Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_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: 5101972
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 26
Found at i:1913972 original size:14 final size:14
Alignment explanation
Indices: 1913936--1913972 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1913926 GCCATTTGTT
1913936 CAAACATAAATGAA
1 CAAACATAAATGAA
* *
1913950 CGAATATAAATGAA
1 CAAACATAAATGAA
1913964 CAAACATAA
1 CAAACATAA
1913973 TCGAACATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.62, C:0.14, G:0.08, T:0.16
Consensus pattern (14 bp):
CAAACATAAATGAA
Found at i:1921194 original size:14 final size:13
Alignment explanation
Indices: 1921169--1921221 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
1921159 ATAATGATAC
*
1921169 TAATAATATATAA
1 TAATATTATATAA
*
1921182 TAATATGTATATAT
1 TAATAT-TATATAA
*
1921196 TAATAACTATATAA
1 TAAT-ATTATATAA
1921210 TATATATTATAT
1 TA-ATATTATAT
1921222 TTCAAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.16
14 24 0.75
15 3 0.09
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (13 bp):
TAATATTATATAA
Found at i:1921211 original size:28 final size:27
Alignment explanation
Indices: 1921169--1921221 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 27
1921159 ATAATGATAC
1921169 TAATAATATATAATA-ATATGTATATAT
1 TAATAATATATAATATATAT-TATATAT
1921196 TAATAACTATATAATATATATTATAT
1 TAATAA-TATATAATATATATTATAT
1921222 TTCAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 6 0.25
28 14 0.58
29 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TAATAATATATAATATATATTATATAT
Found at i:1921254 original size:28 final size:24
Alignment explanation
Indices: 1921210--1921332 Score: 111
Period size: 22 Copynumber: 5.3 Consensus size: 24
1921200 AACTATATAA
*
1921210 TATATATTATA---TTTCAAAAAT
1 TATATATTATACGTTTTCAAAAAC
1921231 TACATATATTATTTACGTTTTCAAAAAC
1 T--ATATATTA--TACGTTTTCAAAAAC
1921259 TATATATTATACGTTTTC-AAAA-
1 TATATATTATACGTTTTCAAAAAC
* *
1921281 T-TATATAATATGTTTTCAAAAAC
1 TATATATTATACGTTTTCAAAAAC
1921304 TATAT-TATATA--TTTTCAAAAAC
1 TATATAT-TATACGTTTTCAAAAAC
1921326 TATATAT
1 TATATAT
1921333 ATTATATATT
Statistics
Matches: 86, Mismatches: 4, Indels: 22
0.77 0.04 0.20
Matches are distributed among these distances:
21 15 0.17
22 21 0.24
23 15 0.17
24 15 0.17
25 2 0.02
26 8 0.09
28 10 0.12
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (24 bp):
TATATATTATACGTTTTCAAAAAC
Found at i:1921365 original size:28 final size:26
Alignment explanation
Indices: 1921200--1921349 Score: 108
Period size: 26 Copynumber: 6.0 Consensus size: 26
1921190 ATATATTAAT
1921200 AACTATATA-ATATATATTATATTTCAAA
1 AACTATATATAT-TATA-TAT-TTTCAAA
* * *
1921228 AATTACATATATTATTTACGTTTTCAAA
1 AACTATATATATTATATA--TTTTCAAA
**
1921256 AAC--TATATATTATACGTTTTC-AA
1 AACTATATATATTATATATTTTCAAA
*
1921279 AA-T-TATATA--ATATGTTTTCAAA
1 AACTATATATATTATATATTTTCAAA
1921301 AAC----TATATTATATATTTTCAAA
1 AACTATATATATTATATATTTTCAAA
*
1921323 AACTATATATATTATATATTTTTAAA
1 AACTATATATATTATATATTTTCAAA
1921349 A
1 A
1921350 TTATTATATG
Statistics
Matches: 99, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
20 4 0.04
21 9 0.09
22 19 0.19
23 10 0.10
24 5 0.05
26 28 0.28
27 2 0.02
28 19 0.19
29 3 0.03
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (26 bp):
AACTATATATATTATATATTTTCAAA
Found at i:1926310 original size:20 final size:20
Alignment explanation
Indices: 1926287--1926420 Score: 92
Period size: 20 Copynumber: 6.6 Consensus size: 20
1926277 GTTTCCAGAT
*
1926287 TCGCAACGCGATTTTGACTA
1 TCGCAACGCGATTATGACTA
** * **
1926307 TCGCATTGCGATTTTGTAAAA
1 TCGCAACGCGATTATG-ACTA
* * *
1926328 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTATG-ACTA
* *
1926348 TCGCAACACGATTCTGACTA
1 TCGCAACGCGATTATGACTA
* *
1926368 TCACAACGCGATAAT-ACATAA
1 TCGCAACGCGATTATGAC-T-A
*
1926389 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTATGACTA
1926409 TCGCAACGCGAT
1 TCGCAACGCGAT
1926421 AATACAAAAT
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.03
20 54 0.60
21 31 0.34
22 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTATGACTA
Found at i:1926332 original size:21 final size:20
Alignment explanation
Indices: 1926306--1926353 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
1926296 GATTTTGACT
* * *
1926306 ATCGCATTGCGATTTTGTAAA
1 ATCGCAATGCGAATATGT-AA
1926327 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
1926347 ATCGCAA
1 ATCGCAA
1926354 CACGATTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:1926395 original size:21 final size:21
Alignment explanation
Indices: 1926371--1926441 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
1926361 CTGACTATCA
1926371 CAACGCGATAATACATAATCG
1 CAACGCGATAATACATAATCG
**
1926392 CAACGCGATTCTGAC-T-ATCG
1 CAACGCGATAAT-ACATAATCG
*
1926412 CAACGCGATAATACAAAATCG
1 CAACGCGATAATACATAATCG
*
1926433 CAATGCGAT
1 CAACGCGAT
1926442 TTTCAAAGCG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.05
20 14 0.34
21 23 0.56
22 2 0.05
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (21 bp):
CAACGCGATAATACATAATCG
Found at i:1926441 original size:41 final size:41
Alignment explanation
Indices: 1926345--1926442 Score: 160
Period size: 41 Copynumber: 2.4 Consensus size: 41
1926335 GCGAATATGT
*
1926345 AAATCGCAACACGATTCTGACTATCACAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCACAACGCGATAATACA
* *
1926386 TAATCGCAACGCGATTCTGACTATCGCAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCACAACGCGATAATACA
*
1926427 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
1926443 TTCAAAGCGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTATCACAACGCGATAATACA
Found at i:1927066 original size:20 final size:20
Alignment explanation
Indices: 1927013--1927093 Score: 101
Period size: 20 Copynumber: 4.1 Consensus size: 20
1927003 AATCACAACT
1927013 ATAGTCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
** *
1927033 ATTTTC-ATTTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
1927052 ATAGTCAAATTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCG
** *
1927072 ATAGTCATTTTCGTGTTGCG
1 ATAGTCAAATTCGCGTTGCG
1927092 AT
1 AT
1927094 TTTAAGTTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
19 16 0.31
20 35 0.69
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (20 bp):
ATAGTCAAATTCGCGTTGCG
Found at i:1927067 original size:39 final size:40
Alignment explanation
Indices: 1927013--1927093 Score: 128
Period size: 39 Copynumber: 2.0 Consensus size: 40
1927003 AATCACAACT
**
1927013 ATAGTCAAATTCGCGTTGCGATTTTCA-TTTCGCGTTGCG
1 ATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCG
*
1927052 ATAGTCAAATTCGCGTTGCGATAGTCATTTTCGTGTTGCG
1 ATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCG
1927092 AT
1 AT
1927094 TTTAAGTTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (40 bp):
ATAGTCAAATTCGCGTTGCGATAGTCATTTTCGCGTTGCG
Found at i:1929005 original size:20 final size:20
Alignment explanation
Indices: 1928980--1929048 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
1928970 CGAAACTTAA
* *
1928980 ATCGCAGCGCGAAAATGATT
1 ATCGCAACGCGAAAATGACT
*
1929000 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1929020 ATCGCAACGCGAAGTTGACT
1 ATCGCAACGCGAAAATGACT
1929040 ATCGCAACG
1 ATCGCAACG
1929049 GGATAATCGC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1929715 original size:21 final size:21
Alignment explanation
Indices: 1929691--1929760 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
1929681 CTATCATCCC
1929691 TCAAGAGTCCCCTCCCACCAT
1 TCAAGAGTCCCCTCCCACCAT
* * ** *
1929712 TCAAGAGGCCACTGTCATCAT
1 TCAAGAGTCCCCTCCCACCAT
* *
1929733 TGAAGAGGT-CCCTCCCAGCAT
1 TCAAGA-GTCCCCTCCCACCAT
1929754 TCAAGAG
1 TCAAGAG
1929761 CCCGATTCAT
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.20
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCACCAT
Found at i:1931165 original size:14 final size:14
Alignment explanation
Indices: 1931146--1931200 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
1931136 CATTTTTTAC
1931146 TTGTAAAAATTGAT
1 TTGTAAAAATTGAT
*
1931160 TTGTAAAAGTTGAT
1 TTGTAAAAATTGAT
* *
1931174 TTGTTTAATATTGAT
1 TTG-TAAAAATTGAT
*
1931189 GTGTAAATAATT
1 TTGTAAA-AATT
1931201 CTTATTTGTG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.47
Consensus pattern (14 bp):
TTGTAAAAATTGAT
Found at i:1931349 original size:20 final size:21
Alignment explanation
Indices: 1931299--1931356 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
1931289 AGGTACACTT
*
1931299 TCGCAACGCTAAA-CTCAAAA
1 TCGCAACGCGAAAGCTCAAAA
* * *
1931319 TTGTAATGCGAAAGC-CAAAA
1 TCGCAACGCGAAAGCTCAAAA
1931339 TCGCAACGCGAAAG-TCAA
1 TCGCAACGCGAAAGCTCAA
1931357 TTCGCGTTGC
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.17, T:0.16
Consensus pattern (21 bp):
TCGCAACGCGAAAGCTCAAAA
Found at i:1931410 original size:20 final size:20
Alignment explanation
Indices: 1931346--1931544 Score: 162
Period size: 20 Copynumber: 10.3 Consensus size: 20
1931336 AAATCGCAAC
* *
1931346 GCGAAAGTC-AATTCGCGTT
1 GCGATAGTCAAATTCACGTT
* * *
1931365 GCGATAGTCTAATACACTTT
1 GCGATAGTCAAATTCACGTT
* * *
1931385 GTGATAGTCAAATACTCGTT
1 GCGATAGTCAAATTCACGTT
*
1931405 GCGATAATCAAATTCACGTT
1 GCGATAGTCAAATTCACGTT
*
1931425 GAGATAGTCAAATTCGA-GTT
1 GCGATAGTCAAATTC-ACGTT
* *
1931445 GCGATAGTCAAATTCGCATT
1 GCGATAGTCAAATTCACGTT
* *
1931465 GCGATAGTCATATTCGCGTT
1 GCGATAGTCAAATTCACGTT
* * *
1931485 GTGAT--T---TTTGA-GTT
1 GCGATAGTCAAATTCACGTT
* *
1931499 GCGATAATCAAATTCGCGTT
1 GCGATAGTCAAATTCACGTT
1931519 GCGATAGTCAAATTCACGTT
1 GCGATAGTCAAATTCACGTT
1931539 GCGATA
1 GCGATA
1931545 TTTAAATGAA
Statistics
Matches: 142, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
14 7 0.05
15 2 0.01
16 1 0.01
18 1 0.01
19 10 0.07
20 120 0.85
21 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.33
Consensus pattern (20 bp):
GCGATAGTCAAATTCACGTT
Found at i:1931774 original size:140 final size:140
Alignment explanation
Indices: 1931522--1931804 Score: 494
Period size: 140 Copynumber: 2.0 Consensus size: 140
1931512 TCGCGTTGCG
* * *
1931522 ATAGTCAAATTCACGTTGCGATATTTAAATGAATGTGTAATAAGTGATAACAACTGAACAGGTCA
1 ATAGTCAAATTCACATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1931587 TAGCAATATTCAAACTCAAGTAACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATATTCAAACTCAAGTAACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1931652 AATACACATA
131 AATACACATA
*
1931662 ATAGTCAAATTCGCATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
1 ATAGTCAAATTCACATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
* * * *
1931727 TAGTAATGTTCAAGCTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATATTCAAACTCAAGTAACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
1931792 AATACACATA
131 AATACACATA
1931802 ATA
1 ATA
1931805 CAACGTTTGC
Statistics
Matches: 135, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
140 135 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (140 bp):
ATAGTCAAATTCACATTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGATCA
TAGCAATATTCAAACTCAAGTAACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:1931903 original size:11 final size:12
Alignment explanation
Indices: 1931877--1931904 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
1931867 GGGATTTTGA
1931877 TTTTGATTGCCT
1 TTTTGATTGCCT
1931889 TTTTGATTGCCT
1 TTTTGATTGCCT
1931901 TTTT
1 TTTT
1931905 CTTGACACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.14, T:0.64
Consensus pattern (12 bp):
TTTTGATTGCCT
Found at i:1933644 original size:14 final size:14
Alignment explanation
Indices: 1933625--1933661 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1933615 TCCCGTGGTA
1933625 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
1933639 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
1933653 TTCTTCTTC
1 TT-TTCTTC
1933662 AGGGTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:1934741 original size:20 final size:20
Alignment explanation
Indices: 1934710--1934837 Score: 125
Period size: 20 Copynumber: 6.3 Consensus size: 20
1934700 GAAATTCAGT
*
1934710 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
1934730 GTTGTGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
**
1934750 GTTGCGATTATGT-ATTATCGC
1 GTTGCGA-TA-GTCAGAATCGC
* *
1934771 GTTGCGATAGTCAGAATTGT
1 GTTGCGATAGTCAGAATCGC
* * *
1934791 GTTGCGAT-TTACATATTCGC
1 GTTGCGATAGT-CAGAATCGC
*
1934811 GTTGCGATAGTCAAAATCGC
1 GTTGCGATAGTCAGAATCGC
1934831 GTTGCGA
1 GTTGCGA
1934838 ATCTGGAAAC
Statistics
Matches: 86, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.03
20 65 0.76
21 16 0.19
22 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.32
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:1934772 original size:41 final size:39
Alignment explanation
Indices: 1934725--1934837 Score: 145
Period size: 41 Copynumber: 2.8 Consensus size: 39
1934715 GACAGTCAGA
* **
1934725 ATCGCGTTGTGATAGTCAGAATCGCGTTGCGATTATGTATT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATT-TACA-T
* *
1934766 ATCGCGTTGCGATAGTCAGAATTGTGTTGCGATTTACAT
1 ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTACAT
*
1934805 ATTCGCGTTGCGATAGTCAAAATCGCGTTGCGA
1 A-TCGCGTTGCGATAGTCAGAATCGCGTTGCGA
1934838 ATCTGGAAAC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.03
40 30 0.48
41 31 0.49
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (39 bp):
ATCGCGTTGCGATAGTCAGAATCGCGTTGCGATTTACAT
Found at i:1934887 original size:19 final size:19
Alignment explanation
Indices: 1934863--1934899 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1934853 TACGATACTG
* *
1934863 GAGATCGCGTTGCGATTTA
1 GAGATCGCATCGCGATTTA
1934882 GAGATCGCATCGCGATTT
1 GAGATCGCATCGCGATTT
1934900 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.30
Consensus pattern (19 bp):
GAGATCGCATCGCGATTTA
Found at i:1937763 original size:2 final size:2
Alignment explanation
Indices: 1937756--1937819 Score: 50
Period size: 2 Copynumber: 35.0 Consensus size: 2
1937746 AAATAATTAT
1937756 TA TA TA TA TA TA TA -A TA T- TA -A TA -A TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1937793 TT TA TA TA TT TA -A TT TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1937820 CCGGCCCGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
1 6 0.12
2 42 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1937764 original size:22 final size:25
Alignment explanation
Indices: 1937739--1937793 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
1937729 AGCCTGATAA
*
1937739 ATATTA-AA-AATAATTAT-TATAT
1 ATATTATAATAATAATAATATATAT
*
1937761 ATATATATAATATTAATAATATATAT
1 ATAT-TATAATAATAATAATATATAT
1937787 ATATTAT
1 ATATTAT
1937794 TTATATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 4 0.15
23 2 0.07
24 2 0.07
25 10 0.37
26 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTATAATAATAATAATATATAT
Found at i:1937766 original size:24 final size:23
Alignment explanation
Indices: 1937739--1937792 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
1937729 AGCCTGATAA
*
1937739 ATATTAAAAATAATTATTATATAT
1 ATATTAAAAATAA-TAATATATAT
* *
1937763 ATATATAATATTAATAATATATAT
1 ATAT-TAAAAATAATAATATATAT
1937787 ATATTA
1 ATATTA
1937793 TTTATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.08
24 17 0.65
25 7 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTAAAAATAATAATATATAT
Found at i:1937776 original size:31 final size:34
Alignment explanation
Indices: 1937738--1937819 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 34
1937728 CAGCCTGATA
1937738 AATATTAAAA-ATA-AT-TATTATATATATATAT
1 AATATTAAAATATATATATATTATATATATATAT
* *
1937769 AATATTAATAATATATATATATTATTTATATATTT
1 AATATTAA-AATATATATATATTATATATATATAT
1937804 AAT-TT-AAATATATATA
1 AATATTAAAATATATATA
1937820 CCGGCCCGAT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
31 8 0.18
32 12 0.27
33 4 0.09
34 4 0.09
35 17 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (34 bp):
AATATTAAAATATATATATATTATATATATATAT
Found at i:1937787 original size:28 final size:28
Alignment explanation
Indices: 1937747--1937819 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
1937737 AAATATTAAA
1937747 AATAATTAT-TATATATATATATAATATT
1 AATAATTATATATATATATATAT-ATATT
*
1937775 AATAA-TATATATATATTATTTATATATT
1 AATAATTATATATATA-TATATATATATT
*
1937803 --TAATT-TAAATATATATA
1 AATAATTATATATATATATA
1937820 CCGGCCCGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
25 3 0.08
26 10 0.26
27 4 0.10
28 16 0.41
29 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
AATAATTATATATATATATATATATATT
Found at i:1937806 original size:26 final size:26
Alignment explanation
Indices: 1937756--1937816 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
1937746 AAATAATTAT
1937756 TATATATA-TATATAATATTAATAATA
1 TATATATATTATATAATATT-ATAATA
* *
1937782 TATATATATTATTTATATATT-TAATT
1 TATATATATTATATA-ATATTATAATA
*
1937808 TAAATATAT
1 TATATATAT
1937817 ATACCGGCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 20 0.67
27 5 0.17
28 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATATATATTATATAATATTATAATA
Found at i:1938520 original size:15 final size:15
Alignment explanation
Indices: 1938500--1938536 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
1938490 TGAGACATTA
*
1938500 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCG
*
1938515 CCCGCCCCATATCCG
1 CCCGCCCCACATCCG
1938530 CCCGCCC
1 CCCGCCC
1938537 AGCTAAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.68, G:0.16, T:0.08
Consensus pattern (15 bp):
CCCGCCCCACATCCG
Found at i:1940290 original size:31 final size:30
Alignment explanation
Indices: 1940239--1940320 Score: 121
Period size: 31 Copynumber: 2.6 Consensus size: 30
1940229 ATTTTAAATG
1940239 AATATTAATTTGA-CCTTAAACTTTATATAA
1 AATA-TAATTTGACCCTTAAACTTTATATAA
1940269 AATACTAATTTGACCCTTAAACTTTATATAA
1 AATA-TAATTTGACCCTTAAACTTTATATAA
1940300 AATATCAATTTGACTCCTTAA
1 AATAT-AATTTGAC-CCTTAA
1940321 TCCAATAATG
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
30 13 0.27
31 29 0.60
32 6 0.12
ACGTcount: A:0.41, C:0.15, G:0.04, T:0.40
Consensus pattern (30 bp):
AATATAATTTGACCCTTAAACTTTATATAA
Found at i:1941716 original size:31 final size:30
Alignment explanation
Indices: 1941638--1941724 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 30
1941628 ACTGGTGTAA
* * *
1941638 ATTTTAATTAA-ATTCAGAGATCAAATTGAT
1 ATTTTAAATAAGATTTA-AGATCAAATTAAT
* * *
1941668 ATTTTATATAAGGTTTAATGATTAAATTAAT
1 ATTTTAAATAAGATTTAA-GATCAAATTAAT
*
1941699 ATTTTAAATAATATTTAAGATCAAAT
1 ATTTTAAATAAGATTTAAGATCAAAT
1941725 ATTCTATCTA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
30 17 0.38
31 28 0.62
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (30 bp):
ATTTTAAATAAGATTTAAGATCAAATTAAT
Found at i:1944571 original size:93 final size:93
Alignment explanation
Indices: 1944382--1944567 Score: 365
Period size: 92 Copynumber: 2.0 Consensus size: 93
1944372 ATCAGCTACC
1944382 TATTTGTTGTTTTGCAGCTGTCGGGGGGGGGGGGAGGGGGATGGAGGTCTATAATCCACCATTTT
1 TATTTGTTGTTTTGCAGCTGTCGGGGGGGGGGGGAGGGGGATGGAGGTCTATAATCCACCATTTT
1944447 GGCTTTTATTTTCGCATAGCATATATCT
66 GGCTTTTATTTTCGCATAGCATATATCT
1944475 TATTTGTTGTTTTGCAGCTGTC-GGGGGGGGGGGAGGGGGATGGAGGTCTATAATCCACCATTTT
1 TATTTGTTGTTTTGCAGCTGTCGGGGGGGGGGGGAGGGGGATGGAGGTCTATAATCCACCATTTT
1944539 GGCTTTTATTTTCGCATAGCATATATCT
66 GGCTTTTATTTTCGCATAGCATATATCT
1944567 T
1 T
1944568 TATTGCATCT
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
92 71 0.76
93 22 0.24
ACGTcount: A:0.17, C:0.14, G:0.32, T:0.37
Consensus pattern (93 bp):
TATTTGTTGTTTTGCAGCTGTCGGGGGGGGGGGGAGGGGGATGGAGGTCTATAATCCACCATTTT
GGCTTTTATTTTCGCATAGCATATATCT
Found at i:1944788 original size:74 final size:74
Alignment explanation
Indices: 1944667--1944811 Score: 218
Period size: 74 Copynumber: 2.0 Consensus size: 74
1944657 CATTTCAATC
* * * *
1944667 CTTGATCCTAAGCATTTGTCTTTGTTGTTCCTTAGAGAAACAATGACCAAACCTAGAAAAGGTCA
1 CTTGATCATAAGCATTTGTCTTTGTAGTTCCCTACAGAAACAATGACCAAACCTAGAAAAGGTCA
1944732 CATGCACTT
66 CATGCACTT
* * **
1944741 CTTGATCATAAGCATTTTTCTTTGTAGTTCCCTACAGAAATAATGACCAAACCTAGCCAAGGTCA
1 CTTGATCATAAGCATTTGTCTTTGTAGTTCCCTACAGAAACAATGACCAAACCTAGAAAAGGTCA
1944806 CATGCA
66 CATGCA
1944812 GTTTCACAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (74 bp):
CTTGATCATAAGCATTTGTCTTTGTAGTTCCCTACAGAAACAATGACCAAACCTAGAAAAGGTCA
CATGCACTT
Found at i:1948127 original size:22 final size:24
Alignment explanation
Indices: 1948082--1948128 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
1948072 ACGGTTATTC
*
1948082 ATGTAGTTTAACTTTTATTAAATA
1 ATGTAGTTTAACTCTTATTAAATA
1948106 ATGTAGTTTAAC-CTT-TTAAATA
1 ATGTAGTTTAACTCTTATTAAATA
1948128 A
1 A
1948129 GAAAAAATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 8 0.36
23 2 0.09
24 12 0.55
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (24 bp):
ATGTAGTTTAACTCTTATTAAATA
Found at i:1948593 original size:92 final size:91
Alignment explanation
Indices: 1948436--1948628 Score: 350
Period size: 92 Copynumber: 2.1 Consensus size: 91
