATATTTCCAGAAAACTGATT
66381855 GTGAGAGAGA
Statistics
Matches: 143, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
68 3 0.02
69 140 0.98
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.27
Consensus pattern (68 bp):
GGCAGATATATTTCCAGAAAACTGATTAGAAGAGAGGTCCAAAGTTTCAAGCAATGTTAGGCTCT
GAA
Found at i:66388274 original size:64 final size:64
Alignment explanation
Indices: 66388190--66388366 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
66388180 ATATATATTT
*
66388190 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
66388254 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
66388318 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
66388367 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:66388545 original size:41 final size:41
Alignment explanation
Indices: 66388486--66388643 Score: 176
Period size: 41 Copynumber: 3.9 Consensus size: 41
66388476 ATATGAGATT
* * * *
66388486 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
* *
66388527 TTTAGACTTTATGTCTAGCAAGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
66388568 TTCAGACTTTATGTCTAGCAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
66388610 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
66388644 TTTTATATAG
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.02
41 90 0.90
42 8 0.08
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:66389332 original size:14 final size:15
Alignment explanation
Indices: 66389308--66389342 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
66389298 TACTTTAATC
66389308 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
66389323 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
66389338 ATGGT
1 ATGGT
66389343 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:66395168 original size:64 final size:64
Alignment explanation
Indices: 66395084--66395260 Score: 249
Period size: 64 Copynumber: 2.8 Consensus size: 64
66395074 ATATATATTT
*
66395084 AAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
*
66395148 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTACT-TACATATGTGGTTCGAATATAGGTTAC
1 AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTA-TATACATATGTGGTTCAAATATAGGTTAC
*
66395212 AAA-TTCTTTGAGCTGAATTTTAATGT-TGTAA--AT-TATACATATGTGGTTC
1 AAAGTTC-TTGAGCTGAA-TTTAATGTATG-AATTTTATATACATATGTGGTTC
66395261 GAATGTTTGT
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
61 1 0.01
62 14 0.13
63 4 0.04
64 75 0.71
65 11 0.10
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (64 bp):
AAAGTTCTTGAGCTGAATTTAATGTATGAATTTTATATACATATGTGGTTCAAATATAGGTTAC
Found at i:66395439 original size:41 final size:41
Alignment explanation
Indices: 66395380--66395537 Score: 176
Period size: 41 Copynumber: 3.9 Consensus size: 41
66395370 ATATGAGATT
* * * *
66395380 TTCAGGCTTAATGCCTAGCAGGCTTGATGCCGGTGAATTAT
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
*
66395421 TTTAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
* *
66395462 TTCAGACTTTATGTCTAGTAGGCTTTG-TGCCGGTGAAATGAA
1 TTCAGACTTTATGTCTAGCAGGC-TTGATGCCGGTG-AATTAA
* * * * *
66395504 -TCGGGCTTTGTGCCTAGCAGGCTTTATGCCGGTG
1 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTG
66395538 TTTTATACAG
Statistics
Matches: 100, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.02
41 90 0.90
42 8 0.08
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAATTAA
Found at i:66396230 original size:14 final size:15
Alignment explanation
Indices: 66396206--66396240 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
66396196 TACTTTAATC
66396206 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
66396221 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
66396236 ATGGT
1 ATGGT
66396241 AATATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:66398039 original size:22 final size:22
Alignment explanation
Indices: 66398014--66398057 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
66398004 CCCAAATGGT
66398014 ACGACACAAATGCGCAATGTGA
1 ACGACACAAATGCGCAATGTGA
66398036 ACGACACAAATGCGCAATGTGA
1 ACGACACAAATGCGCAATGTGA
66398058 CTATCATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.14
Consensus pattern (22 bp):
ACGACACAAATGCGCAATGTGA
Found at i:66399066 original size:12 final size:12
Alignment explanation
Indices: 66399049--66399093 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
66399039 GCAGTGGGAG
66399049 CAAAAAAAAAAA
1 CAAAAAAAAAAA
66399061 CAAAAAAACAAAAA
1 C-AAAAAA-AAAAA
*
66399075 CAAAAAAAATAA
1 CAAAAAAAAAAA
66399087 CAAAAAA
1 CAAAAAA
66399094 GAGAGGAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 12 0.40
13 12 0.40
14 6 0.20
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:66399073 original size:14 final size:13
Alignment explanation
Indices: 66399050--66399093 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
66399040 CAGTGGGAGC
66399050 AAAAAAAAAAACA
1 AAAAAAAAAAACA
66399063 AAAAAACAAAAAC-
1 AAAAAA-AAAAACA
*
66399076 AAAAAAAATAACA
1 AAAAAAAAAAACA
66399089 AAAAA
1 AAAAA
66399094 GAGAGGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 5 0.18
13 17 0.61
14 6 0.21
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAACA
Found at i:66399083 original size:18 final size:19
Alignment explanation
Indices: 66399051--66399093 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
66399041 AGTGGGAGCA
66399051 AAAAAAAAAACAAAAAAAC
1 AAAAAAAAAACAAAAAAAC
* *
66399070 AAAAACAAAA-AAAATAAC
1 AAAAAAAAAACAAAAAAAC
66399088 AAAAAA
1 AAAAAA
66399094 GAGAGGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.02
Consensus pattern (19 bp):
AAAAAAAAAACAAAAAAAC
Found at i:66399509 original size:18 final size:19
Alignment explanation
Indices: 66399483--66399523 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
66399473 AAAAGAAACA
66399483 AAAAGAAGAAC-AAAAAAG
1 AAAAGAAGAACGAAAAAAG
*
66399501 AAAATAAGAACGAAAAAAG
1 AAAAGAAGAACGAAAAAAG
66399520 AAAA
1 AAAA
66399524 AAAAGAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (19 bp):
AAAAGAAGAACGAAAAAAG
Found at i:66399524 original size:8 final size:9
Alignment explanation
