Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 56
Found at i:5608478 original size:2 final size:2
Alignment explanation
Indices: 5608473--5608498 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5608463 AATAATAACG
5608473 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
5608499 ACTTAGTAAA
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:5609026 original size:63 final size:64
Alignment explanation
Indices: 5608906--5609032 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 64
5608896 AAGGGAATTA
*
5608906 AACCGATTTGGGGACCAAATTAAATGTTTTTTTAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAATGTTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
*
5608970 AACCGATTTGGGGACCAAATTGAATG-TTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCGATTTGGGGACCAAATTAAATGTTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
5609033 CTTTTAGCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
63 36 0.59
64 25 0.41
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (64 bp):
AACCGATTTGGGGACCAAATTAAATGTTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
Found at i:5610464 original size:105 final size:105
Alignment explanation
Indices: 5610290--5610959 Score: 1295
Period size: 105 Copynumber: 6.4 Consensus size: 105
5610280 GTGTTGTTTC
* *
5610290 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
* * *
5610355 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTA
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
5610395 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
5610460 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
5610500 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
5610565 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
5610605 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
5610670 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
5610710 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
5610775 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
5610815 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
5610880 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
5610920 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
5610960 GGTAAAACCT
Statistics
Matches: 560, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 560 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.32
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGCCTG
Found at i:5611849 original size:77 final size:78
Alignment explanation
Indices: 5611697--5611840 Score: 173
Period size: 77 Copynumber: 1.9 Consensus size: 78
5611687 CCTTATTTTC
* ** *
5611697 TCTTCTTTTTTCCTCTTTTCTCCTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACG
1 TCTTCTTTTTTCCTCTTTTCTCCTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
**
5611762 TTCTTCTTCTTCT
66 AACTTCTTCTTCT
* * ** * *
5611775 TCTTCTTTTTTTCT-TTTTTTTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAAGCG
1 TCTTCTTTTTTCCTCTTTTCTCCTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
5611839 AA
66 AA
5611841 GTATTTCTTG
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
77 41 0.76
78 13 0.24
ACGTcount: A:0.11, C:0.26, G:0.11, T:0.52
Consensus pattern (78 bp):
TCTTCTTTTTTCCTCTTTTCTCCTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
AACTTCTTCTTCT
Found at i:5621261 original size:20 final size:20
Alignment explanation
Indices: 5621223--5621266 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
5621213 ATGGTTAGTA
*
5621223 AAATAAAAATAAATGGAAAT
1 AAATAAAAATAAATAGAAAT
5621243 AAATAAAAATAACA-AGAAAT
1 AAATAAAAATAA-ATAGAAAT
5621263 AAAT
1 AAAT
5621267 GGCAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (20 bp):
AAATAAAAATAAATAGAAAT
Found at i:5622439 original size:10 final size:10
Alignment explanation
Indices: 5622425--5622459 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
5622415 CTATTACAAG
5622425 TATATACATA
1 TATATACATA
* *
5622435 GATATATATA
1 TATATACATA
5622445 TATATACATA
1 TATATACATA
5622455 TATAT
1 TATAT
5622460 TAAAATATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (10 bp):
TATATACATA
Found at i:5622629 original size:120 final size:124
Alignment explanation
Indices: 5622481--5622730 Score: 454
Period size: 120 Copynumber: 2.0 Consensus size: 124
5622471 ATTAAGCAAA
*
5622481 AATAATCAATGAAGAAAAAAGAGTATACGTATATAATAATAATAACGTAAATATATATATATATA
1 AATAATCAATGAAGAAAAAAAAGTATACGTATATAATAATAATAACGTAAATATATATATATATA
*
5622546 -AA-TTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAAT-A-ATATACGTATAT
66 TAACTTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAATAATATATACATATAT
5622601 AATAATCAATGAAGAAAAAAAAGTATACGTATATAATAATAATAACGTAAATATATATATATATA
1 AATAATCAATGAAGAAAAAAAAGTATACGTATATAATAATAATAACGTAAATATATATATATATA
5622666 TAACTTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAATAATATATACATATAT
66 TAACTTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAATAATATATACATATAT
5622725 AATAAT
1 AATAAT
5622731 TTGTAAAACA
Statistics
Matches: 124, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
120 64 0.52
121 2 0.02
122 40 0.32
123 1 0.01
124 17 0.14
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (124 bp):
AATAATCAATGAAGAAAAAAAAGTATACGTATATAATAATAATAACGTAAATATATATATATATA
TAACTTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAATAATATATACATATAT
Found at i:5622714 original size:60 final size:60
Alignment explanation
Indices: 5622530--5622738 Score: 204
Period size: 60 Copynumber: 3.5 Consensus size: 60
5622520 TAATAACGTA
5622530 AATATATATATATAT-A-AATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAAT
1 AATATATATATATATAATAATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAAT
* * *
5622588 AATATACGTATATA-ATAATCAATGAAG-AAAAAAAAG-T-ATACGT-ATA--TAATAATAATAA
1 AATATA--TATATATATAAT-AAT-TAGTAAAAAGAAGATAATA-GTAATAGTTAA-ATTAA-AA
*
5622646 CGT
59 -AT
5622649 AA-ATATATATATATATATAACTTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAAT
1 AATATATATATATATA-ATAA-TTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAAT
* *
5622710 AATATATACATATATAATAATTTGTAAAA
1 AATATATATATATATAATAATTAGTAAAA
5622739 CACAACAAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 38
0.72 0.06 0.22
Matches are distributed among these distances:
58 15 0.12
59 13 0.11
60 37 0.31
61 16 0.13
62 31 0.26
63 6 0.05
64 3 0.02
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (60 bp):
AATATATATATATATAATAATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAAT
Found at i:5622775 original size:122 final size:120
Alignment explanation
Indices: 5622481--5622777 Score: 343
Period size: 122 Copynumber: 2.4 Consensus size: 120
5622471 ATTAAGCAAA
* * * * * *
5622481 AATAATCAATGAAGAAAAAAGAGTATACGTATATAATAATAATAACGTAA-ATATATATATATAT
1 AATAATCAATAAACAAAAAAAAGTATACATATATAAAAATAATAAC-AAATATATATATATATAT
*
5622545 AAATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAATAATATACGTATAT
65 AAATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAATAATATACATATAT
* * * *
5622601 AATAATCAATGAAGAAAAAAAAGTATACGTATATAATAATAATAACGTAAATATATATATATATA
1 AATAATCAATAAACAAAAAAAAGTATACATATATAAAAATAATAAC--AAATATATATATATATA
*
5622666 TAACTTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAATAATATATACATATAT
64 TAAATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAAT-A-ATATACATATAT
***
5622725 AATAATTTGTAAAACACAACAAAAAGTATTA-ATATA-AAAAAT-ATAA-AAATATA
1 AATAATCAAT-AAACA-AA-AAAAAGTA-TACATATATAAAAATAATAACAAATATA
5622778 AATAGATAGG
Statistics
Matches: 157, Mismatches: 12, Indels: 14
0.86 0.07 0.08
Matches are distributed among these distances:
120 45 0.29
121 2 0.01
122 63 0.40
123 1 0.01
124 18 0.11
125 7 0.04
126 7 0.04
127 12 0.08
128 2 0.01
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (120 bp):
AATAATCAATAAACAAAAAAAAGTATACATATATAAAAATAATAACAAATATATATATATATATA
AATTAGTAAAAAGAAGATAATAGTAATAGTTAAATTAAAAATAATATACATATAT
Found at i:5622831 original size:17 final size:16
Alignment explanation
Indices: 5622811--5622849 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
5622801 ACATCCATAA
5622811 AAAATATAAAAACAAAG
1 AAAATATAAAAA-AAAG
5622828 AAAATA-AAAAAAAAG
1 AAAATATAAAAAAAAG
*
5622843 CAAATAT
1 AAAATAT
5622850 GAGTAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 5 0.25
17 6 0.30
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAAAAAG
Found at i:5623195 original size:63 final size:64
Alignment explanation
Indices: 5623075--5623201 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 64
5623065 AAGGGAATTA
*
5623075 AACCAATTTGGGGACCAAATTAAATGTTTTTTTAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCAATTTGGGGACCAAATTAAATGTTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
*
5623139 AACCAATTTGGGGACCAAATTGAATG-TTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
1 AACCAATTTGGGGACCAAATTAAATGTTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
5623202 CTTTTAGCAA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
63 36 0.59
64 25 0.41
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (64 bp):
AACCAATTTGGGGACCAAATTAAATGTTTTTTCAAAACAGAGGGAGCCAAAATGAAGTTTACCC
Found at i:5624876 original size:15 final size:16
Alignment explanation
Indices: 5624856--5624896 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
5624846 GTTTACTTCA
*
5624856 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
5624871 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
5624887 GAATGATTCA
1 GAATGATTCA
5624897 GAAGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:5625159 original size:15 final size:15
Alignment explanation
Indices: 5625141--5625169 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5625131 TCATGTCATT
5625141 CAAAATCATAACATA
1 CAAAATCATAACATA
5625156 CAAAATCATAACAT
1 CAAAATCATAACAT
5625170 GACATGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.21, G:0.00, T:0.21
Consensus pattern (15 bp):
CAAAATCATAACATA
Found at i:5628054 original size:16 final size:16
Alignment explanation
Indices: 5628033--5628087 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
5628023 TTTCTAAAAG
*
5628033 CTAAAAGCTTTTGCAA
1 CTAAAAGCTATTGCAA
5628049 CTAAAAGCTATTGCAA
1 CTAAAAGCTATTGCAA
5628065 CTAAAAGCTATTGCAA
1 CTAAAAGCTATTGCAA
*
5628081 CAAAAAG
1 CTAAAAG
5628088 AACTTATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (16 bp):
CTAAAAGCTATTGCAA
Found at i:5628101 original size:129 final size:128
Alignment explanation
Indices: 5627968--5628199 Score: 428
Period size: 128 Copynumber: 1.8 Consensus size: 128
5627958 CAGTAAAATC
*
5627968 ATAGGACGTAAAAACAATTCATTCATTTAAGCAACAAAAAAACAACTTGTTTATGTTTCTAAAAG
1 ATAGGACGTAAAAACAATTCATTCATTTAAGCAAC-AAAAAACAACTTATTTATGTTTCTAAAAG
*
5628033 CTAAAAGCTTTTGCAACTAAAAGCTATTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCT
65 CTAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGCTATTGCAACAAAAAGAACTTATCT
*
5628097 ATAGGACGTAAAAACAGTTCATTCATTTAAGCAACAAAAAACAACTTATTTATGTTTCTAAAAGC
1 ATAGGACGTAAAAACAATTCATTCATTTAAGCAACAAAAAACAACTTATTTATGTTTCTAAAAGC
5628162 TAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAG
66 TAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAG
5628200 AACTTATCTA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
128 66 0.66
129 34 0.34
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (128 bp):
ATAGGACGTAAAAACAATTCATTCATTTAAGCAACAAAAAACAACTTATTTATGTTTCTAAAAGC
TAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGCTATTGCAACAAAAAGAACTTATCT
Found at i:5628182 original size:16 final size:16
Alignment explanation
Indices: 5628161--5628199 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
5628151 TTTCTAAAAG
*
5628161 CTAAAAGCTTTTGCAA
1 CTAAAAGCTATTGCAA
5628177 CTAAAAGCTATTGCAA
1 CTAAAAGCTATTGCAA
*
5628193 CAAAAAG
1 CTAAAAG
5628200 AACTTATCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (16 bp):
CTAAAAGCTATTGCAA
Found at i:5628245 original size:112 final size:112
Alignment explanation
Indices: 5628049--5628255 Score: 396
Period size: 112 Copynumber: 1.8 Consensus size: 112
5628039 GCTTTTGCAA
5628049 CTAAAAGCTATTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCTATAGGACGTAAAAACAG
1 CTAAAAGCTATTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCTATAGGACGTAAAAACAG
5628114 TTCATTCATTTAAGCAACAAAAAACAACTTATTTATGTTTCTAAAAG
66 TTCATTCATTTAAGCAACAAAAAACAACTTATTTATGTTTCTAAAAG
* *
5628161 CTAAAAGCTTTTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCTATAGGATGTAAAAACAG
1 CTAAAAGCTATTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCTATAGGACGTAAAAACAG
5628226 TTCATTCATTTAAGCAACAAAAAACAACTT
66 TTCATTCATTTAAGCAACAAAAAACAACTT
5628256 GTTTTAGTAC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
112 93 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (112 bp):
CTAAAAGCTATTGCAACTAAAAGCTATTGCAACAAAAAGAACTTATCTATAGGACGTAAAAACAG
TTCATTCATTTAAGCAACAAAAAACAACTTATTTATGTTTCTAAAAG
Found at i:5628617 original size:19 final size:20
Alignment explanation