1948426 GTTGTTACTC
*
1948436 TTAGAGCATTTTGACCCCAACGTTTCATTTTAGAATAAAGAAGACTCTTAATGTTTGACTAAATA
1 TTAGAGCATTTTGACCCCAACGTTTCATTTTAGAATAAAGAAGACTCCTAATGTTTGACTAAATA
1948501 GTCGTTGTGTCCCTTATTCTTTTCTTT
66 GTCGTTGTGTCCCTTATTCTTTTC-TT
*
1948528 TTAGAGCATTTTGACCCCAACGTTTCATTTTAGGATAAAGAAGACTCCTAATGTTTGACTAAATA
1 TTAGAGCATTTTGACCCCAACGTTTCATTTTAGAATAAAGAAGACTCCTAATGTTTGACTAAATA
1948593 GTCGTTGTGTCCCTTATTCTTTTCTT
66 GTCGTTGTGTCCCTTATTCTTTTCTT
*
1948619 TTGGAGCATT
1 TTAGAGCATT
1948629 CCCCCCCCAT
Statistics
Matches: 98, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 11 0.11
92 87 0.89
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (91 bp):
TTAGAGCATTTTGACCCCAACGTTTCATTTTAGAATAAAGAAGACTCCTAATGTTTGACTAAATA
GTCGTTGTGTCCCTTATTCTTTTCTT
Found at i:1950938 original size:11 final size:11
Alignment explanation
Indices: 1950905--1950944 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
1950895 GTTGAAATGG
1950905 ATAATCAGCCT
1 ATAATCAGCCT
1950916 AT-AT-ATGCCT
1 ATAATCA-GCCT
1950926 ATAATCAGCCT
1 ATAATCAGCCT
1950937 ATAATCAG
1 ATAATCAG
1950945 ACTCTTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 8 0.31
11 16 0.62
12 1 0.04
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (11 bp):
ATAATCAGCCT
Found at i:1951906 original size:108 final size:108
Alignment explanation
Indices: 1951782--1951978 Score: 288
Period size: 110 Copynumber: 1.8 Consensus size: 108
1951772 TATACATAAA
* * * * * *
1951782 TAAGATATTTACTTATT-TAGAAATATCAGAAAAGGGCTTCTAGGTGCTTTAAGACAGCTCTTTT
1 TAAGATATTTACTTATTAAAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAACTCTTTT
1951846 CTTTAATATTTAAAAATAAATAAAAACATTTTATTTTAATATAG
66 CTTTAATA-TTAAAAATAAATAAAAACATTTTATTTTAATATAG
* *
1951890 TAAGATATTTATTTATTCAAAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAACTTTTT
1 TAAGATATTTACTTATT-AAAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAACTCTTT
*
1951955 TCTTTGATATTAAAAATAAATAAA
65 TCTTTAATATTAAAAATAAATAAA
1951979 TATCAAAATA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
108 16 0.21
109 15 0.19
110 47 0.60
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (108 bp):
TAAGATATTTACTTATTAAAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAACTCTTTT
CTTTAATATTAAAAATAAATAAAAACATTTTATTTTAATATAG
Found at i:1953517 original size:3 final size:3
Alignment explanation
Indices: 1953509--1953598 Score: 135
Period size: 3 Copynumber: 30.0 Consensus size: 3
1953499 TATATTTATT
* *
1953509 TAA TAA TAA TAA TAA TAA TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* **
1953557 TAA TAC TAA TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1953599 ATTTAAATGA
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 79 1.00
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1953856 original size:76 final size:76
Alignment explanation
Indices: 1953725--1954291 Score: 1053
Period size: 76 Copynumber: 7.5 Consensus size: 76
1953715 GATGGAAATG
* * *
1953725 TTTGAAAACATCATGCACGGAAGGACTTACAGATGACCCAAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1953790 CCCGAAGGCTT
66 CCCGAAGGCTT
1953801 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1953866 CCCGAAGGCTT
66 CCCGAAGGCTT
1953877 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
*
1953942 CCCAAAGGCTT
66 CCCGAAGGCTT
* *
1953953 TTTGGAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGATCTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1954018 CCCGAAGGCTT
66 CCCGAAGGCTT
*
1954029 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1954094 CCCGAAGGCTT
66 CCCGAAGGCTT
1954105 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
1954170 CCCGAAGGCTT
66 CCCGAAGGCTT
*
1954181 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCT
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
*
1954246 CCCGAAGACTT
66 CCCGAAGGCTT
1954257 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
1 TTTGGAAACATCATGCACTGAAGGACTTACAGATG
1954292 TGAGAAATAG
Statistics
Matches: 478, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 478 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (76 bp):
TTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCT
CCCGAAGGCTT
Found at i:1957652 original size:92 final size:92
Alignment explanation
Indices: 1957446--1957782 Score: 561
Period size: 92 Copynumber: 3.7 Consensus size: 92
1957436 TGATTTTAGA
* * * *
1957446 GTTCATACCAAATCATATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT-GT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
*
1957510 CTTCCAAATTCAATGA-TCGGTTCTGTG
66 CTTCCAAATTCAATAACT-GGTTCTGTG
*
1957537 GTTCATACCAAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
* *
1957602 CTACCAAATTCAATAACTGGTTCTATG
66 CTTCCAAATTCAATAACTGGTTCTGTG
*
1957629 GTTCATACCAAACCAGATCAGATAACTCAAACAACACTTCCAGAAGATGCTATGAGCACATTCCT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
1957694 CTTCCAAATTCAATAACTGGTTCTGTG
66 CTTCCAAATTCAATAACTGGTTCTGTG
*
1957721 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATT
1 GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1957783 ATTTCTACTA
Statistics
Matches: 231, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
91 59 0.26
92 171 0.74
93 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (92 bp):
GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCT
CTTCCAAATTCAATAACTGGTTCTGTG
Found at i:1959910 original size:10 final size:11
Alignment explanation
Indices: 1959885--1959940 Score: 66
Period size: 10 Copynumber: 5.3 Consensus size: 11
1959875 CTTGATTCAA
1959885 TTTTCCTTTTTC
1 TTTT-CTTTTTC
1959897 -TTT-TTTTTC
1 TTTTCTTTTTC
1959906 TTTT-TTTTTC
1 TTTTCTTTTTC
1959916 TTTTCTTTTT-
1 TTTTCTTTTTC
1959926 TTTTCTTCTTTC
1 TTTTCTT-TTTC
1959938 TTT
1 TTT
1959941 GCTGGATGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.15
10 20 0.50
11 11 0.28
12 3 0.08
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:1959924 original size:22 final size:22
Alignment explanation
Indices: 1959893--1959940 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 22
1959883 AATTTTCCTT
*
1959893 TTTCTTTT-TTTTCTTTT-TT-
1 TTTCTTTTCTTTTTTTTTCTTC
1959912 TTTCTTTTCTTTTTTTTTCTTC
1 TTTCTTTTCTTTTTTTTTCTTC
1959934 TTTCTTT
1 TTTCTTT
1959941 GCTGGATGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 8 0.32
20 8 0.32
21 2 0.08
22 7 0.28
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (22 bp):
TTTCTTTTCTTTTTTTTTCTTC
Found at i:1959930 original size:15 final size:15
Alignment explanation
Indices: 1959885--1959932 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
1959875 CTTGATTCAA
1959885 TTTTCCTTTTTCTTTT-
1 TTTT-CTTTTT-TTTTC
1959901 TTTTCTTTTTTTTTC
1 TTTTCTTTTTTTTTC
1959916 TTTTCTTTTTTTTTC
1 TTTTCTTTTTTTTTC
1959931 TT
1 TT
1959933 CTTTCTTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 4 0.13
15 23 0.74
16 4 0.13
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTCTTTTTTTTTC
Found at i:1960241 original size:2 final size:2
Alignment explanation
Indices: 1960234--1960271 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1960224 ACAACAAAGG
1960234 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
1960272 TAAAGGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1965328 original size:108 final size:108
Alignment explanation
Indices: 1965204--1965400 Score: 288
Period size: 110 Copynumber: 1.8 Consensus size: 108
1965194 TATACATAAA
* * * * * *
1965204 TAAGATATTTACTTATT-TAGAAATATCAGAAAAGGGCTTCTAGGTGCTTTAAGACAGCTCTTTT
1 TAAGATATTTACTTATTAAAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAACTCTTTT
1965268 CTTTAATATTTAAAAATAAATAAAAACATTTTATTTTAATATAG
66 CTTTAATA-TTAAAAATAAATAAAAACATTTTATTTTAATATAG
* *
1965312 TAAGATATTTATTTATTCAAAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAACTTTTT
1 TAAGATATTTACTTATT-AAAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAACTCTTT
*
1965377 TCTTTGATATTAAAAATAAATAAA
65 TCTTTAATATTAAAAATAAATAAA
1965401 TATCAAAATA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
108 16 0.21
109 15 0.19
110 47 0.60
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (108 bp):
TAAGATATTTACTTATTAAAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAACTCTTTT
CTTTAATATTAAAAATAAATAAAAACATTTTATTTTAATATAG
Found at i:1966361 original size:3 final size:3
Alignment explanation
Indices: 1966353--1966424 Score: 117
Period size: 3 Copynumber: 24.0 Consensus size: 3
1966343 TATATTTATT
*
1966353 TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
1966401 TAA TAA TTT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA
1966425 ATTTAAATGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1970799 original size:17 final size:17
Alignment explanation
Indices: 1970758--1970802 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1970748 TCCTACTTGA
1970758 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
1970775 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
1970792 TTAAATATTTA
1 TTAAATATTTA
1970803 TTTTTACATG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:1971006 original size:31 final size:31
Alignment explanation
Indices: 1970968--1971031 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
1970958 TAGTTACGTC
*
1970968 GGGGACCATATTACAAACGGACTAAATGTTG
1 GGGGACCATATTACAAACGGACTAAATATTG
**
1970999 GGGGACCATATTGTAAACGGACTAAATATTG
1 GGGGACCATATTACAAACGGACTAAATATTG
1971030 GG
1 GG
1971032 AGACTGTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.23
Consensus pattern (31 bp):
GGGGACCATATTACAAACGGACTAAATATTG
Found at i:1971042 original size:31 final size:31
Alignment explanation
Indices: 1970971--1971045 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
1970961 TTACGTCGGG
** * *
1970971 GACCATATTACAAACGGACTAAATGTTGGGG
1 GACCATATTGTAAACGGACTAAATATTGGGA
1971002 GACCATATTGTAAACGGACTAAATATTGGGA
1 GACCATATTGTAAACGGACTAAATATTGGGA
**
1971033 GACTGTATTGTAA
1 GACCATATTGTAA
1971046 GTTTTAAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (31 bp):
GACCATATTGTAAACGGACTAAATATTGGGA
Found at i:1972152 original size:22 final size:22
Alignment explanation
Indices: 1972124--1972177 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
1972114 ACTCATGATC
1972124 ACTTAATTATAGATGAATTTTA
1 ACTTAATTATAGATGAATTTTA
1972146 ACTTAATTATAGATGAATTTTA
1 ACTTAATTATAGATGAATTTTA
*
1972168 ATTTAATTAT
1 ACTTAATTAT
1972178 CAATCTTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (22 bp):
ACTTAATTATAGATGAATTTTA
Found at i:1973384 original size:266 final size:266
Alignment explanation
