Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 105 of 167
Found at i:34971697 original size:82 final size:81
Alignment explanation
Indices: 34971557--34971712 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
34971547 AAATTGTACA
* * * *
34971557 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
34971622 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
34971638 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
34971701 TGTGCGAGTTGA
63 TGTGCGAATTGA
34971713 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:34975262 original size:339 final size:339
Alignment explanation
Indices: 34974642--34975319 Score: 1356
Period size: 339 Copynumber: 2.0 Consensus size: 339
34974632 GGAAAAGAAA
34974642 ATTTGGACTATGGCTAAATGGAATCATTTATAATTGTTTAATTAATGCACTTGGTAAGTTTAAGT
1 ATTTGGACTATGGCTAAATGGAATCATTTATAATTGTTTAATTAATGCACTTGGTAAGTTTAAGT
34974707 TCTGTTATACGAACTTACTAAGCATTAGTTGCTTATCTCGTTGATTTCCCTATTTCTGTAGGTCA
66 TCTGTTATACGAACTTACTAAGCATTAGTTGCTTATCTCGTTGATTTCCCTATTTCTGTAGGTCA
34974772 TCAAAAAGCTCGATCGATTGGAAATTTCGTCAGAGCATGATCACTTTATCTAATGATCCATATTG
131 TCAAAAAGCTCGATCGATTGGAAATTTCGTCAGAGCATGATCACTTTATCTAATGATCCATATTG
34974837 GTAAATTTTGGTTATTTTGGAAAATGGTTATACATGGCATATAATAGGGTTATAAGGGTAGTCTT
196 GTAAATTTTGGTTATTTTGGAAAATGGTTATACATGGCATATAATAGGGTTATAAGGGTAGTCTT
34974902 GGTAATTGGTTTGTTTTTAAATGGTGCCAAGTTTATTTATTTTCATATCTTTCGATGAAGGCTTA
261 GGTAATTGGTTTGTTTTTAAATGGTGCCAAGTTTATTTATTTTCATATCTTTCGATGAAGGCTTA
34974967 TAAATTATATGTAT
326 TAAATTATATGTAT
34974981 ATTTGGACTATGGCTAAATGGAATCATTTATAATTGTTTAATTAATGCACTTGGTAAGTTTAAGT
1 ATTTGGACTATGGCTAAATGGAATCATTTATAATTGTTTAATTAATGCACTTGGTAAGTTTAAGT
34975046 TCTGTTATACGAACTTACTAAGCATTAGTTGCTTATCTCGTTGATTTCCCTATTTCTGTAGGTCA
66 TCTGTTATACGAACTTACTAAGCATTAGTTGCTTATCTCGTTGATTTCCCTATTTCTGTAGGTCA
34975111 TCAAAAAGCTCGATCGATTGGAAATTTCGTCAGAGCATGATCACTTTATCTAATGATCCATATTG
131 TCAAAAAGCTCGATCGATTGGAAATTTCGTCAGAGCATGATCACTTTATCTAATGATCCATATTG
34975176 GTAAATTTTGGTTATTTTGGAAAATGGTTATACATGGCATATAATAGGGTTATAAGGGTAGTCTT
196 GTAAATTTTGGTTATTTTGGAAAATGGTTATACATGGCATATAATAGGGTTATAAGGGTAGTCTT
34975241 GGTAATTGGTTTGTTTTTAAATGGTGCCAAGTTTATTTATTTTCATATCTTTCGATGAAGGCTTA
261 GGTAATTGGTTTGTTTTTAAATGGTGCCAAGTTTATTTATTTTCATATCTTTCGATGAAGGCTTA
34975306 TAAATTATATGTAT
326 TAAATTATATGTAT
34975320 TCATATGAGA
Statistics
Matches: 339, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
339 339 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.41
Consensus pattern (339 bp):
ATTTGGACTATGGCTAAATGGAATCATTTATAATTGTTTAATTAATGCACTTGGTAAGTTTAAGT
TCTGTTATACGAACTTACTAAGCATTAGTTGCTTATCTCGTTGATTTCCCTATTTCTGTAGGTCA
TCAAAAAGCTCGATCGATTGGAAATTTCGTCAGAGCATGATCACTTTATCTAATGATCCATATTG
GTAAATTTTGGTTATTTTGGAAAATGGTTATACATGGCATATAATAGGGTTATAAGGGTAGTCTT
GGTAATTGGTTTGTTTTTAAATGGTGCCAAGTTTATTTATTTTCATATCTTTCGATGAAGGCTTA
TAAATTATATGTAT
Found at i:34979648 original size:86 final size:86
Alignment explanation
Indices: 34979503--34979665 Score: 254
Period size: 86 Copynumber: 1.9 Consensus size: 86
34979493 AGTGACGTTG
* ** *
34979503 ATACACACCTTGAAGTCTTCATTAATTTCTCATAAGTTCATTTTTATCCCCACACACCAACATAT
1 ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
*
34979568 TGTACATATTAATCATTAAAA
66 TATACATATTAATCATTAAAA
* * *
34979589 ATACACACCTTGAAGCCTTCGTTTATTTCTCATAAGTTCATTGCTATCCCTACACACCAACATAC
1 ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
34979654 TATACATATTAA
66 TATACATATTAA
34979666 GCATAGCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 69 1.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (86 bp):
ATACACACCTTGAAGCCTTCATTAATTTCTCATAAGTTCATTGCTATCCCCACACACCAACATAC
TATACATATTAATCATTAAAA
Found at i:34980465 original size:3 final size:3
Alignment explanation
Indices: 34980457--34980485 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
34980447 TCATATTCTA
34980457 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
34980486 ACCAACACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34980987 original size:23 final size:24
Alignment explanation
Indices: 34980968--34981021 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
34980958 TAAAATTTTT
*
34980968 TAAAAATTGCAAATG-AAATTATA
1 TAAAAATTACAAATGCAAATTATA
* *
34980991 TATAAATTACAAATGCAAATATACA
1 TAAAAATTACAAATGCAAAT-TATA
34981016 TAAAAA
1 TAAAAA
34981022 CATATACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 13 0.52
24 4 0.16
25 8 0.32
ACGTcount: A:0.59, C:0.07, G:0.06, T:0.28
Consensus pattern (24 bp):
TAAAAATTACAAATGCAAATTATA
Found at i:34981091 original size:13 final size:13
Alignment explanation
Indices: 34981073--34981107 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
34981063 AATAATGTTC
34981073 AATAAAAATAATA
1 AATAAAAATAATA
*
34981086 AAT-AAAATTATA
1 AATAAAAATAATA
34981098 AATAAAAATA
1 AATAAAAATA
34981108 TCTACCAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAAAAATAATA
Found at i:34981158 original size:12 final size:12
Alignment explanation
Indices: 34981127--34981182 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
34981117 CTATAAGTGA
*
34981127 AAAAATATACTT
1 AAAAATATACAT
**
34981139 AATTATATACAT
1 AAAAATATACAT
*
34981151 AAAAATATCCAT
1 AAAAATATACAT
*
34981163 AAAAATTGTACAT
1 AAAAA-TATACAT
34981176 AAAAATA
1 AAAAATA
34981183 CATATGACAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
12 24 0.71
13 10 0.29
ACGTcount: A:0.59, C:0.09, G:0.02, T:0.30
Consensus pattern (12 bp):
AAAAATATACAT
Found at i:34981266 original size:19 final size:20
Alignment explanation
Indices: 34981242--34981279 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
34981232 ACGGGTTATG
*
34981242 CATAAATATATACA-AAAAC
1 CATAAAAATATACATAAAAC
34981261 CATAAAAATATACATAAAA
1 CATAAAAATATACATAAAA
34981280 TAGTATTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.66, C:0.13, G:0.00, T:0.21
Consensus pattern (20 bp):
CATAAAAATATACATAAAAC
Found at i:34982039 original size:21 final size:21
Alignment explanation
Indices: 34981999--34982048 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
34981989 AGCAAAAAAC
* *
34981999 CTCTAAAATTTCTCCCTAAAG
1 CTCTCAAATTTCTCACTAAAG
* *
34982020 CTCTCAAATTTCTCATTAAAT
1 CTCTCAAATTTCTCACTAAAG
*
34982041 TTCTCAAA
1 CTCTCAAA
34982049 GCTCTTTTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (21 bp):
CTCTCAAATTTCTCACTAAAG
Found at i:34982321 original size:54 final size:54
Alignment explanation
Indices: 34982212--34982314 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
34982202 TTAATTTTAA
*
34982212 TTTGAATACTATTTAATATTTTTTTCATTTATGTAATTTTAATTAATTTCAATT
1 TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTTCAATT
*
34982266 TTTGAATAGTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTT
1 TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTT
34982315 GTATTTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (54 bp):
TTTGAATACTATTTAATATTTTTTCCATTTATGTAATTTTAATTAATTTCAATT
Found at i:34983896 original size:18 final size:18
Alignment explanation
Indices: 34983854--34983888 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34983844 TGCCAGGTGT
*
34983854 GTATCCTAGCCCTTATAG
1 GTATCCTAACCCTTATAG
34983872 GTATCCTAACCCTTATA
1 GTATCCTAACCCTTATA
34983889 TGTTTCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (18 bp):
GTATCCTAACCCTTATAG
Found at i:34986296 original size:14 final size:15
Alignment explanation
Indices: 34986260--34986296 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
34986250 TTTCTTTTAT
*
34986260 TTATTATAACTATTA
1 TTATTATATCTATTA
34986275 -TATTATATC-ATTA
1 TTATTATATCTATTA
34986288 TTATTATAT
1 TTATTATAT
34986297 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:34986313 original size:21 final size:21
Alignment explanation
Indices: 34986262--34986324 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
34986252 TCTTTTATTT
* *
34986262 ATTATAACTATTATA--TTAT
1 ATTATAATTATTATATTTTAA
* *
34986281 ATCATTATTATTATATTTTAA
1 ATTATAATTATTATATTTTAA
34986302 ATTATAATTATTAT-TTCTTAA
1 ATTATAATTATTATATT-TTAA
34986323 AT
1 AT
34986325 ATTAAGTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
19 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTATAATTATTATATTTTAA
Found at i:34992894 original size:26 final size:26
Alignment explanation
Indices: 34992865--34992920 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
34992855 TGATACAAAT
34992865 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34992891 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34992917 TGAT
1 TGAT
34992921 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34994809 original size:27 final size:27
Alignment explanation
Indices: 34994542--34994791 Score: 423
Period size: 27 Copynumber: 9.2 Consensus size: 27
34994532 AGGAAGCGTC
*
34994542 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCACAAA-TATCTGAT
34994570 CTGGTGGCTCTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
34994597 CTGGTGGCTCTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
34994624 CTGGTGGCTCTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
34994651 CTGGTGGCTCTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
34994678 CTGGTGGCTTTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
34994705 CTGGTGGCTTTGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
*
34994732 CTGGTGGCTCTGCCACATATATCT-ATT
1 CTGGTGGCTCTGCCACAAATATCTGA-T
34994759 CTGGTGGCTCTGCCAC-AATATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
34994786 CTGGTG
1 CTGGTG
34994792 ACTTCGTCAC
Statistics
Matches: 214, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
26 7 0.03
27 188 0.88
28 19 0.09
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:34996854 original size:10 final size:10
Alignment explanation
Indices: 34996839--34996873 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
34996829 AAAACCCTAT
34996839 TTTTTCTTTC
1 TTTTTCTTTC
34996849 TTTTTCTTTCCC
1 TTTTTCTTT--C
34996861 TTTTTCTTTC
1 TTTTTCTTTC
34996871 TTT
1 TTT
34996874 CTTTCCCTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:34996864 original size:22 final size:20
Alignment explanation
Indices: 34996839--34996886 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 20
34996829 AAAACCCTAT
34996839 TTTTTCTTTCTTTTTCTTTCCC
1 TTTTTCTTTC--TTTCTTTCCC
34996861 TTTTTCTTTCTTTCTTTCCC
1 TTTTTCTTTCTTTCTTTCCC
34996881 TGTTTT
1 T-TTTT
34996887 GTACGTGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.44
