Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 159 of 198
Found at i:50163785 original size:61 final size:60
Alignment explanation
Indices: 50163507--50163789 Score: 199
Period size: 59 Copynumber: 4.7 Consensus size: 60
50163497 AATTATTTTA
* ** * *
50163507 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCA-AATT-A-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAAGAA-TA-TTGATTATTAAG
** * * * * * * *
50163566 TCTTTTA-TAGTATCATATATTATGATT-TGAGTAAATTCATATAAGAATATTAATTATTAAG
1 AATTTTATTA-AATCATATATTTTAATTAT-AATATATTTA-ATAAGAATATTGATTATTAAG
* * *
50163627 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAAT-TATG-TTAATTTA-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAAGAATAT-TGATT-ATTAAG
* * * * * *
50163686 TATTTTA-TAGTATCATATATTATGATT-TGAGTAAATTTATATAAGAATATTGATTATTAAG
1 AATTTTATTA-AATCATATATTTTAATTAT-AATATATTTA-ATAAGAATATTGATTATTAAG
50163747 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAA
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAA
50163790 TAATTATGTT
Statistics
Matches: 166, Mismatches: 40, Indels: 35
0.69 0.17 0.15
Matches are distributed among these distances:
58 8 0.05
59 61 0.37
60 35 0.21
61 56 0.34
62 6 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (60 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAAGAATATTGATTATTAAG
Found at i:50163787 original size:15 final size:16
Alignment explanation
Indices: 50163761--50163802 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50163751 TTATTAAATC
*
50163761 ATATATTTTAATTATA
1 ATATATTTTAATAATA
50163777 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
50163792 AT-TATGTTTAA
1 ATATAT-TTTAA
50163803 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:50164029 original size:45 final size:44
Alignment explanation
Indices: 50163941--50164030 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
50163931 ACCTCTATTC
* *
50163941 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTTCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCATTA
* * *
50163985 CATTCAACCAAACA-ATCGATTTGCTATTATGCCTCTAATCCATTA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTAATCCATTA
50164030 C
1 C
50164031 GCCTCTATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
43 1 0.03
44 16 0.41
45 22 0.56
ACGTcount: A:0.34, C:0.28, G:0.06, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTAATCCATTA
Found at i:50164404 original size:2 final size:2
Alignment explanation
Indices: 50164397--50164426 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50164387 TAGAAATCAA
50164397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50164427 TAGACCCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50167024 original size:10 final size:10
Alignment explanation
Indices: 50167011--50167048 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
50167001 AAATATTTAC
*
50167011 AAATTTATTT
1 AAATTTAATT
50167021 AAATTTAATT
1 AAATTTAATT
50167031 AAATTTAATT
1 AAATTTAATT
50167041 ATAATTTA
1 A-AATTTA
50167049 TCAACTTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
AAATTTAATT
Found at i:50167860 original size:31 final size:29
Alignment explanation
Indices: 50167822--50167898 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
50167812 CTAACGGCTC
* *
50167822 AGTGACTAAAATGTTACAACATGATAACATA
1 AGTGACTAAAATGTAAC-ACATCA-AACATA
* **
50167853 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACATCAAACATA
50167882 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
50167899 TTGAGCCAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 22 0.55
30 3 0.08
31 15 0.38
ACGTcount: A:0.48, C:0.14, G:0.13, T:0.25
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACATCAAACATA
Found at i:50169361 original size:21 final size:21
Alignment explanation
Indices: 50169335--50169378 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
50169325 GATACTTTGT
50169335 CTTGAGCATGTGAGCGAATGA
1 CTTGAGCATGTGAGCGAATGA
50169356 CTTGAGCATGTGAGCGAATGA
1 CTTGAGCATGTGAGCGAATGA
50169377 CT
1 CT
50169379 CCTAGAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (21 bp):
CTTGAGCATGTGAGCGAATGA
Found at i:50169662 original size:16 final size:16
Alignment explanation
Indices: 50169641--50169671 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
50169631 ACTGGGTTGA
*
50169641 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
50169657 GAAAATTAATTAATT
1 GAAAATTAATTAATT
50169672 AATTTAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:50171335 original size:43 final size:43
Alignment explanation
Indices: 50171279--50171426 Score: 179
Period size: 43 Copynumber: 3.4 Consensus size: 43
50171269 GTGGTACATG
* *
50171279 ACATGTATAATATTTGTTGGTTTCACCGACCAGTGTTGGGTAC
1 ACATGTATAATATTTGTCGGTTTCACCGACCAGTGTTGGGCAC
** *
50171322 ACATGTATAATATTTGTCATTTTCACCGACTAGTGTTGGGCAC
1 ACATGTATAATATTTGTCGGTTTCACCGACCAGTGTTGGGCAC
* * ** * *
50171365 ACATGTATAATATTTATCGGTTTTATTGACCACTGTTAGGCAC
1 ACATGTATAATATTTGTCGGTTTCACCGACCAGTGTTGGGCAC
* *
50171408 ATATATATAATATTTGTCG
1 ACATGTATAATATTTGTCG
50171427 ATTTTAGTGT
Statistics
Matches: 88, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 88 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (43 bp):
ACATGTATAATATTTGTCGGTTTCACCGACCAGTGTTGGGCAC
Found at i:50171432 original size:43 final size:42
Alignment explanation
Indices: 50171284--50171484 Score: 155
Period size: 43 Copynumber: 4.8 Consensus size: 42
50171274 ACATGACATG
* * * * * * *
50171284 TATAATATTTGTTGGTTTCACCGACCAGTGTTGGGTACACATG
1 TATAATATTTGTCGATTTTATCGACCA-TGTTGGGCACATATA
* * * *
50171327 TATAATATTTGTC-ATTTTCACCGACTAGTGTTGGGCACACATG
1 TATAATATTTGTCGATTTT-ATCGACCA-TGTTGGGCACATATA
* * * *
50171370 TATAATATTTATCGGTTTTATTGACCACTGTTAGGCACATATA
1 TATAATATTTGTCGATTTTATCGACCA-TGTTGGGCACATATA
50171413 TATAATATTTGTCGATTTTA--G----TGTTGGGCACATATA
1 TATAATATTTGTCGATTTTATCGACCATGTTGGGCACATATA
* *
50171449 TATAATATTTGTCGGTTTTATCGACCAACGTTGGGC
1 TATAATATTTGTCGATTTTATCGACC-ATGTTGGGC
50171485 GCAAAAATTT
Statistics
Matches: 130, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
36 33 0.25
38 1 0.01
41 1 0.01
42 3 0.02
43 88 0.68
44 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (42 bp):
TATAATATTTGTCGATTTTATCGACCATGTTGGGCACATATA
Found at i:50171450 original size:36 final size:36
Alignment explanation
Indices: 50171398--50171468 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
50171388 TATTGACCAC
50171398 TGTTAGGCACATATATATAATATTTGTCGATTTTAG
1 TGTTAGGCACATATATATAATATTTGTCGATTTTAG
* *
50171434 TGTTGGGCACATATATATAATATTTGTCGGTTTTA
1 TGTTAGGCACATATATATAATATTTGTCGATTTTA
50171469 TCGACCAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.45
Consensus pattern (36 bp):
TGTTAGGCACATATATATAATATTTGTCGATTTTAG
Found at i:50174593 original size:3 final size:3
Alignment explanation
Indices: 50174585--50174699 Score: 212
Period size: 3 Copynumber: 38.3 Consensus size: 3
50174575 TGAATCTTCA
*
50174585 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50174633 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
50174681 TAT TAG TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
50174700 TTGTCATGAG
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 108 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:50179220 original size:7 final size:7
Alignment explanation
Indices: 50179204--50179351 Score: 74
Period size: 7 Copynumber: 20.4 Consensus size: 7
50179194 GTTCAGATTC
50179204 AATAAAA
1 AATAAAA
*
50179211 AATAATA
1 AATAAAA
50179218 AATAAAA
1 AATAAAA
50179225 AA-ACAAA
1 AATA-AAA
50179232 AA-AATCAA
1 AATAA--AA
*
50179240 AATCAAA
1 AATAAAA
*
50179247 AA-GAAA
1 AATAAAA
50179253 AATAAAA
1 AATAAAA
50179260 AATAAAA
1 AATAAAA
50179267 AATCAATCAA
1 AAT-AA--AA
50179277 AAT-AAA
1 AATAAAA
50179283 AAT-AAA
1 AATAAAA
50179289 AAT-AAA
1 AATAAAA
* *
50179295 AATATGAG
1 AATA-AAA
50179303 AATGATAAA
1 AAT-A-AAA
50179312 AATAAAA
1 AATAAAA
*
50179319 AAGAAAA
1 AATAAAA
*
50179326 AAAAGAAA
1 AATA-AAA
*
50179334 AAGAAAA
1 AATAAAA
*
50179341 AGAGAAAA
1 A-ATAAAA
50179349 AAT
1 AAT
50179352 GAGAGGCCAA
Statistics
Matches: 115, Mismatches: 13, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
6 24 0.21
7 54 0.47
8 25 0.22
9 7 0.06
10 5 0.04
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.13
Consensus pattern (7 bp):
AATAAAA
Found at i:50179267 original size:42 final size:42
Alignment explanation
Indices: 50179208--50179298 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
50179198 AGATTCAATA
* *
50179208 AAAAATAATAAATAAAAAAACAA-AAAAATCAAAATCAAAAAG
1 AAAAATAAAAAATAAAAAAACAATAAAAATAAAAAT-AAAAAG
* * *
50179250 AAAAATAAAAAATAAAAAATCAATCAAAATAAAAATAAAAAT
1 AAAAATAAAAAATAAAAAAACAATAAAAATAAAAATAAAAAG
50179292 AAAAATA
1 AAAAATA
50179299 TGAGAATGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 33 0.77
43 10 0.23
ACGTcount: A:0.79, C:0.05, G:0.01, T:0.14
Consensus pattern (42 bp):
AAAAATAAAAAATAAAAAAACAATAAAAATAAAAATAAAAAG
Found at i:50179319 original size:6 final size:6
Alignment explanation
Indices: 50179208--50179298 Score: 80
Period size: 6 Copynumber: 15.2 Consensus size: 6
50179198 AGATTCAATA
* * *
50179208 AAAAAT AATAAAT AAAAA- AACAA- AAAAAT CAAAAT CAAAAAG AAAAAT
1 AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAAT
** *
50179256 AAAAAAT AAAAA- ATCAAT CAAAAT AAAAAT AAAAAT AAAAAT A
1 -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
50179299 TGAGAATGAT
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
5 11 0.16
6 41 0.60
7 16 0.24
ACGTcount: A:0.79, C:0.05, G:0.01, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:50181651 original size:43 final size:42
Alignment explanation
Indices: 50181603--50182276 Score: 205
Period size: 43 Copynumber: 15.2 Consensus size: 42
50181593 ACAGATCTTA
*
50181603 TCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACCCGAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCC-AGCCTTG
* * * * * ** * *
50181646 TCTCCCTGAGCAGTAGTGGAGTAGGTAGAAAAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCG---AAGA-CCCAG-CCTTG
50181693 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CCCAGCCTTG
* * * * * * *** * *
50181736 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAAATTATAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCG----AAGA-CCCAG-CCTTG
* *
50181784 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAACCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CCCAGCCTTG
* * * ** * * * * *
50181827 TCTCCCTGAGCAGTAGTGGAGTAGGTTAAAAATTAACAAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCA-GAT-CGAA-GACCCAG-CCTTG
* *
50181873 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGTCCCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-ACCCAGCCTTG
* * * * * * ** * ** * *