Indices: 1972910--1973415 Score: 976
Period size: 266 Copynumber: 1.9 Consensus size: 266
1972900 AGGCTTAGCT
1972910 AGAACCAAAACCCCTTTACAATGAAAGGAAATGTAAACAAGAAAACCTCTATAAGGTAGGTGTTT
1 AGAACCAAAACCCCTTTACAATGAAAGGAAATGTAAACAAGAAAACCTCTATAAGGTAGGTGTTT
1972975 ACAAGAATTAAGCTCACAAGAACATAAATATTTACAAGAGAAAGATGAAATAAGAATGAAAAACT
66 ACAAGAATTAAGCTCACAAGAACATAAATATTTACAAGAGAAAGATGAAATAAGAATGAAAAACT
1973040 CTTCTCTTGTGTTTGATTGCTTGGATAGTTGTTCTATATCTTCTTCAAGTGTCCTCAGCTTGTTT
131 CTTCTCTTGTGTTTGATTGCTTGGATAGTTGTTCTATATCTTCTTCAAGTGTCCTCAGCTTGTTT
1973105 TTATAGCTTGAAATGAGTTTGAAGTCATATCTAGCCGTTGGGGATTAATTTTCTGCAAATTAAGG
196 TTATAGCTTGAAATGAGTTTGAAGTCATATCTAGCCGTTGGGGATTAATTTTCTGCAAATTAAGG
1973170 CTGTCG
261 CTGTCG
*
1973176 AGAACCAAAACCCCTTTACAATGAAAGGAAATGTAAACAAGAAAACCTCTCTAAGGTAGGTGTTT
1 AGAACCAAAACCCCTTTACAATGAAAGGAAATGTAAACAAGAAAACCTCTATAAGGTAGGTGTTT
*
1973241 ATAAGAATTAAGCTCACAAGAACATAAATATTTACAAGAGAAAGATGAAATAAGAATGAAAAACT
66 ACAAGAATTAAGCTCACAAGAACATAAATATTTACAAGAGAAAGATGAAATAAGAATGAAAAACT
*
1973306 CTTCTCTTGTGTTTGATTGCTTGGATAGTTGTTCTCTATCTTCTTCAAGTGTCCTCAGCTTGTTT
131 CTTCTCTTGTGTTTGATTGCTTGGATAGTTGTTCTATATCTTCTTCAAGTGTCCTCAGCTTGTTT
*
1973371 TTATAGCTTGAAATGAGTTTGAAGTCGTATCTAGCCGTTGGGGAT
196 TTATAGCTTGAAATGAGTTTGAAGTCATATCTAGCCGTTGGGGAT
1973416 GTTTTGGAGC
Statistics
Matches: 236, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 236 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.32
Consensus pattern (266 bp):
AGAACCAAAACCCCTTTACAATGAAAGGAAATGTAAACAAGAAAACCTCTATAAGGTAGGTGTTT
ACAAGAATTAAGCTCACAAGAACATAAATATTTACAAGAGAAAGATGAAATAAGAATGAAAAACT
CTTCTCTTGTGTTTGATTGCTTGGATAGTTGTTCTATATCTTCTTCAAGTGTCCTCAGCTTGTTT
TTATAGCTTGAAATGAGTTTGAAGTCATATCTAGCCGTTGGGGATTAATTTTCTGCAAATTAAGG
CTGTCG
Found at i:1978002 original size:21 final size:21
Alignment explanation
Indices: 1977962--1978013 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
1977952 TTTTCCAGAA
* * *
1977962 TGCTACAGGGGTATCGATACCC
1 TGCTACA-GTGTACCGATACAC
*
1977984 TGCTACAGTGTACCGATACAT
1 TGCTACAGTGTACCGATACAC
1978005 TGCTACAGT
1 TGCTACAGT
1978014 ATTCCAGCCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (21 bp):
TGCTACAGTGTACCGATACAC
Found at i:1978817 original size:15 final size:15
Alignment explanation
Indices: 1978797--1978825 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1978787 TGGCCGACCG
1978797 AACCGAATTAACCAT
1 AACCGAATTAACCAT
1978812 AACCGAATTAACCA
1 AACCGAATTAACCA
1978826 AACTTTTTTT
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:0.48, C:0.28, G:0.07, T:0.17
Consensus pattern (15 bp):
AACCGAATTAACCAT
Found at i:1979274 original size:183 final size:186
Alignment explanation
Indices: 1978953--1979340 Score: 619
Period size: 183 Copynumber: 2.1 Consensus size: 186
1978943 TTTTCTAATT
* *
1978953 TATATAA-A-ATTAAATATTTTTTAATTCAAAAAAAGTTTATAATTAATTTAAATAATAAATAAT
1 TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATAAATAAT
*
1979016 TATAAAATAAAAATTTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
66 TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
* *
1979081 GGATCTTAAATTATTAATTGGGTTTTAAATGGTTTGGGCTT-AGCCCATATG-T-TA
131 GGATCTTAAATTATTAATTGGATTTTAAATGATTTGGG-TTGAGCCCATATGTTATA
*
1979135 TATATAATATATTTAATATTTTTTAATT-AAAAAATAGTTTACAATTAATTTAAATAATATATAA
1 TATATAATATATTTAATATTTTTTAATTCAAAAAA-AGTTTACAATTAATTTAAATAATAAATAA
*
1979199 TTATAAAATAAAAAATTTATAT-AATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
65 TTATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTAT
* *
1979263 TGTATCTTAAATTATTAATTGGATTTTTAATGATTTGGGTTGAGCCCATATGTTATA
130 TGGATCTTAAATTATTAATTGGATTTTAAATGATTTGGGTTGAGCCCATATGTTATA
*
1979320 TATATAATATATTTAAAATTT
1 TATATAATATATTTAATATTT
1979341 AAAATTTAAT
Statistics
Matches: 190, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
182 9 0.05
183 94 0.49
184 65 0.34
185 22 0.12
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (186 bp):
TATATAATATATTTAATATTTTTTAATTCAAAAAAAGTTTACAATTAATTTAAATAATAAATAAT
TATAAAATAAAAAATTTAGATAAATTTTTTAATTAATTAATATTGATTTAAGTTTAAAAGTTATT
GGATCTTAAATTATTAATTGGATTTTAAATGATTTGGGTTGAGCCCATATGTTATA
Found at i:1979782 original size:32 final size:32
Alignment explanation
Indices: 1979679--1979785 Score: 146
Period size: 32 Copynumber: 3.3 Consensus size: 32
1979669 GTTTCTTAGA
1979679 ACATAGGTAAAAT-CTGTCCATATGTCCCAAATG
1 ACATAGGT--AATCCTGTCCATATGTCCCAAATG
* *
1979712 ACATAGATGATCCTGTCCATATGTCCCAAATG
1 ACATAGGTAATCCTGTCCATATGTCCCAAATG
*
1979744 ACATAGGTAATCCTGTCAATATGTCCCGAAA-G
1 ACATAGGTAATCCTGTCCATATGTCCC-AAATG
1979776 ACATAGGTAA
1 ACATAGGTAA
1979786 CCCTCGACTC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
31 2 0.03
32 55 0.82
33 10 0.15
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (32 bp):
ACATAGGTAATCCTGTCCATATGTCCCAAATG
Found at i:1980168 original size:30 final size:29
Alignment explanation
Indices: 1980132--1980209 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
1980122 ATCATTCACC
1980132 TCATATAACTTATTGTCACATAATCTC-ATA
1 TCATATAACTTATT-TCACATAAT-TCAATA
*
1980162 TCATATATA-TTATATTCATATAATTCAATA
1 TCATATA-ACTTAT-TTCACATAATTCAATA
* *
1980192 TCATTTGACTTATTTCAC
1 TCATATAACTTATTTCAC
1980210 TTTATTACAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
29 7 0.17
30 31 0.77
31 2 0.05
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.45
Consensus pattern (29 bp):
TCATATAACTTATTTCACATAATTCAATA
Found at i:1980500 original size:2 final size:2
Alignment explanation
Indices: 1980493--1980534 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1980483 ACTTATGTTC
1980493 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
1980535 CACACAACAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1982736 original size:60 final size:60
Alignment explanation
Indices: 1982653--1982816 Score: 188
Period size: 60 Copynumber: 2.7 Consensus size: 60
1982643 ACTCTTATTT
* * *
1982653 TAAATTAGTCCTTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACTCTCATTC
1 TAAATAAGTCATTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACCCTCATTC
* * * *
1982713 TAAATCAA-TTATTAAACTTTTAAATA-TTCTAGTTTCATCCCTAAACTATGACCCTCTTTC
1 TAAAT-AAGTCATTAAACTTTTAAATATTTC-AATTTCATCCCCAAACTATGACCCTCATTC
** * * *
1982773 TAAATAAGTCACCAAACTTTTAAATCTTCCAATTCCATCCCCAA
1 TAAATAAGTCATTAAACTTTTAAATATTTCAATTTCATCCCCAA
1982817 GTTTATCCAA
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
59 5 0.06
60 77 0.91
61 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (60 bp):
TAAATAAGTCATTAAACTTTTAAATATTTCAATTTCATCCCCAAACTATGACCCTCATTC
Found at i:1982871 original size:31 final size:31
Alignment explanation
Indices: 1982835--1982894 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
1982825 AAATATGTAG
*
1982835 TTAATTTCAATCACAGTTTAACCTAAATTAA
1 TTAATTCCAATCACAGTTTAACCTAAATTAA
*
1982866 TTAATTCCAATCATAGTTTAACCTAAATT
1 TTAATTCCAATCACAGTTTAACCTAAATT
1982895 TTGTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (31 bp):
TTAATTCCAATCACAGTTTAACCTAAATTAA
Found at i:1984858 original size:25 final size:24
Alignment explanation
Indices: 1984829--1984878 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1984819 CTATATTTAA
*
1984829 ACACTCGAAAAGAAAACTCAAATAT
1 ACACTCAAAAAG-AAACTCAAATAT
* *
1984854 ACACTTAAAAAGAAACTCATATAT
1 ACACTCAAAAAGAAACTCAAATAT
1984878 A
1 A
1984879 AATAATGTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.56, C:0.18, G:0.06, T:0.20
Consensus pattern (24 bp):
ACACTCAAAAAGAAACTCAAATAT
Found at i:1987996 original size:36 final size:37
Alignment explanation
Indices: 1987921--1988006 Score: 113
Period size: 36 Copynumber: 2.3 Consensus size: 37
1987911 TTTTTTTCTA
* *
1987921 TTATTTTTTTTTCTTAATATCATATATATCTTTATTTT
1 TTATTTGTTTTACTTAATAT-ATATATATCTTTATTTT
*
1987959 TTATTTGTTTTACTTAATAT-TATATATTTATTA-TTT
1 TTATTTGTTTTACTTAATATATATATATCT-TTATTTT
1987995 TTATTTGTTTTA
1 TTATTTGTTTTA
1988007 GTAAATACTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 23 0.52
37 3 0.07
38 18 0.41
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (37 bp):
TTATTTGTTTTACTTAATATATATATATCTTTATTTT
Found at i:1991026 original size:19 final size:19
Alignment explanation
Indices: 1991002--1991040 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1990992 CCCCTGGGGA
1991002 TACCTCTTCTGTGAGGACT
1 TACCTCTTCTGTGAGGACT
1991021 TACCTCTTCTGTGAGGACT
1 TACCTCTTCTGTGAGGACT
1991040 T
1 T
1991041 CCATGTATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (19 bp):
TACCTCTTCTGTGAGGACT
Found at i:1991290 original size:16 final size:15
Alignment explanation
Indices: 1991269--1991339 Score: 56
Period size: 16 Copynumber: 4.6 Consensus size: 15
1991259 CAAGAACAAG
1991269 AAGAAAAGAGGCAAAA
1 AAGAAAAGAGG-AAAA
**
1991285 AAGAAAA-AAAACAAA
1 AAGAAAAGAGGA-AAA
*
1991300 TAAAAAAAGA-GAAAA
1 -AAGAAAAGAGGAAAA
*
1991315 AAGAACAAAAGGAAAA
1 AAGAA-AAGAGGAAAA
1991331 AAGAAAAGA
1 AAGAAAAGA
1991340 ACAAAAATCA
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
14 5 0.12
15 13 0.30
16 24 0.56
17 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.01
Consensus pattern (15 bp):
AAGAAAAGAGGAAAA
Found at i:1991307 original size:21 final size:22
Alignment explanation
Indices: 1991281--1991359 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 22
1991271 GAAAAGAGGC
1991281 AAAAAAGAAAAAA-AACAAATAA
1 AAAAAAGAAAAAACAACAAAT-A
*
1991303 AAAAAGAGAAAAAAGAACAAA-A
1 AAAAA-AGAAAAAACAACAAATA
1991325 GGAAAAAAGAAAAGAACAA-AAAT-
1 --AAAAAAGAAAA-AACAACAAATA
*
1991348 CAAAAAGAAAAA
1 AAAAAAGAAAAA
1991360 GGGACAAGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
20 1 0.02
21 10 0.20
22 6 0.12
23 17 0.35
24 15 0.31
ACGTcount: A:0.81, C:0.05, G:0.11, T:0.03
Consensus pattern (22 bp):
AAAAAAGAAAAAACAACAAATA
Found at i:1991338 original size:30 final size:33
Alignment explanation
Indices: 1991269--1991339 Score: 87
Period size: 30 Copynumber: 2.3 Consensus size: 33
1991259 CAAGAACAAG
1991269 AAGAAAAGAGGCAAAAAAGAAAAAAAACAAATA
1 AAGAAAAGAGGCAAAAAAGAAAAAAAACAAATA
* **
1991302 AA-AAAAGA-G-AAAAAAGAACAAAAGGAAA-A
1 AAGAAAAGAGGCAAAAAAGAAAAAAAACAAATA
1991331 AAGAAAAGA
1 AAGAAAAGA
1991340 ACAAAAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 3 0.09
30 22 0.65
31 1 0.03
32 6 0.18
33 2 0.06
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.01
Consensus pattern (33 bp):
AAGAAAAGAGGCAAAAAAGAAAAAAAACAAATA
Found at i:1992946 original size:37 final size:37
Alignment explanation
Indices: 1992879--1992965 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
1992869 ATTGAAAACA
* *
