Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004570.1 Hibiscus syriacus cultivar Beakdansim tig00010156_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: 127123
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:688 original size:19 final size:19
Alignment explanation
Indices: 664--715 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
654 ATACTAATTT
664 TTTTTTATAATTTTTCGGA
1 TTTTTTATAATTTTTCGGA
* * *
683 TTTTTTGTATTTTTTCTGA
1 TTTTTTATAATTTTTCGGA
702 TTTTTTAT-ATTTTT
1 TTTTTTATAATTTTT
716 AAATTAATAG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 5 0.18
19 23 0.82
ACGTcount: A:0.15, C:0.04, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTTTTATAATTTTTCGGA
Found at i:880 original size:2 final size:2
Alignment explanation
Indices: 821--869 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
811 AGGATTAGAG
821 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
863 A- AT AT AT
1 AT AT AT AT
870 GATGCATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2863 original size:22 final size:21
Alignment explanation
Indices: 2804--2864 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 21
2794 TTTAACGTCA
*
2804 TATTTATATTTATATCTAAAAG
1 TATTTATATTTATAT-TTAAAG
2826 TATTT-TA--T-T-TTTAAAG
1 TATTTATATTTATATTTAAAG
2842 TATTTATATTTATATTTCAAAG
1 TATTTATATTTATATTT-AAAG
2864 T
1 T
2865 CGTTTCACTG
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
16 10 0.31
17 3 0.09
18 1 0.03
19 2 0.06
20 1 0.03
21 5 0.16
22 10 0.31
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
TATTTATATTTATATTTAAAG
Found at i:5193 original size:18 final size:17
Alignment explanation
Indices: 5166--5203 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5156 TATTTGTAAT
5166 TTTTACTATTTTGTTTAA
1 TTTTACTA-TTTGTTTAA
*
5184 TTTTAGTATTTGTTTAA
1 TTTTACTATTTGTTTAA
5201 TTT
1 TTT
5204 ATTTTGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTTACTATTTGTTTAA
Found at i:11033 original size:80 final size:78
Alignment explanation
Indices: 10916--11162 Score: 368
Period size: 80 Copynumber: 3.1 Consensus size: 78
10906 AACCTACAGT
* *
10916 TACTCCATTAATAATGAAAAATCTCAGTTCAGCTCCAATATACATCACTTTTCGGGATTTCGCCA
1 TACTACATTAATAATGAAAAATCTCAGTTCAGCTCCAATATACATCACTTTTCGGGTTTTCGCCA
10981 CAATTACATAACC
66 CAATTACATAACC
*
10994 TACTACATTAATAATGAAAAAATTCTCAGTTCAGCTCCAATATACATCACTTTTCGGCTTTTCGC
1 TACTACATTAATAATG-AAAAA-TCTCAGTTCAGCTCCAATATACATCACTTTTCGGGTTTTCGC
* *
11059 CACAATTGCATATCC
64 CACAATTACATAACC
*
11074 TACAATCACTCCATTAATAATGAAAAATCTAAGTTCAGCTCCAATATACATCACTTTTCGGGTTT
1 TAC--T-A---CATTAATAATGAAAAATCTCAGTTCAGCTCCAATATACATCACTTTTCGGGTTT
11139 TCGCCACAATTACATAACC
60 TCGCCACAATTACATAACC
11158 TACTA
1 TACTA
11163 TTACTCCATT
Statistics
Matches: 152, Mismatches: 9, Indels: 13
0.87 0.05 0.07
Matches are distributed among these distances:
78 15 0.10
79 5 0.03
80 56 0.37
81 1 0.01
82 2 0.01
83 1 0.01
84 56 0.37
85 5 0.03
86 11 0.07
ACGTcount: A:0.34, C:0.25, G:0.09, T:0.32
Consensus pattern (78 bp):
TACTACATTAATAATGAAAAATCTCAGTTCAGCTCCAATATACATCACTTTTCGGGTTTTCGCCA
CAATTACATAACC
Found at i:11130 original size:84 final size:84
Alignment explanation
Indices: 10895--11172 Score: 415
Period size: 84 Copynumber: 3.4 Consensus size: 84
10885 CATCAATCAT
* *
10895 CACAATTACACAACCTACAGTTACTCCATTAATAATGAAAAATCTCAGTTCAGCTCCAATATACA
1 CACAATTACATAACCTACAATTACTCCATTAATAATGAAAAATCTCAGTTCAGCTCCAATATACA
*
10960 TCACTTTTCGGGATTTCGC
66 TCACTTTTCGGGTTTTCGC
10979 CACAATTACATAACCTAC---TA---CATTAATAATGAAAAAATTCTCAGTTCAGCTCCAATATA
1 CACAATTACATAACCTACAATTACTCCATTAATAATG-AAAAA-TCTCAGTTCAGCTCCAATATA
*
11038 CATCACTTTTCGGCTTTTCGC
64 CATCACTTTTCGGGTTTTCGC
* * * *
11059 CACAATTGCATATCCTACAATCACTCCATTAATAATGAAAAATCTAAGTTCAGCTCCAATATACA
1 CACAATTACATAACCTACAATTACTCCATTAATAATGAAAAATCTCAGTTCAGCTCCAATATACA
11124 TCACTTTTCGGGTTTTCGC
66 TCACTTTTCGGGTTTTCGC
*
11143 CACAATTACATAACCTACTATTACTCCATT
1 CACAATTACATAACCTACAATTACTCCATT
11173 GAACAAAATT
Statistics
Matches: 174, Mismatches: 12, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
78 11 0.06
79 5 0.03
80 56 0.32
81 2 0.01
83 1 0.01
84 83 0.48
85 5 0.03
86 11 0.06
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.32
Consensus pattern (84 bp):
CACAATTACATAACCTACAATTACTCCATTAATAATGAAAAATCTCAGTTCAGCTCCAATATACA
TCACTTTTCGGGTTTTCGC
Found at i:16457 original size:21 final size:21
Alignment explanation
Indices: 16433--16472 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16423 ATAATTTATT
16433 TTTAACAATAAAAAATTATAG
1 TTTAACAATAAAAAATTATAG
* **
16454 TTTACCTTTAAAAAATTAT
1 TTTAACAATAAAAAATTAT
16473 TTAAAATTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (21 bp):
TTTAACAATAAAAAATTATAG
Found at i:18462 original size:34 final size:33
Alignment explanation
Indices: 18386--18492 Score: 85
Period size: 34 Copynumber: 3.1 Consensus size: 33
18376 GTGGTAAGAA
* *
18386 ATTTATTTTTATGTTAGTAT-TTT-TTTAAATAGTT
1 ATTT-TTTTTAT-TTAATATATTTATATAAATA-TT
*
18420 ATTATTTTTTATATTAATATATTTATGTAAATATT
1 ATT-TTTTTTAT-TTAATATATTTATATAAATATT
* *
18455 A-TTTTTTTATTAAAATAATATTTATATAATTATT
1 ATTTTTTTTATT-TAAT-ATATTTATATAAATATT
18489 ATTT
1 ATTT
18493 ATTTAGAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
32 1 0.02
33 11 0.18
34 33 0.54
35 9 0.15
36 7 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (33 bp):
ATTTTTTTTATTTAATATATTTATATAAATATT
Found at i:18474 original size:36 final size:34
Alignment explanation
Indices: 18419--18497 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
18409 TTTAAATAGT
*
18419 TATTATTTTTTATATT--AAT-ATATTTATGTAAA
1 TATTATTTTTT-TATTAAAATAATATTTATATAAA
*
18451 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATTAAAATAATATTTATATAAA
*
18485 TATTATTTATTTA
1 TATTATTTTTTTA
18498 GAATTATTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
31 4 0.10
32 11 0.27
33 3 0.07
34 23 0.56
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (34 bp):
TATTATTTTTTTATTAAAATAATATTTATATAAA
Found at i:18660 original size:17 final size:17
Alignment explanation
Indices: 18638--18691 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
18628 AATGTTAATA
18638 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
18655 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
18672 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
18689 TTT
1 TTT
18692 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:20252 original size:21 final size:21
Alignment explanation
Indices: 20222--20269 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
20212 GCAGGGGTAC
* *
20222 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
20243 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
20264 ATGCCA
1 ATGCCA
20270 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:20299 original size:21 final size:21
Alignment explanation
Indices: 20273--20366 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 21
20263 TATGCCATCT
* *
20273 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATGCCTAGC
*
20294 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATGCCTAGC
*
20315 CCGCCA-GATTACATGCCTAGC
1 CCG-CAGGGTTACATGCCTAGC
*
20336 CCACCA-GGTTACATGCCTAGC
1 CC-GCAGGGTTACATGCCTAGC
20357 CCGCAGGGTT
1 CCGCAGGGTT
20367 TTATACCATA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.03
21 60 0.94
22 2 0.03
ACGTcount: A:0.20, C:0.35, G:0.24, T:0.20
Consensus pattern (21 bp):
CCGCAGGGTTACATGCCTAGC
Found at i:20941 original size:39 final size:39
Alignment explanation
Indices: 20889--20966 Score: 88
Period size: 39 Copynumber: 2.0 Consensus size: 39
