Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 116 of 345
Found at i:30956054 original size:44 final size:44
Alignment explanation
Indices: 30955930--30956277 Score: 140
Period size: 44 Copynumber: 7.8 Consensus size: 44
30955920 AGGACTTGTT
* * * *
30955930 GCTTTAATCCGCTCCACTGCAACTTCATGGAGATAGGATTAGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTA
* * * *
30955974 GCTTCAATCTACTCCGCTGCAACTTCAGGAAGATAAGATTGGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTA
* * * * *
30956018 TCTTCAGTCTGCTCCACTGTATCTTCAGGGACATAAGACTTGTAATGGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A--GTA
* ** * * * * * * * *
30956068 GATTTGATCCGAC-CTACTGCAATTTCAAAGG-TATAGGACTCA-TC
1 GCTTCAATCTG-CTCCACTGCAACTTC-AGGGAGATAAGA-TTAGTA
* * * * *
30956112 GTTTTAATCTGCTCCACTACAACTTCAGAGAGATAGGATTAGCT-
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAG-TA
* * * *
30956156 GTCTTCAGTCTGCTCCACTGTAATTTCAAGGAGATAAGACTT-G-A
1 G-CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTAGTA
* * * * *
30956200 ACTTCAACCTGTTCCACTGCTACTTCAGGGAGATAAGGTT--T-
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTA
* * *
30956241 GCTAT-GATCTGCTCTACTGCAACTTCAGAGAGATAAG
1 GCT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAG
30956278 GTCTGTTTAT
Statistics
Matches: 219, Mismatches: 68, Indels: 37
0.68 0.21 0.11
Matches are distributed among these distances:
41 28 0.13
42 3 0.01
43 34 0.16
44 92 0.42
45 30 0.14
46 3 0.01
47 2 0.01
49 1 0.00
50 22 0.10
51 4 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTA
Found at i:30956218 original size:182 final size:182
Alignment explanation
Indices: 30955892--30956236 Score: 423
Period size: 182 Copynumber: 1.9 Consensus size: 182
30955882 TTTAGGTTTA
* ** * *
30955892 ATCCGACCTACTGCAACTTCAGAGGCATAGGACTTGTTGCTTTAATCCGCTCCACTGCAACTTCA
1 ATCCGACCTACTGCAACTTCAAAGGCATAGGACTCATCGCTTTAATCCGCTCCACTACAACTTCA
* *
30955957 TGGAGATAGGATTAGTAGCTTCAATCTACTCCGCTGCAACTTCAGGAAGATAAGATTGGTATCTT
66 TGGAGATAGGATTAGTAGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTGGTAACTT
**
30956022 CAGTCTGCTCCACTG-TATCTTCAGGGACATAAGACTTGTAATGGTAGATTTG
131 CAACCTGCTCCACTGCTA-CTTCAGGGACATAAGACTTGTAATGGTAGATTTG
* * * *
30956074 ATCCGACCTACTGCAATTTCAAAGGTATAGGACTCATCGTTTTAATCTGCTCCACTACAACTTCA
1 ATCCGACCTACTGCAACTTCAAAGGCATAGGACTCATCGCTTTAATCCGCTCCACTACAACTTCA
* * * *
30956139 -GAGAGATAGGATTAGCT-GTCTTCAGTCTGCTCCACTGTAATTTCAAGG-AGATAAGACTT-G-
66 TG-GAGATAGGATTAG-TAG-CTTCAATCTACTCCACTGCAACTTC-AGGAAGATAAGA-TTGGT
* *
30956199 AACTTCAACCTGTTCCACTGCTACTTCAGGGAGATAAG
126 AACTTCAACCTGCTCCACTGCTACTTCAGGGACATAAG
30956237 GTTTGCTATG
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
181 1 0.01
182 100 0.72
183 32 0.23
184 5 0.04
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (182 bp):
ATCCGACCTACTGCAACTTCAAAGGCATAGGACTCATCGCTTTAATCCGCTCCACTACAACTTCA
TGGAGATAGGATTAGTAGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAAGATTGGTAACTT
CAACCTGCTCCACTGCTACTTCAGGGACATAAGACTTGTAATGGTAGATTTG
Found at i:30956552 original size:44 final size:44
Alignment explanation
Indices: 30956494--30956638 Score: 227
Period size: 44 Copynumber: 3.3 Consensus size: 44
30956484 CCACTACTGT
*
30956494 TCAGGGAGACAAGGCTAGTGGCTTCAGCCTGCTCCCTTGCTACC
1 TCAGGGAGATAAGGCTAGTGGCTTCAGCCTGCTCCCTTGCTACC
*
30956538 TCAGGGAGATAAGGCTAGTGGCTTCAGCATGCTCCCTTGCTACC
1 TCAGGGAGATAAGGCTAGTGGCTTCAGCCTGCTCCCTTGCTACC
** **
30956582 TCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCTTGCTACC
1 TCAGGGAGATAAGGCTAGTGGCTTCAGCCTGCTCCCTTGCTACC
*
30956626 TTAGGGAGATAAG
1 TCAGGGAGATAAG
30956639 ATTCACCGTC
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 93 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.24
Consensus pattern (44 bp):
TCAGGGAGATAAGGCTAGTGGCTTCAGCCTGCTCCCTTGCTACC
Found at i:30956673 original size:88 final size:86
Alignment explanation
Indices: 30956472--30956682 Score: 208
Period size: 88 Copynumber: 2.4 Consensus size: 86
30956462 GATTTGCAAT
** * * ** *
30956472 CTTCAGCCTGCTCCACTACTGTTCAGGGAGACAAGGCTAGTGGCTTCAGCCTGCTCCCTTGCTAC
1 CTTCAG-CTGCTCCACTGTTGCTCAGGGAGATAAGGCTAGTGGCTAAAACCTGCTCCCTTGCTAC
* **
30956537 CTCAGGGAGATAAGGCTAGTGG
65 CTCAGGGAGATAAGACTACCGG
** *
30956559 CTTCAGCATGCTCC-CTTGCTACCTCAGGGAGATAAGGCTAGTGGCTAAAATCTGCTCCCTTGCT
1 CTTCAGC-TGCTCCAC-TG-TTGCTCAGGGAGATAAGGCTAGTGGCTAAAACCTGCTCCCTTGCT
* * *
30956623 ACCTTAGGGAGATAAGATTCACCGT
63 ACCTCAGGGAGATAAGACT-ACCGG
*
30956648 CTTCGATCTGCTCCACTGTTGCTCAGGGAGATAAG
1 CTTC-AGCTGCTCCACTGTTGCTCAGGGAGATAAG
30956683 ATCTACAATC
Statistics
Matches: 99, Mismatches: 19, Indels: 11
0.77 0.15 0.09
Matches are distributed among these distances:
86 2 0.02
87 13 0.13
88 67 0.68
89 14 0.14
90 3 0.03
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.26
Consensus pattern (86 bp):
CTTCAGCTGCTCCACTGTTGCTCAGGGAGATAAGGCTAGTGGCTAAAACCTGCTCCCTTGCTACC
TCAGGGAGATAAGACTACCGG
Found at i:30956695 original size:44 final size:44
Alignment explanation
Indices: 30956625--30956860 Score: 187
Period size: 44 Copynumber: 5.4 Consensus size: 44
30956615 CCCTTGCTAC
** **
30956625 CTTAGGGAGATAAGAT-TCACCGTCTTCGATCTGCTCCACTGTTG
1 CTTAGGGAGATAAGATCT-ACAATCTTCGATCTGCTCCACTACTG
* * *
30956669 CTCAGGGAGATAAGATCTACAATCTTC-AGCCTACTCCACTACTG
1 CTTAGGGAGATAAGATCTACAATCTTCGA-TCTGCTCCACTACTG
* * ** ** *
30956713 CTTAGGGAGATAGGATGGT---GGCTTAAATCTGCTCCACTAATG
1 CTTAGGGAGATAAGAT-CTACAATCTTCGATCTGCTCCACTACTG
* * * *
30956755 CTTAGGAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTG
1 CTTAGGGAGATAAGATCTACAATCTTCGATCTGCTCCACTACTG
* * * *
30956799 CTTAGGGAGACAAGATCTACAATTTTC-AGCCTACTCCACTACTG
1 CTTAGGGAGATAAGATCTACAATCTTCGA-TCTGCTCCACTACTG
*
30956843 CTTAGGAAGATAAGATCT
1 CTTAGGGAGATAAGATCT
30956861 GTGAATTTAC
Statistics
Matches: 150, Mismatches: 34, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
41 1 0.01
42 29 0.19
43 3 0.02
44 115 0.77
45 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTAGGGAGATAAGATCTACAATCTTCGATCTGCTCCACTACTG
Found at i:30963568 original size:3 final size:3
Alignment explanation
Indices: 30963560--30963935 Score: 254
Period size: 3 Copynumber: 127.0 Consensus size: 3
30963550 ACAAAATGAC
* * * * * * *
30963560 AAT AAT AAT AAT AGT AAA AAA AAT AAT AGT AAT AAC AAT TAT TAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * ** *
30963608 AAT AAGG AAA AAT AAT AAT AGT AAA AAT AAT AAT AAT GGT AAT AGT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
30963654 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
30963702 AAT AAT AAT AAT AA- AAC AGAG AAA AAC AA- CAT AAT AAT AGT AGT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* *
30963746 AAT AAT AAT AAT -AT TAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
30963793 -AT AA- AATT AAT GAT -AT AAT AAT -GT AAT AGT AAT AAT AAG CA-
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** *
30963834 AAT AAGT -AT AAA AAT AA- ATAT AAT CAT AAT AAT AAT AGT TGT AGT
1 AAT AA-T AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
30963879 AAT AAT AAT AAT AGT AAG AAT AAT AAT GAT AGT AA- AATT AATT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AA-T AAT
*
30963925 -TT AAT AAT AAT
1 AAT AAT AAT AAT
30963936 GTAGCTAAAA
Statistics
Matches: 296, Mismatches: 59, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
2 18 0.06
3 264 0.89
4 14 0.05
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:30965077 original size:2 final size:2
Alignment explanation
Indices: 30965070--30965104 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30965060 CATAACAATG
30965070 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30965105 CAATATACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30966669 original size:32 final size:33
Alignment explanation
Indices: 30966633--30966697 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
30966623 TCAATTAAAC
* *
30966633 CATTTTGAAGTTTAAAG-TCAATTTAATTCGAA
1 CATTTTGAAATTTAAAGTTCAATTTAAGTCGAA
*
30966665 CATTTTGAAATTTGAAGTTCAATTTAAGTCGAA
1 CATTTTGAAATTTAAAGTTCAATTTAAGTCGAA
30966698 GATATTTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (33 bp):
CATTTTGAAATTTAAAGTTCAATTTAAGTCGAA
Found at i:30971319 original size:2 final size:2
Alignment explanation
Indices: 30971312--30971340 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30971302 GTATGGTAAG
30971312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30971341 GAAGTTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30971689 original size:17 final size:19
Alignment explanation
Indices: 30971637--30971675 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30971627 ACCACTGCAG
30971637 CTACATATTATATATAAAA
1 CTACATATTATATATAAAA
30971656 CTACATATTATATATAAAA
1 CTACATATTATATATAAAA
30971675 C
1 C
30971676 AGTTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (19 bp):
CTACATATTATATATAAAA
Found at i:30981122 original size:19 final size:19
Alignment explanation
Indices: 30981098--30981135 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30981088 GAAATGAATA
*
30981098 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
30981117 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
30981136 GCAATCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:30981411 original size:2 final size:2
Alignment explanation
Indices: 30981404--30981439 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30981394 GTAGCTAAAT
30981404 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30981440 CACATAAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30984035 original size:30 final size:30
Alignment explanation
Indices: 30984001--30984094 Score: 77
Period size: 32 Copynumber: 3.0 Consensus size: 30
30983991 TGGGGTCTAA
*
30984001 TTAAAATTATT-GTGAGATTAATGAAAATTT
1 TTAAAATT-TTAGAGAGATTAATGAAAATTT
* *
30984031 TTAAAAATTTTAAGAGAGCTTAATTAAAATTT
1 TT-AAAATTTT-AGAGAGATTAATGAAAATTT
*
30984063 TCTAAAATTTTCAAGGGAGA--AATGAAAATTT
1 T-TAAAATTTT--AGAGAGATTAATGAAAATTT
30984094 T
1 T
30984095 CCAAATATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
30 4 0.08
31 17 0.32
32 25 0.47
33 7 0.13
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (30 bp):
TTAAAATTTTAGAGAGATTAATGAAAATTT
Found at i:30984094 original size:31 final size:31
Alignment explanation