Indices: 66399469--66399537 Score: 59
Period size: 10 Copynumber: 6.9 Consensus size: 9
66399459 AGAATGTTCA
66399469 AAAAAAAAG
1 AAAAAAAAG
66399478 AAACAAAAAG
1 AAA-AAAAAG
66399488 AAGAACAAAA-
1 AA-AA-AAAAG
66399498 AAGAAAATAAG
1 AA-AAAA-AAG
66399509 AACGAAAAAAG
1 AA--AAAAAAG
66399520 AAAAAAAAG
1 AAAAAAAAG
66399529 AAAAGAAAA
1 AAAA-AAAA
66399538 AGGAGAGGCC
Statistics
Matches: 53, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
9 16 0.30
10 20 0.38
11 12 0.23
12 5 0.09
ACGTcount: A:0.81, C:0.04, G:0.13, T:0.01
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:66399991 original size:97 final size:97
Alignment explanation
Indices: 66399825--66400112 Score: 477
Period size: 97 Copynumber: 3.0 Consensus size: 97
66399815 ATTCATTTCG
* * * * *
66399825 TATCTTAGTAAAATTTGCTATCTTGATTAATTTATTCATTTCGAGCTGTGCTCTGAATAAAATTT
1 TATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
66399890 CATCTTATCCATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
*
66399922 TATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAACTTTGTTCTCAATAAAATTT
1 TATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
66399987 CATCTTATCCATTGTGATAATCTTTTTCATCT
66 CATCTTATCCATTGTGATAATCTTTTTCATCT
* * *
66400019 TATCTTAGCAAAATTTTCTATCTTGATTAATTTATTCATCTCGAGCTTTGTTCTCAACAAAATTT
1 TATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
* *
66400084 CATCTTGTCCATTGTAATAATCTTTTTCA
66 CATCTTATCCATTGTGATAATCTTTTTCA
66400113 AGCATTTTTC
Statistics
Matches: 179, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
97 179 1.00
ACGTcount: A:0.28, C:0.17, G:0.08, T:0.48
Consensus pattern (97 bp):
TATCTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCTTTGTTCTCAATAAAATTT
CATCTTATCCATTGTGATAATCTTTTTCATCT
Found at i:66400796 original size:15 final size:16
Alignment explanation
Indices: 66400776--66400811 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
66400766 TGACATTCTG
66400776 CATTC-ATGCAAATAT
1 CATTCAATGCAAATAT
*
66400791 CATTCAATGGAAATAT
1 CATTCAATGCAAATAT
66400807 CATTC
1 CATTC
66400812 CTACACACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (16 bp):
CATTCAATGCAAATAT
Found at i:66401073 original size:46 final size:46
Alignment explanation
Indices: 66401022--66401358 Score: 552
Period size: 46 Copynumber: 7.4 Consensus size: 46
66401012 GACTAGAAGC
*
66401022 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
*
66401068 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
*
66401114 AGCAGATCTTGTCTTTCTGTATTTGGCAGCGGAGGGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
* *
66401160 AGCAGATCTTGTCTTCCTGTATTTGGTAGCGGAGGGGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
* * *
66401206 AGCAGATCTTGTCTTCCTATATTTGGCAGCAGAGGAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
*
66401252 AGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
* * *
66401298 AGCAGATCTTGTCTTCCTGTATTTGGTAG-GAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
66401343 -GCAGATCTTGTCTTCC
1 AGCAGATCTTGTCTTCC
66401359 CATATTGGTG
Statistics
Matches: 271, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
44 16 0.06
45 14 0.05
46 241 0.89
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGAT
Found at i:66401627 original size:99 final size:100
Alignment explanation
Indices: 66401441--66401719 Score: 323
Period size: 99 Copynumber: 2.8 Consensus size: 100
66401431 AAACCTTATC
** * ** *
66401441 TCTCTGGTGATGCGGTGGAACAGATTAAAGCTACAACGATGAATCTTGCTTCCCCGACATTACAA
1 TCTCTGGCAATGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
* *
66401506 TTTAAAAGATTGAAGCCGCAACGACGAATCTTACT
66 TTTAAAAGATTGAAGCCACAACGACGAATCTCACT
* * *
66401541 T-TCTTGGCAATGCAGTGGATCAGATTGAAGCTACAACGGCAAATCTTG-TTCCCCGACATTGCA
1 TCTC-TGGCAATGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
**
66401604 A-TTAAAGAGATTGAAGCCACAACGGTGAATCTCACT
65 ATTTAAA-AGATTGAAGCCACAACGACGAATCTCACT
* * * * * *
66401640 TCTCTGGCATTACAGTAGG-GCAGATTAAAGCTACGACGGCGAATCTTGCTTCCCTGACATTGTA
1 TCTCTGGCAATGCAGT-GGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCA
*
66401704 ATTTAAAAGATCGAAG
65 ATTTAAAAGATTGAAG
66401720 ATGGCAGGTT
Statistics
Matches: 151, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
98 5 0.03
99 78 0.52
100 63 0.42
101 5 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (100 bp):
TCTCTGGCAATGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAA
TTTAAAAGATTGAAGCCACAACGACGAATCTCACT
Found at i:66401948 original size:132 final size:132
Alignment explanation
Indices: 66401711--66401979 Score: 326
Period size: 132 Copynumber: 2.0 Consensus size: 132
66401701 GTAATTTAAA
* *
66401711 AGATCGAAGATGGCAGGTTTTACCTCCCTAAGATTACAGTGAAGTACATTAAAGCCAGTAGTTCT
1 AGATCGAAGATGGCAGATTTTACCTCCCTAAGATTACAGTGAAGTAAATTAAAGCCAGTAGTTCT
** * ** * * ** *
66401776 ACTTCCCTGGGCAATAGTAGAATAGATTGAAGATTACAGATCTTATCTTCCTAAGCAGTAGT-GA
66 ACTTCCCTAAGCAACAACAGAATAGATCGAAAAAAACAGATCTTATCTCCCTAAGCAGTAGTAG-
66401840 AGC
130 AGC
* * * * *
66401843 AGATCGAAGATGGCAGATTTTACCTCCCTGAGATTACAGTGGAGTAAATTGAAGCCAGTGGTTTT
1 AGATCGAAGATGGCAGATTTTACCTCCCTAAGATTACAGTGAAGTAAATTAAAGCCAGTAGTTCT
* * *
66401908 A-TCTCCCTAAGCAGCAACAGAGTAGGTCGAAAAAAACAGATCTTATCTCCCTAAGCAGTAGTAG
66 ACT-TCCCTAAGCAACAACAGAATAGATCGAAAAAAACAGATCTTATCTCCCTAAGCAGTAGTAG
66401972 AGC
130 AGC
66401975 AGATC
1 AGATC
66401980 ACATCAAGTC
Statistics
Matches: 115, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
131 1 0.01
132 113 0.98
133 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (132 bp):
AGATCGAAGATGGCAGATTTTACCTCCCTAAGATTACAGTGAAGTAAATTAAAGCCAGTAGTTCT
ACTTCCCTAAGCAACAACAGAATAGATCGAAAAAAACAGATCTTATCTCCCTAAGCAGTAGTAGA
GC
Found at i:66405254 original size:13 final size:13
Alignment explanation
Indices: 66405236--66405261 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66405226 TTTTTATTTG
66405236 AATTATTAGATAT
1 AATTATTAGATAT
66405249 AATTATTAGATAT
1 AATTATTAGATAT
66405262 TAAATTATGA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
AATTATTAGATAT
Found at i:66409134 original size:13 final size:13
Alignment explanation