20879 AAATGTTTTT
*
20889 AAAATACAAATTA-TATTATTCAAAATTTAAAATAAAAATA
1 AAAATACAAATTATTA-AATTC-AAATTTAAAATAAAAATA
* *
20929 AAAATA-ATATTATTCAAATTCAAATTTAAAATATAAAT
1 AAAATACAAATTATT-AAATTCAAATTTAAAATAAAAAT
20967 TATAGTATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
39 21 0.64
40 11 0.33
41 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (39 bp):
AAAATACAAATTATTAAATTCAAATTTAAAATAAAAATA
Found at i:20948 original size:33 final size:34
Alignment explanation
Indices: 20889--20985 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 34
20879 AAATGTTTTT
*
20889 AAAATACAAATTATATTATTCAAAATTTAAAATA
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* * * *
20923 AAAATAAAAATAATATTATTC-AAATTCAAATTT
1 AAAATAAAAATTATATTATTCAAAATTTAAAATA
* * *
20956 AAAATATAAATTATAGTATTCGAAATTTAA
1 AAAATAAAAATTATATTATTCAAAATTTAA
20986 CATTAAATTT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 27 0.51
34 26 0.49
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (34 bp):
AAAATAAAAATTATATTATTCAAAATTTAAAATA
Found at i:20992 original size:34 final size:32
Alignment explanation
Indices: 20887--20992 Score: 113
Period size: 34 Copynumber: 3.2 Consensus size: 32
20877 ATAAATGTTT
*
20887 TTAAAATACAAATTATATTATTCAAAATTTAAAA
1 TTAAAATAAAAATTATATTATTC-AAATTT-AAA
* * *
20921 TAAAAATAAAAATAATATTATTCAAATTCAAA
1 TTAAAATAAAAATTATATTATTCAAATTTAAA
* *
20953 TTTAAAATATAAATTATAGTATTCGAAATTTAACA
1 -TTAAAATAAAAATTATATTATTC-AAATTTAA-A
20988 TTAAA
1 TTAAA
20993 TTTCAACTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 3 0.05
33 24 0.40
34 32 0.53
35 1 0.02
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (32 bp):
TTAAAATAAAAATTATATTATTCAAATTTAAA
Found at i:21612 original size:128 final size:128
Alignment explanation
Indices: 21384--22268 Score: 1558
Period size: 128 Copynumber: 6.9 Consensus size: 128
21374 TTACCTGATT
21384 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
21449 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
21512 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTT
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
21577 TGACGAAATAATGGAAGGCGCCCCCCCGAGAACGCGCCTTCATGTCCCCTA-AGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
*
21640 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGACAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
21705 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
21768 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
21833 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACACGCCTTCATGTAAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
21896 TACTGATATATCTAGTGTCCCCGAGGGATATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* * *** *
21961 TGATGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATATCCCCT-GAGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGT-GAATAGTGAAATAATAGG
22024 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
22089 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
22152 TACTGATATATCTAGTATCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
22217 TGACGAAATAATGGAAGGCGCCCCCCCGGGAACGTGCCTTCATGTGAATAGT
66 TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
22269 ACTCCGATTA
Statistics
Matches: 717, Mismatches: 36, Indels: 8
0.94 0.05 0.01
Matches are distributed among these distances:
127 3 0.00
128 711 0.99
129 3 0.00
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACGAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:22352 original size:8 final size:8
Alignment explanation
Indices: 22339--22379 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
22329 TCACAATCTT
22339 TCAAATTC
1 TCAAATTC
22347 TCAAATTC
1 TCAAATTC
* *
22355 CCAAACTC
1 TCAAATTC
22363 T-AAATTC
1 TCAAATTC
22370 TCAAATTC
1 TCAAATTC
22378 TC
1 TC
22380 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:26232 original size:32 final size:32
Alignment explanation
Indices: 26191--26259 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
26181 TTTAGCCGTA
26191 CTAATGACATGGTCATCAATGAATGTACGATT
1 CTAATGACATGGTCATCAATGAATGTACGATT
*
26223 CTAATGACATGGTCATCAATGCATGTACGATT
1 CTAATGACATGGTCATCAATGAATGTACGATT
26255 CTAAT
1 CTAAT
26260 CAATCACCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (32 bp):
CTAATGACATGGTCATCAATGAATGTACGATT
Found at i:26813 original size:36 final size:36
Alignment explanation
Indices: 26766--26838 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
26756 AGTAGTTATG
*
26766 TTAATTTTTTAACGATGAGTGACCAAAATGTAACAT
1 TTAATTTTTTAACGATGAGTGACCAAAATATAACAT
26802 TTAATTTTTTAACGATGAGTGACCAAAATATAACAT
1 TTAATTTTTTAACGATGAGTGACCAAAATATAACAT
26838 T
1 T
26839 AAGTATGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (36 bp):
TTAATTTTTTAACGATGAGTGACCAAAATATAACAT
Found at i:27266 original size:31 final size:31
Alignment explanation
Indices: 27228--27287 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
27218 ATATATATGA
* ** *
27228 TCATTTTTATTTAGTTAAGATATGGTCACTT
1 TCATTTTTAGTTAACTAAGATATGATCACTT
27259 TCATTTTTAGTTAACTAAGATATGATCAC
1 TCATTTTTAGTTAACTAAGATATGATCAC
27288 CACGGCTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.47
Consensus pattern (31 bp):
TCATTTTTAGTTAACTAAGATATGATCACTT
Found at i:27713 original size:25 final size:23
Alignment explanation
Indices: 27674--27734 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 23
27664 AACTTTAAGA
27674 ATTTTA-TATTATTATT-AAATAT
1 ATTTTATTATTATTATTGAAA-AT
27696 ATTTTATTATTAACTTATTGAAAAT
1 ATTTTATTATT-A-TTATTGAAAAT
*
27721 ATTTTATTTTTATT
1 ATTTTATTATTATT
27735 TTAATTTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
22 6 0.18
23 6 0.18
24 2 0.06
25 17 0.50
26 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
ATTTTATTATTATTATTGAAAAT
Found at i:27751 original size:10 final size:10
Alignment explanation
Indices: 27738--27767 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
27728 TTTTATTTTA
*
27738 ATTTAAAAAT
1 ATTTTAAAAT
27748 ATTTTAAAAT
1 ATTTTAAAAT
27758 ATTTTAAAAT
1 ATTTTAAAAT
27768 TAAGATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:27869 original size:31 final size:31
Alignment explanation
Indices: 27834--27894 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
27824 AAATTAAGAT
*
27834 AAAATATT-TTTTATTCTTATCTAAACTTTTA
1 AAAAT-TTATTTTATTATTATCTAAACTTTTA
* *
27865 AAAATTTATTTTATTATTATTTTAACTTTT
1 AAAATTTATTTTATTATTATCTAAACTTTT
27895 CAAAGTATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (31 bp):
AAAATTTATTTTATTATTATCTAAACTTTTA
Found at i:28069 original size:27 final size:27
Alignment explanation
Indices: 28031--28113 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
28021 GCATAAATAT
*
28031 ATATTTTGAAATTAAATTAAAATAAAA
1 ATATTTTTAAATTAAATTAAAATAAAA
28058 ATATTTTTAAATTAAATT--AATAAAA
1 ATATTTTTAAATTAAATTAAAATAAAA
* * *
28083 AGATTTTT-AA-TAAGTTAATATTAAAA
1 ATATTTTTAAATTAAATTAA-AATAAAA
28109 ATATT
1 ATATT
28114 ATAAATTTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
23 5 0.10
24 2 0.04
25 14 0.29
26 10 0.21
27 17 0.35
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (27 bp):
ATATTTTTAAATTAAATTAAAATAAAA
Found at i:28088 original size:25 final size:26
Alignment explanation
Indices: 28033--28092 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
28023 ATAAATATAT
* *
28033 ATTTTGAAATTAAATTAAAATAAAAAT
1 ATTTTTAAATTAAATT-AAATAAAAAG
28060 ATTTTTAAATTAAATT-AATAAAAAG
1 ATTTTTAAATTAAATTAAATAAAAAG
28085 ATTTTTAA
1 ATTTTTAA
28093 TAAGTTAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 16 0.52
27 15 0.48
