Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 154 of 279
Found at i:50393223 original size:42 final size:42
Alignment explanation
Indices: 50393141--50393368 Score: 223
Period size: 42 Copynumber: 5.4 Consensus size: 42
50393131 ACGTCGCTAA
* *
50393141 CTTTTGCGGCGCTTATAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAT-GAAAAAAACGCCGCTAAA-ATCATGTT
**
50393185 CTTTAGCGGCGCTTATG-AAAAAACGCCATTACAAATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAAACGCCGCTA-AAATCATGTT
* *
50393227 CTTTAGCGGCGCTTA-G-GAAAAACTCCGCTAAAAATCATGTT
1 CTTTAGCGGCGCTTATGAAAAAAACGCCGCT-AAAATCATGTT
* * *
50393268 TTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTATGAAAAAAACGCCGCTAAAA-TCATGTT
* * * ** *
50393311 CTATAACGGCGCTT-GGTCAAAAACGCCGCTAATAGT-AGTGTT
1 CTTTAGCGGCGCTTATGAAAAAAACGCCGCTAA-AATCA-TGTT
50393353 CTTTAGCGGCGCTTAT
1 CTTTAGCGGCGCTTAT
50393369 TTCACAAACG
Statistics
Matches: 155, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
41 35 0.23
42 73 0.47
43 32 0.21
44 15 0.10
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (42 bp):
CTTTAGCGGCGCTTATGAAAAAAACGCCGCTAAAATCATGTT
Found at i:50402274 original size:52 final size:52
Alignment explanation
Indices: 50402217--50402322 Score: 203
Period size: 52 Copynumber: 2.0 Consensus size: 52
50402207 AATATTTAAT
50402217 TAGATTTAAGTTGAATTTTATTTAATTAATCTAAATAATAAACAAATTAAGA
1 TAGATTTAAGTTGAATTTTATTTAATTAATCTAAATAATAAACAAATTAAGA
*
50402269 TAGATTTAAGTTGAATTTTATTTAATTAATCTAAATAATAAACCAATTAAGA
1 TAGATTTAAGTTGAATTTTATTTAATTAATCTAAATAATAAACAAATTAAGA
50402321 TA
1 TA
50402323 AAATGTTTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.41
Consensus pattern (52 bp):
TAGATTTAAGTTGAATTTTATTTAATTAATCTAAATAATAAACAAATTAAGA
Found at i:50402399 original size:42 final size:41
Alignment explanation
Indices: 50402347--50402546 Score: 120
Period size: 41 Copynumber: 4.8 Consensus size: 41
50402337 GCGCTTCAAC
50402347 AAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTATCAT
1 AAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTAT-AT
*** ** * * *
50402389 AGCCACGCCGCTAAAAGTCTTAACTTTAGCGTCGCTTATAT
1 AAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTATAT
** * * *
50402430 AAAAACGCCGCTAAAAGACCAAATATTAGCGACGCTTCA-A-
1 AAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTT-ATAT
* * * * * *
50402470 AGAAATCGCCGCTAAATA-CCTTAACTTTAGCGACGGTTGAT-C
1 A-AAAACGCCGCTAAA-ACCCCTAACATTAGCGGCGCTT-ATAT
* * *
50402512 AAAAATGCCACTAAAACCCCTGACCATTAGCGGCG
1 AAAAACGCCGCTAAAACCCCT-AACATTAGCGGCG
50402547 AAAGCCTAAA
Statistics
Matches: 119, Mismatches: 32, Indels: 14
0.72 0.19 0.08
Matches are distributed among these distances:
40 2 0.02
41 73 0.61
42 44 0.37
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.21
Consensus pattern (41 bp):
AAAAACGCCGCTAAAACCCCTAACATTAGCGGCGCTTATAT
Found at i:50406083 original size:43 final size:43
Alignment explanation
Indices: 50406021--50406138 Score: 173
Period size: 43 Copynumber: 2.7 Consensus size: 43
50406011 GTTCTTTAGC
*
50406021 TAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATAATCTT
1 TAGCGGCGCTTTAACCACAAACGCCGCTAAAGAACATAATCTT
* * * *
50406064 TAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGATCTT
1 TAGCGGCGCTTTAACCACAAACGCCGCTAAAGAACATAATCTT
* *
50406107 TAGTGGCGCTTTAACCACAAACGCTGCTAAAG
1 TAGCGGCGCTTTAACCACAAACGCCGCTAAAG
50406139 GTCATAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (43 bp):
TAGCGGCGCTTTAACCACAAACGCCGCTAAAGAACATAATCTT
Found at i:50407451 original size:12 final size:12
Alignment explanation
Indices: 50407434--50407461 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50407424 GTGATTAAGG
50407434 ACATTAATAGTA
1 ACATTAATAGTA
50407446 ACATTAATAGTA
1 ACATTAATAGTA
50407458 ACAT
1 ACAT
50407462 CAAGGCTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (12 bp):
ACATTAATAGTA
Found at i:50408328 original size:31 final size:31
Alignment explanation
Indices: 50408290--50408369 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
50408280 CATGGTTGAT
* *
50408290 TTAGCAGCAAAAATCAATAGAATGTACCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
*
50408321 TTAGCAGCAAAACCCAATAGAAGGTACCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
*
50408352 TTAGCTGCAAAAACCAAT
1 TTAGCAGCAAAAACCAAT
50408370 TAAAATCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.44, C:0.23, G:0.14, T:0.20
Consensus pattern (31 bp):
TTAGCAGCAAAAACCAATAGAAGGTACCATC
Found at i:50409819 original size:21 final size:21
Alignment explanation
Indices: 50409793--50409833 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50409783 ATGCATTGTG
* *
50409793 TAAACCTTAAACCATTAACAC
1 TAAACCGTAAACCATAAACAC
50409814 TAAACCGTAAACCATAAACA
1 TAAACCGTAAACCATAAACA
50409834 TCAAGCCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.27, G:0.02, T:0.20
Consensus pattern (21 bp):
TAAACCGTAAACCATAAACAC
Found at i:50409915 original size:7 final size:7
Alignment explanation
Indices: 50409905--50409958 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
50409895 CATTAAAACG
50409905 TAAACCC
1 TAAACCC
*
50409912 TAAACCT
1 TAAACCC
50409919 TAAACCC
1 TAAACCC
*
50409926 CAAACCC
1 TAAACCC
*
50409933 TAAGCCC
1 TAAACCC
50409940 TAAA-CC
1 TAAACCC
* *
50409946 TACACCA
1 TAAACCC
50409953 TAAACC
1 TAAACC
50409959 TTGAACTCAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
6 5 0.14
7 32 0.86
ACGTcount: A:0.43, C:0.41, G:0.02, T:0.15
Consensus pattern (7 bp):
TAAACCC
Found at i:50409930 original size:21 final size:21
Alignment explanation
Indices: 50409906--50409945 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50409896 ATTAAAACGT
*
50409906 AAACCCTAAACCTTAAACCCC
1 AAACCCTAAACCCTAAACCCC
*
50409927 AAACCCTAAGCCCTAAACC
1 AAACCCTAAACCCTAAACC
50409946 TACACCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.42, G:0.03, T:0.12
Consensus pattern (21 bp):
AAACCCTAAACCCTAAACCCC
Found at i:50410281 original size:40 final size:40
Alignment explanation
Indices: 50410237--50410344 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
50410227 TTATAAACGG
*
50410237 CGCTAATGCTCTATTTTTAGCAGCG-TTTCTCAAAAAGTGC
1 CGCTAATGCTCTATTTTTAGCAGCGTTTTC-CAAAAAGCGC
* * * * *
50410277 CGCTAATGCTTTA-CTTTAGCAACGTTTTCCTAAATGCGC
1 CGCTAATGCTCTATTTTTAGCAGCGTTTTCCAAAAAGCGC
* *
50410316 CGCTAATGCTCGATTTTTAGCGGCGTTTT
1 CGCTAATGCTCTATTTTTAGCAGCGTTTT
50410345 TTGTCCAAAC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
39 27 0.49
40 28 0.51
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (40 bp):
CGCTAATGCTCTATTTTTAGCAGCGTTTTCCAAAAAGCGC
Found at i:50410303 original size:39 final size:40
Alignment explanation
Indices: 50410237--50410336 Score: 105
Period size: 39 Copynumber: 2.5 Consensus size: 40
50410227 TTATAAACGG
* * *
50410237 CGCTAATGCTCTATTTTTAGCAGCG-TTTCTCAAAAAGTGC
1 CGCTAATGCTCTATCTTTAGCAACGTTTTC-CAAAAAGCGC
* * *
50410277 CGCTAATGCTTTA-CTTTAGCAACGTTTTCCTAAATGCGC
1 CGCTAATGCTCTATCTTTAGCAACGTTTTCCAAAAAGCGC
* *
50410316 CGCTAATGCTCGATTTTTAGC
1 CGCTAATGCTCTATCTTTAGC
50410337 GGCGTTTTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
39 27 0.55
40 22 0.45
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (40 bp):
CGCTAATGCTCTATCTTTAGCAACGTTTTCCAAAAAGCGC
Found at i:50416182 original size:22 final size:22
Alignment explanation
Indices: 50416151--50416203 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
50416141 AAAAAATACT
*
50416151 AAATAGAATTGATTTCAAAATA
1 AAATATAATTGATTTCAAAATA
* *
50416173 AAATATAATTGATTTTAAAATT
1 AAATATAATTGATTTCAAAATA
50416195 AAAT-TAATT
1 AAATATAATT
50416204 AAAGAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 5 0.18
22 23 0.82
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.40
Consensus pattern (22 bp):
AAATATAATTGATTTCAAAATA
Found at i:50424750 original size:62 final size:62
Alignment explanation
Indices: 50424557--50424754 Score: 211
Period size: 63 Copynumber: 3.2 Consensus size: 62
50424547 CGGGTCATAC
* *
50424557 GCCCGTGTGCCCTGGCCGTATGGTTTTTTTGCATAAACAGTGAGTTACATGGCCTAGACACAT
1 GCCCGTGT-CCCTGGCCGTATGGTCTTTTTCCATAAACAGTGAGTTACATGGCCTAGACACAT
** * * * * * * * *
50424620 GCCAC-TGTCCCTTCCCGTGT-GACTTTTATACTACAAACAGTGAGTTACACGGCCTGGGCACAC
1 GCC-CGTGTCCCTGGCCGTATGGTCTTTT-T-CCATAAACAGTGAGTTACATGGCCTAGACACAT
* * *
50424683 ACCCGTGTCCCTGGCCGTATGGTCTTGTTCCATAAACAGTGAGTTACATGGCCCAGACACAT
1 GCCCGTGTCCCTGGCCGTATGGTCTTTTTCCATAAACAGTGAGTTACATGGCCTAGACACAT
50424745 GCCCGTGTCC
1 GCCCGTGTCC
50424755 GTTGCCCGTG
Statistics
Matches: 104, Mismatches: 26, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
61 5 0.05
62 46 0.44
63 47 0.45
64 6 0.06
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.27
Consensus pattern (62 bp):
GCCCGTGTCCCTGGCCGTATGGTCTTTTTCCATAAACAGTGAGTTACATGGCCTAGACACAT
Found at i:50428347 original size:18 final size:18
Alignment explanation
Indices: 50428324--50428383 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
50428314 TGTAACGGGT
50428324 ACTTGTTCTTAATTGTCA
1 ACTTGTTCTTAATTGTCA
**
50428342 ACTTGTTC-TAACGAGT--
1 ACTTGTTCTTAA-TTGTCA
*
50428358 ACTTGTTCTTGATTGTCA
1 ACTTGTTCTTAATTGTCA
50428376 ACTTGTTC
1 ACTTGTTC
50428384 AACTGTCCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 10 0.30
17 5 0.15
18 18 0.55
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (18 bp):
ACTTGTTCTTAATTGTCA
Found at i:50428354 original size:34 final size:34
Alignment explanation
Indices: 50428316--50428383 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
50428306 CAATCCTCTG
*
50428316 TAACGGGTACTTGTTCTTAATTGTCAACTTGTTC
1 TAACGAGTACTTGTTCTTAATTGTCAACTTGTTC
*
50428350 TAACGAGTACTTGTTCTTGATTGTCAACTTGTTC
1 TAACGAGTACTTGTTCTTAATTGTCAACTTGTTC
50428384 AACTGTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.44
Consensus pattern (34 bp):
TAACGAGTACTTGTTCTTAATTGTCAACTTGTTC
Found at i:50434164 original size:3 final size:3
Alignment explanation
Indices: 50434158--50434207 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
50434148 TAATGTTCCC
* * * *
50434158 ATT ATT ATT ATT ATC ATT ATT ATT ATT ATC AAT ATT ATT ATT ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
50434206 AT
1 AT
50434208 ATTTCCATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:50434177 original size:15 final size:15
Alignment explanation
Indices: 50434157--50434207 Score: 93
Period size: 15 Copynumber: 3.4 Consensus size: 15
50434147 TTAATGTTCC
50434157 CATTATTATTATTAT
1 CATTATTATTATTAT
50434172 CATTATTATTATTAT
1 CATTATTATTATTAT
*
50434187 CAATATTATTATTAT
1 CATTATTATTATTAT
50434202 CATTAT
1 CATTAT
50434208 ATTTCCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (15 bp):
CATTATTATTATTAT
Found at i:50434506 original size:12 final size:12
Alignment explanation
Indices: 50434491--50434543 Score: 56
Period size: 12 Copynumber: 4.3 Consensus size: 12
50434481 TATATTTTCC
50434491 TTTATTTTTATG
1 TTTATTTTTATG
50434503 TTTA--TTTATG
1 TTTATTTTTATG
*
50434513 TACTTATTTATATG
1 T--TTATTTTTATG
50434527 TTTATTTTTATG
1 TTTATTTTTATG
50434539 CTTTA
1 -TTTA
50434544 GTTTATTTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
10 7 0.21
12 17 0.50
13 4 0.12
14 6 0.18
ACGTcount: A:0.21, C:0.04, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTATTTTTATG
Found at i:50438086 original size:6 final size:6
Alignment explanation
Indices: 50438077--50438138 Score: 51
Period size: 6 Copynumber: 10.7 Consensus size: 6
50438067 AAGAAAAAGA
* * *
50438077 AAAATC AAAATC AAAGTC AAAATG AAAAT- GAAA-- AAAATC AAAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC -AAAATC
50438123 AAAAATC AAAAT- AAAA
1 -AAAATC AAAATC AAAA
50438139 AAAAACAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
4 3 0.06
5 7 0.15
6 25 0.52
7 13 0.27
ACGTcount: A:0.71, C:0.10, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:50438139 original size:29 final size:28
Alignment explanation
Indices: 50438083--50438190 Score: 84
Period size: 29 Copynumber: 4.0 Consensus size: 28
50438073 AAGAAAAATC
* * *
50438083 AAAATC-AAAGTCAAAATGAAAATGAAA
1 AAAATCAAAAATCAAAATCAAAATAAAA
50438110 AAAATCAAAAATCAAAAATCAAAATAAAA
1 AAAATCAAAAATC-AAAATCAAAATAAAA
* * * * *
50438139 AAAAACAAAAA-GAAGA--AAGA-AGAA
1 AAAATCAAAAATCAAAATCAAAATAAAA
*
50438163 AAAATC-AAAATCAAGATCAAAATAAAA
1 AAAATCAAAAATCAAAATCAAAATAAAA
50438190 A
1 A
50438191 TGAGAAAAAG
Statistics
Matches: 63, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
23 4 0.06
