Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 171 of 186
Found at i:56820996 original size:18 final size:18
Alignment explanation
Indices: 56820970--56821004 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56820960 GTGAAAATTG
*
56820970 TTGGCATGATATAAAAGT
1 TTGGAATGATATAAAAGT
56820988 TTGGAATGATATAAAAG
1 TTGGAATGATATAAAAG
56821005 GATATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.23, T:0.31
Consensus pattern (18 bp):
TTGGAATGATATAAAAGT
Found at i:56821016 original size:3 final size:3
Alignment explanation
Indices: 56821008--56821355 Score: 366
Period size: 3 Copynumber: 114.7 Consensus size: 3
56820998 ATAAAAGGAT
56821008 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56821056 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56821104 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
56821152 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG AGA GTC ATG ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
56821200 AAA ATA A-A ATGC GTGA AT- ATA AAA AGTA ATA GGTAA ATAA ATAA ATA
1 ATA ATA ATA AT-A AT-A ATA ATA ATA A-TA ATA -AT-A AT-A AT-A ATA
* * * *
56821247 A-A AAA AGAA ATA AT- GTA ATA GTA ATGA A-A ATA ATA ATA ATA ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
* * * * * * *
56821291 ATA ATA GTA ATA AAA ATA ACA ATA GTA GTA ATA ATA ATA GTA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56821339 ATA A-A GATA ATA ATA AT
1 ATA ATA -ATA ATA ATA AT
56821356 GTTAAAATTA
Statistics
Matches: 296, Mismatches: 36, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
2 10 0.03
3 264 0.89
4 21 0.07
5 1 0.00
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:56822309 original size:4 final size:4
Alignment explanation
Indices: 56822300--56822331 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
56822290 CAACCAAATA
56822300 AAAC AAAC AAAC AAAC AAAC AAAC AAA- AAAC A
1 AAAC AAAC AAAC AAAC AAAC AAAC AAAC AAAC A
56822332 CAAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:56839142 original size:53 final size:53
Alignment explanation
Indices: 56839062--56839164 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
56839052 CTCCCAATCA
56839062 ATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTT
1 ATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTT
* * *
56839115 ATTTCCTTTTTATTGCATTTGCTATCTTTGATTAATTTATTCATTTCGAG
1 ATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAG
56839165 CTATGCTCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.55
Consensus pattern (53 bp):
ATTTCCTTCTTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTT
Found at i:56839153 original size:27 final size:26
Alignment explanation
Indices: 56839071--56839160 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 26
56839061 AATTTCCTTC
*
56839071 TTATTACATTTGCTATCTTTGATTAAC
1 TTATT-CATTTGCTATCTTTGATTAAT
* * * **
56839098 TTATTCATTTCGAGTTTATTTCCTT--T
1 TTATTCATTT-G-CTATCTTTGATTAAT
56839124 TTATTGCATTTGCTATCTTTGATTAAT
1 TTATT-CATTTGCTATCTTTGATTAAT
56839151 TTATTCATTT
1 TTATTCATTT
56839161 CGAGCTATGC
Statistics
Matches: 47, Mismatches: 11, Indels: 11
0.68 0.16 0.16
Matches are distributed among these distances:
25 7 0.15
26 16 0.34
27 17 0.36
28 7 0.15
ACGTcount: A:0.21, C:0.13, G:0.08, T:0.58
Consensus pattern (26 bp):
TTATTCATTTGCTATCTTTGATTAAT
Found at i:56839655 original size:46 final size:46
Alignment explanation
Indices: 56839588--56839781 Score: 250
Period size: 46 Copynumber: 4.2 Consensus size: 46
56839578 AGATCAAATT
* *
56839588 GATTGAAGAAGTTACAAATCCTATACCCCTT-AGTTGCAGTAGGATA
1 GATTGAAGAAGATACAAATCCTATA-CCCTTGAGTTGCAGTGGGATA
*
56839634 GATTGAAGAAGATACAAATCCTATACCCCTT-AGTTGCAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATA-CCCTTGAGTTGCAGTGGGATA
* * * *
56839680 GATTGAAGATGATACAAAT-CTCATACCCTTGAGTTGTAATGGGATG
1 GATTGAAGAAGATACAAATCCT-ATACCCTTGAGTTGCAGTGGGATA
* *
56839726 GATTGTAGATGATACAAATCCTATACCCTTGAGTTGCAGTGGGATA
1 GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATA
*
56839772 GATGGAAGAA
1 GATTGAAGAA
56839782 ACCAAATTTT
Statistics
Matches: 132, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
45 7 0.05
46 123 0.93
47 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.28
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCTTGAGTTGCAGTGGGATA
Found at i:56840271 original size:44 final size:45
Alignment explanation
Indices: 56840218--56840721 Score: 151
Period size: 44 Copynumber: 10.7 Consensus size: 45
56840208 AGATGGCGGA
56840218 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CCAG
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAG
* ** * ** ** *
56840262 TCTTATCTTCCTGAAGTTGCAGCAGAGCAGACTGAAGAAAGTGAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAG
* * * * *
56840307 TCTTAT-TTCCCTAGAGTTGCAGTGGAACAGATTGAAGCTATGAATTATGGCGG
1 TCTTATCTT-CCTAAAGTTGCAGTGGAGCAGATTGAAGC-------CA-GCCAG
56840360 ATCTTATCTTCCTGAAA-TTGCAGTGGAGCAGATTGAAGCCA-CCAG
1 -TCTTATCTTCCT-AAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAG
* * * * * * ** * *
56840405 CCTTATCTCCCTGAAGTTGCAGCGAAGCAGACTGAAGAAAGCAAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAG
* * * * * *
56840450 TCTTAT-TTCCCTAGAGTTGTAGTGGAACTGATTGAAGCTACAAATTATGGCGAA
1 TCTTATCTT-CCTAAAGTTGCAGTGGAGCAGATTGAAGC--C-----A--GCCAG
* * * * *
56840504 TCCTATCTTCCTGAAGTTGCAGCGGAGCAAATTGAAGCCA-CCAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAG
* * * * * ** * *
56840548 CCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAAGCGAA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAG
** * * * *
56840593 TCTTAT-TTCCCTGCAGTTGCAGTGGAACAGATTAAAGCTACTAATTATGGCGAA
1 TCTTATCTT-CCTAAAGTTGCAGTGGAGCAGATTGAAGC--C-----A--GCCAG
* * *
56840647 TCTTATCTTTCTAAAGTTGCAGTGAAGCAGATTGAAGCCA-TCAG
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAG
* * * * *
56840691 CCTTATCTCCCTGAAGCTGCAGCGGAGCAGA
1 TCTTATCTTCCTAAAGTTGCAGTGGAGCAGA
56840722 CTAAAAAAAG
Statistics
Matches: 331, Mismatches: 91, Indels: 76
0.66 0.18 0.15
Matches are distributed among these distances:
43 2 0.01
44 128 0.39
45 89 0.27
47 3 0.01
52 5 0.02
53 1 0.00
54 95 0.29
55 8 0.02
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (45 bp):
TCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCAGCCAG
Found at i:56840613 original size:45 final size:45
Alignment explanation
Indices: 56840499--56840757 Score: 130
Period size: 44 Copynumber: 5.6 Consensus size: 45
56840489 ACAAATTATG
* * * **
56840499 GCGAATCCTATCTT-CCTGAAGTTGCAGCGGAGCAAATTGAAGCCA
1 GCGAATCTTAT-TTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAA
* * *
56840544 -CCAACCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAA
1 GCGAATCTTATTTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAA
* * * * *
56840588 GCGAATCTTATTTCCCTGCAGTTGCAGTGGAACAGATTAAAGCTACTAATTA
1 GCGAATCTTATTTCCCTGAAGTTGCAGCGGAGCAGACTGAAG-----AA--A
* * * * * **
56840640 TGGCGAATCTTATCTT-TCTAAAGTTGCAGTGAAGCAGATTGAAGCCA
1 --GCGAATCTTAT-TTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAA
* ** * * * *
56840687 TC-AGCCTTATCTCCCTGAAGCTGCAGCGGAGCAGACTAAAAAAA
1 GCGAATCTTATTTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAA
* *
56840731 GCGAATATTATTTCCCTGGAGTTGCAG
1 GCGAATCTTATTTCCCTGAAGTTGCAG
56840758 TGGAATAGAT
Statistics
Matches: 155, Mismatches: 45, Indels: 28
0.68 0.20 0.12
Matches are distributed among these distances:
43 2 0.01
44 62 0.40
45 52 0.34
47 1 0.01
50 2 0.01
52 1 0.01
54 33 0.21
55 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (45 bp):
GCGAATCTTATTTCCCTGAAGTTGCAGCGGAGCAGACTGAAGAAA
Found at i:56840862 original size:143 final size:143
Alignment explanation
Indices: 56840210--56840863 Score: 970
Period size: 143 Copynumber: 4.6 Consensus size: 143
56840200 TAGATCGAAG
* * *
56840210 ATGGCGGATCTTATCTTCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGTCTTATCTTCCTG
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
*
56840275 AAGTTGCAGCAGAGCAGACTGAAGAAAGTGAATCTTATTTCCCTAGAGTTGCAGTGGAACAGATT
66 AAGTTGCAGCAGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTAGAGTTGCAGTGGAACAGATT
**
56840340 GAAGCTATGAATT
131 GAAGCTACAAATT
*
56840353 ATGGCGGATCTTATCTTCCTGAAATTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * *
56840418 AAGTTGCAGC-GAAGCAGACTGAAGAAAGCAAATCTTATTTCCCTAGAGTTGTAGTGGAACTGAT
66 AAGTTGCAGCAG-AGCAGACTGAAGAAAGCGAATCTTATTTCCCTAGAGTTGCAGTGGAACAGAT
56840482 TGAAGCTACAAATT
130 TGAAGCTACAAATT
* * * * *
56840496 ATGGCGAATCCTATCTTCCTGAAGTTGCAGCGGAGCAAATTGAAGCCACCAACCTTATCTCCCTG
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
*
56840561 AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCCCT-GCAGTTGCAGTGGAACAGAT
66 AAGTTGCAGCAGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTAG-AGTTGCAGTGGAACAGAT
* *
56840625 TAAAGCTACTAATT
130 TGAAGCTACAAATT
* * * * *
56840639 ATGGCGAATCTTATCTTTCTAAAGTTGCAGTGAAGCAGATTGAAGCCATCAGCCTTATCTCCCTG
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
* * * * * * *
56840704 AAGCTGCAGCGGAGCAGACTAAAAAAAGCGAATATTATTTCCCTGGAGTTGCAGTGGAATAGATT
66 AAGTTGCAGCAGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTAGAGTTGCAGTGGAACAGATT
56840769 GAAGCTACAAATT
131 GAAGCTACAAATT
* * *
56840782 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGAAGCAAATTGAGGCCACCAGCCTTATCTCCCTG
1 ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
*
56840847 AAGTTGCAGTAGAGCAG
66 AAGTTGCAGCAGAGCAG
56840864 GATGAAATTA
Statistics
Matches: 462, Mismatches: 45, Indels: 8
0.90 0.09 0.02
Matches are distributed among these distances:
142 2 0.00
143 458 0.99
144 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.26
Consensus pattern (143 bp):
ATGGCGGATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTG
AAGTTGCAGCAGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTAGAGTTGCAGTGGAACAGATT
GAAGCTACAAATT
Found at i:56840935 original size:44 final size:44
Alignment explanation
Indices: 56840885--56841116 Score: 125
Period size: 44 Copynumber: 5.2 Consensus size: 44
56840875 CAATTCTTAC
**
56840885 CTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTT
1 CTCCTTGAAGTTCCAGTAGAGTAGATCGAAGCTACAAATCTCTT
* * * * *
56840929 CTCCTTGAAATTACATTAGAGAAGATCGAAGCCAC-AATC-CTT
1 CTCCTTGAAGTTCCAGTAGAGTAGATCGAAGCTACAAATCTCTT
* * * * * *
56840971 ATCTCTATAAAGTTGCAGTAGAGCAGGAT-AAAACTAGACAAA-C-CATAT
1 CTC-CT-TGAAGTTCCAGTAGAGTA-GATCGAAGCT--ACAAATCTC-T-T
* * * * * * ** *
56841019 CTCCCTAAAGTTGCAGTGGAGTAGGTTGAAATTACCAAT-TCTTAT
1 CTCCTTGAAGTTCCAGTAGAGTAGATCGAAGCTACAAATCTC-T-T
* *
56841064 CTCCTTTAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTT
1 CTCCTTGAAGTTCCAGTAGAGTAGATCGAAGCTACAAATCTCTT
56841108 CTCCTTGAA
1 CTCCTTGAA
56841117 ACTATACTGG
Statistics
Matches: 140, Mismatches: 36, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
42 5 0.04
43 6 0.04
44 57 0.41
45 39 0.28
46 26 0.19
47 4 0.03
48 3 0.02
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (44 bp):
CTCCTTGAAGTTCCAGTAGAGTAGATCGAAGCTACAAATCTCTT
Found at i:56842596 original size:8 final size:8
Alignment explanation
Indices: 56842583--56842621 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
