Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 14 of 207
Found at i:4537669 original size:1 final size:1
Alignment explanation
Indices: 4537606--4537654 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
4537596 GTTTAGATTC
* * * * *
4537606 AAAAAAAACAAAAAACAAAAAAACAAAAAAACAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4537655 TGAAAGTGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.90, C:0.08, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:4538760 original size:14 final size:16
Alignment explanation
Indices: 4538732--4538763 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4538722 ACCTAAGTGA
4538732 TAAAAAAAGACCATTC
1 TAAAAAAAGACCATTC
4538748 TAAAAAAA-A-CATTC
1 TAAAAAAAGACCATTC
4538762 TA
1 TA
4538764 CATACATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 1 0.06
16 8 0.50
ACGTcount: A:0.59, C:0.16, G:0.03, T:0.22
Consensus pattern (16 bp):
TAAAAAAAGACCATTC
Found at i:4539145 original size:132 final size:132
Alignment explanation
Indices: 4538903--4539557 Score: 1051
Period size: 132 Copynumber: 5.0 Consensus size: 132
4538893 CTACATTAAC
* *
4538903 AGTGGAGCAGATCAAAGACGGTGAATCTTATTTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
4538968 CAAGCCTTGTCTCCCTAAGCAGCAACGAAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGCAGCGAAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
4539033 GT
131 GT
*
4539035 AGTGGAGTAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
4539100 CAAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTGAAGCTTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGCAGCGAAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
4539165 GT
131 GT
*
4539167 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
4539232 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAAATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGCAGCGAAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
4539297 GT
131 GT
*
4539299 AGTGGAGCAGATTGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
4539364 CAAGCCTTGTCTCCCTAAGTAGCAGCGGAGAAGGTTGAAGATTGTAAATCTTATTTCCCTAAGCA
66 CAAGCCTTGTCTCCCTAAGCAGCAGCGAAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
4539429 GT
131 GT
* * * **
4539431 AGTGGAGTAGATCGAAGACGGCGAATCTTATCTTTCCAAAATAGTGGGAAATAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * * *
4539496 CAAGCCTTATCTCCCTGAGCAGTAGC-AGAGAAGGTTGAAGATTATAGATTTTATCTCCCTAA
66 CAAGCCTTGTCTCCCTAAGCAGCAGCGA-AGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
4539558 AGTTACAGTG
Statistics
Matches: 485, Mismatches: 37, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 485 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTAAGCAGCAGCGAAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:4539195 original size:44 final size:44
Alignment explanation
Indices: 4539014--4539463 Score: 156
Period size: 44 Copynumber: 10.2 Consensus size: 44
4539004 GAAGATTGTA
* * *
4539014 AATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGTG
1 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCG
* * ** *
4539058 AATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACC
1 AATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCG
* * * * * * * * * *
4539101 AAGCCTTGTCTCCCTGAGCAGCAGCGAAGAAGGTTGAAG-CTTG-T
1 AA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGAC-GGCG
*
4539145 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
1 A-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCG
* * ** *
4539190 AATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACC
1 AATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCG
* * * * * * * * * ** *
4539233 AAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAAATTG-T
1 AA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCG
*
4539277 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGTG
1 A-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCG
* * ** *
4539322 AATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACC
1 AATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCG
* * * * * * * ** **
4539365 AAGCCTTGTCTCCCTAAGTAGCAGCGGAGAAGGTTGAAGATTGTA
1 AA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCG
* * *
4539410 AATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCG
1 AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCG
4539454 AATCTTATCT
1 AATCTTATCT
4539464 TTCCAAAATA
Statistics
Matches: 280, Mismatches: 97, Indels: 58
0.64 0.22 0.13
Matches are distributed among these distances:
42 12 0.04
43 28 0.10
44 210 0.75
45 24 0.09
46 6 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
AATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCG
Found at i:4539720 original size:84 final size:85
Alignment explanation
Indices: 4539632--4540272 Score: 377
Period size: 89 Copynumber: 7.4 Consensus size: 85
4539622 AAACCTCAGA
* * *
4539632 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGCATCAAGTCTTATCTCCCTGAAGTTGCAGT
4539695 GGAGCAGACTAAGTAAGCAAG
66 GGAGCAGACTAAG-AAGCAAG
* * * *
4539716 TCTTATC-CTCCTAAAGCTGCAGTGGGGCAGACTGAAG-ATGGCAAGTCTTATCTCCCTGAAGTT
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGA-T-TAGCAT--CAAGTCTTATCTCCCTGAAGTT
* * * *
4539779 GCAATGGAGTAGA-TTA-AAGCCGATAA
61 GCAGTGGAGCAGACTAAGAAG-C-A-AG
* * * * * * *
4539805 TCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAGAACCTC-AGATCTTATCTCTCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAG--CATCAAG-TCTTATCTCCCTGAAGTTGC
* * * * *
4539869 AG-AGAGCAGA-T-CGCATCTAG
63 AGTGGAGCAGACTAAGAAGCAAG
* * * *
4539889 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAG-CATCAAGTCTTATCTC-CCTGAAGTTGC
* *
4539953 AGTGGGGCAGACTGAAGATGACAAG
63 AGTGGAGCAGACT-AAGAAG-CAAG
* * * *
4539978 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGAT-AA-TCCTATCTCCCTAAAGTTG
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT--AG-C-ATCAAGTCTTATCTCCCTGAAGTTG
** * * *
4540041 CAGTGGAGTGGATTAA-AACCTTAAA
62 CAGTGGAGCAGACTAAGAAGC--AAG
* * * *
4540066 TCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCATCAAATCTTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGCATCAAGTCTTATCTCCCTGAAGTTGCAGT
*
4540129 GGAGCAGACTAAGTAAGTAAG
66 GGAGCAGACTAAG-AAGCAAG
* * * * *
4540150 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGCAATTCTTATCTTCCTAAAGTT
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGA-T-TAGCAT--CAAGTCTTATCTCCCTGAAGTT
* * *
4540213 GCAGTGGAGTAGA-TTA-AAGCCGATAA
61 GCAGTGGAGCAGACTAAGAAG-C-A-AG
* *
4540239 TCTTATCTCTTTGAAGTTGCAGTGGAGCGGATTA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA
4540273 AAACCTTAGA
Statistics
Matches: 424, Mismatches: 88, Indels: 87
0.71 0.15 0.15
Matches are distributed among these distances:
82 2 0.00
83 8 0.02
84 116 0.27
85 23 0.05
86 12 0.03
87 26 0.06
88 56 0.13
89 171 0.40
90 9 0.02
91 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (85 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAGCATCAAGTCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTAAGAAGCAAG
Found at i:4539737 original size:44 final size:43
Alignment explanation
Indices: 4539546--4540390 Score: 425
Period size: 44 Copynumber: 19.5 Consensus size: 43
4539536 ATTATAGATT
* * * *
4539546 TTATCTCCCTAAAGTTACAGTGGACCAGA-TTA-AAGCCGATAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTC
* ** * * *
4539590 CTATCTCCCTGAAGTTGTGGTGGAGC-GAATTAA-AACCTCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTAAGAAGC-AAG-TC
* * * * * *
4539634 TTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
4539674 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTC
* * * *
4539718 TTATC-CTCCTAAAGCTGCAGTGGGGCAGACTGAAGATGGCAAGTC
1 TTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTC
* * * *
4539763 TTATCTCCCTGAAGTTGCAATGGAGTAGA-TTA-AAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTC
* * * * * * *
4539807 CTATCTCCCTAAAGTTGCATTGGAGCGGA-TTAGAACCTCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TC
* * * * * *
4539851 TTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
4539891 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTC
* *
4539935 TTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGACAAGTC
1 TTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CAAGTC
* * *
4539980 TTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTA-AAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTC
* * ** * * *
4540024 CTATCTCCCTAAAGTTGCAGTGGAGTGGATTAA-AACCTTAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--AAGTC
* * * * * * *
4540068 TTATCTCTCTAAAGTTGCAG-AGAGCAGA-T-CGCATCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
*
4540108 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTC
* * *
4540152 TTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAATTC
1 TTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTC
* * * * *
4540197 TTATCTTCCTAAAGTTGCAGTGGAGTAGA-TTA-AAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTC
** * * * *
4540241 TTATCTCTTTGAAGTTGCAGTGGAGCGGATTAA-AACCTTAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TC
** * * * * * *
4540285 TTATCTCTTTGAAGTTGCAG-AGAACAGA-T-CGCATCTAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
* * * *
4540325 TTATCTCACTGAAGTTGCAGTGAAGCATACTAAATAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCAAGTC
4540369 TTATC-CTCCTGAAGTTGCAGTG
1 TTATCTC-CCTGAAGTTGCAGTG
4540391 AGGCGGACTG
Statistics
Matches: 617, Mismatches: 134, Indels: 100
0.73 0.16 0.12
Matches are distributed among these distances:
40 85 0.14
41 34 0.06
42 23 0.04
43 40 0.06
44 320 0.52
45 113 0.18
46 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTC
Found at i:4539777 original size:89 final size:88
Alignment explanation
Indices: 4539670--4540221 Score: 390
Period size: 89 Copynumber: 6.3 Consensus size: 88
4539660 GATCGCATCT
*
4539670 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATC-CTCCTAAAGCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCTC-CCTAAAGTT
*
4539734 GCAGTGGGGCAGACTGAAGATGGCA
64 GCAGTGGAGCAGACTGAAGATGGCA
* * * * *
4539759 AGTCTTATCTCCCTGAAGTTGCAATGGAGTAGA-TTA-AAGCCGATAATCCTATCTCCCTAAAGT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTATCTCCCTAAAGT
* * * **
4539822 TGCATTGGAGCGGATTAGAACCT--C-
63 TGCAGTGGAGCAGACT-GAAGATGGCA
* * * * * * *
4539846 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCTTATCTCCCTGAAGTTG
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTCCCTAAAGTTG
*
4539908 CAGTGGAGCAGACT-AAG-TAAGCA
65 CAGTGGAGCAGACTGAAGAT-GGCA
* * *
4539931 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGACAAGTCTTATCTCCCTGAAGT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGAAG-CAAGTCTTATCTCCCTAAAGT
* * * ** **
4539995 TGTAGTGGAGCAGATTAAAGCCGATA
63 TGCAGTGGAGCAGACTGAAGATGGCA
* * ** * * * *
4540021 A-TCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAA-AACCTTAAATCTTATCTCTCTAAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--AAGTCTTATCTCCCTAAAGTT
* *
4540084 GCAG-AGAGCAGA-TCG--CAT--CA
64 GCAGTGGAGCAGACT-GAAGATGGCA
* * *
4540104 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCTTATC-CTCCTGAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTATCTC-CCTAAAGTT
*
4540168 GCAGTGGGGCAGACTGAAGATGGCA
64 GCAGTGGAGCAGACTGAAGATGGCA
* * *
4540193 ATTCTTATCTTCCTAAAGTTGCAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
4540222 TAGATTAAAG
Statistics
Matches: 355, Mismatches: 75, Indels: 66
0.72 0.15 0.13
Matches are distributed among these distances:
81 1 0.00
82 2 0.01
83 4 0.01
84 99 0.28
85 15 0.04
86 10 0.03
87 21 0.06
88 48 0.14
89 144 0.41
90 11 0.03
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (88 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTCCCTAAAGTTGC
AGTGGAGCAGACTGAAGATGGCA
Found at i:4539814 original size:217 final size:217
Alignment explanation
Indices: 4539546--4540409 Score: 1368
Period size: 217 Copynumber: 4.0 Consensus size: 217
4539536 ATTATAGATT
* * * * **
4539546 TTATCTCCCTAAAGTTACAGTGGACCAGATTAAAGCCGATAGTCCTATCTCCCTGAAGTTGTGGT
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGT
*
4539611 GGAGCGAATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
66 GGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
* *
4539676 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGCTGCAGTGG
131 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGG
4539741 GGCAGACTGAAGATGGCAAGTC
196 GGCAGACTGAAGATGGCAAGTC
* * * *
4539763 TTATCTCCCTGAAGTTGCAATGGAGTAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCATT
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGT
*
4539828 GGAGCGGATTAGAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