24 12 0.19
25 3 0.05
26 3 0.05
27 13 0.21
28 5 0.08
29 23 0.37
ACGTcount: A:0.73, C:0.08, G:0.07, T:0.11
Consensus pattern (28 bp):
AAAATCAAAAATCAAAATCAAAATAAAA
Found at i:50438149 original size:6 final size:7
Alignment explanation
Indices: 50438109--50438133 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50438099 TGAAAATGAA
50438109 AAAAATC
1 AAAAATC
50438116 AAAAATC
1 AAAAATC
50438123 AAAAATC
1 AAAAATC
50438130 AAAA
1 AAAA
50438134 TAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:50438206 original size:51 final size:53
Alignment explanation
Indices: 50438103--50438217 Score: 139
Period size: 51 Copynumber: 2.2 Consensus size: 53
50438093 TCAAAATGAA
50438103 AATGAAAAAAATCAAAAATCAAAAATCAAAATAAAAAAAAACAAAAAGAAGAAAG
1 AATG-AAAAAATCAAAAATCAAAAATCAAAATAAAAAAAAACAAAAAGAAG-AAG
* ** *
50438158 AA-GAAAAAATC-AAAATC-AAGATCAAAAT-AAAAATGAGAAAAAGAAAGAAG
1 AATGAAAAAATCAAAAATCAAAAATCAAAATAAAAAAAAACAAAAAG-AAGAAG
50438208 AATGAAAAAA
1 AATGAAAAAA
50438218 GAGAAATCTA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
50 17 0.31
51 20 0.37
52 6 0.11
53 8 0.15
54 1 0.02
55 2 0.04
ACGTcount: A:0.74, C:0.06, G:0.10, T:0.10
Consensus pattern (53 bp):
AATGAAAAAATCAAAAATCAAAAATCAAAATAAAAAAAAACAAAAAGAAGAAG
Found at i:50439793 original size:17 final size:17
Alignment explanation
Indices: 50439734--50439784 Score: 102
Period size: 17 Copynumber: 3.0 Consensus size: 17
50439724 CATCGGGCAA
50439734 TAGGAAGAGGTTACCTC
1 TAGGAAGAGGTTACCTC
50439751 TAGGAAGAGGTTACCTC
1 TAGGAAGAGGTTACCTC
50439768 TAGGAAGAGGTTACCTC
1 TAGGAAGAGGTTACCTC
50439785 GGAGAAGAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (17 bp):
TAGGAAGAGGTTACCTC
Found at i:50440445 original size:46 final size:44
Alignment explanation
Indices: 50440263--50441734 Score: 523
Period size: 44 Copynumber: 33.8 Consensus size: 44
50440253 TGAATATTAG
* * *
50440263 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-C
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * * * * ** * *
50440305 ACTATCCTATCTCCCTAAAGTTGCAGTGGAGCGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-C
* * * ** *
50440349 AGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATC---GCATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* ** *
50440391 AGGTCTTATCTCATTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA--TC
* * * *
50440437 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATC
* * * * *
50440481 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAA-AAT-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * * *
50440523 AGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGAT-TAA-AATC
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * ** *
50440567 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC---GCATC
1 -A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * *
50440610 AGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA--TC
* * *
50440656 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-C
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * * * * ** * *
50440698 ACTATCCTATCTCCCTAAAGTTGCAGTGGAGCGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-C
* * * ** *
50440742 AGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATC---GCATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * *
50440784 AGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAA-AATTTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA---TC
* * * *
50440830 AAACCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA--TC
* * * * *
50440876 AGATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCA-G
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATC
* * * *
50440920 AGATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAG-AT-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * * ** *
50440962 AGTAATCCTATCTCCCTGAGATTACAGTGGTGCGGAT-TAA-AATC
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * ** *
50441006 AAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC---GCATC
1 -A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * * *
50441049 AGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAAAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA--TC
* * * * *
50441095 AGATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCA-G
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATC
* * * * *
50441139 AGATCTTATCTCCCTGAGATTATAGCGGAGTAGATTGAAG-CT-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * * * ** * *
50441181 AGTAATCCTATCTCTCTGAAGTTACAGTAGAGCGGAT-TAA-AATAA
1 AG--ATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-C
* * * * * *
50441226 AGGATCTCATCTCTCTGAAGTTACAGTAGAGCAGATC---GCATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
* *
50441268 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA--TC
* * * * *
50441314 AGATCTTATCTTCCTGAGGTTATAGTGGAGCAGA-CGAAAAAAATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCG--AAGAATC
* * * * ** * *
50441359 A-ATCCTATATTCCTGAAGTTGTAGTGGAGTGGAT-TAA-AATCAC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT--C
* * * *
50441402 AGATCTTATC-CCTCTGAAGTTACAGTAGAGTTGATC---GCATC
1 AGATCTTATCTCC-CTGAGGTTACAGTGGAGTAGATCGAAGAATC
* * *
50441443 AGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGA-CGAAAGAAATT
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCG-AAG-AATC
* * * * ** * *
50441488 A-ATCCTATCTTCCTGAAGTTGCAGTGGAGCGGAT-TAA-AACCAC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA--TC
* * * * * * *
50441531 ATATCTTATTTCTCTGAAGTTACAGTAGAGCAGATC--A-CATCC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-C
* * *
50441573 AG-TCTTATCTCCCTGAAGTTGCAGTGAAGTAGA-CGAAAGAAAT-
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCG-AAG-AATC
* * * ** * *
50441616 AAATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAA-AACCAC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA--TC
* * * * * *
50441660 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC--A-CATCC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-C
* *
50441702 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGTAGA
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGA
50441735 CTGAGTAAGC
Statistics
Matches: 1074, Mismatches: 255, Indels: 203
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.00
41 225 0.21
42 31 0.03
43 92 0.09
44 486 0.45
45 13 0.01
46 216 0.20
47 9 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATC
Found at i:50440639 original size:219 final size:219
Alignment explanation
Indices: 50440261--50441347 Score: 1435
Period size: 219 Copynumber: 5.0 Consensus size: 219
50440251 AGTGAATATT
* * * *
50440261 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTAAAG
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAG
* * *
50440325 TTGCAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
66 TTACAGTGGAGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
50440390 CAGGTCTTATCT-CATTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
131 CAGGTCTTATCTCCA-TGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
50440454 GGTTACAGTGGAGCAGATTGAAGCC
195 GGTTACAGTGGAGCAGATTGAAGCC
* *
50440479 AGAGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAAATAGTAATCCTATCTCCCTG-AG
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAG
*
50440543 ATTACAGTGGAGCAGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
66 -TTACAGTGGAGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
50440608 TCAGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
130 TCAGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
* * * *
50440673 GATTACAGCGGAGCAGATCGAAGAC
195 GGTTACAGTGGAGCAGATTGAAGCC
** * * * * * * * *
50440698 A-CTATCCTATCTCCCT-AAAGTTGCAGTGGAGCGGATT-AAAATAAAG-GAT-CTCATCTCTCT
1 AGAGATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGAT--AGTAATCCT-ATCTCCCT
** ** *** * ** *
50440758 GAAGTTACAGCAGAGTAGA-TCGCATC-AGG-TCTTATCTC-CATGAGGTTACAGTGGAGTAGAC
62 GAAGTTACAGTGGAGCGGATTAAAATCAAGGATCTTATCTCTC-TGAAGTTACAGCAGAGTAGAT
* *** * *
50440819 CGAAAATTTTCAAACCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTA
126 CG--CA---TCAGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTA
*
50440884 TCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCC
186 TCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCC
**
50440918 AGAGATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGATAGTAATCCTATCTCCCTG-AG
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAG
*
50440982 ATTACAGTGGTGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
66 -TTACAGTGGAGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
* *
50441047 TCAGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTAA
130 TCAGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
50441112 GGTTACAGTGGAGCAGATTGAAGCC
195 GGTTACAGTGGAGCAGATTGAAGCC
* * * *
50441137 AGAGATCTTATCTCCCTGAGATTATAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAG
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAG
* * * * *
50441202 TTACAGTAGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAGAGCAGATCGCAT
66 TTACAGTGGAGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
* *
50441267 CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTTCCTGAG
131 CAGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
50441332 GTTATAGTGGAGCAGA
196 GTTACAGTGGAGCAGA
50441348 CGAAAAAAAT
Statistics
Matches: 755, Mismatches: 89, Indels: 49
0.85 0.10 0.05
Matches are distributed among these distances:
214 1 0.00
215 28 0.04
216 3 0.00
217 14 0.02
218 91 0.12
219 438 0.58
220 89 0.12
221 46 0.06
222 13 0.02
223 3 0.00
224 28 0.04
225 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (219 bp):
AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAAG
TTACAGTGGAGCGGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
CAGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
GTTACAGTGGAGCAGATTGAAGCC
Found at i:50440747 original size:174 final size:175
Alignment explanation
Indices: 50440481--50440911 Score: 618
Period size: 174 Copynumber: 2.5 Consensus size: 175
50440471 TTGAAGCCAG
* * * * *
50440481 AGATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAAATAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAACACTAATCCTATCTCCCTAAGATT
* *
50440546 ACAGTGGAGCAGATTAAAATCAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
66 ACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
50440611 GGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAGAA-TTTC
131 GGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAA-AATTTTC
*
50440656 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTAA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAACACTAATCCTATCTCCCTAAGA-T
* *
50440719 TGCAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
65 TACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
50440784 AGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAAATTTTC
130 AGGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAAATTTTC
* * * * * * * *
50440830 AAACCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAAA-ATTTCAGATCTTATCTCCCTAAG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAACA-CT-A-ATCCTATCTCCCTAAG
*
50440894 GTTACAGTGGAGCAGATT
63 ATTACAGTGGAGCAGATT
50440912 GAAGCCAGAG
Statistics
Matches: 227, Mismatches: 22, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
173 4 0.02
174 154 0.68
175 40 0.18
177 29 0.13
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (175 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAAACACTAATCCTATCTCCCTAAGATT
ACAGTGGAGCAGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
GGTCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAAATTTTC
Found at i:50441320 original size:175 final size:175
Alignment explanation
Indices: 50441093--50441477 Score: 458
Period size: 175 Copynumber: 2.2 Consensus size: 175
50441083 CCGAAAAATT
* * ** * *
50441093 TCAGATCTTATCTCCCTAAGGTTACAGTGGAGCAGATTGAAGCCA---GAGATCTTATCTCCCTG
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG-AATTTCAGATCTTATCTCCCTG
* * *** *
50441155 AGATTATAGCGGAGTAGATTG-AAGCTAGTAATCCTAT-CTCTCTGAAGTTACAGTAGAGCGGAT
65 AGATTATAGCGGAGCAGA-CGAAAAAAAGTAATCCTATATTC-CTGAAGTTACAGTAGAGCGGAT
*
50441218 TAAAAT-AAAGGATCTCATCTCTCTGAAGTTACAGTAGAGCAGATCGCA
128 TAAAATCAAA-GATCTCATCCCTCTGAAGTTACAGTAGAGCAGATCGCA
* *
