Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2600608
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 13
Found at i:2414695 original size:15 final size:16
Alignment explanation
Indices: 2414662--2414695 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2414652 TTTATTATAA
2414662 TATTTAAAGTTAATTT
1 TATTTAAAGTTAATTT
*
2414678 TATTTAAA-TTATTTT
1 TATTTAAAGTTAATTT
2414693 TAT
1 TAT
2414696 AAAATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TATTTAAAGTTAATTT
Found at i:2424936 original size:15 final size:15
Alignment explanation
Indices: 2424916--2424957 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
2424906 CTTCATGGGG
*
2424916 TAAGAAGACAACGTC
1 TAAGAAGAAAACGTC
2424931 TAAGAAGAAAACGTC
1 TAAGAAGAAAACGTC
*
2424946 AAAGAAGGAAAA
1 TAAGAA-GAAAA
2424958 AGAAAGCATC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.57, C:0.12, G:0.21, T:0.10
Consensus pattern (15 bp):
TAAGAAGAAAACGTC
Found at i:2428810 original size:26 final size:26
Alignment explanation
Indices: 2428780--2428871 Score: 75
Period size: 26 Copynumber: 3.6 Consensus size: 26
2428770 TGTTGAAAAA
2428780 GAAGAGGAGAAAGGAGAAGGGACACC
1 GAAGAGGAGAAAGGAGAAGGGACACC
* * * **
2428806 GAAGATGGA-AAAAGAGAA-AGAAAAG
1 GAAGA-GGAGAAAGGAGAAGGGACACC
2428831 GAAGAGG-GTAAAGGAGAAGGGACACC
1 GAAGAGGAG-AAAGGAGAAGGGACACC
*
2428857 GCAA-AGGAAAAAGGA
1 G-AAGAGGAGAAAGGA
2428872 AGAGGAGAAA
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
24 2 0.04
25 16 0.33
26 26 0.53
27 5 0.10
ACGTcount: A:0.52, C:0.08, G:0.38, T:0.02
Consensus pattern (26 bp):
GAAGAGGAGAAAGGAGAAGGGACACC
Found at i:2428835 original size:51 final size:50
Alignment explanation
Indices: 2428774--2428886 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 50
2428764 AGAACTTGTT
2428774 GAAAAAGAAGAGGAG-AAAGGAGAAGGGACACCG-AAGATGGAAAAAGAGAAA
1 GAAAAAGAAGAGG-GTAAAGGAGAAGGGACACCGCAA-A-GGAAAAAGAGAAA
*
2428825 GAAAAGGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGGAAAAAG-GAAGA
1 GAAAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGGAAAAAGAGAA-A
*
2428875 GGAGAAAGAAGA
1 -GAAAAAGAAGA
2428887 AGGGACACCG
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
49 3 0.05
50 10 0.18
51 40 0.73
52 2 0.04
ACGTcount: A:0.55, C:0.06, G:0.37, T:0.02
Consensus pattern (50 bp):
GAAAAAGAAGAGGGTAAAGGAGAAGGGACACCGCAAAGGAAAAAGAGAAA
Found at i:2428888 original size:39 final size:39
Alignment explanation
Indices: 2428826--2428942 Score: 118
Period size: 39 Copynumber: 3.0 Consensus size: 39
2428816 AAAGAGAAAG
*
2428826 AAAAGGAAGAGG-GTAAAGGAGAAGGGACACCGCAAAGGA
1 AAAAGGAAGAGGAG-AAAGAAGAAGGGACACCGCAAAGGA
2428865 AAAAGGAAGAGGAGAAAGAAGAAGGGACACCG-AAGAGGGA
1 AAAAGGAAGAGGAGAAAGAAGAAGGGACACCGCAA-A-GGA
* * *
2428905 AAGAAAGAA-A-GA-AAAGGAGGAAGGAACACCGCAAAGGA
1 AA-AAGGAAGAGGAGAAA-GAAGAAGGGACACCGCAAAGGA
2428943 GGAGGACGAG
Statistics
Matches: 68, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
38 8 0.12
39 46 0.68
40 9 0.13
41 5 0.07
ACGTcount: A:0.53, C:0.09, G:0.37, T:0.01
Consensus pattern (39 bp):
AAAAGGAAGAGGAGAAAGAAGAAGGGACACCGCAAAGGA
Found at i:2431164 original size:28 final size:29
Alignment explanation
Indices: 2431124--2431181 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
2431114 CAATGTAAAT
*
2431124 CATACATGCGTGTCA-TAAATTTATGACG
1 CATAAATGCGTGTCACTAAATTTATGACG
* *
2431152 CATAAATGTGTGTCATCTTAATTTATGACG
1 CATAAATGCGTGTCA-CTAAATTTATGACG
2431182 GGGGCTTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.52
30 12 0.48
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (29 bp):
CATAAATGCGTGTCACTAAATTTATGACG
Found at i:2431223 original size:13 final size:13
Alignment explanation
Indices: 2431205--2431238 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
2431195 CACTCAAAGA
*
2431205 ACGTCATTAATGC
1 ACGTCATAAATGC
2431218 ACGTCATAAATGC
1 ACGTCATAAATGC
*
2431231 GCGTCATA
1 ACGTCATA
2431239 GATTTATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (13 bp):
ACGTCATAAATGC
Found at i:2431228 original size:85 final size:85
Alignment explanation
Indices: 2430933--2431195 Score: 395
Period size: 85 Copynumber: 3.1 Consensus size: 85
2430923 GACGTGTGCA
* * * * * * *
2430933 TCAATAACACGCAATGTAAGTCATAAATGCGTGCCATAAATTTATGACACACAAATGTATATCAA
1 TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTC-A
*
2430998 GC--AGATTTATGACGGGGGCT
65 TCTTA-ATTTATGACGGGGGCT
*
2431018 TTAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
1 TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
2431083 CTTAATTTATGACGGGGGCT
66 CTTAATTTATGACGGGGGCT
* *
2431103 TCAATGACGCGCAATGTAAATCATACATGCGTGTCATAAATTTATGACGCATAAATGTGTGTCAT
1 TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
2431168 CTTAATTTATGACGGGGGCT
66 CTTAATTTATGACGGGGGCT
2431188 TCAATGAC
1 TCAATGAC
2431196 ACTCAAAGAA
Statistics
Matches: 164, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
84 2 0.01
85 161 0.98
86 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (85 bp):
TCAATGACGCGCAATGTAAGTCATACATGCGTGTCATAAATTTATGACGCACAAATGTGTGTCAT
CTTAATTTATGACGGGGGCT
Found at i:2432164 original size:30 final size:31
Alignment explanation
Indices: 2432130--2432190 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
2432120 CAAATTAATT
*
2432130 TATTTAATATTTTTATATTT-ATTTTAAAAA
1 TATTTAATATTTTTAAATTTAATTTTAAAAA
*
2432160 TATTTTATATTTTTAAATTTACATTTTAAAA
1 TATTTAATATTTTTAAATTTA-ATTTTAAAA
2432191 TAATTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 18 0.67
32 9 0.33
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (31 bp):
TATTTAATATTTTTAAATTTAATTTTAAAAA
Found at i:2433022 original size:12 final size:12
Alignment explanation
Indices: 2433002--2433030 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
2432992 TTTTTTCAAA
2433002 CCGGTTTTTAAT
1 CCGGTTTTTAAT
2433014 CCGGTTTTTAAT
1 CCGGTTTTTAAT
2433026 CCGGT
1 CCGGT
2433031 CGTCCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (12 bp):
CCGGTTTTTAAT
Found at i:2433139 original size:27 final size:26
Alignment explanation
Indices: 2433101--2433160 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 26
2433091 AAAAAAAATG
*
2433101 ATTTTTT-CC-AAATCCTAT-TTCGGA
1 ATTTTTTGCCAAAATCCGATATTC-GA
2433125 TATTTTTTGCACAAAATCCGATATTCGA
1 -ATTTTTTGC-CAAAATCCGATATTCGA
2433153 ATTTTTTG
1 ATTTTTTG
2433161 TGCACCTCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 7 0.23
26 1 0.03
27 9 0.30
28 10 0.33
29 3 0.10
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.47
Consensus pattern (26 bp):
ATTTTTTGCCAAAATCCGATATTCGA
Found at i:2433158 original size:28 final size:29
Alignment explanation
Indices: 2433110--2433165 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
2433100 GATTTTTTCC
* *
2433110 AAATCCTATTTCGGATATTTTT-TGCACA
1 AAATCCGATTTCGAATATTTTTGTGCACA
2433138 AAATCCGATATTCGAAT-TTTTTGTGCAC
1 AAATCCGAT-TTCGAATATTTTTGTGCAC
2433166 CTCTGGGAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (29 bp):
AAATCCGATTTCGAATATTTTTGTGCACA
Found at i:2443018 original size:10 final size:11
Alignment explanation
Indices: 2442990--2443022 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2442980 CTATCATAAC
*
2442990 TAAGCTTACTA
1 TAAGCTTACCA
2443001 TAAGCTTACCA
1 TAAGCTTACCA
2443012 T-AGCTTACCA
1 TAAGCTTACCA
2443022 T
1 T
2443023 TCAGTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (11 bp):
TAAGCTTACCA
Found at i:2444599 original size:18 final size:19
Alignment explanation
Indices: 2444573--2444635 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 19
2444563 TATTAAATAC
2444573 TATATAATAATATATTATG
1 TATATAATAATATATTATG
*
2444592 TA-ATAAT-AT-TATAATG
1 TATATAATAATATATTATG
*
2444608 ATATATAATAATATAATAT-
1 -TATATAATAATATATTATG
2444627 TATATAATA
1 TATATAATA
2444636 TAAATATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 6 0.16
17 4 0.11
18 19 0.51
19 4 0.11
20 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
TATATAATAATATATTATG
Found at i:2444625 original size:5 final size:5
Alignment explanation
Indices: 2444574--2444954 Score: 92
Period size: 5 Copynumber: 75.6 Consensus size: 5
2444564 ATTAAATACT
* * *
2444574 ATATA ATA-A TATATT ATGTA ATAATA TTATA ATGATA TATAATA ATATA
1 ATATA ATATA -ATATA ATATA AT-ATA ATATA AT-ATA -AT-ATA ATATA
* * * *
2444623 ATATT ATATA ATATA A-ATA TTA-A ATATA TTATA TGTATAA ATATA ATA-A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA -ATAT-A ATATA ATATA
* *
2444672 ATA-A A-ATA CTATA CATA-A ATATA A-AT- ATATT ATATGA ATACTA
1 ATATA ATATA ATATA -ATATA ATATA ATATA ATATA ATAT-A ATA-TA
*
2444715 CATATA TATACA ATAT- A-ATA ATATA A-ATA CGATATA ATAT- ATA-A
1 -ATATA -ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA
* * * * *
2444759 ATACT- ATGTA ATATA AAATTA TATATA ATATA AAAT- ATAAA ACAT-
1 ATA-TA ATATA ATATA ATA-TA -ATATA ATATA ATATA ATATA ATATA
* * * * *
2444804 ATATT ATA-A ATATT ATATA ATA-A ACACA ATAT- ATA-A CAAATA CTATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA -ATATA --ATATA
* * *
2444853 ATATTTA GTATA ATATA ATATA A-ATA CTATATA ATATA ATGTA AAATA
1 ATA--TA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA
* * *
2444901 A-ATA CTATATA ATAT- ATAAA ATAT- GTATA CTATA CTATATA ATATA
1 ATATA --ATATA ATATA ATATA ATATA ATATA ATATA --ATATA ATATA
*
2444947 ACATA ATA
1 ATATA ATA
2444955 AACATTACTA
Statistics
Matches: 276, Mismatches: 51, Indels: 98
0.65 0.12 0.23
Matches are distributed among these distances:
3 4 0.01
4 59 0.21
5 146 0.53
6 34 0.12
7 33 0.12
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:2444756 original size:55 final size:48
Alignment explanation
Indices: 2444630--2444756 Score: 121
Period size: 55 Copynumber: 2.5 Consensus size: 48
2444620 ATAATATTAT
*
2444630 ATAATATAAATATTA-AATATATTATATGTATAAATATAATAAATAAA
1 ATAATATAAATAATATAATATATTATATGTATAAATATAATAAATAAA
* * * *
2444677 ATACTATACATAAATATAAATATATTATATGAATACTACATATATATACAATATA
1 ATAATATAAAT-AATAT-AATATATTATATG--TA-TAAATATA-ATA-AATAAA
2444732 ATAATATAAATACGATATAATATAT
1 ATAATATAAATA--ATATAATATAT
2444757 AAATACTATG
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
47 9 0.14
48 3 0.05
50 13 0.21
52 2 0.03
53 7 0.11
54 4 0.06
55 21 0.33
56 4 0.06
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (48 bp):
ATAATATAAATAATATAATATATTATATGTATAAATATAATAAATAAA
Found at i:2444890 original size:26 final size:26
Alignment explanation
Indices: 2444559--2444952 Score: 125
Period size: 26 Copynumber: 14.3 Consensus size: 26
2444549 AAAACAAATA
2444559 ATAATATTAAATACTATAT-A-ATAAT
1 ATAATA-TAAATACTATATAATATAAT
