Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 134 of 297
Found at i:45968494 original size:25 final size:25
Alignment explanation
Indices: 45968466--45968513 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45968456 AATATAGAAT
*
45968466 TTACATAAAATACAACTTACATATC
1 TTACATAAAACACAACTTACATATC
* *
45968491 TTACATAATACATAACTTACATA
1 TTACATAAAACACAACTTACATA
45968514 ATACAACACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (25 bp):
TTACATAAAACACAACTTACATATC
Found at i:45968511 original size:9 final size:9
Alignment explanation
Indices: 45968436--45968834 Score: 290
Period size: 9 Copynumber: 45.7 Consensus size: 9
45968426 ATCTTGCATA
45968436 ATAACTTAC
1 ATAACTTAC
*
45968445 ATAACATAC
1 ATAACTTAC
*
45968454 ATAA--TAT
1 ATAACTTAC
* *
45968461 AGAATTTAC
1 ATAACTTAC
**
45968470 ATAAAATAC
1 ATAACTTAC
45968479 --AACTTAC
1 ATAACTTAC
*
45968486 ATATCTTAC
1 ATAACTTAC
45968495 ATAA--TAC
1 ATAACTTAC
45968502 ATAACTTAC
1 ATAACTTAC
45968511 ATAA--TAC
1 ATAACTTAC
45968518 A-ACACTTAC
1 ATA-ACTTAC
* *
45968527 ACAACTTAA
1 ATAACTTAC
*
45968536 ATAACTTAT
1 ATAACTTAC
*
45968545 ATAACTTGC
1 ATAACTTAC
*
45968554 ATAACTTAT
1 ATAACTTAC
*
45968563 ATAA-TAAC
1 ATAACTTAC
*
45968571 ATAA-TAAC
1 ATAACTTAC
45968579 -TAACATAGTAC
1 ATAAC-T--TAC
** * *
45968590 ATTGCCTAA
1 ATAACTTAC
*
45968599 ATAACTAAC
1 ATAACTTAC
45968608 ATAACTTAC
1 ATAACTTAC
* *
45968617 ATAAATTAA
1 ATAACTTAC
45968626 ATAACTTAC
1 ATAACTTAC
*
45968635 ATAAGTTAC
1 ATAACTTAC
*
45968644 ATAAGTTAC
1 ATAACTTAC
* *
45968653 ATAAATTAA
1 ATAACTTAC
45968662 ATAACTTAC
1 ATAACTTAC
45968671 ATAACTTAC
1 ATAACTTAC
*
45968680 ATAGCTTAC
1 ATAACTTAC
* *
45968689 ATAAATTAA
1 ATAACTTAC
45968698 ATAACTTAC
1 ATAACTTAC
45968707 ATAACTTAC
1 ATAACTTAC
*
45968716 ATAACTTAA
1 ATAACTTAC
*
45968725 ATAACTTCC
1 ATAACTTAC
45968734 ATAA--TAC
1 ATAACTTAC
*
45968741 ATAACTTTC
1 ATAACTTAC
*
45968750 CTAACTTAC
1 ATAACTTAC
* *
45968759 ATTATTTAC
1 ATAACTTAC
45968768 ATAA--TAC
1 ATAACTTAC
** * *
45968775 ATTTCCTAA
1 ATAACTTAC
45968784 ATAACTTAC
1 ATAACTTAC
45968793 ATAACTTAC
1 ATAACTTAC
* *
45968802 ATAAATTAA
1 ATAACTTAC
45968811 ATAACTTAC
1 ATAACTTAC
45968820 ATAACTTAC
1 ATAACTTAC
45968829 ATAACT
1 ATAACT
45968835 CATTTATGGT
Statistics
Matches: 303, Mismatches: 68, Indels: 38
0.74 0.17 0.09
Matches are distributed among these distances:
6 1 0.00
7 36 0.12
8 10 0.03
9 251 0.83
10 1 0.00
11 2 0.01
12 2 0.01
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:45968856 original size:26 final size:26
Alignment explanation
Indices: 45968820--45968875 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
45968810 AATAACTTAC
*
45968820 ATAACTTACATAACTCATTTATGGTT
1 ATAAATTACATAACTCATTTATGGTT
45968846 ATAAATTACATAACTCATTTATGGTT
1 ATAAATTACATAACTCATTTATGGTT
45968872 ATAA
1 ATAA
45968876 CTGGCGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (26 bp):
ATAAATTACATAACTCATTTATGGTT
Found at i:45980915 original size:338 final size:338
Alignment explanation
Indices: 45980299--45980974 Score: 1298
Period size: 338 Copynumber: 2.0 Consensus size: 338
45980289 TGGGAAATAT
45980299 TAGTTGCCGCCTTCTATTTTATCAATGTCCAAGATGGAGAAAGAACTATTTTGCATGGTGCTGAA
1 TAGTTGCCGCCTTCTATTTTATCAATGTCCAAGATGGAGAAAGAACTATTTTGCATGGTGCTGAA
45980364 GGATATAAAGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAA
66 GGATATAAAGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAA
45980429 GATTATATTCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTACTCTA
131 GATTATATTCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTACTCTA
45980494 CGATGTTGAATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCAT
196 CGATGTTGAATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCAT
* *
45980559 TTGTGGCAAAGCTTTGGATGTTTAAGAACTTCAGAAGGTACAAGATCGAGCCGTTTTGACTTTAT
261 TTGTGGCAAAGCTTTGGATGTTCAAGAACTTCAGAAGGTACAAGATCGAGCCGCTTTGACTTTAT
45980624 GCAACATGGAGAA
326 GCAACATGGAGAA
45980637 TAGTTGCCGCCTTCTATTTTATCAATGTCCAAGATGGAGAAAGAACTATTTTGCATGGTGCTGAA
1 TAGTTGCCGCCTTCTATTTTATCAATGTCCAAGATGGAGAAAGAACTATTTTGCATGGTGCTGAA
45980702 GGATATAAAGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAA
66 GGATATAAAGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAA
*
45980767 GATTATATTCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTGCTCTA
131 GATTATATTCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTACTCTA
*
45980832 CGATGTTGTATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCAT
196 CGATGTTGAATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCAT
* *
45980897 TTGTGGCAAAGTTTTGGATGTTCAAGAACTTCAGAAGGTACAGGATCGAGCCGCTTTGACTTTAT
261 TTGTGGCAAAGCTTTGGATGTTCAAGAACTTCAGAAGGTACAAGATCGAGCCGCTTTGACTTTAT
45980962 GCAACATGGAGAA
326 GCAACATGGAGAA
45980975 AATCTTCCCA
Statistics
Matches: 332, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
338 332 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (338 bp):
TAGTTGCCGCCTTCTATTTTATCAATGTCCAAGATGGAGAAAGAACTATTTTGCATGGTGCTGAA
GGATATAAAGGTTCCAGATGCGTATGCATCAAATATATCTCGATGTGTTAGTGTTAAAGATCGAA
GATTATATTCGCTAAAATCACATGACTATCACATCTTGATGCAAGATTTACTGCCAGTTACTCTA
CGATGTTGAATGTCCAAGAAGGTGACGTCTTGTATAATTGAACTATCCAATATAATGAAAGCCAT
TTGTGGCAAAGCTTTGGATGTTCAAGAACTTCAGAAGGTACAAGATCGAGCCGCTTTGACTTTAT
GCAACATGGAGAA
Found at i:45984141 original size:21 final size:21
Alignment explanation
Indices: 45984115--45984161 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
45984105 CTACAACTTA
*
45984115 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
*
45984136 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
45984157 AAGCA
1 AAGCA
45984162 AAGGTTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.45, T:0.02
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:45984613 original size:42 final size:42
Alignment explanation
Indices: 45984547--45984706 Score: 211
Period size: 42 Copynumber: 3.9 Consensus size: 42
45984537 GCTTTTGTAT
* * *
45984547 AAAAGCGCCGCTAAGGATCATGTTCTTTAGCGGCGCTTA-ATA
1 AAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
*
45984589 AAAATCGCCACTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
1 AAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AA
*
45984632 AAAAT-GCCGCTAAAGAACATG-TCTTTAGAGGCGCTTAGAA
1 AAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
45984672 AAAA-CGCCGCTAAAGATCATGTTCTTTCGCGGCGC
1 AAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGC
45984707 CAAAAGAACA
Statistics
Matches: 105, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
40 21 0.20
41 27 0.26
42 50 0.48
43 6 0.06
44 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.24
Consensus pattern (42 bp):
AAAATCGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:45984696 original size:82 final size:84
Alignment explanation
Indices: 45984553--45984706 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 84
45984543 GTATAAAAGC
* * *
45984553 GCCGCTAAGGATCATGTTCTTTAGCGGCGCTTAATAAAAATCGCCACTAAAGAACATGTTCTTTA
1 GCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAATAAAAATCGCCACTAAAGAACATGTTCTTTA
45984618 GCGGCGCTTAGAAAAAAAT
66 GCGGCGCTTAGAAAAAAAT
* *
45984637 GCCGCTAAAGAACATG-TCTTTAGAGGCGCTTAGA-AAAAA-CGCCGCTAAAGATCATGTTCTTT
1 GCCGCTAAAGAACATGTTCTTTAGAGGCGCTTA-ATAAAAATCGCCACTAAAGAACATGTTCTTT
*
45984699 CGCGGCGC
65 AGCGGCGC
45984707 CAAAAGAACA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
82 28 0.44
83 20 0.32
84 15 0.24
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (84 bp):
GCCGCTAAAGAACATGTTCTTTAGAGGCGCTTAATAAAAATCGCCACTAAAGAACATGTTCTTTA
GCGGCGCTTAGAAAAAAAT
Found at i:45987426 original size:20 final size:20
Alignment explanation
Indices: 45987386--45987456 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
45987376 TAATTCAAAA
*
45987386 TATTATAAAAA-ATTATAAAT
1 TATTATAAAAATATGAT-AAT
45987406 TATTATAAAAATATGATAAT
1 TATTATAAAAATATGATAAT
* *
45987426 TATAATAATAAT-TGATAAT
1 TATTATAAAAATATGATAAT
*
45987445 TAGTA-AAAAATA
1 TATTATAAAAATA
45987457 CTAACAAACT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
18 5 0.12
19 10 0.23
20 24 0.56
21 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
TATTATAAAAATATGATAAT
Found at i:45987427 original size:17 final size:19
Alignment explanation
Indices: 45987407--45987453 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
45987397 ATTATAAATT
45987407 ATTATAAAAAT-A-TGATA
1 ATTATAAAAATAATTGATA
*
45987424 ATTATAATAATAATTGATA
1 ATTATAAAAATAATTGATA
45987443 ATTAGTAAAAA
1 ATTA-TAAAAA
45987454 ATACTAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.40
18 1 0.04
19 9 0.36
20 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
ATTATAAAAATAATTGATA
Found at i:45997057 original size:9 final size:9
Alignment explanation
Indices: 45997041--45997092 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
45997031 GGTATTTTTC
45997041 GGTAATTCG
1 GGTAATTCG
*
45997050 GTTAATTCG
1 GGTAATTCG
*
45997059 GTTAATTCG
1 GGTAATTCG
45997068 GGTAATTCG
1 GGTAATTCG
45997077 GGTAATTCG
1 GGTAATTCG
45997086 GGTAATT
1 GGTAATT
45997093 TTTAACCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:45997270 original size:12 final size:12
Alignment explanation
Indices: 45997253--45997277 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45997243 AGTAATTTCG
45997253 GGTCGGTTAACC
1 GGTCGGTTAACC
45997265 GGTCGGTTAACC
1 GGTCGGTTAACC
45997277 G
1 G
45997278 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:46000978 original size:24 final size:23
Alignment explanation
Indices: 46000929--46000980 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 23
46000919 TCTTTTAAAA
46000929 AATTATTAAATAATATATTTTAT
1 AATTATTAAATAATATATTTTAT
46000952 AATT-TTAAA-AAGTATATATTTACT
1 AATTATTAAATAA-TATAT-TTTA-T
46000976 AATTA
1 AATTA
46000981 AATGAGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 10 0.40
23 8 0.32
24 5 0.20
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
AATTATTAAATAATATATTTTAT
Found at i:46009031 original size:30 final size:30
Alignment explanation
Indices: 46008995--46009056 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
46008985 AAAAAACAAA
46008995 ACCAATATATAAAAATCTACTATTAATCCT
1 ACCAATATATAAAAATCTACTATTAATCCT
46009025 ACCAATATATAAAAATCTACTATTAATCCT
1 ACCAATATATAAAAATCTACTATTAATCCT
46009055 AC
1 AC
46009057 TCCTAAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (30 bp):
ACCAATATATAAAAATCTACTATTAATCCT
Found at i:46009881 original size:43 final size:43
Alignment explanation
Indices: 46009811--46009898 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
46009801 TTAAGAACAT
46009811 GGCTGTGTGGCCAGACCGTGTAAAATTTGAAAAGAGGGTCACAC
1 GGCTGTGTGGCCAGACCGTGTAAAATTTG-AAAGAGGGTCACAC
* * ** * *
46009855 GGCTGTGTTG-CAGACTGTGTGTAATTTGAAATAGGGTCATAC
1 GGCTGTGTGGCCAGACCGTGTAAAATTTGAAAGAGGGTCACAC
46009897 GG
1 GG
46009899 TCATGTCTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
42 14 0.37
43 15 0.39
44 9 0.24
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (43 bp):
GGCTGTGTGGCCAGACCGTGTAAAATTTGAAAGAGGGTCACAC
Found at i:46027332 original size:30 final size:30
Alignment explanation
Indices: 46027298--46027360 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
46027288 TAGTATTAAG
46027298 ATAATTTCAAGCCATATAAGTAATATATGA
1 ATAATTTCAAGCCATATAAGTAATATATGA
* *
46027328 ATAATTTGAAGTCATATAAGTAATATATGA
1 ATAATTTCAAGCCATATAAGTAATATATGA
46027358 ATA
1 ATA
46027361 TACTTGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (30 bp):
ATAATTTCAAGCCATATAAGTAATATATGA
Found at i:46028207 original size:14 final size:14
Alignment explanation
Indices: 46028160--46028207 Score: 78
Period size: 14 Copynumber: 3.4 Consensus size: 14
46028150 AGGAATCTTT
46028160 ATTATATTAACTTA