Indices: 66409116--66409140 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66409106 GCATTCACCC
66409116 TATTATATATATA
1 TATTATATATATA
66409129 TATTATATATAT
1 TATTATATATAT
66409141 GGGTTGAATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTATATATATA
Found at i:66413020 original size:29 final size:29
Alignment explanation
Indices: 66412979--66413041 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
66412969 TAAATTTTGT
* *
66412979 TTAAAATTTATTAAATAACAATTAATTAA
1 TTAAAACTGATTAAATAACAATTAATTAA
** *
66413008 TTAAAACTGATTAAATATTAATTAATTAT
1 TTAAAACTGATTAAATAACAATTAATTAA
66413037 TTAAA
1 TTAAA
66413042 CTCTTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (29 bp):
TTAAAACTGATTAAATAACAATTAATTAA
Found at i:66413297 original size:20 final size:21
Alignment explanation
Indices: 66413274--66413313 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
66413264 TATGAAATCA
66413274 AATTAAATAAT-AAAATATTT
1 AATTAAATAATAAAAATATTT
* *
66413294 AATTTAATTATAAAAATATT
1 AATTAAATAATAAAAATATT
66413314 AATATTCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTAAATAATAAAAATATTT
Found at i:66419702 original size:21 final size:21
Alignment explanation
Indices: 66419676--66419716 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
66419666 ATCTGCTCAA
* *
66419676 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
66419697 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
66419717 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:66425146 original size:15 final size:15
Alignment explanation
Indices: 66425126--66425158 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
66425116 ACTAGAGTTG
66425126 AAACCATTACCACTC
1 AAACCATTACCACTC
66425141 AAACCATTACCACTC
1 AAACCATTACCACTC
66425156 AAA
1 AAA
66425159 TCAAGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.18
Consensus pattern (15 bp):
AAACCATTACCACTC
Found at i:66428934 original size:16 final size:17
Alignment explanation
Indices: 66428902--66428934 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
66428892 AATATTCAAC
*
66428902 ATTCAAATAGCATATAT
1 ATTCAAATAGCAAATAT
66428919 ATTCAAA-AGCAAATAT
1 ATTCAAATAGCAAATAT
66428935 TGAAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (17 bp):
ATTCAAATAGCAAATAT
Found at i:66429159 original size:13 final size:13
Alignment explanation
Indices: 66429141--66429165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66429131 TACTTGTTTA
66429141 GATAAAAAATTTG
1 GATAAAAAATTTG
66429154 GATAAAAAATTT
1 GATAAAAAATTT
66429166 AAAATTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
GATAAAAAATTTG
Found at i:66430513 original size:22 final size:22
Alignment explanation
Indices: 66430488--66430531 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
66430478 ACGGAGTGTC
66430488 ATTAAGGTGGTATTAAAGTTTT
1 ATTAAGGTGGTATTAAAGTTTT
66430510 ATTAAGGTGGTATTAAAGTTTT
1 ATTAAGGTGGTATTAAAGTTTT
66430532 GATAGTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (22 bp):
ATTAAGGTGGTATTAAAGTTTT
Found at i:66430690 original size:5 final size:5
Alignment explanation
Indices: 66430680--66430706 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
66430670 AATCTAAAGT
66430680 TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TA
66430707 ATATTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:66430743 original size:5 final size:5
Alignment explanation
Indices: 66430729--66430801 Score: 139
Period size: 5 Copynumber: 14.8 Consensus size: 5
66430719 AGTTTAAGTG
66430729 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
66430778 TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATA
66430802 AAAACAAACA
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
4 4 0.06
5 64 0.94
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:66431846 original size:22 final size:23
Alignment explanation
Indices: 66431798--66431854 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 23
66431788 CTAGCACGAC
*
66431798 AGTGCTCTCCGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCACATCT
* *
66431821 -GTGCTTTCTGTTTAGCAC-TTT
1 AGTGCTCTCTGTTTAGCACATCT
66431842 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
66431855 CATTAGTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (23 bp):
AGTGCTCTCTGTTTAGCACATCT
Found at i:66433537 original size:22 final size:22
Alignment explanation
Indices: 66433494--66433537 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
66433484 GATATACAAC
*
66433494 TAATAAAATAATAAAGTGTAAA
1 TAATAAAATAATAAAGTATAAA
*
66433516 TAATAAATATAA-AATGTATAAA
1 TAATAAA-ATAATAAAGTATAAA
66433538 AATTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (22 bp):
TAATAAAATAATAAAGTATAAA
Found at i:66438094 original size:21 final size:21
Alignment explanation
Indices: 66438062--66438102 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
66438052 AGGCTCGAGG
66438062 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
66438083 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
66438103 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:66459267 original size:27 final size:26
Alignment explanation
Indices: 66459232--66459391 Score: 223
Period size: 27 Copynumber: 5.9 Consensus size: 26
66459222 TACATAGTAT
66459232 TGGTGCCTATCTGGAAGGCGCCAATGG
1 TGGTGCCTATCTGG-AGGCGCCAATGG
66459259 TGGTGCCTATCTGGGAGGCGCCAATGG
1 TGGTGCCTATCT-GGAGGCGCCAATGG
*
66459286 TGGTGCCTATTTTGGAGGCGCCAATGG
1 TGGTGCCTA-TCTGGAGGCGCCAATGG
*
66459313 TGGTGCCTATTTGGGAGGCGCCAATGG
1 TGGTGCCTATCT-GGAGGCGCCAATGG
66459340 TGGTGCCTATCTAGGAGGCGCCAATGG
1 TGGTGCCTATCT-GGAGGCGCCAATGG
*
66459367 TGGTGCCATAT-TAGAAGGCGCCAAT
1 TGGTGCC-TATCT-GGAGGCGCCAAT
66459392 ACTGTGATTT
Statistics
Matches: 125, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.02
27 115 0.92
28 7 0.06
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (26 bp):
TGGTGCCTATCTGGAGGCGCCAATGG
Found at i:66459364 original size:81 final size:81
Alignment explanation
Indices: 66459232--66459391 Score: 259
Period size: 81 Copynumber: 2.0 Consensus size: 81
66459222 TACATAGTAT
*
66459232 TGGTGCCTATCTGGAAGGCGCCAATGGTGGTGCCTATCTGGGAGGCGCCAATGGTGGTGCC-TAT