66 GGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
4539893 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGG
131 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGG
*
4539958 GGCAGACTGAAGATGACAAGTC
196 GGCAGACTGAAGATGGCAAGTC
* *
4539980 TTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGT
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGT
* * * * * *
4540045 GGAGTGGATTAAAACCTTAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCAAATCTT
66 GGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
*
4540110 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCTTATCCTCCTGAAGTTGCAGTGG
131 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGG
*
4540175 GGCAGACTGAAGATGGCAATTC
196 GGCAGACTGAAGATGGCAAGTC
* * * ** *
4540197 TTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCTTATCTCTTTGAAGTTGCAGT
1 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGT
* * *
4540262 GGAGCGGATTAAAACCTTAGATCTTATCTCTTTGAAGTTGCAGAGAACAGATCGCATCTAGTCTT
66 GGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
* * * * *
4540327 ATCTCACTGAAGTTGCAGTGAAGCATACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGA
131 ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGG
*
4540392 GGCGGACTGAAGATGGCA
196 GGCAGACTGAAGATGGCA
4540410 CTAATTCCTA
Statistics
Matches: 596, Mismatches: 51, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
217 596 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCAGT
GGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTT
ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGG
GGCAGACTGAAGATGGCAAGTC
Found at i:4540041 original size:173 final size:173
Alignment explanation
Indices: 4539714--4540043 Score: 368
Period size: 173 Copynumber: 1.9 Consensus size: 173
4539704 TAAGTAAGCA
* *
4539714 AGTCTTATCCTCCTAAAGCTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTAAAGCTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTT
* * * * * *
4539779 GCAATGGAGTAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCATTGGAGCGGATTAGAACC
66 GCAATGGAGCAGACTAAAGACGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAACC
* * *
4539844 TCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
131 TCAGATCCTATCTCCCTAAAGTTGCAGAGAGCAGATCGCATCT
* *
4539887 AGTCTTAT-CTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCAAGTCTTATC-CTCCTGAA
1 AGTCTTATCCT-CCTAAAGCTGCAGTGGAGCAGACTGAAGAT-AGCAAGTCTTATCTC-CCTGAA
* * * * * * *
4539948 GTTGCAGTGGGGCAGACTGAAGATGACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTA-
63 GTTGCAATGGAGCAGACTAAAGACGACAA-TCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAG
4540012 AAGCCGAT-A-ATCCTATCTCCCTAAAGTTGCAG
127 AA-CC--TCAGATCCTATCTCCCTAAAGTTGCAG
4540044 TGGAGTGGAT
Statistics
Matches: 130, Mismatches: 20, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
171 2 0.02
172 46 0.35
173 80 0.62
174 1 0.01
175 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (173 bp):
AGTCTTATCCTCCTAAAGCTGCAGTGGAGCAGACTGAAGATAGCAAGTCTTATCTCCCTGAAGTT
GCAATGGAGCAGACTAAAGACGACAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAGAACC
TCAGATCCTATCTCCCTAAAGTTGCAGAGAGCAGATCGCATCT
Found at i:4540112 original size:173 final size:173
Alignment explanation
Indices: 4539933--4540260 Score: 414
Period size: 173 Copynumber: 1.9 Consensus size: 173
4539923 AGTAAGCAAG
* *
4539933 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAG-ATGACAAGTCTTAT-CTCCCTGAAGT
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGTAAG-CAAGTCTTATCCT-CCTGAAGT
* * * * *
4539995 TGTAGTGGAGCAGATTAAAGCCGATAA-TCCTATCTCCCTAAAGTTGCAGTGGAGTGGATTAAAA
62 TGCAGTGGAGCAGACTAAAGACGACAATTCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAA
*
4540059 CC-TTAAATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCAAA
127 CCGAT-AATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCAAA
*
4540106 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGTAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
* * * * * * *
4540171 GTGGGGCAGACTGAAGATGGCAATTCTTATCTTCCTAAAGTTGCAGTGGAGTAGATTAAAGCCGA
66 GTGGAGCAGACTAAAGACGACAATTCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAACCGA
* *
4540236 TAATCTTATCTCTTTGAAGTTGCAG
131 TAATCTTATCTCTCTAAAGTTGCAG
4540261 TGGAGCGGAT
Statistics
Matches: 132, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
172 39 0.30
173 91 0.69
174 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (173 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
GTGGAGCAGACTAAAGACGACAATTCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAACCGA
TAATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCAAA
Found at i:4540599 original size:19 final size:19
Alignment explanation
Indices: 4540575--4540687 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
4540565 AATTTTTGAG
*
4540575 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
4540594 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4540613 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
4540634 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
4540653 GATGTATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4540672 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
4540688 AGATATGATT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
19 66 0.78
21 19 0.22
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4540620 original size:40 final size:40
Alignment explanation
Indices: 4540576--4540713 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
4540566 ATTTTTGAGG
*
4540576 ATATGCAATCTTATATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
4540616 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
*
4540656 GTAT--AATCTTAGATATGATATGCAATCTTAGAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTT---AGATATGAT
* *
4540697 -TTTGTAATCTTAGATAT
1 ATATGCAATCTTAGATAT
4540714 ACCCTTTAAT
Statistics
Matches: 90, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
38 25 0.28
40 44 0.49
41 9 0.10
42 12 0.13
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCTTAGATATGAT
Found at i:4540709 original size:23 final size:22
Alignment explanation
Indices: 4540575--4540710 Score: 95
Period size: 19 Copynumber: 6.7 Consensus size: 22
4540565 AATTTTTGAG
*
4540575 GATATGCAATCTT---ATATAT
1 GATATGCAATCTTAGAAGATAT
*
4540594 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
4540616 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
4540634 GATATGCAATCTTAG-ATATGAT
1 GATATGCAATCTTAGAAGAT-AT
4540656 G-TAT--AATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
4540672 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
4540694 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
4540711 TATACCCTTT
Statistics
Matches: 98, Mismatches: 5, Indels: 24
0.77 0.04 0.19
Matches are distributed among these distances:
16 3 0.03
17 6 0.06
18 2 0.02
19 40 0.41
21 22 0.22
22 13 0.13
23 12 0.12
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:4541857 original size:15 final size:15
Alignment explanation
Indices: 4541837--4541870 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4541827 ATTTTTTATG
4541837 TCATTGATATATTTA
1 TCATTGATATATTTA
* *
4541852 TCATTGTTGTATTTA
1 TCATTGATATATTTA
4541867 TCAT
1 TCAT
4541871 CATAACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (15 bp):
TCATTGATATATTTA
Found at i:4542256 original size:98 final size:98
Alignment explanation
Indices: 4542149--4542345 Score: 349
Period size: 98 Copynumber: 2.0 Consensus size: 98
4542139 TTAAAAATAA
* * *
4542149 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCATAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGCTTGGGATTCTAAAGGAATCGTGCCATAACGTATTGGGTGTGATTTC
4542214 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
4542247 TAAAGGAAATATTCCGAGCTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGCTTGGGATTCTAAAGGAATCGTGCCATAACGTATTGGGTGTGATTTC
4542312 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
4542345 T
1 T
4542346 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 94 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGCTTGGGATTCTAAAGGAATCGTGCCATAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:4542960 original size:17 final size:17
Alignment explanation
Indices: 4542935--4542968 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4542925 TAAAAAGCTC
4542935 AAAATAGAAAAATTAAGG
1 AAAATAGAAAAA-TAAGG
4542953 AAAA-AGAAAAATAAGG
1 AAAATAGAAAAATAAGG
4542969 CTGAGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.18, T:0.12
Consensus pattern (17 bp):
AAAATAGAAAAATAAGG
Found at i:4547331 original size:44 final size:45
Alignment explanation
Indices: 4547253--4547367 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
4547243 GATCACATCT
*
4547253 AGTCTTATCTCCTTGAAGTTGCAGT-AGAAAAGACT-AAG-TGAGCA
1 AGTCTTATCTCC-TGAAGTTGCAGTGAGAAAAGACTGAAGAAG-GCA
**
4547297 AGTCTTATCCTCCTGAAGTTGCAGTGAG-GTAGACTGAAGAAGGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGTGAGAAAAGACTGAAGAAGGCA
*
4547342 AATCTTATCTCCCTGAAGTTGCAGTG
1 AGTCTTATCT-CCTGAAGTTGCAGTG
4547368 GAGCAGATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
44 27 0.44
45 34 0.55
46 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (45 bp):
AGTCTTATCTCCTGAAGTTGCAGTGAGAAAAGACTGAAGAAGGCA
Found at i:4547407 original size:44 final size:44
Alignment explanation
Indices: 4547167--4547892 Score: 387
Period size: 44 Copynumber: 16.7 Consensus size: 44
4547157 TCGGTAGTCA
* * * *
4547167 ATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACC-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * * * *
4547210 TTGGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA-TC-
1 AT-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * ** * *
4547252 -TAGTCTTATCTCCTTGAAGTTGCAGTAGAAAAGACT-AAG-TG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * *
4547293 AGCAAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGAAGGC-
1 A-TAA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-T-TA-AAGCCG
4547341 A-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* ** * *
4547384 ATAATCCTATCTCCCAAAAGTTGCAGTGGAGCGGATTAAAACC-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * * * *
4547427 TTAGAACTTATCTCTCTGAAGTTGCAG-AGAGCAGATCACA-TC-
1 ATA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * ***
4547469 -TAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * **
4547512 AAAATCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATG
1 ATAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCG
* *
4547556 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCG
1 A-TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * * *
4547601 ATAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAACC-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * *
4547644 TTAGATCTTATCTCTCTGAAGTTGCAGAT--AGCAGATCT-CA-TC-
1 ATA-ATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGAT-TAAAGCCG
* * * ***
4547686 -TAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAG
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * **
4547729 CA-AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTAAAGATG
1 -ATAATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGATTAAAGCCG
* * *
4547773 ACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTG
1 A-TAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
* * * *
4547818 ATAATCCTATCTCCCTGAAGTTGCAGT-AAGGCGGATTAAAACC-
1 ATAATCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTAAAGCCG
* *
4547861 ACAGATTTTATCTCCCTGAAGTTGCAGTGGAG
1 ATA-ATCTTATCTCCCTGAAGTTGCAGTGGAG
4547893 TAGACTCAAG
Statistics
Matches: 532, Mismatches: 104, Indels: 93
0.73 0.14 0.13
Matches are distributed among these distances:
39 1 0.00
40 62 0.12
41 27 0.05
42 7 0.01
43 46 0.09
44 279 0.52
45 95 0.18
46 11 0.02
48 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
ATAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG
Found at i:4547476 original size:173 final size:173
Alignment explanation
Indices: 4547297--4547622 Score: 403
Period size: 173 Copynumber: 1.9 Consensus size: 173
4547287 TAAGTGAGCA
* * *
4547297 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGTAGACTGAAGAAGGCAAATCTTAT-CTCCCTGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAAGAA-GAAAATCTTATCCT-CCTGAA
* * * *
4547359 GTTGCAGTG-GAGCAGATTAAAGCCGA-TAATCCTATCTCCCAAAAGTTGCAGTGGAGCGGATTA
62 GTTGCAGTGAG-GCAGACTAAAGACGACAAATCCTATCTCCCAAAAGTTGCAGTGGAGCAGATTA
* *
4547422 AAACC-TTAGAACTTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCT
126 AAACCGATA-AACCTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCT
*
4547470 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGAAAATCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAGAAAATCTTATCCTCCTGAAGTTG