Indices: 30984020--30984105 Score: 86
Period size: 32 Copynumber: 2.7 Consensus size: 31
30984010 TTGTGAGATT
*
30984020 AATGAAAATTTT-TAAAAATTTTAAGAGAGCTT
1 AATGAAAATTTTCT-AAAATTTTAAGAGAGC-A
* *
30984052 AATTAAAATTTTCTAAAATTTTCAAGGGAG-A
1 AATGAAAATTTTCTAAAATTTT-AAGAGAGCA
*
30984083 AATGAAAATTTTCCAAATATTTT
1 AATGAAAATTTTCTAAA-ATTTT
30984106 TTGGGCACCA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
31 15 0.33
32 24 0.52
33 7 0.15
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.38
Consensus pattern (31 bp):
AATGAAAATTTTCTAAAATTTTAAGAGAGCA
Found at i:30985053 original size:94 final size:94
Alignment explanation
Indices: 30984896--30985082 Score: 263
Period size: 94 Copynumber: 2.0 Consensus size: 94
30984886 ACATATGTAA
* *
30984896 GTATGTATGTAAATACAGGTTCCATAGATCTCAGACATTTAGTATAATGTTGTTGTTCCATACAT
1 GTATGTATGTAAATACAGGTTCCATAGATCTCAGACATTCAGTATAATGCTGTTGTTCCATACAT
*
30984961 TCTTGAGGTCTTATGCAACTTGCAAATAT
66 TCTTGAGGTCTTATGCAACTTACAAATAT
* * * *
30984990 GTATGTATGTAATTGA-AGGTTTCATAGGTC-CAATACATTCAGTATAATGCTGTT-TTCCCATA
1 GTATGTATGTAAAT-ACAGGTTCCATAGATCTC-AGACATTCAGTATAATGCTGTTGTT-CCATA
30985052 CATTCTTGAGGTCTTATGCAACTTACAAATA
63 CATTCTTGAGGTCTTATGCAACTTACAAATA
30985083 CTTCTAGATA
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
93 3 0.04
94 79 0.95
95 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (94 bp):
GTATGTATGTAAATACAGGTTCCATAGATCTCAGACATTCAGTATAATGCTGTTGTTCCATACAT
TCTTGAGGTCTTATGCAACTTACAAATAT
Found at i:30985427 original size:92 final size:92
Alignment explanation
Indices: 30985329--30985508 Score: 272
Period size: 92 Copynumber: 2.0 Consensus size: 92
30985319 GCTTGCTTCT
* *
30985329 ATATATGCGTGTAAATGAA-GATTTCATAAGTCCCATACATTTAGTATAATGCTATTTTCCCATA
1 ATATATGCGTGTAAATGAATG-TTTCATAAGTCCCAAACATTTAGCATAATGCTATTTTCCCATA
*
30985393 CATTCTTGAGGTCTTATGCAACTTGCAA
65 CATTCTTGAGGTCTTATGAAACTTGCAA
* * ** *
30985421 ATATATGCTTGTAAATGAATGTTTCATAGGTCCCAAACATTTAGCATGGTGCTATTTTCCCGTAC
1 ATATATGCGTGTAAATGAATGTTTCATAAGTCCCAAACATTTAGCATAATGCTATTTTCCCATAC
30985486 ATTCTTGAGGTCTTATGAAACTT
66 ATTCTTGAGGTCTTATGAAACTT
30985509 AAAAATACTT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 78 0.99
93 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (92 bp):
ATATATGCGTGTAAATGAATGTTTCATAAGTCCCAAACATTTAGCATAATGCTATTTTCCCATAC
ATTCTTGAGGTCTTATGAAACTTGCAA
Found at i:30985527 original size:2 final size:2
Alignment explanation
Indices: 30985520--30985556 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30985510 AAAATACTTT
30985520 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
30985557 GCATGCATGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30987972 original size:2 final size:2
Alignment explanation
Indices: 30987965--30988001 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
30987955 TCAAACAAGA
30987965 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
30988002 ATTGTTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:30991985 original size:31 final size:31
Alignment explanation
Indices: 30991928--30991986 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
30991918 ATGACAAGTA
** *
30991928 AAAAGCGGTAGCTTCGGTTACTTGATCAGTG
1 AAAAGCGGTAGCTTCGACTACCTGATCAGTG
*
30991959 AAAAGTGGTAGCTTCGACTACCTGATCA
1 AAAAGCGGTAGCTTCGACTACCTGATCA
30991987 TCGGCTACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAAGCGGTAGCTTCGACTACCTGATCAGTG
Found at i:30991998 original size:46 final size:46
Alignment explanation
Indices: 30991941--30992030 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
30991931 AGCGGTAGCT
* * * *
30991941 TCGGTTACTTGATCAGTGAAAAGTGGTAGCTTCGACTACCTGATCA
1 TCGGCTACTTGATCAATGAAAAATGGTAGCTCCGACTACCTGATCA
*
30991987 TCGGCTACTTGATCAATGAAAAATGGTAGCTCCGGCTACCTGAT
1 TCGGCTACTTGATCAATGAAAAATGGTAGCTCCGACTACCTGAT
30992031 TAGTGAATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (46 bp):
TCGGCTACTTGATCAATGAAAAATGGTAGCTCCGACTACCTGATCA
Found at i:30992717 original size:28 final size:28
Alignment explanation
Indices: 30992685--30992743 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
30992675 AGTTAGTGAA
30992685 TTGCATATTTATGAATTGTTACAAGTAT
1 TTGCATATTTATGAATTGTTACAAGTAT
*
30992713 TTGCATATTTATGAATTGTTACACGTAT
1 TTGCATATTTATGAATTGTTACAAGTAT
30992741 TTG
1 TTG
30992744 TCTGAAATAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.47
Consensus pattern (28 bp):
TTGCATATTTATGAATTGTTACAAGTAT
Found at i:30995681 original size:23 final size:22
Alignment explanation
Indices: 30995655--30995704 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 22
30995645 TTATGCAATG
*
30995655 AAAAACTTGAATAATATTATTTT
1 AAAAACCTGAATAATATT-TTTT
30995678 AAAAACCTGAATAATATTTTTT
1 AAAAACCTGAATAATATTTTTT
30995700 AAAAA
1 AAAAA
30995705 TATATGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAAACCTGAATAATATTTTTT
Found at i:31000226 original size:42 final size:42
Alignment explanation
Indices: 31000172--31000260 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
31000162 AGCGTATTGA
* *
31000172 GGTGGTGGTTGATACAACATAGATGGATATGGATGTTGATTT
1 GGTGGCGGTTGATACAACATAGATGGATATGGATCTTGATTT
* * *
31000214 GGTGGCGGTTGATACGACGTAGGTGGATATGGATCTTGATTT
1 GGTGGCGGTTGATACAACATAGATGGATATGGATCTTGATTT
31000256 GGTGG
1 GGTGG
31000261 TGGCGGGTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.21, C:0.07, G:0.38, T:0.34
Consensus pattern (42 bp):
GGTGGCGGTTGATACAACATAGATGGATATGGATCTTGATTT
Found at i:31000907 original size:31 final size:30
Alignment explanation
Indices: 31000872--31000931 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
31000862 TTACAAAATG
31000872 GTCACTAAACTATTTCAAAATTTTTATTTAA
1 GTCACTAAACTATTTCAAAATTTTT-TTTAA
* * *
31000903 GTCACTAAATTATTTGAAAGTTTTTTTTA
1 GTCACTAAACTATTTCAAAATTTTTTTTA
31000932 GAAAAAGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (30 bp):
GTCACTAAACTATTTCAAAATTTTTTTTAA
Found at i:31009164 original size:15 final size:16
Alignment explanation
Indices: 31009136--31009165 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
31009126 TAATATTAAA
31009136 TTATTTTAAAATTTTT
1 TTATTTTAAAATTTTT
31009152 TTATTTT-AAATTTT
1 TTATTTTAAAATTTT
31009166 AAATAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAAAATTTTT
Found at i:31009384 original size:19 final size:20
Alignment explanation
Indices: 31009360--31009398 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
31009350 TCCCATTATT
31009360 TATTTATTTAT-TGTTTTAA
1 TATTTATTTATATGTTTTAA
*
31009379 TATTTATTTTTATGTTTTAA
1 TATTTATTTATATGTTTTAA
31009399 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (20 bp):
TATTTATTTATATGTTTTAA
Found at i:31009386 original size:23 final size:23
Alignment explanation
Indices: 31009356--31009414 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 23
31009346 TTAGTCCCAT
31009356 TATTTATTTATTTATTGTTTTAA
1 TATTTATTTATTTATTGTTTTAA
31009379 TATTTA-TT-TTTA-TGTTTTAA
1 TATTTATTTATTTATTGTTTTAA
*
31009399 -ATGTATTTGATTTATT
1 TATTTATTT-ATTTATT
31009415 ATATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
19 4 0.13
20 10 0.32
21 4 0.13
22 6 0.19
23 7 0.23
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (23 bp):
TATTTATTTATTTATTGTTTTAA
Found at i:31009422 original size:25 final size:23
Alignment explanation
Indices: 31009379--31009424 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
31009369 ATTGTTTTAA
*
31009379 TATTTATTTTTATGTTTTAAATG
1 TATTTATTTTTATATTTTAAATG
31009402 TATTTGATTTATTATATTTTAAA
1 TATTT-ATTT-TTATATTTTAAA
31009425 GTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (23 bp):
TATTTATTTTTATATTTTAAATG
Found at i:31019155 original size:13 final size:13
Alignment explanation
Indices: 31019137--31019163 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31019127 TGAAAAAATA
31019137 TTTTATTTATATT
1 TTTTATTTATATT
31019150 TTTTATTTATATT
1 TTTTATTTATATT
31019163 T
1 T
31019164 GAAAGGTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTATTTATATT
Found at i:31023469 original size:16 final size:16
Alignment explanation
Indices: 31023438--31023474 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
31023428 ATGTGATGAA
31023438 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
31023454 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
31023470 TATTA
1 TATTA
31023475 AATAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:31024638 original size:19 final size:18
Alignment explanation
Indices: 31024606--31024641 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
31024596 AAAAAAGTCA
*
31024606 TAAAAAAGTTCATAAAAT
1 TAAAAAAGTGCATAAAAT
31024624 TAAAAAAGTAGCATAAAA
1 TAAAAAAGT-GCATAAAA
31024642 CACGCGCAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.64, C:0.06, G:0.08, T:0.22
Consensus pattern (18 bp):
TAAAAAAGTGCATAAAAT
Found at i:31025230 original size:21 final size:21
Alignment explanation
Indices: 31025204--31025246 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
31025194 GTTCATCTCA
*
31025204 AGGATTTTGAATCACTATGGG
1 AGGATTTTGAACCACTATGGG
*
31025225 AGGATTTTGAACCATTATGGG
1 AGGATTTTGAACCACTATGGG
31025246 A
1 A
31025247 CATAGGCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.28, T:0.33
Consensus pattern (21 bp):
AGGATTTTGAACCACTATGGG
Found at i:31028555 original size:28 final size:28
Alignment explanation
Indices: 31028515--31028568 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
31028505 TCTTTCCTTC
31028515 ATTTTCTAATATTATTAGATTATTCTTT
1 ATTTTCTAATATTATTAGATTATTCTTT
31028543 ATTTTCTAATATTATTAGATTATTCT
1 ATTTTCTAATATTATTAGATTATTCT
31028569 ATAAAGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (28 bp):
ATTTTCTAATATTATTAGATTATTCTTT
Found at i:31030728 original size:17 final size:16
Alignment explanation
Indices: 31030697--31030744 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
31030687 TTATATTTGG
*
31030697 TTTTTTT-AGATTAAT
1 TTTTTTTAAAATTAAT
31030712 TTTTATTTAAAATTAA-
1 TTTT-TTTAAAATTAAT
31030728 TTTTTTTAAAATATAAT
1 TTTTTTTAAAAT-TAAT
31030745 ACACTAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 12 0.43
16 10 0.36
17 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTTTTTAAAATTAAT
Found at i:31030992 original size:24 final size:25
Alignment explanation
Indices: 31030949--31031001 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