1 TGGTGCCTATCTGGAAGGCGCCAATGGTGGTGCCTATCTAGGAGGCGCCAATGGTGGTGCCATA-
* *
66459296 TTTGGAGGCGCCAATGG
65 TTAGAAGGCGCCAATGG
* *
66459313 TGGTGCCTATTTGGGAGGCGCCAATGGTGGTGCCTATCTAGGAGGCGCCAATGGTGGTGCCATAT
1 TGGTGCCTATCTGGAAGGCGCCAATGGTGGTGCCTATCTAGGAGGCGCCAATGGTGGTGCCATAT
66459378 TAGAAGGCGCCAAT
66 TAGAAGGCGCCAAT
66459392 ACTGTGATTT
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
81 71 0.97
82 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.37, T:0.24
Consensus pattern (81 bp):
TGGTGCCTATCTGGAAGGCGCCAATGGTGGTGCCTATCTAGGAGGCGCCAATGGTGGTGCCATAT
TAGAAGGCGCCAATGG
Found at i:66459489 original size:22 final size:21
Alignment explanation
Indices: 66459458--66459502 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
66459448 CGGAAGAAAG
*
66459458 AAGAAGGAAGGAAGCAGAAGAA
1 AAGAAGGAAGGAA-AAGAAGAA
*
66459480 AAGAATGAAGGAAAAGAAGAA
1 AAGAAGGAAGGAAAAGAAGAA
66459501 AA
1 AA
66459503 AAATTAGGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.64, C:0.02, G:0.31, T:0.02
Consensus pattern (21 bp):
AAGAAGGAAGGAAAAGAAGAA
Found at i:66459500 original size:24 final size:24
Alignment explanation
Indices: 66459450--66459505 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
66459440 TACAAAAACG
*
66459450 GAAG-AAAGAAGAAGGAAGGAAGCA
1 GAAGAAAAGAAGAAGGAA-GAAGAA
66459474 GAAGAAAAGAATGAAGGAA-AAGAA
1 GAAGAAAAGAA-GAAGGAAGAAGAA
*
66459498 GAAAAAAA
1 GAAGAAAA
66459506 TTAGGTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 15 0.54
25 6 0.21
26 7 0.25
ACGTcount: A:0.66, C:0.02, G:0.30, T:0.02
Consensus pattern (24 bp):
GAAGAAAAGAAGAAGGAAGAAGAA
Found at i:66462841 original size:6 final size:6
Alignment explanation
Indices: 66462824--66462867 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
66462814 AGAATGTGGT
* * *
66462824 TCTGGA TCTGGC TTTGGC TCCGGC TCTGGC TCTGGC TCTGGC TC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TC
66462868 CGGTGCATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.02, C:0.32, G:0.32, T:0.34
Consensus pattern (6 bp):
TCTGGC
Found at i:66462857 original size:24 final size:24
Alignment explanation
Indices: 66462824--66462870 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
66462814 AGAATGTGGT
*
66462824 TCTGGATCTGGCTTTGGCTCCGGC
1 TCTGGATCTGGCTCTGGCTCCGGC
*
66462848 TCTGGCTCTGGCTCTGGCTCCGG
1 TCTGGATCTGGCTCTGGCTCCGG
66462871 TGCATGATGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.32, G:0.34, T:0.32
Consensus pattern (24 bp):
TCTGGATCTGGCTCTGGCTCCGGC
Found at i:66464615 original size:38 final size:38
Alignment explanation
Indices: 66464572--66464653 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
66464562 AAAAAGTCAG
*
66464572 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTA
*
66464610 TTATAATTAAACTTTTAATGAAATGATTTTTAATTTTA
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTA
66464648 TTATAA
1 TTATAA
66464654 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTA
Found at i:66464873 original size:19 final size:19
Alignment explanation
Indices: 66464849--66465351 Score: 136
Period size: 19 Copynumber: 26.2 Consensus size: 19
66464839 ATATCCCCAC
66464849 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
66464868 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
66464884 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
66464898 ATTGCAATATTCATACAAAA
1 ATTACAATATTCATAC-AAA
*
66464918 TTATAATATTCCAATATTCATACAAC
1 --AT--TA---CAATATTCATACAAA
*
66464944 ATTACAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
**
66464964 ATTGTAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
66464983 ATTACAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
66464999 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
* *
66465013 AATGCAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
66465032 ATTATAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
66465049 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
66465067 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* *
66465088 AATATAATATTCATACAAA
1 ATTACAATATTCATACAAA
* *
66465107 ATTACAA-AAT--TACAAT
1 ATTACAATATTCATACAAA
* *
66465123 ATT-C-GTA--CA-AAAAA
1 ATTACAATATTCATACAAA
*
66465137 ATTGCAATATTCATACAAAACTATAA
1 ATTACAATATTCAT-----AC-A-AA
*
66465163 TATTACAGTATTCATACAAAAA
1 -ATTACAATATTCATAC--AAA
*
66465185 ATTTATAATATTCATACAAA
1 A-TTACAATATTCATACAAA
66465205 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
* * *
66465226 ATTACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
66465247 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
66465269 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
*
66465288 ATTACAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
*
66465308 ATTATAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
66465329 ATTTAAAATATTCATACAAA
1 A-TTACAATATTCATACAAA
66465349 ATT
1 ATT
66465352 CTAATCTAAA
Statistics
Matches: 357, Mismatches: 60, Indels: 134
0.65 0.11 0.24
Matches are distributed among these distances:
14 23 0.06
15 7 0.02
16 45 0.13
17 4 0.01
18 12 0.03
19 90 0.25
20 56 0.16
21 39 0.11
22 40 0.11
23 6 0.02
24 4 0.01
25 3 0.01
26 4 0.01
27 24 0.07
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:66464885 original size:27 final size:26
Alignment explanation
Indices: 66464849--66465215 Score: 293
Period size: 27 Copynumber: 15.1 Consensus size: 26
66464839 ATATCCCCAC
66464849 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
66464876 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
66464898 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
* *
66464925 ATTCCAATATTCATACAACATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
66464952 ATT-C-ATA---A-A-AAAATTGTAAT
1 ATTACAATATTCATACAAAATT-AAAT
66464972 ATT-C-------ATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
66464991 ATTACAATATTCATACAAAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
*
66465014 A-TGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
66465040 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
66465067 ATTACAATATTCATACAAAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