* * ** * *
4547535 CAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCC
66 CAGTGAGGCAGACTAAAGACGACAAATCCTATCTCCCAAAAGTTGCAGTGGAGCAGATTAAAACC
*
4547600 GATAATCCTATCTCTCTGAAGTT
131 GATAAACCTATCTCTCTGAAGTT
4547623 ACAGTGGAGC
Statistics
Matches: 130, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
172 37 0.28
173 88 0.68
174 5 0.04
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (173 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAGAAAATCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTAAAGACGACAAATCCTATCTCCCAAAAGTTGCAGTGGAGCAGATTAAAACC
GATAAACCTATCTCTCTGAAGTTGCAGAGAGCAGATCACATCT
Found at i:4547542 original size:217 final size:217
Alignment explanation
Indices: 4547167--4547887 Score: 1156
Period size: 217 Copynumber: 3.3 Consensus size: 217
4547157 TCGGTAGTCA
*
4547167 ATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* * ** * *
4547232 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCTTGAAGTTGCAGTAGAAAAGACTAAGTGAGCA
66 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * * *
4547297 AGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTGAAGAAGGCAAATCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
*
4547362 GCAGTGGAGCAGATTAAAGCCG
196 GTAGTGGAGCAGATTAAAGCCG
** * *
4547384 ATAATCCTATCTCCCAAAAGTTGCAGTGGAGCGGATTAAAACCTTAGAACTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
*
4547449 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGAA
66 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
*
4547514 AATCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
4547579 GTAGTGGAGCAGATTAAAGCCG
196 GTAGTGGAGCAGATTAAAGCCG
*
4547601 ATAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
1 ATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
* * *
4547666 TGCAGATAGCAGATCTCATCTAGTATTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
66 TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
*
4547731 AGTCTTATCCTCCTAAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
*
4547796 GTAGTGGAGCAGATTAAAGCTG
196 GTAGTGGAGCAGATTAAAGCCG
* * ** * *
4547818 ATAATCCTATCTCCCTGAAGTTGCAGT-AAGGCGGATTAAAACCACAGATTTTATCTCCCTGAAG
1 ATAATCCTATCTCCCTGAAGTTACAGTGGA-GCGGATTAAAACCTTAGATCTTATCTCTCTGAAG
4547882 TTGCAG
65 TTGCAG
4547888 TGGAGTAGAC
Statistics
Matches: 466, Mismatches: 37, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
216 1 0.00
217 465 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGT
TGCAGAGAGCAGATCACATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTAAAGATGACAAATCTTATCTCCCTGAAGTT
GTAGTGGAGCAGATTAAAGCCG
Found at i:4547704 original size:173 final size:172
Alignment explanation
Indices: 4547525--4547966 Score: 398
Period size: 173 Copynumber: 2.5 Consensus size: 172
4547515 ATCTTATCCT
* * *
4547525 CCTGAAGTTGCAGT-GAGGCAGACTAAAGATGACAAATCTTAT-CTCCCTGAAGTTGTAGTG-GA
1 CCTGAAGTTGCAGTGGA-GCAGACTAAAGAAG-CAAATCTTATCCT-CCTAAAGTTGCAGTGAG-
* * * * *
4547587 GCAGATTAAAGCCGA-TAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAACCT-TAGAT
62 GCAGACTAAAGACGACAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAACCTATA-AT
* *
4547650 CTTATCTCTCTGAAGTTGCAGATAGCAGATCTCATCTAGTATTATCTC
125 CCTATCTCCCTGAAGTTGCAGATAGCAGATCTCATCTAGTATTATCTC
* *
4547698 CCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGGCAG
1 CCTGAAGTTGCAGTGGAGCAGACTAAAGAAGCAAATCTTATCCTCCTAAAGTTGCAGTGAGGCAG
* * ** *
4547763 ACTAAAGATGACAAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCTGATAATCCTAT
66 ACTAAAGACGACAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAACCT-ATAATCCTAT
* * * * *
4547828 CTCCCTGAAGTTGCAG-TAAGGCGGAT-TAAAACCACAGATTTTATCTC
130 CTCCCTGAAGTTGCAGAT-A-GCAGATCT--CATC-TAG-TATTATCTC
* * * * * *
4547875 CCTGAAGTTGCAGTGGAGTAGACTCAAGAAAGTAAGTCTTATCCCCCTGAAA-TTGCAGTGGGGG
1 CCTGAAGTTGCAGTGGAGCAGACTAAAG-AAGCAAATCTTATCCTCCT-AAAGTTGCAGT-GAGG
* * *
4547939 CAGACTAAACA-TACCAATCCTATCTCCC
63 CAGACTAAAGACGACAAATCCTATCTCCC
4547967 CGACGTTGCG
Statistics
Matches: 222, Mismatches: 32, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
172 40 0.18
173 82 0.37
174 9 0.04
175 2 0.01
176 2 0.01
177 33 0.15
178 38 0.17
179 16 0.07
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (172 bp):
CCTGAAGTTGCAGTGGAGCAGACTAAAGAAGCAAATCTTATCCTCCTAAAGTTGCAGTGAGGCAG
ACTAAAGACGACAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAACCTATAATCCTATC
TCCCTGAAGTTGCAGATAGCAGATCTCATCTAGTATTATCTC
Found at i:4549371 original size:14 final size:16
Alignment explanation
Indices: 4549337--4549372 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
4549327 TTTTTATAAA
4549337 TTTTATATGTAATTAT
1 TTTTATATGTAATTAT
4549353 TTTTATATGT-ATT-T
1 TTTTATATGTAATTAT
4549367 TTTTAT
1 TTTTAT
4549373 GTACATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 7 0.35
15 3 0.15
16 10 0.50
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (16 bp):
TTTTATATGTAATTAT
Found at i:4549454 original size:18 final size:18
Alignment explanation
Indices: 4549420--4549472 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
4549410 TATATATACA
* *
4549420 TATTTATT-TTTGATAATG
1 TATTTATTATTT-TTAATC
4549438 TATTTATTATTTTTAATC
1 TATTTATTATTTTTAATC
*
4549456 TATATATATATTTTTAA
1 TATTTAT-TATTTTTAA
4549473 AAAATAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 18 0.60
19 12 0.40
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.62
Consensus pattern (18 bp):
TATTTATTATTTTTAATC
Found at i:4554849 original size:46 final size:46
Alignment explanation
Indices: 4554782--4555046 Score: 267
Period size: 46 Copynumber: 5.7 Consensus size: 46
4554772 TGTAAGCCGC
*
4554782 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
4554828 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
4554878 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
4554921 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
4554971 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
4555014 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
4555047 TGGATGCTCA
Statistics
Matches: 179, Mismatches: 22, Indels: 36
0.76 0.09 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.03
44 4 0.02
45 4 0.02
46 86 0.48
47 55 0.31
48 5 0.03
49 4 0.02
50 6 0.03
51 5 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:4554902 original size:93 final size:93
Alignment explanation
Indices: 4554789--4555053 Score: 485
Period size: 93 Copynumber: 2.8 Consensus size: 93
4554779 CGCCCATAAG
* * *
4554789 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
4554854 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
4554882 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
4554947 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
4554975 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
4555040 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
4555054 TCAACCATCC
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 166 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:4554904 original size:47 final size:47
Alignment explanation
Indices: 4554836--4555004 Score: 231
Period size: 47 Copynumber: 3.6 Consensus size: 47
4554826 ATCCATAAGT
4554836 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
4554883 GAACTCGGACTCAACTCAACGAGTTTGGA---C-A-TTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
4554929 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
4554976 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
4555005 CATTCGCATC
Statistics
Matches: 105, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 28 0.27
47 57 0.54
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:4563586 original size:42 final size:41
Alignment explanation
Indices: 4563539--4563747 Score: 283
Period size: 42 Copynumber: 5.0 Consensus size: 41
4563529 GCGTTTGCAG
* *
4563539 AAAAAAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
4563580 CAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
1 -AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* *
4563622 AAAAAAGACGCCGCTAAAGATCATGTTCTTTAGCGGCGGTAA
1 AAAAAA-ACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
* * * *
4563664 AATAAAAACGCCGCTAAAGATCTTGTTATTTAGTGGCGCATGA
1 AA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TTA
* *
4563707 AGAAAAACGCCGCTAAAGATCATGTTCTTTTCGCGGCGCTT
1 AAAAAAACGCCGCTAAAGATCATGTTC-TTTAGCGGCGCTT
4563748 TCTTCACAAA
Statistics
Matches: 148, Mismatches: 15, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
41 6 0.04
42 126 0.85
43 16 0.11
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA
Found at i:4563802 original size:43 final size:44
Alignment explanation
Indices: 4563540--4563809 Score: 143
Period size: 42 Copynumber: 6.3 Consensus size: 44
4563530 CGTTTGCAGA
* ** * * *
4563540 AAAAAACGCCACTAAAGGTCATGTTC-TTTAGCGGCGCTTAC-A
1 AAAAAACGCCGCTAAAGAACATGTACTTTTAGCGGCGCTTTCTT
* * **
4563582 AAAAAACGCCGCTAAAGATCATGTTC-TTTAGCGGCGC-TT-AA
1 AAAAAACGCCGCTAAAGAACATGTACTTTTAGCGGCGCTTTCTT
* * * ****
4563623 AAAAAGACGCCGCTAAAGATCATGTTC-TTTAGCGGCGGTAAAAT
1 AAAAA-ACGCCGCTAAAGAACATGTACTTTTAGCGGCGCTTTCTT
* * * * **
4563667 -AAAAACGCCGCTAAAGATCTTGT--TATTTAGTGGCGC-AT-GA
1 AAAAAACGCCGCTAAAGAACATGTACT-TTTAGCGGCGCTTTCTT
* * *
4563707 AGAAAAACGCCGCTAAAGATCATGTTCTTTTCGCGGCGCTTTCTT
1 A-AAAAACGCCGCTAAAGAACATGTACTTTTAGCGGCGCTTTCTT
* * *
4563752 CACAAACGCCGCTATAGAACATG-ACTTTTAGCGGCGCTTT-TAT
1 AAAAAACGCCGCTAAAGAACATGTACTTTTAGCGGCGCTTTCT-T
*
4563795 AAAAAACGCCACTAA
1 AAAAAACGCCGCTAA
4563810 TTTTGGGATT
Statistics
Matches: 186, Mismatches: 29, Indels: 25
0.77 0.12 0.10
Matches are distributed among these distances:
41 8 0.04
42 116 0.62
43 40 0.22
44 22 0.12
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (44 bp):
AAAAAACGCCGCTAAAGAACATGTACTTTTAGCGGCGCTTTCTT
Found at i:4564219 original size:21 final size:20
Alignment explanation
Indices: 4564195--4564262 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 20
4564185 CTTCTCTCAT
*
4564195 TGCTTCTCTAGCTGCAGCCTC
1 TGCTTC-CTCGCTGCAGCCTC
*
4564216 TGCTTCCCTCGTTGCAGCCTC
1 TGCTT-CCTCGCTGCAGCCTC
4564237 TGCTTCCTTCGCTGCAGCCTC
1 TGCTTCC-TCGCTGCAGCCTC
4564258 TGCTT
1 TGCTT
4564263 TAAGTTGCAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 2 0.05
21 39 0.93
22 1 0.02
ACGTcount: A:0.06, C:0.40, G:0.19, T:0.35
Consensus pattern (20 bp):
TGCTTCCTCGCTGCAGCCTC
Found at i:4569792 original size:9 final size:9
Alignment explanation
Indices: 4569750--4570166 Score: 221
Period size: 9 Copynumber: 46.7 Consensus size: 9
4569740 ATTTTTCTCA
4569750 ATGTAAGTT
1 ATGTAAGTT
*
4569759 ATGTATATATT
1 ATGTA-A-GTT
** *
4569770 ATAAAAGAT
1 ATGTAAGTT
4569779 ATGTAAGTT
1 ATGTAAGTT
4569788 ATGT-A-TT
1 ATGTAAGTT
4569795 ATGTAAGTT
1 ATGTAAGTT
*
4569804 ATATAAGTT
1 ATGTAAGTT
*
4569813 ATGTAGGTT
1 ATGTAAGTT
4569822 ATGT-A-TT
1 ATGTAAGTT
4569829 ATGTAAGTT
1 ATGTAAGTT
* *
4569838 ATATAAGCT
1 ATGTAAGTT
*
4569847 GTGTAAGTTATT
1 ATGTAAG---TT
4569859 ATGTAAGTT
1 ATGTAAGTT
* *
4569868 AAGATATAATAT
1 ATG-TA-AGT-T
*
4569880 ATGT-TGATT
1 ATGTAAG-TT
*
4569889 ATGT-A-TC
1 ATGTAAGTT
* *
4569896 AAGTAAATT
1 ATGTAAGTT
4569905 ATGTAAGTT
1 ATGTAAGTT
*
4569914 ATG-CA-TT
1 ATGTAAGTT
4569921 ATGTAAGTT
1 ATGTAAGTT
*
4569930 ATATAAGTT
1 ATGTAAGTT
4569939 ATGTAAGTT
1 ATGTAAGTT
* *
4569948 ATATAAGCT
1 ATGTAAGTT
4569957 ATGTAAGTTATT
1 ATGTAAG---TT
*
4569969 ATGTAAGTA
1 ATGTAAGTT
4569978 ATGT-A-TT
1 ATGTAAGTT
*
4569985 ATATAAGTT
1 ATGTAAGTT
4569994 ATGT-A-TT
1 ATGTAAGTT
4570001 ATGTAAGTT
1 ATGTAAGTT
*
4570010 ATGT-ATTT
1 ATGTAAGTT
*
4570018 ATTTAAGTT
1 ATGTAAGTT
*
4570027 ATGT-A-TG
1 ATGTAAGTT
* *
4570034 ATATAAGCT
1 ATGTAAGTT
4570043 ATGTAAGTTATT
1 ATGTAAG---TT
4570055 ATGTAAGTT
1 ATGTAAGTT
*
4570064 ATGT-ATTT
1 ATGTAAGTT
*
4570072 ATTTAAGTT
1 ATGTAAGTT
4570081 ATGT-A-TT
1 ATGTAAGTT
4570088 ATGTAAGTTATT
1 ATGTAAG---TT
4570100 ATGTAAGTT
1 ATGTAAGTT
* *
4570109 ATATAAGCT
1 ATGTAAGTT
4570118 ATGTAAGTT
1 ATGTAAGTT
*
4570127 ATGT-A-TA
1 ATGTAAGTT
4570134 ATGT-AGTTT
1 ATGTAAG-TT
*
4570143 ATGTAGGTT
1 ATGTAAGTT
4570152 ATGTAAGTT
1 ATGTAAGTT
4570161 ATGTAA
1 ATGTAA
4570167 TGTGTCAATA
Statistics
Matches: 306, Mismatches: 63, Indels: 78
0.68 0.14 0.17
Matches are distributed among these distances:
7 47 0.15
8 27 0.09
9 183 0.60
10 6 0.02
11 8 0.03
12 35 0.11
ACGTcount: A:0.35, C:0.01, G:0.18, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:4569795 original size:25 final size:25
Alignment explanation
Indices: 4569766--4569817 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
4569756 GTTATGTATA
*
4569766 TATTATAAAAGATATGTAAGTTATG
1 TATTATAAAAGATATATAAGTTATG
** *
4569791 TATTATGTAAGTTATATAAGTTATG