50441266 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTTCCTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGA
* * * ** * *
50441331 GGTTATAGTGGAGCAGACGAAAAAAATTAATCCTATATTCCTGAAGTTGTAGTGGAGTGGATTAA
66 GATTATAGCGGAGCAGACGAAAAAAAGTAATCCTATATTCCTGAAGTTACAGTAGAGCGGATTAA
* * **
50441396 AATCACAGATCTTATCCCTCTGAAGTTACAGTAGAGTTGATCGCA
131 AATCAAAGATCTCATCCCTCTGAAGTTACAGTAGAGCAGATCGCA
50441441 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGAC
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGAC
50441478 GAAAGAAATT
Statistics
Matches: 179, Mismatches: 27, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
172 1 0.01
173 37 0.21
174 1 0.01
175 136 0.76
176 4 0.02
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (175 bp):
TCAGGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGA
GATTATAGCGGAGCAGACGAAAAAAAGTAATCCTATATTCCTGAAGTTACAGTAGAGCGGATTAA
AATCAAAGATCTCATCCCTCTGAAGTTACAGTAGAGCAGATCGCA
Found at i:50441474 original size:129 final size:129
Alignment explanation
Indices: 50440266--50441735 Score: 695
Period size: 129 Copynumber: 11.2 Consensus size: 129
50440256 ATATTAGAGA
* * * * *
50440266 TCTTATCTCCCTG-AGATTACAGCGGAGCAGATCG-AAGACACT-ATCCTATCTCCCTAAAGTTG
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-CGAAAGAAATTAATCCTATCTTCCTGAAGTTG
* * * * * *
50440328 CAGTGGAGCGGATTAAAA-TAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT-C
64 CAGTGGAGCGGATTAAAACCACA-GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCC
50440391 AGG
128 A-G
** * * * * * *
50440394 TCTTATCTCATTGAGGTTACAGTGGAGTAGACCG-AAGAATTTCAGATCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-CGAAAGAAATT-A-ATCCTATCTTCCTGAAGTT
* * * * * ** * *
50440458 ACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTG-AGATTACAGCGGAGCAGATTGAAAA
63 GCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG-TTACAGTAGAGCAGA-T-CACA
** *
50440522 TAGTAA
125 T-CCAG
* ** ** *
50440528 TCCTATCTCCCTG-AGATTACAGTGGAGCAGATTAAA-ATCAA-GGATCTTATC-TCTCTGAAGT
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACGAAAGA--AATTAATCCTATCTTC-CTGAAGT
* * * * * * * * * *
50440589 T--A---CAGCAGAGTAGATCGCATCAGGTCTTATCTC-CATGAGGTTACAGTGGAGTAGACCGA
62 TGCAGTGGAGCGGATTAAAAC-CA-CAGATCTTATCTCTC-TGAAGTTACAGTAGAGCAGATC--
* *
50440648 AGAATTTCAG
122 A-CA-TCCAG
* * * * *
50440658 ATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCG-AAGACACT-ATCCTATCTCCCTAAAGTT
1 -TCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-CGAAAGAAATTAATCCTATCTTCCTGAAGTT
* * * * * *
50440720 GCAGTGGAGCGGATTAAAA-TAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT-
63 GCAGTGGAGCGGATTAAAACCACA-GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATC
50440783 CAGG
127 CA-G
* * * ** * * *
50440787 TCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAA-ATTTTCAAACCTTATCTCCCTGAGGTT
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-CGAAAGAAATT-AATCC-TATCTTCCTGAAGTT
* ** ** *** * * *
50440851 ACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCT-AAGGTTACAGTGGAGCAGATTGA-
63 GCAGTGGAGCGGA--TTAAAACCACAGATCTTATCTCTCTGAA-GTTACAGTAGAGCAGA-TCAC
*
50440914 AGCCAGAG
124 ATCC--AG
* * * * *
50440922 ATCTTATCTCCCTG-AGATTACAGTAGAGCAGATTG-AAGATAGTAATCCTATCTCCCTG-AGAT
1 -TCTTATCTCCCTGAAG-TTACAGTGGAGCAGA-CGAAAGAAATTAATCCTATCTTCCTGAAG-T
* * * * * *
50440984 TACAGTGGTGCGGATTAAAATCA-AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT
62 TGCAGTGGAGCGGATTAAAACCACA-GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACAT
50441048 -CAGG
126 CCA-G
* * * * * *
50441052 TCTTATCTCCATGAGGTTACAGTGGAGTAGACCGAAA-AATTTCAGATCTTATCTCCCT-AAGGT
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-CGAAAGAAATT-A-ATCCTATCTTCCTGAA-GT
* * * * * * * ** * *
50441115 TACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTATAGCGGAGTAGATTGA-A
62 TGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAG-TTACAGTAGAGCAGA-TCACA
* *
50441178 GCTAG
125 TCCAG
* * * * ** ***
50441183 TAATCCTATCTCTCTGAAGTTACAGTAGAGCGGATTAAA-ATAAAGGAT-CTCATC-TCTCTGAA
1 ---TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGA-AATTAATCCT-ATCTTC-CTGAA
* * * * * * * * *
50441245 GTTACAGTAGAGCAGA-T----CGCATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCG
60 GTTGCAGTGGAGCGGATTAAAAC-CA-CAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATC-
* *
50441305 AAGAATTTCAG
122 -A-CA-TCCAG
* * * * * *
50441316 ATCTTATCTTCCTGAGGTTATAGTGGAGCAGACGAAAAAAATTAATCCTATATTCCTGAAGTTGT
1 -TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTGC
* * * ** *
50441381 AGTGGAGTGGATTAAAATCACAGATCTTATCCCTCTGAAGTTACAGTAGAGTTGATCGCAT-CAG
65 AGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCA-
50441445 G
129 G
*
50441446 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTGCA
* *
50441511 GTGGAGCGGATTAAAACCACATATCTTATTTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
* * * * * *
50441575 TCTTATCTCCCTGAAGTTGCAGTGAAGTAGACGAAAGAAATAAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTGCA
*
50441640 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
* *
50441704 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGAC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGAC
50441736 TGAGTAAGCA
Statistics
Matches: 1023, Mismatches: 227, Indels: 183
0.71 0.16 0.13
Matches are distributed among these distances:
127 10 0.01
128 67 0.07
129 355 0.35
130 39 0.04
131 233 0.23
132 88 0.09
133 73 0.07
134 108 0.11
135 20 0.02
136 30 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACGAAAGAAATTAATCCTATCTTCCTGAAGTTGCA
GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCACATCCAG
Found at i:50441866 original size:218 final size:218
Alignment explanation
Indices: 50441617--50442018 Score: 585
Period size: 218 Copynumber: 1.8 Consensus size: 218
50441607 GAAAGAAATA
* *
50441617 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCA-CAGATCTTATCTCTCTGAAGTT
1 AATCCTATCTCCCTGAAGTTACAGAGGAGCGGATT-AAACCAGCAGATCGTATCTCTCTGAAGTT
** *
50441681 GCAGTAGAGCAGATCACATCCA-GTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGTAAGC
65 GCAGTAGAGCAGATCACAT-CAGGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGC
*
50441745 AGGTCTTATCCCCCTGAAGTTGCAGCGGGGCAGA-CTGAAGATGGCAAACCTTATCTCCTTGAGG
129 AGGTCTTATCCCCCTAAAGTTGCAGCGGGGCAGATC-GAAGATGGCAAACCTTATCTCCTTGAGG
50441809 TTGCAGTGGAGCAGATTGAAGCCAAT
193 TTGCAGTGGAGCAGATTGAAGCCAAT
* ** *
50441835 AATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAGTAGTAGATCGTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAACCAGCAGATCGTATCTCTCTGAAGTTG
* ** * *
50441900 TAGTAGAGTGGATCGCATCAGGTTTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGCAG
66 CAGTAGAGCAGATCACATCAGGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGCAG
* * * *
50441965 GTCTTATCCCTCTAAAGTTGCAGTGGGGCAGATCGAAGATTGCAAATCTTATCT
131 GTCTTATCCCCCTAAAGTTGCAGCGGGGCAGATCGAAGATGGCAAACCTTATCT
50442019 TCCCAATACA
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
217 6 0.04
218 155 0.96
219 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (218 bp):
AATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAACCAGCAGATCGTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCAGGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGCAG
GTCTTATCCCCCTAAAGTTGCAGCGGGGCAGATCGAAGATGGCAAACCTTATCTCCTTGAGGTTG
CAGTGGAGCAGATTGAAGCCAAT
Found at i:50441888 original size:44 final size:44
Alignment explanation
Indices: 50441449--50441899 Score: 130
Period size: 44 Copynumber: 10.4 Consensus size: 44
50441439 CATCAGGTCT
* * * ** *
50441449 TATCTCCCTGAGGTTACAGTGGAGCAGACGAAAG-AAATTAATCC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCAA-TAATCC
* * * * *
50441493 TATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAT-ATCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCA-ATAATCC
* * * * * * * *
50441537 TATTTCTCTGAAGTTACAGTA-GAGCAGATCACATCC---AGTCT
1 TATCTCCCTGAAGTTGCAG-AGGAGCAGATTAAAGCCAATAATCC
* * * ** *
50441578 TATCTCCCTGAAGTTGCAGTGAAGTAGACGAAAG-AAATAAATCC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCAAT-AATCC
* * * * * *
50441622 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACA-GATCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCA-ATAATCC
* * * * * *
50441666 TATCTCTCTGAAGTTGCAGTA-GAGCAGATCACATCC---AGTCT
1 TATCTCCCTGAAGTTGCAG-AGGAGCAGATTAAAGCCAATAATCC
* * * ** *
50441707 TATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGTAAG-C-A-GGTCT
1 TATCTCCCTGAAGTTGCAGAGGAGCAGA-TTA--AAGCCAATAATCC
* * * * *
50441751 TATCCCCCTGAAGTTGCAGCGGGGCAGACTGAAGATGGC-A-AA-CC
1 TATCTCCCTGAAGTTGCAGAGGAGCAGA-TTAA-A-GCCAATAATCC
* * * *
50441795 TTATCTCCTTGAGGTTGCAGTGGAGCAGATTGAAGCCAATAATCC
1 -TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCAATAATCC
* * * *
50441840 TATCTCCCTGAAGTTGCAGAGGAGCGGATTAAAG-TAGTAGATCG
1 TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCAATA-ATCC
*
50441884 TATCTCTCTGAAGTTG
1 TATCTCCCTGAAGTTG
50441900 TAGTAGAGTG
Statistics
Matches: 300, Mismatches: 82, Indels: 50
0.69 0.19 0.12
Matches are distributed among these distances:
41 53 0.18
42 5 0.02
43 7 0.02
44 203 0.68
45 30 0.10
46 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCAATAATCC
Found at i:50441972 original size:44 final size:44
Alignment explanation
Indices: 50441663--50441988 Score: 154
Period size: 44 Copynumber: 7.5 Consensus size: 44
50441653 AAACCACAGA
* * * **
50441663 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCA-CATCCA-G
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGTAAGCAGG
* *
50441704 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGTAAGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGTAAGCAGG
* ** * * **
50441748 TCTTATCCCCCTGAAGTTGCAGCGGGGCAGACTGAAG-ATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTG-AGTA-AGCAGG
* * * * * * * *
50441793 CCTTATCTCCTTGAGGTTGCAGTGGAGCAGATTGAAGCCAA-TA-A
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTG-AG-TAAGCAGG
* * * * * *
50441837 TCCTATCTCCCTGAAGTTGCAG-AGGAGCGGATTAAAGT-AGTAGA
1 TCTTATCTCCCTGAAGTTGCAGTA-GAGCAGACT-GAGTAAGCAGG
* * * ** * * *
50441881 TCGTATCTCTCTGAAGTTGTAGTAGAGTGGA-T-CG-CATCAGG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGTAAGCAGG
* *
50441922 TTTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGCAGG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGTAAGCAGG
*
50441966 TCTTATC-CCTCTAAAGTTGCAGT
1 TCTTATCTCC-CTGAAGTTGCAGT
50441989 GGGGCAGATC
Statistics
Matches: 216, Mismatches: 52, Indels: 31
0.72 0.17 0.10
Matches are distributed among these distances:
41 56 0.26
42 4 0.02
43 9 0.04
44 109 0.50
45 37 0.17
47 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTGAGTAAGCAGG
Found at i:50442042 original size:218 final size:216
Alignment explanation
Indices: 50441617--50442070 Score: 560
Period size: 218 Copynumber: 2.1 Consensus size: 216
50441607 GAAAGAAATA
* *
50441617 AATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATCGTATCTCTCTGAAGTTG
** *
50441682 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAGTAAGCAG
66 CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGCAG
* * * *
50441747 GTCTTATCCCCCTGAAGTTGCAGCGGGGCAGACTGAAGATGGCAAACCTTATCTCCTTGAGGTTG
131 GTCTTATCCCCCTAAAGTTGCAGCGGGGCAGACTGAAGATGGCAAACCTTATCTCC-TCA-GATA
50441812 CAGTGGAGCAGATTGAAGCCAAT
194 CAGTGGAGCAGATTGAAGCCAAT
* ** *
50441835 AATCCTATCTCCCTGAAGTTGCAGAGGAGCGGATT-AAAGTAGTAGATCGTATCTCTCTGAAGTT
1 AATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCA-CAGATCGTATCTCTCTGAAGTT
* ** * *
50441899 GTAGTAGAGTGGATCGCAT-CAGGTTTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGC
65 GCAGTAGAGCAGATCACATCCA-GTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGC
* * * *
50441963 AGGTCTTATCCCTCTAAAGTTGCAGTGGGGCAGA-TCGAAGATTGCAAATCTTATCTTCC-CA-A
129 AGGTCTTATCCCCCTAAAGTTGCAGCGGGGCAGACT-GAAGATGGCAAACCTTATC-TCCTCAGA
* *
50442025 TACAGTGGAGAAGCAGATTTAAGCCATT
192 TACAGT-G-G-AGCAGATTGAAGCCAAT
*
50442053 AGTCCTATCTCCCT-AAGT
1 AATCCTATCTCCCTGAAGT
50442071 AGTAGTGGAG
Statistics
Matches: 204, Mismatches: 25, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
215 5 0.02
216 1 0.00
217 13 0.06
218 182 0.89
219 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (216 bp):
AATCCTATCTCCCTGAAGTTACAGAGGAGCGGATTAAAACCACAGATCGTATCTCTCTGAAGTTG
CAGTAGAGCAGATCACATCCAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAGTAAGCAG
GTCTTATCCCCCTAAAGTTGCAGCGGGGCAGACTGAAGATGGCAAACCTTATCTCCTCAGATACA
GTGGAGCAGATTGAAGCCAAT