66465091 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAT
*
66465115 ATTACAATATTCGTAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
66465137 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
66465164 ATTACAGTATTCATAC-AAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
66465187 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
66465213 ATT
1 ATT
66465216 CATACAAAAA
Statistics
Matches: 285, Mismatches: 17, Indels: 76
0.75 0.04 0.20
Matches are distributed among these distances:
17 1 0.00
18 1 0.00
19 12 0.04
20 13 0.05
21 16 0.06
22 60 0.21
23 19 0.07
24 13 0.05
25 11 0.04
26 18 0.06
27 121 0.42
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.33
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Found at i:66464926 original size:49 final size:49
Alignment explanation
Indices: 66464796--66465215 Score: 392
Period size: 49 Copynumber: 8.7 Consensus size: 49
66464786 AATTAATTAT
* *
66464796 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTACAATATTCATAC--AAAATTATAATATTACAATATTCATAC
*** * *
66464844 -CCCACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* *
66464892 AAAAAAATTGCAATATTCATACAAAATTATAATATTCCAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* * *
66464941 ---AACATTACAATATTCATAAAAAAATTGTAATATT-C-ATA--CA-A-
1 AAAAAAATTACAATATTCAT-ACAAAATTATAATATTACAATATTCATAC
* *
66464982 AATTACAATATTACAATATTCATACAAAA--A-AA-A-TGCAATATTCATAC
1 AA--A-AAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
66465029 AAAATTATAATATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
1 -AAA--A-AA-ATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* * * *
66465083 AAAAAAA-TATAATATTCATACAAAATTACAAAATTACAATATTCGTAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* * *
66465131 AAAAAAATTGCAATATTCATACAAAACTATAATATTACAGTATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
* * *
66465180 AAAAAATTTATAATATTCATACAAAATTACAATATT
1 AAAAAAATTACAATATTCATACAAAATTATAATATT
66465216 CATACAAAAA
Statistics
Matches: 307, Mismatches: 38, Indels: 53
0.77 0.10 0.13
Matches are distributed among these distances:
41 1 0.00
42 3 0.01
43 7 0.02
45 25 0.08
46 24 0.08
47 49 0.16
48 48 0.16
49 127 0.41
50 2 0.01
51 2 0.01
52 2 0.01
53 4 0.01
54 13 0.04
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
Found at i:66464928 original size:115 final size:119
Alignment explanation
Indices: 66464802--66465183 Score: 504
Period size: 115 Copynumber: 3.2 Consensus size: 119
66464792 TTATAAAATA
** * *
66464802 ATTACAATATTCATACAAAAAATTACAATATTACAATATATCCCCACATTACAATATTCATACAA
1 ATTACAATA-TCATAC--AAAATTACAATATTACAATATAT-CAAAAATTATAATATTCATACAA
66464867 AATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAAT
62 AATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAAT
* * *
66464925 ATTCCAATATTCATACAACATTACAATATT-C-ATA-A--AAAAATTGTAATATTCATACAAAAT
1 ATTACAATA-TCATACAAAATTACAATATTACAATATATCAAAAATTATAATATTCATACAAAAT
*
66464985 TACAATATTACAATATTCATACAAAAAAAATGCAATATTCATACAAAATTATAAT
65 TACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAAT
* *
66465040 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAAATATAATATTCATACA
1 ATTACAATA-TCATACAAAATTACAATATTACAATA-T-AT-C-AAAAATTATAATATTCATACA
* * *
66465105 AAATTACAAAATTACAATATTCGTACAAAAAAATTGCAATATTCATACAAAACTATAAT
61 AAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAAT
*
66465164 ATTACAGTATTCATACAAAA
1 ATTACAATA-TCATACAAAA
66465184 AATTTATAAT
Statistics
Matches: 232, Mismatches: 18, Indels: 17
0.87 0.07 0.06
Matches are distributed among these distances:
115 101 0.44
116 1 0.00
117 3 0.01
118 1 0.00
119 3 0.01
120 2 0.01
121 13 0.06
123 15 0.06
124 93 0.40
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (119 bp):
ATTACAATATCATACAAAATTACAATATTACAATATATCAAAAATTATAATATTCATACAAAATT
ACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAAT
Found at i:66465338 original size:22 final size:21
Alignment explanation
Indices: 66465191--66465349 Score: 100
Period size: 21 Copynumber: 7.7 Consensus size: 21
66465181 AAAAATTTAT
*
66465191 AATATTCATAC--AAAATTAC
1 AATATTCATACAAAAAATTAA
*
66465210 AATATTCATACAAAAAATTAC
1 AATATTCATACAAAAAATTAA
* * * * *
66465231 TA-ATCCAAAACTATAAA-TACA
1 AATATTC-ATACAAAAAATTA-A
* * *
66465252 AAT-TTAATTATAAAATAATTAC
1 AATATTCA-TACAAAA-AATTAA
* *
66465274 AATATTCATAC--AACATTAC
1 AATATTCATACAAAAAATTAA
*
66465293 AATATTCATA-AAAAAATTAT
1 AATATTCATACAAAAAATTAA
66465313 AATATTCATACAAAAAATTTAA
1 AATATTCATACAAAAAA-TTAA
66465335 AATATTCATACAAAA
1 AATATTCATACAAAA
66465350 TTCTAATCTA
Statistics
Matches: 107, Mismatches: 20, Indels: 23
0.71 0.13 0.15
Matches are distributed among these distances:
19 26 0.24
20 24 0.22
21 27 0.25
22 25 0.23
23 5 0.05
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (21 bp):
AATATTCATACAAAAAATTAA
Found at i:66465351 original size:20 final size:20
Alignment explanation
Indices: 66465274--66465351 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
66465264 AAATAATTAC
* *
66465274 AATATTCATACAACA-TTAC
1 AATATTCATACAAAATTTAA
* * *
66465293 AATATTCATAAAAAAATTAT
1 AATATTCATACAAAATTTAA
66465313 AATATTCATACAAAAAATTTAA
1 AATATTCATAC--AAAATTTAA
66465335 AATATTCATACAAAATT
1 AATATTCATACAAAATT
66465352 CTAATCTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.26
20 19 0.38
22 18 0.36
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATTCATACAAAATTTAA
Found at i:66465417 original size:122 final size:123
Alignment explanation
Indices: 66465164--66465420 Score: 287
Period size: 122 Copynumber: 2.1 Consensus size: 123
66465154 AAACTATAAT
* *
66465164 ATTACAGTATTCATACAAAAAATTTATAATATTCATACAAAATTACAATATTCATACAAAAAATT
1 ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTAAAATATTCATAC-AAAAATT
* * * * * *
66465229 ACTAATCCAAAACTATAAATACAAATTTAATTATAAAATAATTACAATATTCATACAAC
65 ACTAATCCAAAACTATAAACACAAATATAATAATAAAATAATTACAATATTAATAAAAA
66465288 ATTACAATATTCATA-AAAAAA-TTATAATATTCATACAAAAAATTTAAAATATTCATAC-AAAA
1 ATTACAATATTCATACAAAAAATTTATAATATTCATAC--AAAA-TTAAAATATTCATACAAAAA
* **
66465350 TT-CTAAT-CTAAACTATAAACACTAAATATAGATAAT-TTATAATT--AATAATTAATAAAAA