31030939 TGGATTAGTG
*
31030949 ATTTAATATAAATACATAAT-TATT
1 ATTTAATATAAATACATAATATAAT
*
31030973 ATTTAATATATATA-ATTAATATAAT
1 ATTTAATATAAATACA-TAATATAAT
31030998 ATTT
1 ATTT
31031002 TTTTATAGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 17 0.68
25 7 0.28
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (25 bp):
ATTTAATATAAATACATAATATAAT
Found at i:31038045 original size:43 final size:43
Alignment explanation
Indices: 31037984--31038218 Score: 337
Period size: 43 Copynumber: 5.5 Consensus size: 43
31037974 TTTATTTAAA
* *
31037984 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGACGCTTTTCCCAC
**
31038027 AAACGCCGCTAAAGGTCATGGCCTTTAGCGACGCTTTTATCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGACGCTTTTCCCAC
** *
31038070 AAACGCCGCTAAAGAACATGGCCTTTAGCTG-CGCTTTTCCCAA
1 AAACGCCGCTAAAGGTCATGGCCTTTAGC-GACGCTTTTCCCAC
**
31038113 AAACGCCGCTAAAGGTCATGGCCTTTAGCGACGCTTTTATCAC
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGACGCTTTTCCCAC
** * *
31038156 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCCCAA
1 AAACGCCGCTAAAGGTCATGGCCTTTAGCGACGCTTTTCCCAC
31038199 AAACGCCGCTAAAGGTCATG
1 AAACGCCGCTAAAGGTCATG
31038219 AAATTTAAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
42 1 0.01
43 166 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGGCCTTTAGCGACGCTTTTCCCAC
Found at i:31038080 original size:86 final size:86
Alignment explanation
Indices: 31037984--31038218 Score: 407
Period size: 86 Copynumber: 2.7 Consensus size: 86
31037974 TTTATTTAAA
** * *
31037984 AAACGCCGCTAAAGGTCATGGCCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGGTCATGGC
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGTCATGGC
31038049 CTTTAGCGACGCTTTTATCAC
66 CTTTAGCGACGCTTTTATCAC
*
31038070 AAACGCCGCTAAAGAACATGGCCTTTAGCTGCGCTTTTCCCAAAAACGCCGCTAAAGGTCATGGC
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGTCATGGC
31038135 CTTTAGCGACGCTTTTATCAC
66 CTTTAGCGACGCTTTTATCAC
* *
31038156 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAGGTCATG
1 AAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGTCATG
31038219 AAATTTAAAA
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 141 1.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGGCCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGGTCATGGC
CTTTAGCGACGCTTTTATCAC
Found at i:31038423 original size:31 final size:31
Alignment explanation
Indices: 31038351--31038423 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
31038341 TTATCTAATA
31038351 AAAATAAA-AATAAAAATATAGCATCAAAACT
1 AAAATAAATAATAAAAATATAGCATCAAAA-T
*
31038382 AAAATAAATAATAAAAAT-TAG-ATTAAATAT
1 AAAATAAATAATAAAAATATAGCATCAAA-AT
31038412 AAATATAAATAA
1 AAA-ATAAATAA
31038424 AATACAGCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
30 9 0.24
31 20 0.53
32 9 0.24
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (31 bp):
AAAATAAATAATAAAAATATAGCATCAAAAT
Found at i:31043008 original size:19 final size:19
Alignment explanation
Indices: 31042964--31043004 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
31042954 TCATTATCTC
31042964 TTAAATAATTTAAACTATA
1 TTAAATAATTTAAACTATA
*
31042983 TT-AATAATTTTAA-TATA
1 TTAAATAATTTAAACTATA
31043000 TTAAA
1 TTAAA
31043005 ATAAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 12 0.60
19 2 0.10
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAAATAATTTAAACTATA
Found at i:31043430 original size:14 final size:14
Alignment explanation
Indices: 31043392--31043430 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
31043382 GTAAAATAAA
*
31043392 AAACCATAAACTCT
1 AAACCATAAACCCT
*
31043406 AAATCATAAACCCT
1 AAACCATAAACCCT
*
31043420 AAACCAAAAAC
1 AAACCATAAAC
31043431 AATAAACATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCATAAACCCT
Found at i:31043568 original size:7 final size:7
Alignment explanation
Indices: 31043553--31043604 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
31043543 CCCTCAACTT
31043553 TAAACCA
1 TAAACCA
*
31043560 TAAAACA
1 TAAACCA
31043567 TAAACCA
1 TAAACCA
*
31043574 TAAACCC
1 TAAACCA
* *
31043581 TTAACCC
1 TAAACCA
31043588 T-AACCA
1 TAAACCA
31043594 TTAAACCA
1 -TAAACCA
31043602 TAA
1 TAA
31043605 TTAGATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
6 4 0.11
7 29 0.76
8 5 0.13
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (7 bp):
TAAACCA
Found at i:31044184 original size:41 final size:41
Alignment explanation
Indices: 31044126--31044315 Score: 301
Period size: 41 Copynumber: 4.6 Consensus size: 41
31044116 TACTTTTTTT
* * *
31044126 GCGGCGTTTTTCAAAAAGCGCCGCTAAAAGCTCGATCAATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
31044167 GCGGCGTTTGTT-CAAAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTT-TTCCAAAAGCGCCGCTAAAACCTCGATCTATA
* *
31044208 GCAGCGTTTTTCCAGAAGCGCCGCTAAAACCTCGATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
*
31044249 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCTATCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
*
31044290 GCGGCGTTTTTGCAAAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
31044316 TTGTTCAGTT
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 2 0.01
41 134 0.97
42 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGATCTATA
Found at i:31044347 original size:41 final size:41
Alignment explanation
Indices: 31044302--31044416 Score: 194
Period size: 41 Copynumber: 2.8 Consensus size: 41
31044292 GGCGTTTTTG
* *
31044302 CAAAAGCGCCGCTATTGTTCAGTTTTTAGCGGCGTTTGGAC
1 CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGAC
*
31044343 CAAAAACGCCACTATTGCTCAGTTTTTAGCGGCGTTTGGAC
1 CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGAC
*
31044384 CAAAAACGCCGCTATTGCTCAGTTTTTTGCGGC
1 CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGC
31044417 ATTTTATTGC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.30
Consensus pattern (41 bp):
CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTGGAC
Found at i:31045535 original size:2 final size:2
Alignment explanation
Indices: 31045528--31045553 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31045518 ACATACATAC
31045528 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
31045554 GTATTTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31045731 original size:18 final size:21
Alignment explanation
Indices: 31045708--31045750 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
31045698 TTATTGCTTT
31045708 ATTTAG-GCTTAAAG-A-ATC
1 ATTTAGCGCTTAAAGTATATC
*
31045726 ATTTAGCTCTTAAAGTATATC
1 ATTTAGCGCTTAAAGTATATC
31045747 ATTT
1 ATTT
31045751 TTTCAGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 1 0.05
21 7 0.33
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (21 bp):
ATTTAGCGCTTAAAGTATATC
Found at i:31046768 original size:23 final size:24
Alignment explanation
Indices: 31046742--31046787 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
31046732 GCGCAAATGA
31046742 TAGTGGCACTACGATGCA-AGTGT
1 TAGTGGCACTACGATGCAGAGTGT
*
31046765 TAGTGGCACTTCGATGCAGAGTG
1 TAGTGGCACTACGATGCAGAGTG
31046788 ACATCTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (24 bp):
TAGTGGCACTACGATGCAGAGTGT
Found at i:31047007 original size:2 final size:2
Alignment explanation
Indices: 31047000--31047036 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
31046990 GTGATAGTAC
* *
31047000 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31047037 GTGTATATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:31047893 original size:6 final size:6
Alignment explanation
Indices: 31047882--31047906 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31047872 TGATATTCAA
31047882 ATAATT ATAATT ATAATT ATAATT A
1 ATAATT ATAATT ATAATT ATAATT A
31047907 ATCATCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATAATT
Found at i:31050403 original size:31 final size:30
Alignment explanation
Indices: 31050366--31050440 Score: 80
Period size: 32 Copynumber: 2.4 Consensus size: 30
31050356 AAATTAATAA
* *
31050366 TGATAAAATTATACTTTGATTTTTTAAAAAT
1 TGATAAAATTATA-TTTAATTCTTTAAAAAT
*
31050397 TGATAAAAATTTTTATTTAATTCTTTAAAAAT
1 TGAT-AAAA-TTATATTTAATTCTTTAAAAAT
*
31050429 T-ATAAAAATATA
1 TGATAAAATTATA
31050441 GACTATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
29 3 0.08
30 4 0.11
31 6 0.16
32 20 0.54
33 4 0.11
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (30 bp):
TGATAAAATTATATTTAATTCTTTAAAAAT
Found at i:31059949 original size:71 final size:71
Alignment explanation
Indices: 31059865--31060028 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31059855 CGATTTGTCT
31059865 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31059930 CTTTCA
66 CTTTCA
31059936 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31060001 CTTTCA
66 CTTTCA
31060007 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31060029 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31060066 original size:71 final size:70
Alignment explanation
Indices: 31059865--31060062 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
31059855 CGATTTGTCT
* * * *
31059865 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31059930 CTTTCA
65 CTTTCA
* * * *
31059936 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31060001 CTTTCA
65 CTTTCA
* *
31060007 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
31060063 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31067513 original size:71 final size:71
Alignment explanation
Indices: 31067429--31067592 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
31067419 CGATTTGTCT
31067429 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31067494 CTTTCA
66 CTTTCA
31067500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
31067565 CTTTCA
66 CTTTCA
31067571 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
31067593 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:31067630 original size:71 final size:70
Alignment explanation
Indices: 31067429--31067626 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
31067419 CGATTTGTCT
* * * *
31067429 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31067494 CTTTCA
65 CTTTCA
* * * *
31067500 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
31067565 CTTTCA
65 CTTTCA
* *