Indices: 5628593--5628637 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
5628583 ACGCATCGGC
5628593 CCGCATC-AGACCGCATCAG-
1 CCGCATCGA-ACCGCATCAGA
*
5628612 CCGCATCGAATCGCATCAGA
1 CCGCATCGAACCGCATCAGA
5628632 CCGCAT
1 CCGCAT
5628638 TATGTACCCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.40, G:0.20, T:0.13
Consensus pattern (20 bp):
CCGCATCGAACCGCATCAGA
Found at i:5632443 original size:45 final size:45
Alignment explanation
Indices: 5632394--5632481 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
5632384 AAAATAGCCA
* * *
5632394 GAGTGCATCGATGCATGGTTTGTGCATCGATGCATCAAATGCACT
1 GAGTGCATCGATGCATGGTATGTGCATCAATGCATAAAATGCACT
5632439 GAGTGCATCGATGCATGGTATGTGCATCAATGCATAAAATGCA
1 GAGTGCATCGATGCATGGTATGTGCATCAATGCATAAAATGCA
5632482 TTCGATGTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (45 bp):
GAGTGCATCGATGCATGGTATGTGCATCAATGCATAAAATGCACT
Found at i:5633043 original size:13 final size:13
Alignment explanation
Indices: 5633025--5633049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5633015 AGCCATTAGT
5633025 TTCATAATCAATA
1 TTCATAATCAATA
5633038 TTCATAATCAAT
1 TTCATAATCAAT
5633050 GTGACATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
TTCATAATCAATA
Found at i:5640944 original size:19 final size:21
Alignment explanation
Indices: 5640893--5640945 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
5640883 GGGTAGAGGA
5640893 AATCGATACCCCCTTAAGGGG
1 AATCGATACCCCCTTAAGGGG
* *
5640914 AA-CAAAATCCCCC-T-AGGGG
1 AATCGATA-CCCCCTTAAGGGG
5640933 AATCGATACCCCC
1 AATCGATACCCCC
5640946 ATGGGGTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
19 12 0.46
20 7 0.27
21 7 0.27
ACGTcount: A:0.32, C:0.34, G:0.19, T:0.15
Consensus pattern (21 bp):
AATCGATACCCCCTTAAGGGG
Found at i:5649690 original size:45 final size:45
Alignment explanation
Indices: 5649641--5649728 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
5649631 AAAATAGCCA
* *
5649641 GAGTGCATCGATGCATGGTTTGTGCATCGATGCATCAAATGCACT
1 GAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCACT
5649686 GAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCA
1 GAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCA
5649729 TTCGATGCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (45 bp):
GAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCACT
Found at i:5654293 original size:2 final size:2
Alignment explanation
Indices: 5654286--5654330 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
5654276 TAAAACAATA
*
5654286 AT AT AT AT AT GT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5654327 AT AT
1 AT AT
5654331 GTTTAGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5654966 original size:105 final size:105
Alignment explanation
Indices: 5654777--5655321 Score: 964
Period size: 105 Copynumber: 5.2 Consensus size: 105
5654767 TTTGAGTTGG
* * * *
5654777 ATATCCTTCATCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTATTGACAACCAGCGG
1 ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAA-TGTTTATTGACAACCAGCGG
*
5654842 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGTCCA
65 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
5654883 ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGT
1 ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGT
5654948 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
*
5654988 ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACAAGCGGT
1 ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGT
* *
5655053 CCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
5655093 ATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGT
1 ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGT
5655158 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
5655198 ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGT
1 ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGT
*
5655263 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCA
66 CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
5655303 ATATCATTCGTCGTGAAGT
1 ATATCCTTCGTTGTGAAGT
5655322 TGAACTTGCG
Statistics
Matches: 421, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
105 381 0.90
106 40 0.10
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
ATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGT
CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
Found at i:5655327 original size:43 final size:43
Alignment explanation
Indices: 5655266--5655364 Score: 171
Period size: 43 Copynumber: 2.3 Consensus size: 43
5655256 CAGCGGTCCC
5655266 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCA
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCA
* *
5655309 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCA
*
5655352 TTCGTTGTGAAGT
1 TTCGTCGTGAAGT
5655365 CGAAATTGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (43 bp):
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCA
Found at i:5655397 original size:253 final size:253
Alignment explanation
Indices: 5655060--5655574 Score: 958
Period size: 253 Copynumber: 2.0 Consensus size: 253
5655050 GGTCCCTTCA
* *
5655060 TCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 TCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAGTCGAAATTGGATCT
5655125 GAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 GAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
*
5655190 GGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAA
131 GGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTGACAA
*
5655255 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCATTCG
196 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCATTCG
*
5655313 TCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGATCT
1 TCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAGTCGAAATTGGATCT
5655378 GAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
66 GAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
5655443 GGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTGACAA
131 GGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTGACAA
* *
5655508 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
196 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCATTCG
*
5655566 TTGTGAAGT
1 TCGTGAAGT
5655575 CGAAATTGGC
Statistics
Matches: 254, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
253 254 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (253 bp):
TCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAGTCGAAATTGGATCT
GAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
GGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTGACAA
CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCATTCG
Found at i:5655429 original size:148 final size:148
Alignment explanation
Indices: 5655161--5655469 Score: 573
Period size: 148 Copynumber: 2.1 Consensus size: 148
5655151 CAGCGGTCCC
5655161 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
* *
5655226 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
66 ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
5655291 GTCTGGAATCCAATATCA
131 GTCTGGAATCCAATATCA
5655309 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5655374 ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
66 ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
* *
5655439 GTCTGGAGTCCAATATCC
131 GTCTGGAATCCAATATCA
*
5655457 TTCGTTGTGAAGT
1 TTCGTCGTGAAGT
5655470 CGAAATTGGC
Statistics
Matches: 156, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
148 156 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (148 bp):
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
GTCTGGAATCCAATATCA
Found at i:5655495 original size:105 final size:105
Alignment explanation
Indices: 5655309--5657847 Score: 4783
Period size: 105 Copynumber: 24.2 Consensus size: 105
5655299 TCCAATATCA
5655309 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
* *
5655374 ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5655414 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
*
5655479 CTCTGAAACTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5655519 TTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5655584 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5655624 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5655689 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5655729 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5655794 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5655834 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5655899 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5655939 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5656004 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5656044 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5656109 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5656149 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5656214 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5656254 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
*
5656319 CTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
* *
5656359 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTGGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5656424 CTCTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAA-TGTTTATTGACAACCAGCGGTCCC
*
5656465 TTCGTCGTGAAGTTGAACTTGCGTTGTATGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
*
5656530 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCA
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5656570 TTCGTAGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5656635 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5656675 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
*
5656740 CTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5656780 TTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5656845 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5656885 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5656950 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5656990 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
*
5657055 CTTTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5657095 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
*
5657160 ATCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5657200 TTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5657265 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
*
5657305 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5657370 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5657410 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
*
5657475 CTTTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
* *
5657515 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTGTGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
*
5657580 CTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5657620 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5657685 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
* * * *
5657725 TTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT-CAAGATCCTTCGTTGAGAAGTTGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
* *
5657789 CTCTGAAATTGAGAAATGTTTATTGACAACCAGTGGTCCC
66 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
5657829 TTCGTCGTGAAGTTGAACT
1 TTCGTCGTGAAGTTGAACT
5657848 CTACTCTCGA
Statistics
Matches: 2383, Mismatches: 50, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
104 84 0.04
105 2197 0.92
106 102 0.04
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (105 bp):
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCC
Found at i:5655501 original size:358 final size:358
Alignment explanation
Indices: 5654951--5655679 Score: 1350
Period size: 358 Copynumber: 2.0 Consensus size: 358
5654941 CAGCGGTCCC
5654951 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
* *
5655016 CTCTGAAATTGGGAAATGTTTATTGACAACAAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTT
66 ATCTGAAATTGAGAAATGTTTATTGACAACAAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTT
* *
5655081 GTCTGGAATCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTG
131 GTCTGGAATCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGAGAAATGTTTATTG
*
5655146 ACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
196 ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
5655211 TGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
261 TGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
5655276 AGTTGAACTTGCGTTGTCTGGAATCCAATATCA
326 AGTTGAACTTGCGTTGTCTGGAATCCAATATCA
5655309 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
* *
5655374 ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
66 ATCTGAAATTGAGAAATGTTTATTGACAACAAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTT
* *
5655439 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTG
131 GTCTGGAATCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGAGAAATGTTTATTG
5655504 ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