63 TTACTAATCCAAAACTATAAACAC-AAATATA-ATAATAAAATAATTACAAT-ATTAATAAAAA
66465409 ATTCACAATATT
1 ATT-ACAATATT
66465421 TTCTAAAATA
Statistics
Matches: 115, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
120 3 0.03
121 24 0.21
122 40 0.35
123 16 0.14
124 18 0.16
125 14 0.12
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (123 bp):
ATTACAATATTCATACAAAAAATTTATAATATTCATACAAAATTAAAATATTCATACAAAAATTA
CTAATCCAAAACTATAAACACAAATATAATAATAAAATAATTACAATATTAATAAAAA
Found at i:66465540 original size:14 final size:14
Alignment explanation
Indices: 66465518--66465554 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 14
66465508 TTCTTTCTTT
66465518 CTTCTTCTTCTTCTC
1 CTTC-TCTTCTTCTC
66465533 CTTCTCTTCTTCTC
1 CTTCTCTTCTTCTC
66465547 CTTTCTCT
1 C-TTCTCT
66465555 CTTTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (14 bp):
CTTCTCTTCTTCTC
Found at i:66465557 original size:14 final size:13
Alignment explanation
Indices: 66465516--66465557 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
66465506 TTTTCTTTCT
*
66465516 TTCTTCTTCT-TC
1 TTCTCCTTCTCTC
66465528 TTCTCCTTCTCTTC
1 TTCTCCTTCTC-TC
66465542 TTCTCCTTTCTCTC
1 TTCTCC-TTCTCTC
66465556 TT
1 TT
66465558 TTTTTTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 9 0.35
14 12 0.46
15 5 0.19
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTCCTTCTCTC
Found at i:66465730 original size:13 final size:13
Alignment explanation
Indices: 66465712--66465737 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
66465702 CACCCGACCC
66465712 GACCCGTATTTTT
1 GACCCGTATTTTT
66465725 GACCCGTATTTTT
1 GACCCGTATTTTT
66465738 TTCAAAAAAA
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:0.15, C:0.23, G:0.15, T:0.46
Consensus pattern (13 bp):
GACCCGTATTTTT
Found at i:66465781 original size:16 final size:17
Alignment explanation
Indices: 66465760--66465794 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
66465750 TTAAAAAATA
66465760 TAAAATTATATT-TTAT
1 TAAAATTATATTATTAT
*
66465776 TAAAATTTTATTATTAT
1 TAAAATTATATTATTAT
66465793 TA
1 TA
66465795 TTTTATTCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAAATTATATTATTAT
Found at i:66470675 original size:18 final size:18
Alignment explanation
Indices: 66470652--66470726 Score: 105
Period size: 18 Copynumber: 4.2 Consensus size: 18
66470642 CCCAACTACT
*
66470652 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
66470670 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
* *
66470688 GTATACGTGAATAGTTCT
1 GTATACGTGAATAGTACC
*
66470706 ATATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
66470724 GTA
1 GTA
66470727 AACGGTCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:66473868 original size:15 final size:15
Alignment explanation
Indices: 66473827--66473868 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
66473817 AATCTAATAG
66473827 TAATTATTATT-AAT
1 TAATTATTATTAAAT
66473841 TAATTAGTT-TTAAAT
1 TAATTA-TTATTAAAT
*
66473856 TAATTTTTATTAA
1 TAATTATTATTAA
66473869 GATGACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TAATTATTATTAAAT
Found at i:66474445 original size:20 final size:20
Alignment explanation
Indices: 66474420--66474461 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
66474410 AATCATTTTA
*
66474420 AATTTG-AATAAAAAATTCAT
1 AATTTGTAA-AAAAAAATCAT
66474440 AATTTGTAAAAAAAAATCAT
1 AATTTGTAAAAAAAAATCAT
66474460 AA
1 AA
66474462 AAGCTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (20 bp):
AATTTGTAAAAAAAAATCAT
Found at i:66475914 original size:23 final size:23
Alignment explanation
Indices: 66475871--66475914 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
66475861 GTATGAATTC
*
66475871 ATATTAAATAATAAATTATTTAA
1 ATATTAAATAATAAATAATTTAA
*
66475894 ATATTAATATAA-AAGTAATTT
1 ATATTAA-ATAATAAATAATTT
66475915 TTATTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATTAAATAATAAATAATTTAA
Found at i:66476509 original size:24 final size:24
Alignment explanation
Indices: 66476482--66476533 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
66476472 TTAGTAAGTC
*
66476482 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
66476506 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
66476530 AAAT
1 AAAT
66476534 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:66478480 original size:24 final size:24
Alignment explanation
Indices: 66478453--66478504 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
66478443 TTAGTAAGTC
*
66478453 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* * *
66478477 AAATATATTATACTAATACATACT
1 AAATAAACTATACTAATAAATACT
66478501 AAAT
1 AAAT
66478505 TTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:66480964 original size:17 final size:16
Alignment explanation
Indices: 66480926--66480968 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
66480916 AATTATTATT
66480926 ATTTAT-TTAAATTGTA
1 ATTTATATT-AATTGTA
66480942 ATTTATATTAATTGTA
1 ATTTATATTAATTGTA
*
66480958 CTATTATATTA
1 AT-TTATATTA
66480969 TGGAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (16 bp):
ATTTATATTAATTGTA
Found at i:66482102 original size:39 final size:40
Alignment explanation
Indices: 66482059--66482136 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
66482049 GGAATGCTGG
*
66482059 ATATTGTTTTG-ATTACTG-AGTGAATTGTGAAAATACTGA
1 ATATTGTTATGTA-TACTGCAGTGAATTGTGAAAATACTGA
* * *
66482098 ATATTGTTATGTATATTGCATTGAATTGTGAAATTACTG
1 ATATTGTTATGTATACTGCAGTGAATTGTGAAAATACTG
66482137 GAGTAATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.42
40 19 0.58
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (40 bp):
ATATTGTTATGTATACTGCAGTGAATTGTGAAAATACTGA
Found at i:66489295 original size:21 final size:21
Alignment explanation
Indices: 66489249--66489295 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
66489239 AAAATAATAT
* * *
66489249 AACACAATAAAATTTTATACA
1 AACATAATAAAATATTATAAA
66489270 AACATAATAAAA-ATTATAAA
1 AACATAATAAAATATTATAAA
66489290 ATACAT
1 A-ACAT
66489296 TATTAATATG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.28
Consensus pattern (21 bp):