21 4 0.16
22 10 0.40
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTCTTTCTTTCTTTCCC
Found at i:34997426 original size:21 final size:21
Alignment explanation
Indices: 34997353--34997428 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 21
34997343 AACACTCACA
* *
34997353 ATCGGAGCACCCACAACCCCT
1 ATCGGAGCAACCACAACCCCC
** *
34997374 GCCGGAGCAACCACAATCCCC
1 ATCGGAGCAACCACAACCCCC
* * *
34997395 GTTGGATCAACCACAACCCCC
1 ATCGGAGCAACCACAACCCCC
34997416 ATCGGAGCAACCA
1 ATCGGAGCAACCA
34997429 ATAAGGAATC
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.30, C:0.43, G:0.17, T:0.09
Consensus pattern (21 bp):
ATCGGAGCAACCACAACCCCC
Found at i:35001983 original size:26 final size:25
Alignment explanation
Indices: 35001946--35002004 Score: 59
Period size: 27 Copynumber: 2.3 Consensus size: 25
35001936 AAAGACTTTC
* *
35001946 ATTTCATT-TTTG-GTTTTCTTTTTT
1 ATTTTATTGTTTGAGTTTT-TTTTTA
35001970 ATTTATATTGTTTGAAGTTTTTTTTTA
1 ATTT-TATTGTTTG-AGTTTTTTTTTA
35001997 ATTTTATT
1 ATTTTATT
35002005 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 4 0.14
25 3 0.10
26 8 0.28
27 9 0.31
28 5 0.17
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.71
Consensus pattern (25 bp):
ATTTTATTGTTTGAGTTTTTTTTTA
Found at i:35009653 original size:51 final size:51
Alignment explanation
Indices: 35009574--35009675 Score: 177
Period size: 51 Copynumber: 2.0 Consensus size: 51
35009564 TCTCGAAACC
*
35009574 TTAAATGTCTCAAATTAAAGAATCCGTGAGCTGTTTATAATATTTGTATCT
1 TTAAATGTCTCAAATTAAAGAATCCGTGAACTGTTTATAATATTTGTATCT
* *
35009625 TTAAATGTCTCAAATTAAAGAGTTCGTGAACTGTTTATAATATTTGTATCT
1 TTAAATGTCTCAAATTAAAGAATCCGTGAACTGTTTATAATATTTGTATCT
35009676 GGCACCATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (51 bp):
TTAAATGTCTCAAATTAAAGAATCCGTGAACTGTTTATAATATTTGTATCT
Found at i:35009916 original size:16 final size:16
Alignment explanation
Indices: 35009892--35009925 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
35009882 ATTAAGTAAA
*
35009892 AATATATAAATTTTAT
1 AATAAATAAATTTTAT
35009908 AATAAATAAATTTTAT
1 AATAAATAAATTTTAT
35009924 AA
1 AA
35009926 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAAATAAATTTTAT
Found at i:35011257 original size:11 final size:11
Alignment explanation
Indices: 35011241--35011272 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
35011231 AAGTATGGGT
35011241 AGGTATGGGAA
1 AGGTATGGGAA
*
35011252 AGGTATGGGCA
1 AGGTATGGGAA
35011263 AGGTATGGGA
1 AGGTATGGGA
35011273 TATATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:35013993 original size:18 final size:18
Alignment explanation
Indices: 35013966--35014130 Score: 249
Period size: 18 Copynumber: 9.2 Consensus size: 18
35013956 CCCAACTACT
*
35013966 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
35013984 GTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
35014002 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
35014020 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
35014038 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
35014056 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
35014074 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
35014092 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
35014110 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
35014128 GTA
1 GTA
35014131 AACGGTCGTA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 130 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:35014018 original size:36 final size:36
Alignment explanation
Indices: 35013966--35014126 Score: 295
Period size: 36 Copynumber: 4.5 Consensus size: 36
35013956 CCCAACTACT
* * *
35013966 GTATACGTGAACAGTACCGTATATGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
35014002 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
35014038 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
35014074 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
35014110 GTATACGTGAATAGTAC
1 GTATACGTGAATAGTAC
35014127 CGTAAACGGT
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 122 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
Found at i:35014692 original size:11 final size:11
Alignment explanation
Indices: 35014676--35014706 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
35014666 AAGTATGGGT
35014676 AGGTATGGGAA
1 AGGTATGGGAA
*
35014687 AGGTATGGGCA
1 AGGTATGGGAA
35014698 AGGTATGGG
1 AGGTATGGG
35014707 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:35019367 original size:19 final size:19
Alignment explanation
Indices: 35019318--35019364 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
35019308 GTTAAAAAAA
35019318 TATACTTTTTAAAATTAATT
1 TATA-TTTTTAAAATTAATT
*
35019338 TATATTTTTAAAA-TACTT
1 TATATTTTTAAAATTAATT
*
35019356 TTTATTTTT
1 TATATTTTT
35019365 TAATTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.48
19 9 0.36
20 4 0.16
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TATATTTTTAAAATTAATT
Found at i:35022916 original size:50 final size:50
Alignment explanation
Indices: 35022845--35023029 Score: 361
Period size: 50 Copynumber: 3.7 Consensus size: 50
35022835 ACATGCCAAA
35022845 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
35022895 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
35022945 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
*
35022995 GCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
35023030 TTACCCAAAT
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 134 1.00
ACGTcount: A:0.17, C:0.33, G:0.24, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCCCAT
Found at i:35023145 original size:13 final size:13
Alignment explanation
Indices: 35023124--35023155 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
35023114 GCTTGGATCA
*
35023124 TCATCAAATAAAT
1 TCATAAAATAAAT
35023137 TCATAAAATAAAT
1 TCATAAAATAAAT
35023150 TCATAA
1 TCATAA
35023156 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:35023403 original size:30 final size:30
Alignment explanation
Indices: 35023367--35023424 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
35023357 CCTCGACTCT
*
35023367 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
35023397 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
35023425 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:35025636 original size:4 final size:4
Alignment explanation
Indices: 35025629--35025706 Score: 52
Period size: 4 Copynumber: 19.5 Consensus size: 4
35025619 CTTTTGTTTG
* * * * *
35025629 TTTA TTTA TTTA TTCA TCTA TTTA TTTG TTTA TATA TATA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * *
35025676 -TTC TTTA GTTTTA TTTA TTCA TTCA TTTA TT
1 TTTA TTTA --TTTA TTTA TTTA TTTA TTTA TT
35025707 AGTAAATATT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
3 5 0.08
4 50 0.85
6 4 0.07
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:35025654 original size:20 final size:20
Alignment explanation
Indices: 35025629--35025674 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
35025619 CTTTTGTTTG
*
35025629 TTTATTTATTTAT-TCATCTA
1 TTTATTTATTTATAT-ATATA
*
35025649 TTTATTTGTTTATATATATA
1 TTTATTTATTTATATATATA
35025669 TTTATT
1 TTTATT
35025675 ATTCTTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATTTATTTATATATATA
Found at i:35025895 original size:21 final size:21
Alignment explanation
Indices: 35025862--35025913 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
35025852 CATTAATTAC
35025862 TCATT-TTATTTATCA-TCATCA
1 TCATTATTA-TTATCACT-ATCA
* *
35025883 TCATTATTATTATTACTATTA
1 TCATTATTATTATCACTATCA
35025904 TCATTATTAT
1 TCATTATTAT
35025914 ACTATTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.31, C:0.13, G:0.00, T:0.56
Consensus pattern (21 bp):
TCATTATTATTATCACTATCA
Found at i:35026534 original size:27 final size:28
Alignment explanation
Indices: 35026504--35026562 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
35026494 GTATTATTTT
35026504 AATTT-ATTTAACATATTA-TTTATTTAA
1 AATTTGATTT-ACATATTACTTTATTTAA
* * *
35026531 AATTTGCTTTATATATTACTTTATTTCA
1 AATTTGATTTACATATTACTTTATTTAA
35026559 AATT
1 AATT
35026563 GTTTATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (28 bp):
AATTTGATTTACATATTACTTTATTTAA
Found at i:35026569 original size:24 final size:26
Alignment explanation
Indices: 35026516--35026579 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 26
35026506 TTTATTTAAC
35026516 ATATTATTTATTTAAAATTTGCTTTAT
1 ATATTATTTATTTAAAATTTGC-TTAT
* *
35026543 ATATTACTTTATTTCAAA-TTGTTTAT
1 ATATTA-TTTATTTAAAATTTGCTTAT
*
35026569 ATTTTATTTAT
1 ATATTATTTAT
35026580 GTTGAATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 9 0.27
27 9 0.27
28 10 0.30
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (26 bp):
ATATTATTTATTTAAAATTTGCTTAT
Found at i:35029135 original size:54 final size:54
Alignment explanation
Indices: 35029053--35029156 Score: 208
Period size: 54 Copynumber: 1.9 Consensus size: 54
35029043 ATTATATTCT
35029053 ATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACA
1 ATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACA
35029107 ATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGGACTGGTAATCCC
1 ATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGGACTGGTAATCCC
35029157 ACTGTAAGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (54 bp):
ATACTCTATGAGTTTATATTACAGGGGATTTAGCCTGGACTGGTAATCCCGACA
Found at i:35029241 original size:46 final size:46
Alignment explanation
Indices: 35029189--35029510 Score: 423
Period size: 46 Copynumber: 7.0 Consensus size: 46
35029179 GAGTGTGCTC
* *
35029189 CCTGATA-GAAAATGTGTAAGAGCATGGTTGAAAGATACCATGGCAA
1 CCTGATATG-AAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
35029235 CCTGATATGAAACGTGTAAGATCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
35029281 CCTGATATGAAACGTGTAAGATCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
35029327 CCTGATATGAAACGTGTAAGATCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
35029373 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* *** * ** *
35029419 CGTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAA
1 CCTGA-TATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * * * *
35029466 CATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGATATG-AAACGTGTAAGACCATGGTTGAAAGATACCATGGCA
35029511 TCATGTCGAA
Statistics
Matches: 254, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 214 0.84