196 ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
5655569 TGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
261 TGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
* *
5655634 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
326 AGTTGAACTTGCGTTGTCTGGAATCCAATATCA
*
5655667 TTCGTTGTGAAGT
1 TTCGTCGTGAAGT
5655680 CGAAATTGGC
Statistics
Matches: 359, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
358 359 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (358 bp):
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
ATCTGAAATTGAGAAATGTTTATTGACAACAAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTT
GTCTGGAATCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGAGAAATGTTTATTG
ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
TGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
AGTTGAACTTGCGTTGTCTGGAATCCAATATCA
Found at i:5655711 original size:463 final size:463
Alignment explanation
Indices: 5654846--5655784 Score: 1779
Period size: 463 Copynumber: 2.0 Consensus size: 463
5654836 CAGCGGTCCC
*
5654846 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
* *
5654911 CTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
66 ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
*
5654976 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTG
131 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTG
5655041 ACAACAAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTG
196 ACAACAAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTG
*
5655106 TGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
261 TGAAGTCGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
5655171 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATT
326 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATT
5655236 GGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATC
391 GGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATC
5655301 CAATATCA
456 CAATATCA
5655309 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
1 TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
5655374 ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
66 ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
5655439 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTG
131 GTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTG
* *
5655504 ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
196 ACAACAAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTG
*
5655569 TGAAGTCGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
261 TGAAGTCGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
5655634 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATT
326 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATT
*
5655699 GGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
391 GGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATC
*
5655764 CAATATCC
456 CAATATCA
*
5655772 TTCGTTGTGAAGT
1 TTCGTCGTGAAGT
5655785 CGAAATTGGC
Statistics
Matches: 465, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
463 465 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (463 bp):
TTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGG
ATCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTT
GTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAACTGGGAAATGTTTATTG
ACAACAAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAATCCAATATCCTTCGTTG
TGAAGTCGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGA
AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATT
GGGAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATC
CAATATCA
Found at i:5662762 original size:13 final size:13
Alignment explanation
Indices: 5662744--5662768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5662734 AATAAAACAA
5662744 TAATATATATATG
1 TAATATATATATG
5662757 TAATATATATAT
1 TAATATATATAT
5662769 ATATATATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
TAATATATATATG
Found at i:5664138 original size:21 final size:23
Alignment explanation
Indices: 5664079--5664157 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 23
5664069 TGGCCTTGTG
5664079 CATCGATGCACATTCAAGGCGTT
1 CATCGATGCACATTCAAGGCGTT
* * *
5664102 CATC-AGTGCACCTTCATGGTG-T
1 CATCGA-TGCACATTCAAGGCGTT
*
5664124 -ATCGATGCACATTCAAAGG-GATG
1 CATCGATGCACATTC-AAGGCG-TT
5664147 CATCGATGCAC
1 CATCGATGCAC
5664158 TGTTAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
21 12 0.27
22 6 0.14
23 16 0.36
24 10 0.23
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (23 bp):
CATCGATGCACATTCAAGGCGTT
Found at i:5669955 original size:19 final size:17
Alignment explanation
Indices: 5669931--5669979 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
5669921 TTGGACCCTT
*
5669931 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TAA
*
5669949 GAGTGCAGCGATGCATAA
1 -AGTGCATCGATGCATAA
5669967 AGTGCATTCGATG
1 AGTGCA-TCGATG
5669980 TTTCAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 8 0.31
19 12 0.46
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (17 bp):
AGTGCATCGATGCATAA
Found at i:5671350 original size:23 final size:23
Alignment explanation
Indices: 5671324--5671368 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5671314 CTTTGGTCAA
5671324 GTTTTGAAGTAGAAGAAGATAAT
1 GTTTTGAAGTAGAAGAAGATAAT
* *
5671347 GTTTTTAAGTGGAAGAAGATAA
1 GTTTTGAAGTAGAAGAAGATAA
5671369 CAAGAAGGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (23 bp):
GTTTTGAAGTAGAAGAAGATAAT
Found at i:5672897 original size:54 final size:54
Alignment explanation
Indices: 5672834--5673223 Score: 559
Period size: 54 Copynumber: 7.2 Consensus size: 54
5672824 TAATGTATGT
* *
5672834 ACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAATTTCCGTATTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGC
*
5672888 ACTATGTGTGTAACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGC
* *
5672942 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTATTGAC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGC
* * * * *
5672996 ATTATGTGTGCAACCTAAGAAATTCATAAAGAGTTTATGCATTTATTTATT-GC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGC
* * * *
5673049 ACTATGTGTGCATCATAAGAAGTTCATAATGAGTTTATGAATTTTTGTATTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGC
* * *
5673103 ACTATGTGTGAAACTTAAGAAATTCATAACGAGTTTATGAATTTCTGTATTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGC
* * *
5673157 ACTGTATGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTT-TCATATTGGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCT-GTATTGGC
* *
5673211 ACTAAGGGTGCAA
1 ACTATGTGTGCAA
5673224 ACCATAGAAG
Statistics
Matches: 297, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
53 45 0.15
54 252 0.85
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (54 bp):
ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGC
Found at i:5673102 original size:161 final size:162
Alignment explanation
Indices: 5672834--5673223 Score: 566
Period size: 161 Copynumber: 2.4 Consensus size: 162
5672824 TAATGTATGT
* * *
5672834 ACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAATTTCCGTATTGGCACTATGTGTGT
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTACGTATTGGCACTATGTGTGC
* *
5672899 AACCTAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGCACTATGTGTGCAACCTAAGAAA
66 AACATAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGCACTATGTGTGAAACCTAAGAAA
*
5672964 TTCATAATGAGTTTATGAATTTCCGTATTGAC
131 TTCATAACGAGTTTATGAATTTCCGTATTGAC
* * * **
5672996 ATTATGTGTGCAACCTAAGAAATTCATAAAGAGTTTATGCATTTATTTATT-GCACTATGTGTGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTACGTATTGGCACTATGTGTGC
* * * *
5673060 ATCATAAGAAGTTCATAATGAGTTTATGAATTTTTGTATTGGCACTATGTGTGAAACTTAAGAAA
66 AACATAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGCACTATGTGTGAAACCTAAGAAA
* *
5673125 TTCATAACGAGTTTATGAATTTCTGTATTGGC
131 TTCATAACGAGTTTATGAATTTCCGTATTGAC
* * * * * *
5673157 ACTGTATGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTTCATATTGGCACTAAGGGTGC
1 ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTACGTATTGGCACTATGTGTGC
5673222 AA
66 AA
5673224 ACCATAGAAG
Statistics
Matches: 199, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
161 143 0.72
162 56 0.28
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.37
Consensus pattern (162 bp):
ACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTACGTATTGGCACTATGTGTGC
AACATAAGAAATTCATAATGAGTTTATGAATTTCTGTATTGGCACTATGTGTGAAACCTAAGAAA
TTCATAACGAGTTTATGAATTTCCGTATTGAC
Found at i:5679776 original size:54 final size:54
Alignment explanation
Indices: 5679707--5680129 Score: 688
Period size: 54 Copynumber: 7.8 Consensus size: 54
5679697 TGTATTGCAT
5679707 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
1 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
* *
5679761 TTTCTGTATTGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAA
1 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
* *
5679815 TTTTCGTATTGGCAGTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
1 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
** * *
5679869 TTTATGTATTGGCTCTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAA
1 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
5679923 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
1 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
5679977 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
1 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
* * *
5680031 TTTCCGTATTGGCACTGTGTATGCAACCTAAGAAATTCATAATGAGTTTATGAA
1 TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
* * *
5680085 TTTCCGTATTGGAACTAAGGGTGCAAACC-ATAGAAGTT-ATAATGA
1 TTTCCGTATTGGCACTATGTGTGC-AACCTA-AGAAGTTCATAATGA
5680130 ATTGAAATAG
Statistics
Matches: 343, Mismatches: 24, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
54 333 0.97
55 10 0.03
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (54 bp):
TTTCCGTATTGGCACTATGTGTGCAACCTAAGAAGTTCATAATGAGTTTATGAA
Found at i:5681615 original size:31 final size:31
Alignment explanation
Indices: 5681577--5681641 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
5681567 AGTTGCCTCC
*
5681577 TTCATGGATAAGAGTATTGAAATACCTCTGT
1 TTCATGGATAAGAGTATAGAAATACCTCTGT
5681608 TTCATGGATAAGAGTATAGAAATACCTCTGT
1 TTCATGGATAAGAGTATAGAAATACCTCTGT
5681639 TTC
1 TTC
5681642 GACAGGAATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (31 bp):
TTCATGGATAAGAGTATAGAAATACCTCTGT
Found at i:5682296 original size:17 final size:17
Alignment explanation
Indices: 5682274--5682314 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
5682264 CACATAAAGG
5682274 TAATTTTAATAAAAAAT
1 TAATTTTAATAAAAAAT
* *
5682291 TAATTTTACTAAAATAT
1 TAATTTTAATAAAAAAT
*
5682308 TAGTTTT
1 TAATTTT
5682315 GGTCTTCGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TAATTTTAATAAAAAAT
Found at i:5683495 original size:14 final size:14
Alignment explanation
Indices: 5683451--5683496 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
5683441 ATTGTTTTAG
*
5683451 AATAATATTTTAAT-
1 AATAATA-TTAAATA
5683465 AATAATATTAACATA
1 AATAATATTAA-ATA
5683480 AATAATATTAAATA
1 AATAATATTAAATA
5683494 AAT
1 AAT
5683497 TATTATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.10
14 15 0.52
15 11 0.38
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
AATAATATTAAATA
Found at i:5684106 original size:2 final size:2
Alignment explanation
Indices: 5684099--5684152 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
5684089 TGTGAAAAGA
5684099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5684141 AT AT AT AT AT AT
1 AT AT AT AT AT AT
5684153 TATCTTTTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5684984 original size:20 final size:20
Alignment explanation
Indices: 5684958--5685027 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
5684948 AAGTAACGAG
5684958 TTTGACAAAACCGATTGGAAA
1 TTTGACAAAACCGATT-GAAA
* *
5684979 -TTGACATAACCGGTTGAAA
1 TTTGACAAAACCGATTGAAA
**
5684998 TTTGACAAAACC-AGTTTTAA
1 TTTGACAAAACCGA-TTGAAA
5685018 TTTGACAAAA
1 TTTGACAAAA
5685028 TTGATACCAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
19 4 0.10
20 37 0.90
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (20 bp):
TTTGACAAAACCGATTGAAA
Found at i:5687461 original size:12 final size:12
Alignment explanation
Indices: 5687446--5687487 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
5687436 TGATAAGGAT
5687446 GAATAAGAGAAG
1 GAATAAGAGAAG
5687458 GAATAAGAGAAG
1 GAATAAGAGAAG
* * *
5687470 GTAGAAGAGAAT
1 GAATAAGAGAAG
5687482 GAATAA
1 GAATAA
5687488 TATAAGGCAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.31, T:0.12
Consensus pattern (12 bp):
GAATAAGAGAAG
Found at i:5692449 original size:199 final size:198
Alignment explanation
Indices: 5691895--5695174 Score: 3865
Period size: 199 Copynumber: 16.5 Consensus size: 198
5691885 GTTGTGAAAA
* * * * * * *
5691895 TATCAATACTTTTATTCTAGTATGCTTCTCGAACAATTTTCTCGCAAAATGTAACGATACAAATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* * * * *