1 ATTATATTAACTTA
*
46028174 ATTAAATTAATCTTA
1 ATTATATTAA-CTTA
46028189 ATTATATTAACTTA
1 ATTATATTAACTTA
46028203 ATTAT
1 ATTAT
46028208 TCATTAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 18 0.58
15 13 0.42
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTATATTAACTTA
Found at i:46030152 original size:20 final size:21
Alignment explanation
Indices: 46030128--46030198 Score: 76
Period size: 20 Copynumber: 3.4 Consensus size: 21
46030118 ACATTAAATT
*
46030128 TAATATTAAATTTATTAAA-T
1 TAATATTAAATTTATTAAAGA
*
46030148 TAATA-GAATATTTATCTACAAGA
1 TAATATTAA-ATTTAT-TA-AAGA
46030171 TAATATTAAATTTATTAAA-A
1 TAATATTAAATTTATTAAAGA
46030191 TAATATTA
1 TAATATTA
46030199 TTTTTGGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
19 2 0.05
20 20 0.47
21 4 0.09
22 4 0.09
23 11 0.26
24 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (21 bp):
TAATATTAAATTTATTAAAGA
Found at i:46030642 original size:9 final size:9
Alignment explanation
Indices: 46030628--46030652 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
46030618 TCATATTTAT
46030628 TTTAATTAA
1 TTTAATTAA
46030637 TTTAATTAA
1 TTTAATTAA
46030646 TTTAATT
1 TTTAATT
46030653 TTTCTTGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAATTAA
Found at i:46036525 original size:22 final size:22
Alignment explanation
Indices: 46036488--46036552 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
46036478 TGCGAGTAGT
*
46036488 CAGAATGGCTAAAAGCCATAAA
1 CAGAATAGCTAAAAGCCATAAA
* *
46036510 CATG-ATAGCTATAAGCTATAAA
1 CA-GAATAGCTAAAAGCCATAAA
* *
46036532 CAGAATGGCTACAAGCCATAA
1 CAGAATAGCTAAAAGCCATAA
46036553 GTATAGTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.18
Consensus pattern (22 bp):
CAGAATAGCTAAAAGCCATAAA
Found at i:46036612 original size:32 final size:32
Alignment explanation
Indices: 46036558--46036807 Score: 362
Period size: 32 Copynumber: 7.9 Consensus size: 32
46036548 CATAAGTATA
* * * *
46036558 GTAATATAATTGGCAC--AGCCATCAGTAGCA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* * * *
46036588 GTGATATGATCGGCATACATCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
*
46036620 GTAATATGATCGGTACAAAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
46036652 GTAATATGATCGACACAAAGCCATCAGTAACA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
*
46036684 GTAAT-TGATCGGCACAAATCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
46036715 GTAATATGATCGGCACAAAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
46036747 GTAATATGATCGGCACAAAGCCATCAGTAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
*
46036779 GTAATATGATCGACACAAAGCCATCAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTA
46036808 GCATCGCAGC
Statistics
Matches: 197, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
30 12 0.06
31 28 0.14
32 157 0.80
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (32 bp):
GTAATATGATCGGCACAAAGCCATCAGTAACG
Found at i:46036705 original size:95 final size:96
Alignment explanation
Indices: 46036574--46036807 Score: 380
Period size: 95 Copynumber: 2.4 Consensus size: 96
46036564 TAATTGGCAC
* * * * *
46036574 AGCCATCAGTAGCAGTGATATGATCGGCATACATCCATCAGTAACGGTAATATGATCGGTACAAA
1 AGCCATCAGTAACAGTAATATGATCGGCACAAATCCATCAGTAACGGTAATATGATCGGCACAAA
46036639 GCCATCAGTAACGGTAATATGATCGACACAA
66 GCCATCAGTAACGGTAATATGATCGACACAA
46036670 AGCCATCAGTAACAGTAAT-TGATCGGCACAAATCCATCAGTAACGGTAATATGATCGGCACAAA
1 AGCCATCAGTAACAGTAATATGATCGGCACAAATCCATCAGTAACGGTAATATGATCGGCACAAA
*
46036734 GCCATCAGTAACGGTAATATGATCGGCACAA
66 GCCATCAGTAACGGTAATATGATCGACACAA
* * *
46036765 AGCCATCAGTAACGGTAATATGATCGACACAAAGCCATCAGTA
1 AGCCATCAGTAACAGTAATATGATCGGCACAAATCCATCAGTA
46036808 GCATCGCAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
95 90 0.70
96 38 0.30
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (96 bp):
AGCCATCAGTAACAGTAATATGATCGGCACAAATCCATCAGTAACGGTAATATGATCGGCACAAA
GCCATCAGTAACGGTAATATGATCGACACAA
Found at i:46036802 original size:127 final size:127
Alignment explanation
Indices: 46036576--46036807 Score: 401
Period size: 127 Copynumber: 1.8 Consensus size: 127
46036566 ATTGGCACAG
* * * * * *
46036576 CCATCAGTAGCAGTGATATGATCGGCATACATCCATCAGTAACGGTAATATGATCGGTACAAAGC
1 CCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGGCACAAAGC
46036641 CATCAGTAACGGTAATATGATCGACACAAAGCCATCAGTAACAGTAATTGATCGGCACAAAT
66 CATCAGTAACGGTAATATGATCGACACAAAGCCATCAGTAACAGTAATTGATCGGCACAAAT
*
46036703 CCATCAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGGCACAAAGC
1 CCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGGCACAAAGC
46036768 CATCAGTAACGGTAATATGATCGACACAAAGCCATCAGTA
66 CATCAGTAACGGTAATATGATCGACACAAAGCCATCAGTA
46036808 GCATCGCAGC
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 98 1.00
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (127 bp):
CCATCAGTAACAGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGGCACAAAGC
CATCAGTAACGGTAATATGATCGACACAAAGCCATCAGTAACAGTAATTGATCGGCACAAAT
Found at i:46036882 original size:27 final size:27
Alignment explanation
Indices: 46036851--46036910 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
46036841 AACAAAGCTG
*
46036851 CCAGTAATAGT-ATATGTGGCCAG-GCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
*
46036878 CCAGTAACAGTGATTGTGGTAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
46036905 CCAGTA
1 CCAGTA
46036911 CAATACTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 25 0.86
28 2 0.07
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.22
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:46037010 original size:24 final size:23
Alignment explanation
Indices: 46036983--46037060 Score: 84
Period size: 24 Copynumber: 3.3 Consensus size: 23
46036973 GCTCAGAATT
*
46036983 AATCATTCAAATCACAGACAAATA
1 AATCATTCAAA-CACAGACAAATC
* *
46037007 AATCATACCAAACATAGACAAATC
1 AATCAT-TCAAACACAGACAAATC
* * *
46037031 AGTCATTTAACCACAGACAAATC
1 AATCATTCAAACACAGACAAATC
46037054 AATCATT
1 AATCATT
46037061 TGACCTTAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 19 0.43
24 21 0.48
25 4 0.09
ACGTcount: A:0.50, C:0.23, G:0.05, T:0.22
Consensus pattern (23 bp):
AATCATTCAAACACAGACAAATC
Found at i:46037099 original size:27 final size:27
Alignment explanation
Indices: 46037049--46037100 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
46037039 AACCACAGAC
*
46037049 AAATCAATCATTTGACCTTAAGGGTCA
1 AAATCAATCATTTGACCCTAAGGGTCA
*
46037076 AAAT-AATCATTTTACCCTACAGGGT
1 AAATCAATCATTTGACCCTA-AGGGT
46037101 ATTACGGTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (27 bp):
AAATCAATCATTTGACCCTAAGGGTCA
Found at i:46037135 original size:27 final size:27
Alignment explanation
Indices: 46037082--46037467 Score: 470
Period size: 27 Copynumber: 14.3 Consensus size: 27
46037072 GTCAAAATAA
46037082 TCATTTTACCCTACA-GGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
46037108 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
46037135 TCATTCTACCCTATAGGGTTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
*
46037162 TCATTTTACCCTATAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
46037189 TCATTTTACCTTACAAGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
*
46037216 TCATTTTACCCTACAGGGGTATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * **
46037243 TCATTTTACCTTACAGAGGTATTATAG
1 TCATTTTACCCTACAGGGGTATTACGG
*
46037270 TCATTTTACTCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *
46037297 TCATTTTAACCTACAGGGGTATTACAG
1 TCATTTTACCCTACAGGGGTATTACGG
* * * *
46037324 TTATTTTACCCTACAAGGGCATTATGG
1 TCATTTTACCCTACAGGGGTATTACGG
* *** *
46037351 TCATTTTACCCTAGACATGTATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
*
46037378 TCATTTTACCCTATAGGGGTATTAAC-G
1 TCATTTTACCCTACAGGGGTATT-ACGG
* *
46037405 TCATTTTACCCTACAAGGGCATTACGG
1 TCATTTTACCCTACAGGGGTATTACGG
* * *
46037432 TCATTTAACCCTACAGGAGTATTACGA
1 TCATTTTACCCTACAGGGGTATTACGG
46037459 TCATTTTAC
1 TCATTTTAC
46037468 AACCTTTTCG
Statistics
Matches: 305, Mismatches: 52, Indels: 5
0.84 0.14 0.01
Matches are distributed among these distances:
26 16 0.05
27 287 0.94
28 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTACGG
Found at i:46067793 original size:40 final size:40
Alignment explanation
Indices: 46067731--46067836 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
46067721 ACCAAAATGT
* * *
46067731 AAACAGGGGCACGTAAGAGCAATCAAGGGTACCGAAGTAC
1 AAACAAGGGCACGTATGTGCAATCAAGGGTACCGAAGTAC
* * * *
46067771 GAATAAGGGCACGTATGTGCAATCAGGGGTACTGAAGTAC
1 AAACAAGGGCACGTATGTGCAATCAAGGGTACCGAAGTAC
*
46067811 AAACAGGGGCACGTATGTGCAATCAA
1 AAACAAGGGCACGTATGTGCAATCAA
46067837 TGTATAATTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (40 bp):
AAACAAGGGCACGTATGTGCAATCAAGGGTACCGAAGTAC
Found at i:46076552 original size:22 final size:21
Alignment explanation
Indices: 46076527--46076570 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
46076517 TGATAAACTT
46076527 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
46076549 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
46076570 T
1 T
46076571 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:46087244 original size:14 final size:14
Alignment explanation
Indices: 46087225--46087251 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46087215 GTGGTCCAGT
46087225 TGAACTGAACCGAG
1 TGAACTGAACCGAG
46087239 TGAACTGAACCGA
1 TGAACTGAACCGA
46087252 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:46092052 original size:25 final size:25
Alignment explanation
Indices: 46092024--46092072 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
46092014 ACGAATTTTC
46092024 TCAAAA-TTTATCGGGGGTAAAATTA
1 TCAAAATTTTAT-GGGGGTAAAATTA
*
46092049 TCAAAATTTTATTGGGGTAAAATT
1 TCAAAATTTTATGGGGGTAAAATT
46092073 GGGATGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
TCAAAATTTTATGGGGGTAAAATTA
Found at i:46094568 original size:40 final size:40
Alignment explanation
Indices: 46094291--46094554 Score: 349
Period size: 40 Copynumber: 6.6 Consensus size: 40
46094281 CGAATGATGT
* * * *
46094291 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
46094331 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
46094371 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
46094409 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
46094450 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
46094490 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
46094530 CCGGGCTATGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46094555 AACGAGTAGC
Statistics
Matches: 201, Mismatches: 16, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
39 33 0.16
40 158 0.79
41 10 0.05
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:46094585 original size:159 final size:159
Alignment explanation
Indices: 46094291--46094587 Score: 379
Period size: 159 Copynumber: 1.9 Consensus size: 159
46094281 CGAATGATGT
*
46094291 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
* * ** *
46094356 TGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGAGTTAAGT
66 TGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAATCCGAGTTAAAT
46094421 CCCGAAGGCATTTGTGCGAGTTACTATAA
131 CCCGAAGGCATTTGTGCGAGTTACTATAA
* * * *
46094450 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATT
* * * *
46094513 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGCTATATCCG-GT
64 TGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTGGAACGAGTTA-CTAAATCCGAGT
*
46094575 TAAATTCCGAAGG
126 TAAATCCCGAAGG
46094588 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
158 3 0.03
159 84 0.71
160 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (159 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTG
TGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTGGAACGAGTTACTAAATCCGAGTTAAAT
CCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:46119684 original size:12 final size:12
Alignment explanation
Indices: 46119667--46119691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46119657 AGATTAGAAC
46119667 TCATAGCACTTT
1 TCATAGCACTTT
46119679 TCATAGCACTTT
1 TCATAGCACTTT
46119691 T
1 T
46119692 TGGAGAATTT
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:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (12 bp):
TCATAGCACTTT
Found at i:46124671 original size:76 final size:76
Alignment explanation
Indices: 46124536--46124685 Score: 192
Period size: 76 Copynumber: 2.0 Consensus size: 76
46124526 TGGCATTCTA
** * * * * *
46124536 GTACATCATCAGATAAATCGAAAGAAATATATTGGCACACATTGTGCATCGTTAGACAAGCCGAA
1 GTACATCATCAGATAAATCGAAAGAAATATACCGGCACACACTGTGCATCATCAAACAAGCCAAA
*
46124601 GCAATTATAGT
66 ACAATTATAGT
* * * *
46124612 GTACATCATCGGATAAATCGAAATAAATATACCGGCACATACTGTGTATCATCAAACAAGCCAAA
1 GTACATCATCAGATAAATCGAAAGAAATATACCGGCACACACTGTGCATCATCAAACAAGCCAAA
46124677 ACAATTATA
66 ACAATTATA
46124686 TTAACACGCG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
76 62 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (76 bp):
GTACATCATCAGATAAATCGAAAGAAATATACCGGCACACACTGTGCATCATCAAACAAGCCAAA
ACAATTATAGT
Found at i:46125297 original size:37 final size:37
Alignment explanation
Indices: 46125256--46125328 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
46125246 AATTGGATAC
46125256 CATTCCCTCAAAAAAGAATAATATAATAAGTTACGGT
1 CATTCCCTCAAAAAAGAATAATATAATAAGTTACGGT
46125293 CATTCCCTCAAAAAAGAATAATATAATAAGTTACGG
1 CATTCCCTCAAAAAAGAATAATATAATAAGTTACGG
46125329 GATTTGGTAA
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:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (37 bp):
CATTCCCTCAAAAAAGAATAATATAATAAGTTACGGT
Found at i:46133857 original size:16 final size:16
Alignment explanation
Indices: 46133826--46133858 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
46133816 AAATATTATA
*
46133826 TATTTTTTATACTTTT
1 TATTTTTTAAACTTTT
46133842 TATTTTTTAAA-TTTT
1 TATTTTTTAAACTTTT
46133857 TA
1 TA
46133859 AACAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
TATTTTTTAAACTTTT
Found at i:46144749 original size:41 final size:41
Alignment explanation
Indices: 46144704--46144973 Score: 441
Period size: 41 Copynumber: 6.6 Consensus size: 41
46144694 GGTTTTAAAA
* * *
46144704 CCTAGCAGGCTAAGTGTCGGTGATCTAAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
46144745 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
46144786 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
46144827 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* *
46144868 CCTAGCAGGCTAAGTGCCGGTGAACTGGATTAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* * *
46144909 CCTAGCAGGCTAAGTGCCGGTGATCTAAATCAGGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
* * *
46144950 CCTAACAAGCTAAGTGCCAGTGAA
1 CCTAGCAGGCTAAGTGCCGGTGAA
46144974 TCTGTTTAAA
Statistics
Matches: 215, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 215 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.21
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
Found at i:46149687 original size:101 final size:101
Alignment explanation
Indices: 46149567--46149751 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 101
46149557 AAAGTGATGG
* * * *
46149567 TCACGTGTGTAGTACTATGTGCAGTCTACTACGTGTACCGGAAT-G-ATGGGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGCACCGG-ATGGAAT-GGTCACATGTGTAGT
46149630 ACTATGTGCAGGCTACTATGCGTATCGAATAGCTTCAA
64 ACTATGTGCAGGCTACTATGCGTATCGAATAGCTTCAA
*
46149668 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGCATCGGATGGAAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTACAGGCTACTACGTGCACCGGATGG-AATGGTCACATGTGTAGTA
*
46149733 CTATGTGTAGGCTACTATG
65 CTATGTGCAGGCTACTATG
46149752 TGAACCGGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
100 2 0.03
101 38 0.51
102 33 0.44
103 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTACAGGCTACTACGTGCACCGGATGGAATGGTCACATGTGTAGTAC
TATGTGCAGGCTACTATGCGTATCGAATAGCTTCAA
Found at i:46149728 original size:51 final size:49
Alignment explanation
Indices: 46149561--46149749 Score: 175
Period size: 51 Copynumber: 3.8 Consensus size: 49
46149551 AAAGTGAAAG
* * *
46149561 TGAT-GGTCACGTGTGTAGTACTATGTGCAGTCTACTACGTGTACCGGAA
1 TGATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-A
* * * * *
46149610 TGATGGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGAA
1 TGATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA
* ** * * *
46149659 TAGCTTCAATCACGTGTGTAGTACTATGTACAGGCTACTACGTGCATCGGA
1 T-G-ATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA
*
46149710 TGGAAAT-GGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 T-G--ATCGGTCACATGTGTAGTACTATGTGCAGGCTACTA
46149750 TGTGAACCGG
Statistics
Matches: 110, Mismatches: 26, Indels: 6
0.77 0.18 0.04
Matches are distributed among these distances:
49 6 0.05
50 37 0.34
51 66 0.60
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (49 bp):
TGATCGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGA
Found at i:46149829 original size:44 final size:45
Alignment explanation
Indices: 46149755--46149846 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 45
46149745 TACTATGTGA
*
46149755 ACCGGGTACCATTGACTATAAAGGTGGTTGCAATATGCTGATTCC
1 ACCGAGTACCATTGACTATAAAGGTGGTTGCAATATGCTGATTCC
* * * *
46149800 ACCGAGTATCATTGATTAT-AAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAGTACCATTGACTATAAAGGTGGTTGCAATATGCTGATTCC
46149844 ACC
1 ACC
46149847 ATGTATTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 26 0.62
45 16 0.38
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAGTACCATTGACTATAAAGGTGGTTGCAATATGCTGATTCC
Found at i:46151949 original size:8 final size:8
Alignment explanation
Indices: 46151936--46151964 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
46151926 TTTTAAATGA
46151936 TATTTTAT
1 TATTTTAT
46151944 TATTTTAT
1 TATTTTAT
46151952 TATTTTAT
1 TATTTTAT
46151960 TATTT
1 TATTT
46151965 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:46158450 original size:91 final size:90
Alignment explanation
Indices: 46158273--46158450 Score: 232
Period size: 91 Copynumber: 2.0 Consensus size: 90
46158263 GTGGCAGGTG
* * * *
46158273 AATACACTGTCAGTAGTTGTGAATACACAATGGGTTTGTAGATAAAAGCTACTAGTAAAAGTTGT
1 AATACACTGTCAATAGTTGTGAATACACAATGGCTTTGCAGATAAAAACTACTAGT-AAAGTTGT
* *
46158338 GGGTAAACCACCAGTGCTTGCAAGTT
65 GGATAAACCACCACTGCTTGCAAGTT
* * *
46158364 AATACATTGTCAATAGGTTGTGAATGCATAATGGCTTTGCAGATAAAAACTACTAGT-AAGTTTG
1 AATACACTGTCAATA-GTTGTGAATACACAATGGCTTTGCAGATAAAAACTACTAGTAAAG-TTG
*
46158428 TGGATAAACCACCACTGTTTGCA
64 TGGATAAACCACCACTGCTTGCA
46158451 GATAATTTGC
Statistics
Matches: 75, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
90 3 0.04
91 36 0.48
92 36 0.48
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (90 bp):
AATACACTGTCAATAGTTGTGAATACACAATGGCTTTGCAGATAAAAACTACTAGTAAAGTTGTG
GATAAACCACCACTGCTTGCAAGTT
Found at i:46160851 original size:22 final size:22
Alignment explanation
Indices: 46160823--46160882 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
46160813 ATTAGCACGG
46160823 TAGTGCTTTCTGTTTAACACAT
1 TAGTGCTTTCTGTTTAACACAT
* * *
46160845 TAGTGCTATCTGATTAGCACAT
1 TAGTGCTTTCTGTTTAACACAT
46160867 TAGTGCTCTT-TGTTTA
1 TAGTGCT-TTCTGTTTA
46160883 GCACCTAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 31 0.97
23 1 0.03
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.45
Consensus pattern (22 bp):
TAGTGCTTTCTGTTTAACACAT
Found at i:46160883 original size:22 final size:21
Alignment explanation
Indices: 46160814--46160886 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
46160804 CTCTGATTCA
**
46160814 TTAGCACGGTAGTGCTTTCTGT
1 TTAGCACATTAGTGCTTT-TGT
* * *
46160836 TTAACACATTAGTGCTATCTGA
1 TTAGCACATTAGTGCT-TTTGT
46160858 TTAGCACATTAGTGCTCTTTGT
1 TTAGCACATTAGTGCT-TTTGT
46160880 TTAGCAC
1 TTAGCAC
46160887 CTAGGTGCTC
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.40
Consensus pattern (21 bp):
TTAGCACATTAGTGCTTTTGT
Found at i:46160895 original size:44 final size:44
Alignment explanation
Indices: 46160813--46160900 Score: 99
Period size: 44 Copynumber: 2.0 Consensus size: 44
46160803 TCTCTGATTC
* *
46160813 ATTAGCACGGTAGTGCTTTCTGTTTAACACATTAGTGCTATCTG
1 ATTAGCACAGTAGTGCTTTCTGTTTAACACACTAGTGCTATCTG
* * *
46160857 ATTAGCACATTAGTGCTCTT-TGTTTAGCAC-CTAGGTGCTCTCTG
1 ATTAGCACAGTAGTGCT-TTCTGTTTAACACACTA-GTGCTATCTG
46160901 TTCTGTTATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
43 2 0.05
44 33 0.89
45 2 0.05
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (44 bp):
ATTAGCACAGTAGTGCTTTCTGTTTAACACACTAGTGCTATCTG
Found at i:46161208 original size:17 final size:17
Alignment explanation
Indices: 46161178--46161213 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46161168 ATAATTTTGG
*
46161178 TAAATGAAATAAATGAA
1 TAAATGAAAGAAATGAA
*
46161195 TAAATTAAAGAAATGAA
1 TAAATGAAAGAAATGAA
46161212 TA
1 TA
46161214 CATTTTGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (17 bp):
TAAATGAAAGAAATGAA
Found at i:46163140 original size:21 final size:21
Alignment explanation
Indices: 46163116--46163157 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
46163106 AATCCCCACA
* *
46163116 TGGTGTGTTGGTTGGTTTGGG
1 TGGTATGTTGGTTGGATTGGG
46163137 TGGTATGTTGGTTGGATTGGG
1 TGGTATGTTGGTTGGATTGGG
46163158 ATAGGTTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.00, G:0.50, T:0.45
Consensus pattern (21 bp):
TGGTATGTTGGTTGGATTGGG
Found at i:46165515 original size:818 final size:818
Alignment explanation
Indices: 46163940--46165577 Score: 3276
Period size: 818 Copynumber: 2.0 Consensus size: 818
46163930 CACGAGTATT
46163940 TCAGGATAGGGAGTATTTCTAACAAGTGTTACAGTGAACTTGTTGGGTTGGGAAATGTTTGCCAC
1 TCAGGATAGGGAGTATTTCTAACAAGTGTTACAGTGAACTTGTTGGGTTGGGAAATGTTTGCCAC
46164005 TCGGCATTAGTAAAGAGGACTCTCAAAAATCCTCTATTCAAAGACCTAAACCAAGCGACAATTAT
66 TCGGCATTAGTAAAGAGGACTCTCAAAAATCCTCTATTCAAAGACCTAAACCAAGCGACAATTAT
46164070 AGCGAAGAGCATTCATACATGGAATAATTGCCTTGCATTGATCGATTCACCATCTCCGTCTGCTT
131 AGCGAAGAGCATTCATACATGGAATAATTGCCTTGCATTGATCGATTCACCATCTCCGTCTGCTT
46164135 AAGGATATAGGATTGCTTAAGCTAACAAACGGTTACCAGACGTAAGGGGCCAAAATTGTTCTTTT
196 AAGGATATAGGATTGCTTAAGCTAACAAACGGTTACCAGACGTAAGGGGCCAAAATTGTTCTTTT
46164200 GTCTTTATTTTTGATATTGTTCCAAAAGCTTCATTAAAATGTGTCATTAAATTTAAGCCTAGTTA
261 GTCTTTATTTTTGATATTGTTCCAAAAGCTTCATTAAAATGTGTCATTAAATTTAAGCCTAGTTA
46164265 AATTATATTTAGTTGTATGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATT
326 AATTATATTTAGTTGTATGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATT
46164330 TTATACATGCCATTATTTTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACT
391 TTATACATGCCATTATTTTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACT
46164395 AGATATTGTTTCACATTGTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCA
456 AGATATTGTTTCACATTGTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCA
46164460 ATAATGTGGAATTGGAATGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTC
521 ATAATGTGGAATTGGAATGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTC
46164525 TTTATACAATTTAAATTCACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAA
586 TTTATACAATTTAAATTCACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAA
46164590 AGACACATATCGTGCCACGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTG
651 AGACACATATCGTGCCACGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTG
46164655 CCTATGGACTCCTTTGTTTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACC
716 CCTATGGACTCCTTTGTTTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACC
46164720 ACTTTCATTTCCGTAGAGGAGAGGCAATCTTCAAATCC
781 ACTTTCATTTCCGTAGAGGAGAGGCAATCTTCAAATCC
46164758 TCAGGATAGGGAGTATTTCTAACAAGTGTTACAGTGAACTTGTTGGGTTGGGAAATGTTTGCCAC
1 TCAGGATAGGGAGTATTTCTAACAAGTGTTACAGTGAACTTGTTGGGTTGGGAAATGTTTGCCAC
46164823 TCGGCATTAGTAAAGAGGACTCTCAAAAATCCTCTATTCAAAGACCTAAACCAAGCGACAATTAT
66 TCGGCATTAGTAAAGAGGACTCTCAAAAATCCTCTATTCAAAGACCTAAACCAAGCGACAATTAT
46164888 AGCGAAGAGCATTCATACATGGAATAATTGCCTTGCATTGATCGATTCACCATCTCCGTCTGCTT
131 AGCGAAGAGCATTCATACATGGAATAATTGCCTTGCATTGATCGATTCACCATCTCCGTCTGCTT
46164953 AAGGATATAGGATTGCTTAAGCTAACAAACGGTTACCAGACGTAAGGGGCCAAAATTGTTCTTTT
196 AAGGATATAGGATTGCTTAAGCTAACAAACGGTTACCAGACGTAAGGGGCCAAAATTGTTCTTTT
46165018 GTCTTTATTTTTGATATTGTTCCAAAAGCTTCATTAAAATGTGTCATTAAATTTAAGCCTAGTTA
261 GTCTTTATTTTTGATATTGTTCCAAAAGCTTCATTAAAATGTGTCATTAAATTTAAGCCTAGTTA
46165083 AATTATATTTAGTTGTATGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATT
326 AATTATATTTAGTTGTATGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATT
46165148 TTATACATGCCATTATTTTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACT
391 TTATACATGCCATTATTTTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACT
46165213 AGATATTGTTTCACATTGTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCA
456 AGATATTGTTTCACATTGTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCA
46165278 ATAATGTGGAATTGGAATGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTC
521 ATAATGTGGAATTGGAATGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTC
46165343 TTTATACAATTTAAATTCACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAA
586 TTTATACAATTTAAATTCACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAA
46165408 AGACACATATCGTGCCACGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTG
651 AGACACATATCGTGCCACGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTG
46165473 CCTATGGACTCCTTTGTTTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACC
716 CCTATGGACTCCTTTGTTTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACC
46165538 ACTTTCATTTCCGTAGAGGAGAGGCAATCTTCAAATCC
781 ACTTTCATTTCCGTAGAGGAGAGGCAATCTTCAAATCC
46165576 TC
1 TC
46165578 GTCGAAAGTG
Statistics
Matches: 820, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
818 820 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (818 bp):
TCAGGATAGGGAGTATTTCTAACAAGTGTTACAGTGAACTTGTTGGGTTGGGAAATGTTTGCCAC
TCGGCATTAGTAAAGAGGACTCTCAAAAATCCTCTATTCAAAGACCTAAACCAAGCGACAATTAT
AGCGAAGAGCATTCATACATGGAATAATTGCCTTGCATTGATCGATTCACCATCTCCGTCTGCTT
AAGGATATAGGATTGCTTAAGCTAACAAACGGTTACCAGACGTAAGGGGCCAAAATTGTTCTTTT
GTCTTTATTTTTGATATTGTTCCAAAAGCTTCATTAAAATGTGTCATTAAATTTAAGCCTAGTTA
AATTATATTTAGTTGTATGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATT
TTATACATGCCATTATTTTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACT
AGATATTGTTTCACATTGTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCA
ATAATGTGGAATTGGAATGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTC
TTTATACAATTTAAATTCACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAA
AGACACATATCGTGCCACGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTG
CCTATGGACTCCTTTGTTTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACC
ACTTTCATTTCCGTAGAGGAGAGGCAATCTTCAAATCC
Found at i:46166118 original size:540 final size:540
Alignment explanation
Indices: 46165100--46166180 Score: 2162
Period size: 540 Copynumber: 2.0 Consensus size: 540
46165090 TTTAGTTGTA
46165100 TGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATTTTATACATGCCATTATT
1 TGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATTTTATACATGCCATTATT
46165165 TTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
66 TTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
46165230 GTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCAATAATGTGGAATTGGAA
131 GTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCAATAATGTGGAATTGGAA
46165295 TGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTCTTTATACAATTTAAATT
196 TGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTCTTTATACAATTTAAATT
46165360 CACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAAAGACACATATCGTGCCA
261 CACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAAAGACACATATCGTGCCA
46165425 CGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTGCCTATGGACTCCTTTGT
326 CGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTGCCTATGGACTCCTTTGT
46165490 TTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACCACTTTCATTTCCGTAGA
391 TTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACCACTTTCATTTCCGTAGA
46165555 GGAGAGGCAATCTTCAAATCCTCGTCGAAAGTGATGTAACGATTCAAAGTCTTAACTTGATTTCC
456 GGAGAGGCAATCTTCAAATCCTCGTCGAAAGTGATGTAACGATTCAAAGTCTTAACTTGATTTCC
46165620 TTATTCTTCTTCCTTTAAAT
521 TTATTCTTCTTCCTTTAAAT
46165640 TGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATTTTATACATGCCATTATT
1 TGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATTTTATACATGCCATTATT
46165705 TTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
66 TTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
46165770 GTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCAATAATGTGGAATTGGAA
131 GTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCAATAATGTGGAATTGGAA
46165835 TGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTCTTTATACAATTTAAATT
196 TGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTCTTTATACAATTTAAATT
46165900 CACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAAAGACACATATCGTGCCA
261 CACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAAAGACACATATCGTGCCA
46165965 CGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTGCCTATGGACTCCTTTGT
326 CGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTGCCTATGGACTCCTTTGT
46166030 TTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACCACTTTCATTTCCGTAGA
391 TTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACCACTTTCATTTCCGTAGA
46166095 GGAGAGGCAATCTTCAAATCCTCGTCGAAAGTGATGTAACGATTCAAAGTCTTAACTTGATTTCC
456 GGAGAGGCAATCTTCAAATCCTCGTCGAAAGTGATGTAACGATTCAAAGTCTTAACTTGATTTCC
46166160 TTATTCTTCTTCCTTTAAAT
521 TTATTCTTCTTCCTTTAAAT
46166180 T
1 T
46166181 ACTTGTTTTT
Statistics
Matches: 541, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
540 541 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (540 bp):
TGGAAATTAAATGGTTCTAAAGAGGCCATTACTTAATACACTATGATTTTATACATGCCATTATT
TTTAATTTTATAGCACTGGAACTCAATAACCATCTCAAATCGAGCACTAGATATTGTTTCACATT
GTTTAAATTGACAGAAATATCATTATTATAAACATTAAGTTCATTTCAATAATGTGGAATTGGAA
TGTTCTAGCATGCTGTGAAATTGAAACAATCTCGATTCCTTGAAAGTCTTTATACAATTTAAATT
CACATTGCCTTTAATGGAAAAATACCTTGACTTCTCAAAGTTTCTAAAAGACACATATCGTGCCA
CGAAATATCCTCCAAAGGACGTGCACTATAATTTGTAATAGTTCCTTGCCTATGGACTCCTTTGT
TTCATTTTCCATTTTCGCTCCTTCGATACTAATCTAATAGTTATGACCACTTTCATTTCCGTAGA
GGAGAGGCAATCTTCAAATCCTCGTCGAAAGTGATGTAACGATTCAAAGTCTTAACTTGATTTCC
TTATTCTTCTTCCTTTAAAT
Found at i:46169505 original size:18 final size:18
Alignment explanation
Indices: 46169454--46169506 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
46169444 CCGGCACTCT
* *
46169454 ATAACAGTCAGTTATGCA
1 ATAACAGTCAATTATTCA
*
46169472 GTAACAGT-AATTTATTCA
1 ATAACAGTCAA-TTATTCA
46169490 ATAACAGTCAATTATTC
1 ATAACAGTCAATTATTC
46169507 CGTAGTAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 26 0.90
19 2 0.07
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:46177597 original size:31 final size:31
Alignment explanation
Indices: 46177556--46177619 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
46177546 CCTTTTCATA
*
46177556 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
46177587 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
46177618 TT
1 TT
46177620 ACTGTAAACG
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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:46177864 original size:24 final size:24
Alignment explanation
Indices: 46177813--46177907 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
46177803 GCTTTATCAT
*
46177813 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
46177838 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
46177862 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
46177885 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46177908 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 30 0.46
25 12 0.18
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:46177888 original size:23 final size:23
Alignment explanation
Indices: 46177834--46177906 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
46177824 CCTAGCCTCT
*
46177834 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
46177857 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
46177881 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
46177904 TTT
1 TTT
46177907 TTCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:46177982 original size:20 final size:20
Alignment explanation
Indices: 46177957--46178023 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
46177947 TTATGATTAC
*
46177957 ATCATGTGCATATCAAACAT
1 ATCATGTGCATATCATACAT
*
46177977 ATCATGTGCACATCATACAT
1 ATCATGTGCATATCATACAT
*
46177997 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
46178017 ACCATGT
1 ATCATGT
46178024 TTATCAACAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46178038 original size:17 final size:18
Alignment explanation
Indices: 46178007--46178040 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46177997 GTCATGTGCA
46178007 TATCATACATACCATGTT
1 TATCATACATACCATGTT
*
46178025 TATCA-ACATCCCATGT
1 TATCATACATACCATGT
46178041 ATTAAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (18 bp):
TATCATACATACCATGTT
Found at i:46178092 original size:25 final size:25
Alignment explanation
Indices: 46178060--46178107 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46178050 ATACATAATC
* * *
46178060 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
46178085 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
46178108 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:46185470 original size:31 final size:31
Alignment explanation
Indices: 46185429--46185489 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
46185419 TTTCATATTT
*
46185429 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATCTCATAACACTGGGCCGAAGCCTTTC
**
46185460 CATATCTCATATTACTGGGCCGAAGCCTTT
1 CATATCTCATAACACTGGGCCGAAGCCTTT
46185490 ACTATGAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCTCATAACACTGGGCCGAAGCCTTTC
Found at i:46185810 original size:23 final size:24
Alignment explanation
Indices: 46185683--46185825 Score: 227
Period size: 24 Copynumber: 6.0 Consensus size: 24
46185673 GCTTTATCAT
*
46185683 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
46185708 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
46185732 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
46185756 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
46185780 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
46185803 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
46185826 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 22 0.20
24 77 0.69
25 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:46185900 original size:20 final size:20
Alignment explanation
Indices: 46185875--46185941 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
46185865 TTATGATTAC
46185875 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
46185895 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
46185915 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