AACATAATAAAATATTATAAA
Found at i:66497780 original size:41 final size:41
Alignment explanation
Indices: 66497735--66497847 Score: 199
Period size: 41 Copynumber: 2.8 Consensus size: 41
66497725 AGGCTAAGCG
* *
66497735 CCTAGCAGGTTATGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
66497776 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
*
66497817 CCTAGCAGGCTACGTGCCGGTGATCTGAATC
1 CCTAGCAGGCTACGTGCCGGTGATTTGAATC
66497848 AAGCTATAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (41 bp):
CCTAGCAGGCTACGTGCCGGTGATTTGAATCGGGTTATAAA
Found at i:66507954 original size:27 final size:28
Alignment explanation
Indices: 66507899--66507963 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
66507889 TTTTTTTGGT
**
66507899 ATATTTTGGTAAATAAAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAATGGATA
66507927 ATATTTTGGTAAATAAAAAAAA-GGATA
1 ATATTTTGGTAAATAAAAAAAATGGATA
*
66507954 ACATTTTGGT
1 ATATTTTGGT
66507964 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 12 0.35
28 22 0.65
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAATGGATA
Found at i:66509370 original size:22 final size:22
Alignment explanation
Indices: 66509342--66509386 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
66509332 TAACTTTAAA
66509342 GAGAAATTACAAAGAAACCAAG
1 GAGAAATTACAAAGAAACCAAG
*
66509364 GAGAAATTACAAAGAAACTAAG
1 GAGAAATTACAAAGAAACCAAG
66509386 G
1 G
66509387 CTAGTTACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.58, C:0.11, G:0.20, T:0.11
Consensus pattern (22 bp):
GAGAAATTACAAAGAAACCAAG
Found at i:66509453 original size:11 final size:11
Alignment explanation
Indices: 66509437--66509472 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
66509427 CTTTGAAGAT
66509437 GTTTTATACAA
1 GTTTTATACAA
66509448 GTTTTATACAA
1 GTTTTATACAA
66509459 GTTTTATACAA
1 GTTTTATACAA
66509470 GTT
1 GTT
66509473 ATTACATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (11 bp):
GTTTTATACAA
Found at i:66509499 original size:83 final size:83
Alignment explanation
Indices: 66509409--66509693 Score: 218
Period size: 83 Copynumber: 3.3 Consensus size: 83
66509399 AAAAAAACTG
66509409 AACAACTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAAGTTTTATACAAGTTA
1 AACAACTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAAGTTTTATACAAGTTA
66509474 TTACATCAAATGTAAATC
66 TTACATCAAATGTAAATC
* * * *** **** * * * ** *
66509492 AACAACTAATCCTACTAACTTTAAAGA-GAAAT-TACAAAGAAACCAAAGAGAAATTACAAAGAA
1 AACAACTAACCCTACCAACTTTGAAGATGTTTTATAC-AAG---TTTTATACAAGTT----TTAT
* ** *
66509555 ACTAAGGCTAGTTACAT-AGAA-AAAAACTG
58 AC-AA-GTTA-TTACATCA-AATGTAAA-TC
*
66509584 AACAACTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAAGTTTTATACAAGTCA
1 AACAACTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAAGTTTTATACAAGTTA
66509649 TTACATCAAATGTAAATC
66 TTACATCAAATGTAAATC
* *
66509667 AACAACTAATCCTACTAACTTTGAAGA
1 AACAACTAACCCTACCAACTTTGAAGA
66509694 CAAATTACAA
Statistics
Matches: 142, Mismatches: 43, Indels: 34
0.65 0.20 0.16
Matches are distributed among these distances:
81 3 0.02
82 5 0.04
83 58 0.41
84 6 0.04
85 8 0.06
86 3 0.02
89 3 0.02
90 8 0.06
91 7 0.05
92 33 0.23
93 5 0.04
94 3 0.02
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.28
Consensus pattern (83 bp):
AACAACTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAAGTTTTATACAAGTTA
TTACATCAAATGTAAATC
Found at i:66509542 original size:22 final size:22
Alignment explanation
Indices: 66509514--66509556 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
66509504 TACTAACTTT
66509514 AAAGAGAAATTACAAAGAAACC
1 AAAGAGAAATTACAAAGAAACC
66509536 AAAGAGAAATTACAAAGAAAC
1 AAAGAGAAATTACAAAGAAAC
66509557 TAAGGCTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.65, C:0.12, G:0.14, T:0.09
Consensus pattern (22 bp):
AAAGAGAAATTACAAAGAAACC
Found at i:66509575 original size:175 final size:175
Alignment explanation
Indices: 66509284--66509709 Score: 807
Period size: 175 Copynumber: 2.4 Consensus size: 175
66509274 GTTTAGCTTT
*
66509284 GTTTTATACAAGTTATTAGATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
1 GTTTTATACAAGTTATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
*
66509349 TACAAAGAAACCAAGGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
66 TACAAAGAAACCAAAGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
66509414 CTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAA
131 CTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAA
66509459 GTTTTATACAAGTTATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
1 GTTTTATACAAGTTATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
66509524 TACAAAGAAACCAAAGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
66 TACAAAGAAACCAAAGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
66509589 CTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAA
131 CTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAA
* * *
66509634 GTTTTATACAAGTCATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTGAAGACAAAT
1 GTTTTATACAAGTTATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
66509699 TACAAAGAAAC
66 TACAAAGAAAC
66509710 TAAGGCTAGT
Statistics
Matches: 246, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
175 246 1.00
ACGTcount: A:0.47, C:0.16, G:0.10, T:0.27
Consensus pattern (175 bp):
GTTTTATACAAGTTATTACATCAAATGTAAATCAACAACTAATCCTACTAACTTTAAAGAGAAAT
TACAAAGAAACCAAAGAGAAATTACAAAGAAACTAAGGCTAGTTACATAGAAAAAAACTGAACAA
CTAACCCTACCAACTTTGAAGATGTTTTATACAAGTTTTATACAA
Found at i:66509628 original size:11 final size:11
Alignment explanation
Indices: 66509612--66509646 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
66509602 CTTTGAAGAT
66509612 GTTTTATACAA
1 GTTTTATACAA
66509623 GTTTTATACAA
1 GTTTTATACAA
66509634 GTTTTATACAA
1 GTTTTATACAA
66509645 GT
1 GT
66509647 CATTACATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (11 bp):
GTTTTATACAA
Found at i:66533689 original size:27 final size:27
Alignment explanation
Indices: 66533651--66533705 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
66533641 CTAGCTTTTG
66533651 AATATTTGGATGGCTATTGACAGTTTC