5691960 TATAAAGTATTGATACTTGTAATTTTGAAACATATTACTTTGAATTAATAGGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * * *
5692025 -AACACGGT-AAATTCTACCGGAATATTGATAATAGGCGTAAATACCAAGTATCAATACTTTTAT
131 TAA-ACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATA-CAAATATCGATACTTTTAT
*
5692088 ATATG
194 ATAGG
* * ** * * ** * *
5692093 TATCGATACCTTAAACCCAATATGCATCTCAAACAATTTGCACATAAAATGTATTGATAAACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* * *
5692158 TATAAAGTAT--A-A--T----TTT-GAAACTTAATACTTTGAAGTAATAAGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
** *
5692213 TAAACGGTAAAATTCTACCTATATATTGATAATAGGCGTAAATACCAAATATCGATACTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATA-CAAATATCGATACTTTTATA
5692278 TAGG
195 TAGG
* * * * * **
5692282 TGTCGATATTTTTATTCTAGCATGCTTCTCAAACAATTTGGACGCATTATGTATCGATACACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* * *
5692347 TATAAATTATCGATACTTGGAATTTCGAAACCTATTACTTTAAAATAATAGGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
** * * *
5692412 TAAACGGTAAAATTCTACCTATATAAT-ACTAATAGGCGTATATACAAAGTTTCAATACTTTTAT
131 TAAACGGTAAAATTCTACCGGTATAATGA-TAATAGGCGTAAATACAAA-TATCGATACTTTTAT
*
5692476 ATATG
194 ATAGG
* * * * ** *
5692481 TGTCGATACTTTTATTCCAGTATGCTTTTCAAACAATTTACTCATAAAATGTATCGATACACGTA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* * * *
5692546 TATAAAGTATTGATACTTGGAATTTCGAAACCTATCACTTCGAAGTAATAAGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * * * *
5692611 TAAACGATAAAATTCTATCGGTATATTGATAATAGGCGTAAATACCAAGTATCGATACTTTTATC
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATA-CAAATATCGATACTTTTATA
5692676 TAGG
195 TAGG
* * * *
5692680 TATCGATACTTTTAAT-CAGTATACTTCTCAAACAAATTGCACGCAAAATGTATCGATACATATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* * * *
5692744 TATAAAGTATTGATACTTGGAATTTTGAAACATATTACTTTGAACTAATAGGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * * *
5692809 TGAAA-GGTAAAATTCTACTGGTATAATGATAATAGGCATAAATACAAGTATCGATTCTTTTATA
131 T-AAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAATATCGATACTTTTATA
*
5692873 TAAG
195 TAGG
* * *
5692877 TATGGATACTTTTATTCCAGTATACTTCTCAAACAATTTGCACTCAAAATGTATCGATACACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
*
5692942 TATAAAGTATCGATACTTGGAATTTTGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* ** * * * * *
5693007 CAAACGGTAAAATTCTACAAGTATATTGATAATAGGCATAAATACCAAGTATCGGTAGTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATA-CAAATATCGATACTTTTATA
* *
5693072 AATG
195 TAGG
* * ** * * * * *
5693076 TATCGATACCTTAAACCCAGTATGTTTATCAAACAATTTGCACGCAAAATGTATCGCTGCACAAA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
** * * *
5693141 TATAAAGTATCGATACTTATAATTTCAAAACCTATTACTTTGAAATAATAAGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * *
5693206 TAAACTGTAAAATTCTACTGGTATAATGATAATAGGCGTAAATACAAAGTATCAATACTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAA-TATCGATAC-TTT-TA
5693271 TTAATATTGATACTTTTATATTAG
193 -T-ATA--G--------------G
* * * *
5693295 TATCGATACTTTTATTCCAATATGCTTCTCAAA-AATTTTGCACGCAATATGTATCAATACAAAT
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAA-TTTGCACGCAAAATGTATCGATACACAT
* *
5693359 ATATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTGAAGTAATAGGTAAATTAACAAA
65 ATATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAAT
* * * * *
5693424 GTAAACGGTAAAATTCTACCGGTATATTGATAATAGGCATAAATACCAAGTATCGGTAGTTTTAT
130 GTAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATA-CAAATATCGATACTTTTAT
* **
5693489 AAATA
194 ATAGG
* * ** * * * * *
5693494 TATCGATACCTTAAACCCAATATGCTTCTCAAATATTTTGCATGTAAAATGTATCGATACACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
** ** *
5693559 TATAAAGTATAAATACTTATAATTTCGAAACCTATTACTTTGAAGTAATAAGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
*
5693624 TAAACGGTAAAATTCTACCGATATAATGATAATAGGCGTAAATACAAAGTATCGATACTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAA-TATCGATACTTTTATA
*
5693689 TTGG
195 TAGG
* * * * * * * *
5693693 TATCGATACTTTTATTCTAATGTGTTTCTCAAACAATTTCCACGCAATATGTATCAATACAAATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
*
5693758 TATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * * * **
5693823 TAAATGGTAAAATTTTACTGGTATAATAATAATAGGTTTAAATACAAAGTATCGATACTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAA-TATCGATACTTTTATA
5693888 TAGG
195 TAGG
** *
5693892 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCATTATGTGTCGATACACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* * *
5693957 TATAAAGTATCGATACTTGGAATTTTGAAACCTATTACTTTGAAATAATAGGTAAATTAAAAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * * *
5694022 TAAACGGTAAAATTCTACCTGTATAATGATAATAGGCATATATACAAAGTATCAATACTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAA-TATCGATACTTTTATA
5694087 TAGG
195 TAGG
* * * *
5694091 TATCGATACTTTTATTCCAGTATGCTTTTCAAACAATTTGCTCTCAAAATGTAGCGATACACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* *
5694156 TATAAAGTATCGATACTTGGAATTTCAAAACCTATTACTTTCAAGTAATAGGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * * *
5694221 TAAATGGTAAAATTCTACCGGTATATTGATAATAGGCATAAATAGCAAGTATCGATACTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATA-CAAATATCGATACTTTTATA
5694286 TAGG
195 TAGG
* * * * ** *
5694290 TGTCGATACTTTTATTCTAGTATGTTTCTCAAACAATTTTCACGCATTATTTATCGATACACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* * *
5694355 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTTAAATAATAGGTAAATTAACAATA
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
** * ** *
5694420 TAAACGGTAAAATTCTACTTGTATGATGATAATAATCGTAAATACAAAGTATCAATACTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAA-TATCGATACTTTTATA
*
5694485 TTGG
195 TAGG
* * * * * **
5694489 TATGGATACTTTTATTTCAATATGCTTTTTAAACAATTTGCTTGCAAAATGTATCGATACACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* *
5694554 TATAAAGTATCGATACTTGGAATTTTGAAACCTATTACTTCGAAGTAATAGGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * * * *
5694619 TAAATGGTAAAATTCTACCGGTATATTGATAATAGGC------CCAAGTATCGATACTTTTAAAT
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAATATCGATACTTTTATAT
5694678 AGG
196 AGG
* * * * *
5694681 TATCGATACTTTTATTCTAGTATGCTTCTTAAACAGTTTGCACGCAAAATGTATCGATGCAAATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* * * * * *
5694746 TATAAAGTATTGATACCTGGAATTTTGAAACATGTTACTTTGAAGTAATAGGTAAATTAAAAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * *
5694811 TAAACGGTAAAATTCTACCGGTGTAATGATAATAGACGTAAATACAAAGTATCAATACTTTTATA
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAA-TATCGATACTTTTATA
5694876 TAGG
195 TAGG
* *
5694880 TATCGATACTTTTATTCCAGTATGCTTATCAAACAATTTGCACGCAAAATGTATCAATACACATA
1 TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
* *
5694945 TATAAAGTTTCGATACTTGGAATTTTGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
66 TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
* * * * * * *
5695010 TAAACGGTAAAATTCTACCAGTATATTGATAATTGGCGTAATTACCAAGTATCAATAGTTTTAT-
131 TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATA-CAAATATCGATACTTTTATA
*
5695074 TAATG
195 T-AGG
* ** *
5695079 TATCGATAC-CTTAAACCTAGTATGCTTCTCAAATAATTTGCACGCAAAATGTAAT-GATACACA
1 TATCGATACTTTTATTCC-AGTATGCTTCTCAAACAATTTGCACGCAAAATGT-ATCGATACACA
* * **
5695142 TATTTAAAGTATCGATGCTTATAATTTCGAAAC
64 TATATAAAGTATCGATACTTGGAATTTCGAAAC
5695175 GGTAAAATTC
Statistics
Matches: 2627, Mismatches: 397, Indels: 115
0.84 0.13 0.04
Matches are distributed among these distances:
188 40 0.02
189 116 0.04
191 1 0.00
192 165 0.06
193 4 0.00
194 1 0.00
195 1 0.00
196 1 0.00
197 38 0.01
198 360 0.14
199 1710 0.65
200 16 0.01
201 2 0.00
202 1 0.00
203 2 0.00
215 2 0.00
216 1 0.00
217 2 0.00
218 5 0.00
219 156 0.06
220 3 0.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (198 bp):
TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCACGCAAAATGTATCGATACACATA
TATAAAGTATCGATACTTGGAATTTCGAAACCTATTACTTTGAAGTAATAGGTAAATTAACAATG
TAAACGGTAAAATTCTACCGGTATAATGATAATAGGCGTAAATACAAATATCGATACTTTTATAT
AGG
Found at i:5692879 original size:20 final size:20
Alignment explanation
Indices: 5692854--5692891 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
5692844 GCATAAATAC
*
5692854 AAGTATCGATTCTTTTATAT
1 AAGTATCGATACTTTTATAT
*
5692874 AAGTATGGATACTTTTAT
1 AAGTATCGATACTTTTAT
5692892 TCCAGTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (20 bp):
AAGTATCGATACTTTTATAT
Found at i:5693285 original size:20 final size:20
Alignment explanation
Indices: 5693255--5693309 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
5693245 AAATACAAAG
*
5693255 TATCAATACTTTTATATTAA
1 TATCGATACTTTTATATTAA
* *
5693275 TATTGATACTTTTATATTAG
1 TATCGATACTTTTATATTAA
5693295 TATCGATACTTTTAT
1 TATCGATACTTTTAT
5693310 TCCAATATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (20 bp):
TATCGATACTTTTATATTAA
Found at i:5695478 original size:359 final size:359
Alignment explanation
Indices: 5694812--5695512 Score: 1023
Period size: 359 Copynumber: 2.0 Consensus size: 359
5694802 TTAAAAATGT
** *
5694812 AAACGGTAAAATTCTACCGGTGTAATGATAATAGACGTAAATACAAAGTATCAATACTTTTATAT
1 AAACGGTAAAATTCTACCGGTAAAATGATAATAGACATAAATACAAAGTATCAATACTTTTATAT
*
5694877 AGGTATCGATACTTTTATTCCAGTATGCTTATCAAACAATTTGCACGCAAAATGTATCAATACAC
66 AGGTATCGATACTTTTATTCCAATATGCTTATCAAACAATTTGCACGCAAAATGTATCAATACAC
** *
5694942 ATATATAAAGTTTCGATACTTGGAATTTTGAAACCTATTACTTTGAAGTAATAGGTAAATTAACA
131 ATATATAAAGTTTCGATACTTGGAATTTCAAAACCTATTACTTTGAAGTAATAGATAAATTAACA
* * * * * * *
5695007 ATGTAAACGGTAAAATTCTACCAGTATATTGATAATTGGCGTAATTACCAAGTATCAATAGTTTT
196 ATGTAAACGGTAAAATTCTACCAGTATAATGATAATAGGAGTAAATACAAAATATCAATACTTTT
* * * *
5695072 ATTAATGTATCGATACCTTAAACCTAGTATGCTTCTCAAATAATTTGCACGCAAAATGTAAT-GA
261 ATTAATGTATCAATACCTTAAACATAGTATGCTTCTCAAACAATTTGCACGCAAAATAT-ATCGA
*
5695136 TACACATATTTAAAGTATCGATGCTTATAATTTCG
325 TACACATATATAAAGTATCGATGCTTATAATTTCG
* **
5695171 AAACGGTAAAATTCTACCGGTAAAATGATAATAGGCATAAATACAAAGTATTGATACTTTTATAT
1 AAACGGTAAAATTCTACCGGTAAAATGATAATAGACATAAATACAAAGTATCAATACTTTTATAT
* * * * * * *
5695236 TGGTATTGATAGTTTTATTCCAATATGTTTCTCAAACAATTTGCACGCAATATGTATCGATACAC
66 AGGTATCGATACTTTTATTCCAATATGCTTATCAAACAATTTGCACGCAAAATGTATCAATACAC
*
5695301 ATATATAAAGTATT-GATACTTGGAATTTCAAAACCTATTACTTTGAAGTAATATATAAATTAAC
131 ATATATAAAGT-TTCGATACTTGGAATTTCAAAACCTATTACTTTGAAGTAATAGATAAATTAAC
** *
5695365 AATGTAAACGGTAAAATTCTACTGGTATAATGATAATAGGAGTAAATATAAAATATCAATACTTT
195 AATGTAAACGGTAAAATTCTACCAGTATAATGATAATAGGAGTAAATACAAAATATCAATACTTT
* *
5695430 TA-TATATGTATCAATACTTTAATTCAT-GTATGCTTCTCAAACAATTTGCACGCAAAATATATC
260 TATTA-ATGTATCAATACCTTAA-ACATAGTATGCTTCTCAAACAATTTGCACGCAAAATATATC
5695493 GATACACATATATAAAGTAT
323 GATACACATATATAAAGTAT
5695513 TGATACTTGG
Statistics
Matches: 303, Mismatches: 35, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
358 4 0.01
359 295 0.97
360 4 0.01
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (359 bp):
AAACGGTAAAATTCTACCGGTAAAATGATAATAGACATAAATACAAAGTATCAATACTTTTATAT
AGGTATCGATACTTTTATTCCAATATGCTTATCAAACAATTTGCACGCAAAATGTATCAATACAC
ATATATAAAGTTTCGATACTTGGAATTTCAAAACCTATTACTTTGAAGTAATAGATAAATTAACA
ATGTAAACGGTAAAATTCTACCAGTATAATGATAATAGGAGTAAATACAAAATATCAATACTTTT
ATTAATGTATCAATACCTTAAACATAGTATGCTTCTCAAACAATTTGCACGCAAAATATATCGAT
ACACATATATAAAGTATCGATGCTTATAATTTCG
Found at i:5695511 original size:199 final size:199
Alignment explanation
Indices: 5695171--5695686 Score: 743
Period size: 199 Copynumber: 2.6 Consensus size: 199
5695161 TATAATTTCG
* *
5695171 AAACGGTAAAATTCTACCGGTAAAATGATAATAGGCATAAATACAAAGTATTGATACTTTTATAT
1 AAACGGTAAAATTCTACCGGTATAATGATAATAGGCATAAATACAAAGTATCGATACTTTTATAT
* * * * * *
5695236 -TGGTATTGATAGTTTTATTCCA-ATATGTTTCTCAAACAATTTGCACGCAATATGTATCGATAC
66 AT-GTATCGATACTTTTATT-CATGTATGCTTCTCAAACAATTTGCACGCAAAATATATCGATAC
* *
5695299 ACATATATAAAGTATTGATACTTGGAA-TTTCAAAACCTATTACTTTGAAGTAATATATAAATTA
129 ACATATATAAAGTATTGATACTTGGAACTTT-AAAACATATTACTTTGAAGTAATAGATAAATTA
*
5695363 ACAATGT
193 ACAATGC
* * * *
5695370 AAACGGTAAAATTCTACTGGTATAATGATAATAGG-AGTAAATATAAAATATCAATACTTTTATA
1 AAACGGTAAAATTCTACCGGTATAATGATAATAGGCA-TAAATACAAAGTATCGATACTTTTATA
* *
5695434 TATGTATCAATACTTTAATTCATGTATGCTTCTCAAACAATTTGCACGCAAAATATATCGATACA
65 TATGTATCGATACTTTTATTCATGTATGCTTCTCAAACAATTTGCACGCAAAATATATCGATACA
* *
5695499 CATATATAAAGTATTGATACTTGGAACTTTGAAACATATTACTTTGAAGTAATAGGTAAATTAAC
130 CATATATAAAGTATTGATACTTGGAACTTTAAAACATATTACTTTGAAGTAATAGATAAATTAAC
5695564 AATGC
195 AATGC
*
5695569 AAACGGTAAAATTCTACCGGTATAATGATAATAGGCATAAATACAAAGTATCGGTACTTTTATAT
1 AAACGGTAAAATTCTACCGGTATAATGATAATAGGCATAAATACAAAGTATCGATACTTTTATAT
* * * * *
5695634 AGGTATCGATACTTTTATTCCTGTATTCTTCTCAAACAATTTGTATGCAAAAT
66 ATGTATCGATACTTTTATTCATGTATGCTTCTCAAACAATTTGCACGCAAAAT
5695687 GTTAATTAAC
Statistics
Matches: 281, Mismatches: 31, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