* * *
2444584 ATATTATGTAATAATATTATAATGAT-AT
1 ATAATAT-AAATACTA-TATAAT-ATAAT
*
2444612 ATAATAATATAATATTATATAATATAAAT
1 ATAAT-ATA-AATACTATATAATAT-AAT
* *
2444641 ATTAAATATATTATA-TGTATAAATATAAT
1 A-T-AATATA-AATACTATAT-AATATAAT
2444670 A-AATA-AAATACTATACATAAATATAAAT
1 ATAATATAAATACTAT--AT-AATAT-AAT
* *
2444698 ATATTATATGAATACTACAT-ATAT-AT
1 ATA--ATATAAATACTATATAATATAAT
* * *
2444724 ACAATAT-AATAATATA-AATACGATAT
1 ATAATATAAATACTATATAATA-TA-AT
* *
2444750 AAT-ATATAAATACTATGTAATATAAA
1 -ATAATATAAATACTATATAATATAAT
**
2444776 ATTATATATAATATAAAATATAA-A-ACAT
1 A-TA-ATATAA-ATACTATATAATATA-AT
* * * *
2444804 ATATTATAAATATTATATAATAAACACA
1 ATAATATAAATACTATATAATATA-A-T
*
2444832 ATATATAACAAATACTATATAATATTTAGTATAAT
1 ATA-AT-ATAAATAC--TAT-ATA---A-TATAAT
2444867 ATAATATAAATACTATATAATATAAT
1 ATAATATAAATACTATATAATATAAT
* *
2444893 GTAAAATAAATACTATATAATAT-AT
1 ATAATATAAATACTATATAATATAAT
* **
2444918 AAAATATGTATACTATACT-ATATAAT
1 ATAATATAAATACTATA-TAATATAAT
*
2444944 ATAACATAA
1 ATAATATAA
2444953 TAAACATTAC
Statistics
Matches: 277, Mismatches: 46, Indels: 91
0.67 0.11 0.22
Matches are distributed among these distances:
23 10 0.04
24 8 0.03
25 42 0.15
26 60 0.22
27 27 0.10
28 36 0.13
29 31 0.11
30 24 0.09
31 9 0.03
32 10 0.04
33 10 0.04
34 2 0.01
35 3 0.01
36 2 0.01
37 3 0.01
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (26 bp):
ATAATATAAATACTATATAATATAAT
Found at i:2454949 original size:116 final size:117
Alignment explanation
Indices: 2454819--2455052 Score: 375
Period size: 117 Copynumber: 2.0 Consensus size: 117
2454809 AAAGTAAGCT
* * * *
2454819 ATCCATTTATGGAAT-AAATTTTTTTTGGGAAAATTATCACTTAGGTCCTTAAACTTTTCCTAAT
1 ATCCATTTATGGAATAAAAATCTTTTTGGGAAAATTACCACTTAGGACCTTAAACTTTTCCTAAT
*
2454883 TTTATACTTTGGCCA-CTAAACTTTTAATATTTACATTTTGGTT-ACTAACCAA
66 TTTATACTTTGGCCATC-AAACTTTTAAAATTTACATTTT-GTTCACTAACCAA
2454935 ATCCATTTATGGAATAAAAATCTTTTTGGGAAAATTACCACTTAGGACCTTAAACTTTTCCTAAT
1 ATCCATTTATGGAATAAAAATCTTTTTGGGAAAATTACCACTTAGGACCTTAAACTTTTCCTAAT
*
2455000 TTTCTACTTTGGCCATCAAACTTTTAAAATTTACATTTTGTTCACTAACCAA
66 TTTATACTTTGGCCATCAAACTTTTAAAATTTACATTTTGTTCACTAACCAA
2455052 A
1 A
2455053 ATTTTGGGGT
Statistics
Matches: 109, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
116 18 0.17
117 90 0.83
118 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.41
Consensus pattern (117 bp):
ATCCATTTATGGAATAAAAATCTTTTTGGGAAAATTACCACTTAGGACCTTAAACTTTTCCTAAT
TTTATACTTTGGCCATCAAACTTTTAAAATTTACATTTTGTTCACTAACCAA
Found at i:2460214 original size:117 final size:117
Alignment explanation
Indices: 2460073--2460302 Score: 340
Period size: 117 Copynumber: 2.0 Consensus size: 117
2460063 ATAGTAAACT
* *
2460073 ATCCATTTATGGAATAAAATTCTTTTTGGGAAAATTACCACTTAGGT-CCCTAAACTTTT-TCTA
1 ATCCATTTATGGAATAAAAATCTTTTTGGGAAAATTACCACTTA-GTACACTAAACTTTTCTC-A
* * *
2460136 ATTTTATATTTTAGCTA-CTAAACTTTCAATATTTATATTTTGGTCACTAATCAA
64 ATTTTATACTTTAGCCATC-AAACTTTCAAAATTTATATTTTGGTCACTAATCAA
*
2460190 ATCCATTTATGGAATAAAAATCTTTTTGGGAAAATTACCACTTAGTACATTAAACTTTTCTCAAT
1 ATCCATTTATGGAATAAAAATCTTTTTGGGAAAATTACCACTTAGTACACTAAACTTTTCTCAAT
* *
2460255 TTTTTACTTTGGCCATCAAACTTTCAAAATTTATATTTTGGTCACTAA
66 TTTATACTTTAGCCATCAAACTTTCAAAATTTATATTTTGGTCACTAA
2460303 CTAAAATTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
116 2 0.02
117 97 0.95
118 3 0.03
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.43
Consensus pattern (117 bp):
ATCCATTTATGGAATAAAAATCTTTTTGGGAAAATTACCACTTAGTACACTAAACTTTTCTCAAT
TTTATACTTTAGCCATCAAACTTTCAAAATTTATATTTTGGTCACTAATCAA
Found at i:2463397 original size:10 final size:10
Alignment explanation
Indices: 2463382--2463740 Score: 108
Period size: 9 Copynumber: 36.6 Consensus size: 10
2463372 ATAAAAACAA
2463382 ATAATAATAT
1 ATAATAATAT
*
2463392 -TAAATACTAT
1 AT-AATAATAT
2463402 ATAATAATA-
1 ATAATAATAT
*
2463411 AT-ATATTAT
1 ATAATAATAT
*
2463420 GTAATAATA-
1 ATAATAATAT
*
2463429 AT-ATATTAT
1 ATAATAATAT
*
2463438 GTAATAATAT
1 ATAATAATAT
*
2463448 A-ATATGATAT
1 ATA-ATAATAT
2463458 ATAATAATAT
1 ATAATAATAT
2463468 A-ATATAATAT
1 ATA-ATAATAT
* *
2463478 A-AATATTAA
1 ATAATAATAT
*
2463487 AT-ATATTAT
1 ATAATAATAT
*
2463496 ATGTATAA-AT
1 AT-AATAATAT
2463506 ATAATAA-AT
1 ATAATAATAT
* *
2463515 AAAATACTAT
1 ATAATAATAT
*
2463525 A-CATAA-AT
1 ATAATAATAT
2463533 A-AA-AATAT
1 ATAATAATAT
2463541 ATTATATGAATACT
1 A-TA-AT-AATA-T
2463555 AT-AT-ATAT
1 ATAATAATAT
*
2463563 AT-ATACTAT
1 ATAATAATAT
2463572 ATAATAATAT
1 ATAATAATAT
*
2463582 A-AATACTAT
1 ATAATAATAT
2463591 ATAA-AATAT
1 ATAATAATAT
*
2463600 A-AATACTAT
1 ATAATAATAT
* *
2463609 GTAATATAAAAT
1 AT-A-ATAATAT
*
2463621 ATAAAACATAT
1 ATAATA-ATAT
*
2463632 ATTATAA-AT
1 ATAATAATAT
*
2463641 ACTATATAATAA
1 A-TA-ATAATAT
* *
2463653 AT-ACAATAC
1 ATAATAATAT
*
2463662 CTAATAA-AT
1 ATAATAATAT
2463671 ACTATATAATAT
1 A-TA-ATAATAT
2463683 ATAAT-ATACT
1 ATAATAATA-T
*
2463693 ATAAATACTAT
1 AT-AATAATAT
2463704 AT-AT-ATAT
1 ATAATAATAT
2463712 ATAA-AATAT
1 ATAATAATAT
2463721 ACATACTATAATAT
1 --ATA--ATAATAT
2463735 ATAATA
1 ATAATA
2463741 TAACATAATA
Statistics
Matches: 259, Mismatches: 45, Indels: 90
0.66 0.11 0.23
Matches are distributed among these distances:
7 2 0.01
8 29 0.11
9 81 0.31
10 81 0.31
11 37 0.14
12 16 0.06
13 6 0.02
14 7 0.03
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (10 bp):
ATAATAATAT
Found at i:2463425 original size:38 final size:37
Alignment explanation
Indices: 2463382--2463750 Score: 127
Period size: 41 Copynumber: 9.5 Consensus size: 37
2463372 ATAAAAACAA
*
2463382 ATAATAATATTAAATACTATATAATAATAATATATTAT
1 ATAATAATA-TAAATAATATATAATAATAATATATTAT
* * * *
2463420 GTAATAATA-ATATATTATGTAATAAT-ATAATATGATAT
1 ATAATAATATAAATAATATATAATAATAAT-ATAT--TAT
*
2463458 ATAATAATATAATATAATATA-AATATTAAATATATTAT
1 ATAATAATATAA-ATAATATATAATAAT-AATATATTAT
* * * * *
2463496 AT-GT-ATA-AATATAATAAATAA-AATACTATACATAA
1 ATAATAATATAA-ATAATATATAATAATAATATA-TTAT
* *
2463531 ATAAAAATATATTATATGAATACTAT-AT-ATATATATACTAT
1 ATAATAATATA--A-AT-AATA-TATAATAATA-ATATATTAT
* *
2463572 ATAATAATATAAATACTATATAAAATATAAATACTATGTAAT
1 ATAATAATATAAATAATATATAATA-AT-AATA-TAT-T-AT
* *
2463614 ATAA-AATATAAA-ACATATATTATAAATACTATATAATAAAT
1 ATAATAATATAAATA-ATATATAAT-AATA--ATAT-AT-TAT
* * * *
2463655 ACAATACCTAATAAATACTATATAATATATAATATACTAT
1 ATAATA-AT-ATAAATAATATATAATA-ATAATATATTAT
* * * *
2463695 A-AATACTATATAT-ATATATAA-AATATACATACTAT
1 ATAATAATATAAATAATATATAATAATA-ATATATTAT
2463730 AATATATAATATAACATAATA
1 -ATA-ATAATATAA-ATAATA
2463751 AATATTACTA
Statistics
Matches: 249, Mismatches: 41, Indels: 80
0.67 0.11 0.22
Matches are distributed among these distances:
34 8 0.03
35 27 0.11
36 34 0.14
37 14 0.06
38 36 0.14
39 18 0.07
40 25 0.10
41 46 0.18
42 23 0.09
43 2 0.01
44 15 0.06
45 1 0.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (37 bp):
ATAATAATATAAATAATATATAATAATAATATATTAT
Found at i:2463451 original size:5 final size:5
Alignment explanation
Indices: 2463400--2463755 Score: 87
Period size: 5 Copynumber: 70.8 Consensus size: 5
2463390 ATTAAATACT
* * *
2463400 ATATA ATAATA ATATA TTATGTA ATAATA ATATA TTAT- GTAATA ATATA
1 ATATA AT-ATA ATATA --ATATA AT-ATA ATATA ATATA AT-ATA ATATA
* * *
2463449 ATATG ATAT- ATAATA ATATA ATATA ATATA A-ATA TTA-A ATATA TTATA
1 ATATA ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * *
2463497 TGTATAA ATATA ATA-A ATA-A A-ATA CTATA CATA-A ATA-A AAAT-
1 -ATAT-A ATATA ATATA ATATA ATATA ATATA -ATATA ATATA ATATA
* *
2463539 ATATT ATATGA ATACTA TATATA TATATA CTAT- ATAATA ATATA A-ATA
1 ATATA ATAT-A ATA-TA -ATATA -ATATA ATATA AT-ATA ATATA ATATA
* * * * * * *
2463587 CTAT- ATAAA ATATA A-ATA CTATGTA ATATA AAAT- ATAAA ACAT- ATATT
1 ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA ATATA
*
2463635 ATA-A ATACT- ATATA ATA-A ATACA ATACCTA ATA-A ATACT- ATATAA
1 ATATA ATA-TA ATATA ATATA ATATA ATA--TA ATATA ATA-TA ATAT-A
* * *
2463680 TATATA ATATA CTATA A-ATA CTATA TATATA TATAAA ATATA CATACT-
1 -ATATA ATATA ATATA ATATA ATATA -ATATA -ATATA ATATA -ATA-TA
*
2463728 ATA-A TATATA ATATA ACATA ATA-A ATAT
1 ATATA -ATATA ATATA ATATA ATATA ATAT
2463756 TACTAAATAC
Statistics
Matches: 263, Mismatches: 40, Indels: 96
0.66 0.10 0.24
Matches are distributed among these distances:
3 1 0.00
4 59 0.22
5 134 0.51
6 49 0.19
7 20 0.08
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:2463479 original size:18 final size:18
Alignment explanation
Indices: 2463382--2463751 Score: 122
Period size: 18 Copynumber: 20.4 Consensus size: 18
2463372 ATAAAAACAA
2463382 ATAATAATATTAA-ATACTAT
1 ATAATAATA-TAATATA--AT
*
2463402 ATAATAATA-ATATATTAT
1 ATAATAATATA-ATATAAT
* *
2463420 GTAATAATA-ATATATTAT
1 ATAATAATATA-ATATAAT
*
2463438 GTAATAATATAATATGATAT
1 ATAATAATATAATAT-A-AT
2463458 ATAATAATATAATATAAT
1 ATAATAATATAATATAAT
* *
2463476 ATAAATATTA-AATATATT
1 AT-AATAATATAATATAAT
*
2463494 AT-AT-GTATAAATATAAT
1 ATAATAATAT-AATATAAT
* *
2463511 A-AATAAAATACTATACAT
1 ATAATAATATAATATA-AT
*
2463529 A-AATAA-A-AATATATT
1 ATAATAATATAATATAAT
2463544 AT-ATGAATACTATATATATAT
1 ATAAT-AATA-TA-ATATA-AT
*
2463565 ATACTATATAATAATATAA-
1 ATAATA-AT-ATAATATAAT
* *
2463584 ATACTATATAAAATATAA-
1 ATAATA-ATATAATATAAT
* *
2463602 ATACT-ATGTAATATAAAAT
1 ATAATAATATAATAT--AAT
* *
2463621 ATAAAACATATATTATAAAT
1 ATAATA-ATATAATAT-AAT
*
2463641 ACTATATAATA-AATACAAT
1 A-TA-ATAATATAATATAAT
2463660 ACCTAATAA-ATACTATATAAT
1 A--TAATAATATA--ATATAAT
*
2463681 AT-ATAATATACTATAA-
1 ATAATAATATAATATAAT
*
2463697 ATACT-ATAT-ATAT-AT
1 ATAATAATATAATATAAT
* *
2463712 ATAA-AATAT-ACATACT
1 ATAATAATATAATATAAT
*
2463728 ATAAT-ATATAATATAAC
1 ATAATAATATAATATAAT
2463745 ATAATAA
1 ATAATAA
2463752 ATATTACTAA
Statistics
Matches: 275, Mismatches: 35, Indels: 82
0.70 0.09 0.21
Matches are distributed among these distances:
14 1 0.00
15 19 0.07
16 31 0.11
17 32 0.12
18 77 0.28
19 35 0.13
20 44 0.16
21 28 0.10
22 7 0.03
23 1 0.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (18 bp):
ATAATAATATAATATAAT
Found at i:2463607 original size:37 final size:37
Alignment explanation
Indices: 2463504--2463716 Score: 130
Period size: 37 Copynumber: 5.9 Consensus size: 37
2463494 ATATGTATAA
*
2463504 ATATAATAA-ATAAAATACTATACATAAATA-AAA-A-T
1 ATATAATAATAT-AAATACTATATA-AAATATAAATACT
* *
2463539 ATAT--T-ATATGAATACTATAT---ATATATATACT
1 ATATAATAATATAAATACTATATAAAATATAAATACT
2463570 ATATAATAATATAAATACTATATAAAATATAAATACT
1 ATATAATAATATAAATACTATATAAAATATAAATACT
* * ** * * *
2463607 ATGTAAT-ATAAAATATAAAACATATATTATAAATACT
1 ATATAATAATATAA-ATACTATATAAAATATAAATACT