Found at i:50443750 original size:3 final size:3
Alignment explanation
Indices: 50443744--50443799 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
50443734 TAATGTTACC
* * *
50443744 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATC AAT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
50443792 ATC ATT AT
1 ATT ATT AT
50443800 ATTTCCATTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:50450735 original size:22 final size:22
Alignment explanation
Indices: 50450704--50450745 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
50450694 AAAAATAATC
* *
50450704 CTATATATAATATTATTTTTTA
1 CTATAAATAAAATTATTTTTTA
50450726 CTATAAATAAAATTATTTTT
1 CTATAAATAAAATTATTTTT
50450746 AGTAAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
CTATAAATAAAATTATTTTTTA
Found at i:50454265 original size:9 final size:9
Alignment explanation
Indices: 50454251--50454287 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
50454241 TATAGTTTGA
50454251 TATTCGAAT
1 TATTCGAAT
50454260 TATTCGAAT
1 TATTCGAAT
*
50454269 TATTCGAGT
1 TATTCGAAT
50454278 TATTCGAAT
1 TATTCGAAT
50454287 T
1 T
50454288 CGAAAACTCA
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:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:50455157 original size:87 final size:85
Alignment explanation
Indices: 50455064--50455233 Score: 200
Period size: 85 Copynumber: 2.0 Consensus size: 85
50455054 TGTAAAAATT
** * * *
50455064 CTTCAAACGATTTC-AAAAATTAATTAAGCACATATTTTTTTTTGCACTTAATTGGGTACTTGAA
1 CTTCAAACGATTTCAAAAAAACAATTAA--ACAT-CTTTTTTTTGCACTGAATTGAGTACTTGAA
50455128 CT-TTCAAAATGAATCAAAAAGGC
63 CTGTT-AAAATGAATCAAAAAGGC
** *
50455151 CTTCAAACTTTTTCAAAAAAACAATTAAACCTCTTTTTTTTGCACTGAATTGAGTACTTGAACTG
1 CTTCAAACGATTTCAAAAAAACAATTAAACATCTTTTTTTTGCACTGAATTGAGTACTTGAACTG
**
50455216 TTAAAATGCCTCAAAAAG
66 TTAAAATGAATCAAAAAG
50455234 ATCCTTTGAT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
85 43 0.61
86 5 0.07
87 12 0.17
88 11 0.15
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (85 bp):
CTTCAAACGATTTCAAAAAAACAATTAAACATCTTTTTTTTGCACTGAATTGAGTACTTGAACTG
TTAAAATGAATCAAAAAGGC
Found at i:50455275 original size:26 final size:26
Alignment explanation
Indices: 50455246--50455301 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
50455236 CCTTTGATCG
*
50455246 TTAACTTTAGCAGTTGATC-ATTAAAC
1 TTAACTTTAACAGTTGA-CAATTAAAC
*
50455272 TTAACTTTAACAGTTGACAATTAAAG
1 TTAACTTTAACAGTTGACAATTAAAC
50455298 TTAA
1 TTAA
50455302 TTGTCCCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (26 bp):
TTAACTTTAACAGTTGACAATTAAAC
Found at i:50455411 original size:19 final size:19
Alignment explanation
Indices: 50455371--50455462 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 19
50455361 CAAAGAAATA
* * *
50455371 TAAAAAATA-AAAAATCAA
1 TAAAAATTATAAAAATTAT
*
50455389 TAAAAGTTATAAAAATTAT
1 TAAAAATTATAAAAATTAT
**
50455408 TAAATTTTAATAAAAA-TAT
1 TAAAAATT-ATAAAAATTAT
*
50455427 TAAAAATTAGAAAAATATAT
1 TAAAAATTATAAAAAT-TAT
*
50455447 ATAAAAATTGTAAAAA
1 -TAAAAATTATAAAAA
50455463 AACCATAAAA
Statistics
Matches: 58, Mismatches: 11, Indels: 7
0.76 0.14 0.09
Matches are distributed among these distances:
18 13 0.22
19 22 0.38
20 10 0.17
21 13 0.22
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (19 bp):
TAAAAATTATAAAAATTAT
Found at i:50455461 original size:20 final size:19
Alignment explanation
Indices: 50455418--50455511 Score: 59
Period size: 20 Copynumber: 4.8 Consensus size: 19
50455408 TAAATTTTAA
50455418 TAAAAATAT-TAAAAATTAG
1 TAAAAATATATAAAAATT-G
*
50455437 AAAAATATATATAAAAATTG
1 TAAAA-ATATATAAAAATTG
* *
50455457 TAAAAAAACCATAAAAA-TG
1 TAAAAATA-TATAAAAATTG
* **
50455476 T-AAAATCTTATAAAAAATCA
1 TAAAAAT-ATAT-AAAAATTG
50455496 TAAAAATATTATAAAA
1 TAAAAATA-TATAAAA
50455512 TACATAAAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 15
0.70 0.12 0.18
Matches are distributed among these distances:
18 6 0.11
19 14 0.25
20 21 0.37
21 16 0.28
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.28
Consensus pattern (19 bp):
TAAAAATATATAAAAATTG
Found at i:50455522 original size:21 final size:21
Alignment explanation
Indices: 50455477--50455521 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
50455467 ATAAAAATGT
*
50455477 AAAATCTTATAAAAAATCATA
1 AAAATATTATAAAAAATCATA
*
50455498 AAAATATTATAAAATA-CATA
1 AAAATATTATAAAAAATCATA
50455518 AAAA
1 AAAA
50455522 AAAGTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAATATTATAAAAAATCATA
Found at i:50455727 original size:20 final size:20
Alignment explanation
Indices: 50455702--50455763 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
50455692 GTATGATAAT
50455702 TTTTATAATTCTTTTACGAA
1 TTTTATAATTCTTTTACGAA
* *
50455722 TTTTATATTTC-TTTAC-AT
1 TTTTATAATTCTTTTACGAA
50455740 TTTTATAATT-TTCTTACG-A
1 TTTTATAATTCTT-TTACGAA
50455759 TTTTA
1 TTTTA
50455764 CAAAAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
18 11 0.31
19 14 0.40
20 10 0.29
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTATAATTCTTTTACGAA
Found at i:50455750 original size:19 final size:21
Alignment explanation
Indices: 50455700--50455762 Score: 73
Period size: 20 Copynumber: 3.2 Consensus size: 21
50455690 TGGTATGATA
50455700 ATTTTTATAA-TTCTTTTACG
1 ATTTTTATAATTTCTTTTACG
*
50455720 AATTTTAT-ATTTC-TTTAC-
1 ATTTTTATAATTTCTTTTACG
*
50455738 ATTTTTATAATTT-TCTTACG
1 ATTTTTATAATTTCTTTTACG
50455758 ATTTT
1 ATTTT
50455763 ACAAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 7 0.19
19 14 0.39
20 15 0.42
ACGTcount: A:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTATAATTTCTTTTACG
Found at i:50455852 original size:51 final size:52
Alignment explanation
Indices: 50455770--50455882 Score: 122
Period size: 51 Copynumber: 2.2 Consensus size: 52
50455760 TTTACAAAAA
* * * * * *
50455770 TTTAAATTTTTTCCTATATTTCTATATATTTTATATTTTTTTACGATT-TTTT
1 TTTAATTTTTTTCCTAAATTTCAATAAATTTTAAATATTTTTA-GATTGTTTT
* *
50455822 TTTAATTTTTTTTCTAAATTT-AATAAATTTTAAATATTTTTATATTGTTTT
1 TTTAATTTTTTTCCTAAATTTCAATAAATTTTAAATATTTTTAGATTGTTTT
*
50455873 ATTAATTTTT
1 TTTAATTTTT
50455883 AATAATTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
50 3 0.06
51 30 0.59
52 18 0.35
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.66
Consensus pattern (52 bp):
TTTAATTTTTTTCCTAAATTTCAATAAATTTTAAATATTTTTAGATTGTTTT
Found at i:50455901 original size:29 final size:28
Alignment explanation
Indices: 50455847--50455910 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
50455837 AAATTTAATA
50455847 AATTTTAAATATTTTTATATTGTTTTATT
1 AATTTTAAATATTTTTATA-TGTTTTATT
*
50455876 AATTTTTAATAATTTTTATA-GCTTTTATT
1 AATTTTAAAT-ATTTTTATATG-TTTTATT
*
50455905 GATTTT
1 AATTTT
50455911 GATTTTTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 1 0.03
29 21 0.68
30 9 0.29
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (28 bp):
AATTTTAAATATTTTTATATGTTTTATT
Found at i:50456643 original size:18 final size:18
Alignment explanation
Indices: 50456611--50456656 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
50456601 ATTAGTATTG
* *
50456611 TTATTTT-TTATTTTTTA
1 TTATTTTATCATTTTTAA
50456628 -TATTATTATCATTTTTAA
1 TTATT-TTATCATTTTTAA
50456646 TTATTTTATCA
1 TTATTTTATCA
50456657 ATTTCGTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 4 0.17
17 2 0.08
18 14 0.58
19 4 0.17
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTATCATTTTTAA
Found at i:50456905 original size:14 final size:14
Alignment explanation
Indices: 50456868--50456905 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
50456858 ATTAAATTTG
50456868 ATATAAATTTTCTT
1 ATATAAATTTTCTT
*
50456882 AT-TAATATTTTTTT
1 ATATAA-ATTTTCTT
50456896 ATATAAATTT
1 ATATAAATTT
50456906 ATGAAATAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 15 0.71
15 3 0.14
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (14 bp):
ATATAAATTTTCTT
Found at i:50461440 original size:42 final size:42
Alignment explanation
Indices: 50461362--50461625 Score: 334
Period size: 42 Copynumber: 6.2 Consensus size: 42
50461352 TCGTCGCTAA
*
50461362 CTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGA-CAATGAC
1 CTTTAGCGGCGCTTTTCCC-CAAACGCCGCTAAAGACCAA-GAC
* * *
50461405 CTTTAACGGTGCTTTTCCCCCAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCCAAACGCCGCTAAAGACCAAGAC
*
50461447 CTTTAGCGGCGCTTTTCCCCCAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCCAAACGCCGCTAAAGACCAAGAC
* *
50461489 CTTTAGCGGCGCTTTTTTCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGC-TTTTCCCCAAACGCCGCTAAAGACCAAGAC
*
50461532 CTTTAGCGGCGCTTTTCCCTCAAACGCCGCTAAA-AACAAGAC
1 CTTTAGCGGCGCTTTTCCC-CAAACGCCGCTAAAGACCAAGAC
** * * * *
50461574 CTTTAGCGGCGCTTTTTCCTGAAGCGCCGTTAAAAAAACAAGAC
1 CTTTAGCGGCGC-TTTTCCCCAAACGCCGCT-AAAGACCAAGAC
50461618 CTTTAGCG
1 CTTTAGCG
50461626 ACACTTTCTC
Statistics
Matches: 199, Mismatches: 16, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
42 101 0.51
43 82 0.41
44 16 0.08
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTCCCCAAACGCCGCTAAAGACCAAGAC
Found at i:50461459 original size:85 final size:83
Alignment explanation
Indices: 50461362--50461625 Score: 348
Period size: 85 Copynumber: 3.1 Consensus size: 83
50461352 TCGTCGCTAA
* * * * *
50461362 CTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACAATGACCTTTAACGGTGCTTTTCCCCCA
1 CTTTAGCGGCGCTTTTCCC-CAAACGCCGCTAAAGACAA-GACCTTTAGCGGCGCTTTTTCCCAA
50461427 ACGCCGCTAAAGACCAAGAC
64 ACGCCGCTAAAGACCAAGAC
* *
50461447 CTTTAGCGGCGCTTTTCCCCCAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTTCACAA
1 CTTTAGCGGCGCTTTTCCCCAAACGCCGCTAAAGA-CAAGACCTTTAGCGGCGC-TTTTTCCCAA
50461512 ACGCCGCTAAAGACCAAGAC
64 ACGCCGCTAAAGACCAAGAC
* *
50461532 CTTTAGCGGCGCTTTTCCCTCAAACGCCGCTAAAAACAAGACCTTTAGCGGCGCTTTTTCCTGAA
1 CTTTAGCGGCGCTTTTCCC-CAAACGCCGCTAAAGACAAGACCTTTAGCGGCGCTTTTTCC-CAA
* * * *
50461597 GCGCCGTTAAAAAAACAAGAC
64 ACGCCGCT-AAAGACCAAGAC
50461618 CTTTAGCG
1 CTTTAGCG
50461626 ACACTTTCTC
Statistics
Matches: 159, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
84 33 0.21
85 94 0.59
86 32 0.20
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (83 bp):
CTTTAGCGGCGCTTTTCCCCAAACGCCGCTAAAGACAAGACCTTTAGCGGCGCTTTTTCCCAAAC
GCCGCTAAAGACCAAGAC
Found at i:50462577 original size:23 final size:23
Alignment explanation
Indices: 50462551--50463005 Score: 117
Period size: 23 Copynumber: 20.0 Consensus size: 23
50462541 GTAGCACTTT
*
50462551 AACACTTCAATTTACAGCGA-TAA
1 AACACTTCAATTTGCAGC-ACTAA
*
50462574 AACA-TCTCAATTTGCAGCACTTA
1 AACACT-TCAATTTGCAGCACTAA
*
50462597 AACACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTGCAGCACTAA
** * * *
50462620 AACA-TATCAATTAACAACATTTA
1 AACACT-TCAATTTGCAGCACTAA
* * * *
50462643 TACACCTCAA-TTACAACGA-TAA
1 AACACTTCAATTTGCAGC-ACTAA
*
50462665 AACA-TCTCAATTTCCAGCAACT-A
1 AACACT-TCAATTTGCAGC-ACTAA
* *
50462688 AATACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTGCAGCACTAA
** * * *
50462711 AACA-TATCAATTAACAACATTTA
1 AACACT-TCAATTTGCAGCACTAA
* * * *
50462734 TACACCTCAA-TTACAACGA-TAA
1 AACACTTCAATTTGCAGC-ACTAA
*
50462756 AACA-TCTCAATTTCCAGCAACT-A
1 AACACT-TCAATTTGCAGC-ACTAA
* *
50462779 AATACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTGCAGCACTAA
** * * *
50462802 AACA-TATCAATTAACAACATTTA
1 AACACT-TCAATTTGCAGCACTAA
* * * *
50462825 TACACCTCAA-TTACAACGA-TAA
1 AACACTTCAATTTGCAGC-ACTAA
*
50462847 AACA-TCTCAATTTCCAGCAACT-A
1 AACACT-TCAATTTGCAGC-ACTAA
* *
50462870 AATACTTCAATTTGCAGCACTTA
1 AACACTTCAATTTGCAGCACTAA
** * * *
50462893 AACA-TATCAATTAACAACATTTA
1 AACACT-TCAATTTGCAGCACTAA
* * *
50462916 TACACCTCAA-TTACAGCGA-TAA
1 AACACTTCAATTTGCAGC-ACTAA
* *
50462938 AACA-TCTCAGTTTCCAGCAACT-A
1 AACACT-TCAATTTGCAGC-ACTAA
** * *
50462961 AGTACTTCAACTTGCAGCACTTA
1 AACACTTCAATTTGCAGCACTAA
50462984 AACACTTCAATTTGCAGCACTA
1 AACACTTCAATTTGCAGCACTA
50463006 TCAAATTTCG
Statistics
Matches: 324, Mismatches: 73, Indels: 70
0.69 0.16 0.15
Matches are distributed among these distances:
22 76 0.23
23 239 0.74
24 9 0.03
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (23 bp):
AACACTTCAATTTGCAGCACTAA
Found at i:50462717 original size:91 final size:91
Alignment explanation
Indices: 50462548--50462995 Score: 776
Period size: 91 Copynumber: 4.9 Consensus size: 91
50462538 AAAGTAGCAC
* * * *
50462548 TTTA-ACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAGC-ACTTAAACACTTCAATTTG
1 TTTATACACCTCAA-TTACAACGATAAAACATCTCAATTTCCAGCAAC-TAAATACTTCAATTTG