198 3 0.01
199 273 0.97
200 5 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (199 bp):
AAACGGTAAAATTCTACCGGTATAATGATAATAGGCATAAATACAAAGTATCGATACTTTTATAT
ATGTATCGATACTTTTATTCATGTATGCTTCTCAAACAATTTGCACGCAAAATATATCGATACAC
ATATATAAAGTATTGATACTTGGAACTTTAAAACATATTACTTTGAAGTAATAGATAAATTAACA
ATGC
Found at i:5696170 original size:18 final size:18
Alignment explanation
Indices: 5696147--5696240 Score: 125
Period size: 18 Copynumber: 5.2 Consensus size: 18
5696137 CGAGACGCAG
***
5696147 TTCTTCTCAACCAAAACC
1 TTCTTCTCAACCAAGGTC
5696165 TTCTTCTCAACCAAGGTC
1 TTCTTCTCAACCAAGGTC
*
5696183 ATCTTCTCAACCAAGGTC
1 TTCTTCTCAACCAAGGTC
5696201 TTCTTCTCAACCAAGGTC
1 TTCTTCTCAACCAAGGTC
* **
5696219 TTTTTCTCAAGTAAGGTC
1 TTCTTCTCAACCAAGGTC
5696237 TTCT
1 TTCT
5696241 GATCAAATCA
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.35
Consensus pattern (18 bp):
TTCTTCTCAACCAAGGTC
Found at i:5696552 original size:2 final size:2
Alignment explanation
Indices: 5696545--5696580 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
5696535 ATGGTGAAAG
* *
5696545 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5696581 CTTTGGAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5699018 original size:124 final size:124
Alignment explanation
Indices: 5698798--5699047 Score: 491
Period size: 124 Copynumber: 2.0 Consensus size: 124
5698788 ATCGATACCC
5698798 ATACTATAAGTTTATGTATTTTAAATTTGAGGATTGTTGAAATATCAATACTAGTTATTAAAGAA
1 ATACTATAAGTTTATGTATTTTAAATTTGAGGATTGTTGAAATATCAATACTAGTTATTAAAGAA
5698863 TTGTACACATACTCCAAGTATCGACAATATTAATTTTAAAATATAAATTAAACTGGTAA
66 TTGTACACATACTCCAAGTATCGACAATATTAATTTTAAAATATAAATTAAACTGGTAA
5698922 ATACTATAAGTTTATGTATTTTAAATTTGAGGATTGTTGAAATATCAATACTAGTTATTAAAGAA
1 ATACTATAAGTTTATGTATTTTAAATTTGAGGATTGTTGAAATATCAATACTAGTTATTAAAGAA
*
5698987 TTGTACACATACTCCCAGTATCGACAATATTAATTTTAAAATATAAATTAAACTGGTAA
66 TTGTACACATACTCCAAGTATCGACAATATTAATTTTAAAATATAAATTAAACTGGTAA
5699046 AT
1 AT
5699048 TATTTAAAAC
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 125 1.00
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.38
Consensus pattern (124 bp):
ATACTATAAGTTTATGTATTTTAAATTTGAGGATTGTTGAAATATCAATACTAGTTATTAAAGAA
TTGTACACATACTCCAAGTATCGACAATATTAATTTTAAAATATAAATTAAACTGGTAA
Found at i:5699151 original size:74 final size:76
Alignment explanation
Indices: 5699067--5699230 Score: 244
Period size: 76 Copynumber: 2.2 Consensus size: 76
5699057 CTTAACCGGT
* *
5699067 TAAAATAAAATAGGTGCTACCTATTAC-AT-TAATCACCTACCGGTTTGT-TTAAAGGTTACTGA
1 TAAAATAAAATAGGTGCTACCTATTACGATATAAT-ACCTACCGGTTTGTATAAAAGGTTACTAA
5699129 TAATGTAAACGA
65 TAATGTAAACGA
* *
5699141 TAAAATAAAATATGTGCTACCTATTACGTTATAATACCTACCGGTTTGTATAAAAGGTTACTAAT
1 TAAAATAAAATAGGTGCTACCTATTACGATATAATACCTACCGGTTTGTATAAAAGGTTACTAAT
* *
5699206 AATGTATACGG
66 AATGTAAACGA
5699217 TAAAATAAAATAGG
1 TAAAATAAAATAGG
5699231 CGGTACTTCT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
74 26 0.32
75 15 0.19
76 39 0.49
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (76 bp):
TAAAATAAAATAGGTGCTACCTATTACGATATAATACCTACCGGTTTGTATAAAAGGTTACTAAT
AATGTAAACGA
Found at i:5699578 original size:16 final size:16
Alignment explanation
Indices: 5699557--5699590 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
5699547 GTAAATGTAC
5699557 AAGTATCGATACTTAT
1 AAGTATCGATACTTAT
*
5699573 AAGTATCGATTCTTAT
1 AAGTATCGATACTTAT
5699589 AA
1 AA
5699591 TTTCGAAACC
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:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (16 bp):
AAGTATCGATACTTAT
Found at i:5699615 original size:126 final size:127
Alignment explanation
Indices: 5699315--5699643 Score: 380
Period size: 128 Copynumber: 2.6 Consensus size: 127
5699305 GATACCCATA
* * *
5699315 TATAAAATATCGATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAAGTAAATTTACAACG
1 TATAAAATATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAAGTAAATTAACAATG
* * * * *
5699380 AAAACGGTAAAAGTCTACCTGTATAATGATAATAGGCGTAAACATCAAGTATTGATACACATG
66 TACACGGTAAAAGTCTACCTGTATAATAAAAATAGGCGTAAACATCAAGTATCGATA-ACATG
* ** * *
5699443 TATAAAATATCGATACGTGGAATTTCGAAACATATTACTTTAAAGTAATAGGTAAATTAACAATG
1 TATAAAATATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAAGTAAATTAACAATG
* * * **
5699508 TACACGGTAAACGTTTCTATC-GATATAATAAAAATAGGTGTAAATGTACAAGTATCGAT-AC-T
66 TACACGGTAAAAG--TCTACCTG-TATAATAAAAATAGGCGTAAACAT-CAAGTATCGATAACAT
5699570 -
127 G
* * * *
5699570 TAT-AAGTATCGATTCTTATAATTTCGAAACCTATTACTTTAAAGTAATATGCAAATTAACAATG
1 TATAAAATATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAAGTAAATTAACAATG
5699634 TACACGGTAA
66 TACACGGTAA
5699644 TATCTTGATA
Statistics
Matches: 171, Mismatches: 26, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
126 63 0.37
127 3 0.02
128 68 0.40
129 3 0.02
130 24 0.14
131 10 0.06
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (127 bp):
TATAAAATATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAAGTAAATTAACAATG
TACACGGTAAAAGTCTACCTGTATAATAAAAATAGGCGTAAACATCAAGTATCGATAACATG
Found at i:5700049 original size:226 final size:225
Alignment explanation
Indices: 5699641--5700386 Score: 934
Period size: 226 Copynumber: 3.4 Consensus size: 225
5699631 ATGTACACGG
* * *
5699641 TAATATCTTGATAATATTGAAAACAAATCAAGTAATTA-ATCTATTTTGTTATCGTCGGATTTCT
1 TAATATGTTGATAATATTAAAAACAAATCAAGTAATTACCT-TATTTTGTTATCGTCGGATTTCT
* * * * * *
5699705 AAGGGCCCATCATCTTTAAACATGCGCTACCTATTCCATTAAATAAGCGCTACTTGTTATGTTAT
65 AAGGCCCCATCAACTTTAAACAGGCGCTACCTATTACATTAAATAA-AGTTACTTGTTATGTTAT
* * * * *
5699770 TATGGTTAATATTGTTTCCAGTAATTAACCTATTTTGTTATCTTTTA-ATTTCTAAGACTCCATC
129 TATGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATC-GTTAGATTTCTAAGGCTCCATC
* *
5699834 AGCTTAAACTTTAGTAACATTTTATGCGCTACC
193 AGCTTAAACTTTGGTAACATTTTAGGCGCTACC
*
5699867 TAATATGTTGATAATATTAAAAACAAATAAAGTAATTACCTTATTTTGTTATCGTCGGATTTCTA
1 TAATATGTTGATAATATTAAAAACAAATCAAGTAATTACCTTATTTTGTTATCGTCGGATTTCTA
* *
5699932 AGACCCCATTAACTTTAAACAGGCGCTACCTATTACATTAAATAAATGTTACTTGTTATGTTATT
66 AGGCCCCATCAACTTTAAACAGGCGCTACCTATTACATTAAATAAA-GTTACTTGTTATGTTATT
* * * *
5699997 ATGGATGATAATGTTTACAGTAATTAATCTATTTTGTTATCGTTGGATTTCTAAGGCTCAATCAG
130 ATGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTTAGATTTCTAAGGCTCCATCAG
*
5700062 CTTAATCTTTGGTAACATTTTAGGCGCTACC
195 CTTAAACTTTGGTAACATTTTAGGCGCTACC
* *
5700093 TAATATGTTGATAATATTAAAAATAAATCAAGTAATTAACC-TATTTTGTTATCATCGGATTTCT
1 TAATATGTTGATAATATTAAAAACAAATCAAGTAATT-ACCTTATTTTGTTATCGTCGGATTTCT
* * * * **
5700157 AAGGTCCCGTCAGCTTTAAACAGGCGCTAAC-GCTAC--T---T--A-TTA--TGTTA---TATT
65 AAGGCCCCATCAACTTTAAACAGGCGCTACCTATTACATTAAATAAAGTTACTTGTTATGTTATT
* * * * *
5700208 ATGGTTGATAATGTTTTCGGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGGCCCCATCAA
130 ATGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTTAGATTTCTAAGGCTCCATCAG
*
5700273 CTTAAACTTTGGTAACATTTTAGGCGCTACT
195 CTTAAACTTTGGTAACATTTTAGGCGCTACC
* * * *
5700304 TAATATGTTGATAATATTGATAA-AAATCAAGTAATTAACTTTTTTTGTTATCGTCGGATTTCTA
1 TAATATGTTGATAATATTAAAAACAAATCAAGTAATTACCTTATTTTGTTATCGTCGGATTTCTA
*
5700368 AGGCCCCATCAATTTTAAA
66 AGGCCCCATCAACTTTAAA
5700387 AAGGATCTAT
Statistics
Matches: 460, Mismatches: 55, Indels: 26
0.85 0.10 0.05
Matches are distributed among these distances:
209 2 0.00
210 50 0.11
211 110 0.24
214 5 0.01
216 3 0.01
218 1 0.00
220 1 0.00
223 1 0.00
225 5 0.01
226 278 0.60
227 4 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (225 bp):
TAATATGTTGATAATATTAAAAACAAATCAAGTAATTACCTTATTTTGTTATCGTCGGATTTCTA
AGGCCCCATCAACTTTAAACAGGCGCTACCTATTACATTAAATAAAGTTACTTGTTATGTTATTA
TGGTTGATAATGTTTACAGTAATTAACCTATTTTGTTATCGTTAGATTTCTAAGGCTCCATCAGC
TTAAACTTTGGTAACATTTTAGGCGCTACC
Found at i:5700431 original size:20 final size:20
Alignment explanation
Indices: 5700375--5700431 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
5700365 CTAAGGCCCC
* * *
5700375 ATCAATTTTAAAAAGGATCT
1 ATCAACTTTAAAAAGGCTCG
*
5700395 ATCAGCTTTAAAAAGGCTCG
1 ATCAACTTTAAAAAGGCTCG
5700415 ATCAACTTTAAAAAGGC
1 ATCAACTTTAAAAAGGC
5700432 CCTACCTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (20 bp):
ATCAACTTTAAAAAGGCTCG
Found at i:5707092 original size:29 final size:29
Alignment explanation
Indices: 5707051--5707129 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
5707041 ACTAAATTTG
5707051 AATCAT-GAAACAAATAAGAGACTACTTA
1 AATCATGGAAACAAATAAGAGACTACTTA
5707079 AATCATGGAAACAAATAAGAGACTACTTA
1 AATCATGGAAACAAATAAGAGACTACTTA
*
5707108 AATCATGGAAACAAATGAGAGA
1 AATCATGGAAACAAATAAGAGA
5707130 AAGATGGAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 6 0.12
29 43 0.88
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (29 bp):
AATCATGGAAACAAATAAGAGACTACTTA
Found at i:5709867 original size:16 final size:16
Alignment explanation
Indices: 5709846--5709878 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
5709836 TAATAAATAA
5709846 ACGAACATAAAAGAAC
1 ACGAACATAAAAGAAC
*
5709862 ACGAACATAAATGAAC
1 ACGAACATAAAAGAAC
5709878 A
1 A
5709879 AATTTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.61, C:0.18, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAAAGAAC
Found at i:5709991 original size:16 final size:16
Alignment explanation
Indices: 5709950--5709992 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
5709940 ATAAATAAAT
* *
5709950 GAACATAAACGAACGC
1 GAACATAAATGAACAC
5709966 GAACATAAATGAACAC
1 GAACATAAATGAACAC
5709982 GAACATAAATG
1 GAACATAAATG
5709993 TTGGAGACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (16 bp):
GAACATAAATGAACAC
Found at i:5710481 original size:14 final size:14
Alignment explanation
Indices: 5710464--5710495 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
5710454 AATGAACATA
5710464 AACGAACATAACCG
1 AACGAACATAACCG
5710478 AACGAACATAACCG
1 AACGAACATAACCG
5710492 AACG
1 AACG
5710496 TTCACGAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.28, G:0.16, T:0.06
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:5710909 original size:21 final size:19
Alignment explanation
Indices: 5710883--5710930 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
5710873 TTGTTTTTCA
5710883 TTTATTTTATTCTAGCGTGTT
1 TTTATTTTATTCTA--GTGTT
* *
5710904 TTTATTTTTTTCTAGTTTT
1 TTTATTTTATTCTAGTGTT
5710923 TTTATTTT
1 TTTATTTT
5710931 TAATAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 12 0.48
21 13 0.52
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTATTTTATTCTAGTGTT
Found at i:5710926 original size:19 final size:20
Alignment explanation
Indices: 5710883--5710931 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
5710873 TTGTTTTTCA
*
5710883 TTTATTTTATTCTAGCGTGTT
1 TTTATTTTTTTCTA-CGTGTT
*
5710904 TTTATTTTTTTCTA-GTTTT
1 TTTATTTTTTTCTACGTGTT
5710923 TTTATTTTT
1 TTTATTTTT
5710932 AATAATTCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 13 0.50
21 13 0.50
ACGTcount: A:0.12, C:0.06, G:0.08, T:0.73
Consensus pattern (20 bp):
TTTATTTTTTTCTACGTGTT
Found at i:5711003 original size:23 final size:24
Alignment explanation
Indices: 5710937--5711004 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
5710927 TTTTTAATAA
*
5710937 TTCTGTCTTTATGACACG-TCTTC
1 TTCTGTCTTTATGACACGTTTTTC
** *
5710960 TTCTGTCTTTATGGTAAGTTTTTC
1 TTCTGTCTTTATGACACGTTTTTC
*
5710984 -TCTGCCTTTATGACACGTTTT
1 TTCTGTCTTTATGACACGTTTT
5711005 CGATCATTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
23 32 0.89
24 4 0.11
ACGTcount: A:0.13, C:0.21, G:0.15, T:0.51
Consensus pattern (24 bp):
TTCTGTCTTTATGACACGTTTTTC
Found at i:5718294 original size:38 final size:38
Alignment explanation
Indices: 5718251--5718329 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
5718241 CCTTTTAAAC
*
5718251 TAAGAATGGTCTAATTACTTTCTTGATCCTTCTGAATT
1 TAAGAACGGTCTAATTACTTTCTTGATCCTTCTGAATT
5718289 TAAGAACGGTCTAATTACTTTCTTGATCCTTCTGAATT
1 TAAGAACGGTCTAATTACTTTCTTGATCCTTCTGAATT
5718327 TAA
1 TAA
5718330 TTGTAAACTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (38 bp):
TAAGAACGGTCTAATTACTTTCTTGATCCTTCTGAATT
Found at i:5727312 original size:20 final size:20
Alignment explanation
Indices: 5727287--5727344 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
5727277 AATTATTCCA
*
5727287 GTTCATCTAGTATCGATATT
1 GTTCATCCAGTATCGATATT
5727307 GTTCATCCAGTATCGATATT
1 GTTCATCCAGTATCGATATT
5727327 GTTCATCCAGTATCGATA
1 GTTCATCCAGTATCGATA
5727345 CCCTAGCTTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (20 bp):
GTTCATCCAGTATCGATATT
Found at i:5728305 original size:19 final size:19
Alignment explanation
Indices: 5728281--5728334 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
5728271 ACATTTATTT
*
5728281 ATTTTCAGATTCATAGCTC
1 ATTTTCAGATTCATAACTC
* *
5728300 ATTTTCAGATTTAGAACTC
1 ATTTTCAGATTCATAACTC
5728319 ATTTTCAGATTCATAA
1 ATTTTCAGATTCATAA
5728335 TCCAATGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (19 bp):
ATTTTCAGATTCATAACTC
Found at i:5728431 original size:34 final size:34
Alignment explanation