* *
2463644 ATATAATAA-ATACAATACCTA-AT-AAATACTATATAAT
1 ATATAATAATATA-AATA-CTATATAAAATA-TAAATACT
*
2463681 ATATAATATACTATAAATACTATATATATATATAAA
1 ATATAATA-A-TATAAATACTATATA-AAATATAAA
2463717 ATATACATAC
Statistics
Matches: 135, Mismatches: 22, Indels: 37
0.70 0.11 0.19
Matches are distributed among these distances:
28 3 0.02
29 2 0.01
30 1 0.01
31 5 0.04
32 10 0.07
33 4 0.03
34 14 0.10
35 4 0.03
36 8 0.06
37 61 0.45
38 7 0.05
39 6 0.04
40 6 0.04
41 4 0.03
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.36
Consensus pattern (37 bp):
ATATAATAATATAAATACTATATAAAATATAAATACT
Found at i:2463639 original size:14 final size:14
Alignment explanation
Indices: 2463620--2463740 Score: 77
Period size: 14 Copynumber: 8.6 Consensus size: 14
2463610 TAATATAAAA
2463620 TATAAA-ACATATAT
1 TATAAATAC-TATAT
2463634 TATAAATACTATAT
1 TATAAATACTATAT
* *
2463648 AATAAATACAATACCT
1 TATAAATACTATA--T
*
2463664 AATAAATACTATAT
1 TATAAATACTATAT
* * * *
2463678 AATATATAATATAC
1 TATAAATACTATAT
2463692 TATAAATACTATA-
1 TATAAATACTATAT
* * *
2463705 TATATATA-TAAAA
1 TATAAATACTATAT
* *
2463718 TATACATACTATAA
1 TATAAATACTATAT
2463732 TATATAATA
1 TATA-AATA
2463741 TAACATAATA
Statistics
Matches: 87, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
12 3 0.03
13 14 0.16
14 52 0.60
15 5 0.06
16 13 0.15
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAAATACTATAT
Found at i:2463670 original size:30 final size:28
Alignment explanation
Indices: 2463380--2463742 Score: 143
Period size: 28 Copynumber: 13.4 Consensus size: 28
2463370 AAATAAAAAC
2463380 AAATAATA-A-TATTAAATACTATATAAT
1 AAATAATATACTA-TAAATACTATATAAT
* * * *
2463407 -AATAATATATTATGTAATAATAATATATT
1 AAATAATATACTAT-AAATACT-ATATAAT
**
2463436 ATGTAATA-A-TATAATATGA-TATATAAT
1 AAATAATATACTATAA-AT-ACTATATAAT
*
2463463 AATATAATATAATATAAATA-T-TA-AAT
1 AA-ATAATATACTATAAATACTATATAAT
* * *
2463489 ATATTATAT-GTATAAATA-TA-ATAAAT
1 AAATAATATACTATAAATACTATAT-AAT
* ** *
2463515 AAAATACTATAC-ATAAATAAAAATATATT
1 -AAATAATATACTATAAAT-ACTATATAAT
* * * *
2463544 ATATGA-ATACTATATATA-TATATACT
1 AAATAATATACTATAAATACTATATAAT
*
2463570 ATATAATA-A-TATAAATACTATATAA-
1 AAATAATATACTATAAATACTATATAAT
*
2463595 AATATAA-ATACTATGTAATA-TA-A-AAT
1 AA-ATAATATACTAT-AAATACTATATAAT
* *
2463621 ATAAAACATATATTATAAATACTATATAAT
1 A-AATA-ATATACTATAAATACTATATAAT
2463651 AAATACA-ATACCTAATAAATACTATATAAT
1 AAATA-ATATA-CT-ATAAATACTATATAAT
*
2463681 ATATAATATACTATAAATACTATATATAT
1 AAATAATATACTATAAATACTATATA-AT
* *
2463710 ATATAA-A-A-TATACATAC--TATAAT
1 AAATAATATACTATAAATACTATATAAT
*
2463733 ATATAATATA
1 AAATAATATA
2463743 ACATAATAAA
Statistics
Matches: 262, Mismatches: 36, Indels: 78
0.70 0.10 0.21
Matches are distributed among these distances:
23 8 0.03
24 15 0.06
25 18 0.07
26 49 0.19
27 42 0.16
28 59 0.23
29 32 0.12
30 39 0.15
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (28 bp):
AAATAATATACTATAAATACTATATAAT
Found at i:2463700 original size:44 final size:41
Alignment explanation
Indices: 2463555--2463700 Score: 115
Period size: 44 Copynumber: 3.5 Consensus size: 41
2463545 TATGAATACT
*
2463555 ATATATATATATACTAT--ATA-ATAATATAAATACTATATA
1 ATATATA-ATATACTATAAATACAAAATATAAATACTATATA
* * * *
2463594 AAATATAA-ATACTATGTAATATAAAATATAAA-ACATATATT
1 ATATATAATATACTAT-AAATACAAAATATAAATAC-TATATA
* * *
2463635 ATAAATACTATA-TAATAAATACAATACCTAATAAATACTATATA
1 ATATATAATATACT-ATAAATACAA-A-AT-ATAAATACTATATA
2463679 ATATATAATATACTATAAATAC
1 ATATATAATATACTATAAATAC
2463701 TATATATATA
Statistics
Matches: 83, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
37 7 0.08
38 1 0.01
39 6 0.07
40 5 0.06
41 26 0.31
42 6 0.07
43 1 0.01
44 28 0.34
45 3 0.04
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.36
Consensus pattern (41 bp):
ATATATAATATACTATAAATACAAAATATAAATACTATATA
Found at i:2463736 original size:16 final size:16
Alignment explanation
Indices: 2463645--2463737 Score: 57
Period size: 16 Copynumber: 5.7 Consensus size: 16
2463635 ATAAATACTA
*
2463645 TATAATAAATACAATAC
1 TATAATATATAC-ATAC
* *
2463662 -CTAATAAATAC-TA-
1 TATAATATATACATAC
*
2463675 TATAATATATAATATAC
1 TATAATATAT-ACATAC
* *
2463692 TATAAATACTATATATATA
1 TAT-AATA-TATACATA-C
*
2463711 TATAAAATATACATAC
1 TATAATATATACATAC
2463727 TATAATATATA
1 TATAATATATA
2463738 ATATAACATA
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 22 0.37
17 10 0.17
18 12 0.20
19 6 0.10
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.37
Consensus pattern (16 bp):
TATAATATATACATAC
Found at i:2463754 original size:21 final size:23
Alignment explanation
Indices: 2463446--2463755 Score: 73
Period size: 23 Copynumber: 13.5 Consensus size: 23
2463436 ATGTAATAAT
* *
2463446 ATAATATGATATATAATAATATAAT
1 ATAATATAATATATAA-AATAT-AC
* *
2463471 ATAATATAA-ATATTAAATATATT
1 ATAATATAATATATAAAATATA-C
* *
2463494 ATATGTATAA-ATATAATAA-ATAAA
1 ATA-ATATAATATATAA-AATAT-AC
* * *
2463518 ATACTATACATAAATAAAA-ATAT
1 ATAATATA-ATATATAAAATATAC
*
2463541 ATTATATGAATACTATATATATATATAC
1 ATAATAT-AATA-TATA-A-A-ATATAC
*
2463569 -T-ATATAATA-ATATAA-ATAC
1 ATAATATAATATATAAAATATAC
* *
2463588 -T-ATATAAAATAT-AAATACTAT
1 ATAATATAATATATAAAATA-TAC
* * * *
2463609 GTAATATAAAATATAAAACATAT
1 ATAATATAATATATAAAATATAC
* * * *
2463632 ATTATA-AATACTATATAATAAAT
1 ATAATATAATA-TATAAAATATAC
* * **
2463655 ACAATACCTAATAAATACTATATA-
1 ATAATA--TAATATATAAAATATAC
*
2463679 AT-ATATAATATACTATAA-ATAC
1 ATAATATAATATA-TAAAATATAC
2463701 -T-ATATATATATATAAAATATAC
1 ATAATATA-ATATATAAAATATAC
* *
2463723 ATACTATAATATATAATATA-AC
1 ATAATATAATATATAAAATATAC
2463745 ATAATA-AATAT
1 ATAATATAATAT
2463756 TACTAAATAC
Statistics
Matches: 220, Mismatches: 37, Indels: 60
0.69 0.12 0.19
Matches are distributed among these distances:
19 14 0.06
20 4 0.02
21 27 0.12
22 24 0.11
23 71 0.32
24 38 0.17
25 28 0.13
26 9 0.04
27 2 0.01
28 3 0.01
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.37
Consensus pattern (23 bp):
ATAATATAATATATAAAATATAC
Found at i:2464110 original size:14 final size:13
Alignment explanation
Indices: 2464082--2464106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2464072 AATAATTCAT
2464082 TAAATAATTTTTA
1 TAAATAATTTTTA
2464095 TAAATAATTTTT
1 TAAATAATTTTT
2464107 TATATAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATAATTTTTA
Found at i:2464113 original size:25 final size:26
Alignment explanation
Indices: 2464052--2464113 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
2464042 TTTTAGGAAT
2464052 TTTTTTAT-TAATTTATCTATAATAA
1 TTTTTTATATAATTTATCTATAATAA
** *
2464077 TTCATTAAATAATTT-T-TATAAATAA
1 TTTTTTATATAATTTATCTAT-AATAA
2464102 TTTTTTATATAA
1 TTTTTTATATAA
2464114 ATTGTTTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
24 3 0.10
25 20 0.69
26 6 0.21
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTTTTATATAATTTATCTATAATAA
Found at i:2464121 original size:14 final size:14
Alignment explanation
Indices: 2464082--2464110 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2464072 AATAATTCAT
2464082 TAAATAA-TTTTTA
1 TAAATAATTTTTTA
2464095 TAAATAATTTTTTA
1 TAAATAATTTTTTA
2464109 TA
1 TA
2464111 TAAATTGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAAATAATTTTTTA
Found at i:2473924 original size:199 final size:198
Alignment explanation
Indices: 2473561--2474052 Score: 679
Period size: 199 Copynumber: 2.5 Consensus size: 198
2473551 TAAACATATG
*
2473561 GTCGATACATTT-TCTAAAAGTATCGACCCTAAAAACATCGAAACCGATAATTATAATGTAATAG
1 GTCGATACATTTAT-TAAAAGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * *
2473625 GTAAATTTATAATGTAACCGGTATAAATATACCGGTTTTATGATAGAATAGATCAACATAATGTA
65 GTAAATTTACAATGT-ACCGGTATAAATATACAGGTTTTATGAGAAAATAGATCAACATAATGTA
* * * *
2473690 TCGATACAAATTTAAAAAGTGTCGATACATTTTTCTAGAATGAATGTCAAACGAGGTGCACGCAT
129 TCGACACAAATTTAAAAAGTGTCAATACATTTTTCTAGAATGAATGCCAAACGAGGTGCACACAT
2473755 AAAGT
194 AAAGT
* *
2473760 GTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCGAAACCGATAATTACAATGTAATAAG
1 GTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAGG
* * * *
2473825 TAAATTTACAATGTACCTGGTAGAAATATACATGTTTTATGAGAAAATAGGTCTACATAATGTAT
66 TAAATTTACAATGTACC-GGTATAAATATACAGGTTTTATGAGAAAATAGATCAACATAATGTAT
* *** * *
2473890 CGACAC-ATTTTAAGTTTGTGTCAATACTTTTTTCTAGAATGAATGCCCAACGAGGTGCACACAT
130 CGACACAAATTTAA-AAAGTGTCAATACATTTTTCTAGAATGAATGCCAAACGAGGTGCACACAT
2473954 AAAGT
194 AAAGT
* *
2473959 GTCGATACATTTA--AAATTGTATCGATCC-AAAAACATCGAAACTGATAATTATAATGTAATAG
1 GTCGATACATTTATTAAA-AGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAG
*
2474021 GTAAATTTGCAATGTTACCGGTATAAATATAC
65 GTAAATTTACAATG-TACCGGTATAAATATAC
2474053 CGATTTAGTT
Statistics
Matches: 261, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
197 59 0.23
198 23 0.09
199 178 0.68
200 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (198 bp):
GTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCGAAACCGATAATTATAATGTAATAGG
TAAATTTACAATGTACCGGTATAAATATACAGGTTTTATGAGAAAATAGATCAACATAATGTATC
GACACAAATTTAAAAAGTGTCAATACATTTTTCTAGAATGAATGCCAAACGAGGTGCACACATAA
AGT
Found at i:2474105 original size:23 final size:23
Alignment explanation
Indices: 2474076--2474121 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2474066 AAATAAGTCA
2474076 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
2474099 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
2474122 TTAGGCGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:2474257 original size:23 final size:23
Alignment explanation
Indices: 2474231--2474281 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2474221 TAAGTAATTA
** *
2474231 ACCTATTTTATTATATAAGCGTT
1 ACCTATTACATTATATAAGCGCT
*
2474254 ACCTATTACGTTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
2474277 ACCTA
1 ACCTA
2474282 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:2474289 original size:23 final size:23
Alignment explanation
Indices: 2474241--2474290 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2474231 ACCTATTTTA
* *
2474241 TTATATAAGCGTTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
*
2474264 TTATATAAGCGCTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
2474287 TTAT
1 TTAT
2474291 TGTGTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:2474354 original size:156 final size:157
Alignment explanation
Indices: 2474076--2474475 Score: 597
Period size: 156 Copynumber: 2.5 Consensus size: 157
2474066 AAATAAGTCA
* * * * *
2474076 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTATTACATTTTAGGCGATTATGTGCTTG