1 AATATTTGGATGGCTATTGACAGTTTC
*
66533678 AATATTTGGATGGCTATTGAGAGTTTC
1 AATATTTGGATGGCTATTGACAGTTTC
66533705 A
1 A
66533706 TTTCCAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (27 bp):
AATATTTGGATGGCTATTGACAGTTTC
Found at i:66550231 original size:20 final size:20
Alignment explanation
Indices: 66550206--66550250 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
66550196 GAACCAGACT
*
66550206 GAACCGGGCAGTCAGACTGG
1 GAACCGGGCAGTCAGACCGG
* *
66550226 GAACCGGGCGGTCGGACCGG
1 GAACCGGGCAGTCAGACCGG
66550246 GAACC
1 GAACC
66550251 AGCCAGGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.29, G:0.42, T:0.07
Consensus pattern (20 bp):
GAACCGGGCAGTCAGACCGG
Found at i:66550323 original size:11 final size:12
Alignment explanation
Indices: 66550297--66550325 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
66550287 ATTGAACCGG
66550297 ATTTTTTAAAAT
1 ATTTTTTAAAAT
66550309 ATTTTTTAAAA-
1 ATTTTTTAAAAT
66550320 ATTTTT
1 ATTTTT
66550326 AATGATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTTTTTAAAAT
Found at i:66563071 original size:31 final size:31
Alignment explanation
Indices: 66563036--66563101 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
66563026 CAACATAGTT
* *
66563036 ATTGAATTATTCGAATTTTTTTATTTAAGTC
1 ATTGAATTATTCGAAATTTTTCATTTAAGTC
*
66563067 ATTGAATTATTTGAAATTTTTCATTTAAGTC
1 ATTGAATTATTCGAAATTTTTCATTTAAGTC
66563098 ATTG
1 ATTG
66563102 GACTGTTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.30, C:0.06, G:0.11, T:0.53
Consensus pattern (31 bp):
ATTGAATTATTCGAAATTTTTCATTTAAGTC
Found at i:66564706 original size:23 final size:23
Alignment explanation
Indices: 66564675--66564728 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
66564665 AATTTTTAAA
66564675 TTTT-TTTAA-AA-TATTTATAT
1 TTTTATTTAATAATTATTTATAT
66564695 TATATTATTTAATAATTATTTATAT
1 T-T-TTATTTAATAATTATTTATAT
66564720 TTTTATTTA
1 TTTTATTTA
66564729 TTGAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.03
21 1 0.03
22 2 0.07
23 12 0.41
24 3 0.10
25 10 0.34
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTTATTTAATAATTATTTATAT
Found at i:66572435 original size:11 final size:11
Alignment explanation
Indices: 66572419--66572449 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
66572409 TAACCCATAC
66572419 CCCATACCTTG
1 CCCATACCTTG
*
66572430 CCCATACCTTT
1 CCCATACCTTG
66572441 CCCATACCT
1 CCCATACCT
66572450 ACCATAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.19, C:0.48, G:0.03, T:0.29
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:66575492 original size:21 final size:21
Alignment explanation
Indices: 66575442--66575493 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
66575432 AGGAGGCTTC
* *
66575442 AAAGAAGGAAGAATAGACGTG
1 AAAGAAGGGAGAAGAGACGTG
66575463 AAAGAAGGGAGAAGAGACGTG
1 AAAGAAGGGAGAAGAGACGTG
*
66575484 AACGAAGGGA
1 AAAGAAGGGA
66575494 CATAATTGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.50, C:0.06, G:0.38, T:0.06
Consensus pattern (21 bp):
AAAGAAGGGAGAAGAGACGTG
Found at i:66594367 original size:14 final size:13
Alignment explanation
Indices: 66594327--66594377 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
66594317 CAAAGTATAT
*
66594327 TATTATTTTATTA
1 TATTATTATATTA
* *
66594340 TATT-GTAAATTA
1 TATTATTATATTA
66594352 TATTAATTATATTA
1 TATT-ATTATATTA
66594366 TATTATTATATT
1 TATTATTATATT
66594378 TCAAATAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
12 9 0.29
13 12 0.39
14 10 0.32
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (13 bp):
TATTATTATATTA
Found at i:66602554 original size:16 final size:16
Alignment explanation
Indices: 66602535--66602587 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
66602525 ATAAATATAT
66602535 ATATAATAATTATTTA
1 ATATAATAATTATTTA
*
66602551 ATAT-AT-A-TAATTA
1 ATATAATAATTATTTA
66602564 ATATAATAATT-TTATA
1 ATATAATAATTATT-TA
66602580 ATATAATA
1 ATATAATA
66602588 TAGTTGGGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
13 9 0.29
14 3 0.10
15 4 0.13
16 15 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAATAATTATTTA
Found at i:66602573 original size:29 final size:32
Alignment explanation
Indices: 66602512--66602589 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 32
66602502 TAGGTTAGTG
66602512 ATTTAATATAAGTATAAATATATATATAATAATT
1 ATTTAATATAA-TAT-AATATATATATAATAATT
66602546 ATTTAATAT-ATATAAT-TA-ATATAATAATT
1 ATTTAATATAATATAATATATATATAATAATT
66602575 -TTATAATATAATATA
1 ATT-TAATATAATATA
66602590 GTTGGGCTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
28 2 0.05
29 17 0.40
30 7 0.17
31 3 0.07
32 3 0.07
33 1 0.02
34 9 0.21
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (32 bp):
ATTTAATATAATATAATATATATATAATAATT
Found at i:66608489 original size:29 final size:31
Alignment explanation
Indices: 66608424--66608497 Score: 98
Period size: 29 Copynumber: 2.5 Consensus size: 31
66608414 ACTATAAAAA
* **
66608424 TAGTCACTTTTGTTTGATTTAGATTACATTT
1 TAGTCACTTATGTTTGAAATAGATTACATTT
*
66608455 TAGTCACTTATGTTTGAAAT-G-TTACGTTT
1 TAGTCACTTATGTTTGAAATAGATTACATTT
66608484 TAGTCACTTATGTT
1 TAGTCACTTATGTT
66608498 ATCATTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 21 0.54
30 1 0.03
31 17 0.44
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (31 bp):
TAGTCACTTATGTTTGAAATAGATTACATTT
Found at i:66609331 original size:7 final size:7
Alignment explanation
Indices: 66609319--66609348 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
66609309 ATCATTTGAT
66609319 GAATCTG
1 GAATCTG
66609326 GAATCTG
1 GAATCTG
66609333 GAATCTG
1 GAATCTG
66609340 GAATCTG
1 GAATCTG
66609347 GA
1 GA
66609349 TCAAGTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (7 bp):
GAATCTG
Found at i:66610488 original size:16 final size:17
Alignment explanation
Indices: 66610454--66610488 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
66610444 CCAGAATTTA
*
66610454 TTGAAATTTTATTATAT
1 TTGAAATTTTAATATAT
66610471 TTGAAATTTTAATA-AT
1 TTGAAATTTTAATATAT
66610487 TT
1 TT
66610489 TTTAACCAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
TTGAAATTTTAATATAT
Done.