47 39 0.15
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:35031444 original size:30 final size:31
Alignment explanation
Indices: 35031400--35031458 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
35031390 CAATTCATAT
* *
35031400 ATATCTCATGTCACATAGCATGTTTCATTCC
1 ATATCTCATATCACATAGCATGTATCATTCC
*
35031431 ATAT-TCATATCACATATCATGTATCATT
1 ATATCTCATATCACATAGCATGTATCATT
35031459 TATATCACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.31, C:0.22, G:0.07, T:0.41
Consensus pattern (31 bp):
ATATCTCATATCACATAGCATGTATCATTCC
Found at i:35034063 original size:19 final size:18
Alignment explanation
Indices: 35034021--35034063 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
35034011 TATTTAATGG
*
35034021 TTATATTTAAATATATTT
1 TTATATTTAAATAAATTT
*
35034039 TATATATTCTAATTAAATTT
1 T-TATATT-TAAATAAATTT
35034059 TTATA
1 TTATA
35034064 AATAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTTAAATAAATTT
Found at i:35034106 original size:30 final size:30
Alignment explanation
Indices: 35034067--35034123 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
35034057 TTTTATAAAT
35034067 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
35034097 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
35034124 AATAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:35035670 original size:35 final size:35
Alignment explanation
Indices: 35035624--35035690 Score: 134
Period size: 35 Copynumber: 1.9 Consensus size: 35
35035614 TAAGCTTTTT
35035624 CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
1 CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
35035659 CGGTTACTTGTGCATTAGATCAGAATGGATCT
1 CGGTTACTTGTGCATTAGATCAGAATGGATCT
35035691 CTCATGGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (35 bp):
CGGTTACTTGTGCATTAGATCAGAATGGATCTTTC
Found at i:35037794 original size:25 final size:25
Alignment explanation
Indices: 35037764--35037813 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
35037754 TTGTGGAAGT
35037764 GACAGAAATTCAGTGAACTTATGGA
1 GACAGAAATTCAGTGAACTTATGGA
35037789 GACAGAAATTCAGTGAACTTATGGA
1 GACAGAAATTCAGTGAACTTATGGA
35037814 AAAAAGTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (25 bp):
GACAGAAATTCAGTGAACTTATGGA
Found at i:35040616 original size:18 final size:19
Alignment explanation
Indices: 35040593--35040628 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
35040583 TCCATGTTGC
35040593 AAAATAAACG-AGAAAAAA
1 AAAATAAACGAAGAAAAAA
*
35040611 AAAATAAAGGAAGAAAAA
1 AAAATAAACGAAGAAAAA
35040629 GAAGAGGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.06
Consensus pattern (19 bp):
AAAATAAACGAAGAAAAAA
Found at i:35043135 original size:59 final size:59
Alignment explanation
Indices: 35043025--35043139 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
35043015 CTTAATATAA
* * * * *
35043025 AATTTGGTATTTGAACTTAACACTTTTTCTTAATTTGGCATCTAATTTTTTTTTTGCTT
1 AATTTGGTACTTGAACTTAACACTTTTTCCTAATTTGACACCTAATATTTTTTTTGCTT
* * *
35043084 AATTTGGTACTTGAACTTGACATTTTTTTCCTAATTTGATACCTAA-ATTTTTTTTG
1 AATTTGGTACTTGAACTTAACA-CTTTTTCCTAATTTGACACCTAATATTTTTTTTG
35043140 GGCCCACTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 29 0.62
60 18 0.38
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.54
Consensus pattern (59 bp):
AATTTGGTACTTGAACTTAACACTTTTTCCTAATTTGACACCTAATATTTTTTTTGCTT
Found at i:35047427 original size:38 final size:38
Alignment explanation
Indices: 35047376--35047454 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
35047366 CATGAGGCAT
35047376 TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
1 TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
35047414 TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
1 TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
35047452 TTA
1 TTA
35047455 GACATAATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.16, C:0.20, G:0.10, T:0.53
Consensus pattern (38 bp):
TTATGTTAACTTGCTATCTTGTTTTTACTTCCTTACGC
Found at i:35059059 original size:42 final size:42
Alignment explanation
Indices: 35058998--35059079 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
35058988 CGTGCAGGGG
*
35058998 ACACACGGCCAGACAACACGCCCATGAGGCTAGCCGTGTGTC
1 ACACACGGCCAGACAACACGCCCATGAGGCTACCCGTGTGTC
* *
35059040 ACACACGGCCTAGAC-ACACGCCCATGTGTCTACCCGTGTG
1 ACACACGGCC-AGACAACACGCCCATGAGGCTACCCGTGTG
35059080 GATAATATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (42 bp):
ACACACGGCCAGACAACACGCCCATGAGGCTACCCGTGTGTC
Found at i:35060002 original size:46 final size:46
Alignment explanation
Indices: 35059859--35060120 Score: 153
Period size: 46 Copynumber: 5.6 Consensus size: 46
35059849 AGGCCTACGC
* * * * *
35059859 CATGTCCCAGACATGGTCTTACACTAGCTCTCTCATATCTGTGCCAATG
1 CATGTCCCAGACAT-GTCATACACTAGCTCT-ACATCTC-GAGCCGATG
* * * * *
35059908 CCATCTCCCAGACATGGTCTTATACT-G-AC-ACATCTCGTAGCCGGTG
1 -CATGTCCCAGACAT-GTCATACACTAGCTCTACATCTCG-AGCCGATG
** *
35059954 CATGTCCCAGACATGTTTTACACTGGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCATACACTAGCTCTACATCTCGA-GCCGATG
* * *
35060000 CATGTCCCAGACATGTCATACACTAGCTCT-CAACTCCATGCCAATG
1 CATGTCCCAGACATGTCATACACTAGCTCTACATCTCGA-GCCGATG
* * * * *
35060046 CCATGTCCCAGACATGGTCTTACATTAGCTCT-CGTAAT-TTG-GCTGATC
1 -CATGTCCCAGACAT-GTCATACACTAGCTCTAC---ATCTCGAGCCGATG
*
35060094 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCATACACTAGC
35060121 ACACAAATGA
Statistics
Matches: 172, Mismatches: 29, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
44 8 0.05
45 16 0.09
46 73 0.42
47 29 0.17
48 20 0.12
49 1 0.01
50 24 0.14
51 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCATACACTAGCTCTACATCTCGAGCCGATG
Found at i:35060046 original size:138 final size:143
Alignment explanation
Indices: 35059810--35060067 Score: 350
Period size: 138 Copynumber: 1.8 Consensus size: 143
35059800 ATGCCGATGC
*
35059810 CATGTCCCAGACATGGTCTTACACTGATTATCGAAATCGAGGCCTACGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTGATTATCGAAATCGAGGCCGACGCCATGTCCCAGACATGG
* **
35059875 TCTTACACTAGCTCTCTCATATCTGTGCCAATGCCATCTCCCAGACATGGTCTTATACTGACACA
66 TCATACACTAGC-CTCTCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTATACTGACACA
35059940 TCTCGTAGCCGGTG
130 TCTCGTAGCCGGTG
* * ** *
35059954 CATGTCCCAGACAT-GTTTTACACTGGCTTA-C-ATCTCGAGGCCGATG-CATGTCCCAGACAT-
1 CATGTCCCAGACATGGTCTTACACT-GATTATCGAAATCGAGGCCGACGCCATGTCCCAGACATG
*
35060014 GTCATACACTAG-CTCTCA-ACTCCATGCCAATGCCATGTCCCAGACATGGTCTTA
65 GTCATACACTAGCCTCTCATA-TCCATGCCAATGCCATCTCCCAGACATGGTCTTA
35060068 CATTAGCTCT
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
137 1 0.01
138 37 0.36
140 11 0.11
141 14 0.14
142 11 0.11
143 10 0.10
144 18 0.18
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (143 bp):
CATGTCCCAGACATGGTCTTACACTGATTATCGAAATCGAGGCCGACGCCATGTCCCAGACATGG
TCATACACTAGCCTCTCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTATACTGACACAT
CTCGTAGCCGGTG
Found at i:35060116 original size:140 final size:142
Alignment explanation
Indices: 35059802--35060117 Score: 335
Period size: 138 Copynumber: 2.2 Consensus size: 142
35059792 AGGGTGTAAT
*
35059802 GCCGATGCCATGTCCCAGACATGGTCTTACACTGATTATCGAAATCGAGGCCTACGCCATGTCCC
1 GCCGAT-CCATGTCCCAGACAT-GTCTTACACTGATTATCGAAATCGAGGCCGACGCCATGTCCC
* ** *
35059867 AGACATGGTCTTACACTAGCTCTCTCATATCTGTGCCAATGCCATCTCCCAGACATGGTCTTATA
64 AGACATGGTCATACACTAGC-CTCTCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTACA
35059932 CTGACACATCTCGTA
128 CTGACACATCTCGTA
* * * * ** *
35059947 GCCGGTGCATGTCCCAGACATGTTTTACACTGGCTTA-C-ATCTCGAGGCCGATG-CATGTCCCA
1 GCCGATCCATGTCCCAGACATGTCTTACACT-GATTATCGAAATCGAGGCCGACGCCATGTCCCA
*
35060009 GACAT-GTCATACACTAG-CTCTCA-ACTCCATGCCAATGCCATGTCCCAGACATGGTCTTACA-
65 GACATGGTCATACACTAGCCTCTCATA-TCCATGCCAATGCCATCTCCCAGACATGGTCTTACAC
* *
35060070 TTA-GC-TCTCGTAA
129 TGACACATCTCGT-A
*
35060083 TTTGGCTGATCCATGTCCCAGACATGTCTTACACT
1 ----GCCGATCCATGTCCCAGACATGTCTTACACT
35060118 AGCACACAAA
Statistics
Matches: 145, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
135 6 0.04
136 2 0.01
137 3 0.02
138 38 0.26
140 38 0.26
141 14 0.10
142 11 0.08
143 10 0.07
144 18 0.12
145 5 0.03
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (142 bp):
GCCGATCCATGTCCCAGACATGTCTTACACTGATTATCGAAATCGAGGCCGACGCCATGTCCCAG
ACATGGTCATACACTAGCCTCTCATATCCATGCCAATGCCATCTCCCAGACATGGTCTTACACTG
ACACATCTCGTA
Found at i:35064166 original size:21 final size:22
Alignment explanation
Indices: 35064121--35064168 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
35064111 TGCAGGGCTC
*
35064121 ACACGCCCGTGTGGTCCAAGGG
1 ACACGCCCGTGTGGACCAAGGG
**
35064143 ACACGCCCGTGT-GACCCTGGG
1 ACACGCCCGTGTGGACCAAGGG
35064164 ACACG
1 ACACG
35064169 TCTATGCTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.19, C:0.35, G:0.33, T:0.12
Consensus pattern (22 bp):
ACACGCCCGTGTGGACCAAGGG
Found at i:35068727 original size:43 final size:44
Alignment explanation
Indices: 35068680--35068812 Score: 116
Period size: 43 Copynumber: 3.1 Consensus size: 44
35068670 AAAGAAAAGC
*
35068680 TACTGGTACACATAGTGCATCATCAG-GC-AAGCTGAAGCAATTA
1 TACTGGTACACATAGTGCATCATCAGAACGAA-CTGAAGCAATTA
* * *
35068723 TACT-G-ACACACGAGGTGCATTA-CCGAACGAACTGAAGCAATTA
1 TACTGGTACACA-TA-GTGCATCATCAGAACGAACTGAAGCAATTA
* * ** *
35068766 TACTGGTACACATGGTGCATCAT-TGAATAAATTGAAGCAATTA
1 TACTGGTACACATAGTGCATCATCAGAACGAACTGAAGCAATTA
35068809 TACT
1 TACT
35068813 AACACACGAG
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
41 5 0.07
42 4 0.06
43 55 0.76
44 3 0.04
45 5 0.07
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (44 bp):
TACTGGTACACATAGTGCATCATCAGAACGAACTGAAGCAATTA
Found at i:35068828 original size:43 final size:42
Alignment explanation
Indices: 35068711--35068829 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 42
35068701 ATCAGGCAAG
* * *
35068711 CTGAAGCAATTATACTGACACACGAGGTGCATTACCGAACGAA
1 CTGAAGCAATTATACTAACACACGA-GTGCATCACCGAACAAA
* * ** *
35068754 CTGAAGCAATTATACTGGTACACATG-GTGCATCATTGAATAAA
1 CTGAAGCAATTATACT--AACACACGAGTGCATCACCGAACAAA
*
35068797 TTGAAGCAATTATACTAACACACGAGATGCATC
1 CTGAAGCAATTATACTAACACACGAG-TGCATC
35068830 GTTAGACGAA
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
41 6 0.10
42 1 0.02
43 49 0.79
45 6 0.10
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (42 bp):
CTGAAGCAATTATACTAACACACGAGTGCATCACCGAACAAA
Found at i:35080877 original size:216 final size:216