1 TATTATAAAAGATATATAAGTTATG
4569816 TA
1 TA
4569818 GGTTATGTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.44
Consensus pattern (25 bp):
TATTATAAAAGATATATAAGTTATG
Found at i:4569799 original size:16 final size:16
Alignment explanation
Indices: 4569778--4570165 Score: 218
Period size: 16 Copynumber: 23.9 Consensus size: 16
4569768 TTATAAAAGA
4569778 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
4569794 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
*
4569812 TATGTAGGTTATGTAT
1 TATGTAAGTTATGTAT
* *
4569828 TATGTAAGTTATATAAGC
1 TATGTAAGTTATGT-A-T
*
4569846 TGTGTAAG---T-TAT
1 TATGTAAGTTATGTAT
*
4569858 TATGTAAGTTAAGATAT
1 TATGTAAGTTATG-TAT
* * *
4569875 AATATATGTTGAT-TAT
1 TATGTAAGTT-ATGTAT
* *
4569891 GTAT-CAAG-TA--AAT
1 -TATGTAAGTTATGTAT
*
4569904 TATGTAAGTTATGCAT
1 TATGTAAGTTATGTAT
*
4569920 TATGTAAGTTATATAAGT
1 TATGTAAGTTATGT-A-T
* *
4569938 TATGTAAGTTATATAAGC
1 TATGTAAGTTATGT-A-T
4569956 TATGTAAG---T-TAT
1 TATGTAAGTTATGTAT
*
4569968 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
4569984 TATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
4570000 TATGTAAGTTATGTATT
1 TATGTAAGTTATGTA-T
*
4570017 TATTTAAGTTATGTAT
1 TATGTAAGTTATGTAT
* * *
4570033 GATATAAGCTATGTAAGTTAT
1 TATGTAAG---T-TATG-TAT
4570054 TATGTAAGTTATGTATT
1 TATGTAAGTTATGTA-T
*
4570071 TATTTAAGTTATGTAT
1 TATGTAAGTTATGTAT
4570087 TATGTAAG---T-TAT
1 TATGTAAGTTATGTAT
* *
4570099 TATGTAAGTTATATAAGC
1 TATGTAAGTTATGT-A-T
4570117 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
4570133 AATGT-AGTTTATGTAGGT
1 TATGTAAG-TTATGTA--T
4570151 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
4570166 ATGTGTCAAT
Statistics
Matches: 293, Mismatches: 41, Indels: 74
0.72 0.10 0.18
Matches are distributed among these distances:
12 29 0.10
13 8 0.03
14 5 0.02
15 7 0.02
16 105 0.36
17 51 0.17
18 73 0.25
19 3 0.01
20 3 0.01
21 9 0.03
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:4569830 original size:25 final size:25
Alignment explanation
Indices: 4569782--4570165 Score: 90
Period size: 25 Copynumber: 14.4 Consensus size: 25
4569772 AAAAGATATG
4569782 TAAGTTATGTATTATGTAAGTTATA
1 TAAGTTATGTATTATGTAAGTTATA
*
4569807 TAAGTTATGTAGGTTATGT-A-TTATG
1 TAAGTTATGTA--TTATGTAAGTTATA
* * *
4569832 TAAGTTATATAAGCTGTGTAAGTTATTA
1 TAAGTTATGT-A-TTATGTAAGTTA-TA
* * * *
4569860 TGTAAGTTAAGATATAATATATGTTGAT-
1 --TAAGTTATG-TATTATGTAAGTT-ATA
* *
4569888 TATGTATCAAGTAAATTATGTAAGTTAT-
1 TAAGT-T-ATGT--ATTATGTAAGTTATA
** * *
4569916 GCA-TTATGTAAGTTATATAAGTTATG
1 TAAGTTATGT-A-TTATGTAAGTTATA
* *
4569942 TAAGTTATATAAGCTATGTAAGTTATTA
1 TAAGTTATGT-A-TTATGTAAGTTA-TA
* * *
4569970 TGTAAGTAATGTATTATATAAGTTATG
1 --TAAGTTATGTATTATGTAAGTTATA
* *
4569997 T-A-TTATGTAAGTTATGT-ATTTATT
1 TAAGTTATGT-A-TTATGTAAGTTATA
* * * *
4570021 TAAGTTATGTATGATATAAGCTATG
1 TAAGTTATGTATTATGTAAGTTATA
* *
4570046 TAAGTTATTATGTAAGTTATGT-ATTTATT
1 TAAG---TTATGT-A-TTATGTAAGTTATA
4570075 TAAGTTATGTATTATGTAAGTTATTA
1 TAAGTTATGTATTATGTAAGTTA-TA
* *
4570101 TGTAAGTTATATAAGCTATGTAAGTTATGTA
1 --TAAGTTATGT-A-TTATGTAAGTTA--TA
* *
4570132 TAA-TGTA-GT-TTATGTAGGTTATG
1 TAAGT-TATGTATTATGTAAGTTATA
4570155 TAAGTTATGTA
1 TAAGTTATGTA
4570166 ATGTGTCAAT
Statistics
Matches: 263, Mismatches: 55, Indels: 82
0.66 0.14 0.20
Matches are distributed among these distances:
23 11 0.04
24 23 0.09
25 75 0.29
26 22 0.08
27 31 0.12
28 34 0.13
29 32 0.12
30 32 0.12
31 3 0.01
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATTATGTAAGTTATA
Found at i:4570057 original size:12 final size:12
Alignment explanation
Indices: 4570042--4570110 Score: 58
Period size: 12 Copynumber: 6.0 Consensus size: 12
4570032 TGATATAAGC
4570042 TATGTAAGTTAT
1 TATGTAAGTTAT
4570054 TATGTAAG---T
1 TATGTAAGTTAT
*
4570063 TATGT-ATTTATT
1 TATGTAAGTTA-T
* *
4570075 TAAGTTA-TGTAT
1 TATGTAAGT-TAT
4570087 TATGTAAGTTAT
1 TATGTAAGTTAT
4570099 TATGTAAGTTAT
1 TATGTAAGTTAT
4570111 ATAAGCTATG
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
8 1 0.02
9 6 0.13
12 35 0.76
13 4 0.09
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TATGTAAGTTAT
Found at i:4570454 original size:21 final size:23
Alignment explanation
Indices: 4570428--4570470 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
4570418 TGACTTGGCA
4570428 TTTATATTTA-CAA-TTAATTTG
1 TTTATATTTATCAATTTAATTTG
4570449 TTTATATTTATCAATTTAATTT
1 TTTATATTTATCAATTTAATTT
4570471 TGTTAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 10 0.50
22 3 0.15
23 7 0.35
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTATATTTATCAATTTAATTTG
Found at i:4570489 original size:13 final size:13
Alignment explanation
Indices: 4570473--4570528 Score: 55
Period size: 13 Copynumber: 4.3 Consensus size: 13
4570463 TTTAATTTTG
4570473 TTAAATTAATTAT
1 TTAAATTAATTAT
4570486 TT-AATT-ATTAT
1 TTAAATTAATTAT
*
4570497 TTATAA-TGATTGATT
1 TTA-AATTAATT-A-T
4570512 TTAAATTAATTAT
1 TTAAATTAATTAT
4570525 TTAA
1 TTAA
4570529 TTAGTATTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
11 7 0.19
12 5 0.14
13 12 0.33
14 4 0.11
15 8 0.22
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (13 bp):
TTAAATTAATTAT
Found at i:4570939 original size:23 final size:22
Alignment explanation
Indices: 4570908--4570950 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
4570898 TGCTATCAAC
4570908 AAACAAGCCTCATCTTTTTTTTA
1 AAACAAGCC-CATCTTTTTTTTA
* *
4570931 AAACTAGCCCTTCTTTTTTT
1 AAACAAGCCCATCTTTTTTT
4570951 CTTAACCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.26, C:0.23, G:0.05, T:0.47
Consensus pattern (22 bp):
AAACAAGCCCATCTTTTTTTTA
Found at i:4572519 original size:115 final size:114
Alignment explanation
Indices: 4572293--4572531 Score: 388
Period size: 115 Copynumber: 2.1 Consensus size: 114
4572283 AAATATTTCT
* *
4572293 GGCGTTTTTAAAATGCACCACTAAAAGAAAACAAAAAAATGTCACCGTCTTTGTTCACTTAAAGG
1 GGCGTTTTTAAAATGCACCACTAAAAGAAAACAAAAAAACGACACCGTCTTTGTTCACTTAAAGG
*
4572358 AAATTTGCGGCGTTTATTCGCAAAACGCCGGTAATACATCACCTTTAGC
66 AAATTTGCGGCGTTTATTCACAAAACGCCGGTAATACATCACCTTTAGC
* *
4572407 GGCGTTTTTAAAATGCACCACTAAAAGAAAACAACAAAACGACACCGTCTTTGTTACAGTTAAAG
1 GGCGTTTTTAAAATGCACCACTAAAAGAAAACAAAAAAACGACACCGTCTTTGTT-CACTTAAAG
* **
4572472 GAAATTTGCGGCGTTTCTTCACAAAACGCCGGTAATGTATCACCTTTAGC
65 GAAATTTGCGGCGTTTATTCACAAAACGCCGGTAATACATCACCTTTAGC
4572522 GGCGTCTTTT
1 GGCGT-TTTT
4572532 CTGAAGCGCC
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
114 52 0.45
115 59 0.51
116 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (114 bp):
GGCGTTTTTAAAATGCACCACTAAAAGAAAACAAAAAAACGACACCGTCTTTGTTCACTTAAAGG
AAATTTGCGGCGTTTATTCACAAAACGCCGGTAATACATCACCTTTAGC
Found at i:4573235 original size:20 final size:21
Alignment explanation
Indices: 4573197--4573248 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
4573187 TCTTCAAATT
4573197 CCAAACT-AAACCTCAAAACC
1 CCAAACTCAAACCTCAAAACC
* *
4573217 CTAAACTCAAACCT-TAAACC
1 CCAAACTCAAACCTCAAAACC
*
4573237 CCAAATTCAAAC
1 CCAAACTCAAAC
4573249 TCTAACACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (21 bp):
CCAAACTCAAACCTCAAAACC
Found at i:4573944 original size:116 final size:115
Alignment explanation
Indices: 4573808--4574102 Score: 423
Period size: 115 Copynumber: 2.6 Consensus size: 115
4573798 TAAAGGAAGA
** * * *
4573808 ATTAGCGGCGCTTTCTTAAAAAACGCCGCTAAATCCCCCGAAAGTTCAGAAAATGGTGCCGTTGG
1 ATTAGCGGCGCTTTAGT-AAAAATGCCGCTAAATCCCCCGAAAGTTCAGAAAACGGTGTCGTTGG
* * *
4573873 GCTTAGGATTTATTGCGGCGCTTTTTTCAAAACGTCGTTAAAGCCCTTAGC
65 GCTTAGGAATTATTGCGGCGCTTTTTTCAAAACGCCGCTAAAGCCCTTAGC
* * *
4573924 ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCCAAAAGTTCAAAAAACAGTGTCGTTGGG
1 ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCCGAAAGTTCAGAAAACGGTGTCGTTGGG
*
4573989 CTTAGGAATTATTTCGGCGCTTTTTTCAAAACGCCGCTAAAGCCCTTAGC
66 CTTAGGAATTATTGCGGCGCTTTTTTCAAAACGCCGCTAAAGCCCTTAGC
** * *
4574039 ATTAGCGGCGCTTTAGTAAAAATTACGCTAAAT-CCCTGAAAGCTCAGAAAACGGTGTC-TTGGG
1 ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCCGAAAGTTCAGAAAACGGTGTCGTTGGG
4574102 C
66 C
4574103 GTATGTTTTT
Statistics
Matches: 160, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
113 6 0.04
114 20 0.12
115 119 0.74
116 15 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (115 bp):
ATTAGCGGCGCTTTAGTAAAAATGCCGCTAAATCCCCCGAAAGTTCAGAAAACGGTGTCGTTGGG
CTTAGGAATTATTGCGGCGCTTTTTTCAAAACGCCGCTAAAGCCCTTAGC
Found at i:4574269 original size:73 final size:73
Alignment explanation
Indices: 4574130--4574301 Score: 170
Period size: 73 Copynumber: 2.4 Consensus size: 73
4574120 CACTTTCTCG
* * *
4574130 AAAACGCCGCTAAAT-CCACGAAAGCTCAGAAAACGACGCCGTTGGGCTTAGGTTTTTTACCAGC
1 AAAACGCCGCTAAATCCCA-AAAAGCTCAGAAAACGACGCCGTTGGGCTTAGGATTATTACCAGC
4574194 GCTTAC-CTA
65 GCTT-CTCTA
* ** * * ***
4574203 GAAACGCCGCTAAATCCCAAAAAGCTCA-AGAAACGGTGTCGTTTGGCTTAGGATTATTAGTGGC
1 AAAACGCCGCTAAATCCCAAAAAGCTCAGA-AAACGACGCCGTTGGGCTTAGGATTATTACCAGC
*
4574267 GCTTCTTTA
65 GCTTCTCTA
* *
4574276 AAAACGCTGCTAAATCCCCAAAAGCT
1 AAAACGCCGCTAAATCCCAAAAAGCT
4574302 AGGTAAATGG
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
72 2 0.02
73 76 0.94
74 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.23
Consensus pattern (73 bp):
AAAACGCCGCTAAATCCCAAAAAGCTCAGAAAACGACGCCGTTGGGCTTAGGATTATTACCAGCG
CTTCTCTA
Found at i:4577177 original size:20 final size:23
Alignment explanation
Indices: 4577123--4577195 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
4577113 TTTTGGTGCA
*
4577123 GTTTCACTG-TCCTTTTTAATGTT
1 GTTTCACTGCTGC-TTTTAATGTT
4577146 GTTTCACTGCTGCTTTTAATGTT
1 GTTTCACTGCTGCTTTTAATGTT
* * * *
4577169 GTTCCGCTGCCGCTTTTAATATT
1 GTTTCACTGCTGCTTTTAATGTT
4577192 GTTT
1 GTTT
4577196 GGATATTGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 41 0.95
24 2 0.05
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.52
Consensus pattern (23 bp):
GTTTCACTGCTGCTTTTAATGTT
Found at i:4581121 original size:3 final size:3
Alignment explanation
Indices: 4581113--4581156 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
4581103 GTTGTGAGTT
4581113 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
4581157 TTTACTCACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:4582999 original size:23 final size:23
Alignment explanation
Indices: 4582973--4583017 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
4582963 AAACACTTAA
4582973 ATATTTAGATATATTCCCTCTAT
1 ATATTTAGATATATTCCCTCTAT
4582996 ATATTTAGATATATTCCCTCTA
1 ATATTTAGATATATTCCCTCTA
4583018 AGTAGGGGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATTTAGATATATTCCCTCTAT
Found at i:4583855 original size:17 final size:18
Alignment explanation
Indices: 4583826--4583861 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4583816 TTTGCAATTT
4583826 TATTTTTTCTATTTGTTA
1 TATTTTTTCTATTTGTTA
*
4583844 TATTTTTT-TATTTTTTA
1 TATTTTTTCTATTTGTTA
4583861 T
1 T
4583862 TCTACATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (18 bp):
TATTTTTTCTATTTGTTA
Found at i:4592627 original size:26 final size:26
Alignment explanation
Indices: 4592591--4592641 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
4592581 AAATGTGAAA
4592591 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
4592617 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
4592642 TAATTATTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.33, T:0.27
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:4592662 original size:33 final size:33
Alignment explanation
Indices: 4592620--4592775 Score: 110
Period size: 33 Copynumber: 4.6 Consensus size: 33
4592610 TTCCCCGAGG
4592620 GGTTGCTAAGTGCTGATTCCCCTAATT-ATTGGT
1 GGTTGCTAAGTGCTGATTCCCCT-ATTAATTGGT
* *
4592653 GGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-AAT-T----GGT
**
4592696 GGTTGCTAAGTGCTGATTCCCC---CGA--GG-
1 GGTTGCTAAGTGCTGATTCCCCTATTAATTGGT
* *
4592723 GGTTGCTACGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTAATTGGT
4592756 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
4592776 ACCGCATCTG
Statistics
Matches: 97, Mismatches: 9, Indels: 34
0.69 0.06 0.24
Matches are distributed among these distances:
27 21 0.22
28 2 0.02
30 1 0.01
32 2 0.02
33 38 0.39
34 3 0.03
35 2 0.02
36 2 0.02
38 2 0.02
39 1 0.01
42 2 0.02
43 21 0.22
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCTATTAATTGGT
Found at i:4592791 original size:103 final size:103
Alignment explanation
Indices: 4592515--4592869 Score: 536
Period size: 102 Copynumber: 3.5 Consensus size: 103
4592505 TTGCATATAA
* *
4592515 AGGGGTTGCTGTGTGCTGATTCACCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTT
1 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTT
*
4592580 TAAATGTGAAAAGGGGTTGCTAAGTGCTGATT-CCCCG