50181916 TCTCCTTGAGCAGCAATGGAGTAGGTTAAAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGA-CCCAG-CCTTG
* * *
50181961 TCTCCCTAAGTAGTAGTGGAGTAGATCGAAGACCCTAGCCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCC-AGCCTTG
* * * * * * ** * *
50182004 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCG----AAGA-CCCAG-CCTTG
* * * *
50182052 TCTCTCTAAGCAGTACTAGAGCAGATCGAAGACCCCAGCCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CCCAGCCTTG
* * * * * * * ** *
50182095 TCTCCCTGAGCAGCAGTGGAGTAGATTGAAAATTACAAATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA--CCCAGCCTTG
* *
50182139 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGTCCCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAG-ACCCAGCCTTG
* * * * * * * ** * *
50182182 TCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGA-CCCAG-CCTTG
*
50182227 TCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CCCAGCCTTG
*
50182270 CCTCCCT
1 TCTCCCT
50182277 GGTTTGCAGC
Statistics
Matches: 442, Mismatches: 159, Indels: 60
0.67 0.24 0.09
Matches are distributed among these distances:
43 188 0.43
44 81 0.18
45 53 0.12
46 31 0.07
47 38 0.09
48 51 0.12
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (42 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCAGCCTTG
Found at i:50181817 original size:91 final size:90
Alignment explanation
Indices: 50181569--50182277 Score: 1039
Period size: 91 Copynumber: 8.0 Consensus size: 90
50181559 TCTCACTGGA
* *
50181569 CAGCAGTGGAATAGG-T--AAAAAATTACAGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCG
1 CAGCAGTGGAGTAGGTTGAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
*
50181631 AAGACCCGAGCCTTGTCTCCCTGAG
66 AAGACCCCAGCCTTGTCTCCCTGAG
* *
50181656 CAGTAGTGGAGTAGGTAGAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
1 CAGCAGTGGAGTAGGTTGAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
50181721 AAGACCCCAGCCTTGTCTCCCTGAG
66 AAGACCCCAGCCTTGTCTCCCTGAG
*
50181746 CAGCAGTGGAGTAGGTTGAAAAAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 CAGCAGTGGAGTAGGTTG-AAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
50181811 GAAGACCCCAACCTTATCTCCCTGAG
65 GAAGACCCCAGCCTTGTCTCCCTGAG
*
50181837 CAGTAGTGGAGTAGGTT---AAAAATTAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 CAGCAGTGGAGTAGGTTGAAAAAAATT-AC-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * *
50181899 TGAAGTCCCCAGCCTTGTCTCCTTGAG
64 CGAAGACCCCAGCCTTGTCTCCCTGAG
* * *
50181926 CAGCAATGGAGTAGGTT--AAAAAATTACAGATCTTATCTCCCTAAGTAGTAGTGGAGTAGATCG
1 CAGCAGTGGAGTAGGTTGAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
* *
50181989 AAGACCCTAGCCTTATCTCCCTGAG
66 AAGACCCCAGCCTTGTCTCCCTGAG
* * *
50182014 CAGCAGTGGAGTAGGTTGAAAAAAAATTACAGATCTTATCTCTCTAAGCAGTACTAGAGCAGATC
1 CAGCAGTGGAGTAGGTTG-AAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
50182079 GAAGACCCCAGCCTTATCTCCCTGAG
65 GAAGACCCCAGCCTTGTCTCCCTGAG
* * *
50182105 CAGCAGTGGAGTAGATTG---AAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTG
1 CAGCAGTGGAGTAGGTTGAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
*
50182167 AAGTCCCCAGCCTTGTCTCCCTGAG
66 AAGACCCCAGCCTTGTCTCCCTGAG
* *
50182192 TAGCAGTGGAGTAGGTTG--AAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG
1 CAGCAGTGGAGTAGGTTGAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
*
50182255 AAGACCCCAGCCTTGCCTCCCTG
66 AAGACCCCAGCCTTGTCTCCCTG
50182278 GTTTGCAGCA
Statistics
Matches: 563, Mismatches: 48, Indels: 21
0.89 0.08 0.03
Matches are distributed among these distances:
87 98 0.17
88 133 0.24
89 73 0.13
90 92 0.16
91 167 0.30
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (90 bp):
CAGCAGTGGAGTAGGTTGAAAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AAGACCCCAGCCTTGTCTCCCTGAG
Found at i:50182063 original size:268 final size:267
Alignment explanation
Indices: 50181569--50182277 Score: 1152
Period size: 268 Copynumber: 2.7 Consensus size: 267
50181559 TCTCACTGGA
* * * *
50181569 CAGCAGTGGAATAGGTAAAAAATTAC-AGATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAA
1 CAGCAGTGGAGTAGGTTAAAAATTACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
* * * *
50181633 GACCCGAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTAGAAAAAAATTACAGATCTTATCTCC
66 GTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGT--TAAAAAATTACAGATCTTATCTCC
*
50181698 CTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTT
129 CTAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTT
* * *
50181763 GAAAAAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAACCTTAT
194 GAAAAAAAATTACAGATCTTATCTCCCTAAGCAGTACTAGAGCAGATCGAAGACCCCAACCTTAT
50181828 CTCCCTGAG
259 CTCCCTGAG
*
50181837 CAGTAGTGGAGTAGGTTAAAAATTAACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGA
1 CAGCAGTGGAGTAGGTTAAAAATT-ACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGA
* *
50181902 AGTCCCCAGCCTTGTCTCCTTGAGCAGCAATGGAGTAGGTTAAAAAATTACAGATCTTATCTCCC
65 AGTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAAATTACAGATCTTATCTCCC
* * *
50181967 TAAGTAGTAGTGGAGTAGATCGAAGACCCTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTG
130 TAAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG
* *
50182032 AAAAAAAATTACAGATCTTATCTCTCTAAGCAGTACTAGAGCAGATCGAAGACCCCAGCCTTATC
195 AAAAAAAATTACAGATCTTATCTCCCTAAGCAGTACTAGAGCAGATCGAAGACCCCAACCTTATC
50182097 TCCCTGAG
260 TCCCTGAG
* *
50182105 CAGCAGTGGAGTAGATTGAAAATTACAA-ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
1 CAGCAGTGGAGTAGGTTAAAAATTACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
* *
50182169 GTCCCCAGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCT
66 GTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAAATTACAGATCTTATCTCCCT
*
50182234 AAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGCCTCCCTG
131 AAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTG
50182278 GTTTGCAGCA
Statistics
Matches: 408, Mismatches: 31, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
266 137 0.34
267 4 0.01
268 195 0.48
269 2 0.00
270 70 0.17
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (267 bp):
CAGCAGTGGAGTAGGTTAAAAATTACAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAA
GTCCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTAAAAAATTACAGATCTTATCTCCCT
AAGCAGTAGTGGAGTAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGA
AAAAAAATTACAGATCTTATCTCCCTAAGCAGTACTAGAGCAGATCGAAGACCCCAACCTTATCT
CCCTGAG
Found at i:50182702 original size:76 final size:76
Alignment explanation
Indices: 50182555--50182704 Score: 187
Period size: 76 Copynumber: 2.0 Consensus size: 76
50182545 GACAGTGAAG
* * * * * *
50182555 CAGATCGAAGACACCAGTCTTGCCTCCTTGGGTTGACAACAGAGCAGACTAAAGATAGCAGATAT
1 CAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGACAACAGAGCAAACTAAAGAAAGCAGATAC
50182620 TGCCTTCCTGT
66 TGCCTTCCTGT
* * *
50182631 CAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTTG-CAGCGGAGCAAACTGAAGAAAGCAGAT-
1 CAGATCAAAGACACCAGCCTTGCCTCCCTGGG-TTGACAACAGAGCAAACTAAAGAAAGCAGATA
50182694 CTGACCTTCCT
65 CTG-CCTTCCT
50182705 ATACTGACAG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
75 2 0.03
76 58 0.92
77 3 0.05
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (76 bp):
CAGATCAAAGACACCAGCCTTGCCTCCCTGGGTTGACAACAGAGCAAACTAAAGAAAGCAGATAC
TGCCTTCCTGT
Found at i:50182793 original size:89 final size:87
Alignment explanation
Indices: 50182638--50182919 Score: 316
Period size: 89 Copynumber: 3.2 Consensus size: 87
50182628 TGTCAGATCA
*
50182638 AAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAAACTGAAGAAAGCAGATCTGACCTTC
1 AAGACACCAGCCTTGCCTCCCTGGG-TTGCAGCGGAGCAGACTGAAGAAAGCAGATCTGA-CTTC
50182703 CTATACTGACAGCGAAGCAAATCG
64 CTATACTGACAGCGAAGCAAATCG
* * * *
50182727 AAGACACAAGCCTTGCCTCCCTGGGATTGCAGTGGAGTAGACTGAAGAAAGTAGATCTCGTA-TT
1 AAGACACCAGCCTTGCCTCCCTGGG-TTGCAGCGGAGCAGACTGAAGAAAGCAGATCT-G-ACTT
* *
50182791 CCTGTACTGACAGCGAAGCAGATCG
63 CCTATACTGACAGCGAAGCAAATCG
* * * * * *
50182816 AAGATACCAGCCTTGCCTCCCTGGGTTGCCAGCGGAGCAGACTGAATATAGCAAATTTTACCTTC
1 AAGACACCAGCCTTGCCTCCCTGGGTTG-CAGCGGAGCAGACTGAAGAAAGCAGATCTGA-CTTC
* * * *
50182881 CTGTACTGACAGTGAAACAGATCG
64 CTATACTGACAGCGAAGCAAATCG
*
50182905 AA-ATCACCAACCTTG
1 AAGA-CACCAGCCTTG
50182920 TGTCCTTGGC
Statistics
Matches: 165, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
87 1 0.01
88 4 0.02
89 158 0.96
90 1 0.01
91 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (87 bp):
AAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGACTGAAGAAAGCAGATCTGACTTCCT
ATACTGACAGCGAAGCAAATCG
Found at i:50182795 original size:165 final size:164
Alignment explanation
Indices: 50182468--50182795 Score: 354
Period size: 165 Copynumber: 2.0 Consensus size: 164
50182458 GTAGTGGAGT
* * * *** *
50182468 AGATCGAAGACCCCAGCCTTGCCTCCCTAGATTGCAGCAGAGTAGGTTGAAGATAGCAGATCTTG
1 AGATCAAAGACACCAGCCTTGCCTCCCTAGATTGCAGCAGAGCAAACTGAAGAAAGCAGATCTTG
* * * * * * *
50182533 CCTTCTTGCACTGACAGTGAAGCAGATCGAAGACACCAGTCTTGCCTCCTTGGGTTGACAACAGA
66 CCTTCCTACACTGACAGCGAAGCAAATCGAAGACACAAGCCTTGCCTCCCTGGGTTGACAACAGA
* * *
50182598 GCAGACTAAAGATAGCAGATATTGCCTTCCTGTC
131 GCAGACTAAAGAAAGCAGATATCGCATTCCTGTC
* * *
50182632 AGATCAAAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAAACTGAAGAAAGCAGATC-T
1 AGATCAAAGACACCAGCCTTGCCTCCCT-AGATTGCAGCAGAGCAAACTGAAGAAAGCAGATCTT
* **
50182696 GACCTTCCTATACTGACAGCGAAGCAAATCGAAGACACAAGCCTTGCCTCCCTGGGATTG-CAGT
65 G-CCTTCCTACACTGACAGCGAAGCAAATCGAAGACACAAGCCTTGCCTCCCTGGG-TTGACAAC
* * * * * *
50182760 GGAGTAGACTGAAGAAAGTAGATCTCGTATTCCTGT
128 AGAGCAGACTAAAGAAAGCAGATATCGCATTCCTGT
50182796 ACTGACAGCG
Statistics
Matches: 132, Mismatches: 29, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
164 28 0.21
165 101 0.77
166 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.24, T:0.22
Consensus pattern (164 bp):
AGATCAAAGACACCAGCCTTGCCTCCCTAGATTGCAGCAGAGCAAACTGAAGAAAGCAGATCTTG
CCTTCCTACACTGACAGCGAAGCAAATCGAAGACACAAGCCTTGCCTCCCTGGGTTGACAACAGA
GCAGACTAAAGAAAGCAGATATCGCATTCCTGTC
Found at i:50184889 original size:2 final size:2
Alignment explanation
Indices: 50184882--50184913 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50184872 TATCTCTTGT
50184882 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50184914 AAATTTATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:50185236 original size:3 final size:3
Alignment explanation
Indices: 50185228--50185303 Score: 143
Period size: 3 Copynumber: 25.3 Consensus size: 3
50185218 TCATATTACC
*
50185228 TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
50185276 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
50185304 TTGTCATGAG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:50187370 original size:46 final size:46
Alignment explanation
Indices: 50187303--50187417 Score: 158