50462611 CAGCACTTAAACATATCAATTAACAACA
64 CAGCACTTAAACATATCAATTAACAACA
50462639 TTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCA
1 TTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCA
50462704 GCACTTAAACATATCAATTAACAACA
66 GCACTTAAACATATCAATTAACAACA
50462730 TTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCA
1 TTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCA
50462795 GCACTTAAACATATCAATTAACAACA
66 GCACTTAAACATATCAATTAACAACA
50462821 TTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCA
1 TTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCA
50462886 GCACTTAAACATATCAATTAACAACA
66 GCACTTAAACATATCAATTAACAACA
* * * *
50462912 TTTATACACCTCAATTACAGCGATAAAACATCTCAGTTTCCAGCAACTAAGTACTTCAACTTGCA
1 TTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCA
50462977 GCACTTAAACACT-TCAATT
66 GCACTTAAACA-TATCAATT
50462996 TGCAGCACTA
Statistics
Matches: 346, Mismatches: 8, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
91 335 0.97
92 11 0.03
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (91 bp):
TTTATACACCTCAATTACAACGATAAAACATCTCAATTTCCAGCAACTAAATACTTCAATTTGCA
GCACTTAAACATATCAATTAACAACA
Found at i:50463423 original size:41 final size:39
Alignment explanation
Indices: 50463340--50463423 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
50463330 GCACAATACA
* **
50463340 ATATAAAAAGCATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
* *
50463379 ATATAAAAAGCATATATAAATATATGTATGTCACATAAACT
1 ATATAAAAAGCATATATAAATATATGAATGT-ACAGAAA-T
50463420 ATAT
1 ATAT
50463424 TCATTTATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 30 0.79
40 3 0.08
41 5 0.13
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (39 bp):
ATATAAAAAGCATATATAAATATATGAATGTACAGAAAT
Found at i:50465545 original size:147 final size:147
Alignment explanation
Indices: 50465372--50466066 Score: 1080
Period size: 147 Copynumber: 4.8 Consensus size: 147
50465362 AAAAATGTTG
* * *
50465372 AAAATTTTTTTCATTTTGAACAAAACGACGTCATTTTGCTATTCTAAAATTTTTTTATTTTTTTT
1 AAAA-TTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTA
* *
50465437 ATAAATTGATTTATTCTTTGCTGCGTTTTTATAGAAAACGCCGCTATTGCTTACTTTTAGCGGCG
65 ATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCG
* *
50465502 CTTCTTAAAAAATGCTGC
130 CTTCTTATAAAATGCCGC
* *
50465520 AAAATTTTTTCATTTTGAACGAAACGACGCCGTTTTGTTATTCTAAAATTTTTTTATTTTTTTAA
1 AAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAA
* * * *
50465585 AAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAAATGCCGCTATTGCTTACCTTTAGCGGCGC
66 TAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGC
* *
50465650 TTCTTATAAAACGCCAC
131 TTCTTATAAAATGCCGC
* *
50465667 AAAATTTTTTTATTTTGAACAAAACGATGCCGTTTTGCTATTCTAAAA-----TT-TTTTTTTAA
1 AAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAA
* * *
50465726 TAAATTGATTTATTCTTTTCGGCGTTTTTTTGGAAAACGCCGCTATTGCTTACCTTTAGCGGCGC
66 TAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGC
* *
50465791 TTTTTATAAAACGCCGC
131 TTCTTATAAAATGCCGC
*
50465808 AAATTTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTTATTTTTTT-
1 AAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAA-TTTTTTTATTTTTTTA
*
50465872 ATAAATTGATTTATTCTTTGCGGTGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCG
65 ATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCG
50465937 CTTCTTATAAAATGCCGC
130 CTTCTTATAAAATGCCGC
* *
50465955 AAAATTTTTTCATTTTGAACAAAACGACGTCGTTTTGCTGTTCTAAAATTTTTTTATTTTTTTAA
1 AAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAA
*
50466020 TAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCTGCTATT
66 TAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATT
50466067 TCATTTTGAA
Statistics
Matches: 500, Mismatches: 39, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
141 130 0.26
142 2 0.00
146 15 0.03
147 342 0.68
148 11 0.02
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (147 bp):
AAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTTTTTATTTTTTTAA
TAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGC
TTCTTATAAAATGCCGC
Found at i:50465764 original size:288 final size:290
Alignment explanation
Indices: 50465372--50466066 Score: 1045
Period size: 288 Copynumber: 2.4 Consensus size: 290
50465362 AAAAATGTTG
* *
50465372 AAAATTTTTTTCATTTTGAACAAAACGACGTCATTTTGCTATTCTAAAATTTTTTTATTTTTTTT
1 AAAATTTTTTT-ATTTTGAACAAAACGACGTCGTTTTGCTATTCTAAAA----TTTATTTTTTTA
* *
50465437 ATAAATTGATTTATTCTTTGCTGCGTTTTTATAGAAAACGCCGCTATTGCTTACTTTTAGCGGCG
61 ATAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCG
* * * *
50465502 CTTCTTAAAAAATGCTGCAAAATTTTTTCATTTTGAACGAAACGACGCCGTTTTGTTATTCTAAA
126 CTTCTTAAAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAA
* * *
50465567 A-TTTTTTTATTTTTTTAAAAAATTGATTTATTCTTTGCGGCGTTTTTCTGGAAAATGCCGCTAT
191 ATTTTTTTTATTTTTTT-AAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTAT
50465631 TGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCAC
255 TGCTTACCTTTAGCGGCGCTTCTTATAAAACGCCAC
* *
50465667 AAAATTTTTTTATTTTGAACAAAACGATGCCGTTTTGCTATTCTAAAA-TT-TTTTTTTAATAAA
1 AAAATTTTTTTATTTTGAACAAAACGACGTCGTTTTGCTATTCTAAAATTTATTTTTTTAATAAA
* * * *
50465730 TTGATTTATTCTTTTCGGCGTTTTTTTGGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTTT
66 TTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCT
* *
50465795 TATAAAACGCCGCAAATTTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTT
131 TAAAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTT
* *
50465860 TTTTATTTTTTTATAAATTGATTTATTCTTTGCGGTGTTTTTATAGAAAACGCCGCTATTGCTTA
196 TTTTATTTTTTTAAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTA
* *
50465925 CCTTTAGCGGCGCTTCTTATAAAATGCCGC
261 CCTTTAGCGGCGCTTCTTATAAAACGCCAC
* *
50465955 AAAATTTTTTCATTTTGAACAAAACGACGTCGTTTTGCTGTTCTAAAATTTTTTTATTTTTTTAA
1 AAAATTTTTTTATTTTGAACAAAACGACGTCGTTTTGCTATTCTAAAA----TTTATTTTTTTAA
*
50466020 TAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCTGCTATT
62 TAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATT
50466067 TCATTTTGAA
Statistics
Matches: 362, Mismatches: 31, Indels: 15
0.89 0.08 0.04
Matches are distributed among these distances:
288 246 0.68
289 17 0.05
293 2 0.01
294 86 0.24
295 11 0.03
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (290 bp):
AAAATTTTTTTATTTTGAACAAAACGACGTCGTTTTGCTATTCTAAAATTTATTTTTTTAATAAA
TTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTACCTTTAGCGGCGCTTCT
TAAAAAACGCCGCAAAATTTTTTCATTTTGAACAAAACGACGCCGTTTTGCTATTCTAAAATTTT
TTTTATTTTTTTAAAAATTGATTTATTCTTTGCGGCGTTTTTATAGAAAACGCCGCTATTGCTTA
CCTTTAGCGGCGCTTCTTATAAAACGCCAC
Found at i:50466458 original size:15 final size:14
Alignment explanation
Indices: 50466441--50466511 Score: 65
Period size: 15 Copynumber: 4.9 Consensus size: 14
50466431 ACCCCTGAAT
*
50466441 CCCTAAACCTTAAAT
1 CCCTAAACCTT-AAC
50466456 CCCT-AACTCTTAAC
1 CCCTAAAC-CTTAAC
*
50466470 CCCT-AACATCTAAC
1 CCCTAAACCT-TAAC
50466484 CCCTAAACCTCTAAC
1 CCCTAAACCT-TAAC
*
50466499 CCCAAAACCTTAA
1 CCCTAAACCTTAA
50466512 ATCCCAACCC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
13 1 0.02
14 23 0.47
15 25 0.51
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAAACCTTAAC
Found at i:50466475 original size:14 final size:14
Alignment explanation
Indices: 50466456--50466501 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
50466446 AACCTTAAAT
50466456 CCCTAAC-TCTTAAC
1 CCCTAACATC-TAAC
50466470 CCCTAACATCTAAC
1 CCCTAACATCTAAC
*
50466484 CCCTAAACCTCTAAC
1 CCCT-AACATCTAAC
50466499 CCC
1 CCC
50466502 AAAACCTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 15 0.52
15 14 0.48
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (14 bp):
CCCTAACATCTAAC
Found at i:50466537 original size:15 final size:14
Alignment explanation
Indices: 50466523--50466571 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
50466513 TCCCAACCCT
50466523 TAAACCATAATCCC
1 TAAACCATAATCCC
**
50466537 TAATTCATAATCCC
1 TAAACCATAATCCC
*
50466551 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
50466566 TAAACC
1 TAAACC
50466572 TTAAATATGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.39, C:0.35, G:0.00, T:0.27
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:50466769 original size:21 final size:20
Alignment explanation
Indices: 50466717--50466770 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
50466707 TAATCTAAAT
*
50466717 CCAAAACCCTAACTCGACTC
1 CCAAAACCCTAACTCGAATC
* * **
50466737 CTAAATCCCTAACTTTTAATC
1 CCAAAACCCTAAC-TCGAATC
50466758 CCAAAACCCTAAC
1 CCAAAACCCTAAC
50466771 CCTCTAACCC
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.37, C:0.39, G:0.02, T:0.22
Consensus pattern (20 bp):
CCAAAACCCTAACTCGAATC
Found at i:50466804 original size:7 final size:7
Alignment explanation
Indices: 50466764--50466819 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
50466754 AATCCCAAAA
50466764 CCCTAAC
1 CCCTAAC
50466771 CCTCTAAC
1 CC-CTAAC
*
50466779 CCCTAAA
1 CCCTAAC
* *
50466786 CCTTAAA
1 CCCTAAC
*
50466793 ACCTAAC
1 CCCTAAC
50466800 CCCTAAC
1 CCCTAAC
*
50466807 CCCTAAT
1 CCCTAAC
50466814 CCCTAA
1 CCCTAA
50466820 ACCTATACTC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
7 34 0.83
8 7 0.17
ACGTcount: A:0.34, C:0.46, G:0.00, T:0.20
Consensus pattern (7 bp):
CCCTAAC
Found at i:50466818 original size:21 final size:21
Alignment explanation
Indices: 50466761--50466819 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
50466751 TTTAATCCCA
*
50466761 AAACCCTAACCCTCTAACCCCT
1 AAACCCTAAACC-CTAACCCCT
* *
50466783 AAACCTTAAAACCTAACCCCT
1 AAACCCTAAACCCTAACCCCT
* *
50466804 AACCCCTAATCCCTAA
1 AAACCCTAAACCCTAA
50466820 ACCTATACTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (21 bp):
AAACCCTAAACCCTAACCCCT
Found at i:50466931 original size:267 final size:266
Alignment explanation
Indices: 50466520--50467105 Score: 969
Period size: 267 Copynumber: 2.2 Consensus size: 266
50466510 AAATCCCAAC
* ** *
50466520 CCTT-AAACCATAATCCCTAATTCATAATCCCTAAATCCATACTCCCTAAACCTTAAATATGAAC
1 CCTTAAAACC-TAACCCCTAACCCATAATCCCTAAA-CCATACTCCCTAAACCTTAAATATAAAC
*
50466584 TCCTAAATCGGCTTTAAATCTAAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
64 TCCTAAACCGGCTTTAAATCTAAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
50466649 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTA
129 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTA
* *
50466714 AATCCAAAACCCTAACTCGACTCCTAAATCCCTAACTTTTAATCCC-AAAACCCTAACCCTCTAA
194 AACCCAAAACCCTAACTCGACCCCTAAATCCCTAACTTTTAATCCCTAAAACCCTAACCCTCTAA
50466778 CCCCTAAA
259 CCCCTAAA
*
50466786 CCTTAAAACCTAACCCCTAACCCCTAATCCCTAAACCTATACTCCCTAAACCTTAAAATATAAAC
1 CCTTAAAACCTAACCCCTAACCCATAATCCCTAAACC-ATACTCCCTAAACCTT-AAATATAAAC
*
50466851 TCCTAAACCGGCTTTAAATCTTAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
64 TCCTAAACCGGCTTTAAATCTAAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTA
50466916 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTA
129 TTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTA
* * *
50466981 AACCCAAAACCTTAACTCGACCCCTGAATCCCTAACTTTTAATCCCTAAACCCCTAACCCTCTAA
194 AACCCAAAACCCTAACTCGACCCCTAAATCCCTAACTTTTAATCCCTAAAACCCTAACCCTCTAA
*
50467046 CCCTTAAA
259 CCCCTAAA
* * *
50467054 CCTTAAATCCTAACCCCTAATCCATAATCCCTAAACCCATACTCCCAAAACC
1 CCTTAAAACCTAACCCCTAACCCATAATCCCTAAA-CCATACTCCCTAAACC
50467106 CTAACCCTCT
Statistics
Matches: 298, Mismatches: 17, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
265 2 0.01
266 41 0.14
267 184 0.62
268 69 0.23
269 2 0.01
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.29
Consensus pattern (266 bp):
CCTTAAAACCTAACCCCTAACCCATAATCCCTAAACCATACTCCCTAAACCTTAAATATAAACTC
CTAAACCGGCTTTAAATCTAAAATTAATCATATACCCTAAACTAAAAACCCTAAACAAATTTATT
ATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATTAATCTAAA
CCCAAAACCCTAACTCGACCCCTAAATCCCTAACTTTTAATCCCTAAAACCCTAACCCTCTAACC
CCTAAA
Found at i:50467072 original size:7 final size:7
Alignment explanation
Indices: 50467024--50467159 Score: 76
Period size: 7 Copynumber: 18.9 Consensus size: 7
50467014 AACTTTTAAT
50467024 CCCTAAAC
1 CCCT-AAC
50467032 CCCTAAC
1 CCCTAAC
50467039 CCTCTAAC
1 CC-CTAAC
* *
50467047 CCTTAAA
1 CCCTAAC
* *
50467054 CCTTAAA
1 CCCTAAC
*
50467061 TCCTAAC
1 CCCTAAC
*
50467068 CCCTAAT
1 CCCTAAC
* *
50467075 CCATAAT
1 CCCTAAC
*
50467082 CCCTAAA
1 CCCTAAC
50467089 CCC-ATAC