46185935 ACCATGT
1 ATCATGT
46185942 TTATCAACAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:46185906 original size:11 final size:11
Alignment explanation
Indices: 46185875--46185930 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
46185865 TTATGATTAC
46185875 ATCATGTGCAT
1 ATCATGTGCAT
*
46185886 ATCA--TACAT
1 ATCATGTGCAT
46185895 ATCATGTGCAT
1 ATCATGTGCAT
*
46185906 ATCA--TACAT
1 ATCATGTGCAT
*
46185915 GTCATGTGCAT
1 ATCATGTGCAT
46185926 ATCAT
1 ATCAT
46185931 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:46185956 original size:17 final size:18
Alignment explanation
Indices: 46185925--46185958 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
46185915 GTCATGTGCA
46185925 TATCATACATACCATGTT
1 TATCATACATACCATGTT
*
46185943 TATCA-ACATCCCATGT
1 TATCATACATACCATGT
46185959 ATTAAATTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (18 bp):
TATCATACATACCATGTT
Found at i:46186010 original size:25 final size:25
Alignment explanation
Indices: 46185978--46186025 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
46185968 ATACATAAAC
* *
46185978 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
46186003 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
46186026 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:46187240 original size:6 final size:5
Alignment explanation
Indices: 46187211--46187292 Score: 55
Period size: 6 Copynumber: 15.8 Consensus size: 5
46187201 TATGTCTTTC
*
46187211 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT AAAAAGT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
*
46187259 AAAAGT AAAAT -AAA- AAAAT AAAAA AAGAAT AAAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AA-AAT AAAA
46187293 AGATAGGAGG
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
3 3 0.05
4 6 0.10
5 22 0.35
6 31 0.49
7 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:46187262 original size:11 final size:11
Alignment explanation
Indices: 46187242--46187273 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
46187232 AATGAAAATA
46187242 AAAATAAAAAGT
1 AAAAT-AAAAGT
46187254 AAAATAAAAGT
1 AAAATAAAAGT
46187265 AAAATAAAA
1 AAAATAAAA
46187274 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (11 bp):
AAAATAAAAGT
Found at i:46187289 original size:19 final size:19
Alignment explanation
Indices: 46187254--46187293 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
46187244 AATAAAAAGT
*
46187254 AAAATAAAAGTAAAATAAA
1 AAAATAAAAGAAAAATAAA
46187273 AAAATAAAA-AAAGAATAAA
1 AAAATAAAAGAAA-AATAAA
46187292 AA
1 AA
46187294 GATAGGAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAATAAAAGAAAAATAAA
Found at i:46187291 original size:24 final size:23
Alignment explanation
Indices: 46187211--46187292 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 23
46187201 TATGTCTTTC
* *
46187211 AAAATAAAATAATAAAATTGAAATG
1 AAAATAAAATAA-AAAA-TAAAATA
*
46187236 AAAATAAAAATAAAAAGTAAAATA
1 AAAAT-AAAATAAAAAATAAAATA
*
46187260 AAAGTAAAATAAAAAAATAAAA-A
1 AAAATAAAAT-AAAAAATAAAATA
46187283 AAGAATAAAA
1 AA-AATAAAA
46187293 AGATAGGAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
23 8 0.17
24 25 0.52
25 8 0.17
26 7 0.15
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (23 bp):
AAAATAAAATAAAAAATAAAATA
Found at i:46192644 original size:13 final size:13
Alignment explanation
Indices: 46192622--46192654 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
46192612 AAGGCTTTGT
46192622 TTAT-TAAACTAA
1 TTATCTAAACTAA
46192634 TTATCTAAACTAA
1 TTATCTAAACTAA
*
46192647 TTAACTAA
1 TTATCTAA
46192655 TTTAACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:46197663 original size:24 final size:25
Alignment explanation
Indices: 46197626--46197672 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
46197616 ATTTTCCAAG
*
46197626 TTCCATTACTTATTCCACTAAAAGT
1 TTCCATTACATATTCCACTAAAAGT
* *
46197651 TTCCATT-CATATTTCAGTAAAA
1 TTCCATTACATATTCCACTAAAA
46197673 TTGGGCCAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.34, C:0.21, G:0.04, T:0.40
Consensus pattern (25 bp):
TTCCATTACATATTCCACTAAAAGT
Found at i:46205082 original size:47 final size:49
Alignment explanation
Indices: 46205019--46205289 Score: 141
Period size: 48 Copynumber: 5.6 Consensus size: 49
46205009 AAGGATCCCG
46205019 TGTAAGACCATGTCAAGACATGGCA-TCGACA-TTGATTAAGGACTTCA
1 TGTAAGACCATGTCAAGACATGGCAGTCGACACTTGATTAAGGACTTCA
** ** * * *
46205066 TGTAAGACCACATCAAGATGTGGCATTGGA-ACTAAGA-TAAGGA-TATCA
1 TGTAAGACCATGTCAAGACATGGCAGTCGACACT-TGATTAAGGACT-TCA
* * * * * ** **
46205114 TGTAAGACCATGCCAAGGCAAGGCAGT-GATAAGTTCTATAAGGCAAGGAAATCA
1 TGTAAGACCATGTCAAGACATGGCAGTCGA-CA---CT-TGA-TTAAGGACTTCA
46205168 TGTAAGACCATGTCAAGACATGGCA-TCGACA-TTGATTAAGGACTTCA
1 TGTAAGACCATGTCAAGACATGGCAGTCGACACTTGATTAAGGACTTCA
** ** * * *
46205215 TGTAAGACCACATCAAGATGTGGCATTGGA-ACTAAGA-TAAGGA-TATCA
1 TGTAAGACCATGTCAAGACATGGCAGTCGACACT-TGATTAAGGACT-TCA
* * *
46205263 TGTAAGACCATGCCAAGGCAAGGCAGT
1 TGTAAGACCATGTCAAGACATGGCAGT
46205290 GATAAGTTCT
Statistics
Matches: 166, Mismatches: 41, Indels: 33
0.69 0.17 0.14
Matches are distributed among these distances:
47 56 0.34
48 66 0.40
49 6 0.04
52 4 0.02
53 2 0.01
54 32 0.19
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (49 bp):
TGTAAGACCATGTCAAGACATGGCAGTCGACACTTGATTAAGGACTTCA
Found at i:46205122 original size:48 final size:48
Alignment explanation
Indices: 46204963--46205272 Score: 165
Period size: 47 Copynumber: 6.4 Consensus size: 48
46204953 AATTGACGGT
* ** *
46204963 TAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGG
1 TAAGGATATCATGTAAGACCACATCAAGACATGGCATTGGAACTAAGA
* ** * ** * *
46205008 CAAGGATCCCGTGTAAGACCATGTCAAGACATGGCA-TCG-AC-ATTGA
1 TAAGGATATCATGTAAGACCACATCAAGACATGGCATTGGAACTA-AGA
**
46205054 TTAAGGACT-TCATGTAAGACCACATCAAGATGTGGCATTGGAACTAAGA
1 -TAAGGA-TATCATGTAAGACCACATCAAGACATGGCATTGGAACTAAGA
*** * * * * *
46205103 TAAGGATATCATGTAAGACCATGCCAAGGCAAGGCAGTGATAAGTTCTATAAGG
1 TAAGGATATCATGTAAGACCACATCAAGACATGGCATTG-GAA---C--TAAGA
* * ** * *
46205157 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCA-TCG-AC-ATTGA
1 TAAGGATATCATGTAAGACCACATCAAGACATGGCATTGGAACTA-AGA
**
46205203 TTAAGGACT-TCATGTAAGACCACATCAAGATGTGGCATTGGAACTAAGA
1 -TAAGGA-TATCATGTAAGACCACATCAAGACATGGCATTGGAACTAAGA
46205252 TAAGGATATCATGTAAGACCA
1 TAAGGATATCATGTAAGACCA
46205273 TGCCAAGGCA
Statistics
Matches: 201, Mismatches: 42, Indels: 41
0.71 0.15 0.14
Matches are distributed among these distances:
44 2 0.01
45 35 0.17
46 2 0.01
47 58 0.29
48 54 0.27
49 10 0.05
50 2 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 35 0.17
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (48 bp):
TAAGGATATCATGTAAGACCACATCAAGACATGGCATTGGAACTAAGA
Found at i:46205273 original size:149 final size:149
Alignment explanation
Indices: 46205019--46205341 Score: 646
Period size: 149 Copynumber: 2.2 Consensus size: 149
46205009 AAGGATCCCG
46205019 TGTAAGACCATGTCAAGACATGGCATCGACATTGATTAAGGACTTCATGTAAGACCACATCAAGA
1 TGTAAGACCATGTCAAGACATGGCATCGACATTGATTAAGGACTTCATGTAAGACCACATCAAGA
46205084 TGTGGCATTGGAACTAAGATAAGGATATCATGTAAGACCATGCCAAGGCAAGGCAGTGATAAGTT
66 TGTGGCATTGGAACTAAGATAAGGATATCATGTAAGACCATGCCAAGGCAAGGCAGTGATAAGTT
46205149 CTATAAGGCAAGGAAATCA
131 CTATAAGGCAAGGAAATCA
46205168 TGTAAGACCATGTCAAGACATGGCATCGACATTGATTAAGGACTTCATGTAAGACCACATCAAGA
1 TGTAAGACCATGTCAAGACATGGCATCGACATTGATTAAGGACTTCATGTAAGACCACATCAAGA
46205233 TGTGGCATTGGAACTAAGATAAGGATATCATGTAAGACCATGCCAAGGCAAGGCAGTGATAAGTT
66 TGTGGCATTGGAACTAAGATAAGGATATCATGTAAGACCATGCCAAGGCAAGGCAGTGATAAGTT
46205298 CTATAAGGCAAGGAAATCA
131 CTATAAGGCAAGGAAATCA
46205317 TGTAAGACCATGTCAAGACATGGCA
1 TGTAAGACCATGTCAAGACATGGCA
46205342 ATGGTAAGTT
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 174 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (149 bp):
TGTAAGACCATGTCAAGACATGGCATCGACATTGATTAAGGACTTCATGTAAGACCACATCAAGA
TGTGGCATTGGAACTAAGATAAGGATATCATGTAAGACCATGCCAAGGCAAGGCAGTGATAAGTT
CTATAAGGCAAGGAAATCA
Found at i:46212604 original size:19 final size:19
Alignment explanation
Indices: 46212580--46212616 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
46212570 ATTGCAATTT
* *
46212580 AATTTTGTTTTTTTTACTA
1 AATTTTCTTTTCTTTACTA
46212599 AATTTTCTTTTCTTTACT
1 AATTTTCTTTTCTTTACT
46212617 TTTGGCAGGT
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:0.19, C:0.11, G:0.03, T:0.68
Consensus pattern (19 bp):
AATTTTCTTTTCTTTACTA
Found at i:46225800 original size:23 final size:23
Alignment explanation
Indices: 46225741--46225812 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
46225731 AAATATGATG
*
46225741 TAATAATAATATAAAATAACAT-A
1 TAATAA-AATATAAAATAATATAA
* * *
46225764 TATTAAAGTGTAAAATAATATAA
1 TAATAAAATATAAAATAATATAA
*
46225787 TAATAAAATATAAAATAGTATAA
1 TAATAAAATATAAAATAATATAA
46225810 TAA
1 TAA
46225813 ATATTATGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 12 0.30
23 28 0.70
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATAAAATATAAAATAATATAA
Found at i:46225832 original size:24 final size:25
Alignment explanation
Indices: 46225800--46225865 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
46225790 TAAAATATAA
* *
46225800 AATAGTATAATAAATATTATGT-AAT
1 AATAATATAATAAATA-TAGGTAAAT
46225825 AA-AATATAATATAGATATAGGTAAAT
1 AATAATATAATA-A-ATATAGGTAAAT
46225851 AATAATAT-ATAAATA
1 AATAATATAATAAATA
46225866 AAGTTTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 11 0.31
25 8 0.23
26 11 0.31
27 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (25 bp):
AATAATATAATAAATATAGGTAAAT
Found at i:46227628 original size:88 final size:87
Alignment explanation
Indices: 46227536--46227818 Score: 276
Period size: 88 Copynumber: 3.2 Consensus size: 87
46227526 GCTTTCTGAC
46227536 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTA
1 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC-TGAAAGCCAAATCAGCTA
*
46227601 TGTCTTCGATCTACTCCCTGTCG
65 TGTCTTCGATCTGCTCCCTGTCG
* * * * *
46227624 AATACAGAGATGCCAAATCTACTATCTTTGATCTG-TTC-TC-TGACAATA-TAGAGATGCCAAA
1 AATACAGAGATGCCAAA--T-C-ATCTTAGATTTGCTTCAACGT-A-AACACT-GA-AAGCCAAA
* * *
46227685 TCTGC--TGTCTTCGATCTGCTCTCTGAC-
58 TCAGCTATGTCTTCGATCTGCTCCCTGTCG
* * * *
46227712 AATACAGAGTTTCCAAATCATCTTAGATTTCCTTCAATGTAAACACATGAAAGCCAAATCAGCTA
1 AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACAC-TGAAAGCCAAATCAGCTA
46227777 TGTCTTCGATCTGCTCTCC-GTCG
65 TGTCTTCGATCTGCTC-CCTGTCG
**
46227800 AATATGGAGATGCCAAATC
1 AATACAGAGATGCCAAATC
46227819 TGTTTCTTTG
Statistics
Matches: 153, Mismatches: 25, Indels: 34
0.72 0.12 0.16
Matches are distributed among these distances:
84 9 0.06
85 18 0.12
86 4 0.03
87 20 0.13
88 48 0.31
89 21 0.14
90 5 0.03
91 18 0.12
92 10 0.07
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (87 bp):
AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACTGAAAGCCAAATCAGCTAT
GTCTTCGATCTGCTCCCTGTCG
Found at i:46227728 original size:44 final size:44
Alignment explanation
Indices: 46227430--46227730 Score: 190
Period size: 44 Copynumber: 6.8 Consensus size: 44
46227420 ATCTGTTATT
* * * * * * *
46227430 TTCGATCTACTCTCTGCCAATACAGAGACGCTAAATAT-GTCATC
1 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACT-GTC
* * * *
46227474 TTCGATTTGCTCTCTGACAATACAGAGACGCCAAATCT-GTCATC
1 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACT-GTC
* *
46227518 TTTGATCTGCTTTCTGACAATACAGAGATGCCAAATC-A---TC
1 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTGTC
* * * * *
46227558 TTAGATTTGCT-TC-AACGTAA-ACACGTGAAAGCCAAATC-AGCTATGTC
1 TTCGATCTGCTCTCTGAC--AATACA-GAG-ATGCCAAATCTA-C--TGTC
* * * *
46227605 TTCGATCTACTCCCTGTCGAATACAGAGATGCCAAATCTACTATC