56842573 TTATGCTTAT
56842583 TATTATTA
1 TATTATTA
56842591 TATTATTA
1 TATTATTA
*
56842599 TATCATTA
1 TATTATTA
56842607 -ATT-TTA
1 TATTATTA
56842613 TATTATTA
1 TATTATTA
56842621 T
1 T
56842622 TGTATTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 3 0.11
7 5 0.19
8 19 0.70
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATTA
Found at i:56844525 original size:48 final size:49
Alignment explanation
Indices: 56844277--56844630 Score: 175
Period size: 46 Copynumber: 7.5 Consensus size: 49
56844267 TATGTGTGCT
* * *
56844277 AGTGTAAGACATGTCTGGGACAT-GCATCGACCAC-AT-TATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAAGCC
* * * * * * * *
56844323 AGTGTAAGACATATCTGAGACAT-GCATCG-GCA--TTGAGACGAGAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCACGAT-AGATGAAAGCC
* * ** * * * * * *
56844369 AGTGTAAGACATGTTTACGACAT-GCATTGGCCTCGAGATAT-AAAGCT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAAGCC
* * ** * * *
56844416 AGTTTAAGACCTGTCTGGGACATGGCATC-AGCTTG-TTG-TG--TGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAAGCC
* * *
56844460 AGTGTAAGACCTATCTGGGACATGGTATCGA-CACGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAAGCC
* * * * *
56844508 AGTATAAGACCTGTCTGGGACACGGCATCGACCTCGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAAGCC
* * *** **
56844557 AGTGTAAGACCTGTCTAGGACATGACATCGACTTTGAT-G-TGTTAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAAGCC
*
56844604 AGTGTAAGACCGTGTCTGAGACATGGC
1 AGTGTAAGACC-TGTCTGGGACATGGC
56844631 GTCGGCATCT
Statistics
Matches: 231, Mismatches: 63, Indels: 26
0.72 0.20 0.08
Matches are distributed among these distances:
44 30 0.13
45 6 0.03
46 60 0.26
47 43 0.19
48 47 0.20
49 45 0.19
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAAGCC
Found at i:56844569 original size:49 final size:49
Alignment explanation
Indices: 56844457--56844588 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 49
56844447 CTTGTTGTGT
* * *
56844457 GTCAGTGTAAGACCTATCTGGGACATGGTATCGA-CACGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAA
* * * * *
56844505 GCCAGTATAAGACCTGTCTGGGACACGGCATCGACCTCGATATATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAA
* *
56844554 GTCAGTGTAAGACCTGTCTAGGACATGACATCGAC
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
56844589 TTTGATGTGT
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
48 29 0.41
49 41 0.59
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCACGATAGATGAAA
Found at i:56846759 original size:14 final size:14
Alignment explanation
Indices: 56846740--56846766 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56846730 GACATGGGTA
56846740 AGGGGTGTTACATT
1 AGGGGTGTTACATT
56846754 AGGGGTGTTACAT
1 AGGGGTGTTACAT
56846767 ACATGACCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.37, T:0.33
Consensus pattern (14 bp):
AGGGGTGTTACATT
Found at i:56849563 original size:23 final size:22
Alignment explanation
Indices: 56849509--56849585 Score: 86
Period size: 21 Copynumber: 3.5 Consensus size: 22
56849499 TACCTGATCA
** *
56849509 GAATACGACACATAAAGTGCCT
1 GAATACGACACACGAGGTGCCT
* *
56849531 -AAAATGACACACGAGGTGCCT
1 GAATACGACACACGAGGTGCCT
56849552 G-ATACGACACACGAGGTGCCT
1 GAATACGACACACGAGGTGCCT
56849573 GAAATACGACACA
1 G-AATACGACACA
56849586 TAAAGTGTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
21 35 0.78
23 10 0.22
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.14
Consensus pattern (22 bp):
GAATACGACACACGAGGTGCCT
Found at i:56849597 original size:23 final size:23
Alignment explanation
Indices: 56849510--56849597 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 23
56849500 ACCTGATCAG
*
56849510 AATACGACACATAAAGTGCCT-A
1 AATACGACACACAAAGTGCCTGA
* * *
56849532 AA-ATGACACACGAGGTGCCTG-
1 AATACGACACACAAAGTGCCTGA
* *
56849553 -ATACGACACACGAGGTGCCTGA
1 AATACGACACACAAAGTGCCTGA
* *
56849575 AATACGACACATAAAGTGTCTGA
1 AATACGACACACAAAGTGCCTGA
56849598 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
22 2 0.04
23 18 0.34
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.17
Consensus pattern (23 bp):
AATACGACACACAAAGTGCCTGA
Found at i:56850330 original size:23 final size:23
Alignment explanation
Indices: 56850303--56850359 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
56850293 AAATTAGTTA
*
56850303 TTTTATTACAAGTGTA-C-ATAT
1 TTTTATTACAAATGTACCAATAT
56850324 CTATTTATTACAAATGTACCAATAT
1 -T-TTTATTACAAATGTACCAATAT
56850349 TTTTATTACAA
1 TTTTATTACAA
56850360 TTGTCATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
22 1 0.03
23 24 0.77
24 2 0.06
25 4 0.13
ACGTcount: A:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (23 bp):
TTTTATTACAAATGTACCAATAT
Found at i:56850607 original size:3 final size:3
Alignment explanation
Indices: 56850599--56850771 Score: 282
Period size: 3 Copynumber: 58.3 Consensus size: 3
56850589 ATATGAAACC
56850599 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56850647 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
56850695 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- TTA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
56850741 ATA A-A ACT- ATA CTA ATA ATTA ATA ATA ATA A
1 ATA ATA A-TA ATA ATA ATA A-TA ATA ATA ATA A
56850772 AATCTTAGAT
Statistics
Matches: 160, Mismatches: 4, Indels: 12
0.91 0.02 0.07
Matches are distributed among these distances:
2 6 0.04
3 151 0.94
4 3 0.02
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:56856910 original size:26 final size:26
Alignment explanation
Indices: 56856881--56856988 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
56856871 TGGTACAAAT
56856881 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56856907 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56856933 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56856959 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56856985 TGAT
1 TGAT
56856989 GGGAATTTCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56865467 original size:28 final size:29
Alignment explanation
Indices: 56865435--56865490 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
56865425 GAACTTCTCC
56865435 TCTAGTTTTTATGGCTAAACTA-AAACCA
1 TCTAGTTTTTATGGCTAAACTAGAAACCA
* *
56865463 TCTAGTTTTTGTGGCTCAACTAGAAACC
1 TCTAGTTTTTATGGCTAAACTAGAAACC
56865491 TTTTACAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 20 0.80
29 5 0.20
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (29 bp):
TCTAGTTTTTATGGCTAAACTAGAAACCA
Found at i:56865897 original size:19 final size:19
Alignment explanation
Indices: 56865873--56865909 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56865863 AGATGTATGG
56865873 GTAGAAGTAGACCTGTATA
1 GTAGAAGTAGACCTGTATA
* *
56865892 GTAGAAGTGGACTTGTAT
1 GTAGAAGTAGACCTGTAT
56865910 TGATAAAGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (19 bp):
GTAGAAGTAGACCTGTATA
Found at i:56867773 original size:15 final size:17
Alignment explanation
Indices: 56867753--56867785 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
56867743 TCTAAACGAA
56867753 AATACCC-ATTA-ACCC
1 AATACCCGATTACACCC
56867768 AATACCCGATTACACCC
1 AATACCCGATTACACCC
56867785 A
1 A
56867786 TTAAACCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 4 0.25
17 5 0.31
ACGTcount: A:0.39, C:0.39, G:0.03, T:0.18
Consensus pattern (17 bp):
AATACCCGATTACACCC
Found at i:56868835 original size:2 final size:2
Alignment explanation
Indices: 56868828--56868856 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
56868818 ATCCTTCTTT
56868828 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56868857 ATTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56868951 original size:19 final size:20
Alignment explanation
Indices: 56868923--56868999 Score: 63
Period size: 21 Copynumber: 3.9 Consensus size: 20
56868913 ATGTAAAAAA
*
56868923 ATAT-TTATTTTATT-TTTT
1 ATATATTATTTTATTATATT
*
56868941 ATGTATTA-TTTATTATATT
1 ATATATTATTTTATTATATT
56868960 ATATA-TATTTTATTGTATATT
1 ATATATTATTTTA-T-TATATT
* *
56868981 ATTTATTATATTATGTATA
1 ATATATTATTTTAT-TATA
56869000 ATTTTAAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 11 0.23
19 14 0.29
20 1 0.02
21 16 0.33
22 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
ATATATTATTTTATTATATT
Found at i:56869003 original size:19 final size:19
Alignment explanation
Indices: 56868939--56869003 Score: 59
Period size: 19 Copynumber: 3.7 Consensus size: 19
56868929 ATTTTATTTT
*
56868939 TTATGTATTATTTATTATA
1 TTATGTATAATTTATTATA
* * *
56868958 TTATATATATTTTATTGTA
1 TTATGTATAATTTATTATA
56868977 -TA--T-T-ATTTATTATA
1 TTATGTATAATTTATTATA
56868991 TTATGTATAATTT
1 TTATGTATAATTT
56869004 TAAAATTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
14 8 0.23
15 3 0.09
16 1 0.03
17 1 0.03
18 3 0.09
19 19 0.54
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTATGTATAATTTATTATA
Found at i:56869341 original size:11 final size:10
Alignment explanation
Indices: 56869309--56869351 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
56869299 TTTTTTTATT
56869309 TATTTTTT-G
1 TATTTTTTAG
*
56869318 TATTTTTTTG
1 TATTTTTTAG
56869328 TATTTATTTAG
1 TATTT-TTTAG
56869339 TATTATTTTAG
1 TATT-TTTTAG
56869350 TA
1 TA
56869352 AGTTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 8 0.27
10 6 0.20
11 15 0.50
12 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (10 bp):
TATTTTTTAG
Found at i:56869341 original size:21 final size:21
Alignment explanation
Indices: 56869299--56869347 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
56869289 ATGTTCATAA
*
56869299 TTTTTTTATTTATTTTTTGTAT
1 TTTTTTTATTTA-TTTTAGTAT
56869321 TTTTTTGTATTTA-TTTAGTAT
1 TTTTTT-TATTTATTTTAGTAT
*
56869342 TATTTT
1 TTTTTT
56869348 AGTAAGTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 12 0.50
22 6 0.25
23 6 0.25
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (21 bp):
TTTTTTTATTTATTTTAGTAT
Found at i:56869393 original size:18 final size:18
Alignment explanation
Indices: 56869372--56869406 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56869362 ATCTCATAAA
*
56869372 TTATTTTTTATTTTTATG
1 TTATTTATTATTTTTATG
*
56869390 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
56869407 ACATTTGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:56869609 original size:62 final size:63
Alignment explanation
Indices: 56869538--56869657 Score: 138
Period size: 64 Copynumber: 1.9 Consensus size: 63
56869528 CATGAAATGT
* *
56869538 TAATGTATGT-ATATTTAT-GTTATT-TATGATTATATCTACATGAAATGTTAATGTATATTATG
1 TAATGTATGTCATATTTATCATT-TTCTAT-ATTATATCTACATGAAATGTTAAAGTATATTATG
* * * *
56869600 TAATTTATGTCGTTATTTATCATTTTCTATATTATATTTGCATGAAATGTTAAAGTAT
1 TAATGTATGTC-ATATTTATCATTTTCTATATTATATCTACATGAAATGTTAAAGTAT
56869658 GTATCATGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
62 9 0.19
64 34 0.71
65 5 0.10
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (63 bp):
TAATGTATGTCATATTTATCATTTTCTATATTATATCTACATGAAATGTTAAAGTATATTATG
Found at i:56870021 original size:748 final size:748
Alignment explanation
Indices: 56869150--56870646 Score: 2960
Period size: 748 Copynumber: 2.0 Consensus size: 748