1 CCCTA-AC
* *
50467096 TCCCAAAA
1 -CCCTAAC
50467104 CCCTAAC
1 CCCTAAC
50467111 CCTCTAAC
1 CC-CTAAC
*
50467119 CCCTAAA
1 CCCTAAC
* *
50467126 CCTTAAA
1 CCCTAAC
*
50467133 ACCTAAC
1 CCCTAAC
50467140 CCCTAAC
1 CCCTAAC
*
50467147 CCCTAAT
1 CCCTAAC
50467154 CCCTAA
1 CCCTAA
50467160 ACCTATACTC
Statistics
Matches: 102, Mismatches: 21, Indels: 11
0.76 0.16 0.08
Matches are distributed among these distances:
6 1 0.01
7 78 0.76
8 22 0.22
9 1 0.01
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAC
Found at i:50467086 original size:72 final size:73
Alignment explanation
Indices: 50467023--50467177 Score: 249
Period size: 72 Copynumber: 2.1 Consensus size: 73
50467013 TAACTTTTAA
* * *
50467023 TCCCTAAACCCCTAACCCTCTAACCCTTAAACCTTAAATCCTAACCCCTAATCCATAATCCCTAA
1 TCCCTAAACCCCTAACCCTCTAACCCCTAAACCTTAAAACCTAACCCCTAACCCATAATCCCTAA
*
50467088 ACCCATAC
66 ACCTATAC
* *
50467096 TCCC-AAAACCCTAACCCTCTAACCCCTAAACCTTAAAACCTAACCCCTAACCCCTAATCCCTAA
1 TCCCTAAACCCCTAACCCTCTAACCCCTAAACCTTAAAACCTAACCCCTAACCCATAATCCCTAA
50467160 ACCTATAC
66 ACCTATAC
50467168 TCCCTAAACC
1 TCCCTAAACC
50467178 TTAAAATATA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
72 66 0.89
73 8 0.11
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (73 bp):
TCCCTAAACCCCTAACCCTCTAACCCCTAAACCTTAAAACCTAACCCCTAACCCATAATCCCTAA
ACCTATAC
Found at i:50467196 original size:72 final size:72
Alignment explanation
Indices: 50467043--50467199 Score: 199
Period size: 72 Copynumber: 2.2 Consensus size: 72
50467033 CCTAACCCTC
* * *
50467043 TAACCCTTAAACCTTAAATCCTAACCCCTAATCCATAATCCCTAAACCCATACTCCCAAAACCCT
1 TAACCCCTAAACCTTAAAACCTAACCCCTAACCCATAATCCCTAAACCCATACTCCCAAAACCCT
** *
50467108 AACCCTC
66 AACAATA
* * * *
50467115 TAACCCCTAAACCTTAAAACCTAACCCCTAACCCCTAATCCCTAAACCTATACTCCCTAAACCTT
1 TAACCCCTAAACCTTAAAACCTAACCCCTAACCCATAATCCCTAAACCCATACTCCCAAAACCCT
50467180 AA-AATA
66 AACAATA
*
50467186 TAAACTCCTAAACC
1 T-AACCCCTAAACC
50467200 GGCTTTAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
71 2 0.03
72 71 0.97
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.22
Consensus pattern (72 bp):
TAACCCCTAAACCTTAAAACCTAACCCCTAACCCATAATCCCTAAACCCATACTCCCAAAACCCT
AACAATA
Found at i:50467701 original size:41 final size:41
Alignment explanation
Indices: 50467592--50467682 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
50467582 AGGTTTTTTT
*
50467592 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
50467633 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
50467674 GCGGCGCTT
1 GCGGCGCTT
50467683 CCTTTTAAAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:50467810 original size:155 final size:154
Alignment explanation
Indices: 50467479--50467798 Score: 505
Period size: 155 Copynumber: 2.1 Consensus size: 154
50467469 AGGTTTTTTT
* *
50467479 GCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGC
*
50467544 TAAATCCCTAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAA
66 TAAATCCCGAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAA
* * *
50467609 ACGCCGCTAAAGCTCTGAGCATTA
131 ACACCGCTAAAGCCCGGAGCATTA
**
50467633 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTTTAAACGCCGC
1 GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGC
* * * * **
50467698 TAAATCCCCGAAAGCTCATAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGTGGCGTTTTTGCAAA
66 TAAAT-CCCGAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAA
50467763 AACACCGCTAAAGCCCGGAGCATTA
130 AACACCGCTAAAGCCCGGAGCATTA
50467788 GCGGCGCTTTC
1 GCGGCGCTTTC
50467799 TTAGAAACGC
Statistics
Matches: 151, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
154 66 0.44
155 85 0.56
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (154 bp):
GCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAACGCCGC
TAAATCCCGAAAGCTCAGAAAACGGCGTCGTGGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAAAA
ACACCGCTAAAGCCCGGAGCATTA
Found at i:50467845 original size:114 final size:114
Alignment explanation
Indices: 50467635--50467886 Score: 370
Period size: 114 Copynumber: 2.2 Consensus size: 114
50467625 GAGCATTAGC
* * **
50467635 GGCGCTTTC-CCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTTTAAACGCCGCT
1 GGCGCTTTCTTCAAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCGCTTCCTTAGAAACGCCGCT
*
50467699 AAATCCCCGAAAGCTCATAAAACGGCGTCGTTGGGCTTAGGTTTTTTTGT
66 AAATCCCCGAAAGCTCATAAAACGACGTCGTTGGGCTTAGG-TTTTTTGT
* * *
50467749 GGCG-TTT-TTGCAAAAACACCGCTAAAGCCCGGAGCATTAGCGGCGCTTTCTTAGAAACGCCGT
1 GGCGCTTTCTT-CAAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCGCTTCCTTAGAAACGCCGC
50467812 TAAATCCCCGAAAGCTCA-AGAAACGACGTCGTTGGGCTTAGGTTTTTTGT
65 TAAATCCCCGAAAGCTCATA-AAACGACGTCGTTGGGCTTAGGTTTTTTGT
50467862 GGCGCTTTCTT-AAAAACGCCGCTAA
1 GGCGCTTTCTTCAAAAACGCCGCTAA
50467887 TGCTTATTTT
Statistics
Matches: 124, Mismatches: 9, Indels: 11
0.86 0.06 0.08
Matches are distributed among these distances:
113 29 0.23
114 93 0.75
115 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (114 bp):
GGCGCTTTCTTCAAAAACGCCGCTAAAGCCCGGAGCATTAGCGGCGCTTCCTTAGAAACGCCGCT
AAATCCCCGAAAGCTCATAAAACGACGTCGTTGGGCTTAGGTTTTTTGT
Found at i:50468345 original size:29 final size:30
Alignment explanation
Indices: 50468283--50468347 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
50468273 GAATAGATTG
* *
50468283 AAAGATTGAAGATTTGAAGTTTGGCTGGAT
1 AAAGATTAAAGATTTGAAGATTGGCTGGAT
50468313 AAAGATTAAAGATTTGAA-ATTGGCTGGAT
1 AAAGATTAAAGATTTGAAGATTGGCTGGAT
50468342 AAAGAT
1 AAAGAT
50468348 CAAATTATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.40, C:0.03, G:0.26, T:0.31
Consensus pattern (30 bp):
AAAGATTAAAGATTTGAAGATTGGCTGGAT
Found at i:50470849 original size:25 final size:24
Alignment explanation
Indices: 50470813--50470865 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
50470803 AAGTTCAAGC
50470813 GAGCCATATCAGGAA-GCTCATAAA
1 GAGCCATATCA-GAATGCTCATAAA
50470837 GAGCCTATATCAGAATGCTCATAAA
1 GAGCC-ATATCAGAATGCTCATAAA
50470862 GAGC
1 GAGC
50470866 TGCGGTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
GAGCCATATCAGAATGCTCATAAA
Found at i:50471366 original size:21 final size:21
Alignment explanation
Indices: 50471342--50471385 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
50471332 AGTAAATTTA
*
50471342 ATTCAATTTAACACAATTCAC
1 ATTCAATTCAACACAATTCAC
* *
50471363 ATTCAATTCCATACAATTCAC
1 ATTCAATTCAACACAATTCAC
50471384 AT
1 AT
50471386 CCTAAGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTCAATTCAACACAATTCAC
Found at i:50474769 original size:14 final size:16
Alignment explanation
Indices: 50474750--50474793 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
50474740 GGCAACCCAT
50474750 ATTTATTT-ATTTT-A
1 ATTTATTTAATTTTGA
50474764 ATTTATTTAATTTTGA
1 ATTTATTTAATTTTGA
*
50474780 ATTCAGTTTAATTT
1 ATTTA-TTTAATTT
50474794 ATGTTGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 5 0.19
17 8 0.31
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.64
Consensus pattern (16 bp):
ATTTATTTAATTTTGA
Found at i:50476202 original size:29 final size:29
Alignment explanation
Indices: 50476162--50476225 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
50476152 AGGTAGATTG
* **
50476162 AAAGATTGAAGATTT-AAAGTTGGCTTGAT
1 AAAGATTAAAGATTTGAAA-TTGGCCGGAT
50476191 AAAGATTAAAGATTTGAAATTGGCCGGAT
1 AAAGATTAAAGATTTGAAATTGGCCGGAT
50476220 AAAGAT
1 AAAGAT
50476226 CAAATTATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (29 bp):
AAAGATTAAAGATTTGAAATTGGCCGGAT
Found at i:50486370 original size:103 final size:103
Alignment explanation
Indices: 50486191--50486604 Score: 794
Period size: 103 Copynumber: 4.0 Consensus size: 103
50486181 ATCTTTTCTC
* *
50486191 ATAAAAAAAAGTATATAAGTAAAAAGACGTATCTTGAAAATGTTAT-GTGAAGATTAACTGAAAG
1 ATAAAAAAAAGTATATAAATAAAAAGAAGTATCTTGAAAATGTT-TCGTGAAGATTAACTGAAAG
50486255 TATACTATTATTACATTAATTGAAGTATTTATAAATTTA
65 TATACTATTATTACATTAATTGAAGTATTTATAAATTTA
50486294 ATAAAAAAAAGTATATAAATAAAAAGAAGTATCTTGAAAATGTTTCGTGAAGATTAACTGAAAGT
1 ATAAAAAAAAGTATATAAATAAAAAGAAGTATCTTGAAAATGTTTCGTGAAGATTAACTGAAAGT
50486359 ATACTATTATTACATTAATTGAAGTATTTATAAATTTA
66 ATACTATTATTACATTAATTGAAGTATTTATAAATTTA
50486397 ATAAAAAAAAGTATATAAATAAAAAGAAGTATCTTGAAAATGTTTCGTGAAGATTAACTGAAAGT
1 ATAAAAAAAAGTATATAAATAAAAAGAAGTATCTTGAAAATGTTTCGTGAAGATTAACTGAAAGT
50486462 ATACTATTATTACATTAATTGAAGTATTTATAAATTTA
66 ATACTATTATTACATTAATTGAAGTATTTATAAATTTA
50486500 ATAAAAAAAAGTATATAAATAAAAAGAAGTATCTTGAAAATGTTTCGTGAAGATTAACTGAAAGT
1 ATAAAAAAAAGTATATAAATAAAAAGAAGTATCTTGAAAATGTTTCGTGAAGATTAACTGAAAGT
50486565 ATACTATTATTACATTAATTGAAGTATTTATAAATTTA
66 ATACTATTATTACATTAATTGAAGTATTTATAAATTTA
50486603 AT
1 AT
50486605 CCTTGCTTAT
Statistics
Matches: 308, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
102 1 0.00
103 307 1.00
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (103 bp):
ATAAAAAAAAGTATATAAATAAAAAGAAGTATCTTGAAAATGTTTCGTGAAGATTAACTGAAAGT
ATACTATTATTACATTAATTGAAGTATTTATAAATTTA
Found at i:50493793 original size:3 final size:3
Alignment explanation
Indices: 50493785--50493810 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50493775 TTGATTAGTG
50493785 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
50493811 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:50494227 original size:20 final size:20
Alignment explanation
Indices: 50494202--50494243 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
50494192 TAACTATTTA
* *
50494202 ATAATATTAATTGAATAGTT
1 ATAATATTAAATGAATAATT
50494222 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
50494242 AT
1 AT
50494244 GTGTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:50499322 original size:20 final size:20
Alignment explanation
Indices: 50499297--50499338 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
50499287 TAACTATTTA
* *
50499297 ATAATATTAATTGAATAGTT
1 ATAATATTAAATGAATAATT
50499317 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
50499337 AT
1 AT
50499339 GTGTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:50503847 original size:1 final size:1
Alignment explanation
Indices: 50503843--50503867 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
50503833 AAAAATGCTT
50503843 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
50503868 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:50513869 original size:41 final size:40
Alignment explanation
Indices: 50513812--50513972 Score: 162
Period size: 41 Copynumber: 3.9 Consensus size: 40
50513802 TAAACAGATT
* * *
50513812 CACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATT-AGTA
* * * *
50513853 CACCGGCACTTAGCCTGCTAGACATATAGTCTGA-AATGTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTA-GTA
* *
50513893 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAATTACTT
1 -CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTAGTA
* * *
50513935 CACCGGCATTAAGCCTGCTAGACGTAACGTCTGTATTA
1 CACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-ATTA
50513973 TATTCAATCA
Statistics
Matches: 99, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 1 0.01
40 3 0.03
41 92 0.93
42 2 0.02
43 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (40 bp):
CACCGGCATTTAGCCTGCTAGACTTAAAGTCTGATTAGTA
Found at i:50517929 original size:41 final size:42
Alignment explanation
Indices: 50517882--50517976 Score: 106
Period size: 40 Copynumber: 2.3 Consensus size: 42
50517872 TCACATTTTA
** *
50517882 CCGAAGCTATCTCGGTA-TCGCACACTTAGTGCCTCACATAG
1 CCGAAGCTATCTCGCAATTCGCACACTAAGTGCCTCACATAG
* * * *
50517923 TCGAAGCTAT-TC-CAATTCGCACACTAAGTGCTTTATATAG
1 CCGAAGCTATCTCGCAATTCGCACACTAAGTGCCTCACATAG
50517963 CCGAAGCTATCTCG
1 CCGAAGCTATCTCG
50517977 AAACACACAT
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
39 1 0.02
40 31 0.72
41 11 0.26
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (42 bp):
CCGAAGCTATCTCGCAATTCGCACACTAAGTGCCTCACATAG
Found at i:50521549 original size:16 final size:14
Alignment explanation
Indices: 50521537--50521589 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 14
50521527 TCTTTTCTCC
50521537 TTCTTTCCTTTTCTTT
1 TTCTTTCCTTTTC--T
50521553 TTCTTTCC-TTTCT
1 TTCTTTCCTTTTCT
50521566 TTCTTTCCTTGTTTCGT
1 TTCTTTCC-T-TTTC-T
50521583 TTCTTTC
1 TTCTTTC
50521590 TCTCCTGCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
13 9 0.27
15 4 0.12
16 12 0.36
17 8 0.24
ACGTcount: A:0.00, C:0.26, G:0.04, T:0.70
Consensus pattern (14 bp):