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (26 bp):
ATTTTTAAATTAAATTAAATAAAAAG
Found at i:35486 original size:4 final size:4
Alignment explanation
Indices: 35471--36180 Score: 1266
Period size: 4 Copynumber: 180.2 Consensus size: 4
35461 TGTCTTGATA
35471 ATAC ATACC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
35519 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
35567 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
35615 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
35663 ATAC ATAC ATAC ATA- ATAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
35709 ATAC AT-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
35756 ATAC ATAC AGAC ATAC ATAC A-AC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
35803 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
35851 ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * *
35898 -TAC AT-C ATAC ATAC ATAC ATAC ATAT ACAT ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
35944 ATAC ATACC ATAC ATAC CTAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATA-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
35993 -T-C ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
36039 ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
36085 ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
36132 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
36180 A
1 A
36181 CACACACACA
Statistics
Matches: 683, Mismatches: 8, Indels: 30
0.95 0.01 0.04
Matches are distributed among these distances:
2 1 0.00
3 35 0.05
4 639 0.94
5 8 0.01
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:38852 original size:17 final size:17
Alignment explanation
Indices: 38830--38880 Score: 54
Period size: 17 Copynumber: 3.0 Consensus size: 17
38820 ATTATTTAAT
38830 TTAAAATATAAAGAATA
1 TTAAAATATAAAGAATA
38847 TTAAAATATTAAA-AAT-
1 TTAAAATA-TAAAGAATA
38863 TTAAACATA-AAAGTAATA
1 TTAAA-ATATAAAG-AATA
38881 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.10
16 5 0.17
17 17 0.59
18 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (17 bp):
TTAAAATATAAAGAATA
Found at i:42510 original size:21 final size:21
Alignment explanation
Indices: 42486--42559 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
42476 CGATCTTAGG
* *
42486 TATGGATACCAATTTATTCGG
1 TATGGAGACCAATTTATTCGA
* *
42507 TATGTAGACCAATTTATTCCA
1 TATGGAGACCAATTTATTCGA
* *
42528 CATGGAGACTAATTTATTCGA
1 TATGGAGACCAATTTATTCGA
*
42549 TATGAAGACCA
1 TATGGAGACCA
42560 TGGGTATCGA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (21 bp):
TATGGAGACCAATTTATTCGA
Found at i:44594 original size:18 final size:17
Alignment explanation
Indices: 44571--44609 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
44561 TTTTCTGATT
44571 TTTTTAATAATAAAAATA
1 TTTTTAATAATAAAAA-A
44589 TTTTTAATAATAAAAAA
1 TTTTTAATAATAAAAAA
44606 TTTT
1 TTTT
44610 CTGATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTTAATAATAAAAAA
Found at i:51318 original size:31 final size:31
Alignment explanation
Indices: 51283--51349 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
51273 TGATGACCAC
*
51283 ATCTTAAATAAATAAAAACAAAAGTGATCAT
1 ATCTTAAATAAAGAAAAACAAAAGTGATCAT
* * *
51314 ATCTTAATTAAAGAAAAACAAATGTGGTCAT
1 ATCTTAAATAAAGAAAAACAAAAGTGATCAT
51345 ATCTT
1 ATCTT
51350 GTGTATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (31 bp):
ATCTTAAATAAAGAAAAACAAAAGTGATCAT
Found at i:55141 original size:46 final size:46
Alignment explanation
Indices: 55089--55203 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 46
55079 AAATCAGATC
* * * *
55089 GGTTGGTTTCGGTTCGGGTCAAGCTTTAGATTTTTGAGTCAATTCG
1 GGTTGGTTTCGGTTCAGATCAACCTTTAGATTTTCGAGTCAATTCG
* *
55135 GGTTGGTTTTGGTTCAGATCAACCTTTAGATTTTCGAGTTAATTCG
1 GGTTGGTTTCGGTTCAGATCAACCTTTAGATTTTCGAGTCAATTCG
* * *
55181 GGTT-GTTTCTGTTTAGGTCAACC
1 GGTTGGTTTCGGTTCAGATCAACC
55204 GTCTTCGCTC
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
45 15 0.25
46 44 0.75
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.43
Consensus pattern (46 bp):
GGTTGGTTTCGGTTCAGATCAACCTTTAGATTTTCGAGTCAATTCG
Found at i:55759 original size:16 final size:16
Alignment explanation
Indices: 55722--55796 Score: 82
Period size: 16 Copynumber: 4.8 Consensus size: 16
55712 TCGTTTCAGA
55722 TTGCTTTCGGTTT-GG
1 TTGCTTTCGGTTTGGG
* *
55737 TTACTTTCAGTTTGGG
1 TTGCTTTCGGTTTGGG
*
55753 TTGCTTTCGGTTTGTG
1 TTGCTTTCGGTTTGGG
*
55769 TT-CATTTCGGTTCGGG
1 TTGC-TTTCGGTTTGGG
*
55785 TTGATTTCGGTT
1 TTGCTTTCGGTT
55797 AAATTATAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
15 12 0.24
16 37 0.76
ACGTcount: A:0.05, C:0.13, G:0.29, T:0.52
Consensus pattern (16 bp):
TTGCTTTCGGTTTGGG
Found at i:58013 original size:27 final size:25
Alignment explanation
Indices: 57983--58087 Score: 96
Period size: 27 Copynumber: 4.2 Consensus size: 25
57973 TTAAATTCAC
57983 AATATTTTATATATATTAAGTTTAACA
1 AATATTTTATATATATTAA-TTTAA-A
*
58010 AATATTTT-TATATTAATTTA-TTAAA
1 AATATTTTATATA-T-ATTAATTTAAA
*
58035 AATATTTTATTATTAAATTAATTTAAA
1 AATATTTTA-TA-TATATTAATTTAAA
58062 AATATTTTAT-T-T-TT-ATTTAAA
1 AATATTTTATATATATTAATTTAAA
58083 AATAT
1 AATAT
58088 ATATTTTATG
Statistics
Matches: 68, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
21 12 0.18
22 2 0.03
24 1 0.01
25 9 0.13
26 13 0.19
27 25 0.37
28 6 0.09
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
AATATTTTATATATATTAATTTAAA
Found at i:58048 original size:25 final size:26
Alignment explanation
Indices: 58003--58080 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 26
57993 ATATATTAAG
58003 TTTAACAAATATTTT-TATATTAATTTA
1 TTTAA-AAATATTTTAT-TATTAATTTA
*
58030 -TTAAAAATATTTTATTATTAAATTAA
1 TTTAAAAATATTTTATTATT-AATTTA
*
58056 TTTAAAAATATTTTATT-TTTATTTA
1 TTTAAAAATATTTTATTATTAATTTA
58081 AAAATATATA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
25 17 0.38
26 12 0.27
27 16 0.36
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (26 bp):
TTTAAAAATATTTTATTATTAATTTA
Found at i:58056 original size:30 final size:27
Alignment explanation
Indices: 57983--58072 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 27
57973 TTAAATTCAC
*
57983 AATATTTTA-TA-TATATTAAGTTTAACA
1 AATATTTTATTATTAAATTAA-TTTAA-A
*
58010 AATATTTT-TATATT-AATTTA-TTAAA
1 AATATTTTAT-TATTAAATTAATTTAAA
58035 AATATTTTATTATTAAATTAATTTAAA
1 AATATTTTATTATTAAATTAATTTAAA
58062 AATATTTTATT
1 AATATTTTATT
58073 TTTATTTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
25 13 0.24
26 10 0.19
27 24 0.44
28 6 0.11
29 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (27 bp):
AATATTTTATTATTAAATTAATTTAAA
Found at i:58080 original size:21 final size:20
Alignment explanation
Indices: 58055--58109 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
58045 TATTAAATTA
58055 ATTTAAAAATATTTTATTTTT
1 ATTTAAAAATATTTTA-TTTT
*
58076 ATTTAAAAATA-TATATTTT
1 ATTTAAAAATATTTTATTTT
58095 ATGTT-AAAATATTTT
1 AT-TTAAAAATATTTT
58110 GAAGTTAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
19 12 0.40
20 7 0.23
21 11 0.37
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTAAAAATATTTTATTTT
Found at i:58092 original size:52 final size:53
Alignment explanation
Indices: 57983--58096 Score: 130
Period size: 52 Copynumber: 2.2 Consensus size: 53
57973 TTAAATTCAC
* *
57983 AATATTTTA-TATATATTAAGTTTAACAAATATTTTTATATTAATTTATTAAA
1 AATATTTTATTATAAATTAAGTTTAACAAATATTTTTATATTAATTTATAAAA
* *
58035 AATATTTTATTATTAAATTAA-TTTAA-AAATA-TTTTATTTTTATTTA-AAAA
1 AATATTTTATTA-TAAATTAAGTTTAACAAATATTTTTATATTAATTTATAAAA
58085 TATATATTTTAT
1 -A-ATATTTTAT
58097 GTTAAAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