56869140 ATTATATCAT
56869150 ATAGTATATTTTTATATATATTAACCATTTTTAAAAAAAATTCTCCTTTATTATTATTATGTTGT
1 ATAGTATATTTTTATATATATTAACCATTTTTAAAAAAAATTCTCCTTTATTATTATTATGTTGT
*
56869215 TTTAAATATTTTATTTTTTAATACCCCATTTTTTAATTGTATTTAGTTTTTATCTTTTTTATTAT
66 TTTAAATATTTTATTTTTTAATACCCCATTTTTTAAATGTATTTAGTTTTTATCTTTTTTATTAT
56869280 TATTTTTATATGTTCATAATTTTTTTATTTATTTTTTGTATTTTTTTGTATTTATTTAGTATTAT
131 TATTTTTATATGTTCATAATTTTTTTATTTATTTTTTGTATTTTTTTGTATTTATTTAGTATTAT
56869345 TTTAGTAAGTTAATTTTATCTCATAAATTATTTTTTATTTTTATGTTATTTATTGTTTTTATACA
196 TTTAGTAAGTTAATTTTATCTCATAAATTATTTTTTATTTTTATGTTATTTATTGTTTTTATACA
56869410 TTTGCATGAAAATTGATTATATATGTTGTTATTCTAAGTTATATTTGCATGAAATATTATTGTAT
261 TTTGCATGAAAATTGATTATATATGTTGTTATTCTAAGTTATATTTGCATGAAATATTATTGTAT
56869475 ATATATTATGTAATTTATATTGTTATATTCATTATTTTCTATGTTGTATTTCGCATGAAATGTTA
326 ATATATTATGTAATTTATATTGTTATATTCATTATTTTCTATGTTGTATTTCGCATGAAATGTTA
56869540 ATGTATGTATATTTATGTTATTTATGATTATATCTACATGAAATGTTAATGTATATTATGTAATT
391 ATGTATGTATATTTATGTTATTTATGATTATATCTACATGAAATGTTAATGTATATTATGTAATT
56869605 TATGTCGTTATTTATCATTTTCTATATTATATTTGCATGAAATGTTAAAGTATGTATCATGAAGT
456 TATGTCGTTATTTATCATTTTCTATATTATATTTGCATGAAATGTTAAAGTATGTATCATGAAGT
56869670 TTATATTATTTAGTATTGAAATCTTGTAATATGTTAAATGCATCATTGTTTAAAAATTTATATTT
521 TTATATTATTTAGTATTGAAATCTTGTAATATGTTAAATGCATCATTGTTTAAAAATTTATATTT
56869735 CATTTAATCCAAAAGATTTTTAAAAATGAGGCAATGCTTTTTTGTATTTAGGAATTCAGGAAGTA
586 CATTTAATCCAAAAGATTTTTAAAAATGAGGCAATGCTTTTTTGTATTTAGGAATTCAGGAAGTA
56869800 GTGCCCTAACATGCTGGGTTGCGATTTCCCGTTTGTCTAAATGTCTAAAGTATCCTTCTAAATAG
651 GTGCCCTAACATGCTGGGTTGCGATTTCCCGTTTGTCTAAATGTCTAAAGTATCCTTCTAAATAG
56869865 ATTTTGTAAATCACGAGATGATTTCACTTACAA
716 ATTTTGTAAATCACGAGATGATTTCACTTACAA
56869898 ATAGTATATTTTTATATATATTAACCATTTTT-AAAAAAATTCTCCTTTATTATTATTATGTTGT
1 ATAGTATATTTTTATATATATTAACCATTTTTAAAAAAAATTCTCCTTTATTATTATTATGTTGT
56869962 TTTAAATATTTTATTTTTTTAATACCCCATTTTTTAAATGTATTTAGTTTTTATCTTTTTTATTA
66 TTTAAATATTTTA-TTTTTTAATACCCCATTTTTTAAATGTATTTAGTTTTTATCTTTTTTATTA
*
56870027 TTTTTTTTATATGTTCATAATTTTTTTATTTATTTTTTGTATTTTTTTGTATTTATTTAGTATTA
130 TTATTTTTATATGTTCATAATTTTTTTATTTATTTTTTGTATTTTTTTGTATTTATTTAGTATTA
56870092 TTTTAGTAAGTTAATTTTATCTCATAAATTATTTTTTATTTTTATGTTATTTATTGTTTTTATAC
195 TTTTAGTAAGTTAATTTTATCTCATAAATTATTTTTTATTTTTATGTTATTTATTGTTTTTATAC
56870157 ATTTGCATGAAAATTGATTATATATGTTGTTATTCTAAGTTATATTTGCATGAAATATTATTGTA
260 ATTTGCATGAAAATTGATTATATATGTTGTTATTCTAAGTTATATTTGCATGAAATATTATTGTA
56870222 TATATATTATGTAATTTATATTGTTATATTCATTATTTTCTATGTTGTATTTCGCATGAAATGTT
325 TATATATTATGTAATTTATATTGTTATATTCATTATTTTCTATGTTGTATTTCGCATGAAATGTT
56870287 AATGTATGTATATTTATGTTATTTATGATTATATCTACATGAAATGTTAATGTATATTATGTAAT
390 AATGTATGTATATTTATGTTATTTATGATTATATCTACATGAAATGTTAATGTATATTATGTAAT
56870352 TTATGTCGTTATTTATCATTTTCTATATTATATTTGCATGAAATGTTAAAGTATGTATCATGAAG
455 TTATGTCGTTATTTATCATTTTCTATATTATATTTGCATGAAATGTTAAAGTATGTATCATGAAG
56870417 TTTATATTATTTAGTATTGAAATCTTGTAATATGTTAAATGCATCATTGTTTAAAAATTTATATT
520 TTTATATTATTTAGTATTGAAATCTTGTAATATGTTAAATGCATCATTGTTTAAAAATTTATATT
56870482 TCATTTAATCCAAAAGATTTTTAAAAATGAGGCAATGCTTTTTTGTATTTAGGAATTCAGGAAGT
585 TCATTTAATCCAAAAGATTTTTAAAAATGAGGCAATGCTTTTTTGTATTTAGGAATTCAGGAAGT
56870547 AGTGCCCTAACATGCTGGGTTGCGATTTCCCGTTTGTCTAAATGTCTAAAGTATCCTTCTAAATA
650 AGTGCCCTAACATGCTGGGTTGCGATTTCCCGTTTGTCTAAATGTCTAAAGTATCCTTCTAAATA
56870612 GATTTTGTAAATCACGAGATGATTTCACTTACAA
715 GATTTTGTAAATCACGAGATGATTTCACTTACAA
56870646 A
1 A
56870647 AGTTTAAGAA
Statistics
Matches: 746, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
747 45 0.06
748 701 0.94
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (748 bp):
ATAGTATATTTTTATATATATTAACCATTTTTAAAAAAAATTCTCCTTTATTATTATTATGTTGT
TTTAAATATTTTATTTTTTAATACCCCATTTTTTAAATGTATTTAGTTTTTATCTTTTTTATTAT
TATTTTTATATGTTCATAATTTTTTTATTTATTTTTTGTATTTTTTTGTATTTATTTAGTATTAT
TTTAGTAAGTTAATTTTATCTCATAAATTATTTTTTATTTTTATGTTATTTATTGTTTTTATACA
TTTGCATGAAAATTGATTATATATGTTGTTATTCTAAGTTATATTTGCATGAAATATTATTGTAT
ATATATTATGTAATTTATATTGTTATATTCATTATTTTCTATGTTGTATTTCGCATGAAATGTTA
ATGTATGTATATTTATGTTATTTATGATTATATCTACATGAAATGTTAATGTATATTATGTAATT
TATGTCGTTATTTATCATTTTCTATATTATATTTGCATGAAATGTTAAAGTATGTATCATGAAGT
TTATATTATTTAGTATTGAAATCTTGTAATATGTTAAATGCATCATTGTTTAAAAATTTATATTT
CATTTAATCCAAAAGATTTTTAAAAATGAGGCAATGCTTTTTTGTATTTAGGAATTCAGGAAGTA
GTGCCCTAACATGCTGGGTTGCGATTTCCCGTTTGTCTAAATGTCTAAAGTATCCTTCTAAATAG
ATTTTGTAAATCACGAGATGATTTCACTTACAA
Found at i:56870089 original size:11 final size:10
Alignment explanation
Indices: 56870057--56870099 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
56870047 TTTTTTTATT
56870057 TATTTTTT-G
1 TATTTTTTAG
*
56870066 TATTTTTTTG
1 TATTTTTTAG
56870076 TATTTATTTAG
1 TATTT-TTTAG
56870087 TATTATTTTAG
1 TATT-TTTTAG
56870098 TA
1 TA
56870100 AGTTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 8 0.27
10 6 0.20
11 15 0.50
12 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (10 bp):
TATTTTTTAG
Found at i:56870089 original size:21 final size:21
Alignment explanation
Indices: 56870009--56870095 Score: 58
Period size: 21 Copynumber: 4.2 Consensus size: 21
56869999 ATGTATTTAG
*
56870009 TTTTTATCTT-TTTTATTATTT
1 TTTTTAT-TTATTTTAGTATTT
* *
56870030 TTTTTA--TATGTTCA-TAATT
1 TTTTTATTTAT-TTTAGTATTT
*
56870049 TTTTTATTTATTTTTTGTATTT
1 TTTTTATTTA-TTTTAGTATTT
*
56870071 TTTTGTATTTA-TTTAGTATTA
1 TTTT-TATTTATTTTAGTATTT
56870092 TTTT
1 TTTT
56870096 AGTAAGTTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
18 1 0.02
19 11 0.21
20 3 0.06
21 22 0.42
22 9 0.17
23 6 0.12
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTTATTTATTTTAGTATTT
Found at i:56870141 original size:18 final size:18
Alignment explanation
Indices: 56870120--56870154 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56870110 ATCTCATAAA
*
56870120 TTATTTTTTATTTTTATG
1 TTATTTATTATTTTTATG
*
56870138 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
56870155 ACATTTGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:56870357 original size:62 final size:63
Alignment explanation
Indices: 56870286--56870405 Score: 138
Period size: 64 Copynumber: 1.9 Consensus size: 63
56870276 CATGAAATGT
* *
56870286 TAATGTATGT-ATATTTAT-GTTATT-TATGATTATATCTACATGAAATGTTAATGTATATTATG
1 TAATGTATGTCATATTTATCATT-TTCTAT-ATTATATCTACATGAAATGTTAAAGTATATTATG
* * * *
56870348 TAATTTATGTCGTTATTTATCATTTTCTATATTATATTTGCATGAAATGTTAAAGTAT
1 TAATGTATGTC-ATATTTATCATTTTCTATATTATATCTACATGAAATGTTAAAGTAT
56870406 GTATCATGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
62 9 0.19
64 34 0.71
65 5 0.10
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.51
Consensus pattern (63 bp):
TAATGTATGTCATATTTATCATTTTCTATATTATATCTACATGAAATGTTAAAGTATATTATG
Found at i:56874114 original size:4 final size:4
Alignment explanation
Indices: 56874105--56874132 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
56874095 GAGTTTACGA
56874105 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
56874133 TAGGAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:56874213 original size:14 final size:14
Alignment explanation
Indices: 56874194--56874223 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56874184 TTATATCAAG
56874194 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
56874208 ACCAATCCAATTCA
1 ACCAATCCAAATCA
56874222 AC
1 AC
56874224 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:56874267 original size:23 final size:23
Alignment explanation
Indices: 56874223--56874267 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
56874213 TCCAATTCAA
* * *
56874223 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
56874246 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
56874268 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:56885543 original size:4 final size:4
Alignment explanation
Indices: 56885534--56885567 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
56885524 AAGTTTACGA
*
56885534 ATTT ATTT ATTT ATTT ATTT ATTTT ATTT TTTT A
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT A
56885568 AGGAAAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:56885549 original size:12 final size:13
Alignment explanation
Indices: 56885534--56885567 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
56885524 AAGTTTACGA
56885534 ATTTATTTA-TTT
1 ATTTATTTATTTT
56885546 ATTTATTTATTTT
1 ATTTATTTATTTT
*
56885559 ATTTTTTTA
1 ATTTATTTA
56885568 AGGAAAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:56885647 original size:14 final size:14
Alignment explanation
Indices: 56885628--56885657 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56885618 TTATATCAAG
56885628 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
56885642 ACCAATCCAATTCA
1 ACCAATCCAAATCA
56885656 AC
1 AC
56885658 ATATTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:56885701 original size:23 final size:23
Alignment explanation
Indices: 56885657--56885701 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
56885647 TCCAATTCAA
* * *
56885657 CATATTTTTAAGATAAATTCATG
1 CATATTTATAAAATAAAGTCATG
*
56885680 CATATTTATAAAATAACGTCAT
1 CATATTTATAAAATAAAGTCAT
56885702 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (23 bp):
CATATTTATAAAATAAAGTCATG
Found at i:56891951 original size:79 final size:81
Alignment explanation
Indices: 56891815--56891999 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
56891805 TTGAATGATG
*
56891815 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
56891879 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
56891894 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
56891956 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
56891974 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56892000 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:56892013 original size:40 final size:40
Alignment explanation
Indices: 56891816--56891999 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
56891806 TGAATGATGT
* * * *
56891816 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
56891856 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
56891896 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
56891934 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
56891975 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
56892000 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:56892021 original size:79 final size:79
Alignment explanation
Indices: 56891868--56892032 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
56891858 GGACTAAGAT
* **
56891868 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
56891933 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
56891947 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
56892010 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
56892026 CCGAAGG
1 CCGAAGG
56892033 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:56900518 original size:45 final size:43
Alignment explanation
Indices: 56900469--56901250 Score: 376
Period size: 45 Copynumber: 17.4 Consensus size: 43
56900459 GTAGATCACC
*