Indices: 5728388--5728478 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 34
5728378 AAGTGTGAAC
* *
5728388 AATAAGCACTCCAGGTGCTATCAATAGAAACAAA
1 AATAAGCACTCCAAGTGCAATCAATAGAAACAAA
* * ** *
5728422 AATACGCACTCCAAGTGCAATCATTAGGTACAGA
1 AATAAGCACTCCAAGTGCAATCAATAGAAACAAA
* *
5728456 AATATGCACTCCAAGTACAATCA
1 AATAAGCACTCCAAGTGCAATCA
5728479 TATAATGTAC
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.20
Consensus pattern (34 bp):
AATAAGCACTCCAAGTGCAATCAATAGAAACAAA
Found at i:5730562 original size:25 final size:25
Alignment explanation
Indices: 5730529--5730585 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
5730519 AACTTGTTCT
*
5730529 TCATACACTCAAATCATGAAATTCA
1 TCATCCACTCAAATCATGAAATTCA
5730554 TCATCCACTCAAATCATGAAATTCA
1 TCATCCACTCAAATCATGAAATTCA
5730579 TCATCCA
1 TCATCCA
5730586 AGCATGTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.40, C:0.28, G:0.04, T:0.28
Consensus pattern (25 bp):
TCATCCACTCAAATCATGAAATTCA
Found at i:5733231 original size:172 final size:169
Alignment explanation
Indices: 5732909--5733402 Score: 374
Period size: 171 Copynumber: 2.9 Consensus size: 169
5732899 TTGTGCAGGG
* ** * * * * * *
5732909 AATCTCTGCCATGTCATAGTGTCTCATCCCATTAAGCATTAGAGTTGTTAGGATGAATAGTTCCC
1 AATCTCTACCATAACATAATGTCTCATCTCATCAAGCATGAGAGTTGTTAGAATGAATAGCTCCC
* * * * * * * * *
5732974 CAAATGGAGGGGAA-ATTATTATG--CACATATGTTTCTAGAATTTTCAAAGAAT-TTTTCCAGA
66 C-AA---AGGGGAACATTA-TATGTACAAATAAGTTTCTAGAATATGCAGAGAATATCTACAAAA
* * ** * *
5733035 AAAAGGAATG-CTCTTTTAACAAGAAGTATTTTCACATTATTTAGGG
126 AAAAAGAA-GACTCTTTTCACAAGAAG-A-TTTCACATTATACAAGA
* * * * *
5733081 AATCTTTACCATAACATAGTGTCTCATC-CTATCAAGTATGAGAGTTGTTTGGATGAATAG-TCC
1 AATCTCTACCATAACATAATGTCTCATCTC-ATCAAGCATGAGAGTTGTTAGAATGAATAGCTCC
* * * * * * * *
5733144 ATCGAA-GGGAACATTATTGTGTACATATATGTTTTTGGAATATGTAGAGAATATCTACAAAAAA
65 -CCAAAGGGGAACATTA-TATGTACAAATAAGTTTCTAGAATATGCAGAGAATATCTACAAAAAA
* * *
5733208 GAAGGAAGATTCTTTTCACAAGAACGATTTCACCTTATACAAGA
128 -AAAGAAGACTCTTTTCACAAGAA-GATTTCACATTATACAAGA
** ** * *
5733252 AATCTCTGTCATGTCATAATGTCTCATTTCATCAGGCATGAGAGTTGTTAGAATGAATAGCTCCC
1 AATCTCTACCATAACATAATGTCTCATCTCATCAAGCATGAGAGTTGTTAGAATGAATAGCTCCC
* *
5733317 CAAAGGGGAACATTATATGTACAAATAAGTTTCTAGAATATGCAGAGAATCTCTGCAAAAAAAAA
66 CAAAGGGGAACATTATATGTACAAATAAGTTTCTAGAATATGCAGAGAATATCTACAAAAAAAAA
*
5733382 GAAGACTATTTTCACAAGAAG
131 GAAGACTCTTTTCACAAGAAG
5733403 CGCTTTCACC
Statistics
Matches: 257, Mismatches: 53, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
167 5 0.02
168 9 0.04
169 1 0.00
170 42 0.16
171 114 0.44
172 85 0.33
173 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.32
Consensus pattern (169 bp):
AATCTCTACCATAACATAATGTCTCATCTCATCAAGCATGAGAGTTGTTAGAATGAATAGCTCCC
CAAAGGGGAACATTATATGTACAAATAAGTTTCTAGAATATGCAGAGAATATCTACAAAAAAAAA
GAAGACTCTTTTCACAAGAAGATTTCACATTATACAAGA
Found at i:5733310 original size:171 final size:168
Alignment explanation
Indices: 5733118--5733520 Score: 454
Period size: 170 Copynumber: 2.4 Consensus size: 168
5733108 CCTATCAAGT
*
5733118 ATGAGAGTTGTTTGGATGAATAGTCCATCGAA-GGGAACATTATTGTGTACATATATGTTTTTGG
1 ATGAGAGTTG-TTGGATGAATAGTCC-TCGAAGGGGAACATTATT-TGTACATATATGTTTTTAG
* * * *
5733182 AATATGTAGAGAATATCTACAAAAAAGAAGGAAGATTCTTTTCACAAGAA-CGATTTCACCTTAT
63 AATATGCAGAGAATATCTACAAAAAA-AAAGAAGACTATTTTCACAAGAAGCGATTTCACCTTAT
* * ** *
5733246 -ACAAGAAATCTCTGTCATGTCATAATGTCTCATTTCATCAGGC
127 CAC-AG-AATCTCTGCCATGTCATAATGTCTAATACCATCAGAC
* * * * * * *
5733289 ATGAGAGTTGTTAGAATGAATAGCTCCCCAAAGGGGAACATTATATGTACAAATAAGTTTCTAGA
1 ATGAGAGTTGTT-GGATGAATAG-TCCTCGAAGGGGAACATTATTTGTACATATATGTTTTTAGA
* * *
5733354 ATATGCAGAGAATCTCTGCAAAAAAAAAGAAGACTATTTTCACAAGAAGCGCTTTCACCTTATCA
64 ATATGCAGAGAATATCTACAAAAAAAAAGAAGACTATTTTCACAAGAAGCGATTTCACCTTATCA
* *
5733419 CAGAATCTCTGCCATGTTATATTGTCTAATACCATCAGAC
129 CAGAATCTCTGCCATGTCATAATGTCTAATACCATCAGAC
* * *
5733459 ATGTGAGTTGTTGTGATAAATAATTCCTCGAAGGGGAACATTATTTGT-CAATATATGTTTTT
1 ATGAGAGTTGTTG-GATGAAT-AGTCCTCGAAGGGGAACATTATTTGTAC-ATATATGTTTTT
5733521 TCTATTCATT
Statistics
Matches: 192, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
169 2 0.01
170 98 0.51
171 76 0.40
172 16 0.08
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (168 bp):
ATGAGAGTTGTTGGATGAATAGTCCTCGAAGGGGAACATTATTTGTACATATATGTTTTTAGAAT
ATGCAGAGAATATCTACAAAAAAAAAGAAGACTATTTTCACAAGAAGCGATTTCACCTTATCACA
GAATCTCTGCCATGTCATAATGTCTAATACCATCAGAC
Found at i:5734392 original size:102 final size:102
Alignment explanation
Indices: 5734195--5734383 Score: 234
Period size: 102 Copynumber: 1.9 Consensus size: 102
5734185 CATTCGTCTT
* * * * *
5734195 CCAACTTATTCGACCTCAACATTGAAATAAAATCGACACAACAGCCCATTTAGAATCCATATGAC
1 CCAACTTATTCGACCTAAACATTGAAATAAAATCGACAAAACAACCCATTCAGAACCCATATGAC
*
5734260 AATATATCATCAAGTTCAAGGGAAAGACATTTATATA
66 AATATACCATCAAGTTCAAGGGAAAGACATTTATATA
* * ** * **
5734297 CCAACTTATTTGACCTAAATATTGAAATATTATCGACAAAACAATCCATTCAGAACCCATATGGT
1 CCAACTTATTCGACCTAAACATTGAAATAAAATCGACAAAACAACCCATTCAGAACCCATATGAC
* * *
5734362 AGTATGCCTTCAAGTTCAAGGG
66 AATATACCATCAAGTTCAAGGG
5734384 GTTGACATTC
Statistics
Matches: 71, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
102 71 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (102 bp):
CCAACTTATTCGACCTAAACATTGAAATAAAATCGACAAAACAACCCATTCAGAACCCATATGAC
AATATACCATCAAGTTCAAGGGAAAGACATTTATATA
Found at i:5736652 original size:18 final size:18
Alignment explanation
Indices: 5736629--5736663 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5736619 ACCAGTTACG
*
5736629 ACCCGACCTGACCCGTTC
1 ACCCGACCCGACCCGTTC
5736647 ACCCGACCCGACCCGTT
1 ACCCGACCCGACCCGTT
5736664 GACCGTTGAC
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:0.17, C:0.51, G:0.17, T:0.14
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTC
Found at i:5736719 original size:29 final size:29
Alignment explanation
Indices: 5736677--5736868 Score: 267
Period size: 29 Copynumber: 6.6 Consensus size: 29
5736667 CGTTGACCGT
*
5736677 GTGCTATTTTAGTAATTAATTCAAAATAG
1 GTGCTATTTTAGTAATTAATTCGAAATAG
* *
5736706 GTGCTATTTTAGTAATTAATTCAAAATGG
1 GTGCTATTTTAGTAATTAATTCGAAATAG
* *
5736735 GTGATATTTTAGTAATTAATTCGAAATGG
1 GTGCTATTTTAGTAATTAATTCGAAATAG
*
5736764 GTGCTATTTTAGTAATTAATTCGAAATAC
1 GTGCTATTTTAGTAATTAATTCGAAATAG
* * * *
5736793 ATGATATTTAAGTAATTAATTCGAAAGAG
1 GTGCTATTTTAGTAATTAATTCGAAATAG
* *
5736822 GTGTTATTTTAGTAATTAATTCGAAATGG
1 GTGCTATTTTAGTAATTAATTCGAAATAG
*
5736851 GTGATATTTTAGTAATTA
1 GTGCTATTTTAGTAATTA
5736869 TTTTAAAAAG
Statistics
Matches: 146, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 146 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (29 bp):
GTGCTATTTTAGTAATTAATTCGAAATAG
Found at i:5736830 original size:87 final size:87
Alignment explanation
Indices: 5736677--5736868 Score: 296
Period size: 87 Copynumber: 2.2 Consensus size: 87
5736667 CGTTGACCGT
** * *
5736677 GTGCTATTTTAGTAATTAATTCAAAATAGGTGCTATTTTAGTAATTAATTCAAAATGGGTGATAT
1 GTGCTATTTTAGTAATTAATTCAAAATACATGATATTTAAGTAATTAATTCAAAATGGGTGATAT
5736742 TTTAGTAATTAATTCGAAATGG
66 TTTAGTAATTAATTCGAAATGG
* * *
5736764 GTGCTATTTTAGTAATTAATTCGAAATACATGATATTTAAGTAATTAATTCGAAA-GAGGTGTTA
1 GTGCTATTTTAGTAATTAATTCAAAATACATGATATTTAAGTAATTAATTCAAAATG-GGTGATA
5736828 TTTTAGTAATTAATTCGAAATGG
65 TTTTAGTAATTAATTCGAAATGG
*
5736851 GTGATATTTTAGTAATTA
1 GTGCTATTTTAGTAATTA
5736869 TTTTAAAAAG
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
86 1 0.01
87 95 0.99
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (87 bp):
GTGCTATTTTAGTAATTAATTCAAAATACATGATATTTAAGTAATTAATTCAAAATGGGTGATAT
TTTAGTAATTAATTCGAAATGG
Found at i:5738031 original size:117 final size:117
Alignment explanation
Indices: 5737820--5738111 Score: 408
Period size: 117 Copynumber: 2.5 Consensus size: 117
5737810 GGAAGTATTT
* * * *
5737820 CAGGCTCCTTTGCTGTTTGCTCAGGGTAAGTCCTTTCTGGTGTGCAGGTGGATGTATGGTTTTGG
1 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
* *
5737885 GGAACCTACACATTGTAGTGATTGGAGTGACTGGATGGGGAAGTTATTACTA
66 GGAACCTACACATTGTAGTGATTGGAGTGACTAGATGGAGAAGTTATTACTA
*
5737937 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTAGTGTGCAGGTGGGTGTATGGTTCTGG
1 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
* *
5738002 GGAACCTACACATTGTAGTGA-TGGAAGTGACTAGATGGAGACGTTATTACTG
66 GGAACCTACACATTGTAGTGATTGG-AGTGACTAGATGGAGAAGTTATTACTA
* ** * * * *
5738054 CTGGCTCCTCGGCT-TCGTGCTTAGGATAAGTCCTTAATGGTGTACAGGTGGGTGTATG
1 CAGGCTCCTTTGCTGT-GTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
5738112 TTTCGGGAAA
Statistics
Matches: 156, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
116 4 0.03
117 152 0.97
ACGTcount: A:0.19, C:0.16, G:0.33, T:0.33
Consensus pattern (117 bp):
CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
GGAACCTACACATTGTAGTGATTGGAGTGACTAGATGGAGAAGTTATTACTA
Found at i:5744219 original size:29 final size:29
Alignment explanation
Indices: 5744177--5744332 Score: 231
Period size: 29 Copynumber: 5.4 Consensus size: 29
5744167 ACCGTTGATC
5744177 GGGTGCTATTTTAGTAATTAATTCGAAAT
1 GGGTGCTATTTTAGTAATTAATTCGAAAT
5744206 GGGTGCTATTTTAGTAATTAATTCGAAAT
1 GGGTGCTATTTTAGTAATTAATTCGAAAT
*
5744235 GGGTGATATTTTAGTAATTAATTCGAAAT
1 GGGTGCTATTTTAGTAATTAATTCGAAAT
** * *
5744264 AAGTGCTATTTTAGTAATGAATTTGAAAT
1 GGGTGCTATTTTAGTAATTAATTCGAAAT
* ** *
5744293 GGGTGCTATTTTAGTAATTATTTTAAAAA
1 GGGTGCTATTTTAGTAATTAATTCGAAAT
5744322 GGGTGCTATTT
1 GGGTGCTATTT
5744333 CTGTAAAATG
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 115 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (29 bp):
GGGTGCTATTTTAGTAATTAATTCGAAAT
Found at i:5745463 original size:117 final size:117
Alignment explanation
Indices: 5745255--5745465 Score: 282
Period size: 117 Copynumber: 1.8 Consensus size: 117
5745245 GAAGTATTTC
*
5745255 AGGCTCCTTTGTTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGG
1 AGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGG
* * * * * ** **
5745320 GAACCTACACATTGTAGTTATTGGAGTGACTGGATGGGGAAGTTATTATTGT
66 AAACATAAAAAGTGTAGAAACCGGAGTGACTGGATGGGGAAGTTATTATTGT
*
5745372 AGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGTTTC-GGG
1 AGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGG
*
5745436 AAAATATATAAAAGT-TAGAAACCGGAGTGA
66 -AAACATA-AAAAGTGTAGAAACCGGAGTGA
5745466 TTGAATGAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
116 3 0.04
117 74 0.93
118 3 0.04
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (117 bp):
AGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGGG
AAACATAAAAAGTGTAGAAACCGGAGTGACTGGATGGGGAAGTTATTATTGT
Found at i:5746591 original size:30 final size:30
Alignment explanation
Indices: 5746557--5746613 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
5746547 GTATTTTATC
*
5746557 GTATTGTATTTTATGTTATTTTAATTTAAT
1 GTATTGCATTTTATGTTATTTTAATTTAAT
5746587 GTATTGCATTTTATGTTATTTTAATTT
1 GTATTGCATTTTATGTTATTTTAATTT
5746614 TCATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.63
Consensus pattern (30 bp):
GTATTGCATTTTATGTTATTTTAATTTAAT
Found at i:5746606 original size:15 final size:14
Alignment explanation
Indices: 5746533--5746602 Score: 68
Period size: 15 Copynumber: 4.7 Consensus size: 14
5746523 TATATAATTT
*
5746533 TATTTTCTGATATTG
1 TATTTTATG-TATTG
5746548 TATTTTATCGTATTG
1 TATTTTAT-GTATTG
*
5746563 TATTTTATGTTATTT
1 TATTTTATG-TATTG
*
5746578 TAATTTAATGTATTG
1 T-ATTTTATGTATTG
*
5746593 CATTTTATGT
1 TATTTTATGT
5746603 TATTTTAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
14 9 0.20
15 29 0.63
16 8 0.17
ACGTcount: A:0.23, C:0.04, G:0.11, T:0.61
Consensus pattern (14 bp):
TATTTTATGTATTG
Found at i:5753891 original size:54 final size:54
Alignment explanation
Indices: 5753833--5754271 Score: 504
Period size: 54 Copynumber: 8.1 Consensus size: 54
5753823 TAAACTTATT
** *
5753833 ATGAA-TTCTGTGGGTTGCACACATAGTGCAAAAACGATTATTCATCAACATATG
1 ATGAATTTC-GTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATG
* * * * * *
5753887 ATGAAGTCCGTGGGTTGCACTCATAGTGCCGAAAAGGTTGTTCATCAACATATG
1 ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATG
* * *
5753941 ATGAATTTCGTTGGTTGCACACATAGTGCTGAAACGGTTGTTCATCAACATGTG
1 ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATG
* *
5753995 ATGAATTTCGTGGGTTGCACACATAGTGTTGAAATGGTTATTCATCAACATATG
1 ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATG
* * * * * * *
5754049 ATGAATTCCGTGGGTTGAACACATAGTACCGAAACGGTTGTTCATAAAAATATG
1 ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATG
* ** * *
5754103 ATGAATTTCATGAATTGCACACGTAGTGCCGAAACGGTTATTCATCAACATATG
1 ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATG
* ** * *
5754157 ATGAATTTCATGAATTGTACACTTAGTGCTGAAACGGTTATTCATCAACATATG
1 ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATG
** * * * *
5754211 ATGAATTTCGTGAATTGCACACTTTGTG-TCGAAATGGTTATTAATCAACATATG
1 ATGAATTTCGTGGGTTGCACACATAGTGCT-GAAACGGTTATTCATCAACATATG
*
5754265 ATTAATT
1 ATGAATT
5754272 CCATGAATTG
Statistics
Matches: 336, Mismatches: 47, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