Period size: 46 Copynumber: 2.5 Consensus size: 46
50187293 CCACACTAAT
*
50187303 ATGTAGCCGAAGCTACCACTGATACGTAGCCATAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATACGGAGCCATAGCTACCACTGAA
** * * *
50187349 ATGTAGTTGAAGCTACCACTGATATGGAGTCGTAGCTACCACTGAA
1 ATGTAGCCGAAGCTACCACTGATACGGAGCCATAGCTACCACTGAA
* *
50187395 TTGTTGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAT
50187418 CAATAACACT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 59 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (46 bp):
ATGTAGCCGAAGCTACCACTGATACGGAGCCATAGCTACCACTGAA
Found at i:50187415 original size:23 final size:24
Alignment explanation
Indices: 50187296--50187416 Score: 128
Period size: 23 Copynumber: 5.2 Consensus size: 24
50187286 ATAAGTGCCA
50187296 CACT-AATATGTAGCCGAAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
*
50187319 CACTG-ATACGTAGCC-ATAGCTAC
1 CACTGAATATGTAGCCGA-AGCTAC
**
50187342 CACTGAA-ATGTAGTTGAAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
* * *
50187365 CACTG-ATATGGAGTCGTAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
*
50187388 CACTGAAT-TGTTGCCGAAGCTAC
1 CACTGAATATGTAGCCGAAGCTAC
50187411 CACTGA
1 CACTGA
50187417 TCAATAACAC
Statistics
Matches: 81, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
22 2 0.02
23 75 0.93
24 4 0.05
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (24 bp):
CACTGAATATGTAGCCGAAGCTAC
Found at i:50194284 original size:34 final size:37
Alignment explanation
Indices: 50194234--50194305 Score: 105
Period size: 35 Copynumber: 2.0 Consensus size: 37
50194224 CCGAATATAA
*
50194234 TAAATATATTTTTTA-TTTTTAATTTTAAAATACTTT
1 TAAATATATTTTTTATTTTTTAATTTTAAAATAATTT
*
50194270 TAAA-ATA-TTTTTATTTTTTATTTTTAAAATAATTT
1 TAAATATATTTTTTATTTTTTAATTTTAAAATAATTT
50194305 T
1 T
50194306 TTAATGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 6 0.18
35 23 0.70
36 4 0.12
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (37 bp):
TAAATATATTTTTTATTTTTTAATTTTAAAATAATTT
Found at i:50194315 original size:26 final size:24
Alignment explanation
Indices: 50194267--50194317 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
50194257 TTTAAAATAC
* *
50194267 TTTTAAAATATTTTTATTTTTTAT
1 TTTTAAAATATTTTTAATGTTTAT
50194291 TTTTAAAATAATTTTTTAATGTTTAT
1 TTTTAAAAT-A-TTTTTAATGTTTAT
50194317 T
1 T
50194318 AAAAAATGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.39
25 1 0.04
26 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAAAATATTTTTAATGTTTAT
Found at i:50199410 original size:14 final size:14
Alignment explanation
Indices: 50199388--50199430 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
50199378 ATTTATGGGA
*
50199388 CTCTGTCTCTTTCT
1 CTCTCTCTCTTTCT
50199402 CTCTCTCTCTTTCT
1 CTCTCTCTCTTTCT
* * *
50199416 ATCTTTCTCTCTCT
1 CTCTCTCTCTTTCT
50199430 C
1 C
50199431 ATTGTATAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.02, C:0.40, G:0.02, T:0.56
Consensus pattern (14 bp):
CTCTCTCTCTTTCT
Found at i:50202115 original size:18 final size:17
Alignment explanation
Indices: 50202083--50202116 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
50202073 TACACTACTT
*
50202083 ACATTTTTCTTTTCCAA
1 ACATTTTTCTATTCCAA
50202100 ACATTTTTCTCATTCCA
1 ACATTTTTCT-ATTCCA
50202117 TGTAACCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (17 bp):
ACATTTTTCTATTCCAA
Found at i:50208875 original size:24 final size:24
Alignment explanation
Indices: 50208851--50208896 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
50208841 TTTTTTTTGT
50208851 TTAAGT-TTTGGGCTATT-GGGTTG
1 TTAAGTATTTGGGCT-TTAGGGTTG
*
50208874 TTAGGTATTTGGGCTTTAGGGTT
1 TTAAGTATTTGGGCTTTAGGGTT
50208897 TTGTTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.13, C:0.04, G:0.35, T:0.48
Consensus pattern (24 bp):
TTAAGTATTTGGGCTTTAGGGTTG
Found at i:50209108 original size:94 final size:94
Alignment explanation
Indices: 50208974--50209194 Score: 282
Period size: 94 Copynumber: 2.4 Consensus size: 94
50208964 GGTTTCATAT
* * * * ** *
50208974 TGCTCTATTGTAACTTCAAGGAGATAAGATTTGTTATTGTAGCTTCAATCTGACCCACTGCAACT
1 TGCTCCATTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGCTTCAATCCGACCCACTGCAACT
*
50209039 TCA-GAGGTGTAGGATTTGTAGCTTCAAAC
66 TCATG-GGTATAGGATTTGTAGCTTCAAAC
* * * *
50209068 TGCTCCATTGCAACTTCAGGGAGATAAGGTTCGCCGTTGTAGTTTCAATCCGACCCACTGCAATT
1 TGCTCCATTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGCTTCAATCCGACCCACTGCAACT
* *
50209133 TTATGGGTATAGGATTTGTAGCTTCAATC
66 TCATGGGTATAGGATTTGTAGCTTCAAAC
* *
50209162 TACTCCACTGCAACTTCAGGGAGATAAGATTCG
1 TGCTCCATTGCAACTTCAGGGAGATAAGATTCG
50209195 TACTGTCTCA
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
94 108 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (94 bp):
TGCTCCATTGCAACTTCAGGGAGATAAGATTCGCCATTGTAGCTTCAATCCGACCCACTGCAACT
TCATGGGTATAGGATTTGTAGCTTCAAAC
Found at i:50215255 original size:6 final size:6
Alignment explanation
Indices: 50215244--50215273 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
50215234 ATGCAAAAGG
50215244 GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT
50215274 AAATTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:50215528 original size:64 final size:64
Alignment explanation
Indices: 50215371--50215532 Score: 189
Period size: 64 Copynumber: 2.6 Consensus size: 64
50215361 TAAAGTATAT
* *
50215371 ATATATATATATAT-ATAAATTGAAAATACATATATAAAG--ATATATAT-AATAAGATATAAAG
1 ATATATATATATATGA-AAATTAAAAATACGTATATAAAGATATATATATAAATAAGATATAAAG
*
50215432 ---TATATATATATGAAAATTTAAAAAACACGTATATAAAGATATATATATAATATAAGATATAA
1 ATATATATATATATGAAAA-TT-AAAAATACGTATATAAAGATATATATATAA-ATAAGATATAA
50215494 AG
63 AG
50215496 CATATATATATATATGAAAATTAAAAAT--GTATATAAA
1 -ATATATATATATATGAAAATTAAAAATACGTATATAAA
50215533 TGTGTAGATA
Statistics
Matches: 86, Mismatches: 4, Indels: 19
0.79 0.04 0.17
Matches are distributed among these distances:
58 14 0.16
59 3 0.03
60 15 0.17
62 8 0.09
63 1 0.01
64 22 0.26
66 5 0.06
67 2 0.02
68 16 0.19
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (64 bp):
ATATATATATATATGAAAATTAAAAATACGTATATAAAGATATATATATAAATAAGATATAAAG
Found at i:50215712 original size:18 final size:21
Alignment explanation
Indices: 50215669--50215712 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
50215659 AATACCATAG
50215669 TAATGATATTACATAATAGTAT
1 TAATGATATTACATAATAG-AT
50215691 TAATGATATTA-A-AATA-AT
1 TAATGATATTACATAATAGAT
50215709 TAAT
1 TAAT
50215713 TTCTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
20 4 0.18
21 1 0.05
22 11 0.50
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (21 bp):
TAATGATATTACATAATAGAT
Found at i:50217545 original size:96 final size:95
Alignment explanation
Indices: 50217375--50217549 Score: 233
Period size: 95 Copynumber: 1.8 Consensus size: 95
50217365 ATTCATCATT
* * * * * *
50217375 TTAATCCGCTCCACTGCAATTTCAGGGAGATAGGATTGGTTTCTTCAATCTTCTCCATTGCAACT
1 TTAATCCGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTTCTTCAATCTGCTCCACTGCAACT
50217440 TCAGAGAGATAAGATATGTAATTTATAGCC
66 TCAGAGAGATAAGATATGTAATTTATAGCC
* * * * *
50217470 TTAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCGTTATCTTCAGTCTGCTCCACTGTAAC
1 TTAATCCGCTCCACTGCAACTTCAGGGAAATAAGATTCGTT-TCTTCAATCTGCTCCACTGCAAC
*
50217535 TTCAGGGAGATAAGA
65 TTCAGAGAGATAAGA
50217550 CTCGTAATTT
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
95 34 0.51
96 33 0.49
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (95 bp):
TTAATCCGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTTCTTCAATCTGCTCCACTGCAACT
TCAGAGAGATAAGATATGTAATTTATAGCC
Found at i:50217557 original size:96 final size:95
Alignment explanation
Indices: 50217375--50217559 Score: 228
Period size: 96 Copynumber: 1.9 Consensus size: 95
50217365 ATTCATCATT
* * * * * *
50217375 TTAATCCGCTCCACTGCAATTTCAGGGAGATAGGATTGGTTTCTTCAATCTTCTCCATTGCAACT
1 TTAATCCGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTTCTTCAATCTGCTCCACTGCAACT
*
50217440 TCAGAGAGATAAGATATGTAATTTATAGCC
66 TCAGAGAGATAAGATACGTAATTTATAGCC
* * * * *
50217470 TTAATCTGTTCCACTGTAACTTCAGGGAAATAAGATTCGTTATCTTCAGTCTGCTCCACTGTAAC
1 TTAATCCGCTCCACTGCAACTTCAGGGAAATAAGATTCGTT-TCTTCAATCTGCTCCACTGCAAC
*
50217535 TTCAGGGAGATAAGACT-CGTAATTT
65 TTCAGAGAGATAAGA-TACGTAATTT
50217560 CAACCTGCCC
Statistics
Matches: 75, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
95 34 0.45
96 40 0.53
97 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (95 bp):
TTAATCCGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTTCTTCAATCTGCTCCACTGCAACT
TCAGAGAGATAAGATACGTAATTTATAGCC
Found at i:50217588 original size:44 final size:45
Alignment explanation
Indices: 50217480--50217589 Score: 141
Period size: 45 Copynumber: 2.5 Consensus size: 45
50217470 TTAATCTGTT
* * * ** *
50217480 CCACTGTAACTTCAGGGAAATAAGATTCGTTATCTTCAGTCTGCT
1 CCACTGTAACTTCAGGGAGATAAGACTCGTAATCTTCAACCTGCC
50217525 CCACTGTAACTTCAGGGAGATAAGACTCGTAAT-TTCAACCTGCC
1 CCACTGTAACTTCAGGGAGATAAGACTCGTAATCTTCAACCTGCC
* *
50217569 CCACTGCAACTTCAAGGAGAT
1 CCACTGTAACTTCAGGGAGAT
50217590 GAGCTTTGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 27 0.47
45 30 0.53
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.27
Consensus pattern (45 bp):
CCACTGTAACTTCAGGGAGATAAGACTCGTAATCTTCAACCTGCC
Found at i:50218820 original size:11 final size:11
Alignment explanation
Indices: 50218806--50218850 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
50218796 TCCTTCTTCT
50218806 TTTTTCTTTTC
1 TTTTTCTTTTC
50218817 TTTTTCTTCTTTC
1 TTTTTC-T-TTTC
*
50218830 TTTTTTTTTTC
1 TTTTTCTTTTC
*
50218841 TTTTCCTTTT
1 TTTTTCTTTT
50218851 TTCCTTCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 18 0.62
12 2 0.07
13 9 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:50218823 original size:18 final size:18
Alignment explanation
Indices: 50218802--50218844 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
50218792 CCTTTCCTTC
50218802 TTCTTTTTTCTTTTCTTT
1 TTCTTTTTTCTTTTCTTT
* *
50218820 TTCTTCTTTCTTTTTTTT
1 TTCTTTTTTCTTTTCTTT
50218838 TTCTTTT
1 TTCTTTT
50218845 CCTTTTTTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTCTTTTTTCTTTTCTTT
Found at i:50218844 original size:29 final size:32
Alignment explanation
Indices: 50218805--50218868 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
50218795 TTCCTTCTTC
*
50218805 TTTTTTCTTTT-C-TTTTT-CTTCTTTCTTTT
1 TTTTTTCTTTTCCTTTTTTCCTTCTTTCCTTT
50218834 TTTTTTCTTTTCCTTTTTTCCTTCTTTCCTTT
1 TTTTTTCTTTTCCTTTTTTCCTTCTTTCCTTT
50218866 TTT
1 TTT
50218869 ATGAAACATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 11 0.35
30 1 0.03
31 5 0.16
32 14 0.45
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTTTCTTTTCCTTTTTTCCTTCTTTCCTTT
Found at i:50218849 original size:17 final size:17
Alignment explanation