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* *
4592617 AGGGGTTGCTAAGTGCTGATTCCCCTAATT-ATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
1 AGGGGTTGCTATGTGCTGATTCCCC-GATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATT
4592681 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * * * *
4592720 AGGGGTTGCTACGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
1 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTT
* **
4592785 GAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCCTA
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
* * *
4592822 AGGGGTTGTTGTGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTG
1 AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTG
4592870 TTGAATCCAC
Statistics
Matches: 232, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
102 161 0.69
103 71 0.31
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (103 bp):
AGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATTT
TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:4595090 original size:44 final size:42
Alignment explanation
Indices: 4594959--4595646 Score: 394
Period size: 44 Copynumber: 15.8 Consensus size: 42
4594949 TCAATAATCA
* * * **
4594959 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGC-AAG-TCT
* * * *** * *
4595003 TATCTCTCTAAAGTTGCAG-AGAGCAGA-TCGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAGTCT
4595043 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAA--AAGCAAGTCT
* *
4595087 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGACAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AA-AAG-CAAGTCT
* * * *
4595132 TATCTCCCTGAAGTTGCAGTGGAGTAGA-TTAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAG-C-A-AGTCT
* * * * *
4595176 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGC-AAG-TCT
* * *** * *
4595220 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAGTCT
* * *
4595260 TATCTTCTTGAAGTTGCAGTGGAGTAGACTAAATAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA-AAGCAAGTCT
* * *
4595304 TATC-CTCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCCGATAATCC
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAAAG-C-A-AGTCT
* * * *
4595348 TATCTCCCTAAAGTTGCATTGGAGCAGATTAAAA-CTTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGC--AAG-TCT
* *
4595392 TATCTCTCTAAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA-AAGCAAGTCT
*
4595436 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTAAAGATGACAAATCT
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACTAAA-A-G-CAAGTCT
* * * *
4595481 TATCTCCCTGAAGTTGCAGTCGAGCAGA-TTAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAG-C-A-AGTCT
** * * *
4595525 TATCTCCCTGAAGTTGCAGTAAAGCAGATTAAAACCACAGATTT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCA-AG-TCT
* * *
4595569 TATCTCCCTGAAGTTTCAGTGGAGTAGAATCAAGAAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAG-A-CTA-AAAGCAAGTCT
* ** * *
4595614 TATCCCCCTGAAAATACAGTGGGGCAGACTAAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
4595647 CATACCAATC
Statistics
Matches: 503, Mismatches: 98, Indels: 88
0.73 0.14 0.13
Matches are distributed among these distances:
40 39 0.08
41 21 0.04
42 18 0.04
43 34 0.07
44 274 0.54
45 100 0.20
46 11 0.02
47 6 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAGCAAGTCT
Found at i:4595393 original size:88 final size:88
Alignment explanation
Indices: 4594959--4595592 Score: 453
Period size: 88 Copynumber: 7.3 Consensus size: 88
4594949 TCAATAATCA
* * * * * * *
4594959 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TTGGATCTTATCTCTCTAAAGTTGCAG-
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT-AATCCTATCTCCCTGAAGTTGCAGT
* *** * *
4595022 AGAGCAGA-TCGCATC-TAG-TCT
65 GGAGCAGATTAAAACCACAGATCT
* * *
4595043 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A-AGTCTTATC-CTCCTGAAGTTGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCGATAATCCTATCTC-CCTGAAGTTGC
* * ** *
4595104 AGT-GAGGCAGACTGAAGATGACAAATCT
62 AGTGGA-GCAGA-TTAAAACCACAGATCT
* *
4595132 TATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCTTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
* **
4595197 GAGCGGATTAAAACCTTAGATCT
66 GAGCAGATTAAAACCACAGATCT
* * * *** * * * *
4595220 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGCATCTAGTCTTATCTTCTTGAAGTTGCAGTG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
* * *
4595281 GAGTAGACTAAATAAGCA-AG-TCT
66 GAGCAGA-TTAA-AACCACAGATCT
* *
4595304 TATC-CTCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTAAAGTTGCATT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGT
***
4595368 GGAGCAGATTAAAACTTTAGATCT
65 GGAGCAGATTAAAACCACAGATCT
* * * *** * *
4595392 TATCTCTCTAAAGTTGCAGTGGAGCAGACTAAATAAGCA-AGTCTTATC-CTCCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCG-ATAATCCTATCTC-CCTGAAGTTGCAG
* ** *
4595455 T-GAGGCAGACTAAAGATGACAAATCT
64 TGGA-GCAGATTAAA-ACCACAGATCT
* *
4595481 TATCTCCCTGAAGTTGCAGTCGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
* *
4595546 AAGCAGATTAAAACCACAGATTT
66 GAGCAGATTAAAACCACAGATCT
*
4595569 TATCTCCCTGAAGTTTCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
4595593 TAGAATCAAG
Statistics
Matches: 425, Mismatches: 93, Indels: 60
0.74 0.16 0.10
Matches are distributed among these distances:
83 2 0.00
84 97 0.23
85 19 0.04
86 11 0.03
87 19 0.04
88 150 0.35
89 122 0.29
90 5 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (88 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGTG
GAGCAGATTAAAACCACAGATCT
Found at i:4595572 original size:133 final size:132
Alignment explanation
Indices: 4595270--4595592 Score: 341
Period size: 133 Copynumber: 2.4 Consensus size: 132
4595260 TATCTTCTTG
** * * *
4595270 AAGTTGCAGTGGAGTAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGAGCAGATTA
1 AAGTTGCAGTAAAGCAGACTAAATAACCAAGTCTTATCCTCCTGAAGTTGCAGTGGAGCAGACTA
* * * * ** * *
4595335 AAGCCGATAATCCTATCTCCCTAAAGTTGCATTGGAGCAGATTAAAACTTTAGATCTTATCTCTC
66 AAGACGAAAATCCTATCTCCCTAAAGTTGCAGTCGAGCAGATTAAAACGATAGATCCTATCTCCC
4595400 TA
131 TA
** *
4595402 AAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACT
1 AAGTTGCAGTAAAGCAGACTAAATAACCAAGTCTTATCCTCCTGAAGTTGCAGTGGA-GCAGACT
* * * *
4595466 AAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTCGAGCAGATTAAAGCCGATA-ATCCTATCT
65 AAAGACGA-AAATCCTATCTCCCTAAAGTTGCAGTCGAGCAGATTAAA-ACGATAGATCCTATCT
*
4595530 CCCTG
128 CCCTA
* * *
4595535 AAGTTGCAGTAAAGCAGA-TTAA-AACCACAGATTTTAT-CTCCCTGAAGTTTCAGTGGAG
1 AAGTTGCAGTAAAGCAGACTAAATAACCA-AG-TCTTATCCT-CCTGAAGTTGCAGTGGAG
4595593 TAGAATCAAG
Statistics
Matches: 163, Mismatches: 21, Indels: 13
0.83 0.11 0.07
Matches are distributed among these distances:
131 6 0.04
132 72 0.44
133 80 0.49
134 5 0.03
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (132 bp):
AAGTTGCAGTAAAGCAGACTAAATAACCAAGTCTTATCCTCCTGAAGTTGCAGTGGAGCAGACTA
AAGACGAAAATCCTATCTCCCTAAAGTTGCAGTCGAGCAGATTAAAACGATAGATCCTATCTCCC
TA
Found at i:4595949 original size:18 final size:18
Alignment explanation
Indices: 4595926--4595960 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4595916 ACAAAATACA
* *
4595926 TGGCCCGATTTCAAACGG
1 TGGCCCAATTACAAACGG
4595944 TGGCCCAATTACAAACG
1 TGGCCCAATTACAAACG
4595961 CGGCCCAAAA
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:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (18 bp):
TGGCCCAATTACAAACGG
Found at i:4598468 original size:12 final size:12
Alignment explanation
Indices: 4598453--4598477 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4598443 GTAGCACGAC
4598453 CACGAGCATGAG
1 CACGAGCATGAG
4598465 CACGAGCATGAG
1 CACGAGCATGAG
4598477 C
1 C
4598478 TGTTGAGCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.32, T:0.08
Consensus pattern (12 bp):
CACGAGCATGAG
Found at i:4599704 original size:37 final size:37
Alignment explanation
Indices: 4599654--4599725 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
4599644 AAGAAGTTGG
*
4599654 GAAATTGGGGAAATCTGATTCTGACT-TGGGGAAAAAT
1 GAAATCGGGGAAATCTGATTCTGA-TATGGGGAAAAAT
*
4599691 GAAATCGGTGAAATCTGATTCTGATATGGGGAAAA
1 GAAATCGGGGAAATCTGATTCTGATATGGGGAAAA
4599726 CTAAGGAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.36, C:0.08, G:0.29, T:0.26
Consensus pattern (37 bp):
GAAATCGGGGAAATCTGATTCTGATATGGGGAAAAAT
Found at i:4602390 original size:6 final size:6
Alignment explanation
Indices: 4602379--4602405 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4602369 ACCGTTTACT
4602379 AAACCA AAACCA AAACCA AAACCA AAA
1 AAACCA AAACCA AAACCA AAACCA AAA
4602406 AAAAAAAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (6 bp):
AAACCA
Found at i:4607396 original size:70 final size:71
Alignment explanation
Indices: 4607322--4607472 Score: 254
Period size: 70 Copynumber: 2.2 Consensus size: 71
4607312 AGCCCCACCC
4607322 ATCACCA-TCATATATAGTATTTAGCTCAATGAGTCTGATAGCCGGAGGCAACTGCCATTCCTTA
1 ATCACCACTCATATATAGTATTTAGCTCAATGAGTCTGATAGCCGGAGGCAACTGCCATTCCTTA
4607386 CCCATA
66 CCCATA
* * *
4607392 ATCA-CACTCATATGTAGTATTTAGCTCAATGAGTCTGATAGCTGGAGGCAACTGTCATTCCTTA
1 ATCACCACTCATATATAGTATTTAGCTCAATGAGTCTGATAGCCGGAGGCAACTGCCATTCCTTA
4607456 CCCATA
66 CCCATA
4607462 ATCA-CACTCAT
1 ATCACCACTCAT
4607473 TAAAACCTTA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
69 2 0.03
70 75 0.97
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (71 bp):
ATCACCACTCATATATAGTATTTAGCTCAATGAGTCTGATAGCCGGAGGCAACTGCCATTCCTTA
CCCATA
Found at i:4609412 original size:42 final size:41
Alignment explanation
Indices: 4609327--4609614 Score: 317
Period size: 42 Copynumber: 6.9 Consensus size: 41
4609317 GCGTTTACAG
* *
4609327 AAAAAAACGCCGCTAAAGGTCATGTTCTTTAACGGCGCTAC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAC
* *
4609368 AAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGTGCTCAC
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCT-AC
* * *
4609410 AAAAAAAAGCCGTTAAAGATCATGTTCTTTAGCGGCGCTAA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAC
* *
4609451 AATAAAAACGCTGCTAAAGATCTTGTTCTTTAGCGGCGCTTA-
1 AA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TAC
* * **
4609493 AATAAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCACATGG
1 AA-AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TAC
* * * * **
4609536 AGAAAAATGCCGCTAAAGATCTTGTTCTTTAGTGGCGCATGG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGC-TAC
* * *
4609578 AGAAAAAGGCCGCTAAAGATCTTGTTCTTTAGCGGCG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
4609615 TTTTTGTTTA
Statistics
Matches: 220, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
41 38 0.17
42 179 0.81
43 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (41 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAC
Found at i:4609631 original size:126 final size:126
Alignment explanation
Indices: 4609329--4609649 Score: 355
Period size: 126 Copynumber: 2.6 Consensus size: 126
4609319 GTTTACAGAA
* * * *
4609329 AAAAACGCCGCTAAAGGTCATGTTCTTTAACGGCGC-TACAA-AAAAACGCCACTAAAGATCATG
1 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCTTA-AATAAAAACGCCGCTAAAGATCATG
* * * * *
4609392 TTCTTTAGCGGTGCTCA--CAAAAAAAAGCCGTTAAAGATCATGTTCTTTAGCGGCGCTAAAAT
65 TTCTTTAGC-G-GCACATGGAGAAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAAAG
* *
4609454 AAAAACGCTGCTAAAGATCTTGTTCTTTAGCGGCGCTTAAATAAAAACGCCGCTAAAGATCTTGT
1 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCTTAAATAAAAACGCCGCTAAAGATCATGT
* * * **
4609519 TCTTTAGCGGCACATGGAGAAAAATGCCGCTAAAGATCTTGTTCTTTAGTGGCGC-ATGGAG
66 TCTTTAGCGGCACATGGAGAAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCGCTA-AAAG
* * *** ** *
4609580 AAAAAGGCCGCTAAAGATCTTGTTCTTTAGCGGCGTTTTTGTTTAAGCGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCTTAAATAAAAACGCCGCTAAAGATCATGT
4609645 TCTTT
66 TCTTT
4609650 TCGCGGCGCT
Statistics
Matches: 165, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
124 4 0.02
125 36 0.22
126 125 0.76
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGATCTTGTTCTTTAGCGGCGCTTAAATAAAAACGCCGCTAAAGATCATGT
TCTTTAGCGGCACATGGAGAAAAAAGCCGCTAAAGATCATGTTCTTTAGCGGCGCTAAAAG
Found at i:4620627 original size:11 final size:12
Alignment explanation
Indices: 4620600--4620627 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
4620590 AAACGAATTA
4620600 AAAAAATCTTTT
1 AAAAAATCTTTT
4620612 AAAAAATCTTTT
1 AAAAAATCTTTT
4620624 AAAA
1 AAAA
4620628 TTACATGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (12 bp):
AAAAAATCTTTT
Found at i:4621045 original size:45 final size:47
Alignment explanation
Indices: 4620981--4621170 Score: 160
Period size: 45 Copynumber: 4.1 Consensus size: 47