50 3 0.06
51 14 0.26
52 23 0.43
53 7 0.13
54 7 0.13
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (53 bp):
AATATTTTATTATAAATTAAGTTTAACAAATATTTTTATATTAATTTATAAAA
Found at i:58185 original size:58 final size:59
Alignment explanation
Indices: 58114--58254 Score: 130
Period size: 58 Copynumber: 2.4 Consensus size: 59
58104 TATTTTGAAG
* * *
58114 TTAAGATAAAAATA-AAAATATTTAATAATTTCAAATAATAAT-ATAATATATTTAGTAAA
1 TTAAGATAAAAATATAAAAT-TTTAA-AAGTTAAAATAATAATAAAAATATATTTAGTAAA
* * * *
58173 TTAAGAT-GAAATATATACTTTTAAAAGTTAAAATAATAATAAAAATATATTT-TTAAAA
1 TTAAGATAAAAATATAAAATTTTAAAAGTTAAAATAATAATAAAAATATATTTAGT-AAA
* *
58231 GTTTAGATAAGAATA-AAAATTTTA
1 -TTAAGATAAAAATATAAAATTTTA
58255 TTTTTAAATT
Statistics
Matches: 65, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
57 15 0.23
58 23 0.35
59 23 0.35
60 4 0.06
ACGTcount: A:0.55, C:0.01, G:0.06, T:0.38
Consensus pattern (59 bp):
TTAAGATAAAAATATAAAATTTTAAAAGTTAAAATAATAATAAAAATATATTTAGTAAA
Found at i:58227 original size:32 final size:29
Alignment explanation
Indices: 58103--58313 Score: 105
Period size: 27 Copynumber: 7.2 Consensus size: 29
58093 TTATGTTAAA
* * * *
58103 ATATTTTGAAGTTAAGATAAAAATAAAA-
1 ATATTTTTAAATTAAAATAATAATAAAAT
* * * *
58131 ATATTTAATAATTTCAAATAATAATATAAT
1 ATATTT-TTAAATTAAAATAATAATAAAAT
* * *
58161 ATATTTAGTAAATTAAGATGA-AAT---AT
1 ATATTT-TTAAATTAAAATAATAATAAAAT
*
58187 ATACTTTTAAAAGTTAAAATAATAATAAAAAT
1 ATA-TTTTTAAA-TTAAAATAATAAT-AAAAT
* * *
58219 ATATTTTTAAAAGTTTAGATAAGAATAAAAATT
1 ATATTTTT-AAA-TTAAAATAATAAT-AAAA-T
* *
58252 TTATTTTTAAATTAAAACACA-AAT-AAA-
1 ATATTTTTAAATTAAAATA-ATAATAAAAT
**
58279 ATATTTTTAAATTAAGTTAATAATAAAAT
1 ATATTTTTAAATTAAAATAATAATAAAAT
58308 ATATTT
1 ATATTT
58314 AATTAGTTAA
Statistics
Matches: 140, Mismatches: 28, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
26 9 0.06
27 28 0.20
28 12 0.09
29 27 0.19
30 16 0.11
31 12 0.09
32 28 0.20
33 8 0.06
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.39
Consensus pattern (29 bp):
ATATTTTTAAATTAAAATAATAATAAAAT
Found at i:58262 original size:33 final size:32
Alignment explanation
Indices: 58185--58262 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
58175 AAGATGAAAT
* *
58185 ATATACTTTTAAAAGTTAAAATAATAATAAAA
1 ATATATTTTTAAAAGTTAAAATAAGAATAAAA
* *
58217 ATATATTTTTAAAAGTTTAGATAAGAATAAAA
1 ATATATTTTTAAAAGTTAAAATAAGAATAAAA
*
58249 ATTTTATTTTTAAA
1 A-TATATTTTTAAA
58263 TTAAAACACA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 29 0.73
33 11 0.28
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (32 bp):
ATATATTTTTAAAAGTTAAAATAAGAATAAAA
Found at i:58303 original size:27 final size:27
Alignment explanation
Indices: 58273--58348 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
58263 TTAAAACACA
58273 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAATATTTTTAAATTAAGTTAAT
*
58300 AATAAAATATATTT-AATT-AGTTAAT
1 AATAAAATATTTTTAAATTAAGTTAAT
*
58325 ATACAAAAATATTTCTTAAATTAA
1 A-A-TAAAATATTT-TTAAATTAA
58349 TATATATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
25 8 0.20
26 5 0.12
27 21 0.51
28 2 0.05
29 4 0.10
30 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (27 bp):
AATAAAATATTTTTAAATTAAGTTAAT
Found at i:58336 original size:25 final size:26
Alignment explanation
Indices: 58273--58338 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
58263 TTAAAACACA
* *
58273 AATAAAATATTTTTAAATTAAGTTAAT
1 AATAAAAAATATTT-AATTAAGTTAAT
*
58300 AATAAAATATATTTAATT-AGTTAAT
1 AATAAAAAATATTTAATTAAGTTAAT
58325 -ATACAAAAATATTT
1 AATA-AAAAATATTT
58339 CTTAAATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
24 3 0.08
25 16 0.44
26 4 0.11
27 13 0.36
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (26 bp):
AATAAAAAATATTTAATTAAGTTAAT
Found at i:60861 original size:20 final size:20
Alignment explanation
Indices: 60833--60878 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
60823 CTCTTTATAA
*
60833 ACATTTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
60853 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATTTCCCT
*
60873 ATATCT
1 ACATCT
60879 CTCGACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.26, G:0.00, T:0.52
Consensus pattern (20 bp):
ACATCTATTTCTATTTCCCT
Found at i:61424 original size:22 final size:21
Alignment explanation
Indices: 61393--61452 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
61383 GTATGAGGGG
*
61393 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCC-TTGAAT
61415 GGGTACCGATT-CCCTTGAAT
1 GGGTACCGATTCCCCTTGAAT
*
61435 GGGTTCCGATTCCCCTTG
1 GGGTACCGATTCCCCTTG
61453 CCCATAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 16 0.46
21 9 0.26
22 10 0.29
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.32
Consensus pattern (21 bp):
GGGTACCGATTCCCCTTGAAT
Found at i:65766 original size:20 final size:20
Alignment explanation
Indices: 65741--65806 Score: 123
Period size: 20 Copynumber: 3.3 Consensus size: 20
65731 CTCTTTATAA
65741 ACATCTGTTTCTATTTCCCT
1 ACATCTGTTTCTATTTCCCT
65761 ACATCTGTTTCTATTTCCCT
1 ACATCTGTTTCTATTTCCCT
*
65781 ACATCTATTTCTATTTCCCT
1 ACATCTGTTTCTATTTCCCT
65801 ACATCT
1 ACATCT
65807 CTCGACTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.18, C:0.30, G:0.03, T:0.48
Consensus pattern (20 bp):
ACATCTGTTTCTATTTCCCT
Found at i:66344 original size:22 final size:22
Alignment explanation
Indices: 66319--66419 Score: 179
Period size: 22 Copynumber: 4.7 Consensus size: 22
66309 CGTTTGAGGG
*
66319 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATTCCCCATTGAAT
66341 GGGTACCGATTCCCCATTGAAT
1 GGGTACCGATTCCCCATTGAAT
66363 GGGTACCGATTCCCCATTGAAT
1 GGGTACCGATTCCCCATTGAAT
66385 GGGTACCGATT-CCC-TTGAAT
1 GGGTACCGATTCCCCATTGAAT
66405 GGGTACCGATTCCCC
1 GGGTACCGATTCCCC
66420 TTGCCCATAA
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
20 17 0.22
21 6 0.08
22 54 0.70
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.28
Consensus pattern (22 bp):
GGGTACCGATTCCCCATTGAAT
Found at i:72509 original size:2 final size:2
Alignment explanation
Indices: 72492--72543 Score: 81
Period size: 2 Copynumber: 26.5 Consensus size: 2
72482 CACTATTATT
72492 TA TA TA TCA T- TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72533 TA TA TA TA TA T
1 TA TA TA TA TA T
72544 TGAAATTACA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.91
3 2 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:76807 original size:31 final size:28
Alignment explanation
Indices: 76735--76809 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
76725 GATTCAATCT
*
76735 GTAAAGTTCAGTGAGTAAAATAGAAAAA
1 GTAAAGTTCAGTGAGAAAAATAGAAAAA
* *
76763 TTGAAAGTACAGTGAGAAAAATAGGAGAAAGA
1 GT-AAAGTTCAGTGAGAAAAATA-GA-AAA-A
76795 GTAAAGTTCAGTGAG
1 GTAAAGTTCAGTGAG
76810 GAATTGTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 18 0.47
30 2 0.05
31 15 0.39
32 2 0.05
ACGTcount: A:0.49, C:0.04, G:0.27, T:0.20
Consensus pattern (28 bp):
GTAAAGTTCAGTGAGAAAAATAGAAAAA
Found at i:79539 original size:32 final size:32
Alignment explanation
Indices: 79493--79626 Score: 169
Period size: 32 Copynumber: 4.2 Consensus size: 32
79483 AGGTCCATGT
* * *
79493 ATGTCGTTGAATATTCGAAGATTGAGCTGTAA
1 ATGTTGTTGAATATTCGAATATTGAGCTATAA
* * * * *
79525 GTGTTGTCGGATATTCGAATACTGAGTTATAA
1 ATGTTGTTGAATATTCGAATATTGAGCTATAA
*
79557 ATGTTGTTGAATATTCGAACATTGAGCTATAA
1 ATGTTGTTGAATATTCGAATATTGAGCTATAA
*
79589 ATGTTGTTGAATATTTGAATATTGAGCTATAA
1 ATGTTGTTGAATATTCGAATATTGAGCTATAA
79621 AGTGTT
1 A-TGTT
79627 TGATATTATC
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