TTCTTTCCTTTTCT
Found at i:50521580 original size:21 final size:21
Alignment explanation
Indices: 50521556--50521595 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50521546 TTTCTTTTTC
*
50521556 TTTCCTTTCTTTCTTTCCTTG
1 TTTCCTTTCTTTCTCTCCTTG
*
50521577 TTTCGTTTCTTTCTCTCCT
1 TTTCCTTTCTTTCTCTCCT
50521596 GCTTTTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.30, G:0.05, T:0.65
Consensus pattern (21 bp):
TTTCCTTTCTTTCTCTCCTTG
Found at i:50521585 original size:13 final size:12
Alignment explanation
Indices: 50521534--50521590 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
50521524 CTATCTTTTC
50521534 TCCTTCTTTCCTT
1 TCCTTCTTT-CTT
*
50521547 TTCTT-TTTCTT
1 TCCTTCTTTCTT
50521558 TCCTTTCTTTCTT
1 TCC-TTCTTTCTT
*
50521571 TCCTTGTTTCGTT
1 TCCTTCTTTC-TT
*
50521584 TCTTTCT
1 TCCTTCT
50521591 CTCCTGCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
11 5 0.14
12 11 0.31
13 20 0.56
ACGTcount: A:0.00, C:0.28, G:0.04, T:0.68
Consensus pattern (12 bp):
TCCTTCTTTCTT
Found at i:50521739 original size:16 final size:16
Alignment explanation
Indices: 50521718--50521774 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
50521708 TTTGGTTCGC
*
50521718 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
50521734 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
50521750 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
50521766 TGTAATGGA
1 TGTAATGGA
50521775 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:50522041 original size:18 final size:17
Alignment explanation
Indices: 50522020--50522054 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50522010 TTATTATTAA
*
50522020 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
50522038 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
50522055 TCTTAATAAT
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 (17 bp):
ATATAATTTAATAAAAT
Found at i:50522191 original size:16 final size:16
Alignment explanation
Indices: 50522154--50522195 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
50522144 TTAATCATAT
*
50522154 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
50522170 TT-AAATATATTATAA
1 TTAAAATATATTATAA
50522185 TTAAAATATAT
1 TTAAAATATAT
50522196 AATTTAATAN
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:50522192 original size:154 final size:156
Alignment explanation
Indices: 50521907--50522204 Score: 537
Period size: 154 Copynumber: 1.9 Consensus size: 156
50521897 TAGAATACCC
50521907 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
50521972 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
50522037 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* * *
50522064 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
50522127 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
50522192 ATATAATTTAATA
131 ATATAATTTAATA
50522205 NNNNNNNNNN
Statistics
Matches: 137, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 59 0.43
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGATAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:50522202 original size:14 final size:15
Alignment explanation
Indices: 50522163--50522204 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
50522153 TTTAAACATA
*
50522163 ATTATTATTAAATAT
1 ATTATAATTAAATAT
50522178 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
50522192 A-TATAATTTAATA
1 ATTATAATTAAATA
50522205 NNNNNNNNNN
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:50523408 original size:11 final size:11
Alignment explanation
Indices: 50523394--50523420 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
50523384 AAAAATCAAT
50523394 ACAAAAGTTTC
1 ACAAAAGTTTC
50523405 ACAAAAGTTTC
1 ACAAAAGTTTC
50523416 ACAAA
1 ACAAA
50523421 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:50525406 original size:76 final size:76
Alignment explanation
Indices: 50525318--50525474 Score: 314
Period size: 76 Copynumber: 2.1 Consensus size: 76
50525308 TGTTTTATTT
50525318 ATATTTTCAATTTAAATGTATAGTTTTATATTAATATTATATAATCAAAATGATTTTAATTATAT
1 ATATTTTCAATTTAAATGTATAGTTTTATATTAATATTATATAATCAAAATGATTTTAATTATAT
50525383 TTCAATTAAAA
66 TTCAATTAAAA
50525394 ATATTTTCAATTTAAATGTATAGTTTTATATTAATATTATATAATCAAAATGATTTTAATTATAT
1 ATATTTTCAATTTAAATGTATAGTTTTATATTAATATTATATAATCAAAATGATTTTAATTATAT
50525459 TTCAATTAAAA
66 TTCAATTAAAA
50525470 ATATT
1 ATATT
50525475 AAATAATAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 81 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (76 bp):
ATATTTTCAATTTAAATGTATAGTTTTATATTAATATTATATAATCAAAATGATTTTAATTATAT
TTCAATTAAAA
Found at i:50526981 original size:21 final size:21
Alignment explanation
Indices: 50526938--50526993 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
50526928 AAGCAGATGG
*
50526938 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAA-CAATTATAT
*
50526960 AGCCACTGCAAACAATTGTAT
1 AGCCACTGCAAACAATTATAT
50526981 AGCCACTGCAAAC
1 AGCCACTGCAAAC
50526994 GGGGGAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCACTGCAAACAATTATAT
Found at i:50528103 original size:33 final size:33
Alignment explanation
Indices: 50528061--50528196 Score: 167
Period size: 33 Copynumber: 4.3 Consensus size: 33
50528051 AAAAATGGCA
*
50528061 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
**
50528094 AGAGAAACAAAA-A----ACCA-CTACAGAAAAT
1 AGAGAAACAAAACATGGTA-CAGAAACAGAAAAT
*
50528122 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
* *
50528155 AAAGAAACAAAACACGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
50528188 AGAGAAACA
1 AGAGAAACA
50528197 TAAAGCAGAC
Statistics
Matches: 86, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
28 21 0.24
29 3 0.03
32 3 0.03
33 59 0.69
ACGTcount: A:0.61, C:0.14, G:0.18, T:0.07
Consensus pattern (33 bp):
AGAGAAACAAAACATGGTACAGAAACAGAAAAT
Found at i:50528180 original size:18 final size:17
Alignment explanation
Indices: 50528127--50528181 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
50528117 AAAATAGAGG
50528127 AACAAAACATGGTACAGA
1 AACAAAACA-GGTACAGA
*
50528145 AACAGAAA-A--TAAAGA
1 AACA-AAACAGGTACAGA
50528160 AACAAAACACGGTACAGA
1 AACAAAACA-GGTACAGA
50528178 AACA
1 AACA
50528182 GAAAATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
18 14 0.47
19 3 0.10
ACGTcount: A:0.62, C:0.16, G:0.15, T:0.07
Consensus pattern (17 bp):
AACAAAACAGGTACAGA
Found at i:50571879 original size:6 final size:6
Alignment explanation
Indices: 50571868--50571892 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50571858 GCTCTGCTCT
50571868 GCTTCA GCTTCA GCTTCA GCTTCA G
1 GCTTCA GCTTCA GCTTCA GCTTCA G
50571893 TTGCTGCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (6 bp):
GCTTCA
Found at i:50572317 original size:26 final size:26
Alignment explanation
Indices: 50572269--50572318 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
50572259 GGAAATTAAA
*
50572269 TTTTATATTTTTATAATAGTTTAAGT
1 TTTTATATTTTTATAATAATTTAAGT
*
50572295 TTTTATAATTTTTTTAA-AATTTAA
1 TTTTAT-ATTTTTATAATAATTTAA
50572319 ATTAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (26 bp):
TTTTATATTTTTATAATAATTTAAGT
Found at i:50581584 original size:19 final size:19
Alignment explanation
Indices: 50581562--50581626 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
50581552 AATATAAAAA
*
50581562 ATAAAAATCAATAAAAGTT
1 ATAAAAATCAATAAAAATT
* * * **
50581581 ATAAGAATGATTAAATTTT
1 ATAAAAATCAATAAAAATT
*
50581600 AATAAAAAAC-ATAAAAATT
1 -ATAAAAATCAATAAAAATT
50581619 ATAAAAAT
1 ATAAAAAT
50581627 TGTAAAAGAT
Statistics
Matches: 33, Mismatches: 12, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
18 7 0.21
19 20 0.61
20 6 0.18
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAAAAATCAATAAAAATT
Found at i:50581862 original size:9 final size:9
Alignment explanation
Indices: 50581848--50581932 Score: 64
Period size: 9 Copynumber: 8.9 Consensus size: 9
50581838 TGGTACTATA
50581848 AATTTTTAT
1 AATTTTTAT
50581857 AATTTTT-T
1 AATTTTTAT
*
50581865 AAGAATTTTAT
1 -A-ATTTTTAT
*
50581876 ATTTATTTAT
1 AATT-TTTAT
*
50581886 ATTTTTTAT
1 AATTTTTAT
50581895 AATTTTCTAT
1 AATTTT-TAT
*
50581905 ATATTTTATAA
1 A-ATTTT-TAT
*
50581916 AATTTTTCT
1 AATTTTTAT
50581925 AATTTTTA
1 AATTTTTA
50581933 ATAAATTTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
8 1 0.02
9 27 0.44
10 24 0.39
11 9 0.15
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:50581863 original size:10 final size:10
Alignment explanation
Indices: 50581844--50581983 Score: 62
Period size: 10 Copynumber: 14.2 Consensus size: 10
50581834 CTTTTGGTAC
*
50581844 TATAAATTTT
1 TATAATTTTT
50581854 TATAATTTTT
1 TATAATTTTT
*
50581864 TA-AGA-ATTT
1 TATA-ATTTTT
50581873 TAT-ATTTATT
1 TATAATTT-TT
50581883 TAT-ATTTTT
1 TATAATTTTT
*
50581892 TATAATTTTC
1 TATAATTTTT
*
50581902 TAT-ATATTT
1 TATAATTTTT
*
50581911 TATAAAATTTT
1 TAT-AATTTTT
*
50581922 TCTAATTTTT
1 TATAATTTTT
* *
50581932 AATAA-ATTT
1 TATAATTTTT
*
50581941 CA-AATATTTT
1 TATAAT-TTTT
*
50581951 TATTTAA-ATTT
1 TA--TAATTTTT
* *
50581962 AATATTTTTT
1 TATAATTTTT
50581972 TATAATTTTT
1 TATAATTTTT
50581982 TA
1 TA
50581984 CCACATGTCA
Statistics
Matches: 95, Mismatches: 22, Indels: 26
0.66 0.15 0.18
Matches are distributed among these distances:
8 3 0.03
9 25 0.26
10 55 0.58
11 10 0.11
13 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (10 bp):
TATAATTTTT
Found at i:50581909 original size:21 final size:20
Alignment explanation
Indices: 50581870--50581981 Score: 79
Period size: 19 Copynumber: 5.7 Consensus size: 20
50581860 TTTTTAAGAA
50581870 TTTTAT-ATTTATT-TATATT
1 TTTTATAATTT-TTATATATT
50581889 TTTTATAATTTTCTATATATT
1 TTTTATAATTTT-TATATATT
* * *
50581910 TTATAAAATTTTTCTA-ATT
1 TTTTATAATTTTTATATATT
* * * *
50581929 TTTAATAAATTTCAAATATT
1 TTTTATAATTTTTATATATT
* * *
50581949 TTTATTTAAATTTAATAT-TT
1 TTT-TATAATTTTTATATATT
50581969 TTTTATAATTTTT
1 TTTTATAATTTTT
50581982 TACCACATGT
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
19 26 0.37
20 19 0.27
21 26 0.37
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTATAATTTTTATATATT
Found at i:50581983 original size:21 final size:20
Alignment explanation
Indices: 50581850--50581983 Score: 75
Period size: 19 Copynumber: 6.8 Consensus size: 20
50581840 GTACTATAAA
*
50581850 TTTTTATAATTTTTTAAGA-
1 TTTTTATAATTTTTTAATAT
*
50581869 ATTTTAT-ATTTATTT-ATAT
1 TTTTTATAATTT-TTTAATAT
*
50581888 TTTTTATAATTTTCTATATAT
1 TTTTTATAATTTTTTA-ATAT
* *
50581909 TTTATAAAATTTTTCT-A-AT
1 TTTTTATAATTTTT-TAATAT
* * **
50581928 TTTTAATAAATTTCAAATAT
1 TTTTTATAATTTTTTAATAT
* *
50581948 TTTTATTTAA--ATTTAATATT
1 TTTT-TATAATTTTTTAATA-T
50581968 TTTTTATAATTTTTTA
1 TTTTTATAATTTTTTA
50581984 CCACATGTCA
Statistics
Matches: 83, Mismatches: 20, Indels: 22
0.66 0.16 0.18
Matches are distributed among these distances:
18 6 0.07
19 38 0.46
20 16 0.19
21 22 0.27
22 1 0.01
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTTTATAATTTTTTAATAT
Found at i:50582801 original size:13 final size:13
Alignment explanation
Indices: 50582783--50582814 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
50582773 TTTTCAAACC
50582783 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
50582796 AAAAAAAAAAAGA
1 AAAAAAAAAAAGA
50582809 AGAAAA
1 A-AAAA
50582815 CTCGAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGA
Found at i:50582804 original size:16 final size:16
Alignment explanation
Indices: 50582783--50582814 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50582773 TTTTCAAACC
50582783 AAAAAAAAAAAGAAAA
1 AAAAAAAAAAAGAAAA
*
50582799 AAAAAAAAGAAGAAAA
1 AAAAAAAAAAAGAAAA
50582815 CTCGAAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAGAAAA
Found at i:50593072 original size:20 final size:20
Alignment explanation
Indices: 50593021--50593060 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
50593011 TAATAAATTT
*
50593021 ATTT-TTAATCATTTAAAAA
1 ATTTATTAATTATTTAAAAA
50593040 ATTTATTAAATTATTTAAAAA
1 ATTTATT-AATTATTTAAAAA
50593061 TTTTCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 2 0.11
21 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTATTAATTATTTAAAAA
Found at i:50598164 original size:42 final size:42
Alignment explanation
Indices: 50598118--50598208 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
50598108 GGAAAATTAC
*
50598118 CTCTTCAGGCCTGTT-TGCATTTGAGCATTTTATCTTAACAGG
1 CTCTTCAGGCCTGTTAAG-ATTTGAGCATTTTATCTTAACAGG