31067571 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
31067627 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:31072420 original size:22 final size:24
Alignment explanation
Indices: 31072395--31072438 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
31072385 GACACGGGTT
*
31072395 TTTCTT-TTTTTTTCTT-TTTCTC
1 TTTCTTGTTTTTCTCTTGTTTCTC
31072417 TTTCTTGTTTTTCTCTTGTTTC
1 TTTCTTGTTTTTCTCTTGTTTC
31072439 CGTTTGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (24 bp):
TTTCTTGTTTTTCTCTTGTTTCTC
Found at i:31075103 original size:22 final size:22
Alignment explanation
Indices: 31075074--31075141 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
31075064 GGCACAAAAG
31075074 AACAGAGAGCACTAAAGTGCTA
1 AACAGAGAGCACTAAAGTGCTA
* *
31075096 TACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTA-AAGTGCTA
*
31075118 AACAGAGAGCACTTAACGTGCTA
1 AACAGAGAGCAC-TAAAGTGCTA
31075141 A
1 A
31075142 TAATAGAACG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.74
23 8 0.21
24 1 0.03
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (22 bp):
AACAGAGAGCACTAAAGTGCTA
Found at i:31076304 original size:5 final size:5
Alignment explanation
Indices: 31076294--31076318 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
31076284 TATTCTGTTT
31076294 CTTTA CTTTA CTTTA CTTTA CTTTA
1 CTTTA CTTTA CTTTA CTTTA CTTTA
31076319 TGTTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (5 bp):
CTTTA
Found at i:31076333 original size:7 final size:7
Alignment explanation
Indices: 31076323--31076385 Score: 62
Period size: 7 Copynumber: 9.4 Consensus size: 7
31076313 ACTTTATGTT
31076323 TTATATA
1 TTATATA
31076330 -T-TATA
1 TTATATA
31076335 TTATATA
1 TTATATA
*
31076342 TAATATA
1 TTATATA
*
31076349 ATA-ATA
1 TTATATA
31076355 TTATATA
1 TTATATA
31076362 TTATATA
1 TTATATA
31076369 TTA-ATA
1 TTATATA
*
31076375 CTTAAATA
1 -TTATATA
31076383 TTA
1 TTA
31076386 AGTTAATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
5 4 0.09
6 10 0.21
7 30 0.64
8 3 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (7 bp):
TTATATA
Found at i:31076357 original size:20 final size:20
Alignment explanation
Indices: 31076332--31076374 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
31076322 TTTATATATT
31076332 ATATTATATATAATATAATA
1 ATATTATATATAATATAATA
* *
31076352 ATATTATATATTATATATTA
1 ATATTATATATAATATAATA
31076372 ATA
1 ATA
31076375 CTTAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTATATATAATATAATA
Found at i:31076694 original size:18 final size:18
Alignment explanation
Indices: 31076671--31076726 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
31076661 CCACCACCAA
31076671 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
31076689 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
31076701 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
31076719 CTCCACTA
1 CTCCACTA
31076727 CCTACTCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:31076697 original size:30 final size:30
Alignment explanation
Indices: 31076661--31076759 Score: 162
Period size: 30 Copynumber: 3.3 Consensus size: 30
31076651 CTAGCATTTG
31076661 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
31076691 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * * *
31076721 CCACTACCTACTCCAATAGCCACACTTACT
1 CCACCACCAACTCCACTAGCCACACTTGCT
31076751 CCACCACCA
1 CCACCACCA
31076760 CTTGTACCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 63 1.00
ACGTcount: A:0.28, C:0.49, G:0.05, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:31077392 original size:22 final size:23
Alignment explanation
Indices: 31077341--31077432 Score: 80
Period size: 24 Copynumber: 3.9 Consensus size: 23
31077331 TTAATACTAT
* *
31077341 ATTAT-TTATATATATATATATAC
1 ATTATATTATGTATATAT-TTTAC
*
31077364 ATGTTATCTTATGTATATATTTTA-
1 A--TTATATTATGTATATATTTTAC
*
31077388 ATTATATTATGTATGTATTTTTAC
1 ATTATATTATGTATATA-TTTTAC
* *
31077412 ACTATATTATGTACATATTTT
1 ATTATATTATGTATATATTTT
31077433 TAATATTATC
Statistics
Matches: 57, Mismatches: 7, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
22 14 0.25
23 10 0.18
24 15 0.26
25 7 0.12
26 11 0.19
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
ATTATATTATGTATATATTTTAC
Found at i:31077422 original size:24 final size:23
Alignment explanation
Indices: 31077372--31077435 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 23
31077362 ACATGTTATC
*
31077372 TTATGTATATA-TTTTAATTATA
1 TTATGTATATATTTTTAACTATA
*
31077394 TTATGTATGTATTTTTACACTATA
1 TTATGTATATATTTTTA-ACTATA
*
31077418 TTATGTACATATTTTTAA
1 TTATGTATATATTTTTAA
31077436 TATTATCACG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 10 0.28
23 6 0.17
24 20 0.56
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (23 bp):
TTATGTATATATTTTTAACTATA
Found at i:31077438 original size:20 final size:20
Alignment explanation
Indices: 31077415--31077473 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
31077405 TTTTTACACT
31077415 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
31077435 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
31077458 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
31077474 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:31078965 original size:23 final size:23
Alignment explanation
Indices: 31078935--31078981 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
31078925 TAGCTTAATT
*
31078935 TGTTAGATTTTCGACAGTTTTTC
1 TGTTAGATTTTCCACAGTTTTTC
*
31078958 TGTTAGATTTTCCATAGTTTTTC
1 TGTTAGATTTTCCACAGTTTTTC
31078981 T
1 T
31078982 CTGTTCATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.13, G:0.15, T:0.55
Consensus pattern (23 bp):
TGTTAGATTTTCCACAGTTTTTC
Found at i:31084356 original size:75 final size:74
Alignment explanation
Indices: 31084163--31084390 Score: 311
Period size: 73 Copynumber: 3.1 Consensus size: 74
31084153 TTATTTCTAT
* * *
31084163 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGAGGTAATTT
1 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
*
31084228 CAATTTTTG
66 CAATTTCTG
* *
31084237 TTTGTC--AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 TTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT
31084300 TCAATTTCTG
65 TCAATTTCTG
* * *
31084310 TCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTGTTT
1 T-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT
*
31084373 TCCATTTCTG
65 TCAATTTCTG
31084383 TTCTTCAA
1 TT-TTCAA
31084391 TTTCTGTGTT
Statistics
Matches: 137, Mismatches: 12, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
72 1 0.01
73 91 0.66
74 5 0.04
75 40 0.29
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (74 bp):
TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
CAATTTCTG
Found at i:31084740 original size:14 final size:14
Alignment explanation
Indices: 31084721--31084769 Score: 89
Period size: 14 Copynumber: 3.5 Consensus size: 14
31084711 TGCTGAGGTA
31084721 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
31084735 TTTTCAATTTCTGC
1 TTTTCAATTTCTGC
*
31084749 TTTTCAATTTCTAC
1 TTTTCAATTTCTGC
31084763 TTTTCAA
1 TTTTCAA
31084770 AAGAATCAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.18, C:0.20, G:0.04, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTGC
Found at i:31084877 original size:75 final size:75
Alignment explanation
Indices: 31084749--31085090 Score: 305
Period size: 75 Copynumber: 4.3 Consensus size: 75
31084739 CAATTTCTGC
** *
31084749 TTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
31084814 CGCTGAGGTAA
66 CGCTGAGGT-A
*
31084825 TTTT-AATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
31084889 CGTTGAGGTA
66 CGCTGAGGTA
* * * *
31084899 TTTTCAATTTGTCTTTCAAAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAG
1 TTTTCAATTTCTGTTT----------TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
*
31084964 CCTCA--AGACGCTGAGGTA
56 CCTCAGGACACGCTGAGGTA
* *
31084982 TTTTCAATTTCCGTTTGTCAATTTATTTTTCAAAAATCCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTGTTTTTC-A---A------AAAAAT-CAACTCATATTGCGAGAGGTGAGTTGA
*
31085047 GCCTC-GGCTCACGTGCTGAGGTA
55 GCCTCAGG-ACAC--GCTGAGGTA
*
31085070 TTTTCAATTTCTGCTTTTCAA
1 TTTTCAATTTCTGTTTTTCAA
31085091 TTTCTACTTT
Statistics
Matches: 218, Mismatches: 21, Indels: 46
0.76 0.07 0.16
Matches are distributed among these distances:
73 2 0.01
74 6 0.03
75 73 0.33
76 4 0.02
77 1 0.00
83 30 0.14
84 32 0.15
85 42 0.19
86 2 0.01
87 1 0.00
88 25 0.11
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTA
Found at i:31084989 original size:349 final size:336
Alignment explanation
Indices: 31084487--31085212 Score: 1224
Period size: 349 Copynumber: 2.1 Consensus size: 336
31084477 TTCAAATTTT
*
31084487 TTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAAGACACGTTGAGGTATTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAAGACACGTTGAGGTATTT
*
31084552 TCAATTTCTGTCTTTCAAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 TCAATTTCTGTCTTTCAAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCC
*
31084617 TCAAGACGCTGAGGTATTTTCAATTTCTGTTTGTCAATTTATTTTTCAAAAATCCAACTCATATT
131 TCAAGACGCTGAGGTATTTTCAATTTCCGTTTGTCAATTTATTTTTCAAAAATCCAACTCATATT
31084682 GCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCT
196 GCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGG-----T--A-------TTTTCAATTTCT
*
31084747 GCTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
247 GCTTTTCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGA
*
31084812 CACGCTGAGGTAATTTTAATTTCTG
312 CACGCTGAGGTAATTTCAATTTCTG
*
31084837 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAAGACACGTTGAGGTATTT
31084902 TCAA-TT-TGTCTTTCAAAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGC
66 TCAATTTCTGTCTTTC-AAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGC
31084965 CTCAAGACGCTGAGGTATTTTCAATTTCCGTTTGTCAATTTATTTTTCAAAAATCCAACTCATAT
130 CTCAAGACGCTGAGGTATTTTCAATTTCCGTTTGTCAATTTATTTTTCAAAAATCCAACTCATAT
31085030 TGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTC
195 TGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTC
31085095 TACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAA
260 TACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAA
31085160 TTTCAATTTCTG
325 TTTCAATTTCTG
* *