53 1 0.00
54 333 0.99
55 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (54 bp):
ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATG
Found at i:5754046 original size:162 final size:162
Alignment explanation
Indices: 5753833--5754294 Score: 568
Period size: 162 Copynumber: 2.9 Consensus size: 162
5753823 TAAACTTATT
** * *
5753833 ATGAA-TTCTGTGGGTTGCACACATAGTGCAAAAACGATTATTCATCAACATATGATGAAGTCCG
1 ATGAATTTC-GTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATGATGAATTCCG
* * *
5753897 TGGGTTGCACTCATAGTGCCGAAAAGGTTGTTCATCAACATATGATGAATTTCGTTG-GTTGCAC
65 TGGGTTGCACACATAGTGCCGAAAAGGTTGTTCATCAACATATGATGAATTTC-ATGAATTGCAC
* * *
5753961 ACATAGTGCTGAAACGGTTGTTCATCAACATGTG
129 ACATAGTGCCGAAACGGTTATTCATCAACATATG
* *
5753995 ATGAATTTCGTGGGTTGCACACATAGTGTTGAAATGGTTATTCATCAACATATGATGAATTCCGT
1 ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATGATGAATTCCGT
* * * * *
5754060 GGGTTGAACACATAGTACCGAAACGGTTGTTCATAAAAATATGATGAATTTCATGAATTGCACAC
66 GGGTTGCACACATAGTGCCGAAAAGGTTGTTCATCAACATATGATGAATTTCATGAATTGCACAC
*
5754125 GTAGTGCCGAAACGGTTATTCATCAACATATG
131 ATAGTGCCGAAACGGTTATTCATCAACATATG
* ** * * *
5754157 ATGAATTTCATGAATTGTACACTTAGTGCTGAAACGGTTATTCATCAACATATGATGAATTTCGT
1 ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATGATGAATTCCGT
** * * * * * * * * *
5754222 GAATTGCACACTTTGTGTCGAAATGGTTATTAATCAACATATGATTAATTCCATGAATTGCACAG
66 GGGTTGCACACATAGTGCCGAAAAGGTTGTTCATCAACATATGATGAATTTCATGAATTGCACAC
*
5754287 TTAGTGCC
131 ATAGTGCC
5754295 TATTTGGTAA
Statistics
Matches: 256, Mismatches: 42, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
161 2 0.01
162 251 0.98
163 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (162 bp):
ATGAATTTCGTGGGTTGCACACATAGTGCTGAAACGGTTATTCATCAACATATGATGAATTCCGT
GGGTTGCACACATAGTGCCGAAAAGGTTGTTCATCAACATATGATGAATTTCATGAATTGCACAC
ATAGTGCCGAAACGGTTATTCATCAACATATG
Found at i:5757553 original size:2 final size:2
Alignment explanation
Indices: 5757546--5757606 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
5757536 CCACAAAAGC
5757546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5757588 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
5757607 CTTTCTGACA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5759861 original size:54 final size:54
Alignment explanation
Indices: 5759794--5760449 Score: 684
Period size: 54 Copynumber: 12.2 Consensus size: 54
5759784 TAAACTTATA
** * **
5759794 ATGAATTTTGTGGGTTGCACACATAGTGTCGAAACAATTATTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* ** * * * * *
5759848 ATGAAGTCCGTGGGTTGCATTCATTGTGCCGAAACAGTTGTTCTTAAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* * * ** *
5759902 ATGAATTCTGTGGGTTGCATACATAGTGCTGAAATAGTTGTTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* * *** *
5759956 ATGAATTCTGTGGGTTGCATACATAGTGCCGAATTAGTTGTTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* * * *
5760010 ATGAATTCCATGGGTTGCACACATAGTGCTGAAATGGTTGTTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* * *
5760064 ATGAATTCTGTGGGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACAAATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
** *
5760118 ATGAATTCCGTATGTTGCACACATAGTGCCGAAACGGTTGTTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* * ** * * *
5760172 ATGGATTCCATGAATTGCACACTTACTGCTGAAACGGTTATTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* ** * *
5760226 ATGAATTTCGTGAATTGCACACTTAGTGCCGAAA-GGTTATTCATCAACTTATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* ** ** * **
5760279 ATGAATTTCACGAATTGTACATTTAGTGCCGAAACGGTTATTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* ** * *
5760333 ATGAATTTCGTGAATTGTACACTTAGTGCCGAAACGGTTATTCATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
* ** * * * * *
5760387 ATGAATTTCGTGAATTGCACACTTTGTGTCGAAATGGTTATTAATCAACATATG
1 ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
*
5760441 ATTAATTCC
1 ATGAATTCC
5760450 ATGAATTGCA
Statistics
Matches: 535, Mismatches: 66, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
53 48 0.09
54 487 0.91
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (54 bp):
ATGAATTCCGTGGGTTGCACACATAGTGCCGAAACGGTTATTCATCAACATATG
Found at i:5759990 original size:28 final size:28
Alignment explanation
Indices: 5759895--5760092 Score: 98
Period size: 27 Copynumber: 7.3 Consensus size: 28
5759885 TTGTTCTTAA
*
5759895 ACATA-TGATGAATTCTGTGGGTTGCAT
1 ACATAGTGCTGAATTCTGTGGGTTGCAT
* * *
5759922 ACATAGTGCTGAAAT-AGT-TGTT-CAT
1 ACATAGTGCTGAATTCTGTGGGTTGCAT
*
5759947 CAACATA-TGATGAATTCTGTGGGTTGCAT
1 --ACATAGTGCTGAATTCTGTGGGTTGCAT
* * *
5759976 ACATAGTGCCGAATT-AGT-TGTT-CAT
1 ACATAGTGCTGAATTCTGTGGGTTGCAT
* ** *
5760001 CAACATA-TGATGAATTCCATGGGTTGCAC
1 --ACATAGTGCTGAATTCTGTGGGTTGCAT
* * *
5760030 ACATAGTGCTGAAAT-GGT-TGTT-CAT
1 ACATAGTGCTGAATTCTGTGGGTTGCAT
* *
5760055 CAACATA-TGATGAATTCTGTGGGTTGCAC
1 --ACATAGTGCTGAATTCTGTGGGTTGCAT
5760084 ACATAGTGC
1 ACATAGTGC
5760093 CGAAACGGTT
Statistics
Matches: 122, Mismatches: 30, Indels: 37
0.65 0.16 0.20
Matches are distributed among these distances:
25 8 0.07
26 30 0.25
27 45 0.37
28 32 0.26
29 7 0.06
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (28 bp):
ACATAGTGCTGAATTCTGTGGGTTGCAT
Found at i:5760159 original size:26 final size:26
Alignment explanation
Indices: 5760077--5760159 Score: 71
Period size: 26 Copynumber: 3.1 Consensus size: 26
5760067 AATTCTGTGG
5760077 GTTGCACACATAGTGCCGAAACGGTT
1 GTTGCACACATAGTGCCGAAACGGTT
* ** * *
5760103 GTT-CATCAACA-AATGATGAATTCCGTAT
1 GTTGCA-C-ACATAGTGCCGAA-ACGGT-T
5760131 GTTGCACACATAGTGCCGAAACGGTT
1 GTTGCACACATAGTGCCGAAACGGTT
5760157 GTT
1 GTT
5760160 CATCAACATA
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
25 2 0.05
26 14 0.34
27 12 0.29
28 11 0.27
29 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (26 bp):
GTTGCACACATAGTGCCGAAACGGTT
Found at i:5764907 original size:37 final size:37
Alignment explanation
Indices: 5764825--5765197 Score: 348
Period size: 37 Copynumber: 9.8 Consensus size: 37
5764815 ATATCTCTAT
* ** *
5764825 ATATATATATTATATAG-TTTGCAAACGGTTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAAC-ATTTTTGAAA
* *
5764862 ATACATATATAATATATAGTTTTTAAAATATTTTAGAAA
1 AT--ATATATAATATATAGTTTTTAAAACATTTTTGAAA
5764901 ATATATATAATATATAGTTTTTAAAATCA-TTTTGAAA
1 ATATATATAATATATAGTTTTTAAAA-CATTTTTGAAA
**
5764938 ACGTATATAATATATAGTTTTTAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
* *
5764975 ATTTATATAATATATAGTTTTGAAAACA-TTTTGAAAA
1 ATATATATAATATATAGTTTTTAAAACATTTTTG-AAA
* * * *
5765012 CATTTATATATTATGTAGTTTTTAAAAAAACA-TTTTAAAA
1 -ATATATATAATATATAGTTTTT---AAAACATTTTTGAAA
*
5765052 ATATATATAATATATAGTTTTTTTAAAACATTATTGAAA
1 ATATATATAATATATAG--TTTTTAAAACATTTTTGAAA
* * *
5765091 ATATATATATTATATAATTTTTTTAAAACGTTTTTG-AA
1 ATATATATAATATAT-A-GTTTTTAAAACATTTTTGAAA
*
5765129 ATA-ATTATAATATATAGTTTTTAAAAATATTTTTTGAAA
1 ATATA-TATAATATATAGTTTTT-AAAACA-TTTTTGAAA
* *
5765168 CTATATAT--TATATGGTTTTTTAAAACATTT
1 ATATATATAATATATAG-TTTTTAAAACATTT
5765198 ATTTATCTAT
Statistics
Matches: 282, Mismatches: 33, Indels: 43
0.79 0.09 0.12
Matches are distributed among these distances:
36 15 0.05
37 110 0.39
38 51 0.18
39 80 0.28
40 11 0.04
41 15 0.05
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTTAAAACATTTTTGAAA
Found at i:5765008 original size:11 final size:11
Alignment explanation
Indices: 5764992--5765016 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
5764982 TAATATATAG
5764992 TTTTGAAAACA
1 TTTTGAAAACA
5765003 TTTTGAAAACA
1 TTTTGAAAACA
5765014 TTT
1 TTT
5765017 ATATATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTTGAAAACA
Found at i:5766477 original size:18 final size:17
Alignment explanation
Indices: 5766430--5766479 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
5766420 TATTTTTTCT
5766430 TTTTAATTTGATTTATTA
1 TTTT-ATTTGATTTATTA
*
5766448 TTTTAGTT--TTTATTA
1 TTTTATTTGATTTATTA
*
5766463 TTTTTCTTTGATTTATT
1 -TTTTATTTGATTTATT
5766480 TTGTATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
15 7 0.27
16 6 0.23
17 3 0.12
18 10 0.38
ACGTcount: A:0.20, C:0.02, G:0.06, T:0.72
Consensus pattern (17 bp):
TTTTATTTGATTTATTA
Found at i:5766542 original size:10 final size:10
Alignment explanation
Indices: 5766522--5766736 Score: 56
Period size: 10 Copynumber: 19.8 Consensus size: 10
5766512 ATCTTTCTTA
5766522 TTTTATGTTTT
1 TTTTAT-TTTT
5766533 TTTTATTTTT
1 TTTTATTTTT
5766543 TCATATATATATTTAT
1 T--T-T-TAT-TTT-T
* *
5766559 TATTATTATT
1 TTTTATTTTT
* * *
5766569 ATTTACTTCT
1 TTTTATTTTT
* *
5766579 TATTATATTT
1 TTTTATTTTT
*
5766589 TTTTATTTTC
1 TTTTATTTTT
*
5766599 TTTTATTTTA
1 TTTTATTTTT
* *
5766609 TCTTATATTT
1 TTTTATTTTT
**
5766619 TAATA-TTTT
1 TTTTATTTTT
*
5766628 TATTATTTATT
1 TTTTATTT-TT
*
5766639 ATTTTCA-TTAT
1 -TTTT-ATTTTT
*
5766650 TTGTATTTTT
1 TTTTATTTTT
*
5766660 ATTATATTTTT
1 -TTTTATTTTT
* *
5766671 CCTTTGATTTGT
1 --TTTTATTTTT
*
5766683 TTCTATTTGTT
1 TTTTATTT-TT
5766694 TATTTATTTTTAT
1 T-TTTA-TTTT-T
5766707 TTTTATTTCTT
1 TTTTATTT-TT
*
5766718 TTATATTCTTT
1 TTTTATT-TTT
5766729 TTTTATTT
1 TTTTATTT
5766737 CTTTCTTATG
Statistics
Matches: 147, Mismatches: 38, Indels: 39
0.66 0.17 0.17
Matches are distributed among these distances:
9 8 0.05
10 57 0.39
11 40 0.27
12 26 0.18
13 8 0.05
14 3 0.02
15 3 0.02
16 2 0.01
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.73
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:5766571 original size:16 final size:16
Alignment explanation
Indices: 5766552--5766664 Score: 62
Period size: 16 Copynumber: 7.2 Consensus size: 16
5766542 TTCATATATA
5766552 TATTTATTATTATTAT
1 TATTTATTATTATTAT
*
5766568 TATTTACTTCTTATTA-
1 TATTTA-TTATTATTAT
5766584 TATTT-TT-TTATT-T
1 TATTTATTATTATTAT
*
5766597 TCTTTTATT-TTATCT-T
1 T-ATTTATTATTAT-TAT
* *
5766613 ATATTTTAATATTTTTAT
1 -TA-TTTATTATTATTAT
5766631 TATTTATTATT-TTCAT
1 TATTTATTATTATT-AT
* *
5766647 TATTT-GTATTTTTAT
1 TATTTATTATTATTAT
5766662 TAT
1 TAT
5766665 ATTTTTCCTT
Statistics
Matches: 79, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
13 6 0.08
14 5 0.06
15 17 0.22
16 30 0.38
17 17 0.22
18 4 0.05
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (16 bp):
TATTTATTATTATTAT
Found at i:5766573 original size:66 final size:63
Alignment explanation
Indices: 5766501--5766639 Score: 147
Period size: 66 Copynumber: 2.2 Consensus size: 63
5766491 TATTTTCTAT
* * * * *
5766501 TTATTTATTACATCTT-TCTTATTTTATGTTTTTTTTATTTTTTCATATATATATTTATTATTAT
1 TTATTTATTACATATTATATTATTTTAT-TTTCTTTTATTTTATC-T-TATAT-TTTAATATTAT
5766565 TA
62 TA
* * *
5766567 TTATTTACTT-CTTATTATATTTTTTTATTTTCTTTTATTTTATCTTATATTTTAATATTTTTA
1 TTATTTA-TTACATATTATATTATTTTATTTTCTTTTATTTTATCTTATATTTTAATATTATTA
5766630 TTATTTATTA
1 TTATTTATTA
5766640 TTTTCATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
62 2 0.03
63 18 0.29
64 5 0.08
65 1 0.02
66 25 0.40
67 11 0.18
ACGTcount: A:0.24, C:0.06, G:0.01, T:0.70
Consensus pattern (63 bp):
TTATTTATTACATATTATATTATTTTATTTTCTTTTATTTTATCTTATATTTTAATATTATTA
Found at i:5766581 original size:23 final size:22
Alignment explanation
Indices: 5766554--5766636 Score: 61
Period size: 23 Copynumber: 3.9 Consensus size: 22
5766544 CATATATATA
5766554 TTTATTATTATTATTATTTACT
1 TTTATTATTATTATTATTTACT
5766576 TCTTATTA-TATT-TT-TTTA-T
1 T-TTATTATTATTATTATTTACT
* *
5766595 TTTCTT-TTATT-TTATCTTATAT
1 TTTATTATTATTATTAT-TTA-CT
* *
5766617 TTTAATATTTTTATTATTTA
1 TTTATTATTATTATTATTTA
5766637 TTATTTTCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
18 10 0.20
19 3 0.06
20 7 0.14
21 2 0.04
22 10 0.20
23 13 0.27
24 4 0.08
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTATTATTATTATTATTTACT
Found at i:5766586 original size:36 final size:36
Alignment explanation
Indices: 5766546--5766642 Score: 87
Period size: 35 Copynumber: 2.8 Consensus size: 36
5766536 TATTTTTTCA
*
5766546 TATATATATTTATTATTATTATTATTTA-CTTCTTAT
1 TATATATATTTATTATTATTATTATTTATCTT-ATAT
* * *
5766582 TATATTTTTTTATT-TTCTT-TTATTTTATCTTATAT
1 TATATATATTTATTATTATTATTA-TTTATCTTATAT
*
5766617 TTTA-ATATTT-TTATTATTTATTATTT
1 TATATATATTTATTATTA-TTATTATTT
5766643 TCATTATTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
33 2 0.04
34 9 0.19
35 19 0.40
36 18 0.38
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (36 bp):
TATATATATTTATTATTATTATTATTTATCTTATAT
Found at i:5766609 original size:28 final size:26
Alignment explanation
Indices: 5766578--5766669 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 26
5766568 TATTTACTTC
** *
5766578 TTATTATATTTTTTTATTTTCTTTTATT
1 TTATTATATTTTAATATTTT-TATTA-T
5766606 TTATCTTATATTTTAATATTTTTATTAT
1 TTA--TTATATTTTAATATTTTTATTAT
* * *
5766634 TTATTAT-TTTCATTATTTGTATT-T
1 TTATTATATTTTAATATTTTTATTAT
5766658 TTATTATATTTT
1 TTATTATATTTT
5766670 TCCTTTGATT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
24 8 0.15
25 16 0.30
26 4 0.07
28 7 0.13
29 4 0.07
30 15 0.28
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (26 bp):