1 ATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTA--ATATGTT-----A-T-TGTGTTTA
* *
2474141 ATAATGTTTCTAGTAATTAACCGGTTATGTTATCTTTGGTAACATTTTAAGCGTTTACCTAATAT
57 ATAATGTTTCCAGTAATTAACCGGTTA-GTTATCCTTGGTAACATTTTAAGCGTTTACCTAATAT
2474206 GTTGTAATAACAAATTAAGTAATTAACCTATTTTATT
121 GTTGTAATAACAAATTAAGTAATTAACCTATTTTATT
*
2474243 ATATAAGCGTTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGTTTAATAATGTTT
1 ATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGTTTAATAATGTTT
*
2474308 CCAGTAATTAACCGGTTA-TTATCCTTGGTAACATTTTAGGCGTTTACCTAATATGTTGTAATAA
66 CCAGTAATTAACCGGTTAGTTATCCTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAA
2474372 CAAATTAAGTAATTAACCTATTTTATT
131 CAAATTAAGTAATTAACCTATTTTATT
* *
2474399 ATATAAGCGCTACCTATTACGTTATATAAGCGTTACCTAATATGTTATTGTGTTTGATAATGTTT
1 ATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGTTTAATAATGTTT
2474464 -CAGTAATTAACC
66 CCAGTAATTAACC
2474476 AATTTTATTA
Statistics
Matches: 221, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
155 12 0.05
156 133 0.60
158 32 0.14
159 1 0.00
160 1 0.00
165 5 0.02
167 37 0.17
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (157 bp):
ATATAAGCGCTACCTATTACGTTATATAAGCGCTACCTAATATGTTATTGTGTTTAATAATGTTT
CCAGTAATTAACCGGTTAGTTATCCTTGGTAACATTTTAAGCGTTTACCTAATATGTTGTAATAA
CAAATTAAGTAATTAACCTATTTTATT
Found at i:2474413 original size:23 final size:23
Alignment explanation
Indices: 2474387--2474437 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2474377 TAAGTAATTA
**
2474387 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
* *
2474410 ACCTATTACGTTATATAAGCGTT
1 ACCTATTACATTATATAAGCGCT
2474433 ACCTA
1 ACCTA
2474438 ATATGTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:2474445 original size:23 final size:23
Alignment explanation
Indices: 2474397--2474446 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2474387 ACCTATTTTA
*
2474397 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
2474420 TTATATAAGCGTTACCTAATATG
1 TTATATAAGCGCTACCTAATACG
2474443 TTAT
1 TTAT
2474447 TGTGTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:2474490 original size:86 final size:85
Alignment explanation
Indices: 2474379--2474585 Score: 335
Period size: 86 Copynumber: 2.4 Consensus size: 85
2474369 TAACAAATTA
* *
2474379 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGCGTTACCTAATATGT
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTAC-AT-TATAAGCGCTACCTAATATGT
**
2474444 TATTGTGTTTGATAATGTTT-C
64 TATTGTACTTGATAATGTTTCC
* *
2474465 AGTAATTAACCAATTTTATTATATAAGCGCTACCTATTACATTATAAGTGCTACCTAATATGTTA
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATAAGCGCTACCTAATATGTTA
2474530 TTGTACTTGATAATGTTTCC
66 TTGTACTTGATAATGTTTCC
2474550 AGTAATTAACCTATTTTATTATATAAGCGCTACCTA
1 AGTAATTAACCTATTTTATTATATAAGCGCTACCTA
2474586 ATGACGAAGC
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
84 37 0.33
85 37 0.33
86 39 0.35
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (85 bp):
AGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATAAGCGCTACCTAATATGTTA
TTGTACTTGATAATGTTTCC
Found at i:2476235 original size:2 final size:2
Alignment explanation
Indices: 2476224--2476258 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
2476214 AAATAAATAA
*
2476224 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2476259 GACTAAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:2477614 original size:3 final size:3
Alignment explanation
Indices: 2477606--2477698 Score: 73
Period size: 3 Copynumber: 31.0 Consensus size: 3
2477596 CTGTAATATG
* * * *
2477606 TAA TAA TAA TATT TAT TAA TAA AAA T-A TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
2477651 TTA TAA TAA TTA TAA CAA CT-A TAA TAA TTA TAA TAA TAA TAA AAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
2477696 TAA
1 TAA
2477699 AACATGCAAA
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
2 3 0.04
3 65 0.93
4 2 0.03
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:2478229 original size:123 final size:124
Alignment explanation
Indices: 2477901--2478218 Score: 516
Period size: 123 Copynumber: 2.6 Consensus size: 124
2477891 TAATCTAGTA
*
2477901 AAAAGTTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TGCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGTTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
2477965 TATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGGGTCATGC
66 TATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTATGTGATAGAGTCATGC
* ** *
2478024 AAAAGGTTGAACAAGCCCTTCTCATTATGAACTTCTTCTTCATT-TTCAGATGAGTTCTTCTCAT
1 AAAAGTTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
2478088 TATGAACTTTCTCAGGAAAAGTTGATGCTGATCTATCTCCTTATGTGATAGAGTCATG-
66 TATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTATGTGATAGAGTCATGC
* * *
2478146 TAAAGTTTGAACAAATTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGTTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
2478211 TATGAACT
66 TATGAACT
2478219 CTACCTGGAA
Statistics
Matches: 178, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
122 37 0.21
123 138 0.78
124 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (124 bp):
AAAAGTTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTATGTGATAGAGTCATGC
Found at i:2478410 original size:196 final size:196
Alignment explanation
Indices: 2478076--2478445 Score: 562
Period size: 196 Copynumber: 1.9 Consensus size: 196
2478066 TTTTCAGATG
* *
2478076 AGTTCTTCTCATTATGAACTTTCTCAGGAAAAGTTGATGCTGATCTATCTCCTTATGTGATAGAG
1 AGTTCTTCTCATTATGAACTCTCTCAGGAAAAGTTAATGCTGATCTATCTCCTTATGTGATAGAG
* * * *
2478141 TCATGTAAAGTTTGAACAAATTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
66 TCATGAAAAGGTTGAACAAACTCTTCTCATTATAAACTTATTCTTCCTTCTTCAGATGAGTTCTT
* *
2478206 CTCATTATGAACTCTACCTGGAAATGCTGATCCATTGAGTGATGAATTCGAGCAAAAGGTTGAAC
131 CTCATTATGAACCCTACCTGGAAATACTGATCCATTGAGTGATGAATTCGAGCAAAAGGTTGAAC
2478271 A
196 A
* *
2478272 AGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTAATGCTGATCTATCTCCTTCTGTGATAGAG
1 AGTTCTTCTCATTATGAACTCTCTCAGGAAAAGTTAATGCTGATCTATCTCCTTATGTGATAGAG
* * * *
2478337 TCATGCAAAAGGTTGAATAAGCTCTTCTTATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCT
66 TCATG-AAAAGGTTGAACAAACTCTTCTCATTATAAACTTATTCTTCCTTCTTCAGATGAGTTCT
* * * *
2478402 T-TCATTATGAACCCTATCTGGCAATATTGATCTATTGAGTGATG
130 TCTCATTATGAACCCTACCTGGAAATACTGATCCATTGAGTGATG
2478446 GATTTAAATC
Statistics
Matches: 155, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
196 103 0.66
197 52 0.34
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.38
Consensus pattern (196 bp):
AGTTCTTCTCATTATGAACTCTCTCAGGAAAAGTTAATGCTGATCTATCTCCTTATGTGATAGAG
TCATGAAAAGGTTGAACAAACTCTTCTCATTATAAACTTATTCTTCCTTCTTCAGATGAGTTCTT
CTCATTATGAACCCTACCTGGAAATACTGATCCATTGAGTGATGAATTCGAGCAAAAGGTTGAAC
A
Found at i:2480009 original size:18 final size:19
Alignment explanation
Indices: 2479987--2480039 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 19
2479977 TCTATATATA
2479987 TTTTTTCATCATTTTTCAT
1 TTTTTTCATCATTTTTCAT
**
2480006 TTTTTTTTTCA-TTTTCAT
1 TTTTTTCATCATTTTTCAT
2480024 TTTTTTCATCATTTTT
1 TTTTTTCATCATTTTT
2480040 TTTCTTTTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 16 0.55
19 13 0.45
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTCATCATTTTTCAT
Found at i:2480028 original size:15 final size:15
Alignment explanation
Indices: 2480008--2480055 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
2479998 TTTTTCATTT
2480008 TTTTTTTCATTTTCA
1 TTTTTTTCATTTTCA
2480023 TTTTTTTCA---TCA
1 TTTTTTTCATTTTCA
2480035 TTTTTTTTC-TTTTCA
1 -TTTTTTTCATTTTCA
2480050 TTTTTT
1 TTTTTT
2480056 CTTCAAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 3 0.10
13 8 0.28
14 6 0.21
15 12 0.41
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTTTCATTTTCA
Found at i:2480047 original size:18 final size:17
Alignment explanation
Indices: 2479987--2480050 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 17
2479977 TCTATATATA
2479987 TTTTTTCATCATTTTTCAT
1 TTTTTTCATCATTTTT--T
** *
2480006 TTTTTTTTTCATTTTCAT
1 TTTTTTCATCATTTT-TT
2480024 TTTTTTCATCATTTTTT
1 TTTTTTCATCATTTTTT
2480041 TTCTTTTCAT
1 TT-TTTTCAT
2480051 TTTTTCTTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
17 3 0.08
18 21 0.57
19 13 0.35
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTTCATCATTTTTT
Found at i:2487034 original size:15 final size:15
Alignment explanation
Indices: 2486997--2487035 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
2486987 ATATAATGCA
*
2486997 ATGAATAATGAATGT
1 ATGAAAAATGAATGT
*
2487012 GTGAAAAATGAATGT
1 ATGAAAAATGAATGT
2487027 ATGCAAAAA
1 ATG-AAAAA
2487036 AGTATTGATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.51, C:0.03, G:0.21, T:0.26
Consensus pattern (15 bp):
ATGAAAAATGAATGT
Found at i:2490267 original size:24 final size:25
Alignment explanation
Indices: 2490240--2490326 Score: 58
Period size: 24 Copynumber: 3.5 Consensus size: 25
2490230 ATACTTGAAA
2490240 AATAAAATA-AAACATTAAT-AAAAT
1 AATAAAATATAAACATT-ATGAAAAT
* *
2490264 AAT-ATATATAAATATTATGAAAAT
1 AATAAAATATAAACATTATGAAAAT
* *
2490288 AATAAGTATATATAAAAATT-TGAAAAG
1 AATAA--A-ATATAAACATTATGAAAAT
*
2490315 AA-AAATTATAAA
1 AATAAAATATAAA
2490327 TTAAATATAT
Statistics
Matches: 51, Mismatches: 6, Indels: 13
0.73 0.09 0.19
Matches are distributed among these distances:
23 12 0.24
24 18 0.35
25 1 0.02
26 2 0.04
27 8 0.16
28 10 0.20
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (25 bp):
AATAAAATATAAACATTATGAAAAT
Found at i:2490946 original size:11 final size:11
Alignment explanation
Indices: 2490889--2490954 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
2490879 TTTTCTTAAT
2490889 ATTAAAAAATA
1 ATTAAAAAATA
*
2490900 AATAAAAAATA
1 ATTAAAAAATA
* *
2490911 A-TAAAACATTT
1 ATTAAAA-AATA
2490922 ATCT-AAAAATA
1 AT-TAAAAAATA
*
2490933 ATTAAAATATA
1 ATTAAAAAATA
*
2490944 ATTTAAAAATA
1 ATTAAAAAATA
2490955 TTTATTTAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
10 6 0.14
11 33 0.77
12 3 0.07
13 1 0.02
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
ATTAAAAAATA
Found at i:2490950 original size:22 final size:22
Alignment explanation
Indices: 2490889--2490954 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
2490879 TTTTCTTAAT
* *
2490889 ATTAAAAAATAAATAAAAAATA
1 ATTAAAAAATAATTTAAAAATA
* * *
2490911 A-TAAAACATTTATCTAAAAATA
1 ATTAAAA-AATAATTTAAAAATA
*
2490933 ATTAAAATATAATTTAAAAATA
1 ATTAAAAAATAATTTAAAAATA