31085172 -TTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAG
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
31085213 TCTCGAGCCA
Statistics
Matches: 367, Mismatches: 8, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
334 39 0.11
335 100 0.27
342 1 0.00
344 1 0.00
348 8 0.02
349 151 0.41
350 67 0.18
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (336 bp):
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAAGACACGTTGAGGTATTT
TCAATTTCTGTCTTTCAAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCC
TCAAGACGCTGAGGTATTTTCAATTTCCGTTTGTCAATTTATTTTTCAAAAATCCAACTCATATT
GCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCT
ACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAAT
TTCAATTTCTG
Found at i:31085015 original size:85 final size:85
Alignment explanation
Indices: 31084837--31085300 Score: 383
Period size: 88 Copynumber: 5.5 Consensus size: 85
31084827 TTAATTTCTG
* *
31084837 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAG-CACGCTGAGGTATTT
***
31084902 TCAA-TT-TGTCTTTCAAAAAA
65 TCAATTTCTGT-TTTCAATTTA
****
31084922 AAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAG-ACGCTGAGGTATTTT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGCACGCTGAGGTATTTT
*
31084986 CAATTTCCGTTTGTCAATTTA
66 CAATTTCTGTTT-TCAATTTA
* *
31085007 TTTTTC--AAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGT
1 TTTTTCAAAAAAAT-CAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAG--CAC--GCTGAGGT
31085069 ATTTTCAATTTCTGCTTTTCAATTTCTA
61 ATTTTCAATTTCTG-TTTTCAA-TT-TA
* * * *
31085097 CTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGCTGAGGTAATT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAG-CACGCTGAGGTATTT
31085162 TCAATTTCTG-----------
65 TCAATTTCTGTTTTCAATTTA
* * * * * * *
31085172 -TTGTCAAAAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGTCTCGAGCCATACGCCGAGGTCT
1 TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAG-C--ACGCTGAGGTAT
* ** * *
31085236 TTTCAAATTCCATTTTTAATTTC
63 TTTCAATTTCTGTTTTCAATTTA
31085259 TGCTTTTC--AAAAATCAACTCATATTGCGAGAGGTAAGTTGAG
1 T--TTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAG
31085301 TCTCGGGCCA
Statistics
Matches: 309, Mismatches: 39, Indels: 59
0.76 0.10 0.14
Matches are distributed among these distances:
74 42 0.14
76 18 0.06
83 24 0.08
84 35 0.11
85 53 0.17
86 2 0.01
88 57 0.18
89 26 0.08
90 11 0.04
91 34 0.11
92 7 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (85 bp):
TTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAAGCACGCTGAGGTATTTT
CAATTTCTGTTTTCAATTTA
Found at i:31085089 original size:14 final size:14
Alignment explanation
Indices: 31085070--31085104 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
31085060 TGCTGAGGTA
*
31085070 TTTTCAATTTCTGC
1 TTTTCAATTTCTAC
31085084 TTTTCAATTTCTAC
1 TTTTCAATTTCTAC
31085098 TTTTCAA
1 TTTTCAA
31085105 AAGAATCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.03, T:0.57
Consensus pattern (14 bp):
TTTTCAATTTCTAC
Found at i:31085268 original size:527 final size:518
Alignment explanation
Indices: 31084248--31085217 Score: 1202
Period size: 527 Copynumber: 1.9 Consensus size: 518
31084238 TTGTCAAAAT
*
31084248 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTCT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTCT
* * *
31084313 TTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTGTTTTCCAT
66 TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTTCCAA
******** * * *
31084378 TTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCTT
131 TTCTGTTCTTCAA-TAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTT
* * * * *
31084443 GACTCACACGTTGAGGCATTTTCAAATTCTGTTTTTCAAATTTTTTTTTCCAAAAAATCAACTCA
195 -ACTAACACGCTGAGGCATTTTCAAATTCCGTTTGTCAAATTTATTTTTCCAAAAAATCAACTCA
31084508 TATTGCGAGAGGTGAGTTGAGCATCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAA
259 TATTGCGAGAGGTGAGTTGAGCATCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAA
* * *
31084573 AAAATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGCTGAGGTATTTTC
324 AAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAACACGCTGAGGTAATTTC
31084638 AATTTCTGTTTGTCAATTTATTTTTCAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
389 AATTTCTGTTTGTCAA--TA----T-AAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
31084703 GGCTCACGTGCTGAGGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAATTTCTACTTTTC
447 GGCTCACGGGCTAAAGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAATTTCTACTTTTC
31084768 AAAAGAA
512 AAAAGAA
* *
31084775 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTTCTGTT
1 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGT-ATTTTCAATTTCTGTC
* *
31084839 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTT-
65 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGTATTTTC
31084903 CAATT-TG-TCTTTCAA-AAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGC
128 CAATTCTGTTC-TTCAATAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGC
* * *
31084965 C-T-C-AAGACGCTGAGGTATTTTCAATTTCCGTTTGTC-AATTTATTTTT-C-AAAAATCCAAC
192 CTTACTAACACGCTGAGGCATTTTCAAATTCCGTTTGTCAAATTTATTTTTCCAAAAAAT-CAAC
* * *
31085024 TCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCAATTTCTG-CTTT
256 TCATATTGCGAGAGGTGAGTTGAGCATCAAG-ACACGT--TGAGGTATTTTCAATTTCTGTC-TT
** **** *
31085087 TCAATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACACGC
317 TCAA---AAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCA--ACACGC
*
31085152 TGAGGTAATTTCAATTTCTG-TTGTC-A-A-AAAAAT-CAACTCGTATTGCGAGAGGTGAGTTGA
377 TGAGGTAATTTCAATTTCTGTTTGTCAATATAAAAATCCAACTCATATTGCGAGAGGTGAGTTGA
*
31085212 GTCTCG
442 GCCTCG
31085218 AGCCATACGC
Statistics
Matches: 387, Mismatches: 42, Indels: 41
0.82 0.09 0.09
Matches are distributed among these distances:
514 31 0.08
515 6 0.02
518 7 0.02
519 37 0.10
520 11 0.03
521 53 0.14
522 1 0.00
524 44 0.11
525 42 0.11
526 26 0.07
527 107 0.28
528 9 0.02
529 13 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (518 bp):
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTCTGTCT
TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGGTATTTTCCAA
TTCTGTTCTTCAATAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTA
CTAACACGCTGAGGCATTTTCAAATTCCGTTTGTCAAATTTATTTTTCCAAAAAATCAACTCATA
TTGCGAGAGGTGAGTTGAGCATCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAA
AATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAACACGCTGAGGTAATTTCAA
TTTCTGTTTGTCAATATAAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGG
GCTAAAGTATTTTCAATTTCTGCTTTTCAATTTCTGCTTTTCAATTTCTACTTTTCAAAAGAA
Found at i:31085300 original size:602 final size:588
Alignment explanation
Indices: 31084155--31085408 Score: 1567
Period size: 602 Copynumber: 2.1 Consensus size: 588
31084145 TGATGTTTTT
* *
31084155 ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGACACGCTGA
1 ATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
31084220 GGTAATTTCAATTTTTGTTTGTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
66 GGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
** * *
31084285 CACGTTGAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTG
131 CACGTTGAGGTATTTTCAATTTCTGTCAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTG
* * * * *
31084350 AACCTCAAGACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATCAGC
196 AACCTCAAGACGCTGAGGTATTTTCAATTTCCGTTCTTCAATTTATGTGTTTC-AAAAAATCAAC
* * * *
31084415 TCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGTTGAGGCATTTTCAAATTCTGTTTTTC
260 TCATATTGCGAGAGGTGAGTTGAGCCTCGACTCACACGCTGAGGCATTTTCAAATTCTGCTTTTC
* * *
31084480 AAATTTTTTTTTCCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAAGACACGTTGA
325 AAATTTTCTTTTCCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCATCAAGACACGCTGA
*
31084545 GGTATTTTCAATTTCTGTCTTTCAAAAAAAAATCAAAAAAATCAACTCATATTGCGAGAGGTGAG
390 GGTAATTTCAATTTCTG--TTT--------AATCAAAAAAATCAACTCATATTGCGAGAGGTGAG
* * **
31084610 TTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCTGTTTGTCAATTTATTTTTCAAAAATCCAAC
445 TTGAGCCTCAAGACGCCGAGGTATTTTCAAATTCCATTTGTCAATTTATTTTTCAAAAATCCAAC
* * * *
31084675 TCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACGTGCTGAGGTATTTTCAATTTCTGCTTTT
510 TCATATTGCGAGAGGTAAGTTGAGCCTCGGGC-CACATGCCGAGGTATTTTCAAATTCTG-TTTT
31084739 CAATTTCTGCTTTTCA
573 CAATTTCTGCTTTTCA
*
31084755 ATTTCTACTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
* *
31084820 GGTAATTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
66 GGTAATTTCAATTTCTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
31084885 GACACGTTGAGGTATTTTCAATTTGTCTTTCAAAAAAAAAATCAAAAAAATCAACTCATATTGCG
129 GACACGTTGAGGTATTTTCAA-TT-TCTGTC--------AATCAAAAAAATCAACTCATATTGCG
*
31084950 AGAGGTAAGTTGAGCCTCAAGACGCTGAGGTATTTTCAATTTCCGTT-TGTCAATTTAT-T-TTT
184 AGAGGTAAGTTGAACCTCAAGACGCTGAGGTATTTTCAATTTCCGTTCT-TCAATTTATGTGTTT
* ** *
31085012 C-AAAAATCCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACGTGCTGAGGTATTTTCA
248 CAAAAAAT-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCGACTCACACGCTGAGGCATTTTCA
*
31085076 ATTTCTGCTTTTC-AATTTCTACTTTT-CAAAAGAATCAACTCATATTGCGAGAGGTAAGTTGAG
312 AATTCTGCTTTTCAAATTT-T-CTTTTCCAAAA-AATCAACTCATATTGCGAGAGGTAAGTTGAG
* * * *
31085139 CCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TT-GTCAAAAAAATCAACTCGTATTGCGAGA
374 CATCAAGACACGCTGAGGTAATTTCAATTTCTGTTTAATCAAAAAAATCAACTCATATTGCGAGA
* * * * *
31085202 GGTGAGTTGAGTCTCGAGCCATACGCCGAGGTCTTTTCAAATTCCATTT-TTAATTTCTGCTTTT
439 GGTGAGTTGAGCCTC-A---AGACGCCGAGGTATTTTCAAATTCCATTTGTCAATTTAT--TTTT
* *
31085266 CAAAAAT-CAACTCATATTGCGAGAGGTAAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAA
498 CAAAAATCCAACTCATATTGCGAGAGGTAAGTTGAGCCTCGGGCCACATGCCGAGGTATTTTCAA
* * * *
31085330 ATTCTGTTTTTAGTTTCTGTTTTTTA
563 ATTCTGTTTTCAATTTCTGCTTTTCA
** * * *
31085356 ATTTCTGTGTTTTAAAAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCT
1 ATTTCT-ACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
31085409 TGGCTCACGT
Statistics
Matches: 569, Mismatches: 60, Indels: 48
0.84 0.09 0.07
Matches are distributed among these distances:
598 40 0.07
599 1 0.00
600 82 0.14
601 29 0.05
602 176 0.31
603 16 0.03
604 5 0.01
607 2 0.00
608 11 0.02
609 65 0.11
610 67 0.12
611 2 0.00
612 73 0.13