Alignment explanation
Indices: 35080503--35080906 Score: 808
Period size: 216 Copynumber: 1.9 Consensus size: 216
35080493 TCGAGGTCGT
35080503 GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
1 GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
35080568 GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
66 GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
35080633 TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAACTTCACCA
131 TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAACTTCACCA
35080698 TGTGGGAGACCCTGAGGTTGC
196 TGTGGGAGACCCTGAGGTTGC
35080719 GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
1 GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
35080784 GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
66 GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
35080849 TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAAC
131 TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAAC
35080907 GAATGTGACA
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
216 188 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (216 bp):
GACGAGCTCCTGATTATTTGAACAATCAACCTTTGGTCTCGGTTCGACCTTTGGCCACTTAAAAA
GCTTTCGTAAGCTTGTGTAGATCTCAAAATAGTTCATAAATCTTATTTGCAATGTATTTTGGGAT
TGATAACTTGAATAAAATGCTTAATTGACTTTTGAGAGATTGTAGTTGCTTTGGCAACTTCACCA
TGTGGGAGACCCTGAGGTTGC
Found at i:35082146 original size:58 final size:58
Alignment explanation
Indices: 35081934--35082147 Score: 143
Period size: 58 Copynumber: 3.7 Consensus size: 58
35081924 TTTTTGTAAA
* * *
35081934 TTATCCAAATAAGGATTTTTAGCTTAACAAGCTTTTTTTTTTGCTCTAACTTTT-ACTTTA-
1 TTATCCAAAGAAGGATTTTTAGCTTAACGAGC--TTTTTTTT-CTCTAACTTTTGA-TTAAG
* * * * * * * * *
35081994 TTCATCTAATGAA-AAATTTCAGCTTAACGAGC-TTTTTTACCCTAACTTTTGCTTATG
1 TT-ATCCAAAGAAGGATTTTTAGCTTAACGAGCTTTTTTTTCTCTAACTTTTGATTAAG
* * ** * **
35082051 TCATCCTACTAAAGATTTTCTA-CTTAAC-AGGGGTTTTTTTCTCTAACTTTTGATTAAG
1 TTATCCAAAGAAGGATTTT-TAGCTTAACGA-GCTTTTTTTTCTCTAACTTTTGATTAAG
*
35082109 TTTTCCAAAGAAGGATTTTTAGCTTAACGAGCTTTTTTT
1 TTATCCAAAGAAGGATTTTTAGCTTAACGAGCTTTTTTT
35082148 GTGTAGTTTA
Statistics
Matches: 112, Mismatches: 33, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
56 19 0.17
57 20 0.18
58 48 0.43
59 1 0.01
60 17 0.15
61 7 0.06
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (58 bp):
TTATCCAAAGAAGGATTTTTAGCTTAACGAGCTTTTTTTTCTCTAACTTTTGATTAAG
Found at i:35082409 original size:9 final size:9
Alignment explanation
Indices: 35082395--35082420 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35082385 GAAAAAGGGT
35082395 TGAAAATGG
1 TGAAAATGG
35082404 TGAAAATGG
1 TGAAAATGG
35082413 TGAAAATG
1 TGAAAATG
35082421 ACCTAAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (9 bp):
TGAAAATGG
Found at i:35086356 original size:25 final size:25
Alignment explanation
Indices: 35086328--35086376 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
35086318 CTATTTTTGA
* *
35086328 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
35086353 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
35086377 ATAGATTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:35094343 original size:12 final size:12
Alignment explanation
Indices: 35094326--35094396 Score: 50
Period size: 12 Copynumber: 6.4 Consensus size: 12
35094316 AATATATGTA
35094326 TATATAATAAAT
1 TATATAATAAAT
35094338 TATATAAT-AAT
1 TATATAATAAAT
35094349 GTAT-T--TAAAT
1 -TATATAATAAAT
35094359 TAT-TAA-ATAA-
1 TATATAATA-AAT
*
35094369 TATAT-TTAAAT
1 TATATAATAAAT
*
35094380 TAAATAATAAAT
1 TATATAATAAAT
35094392 TATAT
1 TATAT
35094397 TTATTTATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 18
0.68 0.06 0.26
Matches are distributed among these distances:
9 5 0.11
10 9 0.20
11 12 0.26
12 20 0.43
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (12 bp):
TATATAATAAAT
Found at i:35094358 original size:21 final size:21
Alignment explanation
Indices: 35094333--35094399 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
35094323 GTATATATAA
*
35094333 TAAATTATATAATAATGTATT
1 TAAATTATATAATAATATATT
35094354 TAAATTAT-TAAATAATATATT
1 TAAATTATAT-AATAATATATT
*
35094375 TAAATTAAATAATAAATTATATT
1 TAAATTATATAAT-AA-TATATT
35094398 TA
1 TA
35094400 TTTATGTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 1 0.03
21 28 0.70
22 3 0.08
23 8 0.20
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (21 bp):
TAAATTATATAATAATATATT
Found at i:35096409 original size:25 final size:25
Alignment explanation
Indices: 35096325--35096409 Score: 61
Period size: 25 Copynumber: 3.4 Consensus size: 25
35096315 AAACAAATAA
* *
35096325 AGAAAG-AATAAATAAATAGAAAAAG
1 AGAAAGAAAGAAAGAAA-AGAAAAAG
* * *
35096350 AAAAAGAAAGCCAAAG--CAGAAACAG
1 AGAAAGAAAG--AAAGAAAAGAAAAAG
35096375 AG-AAGAAAAGAAAGAAAAGAAAAAG
1 AGAAAG-AAAGAAAGAAAAGAAAAAG
35096400 AGAAAGAAAG
1 AGAAAGAAAG
35096410 GCGAAAAAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
23 4 0.09
24 3 0.07
25 30 0.67
26 5 0.11
28 3 0.07
ACGTcount: A:0.71, C:0.05, G:0.21, T:0.04
Consensus pattern (25 bp):
AGAAAGAAAGAAAGAAAAGAAAAAG
Found at i:35097310 original size:6 final size:6
Alignment explanation
Indices: 35097301--35097325 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35097291 TTAAAATGAA
35097301 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
35097326 TTGAGTTGAG
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:35108539 original size:27 final size:26
Alignment explanation
Indices: 35108508--35108685 Score: 142
Period size: 27 Copynumber: 6.6 Consensus size: 26
35108498 TAAATTGTAC
*
35108508 AGCACTAAGTGTGCGATTCTACTTTGT
1 AGCACTAAGTGTGCGATT-TACTATGT
* * * *
35108535 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTTACTATGT
* * *
35108561 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTTACTATGT
*
35108589 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTT-ACTATGT
* *
35108617 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTT-ACTATGT
* * *
35108644 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTTACTATGT
*
35108671 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35108686 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
26 1 0.01
27 100 0.80
28 24 0.19
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTTACTATGT
Found at i:35108569 original size:54 final size:54
Alignment explanation
Indices: 35108508--35108685 Score: 166
Period size: 54 Copynumber: 3.3 Consensus size: 54
35108498 TAAATTGTAC
* *
35108508 AGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATT-TACTTTGTAGCACTAAGTGTGCGAATTGAATATGAT
* ** ** * *
35108563 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCG-ATTTACTTTGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * *
35108617 AGCACTAAGTGTGCGATTTGA-TTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTT-ACTT-TGTAGCACTAAGTGTGCGAATTGAATATGAT
*
35108671 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35108686 GGCTCAATAT
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
54 59 0.59
55 41 0.41
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTACTTTGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:35108632 original size:55 final size:54
Alignment explanation
Indices: 35108536--35108685 Score: 167
Period size: 55 Copynumber: 2.8 Consensus size: 54
35108526 CTACTTTGTT
** * *
35108536 GCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACGCA
* * ** *
35108590 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
* * *
35108645 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
35108686 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 37 0.45
55 44 0.54
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACGCA
Found at i:35108632 original size:82 final size:81
Alignment explanation
Indices: 35108509--35108664 Score: 208
Period size: 82 Copynumber: 1.9 Consensus size: 81
35108499 AAATTGTACA
* * *
35108509 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35108573 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35108590 GCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
35108654 GTGCGAGTTGA
64 GTGCGAATTGA
35108665 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
81 16 0.25
82 48 0.74
83 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35108676 original size:82 final size:81
Alignment explanation
Indices: 35108505--35108685 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
35108495 GATTAAATTG
* * *
35108505 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35108570 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35108586 TGCGGCACTAAGTGTGCGAGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
35108649 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
35108668 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35108686 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 19 0.23
82 63 0.77
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35108696 original size:27 final size:27
Alignment explanation
Indices: 35108590--35108696 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
35108580 TGACCATGCG
* * * *
35108590 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
35108618 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
35108645 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
35108672 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
35108697 CATTCGTGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 53 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:35115759 original size:17 final size:18
Alignment explanation
Indices: 35115737--35115781 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
35115727 TCCTCTTTCA
35115737 TTTATTTT-CTTTATTTT
1 TTTATTTTACTTTATTTT
*
35115754 TTTATTTTATTTTATTTT
1 TTTATTTTACTTTATTTT
*
35115772 AATTATTTTA
1 -TTTATTTTA
35115782 TTTGAATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTATTTTACTTTATTTT
Found at i:35115763 original size:5 final size:5
Alignment explanation
Indices: 35115737--35115784 Score: 50
Period size: 5 Copynumber: 10.4 Consensus size: 5
35115727 TCCTCTTTCA
* *
35115737 TTTAT TTT-C TTTA- TTT-T TTTAT TTTAT TTTAT TTTA- ATTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
35115783 TT
1 TT
35115785 GAATTCTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
4 12 0.33
5 24 0.67
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:35115779 original size:14 final size:14