56900469 GATAGCAGATTTGACATTTCTATATTAGACGGGGAGCAGATCGAA
1 GATAGCAGATTTGACA-TTCTGTATTAGAC-GGGAGCAGATCGAA
* * * ** *
56900514 GATAGCAGATCTGACATTCGTGTGTTTACATC-AAAGCAGATCAAA
1 GATAGCAGATTTGACATTC-TGT-ATTAGA-CGGGAGCAGATCGAA
* *
56900559 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACAT-TCTGTATTAGAC-GGGAGCAGATCGAA
* * * ** *
56900604 GATAGCAGATCTGACATTCGTGTGTTTACATC-AAAGCAGATCAAA
1 GATAGCAGATTTGACATTC-TGT-ATTAGA-CGGGAGCAGATCGAA
* * *
56900649 GAT-GACAGATTTGGC-GTCTGTATTAGATGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACATTCTGTATTAGA-CGGGAGCAGATCGAA
* * * * *
56900692 GATAGCAGATCTAACATTCGTGTGTTTACATC-GAAGCAGATCGAA
1 GATAGCAGATTTGACATTC-TGT-ATTAGA-CGGGAGCAGATCGAA
* * * *
56900737 GAT-GACAAATTTGGCATCTTTGTATTAGACGGGGAGCAGATCAAA
1 GATAG-CAGATTTGACAT-TCTGTATTAGAC-GGGAGCAGATCGAA
* * * * * *
56900782 GATAGTAGATCTGACATTCATGTGTTTACATC-GAAGCAGATCAAA
1 GATAGCAGATTTGACATTC-TGT-ATTAGA-CGGGAGCAGATCGAA
* *
56900827 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACAT-TCTGTATTAGAC-GGGAGCAGATCGAA
* * * * *
56900872 GATAGCAGATCTGACATTCATGTGTTTACATC-GAAGCAGATCAAA
1 GATAGCAGATTTGACATTC-TGT-ATTAGA-CGGGAGCAGATCGAA
* * *
56900917 GAT-GACAAATTTGGCGTCTCTGTATTAGACAGGGAGCAGA-CTGAA
1 GATAG-CAGATTTGACAT-TCTGTATTAGAC-GGGAGCAGATC-GAA
* * * *
56900962 GATAGCAGATCTGACATTCGTTTGT-TTACATC-GAAGTAGATCGAA
1 GATAGCAGATTTGACATTC---TGTATTAGA-CGGGAGCAGATCGAA
* * *
56901007 GAT-GACAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAA
1 GATAG-CAGATTTGACAT-TCTGTATTAGAC-GGGAGCAGATCGAA
* * * * **** * *
56901052 GATAGCAGATCTGGCATTCGTGTGTTTACATTAAAGTAGATCAAA
1 GATAGCAGATTTGACATTC-TGT-ATTAGACGGGAGCAGATCGAA
* * *
56901097 GAT-GACAGATTTGTCGTCTTTGTATTAGACCGGGAGCAGATCGAA
1 GATAG-CAGATTTGACAT-TCTGTATTAGA-CGGGAGCAGATCGAA
* * * *
56901142 GATAGCAGATCTGACATTCATGTGTTTACATC-GAAGCAGATCGAA
1 GATAGCAGATTTGACATTC-TGT-ATTAGA-CGGGAGCAGATCGAA
*
56901187 GAT-GACAGATTTGTCATCTCTGTATTAGACGGGGAGCAGATCGAA
1 GATAG-CAGATTTGACAT-TCTGTATTAGAC-GGGAGCAGATCGAA
56901232 GATAGCAGATTTGACATTC
1 GATAGCAGATTTGACATTC
56901251 CTGAGTTACA
Statistics
Matches: 545, Mismatches: 129, Indels: 127
0.68 0.16 0.16
Matches are distributed among these distances:
42 5 0.01
43 32 0.06
44 57 0.10
45 389 0.71
46 54 0.10
47 8 0.01
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (43 bp):
GATAGCAGATTTGACATTCTGTATTAGACGGGAGCAGATCGAA
Found at i:56900614 original size:90 final size:90
Alignment explanation
Indices: 56900491--56901250 Score: 1220
Period size: 90 Copynumber: 8.5 Consensus size: 90
56900481 GACATTTCTA
*
56900491 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
56900556 AAAGATGACAGATTTGGCGTCTCTG
66 AAAGATGACAGATTTGGCGTCTCTG
*
56900581 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
56900646 AAAGATGACAGATTTGGCG--TCTG
66 AAAGATGACAGATTTGGCGTCTCTG
* *
56900669 TATTAGATGGGGAGCAGATCGAAGATAGCAGATCTAACATTCGTGTGTTTACATCGAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
* * * *
56900734 GAAGATGACAAATTTGGCATCTTTG
66 AAAGATGACAGATTTGGCGTCTCTG
* * *
56900759 TATTAGACGGGGAGCAGATCAAAGATAGTAGATCTGACATTCATGTGTTTACATCGAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
56900824 AAAGATGACAGATTTGGCGTCTCTG
66 AAAGATGACAGATTTGGCGTCTCTG
*
56900849 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCATGTGTTTACATCGAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
*
56900914 AAAGATGACAAATTTGGCGTCTCTG
66 AAAGATGACAGATTTGGCGTCTCTG
* * *
56900939 TATTAGACAGGGAGCAGA-CTGAAGATAGCAGATCTGACATTCGTTTGTTTACATCGAAGTAGAT
1 TATTAGACGGGGAGCAGATC-GAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGAT
*
56901003 CGAAGATGACAGATTTGGCGTCTCTG
65 CAAAGATGACAGATTTGGCGTCTCTG
* * ** *
56901029 TATTAGACGGGGAGCAGATCAAAGATAGCAGATCTGGCATTCGTGTGTTTACATTAAAGTAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
* *
56901094 AAAGATGACAGATTTGTCGTCTTTG
66 AAAGATGACAGATTTGGCGTCTCTG
* *
56901119 TATTAGACCGGGAGCAGATCGAAGATAGCAGATCTGACATTCATGTGTTTACATCGAAGCAGATC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
* * *
56901184 GAAGATGACAGATTTGTCATCTCTG
66 AAAGATGACAGATTTGGCGTCTCTG
*
56901209 TATTAGACGGGGAGCAGATCGAAGATAGCAGATTTGACATTC
1 TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTC
56901251 CTGAGTTACA
Statistics
Matches: 620, Mismatches: 46, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
88 82 0.13
89 1 0.00
90 536 0.86
91 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (90 bp):
TATTAGACGGGGAGCAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATC
AAAGATGACAGATTTGGCGTCTCTG
Found at i:56902740 original size:12 final size:12
Alignment explanation
Indices: 56902725--56902778 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 12
56902715 TGTAAAAAAA
*
56902725 TATTTATTTTAT
1 TATTTATTATAT
*
56902737 TATTTTTGTATGTAT
1 TATTTAT-TA--TAT
*
56902752 TATTTACTATAT
1 TATTTATTATAT
56902764 TATTTATTATAT
1 TATTTATTATAT
56902776 TAT
1 TAT
56902779 GTATAATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 23 0.68
13 1 0.03
14 2 0.06
15 8 0.24
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (12 bp):
TATTTATTATAT
Found at i:56903126 original size:11 final size:10
Alignment explanation
Indices: 56903094--56903136 Score: 52
Period size: 11 Copynumber: 4.2 Consensus size: 10
56903084 TTTGTTTATT
56903094 TATTTTTT-G
1 TATTTTTTAG
*
56903103 TATTTTTTTG
1 TATTTTTTAG
56903113 TATTTATTTAG
1 TATTT-TTTAG
56903124 TATTATTTTAG
1 TATT-TTTTAG
56903135 TA
1 TA
56903137 AGTTAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 8 0.27
10 6 0.20
11 15 0.50
12 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (10 bp):
TATTTTTTAG
Found at i:56903126 original size:21 final size:19
Alignment explanation
Indices: 56903094--56903132 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
56903084 TTTGTTTATT
*
56903094 TATTTTTTGTATTTTTTTG
1 TATTTTTTGTATTATTTTG
56903113 TATTTATTTAGTATTATTTT
1 TATTT-TTT-GTATTATTTT
56903133 AGTAAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (19 bp):
TATTTTTTGTATTATTTTG
Found at i:56903180 original size:18 final size:18
Alignment explanation
Indices: 56903157--56903191 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56903147 ATCTCATAAA
*
56903157 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
56903175 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
56903192 ATATTTGCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:56903346 original size:119 final size:112
Alignment explanation
Indices: 56903221--56903446 Score: 265
Period size: 119 Copynumber: 2.0 Consensus size: 112
56903211 TTATATATGT
* * * *
56903221 TGTTATTCTAAG-TTATATTTGCATGAAATATTATTGTATATATATTATGTAATTTATATTGTTA
1 TGTTATT-TAAGATTATATCTACATGAAATATTA----ATATATATTATGAAATTTATATCGTTA
* * * *
56903285 TATTCATTATTTTCTATGTTGTATTTCGCATGAAATGTTAATGTATGTATATTTA
61 T-TT-ATCATTTTCTATATTATATTT-GCATGAAATGTTAAAGTATGTATATTTA
* * * *
56903340 TGTTATTTATGATTATATCTACATGAAATGTTAATGTATATTATGAAATTTATGTCGTTATTTAT
1 TGTTATTTAAGATTATATCTACATGAAATATTAATATATATTATGAAATTTATATCGTTATTTAT
56903405 CATTTTCTATATTATATTTGCATGAAATGTTAAAGTATGTAT
66 CATTTTCTATATTATATTTGCATGAAATGTTAAAGTATGTAT
56903447 CATGAAGTTT
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
112 22 0.23
113 18 0.19
114 2 0.02
115 24 0.26
118 3 0.03
119 25 0.27
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.51
Consensus pattern (112 bp):
TGTTATTTAAGATTATATCTACATGAAATATTAATATATATTATGAAATTTATATCGTTATTTAT
CATTTTCTATATTATATTTGCATGAAATGTTAAAGTATGTATATTTA
Found at i:56904481 original size:42 final size:42
Alignment explanation
Indices: 56904434--56904522 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 42
56904424 TCCTAATTGG
* * *
56904434 GAAAATAGTTCCCTTATTCTAATAAACTACTAATATATAAAA
1 GAAAATAGTTCCATTATTCTAATAAACTACTAAAAGATAAAA
*
56904476 GAAAATAGTTCCATTATTCTAATAAACTATTAAAAGATAAAA
1 GAAAATAGTTCCATTATTCTAATAAACTACTAAAAGATAAAA
*
56904518 TAAAA
1 GAAAA
56904523 ATGTTCCTAG
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:0.52, C:0.11, G:0.06, T:0.31
Consensus pattern (42 bp):
GAAAATAGTTCCATTATTCTAATAAACTACTAAAAGATAAAA
Found at i:56904569 original size:19 final size:18
Alignment explanation
Indices: 56904547--56904586 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
56904537 TGAATAAAAC
56904547 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
56904566 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
56904584 TTA
1 TTA
56904587 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:56905564 original size:15 final size:15
Alignment explanation
Indices: 56905544--56905575 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
56905534 CACATCATCT
56905544 TCTGTAAGAATGATA
1 TCTGTAAGAATGATA
56905559 TCTGTAAGAATGATA
1 TCTGTAAGAATGATA
56905574 TC
1 TC
56905576 ATCGACATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (15 bp):
TCTGTAAGAATGATA
Found at i:56907354 original size:42 final size:43
Alignment explanation
Indices: 56907299--56907394 Score: 169
Period size: 42 Copynumber: 2.3 Consensus size: 43
56907289 TCCTAATTGG
*
56907299 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA-
1 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAT
56907341 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAT
1 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAT
56907384 AAAAATA-TTCC
1 AAAAATAGTTCC
56907395 TAAAATATGA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
42 45 0.87
43 7 0.13
ACGTcount: A:0.52, C:0.15, G:0.03, T:0.30
Consensus pattern (43 bp):
AAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAAT
Found at i:56907408 original size:43 final size:42
Alignment explanation
Indices: 56907299--56907409 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
56907289 TCCTAATTGG
* * * *
56907299 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 AAAAATAGTTCCCTAAATATAATAAACTACTAAAAGATAAAA
* * *
56907341 AAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 AAAAATAGTTCCCTAAATATAATAAACTACTAAAAGATAAAA
56907383 TAAAAATA-TT-CCTAAAATATGAATAAA
1 -AAAAATAGTTCCCT-AAATAT-AATAAA
56907410 ACTTATCTAC
Statistics
Matches: 62, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
41 3 0.05
42 46 0.74
43 13 0.21
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.30
Consensus pattern (42 bp):
AAAAATAGTTCCCTAAATATAATAAACTACTAAAAGATAAAA
Found at i:56907434 original size:19 final size:18
Alignment explanation
Indices: 56907412--56907451 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
56907402 TGAATAAAAC
56907412 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
56907431 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
56907449 TTA
1 TTA
56907452 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:56914854 original size:35 final size:35
Alignment explanation
Indices: 56914808--56914880 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
56914798 AGAAAAATTG
56914808 AAAGAATTAGAGGTGGATACAAAACATTTTTAGTC
1 AAAGAATTAGAGGTGGATACAAAACATTTTTAGTC
*
56914843 AAAGAATTAGAGGTGGATACCAAACATTTTTAGTC
1 AAAGAATTAGAGGTGGATACAAAACATTTTTAGTC
56914878 AAA
1 AAA
56914881 ATAATTATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (35 bp):
AAAGAATTAGAGGTGGATACAAAACATTTTTAGTC