Indices: 50218806--50218868 Score: 65
Period size: 18 Copynumber: 3.7 Consensus size: 17
50218796 TCCTTCTTCT
* *
50218806 TTTTTCTTTTCTTTTTC
1 TTTTCCTTTTTTTTTTC
*
50218823 TTCTTTCTTTTTTTTTTC
1 TT-TTCCTTTTTTTTTTC
**
50218841 TTTTCCTTTTTTCCTTC
1 TTTTCCTTTTTTTTTTC
50218858 -TTTCCTTTTTT
1 TTTTCCTTTTTT
50218869 ATGAAACATT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
16 11 0.27
17 14 0.34
18 16 0.39
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCCTTTTTTTTTTC
Found at i:50218858 original size:28 final size:28
Alignment explanation
Indices: 50218794--50218868 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 28
50218784 CACCTTGGCC
*
50218794 TTTCCTTC-TTCTTTTTTCTTTTCTTTT
1 TTTCCTTCTTTCTTTTTTCTTTTCCTTT
* *
50218821 TCTTCTTTCTTTTTTTTTTCTTTTCCTTT
1 T-TTCCTTCTTTCTTTTTTCTTTTCCTTT
50218850 TTTCCTTCTTTCCTTTTTT
1 TTTCCTTCTTT-CTTTTTT
50218869 ATGAAACATT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
27 1 0.03
28 15 0.38
29 24 0.60
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (28 bp):
TTTCCTTCTTTCTTTTTTCTTTTCCTTT
Found at i:50223516 original size:8 final size:8
Alignment explanation
Indices: 50223499--50223692 Score: 57
Period size: 8 Copynumber: 25.9 Consensus size: 8
50223489 AAAAATATGT
*
50223499 ATATAAAG
1 ATATATAG
50223507 ATATATAG
1 ATATATAG
*
50223515 ATAAATAAG
1 ATATAT-AG
*
50223524 ATATAAAG
1 ATATATAG
50223532 -TATATAG
1 ATATATAG
50223539 ATATGA-A-
1 ATAT-ATAG
50223546 A-ATA-AG
1 ATATATAG
*
50223552 A-A-AAACG
1 ATATATA-G
*
50223559 TATATAAAG
1 -ATATATAG
*
50223568 ATATATAT
1 ATATATAG
*
50223576 ATATATAT
1 ATATATAG
50223584 ATA-ATA-
1 ATATATAG
*
50223590 AAATA-AG
1 ATATATAG
*
50223597 ATATAAAG
1 ATATATAG
50223605 -TATAT--
1 ATATATAG
*
50223610 ATATATAT
1 ATATATAG
50223618 ATATATAG
1 ATATATAG
*
50223626 AAAT-TAG
1 ATATATAG
50223633 A-A-ATACG
1 ATATATA-G
*
50223640 TATATAAAG
1 -ATATATAG
*
50223649 ATATATAT
1 ATATATAG
50223657 A-ATA-AG
1 ATATATAG
*
50223663 ATATAAAG
1 ATATATAG
*
50223671 -TATATAT
1 ATATATAG
*
50223678 ATATATAT
1 ATATATAG
50223686 ATATATA
1 ATATATA
50223693 TGAAATTAAA
Statistics
Matches: 145, Mismatches: 18, Indels: 46
0.69 0.09 0.22
Matches are distributed among these distances:
5 3 0.02
6 18 0.12
7 36 0.25
8 72 0.50
9 11 0.08
10 5 0.03
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.34
Consensus pattern (8 bp):
ATATATAG
Found at i:50223573 original size:2 final size:2
Alignment explanation
Indices: 50223568--50223693 Score: 75
Period size: 2 Copynumber: 65.0 Consensus size: 2
50223558 GTATATAAAG
* * *
50223568 AT AT AT AT AT AT AT AT AT A- AT A- AA AT A- AG AT AT AA AGT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * * * * *
50223608 AT AT AT AT AT AT AT AT AG AA AT -T AG AA AT AC GT AT AT AA AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
50223649 AT AT AT AT A- AT A- AG AT AT AA AGT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
50223690 AT AT
1 AT AT
50223694 GAAATTAAAA
Statistics
Matches: 96, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
1 6 0.06
2 88 0.92
3 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (2 bp):
AT
Found at i:50223583 original size:81 final size:80
Alignment explanation
Indices: 50223493--50223678 Score: 198
Period size: 81 Copynumber: 2.3 Consensus size: 80
50223483 AAAATTAAAA
*
50223493 ATATGTATATAAAGATATATAGATAAATAAG-ATATAAAGTATATAGATAT-GAAAATAAGAAAA
1 ATATATATATAAAGATATATAGATAAA-AAGTATATAAA-TATATAGATATAG-AAATAAGAAAA
50223556 ACGTATATAAAGATATAT
63 ACGTATATAAAGATATAT
* * * * * * *
50223574 ATATATATATATA-ATAAAATAAGATATAAAGTATATATATATATATATATAGAAATTAGAAATA
1 ATATATATATAAAGAT-ATAT-AGATAAAAAGTATATAAATATATAGATATAGAAATAAGAAAAA
50223638 CGTATATAAAGATATAT
64 CGTATATAAAGATATAT
*
50223655 ATAATAAGATATAAAGTATATATA
1 AT-AT-ATATATAAAG-ATATATA
50223679 TATATATATA
Statistics
Matches: 86, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
80 2 0.02
81 56 0.65
82 15 0.17
83 8 0.09
84 3 0.03
85 2 0.02
ACGTcount: A:0.56, C:0.01, G:0.10, T:0.33
Consensus pattern (80 bp):
ATATATATATAAAGATATATAGATAAAAAGTATATAAATATATAGATATAGAAATAAGAAAAACG
TATATAAAGATATAT
Found at i:50223594 original size:73 final size:73
Alignment explanation
Indices: 50223498--50223733 Score: 243
Period size: 73 Copynumber: 3.2 Consensus size: 73
50223488 TAAAAATATG
* *
50223498 TATATA-AAGATATATAGAT-AAATAAGATATAAAGTATATAGATATGAAAAT-AAGAAAAACGT
1 TATATATAATATATATA-ATAAAATAAGATATAAAGTATATATATATGAAAATAAAGAAAAACGT
50223560 ATATAAAGA
65 ATATAAAGA
50223569 TATATATATATATATATAATAAAATAAGATATAAAGTATATATATAT-ATATATATAGAAATTAG
1 TATATATA-ATATATATAATAAAATAAGATATAAAGTATATATATATGA-A-A-AT---AA--AG
*
50223633 AAATACGTATATAAAGA
57 AAAAACGTATATAAAGA
* * * * * *
50223650 TATATATAATA-AGAT-ATAAAGTATATATATATA-TATATATATATGAAATTAAAAAAAAACGT
1 TATATATAATATATATAATAAAATA-AGATATAAAGTATATATATATGAAAATAAAGAAAAACGT
50223712 ATATAAAGA
65 ATATAAAGA
50223721 TATATATAATATA
1 TATATATAATATA
50223734 AGATATAAAG
Statistics
Matches: 140, Mismatches: 10, Indels: 29
0.78 0.06 0.16
Matches are distributed among these distances:
71 34 0.24
72 5 0.04
73 36 0.26
74 1 0.01
75 2 0.01
76 1 0.01
77 1 0.01
78 19 0.14
79 12 0.09
80 3 0.02
81 26 0.19
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.33
Consensus pattern (73 bp):
TATATATAATATATATAATAAAATAAGATATAAAGTATATATATATGAAAATAAAGAAAAACGTA
TATAAAGA
Found at i:50223753 original size:71 final size:68
Alignment explanation
Indices: 50223467--50223754 Score: 220
Period size: 71 Copynumber: 4.1 Consensus size: 68
50223457 TGCAAGCATG
* * *
50223467 TATATATATATATATGAAAATT-AAAAATATGTATATAAAG--ATATATAGAT-A-A-AT-AAGA
1 TATATATATATATATG-AAATTAAAAAAAACGTATATAAAGATATATATATATAAGATATAAAGA
50223525 TATA
65 TATA
* * * *
50223529 -A-AGTATATAGATATGAAAATAAGAAAAACGTATATAAAGATATATATATATATATATAATAAA
1 TATA-TATATATATATGAAATTAAAAAAAACGTATATAAAGATATATATATATA-AGAT-AT---
50223592 ATAAGATATAAA
60 A-AAGATAT--A
* *
50223604 GTATATATATATATAT-ATATAGAAATTAGAAATACGTATATAAAGATATATATA-ATAAGATAT
1 -TATATATATATATATGAAAT-TAAA--A-AAA-ACGTATATAAAGATATATATATATAAGATAT
50223667 AAAGTATATATA
60 AAAG---ATATA
50223679 TATATATATATATATGAAATTAAAAAAAAACGTATATAAAGATATATATAATATAAGATATAAAG
1 TATATATATATATATGAAATT-AAAAAAAACGTATATAAAGATATATAT-ATATAAGATATAAAG
50223744 CATATA
64 -ATATA
50223750 TATAT
1 TATAT
50223755 GAAAATTAAA
Statistics
Matches: 180, Mismatches: 15, Indels: 53
0.73 0.06 0.21
Matches are distributed among these distances:
60 5 0.03
61 27 0.15
63 9 0.05
65 1 0.01
66 1 0.01
68 2 0.01
71 30 0.17
72 4 0.02
73 21 0.12
74 18 0.10
75 9 0.05
76 2 0.01
77 17 0.09
78 3 0.02
79 4 0.02
80 6 0.03
81 21 0.12
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (68 bp):
TATATATATATATATGAAATTAAAAAAAACGTATATAAAGATATATATATATAAGATATAAAGAT
ATA
Found at i:50227674 original size:23 final size:23
Alignment explanation
Indices: 50227648--50227698 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
50227638 GTCTTGTTGT
*
50227648 TGTAATATCCCGAAAATTTCTAC
1 TGTAATATCCCGAAAATTACTAC
*
50227671 TGTAATATCCTGAAAATTACTAC
1 TGTAATATCCCGAAAATTACTAC
*
50227694 AGTAA
1 TGTAA
50227699 GAAAGTAGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:50228193 original size:8 final size:8
Alignment explanation
Indices: 50228180--50228206 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
50228170 TAAATGATAT
50228180 TTTTATTA
1 TTTTATTA
50228188 TTTTATTA
1 TTTTATTA
50228196 TTTTATTA
1 TTTTATTA
50228204 TTT
1 TTT
50228207 AGTATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTATTA
Found at i:50230660 original size:25 final size:25
Alignment explanation
Indices: 50230632--50230879 Score: 270
Period size: 25 Copynumber: 10.4 Consensus size: 25
50230622 GGAGTTTAGC
*
50230632 GTGCTTTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
*
50230657 GTGCTCTCTGATTATTAGCACGCCA
1 GTGCTCTCTGATTATTAGCACGTCA
*
50230682 GTGCTCTCTGATTATTAGCACGCCA
1 GTGCTCTCTGATTATTAGCACGTCA
*
50230707 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACGTCA
50230732 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACGTCA
*
50230757 GTGCTCTCTGATTACTAGCA---C-
1 GTGCTCTCTGATTATTAGCACGTCA
* * *
50230778 --GCTCTCTGATTACTAGCATGTTA
1 GTGCTCTCTGATTATTAGCACGTCA
* * *
50230801 GTGCTCTCCGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACGTCA
*
50230826 GTGCTCTCTG--T-TTAGCACATTC-
1 GTGCTCTCTGATTATTAGCAC-GTCA
* *
50230848 GTGCTCTCTG--TA-TAGCACTTTA
1 GTGCTCTCTGATTATTAGCACGTCA
50230870 GTGCTCTCTG
1 GTGCTCTCTG
50230880 TTTAATAGTG
Statistics
Matches: 199, Mismatches: 15, Indels: 21
0.85 0.06 0.09
Matches are distributed among these distances:
19 18 0.09
21 2 0.01
22 35 0.18
23 2 0.01
25 142 0.71
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACGTCA
Found at i:50230783 original size:19 final size:19
Alignment explanation
Indices: 50230759--50230795 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
50230749 GCACGTCAGT
50230759 GCTCTCTGATTACTAGCAC
1 GCTCTCTGATTACTAGCAC
50230778 GCTCTCTGATTACTAGCA
1 GCTCTCTGATTACTAGCA
50230796 TGTTAGTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.22, C:0.30, G:0.16, T:0.32
Consensus pattern (19 bp):
GCTCTCTGATTACTAGCAC
Found at i:50230843 original size:22 final size:22
Alignment explanation
Indices: 50230815--50230883 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
50230805 TCTCCGATTA
50230815 TTAGCACATTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
*
50230837 TTAGCACATTCGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
* *
50230859 ATAGCACTTTAGTGCTCTCTGT
1 TTAGCACATTAGTGCTCTCTGT
50230881 TTA
1 TTA
50230884 ATAGTGCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.42
Consensus pattern (22 bp):
TTAGCACATTAGTGCTCTCTGT
Found at i:50230864 original size:69 final size:68
Alignment explanation
Indices: 50230638--50230877 Score: 184
Period size: 69 Copynumber: 3.4 Consensus size: 68
50230628 TAGCGTGCTT
* * * * ** *
50230638 TCTGATTATTAGCACGTCAGTGCTCTCTGATTATTAGCACGCCAGTGCTCTCTGATTATTAGCAC
1 TCTGA-TACTAGCACTTTAGTGCTCTCCGATTATTAGCACATCAGTGCTCTCTGATTACTAGCA-
50230703 GCCAGTGCTC
64 --C---GCTC
* * * * *
50230713 TCTGATTATTAGCACATCAGTGCTCTCTGATTATTAGCACGTCAGTGCTCTCTGATTACTAGCAC
1 TCTGA-TACTAGCACTTTAGTGCTCTCCGATTATTAGCACATCAGTGCTCTCTGATTACTAGCAC
50230778 GCTC
65 GCTC
* *
50230782 TCTGATTACTAGCA-TGTTAGTGCTCTCCGATTATTAGCACATTAGTGCTCTCTGTTTAGC-A-C
1 TCTGA-TACTAGCACT-TTAGTGCTCTCCGATTATTAGCACATCAGTGCTCTCTGATTA-CTAGC
50230844 ATTCGTGCTC
63 A--C--GCTC
50230854 TCTG-TA-TAGCACTTTAGTGCTCTC
1 TCTGATACTAGCACTTTAGTGCTCTC
50230878 TGTTTAATAG
Statistics
Matches: 148, Mismatches: 10, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
68 2 0.01
69 71 0.48
70 5 0.03
72 9 0.06
75 61 0.41
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (68 bp):
TCTGATACTAGCACTTTAGTGCTCTCCGATTATTAGCACATCAGTGCTCTCTGATTACTAGCACG