2490955 TTTATTTAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
21 5 0.15
22 23 0.70
23 5 0.15
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (22 bp):
ATTAAAAAATAATTTAAAAATA
Found at i:2492578 original size:3 final size:3
Alignment explanation
Indices: 2492570--2492662 Score: 80
Period size: 3 Copynumber: 31.0 Consensus size: 3
2492560 CTGTAATATG
* * * *
2492570 TAA TAA TAA TATT TAT TAA TAA AAA T-A TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
2492615 TTA TAA TAA TTA TAA CAA TTA TAA TAA TTA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2492663 AACAGGCAAA
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
2 2 0.03
3 66 0.94
4 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2501055 original size:48 final size:48
Alignment explanation
Indices: 2500963--2501063 Score: 159
Period size: 48 Copynumber: 2.1 Consensus size: 48
2500953 CATCAATCTA
*
2500963 TTCTTCTGCTTTCTTCTTCCCCACGTCATCCATCTTCATCTCATCAAT
1 TTCTTCTGCTTTCTTCTTCCCCACGTCATCCATCTTCACCTCATCAAT
*
2501011 TTCTTCTTCTTTCTTCTTCCCCACGTCATCCATCTTC-CCATCATCAAT
1 TTCTTCTGCTTTCTTCTTCCCCACGTCATCCATCTTCACC-TCATCAAT
*
2501059 CTCTT
1 TTCTT
2501064 GAAACTTGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
47 1 0.02
48 48 0.98
ACGTcount: A:0.14, C:0.39, G:0.03, T:0.45
Consensus pattern (48 bp):
TTCTTCTGCTTTCTTCTTCCCCACGTCATCCATCTTCACCTCATCAAT
Found at i:2503131 original size:23 final size:23
Alignment explanation
Indices: 2503082--2503132 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
2503072 GTGTTATATT
**
2503082 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
2503105 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
2503128 ATATT
1 ATATT
2503133 ATTATATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Found at i:2503324 original size:22 final size:23
Alignment explanation
Indices: 2503296--2503342 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
2503286 TTGATTATTT
2503296 TATTATAATATTAAAAATA-TAA
1 TATTATAATATTAAAAATATTAA
* *
2503318 TATTATATTATTAGAAATATTAA
1 TATTATAATATTAAAAATATTAA
2503341 TA
1 TA
2503343 AATATATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (23 bp):
TATTATAATATTAAAAATATTAA
Found at i:2503347 original size:22 final size:22
Alignment explanation
Indices: 2503304--2503347 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2503294 TTTATTATAA
*
2503304 TATTAAAAATATAATATTATAT
1 TATTAAAAATATAATATAATAT
*
2503326 TATTAGAAATATTAATA-AATAT
1 TATTAAAAATA-TAATATAATAT
2503348 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:2503359 original size:38 final size:39
Alignment explanation
Indices: 2503313--2503400 Score: 101
Period size: 38 Copynumber: 2.3 Consensus size: 39
2503303 ATATTAAAAA
*
2503313 TATAATATTAT-ATTATTAGAAATATTAA-TAAATATATTT
1 TATAATATTATAATGATTA-AAATATTAATTAAA-ATATTT
* *
2503352 TA-AATATTTTAATGATTAAAATTTTAATTAAAATATTT
1 TATAATATTATAATGATTAAAATATTAATTAAAATATTT
2503390 TATTAATATTA
1 TA-TAATATTA
2503401 AACTCATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
38 23 0.56
39 12 0.29
40 6 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (39 bp):
TATAATATTATAATGATTAAAATATTAATTAAAATATTT
Found at i:2504632 original size:46 final size:46
Alignment explanation
Indices: 2504575--2505077 Score: 704
Period size: 46 Copynumber: 11.0 Consensus size: 46
2504565 CTATTTGTAA
* * * * * * *
2504575 ATTTCAGTTATGGCCTCTTTTCAGGCCTTAATACATCCATTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
* * *
2504621 ATTTTAGTTATGACATCCTTTCATGCCTTTATGCATTCATTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
* *
2504667 ATTTTAGTTATGTCATCCTTTCATG-CTTTAATGCATCCGTTCATGA
1 ATTTTAGTTATGGCATCCTTTCATGCCTTT-ATGCATCCGTTCATGC
*
2504713 ATTTTAGTTATGGCATCATTTCATGCCTTTATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
* * * *
2504759 ATTTTAGTTATGACGTCCTTTCATGCATTTATGCATCTGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
* * *
2504805 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTCGTTCATGA
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
*
2504851 ATTTTAGTTATGTCATCCTTTCATGCCTTTATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
* * * *
2504897 ATTTTAGTTATGACATCCTTTCATGCCTTAATGCATCC-ATCATGT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
*
2504942 ATTTTAGTTATGGCATCCTTTCATGTCTTTATGCATCCGTTCATGC
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
* * * *
2504988 ATTTTAGTTATGTCATCCTTTCATTCCTTTATGCATCCATTCATGA
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
*
2505034 ATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATCCGTTCAT
1 ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCAT
2505078 TTTTGTTATA
Statistics
Matches: 405, Mismatches: 49, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
45 44 0.11
46 357 0.88
47 4 0.01
ACGTcount: A:0.21, C:0.22, G:0.13, T:0.44
Consensus pattern (46 bp):
ATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCCGTTCATGC
Found at i:2505553 original size:94 final size:93
Alignment explanation
Indices: 2505446--2505618 Score: 276
Period size: 94 Copynumber: 1.8 Consensus size: 93
2505436 CCCTGATACC
* * *
2505446 GATACTTCTATACTATGGTACCGATACCCCCTTTCAGTATCGATACCATTTCTA-TATTCTGTGT
1 GATACTACTATACTATGGTACCGATACCCCCTTTCAATATCGATACCATTT-TATTATTCTG-GA
2505510 TACATGGTATCGATACCCTTCTCTCGGTTT
64 TACATGGTATCGATACCCTTCTCTCGGTTT
* *
2505540 GATACTACTATACTATGGTACCGATACTCCCTTTCAATATCGATACCATTTTATTATTCTGGATC
1 GATACTACTATACTATGGTACCGATACCCCCTTTCAATATCGATACCATTTTATTATTCTGGATA
2505605 CATGGTATCGATAC
66 CATGGTATCGATAC
2505619 TTCCCCTTGT
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
93 18 0.25
94 55 0.75
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (93 bp):
GATACTACTATACTATGGTACCGATACCCCCTTTCAATATCGATACCATTTTATTATTCTGGATA
CATGGTATCGATACCCTTCTCTCGGTTT
Found at i:2511873 original size:46 final size:46
Alignment explanation
Indices: 2511815--2512297 Score: 618
Period size: 46 Copynumber: 10.5 Consensus size: 46
2511805 AATACATCCA
* **
2511815 TTCATGCATTTTAGTTATGGCATCCTTTCATGAATTTATGCATCAG
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCAG
* * * * *
2511861 TTCATGCATTTTAGTTATGTCATCCTTTCATGTCTTAATGTATCCG
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCAG
* *
2511907 TTCATGTATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCCG
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCAG
* ** *
2511953 TTCATGCATTTTAGTTATGGCATATTTTCATGCCTTTATGCATCTG
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCAG
2511999 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCCA-
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCAT-CAG
*
2512045 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCCG
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCAG
* *
2512091 TTCATGCATTTTATTTATGGA-ATCCTTTCATGTCTTTATGCAT-ATG
1 TTCATGCATTTTAGTTAT-GACATCCTTTCATGCCTTTATGCATCA-G
*
2512137 CTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCCA-
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCAT-CAG
* * * *
2512183 TTCATGCATTTTAGTTATGACATCCTTTCACGCCTTAATGAATCCG
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCAG
* * * *
2512229 ATCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTC-G
1 TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCA-TCAG
* *
2512275 TTCATACAATTTT-GTTATAACAT
1 TTCATGC-ATTTTAGTTATGACAT
2512298 AGTCAATACT
Statistics
Matches: 387, Mismatches: 40, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
45 4 0.01
46 372 0.96
47 10 0.03
48 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.45
Consensus pattern (46 bp):
TTCATGCATTTTAGTTATGACATCCTTTCATGCCTTTATGCATCAG
Found at i:2511956 original size:20 final size:20
Alignment explanation
Indices: 2511921--2512097 Score: 95
Period size: 20 Copynumber: 7.9 Consensus size: 20
2511911 TGTATTTTAG
2511921 TTATGACATCCTTTCATGCCT
1 TTATG-CATCCTTTCATGCCT
* *
2511942 TTATGCATCCGTTCATGCATTTT
1 TTATGCATCCTTTCATGC---CT
**
2511965 AGTTATGGCATATTTTCATGCCT
1 --TTAT-GCATCCTTTCATGCCT
*
2511988 TTATGCAT-CTGTTCATGCATTTT
1 TTATGCATCCT-TTCATGC---CT
2512011 AGTTATGACATCCTTTCATGCCT
1 --TTATG-CATCCTTTCATGCCT
* *
2512034 TTATGCATCCATTCATGCATTTT
1 TTATGCATCCTTTCATGC---CT
2512057 AGTTATGACATCCTTTCATGCCT
1 --TTATG-CATCCTTTCATGCCT
*
2512080 TTATGCATCCGTTCATGC
1 TTATGCATCCTTTCATGC
2512098 ATTTTATTTA
Statistics
Matches: 122, Mismatches: 14, Indels: 41
0.69 0.08 0.23
Matches are distributed among these distances:
19 1 0.01
20 47 0.39
21 19 0.16
23 6 0.05
25 14 0.11
26 33 0.27
27 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (20 bp):
TTATGCATCCTTTCATGCCT
Found at i:2511996 original size:138 final size:138
Alignment explanation
Indices: 2511809--2512297 Score: 714
Period size: 138 Copynumber: 3.5 Consensus size: 138
2511799 AGGCCTAATA
* **
2511809 CATCCATTCATGCATTTTAGTTATGGCATCCTTTCATGAATTTATGCATCAGTTCATGCATTTTA
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCAGTTCATGCATTTTA
* * * * * *
2511874 GTTATGTCATCCTTTCATGTCTTAATGTATCCGTTCATGTATTTTAGTTATGACATCCTTTCATG
66 GTTATGACATCCTTTCATGCCTTTATGCATCCATTCATGCATTTTAGTTATGACATCCTTTCATG
2511939 CCTTTATG
131 CCTTTATG
** *
2511947 CATCCGTTCATGCATTTTAGTTATGGCATATTTTCATGCCTTTATGCATCTGTTCATGCATTTTA
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCAGTTCATGCATTTTA
2512012 GTTATGACATCCTTTCATGCCTTTATGCATCCATTCATGCATTTTAGTTATGACATCCTTTCATG
66 GTTATGACATCCTTTCATGCCTTTATGCATCCATTCATGCATTTTAGTTATGACATCCTTTCATG
2512077 CCTTTATG
131 CCTTTATG
* * * *
2512085 CATCCGTTCATGCATTTTATTTATGGAATCCTTTCATGTCTTTATGCAT-ATGCTCATGCATTTT
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCA-GTTCATGCATTTT
*
2512149 AGTTATGACATCCTTTCATGCCTTTATGCATCCATTCATGCATTTTAGTTATGACATCCTTTCAC
65 AGTTATGACATCCTTTCATGCCTTTATGCATCCATTCATGCATTTTAGTTATGACATCCTTTCAT
*
2512214 GCCTTAATG
130 GCCTTTATG
* * * * *
2512223 AATCCGATCATACATTTTAGTTATGGCATCCTTTCATGCCTTAATGCATTC-GTTCATACAATTT
1 CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTTATGCA-TCAGTTCATGC-ATTT
*
2512287 T-GTTATAACAT
64 TAGTTATGACAT
2512298 AGTCAATACT
Statistics
Matches: 316, Mismatches: 31, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
138 310 0.98
139 6 0.02
ACGTcount: A:0.22, C:0.21, G:0.12, T:0.44
Consensus pattern (138 bp):
CATCCGTTCATGCATTTTAGTTATGGCATCCTTTCATGCCTTTATGCATCAGTTCATGCATTTTA
GTTATGACATCCTTTCATGCCTTTATGCATCCATTCATGCATTTTAGTTATGACATCCTTTCATG
CCTTTATG
Found at i:2512186 original size:20 final size:21
Alignment explanation
Indices: 2512151--2512189 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2512141 TGCATTTTAG
*