* * *
50598160 CTCTTTATGTCTGTTAAGATTTGAGCATTTTATCTTAACAGG
1 CTCTTCAGGCCTGTTAAGATTTGAGCATTTTATCTTAACAGG
50598202 CTCTTCA
1 CTCTTCA
50598209 TGTTGAATGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 42 0.98
43 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (42 bp):
CTCTTCAGGCCTGTTAAGATTTGAGCATTTTATCTTAACAGG
Found at i:50600535 original size:40 final size:40
Alignment explanation
Indices: 50600499--50600577 Score: 124
Period size: 39 Copynumber: 2.0 Consensus size: 40
50600489 CACTAAAGAT
*
50600499 TGAGCATTAGTGGCGTTTTT-AAAAAAATGCCGCTAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
* *
50600538 TGAGCATTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
50600578 CCTTAGCCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 19 0.53
40 17 0.47
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
TGAGCATTAGCGGCGTTTTTCAAAAAAATGCCGCTAAAAA
Found at i:50600553 original size:39 final size:39
Alignment explanation
Indices: 50600424--50600577 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 39
50600414 AGTGGCACTT
** * *
50600424 TTAGCGGCGTTTGGACAAAAAACGCCGGTAAAAATTAAGCA
1 TTAGCGGCGTTTTTA-AAAAAACGCCGCTAAAAA-TGAGCA
* ** * * *
50600465 TTAGCGGCGCTTTCT-GGAAATCGCCACTAAAGATTGAGCA
1 TTAGCGGCG-TTTTTAAAAAAACGCCGCTAAA-AATGAGCA
* *
50600505 TTAGTGGCGTTTTTAAAAAAATGCCGCTAAAAATGAGCA
1 TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
*
50600544 TTAGCGGCGTTTTTCAAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTT-AAAAAAACGCCGCTAAAAA
50600578 CCTTAGCCCA
Statistics
Matches: 89, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
39 24 0.27
40 52 0.58
41 10 0.11
42 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (39 bp):
TTAGCGGCGTTTTTAAAAAAACGCCGCTAAAAATGAGCA
Found at i:50600678 original size:41 final size:40
Alignment explanation
Indices: 50600613--50600728 Score: 162
Period size: 41 Copynumber: 2.9 Consensus size: 40
50600603 AACATTTCGT
**
50600613 GGCTTTAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCCT-G
1 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATG-CTAG
*
50600653 GGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTAAG
1 GG-CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCT-AG
*
50600695 GGCTTTAGCGGCGTTTTTGGAAAAGCACCGCTAA
1 GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
50600729 AAACATTTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
40 3 0.04
41 63 0.91
42 3 0.04
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (40 bp):
GGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTAG
Found at i:50600971 original size:22 final size:22
Alignment explanation
Indices: 50600946--50601020 Score: 75
Period size: 21 Copynumber: 3.5 Consensus size: 22
50600936 GAGTTACTGT
50600946 TTTAAGGTTTATGGAGTATGGA
1 TTTAAGGTTTATGGAGTATGGA
* * *
50600968 TTTAAGGATTATGGATTAGGGA
1 TTTAAGGTTTATGGAGTATGGA
* *
50600990 -TTATGGTTTAAGG-GT-TGAGA
1 TTTAAGGTTTATGGAGTATG-GA
50601010 TTTAAGGTTTA
1 TTTAAGGTTTA
50601021 GGGGTTAGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 1 0.02
20 3 0.07
21 19 0.45
22 19 0.45
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTAAGGTTTATGGAGTATGGA
Found at i:50600992 original size:14 final size:15
Alignment explanation
Indices: 50600962--50601002 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
50600952 GTTTATGGAG
50600962 TATGGATTTAAGGAT
1 TATGGATTTAAGGAT
*
50600977 TATGGA-TTAGGGAT
1 TATGGATTTAAGGAT
50600991 TATGG-TTTAAGG
1 TATGGATTTAAGG
50601003 GTTGAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
TATGGATTTAAGGAT
Found at i:50601041 original size:22 final size:22
Alignment explanation
Indices: 50601015--50601077 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
50601005 TGAGATTTAA
*
50601015 GGTTTAGGGGTT-AGTGGTTAGG
1 GGTTTAGGGGTTAAG-AGTTAGG
50601037 GGTTTAGGGGTTAAGAGTTAGG
1 GGTTTAGGGGTTAAGAGTTAGG
* * *
50601059 GATTTAGGGTTTATGAGTT
1 GGTTTAGGGGTTAAGAGTT
50601078 CATGGGTCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.43, T:0.38
Consensus pattern (22 bp):
GGTTTAGGGGTTAAGAGTTAGG
Found at i:50601129 original size:12 final size:12
Alignment explanation
Indices: 50601108--50601150 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
50601098 TGGGTTTAGA
50601108 TTAA-TTATTTT
1 TTAATTTATTTT
50601119 TTAATTTATTTT
1 TTAATTTATTTT
* *
50601131 TAAATAT-TTTT
1 TTAATTTATTTT
50601142 TTAATTTAT
1 TTAATTTAT
50601151 ATATTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 13 0.50
12 13 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTAATTTATTTT
Found at i:50601145 original size:23 final size:24
Alignment explanation
Indices: 50601107--50601160 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
50601097 TTGGGTTTAG
*
50601107 ATTAATTA-TTTTTTAATTTAT-T
1 ATTAAATATTTTTTTAATTTATAT
*
50601129 TTTAAATATTTTTTTAATTTATAT
1 ATTAAATATTTTTTTAATTTATAT
50601153 ATTAAATA
1 ATTAAATA
50601161 ATTTCATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTAAATATTTTTTTAATTTATAT
Found at i:50601382 original size:21 final size:21
Alignment explanation
Indices: 50601358--50601398 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
50601348 GATTTAAGGT
50601358 TTAGGGATTAAGAGTTAGGGG
1 TTAGGGATTAAGAGTTAGGGG
*
50601379 TTAGGGGTTAAGAGTTAGGG
1 TTAGGGATTAAGAGTTAGGG
50601399 ATTTAGGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.44, T:0.29
Consensus pattern (21 bp):
TTAGGGATTAAGAGTTAGGGG
Found at i:50601407 original size:21 final size:20
Alignment explanation
Indices: 50601355--50601408 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 20
50601345 TAGGATTTAA
50601355 GGTTTAGGGATTAAGAGTTAG
1 GGTTTAGGG-TTAAGAGTTAG
*
50601376 GGGTTAGGGGTTAAGAGTTAG
1 GGTTTA-GGGTTAAGAGTTAG
50601397 GGATTTAGGGTT
1 GG-TTTAGGGTT
50601409 TCAAGGGTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 23 0.79
22 6 0.21
ACGTcount: A:0.24, C:0.00, G:0.43, T:0.33
Consensus pattern (20 bp):
GGTTTAGGGTTAAGAGTTAG
Found at i:50606000 original size:43 final size:42
Alignment explanation
Indices: 50605953--50606155 Score: 221
Period size: 43 Copynumber: 4.8 Consensus size: 42
50605943 ATGGCACTTT
* *
50605953 TAGCGGCGTTTGTGAAAAAAACGTCGCTAAAAGTCATGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGTC-TGATCTA
*
50605996 TAGCGGCGTTTAT-AAAAAAAGCGCCGCTAAAGGTCTTGATCTA
1 TAGCGGCGTTTGTGAAAAAAA-CGCCGCTAAAGGTC-TGATCTA
* **
50606039 TAGCGGCGTTTGTG-TAAAAGTGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGT-CTGATCTA
** ** *
50606081 TAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGGTTCTGATCTA
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGG-TCTGATCTA
** *
50606124 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAG
50606156 TTAGCGACGC
Statistics
Matches: 143, Mismatches: 12, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
42 40 0.28
43 102 0.71
44 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (42 bp):
TAGCGGCGTTTGTGAAAAAAACGCCGCTAAAGGTCTGATCTA
Found at i:50606078 original size:85 final size:85
Alignment explanation
Indices: 50605953--50606155 Score: 255
Period size: 85 Copynumber: 2.4 Consensus size: 85
50605943 ATGGCACTTT
* * *
50605953 TAGCGGCGTTTGTGAAAAAAACGTCGCTAAAAGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
1 TAGCGGCGTTTGTG-AAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATAAAAAAAGC
50606018 GCCGCTAAAGG-TCTTGATCTA
65 GCCGCTAAAGGTTC-TGATCTA
* * * * *** *
50606039 TAGCGGCGTTTGTGTAAAAGTGCCGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGTG
1 TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATAAAAAAAGCG
*
50606104 TCGCTAAAGGTTCTGATCTA
66 CCGCTAAAGGTTCTGATCTA
*
50606124 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAG
50606156 TTAGCGACGC
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
85 69 0.68
86 32 0.32
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (85 bp):
TAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGATCTATAGCGGCGTTTATAAAAAAAGCG
CCGCTAAAGGTTCTGATCTA
Found at i:50606260 original size:22 final size:21
Alignment explanation
Indices: 50606225--50606269 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
50606215 TTCAGCGGCG
*
50606225 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
*
50606246 CTAAAACAGCGCCGCTAAAAGC
1 CTAAAA-AACGCCGCTAAAAGC
50606268 CT
1 CT
50606270 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.40, C:0.31, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:50615279 original size:16 final size:15
Alignment explanation
Indices: 50615258--50615299 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
50615248 TTATTAATTT
50615258 TTTTAATAAATTTACA
1 TTTTAATAAATTTA-A
*
50615274 TTTTAAT-AACTTAA
1 TTTTAATAAATTTAA
*
50615288 TTTTAAAAAATT
1 TTTTAATAAATT
50615300 ATAAATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 8 0.36
16 7 0.32
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTAATAAATTTAA
Found at i:50630717 original size:214 final size:215
Alignment explanation
Indices: 50630298--50630729 Score: 742
Period size: 214 Copynumber: 2.0 Consensus size: 215
50630288 TGTTCGTTAT
*
50630298 ATGGTTAGATACATCGTCATGCAGTAACAACAACCATAAATTGATTGCTCTTTTTTTTTTTCCCT
1 ATGGTTAGATACATCGTCATGCAGTAACAACAACCATAAATTGATTGCTC-TTCTTTTTTTCCCT
* * *
50630363 CTTTTCTTTTTAAATTTGTCCCGCTATAAATATTGTAGAATCCAAGAAGAATAGAACATCTTCAA
65 CTTCTCTTTTTAAATTTGTCCAGCTATAAATATTGTAGAATACAAGAAGAATAGAACATCTTCAA
50630428 GTGCTATGGAAAAAGATTATACCAAAGGAAAACATAACTAGAACTAGAAGCCCTCAAAAGAACTA
130 GTGCTATGGAAAAAGATTATACCAAAGGAAAACATAACTAGAACTAGAAGCCCTCAAAAGAACTA
50630493 TGAGATTTAGAATTCAACAAA
195 TGAGATTTAGAATTCAACAAA
* *
50630514 ATGGTTAGATACATCGTCATGCGGTAACAACAACCATAGATTGATTGCTC-TCTTTTTTT-CCTC
1 ATGGTTAGATACATCGTCATGCAGTAACAACAACCATAAATTGATTGCTCTTCTTTTTTTCCCTC
* *
50630577 TTCTCTTTTTAAGTTTGTCCAGCTATAAATATTGTAGAATACAAGAAGAATCGAACATCTTCAAG
66 TTCTCTTTTTAAATTTGTCCAGCTATAAATATTGTAGAATACAAGAAGAATAGAACATCTTCAAG
* *
50630642 TGCTATGGAAGAAGCTATATACCAAAGGAAAACATAACTAGAACTAGAAGCCCTCAAAAGAACTA
131 TGCTATGGAAAAAGAT-TATACCAAAGGAAAACATAACTAGAACTAGAAGCCCTCAAAAGAACTA
50630707 TGAGATTTAGAATTCAACAAA
195 TGAGATTTAGAATTCAACAAA
50630728 AT
1 AT
50630730 CCTAACAATT
Statistics
Matches: 205, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
213 78 0.38
214 79 0.39
216 48 0.23
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (215 bp):
ATGGTTAGATACATCGTCATGCAGTAACAACAACCATAAATTGATTGCTCTTCTTTTTTTCCCTC
TTCTCTTTTTAAATTTGTCCAGCTATAAATATTGTAGAATACAAGAAGAATAGAACATCTTCAAG
TGCTATGGAAAAAGATTATACCAAAGGAAAACATAACTAGAACTAGAAGCCCTCAAAAGAACTAT
GAGATTTAGAATTCAACAAA
Found at i:50632238 original size:26 final size:28
Alignment explanation
Indices: 50632181--50632261 Score: 94
Period size: 26 Copynumber: 2.9 Consensus size: 28
50632171 TGTTTGATTC
* *
50632181 AAATATTAAATTAAATATTAAATTCAAGTTT
1 AAATATTAAATTGAATATTAAAAT--A-TTT
*
50632212 AATTATTAAATT-AATA-TAAAATATTT
1 AAATATTAAATTGAATATTAAAATATTT
50632238 AAATATTAAATTGAATATTAAAAT
1 AAATATTAAATTGAATATTAAAAT
50632262 CAAATATAGA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
26 14 0.31
27 5 0.11
28 6 0.13
29 5 0.11
30 4 0.09
31 11 0.24
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.42
Consensus pattern (28 bp):
AAATATTAAATTGAATATTAAAATATTT
Found at i:50632258 original size:19 final size:19
Alignment explanation
Indices: 50632181--50632279 Score: 71
Period size: 19 Copynumber: 5.2 Consensus size: 19
50632171 TGTTTGATTC
50632181 AAATATTAAATTAAATATT
1 AAATATTAAATTAAATATT
* * *
50632200 AAAT-TCAAGTTTAATTATT
1 AAATATTAA-ATTAAATATT
*
50632219 -AA-ATTAATATAAAATATTT
1 AAATATTAA-ATTAAATA-TT
*
50632238 AAATATTAAATTGAATATT
1 AAATATTAAATTAAATATT
* *
50632257 AAA-ATCAAATATAGATATT
1 AAATATTAAAT-TAAATATT
50632276 AAAT
1 AAAT
50632280 GATCTCTTTA
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
18 19 0.32
19 28 0.47
20 8 0.13
21 5 0.08
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (19 bp):
AAATATTAAATTAAATATT
Found at i:50638721 original size:23 final size:23
Alignment explanation
Indices: 50638673--50638721 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
50638663 GGGTTCAAAA
* * *
50638673 TTTGAGTAATATTTTTCTTTTTT
1 TTTGAGTAATATTGTTCGTTTCT
50638696 TTTGAGTAAT-TGTGTTCGTTTCT
1 TTTGAGTAATAT-TGTTCGTTTCT
50638719 TTT
1 TTT
50638722 ATATTGATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.14, C:0.06, G:0.14, T:0.65
Consensus pattern (23 bp):
TTTGAGTAATATTGTTCGTTTCT
Done.