CTC
Found at i:50230876 original size:94 final size:95
Alignment explanation
Indices: 50230632--50230879 Score: 260
Period size: 94 Copynumber: 2.6 Consensus size: 95
50230622 GGAGTTTAGC
* * *
50230632 GTGCTTTCTGATTATTAGCACGTCAGTGCTCTCTGATTATTAGCACGCCAGTGCTCTCTGATTAT
1 GTGCTCTCTGA-TATTAGCACGTCAGTGCTCTCTGA-TACTAGCA---CAGTGCTCTCTGATTAC
*
50230697 TAGCACGCCAGTGCTCTCTGATTATTAGCACATCA
61 TAGCACGCCAGTGCTCTCCGATTATTAGCACATCA
50230732 GTGCTCTCTGATTATTAGCACGTCAGTGCTCTCTGATTACTAGCAC---GCTCTCTGATTACTAG
1 GTGCTCTCTGA-TATTAGCACGTCAGTGCTCTCTGA-TACTAGCACAGTGCTCTCTGATTACTAG
* ** *
50230794 CATGTTAGTGCTCTCCGATTATTAGCACATTA
64 CACGCCAGTGCTCTCCGATTATTAGCACATCA
*
50230826 GTGCTCTCTG-T-TTAGCACATTC-GTGCTCTCTG-TA-TAGCACTTTAGTGCTCTCTG
1 GTGCTCTCTGATATTAGCAC-GTCAGTGCTCTCTGATACTAGCAC---AGTGCTCTCTG
50230880 TTTAATAGTG
Statistics
Matches: 132, Mismatches: 9, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
88 6 0.05
89 2 0.02
91 17 0.13
92 3 0.02
94 60 0.45
97 1 0.01
100 43 0.33
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (95 bp):
GTGCTCTCTGATATTAGCACGTCAGTGCTCTCTGATACTAGCACAGTGCTCTCTGATTACTAGCA
CGCCAGTGCTCTCCGATTATTAGCACATCA
Found at i:50235526 original size:23 final size:23
Alignment explanation
Indices: 50235489--50235539 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
50235479 GGGAGAGAAA
*
50235489 TGTAATATCCCGAAAATTTCTAC
1 TGTAATATCCCGAAAATTACTAC
50235512 TGTAATA-CCCTGAAAATTACTAC
1 TGTAATATCCC-GAAAATTACTAC
*
50235535 AGTAA
1 TGTAA
50235540 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (23 bp):
TGTAATATCCCGAAAATTACTAC
Found at i:50243825 original size:38 final size:38
Alignment explanation
Indices: 50243781--50243857 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
50243771 TGATTTAGGC
*
50243781 AAGGACCCACAAATATAAATAGAGGTCAAACTACGCAA
1 AAGGACCCACAAACATAAATAGAGGTCAAACTACGCAA
*
50243819 AAGGACCCACAAACATAGATAGAGGTCAAACTACGCAA
1 AAGGACCCACAAACATAAATAGAGGTCAAACTACGCAA
50243857 A
1 A
50243858 CTATCTTGGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (38 bp):
AAGGACCCACAAACATAAATAGAGGTCAAACTACGCAA
Found at i:50245201 original size:29 final size:31
Alignment explanation
Indices: 50245147--50245211 Score: 100
Period size: 29 Copynumber: 2.2 Consensus size: 31
50245137 ATTGGACTTG
50245147 AATT-TTGAAATATAAAAAGTAAATAGACTA
1 AATTCTTGAAATATAAAAAGTAAATAGACTA
*
50245177 AATTCTTGAAA-ATAAAAA-TACATAGACTA
1 AATTCTTGAAATATAAAAAGTAAATAGACTA
50245206 AATTCT
1 AATTCT
50245212 AAATTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 16 0.48
30 11 0.33
31 6 0.18
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (31 bp):
AATTCTTGAAATATAAAAAGTAAATAGACTA
Found at i:50246823 original size:20 final size:20
Alignment explanation
Indices: 50246783--50246823 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
50246773 ATTTATATGC
*
50246783 ATAATGGAATAATAAACATG
1 ATAATGGAATAATAAAAATG
50246803 ATAATGTGAATAA-AAAAATG
1 ATAATG-GAATAATAAAAATG
50246823 A
1 A
50246824 ACAAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (20 bp):
ATAATGGAATAATAAAAATG
Found at i:50247057 original size:23 final size:22
Alignment explanation
Indices: 50246965--50247057 Score: 54
Period size: 27 Copynumber: 4.2 Consensus size: 22
50246955 AAATTATAAA
50246965 ATATG-AAAAATATGTATGTAC
1 ATATGAAAAAATATGTATGTAC
50246986 ATATAAGGGAAAAATATATGTATGT--
1 ATAT----GAAAAA-ATATGTATGTAC
* * *
50247011 ATAT-ACATAAA-AT-TATGGAA
1 ATATGA-AAAAATATGTATGTAC
50247031 ATATGAAAAATATATGTATGTAC
1 ATATGAAAAA-ATATGTATGTAC
50247054 ATAT
1 ATAT
50247058 TTTAAAATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 24
0.65 0.06 0.29
Matches are distributed among these distances:
18 4 0.07
19 2 0.04
20 9 0.17
21 9 0.17
22 2 0.04
23 9 0.17
25 5 0.09
26 4 0.07
27 10 0.19
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.33
Consensus pattern (22 bp):
ATATGAAAAAATATGTATGTAC
Found at i:50247341 original size:3 final size:3
Alignment explanation
Indices: 50247327--50247380 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
50247317 GTAAAGACGG
*
50247327 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
50247375 TAA TAA
1 TAA TAA
50247381 AGATGCTACA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:50249342 original size:3 final size:3
Alignment explanation
Indices: 50249334--50249391 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
50249324 CTATCAAAGC
50249334 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50249382 ATA ATA ATA A
1 ATA ATA ATA A
50249392 ACCATAACTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50253292 original size:29 final size:30
Alignment explanation
Indices: 50253260--50253326 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
50253250 TTCTGTATAA
* * *
50253260 TTTTATAATGTTTTACAAAA-TTTTAATTT
1 TTTTATAATATTCTACAAAATTTTTAACTT
*
50253289 TTTTAT-ATATTCTATAAAATTTTTAACTT
1 TTTTATAATATTCTACAAAATTTTTAACTT
*
50253318 TTGTATAAT
1 TTTTATAAT
50253327 TTAAAAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 10 0.32
29 19 0.61
30 2 0.06
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTTATAATATTCTACAAAATTTTTAACTT
Found at i:50253863 original size:16 final size:15
Alignment explanation
Indices: 50253818--50253864 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
50253808 AGACCAACAA
50253818 AAAAATAAATTT--T
1 AAAAATAAATTTGAT
*
50253831 AAAAATTAGATTTGAT
1 AAAAA-TAAATTTGAT
50253847 AAAAATAAATTTGGAT
1 AAAAATAAATTT-GAT
50253863 AA
1 AA
50253865 TTTAAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 5 0.18
14 6 0.21
15 6 0.21
16 11 0.39
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
AAAAATAAATTTGAT
Found at i:50256487 original size:20 final size:19
Alignment explanation
Indices: 50256464--50256524 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
50256454 CAGTTCCTGA
50256464 TAGCACATTCGTGCTCCTAT
1 TAGCA-ATTCGTGCTCCTAT
* * *
50256484 TAGCAGTACGGTGCTCCTAA
1 TAGCAATTC-GTGCTCCTAT
* *
50256504 TAGAATATTCATGCTCCTAT
1 TAGCA-ATTCGTGCTCCTAT
50256524 T
1 T
50256525 TGCATTACGA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
19 2 0.06
20 27 0.87
21 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (19 bp):
TAGCAATTCGTGCTCCTAT
Found at i:50259728 original size:22 final size:22
Alignment explanation
Indices: 50259700--50259743 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
50259690 TAGTTCCAAT
50259700 TTTGTTTGCAAATAATGTTATG
1 TTTGTTTGCAAATAATGTTATG
*
50259722 TTTGTTTGTAAATAATGTTATG
1 TTTGTTTGCAAATAATGTTATG
50259744 CATGTAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.02, G:0.18, T:0.52
Consensus pattern (22 bp):
TTTGTTTGCAAATAATGTTATG
Found at i:50267180 original size:54 final size:53
Alignment explanation
Indices: 50267097--50267246 Score: 144
Period size: 54 Copynumber: 2.7 Consensus size: 53
50267087 ACATAAATTT
* *
50267097 GGAAAAAAAGTTTTTGGGGGTTTGAGAGGAAATAAAAGTTTGAG-GGGAAAGCAAAA
1 GGAAAAAAA--TTTTGAGGGTTTG-GAGGAAATAAAAGTTTGAGAGGGAAA-AAAAA
* * *
50267153 GGAAAAAAATTTTGAAGGGTTTGGAGGAAGTAGAAGTTTTGGGAGGGAAAAAAAA
1 GGAAAAAAATTTTG-AGGGTTTGGAGGAAATAAAAG-TTTGAGAGGGAAAAAAAA
**
50267208 GGAAAAAAAAATTG-GAGGTTTGG-GGAAAGTAAAAGTTTG
1 GGAAAAAAATTTTGAG-GGTTTGGAGGAAA-TAAAAGTTTG
50267247 GAAGAAAAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
53 9 0.11
54 28 0.35
55 28 0.35
56 15 0.19
ACGTcount: A:0.43, C:0.01, G:0.34, T:0.22
Consensus pattern (53 bp):
GGAAAAAAATTTTGAGGGTTTGGAGGAAATAAAAGTTTGAGAGGGAAAAAAAA
Found at i:50268050 original size:27 final size:27
Alignment explanation
Indices: 50267998--50268050 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
50267988 TCAATCCTAA
*
50267998 AGGATTAAATTAAAAATTTATCATTTT
1 AGGATTAAATTAAAAATTTACCATTTT
*
50268025 AGGATTAAATT-ATAATTTACCTATTT
1 AGGATTAAATTAAAAATTTACC-ATTT
50268051 ATTTACTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (27 bp):
AGGATTAAATTAAAAATTTACCATTTT
Found at i:50276296 original size:7 final size:7
Alignment explanation
Indices: 50276284--50276310 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
50276274 CTTTTTCATT
50276284 ATTTAAA
1 ATTTAAA
50276291 ATTTAAA
1 ATTTAAA
50276298 ATTTAAA
1 ATTTAAA
50276305 ATTTAA
1 ATTTAA
50276311 TTTTGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATTTAAA
Found at i:50286206 original size:20 final size:19
Alignment explanation
Indices: 50286181--50286222 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
50286171 AATTGTATAG
*
50286181 AAATAATATAAACAATAAAT
1 AAATAAAATAAAC-ATAAAT
*
50286201 AAATAAAATTAACATAAAT
1 AAATAAAATAAACATAAAT
50286220 AAA
1 AAA
50286223 AAACGAGGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
AAATAAAATAAACATAAAT
Found at i:50290154 original size:42 final size:42
Alignment explanation
Indices: 50290106--50290255 Score: 151
Period size: 42 Copynumber: 3.6 Consensus size: 42
50290096 TCATATAAGT
* *
50290106 TTCAGTTTAACCCTTCTAGGTTTCAGTTCAGCTCTTTTGAGC
1 TTCAGTTTAACCCTTATAGGTTTCAGTTCAGCTCTTATGAGC
* * * * *
50290148 TTCAGTTTAACCCTAATGGGTTTTAGTTTAGCTCTTCTGAGC
1 TTCAGTTTAACCCTTATAGGTTTCAGTTCAGCTCTTATGAGC
* * * *
50290190 TTTAGATTAACCCTTATGGGTTTCTA-TTCAGCTGC-TAAGAGC
1 TTCAGTTTAACCCTTATAGGTTTC-AGTTCAGCT-CTTATGAGC
* *
50290232 TTCCGTTTAACCCTTACAGGTTTC
1 TTCAGTTTAACCCTTATAGGTTTC
50290256 CATTTAGCAC
Statistics
Matches: 88, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 86 0.98
43 2 0.02
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (42 bp):
TTCAGTTTAACCCTTATAGGTTTCAGTTCAGCTCTTATGAGC
Found at i:50298030 original size:18 final size:18
Alignment explanation
Indices: 50297994--50298028 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
50297984 TGTTTAAGCC
50297994 TAAACCTAGCCTATATTT
1 TAAACCTAGCCTATATTT
50298012 TAAACC-AGCCTA-ATTT
1 TAAACCTAGCCTATATTT
50298028 T
1 T
50298029 TTCCCAAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (18 bp):
TAAACCTAGCCTATATTT
Found at i:50298624 original size:16 final size:16
Alignment explanation
Indices: 50298586--50298624 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
50298576 AAAATATAGA
*
50298586 TTGAAATTAACCAAGT
1 TTGAAATTAACCAAAT
* *
50298602 TTAAAATTGACCAAAT
1 TTGAAATTAACCAAAT
50298618 TTGAAAT
1 TTGAAAT
50298625 AAAGACTATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (16 bp):
TTGAAATTAACCAAAT
Found at i:50299622 original size:3 final size:3
Alignment explanation
Indices: 50299614--50299645 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
50299604 TCAAATTATA
*
50299614 AAT AAT AAT AAT AAT AAT AAT CAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50299646 AACAGGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50301857 original size:20 final size:21
Alignment explanation
Indices: 50301824--50301862 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
50301814 TTTTGTGGGT