Alignment explanation
Indices: 35115760--35115789 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35115750 TTTTTTTATT
*
35115760 TTATTTTATTTTAA
1 TTATTTTATTTGAA
35115774 TTATTTTATTTGAA
1 TTATTTTATTTGAA
35115788 TT
1 TT
35115790 CTTGAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
TTATTTTATTTGAA
Found at i:35115779 original size:19 final size:18
Alignment explanation
Indices: 35115746--35115784 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
35115736 ATTTATTTTC
*
35115746 TTTATTTTTTTATTTTAT
1 TTTATTTTATTATTTTAT
35115764 TTTATTTTAATTATTTTAT
1 TTTATTTT-ATTATTTTAT
35115783 TT
1 TT
35115785 GAATTCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTATTTTATTATTTTAT
Found at i:35126205 original size:21 final size:20
Alignment explanation
Indices: 35126181--35126220 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
35126171 CATGTATTTT
*
35126181 AATGATTTATGATAGATTATG
1 AATGATTGATGATAG-TTATG
35126202 AATGATTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
35126221 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:35131722 original size:18 final size:18
Alignment explanation
Indices: 35131656--35131745 Score: 65
Period size: 20 Copynumber: 4.6 Consensus size: 18
35131646 GAGGGGTGTT
*
35131656 ACAGAGATGCCAAATAGGGC
1 ACAGAG-TG-CAAACAGGGC
* *
35131676 ACAAATGTGCATACAGGAGC
1 ACAGA-GTGCAAACAGG-GC
*
35131696 ACCGAAGTGCAAA-AGGGC
1 ACAG-AGTGCAAACAGGGC
35131714 ACTAGAGTGCATAACAGGGC
1 AC-AGAGTGCA-AACAGGGC
35131734 ACAGATGTGCAA
1 ACAGA-GTGCAA
35131746 TTAGGGATAC
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.18
19 16 0.29
20 28 0.50
21 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.29, T:0.12
Consensus pattern (18 bp):
ACAGAGTGCAAACAGGGC
Found at i:35131764 original size:40 final size:40
Alignment explanation
Indices: 35131719--35131810 Score: 100
Period size: 40 Copynumber: 2.3 Consensus size: 40
35131709 AGGGCACTAG
* *
35131719 AGTGCATAACAGGGCACAGATGTGCAATTAGG-GATACCAT
1 AGTGCATAACAGGGCACAAATGTGCAATTAGGAG-CACCAT
* * *
35131759 AGTGCA-AACAAGAGCACAAATTTGCTATTAGGAGCACCAT
1 AGTGCATAAC-AGGGCACAAATGTGCAATTAGGAGCACCAT
35131799 AGTGC-TAACAGG
1 AGTGCATAACAGG
35131811 AGTATGAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
39 5 0.12
40 37 0.86
41 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (40 bp):
AGTGCATAACAGGGCACAAATGTGCAATTAGGAGCACCAT
Found at i:35138710 original size:27 final size:26
Alignment explanation
Indices: 35138652--35138738 Score: 81
Period size: 25 Copynumber: 3.3 Consensus size: 26
35138642 AATTCATATT
*
35138652 CAGGAATGCTCAT-ACAAGCACATA-AA
1 CAGGAA-GCTCATCTCAAGC-CATATAA
* *
35138678 CGGGAAGCTCCCTCTCAAGCCATATAA
1 CAGGAAGCT-CATCTCAAGCCATATAA
* *
35138705 CAGGAAGCTCATGT-GAGCCATATAA
1 CAGGAAGCTCATCTCAAGCCATATAA
35138730 CAGGAAGCT
1 CAGGAAGCT
35138739 TATCCGGGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
25 22 0.43
26 14 0.27
27 15 0.29
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (26 bp):
CAGGAAGCTCATCTCAAGCCATATAA
Found at i:35138727 original size:25 final size:25
Alignment explanation
Indices: 35138695--35138803 Score: 114
Period size: 25 Copynumber: 4.4 Consensus size: 25
35138685 CTCCCTCTCA
*
35138695 AGCCATATAACAGGAAGCTCATGTG
1 AGCCATATAACAGGAAGCTCATGAG
* **
35138720 AGCCATATAACAGGAAGCTTATCCG
1 AGCCATATAACAGGAAGCTCATGAG
* ** * *
35138745 GGCTGTATAACGGGAAGCTCATAAG
1 AGCCATATAACAGGAAGCTCATGAG
*
35138770 AGCCATAT-TCAGGAAGCTCATGAG
1 AGCCATATAACAGGAAGCTCATGAG
35138794 AGCCA-ATAAC
1 AGCCATATAAC
35138804 GAGTAGCTCC
Statistics
Matches: 66, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
23 2 0.03
24 19 0.29
25 45 0.68
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (25 bp):
AGCCATATAACAGGAAGCTCATGAG
Found at i:35139637 original size:20 final size:21
Alignment explanation
Indices: 35139607--35139645 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
35139597 ATAACAACCC
35139607 ATTTATTTCATAAAATTTAGA
1 ATTTATTTCATAAAATTTAGA
*
35139628 ATTT-TTTCATAAATTTTA
1 ATTTATTTCATAAAATTTA
35139646 CAGCTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTTATTTCATAAAATTTAGA
Found at i:35141775 original size:35 final size:35
Alignment explanation
Indices: 35141732--35141806 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
35141722 AACTCAAAGA
* * * *
35141732 AATAAATAAAAGT-ACACAAATATTTTCAATATAAT
1 AATAAATAAAAATAAAAAAAATATTTCCAA-ATAAT
35141767 AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
1 AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
35141802 AATAA
1 AATAA
35141807 TTTTAAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 22 0.63
36 13 0.37
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.28
Consensus pattern (35 bp):
AATAAATAAAAATAAAAAAAATATTTCCAAATAAT
Found at i:35141873 original size:7 final size:7
Alignment explanation
Indices: 35141863--35141904 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
35141853 AATAAAATAA
*
35141863 AATCCCC
1 AATCCCT
35141870 AAT-CCT
1 AATCCCT
35141876 CAATCCCT
1 -AATCCCT
35141884 AATCCCT
1 AATCCCT
35141891 AATCCCT
1 AATCCCT
35141898 AATCCCT
1 AATCCCT
35141905 CCCTCACCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 2 0.06
7 27 0.84
8 3 0.09
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (7 bp):
AATCCCT
Found at i:35142134 original size:6 final size:6
Alignment explanation
Indices: 35142123--35142164 Score: 84
Period size: 6 Copynumber: 7.0 Consensus size: 6
35142113 CATTGGTAGT
35142123 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA
35142165 CATGGGATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:35142351 original size:30 final size:29
Alignment explanation
Indices: 35142310--35142366 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
35142300 TGTTTAAATT
35142310 TATTATTATATTTATTGAAATTATTTATA
1 TATTATTATATTTATTGAAATTATTTATA
* * *
35142339 TATTATTTATATTTCTTTAAATTTTTTA
1 TATTA-TTATATTTATTGAAATTATTTA
35142367 AAATTAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (29 bp):
TATTATTATATTTATTGAAATTATTTATA
Found at i:35142449 original size:51 final size:51
Alignment explanation
Indices: 35142358--35142461 Score: 120
Period size: 51 Copynumber: 2.0 Consensus size: 51
35142348 TATTTCTTTA
* * * * * *
35142358 AATTTTTTAAAATTAAGATCAAATTGAGTTCATTTGTAAAATTTGAAGGTT
1 AATTTTTAAAAATTAAAATCAAATTGAGTTAATCTATAAAAGTTGAAGGTT
* *
35142409 AATTTTTAAAAATTAAAATTAAATTGA-TATAATCTATAAAAGTTGAGGGTT
1 AATTTTTAAAAATTAAAATCAAATTGAGT-TAATCTATAAAAGTTGAAGGTT
35142460 AA
1 AA
35142462 ATTTATTGTA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.02
51 43 0.98
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.40
Consensus pattern (51 bp):
AATTTTTAAAAATTAAAATCAAATTGAGTTAATCTATAAAAGTTGAAGGTT
Found at i:35143377 original size:3 final size:3
Alignment explanation
Indices: 35143369--35143403 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
35143359 CCTCTTTCAC
*
35143369 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
35143404 GAGTTGGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:35145213 original size:3 final size:3
Alignment explanation
Indices: 35145205--35145239 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
35145195 CCTCTTTCAC
*
35145205 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
35145240 GAGTTGGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:35146963 original size:25 final size:25
Alignment explanation
Indices: 35146929--35146978 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
35146919 CTTAAAATAA
35146929 TACATGTATATATATTGCATTCTTT
1 TACATGTATATATATTGCATTCTTT
35146954 TACATGTATATATATTGCATTCTTT
1 TACATGTATATATATTGCATTCTTT
35146979 CTCAATCGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (25 bp):
TACATGTATATATATTGCATTCTTT
Found at i:35160449 original size:39 final size:40
Alignment explanation
Indices: 35160354--35160615 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
35160344 TTGAATGATG
*
35160354 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35160392 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35160433 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
35160472 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35160511 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
35160550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35160589 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35160616 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35165470 original size:54 final size:54
Alignment explanation
Indices: 35165403--35165544 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 54
35165393 CAAAATGGTA
* * **
35165403 ATTT-TACCCTACAAGGGTATCTCGGTAATTCTACCCTAAAGGGGTATTTCGGT
1 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTAAAGGGGTATTTCAAT
* * * *
35165456 ATTTCTACCTTACAAGGGCATTTCGATAATTCTATCCTATAGGGGTATTTCAAT
1 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTAAAGGGGTATTTCAAT
* * *
35165510 AATTCTACCTTATAGGGGTATTTCGGTAATTCTAC
1 ATTTCTACCTTACAAGGGTATTTCGGTAATTCTAC
35165545 AACTTATCCA
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 4 0.05
54 70 0.95
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (54 bp):
ATTTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTAAAGGGGTATTTCAAT
Found at i:35165478 original size:27 final size:27
Alignment explanation
Indices: 35165399--35165544 Score: 150
Period size: 27 Copynumber: 5.4 Consensus size: 27
35165389 GGGGCAAAAT
* *
35165399 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
35165426 GGTAATTCTACCCTA-AAGGGGTATTTC
1 GGTAATTCTACCCTACAA-GGGTATTTC
* * *
35165453 GGTATTTCTACCTTACAAGGGCATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
35165480 GATAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * * *
35165507 AATAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
35165534 GGTAATTCTAC
1 GGTAATTCTAC
35165545 AACTTATCCA
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 96 0.96
28 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:35167391 original size:32 final size:32
Alignment explanation
Indices: 35167350--35167413 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
35167340 TACAATTACC
35167350 CAAATCGAGTCCTTCTTCGACAGTGTCAAGGG
1 CAAATCGAGTCCTTCTTCGACAGTGTCAAGGG
35167382 CAAATCGAGTCCTTCTTCGACAGTGTCAAGGG
1 CAAATCGAGTCCTTCTTCGACAGTGTCAAGGG
35167414 TAACCCACTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (32 bp):