Found at i:56915693 original size:42 final size:42
Alignment explanation
Indices: 56915634--56915721 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
56915624 TGTTTTGGAT
56915634 ACTCCAAAACTTGAAGAGACTGAAAACGAATCTGTTGTTGCA
1 ACTCCAAAACTTGAAGAGACTGAAAACGAATCTGTTGTTGCA
56915676 ACTCCAAAACTTGAAGAGACTGAAAACGAATCTGTTGTTGCA
1 ACTCCAAAACTTGAAGAGACTGAAAACGAATCTGTTGTTGCA
56915718 ACTC
1 ACTC
56915722 GAGAAAGACA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (42 bp):
ACTCCAAAACTTGAAGAGACTGAAAACGAATCTGTTGTTGCA
Found at i:56924149 original size:27 final size:26
Alignment explanation
Indices: 56924089--56924150 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
56924079 ATAAGACTCC
56924089 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
56924115 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
56924143 ATTTTATT
1 ATTTTATT
56924151 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:56924185 original size:20 final size:19
Alignment explanation
Indices: 56924145--56924186 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
56924135 ATTTTAGGAT
*
56924145 TTTATTTTAATTATCTTTA
1 TTTATTTTAATTATCTATA
56924164 TTTATCTTTAATTAAT-TATA
1 TTTAT-TTTAATT-ATCTATA
56924184 TTT
1 TTT
56924187 CACTACGGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 13 0.65
21 2 0.10
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTATTTTAATTATCTATA
Found at i:56935199 original size:62 final size:62
Alignment explanation
Indices: 56935123--56935245 Score: 219
Period size: 62 Copynumber: 2.0 Consensus size: 62
56935113 TATCCATTAC
*
56935123 CTGCCCTCTTGCTTTGGGGAGTGCAATGGAGTCTCTGTTCTGATCTTACCTAAACCTGATAT
1 CTGCCCTCTTGCTTTGGGGAGTGCAATGGAGTCTCCGTTCTGATCTTACCTAAACCTGATAT
* *
56935185 CTGCCTTCTTGCTTTGGTGAGTGCAATGGAGTCTCCGTTCTGATCTTACCTAAACCTGATA
1 CTGCCCTCTTGCTTTGGGGAGTGCAATGGAGTCTCCGTTCTGATCTTACCTAAACCTGATA
56935246 AACCAGAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (62 bp):
CTGCCCTCTTGCTTTGGGGAGTGCAATGGAGTCTCCGTTCTGATCTTACCTAAACCTGATAT
Found at i:56942870 original size:14 final size:13
Alignment explanation
Indices: 56942830--56942870 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 13
56942820 ATATCAATCC
56942830 TCAATATTCAATTT
1 TCAAT-TTCAATTT
56942844 TCAATTTCGAATTT
1 TCAATTTC-AATTT
56942858 TCAATTCTCAATT
1 TCAATT-TCAATT
56942871 ATATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.12
14 20 0.80
15 2 0.08
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (13 bp):
TCAATTTCAATTT
Found at i:56945013 original size:34 final size:34
Alignment explanation
Indices: 56944970--56945038 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
56944960 ACCATGGAGG
*
56944970 AATGAGATGAAGCCAGCGATCAACCCCAACGTGT
1 AATGAGATGAAACCAGCGATCAACCCCAACGTGT
*
56945004 AATGAGATGAAATCAGCGATCAACCCCAACGTGT
1 AATGAGATGAAACCAGCGATCAACCCCAACGTGT
56945038 A
1 A
56945039 TGTCAAGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.16
Consensus pattern (34 bp):
AATGAGATGAAACCAGCGATCAACCCCAACGTGT
Found at i:56945941 original size:115 final size:115
Alignment explanation
Indices: 56945739--56945946 Score: 407
Period size: 115 Copynumber: 1.8 Consensus size: 115
56945729 TCAGCCATAT
*
56945739 ATATATTTTCATAACAACTTATCTTGATTTCAGACTATTTCATATTTAAGCTTAAATAACCAAAG
1 ATATATTTTCATAACAACTTATCTTGATTTCAGACTATTTCATATTTAAGCTTAAATAAACAAAG
56945804 TATTTGAAATATCATCTTTATGCAAATACAGCCATATCTCTGTAACCTAA
66 TATTTGAAATATCATCTTTATGCAAATACAGCCATATCTCTGTAACCTAA
56945854 ATATATTTTCATAACAACTTATCTTGATTTCAGACTATTTCATATTTAAGCTTAAATAAACAAAG
1 ATATATTTTCATAACAACTTATCTTGATTTCAGACTATTTCATATTTAAGCTTAAATAAACAAAG
56945919 TATTTGAAATATCATCTTTATGCAAATA
66 TATTTGAAATATCATCTTTATGCAAATA
56945947 GTACACATGA
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 92 1.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.39
Consensus pattern (115 bp):
ATATATTTTCATAACAACTTATCTTGATTTCAGACTATTTCATATTTAAGCTTAAATAAACAAAG
TATTTGAAATATCATCTTTATGCAAATACAGCCATATCTCTGTAACCTAA
Found at i:56946183 original size:7 final size:7
Alignment explanation
Indices: 56946171--56946199 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
56946161 TATACAGAAA
56946171 TCACTTG
1 TCACTTG
56946178 TCACTTG
1 TCACTTG
56946185 TCACTTG
1 TCACTTG
56946192 TCACTTG
1 TCACTTG
56946199 T
1 T
56946200 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:56946233 original size:31 final size:31
Alignment explanation
Indices: 56946198--56946377 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
56946188 CTTGTCACTT
* * *
56946198 GTAGCCAAAGCTACCACTATTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
56946229 GTAGCCGAAGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56946260 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
56946291 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
56946322 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
56946353 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
56946378 TGTCATTTGT
Statistics
Matches: 138, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 3 0.02
31 133 0.96
32 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:56946459 original size:50 final size:51
Alignment explanation
Indices: 56946353--56946481 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
56946343 CACTGATCAG
* * *
56946353 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
56946404 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
56946454 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
56946482 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:56948770 original size:22 final size:21
Alignment explanation
Indices: 56948745--56948793 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
56948735 CTTGTACTTA
56948745 AATTATTAACATAATTAATTTT
1 AATTATT-ACATAATTAATTTT
**
56948767 AATTAATTTTATAATTAATTTT
1 AATT-ATTACATAATTAATTTT
*
56948789 GATTA
1 AATTA
56948794 ATTTTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (21 bp):
AATTATTACATAATTAATTTT
Found at i:56948771 original size:10 final size:10
Alignment explanation
Indices: 56948756--56948798 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
56948746 ATTATTAACA
56948756 TAATTAATTT
1 TAATTAATTT
56948766 TAATTAATTTT
1 TAATTAA-TTT
56948777 ATAATTAATTT
1 -TAATTAATTT
*
56948788 TGATTAATTT
1 TAATTAATTT
56948798 T
1 T
56948799 TTATTTTCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 17 0.57
11 6 0.20
12 7 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TAATTAATTT
Found at i:56948794 original size:22 final size:22
Alignment explanation
Indices: 56948755--56948798 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
56948745 AATTATTAAC
56948755 ATAATTAATTTTAATTAATTTT
1 ATAATTAATTTTAATTAATTTT
*
56948777 ATAATTAATTTTGATTAATTTT
1 ATAATTAATTTTAATTAATTTT
56948799 TTATTTTCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATAATTAATTTTAATTAATTTT
Found at i:56950551 original size:43 final size:43
Alignment explanation
Indices: 56950464--56950572 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 43
56950454 TTTACATGTG
* * * **
56950464 AGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTA
1 AGACCATGTCTGAGACATTGGCATCGTATTGAGATAACAAGTA
*
56950507 AGACCATGTCTGAGACATTGGCATCG-ATATGTGATAACAAGTA
1 AGACCATGTCTGAGACATTGGCATCGTAT-TGAGATAACAAGTA
* *
56950550 AGACCATATCTGAGATA-TGGCAT
1 AGACCATGTCTGAGACATTGGCAT
56950573 TGTACGAGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 8 0.14
43 49 0.86
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (43 bp):
AGACCATGTCTGAGACATTGGCATCGTATTGAGATAACAAGTA
Found at i:56952479 original size:22 final size:22
Alignment explanation
Indices: 56952454--56952497 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
56952444 CTAAGTTATT
56952454 CTTGCATTACAATTGTAAGGTA
1 CTTGCATTACAATTGTAAGGTA
56952476 CTTGCATTACAATTGTAAGGTA
1 CTTGCATTACAATTGTAAGGTA
56952498 ACTAATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (22 bp):
CTTGCATTACAATTGTAAGGTA
Found at i:56970548 original size:18 final size:19
Alignment explanation
Indices: 56970513--56970555 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
56970503 CTTTTAAATG
* *
56970513 ATATTTTTATTAGATAATA
1 ATATTTTAATAAGATAATA
56970532 ATATTTTAATAAG-TAATA
1 ATATTTTAATAAGATAATA
56970550 ATATTT
1 ATATTT
56970556 ATTAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATATTTTAATAAGATAATA
Found at i:56975844 original size:95 final size:98
Alignment explanation
Indices: 56975696--56975874 Score: 283
Period size: 95 Copynumber: 1.8 Consensus size: 98
56975686 TGAAACAACT
* *
56975696 GAAATTTATATGTTTTTATTTTTTATTTTTTGGCTAAAACAAGTATAACAC-AT-AAAAAATTAA
1 GAAATTTATATGTTTTTATTTTTTACTTTTTGGCTAAAACAAGTATAAAACAATAAAAAAATTAA
*
56975759 CTGAATTAACCAAATTAATTGAACAAAATAACC
66 CCGAATTAACCAAATTAATTGAACAAAATAACC
* *
56975792 GAAATTTATATGTTTTT-TTTTTTGCTTTTTGGTTAAAACAAGTATAAAACATATAAAAAAATTA
1 GAAATTTATATGTTTTTATTTTTTACTTTTTGGCTAAAACAAGTATAAAACA-ATAAAAAAATTA
56975856 ACCGAATTAACCAAATTAA
65 ACCGAATTAACCAAATTAA
56975875 CCGAATTTAA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
95 29 0.39
96 17 0.23
97 2 0.03
98 27 0.36
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (98 bp):
GAAATTTATATGTTTTTATTTTTTACTTTTTGGCTAAAACAAGTATAAAACAATAAAAAAATTAA
CCGAATTAACCAAATTAATTGAACAAAATAACC
Found at i:56975863 original size:9 final size:9
Alignment explanation
Indices: 56975851--56975881 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56975841 CATATAAAAA
56975851 AATTAACCG
1 AATTAACCG
*
56975860 AATTAACCA
1 AATTAACCG
56975869 AATTAACCG
1 AATTAACCG
56975878 AATT
1 AATT
56975882 TAATATGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.19, G:0.06, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:56975874 original size:98 final size:96
Alignment explanation
Indices: 56975696--56975874 Score: 279
Period size: 98 Copynumber: 1.8 Consensus size: 96
56975686 TGAAACAACT
* *
56975696 GAAATTTATATGTTTTTATTTTTTATTTTTTGGCTAAAACAAGTATAACACATAAAAAATTAACT
1 GAAATTTATATGTTTTTATTTTTTACTTTTTGGCTAAAACAAGTATAACACATAAAAAATTAACC
56975761 GAATTAACCAAATTAATTGAACAAAATAACC
66 GAATTAACCAAATTAATTGAACAAAATAACC
* * *
56975792 GAAATTTATATGTTTTT-TTTTTTGCTTTTTGGTTAAAACAAGTATAAAACATATAAAAAAATTA
1 GAAATTTATATGTTTTTATTTTTTACTTTTTGGCTAAAACAAGTAT--AACACAT-AAAAAATTA
56975856 ACCGAATTAACCAAATTAA
63 ACCGAATTAACCAAATTAA
56975875 CCGAATTTAA
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
95 25 0.33
96 17 0.23
97 6 0.08
98 27 0.36
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (96 bp):
GAAATTTATATGTTTTTATTTTTTACTTTTTGGCTAAAACAAGTATAACACATAAAAAATTAACC
GAATTAACCAAATTAATTGAACAAAATAACC
Found at i:56977804 original size:16 final size:16
Alignment explanation
Indices: 56977783--56977833 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
56977773 TTAATCACTT
56977783 TAATATTAAATTAATA
1 TAATATTAAATTAATA
*
56977799 TAATATT-TATTAATA
1 TAATATTAAATTAATA
*
56977814 TTAAATATTAGATTTAATA
1 -T-AATATTA-AATTAATA
56977833 T
1 T
56977834 TAAATATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.25
16 8 0.29
17 6 0.21
18 1 0.04
19 6 0.21