1 TTCGATCTGCTCTCTGAC-AATACAGAGATGCCAAATCTACTGTC
* * * *
46227650 TTTGATCTGTTCTCTGACAATATAGAGATGCCAAATCTGCTGTC
1 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTGTC
* *
46227694 TTCGATCTGCTCTCTGACAATACAGAGTTTCCAAATC
1 TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATC
46227731 ATCTTAGATT
Statistics
Matches: 205, Mismatches: 37, Indels: 30
0.75 0.14 0.11
Matches are distributed among these distances:
38 2 0.01
39 5 0.02
40 15 0.07
41 10 0.05
44 127 0.62
45 16 0.08
47 20 0.10
48 6 0.03
49 4 0.02
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
TTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCTACTGTC
Found at i:46227756 original size:176 final size:175
Alignment explanation
Indices: 46227430--46227861 Score: 591
Period size: 176 Copynumber: 2.5 Consensus size: 175
46227420 ATCTGTTATT
* * * * * * *
46227430 TTCGATCTACTCTCTG-CCAATACAGAGACGCTAAATATGTCATCTTCGATTTGCTCTCTGACAA
1 TTCGATCTACTCCCTGTCGAATACAGAGATGCCAAATCTGT-ATCTTTGATTTGTTCTCTGACAA
* * *
46227494 TACAGAGACGCCAAATCTGTCATCTTTGATCTGCTTTCTGACAATACAGAGATGCCAAATCATCT
65 TACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCT
* *
46227559 TAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTC
130 TAGATTTCCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTC
* *
46227605 TTCGATCTACTCCCTGTCGAATACAGAGATGCCAAATCTACTATCTTTGATCTGTTCTCTGACAA
1 TTCGATCTACTCCCTGTCGAATACAGAGATGCCAAATCT-GTATCTTTGATTTGTTCTCTGACAA
* * * *
46227670 TATAGAGATGCCAAATCTG-CTGTCTTCGATCTGCTCTCTGACAATACAGAGTTTCCAAATCATC
65 TACAGAGATGCCAAATCTGTC-ATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATC
*
46227734 TTAGATTTCCTTCAATGTAAACACATGAAAGCCAAATCAGCTATGTC
129 TTAGATTTCCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTC
* ** * *
46227781 TTCGATCTGCTCTCC-GTCGAATATGGAGATGCCAAATCTGTTTCTTTGATTTGTTCTCTGACAG
1 TTCGATCTACTC-CCTGTCGAATACAGAGATGCCAAATCTGTATCTTTGATTTGTTCTCTGACAA
46227845 TACAGAGATGCCAAATC
65 TACAGAGATGCCAAATC
46227862 ATCTTAGATC
Statistics
Matches: 226, Mismatches: 27, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
175 53 0.23
176 170 0.75
177 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (175 bp):
TTCGATCTACTCCCTGTCGAATACAGAGATGCCAAATCTGTATCTTTGATTTGTTCTCTGACAAT
ACAGAGATGCCAAATCTGTCATCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCATCTT
AGATTTCCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTC
Found at i:46227849 original size:131 final size:132
Alignment explanation
Indices: 46227668--46227923 Score: 379
Period size: 131 Copynumber: 1.9 Consensus size: 132
46227658 GTTCTCTGAC
* *
46227668 AATATAGAGATGCCAAATCTGCTGTCTTCGATCTGCTCTCTGACAATACAGAGTTTCCAAATCAT
1 AATATAGAGATGCCAAATCTGCTGTCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCAT
* *
46227733 CTTAGATTTCCTTCAATGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGT
66 CTTAGATCTCCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGT
46227798 CG
131 CG
* * * * * *
46227800 AATATGGAGATGCCAAATCTG-TTTCTTTGATTTGTTCTCTGACAGTACAGAGATGCCAAATCAT
1 AATATAGAGATGCCAAATCTGCTGTCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCAT
* * * *
46227864 CTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGTCTTCGATCTGCTC
66 CTTAGATCTCCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATCTGCTC
46227924 CTTGTAAACG
Statistics
Matches: 110, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
131 90 0.82
132 20 0.18
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
AATATAGAGATGCCAAATCTGCTGTCTTCGATCTGCTCTCTGACAATACAGAGATGCCAAATCAT
CTTAGATCTCCTTCAACGTAAACACATGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCCGT
CG
Found at i:46229095 original size:23 final size:21
Alignment explanation
Indices: 46229069--46229141 Score: 94
Period size: 21 Copynumber: 3.4 Consensus size: 21
46229059 CCTCTCCATT
46229069 TTTTATTTTTTATTTTTTCTCTC
1 TTTT-TTTTTTATTTTTT-TCTC
*
46229092 TTTTCTTTTTATTTTTTTCTC
1 TTTTTTTTTTATTTTTTTCTC
* *
46229113 TTTTTCTTTTCTTTTTTTC-C
1 TTTTTTTTTTATTTTTTTCTC
46229133 TTTTTTTTT
1 TTTTTTTTT
46229142 GAAATAGAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.20
21 20 0.44
22 12 0.27
23 4 0.09
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTTTTATTTTTTTCTC
Found at i:46229103 original size:22 final size:23
Alignment explanation
Indices: 46229075--46229139 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
46229065 CATTTTTTAT
46229075 TTTTTATTTTTTCTCTC-TTTTC
1 TTTTTATTTTTTCTCTCTTTTTC
46229097 TTTTTATTTTTT-TCTCTTTTTC
1 TTTTTATTTTTTCTCTCTTTTTC
*
46229119 TTTTCT-TTTTTTC-CTTTTTTT
1 TTTT-TATTTTTTCTCTCTTTTT
46229140 TTGAAATAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
21 4 0.10
22 34 0.87
23 1 0.03
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTATTTTTTCTCTCTTTTTC
Found at i:46234732 original size:23 final size:23
Alignment explanation
Indices: 46234624--46234743 Score: 70
Period size: 23 Copynumber: 5.2 Consensus size: 23
46234614 AATCTATCAA
* *
46234624 AATAATAATATAGATAATAATAT
1 AATAATAAAATAGAAAATAATAT
* *
46234647 ACTAAAATAAATA-ATAAAT-ATGAT
1 AATAATA-AAATAGA-AAATAAT-AT
* * *
46234671 -GTAATAATAATATAAAATAACAT
1 AATAATAA-AATAGAAAATAATAT
* *
46234694 -ATATTAAAGT-GTAAAATAATAT
1 AATAATAAAATAG-AAAATAATAT
*
46234716 AATAATAAAATAGAAAATAGTAT
1 AATAATAAAATAGAAAATAATAT
46234739 AATAA
1 AATAA
46234744 ATGTTATGTA
Statistics
Matches: 73, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
22 12 0.16
23 49 0.67
24 12 0.16
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (23 bp):
AATAATAAAATAGAAAATAATAT
Found at i:46236850 original size:12 final size:12
Alignment explanation
Indices: 46236828--46236861 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
46236818 AATTTTGAAA
46236828 ATATA-AATAAT
1 ATATATAATAAT
46236839 ATATATAATAAT
1 ATATATAATAAT
46236851 ATATATAATAA
1 ATATATAATAA
46236862 ATTAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:46240175 original size:26 final size:26
Alignment explanation
Indices: 46240139--46240194 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
46240129 TGAAATACCC
46240139 ATCATGGAACATTTACCTAAC-CTATT
1 ATCATGGAACATTTACCTAACTC-ATT
46240165 ATCATGGAACATTTACCTAACTCATT
1 ATCATGGAACATTTACCTAACTCATT
46240191 ATCA
1 ATCA
46240195 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACTCATT
Found at i:46241208 original size:205 final size:205
Alignment explanation
Indices: 46240853--46241602 Score: 1268
Period size: 205 Copynumber: 3.6 Consensus size: 205
46240843 TTTGATTTAT
46240853 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGT-TTCATCGTAAACACGTGAAAGCCA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTT-TCTTCATCGTAAACACGTGAAAGCCA
* *
46240917 AATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGATAAATCATCTTGGATCTACTT
65 AATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCTGCTT
* *
46240982 CAGTATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAATGGAGATGCCAGA
130 CAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGA
46241047 CTTCGATTTGC
195 CTTCGATTTGC
46241058 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCATCGTAAACACGTGAAAGCCAA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCATCGTAAACACGTGAAAGCCAA
46241123 ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCTGCTTC
66 ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCTGCTTC
* *
46241188 AGCATAAACATCTAAAGGTGAGATCTGCTATGTATCTGCTCGCCGTTGAAGTGGAGATGCCAGAC
131 AGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGAC
46241253 TTCGATTTGC
196 TTCGATTTGC
* * *
46241263 TCTCTGACAATACAAAGATGCCAAATCATCTTAAATTTGCTTCATCGTAAACACGTGAAAGCCAA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCATCGTAAACACGTGAAAGCCAA
46241328 ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCTGCTTC
66 ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCTGCTTC
* *
46241393 AGTATAAACATCTGAATGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGAC
131 AGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGAC
*
46241458 TTTGATTTGC
196 TTCGATTTGC
* *
46241468 TCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTTCTTCAACGTAAACACGTGAAAGCCCA
1 TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCATCGTAAACACGTGAAAG-CCA
* * * ** * * *
46241533 AATCAGCTATGCCTTTGGTTTATTCCTTGTAAGCACAAGAATGCCAAACCATCTTGGATCTTGCT
65 AATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATC-TGCT
46241598 TCAGC
129 TCAGC
46241603 CAGATCTGCT
Statistics
Matches: 514, Mismatches: 28, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
204 1 0.00
205 450 0.88
206 55 0.11
207 8 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
TCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCATCGTAAACACGTGAAAGCCAA
ATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCTGCTTC
AGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGCCAGAC
TTCGATTTGC
Found at i:46247504 original size:34 final size:34
Alignment explanation
Indices: 46247455--46247521 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
46247445 GGCTCATTGA
* *
46247455 TGGGTACTTCTGTCTCTTTCTCTTTCTCAACCTG
1 TGGGTACTTCAGTCTCTTTCTCCTTCTCAACCTG
* *
46247489 TGGGTATTTCAGTCTCTTTTTCCTTCTCAACCT
1 TGGGTACTTCAGTCTCTTTCTCCTTCTCAACCT
46247522 TGACACCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.10, C:0.28, G:0.13, T:0.48
Consensus pattern (34 bp):
TGGGTACTTCAGTCTCTTTCTCCTTCTCAACCTG
Found at i:46249717 original size:14 final size:16
Alignment explanation
Indices: 46249682--46249718 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
46249672 CAAACGATGC
46249682 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
46249697 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
46249712 -ATGCAAA
1 GATGCAAA
46249719 AAGGATATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:46253572 original size:3 final size:3
Alignment explanation
Indices: 46253560--46253591 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
46253550 TAATTTTAAG
46253560 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46253592 TGATATTGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:46253725 original size:7 final size:7
Alignment explanation
Indices: 46253709--46253815 Score: 50
Period size: 7 Copynumber: 15.7 Consensus size: 7
46253699 AATAAATGAA
*
46253709 ATAATTT
1 ATAATAT
46253716 ATAATAT
1 ATAATAT
46253723 ATAATAT
1 ATAATAT
*
46253730 A-AAAAT
1 ATAATAT
* *
46253736 GTAAGTTT
1 ATAA-TAT
*
46253744 TTAA-A-
1 ATAATAT
*
46253749 ATAATGT
1 ATAATAT
46253756 ATAATAT
1 ATAATAT
*
46253763 A-AATAA
1 ATAATAT
46253769 ATAAATAT
1 AT-AATAT
46253777 ATAAGATAT
1 AT-A-ATAT
46253786 ATAAGT-T
1 ATAA-TAT
46253793 A-AA-AT
1 ATAATAT
46253798 ATAATAT
1 ATAATAT
46253805 ATAATA-
1 ATAATAT
46253811 ATAAT
1 ATAAT
46253816 TTACAAATTT
Statistics
Matches: 77, Mismatches: 12, Indels: 23
0.69 0.11 0.21
Matches are distributed among these distances:
5 5 0.06
6 18 0.23
7 34 0.44
8 14 0.18
9 6 0.08
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (7 bp):
ATAATAT
Found at i:46253779 original size:21 final size:21
Alignment explanation
Indices: 46253747--46253811 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
46253737 TAAGTTTTTA
*
46253747 AAAT-AATGTATAATATAAAT
1 AAATAAATATATAATATAAAT
* *
46253767 AAATAAATATATAAGATATAT
1 AAATAAATATATAATATAAAT
*
46253788 AAGTTAAA-ATATAATATATAAT
1 AA-ATAAATATATAATATA-AAT
46253810 AA
1 AA
46253812 TAATTTACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATAAATATATAATATAAAT
Found at i:46253780 original size:28 final size:29
Alignment explanation
Indices: 46253749--46253809 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 29
46253739 AGTTTTTAAA
46253749 ATAATGTATAATATAA-AT-AAATA-AATAT
1 ATAATG-AT-ATATAAGATAAAATATAATAT
*