50301824 GAAAAATAAATAAAAATTATA
1 GAAAAATAAATAAAAATTATA
*
50301845 GAAAAAT-AGTAAAAATTA
1 GAAAAATAAATAAAAATTA
50301863 AAATAACCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (21 bp):
GAAAAATAAATAAAAATTATA
Found at i:50305434 original size:6 final size:6
Alignment explanation
Indices: 50305417--50305450 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
50305407 CCACCGATTC
*
50305417 CAGCGG CGGCGG CAGCGG CAGCGG CAGCGG CAGC
1 CAGCGG CAGCGG CAGCGG CAGCGG CAGCGG CAGC
50305451 AACAAATCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.35, G:0.50, T:0.00
Consensus pattern (6 bp):
CAGCGG
Found at i:50317680 original size:29 final size:31
Alignment explanation
Indices: 50317640--50317699 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
50317630 TTCGTGTCTA
50317640 ATTATTACATAAA-ATAAATT-TTATATATT
1 ATTATTACATAAACATAAATTATTATATATT
*
50317669 ATTATGTA-ATAAACATAATTTATTATATATT
1 ATTAT-TACATAAACATAAATTATTATATATT
50317700 TATTTCTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 10 0.37
30 8 0.30
31 9 0.33
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (31 bp):
ATTATTACATAAACATAAATTATTATATATT
Found at i:50323888 original size:2 final size:2
Alignment explanation
Indices: 50323883--50323937 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
50323873 CCACCATTAA
50323883 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50323925 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
50323938 ACTTGAAACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50329055 original size:13 final size:13
Alignment explanation
Indices: 50329037--50329064 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50329027 ACTAAATTGG
50329037 AAAGATGATAAAT
1 AAAGATGATAAAT
50329050 AAAGATGATAAAT
1 AAAGATGATAAAT
50329063 AA
1 AA
50329065 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:50329656 original size:26 final size:26
Alignment explanation
Indices: 50329607--50329679 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
50329597 CCCTATATAT
* *
50329607 GGCTTTTTGTGAGCTT-CTCGATTAAA
1 GGCTATTTGTGAGCTTCCT-AATTAAA
* *
50329633 GGCTCTTTGTGAGCTTCCTAATTAAT
1 GGCTATTTGTGAGCTTCCTAATTAAA
*
50329659 GGCTATCTG-GAGCTTCCTAAT
1 GGCTATTTGTGAGCTTCCTAAT
50329680 ATGACTCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.29
26 27 0.66
27 2 0.05
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (26 bp):
GGCTATTTGTGAGCTTCCTAATTAAA
Found at i:50329722 original size:25 final size:25
Alignment explanation
Indices: 50329694--50329745 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
50329684 CTCACTTGAA
50329694 CTTCCAGA-TATATGGCTATCCGGAG
1 CTTCCAGATTA-ATGGCTATCCGGAG
* * *
50329719 CTTCCCGATTAATGGCTCTTCGGAG
1 CTTCCAGATTAATGGCTATCCGGAG
50329744 CT
1 CT
50329746 ACCCGTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 21 0.91
26 2 0.09
ACGTcount: A:0.19, C:0.27, G:0.23, T:0.31
Consensus pattern (25 bp):
CTTCCAGATTAATGGCTATCCGGAG
Found at i:50332847 original size:39 final size:39
Alignment explanation
Indices: 50332804--50332894 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
50332794 CATATTCACT
* *
50332804 TTTAAGCATATATCACATTACACGTATAATCACACAACA
1 TTTAAGCATATATCACAATACACATATAATCACACAACA
*
50332843 TTTAAGCATATATCACAATACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACACATATAATCACACAACA
*
50332882 TTCAAGCATATAT
1 TTTAAGCATATAT
50332895 TAACATACTC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.45, C:0.21, G:0.04, T:0.30
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACACATATAATCACACAACA
Found at i:50340713 original size:20 final size:19
Alignment explanation
Indices: 50340670--50340715 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
50340660 ACAAAATAAA
*
50340670 TCAAAATAATTTTTAAAAT
1 TCAAAATAATTTATAAAAT
50340689 TCAAAAT-ATTTATATAAAT
1 TCAAAATAATTTATA-AAAT
50340708 TCCAAAAT
1 T-CAAAAT
50340716 TTATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 6 0.25
19 12 0.50
20 6 0.25
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (19 bp):
TCAAAATAATTTATAAAAT
Found at i:50340717 original size:18 final size:19
Alignment explanation
Indices: 50340665--50340721 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
50340655 AAAGTACAAA
*
50340665 ATAAA-TCAAAATAATTTTT
1 ATAAATTCAAAAT-ATTTAT
50340684 A-AAATTCAAAATATTTAT
1 ATAAATTCAAAATATTTAT
*
50340702 ATAAATTCCAAA-ATTTAT
1 ATAAATTCAAAATATTTAT
50340720 AT
1 AT
50340722 TTTAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 17 0.50
19 17 0.50
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAATTCAAAATATTTAT
Found at i:50340734 original size:2 final size:2
Alignment explanation
Indices: 50340727--50340755 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
50340717 TATATTTTAA
50340727 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50340756 AAACAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50342445 original size:9 final size:9
Alignment explanation
Indices: 50342428--50342464 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50342418 TGAGTTTTCG
50342428 AATTCGAAT
1 AATTCGAAT
*
50342437 AACTCGAAT
1 AATTCGAAT
50342446 AATTCGAAT
1 AATTCGAAT
50342455 AATTCGAAT
1 AATTCGAAT
50342464 A
1 A
50342465 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50343444 original size:6 final size:6
Alignment explanation
Indices: 50343433--50343462 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
50343423 AAATAATCGG
50343433 AATTAA AATTAA AATTAA AATTAA AATTAA
1 AATTAA AATTAA AATTAA AATTAA AATTAA
50343463 TCTCATTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AATTAA
Found at i:50354864 original size:16 final size:16
Alignment explanation
Indices: 50354843--50354878 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
50354833 TTTGGTTCGC
50354843 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50354859 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
50354875 TGTA
1 TGTA
50354879 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:50355149 original size:17 final size:18
Alignment explanation
Indices: 50355108--50355142 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
50355098 TTATTATTAA
*
50355108 ATATATTTTAATTAAAAT
1 ATATAATTTAATTAAAAT
50355126 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
50355143 TATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:50355200 original size:16 final size:16
Alignment explanation
Indices: 50355179--50355209 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50355169 TGGTAAATTA
50355179 TTAAATATTGTTATTG
1 TTAAATATTGTTATTG
50355195 TTAAATATTGTTATT
1 TTAAATATTGTTATT
50355210 ATTATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (16 bp):
TTAAATATTGTTATTG
Found at i:50355232 original size:30 final size:27
Alignment explanation
Indices: 50355196--50355252 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
50355186 TTGTTATTGT
*
50355196 TAAATATTGTTATTATTATTTAATATATAA
1 TAAATATTGTTA--A-TAATTAATATATAA
50355226 TAAATATTGTTAATAATTAATATATAA
1 TAAATATTGTTAATAATTAATATATAA
50355253 GTATTGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 13 0.50
28 1 0.04
30 12 0.46
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
TAAATATTGTTAATAATTAATATATAA
Found at i:50355385 original size:16 final size:16
Alignment explanation
Indices: 50355348--50355389 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50355338 TTAATCATAT
*
50355348 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50355364 TT-AAATATATTATAA
1 TTAAAATATATTATAA
50355379 TTAAAATATAT
1 TTAAAATATAT
50355390 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:50355396 original size:14 final size:15
Alignment explanation
Indices: 50355357--50355398 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50355347 TTTAAACATA
*
50355357 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50355372 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50355386 A-TATAATTTAATA
1 ATTATAATTAAATA
50355399 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:50355513 original size:15 final size:15
Alignment explanation
Indices: 50355467--50355509 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
50355457 GTAAAATATA
50355467 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
50355482 TATTAAATATATTAT
1 AATTAAATATATTAT
50355497 AATTAAA-ATATTA
1 AATTAAATATATTA
50355510 ATAAAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:50366338 original size:2 final size:2
Alignment explanation
Indices: 50366331--50366363 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50366321 TTAAGCATTT
50366331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50366364 TAAATACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50368832 original size:18 final size:17
Alignment explanation
Indices: 50368811--50368859 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
50368801 TTTTTTGACA
50368811 TTTTAAATTTTTATAAAT
1 TTTTAAATTTTTAT-AAT
50368829 TTTTAATATTTTTATAAT
1 TTTTAA-ATTTTTATAAT
*
50368847 TTCT-AATTTTTAT
1 TTTTAAATTTTTAT
50368860 TTATTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 8 0.28
17 1 0.03
18 12 0.41
19 8 0.28
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAATTTTTATAAT
Found at i:50369056 original size:20 final size:20
Alignment explanation
Indices: 50368990--50369056 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
50368980 CTTCATATTT
* * *
50368990 TATTTTTATAATATTTTAGAA
1 TATTTTAATAAT-TATTAAAA
* *
50369011 TCTTTTAATAATTATTAATA
1 TATTTTAATAATTATTAAAA
*
50369031 TTTTTTAATAATT-TTAAAA
1 TATTTTAATAATTATTAAAA
50369050 GTATTTT
1 -TATTTT
50369057 TAGTTTTGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 5 0.14
20 22 0.59
21 10 0.27
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTTTAATAATTATTAAAA
Found at i:50369163 original size:15 final size:15
Alignment explanation
Indices: 50369140--50369169 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50369130 CAACTTTTAA
50369140 AAAAAATATTTTATT
1 AAAAAATATTTTATT
*
50369155 AAAATATATTTTATT
1 AAAAAATATTTTATT
50369170 TTGTAGATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAAAATATTTTATT
Found at i:50369848 original size:2 final size:2
Alignment explanation
Indices: 50369841--50369876 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
50369831 TTTTAATTCC
50369841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50369877 TGCATATTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50381113 original size:25 final size:25
Alignment explanation
Indices: 50381053--50381159 Score: 83
Period size: 25 Copynumber: 4.3 Consensus size: 25
50381043 GACATGTATG
*
50381053 CTCATACGAGCTATGAATCGAT-AT
1 CTCATACGAGCTATGAATCGGTAAT
* *
50381077 GCTC-TCAAGAGCTGTGAATCGGTAAT
1 -CTCAT-ACGAGCTATGAATCGGTAAT
* *
50381103 CTCATACGAGCTAAGAATCGGTAAG