4620971 TAATACATCC
* *
4620981 AAAAT-AATAATATATGATAATTTTAAA-AATATTAATGATAAATTT
1 AAAATAAATAATACATGATAAATTTAAATAATATTAATGATAAATTT
* *
4621026 AAAATAAAT-ATACATGATAAATTTAAATAATGTTAATGATGAATTT
1 AAAATAAATAATACATGATAAATTTAAATAATATTAATGATAAATTT
* * ** *
4621072 AAAAT-AATAATA-TTGATAAATTACAAATAATAATGCATGATAAATCT
1 AAAATAAATAATACATGATAAATT-TAAATAAT-ATTAATGATAAATTT
* * ** * * **
4621119 AAGAT-AATAATATACAATAAA-TTAAACAATATTAATAATAAAACT
1 AAAATAAATAATACATGATAAATTTAAATAATATTAATGATAAATTT
4621164 AAAATAA
1 AAAATAA
4621171 TATTAAGTTT
Statistics
Matches: 116, Mismatches: 22, Indels: 13
0.77 0.15 0.09
Matches are distributed among these distances:
45 48 0.41
46 41 0.35
47 22 0.19
48 5 0.04
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (47 bp):
AAAATAAATAATACATGATAAATTTAAATAATATTAATGATAAATTT
Found at i:4621088 original size:23 final size:23
Alignment explanation
Indices: 4620904--4621172 Score: 153
Period size: 24 Copynumber: 11.7 Consensus size: 23
4620894 ACAATATAGA
* * *
4620904 ATAAATTTGAAATAACAATACATA
1 ATAAATTTAAAATAATAATA-ATG
** *
4620928 ATAAATTT-AAA-AATTTTGATG
1 ATAAATTTAAAATAATAATAATG
* * *
4620949 ATAATTTTAAAATAATAATACGTA
1 ATAAATTTAAAATAATAATA-ATG
* **
4620973 ATACATCCAAAATAATAATATATG
1 ATAAATTTAAAATAATAATA-ATG
* *
4620997 AT-AATTTTAAA-AATATTAATG
1 ATAAATTTAAAATAATAATAATG
4621018 ATAAATTTAAAATAA-ATATACATG
1 ATAAATTTAAAATAATA-ATA-ATG
**
4621042 ATAAATTT-AAATAATGTTAATG
1 ATAAATTTAAAATAATAATAATG
* *
4621064 ATGAATTTAAAATAATAATATTG
1 ATAAATTTAAAATAATAATAATG
*
4621087 ATAAA-TTACAAATAATAATGCATG
1 ATAAATTTA-AAATAATAAT-AATG
* * **
4621111 ATAAATCTAAGATAATAATATACA
1 ATAAATTTAAAATAATAATA-ATG
* *
4621135 ATAAATTAAACAATATTAATAAT-
1 ATAAATTTAA-AATAATAATAATG
*
4621158 A-AAA-CTAAAATAATA
1 ATAAATTTAAAATAATA
4621173 TTAAGTTTGA
Statistics
Matches: 184, Mismatches: 47, Indels: 32
0.70 0.18 0.12
Matches are distributed among these distances:
20 6 0.03
21 16 0.09
22 37 0.20
23 50 0.27
24 65 0.35
25 10 0.05
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
ATAAATTTAAAATAATAATAATG
Found at i:4621089 original size:69 final size:68
Alignment explanation
Indices: 4620958--4621126 Score: 164
Period size: 69 Copynumber: 2.5 Consensus size: 68
4620948 GATAATTTTA
* * * * * ** * *
4620958 AAATAATAATACGTAATACATCCAAAATAATAATATATGATAATTTTAAAAATATTAATGATAAA
1 AAATAATAATACATGATAAATCTAAGATAATGTTA-ATGATAATTTAAAAAATAATAATGATAAA
4621023 TTTA-
65 -TTAC
* *
4621027 AAATAA-ATATACATGATAAATTTAA-ATAATGTTAATGATGAATTTAAAATAATAATATTGATA
1 AAATAATA-ATACATGATAAATCTAAGATAATGTTAATGAT-AATTTAAAA-AATAATAATGATA
4621090 AATTAC
63 AATTAC
*
4621096 AAATAATAATGCATGATAAATCTAAGATAAT
1 AAATAATAATACATGATAAATCTAAGATAAT
4621127 AATATACAAT
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
67 5 0.06
68 19 0.23
69 52 0.63
70 6 0.07
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (68 bp):
AAATAATAATACATGATAAATCTAAGATAATGTTAATGATAATTTAAAAAATAATAATGATAAAT
TAC
Found at i:4621100 original size:114 final size:114
Alignment explanation
Indices: 4620904--4621114 Score: 268
Period size: 114 Copynumber: 1.9 Consensus size: 114
4620894 ACAATATAGA
* * *
4620904 ATAAATTTGAAATAACAATACATAATAAATTTAAAAATTTTGATGATAATTTTAAAATAATAATA
1 ATAAATTTAAAATAACAATACATAATAAATTTAAAAATGTTAATGATAATTTTAAAATAATAATA
* * *
4620969 CGTAATACATCCAAAATAATAATATATGATAATTTTAAAAATATTAATG
66 CGTAATAAATACAAAATAATAATACATGATAATTTTAAAAATATTAATG
*
4621018 ATAAATTTAAAATAA-ATATACATGATAAATTTAAATAATGTTAATGATGAA-TTTAAAATAATA
1 ATAAATTTAAAATAACA-ATACATAATAAATTTAAA-AATGTTAATGAT-AATTTTAAAATAATA
* * *
4621081 ATA-TTGATAAATTAC-AAATAATAATGCATGATAA
63 ATACGTAATAAA-TACAAAATAATAATACATGATAA
4621115 ATCTAAGATA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
113 1 0.01
114 53 0.64
115 27 0.33
116 2 0.02
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (114 bp):
ATAAATTTAAAATAACAATACATAATAAATTTAAAAATGTTAATGATAATTTTAAAATAATAATA
CGTAATAAATACAAAATAATAATACATGATAATTTTAAAAATATTAATG
Found at i:4630462 original size:6 final size:6
Alignment explanation
Indices: 4630453--4630531 Score: 59
Period size: 6 Copynumber: 12.7 Consensus size: 6
4630443 AGAGAGGTAT
* * * * *
4630453 GAAGTA GAAGGA GAAGGA GAAGGA GAGGGA GAATAAGA TGAAGGG GAAGGG
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA G-A-AGGA -GAAGGA GAAGGA
* * *
4630504 GAAGGA GAAGGG GAAGGG GAAGGG GAAG
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAG
4630532 AAGAGGAAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
6 55 0.89
7 3 0.05
8 3 0.05
9 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.53, T:0.04
Consensus pattern (6 bp):
GAAGGA
Found at i:4630515 original size:18 final size:18
Alignment explanation
Indices: 4630492--4630531 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
4630482 AGAATAAGAT
4630492 GAAGGGGAAGGGGAAGGA
1 GAAGGGGAAGGGGAAGGA
*
4630510 GAAGGGGAAGGGGAAGGG
1 GAAGGGGAAGGGGAAGGA
4630528 GAAG
1 GAAG
4630532 AAGAGGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (18 bp):
GAAGGGGAAGGGGAAGGA
Found at i:4630549 original size:18 final size:18
Alignment explanation
Indices: 4630487--4630549 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
4630477 GAGGGAGAAT
*
4630487 AAGATGAAGGGGAAGGGG
1 AAGAAGAAGGGGAAGGGG
*
4630505 AAGGAGAAGGGGAAGGGG
1 AAGAAGAAGGGGAAGGGG
* *
4630523 AAGGGGAAGAAGAGGAAGAGG
1 AA---GAAGAAGGGGAAGGGG
4630544 AAGAAG
1 AAGAAG
4630550 CACTTTTCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
18 22 0.59
21 15 0.41
ACGTcount: A:0.44, C:0.00, G:0.54, T:0.02
Consensus pattern (18 bp):
AAGAAGAAGGGGAAGGGG
Found at i:4646867 original size:57 final size:57
Alignment explanation
Indices: 4646796--4646903 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 57
4646786 TGGGTAGTTT
*
4646796 TATACGAGTATTTTGTCGATTGAGTGTTAGTTTGAATGATAATGATATTGTAGCTAG
1 TATACGAGTATTTTGTCGATTGAGTGTTAGCTTGAATGATAATGATATTGTAGCTAG
* * *
4646853 TATACGAGTGTTTTGTCGATTGAGTGTTGGCTTGATTGATAATGATATTGT
1 TATACGAGTATTTTGTCGATTGAGTGTTAGCTTGAATGATAATGATATTGT
4646904 TGTTAGTGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 47 1.00
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.44
Consensus pattern (57 bp):
TATACGAGTATTTTGTCGATTGAGTGTTAGCTTGAATGATAATGATATTGTAGCTAG
Found at i:4652883 original size:33 final size:33
Alignment explanation
Indices: 4652836--4652903 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
4652826 GGTGGTTGAC
* * *
4652836 GAGAGGGTCGAGAGTGTGTATTGTCGAGAGTGA
1 GAGAGGGTCAAGAGTGTGGATTGTCAAGAGTGA
4652869 GAGAGGGTCAAGAGTGTGGATTGTCAAGAGTGA
1 GAGAGGGTCAAGAGTGTGGATTGTCAAGAGTGA
4652902 GA
1 GA
4652904 TATGGTGTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.06, G:0.44, T:0.22
Consensus pattern (33 bp):
GAGAGGGTCAAGAGTGTGGATTGTCAAGAGTGA
Found at i:4652896 original size:16 final size:16
Alignment explanation
Indices: 4652846--4652900 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
4652836 GAGAGGGTCG
* *
4652846 AGAGTGTGTATTGTCG
1 AGAGTGTGGATTGTCA
* **
4652862 AGAGTGAGAGAGGGTCA
1 AGAGTGTG-GATTGTCA
4652879 AGAGTGTGGATTGTCA
1 AGAGTGTGGATTGTCA
4652895 AGAGTG
1 AGAGTG
4652901 AGATATGGTG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.27, C:0.05, G:0.42, T:0.25
Consensus pattern (16 bp):
AGAGTGTGGATTGTCA
Found at i:4659209 original size:29 final size:29
Alignment explanation
Indices: 4659172--4659235 Score: 112
Period size: 29 Copynumber: 2.2 Consensus size: 29
4659162 AATGGGATAT
4659172 TACA-GATTGTATGGTGAACTCTTCAAAG
1 TACATGATTGTATGGTGAACTCTTCAAAG
*
4659200 TACATGATTGTATGGTGAACTCTTCATAG
1 TACATGATTGTATGGTGAACTCTTCAAAG
4659229 TACATGA
1 TACATGA
4659236 AACTATGCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (29 bp):
TACATGATTGTATGGTGAACTCTTCAAAG
Found at i:4659242 original size:29 final size:29
Alignment explanation
Indices: 4659181--4659242 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
4659171 TTACAGATTG
***
4659181 TATGGTGAACTCTTCAAAGTACATGATTG
1 TATGGTGAACTCTTCAAAGTACATGAAAC
*
4659210 TATGGTGAACTCTTCATAGTACATGAAAC
1 TATGGTGAACTCTTCAAAGTACATGAAAC
4659239 TATG
1 TATG
4659243 CATGTATCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (29 bp):
TATGGTGAACTCTTCAAAGTACATGAAAC
Found at i:4667471 original size:21 final size:21
Alignment explanation
Indices: 4667445--4667495 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
4667435 TCGAAAGTTG
*
4667445 AACAGAAGCACATAAGTGCTA
1 AACAGAAGCACATAAGGGCTA
* * *
4667466 AACAGAAACCCATAAGGGTTA
1 AACAGAAGCACATAAGGGCTA
*
4667487 AACGGAAGC
1 AACAGAAGC
4667496 TTATAAGAGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.12
Consensus pattern (21 bp):
AACAGAAGCACATAAGGGCTA
Found at i:4667517 original size:42 final size:42
Alignment explanation
Indices: 4667445--4667683 Score: 282
Period size: 42 Copynumber: 5.7 Consensus size: 42
4667435 TCGAAAGTTG
* * *
4667445 AACAGAAGCACATAAGTGCTAAAC-AGAAACCCATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTAAACGA-AAACCCATAAGGGTTA
* * * * * *
4667487 AACGGAAGCTTATAAGAGCTGAACGAAAACCCAAAAGGATTA
1 AACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAAGGGTTA
* * *
4667529 AACAAAAGTTCAAAAGAGCTGAACGAAAACCCATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAAGGGTTA
*
4667571 GACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAAGGGTTA
1 AACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAAGGGTTA
* * * * *
4667613 AACAGAAGCTCAAAAAAGCTAAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAAGGGTTA
**
4667655 AACAGAAGCTCATGAGAGCTAAACGAAAA
1 AACAGAAGCTCAAAAGAGCTAAACGAAAA
4667684 GTAAACAAAA
Statistics
Matches: 168, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
42 167 0.99
43 1 0.01
ACGTcount: A:0.49, C:0.18, G:0.20, T:0.14
Consensus pattern (42 bp):
AACAGAAGCTCAAAAGAGCTAAACGAAAACCCATAAGGGTTA
Found at i:4667677 original size:21 final size:20
Alignment explanation
Indices: 4667611--4667678 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
4667601 CCATAAGGGT
* *
4667611 TAAACAGAAGCTCAAAAAAGC
1 TAAACAGAAGCTC-ATAGAGC
* * *
4667632 TAAACGGAAACTCATATGAGT
1 TAAACAGAAGCTCATA-GAGC
4667653 TAAACAGAAGCTCATGAGAGC
1 TAAACAGAAGCTCAT-AGAGC
4667674 TAAAC
1 TAAAC
4667679 GAAAAGTAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.05
21 34 0.92
22 1 0.03
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.16
Consensus pattern (20 bp):
TAAACAGAAGCTCATAGAGC
Found at i:4676651 original size:23 final size:23
Alignment explanation
Indices: 4676625--4676670 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
4676615 CTTTAAACAC
4676625 CCCCATTAAGTTCACCAATAAAG
1 CCCCATTAAGTTCACCAATAAAG
4676648 CCCCATTAAGTTCACCAATAAAG
1 CCCCATTAAGTTCACCAATAAAG
4676671 GATCATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.30, G:0.09, T:0.22
Consensus pattern (23 bp):
CCCCATTAAGTTCACCAATAAAG
Found at i:4676982 original size:41 final size:41
Alignment explanation
Indices: 4676937--4677250 Score: 357
Period size: 41 Copynumber: 7.7 Consensus size: 41
4676927 TTTTGGGACA
* *
4676937 TTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGAGCT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCT
*
4676978 TTAGCGGCGTTTTTAAAAAAGCTCCGCTAATGCTCA-AGCTT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGC-T
** ** *
4677019 TTATTGGCGTTTTTAAAAAAATGTCGCTAATGCTCAGAGCT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCT
* *
4677060 TTAGCGGCGATTTTAAAAAAGAGCCGCTAATGCTCA-AGCTT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGC-T
* * * *
4677101 TTAGCGGCGTTTTTAGAAAGGCGCTGCTAATGCTCAGAGAT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCT
* * **
4677142 TTAGTGGCATTTTTGAAAAAA-CGATGCTAATGCTCAG-GCTT
1 TTAGCGGCGTTTTT-AAAAAAGCGCCGCTAATGCTCAGAGC-T
* * *
4677183 TTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGCT
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCT
* *
4677224 TTAGCGGCATTTTTGAAAAAGCGCCGC
1 TTAGCGGCGTTTTTAAAAAAGCGCCGC
4677251 AAAAATATTT
Statistics
Matches: 229, Mismatches: 36, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
40 13 0.06
41 205 0.90
42 11 0.05
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (41 bp):
TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCT
Found at i:4677079 original size:123 final size:123
Alignment explanation
Indices: 4676937--4677250 Score: 402
Period size: 123 Copynumber: 2.6 Consensus size: 123
4676927 TTTTGGGACA
* * *
4676937 TTAGCGGCGTTTTTGAAAAAGCGCCACTAATGCTCAGAGCTTTAGCGGCGTTTTTAAAAAAGCTC
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTAAAAAAGCGC
* * * *
4677002 CGCTAATGCTCA-AGCTTTTATTGGCGTTTTTAAAAAAATG-TCGCTAATGCTCAGAGC-T
66 CGCTAATGCTCAGAG-ATTTAGTGGCATTTTTAAAAAAACGAT-GCTAATGCTCAG-GCTT
* * * *
4677060 TTAGCGGCGATTTTAAAAAAGAGCCGCTAATGCTCA-AGCTTTTAGCGGCGTTTTTAGAAAGGCG