46253777 ATAA-GATATATAAGTTAAAATATAATAT
1 ATAATGATATATAAGATAAAATATAATAT
46253805 ATAAT
1 ATAAT
46253810 AATAATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
25 6 0.21
26 3 0.11
27 6 0.21
28 13 0.46
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
ATAATGATATATAAGATAAAATATAATAT
Found at i:46253853 original size:12 final size:12
Alignment explanation
Indices: 46253831--46253864 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
46253821 AATTTTGAAA
46253831 ATATA-AATAAT
1 ATATATAATAAT
46253842 ATATATAATAAT
1 ATATATAATAAT
46253854 ATATATAATAA
1 ATATATAATAA
46253865 ATTAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
ATATATAATAAT
Found at i:46256472 original size:21 final size:19
Alignment explanation
Indices: 46256447--46256500 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
46256437 ATCTAATTAA
46256447 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TAT-TTT
*
46256468 AAATATTTAAATATATTTT
1 AAATATTTAATTATATTTT
*
46256487 ATATATTCTAATTA
1 AAATATT-TAATTA
46256501 AAATTAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 9 0.31
20 8 0.28
21 12 0.41
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATATTTAATTATATTTT
Found at i:46256558 original size:20 final size:22
Alignment explanation
Indices: 46256514--46256564 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
46256504 TTAATAAAAA
46256514 ATTAAAATTAATTACTTAGAAAT
1 ATTAAAATTAATTACTTAG-AAT
46256537 ATTTAAAATTAA-TA-TTAG-AT
1 A-TTAAAATTAATTACTTAGAAT
46256557 ATTAAAAT
1 ATTAAAAT
46256565 ATTAACAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 7 0.26
20 3 0.11
22 4 0.15
23 3 0.11
24 10 0.37
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (22 bp):
ATTAAAATTAATTACTTAGAAT
Found at i:46256755 original size:13 final size:13
Alignment explanation
Indices: 46256734--46256781 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
46256724 AACACTCAAA
46256734 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
46256747 TTCTCAAAAGAAC
1 TTTTCAAAAGCAC
* *
46256760 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
46256773 TTTTCAAAA
1 TTTTCAAAA
46256782 ATATTGCCAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:46257732 original size:17 final size:17
Alignment explanation
Indices: 46257722--46257768 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 17
46257712 TTATTTTGTT
46257722 TTATTTATTATTATTTA
1 TTATTTATTATTATTTA
46257739 TTATTTATTATTATTTTA
1 TTATTTATTATTA-TTTA
46257757 TTTTATTTATTA
1 --TTATTTATTA
46257769 ATTTAGGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 13 0.48
18 4 0.15
20 10 0.37
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTATTATTATTTA
Found at i:46257735 original size:10 final size:10
Alignment explanation
Indices: 46257722--46257768 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
46257712 TTATTTTGTT
46257722 TTATTTATTA
1 TTATTTATTA
46257732 TTA--T-TTA
1 TTATTTATTA
46257739 TTATTTATTA
1 TTATTTATTA
46257749 TTATTTTATT-
1 TTA-TTTATTA
46257759 TTATTTATTA
1 TTATTTATTA
46257769 ATTTAGGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.19
8 1 0.03
9 7 0.22
10 12 0.38
11 6 0.19
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTATTA
Found at i:46257773 original size:17 final size:17
Alignment explanation
Indices: 46257710--46257773 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
46257700 AATAGGAAGA
* *
46257710 TATTATTTTGTTTTATT
1 TATTAATTTATTTTATT
46257727 TATTATTATTTATTATT-TAT
1 TATTA--ATTTATT-TTAT-T
*
46257747 TATTATTTTATTTTATT
1 TATTAATTTATTTTATT
46257764 TATTAATTTA
1 TATTAATTTA
46257774 GGTTAGGCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
17 17 0.45
18 7 0.18
19 6 0.16
20 8 0.21
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TATTAATTTATTTTATT
Found at i:46274324 original size:19 final size:21
Alignment explanation
Indices: 46274284--46274333 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
46274274 AAAATTGTAG
46274284 ATATTTTTATTATATTTATAT
1 ATATTTTTATTATATTTATAT
46274305 ATATTTTT-TGTA-ATTT-TAT
1 ATATTTTTAT-TATATTTATAT
46274324 ATAATTTTTA
1 AT-ATTTTTA
46274334 ATTTTCTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 5 0.19
20 11 0.42
21 10 0.38
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
ATATTTTTATTATATTTATAT
Found at i:46274491 original size:18 final size:18
Alignment explanation
Indices: 46274470--46274529 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 18
46274460 ATATTTTTTC
46274470 AATTTTTATAATGTATAT
1 AATTTTTATAATGTATAT
* *
46274488 AATTTTTTAGTCATTTATTAT
1 AA-TTTTTA-TAATGTA-TAT
*
46274509 ACTTTTTATAATGTATAT
1 AATTTTTATAATGTATAT
46274527 AAT
1 AAT
46274530 ATATTTTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 7 0.21
19 11 0.33
20 11 0.33
21 4 0.12
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (18 bp):
AATTTTTATAATGTATAT
Found at i:46274638 original size:18 final size:18
Alignment explanation
Indices: 46274617--46274662 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
46274607 ATTTTTCATT
*
46274617 TTTTTTGTAATTCATATA
1 TTTTTTATAATTCATATA
*
46274635 TTTTTTATAATTTATATA
1 TTTTTTATAATTCATATA
*
46274653 TTATTTATAA
1 TTTTTTATAA
46274663 ATTATTGCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTTTATAATTCATATA
Found at i:46274667 original size:18 final size:18
Alignment explanation
Indices: 46274625--46274667 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
46274615 TTTTTTTTGT
*
46274625 AATTCATATATTTTTTATA
1 AATT-ATATATTATTTATA
*
46274644 ATTTATATATTATTTATA
1 AATTATATATTATTTATA
46274662 AATTAT
1 AATTAT
46274668 TGCAGTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTATATATTATTTATA
Found at i:46274714 original size:9 final size:9
Alignment explanation
Indices: 46274683--46274733 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
46274673 TTTTCTATAT
46274683 TTTTATAATA
1 TTTT-TAATA
*
46274693 ATTTTAATA
1 TTTTTAATA
46274702 TTTTTAAT-
1 TTTTTAATA
*
46274710 TTTTTATAAA
1 TTTTTA-ATA
*
46274720 TTTTAAATA
1 TTTTTAATA
46274729 TTTTT
1 TTTTT
46274734 TAAATATTCA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
8 6 0.18
9 19 0.58
10 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTAATA
Found at i:46274722 original size:18 final size:18
Alignment explanation
Indices: 46274694--46274738 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
46274684 TTTATAATAA
*
46274694 TTTTAATATTTTTAAT-TT
1 TTTTAA-ATTTTAAATATT
46274712 TTTATAAATTTTAAATATT
1 TTT-TAAATTTTAAATATT
46274731 TTTTAAAT
1 TTTTAAAT
46274739 ATTCATAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAAATTTTAAATATT
Found at i:46274849 original size:14 final size:14
Alignment explanation
Indices: 46274809--46274852 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
46274799 TTTATATAAA
46274809 TTTTTCATTTATAAT
1 TTTTTCATTT-TAAT
* *
46274824 TTTTGCACTTTTATT
1 TTTTTCA-TTTTAAT
46274839 TTTTTCATTTTAAT
1 TTTTTCATTTTAAT
46274853 ATATATTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 6 0.25
15 15 0.62
16 3 0.12
ACGTcount: A:0.20, C:0.09, G:0.02, T:0.68
Consensus pattern (14 bp):
TTTTTCATTTTAAT
Found at i:46274878 original size:18 final size:18
Alignment explanation
Indices: 46274857--46274891 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46274847 TTTAATATAT
46274857 ATTTTATATAATTTTATG
1 ATTTTATATAATTTTATG
* *
46274875 ATTTTCTATATTTTTAT
1 ATTTTATATAATTTTAT
46274892 AATAATTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
ATTTTATATAATTTTATG
Found at i:46274884 original size:29 final size:30
Alignment explanation
Indices: 46274852--46274909 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
46274842 TTCATTTTAA
46274852 TATATATTTTAT-ATAA-TTTTATGATTTTC
1 TATAT-TTTTATAATAATTTTTATGATTTTC
46274881 TATATTTTTATAATAATTTTTATGATTTT
1 TATATTTTTATAATAATTTTTATGATTTT
46274910 TTAATTATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 6 0.22
29 9 0.33
30 12 0.44
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (30 bp):
TATATTTTTATAATAATTTTTATGATTTTC
Found at i:46274914 original size:20 final size:21
Alignment explanation
Indices: 46274875--46274914 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
46274865 TAATTTTATG
46274875 ATTTTCTATATTTTTATAATA
1 ATTTTCTATATTTTTATAATA
46274896 ATTTT-TATGATTTTT-TAAT
1 ATTTTCTAT-ATTTTTATAAT
46274915 TATCTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (21 bp):
ATTTTCTATATTTTTATAATA
Found at i:46282982 original size:16 final size:17
Alignment explanation
Indices: 46282941--46282976 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
46282931 AAAATTAAGT
*
46282941 TTAGACCCATTTTTGGC
1 TTAGACCCATTTTTAGC
46282958 TTAGACCCATTTTTAGC
1 TTAGACCCATTTTTAGC
46282975 TT
1 TT
46282977 GGCCCACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.44
Consensus pattern (17 bp):
TTAGACCCATTTTTAGC
Found at i:46290096 original size:33 final size:33
Alignment explanation
Indices: 46290033--46290097 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
46290023 AGGAAATACT
* *
46290033 TATACATATAATAGATTAAAAAATATATATATA
1 TATACATATAATAAATTAAAAAATAAATATATA
46290066 TATACATA-AATAAATTTAGAAAAA-AAATATAT
1 TATACATATAATAAA-TTA-AAAAATAAATATAT
46290098 GCGAGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 5 0.18
33 18 0.64
34 5 0.18
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (33 bp):
TATACATATAATAAATTAAAAAATAAATATATA
Found at i:46293428 original size:87 final size:87
Alignment explanation
Indices: 46293053--46293457 Score: 406
Period size: 88 Copynumber: 4.6 Consensus size: 87
46293043 GTGATCCTGA
** * * * * *
46293053 GCTCAACTCATTTCTCGCAATATGAATTGACTTTTAAAAACTAGACATT-AAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC-AGAAATTGAAAAACAAAAATTG-
* ** * **
46293117 AAAATAGCTCAGCACATGAGCAAAG
64 AAAATACCTCAGC-TGTGACCCGAG
* * ** * **
46293142 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAATTTGCCAAACAGATTTTGAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAAAAATTGAA
*
46293207 AATACCTCGGCATGTGACCCGAG
66 AATACCTCAGC-TGTGACCCGAG
* * * **
46293230 GCTCAACTCACCTCTCGTAATATGAGTTGATTCTTGAAAAGCATAAATTGAAAAAACATTAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA-CAGAAATTG-AAAAACAAAAATTG
46293295 AAAATACCTCAGC-GTG-CCTCGAG
64 AAAATACCTCAGCTGTGACC-CGAG
* *
46293318 GCTCAACTCACCTCTCACAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAAAAATTG-
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAAAACAAAAATTGA
* *
46293381 AAAGACCTCAGCGTGTGAGCCGAG
65 AAATACCTCAGC-TGTGACCCGAG
*
46293405 GCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAA
46293458 TTACCTCAGC
Statistics
Matches: 266, Mismatches: 41, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
85 11 0.04
86 12 0.05
87 50 0.19
88 119 0.45
89 54 0.20
90 20 0.08
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (87 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAAACAAAAATTGAA
AATACCTCAGCTGTGACCCGAG
Found at i:46293531 original size:75 final size:75
Alignment explanation
Indices: 46293364--46293901 Score: 495
Period size: 75 Copynumber: 7.0 Consensus size: 75
46293354 CGAACAGAAA
* * * *
46293364 TTGAAAAACAAAAATTGAAA-GACCTCAGCGTGTGAGCC-GAGGCTCAACTCACCTCTCGCGATA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGT---CCTGAGGCTCAACTCACCTCTCGCAATA
46293427 TGAGTTGA--TTT
63 TGAGTTGATTTTT
46293438 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
46293503 GTTGATTTTT
66 GTTGATTTTT
* * * *
46293513 TTGA-AAAGCAGAATTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
46293577 AGTTGATTTTT
65 AGTTGATTTTT
* *
46293588 TTGACAAACATAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
46293653 GTTGATTTTT
66 GTTGATTTTT
* * ** *** * * * *