1 CTCATACGAGCTATGAATCGGTAAT
* * * * * *
50381128 CTCTTACAAGCTGTAAATCGGGAAA
1 CTCATACGAGCTATGAATCGGTAAT
50381153 CTCATAC
1 CTCATAC
50381160 AAGTCGTGGT
Statistics
Matches: 64, Mismatches: 15, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
24 1 0.02
25 60 0.94
26 3 0.05
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (25 bp):
CTCATACGAGCTATGAATCGGTAAT
Found at i:50381131 original size:50 final size:50
Alignment explanation
Indices: 50381053--50381159 Score: 135
Period size: 50 Copynumber: 2.1 Consensus size: 50
50381043 GACATGTATG
* * * * *
50381053 CTCATACGAGCTATGAATCGATATGCTCTCA-AGAGCTGTGAATCGGTAAT
1 CTCATACGAGCTAAGAATCGATAAGCTCTCACA-AGCTGTAAATCGGGAAA
* *
50381103 CTCATACGAGCTAAGAATCGGTAAGCTCTTACAAGCTGTAAATCGGGAAA
1 CTCATACGAGCTAAGAATCGATAAGCTCTCACAAGCTGTAAATCGGGAAA
50381153 CTCATAC
1 CTCATAC
50381160 AAGTCGTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
50 48 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (50 bp):
CTCATACGAGCTAAGAATCGATAAGCTCTCACAAGCTGTAAATCGGGAAA
Found at i:50385769 original size:21 final size:20
Alignment explanation
Indices: 50385745--50385784 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
50385735 ACTGTTCCAA
*
50385745 CCTCCACTTTACATTCATTTC
1 CCTCCACATTA-ATTCATTTC
*
50385766 CCTCTACATTAATTCATTT
1 CCTCCACATTAATTCATTT
50385785 TAAGATCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.45
Consensus pattern (20 bp):
CCTCCACATTAATTCATTTC
Found at i:50393796 original size:13 final size:13
Alignment explanation
Indices: 50393778--50393803 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50393768 TATTTTCTGC
50393778 TTTTTTTGTTTGG
1 TTTTTTTGTTTGG
50393791 TTTTTTTGTTTGG
1 TTTTTTTGTTTGG
50393804 GCTCGGACGA
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:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (13 bp):
TTTTTTTGTTTGG
Found at i:50394136 original size:95 final size:95
Alignment explanation
Indices: 50394003--50394724 Score: 540
Period size: 95 Copynumber: 7.8 Consensus size: 95
50393993 TACAATCTAC
* * * * * * * * * * *
50394003 TCCACTGCAACTTCAGAGAGATAATATTAGTAGCTTCAATATGCTCCATTGCAGCTTCAAGGAAA
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGA
*
50394068 TAAGATTTGTAACTTGTAGTTTTAATCTGT
66 TAAGATTTGTAACTTGTAGCTTTAATCTGT
* * * *
50394098 TCCACTGCAACTTCAGGGAAATAAGATTCGCATATTCAATCTGCTCCACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGA
* *
50394163 TAAGATTTGTAACTTTTAG-TCGTAATCTGT
66 TAAGATTTGTAACTTGTAGCT-TTAATCTGT
* * * * *
50394193 TCCACTGCAATTTTAGGAAAATAAGAGTT-GTATCTTCAATTTGCTCCACTGCAACTTCAAGGAT
1 TCCACTGCAACTTTAGGGAAATAAGA-TTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGGAG
* *
50394257 ATAAGATTTGTAATTTGTAGCTTTAATATGT
65 ATAAGATTTGTAACTTGTAGCTTTAATCTGT
* * *
50394288 TCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTACTCCACTACAACTTCAGGGAGA
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGA
50394353 TAATG-TTTGTAACTTGTAGCTTTAATCTGT
66 TAA-GATTTGTAACTTGTAGCTTTAATCTGT
* * * * * *
50394383 TCCACTGTAACTTTAGGAAAATAAGATTTGCTATCTTTAATCTACTCCACTGCAACTT-TAGAGA
1 TCCACTGCAACTTTAGGGAAATAAGATTCGC-ATCTTCAATCTGCTCCACTGCAACTTCAAG-GA
* * * *
50394447 GATAAGA--T-TCAC---TATCTTCAATCTGC
64 GATAAGATTTGTAACTTGTAGCTTTAATCTGT
* * * * * * * * * *
50394473 TCCACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTTAGGGAGA
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGA
* * * *
50394538 TCAGA--T-T--C-TCTA-CATTCAATCTGC
66 TAAGATTTGTAACTTGTAGC-TTTAATCTGT
* * * * * * * * *
50394562 TCCACTACAACTTCAGGGAGATAAGATTTGTAGCTTCAATTTACTCTACTGCAACTTC-AGAGAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAG-GAG
* * * **
50394626 ATAAGA--T-TCAC---TATCTTCAATCTAC
65 ATAAGATTTGTAACTTGTAGCTTTAATCTGT
* * *** * *
50394651 TCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTGCTCTACTGCAACTTCATA-GAG
1 TCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCA-AGGAG
50394715 ATAAGATTTG
65 ATAAGATTTG
50394725 CTATATTCAA
Statistics
Matches: 534, Mismatches: 72, Indels: 45
0.82 0.11 0.07
Matches are distributed among these distances:
87 1 0.00
88 2 0.00
89 183 0.34
90 38 0.07
91 3 0.01
93 3 0.01
94 4 0.01
95 265 0.50
96 35 0.07
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (95 bp):
TCCACTGCAACTTTAGGGAAATAAGATTCGCATCTTCAATCTGCTCCACTGCAACTTCAAGGAGA
TAAGATTTGTAACTTGTAGCTTTAATCTGT
Found at i:50394440 original size:45 final size:45
Alignment explanation
Indices: 50393960--50394812 Score: 550
Period size: 44 Copynumber: 18.6 Consensus size: 45
50393950 TCATTCCAAC
* * * *
50393960 CCACTGCAACTTCAGAGG-TATAGGATTTG-TTGCTACAATCTACT
1 CCACTGCAACTTCAG-GGAGATAAGATTTGCTAGCTTCAATCTACT
* * * * *
50394004 CCACTGCAACTTCAGAGAGATAATATTAG-TAGCTTCAATATGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* * * * * * **
50394048 CCATTGCAGCTTCAAGGAAATAAGATTTGTAACTTGTAGTTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG---C---TAGCTTCAATCTACT
* * *
50394099 CCACTGCAACTTCAGGGAAATAAGATTCGCATA--TTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGC-TAGCTTCAATCTACT
* * **
50394143 CCACTGCAACTTTAGGGAGATAAGATTTG-TAACTTTTAGTCGTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGC---T--TC--AATCTACT
* * * * * * * *
50394194 CCACTGCAATTTTAGGAAAATAAGAGTTG-TATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* * * * * **
50394238 CCACTGCAACTTCAAGGATATAAGATTTGTAATTTGTAGCTTTAATATGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTG------CTAGCTTCAATCTACT
* * * *
50394289 CCACTGCAACTTTAGGGAAATAAGATTCGC-ATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* * **
50394333 CCACTACAACTTCAGGGAGATAATG-TTTGTAACTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAA-GATTTG---C---TAGCTTCAATCTACT
* * * * * *
50394384 CCACTGTAACTTTAGGAAAATAAGATTTGCTATCTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* * ** * *
50394429 CCACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
*
50394474 CCACTGCAACTTCAGAGAGATAAGATTTG-TAGCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* * * *
50394518 CTACTGCAACTTTAGGGAGATCAGATTCT-CTA-CATTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGCTAGC-TTCAATCTACT
* *
50394563 CCACTACAACTTCAGGGAGATAAGATTTG-TAGCTTCAATTTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* * ** *
50394607 CTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* *
50394652 CCACTGCAACTTCAGGGAGATAAGATTT-ATAGCTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* ** ** * *
50394696 CTACTGCAACTTCATAGAGATAAGATTTGCTATATTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
* * *
50394741 CCACTGCAACTTCA-GAACGATAAGATTTG-TGGCTTTAATCTACT
1 CCACTGCAACTTCAGGGA-GATAAGATTTGCTAGCTTCAATCTACT
* *
50394785 CCACTGTAACTTCAGGGATATAAGATTT
1 CCACTGCAACTTCAGGGAGATAAGATTT
50394813 ACCACGATGA
Statistics
Matches: 637, Mismatches: 130, Indels: 84
0.75 0.15 0.10
Matches are distributed among these distances:
42 2 0.00
43 1 0.00
44 294 0.46
45 189 0.30
46 4 0.01
47 2 0.00
48 3 0.00
49 2 0.00
50 1 0.00
51 139 0.22
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.34
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGCTAGCTTCAATCTACT
Found at i:50394812 original size:89 final size:89
Alignment explanation
Indices: 50393995--50394814 Score: 576
Period size: 89 Copynumber: 8.9 Consensus size: 89
50393985 TTTGTTGCTA
* * * * * * * *
50393995 CAATCTACTCCACTGCAACTTCA-GAGAGATAATATTAGTAGCTTCAATATGCTCCATTGCAGCT
1 CAATCTGCTCCACTGCAACTTCAGGA-AGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACT
* *
50394059 TCA-AGGAAATAAGATTTGTAACTTGTAGTTT
65 TCAGA-GAGATAAGA-TT-T-AC-TATA--TT
* * * * ** * *
50394090 TAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTCGCATATTCAATCTGCTCCACTGCAACT
1 CAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACT
* * * *
50394154 TTAGGGAGATAAGATTTGTAACTTTTAGT
65 TCAGAGAGATAAGA-TT-T-AC-TATATT
* * * * * * * * *
50394183 CGTAATCTGTTCCACTGCAATTTTAGGAAAATAAGAGTTGTATCTTCAATTTGCTCCACTGCAAC
1 C--AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAAC
* * *
50394248 TTCA-AGGATATAAGATTTGTAATTTGTAGCTT
64 TTCAGA-GAGATAAGA-TT-T-A-CTATA--TT
* * * * * * * * *
50394280 TAATATGTTCCACTGCAACTTTAGGGAA-ATAAGATTCGCATCTTCAATCTACTCCACTACAACT
1 CAATCTGCTCCACTGCAACTTCA-GGAAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACT
* * *
50394344 TCAGGGAGATAATGTTTGTAACTTGTAGCTT
65 TCAGAGAGATAA-GATT-T-AC-TATA--TT
* * * * * * * *
50394375 TAATCTGTTCCACTGTAACTTTAGGAAAATAAGATTTGCTATCTTTAATCTACTCCACTGCAACT
1 CAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTG-TAGCTTCAATCTACTCTACTGCAACT
* * *
50394440 TTAGAGAGATAAGATTCACTATCTT
65 TCAGAGAGATAAGATTTACTATATT
50394465 CAATCTGCTCCACTGCAACTTCA-GAGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACT
1 CAATCTGCTCCACTGCAACTTCAGGA-AGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACT
* * * *
50394529 TTAGGGAGATCAGATTCT-CTACATT
65 TCAGAGAGATAAGATT-TACTATATT
* * *
50394554 CAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTAGCTTCAATTTACTCTACTGCAACTT
1 CAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTT
* *
50394619 CAGAGAGATAAGATTCACTATCTT
66 CAGAGAGATAAGATTTACTATATT
* * * *
50394643 CAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTATAGCTTCAATCTGCTCTACTGCAACTT
1 CAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTT
* *
50394708 CATAGAGATAAGATTTGCTATATT
66 CAGAGAGATAAGATTTACTATATT
* * * * *
50394732 CAATTTGCTCCACTGCAACTTCA-GAACGATAAGATTTGTGGCTTTAATCTACTCCACTGTAACT
1 CAATCTGCTCCACTGCAACTTCAGGAA-GATAAGATTTGTAGCTTCAATCTACTCTACTGCAACT
* *
50394796 TCAGGGATATAAGATTTAC
65 TCAGAGAGATAAGATTTAC
50394815 CACGATGACT
Statistics
Matches: 605, Mismatches: 99, Indels: 48
0.80 0.13 0.06
Matches are distributed among these distances:
88 2 0.00
89 268 0.44
90 33 0.05
92 2 0.00
93 3 0.00
94 8 0.01
95 247 0.41
96 39 0.06
97 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (89 bp):
CAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTT
CAGAGAGATAAGATTTACTATATT
Found at i:50401939 original size:9 final size:9
Alignment explanation
Indices: 50401927--50401961 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
50401917 TAGGAAAAAT
50401927 AAATAATAA
1 AAATAATAA
*
50401936 AAATGATAA
1 AAATAATAA
50401945 AAATAATAA
1 AAATAATAA
*
50401954 GAATAATA
1 AAATAATA
50401962 CGAAAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (9 bp):
AAATAATAA
Found at i:50403994 original size:21 final size:21
Alignment explanation
Indices: 50403942--50403994 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
50403932 TTTATTAGGG
*
50403942 TTTATGGTTTATGATCTTAGA
1 TTTAAGGTTTATGATCTTAGA
*
50403963 TTT-AGGATTTATGTTCTT-GTA
1 TTTAAGG-TTTATGATCTTAG-A
50403984 TTTAAGGTTTA
1 TTTAAGGTTTA
50403995 AGGTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.11
21 21 0.78
22 3 0.11
ACGTcount: A:0.23, C:0.04, G:0.19, T:0.55
Consensus pattern (21 bp):