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGC-TTTAGCGGCGTTTTTAAAAAAGCG
* *
4677124 CTGCTAATGCTCAGAGATTTAGTGGCATTTTTGAAAAAACGATGCTAATGCTCAGGCTT
65 CCGCTAATGCTCAGAGATTTAGTGGCATTTTTAAAAAAACGATGCTAATGCTCAGGCTT
* * * * *
4677183 TTAGCAGCGTTTTTAAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCATTTTTGAAAAAGCGC
1 TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTAAAAAAGCGC
4677248 CGC
66 CGC
4677251 AAAAATATTT
Statistics
Matches: 163, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
122 5 0.03
123 153 0.94
124 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (123 bp):
TTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTAAAAAAGCGC
CGCTAATGCTCAGAGATTTAGTGGCATTTTTAAAAAAACGATGCTAATGCTCAGGCTT
Found at i:4677595 original size:14 final size:14
Alignment explanation
Indices: 4677578--4677614 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4677568 GGATTTAATA
*
4677578 TATATGGTTTATGG
1 TATATGGTTTAGGG
4677592 TATATGGTTTAGGG
1 TATATGGTTTAGGG
4677606 TATATGGTT
1 TATATGGTT
4677615 AATTTAGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:4677862 original size:12 final size:13
Alignment explanation
Indices: 4677837--4677874 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4677827 TTAGGGGTTA
4677837 AGGGTTAGAGATTT
1 AGGGTTA-AGATTT
4677851 -GGGTTAAGATTT
1 AGGGTTAAGATTT
*
4677863 AGGGTTTAGATT
1 AGGGTTAAGATT
4677875 AATTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.39
Consensus pattern (13 bp):
AGGGTTAAGATTT
Found at i:4677879 original size:81 final size:83
Alignment explanation
Indices: 4677780--4677955 Score: 232
Period size: 81 Copynumber: 2.1 Consensus size: 83
4677770 TCGGTGTGGC
* * * *
4677780 TTAGGGTTTAAATTAATTAGTGTGTTTTAA-TCTATATTAAATAAGGTTTAGGGGTTAAGGGTTA
1 TTAGGGTTTAAATTAATTAAT-TGTTTTAATTATATATTAAATAAGCTTTAGGGGATAAGGGTTA
* *
4677844 GAGATT-TGGGTTA-AGAT
65 GAGATTAAGAGTTAGAGAT
* * *
4677861 TTAGGGTTTAGATTAATTAATTTTTTTAATTATATATTAAATAAGCTTTAGGGGATAGGGGTTAG
1 TTAGGGTTTAAATTAATTAATTGTTTTAATTATATATTAAATAAGCTTTAGGGGATAAGGGTTAG
*
4677926 AGATTAAGAGTTAGTGAT
66 AGATTAAGAGTTAGAGAT
4677944 TTAGGGTTTAAA
1 TTAGGGTTTAAA
4677956 GATTCGGGGT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
80 7 0.09
81 55 0.68
82 5 0.06
83 14 0.17
ACGTcount: A:0.32, C:0.01, G:0.24, T:0.42
Consensus pattern (83 bp):
TTAGGGTTTAAATTAATTAATTGTTTTAATTATATATTAAATAAGCTTTAGGGGATAAGGGTTAG
AGATTAAGAGTTAGAGAT
Found at i:4679908 original size:13 final size:13
Alignment explanation
Indices: 4679890--4679915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4679880 TTATAAAATT
4679890 TTTACATTTTACA
1 TTTACATTTTACA
4679903 TTTACATTTTACA
1 TTTACATTTTACA
4679916 AAGCTCTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTACATTTTACA
Found at i:4680977 original size:41 final size:40
Alignment explanation
Indices: 4680932--4681033 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
4680922 TGATTCAGTA
4680932 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
4680973 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
4681014 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
4681034 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:4681048 original size:41 final size:41
Alignment explanation
Indices: 4680932--4681048 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
4680922 TGATTCAGTA
* * * * *
4680932 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
4680973 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
4681014 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
4681049 AATCTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:4688508 original size:41 final size:41
Alignment explanation
Indices: 4688463--4688564 Score: 143
Period size: 41 Copynumber: 2.5 Consensus size: 41
4688453 TGATTCAGTA
*
4688463 CACCGGCACTT-AGCTTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
4688504 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
*
4688545 CACCGGCAATAAGCCTGCTA
1 CACCGGCATTAAGCCTGCTA
4688565 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 2 0.04
41 53 0.96
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:4688579 original size:41 final size:41
Alignment explanation
Indices: 4688463--4688579 Score: 103
Period size: 41 Copynumber: 2.9 Consensus size: 41
4688453 TGATTCAGTA
* * * * * *
4688463 CACCGGCACTTAGCTTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
4688504 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
4688545 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
4688580 AATCTCAATT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.02
41 61 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:4693928 original size:19 final size:19
Alignment explanation
Indices: 4693904--4693949 Score: 71
Period size: 16 Copynumber: 2.6 Consensus size: 19
4693894 GTTCCAAGTC
4693904 AGAGATTTTGCAGATCTGA
1 AGAGATTTTGCAGATCTGA
4693923 AGAGA--TT-CAGATCTGA
1 AGAGATTTTGCAGATCTGA
4693939 AGAGATTTTGC
1 AGAGATTTTGC
4693950 TTCGGTTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 14 0.58
17 2 0.08
18 2 0.08
19 6 0.25
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.30
Consensus pattern (19 bp):
AGAGATTTTGCAGATCTGA
Found at i:4701213 original size:6 final size:6
Alignment explanation
Indices: 4701202--4701244 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
4701192 GCCCTTGTGC
4701202 ATACTG ATACTG ATACTG ATACTG ATACTG ATACTG ATACTG A
1 ATACTG ATACTG ATACTG ATACTG ATACTG ATACTG ATACTG A
4701245 ATTGGGTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (6 bp):
ATACTG
Found at i:4702039 original size:37 final size:37
Alignment explanation
Indices: 4701996--4702072 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
4701986 CAGTTTGTAT
*
4701996 AGACACATTGTCTGCGTCTTGATAGTATTGTAAGAGG
1 AGACACATTGTCTGCGTCTTGATAGCATTGTAAGAGG
*
4702033 AGACACATTGTCTGCGTCTTGATAGCATTGTTAGAGG
1 AGACACATTGTCTGCGTCTTGATAGCATTGTAAGAGG
4702070 AGA
1 AGA
4702073 TGCATTATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (37 bp):
AGACACATTGTCTGCGTCTTGATAGCATTGTAAGAGG
Found at i:4703571 original size:71 final size:70
Alignment explanation
Indices: 4703422--4703556 Score: 173
Period size: 71 Copynumber: 1.9 Consensus size: 70
4703412 GAATTATGGG
* * ***
4703422 ACCACACGCCCGTGTGGCCCACACACCCAGATTGGCCTTGCCCGTGTGGATCACACGGCCTGGCC
1 ACCACACGCCCGTGTGGCCCACACACCCAGATTGGCCTAGCCCGTATGGATCACACGGCCACACC
4703487 CAAAA
66 CAAAA
* * *
4703492 ACTCACACGCCCGTGTGGCCCACAC-GCCTGACTTGGCCTAGCCCGTATGGCTCACACGGCCACA
1 AC-CACACGCCCGTGTGGCCCACACACCCAGA-TTGGCCTAGCCCGTATGGATCACACGGCCACA
4703556 C
64 C
4703557 TTCAGCCACC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
70 6 0.11
71 49 0.89
ACGTcount: A:0.20, C:0.41, G:0.24, T:0.15
Consensus pattern (70 bp):
ACCACACGCCCGTGTGGCCCACACACCCAGATTGGCCTAGCCCGTATGGATCACACGGCCACACC
CAAAA
Found at i:4705034 original size:22 final size:22
Alignment explanation
Indices: 4705006--4705074 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
4704996 TATGCACTAT
4705006 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAAAGTGC
* *
4705028 TATACAGAAAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAA-GTGC
* * *
4705050 TAAACGGAGAGTACTAATGTGC
1 TAAACAGAGAGCACTAAAGTGC
4705072 TAA
1 TAA
4705075 TAATCAGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 3 0.08
22 33 0.87
23 2 0.05
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (22 bp):
TAAACAGAGAGCACTAAAGTGC
Found at i:4708902 original size:11 final size:11
Alignment explanation
Indices: 4708886--4708948 Score: 78
Period size: 11 Copynumber: 5.9 Consensus size: 11
4708876 CTTAATCACT
4708886 TTAATATTAAA
1 TTAATATTAAA
4708897 TTAATA-TAATA
1 TTAATATTAA-A
* *
4708908 TAAATATTAAG
1 TTAATATTAAA
4708919 TTAATATTAAA
1 TTAATATTAAA
4708930 TTAA-ATTAAA
1 TTAATATTAAA
4708940 TTAA-ATTAA
1 TTAATATTAA
4708949 TATTTACAAG
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
10 18 0.39
11 25 0.54
12 3 0.07
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:4708932 original size:5 final size:5
Alignment explanation
Indices: 4708886--4708948 Score: 56
Period size: 5 Copynumber: 11.8 Consensus size: 5
4708876 CTTAATCACT
* *
4708886 TTAATA TTAAA TT-AA TATAATA TAAATA TTAAG TTAATA TTAAA TTAAA
1 TTAA-A TTAAA TTAAA T-TAA-A TTAA-A TTAAA TTAA-A TTAAA TTAAA
4708935 TTAAA TTAAA TTAA
1 TTAAA TTAAA TTAA
4708949 TATTTACAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
4 3 0.06
5 28 0.57
6 16 0.33
7 2 0.04
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (5 bp):
TTAAA
Found at i:4710274 original size:6 final size:6
Alignment explanation
Indices: 4710235--4710273 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
4710225 TTAACCAATG
** *
4710235 AAAATA AAGGTA AAAATA AAAATA AAAATA AAATTA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
4710274 TCAATGATCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:4715845 original size:19 final size:19
Alignment explanation
Indices: 4715799--4715859 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
4715789 ATAAAATTAC
*
4715799 TCAAAATAAAATTAATATTAA
1 TCAACATAAAATTAA-A-TAA
* *
4715820 TAAAACA-AATAATTAAGTAA
1 T-CAACATAA-AATTAAATAA
4715840 TCAACATAAAATTAAATAA
1 TCAACATAAAATTAAATAA
4715859 T
1 T
4715860 TATTTAACTC
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
19 14 0.44
20 6 0.19
21 3 0.09
22 9 0.28
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.30
Consensus pattern (19 bp):
TCAACATAAAATTAAATAA
Found at i:4718911 original size:20 final size:20
Alignment explanation
Indices: 4718876--4718924 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4718866 ATCATGGTCT
*
4718876 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
4718895 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
4718915 TTGCTTACTT
1 TTGCTTACTT
4718925 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:4719294 original size:50 final size:50
Alignment explanation
Indices: 4719216--4719322 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
4719206 ACAGGAGATT
* * * * *
4719216 TCTCATATCGGTGCCCATGCCATTTCCCAGACAAGGTATTACGGGGGACC
1 TCTCATATCGATGCCAACGCCATGTCCCAGACAAGGTATTACAGGGGACC
* * * *
4719266 TCTCATCTCGATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC
1 TCTCATATCGATGCCAACGCCATGTCCCAGACAAGGTATTACAGGGGACC
*
4719316 TTTCATA
1 TCTCATA
4719323 ATCTCAATAA
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (50 bp):
TCTCATATCGATGCCAACGCCATGTCCCAGACAAGGTATTACAGGGGACC
Found at i:4719397 original size:36 final size:36
Alignment explanation
Indices: 4719357--4719428 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
4719347 CCCAGACATG
*
4719357 GTCTTATATGGGATCTCATTCCCTTAATGTCATGAC
1 GTCTTACATGGGATCTCATTCCCTTAATGTCATGAC
*
4719393 GTCTTACATGGGATCTCATTCCCTTAATGTCGTGAC
1 GTCTTACATGGGATCTCATTCCCTTAATGTCATGAC
4719429 ACTTGTATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (36 bp):
GTCTTACATGGGATCTCATTCCCTTAATGTCATGAC
Found at i:4723593 original size:18 final size:17
Alignment explanation
Indices: 4723565--4723605 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
4723555 TCTGGGCGTA
*
4723565 TGGGCCACACGTGCACG
1 TGGGCCACACGGGCACG
*
4723582 TGGGCTCACACGGGCATG
1 TGGGC-CACACGGGCACG
4723600 TGGGCC
1 TGGGCC
4723606 CATATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.15, C:0.32, G:0.39, T:0.15
Consensus pattern (17 bp):
TGGGCCACACGGGCACG
Found at i:4728582 original size:21 final size:21
Alignment explanation
Indices: 4728556--4728624 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 21
4728546 GTTAGACAAA
*
4728556 AAATAATCGATTCAAAGAAGC
1 AAATAATTGATTCAAAGAAGC
* *
4728577 AAATAATTGATTTAAA-ACAAC
1 AAATAATTGATTCAAAGA-AGC
4728598 AATAATGAATTGATTCAAAGAAGC
1 -A-AAT-AATTGATTCAAAGAAGC
4728622 AAA
1 AAA
4728625 AAATAAAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
20 1 0.03
21 16 0.42
22 3 0.08
23 4 0.11
24 13 0.34
25 1 0.03
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (21 bp):
AAATAATTGATTCAAAGAAGC
Found at i:4738275 original size:40 final size:40
Alignment explanation
Indices: 4738176--4738282 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 40
4738166 TTATACAGGA
* * * * **
4738176 TTTGTACTTTAGTGCCTCCATTTGCACTTTGATGCCTCTG
1 TTTGCACTTCAGTGCCTCTATTCGCACTACGATGCCTCTG
* * * *
4738216 TATGCAGTTC-GCTGTCTCTATTCGCACTACGGTGCCTCTG
1 TTTGCACTTCAG-TGCCTCTATTCGCACTACGATGCCTCTG
4738256 TTTGCACTTCAGTGCCTCTATTACGCA
1 TTTGCACTTCAGTGCCTCTATT-CGCA
4738283 TTTCCAATGC
Statistics
Matches: 51, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
39 1 0.02
40 45 0.88
41 5 0.10
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (40 bp):