46293663 TTGA-AAAGCAGAAATTGGAA--AGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACT
1 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTG----T-CCT--GAG-G--CTCA-ACTCACCT
* ** *
46293725 CAC-CTCTA-GCAATATGAGTTGATTTT
54 CTCGCAATATG-AGT-TGA--T--TTTT
* *
46293751 TTTGACAAACATAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 -TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
46293816 AGTTGATTTTT
65 AGTTGATTTTT
* * * *
46293827 TTGA-AAAGCAGAATTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATG
1 TTGACAAA-CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
46293891 AGCTGATTTTT
65 AGTTGATTTTT
46293902 GAAAAAGATA
Statistics
Matches: 380, Mismatches: 53, Indels: 61
0.77 0.11 0.12
Matches are distributed among these distances:
72 2 0.01
73 37 0.10
74 27 0.07
75 225 0.59
76 7 0.02
77 1 0.00
78 4 0.01
80 13 0.03
81 9 0.02
82 2 0.01
83 9 0.02
84 13 0.03
86 4 0.01
87 1 0.00
88 4 0.01
89 14 0.04
90 3 0.01
91 5 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.29
Consensus pattern (75 bp):
TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:46293686 original size:14 final size:14
Alignment explanation
Indices: 46293667--46293693 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
46293657 ATTTTTTTGA
46293667 AAAGCAGAAATTGG
1 AAAGCAGAAATTGG
46293681 AAAGCAGAAATTG
1 AAAGCAGAAATTG
46293694 AAAATACCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.26, T:0.15
Consensus pattern (14 bp):
AAAGCAGAAATTGG
Found at i:46293750 original size:89 final size:89
Alignment explanation
Indices: 46293599--46293768 Score: 279
Period size: 89 Copynumber: 1.9 Consensus size: 89
46293589 TGACAAACAT
* * * *
46293599 AAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTT
46293664 TGA-AAAGCAGAAATTGGAAAGCAG
66 TGACAAA-CAGAAATTGGAAAGCAG
46293688 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTT
*
46293753 TGACAAACATAAATTG
66 TGACAAACAGAAATTG
46293769 AAATTACCTT
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
89 72 0.96
90 3 0.04
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (89 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTT
TGACAAACAGAAATTGGAAAGCAG
Found at i:46293788 original size:164 final size:161
Alignment explanation
Indices: 46293521--46294657 Score: 1060
Period size: 164 Copynumber: 6.9 Consensus size: 161
46293511 TTTTGAAAAG
*
46293521 CAGAATTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
* *
46293586 TTTTGACAAACATAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
66 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
46293651 GAGTTGATTTTTTTGAAAAGCAGAAATTGGAAA
131 GAGTTGATTTTTTTGAAAAGCAGAAATT--AAA
46293684 GCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT
1 -CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT
* *
46293749 TTTTTGACAAACATAAATTGAAATTACCTTAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
65 TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
46293814 TGAGTTGATTTTTTTGAAAAGCAG-AA-T---
130 TGAGTTGATTTTTTTGAAAAGCAGAAATTAAA
* *
46293841 ------TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TT
* *
46293900 TTGAAAAAGATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTC
65 TT--------T---TTG-A-CAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
* *
46293965 ACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGATATTAAAAA
117 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATT--AAA
* * * * * *
46294010 TAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCATCTCTCGCGATATGAGTTGA
1 CAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
46294074 --TTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
63 TTTTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
*
46294137 TATGAGTTGATTTTTTTGAAGAGCAGAAATTGGAAA
128 TATGAGTTGATTTTTTTGAAAAGCAGAAATT--AAA
* *
46294173 GAAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT
1 -CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATT
* *
46294238 TTTTTGA-AGAGCAGAAATTGGAAAGAAGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAAC
65 TTTTTGACA-AACAGAAATT--------GAAAT------TACCTCAGCGTGTCCTGAGGCTCAAC
46294302 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATT---
115 TCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTAAA
* * *
46294346 -----A---AAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TT
* * *
46294403 TTGAAAAACATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTC
65 TT--------T---TTG-A-CAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTC
46294468 ACCTCTCGCAATATGAGTTGA--TTTTT--------G-AA--AAA
117 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTAAA
* * * * * * *
46294500 CAGAAATTAAAAATACGTCATCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
1 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
* *
46294565 TTTTGAAACACAGAAATTAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCAC
66 TTTTG----AC--------AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
46294630 CTCTCGCAATATGAGTTGATTTTTTTGA
119 CTCTCGCAATATGAGTTGATTTTTTTGA
46294658 TGATAAAATA
Statistics
Matches: 831, Mismatches: 50, Indels: 184
0.78 0.05 0.17
Matches are distributed among these distances:
150 57 0.07
151 4 0.00
153 4 0.00
154 1 0.00
159 2 0.00
160 61 0.07
161 70 0.08
162 109 0.13
163 27 0.03
164 346 0.42
165 4 0.00
166 1 0.00
167 1 0.00
170 5 0.01
172 5 0.01
173 1 0.00
174 2 0.00
175 15 0.02
176 3 0.00
177 33 0.04
178 79 0.10
179 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (161 bp):
CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTT
TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTTTGAAAAGCAGAAATTAAA
Found at i:46293987 original size:89 final size:89
Alignment explanation
Indices: 46293829--46294095 Score: 344
Period size: 89 Copynumber: 3.0 Consensus size: 89
46293819 TGATTTTTTT
* * * * *
46293829 GAAAAGCAGAATTTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGC
1 GAAAA-CAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* *
46293894 TGATTTTTGAAAAAGATAAATTGAA
65 TGATTTTTGAAAAACAGAAATTGAA
*
46293919 GAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 GAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
46293984 GATTTTTGAAAAACAGATATT--A
66 GATTTTTGAAAAACAGAAATTGAA
* * * *
46294006 -AAAATAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCATCTCTCGCGATATGA
1 GAAAACAGAAATTGAAAATACCTCAGCATGT---CCTGAGGCTCAACTCACCTCTCGCAATATGA
*
46294069 GTTGATTTTTGACAAACAGAAATTGAA
63 GTTGATTTTTGAAAAACAGAAATTGAA
46294096 ATTACCTCAG
Statistics
Matches: 156, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
86 27 0.17
87 1 0.01
88 48 0.31
89 74 0.47
90 6 0.04
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (89 bp):
GAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTGAA
Found at i:46294237 original size:89 final size:89
Alignment explanation
Indices: 46294086--46294345 Score: 475
Period size: 89 Copynumber: 2.9 Consensus size: 89
46294076 TTTGACAAAC
* * *
46294086 AGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46294151 TTTGAAGAGCAGAAATTGGAAAGA
66 TTTGAAGAGCAGAAATTGGAAAGA
*
46294175 AGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 AGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
46294240 TTTGAAGAGCAGAAATTGGAAAGA
66 TTTGAAGAGCAGAAATTGGAAAGA
46294264 AGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
46294329 TTTGAAAAGCAGAAATT
66 TTTGAAGAGCAGAAATT
46294346 AAAAATACCT
Statistics
Matches: 165, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 165 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (89 bp):
AGAAATCGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAGAGCAGAAATTGGAAAGA
Found at i:46294428 original size:16 final size:16
Alignment explanation
Indices: 46294407--46294437 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46294397 TGATTTTTGA
*
46294407 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
46294423 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
46294438 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:46294490 original size:89 final size:90
Alignment explanation
Indices: 46294332--46294507 Score: 291
Period size: 89 Copynumber: 2.0 Consensus size: 90
46294322 TGATTTTTTT
*
46294332 GAAAAGCAGAAATTAAAAATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGC
1 GAAAAGCAGAAATTAAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGC
*
46294397 TGATTTTTGAAAAACATAAATTGAA
66 TGATTTTTGAAAAACAGAAATTGAA
* * * *
46294422 GAAAA-CAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 GAAAAGCAGAAATTAAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGC
46294486 TGATTTTTGAAAAACAGAAATT
66 TGATTTTTGAAAAACAGAAATT
46294508 AAAAATACGT
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 75 0.94
90 5 0.06
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.26
Consensus pattern (90 bp):
GAAAAGCAGAAATTAAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGC
TGATTTTTGAAAAACAGAAATTGAA
Found at i:46294542 original size:73 final size:74
Alignment explanation
Indices: 46294423--46295126 Score: 327
Period size: 87 Copynumber: 9.2 Consensus size: 74
46294413 TAAATTGAAG
* * * * *
46294423 AAAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
46294488 A-TTTTTGA
66 ATTTTTTGA
* * * *
46294496 AAAACAGAAATTAAAAATACGTCATCGTGACCTGAGGTTCAACTCACCTCTCGCAATATGAGCTG
1 AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
46294561 ATTTTTTTGAAACACAGAAA
66 A-TTTTTT--------G--A
* * * *
46294581 TTAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 --AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGC
46294646 TGATTTTTTTG-
64 TGA-TTTTTTGA
* *** * * *
46294657 ---A-TG--A-T-AAAATACCTCAATGTGACTTGAGGCCCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
46294714 A-TTTTTG-
66 ATTTTTTGA
* * ** * * * *
46294721 -AAACATAAATTAAAACACAAAAAT-TGACAAT-ACCTCAGTGTGCCCCGAGGCTCAACTCACCT
1 AAAACAGAAATT-AAA-A-ATACCTCAG-C-ATGACCT--GAG-G-CTC-A---AC---TCACCT
*
46294783 CTCGCAATATGAGTTGATTTTTTGA
50 CTCGCAATATGAGCTGATTTTTTGA
* * * * * * *
46294808 AAAATAGAAATTGAAAATACCTTAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
46294873 A-TTTTTGAAAAAAACA
66 ATTTTTTG--------A
* * * * * *
46294889 TAAATTGAGCAGAAATTGAAAATACCTCAACAGGTCTTGAGGCTCAACTCACCTCTCGTAATATG
1 -AAA---A-CAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATG
*
46294954 AGTTGATTTTTTG-
61 AGCTGATTTTTTGA
** * * *** * * *
46294967 --ATGATAAATTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
46295030 ATTTTTTTGA
66 A-TTTTTTGA
* * * * *
46295040 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
1 AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
46295105 A-TTTTTG-
66 ATTTTTTGA
*
46295112 -AAACATAAATTAAAA
1 AAAACAGAAATTAAAA
46295127 CACAAAAATT
Statistics
Matches: 497, Mismatches: 74, Indels: 122
0.72 0.11 0.18
Matches are distributed among these distances:
64 6 0.01
66 49 0.10
67 1 0.00
68 1 0.00
69 1 0.00
70 2 0.00
71 68 0.14
72 9 0.02
73 70 0.14
74 29 0.06
75 62 0.12
76 2 0.00
77 2 0.00
78 3 0.01
79 2 0.00
80 1 0.00
81 3 0.01
82 5 0.01
83 2 0.00
84 1 0.00
85 32 0.06
86 62 0.12
87 75 0.15
88 9 0.02
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (74 bp):
AAAACAGAAATTAAAAATACCTCAGCATGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTG
ATTTTTTGA
Found at i:46294591 original size:12 final size:13
Alignment explanation
Indices: 46294567--46294599 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
46294557 GCTGATTTTT
46294567 TTGAAACACAGAAA
1 TTGAAA-ACAGAAA
46294581 TT-AAAACAGAAA
1 TTGAAAACAGAAA
46294593 TTGAAAA
1 TTGAAAA
46294600 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.50
13 7 0.39
14 2 0.11
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (13 bp):
TTGAAAACAGAAA
Done.