TTTAAGGTTTATGATCTTAGA
Found at i:50404092 original size:28 final size:28
Alignment explanation
Indices: 50404061--50404124 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
50404051 AGCTTTTGGC
* *
50404061 TTTAGGGCT-TAGTCTTTAATATTTTAAG
1 TTTAGGG-TGTAGTCTTTAAGATTTAAAG
* * *
50404089 TTTAAGGTGTAGTGTTTAAGGTTTAAAG
1 TTTAGGGTGTAGTCTTTAAGATTTAAAG
50404117 TTTAGGGT
1 TTTAGGGT
50404125 TCATGTGTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (28 bp):
TTTAGGGTGTAGTCTTTAAGATTTAAAG
Found at i:50404583 original size:19 final size:19
Alignment explanation
Indices: 50404559--50404599 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
50404549 GGTATCAAAA
50404559 TTATGG-TTTATGATAGTGT
1 TTATGGATTT-TGATAGTGT
50404578 TTATGGATTTTGATAGTGT
1 TTATGGATTTTGATAGTGT
50404597 TTA
1 TTA
50404600 AAGTTTAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (19 bp):
TTATGGATTTTGATAGTGT
Found at i:50404667 original size:14 final size:15
Alignment explanation
Indices: 50404631--50404668 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
50404621 GAGGTTAAGA
50404631 TTTATGGTTTCATGT
1 TTTATGGTTTCATGT
*
50404646 TTT-GGGTTT-ATGT
1 TTTATGGTTTCATGT
50404659 TTTATGGTTT
1 TTTATGGTTT
50404669 GAGTTTAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 7 0.35
14 10 0.50
15 3 0.15
ACGTcount: A:0.11, C:0.03, G:0.24, T:0.63
Consensus pattern (15 bp):
TTTATGGTTTCATGT
Found at i:50404669 original size:20 final size:21
Alignment explanation
Indices: 50404631--50404675 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
50404621 GAGGTTAAGA
* *
50404631 TTTATGGTTTCATGTTTTGGG
1 TTTATGGTTTCATGGTTTGAG
*
50404652 TTTAT-GTTTTATGGTTTGAG
1 TTTATGGTTTCATGGTTTGAG
50404672 TTTA
1 TTTA
50404676 AAGTTTTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.13, C:0.02, G:0.24, T:0.60
Consensus pattern (21 bp):
TTTATGGTTTCATGGTTTGAG
Found at i:50412126 original size:173 final size:167
Alignment explanation
Indices: 50411823--50412136 Score: 407
Period size: 166 Copynumber: 1.8 Consensus size: 167
50411813 CGTTTTCTTC
* *
50411823 TAGGGACATGCATTATGCATGCAGAAAATGAATCATCCCCATGATTCTTTGGATTAATTCCTTGT
1 TAGGGACATACATTATGCATGCAGAAAATGAATCATCCCCATGATTCTTTGGATTAATTCCTTCT
** * * *
50411888 TGTGTGGCTTTGCCCTGCAATTTGTTACATTTCTGAAGAGTTTGTTGGTTGCTGTGTAAATGTGC
66 TGTGTGGCTTTAACCAGCAATTTGTTACATTTCTAAAGAGTATGTTGGTTGCTGTGTAAATGTGC
50411953 TTAGAGGTAATTGTTACTCCAAACTGAAGCTGTCATA
131 TTAGAGGTAATTGTTACTCCAAACTGAAGCTGTCATA
* * *
50411990 TAGGGACATACATTGTGCATGCAG-AAATGAATCGTCCCCATGATTCTTTATG-TTAAGTTCCTT
1 TAGGGACATACATTATGCATGCAGAAAATGAATCATCCCCATGATTCTTT-GGATTAA-TTCC-T
* * * * *
50412053 TCTTGTCGTATGGCTTTAACGAGCACTTTGTTATATTTTTCAAAGAGTATGTTTGTATGCTGTGT
63 TCTTGT-G--TGGCTTTAACCAGCAATTTGTTACATTTCT-AAAGAGTATGTTGGT-TGCTGTGT
50412118 AAATGTGCTTAGAGGTAAT
123 AAATGTGCTTAGAGGTAAT
50412137 ATTTATGGAG
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
166 28 0.23
167 27 0.22
168 6 0.05
169 1 0.01
171 23 0.19
172 12 0.10
173 27 0.22
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (167 bp):
TAGGGACATACATTATGCATGCAGAAAATGAATCATCCCCATGATTCTTTGGATTAATTCCTTCT
TGTGTGGCTTTAACCAGCAATTTGTTACATTTCTAAAGAGTATGTTGGTTGCTGTGTAAATGTGC
TTAGAGGTAATTGTTACTCCAAACTGAAGCTGTCATA
Found at i:50415201 original size:6 final size:6
Alignment explanation
Indices: 50415190--50415219 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
50415180 TTAATATAAT
50415190 TTACAC TTACAC TTACAC TTACAC TTACAC
1 TTACAC TTACAC TTACAC TTACAC TTACAC
50415220 CCGGACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (6 bp):
TTACAC
Found at i:50419777 original size:13 final size:13
Alignment explanation
Indices: 50419759--50419788 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
50419749 GTTCTTGTAG
50419759 ATTTGACCACCAA
1 ATTTGACCACCAA
50419772 ATTTGACCACCAA
1 ATTTGACCACCAA
50419785 ATTT
1 ATTT
50419789 ATCTTCCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (13 bp):
ATTTGACCACCAA
Found at i:50425361 original size:3 final size:3
Alignment explanation
Indices: 50425345--50425402 Score: 98
Period size: 3 Copynumber: 19.0 Consensus size: 3
50425335 AGCAATAATG
*
50425345 TTA TTA TCA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50425391 TTA TTA TTA TTA
1 TTA TTA TTA TTA
50425403 GTTTTATTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 50 0.96
4 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:50427692 original size:19 final size:18
Alignment explanation
Indices: 50427651--50427693 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
50427641 CGTCTCTTTT
50427651 TGCATTCATTTCATGCATC
1 TGCATTCATTTCATGCA-C
50427670 TGCATTGCATTTCATTGCA-
1 TGCATT-CATTTCA-TGCAC
50427689 TGCAT
1 TGCAT
50427694 CAAATTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (18 bp):
TGCATTCATTTCATGCAC
Found at i:50428977 original size:17 final size:18
Alignment explanation
Indices: 50428955--50428991 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
50428945 TTATTCTTTT
50428955 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
50428972 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
50428990 AT
1 AT
50428992 ACTGTGCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:50430651 original size:16 final size:14
Alignment explanation
Indices: 50430632--50430684 Score: 61
Period size: 16 Copynumber: 3.5 Consensus size: 14
50430622 ATATATATAT
50430632 AAAAATGAATGAAAGA
1 AAAAATGAA--AAAGA
50430648 AAAAATGAAAAATGAA
1 AAAAATGAAAAA-G-A
*
50430664 AAAAATGAAAAAGT
1 AAAAATGAAAAAGA
50430678 AAAAATG
1 AAAAATG
50430685 GAGAGGCTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
14 10 0.29
15 2 0.06
16 22 0.65
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAAGA
Found at i:50432633 original size:353 final size:350
Alignment explanation
Indices: 50431919--50432860 Score: 1618
Period size: 353 Copynumber: 2.7 Consensus size: 350
50431909 ATGAAGTTGC
50431919 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
50431983 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTTTCTGTATTGACAGTGAAGCAGGTCGAAGA
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCC-TTCCTGTATTGACAGCGAAGCAGGTCGAAGA
*
50432048 CACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGTA
130 CACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCA
* *
50432113 TGGATAGCGAAGCA-GTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAGA
195 TTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAGA
* **
50432177 CAAAGATCTTGCCTTCCTGTATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGG
260 AAAAGATCTTGCCTTCCTACATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGG
50432242 TTGTGATGGAGCTGGTTGAAGACAAA
325 TTGTGATGGAGCTGGTTGAAGACAAA
50432268 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
50432333 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATGGATAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGAC
50432398 ACAAACCTTGCCTCTCTCGGTTGTGAATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCA
131 ACAAACCTTGCCTCTCTCGGTTGTG-ATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCA
*
50432463 TTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCGCTCTCGGTTGTGATGGAGCTGGTTGAAG
195 TTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTG-AG
*
50432528 ATAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTC
259 A-AAAAGATCTTGCCTTCCTACATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTC
*
50432593 GGTTGTGATGGAGCTGGTTGAAGATAAA
323 GGTTGTGATGGAGCTGGTTGAAGACAAA
*
50432621 AGATCTTGCCTTCCTGCATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
** * * *
50432686 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGGTCAAATAC
66 TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGAC
* * *
50432751 ACAAACCTTGCCTCTCTCGGTTGTGGTGGAGCTGGTTGAAGATAAAAGATCTTGCTTTCCTGCAT
131 ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
* *
50432816 TGACAGCGAAGCAGGTCGAAGACACAAGCGTTGCCTCTCTCGGTT
196 TGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
50432861 CTAGTGGAGT
Statistics
Matches: 561, Mismatches: 27, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
349 100 0.18
350 100 0.18
351 46 0.08
352 82 0.15
353 233 0.42
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (350 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGTATTGACAGCGAAGCAGGTCGAAGAC
ACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
TGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTTGAGAA
AAAGATCTTGCCTTCCTACATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGT
TGTGATGGAGCTGGTTGAAGACAAA
Found at i:50432881 original size:88 final size:88
Alignment explanation
Indices: 50431919--50432860 Score: 1613
Period size: 88 Copynumber: 10.7 Consensus size: 88
50431909 ATGAAGTTGC
50431919 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
50431983 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
50432006 AGATCTTGCCTTTTCTGTATTGACAGTGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 AGATCTTGCC-TTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
50432071 GTGATGGAGCTGGTTGAAGACAAA
65 GTGATGGAGCTGGTTGAAGACAAA
* * *
50432095 AGATCTTGCCTTCCTGTATGGATAGCGAAGCA-GTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
50432159 TGATGGAGCTGGTTG-AGAC-AA
66 TGATGGAGCTGGTTGAAGACAAA
* *
50432180 AGATCTTGCCTTCCTGTATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
50432245 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
50432268 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
50432333 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
50432356 AGATCTTGCCTTCCTGTATGGATAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
50432421 TGAATGGAGCTGGTTGAAGACAAA
66 TG-ATGGAGCTGGTTGAAGACAAA
*
50432445 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCGCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
50432510 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
50432533 AGATCTTGCCTTCCTACATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
50432598 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
50432621 AGATCTTGCCTTCCTGCATTGACAGCGAAACAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
50432686 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * * *
50432709 AGATCTTGCCTTCCTACATTAACAGCGAAGCAGGTCAAATACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
50432774 TGGTGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGACAAA
* * *
50432797 AGATCTTGCTTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAGCGTTGCCTCTCTCGGTT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
50432861 CTAGTGGAGT
Statistics
Matches: 810, Mismatches: 39, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
85 31 0.04
86 51 0.06
87 61 0.08
88 533 0.66
89 134 0.17
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Done.