TTTGCACTTCAGTGCCTCTATTCGCACTACGATGCCTCTG
Found at i:4746337 original size:18 final size:18
Alignment explanation
Indices: 4746314--4746373 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
4746304 ATTTAAAAAA
4746314 TTAATTGTTTTAAGTAAT
1 TTAATTGTTTTAAGTAAT
*** * *
4746332 TTAATTAAAATTAA-AAAA
1 TTAATT-GTTTTAAGTAAT
4746350 TTAATTGTTTTAAGTAAT
1 TTAATTGTTTTAAGTAAT
4746368 TTAATT
1 TTAATT
4746374 AAAGTTAAAT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 4 0.13
18 22 0.73
19 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (18 bp):
TTAATTGTTTTAAGTAAT
Found at i:4746350 original size:36 final size:36
Alignment explanation
Indices: 4746306--4746382 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
4746296 TGTTTATAAT
4746306 TTAAAAAATTAATTGTTTTAAGTAATTTAATTAAAA
1 TTAAAAAATTAATTGTTTTAAGTAATTTAATTAAAA
*
4746342 TTAAAAAATTAATTGTTTTAAGTAATTTAATTAAAG
1 TTAAAAAATTAATTGTTTTAAGTAATTTAATTAAAA
4746378 TTAAA
1 TTAAA
4746383 TTAAGAAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.44
Consensus pattern (36 bp):
TTAAAAAATTAATTGTTTTAAGTAATTTAATTAAAA
Found at i:4746770 original size:28 final size:28
Alignment explanation
Indices: 4746738--4746803 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
4746728 TACACTAATA
*
4746738 GTCACCTAACTATTAG-TAAATTTCTTTT
1 GTCACCCAACTATTAGTTAAATTT-TTTT
4746766 GTCACCCAACTATTAGTTAAATTTTTTT
1 GTCACCCAACTATTAGTTAAATTTTTTT
4746794 GTCACCCAAC
1 GTCACCCAAC
4746804 AATGAACAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 29 0.81
29 7 0.19
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (28 bp):
GTCACCCAACTATTAGTTAAATTTTTTT
Found at i:4749258 original size:17 final size:18
Alignment explanation
Indices: 4749228--4749262 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
4749218 GTGTGGTTCA
4749228 CTCGTGTAGGCCCACACG
1 CTCGTGTAGGCCCACACG
4749246 CTCGTGT-GGCCCACACG
1 CTCGTGTAGGCCCACACG
4749263 GCCCAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.14, C:0.40, G:0.29, T:0.17
Consensus pattern (18 bp):
CTCGTGTAGGCCCACACG
Found at i:4756916 original size:18 final size:18
Alignment explanation
Indices: 4756893--4756927 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4756883 GACCAATAAT
*
4756893 CCCACATGCCCGTGTGGG
1 CCCACACGCCCGTGTGGG
*
4756911 CCCACACGCTCGTGTGG
1 CCCACACGCCCGTGTGG
4756928 CTTACACAGC
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:0.11, C:0.40, G:0.31, T:0.17
Consensus pattern (18 bp):
CCCACACGCCCGTGTGGG
Found at i:4758723 original size:20 final size:21
Alignment explanation
Indices: 4758698--4758740 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
4758688 TTTATTTTCC
*
4758698 TATTAAAATTTTATTAT-TTT
1 TATTAAAATATTATTATCTTT
4758718 TATTAAAATATTATTATCTTT
1 TATTAAAATATTATTATCTTT
4758739 TA
1 TA
4758741 CAAGAAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTAAAATATTATTATCTTT
Found at i:4758846 original size:29 final size:29
Alignment explanation
Indices: 4758760--4758848 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 29
4758750 CATGATAATA
* * *
4758760 ATAACTATTTTAAAACTTAAGAGACG-ATA
1 ATAATTATTTTAAAATTTAAGAGA-GAATT
* * * *
4758789 ATAATTATTTTAAACTTTAGGAAATAATT
1 ATAATTATTTTAAAATTTAAGAGAGAATT
* *
4758818 ATTATTATTTTAAATTTTAAGAGAGAATT
1 ATAATTATTTTAAAATTTAAGAGAGAATT
4758847 AT
1 AT
4758849 GATAATCATA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (29 bp):
ATAATTATTTTAAAATTTAAGAGAGAATT
Found at i:4760276 original size:19 final size:19
Alignment explanation
Indices: 4760228--4760283 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 19
4760218 TTTGCATACC
* *
4760228 ATTATTGTATTTATTTGTTT
1 ATTATTGTA-TTATTTCTAT
4760248 ATATATTTGTATTATTTCTAT
1 AT-TA-TTGTATTATTTCTAT
*
4760269 ATTATTGTAATATTT
1 ATTATTGTATTATTT
4760284 ATTATTGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 10 0.32
20 4 0.13
21 12 0.39
22 5 0.16
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (19 bp):
ATTATTGTATTATTTCTAT
Found at i:4772308 original size:132 final size:132
Alignment explanation
Indices: 4772071--4773208 Score: 1916
Period size: 132 Copynumber: 8.6 Consensus size: 132
4772061 ATTGGTGAAA
* * * *
4772071 CACCAAGCCTTGTCTCCCTAAGTAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
4772136 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
4772201 GC
131 GC
* *
4772203 CACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
4772268 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
4772333 GC
131 GC
* *
4772335 CACCAAGCCTTGTCTCCCTGAGCAGCAGTAGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
4772400 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGCTTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
4772465 GC
131 GC
*
4772467 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
4772532 GCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
4772597 GC
131 GC
* *
4772599 CACCAAGCCTTGTCTCCCGGAGCAGCAGTGGAGAAGGTTGAAGATTGAAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
4772664 GCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAACAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
4772729 GC
131 GC
* *
4772731 CACCAAGCCTTGTCTCCCTGAGCAGCAGTTGAGAAGGTTGAAGATTGTAGATCTTATCTTCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
4772796 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGAGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
4772861 GC
131 GC
*
4772863 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCAAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * * *
4772928 GTAGTAGTGGAGTAGATCGAAGATGGCGAATCTTATCTTTCAAAGATAATGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
4772993 GC
131 GC
* * ** *
4772995 CACCAAGCCTTGTCTCCCTGAGTAGCAGCGGAGAAAATTAAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * * *
4773060 GCAGTAGTGGAGCAGATCGAAGATGGTGAATTTTATCTTTCCAAGATAGTGGGAAGCAGATTTGA
66 GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
4773125 GC
131 GC
* * * * **
4773127 CACCAAGCTTTGTCTCCCTGAGTAACAGCGGAGAAAATTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
4773192 GCAGTAGTGGAGCAGAT
66 GCAGTAGTGGAGCAGAT
4773209 TAAAGCCGAC
Statistics
Matches: 956, Mismatches: 50, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 956 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:4775856 original size:41 final size:41
Alignment explanation
Indices: 4775811--4775914 Score: 145
Period size: 41 Copynumber: 2.5 Consensus size: 41
4775801 ACTTCATCTA
* * *
4775811 CTAGGTTTAAAGTCTAATTCAGTTCACCGGCACTTAGCCTG
1 CTAGGCTTAAAGCCTAATTCAATTCACCGGCACTTAGCCTG
* *
4775852 CTAGGCTTATAGCCTGATTCAATTCACCGGCACTTAGCCTG
1 CTAGGCTTAAAGCCTAATTCAATTCACCGGCACTTAGCCTG
* *
4775893 CTAGGCTTATAGCCTGATTCAA
1 CTAGGCTTAAAGCCTAATTCAA
4775915 GAATAATTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (41 bp):
CTAGGCTTAAAGCCTAATTCAATTCACCGGCACTTAGCCTG
Found at i:4778077 original size:98 final size:98
Alignment explanation
Indices: 4777963--4778154 Score: 330
Period size: 98 Copynumber: 2.0 Consensus size: 98
4777953 AAAAATCATG
* *
4777963 AAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTCGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
4778028 AAATCTTGGATAAGTGGATGTTCTTTTAAATTA
66 AAATCTTGGATAAGTGGATGTTCTTTTAAATTA
* *
4778061 AAGGAAATATTCCGAGTTCGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGGTTTCTT
1 AAGGAAATATTCCGAGTTCGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
* *
4778126 AAATTTTGGATGAGTGGATGTTCTTTTAA
66 AAATCTTGGATAAGTGGATGTTCTTTTAA
4778155 TATTTTTATT
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.28, C:0.11, G:0.24, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTCGAGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAATTA
Found at i:4781043 original size:27 final size:27
Alignment explanation
Indices: 4781012--4781116 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
4781002 ATCTGACCGA
4781012 AATACCCCCATAAGGTAAAATGACCAG
1 AATACCCCCATAAGGTAAAATGACCAG
* *
4781039 AATACCCTCAT-AGGATAAAATGACCAA
1 AATACCCCCATAAGG-TAAAATGACCAG
* *
4781066 AATAACCCCATAGGGTAAAATGACC-G
1 AATACCCCCATAAGGTAAAATGACCAG
* * *
4781092 AAATACTCTCATAGGGTAAAATGAC
1 -AATACCCCCATAAGGTAAAATGAC
4781117 TGTTATACCC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
26 3 0.05
27 61 0.92
28 2 0.03
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (27 bp):
AATACCCCCATAAGGTAAAATGACCAG
Found at i:4781087 original size:54 final size:54
Alignment explanation
Indices: 4781005--4781116 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
4780995 GGTCGATATC
* *
4781005 TGACCGAAATACCCCCATAAGGTAAAATGACC-AGAATACCCTCATAGGATAAAA
1 TGACCAAAATAACCCCATAAGGTAAAATGACCGA-AATACCCTCATAGGATAAAA
* * *
4781059 TGACCAAAATAACCCCATAGGGTAAAATGACCGAAATACTCTCATAGGGTAAAA
1 TGACCAAAATAACCCCATAAGGTAAAATGACCGAAATACCCTCATAGGATAAAA
4781113 TGAC
1 TGAC
4781117 TGTTATACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (54 bp):
TGACCAAAATAACCCCATAAGGTAAAATGACCGAAATACCCTCATAGGATAAAA
Found at i:4782248 original size:19 final size:19
Alignment explanation
Indices: 4782226--4782268 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
4782216 CCAAAATACC
4782226 GATCCTCCTCCAGTCCACA
1 GATCCTCCTCCAGTCCACA
*
4782245 GATCCTCCTCCAGTCCACC
1 GATCCTCCTCCAGTCCACA
4782264 GATCC
1 GATCC
4782269 ACCTTCGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.49, G:0.12, T:0.21
Consensus pattern (19 bp):
GATCCTCCTCCAGTCCACA
Found at i:4797940 original size:27 final size:26
Alignment explanation
Indices: 4797882--4797941 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
4797872 TTAGGTTATG
* ** *
4797882 TTTAGTTTTAAAAAATATTTTTTATT
1 TTTATTTTTAAAAAATAGCTTTCATT
4797908 TTTATTTTTAAAAAATAGCTTTCATT
1 TTTATTTTTAAAAAATAGCTTTCATT
4797934 TTCTATTT
1 TT-TATTT
4797942 CTTTAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTATTTTTAAAAAATAGCTTTCATT
Found at i:4798328 original size:24 final size:24
Alignment explanation
Indices: 4798280--4798345 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
4798270 CAAATTTTAT
* *
4798280 ATTAAATATATATT-TTTATTTTTA
1 ATTAAATATATATTATATA-TATTA
4798304 ATTAAATATATATTATATATATTA
1 ATTAAATATATATTATATATATTA
* *
4798328 AATATATATAT-TTA-ATAT
1 ATTAAATATATATTATATAT
4798346 GGGTCGGGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.11
23 3 0.08
24 27 0.73
25 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTAAATATATATTATATATATTA
Found at i:4798345 original size:11 final size:11
Alignment explanation
Indices: 4798304--4798336 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
4798294 TTTATTTTTA
4798304 ATTAAATATAT
1 ATTAAATATAT
4798315 ATT--ATATAT
1 ATTAAATATAT
4798324 ATTAAATATAT
1 ATTAAATATAT
4798335 AT
1 AT
4798337 ATTTAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.45
11 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTAAATATAT
Found at i:4806464 original size:74 final size:74
Alignment explanation
Indices: 4806361--4806500 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 74
4806351 CATTAAAACT
4806361 AGTAATAATTGCTCTCTTATATTACTTTGTGACATTTTACATCACTCACCATAACATAC-AACTT
1 AGTAATAATTGCTCTCTTATATTACTTTGTGACATTTTACATCACTCACCATAACAT-CTAACTT
4806425 AACTAAAATC
65 AACTAAAATC
* *
4806435 AGTAATAATTGCAT-TTTTATA-TACTTTTGTGACATTTTACATCACTGACCATAACATCTAACT
1 AGTAATAATTGC-TCTCTTATATTAC-TTTGTGACATTTTACATCACTCACCATAACATCTAACT
4806498 TAA
64 TAA
4806501 TTATTATTTA
Statistics
Matches: 61, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
73 4 0.07
74 56 0.92
75 1 0.02
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (74 bp):
AGTAATAATTGCTCTCTTATATTACTTTGTGACATTTTACATCACTCACCATAACATCTAACTTA
ACTAAAATC
Found at i:4808614 original size:3 final size:3
Alignment explanation
Indices: 4808606--4808637 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4808596 GATTTAGTCC
4808606 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4808638 CCTATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4813195 original size:40 final size:40
Alignment explanation
Indices: 4813124--4813245 Score: 142
Period size: 40 Copynumber: 3.0 Consensus size: 40
4813114 CAAAAAAGTG
* *
4813124 AAGAAAAAGAAAAATCAAAATCAAAGTCAAAATGAAAATGA
1 AAGAAGAA-AAAAATCAAAATCAAAATCAAAATGAAAATGA
* * *
4813165 AA-AGGAAAAAAATCAAAAATAAAAATCAAAA--AAAGAAGA
1 AAGAAGAAAAAAATC-AAAATCAAAATCAAAATGAAA-ATGA
*
4813204 AAGAAGAAAAAAATCAAAATCAAGATCAAAATGAAAATGA
1 AAGAAGAAAAAAATCAAAATCAAAATCAAAATGAAAATGA
4813244 AA
1 AA
4813246 CTGAGAAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
38 3 0.04
39 26 0.39
40 33 0.49
41 5 0.07
ACGTcount: A:0.71, C:0.07, G:0.11, T:0.11
Consensus pattern (40 bp):
AAGAAGAAAAAAATCAAAATCAAAATCAAAATGAAAATGA
Done.