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (588 bp):
ATTTCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
GGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGTTGAGGTATTTTCAATTTCTGTCAATCAAAAAAATCAACTCATATTGCGAGAGGTAAGTTG
AACCTCAAGACGCTGAGGTATTTTCAATTTCCGTTCTTCAATTTATGTGTTTCAAAAAATCAACT
CATATTGCGAGAGGTGAGTTGAGCCTCGACTCACACGCTGAGGCATTTTCAAATTCTGCTTTTCA
AATTTTCTTTTCCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCATCAAGACACGCTGAG
GTAATTTCAATTTCTGTTTAATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACGCCGAGGTATTTTCAAATTCCATTTGTCAATTTATTTTTCAAAAATCCAACTCATATTGCGA
GAGGTAAGTTGAGCCTCGGGCCACATGCCGAGGTATTTTCAAATTCTGTTTTCAATTTCTGCTTT
TCA
Found at i:31085340 original size:88 final size:88
Alignment explanation
Indices: 31085179--31085353 Score: 269
Period size: 88 Copynumber: 2.0 Consensus size: 88
31085169 CTGTTGTCAA
* * *
31085179 AAAAATCAACTCGTATTGCGAGAGGTGAGTTGAGTCTCGAGCCATACGCCGAGGTCTTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCGAGCCACACGCCGAGGTCTTTTCAAAT
31085244 TCCATTTTTAATTTCTGCTTTTC
66 TCCATTTTTAATTTCTGCTTTTC
* *
31085267 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCGGGCCACATGCCGAGGTCTTTTCAAAT
1 AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCGAGCCACACGCCGAGGTCTTTTCAAAT
** * *
31085332 TCTGTTTTTAGTTTCTGTTTTT
66 TCCATTTTTAATTTCTGCTTTT
31085354 TAATTTCTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTAAGTTGAGTCTCGAGCCACACGCCGAGGTCTTTTCAAAT
TCCATTTTTAATTTCTGCTTTTC
Found at i:31085353 original size:14 final size:14
Alignment explanation
Indices: 31085331--31085370 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
31085321 TCTTTTCAAA
*
31085331 TTCTG-TTTTTAGT
1 TTCTGTTTTTTAAT
31085344 TTCTGTTTTTTAAT
1 TTCTGTTTTTTAAT
*
31085358 TTCTGTGTTTTAA
1 TTCTGTTTTTTAA
31085371 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 5 0.21
14 19 0.79
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.68
Consensus pattern (14 bp):
TTCTGTTTTTTAAT
Found at i:31085431 original size:19 final size:19
Alignment explanation
Indices: 31085409--31085447 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31085399 AGTTGAGCCT
31085409 TGGCTCACGTGCTGAGCTA
1 TGGCTCACGTGCTGAGCTA
31085428 TGGCTCACGTGCTGAGCTA
1 TGGCTCACGTGCTGAGCTA
31085447 T
1 T
31085448 TTTCAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.31, T:0.28
Consensus pattern (19 bp):
TGGCTCACGTGCTGAGCTA
Found at i:31086179 original size:18 final size:18
Alignment explanation
Indices: 31086156--31086211 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
31086146 CCACCACCAA
31086156 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
31086174 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
31086186 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
31086204 CTCCACTA
1 CTCCACTA
31086212 CCTACTCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 12
0.68 0.05 0.27
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 1 0.03
16 1 0.03
17 3 0.10
18 15 0.50
ACGTcount: A:0.25, C:0.48, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:31086182 original size:30 final size:30
Alignment explanation
Indices: 31086146--31086244 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
31086136 CTAGCCTTTG
31086146 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
31086176 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* * *
31086206 CCACTACCTACTCCAATAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
31086236 CCACCACCA
1 CCACCACCA
31086245 CTTGTACCTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.27, C:0.49, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:31086745 original size:24 final size:23
Alignment explanation
Indices: 31086697--31086748 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
31086687 TTTTTTTTGT
*
31086697 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATAATA
*
31086720 TATTATATATATATTCTT-TTAATA
1 TATTAT-TATAT-TTCTTAATAATA
31086744 TATTA
1 TATTA
31086749 GGTATATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (23 bp):
TATTATTATATTTCTTAATAATA
Found at i:31086781 original size:2 final size:2
Alignment explanation
Indices: 31086774--31086852 Score: 67
Period size: 2 Copynumber: 40.5 Consensus size: 2
31086764 CTGTATTACG
* * * *
31086774 TA TA TA TA TA TA TA TA T- TA TA CTA T- TT TA TG TA TA TA TC TT
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
*
31086815 TA -A TA CTA TA T- TA TT TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31086853 TTTACATGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
1 4 0.06
2 55 0.87
3 4 0.06
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (2 bp):
TA
Found at i:31086849 original size:25 final size:26
Alignment explanation
Indices: 31086778--31086854 Score: 88
Period size: 25 Copynumber: 3.0 Consensus size: 26
31086768 ATTACGTATA
* *
31086778 TATATATATATATTATACTATTTTATG
1 TATATATATATA-TATACTATATTATT
* *
31086805 TATATATCTTTA-ATACTATATTATT
1 TATATATATATATATACTATATTATT
31086830 TATATATATATATATA-TATA-TATT
1 TATATATATATATATACTATATTATT
31086854 T
1 T
31086855 TACATGTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.12
25 25 0.58
26 3 0.07
27 10 0.23
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.56
Consensus pattern (26 bp):
TATATATATATATATACTATATTATT
Found at i:31086856 original size:25 final size:25
Alignment explanation
Indices: 31086774--31086902 Score: 86
Period size: 25 Copynumber: 5.0 Consensus size: 25
31086764 CTGTATTACG
31086774 TATATATATATATATATTATACTATTT
1 TATATATATATATATA-TATA-TATTT
* * *
31086801 TATGTATATATCTTTAATACTATATTATT
1 TATATATATATATAT-ATA-TATA-T-TT
31086830 TATATATATATATATATATATATTT
1 TATATATATATATATATATATATTT
* * * *
31086855 TACATGT-TATCTTATGTATATATTT
1 TATATATATAT-ATATATATATATTT
* *
31086880 TA-AT-TATAT-TATGTATGTATTT
1 TATATATATATATATATATATATTT
31086902 T
1 T
31086903 TTACACTATA
Statistics
Matches: 85, Mismatches: 11, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
22 13 0.15
23 1 0.01
24 8 0.09
25 21 0.25
26 1 0.01
27 20 0.24
28 7 0.08
29 14 0.16
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATATATATATATATATATATTT
Found at i:31086870 original size:66 final size:59
Alignment explanation
Indices: 31086774--31086891 Score: 155
Period size: 62 Copynumber: 1.9 Consensus size: 59
31086764 CTGTATTACG
*
31086774 TATATATATATATATATTATACTATTTTATGTATATATCTTTAATACTATATTATTTATATA
1 TATATATATATATATATTATACTATCTTATGTATATAT-TTTAAT--TATATTATTTATATA
*
31086836 TATATATATATATATATTTTACATGTTATCTTATGTATATATTTTAATTATATTAT
1 TATATATATATATATATTATAC----TATCTTATGTATATATTTTAATTATATTAT
31086892 GTATGTATTT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
62 21 0.42
63 8 0.16
65 6 0.12
66 15 0.30
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (59 bp):
TATATATATATATATATTATACTATCTTATGTATATATTTTAATTATATTATTTATATA
Found at i:31086891 original size:22 final size:24
Alignment explanation
Indices: 31086836--31086902 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 24
31086826 TATTTATATA
*
31086836 TATATATATATATATATTTTACATGT
1 TATAT-TATGTATATATTTTACA-GT
*
31086862 TATCTTATGTATATATTTTA-A-T
1 TATATTATGTATATATTTTACAGT
*
31086884 TATATTATGTATGTATTTT
1 TATATTATGTATATATTTT
31086903 TTACACTATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 18 0.49
24 1 0.03
25 14 0.38
26 4 0.11
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (24 bp):
TATATTATGTATATATTTTACAGT
Found at i:31094386 original size:19 final size:20
Alignment explanation
Indices: 31094362--31094402 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
31094352 TTTTTAGATT
31094362 TATTTT-AAG-TTAGATAATA
1 TATTTTAAAGATT-GATAATA
31094381 TATTTTAAAGATTGATAATA
1 TATTTTAAAGATTGATAATA
31094401 TA
1 TA
31094403 ATAAGATCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 12 0.60
21 2 0.10
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
TATTTTAAAGATTGATAATA
Found at i:31094829 original size:29 final size:29
Alignment explanation
Indices: 31094797--31094855 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
31094787 CATTCAGTTG
* *
31094797 TGAAACGTTATAA-AGTGGTCATTCAACTA
1 TGAAAAGTTATAATAGTGG-CACTCAACTA
*
31094826 TGAAAAGTTATAATATTGGCACTCAACTA
1 TGAAAAGTTATAATAGTGGCACTCAACTA
31094855 T
1 T
31094856 TCAATTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (29 bp):
TGAAAAGTTATAATAGTGGCACTCAACTA
Found at i:31101985 original size:22 final size:20
Alignment explanation
Indices: 31101954--31102017 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 20
31101944 TTTAAATATT
31101954 AAATATATTTATAATTTATAA
1 AAATATATTTA-AATTTATAA
*
31101975 AAATTATATTTAAA-AT-TAA
1 AAA-TATATTTAAATTTATAA
31101994 AAATATATTTAAAATATTATAA
1 AAATATATTT-AAAT-TTATAA
31102016 AA
1 AA
31102018 CAAATTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 7 0.19
19 9 0.25
20 1 0.03
21 6 0.17
22 13 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAATATATTTAAATTTATAA
Found at i:31102000 original size:18 final size:19
Alignment explanation
Indices: 31101972--31102008 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
31101962 TTATAATTTA
31101972 TAAAAATTATATTTAAAAT
1 TAAAAATTATATTTAAAAT
31101991 TAAAAA-TATATTTAAAAT
1 TAAAAATTATATTTAAAAT
31102009 ATTATAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAAAATTATATTTAAAAT
Found at i:31102145 original size:21 final size:20
Alignment explanation
Indices: 31102121--31102179 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
31102111 TAAATGTTTT
31102121 ATATTATTAAAAATATATTTA
1 ATATT-TTAAAAATATATTTA
31102142 ATA-TTTAAAAATAATATTTA
1 ATATTTTAAAAAT-ATATTTA
* *
31102162 AAATTTAAAAAATA-ATTT
1 ATATTTTAAAAATATATTT
31102180 CAAATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.35
20 11 0.32
21 11 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTTTAAAAATATATTTA
Found at i:31102152 original size:20 final size:19
Alignment explanation
Indices: 31102127--31102211 Score: 90
Period size: 19 Copynumber: 4.6 Consensus size: 19
31102117 TTTTATATTA
*
31102127 TTAAAAATATATTTAATAT
1 TTAAAAATATATTTAAAAT
31102146 TTAAAAATAATATTTAAAAT
1 TTAAAAAT-ATATTTAAAAT
*
31102166 TTAAAAA-ATAATTTCAAA-
1 TTAAAAATAT-ATTTAAAAT
*
31102184 -T--ATATATATTTAAAAT
1 TTAAAAATATATTTAAAAT
31102200 TTAAAAATATAT
1 TTAAAAATATAT