32 81 0.95
33 4 0.05
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (32 bp):
ATGTTGTTGAATATTCGAATATTGAGCTATAA
Found at i:86299 original size:2 final size:2
Alignment explanation
Indices: 86292--86322 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
86282 CACACCTGAC
86292 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
86323 TCTTTCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:90465 original size:23 final size:23
Alignment explanation
Indices: 90439--90486 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
90429 TCGGAAGAGC
90439 GTAAGACTCTTTTTAACCTTGCG
1 GTAAGACTCTTTTTAACCTTGCG
90462 GTAAGACTCTTTTTAACCTTGCG
1 GTAAGACTCTTTTTAACCTTGCG
90485 GT
1 GT
90487 CGTGGTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (23 bp):
GTAAGACTCTTTTTAACCTTGCG
Found at i:92311 original size:78 final size:79
Alignment explanation
Indices: 92216--92365 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 79
92206 GAGATTTTGA
*
92216 AATTATAATAAACTATGATAATTAATATGATTACTTTTTAAAAGTTAAAACAAATTGTTAATTAA
1 AATTATAATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAATTAA
92281 GATAATTTTTTAAC
66 GATAATTTTTTAAC
* * * *
92295 AATTA-AATAAATTATGATAATTATTATGATTACTCTTTAAAAGTTAAAACAAATTGTTAGTTAT
1 AATTATAATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAATTAA
92359 GATAATT
66 GATAATT
92366 AAATTAATAA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 61 0.92
79 5 0.08
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (79 bp):
AATTATAATAAACTATGATAATTAATATGATTACTCTTTAAAAGTTAAAACAAATTGTTAATTAA
GATAATTTTTTAAC
Found at i:92412 original size:14 final size:13
Alignment explanation
Indices: 92390--92427 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
92380 ATTTTCTATA
92390 TTAATTATAATTC
1 TTAATTATAATTC
*
92403 TTATATTATAAATC
1 TTA-ATTATAATTC
92417 TTAATTATAAT
1 TTAATTATAAT
92428 AATTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTATAATTC
Found at i:92516 original size:21 final size:21
Alignment explanation
Indices: 92492--92541 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
92482 ATATAAAATT
92492 AATTTA-AATATTTATAAGTTG
1 AATTTATAATATTTA-AAGTTG
*
92513 AATTTATTTATATTTAAAGTTG
1 AATTTA-TAATATTTAAAGTTG
92535 AATTTAT
1 AATTTAT
92542 TTATATGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 12 0.46
23 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (21 bp):
AATTTATAATATTTAAAGTTG
Found at i:92535 original size:22 final size:23
Alignment explanation
Indices: 92499--92547 Score: 91
Period size: 22 Copynumber: 2.2 Consensus size: 23
92489 ATTAATTTAA
92499 ATATTTATAAGTTGAATTTATTT
1 ATATTTATAAGTTGAATTTATTT
92522 ATATTTA-AAGTTGAATTTATTT
1 ATATTTATAAGTTGAATTTATTT
92544 ATAT
1 ATAT
92548 GTACTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (23 bp):
ATATTTATAAGTTGAATTTATTT
Found at i:95999 original size:24 final size:22
Alignment explanation
Indices: 95965--96008 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
95955 TATTAATTAG
*
95965 TATTTTAAATATTTTATTAAAA
1 TATTTTAAATATTATATTAAAA
95987 TATTATTAGAATATTATATTAA
1 TATT-TTA-AATATTATATTAA
96009 TATTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 3 0.16
24 12 0.63
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TATTTTAAATATTATATTAAAA
Found at i:96011 original size:35 final size:32
Alignment explanation
Indices: 95931--96012 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 32
95921 ATTAAAGTAA
*
95931 TAGTGTTATATT-ATATTTTAAAAATATTAAT
1 TAGTATTATATTAATATTTTAAAAATATTAAT
*
95962 TAGTATT-T-TAAATATTTTATTAAAATATT-AT
1 TAGTATTATATTAATATTTTA--AAAATATTAAT
95993 TAGAATATTATATTAATATT
1 TAG--TATTATATTAATATT
96013 AAATATATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
29 1 0.02
30 9 0.22
31 11 0.27
32 8 0.20
33 4 0.10
34 1 0.02
35 7 0.17
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (32 bp):
TAGTATTATATTAATATTTTAAAAATATTAAT
Found at i:96079 original size:27 final size:26
Alignment explanation
Indices: 96012--96083 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
96002 ATATTAATAT
96012 TAAATATATAAATAATATTATTCATTA
1 TAAATA-ATAAATAATATTATTCATTA
* * *
96039 TTAATAATTTAATAATATTATT-TTTA
1 TAAATAA-TAAATAATATTATTCATTA
96065 TGAAATTAATAAATAATAT
1 T-AAA-TAATAAATAATAT
96084 AAATTCTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
26 5 0.14
27 29 0.78
28 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (26 bp):
TAAATAATAAATAATATTATTCATTA
Found at i:96180 original size:29 final size:32
Alignment explanation
Indices: 96136--96215 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 32
96126 ATAATATCTT
* *
96136 ATATTATTATAATATAATTTATT-TTATT-GTA
1 ATATTAATA-AATATAATTTATTATTATTAGAA
96167 ATATTAA-AAATATAA--TATTATTATTAGAA
1 ATATTAATAAATATAATTTATTATTATTAGAA
*
96196 ATATTAATAAATATATTTTA
1 ATATTAATAAATATAATTTA
96216 AATATCTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
27 4 0.10
28 5 0.12
29 16 0.39
30 8 0.20
31 6 0.15
32 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
ATATTAATAAATATAATTTATTATTATTAGAA
Found at i:96218 original size:21 final size:23
Alignment explanation
Indices: 96175--96238 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
96165 TAATATTAAA
96175 AATATAATATTATTATTAGAAATA-TT
1 AATA-AATATTATT-TT--AAATACTT
96201 AATAAATA-TATTTTAAATATCTT
1 AATAAATATTATTTTAAATA-CTT
*
96224 AATAATTATTATTTT
1 AATAAATATTATTTT
96239 GATTGAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 5 0.15
23 11 0.32
24 10 0.29
25 4 0.12
26 4 0.12
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
AATAAATATTATTTTAAATACTT
Found at i:96496 original size:42 final size:42
Alignment explanation
Indices: 96435--96529 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
96425 TTCCTCCAAC
* *
96435 CAAACACTGGAAAATATTTTTCGAAAAATGAATTACGTGAAA
1 CAAACACAGGAAAACATTTTTCGAAAAATGAATTACGTGAAA
* *
96477 TAAACACAGGAAAACATTTTTTGAAAAATGAATTACGTGAAA
1 CAAACACAGGAAAACATTTTTCGAAAAATGAATTACGTGAAA
*
96519 CAAGCACAGGA
1 CAAACACAGGA
96530 TTTCGGGAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (42 bp):
CAAACACAGGAAAACATTTTTCGAAAAATGAATTACGTGAAA
Found at i:97526 original size:16 final size:16
Alignment explanation
Indices: 97501--97561 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
97491 TAATAAATAA
97501 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
97517 ACGAAAATAAACGAAC
1 ACGAACATAAACGAAC
* *
97533 AAGAACATAAATGAAC
1 ACGAACATAAACGAAC
97549 ACGAACATAAACG
1 ACGAACATAAACG
97562 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.59, C:0.20, G:0.13, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:99127 original size:14 final size:14
Alignment explanation
Indices: 99110--99141 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
99100 AGCGCACATA
*
99110 AACGAACATAATCG
1 AACGAACATAAACG
99124 AACGAACATAAACG
1 AACGAACATAAACG
99138 AACG
1 AACG
99142 TTCACGAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.22, G:0.16, T:0.09
Consensus pattern (14 bp):
AACGAACATAAACG
Found at i:100402 original size:21 final size:21
Alignment explanation
Indices: 100376--100578 Score: 170
Period size: 21 Copynumber: 9.7 Consensus size: 21
100366 CATATTTGCA
* *
100376 TTGCGATAGTCTAAGTTCGCT
1 TTGCGATAGTCCAAGTTCGCG
*
100397 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
100418 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
100439 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
100460 TTGCGATTTATTCCAAGTT--TG
1 TTGCGA--TAGTCCAAGTTCGCG
*
100481 TTGCGATAGTCAAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