1992879 TTTCCCTTGAAAC-GAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
1992915 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
*
1992952 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
1992966 TAAACATTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 13 0.28
37 34 0.72
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
Found at i:1992968 original size:102 final size:102
Alignment explanation
Indices: 1992792--1993037 Score: 411
Period size: 102 Copynumber: 2.4 Consensus size: 102
1992782 TAAAAAGAAG
* * *
1992792 ATTTTATCTCGCTTGATATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
*
1992857 TGAAACATAAACATTGAAAACATTTCCCTTGAAACGA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
* *
1992894 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
*
1992959 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
66 TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
* *
1992996 ATTTTGTCTCTCTTGAGAAAGTTTCCCTTGAAACAAATTATT
1 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATT
1993038 TGAATATGTT
Statistics
Matches: 134, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 134 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (102 bp):
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCT
TGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
Found at i:1993028 original size:167 final size:168
Alignment explanation
Indices: 1992813--1993132 Score: 392
Period size: 167 Copynumber: 1.9 Consensus size: 168
1992803 CTTGATATAG
* *
1992813 TTTCCCTTGAAACAAAATATTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAAA
1 TTTCCCTTGAAACAAAATATTGTCTCCCTTGAGAAAGTTTCCCTTGAAACA-AAACATTTGAAAA
* * ** * *
1992877 CATTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCC
65 CATTTCACTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCC
*
1992942 CTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAACA
130 CTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* * * ** * *
1992981 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGAAAGTTTCCCTTGAAACAAATTATTTGAATAT
1 TTTCCCTTGAAACAAAATATTGTCTCCCTTGAGAAAGTTTCCCTTGAAACAAAACATTTGAAAAC
* * * ** * * * *
1993045 GTTTTATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
66 ATTTCACTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCC
1993110 TTGAGACAGTTTCTCTTGAAACA
131 TTGAGACAGTTTCTCTTGAAACA
1993133 AATTTCGTCT
Statistics
Matches: 126, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
166 3 0.02
167 111 0.88
168 12 0.10
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.38
Consensus pattern (168 bp):
TTTCCCTTGAAACAAAATATTGTCTCCCTTGAGAAAGTTTCCCTTGAAACAAAACATTTGAAAAC
ATTTCACTTGAAACAAATTTCATCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCC
TTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:1993056 original size:65 final size:65
Alignment explanation
Indices: 1992915--1993085 Score: 173
Period size: 65 Copynumber: 2.6 Consensus size: 65
1992905 CTTGAGATAG
* * *
1992915 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACATTGAAAAC
1 TTTCACTTGAAAC-AAATTTTGTCTCCCTTGAGAAAGTTTCCCTTGAAACATAAACATTGAAAAC
1992980 A
65 A
* * * ** * *
1992981 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGAAAGTTTCCCTTGAAACA-AATTATTTGAATAT
1 TTTCACTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCCCTTGAAACATAAACA-TTGAAAAC
*
1993045 G
65 A
* * ** *
1993046 TTTTATTTGAAACAAATTTCATCTCCCTTGAGACAGTTTC
1 TTTCACTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTC
1993086 TTTTGGAACT
Statistics
Matches: 87, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
64 3 0.03
65 72 0.83
66 12 0.14
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (65 bp):
TTTCACTTGAAACAAATTTTGTCTCCCTTGAGAAAGTTTCCCTTGAAACATAAACATTGAAAACA
Found at i:1993150 original size:36 final size:36
Alignment explanation
Indices: 1993052--1993170 Score: 166
Period size: 36 Copynumber: 3.3 Consensus size: 36
1993042 TATGTTTTAT
* * *
1993052 TTGAAACAAATTTCATCTCCCTTGAGACAGTTTCTT
1 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
* * *
1993088 TTGGAACTAAGTTTTGTCTCTCTTGAGACAGTTTCTC
1 TTGAAAC-AAATTTCGTCTCTCTTGAGACAGTTTCTC
*
1993125 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCC
1 TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
1993161 TTGAAACAAA
1 TTGAAACAAA
1993171 ATCTTTGAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
36 42 0.58
37 30 0.42
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (36 bp):
TTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCTC
Found at i:1993261 original size:66 final size:64
Alignment explanation
Indices: 1993119--1993298 Score: 195
Period size: 66 Copynumber: 2.7 Consensus size: 64
1993109 CTTGAGACAG
* * * * *
1993119 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTG-AAACAAAATCTTTGAATTT
1 TTTCCCTTAAAACAAATTTTGT-TC-CTTGAGACAGTTTCTCTTGAAAACAAAATCTTTAAATTT
1993183 A
64 A
*
1993184 TTTCCCCTAAAACAAATTTTGTTCCATTGAGACAGTTTCTCTTGAAACACAAAAT-TTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTTCC-TTGAGACAGTTTCTCTTGAAA-ACAAAATCTTT-AAATT
1993248 TA
63 TA
* *
1993250 TTTCCCTTAAAACAAAATTTTGTTTCCCTTGAGACTGTTT-TCATGAAAA
1 TTTCCCTTAAAAC-AAATTTTG-TT-CCTTGAGACAGTTTCTCTTGAAAA
1993299 AACATATATC
Statistics
Matches: 99, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
63 1 0.01
64 19 0.19
65 23 0.23
66 26 0.26
67 15 0.15
68 13 0.13
69 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.39
Consensus pattern (64 bp):
TTTCCCTTAAAACAAATTTTGTTCCTTGAGACAGTTTCTCTTGAAAACAAAATCTTTAAATTTA
Found at i:1994217 original size:110 final size:110
Alignment explanation
Indices: 1994017--1994275 Score: 269
Period size: 110 Copynumber: 2.4 Consensus size: 110
1994007 ACTTCCCAGT
* * * * * *
1994017 TTCAGAGCCAATTTTAACTTCACTGTGAGGGATATTGGACTCAAGATAACACAAACTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAACTCAACTTCA
* * * *
1994082 CAACGAAGGGGCAACTGATTTTCAACAAACAACTTTTTAGTTTCA
66 CAACAAAAGGGCAACTGACTGTCAACAAACAACTTTTTAGTTTCA
* * *
1994127 TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAACTCAACTTCA
* ** * **
1994192 CAGCAAAAGGGCGGCTGGCTGTCAACAAACAA-TTTCCCAG-TTC-
66 CAACAAAAGGGCAACTGACTGTCAACAAACAACTTT-TTAGTTTCA
* *
1994235 --CAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGGACTCA
1 TTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGAACTCA
1994276 GAACAATACT
Statistics
Matches: 124, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
105 1 0.01
106 35 0.28
109 6 0.05
110 82 0.66
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (110 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGAACTCAAGACAACACAAACTCAACTTCA
CAACAAAAGGGCAACTGACTGTCAACAAACAACTTTTTAGTTTCA
Found at i:1995695 original size:17 final size:17
Alignment explanation
Indices: 1995675--1995737 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
1995665 ACTATGTATA
1995675 TATATTTTTCTTAATAT
1 TATATTTTTCTTAATAT
*
1995692 TATATTTTATACGTTTATA-
1 TATATTTT-T-C-TTAATAT
*
1995711 TATATATATTCTTAATAT
1 TATAT-TTTTCTTAATAT
*
1995729 TCTATTTTT
1 TATATTTTT
1995738 ATTTTATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
17 16 0.44
18 6 0.17
19 7 0.19
20 7 0.19
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATTTTTCTTAATAT
Found at i:1995791 original size:45 final size:42
Alignment explanation
Indices: 1995707--1995867 Score: 121
Period size: 45 Copynumber: 3.6 Consensus size: 42
1995697 TTTATACGTT
*
1995707 TATATATATATATTCTTAATATTCTATTT-TTATTTTATTTATTTA
1 TATATATATATATT-TT--TATT-TATTTATTTTTTTATTTATTTA
* *
1995752 TATATATATATATTTTTACTTTATTATATTTTTTCTATTTTTTTCT
1 TATATATATATATTTTTA-TTTATT-TATTTTTT-TATTTATTT-A
* * *
1995798 TAATATCATGTATATCTTTATTT-TTTATTTGTTTTACTTAATATTA
1 T-ATAT-ATATATATTTTTATTTATTTATTT-TTTTA-TTTAT-TTA
*
1995844 TATATTTAT-TATTTTTATTTATTT
1 TATATATATATATTTTTATTTATTT
1995868 TAGTAAATAG
Statistics
Matches: 94, Mismatches: 11, Indels: 23
0.73 0.09 0.18
Matches are distributed among these distances:
42 6 0.06
43 13 0.14
44 12 0.13
45 33 0.35
46 10 0.11
47 9 0.10
48 11 0.12
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (42 bp):
TATATATATATATTTTTATTTATTTATTTTTTTATTTATTTA
Found at i:1995848 original size:36 final size:37
Alignment explanation
Indices: 1995781--1995869 Score: 96
Period size: 36 Copynumber: 2.4 Consensus size: 37
1995771 TTTATTATAT
*
1995781 TTTTTCTATTTTTTT-CTTAATATCATGTATATCT-TTA
1 TTTTT-TATTTTTTTACTTAATAT-ATATATATCTATTA
*
1995818 TTTTTTATTTGTTTTACTTAATAT-TATATATTTATTA
1 TTTTTTATTT-TTTTACTTAATATATATATATCTATTA
1995855 -TTTTTATTTATTTTA
1 TTTTTTATTT-TTTTA
1995870 GTAAATAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 26 0.57
37 12 0.26
38 8 0.17
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (37 bp):
TTTTTTATTTTTTTACTTAATATATATATATCTATTA
Found at i:1996059 original size:26 final size:24
Alignment explanation
Indices: 1996003--1996063 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
1995993 ATTTTGTTTA
*
1996003 TTTTTATTATTATTTTTACATGTT
1 TTTTTATTATTATTTTTACTTGTT
* * *
1996027 TTGTTATTTTTCATTTTTTCTTGTT
1 TTTTTATTATT-ATTTTTACTTGTT
1996052 TTATTTATTATT
1 TT-TTTATTATT
1996064 CTCAAGTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
24 9 0.31
25 13 0.45
26 7 0.24
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (24 bp):
TTTTTATTATTATTTTTACTTGTT
Found at i:2005313 original size:10 final size:10
Alignment explanation
Indices: 2005298--2005322 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2005288 TTCAAATGTT
2005298 AAAACGGATC
1 AAAACGGATC
2005308 AAAACGGATC
1 AAAACGGATC
2005318 AAAAC
1 AAAAC
2005323 TGATAGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.20, G:0.16, T:0.08
Consensus pattern (10 bp):
AAAACGGATC
Found at i:2005631 original size:14 final size:15
Alignment explanation
Indices: 2005612--2005640 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2005602 TTTTTATTTA
2005612 TTTCTTAT-ATATAT
1 TTTCTTATCATATAT
2005626 TTTCTTATCATATAT
1 TTTCTTATCATATAT
2005641 AAATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
TTTCTTATCATATAT
Found at i:2008879 original size:61 final size:60
Alignment explanation
Indices: 2008748--2008882 Score: 225
Period size: 61 Copynumber: 2.2 Consensus size: 60
2008738 AATTGTTACA
* *
2008748 CAAAGTAAAGTTCAATGCCTAAAATTGAAACATTTTAAGTTTATTGACAAAGTCAATACG
1 CAAACTAAAGTTCAATGCCTAAAATTGAAACATTTTAAGTTTATTGACAAACTCAATACG
* *
2008808 CAAACCAAAGTTCAATGCCTAAAATTGAGACATTTTAAAGTTTATTGACAAACTCAATACG
1 CAAACTAAAGTTCAATGCCTAAAATTGAAACATTTT-AAGTTTATTGACAAACTCAATACG
2008869 CAAACTAAAGTTCA