TTATTATATTTTAATATTTTTATTAT
Found at i:5766641 original size:24 final size:25
Alignment explanation
Indices: 5766606--5766664 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
5766596 TTCTTTTATT
*
5766606 TTATCTTA-TATTTT-AATATTTTTA
1 TTAT-TTATTATTTTCAATATTTGTA
*
5766630 TTATTTATTATTTTCATTATTTGTA
1 TTATTTATTATTTTCAATATTTGTA
5766655 TT-TTTATTAT
1 TTATTTATTAT
5766665 ATTTTTCCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 3 0.10
24 18 0.58
25 10 0.32
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.69
Consensus pattern (25 bp):
TTATTTATTATTTTCAATATTTGTA
Found at i:5766734 original size:13 final size:12
Alignment explanation
Indices: 5766686--5766740 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
5766676 GATTTGTTTC
* *
5766686 TATTTGTTTATT
1 TATTTCTTTTTT
5766698 TATTT-TTATTTT
1 TATTTCTT-TTTT
*
5766710 TATTTC-TTTTA
1 TATTTCTTTTTT
5766721 TA-TTCTTTTTT
1 TATTTCTTTTTT
5766732 TATTTCTTT
1 TATTTCTTT
5766741 CTTATGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 3 0.08
11 13 0.36
12 20 0.56
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (12 bp):
TATTTCTTTTTT
Found at i:5766755 original size:22 final size:22
Alignment explanation
Indices: 5766708--5766755 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
5766698 TATTTTTATT
** *
5766708 TTTATTTCTTTTATATTCTTTT
1 TTTATTTCTTTTATATGATTTA
5766730 TTTATTTCTTTCT-TATGATTTA
1 TTTATTTCTTT-TATATGATTTA
5766752 TTTA
1 TTTA
5766756 GTATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTATTTCTTTTATATGATTTA
Found at i:5768250 original size:18 final size:20
Alignment explanation
Indices: 5768208--5768253 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
5768198 TACTCCTATG
*
5768208 ATCGATACTCTACCTTGAGT
1 ATCGATACTCTACCATGAGT
*
5768228 GTCGATACT-T-CCATGAGT
1 ATCGATACTCTACCATGAGT
5768246 ATCGATAC
1 ATCGATAC
5768254 CAAAATTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 14 0.61
19 1 0.04
20 8 0.35
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (20 bp):
ATCGATACTCTACCATGAGT
Found at i:5771661 original size:43 final size:41
Alignment explanation
Indices: 5771597--5771677 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 41
5771587 AACATGTTAT
* * *
5771597 ATGATATGAGATTAAGTGATGAAACATAGATGATATATATATG
1 ATGATATAAGAATAAGAGATGAAACA-A-ATGATATATATATG
*
5771640 ATGATATAAGAATAAGAGATGAATCAAATGATATATAT
1 ATGATATAAGAATAAGAGATGAAACAAATGATATATAT
5771678 GTTTATGTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 11 0.32
42 1 0.03
43 22 0.65
ACGTcount: A:0.48, C:0.02, G:0.19, T:0.31
Consensus pattern (41 bp):
ATGATATAAGAATAAGAGATGAAACAAATGATATATATATG
Found at i:5771947 original size:21 final size:21
Alignment explanation
Indices: 5771923--5771982 Score: 111
Period size: 21 Copynumber: 2.9 Consensus size: 21
5771913 GGTCTTTTGG
5771923 GATAATACAGTGGTCCTTCGA
1 GATAATACAGTGGTCCTTCGA
5771944 GATAATACAGTGGTCCTTCGA
1 GATAATACAGTGGTCCTTCGA
*
5771965 GACAATACAGTGGTCCTT
1 GATAATACAGTGGTCCTT
5771983 TGCGACAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (21 bp):
GATAATACAGTGGTCCTTCGA
Found at i:5774545 original size:23 final size:23
Alignment explanation
Indices: 5774510--5774566 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
5774500 AGGATTGATA
5774510 GAAAAGTTA-AAAGGATAA-AGAAG
1 GAAAA-TTATAAAGGATAAGA-AAG
*
5774533 GAAAATTATAAAGGATATGAAAG
1 GAAAATTATAAAGGATAAGAAAG
*
5774556 GAATATTATAA
1 GAAAATTATAA
5774567 TTGTAAATAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 3 0.10
23 26 0.87
24 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (23 bp):
GAAAATTATAAAGGATAAGAAAG
Found at i:5775772 original size:16 final size:16
Alignment explanation
Indices: 5775751--5775781 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5775741 AAGAGAACAG
5775751 GAAAAGGAAATTAAAT
1 GAAAAGGAAATTAAAT
5775767 GAAAAGGAAATTAAA
1 GAAAAGGAAATTAAA
5775782 GGGTTAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (16 bp):
GAAAAGGAAATTAAAT
Found at i:5777946 original size:16 final size:16
Alignment explanation
Indices: 5777925--5777956 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
5777915 AGCTATGTGA
*
5777925 CATATGAATATGAATT
1 CATATGAACATGAATT
5777941 CATATGAACATGAATT
1 CATATGAACATGAATT
5777957 ACATGAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.34
Consensus pattern (16 bp):
CATATGAACATGAATT
Found at i:5778141 original size:21 final size:21
Alignment explanation
Indices: 5778115--5778202 Score: 140
Period size: 21 Copynumber: 4.2 Consensus size: 21
5778105 GGGTCTATGC
5778115 GGTCCTTCGGGACAATACAGT
1 GGTCCTTCGGGACAATACAGT
5778136 GGTCCTTCGGGACAATACAGT
1 GGTCCTTCGGGACAATACAGT
*
5778157 GGTCCTTCGGGACAATACAAT
1 GGTCCTTCGGGACAATACAGT
* * *
5778178 GGTCATTCGGGATAATATAGT
1 GGTCCTTCGGGACAATACAGT
5778199 GGTC
1 GGTC
5778203 TTTTAGAACA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (21 bp):
GGTCCTTCGGGACAATACAGT
Found at i:5779085 original size:22 final size:22
Alignment explanation
Indices: 5779045--5779095 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
5779035 AACATCTGGG
* *
5779045 TACTGTTCAAGGTAGTGTTCTT
1 TACTGTTCAAGGTAATGTTCAT
5779067 TACTGTTCACA-GTAATGTTCAT
1 TACTGTTCA-AGGTAATGTTCAT
*
5779089 TATTGTT
1 TACTGTT
5779096 TATACGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.14, G:0.18, T:0.47
Consensus pattern (22 bp):
TACTGTTCAAGGTAATGTTCAT
Found at i:5780606 original size:2 final size:2
Alignment explanation
Indices: 5780599--5780634 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
5780589 ACTGGAAAGA
*
5780599 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5780635 GGATAGTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5784425 original size:21 final size:21
Alignment explanation
Indices: 5784328--5784426 Score: 126
Period size: 21 Copynumber: 4.7 Consensus size: 21
5784318 GGGTCTACGC
**
5784328 GGTCCTTCAAGACAATACAAT
1 GGTCCTTCGGGACAATACAAT
* *
5784349 GGTCCTTCGGGATAATATAAT
1 GGTCCTTCGGGACAATACAAT
*
5784370 GGTCCTTCGGGACAATACAGT
1 GGTCCTTCGGGACAATACAAT
*
5784391 GGTCCTTCGAGACAATACAAT
1 GGTCCTTCGGGACAATACAAT
* *
5784412 GGTCTTTTGGGACAA
1 GGTCCTTCGGGACAA
5784427 ATTTCATATG
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (21 bp):
GGTCCTTCGGGACAATACAAT
Found at i:5788091 original size:16 final size:16
Alignment explanation
Indices: 5788070--5788100 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
5788060 AGAGAAAAGG
5788070 GAAAAGGAAATTAAAT
1 GAAAAGGAAATTAAAT
5788086 GAAAAGGAAATTAAA
1 GAAAAGGAAATTAAA
5788101 GGGTTAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (16 bp):
GAAAAGGAAATTAAAT
Found at i:5789291 original size:21 final size:21
Alignment explanation
Indices: 5789265--5789305 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
5789255 TGTGATAAAT
5789265 GAGTAGAAATTAGTTTAAGTG
1 GAGTAGAAATTAGTTTAAGTG
5789286 GAGTAGAAATTAGTTTAAGT
1 GAGTAGAAATTAGTTTAAGT
5789306 ATGTATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.27, T:0.34
Consensus pattern (21 bp):
GAGTAGAAATTAGTTTAAGTG
Found at i:5790210 original size:43 final size:41
Alignment explanation
Indices: 5790145--5790225 Score: 99
Period size: 43 Copynumber: 1.9 Consensus size: 41
5790135 AGCATGTTAT
* * **
5790145 ATGATATGAGATTAAGTGATGAAACATAGATGATATATATATG
1 ATGATATAAGAATAAGACATGAAACA-A-ATGATATATATATG
*
5790188 ATGATATAAGAATAAGACATGAATCAAATGATATATAT
1 ATGATATAAGAATAAGACATGAAACAAATGATATATAT
5790226 GTTTATGTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 11 0.33
42 1 0.03
43 21 0.64
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (41 bp):
ATGATATAAGAATAAGACATGAAACAAATGATATATATATG
Found at i:5791168 original size:23 final size:23
Alignment explanation
Indices: 5791138--5791195 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
5791128 ATGTTATAAA
5791138 TCAGTTTTGTAAAATCATATGAT
1 TCAGTTTTGTAAAATCATATGAT
*
5791161 TCAGTTTTGTAAAATCATATGGT
1 TCAGTTTTGTAAAATCATATGAT
*
5791184 TGAGTTTTGTAA
1 TCAGTTTTGTAA
5791196 TGTTTTAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (23 bp):
TCAGTTTTGTAAAATCATATGAT
Found at i:5791319 original size:21 final size:21
Alignment explanation
Indices: 5791293--5791387 Score: 154
Period size: 21 Copynumber: 4.5 Consensus size: 21
5791283 TGTAGCAGTA
5791293 CTGTAGCAGGGTATCGATTCC
1 CTGTAGCAGGGTATCGATTCC
5791314 CTGTAGCAGGGTATCGATTCC
1 CTGTAGCAGGGTATCGATTCC
* *
5791335 CTGTAACAGGGTTTCGATTCC
1 CTGTAGCAGGGTATCGATTCC
**
5791356 CTGTAATAGGGTATCGATTCC
1 CTGTAGCAGGGTATCGATTCC
5791377 CTGTAGCAGGG
1 CTGTAGCAGGG
5791388 GAATCGATAC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 68 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.29
Consensus pattern (21 bp):
CTGTAGCAGGGTATCGATTCC
Found at i:5791465 original size:14 final size:12
Alignment explanation
Indices: 5791421--5791467 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 12
5791411 TGGAAAATTT
5791421 TACTGTTCAT--
1 TACTGTTCATAG
5791431 TACTGTTCATAG
1 TACTGTTCATAG
*
5791443 TAATGTTCATATGG
1 TACTGTTCATA--G
5791457 TACTGTTCATA
1 TACTGTTCATA
5791468 CCGTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
10 10 0.32
12 10 0.32
14 11 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.45
Consensus pattern (12 bp):
TACTGTTCATAG
Found at i:5793383 original size:21 final size:21
Alignment explanation
Indices: 5793359--5793398 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5793349 TATTTAAATA
**
5793359 AATAAAATATTTATTTTTTAT
1 AATAAAATAAATATTTTTTAT
5793380 AATAAAATAAATATTTTTT
1 AATAAAATAAATATTTTTT
5793399 CTACTGGGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATAAAATAAATATTTTTTAT
Found at i:5799914 original size:15 final size:15
Alignment explanation
Indices: 5799876--5799908 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
5799866 TAAAAAAGAT
5799876 AAGAGAAAAAGAAAA
1 AAGAGAAAAAGAAAA
5799891 AAGAGAAAAAGAGAAA
1 AAGAGAAAAAGA-AAA
5799907 AA
1 AA
5799909 TGAAAAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAGAAAAAGAAAA
Found at i:5801089 original size:29 final size:30
Alignment explanation
Indices: 5801027--5801082 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
5801017 TTATTTTAAG
* *
5801027 CTAACTACTAACTTTTATTTTATTGCACAT
1 CTAACCACTAACTTTTATATTATTGCACAT
*
5801057 -TAACCACTGACTTTTATATTATTGCA
1 CTAACCACTAACTTTTATATTATTGCA
5801083 TTCTAACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (30 bp):
CTAACCACTAACTTTTATATTATTGCACAT
Found at i:5801304 original size:120 final size:120
Alignment explanation
Indices: 5801129--5801425 Score: 531
Period size: 120 Copynumber: 2.5 Consensus size: 120
5801119 CTTATTACTT
* *
5801129 GACCTTGTGGTGACCCGATCAGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCATT
1 GACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCAAT
* *
5801194 AACTTTTTTATTTTATTTATTTTACTTTTATATATTTGTTTGCATTATTCAATTC
66 AACTTTTTTACTTTATTTATTTTACTTTAATATATTTGTTTGCATTATTCAATTC
* *
5801249 GACCTTGTGGTGACCTGATCCGGGGTAAGACCCACATTATTATGGTTCAGCCTCTGCTAACCAAT
1 GACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCAAT
*
5801314 AACTTTTTTACTTTATTTATTTTACTTTAATATATTTGTTTGCATTATTCTATTC
66 AACTTTTTTACTTTATTTATTTTACTTTAATATATTTGTTTGCATTATTCAATTC
5801369 GACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGC
1 GACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGC
5801426 GATCCGCTAA
Statistics
Matches: 168, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 168 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (120 bp):
GACCTTGTGGTGACCCGATCCGGGGTAAGACCCACATTATTATGGTTCAGACTCTGCTAACCAAT
AACTTTTTTACTTTATTTATTTTACTTTAATATATTTGTTTGCATTATTCAATTC
Found at i:5801510 original size:25 final size:24
Alignment explanation
Indices: 5801457--5801510 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 24
5801447 TACTAACATT
5801457 CTAACTTTTATTTTATTGTTCATA
1 CTAACTTTTATTTTATTGTTCATA
* *
5801481 TTAACTTTTATTTTTATTGTTCTTA
1 CTAACTTTTA-TTTTATTGTTCATA
5801506 CTAAC
1 CTAAC
5801511 GTACTAACGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.24, C:0.13, G:0.04, T:0.59
Consensus pattern (24 bp):
CTAACTTTTATTTTATTGTTCATA
Found at i:5801586 original size:5 final size:5
Alignment explanation
Indices: 5801568--5801619 Score: 63
Period size: 5 Copynumber: 10.6 Consensus size: 5
5801558 ATTTATGCAA
* *
5801568 TTTA- TTTAT GTTAT TTTAT TTTAT TTT-T ATTTAT GTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT -TTTAT TTTAT TTTAT TTTAT
5801617 TTT
1 TTT
5801620 CCAGCACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
4 5 0.12
5 35 0.85
6 1 0.02
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:5801601 original size:25 final size:25
Alignment explanation
Indices: 5801568--5801619 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
5801558 ATTTATGCAA
5801568 TTTATTTATGTTATTTTATTTTATT
1 TTTATTTATGTTATTTTATTTTATT
5801593 TTTATTTATGTTATTTTATTTTATT
1 TTTATTTATGTTATTTTATTTTATT
5801618 TT
1 TT
5801620 CCAGCACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (25 bp):
TTTATTTATGTTATTTTATTTTATT
Done.