100502 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
100523 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTTCGCG
* *
100544 TTGCGATTTATTCCAAATT--CG
1 TTGCGA--TAGTCCAAGTTCGCG
100565 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
100579 AATCGCAACG
Statistics
Matches: 148, Mismatches: 20, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
19 34 0.23
21 79 0.53
23 35 0.24
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (21 bp):
TTGCGATAGTCCAAGTTCGCG
Found at i:100424 original size:42 final size:41
Alignment explanation
Indices: 100397--100578 Score: 292
Period size: 42 Copynumber: 4.3 Consensus size: 41
100387 TAAGTTCGCT
*
100397 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCG
* *
100439 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTTG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCG
*
100481 TTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCG
100523 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA-TTATTCCAAATTCG
100565 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
100579 AATCGCAACG
Statistics
Matches: 133, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 133 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.36
Consensus pattern (41 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTATTCCAAATTCG
Found at i:100487 original size:84 final size:84
Alignment explanation
Indices: 100397--100575 Score: 331
Period size: 84 Copynumber: 2.1 Consensus size: 84
100387 TAAGTTCGCT
*
100397 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTT
1 TTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTT
* *
100462 GCGATTTATTCCAAGTTTG
66 GCGATTTATTCCAAATTCG
100481 TTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTT
1 TTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTT
100546 GCGATTTATTCCAAATTCG
66 GCGATTTATTCCAAATTCG
100565 TTGCGATAGTC
1 TTGCGATAGTC
100576 CAAAATCGCA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 92 1.00
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (84 bp):
TTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTT
GCGATTTATTCCAAATTCG
Found at i:101172 original size:6 final size:6
Alignment explanation
Indices: 101161--101188 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
101151 TCTCGTCTCA
101161 TGGTCG TGGTCG TGGTCG TGGTCG TGGT
1 TGGTCG TGGTCG TGGTCG TGGTCG TGGT
101189 AATACGTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.50, T:0.36
Consensus pattern (6 bp):
TGGTCG
Found at i:101311 original size:21 final size:21
Alignment explanation
Indices: 101285--101356 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 21
101275 ATTTTGGACT
101285 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
101306 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
101327 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
101348 ATCGCAACG
1 ATCGCAACG
101357 TGAACTTCGA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
19 9 0.22
21 23 0.56
23 9 0.22
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:101406 original size:21 final size:21
Alignment explanation
Indices: 101382--101421 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
101372 GCAACGAATT
101382 TGGAAAATCGCAACGCGAACC
1 TGGAAAATCGCAACGCGAACC
** *
101403 TGGACTATCGCAATGCGAA
1 TGGAAAATCGCAACGCGAA
101422 TATGTAAATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (21 bp):
TGGAAAATCGCAACGCGAACC
Found at i:101422 original size:42 final size:42
Alignment explanation
Indices: 101281--101415 Score: 220
Period size: 42 Copynumber: 3.3 Consensus size: 42
101271 TGCGATTTTG
101281 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
101323 GACTATCGCAACGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * *
101365 GACCATCGCAACGAATTTGG-A-AAATCGCAACGCGAACCTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
101405 GACTATCGCAA
1 GACTATCGCAA
101416 TGCGAATATG
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
40 26 0.30
41 1 0.01
42 60 0.69
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:101504 original size:21 final size:21
Alignment explanation
Indices: 101478--101526 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
101468 AATTTGGAAA
*
101478 ATCGCAACACGAAGTTCGACT
1 ATCGCAACACGAACTTCGACT
** *
101499 ATCGCAATGCGAACTTGGACT
1 ATCGCAACACGAACTTCGACT
101520 ATCGCAA
1 ATCGCAA
101527 TGCGAATATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (21 bp):
ATCGCAACACGAACTTCGACT
Found at i:101551 original size:90 final size:90
Alignment explanation
Indices: 101378--101556 Score: 204
Period size: 90 Copynumber: 2.0 Consensus size: 90
101368 CATCGCAACG
* * *
101378 AATTTGGAAAATCGCAACGCGAACCTGGACTATCGCAATGCGAATATGTAAATCGCAATGAGATA
1 AATTTGGAAAATCGCAACACGAACCTCGACTATCGCAATGCGAATATGGAAATCGCAATGAGATA
* **
101443 ATCGAAGTTCGCGTTGCGATAGTCA
66 ATCGAAGATCGCAATGCGATAGTCA
** * *
101468 AATTTGGAAAATCGCAACACGAAGTTCGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGA
1 AATTTGGAAAATCGCAACACGAACCTCGACTATCGCAATGCGAA-TATGGA-AATCGCAATGAGA
101532 -ATAT-GTAA-ATCGCAATGCGATAGTC
64 TA-ATCG-AAGATCGCAATGCGATAGTC
101557 GAAGTTCGCG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
90 59 0.79
91 16 0.21
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (90 bp):
AATTTGGAAAATCGCAACACGAACCTCGACTATCGCAATGCGAATATGGAAATCGCAATGAGATA
ATCGAAGATCGCAATGCGATAGTCA
Found at i:101569 original size:111 final size:111
Alignment explanation
Indices: 101388--101683 Score: 520
Period size: 111 Copynumber: 2.7 Consensus size: 111
101378 AATTTGGAAA
* * * *
101388 ATCGCAACGCGAACCTGGACTATCGCAATGCGAATATGTAAATCGCAATGAGATAATCGAAGTTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
*
101453 GCGTTGCGATAGTCAAATTTGGAAAATCGCAACACGAAGTTCGACT
66 GCGTTGCGATAGTCAAATTTGGAAAATCGCAACACGAACTTCGACT
101499 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
* *
101564 GCGTTGCGATAGTCGAATTTGGAAAATCGCAACGCGAACTTCGACT
66 GCGTTGCGATAGTCAAATTTGGAAAATCGCAACACGAACTTCGACT
*
101610 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTTGAAGTTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
101675 GCGTTGCGA
66 GCGTTGCGA
101684 ATCTGGAAAC
Statistics
Matches: 177, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 177 1.00
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (111 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
GCGTTGCGATAGTCAAATTTGGAAAATCGCAACACGAACTTCGACT
Found at i:101613 original size:21 final size:21
Alignment explanation
Indices: 101589--101643 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
101579 AATTTGGAAA
*
101589 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
101610 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
101631 ATCGCAATGCGAA
1 ATCGCAATGCGAA
101644 TATGTAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:101662 original size:90 final size:89
Alignment explanation
Indices: 101499--101666 Score: 207
Period size: 90 Copynumber: 1.9 Consensus size: 89
101489 AAGTTCGACT
* * * *
101499 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
1 ATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGGAAATCGCAATGCGATAGTC-AAGATC
**
101564 GCGTTGCGATAGTCGAATTTGGAAA
65 GCAATGCGATAGTCGAATTTGGAAA
*
101589 ATCGCAACGCGAACTTCGACTATCGCAATGCGAACT-TGGACTATCGCAATGCGAATATGT-AA-
1 ATCGCAACGCGAACTTCGACTATCGCAATGCGAA-TATGGA-AATCGCAATGCG-ATA-GTCAAG
101651 ATCGCAATGCGATAGT
62 ATCGCAATGCGATAGT
101667 TGAAGTTCGC
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
90 48 0.72
91 14 0.21
92 3 0.04
93 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (89 bp):
ATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGGAAATCGCAATGCGATAGTCAAGATCG
CAATGCGATAGTCGAATTTGGAAA
Found at i:102870 original size:6 final size:6
Alignment explanation
Indices: 102853--102886 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
102843 TCTTTAAGAA
102853 CTCGAG -TCGAG CTCGAG CTCGAG CTCGAG -TCGAG
1 CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG CTCGAG
102887 TCCATTCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (6 bp):
CTCGAG
Found at i:102876 original size:12 final size:11
Alignment explanation
Indices: 102853--102886 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
102843 TCTTTAAGAA
102853 CTCGAGTCGAG
1 CTCGAGTCGAG
102864 CTCGAGCTCGAG
1 CTCGAG-TCGAG
102876 CTCGAGTCGAG
1 CTCGAGTCGAG
102887 TCCATTCGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.18, C:0.29, G:0.35, T:0.18
Consensus pattern (11 bp):
CTCGAGTCGAG
Found at i:105725 original size:38 final size:38
Alignment explanation
Indices: 105647--105725 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
105637 CCGTTTATAT
* ****
105647 ATTTAAATTAAATATATAAATATTATATATATTTTTTA
1 ATTTAAATTAAATATATAAATAGTATATATATAAAATA
* *
105685 ATTTAAATTAAATTTATTAATAGTATATATATAAAATA
1 ATTTAAATTAAATATATAAATAGTATATATATAAAATA
105723 ATT
1 ATT
105726 ATTTTTAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (38 bp):
ATTTAAATTAAATATATAAATAGTATATATATAAAATA
Found at i:106097 original size:19 final size:19
Alignment explanation
Indices: 106075--106115 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
106065 TCTTATGCAG
* *
106075 ATTTTTATTTTTTTTTTTA
1 ATTTTTATTTTGTTCTTTA
106094 ATTTTTATTTTGTTCTTTA
1 ATTTTTATTTTGTTCTTTA
106113 ATT
1 ATT
106116 GCTTATGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (19 bp):
ATTTTTATTTTGTTCTTTA
Found at i:106527 original size:57 final size:56
Alignment explanation
Indices: 106464--106602 Score: 172
Period size: 56 Copynumber: 2.5 Consensus size: 56
106454 CAACTGACGT
* *
106464 TACTTTCACATCGTCTTCATTGTTCACTATTTTTTTATTAAAAAATTAAAGACAGA-A
1 TACTTTCACATCGTCTTCACTGTTCACTATTTTTTGATT-AAAAATTAAAGACA-ATA
* * * * *
106521 TACTTTCACATCATATTTACTGTTTATTATTTTTTGATTAAAAATTAAAGACAATA
1 TACTTTCACATCGTCTTCACTGTTCACTATTTTTTGATTAAAAATTAAAGACAATA
* *
106577 TACTTTCCCTTCGTCTTCACTGTTCA
1 TACTTTCACATCGTCTTCACTGTTCA
106603 TAATATTTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
55 1 0.01
56 35 0.51
57 32 0.47
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (56 bp):
TACTTTCACATCGTCTTCACTGTTCACTATTTTTTGATTAAAAATTAAAGACAATA
Found at i:107393 original size:31 final size:31
Alignment explanation
Indices: 107330--107422 Score: 104
Period size: 30 Copynumber: 3.1 Consensus size: 31
107320 ATAGTTACCA
* * *
107330 TATTTTTTATTAATATAATTATATAAAT-AT
1 TATTTTTTATTAAAATAATTATTTATATAAT
*
107360 TATTTTTTATTAAAATAAATATTTATATAAT
1 TATTTTTTATTAAAATAATTATTTATATAAT
* *
107391 TATTATTTATTTAAAT--TTATTTAT-TAAT
1 TATTTTTTATTAAAATAATTATTTATATAAT
107419 TATT
1 TATT
107423 ATTTGTGCTA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
28 8 0.15
29 7 0.13
30 24 0.44
31 16 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (31 bp):
TATTTTTTATTAAAATAATTATTTATATAAT
Found at i:107435 original size:28 final size:30
Alignment explanation
Indices: 107378--107441 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 30
107368 ATTAAAATAA
*
107378 ATATTTATATAATTATTATTTATTTAAATT
1 ATATTTATATAATTATTATTTATCTAAATT
*
107408 -TATTTAT-TAATTATTATTTGTGCT-AATT
1 ATATTTATATAATTATTATTTAT-CTAAATT
107436 ATATTT
1 ATATTT
107442 TTTGTCTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 17 0.57
29 13 0.43
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (30 bp):
ATATTTATATAATTATTATTTATCTAAATT
Found at i:108518 original size:17 final size:17
Alignment explanation
Indices: 108496--108531 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
108486 GCTTAATATA
108496 ATTAGAA-TATTATATTT
1 ATTAGAATTA-TATATTT
108513 ATTAGAATTATATATTT
1 ATTAGAATTATATATTT
108530 AT
1 AT
108532 GTTTCTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATTAGAATTATATATTT
Found at i:109152 original size:42 final size:41
Alignment explanation
Indices: 109088--109190 Score: 125
Period size: 42 Copynumber: 2.5 Consensus size: 41
109078 GATGTCACAT
* *
109088 GGGTACATGCCCAGCCCCCCAGTTCAGATGCCATCTCCGCAA
1 GGGTACATGCCAAGCCCACCAGTTCAGATGCCATCTCCGC-A
* * *
109130 GGGTATATGCCAAGCCCACCAGTTCATATGCCATCTCTGCA
1 GGGTACATGCCAAGCCCACCAGTTCAGATGCCATCTCCGCA
* *
109171 GGGTTACATTCCTAGCCCAC
1 GGG-TACATGCCAAGCCCAC
109191 AGGGGTACAT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 4 0.08
42 48 0.92
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.21
Consensus pattern (41 bp):
GGGTACATGCCAAGCCCACCAGTTCAGATGCCATCTCCGCA
Found at i:109996 original size:139 final size:138
Alignment explanation
Indices: 109743--110107 Score: 490
Period size: 139 Copynumber: 2.6 Consensus size: 138
109733 TAAAATTTAA
* * *
109743 ATGATAGGTACTGATATGAATAGTGTCCCTAGGGGACATGAGTCACTTAATAGGGA-AATTATAA
1 ATGATAGGTACTGACATGAATAGTG-CCCTGGGGGACATGAGTCACATAATA-GGACAATTATAA
** *
109807 CCTATTCTCTGAAAAAATAACAGAAGGCACGTCCCCTGAAATGCGCTTTCACCACTTTGTTGCGT
64 CCTATTCTCTGAAAAAATAATGGAAGGCACGACCCCTGAAATGCGCTTTCACCACTTTGTTGCGT
*
109872 CCCCTCAAAT
129 CCCCTCAAAC
*
109882 ATGATAGGTACAT-ACATGAATAGTGACCCCGGGGGACATGAGTCACATAATAGGACAATTATAA
1 ATGATAGGTAC-TGACATGAATAGTG-CCCTGGGGGACATGAGTCACATAATAGGACAATTATAA
* * * * *
109946 CCTATTATCTGACAAAATAATGGAAGGCAC-ACCCTTTGAAATGTGTTTTCACCACTTTGTTGCG
64 CCTATTCTCTGAAAAAATAATGGAAGGCACGACCC-CTGAAATGCGCTTTCACCACTTTGTTGCG
110010 TCCCCTCAAAC
128 TCCCCTCAAAC
* *
110021 ATGATAGGTACTGACATAAATAGTGCCTCTGGGGGACATGAGT--CATAATAGGGCAATTATAAC
1 ATGATAGGTACTGACATGAATAGTGCC-CTGGGGGACATGAGTCACATAATAGGACAATTATAAC
110084 CTATTCTCT-AATAAAATAATGGAA
65 CTATTCTCTGAA-AAAATAATGGAA
110108 TGTTCACCCC
Statistics
Matches: 201, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
136 1 0.00
137 39 0.19
138 9 0.04
139 151 0.75
140 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (138 bp):
ATGATAGGTACTGACATGAATAGTGCCCTGGGGGACATGAGTCACATAATAGGACAATTATAACC
TATTCTCTGAAAAAATAATGGAAGGCACGACCCCTGAAATGCGCTTTCACCACTTTGTTGCGTCC
CCTCAAAC
Found at i:111879 original size:6 final size:6
Alignment explanation
Indices: 111870--111894 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
111860 GGGATGATAA
111870 ACGGGG ACGGGG ACGGGG ACGGGG A
1 ACGGGG ACGGGG ACGGGG ACGGGG A
111895 AAACCCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.64, T:0.00
Consensus pattern (6 bp):
ACGGGG
Found at i:112012 original size:2 final size:2
Alignment explanation
Indices: 112005--112142 Score: 144
Period size: 2 Copynumber: 72.0 Consensus size: 2
111995 TAAAAATAAT
112005 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
* * * * * * *
112047 -A TA T- TA -A TA AA TT TA -A TT TA AA TA -A AA AA TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
112084 TA TA TA TT TA -A TT TA AA 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
112125 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
112143 CCCGGCCCGA
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
1 6 0.05
2 107 0.95
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:115612 original size:228 final size:228
Alignment explanation
Indices: 115215--115708 Score: 911
Period size: 228 Copynumber: 2.2 Consensus size: 228
115205 GTTATATTGT
* *
115215 AAAGTATCTAT-ACTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATT
1 AAAGTATATATCA-TTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATT
* *