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:56977971 original size:37 final size:37
Alignment explanation
Indices: 56977909--56977979 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
56977899 GATAATCACT
*
56977909 TTAATATTAAATTAATAAAATACTATTAAGATAAACA
1 TTAATATTAAATTAATAAAATACTATTAAAATAAACA
56977946 TTAA-ATTAAATTTAATAATAA-ACTATTAAAATAA
1 TTAATATTAAA-TTAATAA-AATACTATTAAAATAA
56977980 TATTATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 6 0.19
37 23 0.74
38 2 0.06
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.37
Consensus pattern (37 bp):
TTAATATTAAATTAATAAAATACTATTAAAATAAACA
Found at i:56983998 original size:22 final size:22
Alignment explanation
Indices: 56983955--56983998 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56983945 AGATTTAAAT
* * *
56983955 ACTTTTTTTAATATTAATTATA
1 ACTTATTTTAATATAAAATATA
56983977 ACTTATTTTAATATAAAATATA
1 ACTTATTTTAATATAAAATATA
56983999 TTTTTTGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (22 bp):
ACTTATTTTAATATAAAATATA
Found at i:56985025 original size:19 final size:21
Alignment explanation
Indices: 56984975--56985013 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56984965 CCTAATCGAG
*
56984975 TCGAGTGAAATGAAATTTGAC
1 TCGAGTCAAATGAAATTTGAC
56984996 TCGAGTCAAAT-AAATTTG
1 TCGAGTCAAATGAAATTTG
56985014 TTCGAGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (21 bp):
TCGAGTCAAATGAAATTTGAC
Found at i:56985029 original size:20 final size:21
Alignment explanation
Indices: 56984975--56985029 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
56984965 CCTAATCGAG
* *
56984975 TCGAGTGAAATGAAATTTGAC
1 TCGAGTCAAATTAAATTTGAC
*
56984996 TCGAGTCAAA-TAAATTTG-T
1 TCGAGTCAAATTAAATTTGAC
*
56985015 TCGAGTTAAATTAAA
1 TCGAGTCAAATTAAA
56985030 AAAATCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 9 0.31
20 11 0.38
21 9 0.31
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (21 bp):
TCGAGTCAAATTAAATTTGAC
Found at i:56999138 original size:30 final size:31
Alignment explanation
Indices: 56999084--56999164 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 31
56999074 AATTTTATAT
* *
56999084 TAAAAATGAT-AAAATTATACTTTAACCCTC
1 TAAAAATAATAAAAATTATAATTTAACCCTC
* *
56999114 TAAAAATAATAAAAATT-TAATTTAATCCTT
1 TAAAAATAATAAAAATTATAATTTAACCCTC
* * *
56999144 TAAAACTTATAAAAAATATAA
1 TAAAAATAATAAAAATTATAA
56999165 ACTATTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 33 0.79
31 9 0.21
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (31 bp):
TAAAAATAATAAAAATTATAATTTAACCCTC
Found at i:57000247 original size:169 final size:169
Alignment explanation
Indices: 56999968--57000474 Score: 978
Period size: 169 Copynumber: 3.0 Consensus size: 169
56999958 TATCTTTATT
56999968 AAATAATTATGGTATTATTATATAGATGAATTAAATTTTGGATAGGAAATTTTATCAAATCAGTG
1 AAATAATTATGGTATTATTATATAGATGAATTAAATTTTGGATAGGAAATTTTATCAAATCAGTG
57000033 ATTAATTGTGGTATAAAGACTAAATTGTAAAAATGGTAAAAATTAATTGCTATAAAATTTTAATT
66 ATTAATTGTGGTATAAAGACTAAATTGTAAAAATGGTAAAAATTAATTGCTATAAAATTTTAATT
57000098 ACTAAAGGACTAAAATAGTAATTAAACCAATGTCTAAAA
131 ACTAAAGGACTAAAATAGTAATTAAACCAATGTCTAAAA
57000137 AAATAATTATGGTATTATTATATAGATGAATTAAATTTTGGATAGGAAATTTTATCAAATCAGTG
1 AAATAATTATGGTATTATTATATAGATGAATTAAATTTTGGATAGGAAATTTTATCAAATCAGTG
57000202 ATTAATTGTGGTATAAAGACTAAATTGTAAAAATGGTAAAAATTAATTGCTATAAAATTTTAATT
66 ATTAATTGTGGTATAAAGACTAAATTGTAAAAATGGTAAAAATTAATTGCTATAAAATTTTAATT
57000267 ACTAAAGGACTAAAATAGTAATTAAACCAATGTCTAAAA
131 ACTAAAGGACTAAAATAGTAATTAAACCAATGTCTAAAA
57000306 AAATAATTATGGTATTATTATATAGATGAATTAAATTTTGGATAGGAAATTTTATCAAATCAGTG
1 AAATAATTATGGTATTATTATATAGATGAATTAAATTTTGGATAGGAAATTTTATCAAATCAGTG
* * * *
57000371 ATTAATTGTGGTATAAAGACTAAATTGTAAAAATAGTAAAAATTAGTTACTATAAATTTTTAATT
66 ATTAATTGTGGTATAAAGACTAAATTGTAAAAATGGTAAAAATTAATTGCTATAAAATTTTAATT
57000436 ACTAAAGGACTAAAATAGTAATTAAACCAATGTCTAAAA
131 ACTAAAGGACTAAAATAGTAATTAAACCAATGTCTAAAA
57000475 TGGAAAATAA
Statistics
Matches: 334, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 334 1.00
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (169 bp):
AAATAATTATGGTATTATTATATAGATGAATTAAATTTTGGATAGGAAATTTTATCAAATCAGTG
ATTAATTGTGGTATAAAGACTAAATTGTAAAAATGGTAAAAATTAATTGCTATAAAATTTTAATT
ACTAAAGGACTAAAATAGTAATTAAACCAATGTCTAAAA
Found at i:57007699 original size:42 final size:42
Alignment explanation
Indices: 57007582--57007745 Score: 220
Period size: 42 Copynumber: 3.9 Consensus size: 42
57007572 TACCGTACCA
* * *
57007582 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
57007624 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * *
57007667 ATGCCATATCCCTGATATGGTCTTAGACGAAATCTTATATAG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
57007709 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
57007746 GTAACCCTAA
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 68 0.65
43 37 0.35
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:57007712 original size:85 final size:84
Alignment explanation
Indices: 57007582--57007745 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 84
57007572 TACCGTACCA
* * * * *
57007582 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCC-ATAGCCCAGATATGGTC
57007647 TTACACGAAATCTCATATCG
65 TTACACGAAATCTCATATCG
* * * * *
57007667 ATGCCATATCCCTGATATGGTCTTAGACGAAATCTTATATAGATGCCATATCCTAGATATGGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATAGCCCAGATATGGTCT
*
57007732 TACACGTAATCTCA
66 TACACGAAATCTCA
57007746 GTAACCCTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 28 0.41
85 40 0.59
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (84 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATAGATGCCATAGCCCAGATATGGTCT
TACACGAAATCTCATATCG
Found at i:57009881 original size:24 final size:24
Alignment explanation
Indices: 57009854--57009903 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
57009844 CAATTTTTTC
57009854 AATTTAGCCCTTAACCCAAAAATT
1 AATTTAGCCCTTAACCCAAAAATT
57009878 AATTTAGCCCTTAACCCAAAAATT
1 AATTTAGCCCTTAACCCAAAAATT
57009902 AA
1 AA
57009904 CTTGCTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.44, C:0.24, G:0.04, T:0.28
Consensus pattern (24 bp):
AATTTAGCCCTTAACCCAAAAATT
Found at i:57013624 original size:116 final size:116
Alignment explanation
Indices: 57013420--57013647 Score: 456
Period size: 116 Copynumber: 2.0 Consensus size: 116
57013410 TAGAATGACT
57013420 ATTTGTTGTAAATTGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGG
1 ATTTGTTGTAAATTGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGG
57013485 AATTTCCCGGTTGAGCATTTGGAATAGAACGATACGAATAATCTATTGTGA
66 AATTTCCCGGTTGAGCATTTGGAATAGAACGATACGAATAATCTATTGTGA
57013536 ATTTGTTGTAAATTGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGG
1 ATTTGTTGTAAATTGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGG
57013601 AATTTCCCGGTTGAGCATTTGGAATAGAACGATACGAATAATCTATT
66 AATTTCCCGGTTGAGCATTTGGAATAGAACGATACGAATAATCTATT
57013648 AATTGGTCGC
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 112 1.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (116 bp):
ATTTGTTGTAAATTGCAAATTGAAAAAGGACTATGAATAAATTTGTAACATGTTGGAAAGTGAGG
AATTTCCCGGTTGAGCATTTGGAATAGAACGATACGAATAATCTATTGTGA
Found at i:57013726 original size:49 final size:49
Alignment explanation
Indices: 57013647--57013789 Score: 207
Period size: 49 Copynumber: 2.9 Consensus size: 49
57013637 AATAATCTAT
*
57013647 TAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA
1 TAATTGCTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA
* * * *
57013696 TAACTT-CTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGA
1 TAA-TTGCTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA
* *
57013745 TAATTGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTAC
1 TAATTGCTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
57013790 TAGATAGCCT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
48 2 0.02
49 78 0.95
50 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (49 bp):
TAATTGCTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGA
Found at i:57013839 original size:98 final size:97
Alignment explanation
Indices: 57013647--57013839 Score: 228
Period size: 98 Copynumber: 2.0 Consensus size: 97
57013637 AATAATCTAT
* * *
57013647 TAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCTCGCATGTG
1 TAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCTCACAAGTG
* * * *
57013712 TAGTACTAAGTGCAGGCTACTACGTGTATCGGA
66 TAGAAATAAGTGCAGGCAACTA-GAGTATCGGA
* * * *
57013745 TAATTGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACTAGATAGCCTTGTCTACAAG
1 TAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA-ACTTCTC-ACAAG
*
57013810 TGT-GAAAATATGTGCAGGCAACT-GAGTATC
64 TGTAG-AAATAAGTGCAGGCAACTAGAGTATC
57013840 AATTATTATT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
98 54 0.68
99 6 0.08
100 20 0.25
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (97 bp):
TAATTGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCTCACAAGTG
TAGAAATAAGTGCAGGCAACTAGAGTATCGGA
Found at i:57017102 original size:14 final size:14
Alignment explanation
Indices: 57017083--57017110 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57017073 TATTTACCTT
57017083 CGATCAATATTATC
1 CGATCAATATTATC
57017097 CGATCAATATTATC
1 CGATCAATATTATC
57017111 TTTATCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CGATCAATATTATC
Found at i:57018155 original size:15 final size:15
Alignment explanation
Indices: 57018135--57018177 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
57018125 TATTAGAAAT
57018135 AAATAGATATTATAA
1 AAATAGATATTATAA
57018150 AAATAGA-A--AT--
1 AAATAGATATTATAA
57018160 AAATAGATATTATAA
1 AAATAGATATTATAA
57018175 AAA
1 AAA
57018178 GAAACTAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 7 0.30
11 1 0.04
12 2 0.09
13 2 0.09
14 1 0.04
15 10 0.43
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGATATTATAA
Found at i:57018156 original size:25 final size:25
Alignment explanation
Indices: 57018128--57018177 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
57018118 AAATATTTAT
57018128 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
57018153 TAGAAATAAATAGATATTATAAAAA
1 TAGAAATAAATAGATATTATAAAAA
57018178 GAAACTAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (25 bp):
TAGAAATAAATAGATATTATAAAAA
Found at i:57024146 original size:21 final size:20
Alignment explanation
Indices: 57024112--57024150 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
57024102 AAACTTGTAT
57024112 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAAC-TTCATA
* *
57024133 ATCTATTAAGAAACTTCA
1 ATCTATCAACAAACTTCA
57024151 AAATACACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAACTTCATA
Found at i:57027174 original size:47 final size:47
Alignment explanation
Indices: 57027120--57027216 Score: 133
Period size: 47 Copynumber: 2.1 Consensus size: 47
57027110 TTAGGATTTT
* * *
57027120 ATGTGATGGATGTGAACAT-ACGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGA-ATATATGTGATAAGGCCGAATGGCCA
* *
57027167 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
57027214 ATG
1 ATG
57027217 CGAAACGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