2512151 TTATGACATCCTTTCATGCCT
1 TTATGACATCCATTCATGCCT
2512172 TTATG-CATCCATTCATGC
1 TTATGACATCCATTCATGC
2512190 ATTTTAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.21, C:0.28, G:0.10, T:0.41
Consensus pattern (21 bp):
TTATGACATCCATTCATGCCT
Found at i:2512699 original size:19 final size:19
Alignment explanation
Indices: 2512675--2512717 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
2512665 TATGATACCG
*
2512675 ATACCCCCTTTTAGTATCA
1 ATACCCCCTTTCAGTATCA
*
2512694 ATACCCCCTTTCAGTATCG
1 ATACCCCCTTTCAGTATCA
2512713 ATACC
1 ATACC
2512718 ATTTCTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.35, G:0.07, T:0.33
Consensus pattern (19 bp):
ATACCCCCTTTCAGTATCA
Found at i:2515767 original size:13 final size:13
Alignment explanation
Indices: 2515749--2515774 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2515739 TACAAAACTT
2515749 TTTAAAATTACAC
1 TTTAAAATTACAC
2515762 TTTAAAATTACAC
1 TTTAAAATTACAC
2515775 AATGGTCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAAAATTACAC
Found at i:2516526 original size:17 final size:17
Alignment explanation
Indices: 2516482--2516529 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2516472 GACTGAGCCA
* *
2516482 TTGACTATTGACCACCT
1 TTGACCATTGACCGCCT
* *
2516499 TTGAACGTTGACCGCCT
1 TTGACCATTGACCGCCT
2516516 TTGACCATTGACCG
1 TTGACCATTGACCG
2516530 TTGACTTTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (17 bp):
TTGACCATTGACCGCCT
Found at i:2518172 original size:31 final size:31
Alignment explanation
Indices: 2518134--2518209 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 31
2518124 TAAGGCGACC
** *
2518134 CTTGGGTAGGCTCTGTGGCCATGAGGTTTTT
1 CTTGGGTAGGCTCTGTGGCCATGAGAATTGT
* *
2518165 CTTGGGTAAGCCTCTGTGGCCTTGAGAATTGT
1 CTTGGGT-AGGCTCTGTGGCCATGAGAATTGT
2518197 CTTGGGTAGGCTC
1 CTTGGGTAGGCTC
2518210 ACAGGCCCCA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 12 0.32
32 26 0.68
ACGTcount: A:0.12, C:0.18, G:0.34, T:0.36
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGTGGCCATGAGAATTGT
Found at i:2519550 original size:23 final size:24
Alignment explanation
Indices: 2519505--2519550 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
2519495 TTGCTATTAT
*
2519505 TCTTCTTACATTTTTCTTCAAAATA
1 TCTTCTTA-ATTTTTATTCAAAATA
*
2519530 TCTTCTT-ATTTTTATTTAAAA
1 TCTTCTTAATTTTTATTCAAAA
2519551 AAAATATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
25 7 0.37
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (24 bp):
TCTTCTTAATTTTTATTCAAAATA
Found at i:2526627 original size:20 final size:19
Alignment explanation
Indices: 2526602--2526652 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 19
2526592 CACCTCTCGT
2526602 ATAAAACTAAAAGCGACTTG
1 ATAAAA-TAAAAGCGACTTG
2526622 ATAAAATAAACAGCGACTTG
1 ATAAAATAAA-AGCGACTTG
2526642 ATAAAATAAAA
1 ATAAAATAAAA
2526653 CATGAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.57, C:0.12, G:0.12, T:0.20
Consensus pattern (19 bp):
ATAAAATAAAAGCGACTTG
Found at i:2529455 original size:22 final size:23
Alignment explanation
Indices: 2529424--2529470 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
2529414 AAAAGTTAAA
*
2529424 CAGATCTGGTCAAAGTCAATGGT
1 CAGATCTGGTCAAAGTCAACGGT
2529447 CAGA-CTGGTCAAAGTCAACGGT
1 CAGATCTGGTCAAAGTCAACGGT
2529469 CA
1 CA
2529471 ACAGTTAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (23 bp):
CAGATCTGGTCAAAGTCAACGGT
Found at i:2529510 original size:13 final size:13
Alignment explanation
Indices: 2529492--2529516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2529482 GTCAAGTCAA
2529492 TGAGTTGACTCAG
1 TGAGTTGACTCAG
2529505 TGAGTTGACTCA
1 TGAGTTGACTCA
2529517 ACCAAGTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (13 bp):
TGAGTTGACTCAG
Found at i:2530319 original size:131 final size:131
Alignment explanation
Indices: 2530085--2530581 Score: 696
Period size: 131 Copynumber: 3.8 Consensus size: 131
2530075 TCATATTGAG
* * *
2530085 AATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTGCTTTAATGCATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* * * *
2530150 TATTCTCGATTGAAAATAATTCGATATTACCGTTTTCTCTCTAATCAATATTGATATTTAAGACG
66 TATTCTCGATTGGAAATAATTTGATATTATCGTTTTCTCTCGAATCAATATTGATATTTAAGACG
2530215 A
131 A
* * * *
2530216 AATAGTAATATCTTTTCATTTCGGTTGGAATAATAAATGATTGCTTTAAGGCATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* * *
2530281 TATTCTTGATTGGAAATAATTTGATATTATCGTTTTCTCTCGAATCAATATTGATTTTTAAAACG
66 TATTCTCGATTGGAAATAATTTGATATTATCGTTTTCTCTCGAATCAATATTGATATTTAAGACG
2530346 A
131 A
* * *
2530347 AATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGATGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* * * * * *
2530412 TATTCTCAATTGGAAATCA-TT-AGATTATCGTTTTCACTCGAATCGATATTGA-ATTTTAAGAG
66 TATTCTCGATTGGAAATAATTTGATATTATCGTTTTCTCTCGAATCAATATTGATA-TTTAAGAC
2530474 GA
130 GA
* *
2530476 AATAGCT-ATATCTCTTCATTTTGATTGGAGTAATAAATGACTGCTTTAAGGCATAAGAGGTCAT
1 AATAG-TAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCAT
* * *
2530540 TTATCCTCGATAGGAAATAATTAGATATTATCGTTTTCTCTC
65 TTATTCTCGATTGGAAATAATTTGATATTATCGTTTTCTCTC
2530582 TTAGAATTAT
Statistics
Matches: 325, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
129 110 0.34
130 4 0.01
131 211 0.65
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (131 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
TATTCTCGATTGGAAATAATTTGATATTATCGTTTTCTCTCGAATCAATATTGATATTTAAGACG
A
Found at i:2530569 original size:260 final size:261
Alignment explanation
Indices: 2530085--2530581 Score: 721
Period size: 260 Copynumber: 1.9 Consensus size: 261
2530075 TCATATTGAG
* * *
2530085 AATAGTAATATCTTTTCATTTCGGTTGGAGTAATAAATGACTGCTTTAATGCATGAGAGGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* * * *
2530150 TATTCTCGATTGAAAATAATTCGATATTACCGTTTTCTCTCTAATCAATATTGATATTTAAGACG
66 TATTCTCAATTGAAAATAATTC-AGATTACCGTTTTCACTCGAATCAATATTGATATTTAAGACG
* * * *
2530215 AAATAGTAATATCTTTTCATTTCGGTTGGAATAATAAATGATTGCTTTAAGGCATGAGAGGTCAT
130 AAATAGTAATATCTCTTCATTTCGATTGGAATAATAAATGACTGCTTTAAGGCATAAGAGGTCAT
* * * *
2530280 TTATTCTTGATTGGAAATAATTTGATATTATCGTTTTCTCTCGAATCAATATTGATTTTTAAAAC
195 TTATCCTCGATAGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGATTTTTAAAAC
2530345 GA
260 GA
* * *
2530347 AATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGATGTCATT
1 AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
* * * * *
2530412 TATTCTCAATTGGAAATCATT-AGATTATCGTTTTCACTCGAATCGATATTGA-ATTTTAAGAGG
66 TATTCTCAATTGAAAATAATTCAGATTACCGTTTTCACTCGAATCAATATTGATA-TTTAAGACG
* *
2530475 AAATAGCT-ATATCTCTTCATTTTGATTGGAGTAATAAATGACTGCTTTAAGGCATAAGAGGTCA
130 AAATAG-TAATATCTCTTCATTTCGATTGGAATAATAAATGACTGCTTTAAGGCATAAGAGGTCA
2530539 TTTATCCTCGATAGGAAATAATTAGATATTATCGTTTTCTCTC
194 TTTATCCTCGATAGGAAATAATTAGATATTATCGTTTTCTCTC
2530582 TTAGAATTAT
Statistics
Matches: 208, Mismatches: 25, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
259 1 0.00
260 129 0.62
261 1 0.00
262 77 0.37
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (261 bp):
AATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCATT
TATTCTCAATTGAAAATAATTCAGATTACCGTTTTCACTCGAATCAATATTGATATTTAAGACGA
AATAGTAATATCTCTTCATTTCGATTGGAATAATAAATGACTGCTTTAAGGCATAAGAGGTCATT
TATCCTCGATAGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGATTTTTAAAACG
A
Found at i:2537455 original size:17 final size:17
Alignment explanation
Indices: 2537433--2537467 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
2537423 TTGTGTAAAA
2537433 TCGTTGACCGTTGACCG
1 TCGTTGACCGTTGACCG
*
2537450 TCGTTGACCTTTGACCG
1 TCGTTGACCGTTGACCG
2537467 T
1 T
2537468 TGACTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.26, T:0.34
Consensus pattern (17 bp):
TCGTTGACCGTTGACCG
Found at i:2537476 original size:13 final size:13
Alignment explanation
Indices: 2537451--2537492 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
2537441 CGTTGACCGT
2537451 CGTTGACCTTTGAC
1 CGTTGA-CTTTGAC
*
2537465 CGTTGACTTTGAA
1 CGTTGACTTTGAC
2537478 CGTTGACTTTGAC
1 CGTTGACTTTGAC
2537491 CG
1 CG
2537493 AAAAAGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.36
Consensus pattern (13 bp):
CGTTGACTTTGAC
Found at i:2538929 original size:2 final size:2
Alignment explanation
Indices: 2538922--2538988 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
2538912 GTACCTGAAC
2538922 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2538964 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2538989 GCATGTTCGT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2540864 original size:12 final size:14
Alignment explanation
Indices: 2540820--2540869 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
2540810 GCTACTAGAG
*
2540820 ATTTCTCAATAAAT
1 ATTTATCAATAAAT
2540834 ATTTATCAATAAAT
1 ATTTATCAATAAAT
*
2540848 GTTTAT-AA-AAAT
1 ATTTATCAATAAAT
2540860 ATTTATCAAT
1 ATTTATCAAT
2540870 GTATTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 9 0.29
13 4 0.13
14 18 0.58
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTTATCAATAAAT
Found at i:2541583 original size:16 final size:16
Alignment explanation
Indices: 2541559--2541598 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
2541549 CTCTTGCTTG
* *
2541559 TTAAACTCGTTGTTCA
1 TTAAGCTCGTTGCTCA
2541575 TTAAGCTCGTTGCTCA
1 TTAAGCTCGTTGCTCA
2541591 TTAAGCTC
1 TTAAGCTC
2541599 ACCATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.40
Consensus pattern (16 bp):
TTAAGCTCGTTGCTCA
Found at i:2541806 original size:43 final size:43
Alignment explanation
Indices: 2541753--2541839 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
2541743 CCACATATAC
*
2541753 ACCAAAGTAACAATTCACAAATACACCAAACTAATATATTAAA
1 ACCAAAGTAACAATTCACAAATACACCAAACTAACATATTAAA
* * *
2541796 ACCAATGTAACAATTCATAAATACATCAAACTAACATATTAAA
1 ACCAAAGTAACAATTCACAAATACACCAAACTAACATATTAAA
2541839 A
1 A
2541840 ATATTCTTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.55, C:0.20, G:0.02, T:0.23
Consensus pattern (43 bp):
ACCAAAGTAACAATTCACAAATACACCAAACTAACATATTAAA
Found at i:2545459 original size:44 final size:46
Alignment explanation
Indices: 2545353--2545464 Score: 138
Period size: 48 Copynumber: 2.4 Consensus size: 46
2545343 CATTTATCCT
*
2545353 ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCGTTTAAAATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCGATT--AATTCC
* * *
2545401 ATAAGCTCGTAAGCTTATTTTTCCAATATACTTGCC-ATT-ATTCC
1 ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCGATTAATTCC
* *
2545445 GTAAGCTCATAAGCTTATTT