115279 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATAAA
115344 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
115409 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
115443 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTAGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
115508 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAA-AATAAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATAAA
*
115572 ATAATTTTTTTTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
115637 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
115671 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
115709 AAAAGTAGGT
Statistics
Matches: 259, Mismatches: 5, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
228 184 0.71
229 75 0.29
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATAAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:116010 original size:20 final size:19
Alignment explanation
Indices: 115987--116033 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
115977 CGATATACTA
115987 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
116007 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
116027 GGTAAAA
1 GGTAAAA
116034 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:116209 original size:180 final size:181
Alignment explanation
Indices: 115784--116246 Score: 709
Period size: 180 Copynumber: 2.6 Consensus size: 181
115774 TAAAAATGTG
* *
115784 TCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATGATAAAACCGGT
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATGATAAAACCGGT
* * *
115848 AAAGAGCTACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTCGTGAATTT
65 AAA-AGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTT
* *
115913 AAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTAAAAAATATA
129 AAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAAAAAAAATA
*
115966 TCGATCCAAAACGATAT-ACTAGGTAAAAATATGATAAAACCGGTAACAAAATGATAAAACCGGT
1 TCGATCCAAAACGATATAAC-AGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGT
* *
116030 AAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTGTGAATTT
65 AAAA-GATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTT
** *
116094 AAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATAC-TTTAAAAAAAATA
129 AAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAAAAAAAATA
* * *
116146 TCGATCCACAACGATATAACAAGTAAAAATATGATAAAATCGGTATCAAAATGATAAAACCGGTA
1 TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
116211 AAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAA-GATACCGGATATATTGAAAGTGTCGATACTTT
116247 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 18, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
180 104 0.40
181 66 0.25
182 88 0.34
183 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
TCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAAAACCGGTA
AAAGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTCGTGAATTTAA
AAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTAAAAAAAATA
Found at i:118449 original size:21 final size:21
Alignment explanation
Indices: 118425--118468 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
118415 AAGACAATCA
118425 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
118446 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
118467 AG
1 AG
118469 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:118538 original size:33 final size:33
Alignment explanation
Indices: 118500--118565 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
118490 AAATAGATGG
*
118500 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
118533 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
118566 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:120367 original size:18 final size:19
Alignment explanation
Indices: 120344--120382 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
120334 AATGTAGGGT
120344 TAATTTTGTATA-GATTTA
1 TAATTTTGTATACGATTTA
120362 TAATTTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
120381 TA
1 TA
120383 TTTGTATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:120865 original size:198 final size:198
Alignment explanation
Indices: 120507--121072 Score: 993
Period size: 198 Copynumber: 2.9 Consensus size: 198
120497 CAATATGGCC
*
120507 AACA-GGTGC-ACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
* * *
120570 CCAAAGTATAATGTAATATGTAATTTTTCAATCTAA-AGGTACAAGTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
*
120634 AATATGTCTAAATAATGTGTCGACACGTTTTTAGTTTGTGTCGATATTTTTGTTCCAGAATAAAT
131 AATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATAAAT
120699 GGAA
195 GGAA
120703 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAA
120768 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
120833 G-ATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATAAAT
120897 GGAA
195 GGAA
*
120901 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
120966 CAAAAGTATAATGTAATATGTAATTTTTCAATCTATCCGGTACAAGTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
121030 AATATGTCTAAATAATGTGTCGACA--TTTTAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATA
121073 CTAATTTAAA
Statistics
Matches: 357, Mismatches: 8, Indels: 11
0.95 0.02 0.03
Matches are distributed among these distances:
195 18 0.05
196 14 0.04
197 85 0.24
198 150 0.42
199 64 0.18
200 26 0.07
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (198 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATAAATG
GAA
Found at i:122133 original size:22 final size:22
Alignment explanation
Indices: 122116--122182 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
122106 CTCGTATAAA
122116 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
122138 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
122160 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
122182 T
1 T
122183 TTGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:122534 original size:28 final size:29
Alignment explanation
Indices: 122468--122536 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
122458 TTTCTGCATA
**
122468 TCATGTCATGTAATACATATAAGATGAAT
1 TCATGTCATGTAATACATATAAGACAAAT
*
122497 TCATGTCATGTAATACAT-TAATACAAAT
1 TCATGTCATGTAATACATATAAGACAAAT
122525 TCATGTCATGTA
1 TCATGTCATGTA
122537 TCATAATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (29 bp):
TCATGTCATGTAATACATATAAGACAAAT
Found at i:122971 original size:65 final size:67
Alignment explanation
Indices: 122848--122981 Score: 168
Period size: 68 Copynumber: 2.0 Consensus size: 67
122838 GGAATCGGTT
* * *
122848 CCCCCCTGGGGTATCGATTCCCCTTAAGCAATCTGGAATTCATATACGATGAGGGGGTATCGGTT
1 CCCCCCTGGGGTACCGATTCCCCTTAAGCAATCTGGAA-TAATATACGATGAAGGGGTATCGGTT
122913 CCC
65 CCC
* *
122916 CCCCCCTGGGGGTACCGATT-CCCTCT-AGCATTCTGGAA-AATAT-CGTTGAAGGGGTATCGGT
1 CCCCCCT-GGGGTACCGATTCCCCT-TAAGCAATCTGGAATAATATACGATGAAGGGGTATCGGT
122977 TCCC
64 TCCC
122981 C
1 C
122982 TTGAATGGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
65 21 0.36
66 4 0.07
68 22 0.37
69 12 0.20
ACGTcount: A:0.19, C:0.29, G:0.25, T:0.26
Consensus pattern (67 bp):
CCCCCCTGGGGTACCGATTCCCCTTAAGCAATCTGGAATAATATACGATGAAGGGGTATCGGTTC
CC
Found at i:122991 original size:21 final size:21
Alignment explanation
Indices: 122961--123003 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
122951 GAAAATATCG
* *
122961 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
122982 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
123003 T
1 T
123004 AACCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Done.