Found at i:57027279 original size:46 final size:46
Alignment explanation
Indices: 57027190--57027280 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
57027180 GAACATGAAT
* * * *
57027190 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
57027236 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
57027281 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:57027473 original size:37 final size:37
Alignment explanation
Indices: 57027423--57027494 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
57027413 GGAAATATAT
* *
57027423 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
*
57027460 TCCGGGTAAGACCCGATAACTTCATGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACATGTGGAGATTT
57027495 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACATGTGGAGATTTTG
Found at i:57046780 original size:19 final size:19
Alignment explanation
Indices: 57046744--57046780 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
57046734 TTTCAAACCC
*
57046744 CAAGATTAAACAATAAAAG
1 CAAGATTAAACAAGAAAAG
*
57046763 CAAGATTAAATAAGAAAA
1 CAAGATTAAACAAGAAAA
57046781 CATTTCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.11, T:0.16
Consensus pattern (19 bp):
CAAGATTAAACAAGAAAAG
Found at i:57048762 original size:21 final size:21
Alignment explanation
Indices: 57048728--57048778 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
57048718 TTATTTTCAG
* *
57048728 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCCTCTTCTGCAGCAA
* *
57048749 CAATTTCCTCTTCTGCAGCAG
1 CAACTTCCTCTTCTGCAGCAA
57048770 CAACTTCCT
1 CAACTTCCT
57048779 TCTCAAAGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (21 bp):
CAACTTCCTCTTCTGCAGCAA
Found at i:57049624 original size:107 final size:105
Alignment explanation
Indices: 57049456--57049652 Score: 295
Period size: 107 Copynumber: 1.9 Consensus size: 105
57049446 AAGTATTGTG
* * * * *
57049456 CCTACATTAATTTTTTCCCTTAACAATAGAATTTATTTGACACATTTTGTCTAGGGGGACTGTGG
1 CCTACATAAATTTTTTCCCTTAACAATAGAATGTATTAGACACATTCTGTCTAGGGGGACTGTAG
57049521 TGCTGTGAGTGGAGGACTTTAGCCTTGGTGAAGTATTACA
66 TGCTGTGAGTGGAGGACTTTAGCCTTGGTGAAGTATTACA
* * *
57049561 CCTACATCAAATTTTCTTCCCTTGACAGTAGAATGTATTAGACACATTCTGTCTAGGGTGACTGT
1 CCTACAT-AAATTTT-TTCCCTTAACAATAGAATGTATTAGACACATTCTGTCTAGGGGGACTGT
*
57049626 AGTGTTGTGAGTGGAGGACTTTAGCCT
64 AGTGCTGTGAGTGGAGGACTTTAGCCT
57049653 GCAGTTGACA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 7 0.09
106 6 0.07
107 68 0.84
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (105 bp):
CCTACATAAATTTTTTCCCTTAACAATAGAATGTATTAGACACATTCTGTCTAGGGGGACTGTAG
TGCTGTGAGTGGAGGACTTTAGCCTTGGTGAAGTATTACA
Found at i:57069471 original size:22 final size:23
Alignment explanation
Indices: 57069446--57069491 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
57069436 CAACCAAATC
57069446 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
57069468 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
57069491 A
1 A
57069492 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:57069497 original size:23 final size:23
Alignment explanation
Indices: 57069453--57069497 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
57069443 ATCAATTCAA
*
57069453 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
57069476 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
57069498 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:57082133 original size:92 final size:94
Alignment explanation
Indices: 57081922--57082231 Score: 293
Period size: 92 Copynumber: 3.3 Consensus size: 94
57081912 TTGTGTGTTG
* *
57081922 GTGTAAGACATGTCTGGGACATGCATTGGCCACATTATG-AGAGCCAGTGTAAGACCATGTCT-G
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGTAGAGCCAGTGTAAGACCATGTCTGG
* * *
57081985 AACATGGCATTGACATTGAGACGAGA-G-GT-A
66 GACATGGCATCGGC--T--GACGAGATGTGTCA
* * *
57082015 GTGTAAGACATGTCCGGGACAT-CATCGGCCTCAAGATGTA-AGCCAGTGTAAGA-CATGTCTGG
1 GTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGTAGAGCCAGTGTAAGACCATGTCTGG
57082077 GACAT-GCATCGGCT-ACGAGATGTGTCA
66 GACATGGCATCGGCTGACGAGATGTGTCA
*
57082104 GTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGATATGTGAGAGCTAGTGTAAGACCATGT
1 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACA-ATATGT-AGAGCCAGTGTAAGACCATGT
* * ** *
57082168 TTGGGACATGGCATCGG-TGTCGATTTCGATACTCA
62 CTGGGACATGGCATCGGCTGACGAGAT-G-T-GTCA
57082203 GTGTAAGACCATGTCTGGGACATGGCATC
1 GTGTAAGA-CATGTCTGGGACAT-GCATC
57082232 AGCATTATAT
Statistics
Matches: 183, Mismatches: 17, Indels: 28
0.80 0.07 0.12
Matches are distributed among these distances:
86 6 0.03
87 1 0.01
88 2 0.01
89 10 0.05
90 13 0.07
91 16 0.09
92 41 0.22
93 23 0.13
94 12 0.07
95 14 0.08
96 11 0.06
97 1 0.01
98 1 0.01
99 32 0.17
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (94 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGTAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCTGACGAGATGTGTCA
Found at i:57082222 original size:49 final size:51
Alignment explanation
Indices: 57081922--57082231 Score: 210
Period size: 45 Copynumber: 6.6 Consensus size: 51
57081912 TTGTGTGTTG
* * *
57081922 GTGTAAGA-CATGTCTGGGACAT-GCATTGGC-CACAT-TATGAGAGC-CA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGCTCA
* * * ** * * *
57081968 GTGTAAGACCATGTCT-GAACATGGCATTGACATTGAGA--CGAGAGGT-A
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGCTCA
* * *
57082015 GTGTAAGA-CATGTCCGGGACAT--CATCGGCCTCA-AGATGT-A-AGC-CA
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGATATGTGAGAGCTCA
*
57082060 GTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GAGATGT----G-TCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGC-ACAGATATGTGAGAGCTCA
57082104 GTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGCT-A
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGCTCA
* ** *
57082154 GTGTAAGACCATGTTTGGGACATGGCATCGGTGTC-GAT-T-TCGATA-CTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGATATGT-GAGAGCTCA
57082203 GTGTAAGACCATGTCTGGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
57082232 AGCATTATAT
Statistics
Matches: 214, Mismatches: 25, Indels: 47
0.75 0.09 0.16
Matches are distributed among these distances:
44 11 0.05
45 48 0.22
46 48 0.22
47 33 0.15
48 4 0.02
49 33 0.15
50 35 0.16
51 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (51 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGCTCA
Found at i:57086066 original size:43 final size:43
Alignment explanation
Indices: 57086005--57086090 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
57085995 CCGAATCCGA
57086005 TAGCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGCAACG
1 TAGCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGCAACG
*
57086048 TAGCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGTAACG
1 TAGCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGCAACG
57086091 GGGTAAGCAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.51, C:0.20, G:0.16, T:0.13
Consensus pattern (43 bp):
TAGCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGCAACG
Found at i:57086483 original size:40 final size:40
Alignment explanation
Indices: 57086438--57086629 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 40
57086428 ATAACCACAA
* *
57086438 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
57086478 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * * *
57086518 ACACAAATGCCTTCGGGTCTTAGCTCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * ** * * *
57086558 GCATAAATGCCTTCGGGACTTAGTCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
57086598 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
57086630 CATTCAAATG
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 131 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:57086523 original size:80 final size:80
Alignment explanation
Indices: 57086439--57086628 Score: 206
Period size: 80 Copynumber: 2.4 Consensus size: 80
57086429 TAACCACAAG
* * * * *
57086439 CACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CACAAATGCCTTCGGGTCTTAACCCGGATAAAAGC-ACTAGCACAAATGCCTTCGGGACTTAGCC
57086503 CGGATATATCAACTCA
65 CGGATATATCAACTCA
* * * * *
57086519 CACAAATGCCTTCGGGTCTTAGCTCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGTCC
1 CACAAATGCCTTCGGGTCTTAACCCGGATAAAAGCACTAGCACAAATGCCTTCGGGACTTAGCCC
*
57086584 GGATAAAATC-ACT-A
66 GGAT-ATATCAACTCA
* * *
57086598 GCATAAATGCCTTCGGGACTTAGCCCGGATA
1 -CACAAATGCCTTCGGGTCTTAACCCGGATA
57086629 TCATTCAAAT
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
79 1 0.01
80 85 0.91
81 7 0.08
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CACAAATGCCTTCGGGTCTTAACCCGGATAAAAGCACTAGCACAAATGCCTTCGGGACTTAGCCC
GGATATATCAACTCA
Found at i:57093434 original size:41 final size:41
Alignment explanation
Indices: 57093377--57093458 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
57093367 GAATCCGATA
*
57093377 GCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGTAACG
1 GCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGCAACG
57093418 GCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGCAACG
1 GCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGCAACG
57093459 TGGTAAGCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.51, C:0.21, G:0.17, T:0.11
Consensus pattern (41 bp):
GCTAACGAACAAAATCTATAAAACAGAGAGCCAAAGCAACG
Found at i:57093851 original size:40 final size:40
Alignment explanation
Indices: 57093806--57093997 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
57093796 ATAACCACAA
* * *
57093806 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
57093846 GCACAAATGCCTTCGGGTCTTAGGCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
57093886 GCACAAATGCCTTCGAGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * * *
57093926 GCATAAATGCCTTCGGGACTTAGTCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
57093966 ACATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
57093998 CATTCAAATG
Statistics
Matches: 135, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 130 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:57093934 original size:80 final size:81
Alignment explanation
Indices: 57093789--57093996 Score: 224
Period size: 80 Copynumber: 2.6 Consensus size: 81
57093779 TCGGAATTTA
* * * * * * * *
57093789 GCCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGCACAAA
1 GCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCACAAA
*
57093853 TGCCTTCGGGTCTTAG
66 TGCCTTCGGGACTTAG
* * * * *
57093869 GCCGGAT-ATATCAACTCGCACAAATGCCTTCGAGTCTTAGCCCGGATAAAATC-ACTAGCATAA
1 GCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCACAA
57093932 ATGCCTTCGGGACTTAG
65 ATGCCTTCGGGACTTAG
* * * *
57093949 TCCGGATAAAATCACTAACATAAATGCCTTCGGGACTTAGCCCGGATA
1 GCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
57093997 TCATTCAAAT
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
79 2 0.02
80 95 0.91
81 7 0.07
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (81 bp):
GCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCAACTAGCACAAA
TGCCTTCGGGACTTAG
Found at i:57104533 original size:21 final size:22