CAAATCGAGTCCTTCTTCGACAGTGTCAAGGG
Found at i:35170047 original size:58 final size:58
Alignment explanation
Indices: 35169952--35170073 Score: 199
Period size: 58 Copynumber: 2.1 Consensus size: 58
35169942 CTTCACTTCC
* *
35169952 TCAGCTATCTTAGCTTTCTCCACTAAAGCAGCAAAGTTACGCTCCCTCTGTAGAGCAA
1 TCAGCAATCTTAGCTTTCTCCACTAAAGCAGCAAAGTTACGCTCCCTCTGCAGAGCAA
* * *
35170010 TCAGCAATCTTAGCTTTCTCCACTAAAGTAGCGAAGTTACGCTCCCTCTGCGGAGCAA
1 TCAGCAATCTTAGCTTTCTCCACTAAAGCAGCAAAGTTACGCTCCCTCTGCAGAGCAA
35170068 TCAGCA
1 TCAGCA
35170074 CCCTAAGTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (58 bp):
TCAGCAATCTTAGCTTTCTCCACTAAAGCAGCAAAGTTACGCTCCCTCTGCAGAGCAA
Found at i:35173493 original size:35 final size:35
Alignment explanation
Indices: 35173447--35173516 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
35173437 AGAAATCGTC
35173447 CATTCTTTTAAGAAGTTGAAAGGTAAATTTGGTTT
1 CATTCTTTTAAGAAGTTGAAAGGTAAATTTGGTTT
35173482 CATTCTTTTAAGAAGTTGAAAGGTAAATTTGGTTT
1 CATTCTTTTAAGAAGTTGAAAGGTAAATTTGGTTT
35173517 TATGGTCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (35 bp):
CATTCTTTTAAGAAGTTGAAAGGTAAATTTGGTTT
Found at i:35175991 original size:34 final size:33
Alignment explanation
Indices: 35175928--35175991 Score: 76
Period size: 34 Copynumber: 1.9 Consensus size: 33
35175918 CCAATTGCAT
* *
35175928 ACTGTACTGATTCTGTAATGGGCTCAGGCCCAA
1 ACTGTACTGATTCTGTAAAGGGCTAAGGCCCAA
*
35175961 ACTGCTACTG-TTACTGTAAAGGGTTAAGGCC
1 ACTG-TACTGATT-CTGTAAAGGGCTAAGGCC
35175992 ATACTTGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
33 6 0.23
34 20 0.77
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (33 bp):
ACTGTACTGATTCTGTAAAGGGCTAAGGCCCAA
Found at i:35181864 original size:50 final size:50
Alignment explanation
Indices: 35181752--35182117 Score: 276
Period size: 50 Copynumber: 7.6 Consensus size: 50
35181742 AGATGTCGAC
* * * * * * *
35181752 GCCATGTCCCGGACATGGTCTTACAC-CG-GCTCACACATCAAAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGATCTCATATATCGAGGCCGAT
* *
35181800 GCCATGTTCTAGACATGGTCTTACACT-GAATCTCATATATCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-ATCTCATATATCGAGGCCGAT
* * * *
35181850 GCCATTTCCCAGACATGGTCTTACACTAGCTCTCATCTGTCG-GTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGATCTCATATATCGAG-GCCGAT
* * *
35181900 GCCATGTCCCAGACATGGTCTTACACT-GA-CACATATA---AAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGATCTCATATATCGAGGCCGAT
** * *
35181945 GTTATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGATCTCATATATCGAGGCCGAT
** * * * * * *
35181995 GCCATGTCCCAGACATGGTCTTACGTTAGCTCTC--GTCTCAATGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGATCTCATATATCGAGGCCGAT
* * * * * * *
35182043 GCTATGTCCCAGACATGGCCTTACATTGGCTCTCATA-CT-GTGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGATCTCATATATCGAGGCCGAT
**
35182091 G-CATGTCAAAGACAT-GTCTTACACTAG
1 GCCATGTCCCAGACATGGTCTTACACTAG
35182118 CACATAGGTC
Statistics
Matches: 254, Mismatches: 51, Indels: 28
0.76 0.15 0.08
Matches are distributed among these distances:
45 30 0.12
46 10 0.04
47 17 0.07
48 75 0.30
49 4 0.02
50 117 0.46
51 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAGATCTCATATATCGAGGCCGAT
Found at i:35181977 original size:95 final size:96
Alignment explanation
Indices: 35181794--35182123 Score: 311
Period size: 95 Copynumber: 3.4 Consensus size: 96
35181784 ACACATCAAA
* * * * * * * *
35181794 GCCGATGCCATGTTCTAGACATGGTCTTACACTGAATCTCATATATCGAGGCCGATGCCATTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAAGCACATATA---AAGTCGATGCTATGTCC
35181859 CAGACATGGTCTTACACTAGCTCTCATCTGTCGG
63 CAGACATGGTCTTACACTAGCTCTCATCTGTCGG
*
35181893 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG-A-CACATATAAAGTCGATGTTATGTCCCA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGAAGCACATATAAAGTCGATGCTATGTCCCA
* *
35181956 GACATGGTCTTACACTAGCTCTCATATCTCGAG
65 GACATGGTCTTACACTAGCTCTCATCTGTCG-G
* * * * * *
35181989 GCCGATGCCATGTCCCAGACATGGTCTTAC-GT-TAGCTCTCGTCTCAATGTCGATGCTATGTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAAG--CACATAT-AAAGTCGATGCTATGTCC
* * *
35182052 CAGACATGGCCTTACATTGGCTCTCATACTGT--G
63 CAGACATGGTCTTACACTAGCTCTCAT-CTGTCGG
**
35182085 GCCGATG-CATGTCAAAGACAT-GTCTTACACT--AGCACATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAAGCACATA
35182124 GGTCACCCAA
Statistics
Matches: 195, Mismatches: 27, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
92 3 0.02
94 11 0.06
95 86 0.44
96 9 0.05
97 4 0.02
98 47 0.24
99 3 0.02
100 32 0.16
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGAAGCACATATAAAGTCGATGCTATGTCCCAG
ACATGGTCTTACACTAGCTCTCATCTGTCGG
Found at i:35182018 original size:145 final size:146
Alignment explanation
Indices: 35181752--35182067 Score: 397
Period size: 145 Copynumber: 2.2 Consensus size: 146
35181742 AGATGTCGAC
* * * *
35181752 GCCATGTCCCGGACATGGTCTTACACCGGCTCACACATCAAAGCCGATGCCATGTTCTAGACATG
1 GCCATGTCCCAGACATGGTCTTACACCGGCACACACATCAAAGCCGATGCCATGTCCCAGACATG
*
35181817 GTCTTACACTGAATCTCATATATCGAGGCCGATGCCATTTCCCAGACATGGTCTTACACTAGCTC
66 GTCTTACACTGAATCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
**
35181882 TCATCTGTCGGTGCCGAT
131 TCATC--TCAATGCCGAT
* * * **
35181900 GCCATGTCCCAGACATGGTCTTACA-CTG-ACACATAT-AAAGTCGATGTTATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACCGGCACACACATCAAAGCCGATGCCATGTCCCAGACATG
* * **
35181962 GTCTTACACT-AGCTCTCATATCTCGAGGCCGATGCCATGTCCCAGACATGGTCTTACGTTAGCT
66 GTCTTACACTGA-ATCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
* *
35182026 CTCGTCTCAATGTCGAT
130 CTCATCTCAATGCCGAT
* *
35182043 GCTATGTCCCAGACATGGCCTTACA
1 GCCATGTCCCAGACATGGTCTTACA
35182068 TTGGCTCTCA
Statistics
Matches: 147, Mismatches: 20, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
143 31 0.21
144 1 0.01
145 83 0.56
146 6 0.04
147 2 0.01
148 24 0.16
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (146 bp):
GCCATGTCCCAGACATGGTCTTACACCGGCACACACATCAAAGCCGATGCCATGTCCCAGACATG
GTCTTACACTGAATCTCATATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
TCATCTCAATGCCGAT
Found at i:35182097 original size:145 final size:146
Alignment explanation
Indices: 35181794--35182118 Score: 367
Period size: 145 Copynumber: 2.2 Consensus size: 146
35181784 ACACATCAAA
* * * *
35181794 GCCGATGCCATGTTCTAGACATGGTCTTACACT-GAATCTCATATATCGAGGCCGATGCCATTTC
1 GCCGATGCCATGTCCAAGACATGGTCTTACACTAG-CTCTCATATATCGAGGCCGATGCCATGTC
** *
35181858 CCAGACATGGTCTTACACTAGCTCTCATCTGTCGGTGCCGATGCCATGTCCCAGACATGGTCTTA
65 CCAGACATGGTCTTACACTAGCTCTCATC-GTCAATGCCGATGCCATGTCCCAGACATGGCCTTA
35181923 CACTGACACATATAAAGT
129 CACTGACACATATAAAGT
** * *
35181941 --CGATGTTATGTCCCAGACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATGCCATGTCC
1 GCCGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCCATGTCC
** * * *
35182004 CAGACATGGTCTTACGTTAGCTCTCGTC-TCAATGTCGATGCTATGTCCCAGACATGGCCTTACA
66 CAGACATGGTCTTACACTAGCTCTCATCGTCAATGCCGATGCCATGTCCCAGACATGGCCTTACA
* * * **
35182068 TTGGCTC-TCATACTGT
131 CTGACACAT-ATAAAGT
*
35182084 GGCCGATG-CATGTCAAAGACAT-GTCTTACACTAGC
1 -GCCGATGCCATGTCCAAGACATGGTCTTACACTAGC
35182119 ACATAGGTCA
Statistics
Matches: 150, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
142 1 0.01
143 40 0.27
144 13 0.09
145 90 0.60
146 6 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (146 bp):
GCCGATGCCATGTCCAAGACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATGCCATGTCC
CAGACATGGTCTTACACTAGCTCTCATCGTCAATGCCGATGCCATGTCCCAGACATGGCCTTACA
CTGACACATATAAAGT
Found at i:35189107 original size:27 final size:26
Alignment explanation
Indices: 35188689--35189124 Score: 505
Period size: 27 Copynumber: 16.2 Consensus size: 26
35188679 GGGTATTATA
** * *
35188689 GTCATTTTACCCTACAAGGGTATTACA
1 GTCATTTTACCCTA-TGGGGTATTTCG
* *
35188716 CTCATTTTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
35188743 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* * * *
35188770 GTTATTTTACCTTATGGGAGTGTTTTG
1 GTCATTTTACCCTATGGG-GTATTTCG
*
35188797 GTCATTTTACCCTATGGGGTTTTTCG
1 GTCATTTTACCCTATGGGGTATTTCG
* * *
35188823 GTCATTTTACCCAACAT-GGGTATTACA
1 GTCATTTTACCC--TATGGGGTATTTCG
*
35188850 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
35188877 GTCATTTTACCCTATGGAGGTATTTCG
1 GTCATTTTACCCTATGG-GGTATTTCG
* *
35188904 GTCATTTTACCCTATGAGAGTATTTCA
1 GTCATTTTACCCTATG-GGGTATTTCG
35188931 GTCATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
* *
35188958 ATCATTTTATCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
35188985 GTCATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
* * *
35189012 ATCATTTTATCCTATGAGGGCATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
35189039 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
35189066 ATCATTTTACCCTATGGGGTTATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
35189093 GTCATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGG-TATTTCG
35189120 GTCAT
1 GTCAT
35189125 CATCTAGGCC
Statistics
Matches: 355, Mismatches: 40, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
25 2 0.01
26 33 0.09
27 309 0.87
28 11 0.03
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:35191536 original size:35 final size:35
Alignment explanation
Indices: 35191485--35191554 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
35191475 CAAGCAACCA
* * *
35191485 TAAATGATTTTGAGAAAAAGCACTAAGGCTTGCAT
1 TAAATGATTTTCAGAAAAAGAACCAAGGCTTGCAT
35191520 TAAATGATTTTCAGAAAAAGAACCAAGGCTTGCAT
1 TAAATGATTTTCAGAAAAAGAACCAAGGCTTGCAT
35191555 AATTTGCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (35 bp):
TAAATGATTTTCAGAAAAAGAACCAAGGCTTGCAT
Found at i:35194831 original size:28 final size:28
Alignment explanation
Indices: 35194768--35195005 Score: 442
Period size: 28 Copynumber: 8.5 Consensus size: 28
35194758 ATATTAAGTC
* *
35194768 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
35194795 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
35194823 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
35194851 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
35194879 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
35194907 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
35194935 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
35194963 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
35194991 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35195006 GTACAATTTA
Statistics