31102212 ATTATAAAAC
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
15 9 0.17
16 2 0.04
17 2 0.04
18 2 0.04
19 22 0.41
20 17 0.31
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAAAATATATTTAAAAT
Found at i:31102158 original size:13 final size:13
Alignment explanation
Indices: 31102140--31102164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31102130 AAAATATATT
31102140 TAATATTTAAAAA
1 TAATATTTAAAAA
31102153 TAATATTTAAAA
1 TAATATTTAAAA
31102165 TTTAAAAAAT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:31102211 original size:21 final size:23
Alignment explanation
Indices: 31102175--31102220 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
31102165 TTTAAAAAAT
*
31102175 AATTTCAAATATATATATT-TAA
1 AATTTCAAAAATATATATTATAA
31102197 AATTT-AAAAATATATATTATAA
1 AATTTCAAAAATATATATTATAA
31102219 AA
1 AA
31102221 CACTTCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AATTTCAAAAATATATATTATAA
Found at i:31102305 original size:29 final size:28
Alignment explanation
Indices: 31102264--31102319 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
31102254 TAATAATAAA
* * *
31102264 TAAAATAAATAAAGATAAATACAAAACT
1 TAAAAAAAATAAAAAAAAATACAAAACT
*
31102292 TAAAAAAAAGTAAAAAAAAATAGAAAAC
1 TAAAAAAAA-TAAAAAAAAATACAAAAC
31102320 AAAAGGACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (28 bp):
TAAAAAAAATAAAAAAAAATACAAAACT
Found at i:31109962 original size:23 final size:23
Alignment explanation
Indices: 31109922--31109965 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
31109912 CTACCATTTT
* *
31109922 TCTAAATAAATTAATAATAAATA
1 TCTAAACAAAATAATAATAAATA
*
31109945 TCTAAACAAAATATTAATAAA
1 TCTAAACAAAATAATAATAAA
31109966 ATAATATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (23 bp):
TCTAAACAAAATAATAATAAATA
Found at i:31112078 original size:26 final size:27
Alignment explanation
Indices: 31112032--31112089 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
31112022 ATTGTAAGTC
31112032 TAAAAATAATTAAATT-AAAAATTTCA
1 TAAAAATAATTAAATTAAAAAATTTCA
31112058 TAAAAATAA-TAAATTTTAAAAAATTTCA
1 TAAAAATAATTAAA--TTAAAAAATTTCA
31112086 TAAA
1 TAAA
31112090 CCGATCCAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 4 0.14
26 9 0.31
27 2 0.07
28 14 0.48
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAAAATAATTAAATTAAAAAATTTCA
Found at i:31112331 original size:3 final size:3
Alignment explanation
Indices: 31112323--31112355 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
31112313 TGACAAAGAA
31112323 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
31112356 TTTTTATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:31112762 original size:2 final size:2
Alignment explanation
Indices: 31112750--31112788 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
31112740 TATTATATTT
* *
31112750 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31112789 GCTCTTTGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:31116436 original size:17 final size:19
Alignment explanation
Indices: 31116405--31116445 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
31116395 TTTTTCTTCG
31116405 ATTTTACTATATCTTT-AC
1 ATTTTACTATATCTTTAAC
*
31116423 ATTTTACT-TTTCTTTAAC
1 ATTTTACTATATCTTTAAC
31116441 ATTTT
1 ATTTT
31116446 CATTTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTACTATATCTTTAAC
Found at i:31117073 original size:18 final size:19
Alignment explanation
Indices: 31117050--31117091 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
31117040 ATTAAAAAAT
*
31117050 TTTAAAATTT-AGGAGTAA
1 TTTAAAATTTGAGGAATAA
*
31117068 TTTAAAATTTGAGTAATAA
1 TTTAAAATTTGAGGAATAA
31117087 TTTAA
1 TTTAA
31117092 GAACATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (19 bp):
TTTAAAATTTGAGGAATAA
Found at i:31117083 original size:16 final size:17
Alignment explanation
Indices: 31117050--31117084 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
31117040 ATTAAAAAAT
31117050 TTTAAAATTTAGGAGTAA
1 TTTAAAATTTA-GAGTAA
31117068 TTTAAAATTT-GAGTAA
1 TTTAAAATTTAGAGTAA
31117084 T
1 T
31117085 AATTTAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
18 10 0.59
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (17 bp):
TTTAAAATTTAGAGTAA
Found at i:31118871 original size:25 final size:25
Alignment explanation
Indices: 31118837--31118893 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
31118827 TGGAGTTGTG
31118837 TATTGAGTCATGTCTTTCATTGCCA
1 TATTGAGTCATGTCTTTCATTGCCA
*
31118862 TATTGAGTCATGTCTTTCATTGTCA
1 TATTGAGTCATGTCTTTCATTGCCA
*
31118887 AATTGAG
1 TATTGAG
31118894 AGTCTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.44
Consensus pattern (25 bp):
TATTGAGTCATGTCTTTCATTGCCA
Found at i:31119536 original size:20 final size:21
Alignment explanation
Indices: 31119501--31119540 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
31119491 AAAAATCAAA
31119501 AAATAATTTTTCAAAAATTCT
1 AAATAATTTTTCAAAAATTCT
31119522 AAATAATTTTT-AAAAATTC
1 AAATAATTTTTCAAAAATTC
31119541 CAAAATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATTTTTCAAAAATTCT
Found at i:31119546 original size:21 final size:21
Alignment explanation
Indices: 31119500--31119546 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
31119490 AAAAAATCAA
31119500 AAAATAATTTTTCAAAAATTC
1 AAAATAATTTTTCAAAAATTC
*
31119521 TAAATAATTTTT-AAAAATTCC
1 AAAATAATTTTTCAAAAATT-C
31119542 AAAAT
1 AAAAT
31119547 TTATATAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAATAATTTTTCAAAAATTC
Found at i:31127561 original size:103 final size:103
Alignment explanation
Indices: 31127392--31127588 Score: 268
Period size: 103 Copynumber: 1.9 Consensus size: 103
31127382 CTTTTTGGCC
* * **** *
31127392 AAGTATCGATATTTTATGAATTATCGATACCCTTTCTTAAAAACGATACCAAAATGGTATTTTGT
1 AAGTATCGATATTTTATGAATTATCAATACCCATTCTTAAAAACGATACCAAAACAACATTATGT
* * *
31127457 TTTTCACAAACCCTAAAAAGTATCAATACCTTTTGATT
66 TTCTCAAAAAACCTAAAAAGTATCAATACCTTTTGATT
* *
31127495 AAGTATCGTTATTTTCTGAATTATCAATACCCATTCTTAAAAACGATACCAAAACAACATTATGT
1 AAGTATCGATATTTTATGAATTATCAATACCCATTCTTAAAAACGATACCAAAACAACATTATGT
* *
31127560 TTCTCAAAAAACCTACAAAGTATCGATAC
66 TTCTCAAAAAACCTAAAAAGTATCAATAC
31127589 GGCCTTGCTA
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
103 80 1.00
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.35
Consensus pattern (103 bp):
AAGTATCGATATTTTATGAATTATCAATACCCATTCTTAAAAACGATACCAAAACAACATTATGT
TTCTCAAAAAACCTAAAAAGTATCAATACCTTTTGATT
Found at i:31128364 original size:76 final size:75
Alignment explanation
Indices: 31128238--31128377 Score: 219
Period size: 76 Copynumber: 1.9 Consensus size: 75
31128228 AAATCCAAGG
*
31128238 ATTGCAGTAGTAACCAATATTAAATAACATTTTTAAAGAAAAGCTCAAGTTCGAAATTTTAAAAA
1 ATTGCAGTAATAACCAATATTAAATAACATTTTTAAAGAAAAGCTCAAGTTCG-AATTTTAAAAA
31128303 TGCACATCCAA
65 TGCACATCCAA
* * *
31128314 ATTGCAGTAATAACCAATATTAAATATCATTTTTAAAAGAAAA-CTTAAGTTCGAATTTTGAAAA
1 ATTGCAGTAATAACCAATATTAAATAACATTTTT-AAAGAAAAGCTCAAGTTCGAATTTTAAAAA
31128378 CAACATTATT
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
75 10 0.17
76 41 0.69
77 8 0.14
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (75 bp):
ATTGCAGTAATAACCAATATTAAATAACATTTTTAAAGAAAAGCTCAAGTTCGAATTTTAAAAAT
GCACATCCAA
Found at i:31128666 original size:21 final size:20
Alignment explanation
Indices: 31128642--31128694 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
31128632 AAATCCAAAT
31128642 TAAAATACTGAAATTCAGGGA
1 TAAAATACTGAAATTCA-GGA
*
31128663 TAAAAT-CTTGAAATTCAGTA
1 TAAAATAC-TGAAATTCAGGA
31128683 TAAGAATACTGA
1 TAA-AATACTGA
31128695 TGTGGCATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.21
21 21 0.75
22 1 0.04
ACGTcount: A:0.47, C:0.09, G:0.15, T:0.28
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:31129051 original size:22 final size:22
Alignment explanation
Indices: 31129004--31129052 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
31128994 TGTATTAATT
*
31129004 TATTAAATTAAACTAAAAATAT
1 TATTAAATTAAACTAAAAATAA
* *
31129026 TATTAAATTTATCATAAAAA-AA
1 TATTAAATTAAAC-TAAAAATAA
31129048 TATTA
1 TATTA
31129053 TAAATTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTAAATTAAACTAAAAATAA
Found at i:31130231 original size:29 final size:29
Alignment explanation
Indices: 31130172--31130235 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
31130162 GAGTAGATTG
* * *
31130172 AAAGATTGAAGCTTTGAAGTTGGTTAAAT
1 AAAGATTGAAGATTTGAAATTGGCTAAAT
**
31130201 AAAGATTGAAGATTTGAAATTGGCTGGAT
1 AAAGATTGAAGATTTGAAATTGGCTAAAT
31130230 AAAGAT
1 AAAGAT
31130236 CAAATTATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.03, G:0.25, T:0.31
Consensus pattern (29 bp):
AAAGATTGAAGATTTGAAATTGGCTAAAT
Found at i:31130283 original size:13 final size:14
Alignment explanation
Indices: 31130265--31130297 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
31130255 TCAAAATTAG
31130265 TTTAAA-TTTAATT
1 TTTAAATTTTAATT
31130278 TTTAAATTTTAATT
1 TTTAAATTTTAATT
31130292 TATTAA
1 T-TTAA
31130298 GCGACAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 8 0.44
15 4 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTAAATTTTAATT
Found at i:31134878 original size:3 final size:3
Alignment explanation
Indices: 31134870--31134913 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
31134860 AAACAAGCTT
31134870 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
31134914 CTGGATGCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:31135235 original size:15 final size:12
Alignment explanation
Indices: 31135202--31135232 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
31135192 AACGGCAACG
31135202 GCTGCTGATGCA
1 GCTGCTGATGCA
31135214 GCTGCTGATGCA
1 GCTGCTGATGCA
31135226 GCTGCTG
1 GCTGCTG
31135233 CTGCTGTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.26, G:0.35, T:0.26
Consensus pattern (12 bp):
GCTGCTGATGCA
Found at i:31147357 original size:20 final size:20
Alignment explanation
Indices: 31147332--31147370 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31147322 AAATAACATA
* *
31147332 TTATTTTATAATTTTATTTC
1 TTATTTAATAATTTAATTTC
31147352 TTATTTAATAATTTAATTT
1 TTATTTAATAATTTAATTT
31147371 AATTTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTAATAATTTAATTTC
Found at i:31147650 original size:2 final size:2