Alignment explanation
Indices: 57104507--57104548 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
57104497 GTGTATTTTG
57104507 ATGTTTAATGG-TAGA-AAATGC
1 ATGTTT-ATGGTTAGAGAAATGC
57104528 ATGTTTATGGTTAGAGAAATG
1 ATGTTTATGGTTAGAGAAATG
57104549 ACTTTTACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (22 bp):
ATGTTTATGGTTAGAGAAATGC
Found at i:57111776 original size:25 final size:24
Alignment explanation
Indices: 57111748--57111838 Score: 109
Period size: 25 Copynumber: 3.8 Consensus size: 24
57111738 CTCTTTTAAT
57111748 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTG-TA
57111773 AACTGGGGCAAAG-CCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTT--GTA
* *
57111798 AACTAGGGCAAAGCCC--TTT-TC
1 AACTGGGGCAAAGCCCTTTTTGTA
57111819 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
57111839 AGCACTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
21 16 0.28
23 2 0.03
24 10 0.17
25 27 0.47
26 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTTTGTA
Found at i:57112231 original size:27 final size:27
Alignment explanation
Indices: 57112043--57112237 Score: 275
Period size: 27 Copynumber: 7.2 Consensus size: 27
57112033 GGGCAAAATG
* * * *
57112043 GTAATT-TAACCCCACAAGGGTATCTCG
1 GTAATTCT-ACCCTACAGGGGTATTTCA
57112070 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57112097 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
57112124 GTAATTCTACCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
57112151 GTAATTTTACCCTACATGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57112178 GCAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
57112205 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
57112232 ATAATT
1 GTAATT
57112238 TTGTAAATCG
Statistics
Matches: 151, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
27 150 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:57112252 original size:27 final size:27
Alignment explanation
Indices: 57112222--57112590 Score: 133
Period size: 27 Copynumber: 13.6 Consensus size: 27
57112212 TACCCTACAG
*
57112222 GGGTATTTCAATAATTTTGTAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
*** *
57112249 GGGTAAAACAGTAATTCTGTAAATC-A
1 GGGTATTTCAGTAATTTTGTAAATCGA
*
57112275 GGGGTACTTT-GGTAATTTT-TACAAGTCGA
1 -GGGTA-TTTCAGTAATTTTGTA-AA-TCGA
**
57112304 GGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
* * *
57112331 GGGTATTTTAGTAATTTTGCAAA-CTAA
1 GGGTATTTCAGTAATTTTGTAAATC-GA
** * ***
57112358 GGGTATTTTGGTTATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
57112384 GGGGTATTTTGGTAATTTTACAAA-CCA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
* ** * *
57112411 GGGGAATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
** ** *
57112439 GGGTATTTTGGTAATTTTACAAGTCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
***
57112466 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTCAGTAATTTTGTAAATCGA
** * ** * *
57112492 GGGGTATTTTGGTACTTTTACAAGTCAA
1 -GGGTATTTCAGTAATTTTGTAAATCGA
* ***
57112520 GGGTATTTTAGTAATTTCACAAAT-GAA
1 GGGTATTTCAGTAATTTTGTAAATCG-A
* ** * *
57112547 GTGTATTTTGGTAATTTTATAAGTCGA
1 GGGTATTTCAGTAATTTTGTAAATCGA
*
57112574 GGGTATTTCAATAATTT
1 GGGTATTTCAGTAATTT
57112591 CACAAATCAG
Statistics
Matches: 272, Mismatches: 54, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
26 7 0.03
27 241 0.89
28 22 0.08
29 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTGTAAATCGA
Found at i:57112265 original size:81 final size:81
Alignment explanation
Indices: 57112095--57112266 Score: 206
Period size: 81 Copynumber: 2.1 Consensus size: 81
57112085 AGGGGTATTT
* **
57112095 CAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAAGGGTATTTCGGTAATTTTA
1 CAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTTTA
** ***
57112160 CCCTACATGGGTATTT
66 CAATACATGGGTAAAA
* *
57112176 CAGCAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAATAATTTTG
1 CAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAA-TTT-
57112241 TA-AAT-CGA-GGGTAAAA
64 TACAATAC-ATGGGTAAAA
57112257 CAGTAATTCT
1 CAGTAATTCT
57112267 GTAAATCAGG
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
81 70 0.91
82 5 0.06
83 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (81 bp):
CAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTTTA
CAATACATGGGTAAAA
Found at i:57112469 original size:108 final size:108
Alignment explanation
Indices: 57112269--57112698 Score: 495
Period size: 108 Copynumber: 4.0 Consensus size: 108
57112259 GTAATTCTGT
* ** * * *
57112269 AAATCAGGGGTACTTTGGTAATTTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAAATCGAGG
1 AAATCAGGGGTATTTTGGTAA-TTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAACCAAGG
* * * ** *
57112333 GTATTTTAGTAATTTTGCAA-ACTAAGGGTATTTTGGTTATTTCAC
64 GTATTTTAGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTCAC
* * **
57112378 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGAATTTTGGTAATTTTGTAAACCAAGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGT
*
57112443 ATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAC
66 ATTTTAGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAC
* ** * * ** *
57112486 AAATCAGGGGTATTTTGGTACTTTTACAAGTCAAGGGTATTTTAGTAATTTCACAAATGAAGTGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGT
* * *
57112551 ATTTTGGTAATTTTATAAGTCGAGGGTATTTCAATAATTTCAC
66 ATTTTAGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAC
* * * *
57112594 AAATCAGGGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGGGGT
1 AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGT
* * * *
57112659 ATTTTAGTAATTTTACAAATTGAGGGCATTTTAGTAATTT
66 ATTTTAGTAATTTTACAAGTCGAGGGTATTTCAGTAATTT
57112699 GGTAAACTAA
Statistics
Matches: 269, Mismatches: 50, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
108 247 0.92
109 22 0.08
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (108 bp):
AAATCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAAGGGT
ATTTTAGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAC
Found at i:57112604 original size:27 final size:27
Alignment explanation
Indices: 57112269--57112678 Score: 391
Period size: 27 Copynumber: 15.1 Consensus size: 27
57112259 GTAATTCTGT
*
57112269 AAATCAGGGGTACTTTGGTAATTTTTAC
1 AAATCAGGGGTATTTTGGTAA-TTTTAC
* **
57112297 AAGTC-GAGGGTATTTCAGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
57112324 AAATC-GAGGGTATTTTAGTAATTTTGC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * *
57112351 AAA-CTAAGGGTATTTTGGTTATTTCAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
57112378 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * **
57112405 AAACCAGGGGAATTTTGGTAATTTTGT
1 AAATCAGGGGTATTTTGGTAATTTTAC
* *
57112432 AAACCAAGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* ** *
57112459 AAGTC-GAGGGTATTTCAGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
*
57112486 AAATCAGGGGTATTTTGGTACTTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * * *
57112513 AAGTCAAGGGTATTTTAGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* * * *
57112540 AAATGAAGTGTATTTTGGTAATTTTAT
1 AAATCAGGGGTATTTTGGTAATTTTAC
* *** *
57112567 AAGTC-GAGGGTATTTCAATAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
*
57112594 AAATCAGGGGTATTTTGGTAATTTCAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
57112621 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* *
57112648 AAACCAGGGGTATTTTAGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
57112675 AAAT
1 AAAT
57112679 TGAGGGCATT
Statistics
Matches: 311, Mismatches: 61, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 290 0.93
28 19 0.06
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:57126809 original size:23 final size:20
Alignment explanation
Indices: 57126765--57126809 Score: 54
Period size: 23 Copynumber: 2.1 Consensus size: 20
57126755 ATTAGATAAT
*
57126765 TAAATAAATTAATGCACGAA
1 TAAATAAATTAATGCACAAA
57126785 TAAATAAATCTAATATGCACAAA
1 TAAATAAAT-T-A-ATGCACAAA
57126808 TA
1 TA
57126810 CTAAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 1 0.05
23 10 0.48
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.27
Consensus pattern (20 bp):
TAAATAAATTAATGCACAAA
Found at i:57128796 original size:149 final size:153
Alignment explanation
Indices: 57128594--57128877 Score: 398
Period size: 150 Copynumber: 1.9 Consensus size: 153
57128584 TCTCATTAAA
* * * **
57128594 AAAAATACTATTTTTCTTAAAGGCTAAAGCTTTTACTTTGAAGTAGTT-AAAAAAAATAAAAAAT
1 AAAAATACTATTTTTCTTAAAGACTAAAACCTTTACTTTGAAAAAGTTAAAAAAAAATAAAAAAT
* * *
57128658 TTGTTTTAAAATTTTAAAATTTTCTTTAAAATACCTAAAAAAACATATTTTTA-TT-TTT-AAAA
66 TTGTTTTAAAAATTTAAAATTTCCTTTAAAATAACT-AAAAAACATATTTTTATTTCTTTCAAAA
57128720 TCTAAAATTTCTCCTTTTTTATAT
130 TCTAAAATTTCTCCTTTTTTATAT
* * * * *
57128744 AAAAA-ACTGTTTTTCTTAAAGATTAAAACCTTTACTTTGAAAAAGTTGAAAAAAAATCAAAACT
1 AAAAATACTATTTTTCTTAAAGACTAAAACCTTTACTTTGAAAAAGTTAAAAAAAAATAAAAAAT
*
57128808 TTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACTAAAAAACATATTTTTATTTCTTTCAAAAT
66 TTGTTTTAAAAATTTAAAATTTCCTTTAAAATAACTAAAAAACATATTTTTATTTCTTTCAAAAT
57128873 CTAAA
131 CTAAA
57128878 CTCTCATTGT
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
149 51 0.44
150 53 0.45
151 3 0.03
152 10 0.09
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (153 bp):
AAAAATACTATTTTTCTTAAAGACTAAAACCTTTACTTTGAAAAAGTTAAAAAAAAATAAAAAAT
TTGTTTTAAAAATTTAAAATTTCCTTTAAAATAACTAAAAAACATATTTTTATTTCTTTCAAAAT
CTAAAATTTCTCCTTTTTTATAT
Found at i:57128811 original size:150 final size:145
Alignment explanation
Indices: 57128489--57128885 Score: 405
Period size: 149 Copynumber: 2.7 Consensus size: 145
57128479 ACCTTATTAC
* * * * * *
57128489 GAAATAGTT-AAAAAAATTAAAACATTGTTTTAAAATTTT-AAACTTTCCTTAAAATGACTTAAA
1 GAAAAAGTTAAAAAAAATAAAAACTTTGTTTTAAAATTTTAAAATTTTCTTTAAAAT-ACCTAAA
* *
57128552 AAAA-ATAGATTTTTAGTTTTCAAAATAT-AAACTCTCATTAAAAAAAATACTATTTTTCTTAAA
65 AAAACAT--ATTTTTAGTTTTTAAAATCTAAAACTCTCATTAAAAAAAATACTATTTTTCTTAAA
* * *
57128615 GGCTAAAGCTTTTACTTT
128 GACTAAAACCTTTACTTT
** *
57128633 GAAGTAGTTAAAAAAAATAAAAAATTTGTTTTAAAATTTTAAAATTTTCTTTAAAATACCTAAAA
1 GAAAAAGTTAAAAAAAATAAAAACTTTGTTTTAAAATTTTAAAATTTTCTTTAAAATACCTAAAA
** * *
57128698 AAACATATTTTTA-TTTTTAAAATCTAAAATTTCTCCTTTTTTATATAAAAA-ACTGTTTTTCTT
66 AAACATATTTTTAGTTTTTAAAATCTAAAA---CT-C-TCATTA-AAAAAAATACTATTTTTCTT
*
57128761 AAAGATTAAAACCTTTACTTT
125 AAAGACTAAAACCTTTACTTT
* * * * *
57128782 GAAAAAGTTGAAAAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATAACT-AA
1 GAAAAAGTT-AAAAAAAATAAAAACTTTGTTTTAAAATTTTAAAATTTTCTTTAAAATACCTAAA
*
57128846 AAAACATATTTTTATTTCTTTCAAAATCT-AAACTCTCATT
65 AAAACATATTTTTAGTT-TTT-AAAATCTAAAACTCTCATT
57128886 GTTTTTTGAA
Statistics
Matches: 212, Mismatches: 27, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
143 10 0.05
144 18 0.08
145 37 0.17
146 19 0.09
147 3 0.01
148 3 0.01
149 55 0.26
150 54 0.25
151 6 0.03
152 7 0.03
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (145 bp):
GAAAAAGTTAAAAAAAATAAAAACTTTGTTTTAAAATTTTAAAATTTTCTTTAAAATACCTAAAA
AAACATATTTTTAGTTTTTAAAATCTAAAACTCTCATTAAAAAAAATACTATTTTTCTTAAAGAC
TAAAACCTTTACTTT
Done.