1 ATAAGCTCGTAAGCTTATTT
2545465 GCATGGTTAC
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
44 23 0.40
47 2 0.03
48 33 0.57
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (46 bp):
ATAAGCTCGTAAGCTTATTTTACCAAAATACTTACCGATTAATTCC
Found at i:2548235 original size:22 final size:22
Alignment explanation
Indices: 2548207--2548261 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
2548197 AACTTTTTGG
2548207 TCAAAGTCAACGCTT-GTCAAAA
1 TCAAAGTCAAC-CTTGGTCAAAA
* *
2548229 TCAAAGTCAACTTTGGTTAAAA
1 TCAAAGTCAACCTTGGTCAAAA
2548251 TCAACAGTCAA
1 TCAA-AGTCAA
2548262 GTCAATGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 21 0.72
23 6 0.21
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (22 bp):
TCAAAGTCAACCTTGGTCAAAA
Found at i:2558034 original size:2 final size:2
Alignment explanation
Indices: 2558029--2558068 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2558019 TATATGAATA
2558029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2558069 GTGTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2558579 original size:23 final size:23
Alignment explanation
Indices: 2558515--2558579 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
2558505 TTAATAACTA
* *
2558515 TGCCTTTATGACACATCTTCTTC
1 TGCCTTTATGGCACATTTTCTTC
* *
2558538 TGTCTTTATGGTA-ATTTT-TCTC
1 TGCCTTTATGGCACATTTTCT-TC
2558560 TGCCTTTATGGCACGATTTT
1 TGCCTTTATGGCAC-ATTTT
2558580 AGTCGTTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
21 1 0.03
22 17 0.52
23 10 0.30
24 5 0.15
ACGTcount: A:0.15, C:0.22, G:0.14, T:0.49
Consensus pattern (23 bp):
TGCCTTTATGGCACATTTTCTTC
Found at i:2564328 original size:16 final size:17
Alignment explanation
Indices: 2564299--2564332 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
2564289 ATAGTATAAC
2564299 TTATGATGAATTAGGTA
1 TTATGATGAATTAGGTA
*
2564316 TTAT-ATGATTTAGGTA
1 TTATGATGAATTAGGTA
2564332 T
1 T
2564333 GGAAATGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (17 bp):
TTATGATGAATTAGGTA
Found at i:2564800 original size:30 final size:30
Alignment explanation
Indices: 2564760--2564817 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2564750 AGAGTCGAGG
* * *
2564760 GTTACTTATGTCCTTTGGGACATATGGACA
1 GTTACCTATGTCCTTCGGAACATATGGACA
*
2564790 GTTACCTATGTTCTTCGGAACATATGGA
1 GTTACCTATGTCCTTCGGAACATATGGA
2564818 TAGGTCATTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.36
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGGAACATATGGACA
Found at i:2564981 original size:2 final size:2
Alignment explanation
Indices: 2564974--2565031 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
2564964 ACAATATGTA
2564974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2565016 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
2565032 GATGTGTGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2569516 original size:2 final size:2
Alignment explanation
Indices: 2569509--2569533 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2569499 GAATATAATG
2569509 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2569534 GATGTGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2570751 original size:19 final size:19
Alignment explanation
Indices: 2570727--2570773 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2570717 GATTGCGAAT
2570727 TTGATAAGTAACTAAATTA
1 TTGATAAGTAACTAAATTA
*
2570746 TTGATAAGTAAGTAAATTA
1 TTGATAAGTAACTAAATTA
2570765 TTGATAAGT
1 TTGATAAGT
2570774 TAATTTTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (19 bp):
TTGATAAGTAACTAAATTA
Found at i:2573283 original size:2 final size:2
Alignment explanation
Indices: 2573276--2573375 Score: 200
Period size: 2 Copynumber: 50.0 Consensus size: 2
2573266 GATTTAGGTG
2573276 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2573318 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2573360 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
2573376 AGATAAGCCA
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 98 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2573813 original size:30 final size:31
Alignment explanation
Indices: 2573745--2573833 Score: 119
Period size: 30 Copynumber: 2.9 Consensus size: 31
2573735 AGAGTCGAGG
*
2573745 GTTACCTATGTCGTTC-GGACATATGGACAT
1 GTTACCTATGTCCTTCGGGACATATGGACAT
*
2573775 GATTACCTATGTCCTTCGGGATATATGGACA-
1 G-TTACCTATGTCCTTCGGGACATATGGACAT
* *
2573806 GTTACCTATGTTCTTCGGAACATATGGA
1 GTTACCTATGTCCTTCGGGACATATGGA
2573834 TAGGTCATTC
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
30 25 0.48
31 15 0.29
32 12 0.23
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (31 bp):
GTTACCTATGTCCTTCGGGACATATGGACAT
Found at i:2577317 original size:30 final size:30
Alignment explanation
Indices: 2577283--2577340 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2577273 AGATAGAAAT
2577283 AGAAAAAGAAAAATAAAG-AAAAAGAGAAGA
1 AGAAAAAGAAAAA-AAAGAAAAAAGAGAAGA
* *
2577313 AGAAAAAGAAGAAGAAGAAAAAAGAGAA
1 AGAAAAAGAAAAAAAAGAAAAAAGAGAA
2577341 CATATCAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (30 bp):
AGAAAAAGAAAAAAAAGAAAAAAGAGAAGA
Found at i:2577319 original size:15 final size:14
Alignment explanation
Indices: 2577298--2577340 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 14
2577288 AAGAAAAATA
2577298 AAGAAAAAGAGAAG
1 AAGAAAAAGAGAAG
2577312 AAGAAAAAGAAGAAG
1 AAGAAAAAG-AGAAG
2577327 AAGAAAAAAGAGAA
1 AAG-AAAAAGAGAA
2577341 CATATCAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.33
15 12 0.44
16 6 0.22
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAGAAG
Found at i:2577324 original size:12 final size:12
Alignment explanation
Indices: 2577272--2577328 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
2577262 ATTCATATTC
*
2577272 AAGATAGAAATAG
1 AAGA-AGAAAAAG
* *
2577285 AAAAAGAAAAATA
1 AAGAAGAAAAA-G
*
2577298 AAGAA-AAAGAG
1 AAGAAGAAAAAG
2577309 AAGAAGAAAAAG
1 AAGAAGAAAAAG
2577321 AAGAAGAA
1 AAGAAGAA
2577329 GAAAAAAGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
11 5 0.14
12 23 0.66
13 7 0.20
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (12 bp):
AAGAAGAAAAAG
Found at i:2579698 original size:41 final size:42
Alignment explanation
Indices: 2579605--2579708 Score: 120
Period size: 41 Copynumber: 2.5 Consensus size: 42
2579595 CAGGTCATCA
* * *
2579605 ATAAGTCTTTCGAGCAAGATCATTAAATCCTTTGGGCCATCT
1 ATAAGTCTTTCAAGCAAGATGATTAAATCCTTTGGGCCAGCT
* * * *
2579647 GTCAGTCTTTCAAGCAAGATGA-TAAGTCTTTTGGGCCAGCT
1 ATAAGTCTTTCAAGCAAGATGATTAAATCCTTTGGGCCAGCT
* *
2579688 ATAAGACTTTCAGGCAAGATG
1 ATAAGTCTTTCAAGCAAGATG
2579709 TTTTCATATA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 33 0.65
42 18 0.35
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (42 bp):
ATAAGTCTTTCAAGCAAGATGATTAAATCCTTTGGGCCAGCT
Found at i:2580605 original size:19 final size:19
Alignment explanation
Indices: 2580581--2580627 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
2580571 TGATTTGTGT
2580581 ATCGATGCATGGGTAGTGC
1 ATCGATGCATGGGTAGTGC
2580600 ATCGATGCATGGGTAGTGC
1 ATCGATGCATGGGTAGTGC
2580619 ATCGATGCA
1 ATCGATGCA
2580628 CTGTAGAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (19 bp):
ATCGATGCATGGGTAGTGC
Found at i:2582144 original size:61 final size:61
Alignment explanation
Indices: 2582049--2582185 Score: 177
Period size: 61 Copynumber: 2.2 Consensus size: 61
2582039 ACATAAAGAG
* * * *
2582049 ATTTTCAAATTTTCTCATTTAGTATTTTTAGAAAACG-AAATATTTGAAAAATGAGAAAGCA
1 ATTTTCAAAGTTTCTCATTTAGAATTTTCAGAAAACGAAAAT-TTTGAAAAATAAGAAAGCA
* * * **
2582110 ATTTTCAAAGTTTCTCATTTAGAATTTTCAGAAAATGAAAATTTTGAAAAGTAATAAAGTG
1 ATTTTCAAAGTTTCTCATTTAGAATTTTCAGAAAACGAAAATTTTGAAAAATAAGAAAGCA
2582171 ATTTTCAAAGTTTCT
1 ATTTTCAAAGTTTCT
2582186 TACCTAGTAA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
61 62 0.94
62 4 0.06
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (61 bp):
ATTTTCAAAGTTTCTCATTTAGAATTTTCAGAAAACGAAAATTTTGAAAAATAAGAAAGCA
Found at i:2587496 original size:20 final size:21
Alignment explanation
Indices: 2587471--2587563 Score: 91
Period size: 21 Copynumber: 4.5 Consensus size: 21
2587461 TTTTCCCAAT
*
2587471 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
** **
2587491 TCGCAACACGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2587512 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2587532 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2587553 TCGCAATGCGA
1 TCGCAATGCGA
2587564 TACTTACTAT
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.46
21 30 0.54
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2587516 original size:41 final size:41
Alignment explanation
Indices: 2587471--2587563 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
2587461 TTTTCCCAAT
2587471 TCGCAATGCGAATAAGTAAATCGCAACACGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACACGAATTGGGAAAA
*
2587512 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACACGAATTGGGAAAA
2587553 TCGCAATGCGA
1 TCGCAATGCGA
2587564 TACTTACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACACGAATTGGGAAAA
Found at i:2587576 original size:41 final size:41
Alignment explanation
Indices: 2587490--2587624 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
2587480 GAATAAGTAA
* ** *
2587490 ATCGCAACACGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
2587531 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
2587572 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
2587613 TTCGCAACGCGA
1 ATCGCAACGCGA
2587625 TACTGACTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
40 5 0.06
41 73 0.91
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:2587577 original size:20 final size:20
Alignment explanation
Indices: 2587552--2587642 Score: 85
Period size: 20 Copynumber: 4.5 Consensus size: 20
2587542 AATTGGGAAA
*
2587552 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
2587572 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
2587593 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
2587613 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
2587633 TTCGCAACGC
1 ATCGCAACGC
2587643 AATTTACATA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 41 0.69
21 12 0.20
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:2587861 original size:22 final size:22
Alignment explanation
Indices: 2587833--2587876 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2587823 CACTCTCTCA
*