Matches: 208, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
27 22 0.11
28 186 0.89
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:35195755 original size:2 final size:2
Alignment explanation
Indices: 35195748--35195773 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35195738 CGAATGGGCT
35195748 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
35195774 GCCGAATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:35199805 original size:47 final size:46
Alignment explanation
Indices: 35199749--35199928 Score: 118
Period size: 47 Copynumber: 3.8 Consensus size: 46
35199739 TCATCGAGGC
35199749 CGATGCATGTCCCAGACAT-GTCTTACACTGGCACTCACCTCTACG
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACG
** * * * * *
35199794 TCGATGCCATGTTTCAGACGTGGTCTTACACGGGCAATCA--TGATGCGG
1 -CGATG-CATGTCCCAGACATGGTCTTACACTGGCACTCACCT-CTAC-G
* * * **
35199842 CTGATGCATGTCCCAGACA-CGTCTTACACTAGCCCTCGTCTCAATAC-
1 C-GATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTC--TACG
* * *
35199889 CGATGCCATGTCCCAGACCTGGTCTTATACTGGCTCTCAC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCACTCAC
35199929 ATAACCCCAT
Statistics
Matches: 98, Mismatches: 25, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
46 23 0.23
47 37 0.38
48 36 0.37
49 2 0.02
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.26
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTACG
Found at i:35203342 original size:93 final size:93
Alignment explanation
Indices: 35203230--35203400 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
35203220 GCCCATAAGT
* *
35203230 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
35203295 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
35203323 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
35203388 CGAGTTCGGATGC
66 CGAGCTCGGATGC
35203401 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:35203397 original size:46 final size:46
Alignment explanation
Indices: 35203222--35203397 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
35203212 TGTAACCCGC
* *
35203222 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35203268 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
35203314 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
35203361 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
35203398 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:35205832 original size:30 final size:30
Alignment explanation
Indices: 35205788--35205876 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
35205778 CAAAGATAAC
35205788 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
35205817 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
35205847 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
35205877 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:35205836 original size:15 final size:15
Alignment explanation
Indices: 35205788--35205867 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
35205778 CAAAGATAAC
*
35205788 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
35205802 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35205817 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
35205832 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35205847 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35205862 AAGAAA
1 AAGAAA
35205868 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35205876 original size:15 final size:15
Alignment explanation
Indices: 35205799--35205876 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
35205789 AGAAAACCGA
35205799 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
35205814 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
35205828 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
35205843 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35205859 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35205874 ATA
1 ATA
35205877 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35215473 original size:47 final size:45
Alignment explanation
Indices: 35215413--35215575 Score: 168
Period size: 47 Copynumber: 3.5 Consensus size: 45
35215403 GACAAGGGCT
**
35215413 AGTGTAAGACATGTCTGGGACATGCATAAGCCATACTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATAC-ATGATAGCC
* * * *
35215459 AGTGTAAGACCATGTTTGGGACATGGCATCGGTACAGAGATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CCATACATGA-TAGCC
*
35215507 AGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGACAGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAT--ACA-TGATAGCC
*
35215554 AGTGTAAGACGTGTCTGGGACA
1 AGTGTAAGACATGTCTGGGACA
35215576 CGTATCGACT
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
45 1 0.01
46 19 0.20
47 52 0.54
48 21 0.22
49 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATACATGATAGCC
Found at i:35215524 original size:94 final size:91
Alignment explanation
Indices: 35215364--35215677 Score: 273
Period size: 94 Copynumber: 3.4 Consensus size: 91
35215354 GATTTGTGCA
* * * * * *
35215364 CCAGTGTAAGACATGTTTGGGAAATGGCATCGACATCCAGACA-AGGGCTAGTGTAAGACATGTC
1 CCAGTGTAAGACATGTCTGGGACATGGCATCG--GTACAGAGATAGTGCTAGTGTAAGACATGTC
*
35215428 TGGGACATGCATAAGCCATACTATGATAG
64 TGGGACATGCATCAGCC-TACTATGATAG
* *
35215457 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGTACAGAGATGAGTGCCAGTGTAAGACATGTC
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGGTACAGAGAT-AGTGCTAGTGTAAGACATGTC
* *
35215522 TGGGACATGCATCGGCCTCGAC-AGAGATAG
64 TGGGACATGCATCAGCCT--ACTA-TGATAG
* * * * * *
35215552 CCAGTGTAAGACGTGTCTGGGACA-CGTATCGACTA-AGAG-TTGTGCTAGTATAAGACATGTCT
1 CCAGTGTAAGACATGTCTGGGACATGGCATCG-GTACAGAGATAGTGCTAGTGTAAGACATGTCT
* *
35215614 GGAACATG-ATTCAGCACGCGTA-TATGAGAG
65 GGGACATGCA-TCAG--C-C-TACTATGATAG
35215644 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 CCAGTGTAAGA-CATGTCTGGGACATGGCATCGG
35215678 CAATATATCC
Statistics
Matches: 181, Mismatches: 25, Indels: 30
0.77 0.11 0.13
Matches are distributed among these distances:
90 1 0.01
91 29 0.16
92 22 0.12
93 36 0.20
94 74 0.41
95 19 0.10
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (91 bp):
CCAGTGTAAGACATGTCTGGGACATGGCATCGGTACAGAGATAGTGCTAGTGTAAGACATGTCTG
GGACATGCATCAGCCTACTATGATAG
Found at i:35223185 original size:47 final size:48
Alignment explanation
Indices: 35223127--35223298 Score: 151
Period size: 47 Copynumber: 3.7 Consensus size: 48
35223117 ACGAAACTTA
35223127 GCCGATGCATGTCCCAGAC-TCGTCTTACACTGGCTAACATCATCGAG
1 GCCGATGCATGTCCCAGACATCGTCTTACACTGGCTAACATCATCGAG
* * *
35223174 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGC--AC-TCACCTCTAC
1 GCCGATGCATGTCCCAGACATCGTCTTACACTGGCTAACATCA--TCGAG
* * * * * * * *
35223220 GCCGATGCCATGTCTCAAACGTGGTCTTACACGGGCTATCATGAT-GCG
1 GCCGATG-CATGTCCCAGACATCGTCTTACACTGGCTAACATCATCGAG
* *
35223268 GCTGATGCATGTCCCAGACA-CATCTTACACT
1 GCCGATGCATGTCCCAGACATCGTCTTACACT
35223299 AGCCCTCGTC
Statistics
Matches: 97, Mismatches: 20, Indels: 17
0.72 0.15 0.13
Matches are distributed among these distances:
44 3 0.03
45 2 0.02
46 18 0.19
47 52 0.54
48 18 0.19
49 1 0.01
50 1 0.01
51 2 0.02
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATCGTCTTACACTGGCTAACATCATCGAG
Found at i:35223284 original size:94 final size:93
Alignment explanation
Indices: 35223089--35223342 Score: 280
Period size: 94 Copynumber: 2.7 Consensus size: 93
35223079 TTGCCGCTGC
** * *
35223089 CATGTCCCAGACATGGTCTTACACTAGCACGAAACT-TAGCCGATG-CATGTCCCAGACTCGTCT
1 CATGTCCCAGACAT-GTCTTACACTAGCACTCAACTCTAGCCGATGCCATGTCCCAAACTGGTCT
*
35223152 TACACTGGCTAACATCATCGAGGCCGATG
65 TACACGGGCTAACATCATCGAGGCCGATG
* *
35223181 CATGTCCCAGACATGTCTTACACTAGCACTCACCTCTACGCCGATGCCATGTCTCAAACGTGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCAACTCTA-GCCGATGCCATGTCCCAAAC-TGGTC
* * * *
35223246 TTACACGGGCTATCATGAT-GCGGCTGATG
64 TTACACGGGCTAACATCATCGAGGCCGATG
** * ** * *
35223275 CATGTCCCAGACACATCTTACACTAGCCCTCGTCTCAATGCCGATGCCATGTCCCTAACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCAACTCTA-GCCGATGCCATGTCCCAAAC-TGGTC
35223340 TTA
64 TTA
35223343 TACTGGCTCT
Statistics
Matches: 137, Mismatches: 21, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
91 18 0.13
92 16 0.12
93 7 0.05
94 76 0.55
95 20 0.15
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCAACTCTAGCCGATGCCATGTCCCAAACTGGTCTT
ACACGGGCTAACATCATCGAGGCCGATG
Found at i:35226894 original size:19 final size:19
Alignment explanation
Indices: 35226870--35226919 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
35226860 TTAAAGCCTC
35226870 ACACGCCCGTGTGCATGGG
1 ACACGCCCGTGTGCATGGG
35226889 ACACGCCCGTGTGCATGGG
1 ACACGCCCGTGTGCATGGG
*
35226908 GCACGCCCGTGT
1 ACACGCCCGTGT
35226920 CCCTTACCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.14, C:0.34, G:0.36, T:0.16
Consensus pattern (19 bp):
ACACGCCCGTGTGCATGGG
Found at i:35229301 original size:42 final size:43
Alignment explanation
Indices: 35229190--35229302 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 43
35229180 AGCGTATACA
* * * * * *
35229190 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAACATTG
1 ATGCCAATGTCACAGACATGGTCTTACACGAAATCAAACATCG
* * * *
35229233 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAGACA-CG
1 ATGCCAATGTCACAGACATGGTCTTACACGAAATCAAACATCG
*
35229275 ATGTCAATGTCACAGACATGGTCTTACA
1 ATGCCAATGTCACAGACATGGTCTTACA
35229303 TGCAAAACAG
Statistics
Matches: 58, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCACAGACATGGTCTTACACGAAATCAAACATCG
Found at i:35255279 original size:31 final size:30
Alignment explanation
Indices: 35255226--35255284 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
35255216 ATATATAAAT
* * *
35255226 AATAATAAATAATATAATAGTAATTAATAGA
1 AATAATAAATAAAACAACAGTAA-TAATAGA
*
35255257 AATAATTAATAAAACAACAGTAATAATA
1 AATAATAAATAAAACAACAGTAATAATA
35255285 AATACAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 5 0.21
31 19 0.79
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (30 bp):
AATAATAAATAAAACAACAGTAATAATAGA
Found at i:35255602 original size:15 final size:14
Alignment explanation
Indices: 35255575--35255609 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
35255565 ATATATTTAC
35255575 ATAATAAATATATA
1 ATAATAAATATATA
35255589 ATAATAAATAATATA
1 ATAATAAAT-ATATA
35255604 ATAATA
1 ATAATA
35255610 TGAAACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATAAATATATA
Found at i:35255606 original size:8 final size:8