1 CAAACTAAAGTTCA
2008883 TGAGAAGATA
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
60 33 0.48
61 36 0.52
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (60 bp):
CAAACTAAAGTTCAATGCCTAAAATTGAAACATTTTAAGTTTATTGACAAACTCAATACG
Found at i:2008933 original size:10 final size:10
Alignment explanation
Indices: 2008918--2008945 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2008908 ATCGTTAATG
2008918 ATTTAAAGCA
1 ATTTAAAGCA
2008928 ATTTAAAGCA
1 ATTTAAAGCA
2008938 ATTTAAAG
1 ATTTAAAG
2008946 TTTAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (10 bp):
ATTTAAAGCA
Found at i:2009612 original size:2 final size:2
Alignment explanation
Indices: 2009607--2009641 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2009597 TAAATAACTT
2009607 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2009642 TTCTTTGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2009909 original size:27 final size:29
Alignment explanation
Indices: 2009879--2009932 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
2009869 ATTAATCCTA
2009879 AAAAAT-AAACGT-AATAAAACACATATC
1 AAAAATAAAACGTGAATAAAACACATATC
* *
2009906 AAAAATAAAACTTGAATCAAACACATA
1 AAAAATAAAACGTGAATAAAACACATA
2009933 CATAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 5 0.22
29 12 0.52
ACGTcount: A:0.63, C:0.15, G:0.04, T:0.19
Consensus pattern (29 bp):
AAAAATAAAACGTGAATAAAACACATATC
Found at i:2012481 original size:12 final size:12
Alignment explanation
Indices: 2012464--2012488 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2012454 TATGTATTAT
2012464 ATGTTTTCAAAA
1 ATGTTTTCAAAA
2012476 ATGTTTTCAAAA
1 ATGTTTTCAAAA
2012488 A
1 A
2012489 CTATATTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
ATGTTTTCAAAA
Found at i:2012532 original size:38 final size:38
Alignment explanation
Indices: 2012453--2012736 Score: 388
Period size: 38 Copynumber: 7.6 Consensus size: 38
2012443 TTTTTAAAAA
2012453 ATATGTAT-TATATGTTTTCAAAAATGTTTTCAAAAAC--T
1 ATAT-TATATATATGTTTTC-AAAATGTTTT-AAAAACTAT
* * * *
2012491 ATATTATATACATGTTTTAAAAATATTTTCAAAACTAT
1 ATATTATATATATGTTTTCAAAATGTTTTAAAAACTAT
2012529 ATATTATATATA--TTTTCAAAATGTTTTAAAAACTAT
1 ATATTATATATATGTTTTCAAAATGTTTTAAAAACTAT
*
2012565 ACATTATATA-A-GTTTTCAAAATGTTTTAAAAACTAT
1 ATATTATATATATGTTTTCAAAATGTTTTAAAAACTAT
*
2012601 ATATTATATATATGTTTCCAAAATGTTTTAAAAACTAT
1 ATATTATATATATGTTTTCAAAATGTTTTAAAAACTAT
*
2012639 ATAATATATATATGTTTTCAAAATGTTTTAAAAACTAT
1 ATATTATATATATGTTTTCAAAATGTTTTAAAAACTAT
*
2012677 ATATTATATAAATGTTTTCAAAATGTTTTAAAAAACTAT
1 ATATTATATATATGTTTTCAAAATGTTTT-AAAAACTAT
*
2012716 ATA--ATATATATATTTTCAAAA
1 ATATTATATATATGTTTTCAAAA
2012737 ACTGATTTTT
Statistics
Matches: 222, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
35 1 0.00
36 68 0.31
37 29 0.13
38 112 0.50
39 12 0.05
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (38 bp):
ATATTATATATATGTTTTCAAAATGTTTTAAAAACTAT
Found at i:2012545 original size:74 final size:72
Alignment explanation
Indices: 2012435--2012737 Score: 353
Period size: 72 Copynumber: 4.1 Consensus size: 72
2012425 TTTCCAAAAA
* * *
2012435 TAAAAATATTTTTAAAAAATATGTA-T-TATATGTTTTCAAAAATGTTTTCAAAAACTATATTAT
1 TAAAAATA-TTTTAAAAACTATATATTATATATATTTTC-AAAATGTTTT-AAAAACTATATTAT
*
2012498 ATACATGTTT
63 ATATATGTTT
*
2012508 TAAAAATATTTTCAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATACATTATA
1 TAAAAATATTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTAT--ATTATA
2012573 TA-A-GTTT
64 TATATGTTT
* *
2012580 TCAAAATGTTTTAAAAACTATATATTATATATATGTTTCCAAAATGTTTTAAAAACTATATAATA
1 TAAAAATATTTTAAAAACTATATATTATATATAT-TTT-CAAAATGTTTTAAAAACTATAT--TA
2012645 TATATATGTTT
62 TATATATGTTT
* * * *
2012656 TCAAAATGTTTTAAAAACTATATATTATATAAATGTTTTCAAAATGTTTTAAAAAACTATATAAT
1 TAAAAATATTTTAAAAACTATATATTATAT--ATATTTTCAAAATGTTTT-AAAAACTATATTAT
*
2012721 ATATATATTT
63 ATATATGTTT
2012731 TCAAAAA
1 T-AAAAA
2012738 CTGATTTTTT
Statistics
Matches: 205, Mismatches: 11, Indels: 25
0.85 0.05 0.10
Matches are distributed among these distances:
72 59 0.29
73 23 0.11
74 44 0.21
75 13 0.06
76 49 0.24
77 14 0.07
78 3 0.01
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (72 bp):
TAAAAATATTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATTATATA
TATGTTT
Found at i:2012672 original size:11 final size:11
Alignment explanation
Indices: 2012650--2012710 Score: 50
Period size: 11 Copynumber: 5.1 Consensus size: 11
2012640 TAATATATAT
*
2012650 ATGTTTTCAAA
1 ATGTTTTAAAA
2012661 ATGTTTTAAAA
1 ATGTTTTAAAA
*
2012672 ACTATATATTATATAA
1 A-TGT-T-TTA-A-AA
*
2012688 ATGTTTTCAAA
1 ATGTTTTAAAA
2012699 ATGTTTTAAAA
1 ATGTTTTAAAA
2012710 A
1 A
2012711 ACTATATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
11 24 0.60
12 3 0.08
13 3 0.08
14 4 0.10
15 3 0.08
16 3 0.08
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (11 bp):
ATGTTTTAAAA
Found at i:2013494 original size:85 final size:85
Alignment explanation
Indices: 2013405--2014011 Score: 759
Period size: 85 Copynumber: 7.1 Consensus size: 85
2013395 CTACTTAAGC
* * * * *
2013405 TATGCTGTAAATTTGACATGCCCTTGAGCTGAATGGAATCAAACTCGAAGGTATTTGTTGACAGA
1 TATGCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGA
* * *
2013470 AAATCCTTCTTGCCTTGAGT
66 TAACCCTTCTCGCCTTGAGT
* *
2013490 TATGCTGTAAATTTGATATGTCCTTGAGCCGAATGTAATCGAACTCGAAGGTCTTTATTGACAGA
1 TATGCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGA
**
2013555 TAACCCTTCTCATCTTGAGT
66 TAACCCTTCTCGCCTTGAGT
* * * *
2013575 TATTCTGTAAATTTGACATGTCCTTGAGCTGAATGTAATCGAACTCGAATGTATTTGTTGACAGA
1 TATGCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGA
* *
2013640 TAACCCTTCTCGTCTTGACT
66 TAACCCTTCTCGCCTTGAGT
* * *
2013660 TATTCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATTGAACTCGAAGGTCTTTATTGACAGA
1 TATGCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGA
*
2013725 TAACCCTTATCGCCTTGAGT
66 TAACCCTTCTCGCCTTGAGT
* * * * * *
2013745 TATGCTGTAAATTGGACATGTCCTTAAGCTGAATGTAATCAAACTCGAAGGTCTTTATTGATAGA
1 TATGCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGA
** *
2013810 TATTCATTCTCGCCTTGAGT
66 TAACCCTTCTCGCCTTGAGT
* * * *
2013830 TATACTGTAAATTTGATATGTCCTTGAGCTGAGTGTAATCGAACTCGAAGGT-TTTGGTTAAAAG
1 TATGCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTCTTT-GTTGACAG
* * *
2013894 ATAACCCTTATTGCCTTGAGC
65 ATAACCCTTCTCGCCTTGAGT
* * * * *
2013915 TATGTTGTAAGTTTGATATGTCATTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGATATA
1 TATGCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGA
* **
2013980 TAGCATTTCTCGCCTTGA-T
66 TAACCCTTCTCGCCTTGAGT
*
2013999 CTATGTTGTAAAT
1 -TATGCTGTAAAT
2014012 AGTTCATTTA
Statistics
Matches: 450, Mismatches: 69, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
84 3 0.01
85 444 0.99
86 3 0.01
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (85 bp):
TATGCTGTAAATTTGATATGTCCTTGAGCTGAATGTAATCGAACTCGAAGGTCTTTGTTGACAGA
TAACCCTTCTCGCCTTGAGT
Found at i:2015261 original size:84 final size:89
Alignment explanation
Indices: 2015140--2015371 Score: 260
Period size: 99 Copynumber: 2.6 Consensus size: 89
2015130 GGCTAGCTGA
* * *
2015140 ATCCATAAAGTCAGGGTGTTTAACTAATTGCTCTAGAGAGACAACTCAA-TAT-T-ATA-AT-CA
1 ATCCATAAAGCCAGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATATAATATATACA
2015200 CCTTTATCAGGCTAG-TTGAATCTT
66 CCTTTATCAGGCTAGCTT-AATCTT
* * *
2015224 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTTTAGAGGGACAACTCAAGCTTTATTATATAAAT
1 ATCCATAAAGCCAGGGTGTTTAACCAATTGCTCTAGAGGGACAACTC-A-----ATTATAT-AAT
2015289 ATTATAATCACCTTTATCAGGCTAGCTTAATCTT
59 A-TAT-A-CACCTTTATCAGGCTAGCTTAATCTT
*
2015323 ATCCATAAAGCCAGGATGTTTAACCAATTGCTCTAGAGGGACAACTCAA
1 ATCCATAAAGCCAGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAA
2015372 GCTTTATTGT
Statistics
Matches: 122, Mismatches: 10, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
84 41 0.34
85 1 0.01
90 1 0.01
91 3 0.02
92 1 0.01
93 1 0.01
94 3 0.02
96 2 0.02
98 1 0.01
99 66 0.54
100 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (89 bp):
ATCCATAAAGCCAGGGTGTTTAACCAATTGCTCTAGAGGGACAACTCAATTATATAATATATACA
CCTTTATCAGGCTAGCTTAATCTT
Found at i:2015360 original size:99 final size:99
Alignment explanation
Indices: 2015187--2015394 Score: 339
Period size: 99 Copynumber: 2.1 Consensus size: 99
2015177 GAGACAACTC
* *
2015187 AATATTATAATCACCTTTATCAGGCTAGTTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAAT
1 AATATTATAATCACCTTTATCAGGCTAGTTGAATCTTATCCATAAAGCCAGGACGTTTAACCAAT
*
2015252 TGCTTTAGAGGGACAACTCAAGCTTTATTATATA
66 TGCTCTAGAGGGACAACTCAAGCTTTATTATATA
*
2015286 AATATTATAATCACCTTTATCAGGCTAGCTT-AATCTTATCCATAAAGCCAGGATGTTTAACCAA
1 AATATTATAATCACCTTTATCAGGCTAG-TTGAATCTTATCCATAAAGCCAGGACGTTTAACCAA
*
2015350 TTGCTCTAGAGGGACAACTCAAGCTTTATTGTATA
65 TTGCTCTAGAGGGACAACTCAAGCTTTATTATATA
*
2015385 TAT-TTATAAT
1 AATATTATAAT
2015395 ATTATAATCT
Statistics
Matches: 102, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
98 7 0.07
99 93 0.91
100 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (99 bp):
AATATTATAATCACCTTTATCAGGCTAGTTGAATCTTATCCATAAAGCCAGGACGTTTAACCAAT
TGCTCTAGAGGGACAACTCAAGCTTTATTATATA
Found at i:2019826 original size:18 final size:19
Alignment explanation
Indices: 2019794--2019847 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
2019784 AAAATTAAAT
*
2019794 AAATAAGATAT-AATATAA
1 AAATAATATATAAATATAA
* *
2019812 AAATCATA-ATAAATAAAA
1 AAATAATATATAAATATAA
*
2019830 AAATAATATATATATATA
1 AAATAATATATAAATATA
2019848 TAATATTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
17 2 0.07
18 19 0.68
19 7 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAATAATATATAAATATAA
Found at i:2019923 original size:36 final size:34
Alignment explanation
Indices: 2019878--2019968 Score: 101
Period size: 37 Copynumber: 2.6 Consensus size: 34
2019868 AATATTTAAA
* *
2019878 AAAAGTATATATTATATGTTTTCAAAAACATTTTC
1 AAAACTATATATTATATATTTT-AAAAACATTTTC
* * *
2019913 AAAATCTATATTATATACACATTTTAAAAATATTTTC
1 AAAA-CTATA-TAT-TATATATTTTAAAAACATTTTC
2019950 AAAACTATATATTATATAT
1 AAAACTATATATTATATAT
2019969 ATATATGTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
34 5 0.11
35 7 0.15
36 9 0.20
37 18 0.39
38 7 0.15
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (34 bp):
AAAACTATATATTATATATTTTAAAAACATTTTC
Found at i:2019985 original size:42 final size:42
Alignment explanation
Indices: 2019883--2020018 Score: 140
Period size: 42 Copynumber: 3.3 Consensus size: 42
2019873 TTAAAAAAAG
* *
2019883 TATATAT-TATATGTTTTCAAAAACATTTTCAAAA-TCTATA-