2587833 CCCATCTCTGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2587855 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2587877 TATCTAAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2589529 original size:17 final size:18
Alignment explanation
Indices: 2589493--2589536 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
2589483 TCCACTTCGG
*
2589493 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
2589511 GAGCTATCACC-CACCCA
1 GAGCCATCACCTCACCCA
2589528 GAGCCATCA
1 GAGCCATCA
2589537 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.27, C:0.45, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2590081 original size:14 final size:14
Alignment explanation
Indices: 2590062--2590119 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2590052 ATGCGAAATG
2590062 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2590076 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
2590092 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2590108 AAAATCGCAACG
1 AAAATCGCAACG
2590120 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2590104 original size:32 final size:33
Alignment explanation
Indices: 2590046--2590136 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
2590036 GGAAATGGCT
*
2590046 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2590079 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
2590111 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
2590137 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 32 0.57
33 24 0.43
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:2590130 original size:19 final size:19
Alignment explanation
Indices: 2590008--2590141 Score: 92
Period size: 19 Copynumber: 7.6 Consensus size: 19
2589998 TAGTTTACTT
* **
2590008 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
***
2590027 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
2590047 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2590066 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
2590080 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
2590098 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
2590112 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2590131 TCGCAATGCGA
1 TCGCAACGCGA
2590142 TTTGTGTTTC
Statistics
Matches: 92, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
14 20 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 35 0.38
20 17 0.18
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2590172 original size:14 final size:14
Alignment explanation
Indices: 2590153--2590191 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
2590143 TTGTGTTTCG
2590153 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
2590167 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
2590181 CGTTGCGATTT
1 CGTTGCGATTT
2590192 CATTTCGCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.08, C:0.15, G:0.28, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:2590211 original size:19 final size:19
Alignment explanation
Indices: 2590181--2590284 Score: 93
Period size: 19 Copynumber: 5.4 Consensus size: 19
2590171 GCGATTTTGT
2590181 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
2590199 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* * ***
2590218 CATTGTGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
* **
2590238 TGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2590257 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
2590277 TGTTGCGA
1 CGTTGCGA
2590285 AAGTAAACTA
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
18 8 0.12
19 34 0.49
20 27 0.39
ACGTcount: A:0.14, C:0.19, G:0.24, T:0.42
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2592273 original size:19 final size:19
Alignment explanation
Indices: 2592249--2592350 Score: 169
Period size: 19 Copynumber: 5.6 Consensus size: 19
2592239 AAAACAGTCT
2592249 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2592268 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2592287 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2592306 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2592325 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
2592339 ATCGCAATGCGA
1 ATCGCAATGCGA
2592351 TTTTCATTTC
Statistics
Matches: 80, Mismatches: 0, Indels: 8
0.91 0.00 0.09
Matches are distributed among these distances:
14 11 0.14
15 1 0.01
16 2 0.03
17 2 0.03
19 64 0.80
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2592425 original size:20 final size:20
Alignment explanation
Indices: 2592370--2592425 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
2592360 CGCATTGCGA
* *
2592370 TTTCTCGTTGCGATAACCAT
1 TTTCGCGTTGCGATAGCCAT
2592390 TTTCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
2592410 TTTCGCGTTGCGATAG
1 TTTCGCGTTGCGATAG
2592426 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:2593720 original size:12 final size:12
Alignment explanation
Indices: 2593703--2593727 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2593693 ATATAATCCT
2593703 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2593715 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2593727 G
1 G
2593728 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2596066 original size:19 final size:19
Alignment explanation
Indices: 2596011--2596140 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
2596001 GGAAATTACT
2596011 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
2596029 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2596043 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
2596062 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
2596076 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
2596095 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
2596109 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2596128 ATCGCAACGCGAA
1 ATCGCAATGCGAA
2596141 TTTAATTTCA
Statistics
Matches: 83, Mismatches: 13, Indels: 31
0.65 0.10 0.24
Matches are distributed among these distances:
13 1 0.01
14 26 0.31
15 2 0.02
16 8 0.10
17 4 0.05
18 10 0.12
19 32 0.39
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2596069 original size:33 final size:33
Alignment explanation
Indices: 2596011--2596136 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
2596001 GGAAATTACT
2596011 ATCGCAATGCGAAATG-AAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
2596043 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
2596075 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2596109 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2596137 CGAATTTAAT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
32 17 0.20
33 66 0.79
34 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2596111 original size:66 final size:65
Alignment explanation
Indices: 2596012--2596143 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 65
2596002 GAAATTACTA
*
2596012 TCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
2596077 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
2596142 T
65 T
2596143 T
1 T
2596144 AATTTCACGT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 15 0.23
66 49 0.77
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (65 bp):
TCGCAATGCGAAATGAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:2596158 original size:19 final size:20
Alignment explanation
Indices: 2596136--2596178 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
2596126 AAATCGCAAC
2596136 GCGAATTT-AATTTCACGTT
1 GCGAATTTCAATTTCACGTT
* * *
2596155 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCACGTT
2596175 GCGA
1 GCGA
2596179 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCACGTT
Found at i:2596345 original size:14 final size:14
Alignment explanation
Indices: 2596322--2596355 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
2596312 TCAATTAAAC
2596322 AATCAACTTTTACA
1 AATCAACTTTTACA
*
2596336 AATCACCTTTTACA
1 AATCAACTTTTACA
2596350 AATCAA
1 AATCAA
2596356 TTAAACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:2597805 original size:42 final size:42
Alignment explanation
Indices: 2597738--2597821 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
2597728 CGATGACAGT
* * *
2597738 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
2597780 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
2597822 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:2599848 original size:38 final size:38
Alignment explanation
Indices: 2599760--2599841 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
2599750 TAGTTTATTC
2599760 TTGAAACTAAAATTTGCAACACTGTTTTTGTCTTTTGG
1 TTGAAACTAAAATTTGCAACACTGTTTTTGTCTTTTGG
2599798 TTGAAACTAAAATTTGCAACACTGTTTTTGTCTTTTGG
1 TTGAAACTAAAATTTGCAACACTGTTTTTGTCTTTTGG
2599836 TTGAAA
1 TTGAAA
2599842 TGAAAATCGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (38 bp):
TTGAAACTAAAATTTGCAACACTGTTTTTGTCTTTTGG
Found at i:2599936 original size:33 final size:33
Alignment explanation
Indices: 2599865--2599958 Score: 104
Period size: 32 Copynumber: 2.9 Consensus size: 33
2599855 GAATAATGAG
*
2599865 AATCGCAACGCGGAAATGACTATCGCAACGAGA
1 AATCGCAACGCGGAAATGACTATCGCAACCAGA
* * *
2599898 GATCGCAAC-TGGAAATGACTATCGCGACCAGA
1 AATCGCAACGCGGAAATGACTATCGCAACCAGA
**
2599930 CAATCGCAA-GC-GAAATGAAAATCGCAACC
1 -AATCGCAACGCGGAAATGACTATCGCAACC
2599959 GCGAAATAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
32 35 0.70
33 15 0.30
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACGCGGAAATGACTATCGCAACCAGA
Found at i:2599952 original size:18 final size:19
Alignment explanation
Indices: 2599931--2600017 Score: 126
Period size: 18 Copynumber: 4.7 Consensus size: 19
2599921 GCGACCAGAC
2599931 AATCGCAA-GCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2599949 AATCGCAACCGCGAAATAAA
1 AATCGCAA-CGCGAAATGAA
2599969 AATCG-AACGCGAAATG-A
1 AATCGCAACGCGAAATGAA
2599986 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2600005 AATCGCAATGCGA
1 AATCGCAACGCGA
2600018 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
17 6 0.10
18 27 0.44
19 15 0.24
20 14 0.23
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:2600029 original size:19 final size:19
Alignment explanation
Indices: 2600013--2600059 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
2600003 AAAATCGCAA
*
2600013 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
2600032 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
2600051 TGCGATTTT
1 TGCGATTTT
2600060 CATTCTCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.09, C:0.15, G:0.26, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Done.