Alignment explanation
Indices: 31147643--31147675 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
31147633 GTAATATGAT
31147643 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31147676 TACGCATGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31147894 original size:208 final size:208
Alignment explanation
Indices: 31147663--31148495 Score: 1396
Period size: 208 Copynumber: 4.0 Consensus size: 208
31147653 TATATATATA
* *
31147663 TATATATATATATTACGCATGTATCATATTACAAAAATAAAATTTTAAATACTTATACCTAATAA
1 TATATATATAT-TTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAA
*
31147728 AACATGTATCTCATTACAATAATTGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCT
65 AACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCT
*
31147793 TATTTAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGA
130 TATTCAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGA
31147858 TTCACTAATATGAT
195 TTCACTAATATGAT
*
31147872 TATATATATATTTACGCATGTATCACATTACAGAAACAAAATTTTAAATACTTATACCTAATAAA
1 TATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAAA
31147937 ACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTT
66 ACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTT
* * * *
31148002 ATTCAATATTTTAATTTAATTTTAATAATGCATATTTTATCCGGATGAAGTATGTATTAGCAGAT
131 ATTCAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGAT
*
31148067 TCAGTAATATGATTATATATAT
196 TCACTAATATG---------AT
*
31148089 ATATATATATATTTACGCATGTATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAA
1 -TATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAA
*
31148154 AACATGTATCTCATTACAATAATTGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCT
65 AACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCT
*
31148219 TATTTAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGA
130 TATTCAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGA
31148284 TTCACTAATATGAT
195 TTCACTAATATGAT
*
31148298 TATATATATATTTACGCATGTATCACATTACAGAAACAAAATTTTAAATACTTATACCTAATAAA
1 TATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAAA
31148363 ACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTT
66 ACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTT
* * * * *
31148428 ATTCAATATTTTAATTTAATTTTAATATTGCATACTTTATCCGAATGAAGTATGTATTAGCAGAT
131 ATTCAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGAT
31148493 TCA
196 TCA
31148496 GGAATATCTA
Statistics
Matches: 586, Mismatches: 28, Indels: 21
0.92 0.04 0.03
Matches are distributed among these distances:
208 374 0.64
209 13 0.02
217 2 0.00
218 197 0.34
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.43
Consensus pattern (208 bp):
TATATATATATTTACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACCTAATAAA
ACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTT
ATTCAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGAT
TCACTAATATGAT
Found at i:31148319 original size:426 final size:426
Alignment explanation
Indices: 31147172--31148502 Score: 2339
Period size: 426 Copynumber: 3.1 Consensus size: 426
31147162 TGTTAATACG
* * * *
31147172 TACTTCATTCGGATGAAGTATGTATTAACAGATTCACTAATATGA-T-TATATATATATATATAT
1 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATGATTATATATATATATATATAT
* * *
31147235 A--CACGCATGTATCACATTACAAAAACAAAATTTTAAATACTTATACTTAATAAAACATGTATC
66 ATTTACGCATGTATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAAAACATGTATC
** *
31147298 TCATTACAATAATAATTATTTTCCAAATAACATATTATTTTATAATTTTATTTCTTATTTAATAA
131 TCATTACAATAATTGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATAA
31147363 TTTAATTTAATTTTAATAATGCATACTTTATCC-GATGAAGTACGCATTAGCAGATTCACTAATA
196 TTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGATTCACTAATA
* *
31147427 TGATTATATATATATATATTTACGCGTGTATCACATTACAGAAACAAAATTTTAAATACTTATTC
261 TG---AT-TATATATATATTTACGCATGTATCACATTACAGAAACAAAATTTTAAATACTTATAC
31147492 CTAATAAAACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTT
322 CTAATAAAACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTT
31147557 TATTTCTTATTCAATATTTTAATTTAATTTTAATAATGCA
387 TATTTCTTATTCAATATTTTAATTTAATTTTAATAATGCA
31147597 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATGATTATATATATATATATATAT
1 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATG---------AT-TATATATAT
*
31147662 ATATATATATATATTACGCATGTATCATATTACAAAAATAAAATTTTAAATACTTATACCTAATA
56 ATATATATATAT-TTACGCATGTATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATA
31147727 AAACATGTATCTCATTACAATAATTGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
120 AAACATGTATCTCATTACAATAATTGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTC
31147792 TTATTTAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAG
185 TTATTTAATAATTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAG
31147857 ATTCACTAATATGATTATATATATATTTACGCATGTATCACATTACAGAAACAAAATTTTAAATA
250 ATTCACTAATATGATTATATATATATTTACGCATGTATCACATTACAGAAACAAAATTTTAAATA
31147922 CTTATACCTAATAAAACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTT
315 CTTATACCTAATAAAACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTT
31147987 ATAATTTTATTTCTTATTCAATATTTTAATTTAATTTTAATAATGCA
380 ATAATTTTATTTCTTATTCAATATTTTAATTTAATTTTAATAATGCA
*
31148034 TATTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATGATTATATATATATATATATAT
1 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATGATTATATATATATATATATAT
31148099 ATTTACGCATGTATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAAAACATGTATC
66 ATTTACGCATGTATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAAAACATGTATC
31148164 TCATTACAATAATTGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATAA
131 TCATTACAATAATTGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATAA
31148229 TTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGATTCACTAATA
196 TTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGATTCACTAATA
31148294 TGATTATATATATATTTACGCATGTATCACATTACAGAAACAAAATTTTAAATACTTATACCTAA
261 TGATTATATATATATTTACGCATGTATCACATTACAGAAACAAAATTTTAAATACTTATACCTAA
31148359 TAAAACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATT
326 TAAAACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATT
*
31148424 TCTTATTCAATATTTTAATTTAATTTTAATATTGCA
391 TCTTATTCAATATTTTAATTTAATTTTAATAATGCA
* *
31148460 TACTTTATCCGAATGAAGTATGTATTAGCAGATTCAGGAATAT
1 TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATAT
31148503 CTAGTTGGAC
Statistics
Matches: 871, Mismatches: 19, Indels: 31
0.95 0.02 0.03
Matches are distributed among these distances:
425 40 0.05
426 397 0.46
427 21 0.02
428 2 0.00
434 1 0.00
436 1 0.00
437 221 0.25
438 2 0.00
440 153 0.18
441 33 0.04
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (426 bp):
TACTTTATCCGGATGAAGTATGTATTAGCAGATTCAGTAATATGATTATATATATATATATATAT
ATTTACGCATGTATCACATTACAAAAATAAAATTTTAAATACTTATACCTAATAAAACATGTATC
TCATTACAATAATTGTTATTTTCCAAATAACATATTGTTTTATAATTTTATTTCTTATTTAATAA
TTTAATTTAATTTTAATAATGCATACTTTATCCGGATGAAGTACGCATTAGCAGATTCACTAATA
TGATTATATATATATTTACGCATGTATCACATTACAGAAACAAAATTTTAAATACTTATACCTAA
TAAAACATGTATCTCATTACAATAATTATTATTTTCCAAATAACATATTGTTTTATAATTTTATT
TCTTATTCAATATTTTAATTTAATTTTAATAATGCA
Found at i:31149391 original size:17 final size:19
Alignment explanation
Indices: 31149352--31149390 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
31149342 AAATTCAAAG
**
31149352 AAATATATAAATATTTTTA
1 AAATATATAAATAAATTTA
31149371 AAATATAT-AATAAATTTA
1 AAATATATAAATAAATTTA
31149389 AA
1 AA
31149391 TTTTATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATATAAATAAATTTA
Found at i:31149891 original size:17 final size:16
Alignment explanation
Indices: 31149871--31149948 Score: 90
Period size: 17 Copynumber: 4.9 Consensus size: 16
31149861 TTGTTTTCTT
31149871 TTTCTTTTATTTTCATA
1 TTTCTTTTATTTT-ATA
* * *
31149888 TTTCTTTTGTTTTTTT
1 TTTCTTTTATTTTATA
31149904 TTTCTTTTATTTTCATA
1 TTTCTTTTATTTT-ATA
31149921 TTTCTTTT-TTTT-TA
1 TTTCTTTTATTTTATA
31149935 TTT-TTTTATTTTAT
1 TTTCTTTTATTTTAT
31149949 TCCTTAATAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
13 4 0.08
14 9 0.17
15 1 0.02
16 17 0.33
17 21 0.40
ACGTcount: A:0.12, C:0.08, G:0.01, T:0.79
Consensus pattern (16 bp):
TTTCTTTTATTTTATA
Found at i:31149896 original size:33 final size:32
Alignment explanation
Indices: 31149859--31149946 Score: 135
Period size: 33 Copynumber: 2.8 Consensus size: 32
31149849 TGCTACACCT
31149859 TTTTGTTTTCTTTTTCTTTTATTTTCATATTTC
1 TTTTGTTTT-TTTTTCTTTTATTTTCATATTTC
31149892 TTTTGTTTTTTTTTTCTTTTATTTTCATATTTC
1 TTTTG-TTTTTTTTTCTTTTATTTTCATATTTC
*
31149925 TTTT-TTTTTATTT-TTTTATTTT
1 TTTTGTTTTTTTTTCTTTTATTTT
31149947 ATTCCTTAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
30 9 0.17
31 8 0.15
33 32 0.60
34 4 0.08
ACGTcount: A:0.09, C:0.08, G:0.02, T:0.81
Consensus pattern (32 bp):
TTTTGTTTTTTTTTCTTTTATTTTCATATTTC
Found at i:31149939 original size:28 final size:27
Alignment explanation
Indices: 31149864--31149945 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 27
31149854 CACCTTTTTG
*
31149864 TTTTCTTTTTCTTTTATTTTCATATTTC
1 TTTTCTTTTT-TTTTATTTTTATATTTC
*
31149892 TTTTGTTTTTTTTT-TCTTTTAT-TTTC
1 TTTTCTTTTTTTTTAT-TTTTATATTTC
*
31149918 ATATTTCTTTTTTTTTATTTTTTTATTT
1 -T-TTTCTTTTTTTTTATTTTTATATTT
31149946 TATTCCTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
26 5 0.11
27 10 0.22
28 26 0.58
29 4 0.09
ACGTcount: A:0.10, C:0.09, G:0.01, T:0.80
Consensus pattern (27 bp):
TTTTCTTTTTTTTTATTTTTATATTTC
Found at i:31150097 original size:15 final size:14
Alignment explanation
Indices: 31150071--31150109 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
31150061 AATGTTTTAT
*
31150071 AATACTTTTTTAAA
1 AATATTTTTTTAAA
*
31150085 ATTATTATTTTTAAA
1 AATATT-TTTTTAAA
31150100 AATATTTTTT
1 AATATTTTTT
31150110 AAACTTTAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
AATATTTTTTTAAA
Found at i:31150194 original size:14 final size:13
Alignment explanation
Indices: 31150156--31150193 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
31150146 TATATTTTAA
*
31150156 AAATTTATTTTTC
1 AAATTAATTTTTC
31150169 AAATTAATTTTTC
1 AAATTAATTTTTC
31150182 AAATTAATTTTT
1 AAATTAATTTTT
31150194 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (13 bp):
AAATTAATTTTTC
Done.