1 TATATATATATATG-TTTCAAAAATATTTTCAAAACTATATAT
* *
2019923 T-TATATACACAT-TTT-AAAAATATTTTCAAAACTATATAT
1 TATATATATATATGTTTCAAAAATATTTTCAAAACTATATAT
* * *
2019962 TATATATATATATGTTTCCAAAATGTTTTAAAAACTATAATAT
1 TATATATATATATGTTTCAAAAATATTTTCAAAACTAT-ATAT
2020005 ATATATATATATAT
1 -TATATATATATAT
2020019 ATATATATAT
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
37 15 0.19
38 8 0.10
39 6 0.08
40 13 0.16
41 3 0.04
42 17 0.22
43 4 0.05
44 13 0.16
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (42 bp):
TATATATATATATGTTTCAAAAATATTTTCAAAACTATATAT
Found at i:2020008 original size:2 final size:2
Alignment explanation
Indices: 2019997--2020046 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
2019987 TTTTAAAAAC
2019997 TA TA -A 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
2020038 TA TA TA TA T
1 TA TA TA TA T
2020047 TCAATATGTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2020122 original size:78 final size:73
Alignment explanation
Indices: 2020032--2020198 Score: 237
Period size: 78 Copynumber: 2.2 Consensus size: 73
2020022 TATATATATA
* *
2020032 TATATATATATATATTCAATATGTTTTAAAAACTATATATTATTATATATATATTTTTTTCAAAA
1 TATATATATATATATTCAAAATGTTTTAAAAAC--TATA-TA-T-TATATATA-TGTTTTCAAAA
*
2020097 TGTTTT-AAAAAAT
60 TGTTTTAAAAAAAC
2020110 TATATATATATATATTCAAAATGTTTTAAAAACTATATATTATATATATGTTTTCAAAATGTTTT
1 TATATATATATATATTCAAAATGTTTTAAAAACTATATATTATATATATGTTTTCAAAATGTTTT
2020175 AAAAAAAC
66 AAAAAAAC
2020183 TATATAATATATATAT
1 TATAT-ATATATATAT
2020199 ATATATATAT
Statistics
Matches: 84, Mismatches: 3, Indels: 8
0.88 0.03 0.08
Matches are distributed among these distances:
72 16 0.19
73 19 0.23
74 11 0.13
75 2 0.02
76 4 0.05
78 32 0.38
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.47
Consensus pattern (73 bp):
TATATATATATATATTCAAAATGTTTTAAAAACTATATATTATATATATGTTTTCAAAATGTTTT
AAAAAAAC
Found at i:2020459 original size:52 final size:53
Alignment explanation
Indices: 2020388--2020506 Score: 186
Period size: 53 Copynumber: 2.3 Consensus size: 53
2020378 ATTAGGGGTG
* * *
2020388 AAGAAAGTTCGGCTTGACCTATAAAATCGA-TTTTTTCAATTTGACTCGATTC
1 AAGAAAGTTTGACTCGACCTATAAAATCGATTTTTTTCAATTTGACTCGATTC
*
2020440 AAGAAAGTTTGACTCGACCTATAAAATCGATTTTTTTCAATTTGACTTGATTC
1 AAGAAAGTTTGACTCGACCTATAAAATCGATTTTTTTCAATTTGACTCGATTC
*
2020493 AAGAAAATTTGACT
1 AAGAAAGTTTGACT
2020507 AGAATTGACA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
52 27 0.44
53 34 0.56
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (53 bp):
AAGAAAGTTTGACTCGACCTATAAAATCGATTTTTTTCAATTTGACTCGATTC
Found at i:2020848 original size:37 final size:37
Alignment explanation
Indices: 2020798--2020870 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
2020788 AAGTTGACAG
2020798 TCAACACTGAATTGGGGTATTGGAGAATGCCGCAATT
1 TCAACACTGAATTGGGGTATTGGAGAATGCCGCAATT
2020835 TCAACACTGAATTGGGGTATTGGAGAATGCCGCAAT
1 TCAACACTGAATTGGGGTATTGGAGAATGCCGCAAT
2020871 ATGTATAGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (37 bp):
TCAACACTGAATTGGGGTATTGGAGAATGCCGCAATT
Found at i:2022515 original size:17 final size:17
Alignment explanation
Indices: 2022475--2022531 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
2022465 ATATAATAGT
*
2022475 AATAAATAAAATAAAA-A
1 AATAAA-AAACTAAAATA
2022492 AACTAAAAAACTAAAATA
1 AA-TAAAAAACTAAAATA
* *
2022510 AATAAATAACTATAATCA
1 AATAAAAAACTAAAAT-A
2022528 AATA
1 AATA
2022532 TGTACAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 22 0.65
18 12 0.35
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAAAACTAAAATA
Found at i:2022776 original size:22 final size:21
Alignment explanation
Indices: 2022742--2022785 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2022732 GGGAGAGAGG
*
2022742 GAAAAATATATAATAATAATA
1 GAAAAATAAATAATAATAATA
*
2022763 GAAAAATTAAATAATAATTATA
1 GAAAAA-TAAATAATAATAATA
2022785 G
1 G
2022786 CATATAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
GAAAAATAAATAATAATAATA
Found at i:2022777 original size:19 final size:21
Alignment explanation
Indices: 2022742--2022780 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
2022732 GGGAGAGAGG
2022742 GAAAAATATATAATAATAATA
1 GAAAAATATATAATAATAATA
2022763 GAAAAAT-TA-AATAATAAT
1 GAAAAATATATAATAATAAT
2022781 TATAGCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (21 bp):
GAAAAATATATAATAATAATA
Found at i:2022831 original size:130 final size:131
Alignment explanation
Indices: 2022673--2022908 Score: 368
Period size: 130 Copynumber: 1.8 Consensus size: 131
2022663 GCGTATAAGG
* * *
2022673 TAAAATTAATAAAAAACATATAATAATATTAATTCCATATATATATAATAGCTAAATATGGGAGA
1 TAAAATTAATAAAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGA
* *
2022738 GAGGGAAAAA-TATATAATAATAATAGAAAAATTAAATAATAATTATAGCATATAAAGTAAAATA
66 GA-GAAAAAACTATATAATAATAATAGAAAAACTAAATAATAATTATAGCATATAAAGTAAAATA
2022802 AA
130 AA
* *
2022804 TAAAGTTAAT-AAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGG
1 TAAAATTAATAAAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGA
*
2022868 GAGAAAAAATCTATATAATAGTAATAGAAAAACTAAATAAT
66 GAGAAAAAA-CTATATAATAATAATAGAAAAACTAAATAAT
2022909 GAAGATAAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
129 6 0.06
130 52 0.55
131 37 0.39
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.29
Consensus pattern (131 bp):
TAAAATTAATAAAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGA
GAGAAAAAACTATATAATAATAATAGAAAAACTAAATAATAATTATAGCATATAAAGTAAAATAA
A
Found at i:2022982 original size:134 final size:130
Alignment explanation
Indices: 2022684--2022986 Score: 321
Period size: 130 Copynumber: 2.3 Consensus size: 130
2022674 AAAATTAATA
* * * * * *
2022684 AAAAACATATAATAATATTAATTCCATATATATATAATAGCTAAATATGGGAGAGAGGGAAAAAT
1 AAAAACATAAAATAAAATTAATACCATATATATATAATAACTAAATATGAGAGAGAGGAAAAAAT
* * * * *
2022749 ATATAATAATAATAGAAAAATTAAATAATAATTATAGCATATAAAGTAAAATAAATAAAGTTAAT
66 ATATAATAATAATAGAAAAACTAAATAATAATGATAGAATATAAAGTAAAAAAAATAAAGTAAAT
* * *
2022814 AAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGGGA-GAAAAAAT
1 AAAAACATAAAATAAAATTAATACCATATATATATAATAACTAAATATGAGAGAGAGGAAAAAA-
*
2022878 CTATATAATAGTAATAGAAAAACTAAATAATGAA-GATA-AATATAATAAG-AAAAAAAAGTAAA
65 -TATATAATAATAATAGAAAAACTAAATAAT-AATGATAGAATAT-A-AAGTAAAAAAAA-TAAA
2022940 G-AAAT
125 GTAAAT
* *
2022945 AATAAGATAAAATACAAAATGT-ATACACATATATATATAATA
1 AAAAACATAAAAT--AAAAT-TAATAC-CATATATATATAATA
2022987 TAACATATAA
Statistics
Matches: 148, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
129 6 0.04
130 56 0.38
131 52 0.35
132 10 0.07
133 8 0.05
134 16 0.11
ACGTcount: A:0.59, C:0.05, G:0.09, T:0.27
Consensus pattern (130 bp):
AAAAACATAAAATAAAATTAATACCATATATATATAATAACTAAATATGAGAGAGAGGAAAAAAT
ATATAATAATAATAGAAAAACTAAATAATAATGATAGAATATAAAGTAAAAAAAATAAAGTAAAT
Found at i:2023476 original size:20 final size:20
Alignment explanation
Indices: 2023436--2023477 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
2023426 AGCACCGCCT
*
2023436 CGCCGCCGCCGTTTATACGG
1 CGCCGCCGCCGTTCATACGG
2023456 CGCCGGCCGCCGTTCAT-CGG
1 CGCC-GCCGCCGTTCATACGG
2023476 CG
1 CG
2023478 GCAAAAAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.07, C:0.43, G:0.33, T:0.17
Consensus pattern (20 bp):
CGCCGCCGCCGTTCATACGG
Found at i:2024937 original size:106 final size:106
Alignment explanation
Indices: 2024617--2025368 Score: 1220
Period size: 106 Copynumber: 7.1 Consensus size: 106
2024607 GTATTGTTCC
* * * * * * * * * *
2024617 GAGTCCAATATCCTCCGCTGTGACGTTGGAACTGGTTCTGGAACTGGGAAATTGCTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
2024682 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* * *
2024723 GAGTCCAATATCCTTCGTTGGGAAGTTGAAATTGGCTCTGAAATGGAGAAA-TGTTTGGTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* *
2024787 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
2024828 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
*
2024893 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
*
2024934 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAAAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* * *
2024999 CTAGCGGTCCCTTCGTCCTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
2025040 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* * *
2025105 CCAGCGGTCCCTTTGTCCTGAAGTTGAACTTACGTTGCCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
2025146 GAGTCCAATATACTTCGTTGTGAAGTTGAGATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
*
2025211 CCAGCGGTCCCTTCGTCTTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
*
2025252 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
*
2025316 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
2025357 GAGTCCAATATC
1 GAGTCCAATATC
2025369 GTTGTCTGGA
Statistics
Matches: 604, Mismatches: 41, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
105 161 0.27
106 443 0.73
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
Found at i:2025085 original size:212 final size:211
Alignment explanation
Indices: 2024617--2025521 Score: 1326
Period size: 212 Copynumber: 4.2 Consensus size: 211
2024607 GTATTGTTCC
* * * * * * * * * *
2024617 GAGTCCAATATCCTCCGCTGTGACGTTGGAACTGGTTCTGGAACTGGGAAATTGCTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
*
2024682 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGGGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* *
2024747 GTTGAAATTGGCTCTGAAATGGAGAAATGTTTGGTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
131 GTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* *
2024812 GAACTTGCATTGTCTG
196 GAACTTACGTTGTCTG
* *
2024828 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
*
2024893 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* * *
2024958 GTTGAAATTGGCTCTGAAATTGAAAAATTGTTTGTTGACAACTAGCGGTCCCTTCGTCCTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
*
2025023 TGAACTTGCGTTGTCTG
195 TGAACTTACGTTGTCTG
2025040 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* * * *
2025105 CCAGCGGTCCCTTTGTCCTGAAGTTGAACTTACGTTGCCTGGAGTCCAATATACTTCGTTGTGAA
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
* *
2025170 GTTGAGATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCTTGAAGT
131 GTTGAAATTGGCTCTGAAATTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGT
2025235 TGAACTTACGTTGTCTG
195 TGAACTTACGTTGTCTG
*
2025252 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAA-TGTTCGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
2025316 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATATCGTTGTCTGGAGT
66 CCAGCGGTCCCTTCGTCGTGAAGTTG-A---A------C-----T----TA-CGTTGTCTGGAGT
*
2025381 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGC
111 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGC
*
2025446 GGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTG
176 GGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
2025482 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
2025522 GGTAAAACCT
Statistics
Matches: 632, Mismatches: 41, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
211 177 0.28
212 302 0.48
215 1 0.00
221 1 0.00
226 1 0.00
230 93 0.15
231 57 0.09
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (211 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGTTGTGAA
GTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
GAACTTACGTTGTCTG
Found at i:2025342 original size:62 final size:62
Alignment explanation
Indices: 2025263--2025468 Score: 190
Period size: 62 Copynumber: 3.3 Consensus size: 62
2025253 AGTCCAATAT
*
2025263 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTC
1 CCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTC
* * * ** * ** *
2025325 CCTTCGTCGTGAAGTTGAACTTATGTTG-TCTGGAGTCCA-ATATCGTT-GTCTGGA-GTCCA-A
1 CCTTCGTCGTGAAGTTGAA---AT-TGGCTCTGAAATTGAGAAAT-GTTCGT-T-GACAACCAGC
**
2025385 TAT-
59 GGTC
*
2025388 CCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTC
1 CCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTC
2025450 CCTTCGTCGTGAAGTTGAA
1 CCTTCGTCGTGAAGTTGAA
2025469 CTTATGTTGT
Statistics
Matches: 106, Mismatches: 25, Indels: 26
0.68 0.16 0.17
Matches are distributed among these distances:
59 4 0.04
60 16 0.15
61 6 0.06
62 36 0.34
63 18 0.17
64 6 0.06
65 16 0.15
66 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (62 bp):
CCTTCGTCGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAACCAGCGGTC
Found at i:2025374 original size:20 final size:20
Alignment explanation
Indices: 2025349--2025388 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2025339 TTGAACTTAT
2025349 GTTGTCTGGAGTCCAATATC
1 GTTGTCTGGAGTCCAATATC
2025369 GTTGTCTGGAGTCCAATATC
1 GTTGTCTGGAGTCCAATATC
2025389 CTTCGTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
GTTGTCTGGAGTCCAATATC
Found at i:2025465 original size:125 final size:125
Alignment explanation
Indices: 2025243--2025493 Score: 502
Period size: 125 Copynumber: 2.0 Consensus size: 125
2025233 GTTGAACTTA
2025243 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
1 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
2025308 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATAT
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATAT
2025368 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
1 CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
2025433 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATAT
66 GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATAT
2025493 C
1 C
2025494 CTTCGTTGTG
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 126 1.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (125 bp):
CGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTC
GTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTATGTTGTCTGGAGTCCAATAT
Found at i:2035736 original size:10 final size:10
Alignment explanation
Indices: 2035711--2035744 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2035701 AAGGTTAGTA
*
2035711 AAATAGAAAT
1 AAATAAAAAT
*
2035721 AGATAAAAAT
1 AAATAAAAAT
2035731 AAATAAAAAT
1 AAATAAAAAT
2035741 AAAT
1 AAAT
2035745 GGTAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:2036823 original size:17 final size:17
Alignment explanation
Indices: 2036783--2036839 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
2036773 ATATAATAGT
*
2036783 AATAAATAAAATAAAA-A
1 AATAAA-AAACTAAAATA
2036800 AACTAAAAAACTAAAATA
1 AA-TAAAAAACTAAAATA
* *
2036818 AATAAATAACTATAATCA
1 AATAAAAAACTAAAAT-A
2036836 AATA
1 AATA
2036840 TGTACAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 22 0.65
18 12 0.35
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (17 bp):
AATAAAAAACTAAAATA
Found at i:2037085 original size:22 final size:21
Alignment explanation
Indices: 2037051--2037094 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2037041 GGGAGAGAGG
*
2037051 GAAAAATATATAATAATAATA
1 GAAAAATAAATAATAATAATA
*
2037072 GAAAAATTAAATAATAATTATA
1 GAAAAA-TAAATAATAATAATA
2037094 G
1 G
2037095 CATATAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
GAAAAATAAATAATAATAATA
Found at i:2037086 original size:19 final size:21
Alignment explanation
Indices: 2037051--2037089 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
2037041 GGGAGAGAGG
2037051 GAAAAATATATAATAATAATA
1 GAAAAATATATAATAATAATA
2037072 GAAAAAT-TA-AATAATAAT
1 GAAAAATATATAATAATAAT
2037090 TATAGCATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (21 bp):
GAAAAATATATAATAATAATA
Found at i:2037230 original size:130 final size:130
Alignment explanation
Indices: 2036993--2037231 Score: 349
Period size: 130 Copynumber: 1.8 Consensus size: 130
2036983 AAATTAATAA
* * * *
2036993 AAAAACATATAATAATATTAATTCCATATATATATAATAGCTAAATATGGGAGAGAGGGAAAAAT
1 AAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGAGAGGAAAAAAT
* * *
2037058 ATATAATAATAATAGAAAAATTAAATAATAATTATAGCATATAAAGTAAAATAAATAAAGTTAAT
66 ATATAATAATAATAGAAAAACTAAATAATAATGATAGAATATAAAGTAAAATAAATAAAGTTAAT
*
2037123 AAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGGGA-GAAAAAAT
1 AAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGAGAGGAAAAAA-
*
2037187 CTATATAATAGTAATAGAAAAACTAAATAATGAA-GATA-AATATAA
65 -TATATAATAATAATAGAAAAACTAAATAAT-AATGATAGAATATAA
2037232 TAAGAAAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
129 6 0.06
130 58 0.60
131 31 0.32
132 2 0.02
ACGTcount: A:0.58, C:0.05, G:0.10, T:0.28
Consensus pattern (130 bp):
AAAAACATATAATAATATTAATACCATATATATATAATAACTAAATATGAGAGAGAGGAAAAAAT
ATATAATAATAATAGAAAAACTAAATAATAATGATAGAATATAAAGTAAAATAAATAAAGTTAAT
Found at i:2037289 original size:2 final size:2
Alignment explanation
Indices: 2037282--2037313 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2037272 ATGTATACAC
2037282 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2037314 ACATATAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2037837 original size:12 final size:11
Alignment explanation
Indices: 2037816--2037841 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2037806 GAAAAATTTA
2037816 TTACTTTTTTT
1 TTACTTTTTTT
2037827 TTACTTTTTTT
1 TTACTTTTTTT
2037838 TTAC
1 TTAC
2037842 AGTTCGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (11 bp):
TTACTTTTTTT
Found at i:2041714 original size:23 final size:22
Alignment explanation
Indices: 2041669--2041714 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
2041659 AAAAATTATC
* *
2041669 TAAAACATTATCTTTTTTTACA
1 TAAAACATTATCGTTTTTAACA
*
2041691 TAAAACATTAATGGTTTTTAACA
1 TAAAACATT-ATCGTTTTTAACA
2041714 T
1 T
2041715 TTCTGGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (22 bp):
TAAAACATTATCGTTTTTAACA
Found at i:2048993 original size:59 final size:60
Alignment explanation
Indices: 2048874--2048995 Score: 140
Period size: 59 Copynumber: 2.0 Consensus size: 60
2048864 GCATCATTTG
** * * * *
2048874 TCCTTAAACTATGATCCTCATTTCAAATTGAGCCTTAAAGTTTTGAACATTCTAATTTCA
1 TCCTTAAACTATGATCCTCATTTCAAATTGAGCCCCAAACTTTTGAACATACCAAATTCA
* * *
2048934 TCCTTAAACTATGCT-TTCATTTTAAATT-AGTCCCCAAACTTTTGAACATACCAAATTCA
1 TCCTTAAACTATGATCCTCATTTCAAATTGAG-CCCCAAACTTTTGAACATACCAAATTCA
2048993 TCC
1 TCC
2048996 CCAAGCTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 2 0.04
59 36 0.69
60 14 0.27
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (60 bp):
TCCTTAAACTATGATCCTCATTTCAAATTGAGCCCCAAACTTTTGAACATACCAAATTCA
Found at i:2051568 original size:100 final size:100
Alignment explanation
Indices: 2051395--2051594 Score: 391
Period size: 100 Copynumber: 2.0 Consensus size: 100
2051385 TAAGTTCGTC
2051395 ATCCCTTAAAATTTTATAATTTTATTTACTCTAACATCAAATAATGTGTTTGTCATTGTCTACAG
1 ATCCCTTAAAATTTTATAATTTTATTTACTCTAACATCAAATAATGTGTTTGTCATTGTCTACAG
2051460 TGGAGAATGACGTGGTAAATAGACATACAAAATCT
66 TGGAGAATGACGTGGTAAATAGACATACAAAATCT
2051495 ATCCCTTAAAATTTTATAATTTTATTTACTCTAACATCAAATAATGTGTTTGTCATTGTCTACAG
1 ATCCCTTAAAATTTTATAATTTTATTTACTCTAACATCAAATAATGTGTTTGTCATTGTCTACAG
*
2051560 TGGAGAATGACGTGGTAGATAGACATACAAAATCT
66 TGGAGAATGACGTGGTAAATAGACATACAAAATCT
2051595 TTTAAAAGTT
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 99 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (100 bp):
ATCCCTTAAAATTTTATAATTTTATTTACTCTAACATCAAATAATGTGTTTGTCATTGTCTACAG
TGGAGAATGACGTGGTAAATAGACATACAAAATCT
Found at i:2051676 original size:27 final size:29
Alignment explanation
Indices: 2051638--2051699 Score: 92
Period size: 27 Copynumber: 2.2 Consensus size: 29
2051628 ATAAAAAATT
*
2051638 AATTATTTAAATATTTAAAA-T-ATAATA
1 AATTATTAAAATATTTAAAATTAATAATA
2051665 AATTATTAAAATATTTAAAATTAAATAATA
1 AATTATTAAAATATTTAAAATT-AATAATA
2051695 AATTA
1 AATTA
2051700 AAATCTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
27 19 0.61
28 1 0.03
30 11 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTATTAAAATATTTAAAATTAATAATA
Found at i:2051700 original size:27 final size:27
Alignment explanation
Indices: 2051623--2051712 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 27
2051613 TATTTAATTA
*
2051623 AAAATATAAAAAATTAATTATTTAAATATTT
1 AAAATATAATAAA-TAATTA---AAATATTT
*
2051654 AAAATATAATAAATTATTAAAATATTT
1 AAAATATAATAAATAATTAAAATATTT
*
2051681 AAAAT-TAA-ATAATAAATTAAAATCTATT
1 AAAATATAATA-AAT-AATTAAAATAT-TT
2051709 AAAA
1 AAAA
2051713 ATTCCAAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 22 0.42
28 6 0.12
30 5 0.10
31 12 0.23
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (27 bp):
AAAATATAATAAATAATTAAAATATTT
Found at i:2052652 original size:60 final size:60
Alignment explanation
Indices: 2052537--2052655 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 60
2052527 GTTGGGTGAC
* * *
2052537 CATTTTGTAACTTTTAATAGTCAAGGGACTCAACAAAGTAACTCCCTATAGTCAAGGGAT
1 CATTTTATAACTTTTAATAGTCAAGGGACTCAACAAAATAACTCCCTATAATCAAGGGAT
** * * *
2052597 CATTTTATAACTTTTAATAGTCGGGGGACTCGACAAAATAA-TATCTTATAATCAAGGGA
1 CATTTTATAACTTTTAATAGTCAAGGGACTCAACAAAATAACT-CCCTATAATCAAGGGA
2052656 CCAATTGTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
59 1 0.02
60 49 0.98
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (60 bp):
CATTTTATAACTTTTAATAGTCAAGGGACTCAACAAAATAACTCCCTATAATCAAGGGAT
Done.