Alignment explanation
Indices: 35255575--35255610 Score: 51
Period size: 7 Copynumber: 4.9 Consensus size: 8
35255565 ATATATTTAC
35255575 ATAATA-A
1 ATAATATA
35255582 AT-ATATA
1 ATAATATA
35255589 ATAATA-A
1 ATAATATA
35255596 ATAATATA
1 ATAATATA
35255604 ATAATAT
1 ATAATAT
35255611 GAAACATAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
6 3 0.12
7 12 0.46
8 11 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATAATATA
Found at i:35256005 original size:18 final size:18
Alignment explanation
Indices: 35255982--35256017 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
35255972 ATAACAAGTA
*
35255982 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
35256000 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
35256018 ATGGTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.58, T:0.25
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:35256033 original size:29 final size:29
Alignment explanation
Indices: 35256000--35256062 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
35255990 GAGTTAGTGG
35256000 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
* *
35256029 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
35256058 GGGTG
1 GGGTG
35256063 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:35256514 original size:133 final size:134
Alignment explanation
Indices: 35256276--35257294 Score: 1480
Period size: 133 Copynumber: 7.6 Consensus size: 134
35256266 GATCTGTTGT
* * *
35256276 AATTTGATCTGCTTTACTCCTGCTCAATAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* ** *
35256341 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGAT-GACTTG
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAGACTTG
35256405 CCAA
131 CCAA
*
35256409 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* * *
35256474 TGCTCAGTGAAGATAAGGATGGTGGCTGAAATCTACTCCATTGCCGATACATAGAGATAAGA-TT
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGAT-AGACTT
*
35256538 CACCAA
130 -GCCAA
* * * * *
35256544 AATTTGATCTGCTCCGCTCCTGCTCAGCGACGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* * * *
35256607 TGCTCAGTGAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCGATACATAGAGATAAGATTT
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGAT-AGACTT
*
35256672 ACCAA
130 GCCAA
* * * * * *
35256677 AATTTCATCTGCTCCCCTCCTACTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
** *
35256740 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTATTCCATTGCCAATACATGGAGAT-GACTTG
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAGACTTG
35256804 CCAA
131 CCAA
* *
35256808 ATTTTGATCTGTTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* ** *
35256873 TGCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGAT-GACTTG
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAGACTTG
35256937 CCAA
131 CCAA
*
35256941 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* * *
35257006 TGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCTGATACATGGAAATAAGACTT
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGAT-AGACTT
*
35257071 GCTAA
130 GCCAA
* * *
35257076 AATTTCATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGCCTGCTCCACTCT
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
* *
35257141 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATTTGCTCCATTGTCGATACATGGAGATAAGACTT
66 TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGAT-AGACTT
35257206 GCCAA
130 GCCAA
* *
35257211 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATTTGGTATGTTTAGCCTACTCCACTCC
1 AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
*
35257276 TGCTCAGTG-GGATAAGGCT
66 TGCTCAGTGAAGATAAGGCT
35257295 TGCCGAAATC
Statistics
Matches: 802, Mismatches: 76, Indels: 15
0.90 0.09 0.02
Matches are distributed among these distances:
131 45 0.06
133 495 0.62
134 13 0.02
135 249 0.31
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (134 bp):
AATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCC
TGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCGATACATGGAGATAGACTTG
CCAA
Found at i:35256886 original size:45 final size:45
Alignment explanation
Indices: 35256822--35257157 Score: 180
Period size: 45 Copynumber: 7.5 Consensus size: 45
35256812 TGATCTGTTT
*
35256822 CACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTC
1 CACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGTCTGCTC
* * *
35256867 CACTCCTGCTCAGTGAAGATAAG-GCT-G-ATGATTGGAATCTGCTC
1 CACTCCTGCTCAGTGAAGATAAGATCTGGTATG-TT-TAGTCTGCTC
* * * ** ** *
35256911 CATTGCC-GATACA-TGGAGAT--GA-CTTGCCAAAATTT-GATCTGCTT
1 CACT-CCTGCT-CAGTGAAGATAAGATC-TG-GTATGTTTAG-TCTGCTC
* *
35256955 CACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTACTC
1 CACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGTCTGCTC
* * * ** *
35257000 CACTCCTGCTCAGTGAAGATAAG-GCTAGT-GGCTGAAATCTGCTC
1 CACTCCTGCTCAGTGAAGATAAGATCTGGTATG-TTTAGTCTGCTC
* * * * ** *
35257044 CATTGCTGATACA-TGGAA-ATAAGA-CTTGCTAAAATTTCA-TCTGCTT
1 CACTCCTGCT-CAGT-GAAGATAAGATC-TGGT-ATGTTT-AGTCTGCTC
* *
35257090 CACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGCCTGCTC
1 CACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGTCTGCTC
*
35257135 CACTCTTGCTCAGTGAAGATAAG
1 CACTCCTGCTCAGTGAAGATAAG
35257158 GCTGGTGGCT
Statistics
Matches: 212, Mismatches: 51, Indels: 56
0.66 0.16 0.18
Matches are distributed among these distances:
42 5 0.02
43 9 0.04
44 63 0.30
45 103 0.49
46 29 0.14
47 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (45 bp):
CACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGTCTGCTC
Found at i:35257305 original size:532 final size:531
Alignment explanation
Indices: 35256278--35257305 Score: 1679
Period size: 532 Copynumber: 1.9 Consensus size: 531
35256268 TCTGTTGTAA
35256278 TTTGATCTGCTTTACTCCTGCTCAATAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTG
1 TTTGATCTGCTTTACTCCTGCTCAATAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTG
35256343 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATGACTTGCCA
66 CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATGACTTGCCA
35256408 AAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACTC
131 AAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACTC
* *
35256473 CTGCTCAGTGAAGATAAGGATGGTGGCTGAAATCTACTCCATTGCCGATACATAGAGATAAGATT
196 CTGCTCAGTGAAGATAAGGATAGTGGCTGAAATCTACTCCATTGCCGATACATAGAAATAAGATT
* * *
35256538 CACCAAAATTTGATCTGCTCCGCTCCTGCTCAGCGACGATAAGATCTAGTATTTAGCCTGCTCCA
261 CACCAAAATTTCATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCA
35256603 CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCGATACATAGAGATAAG
326 CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCGATACATAGAGATAAG
* * *
35256668 ATTTACCAAAATTTCATCTGCTCCCCTCCTACTCAGCGAAGATAAGATCTAGTATTTAGCCTGCT
391 ACTTACCAAAATTTCATCTGCTCCACTCCTACTCAGCGAAGATAAGATCTAGTATTTAGCCTACT
*
35256733 CCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATCTATTCCATTGCCAATACATGGAGAT
456 CCACTCCTGCTCAGTGAAGATAAGGCT-GTGGCCGAAATCTATTCCATTGCCAATACATGGAGAT
35256798 GACTTGCCAAAT
520 GACTTGCCAAAT
* *
35256810 TTTGATCTG-TTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCT
1 TTTGATCTGCTTT-ACTCCTGCTCAATAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCT
35256874 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATGACTTGCC
65 GCTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATGACTTGCC
35256939 AAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACT
130 AAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACT
* * * *
35257004 CCTGCTCAGTGAAGATAAGGCTAGTGGCTGAAATCTGCTCCATTGCTGATACATGGAAATAAGAC
195 CCTGCTCAGTGAAGATAAGGATAGTGGCTGAAATCTACTCCATTGCCGATACATAGAAATAAGA-
* * * *
35257069 TT-GCTAAAATTTCATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTAGTATGTTTAGCCTGC
259 TTCACCAAAATTTCATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTA--TTTAGCCTGC
* * * *
35257133 TCCACTCTTGCTCAGTGAAGATAAGGCTGGTGGCTGAAATTTGCTCCATTGTCGATACATGGAGA
322 TCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCGATACATAGAGA
* * * * * * *
35257198 TAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATTTGGTATGTTTAG
387 TAAGACTTACCAAAATTTCATCTGCTCCACTCCTACTCAGCGAAGATAAGATCTAGTA--TTTAG
*
35257263 CCTACTCCACTCCTGCTCAGTG-GGATAAGGCT-T-GCCGAAATCT
450 CCTACTCCACTCCTGCTCAGTGAAGATAAGGCTGTGGCCGAAATCT
35257306 GTAATTTTAA
Statistics
Matches: 459, Mismatches: 31, Indels: 12
0.91 0.06 0.02
Matches are distributed among these distances:
531 3 0.01
532 298 0.65
533 3 0.01
534 120 0.26
535 9 0.02
536 26 0.06
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (531 bp):
TTTGATCTGCTTTACTCCTGCTCAATAAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTG
CTCAGTGAAGATAAGGCTGATGATTGGAATCTGCTCCATTGCCGATACATGGAGATGACTTGCCA
AAATTTGATCTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTTTAGCCTACTCCACTC
CTGCTCAGTGAAGATAAGGATAGTGGCTGAAATCTACTCCATTGCCGATACATAGAAATAAGATT
CACCAAAATTTCATCTGCTCCACTCCTGCTCAGCGAAGATAAGATCTAGTATTTAGCCTGCTCCA
CTCCTGCTCAGTGAAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGTCGATACATAGAGATAAG
ACTTACCAAAATTTCATCTGCTCCACTCCTACTCAGCGAAGATAAGATCTAGTATTTAGCCTACT
CCACTCCTGCTCAGTGAAGATAAGGCTGTGGCCGAAATCTATTCCATTGCCAATACATGGAGATG
ACTTGCCAAAT
Found at i:35259683 original size:27 final size:27
Alignment explanation
Indices: 35259653--35259830 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35259643 ATATTGAGTC
* * * *
35259653 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
35259680 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35259707 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
35259735 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
35259762 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
35259789 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
35259816 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
35259831 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:35259792 original size:82 final size:81
Alignment explanation
Indices: 35259674--35259829 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35259664 TGCTATATAA
* *
35259674 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
35259739 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
35259756 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
35259820 CACTTAGTGC
65 CACTTAGTGC
35259830 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Done.