Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 89 of 120
Found at i:26481875 original size:71 final size:67
Alignment explanation
Indices: 26481065--26481859 Score: 678
Period size: 65 Copynumber: 12.2 Consensus size: 67
26481055 TCAAATTATA
* * * * *
26481065 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTTGGGTTTTAAAGTTAA-G-AG-TATAG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGTGGTTA-AG
26481126 GGTT
64 GGTT
* * * * *
26481130 TTAAAGTTAAGGGCTTAGGGTTTT-AGGTTAAGGGTTAGGGTTTTTAGGTTTA-G-GGTTTAGGG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGTGGTTAAGGG
*
26481192 AT
66 TT
* * * *
26481194 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGTTTTTTAAGTTAA-G-GGTCT-AG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGTGGT-TAAG
26481255 GGTT
64 GGTT
* * * * * *
26481259 TTAAAGTT-ATGGTTTAGGGTTTTTAATTTAAGGGTTAGGGTTTTTAAGTTAA-G-GGTTTAGGG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGTGGTTAAGGG
26481321 TT
66 TT
* * * * *
26481323 TTTAAGTTAAAGGTCTAGGGTTCTAAAGTTAAGGTTTAGGGTTTTTAGGTTAA-GTGTTTAA-GG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGTGGTTAAGGG
26481386 TT
66 TT
* * *
26481388 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-G-GGTCT-AG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGTGGT-TAAG
26481449 GGTT
64 GGTT
* * * * * *
26481453 TTAAAGTTAA-GGTTTTGGGTTTTTAGGTTAAGGGTTAGGATTTTTAGGTTAA-G-GGTTTAGGG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGTGGTTAAGGG
26481515 TT
66 TT
* * * * * * *
26481517 TTT-ACTTTAGGG-CTAGGGTTTTTAAGTTAAGGGTTCAAGGTTTTTAAGTTAAGG-GTTTAA-G
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTT-AGGGTTTTTAGGTTAAGGTGGTTAAGG
26481578 GTT
65 GTT
* * * * *
26481581 TTAAAGTTAA-GGTTTAGAGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAA-G-GGTTTAGGG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGTGGTTAAGGG
26481643 TT
66 TT
* * *
26481645 TTTAATTTAAGGGTTATA--GTTTTTAAGTTAAGGGTTTACGGTTTTTAGGTTAA-G-GGTCT-A
1 TTTAAGTTAAGGGTT-TAGGGTTTTAAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGTGGT-TAA
26481705 GGG-T
63 GGGTT
* * *
26481709 TTTAACGTTAAGGG-TTAGTGTTTTAAAGTTAATGGTTAGGGTTTTTTGGTTAAGGATTTAGGTT
1 TTTAA-GTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGG---T-GGTT
*
26481773 TAGGGTT
61 AAGGGTT
* *
26481780 TTTAGGTTAAGGGTTTAGTGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGG-GGTTAAGGG
1 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGTGGTTAAGGG
26481844 -T
66 TT
26481845 TTTAAGTTAAGGGTT
1 TTTAAGTTAAGGGTT
26481860 AGGAGTAGGG
Statistics
Matches: 614, Mismatches: 80, Indels: 72
0.80 0.10 0.09
Matches are distributed among these distances:
63 43 0.07
64 215 0.35
65 270 0.44
66 26 0.04
69 1 0.00
70 15 0.02
71 44 0.07
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (67 bp):
TTTAAGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAGGTGGTTAAGGG
TT
Found at i:26482457 original size:18 final size:18
Alignment explanation
Indices: 26482431--26482473 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
26482421 GACTCGAAAA
* *
26482431 AGGAAACATATAAGGGTT
1 AGGAAACATAAAAGGGCT
*
26482449 AGGATACATAAAAGGGCT
1 AGGAAACATAAAAGGGCT
26482467 AGGAAAC
1 AGGAAAC
26482474 TCACCTGTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGAAACATAAAAGGGCT
Found at i:26483101 original size:7 final size:7
Alignment explanation
Indices: 26483091--26483221 Score: 253
Period size: 7 Copynumber: 18.7 Consensus size: 7
26483081 TTATATACAT
26483091 AATACTA
1 AATACTA
26483098 AATACTA
1 AATACTA
26483105 AATACTA
1 AATACTA
26483112 AATACTA
1 AATACTA
26483119 AATACTA
1 AATACTA
26483126 AATACTA
1 AATACTA
26483133 AATACTA
1 AATACTA
26483140 AATACTA
1 AATACTA
26483147 AATACTA
1 AATACTA
*
26483154 AATAATA
1 AATACTA
26483161 AATACTA
1 AATACTA
26483168 AATACTA
1 AATACTA
26483175 AATACTA
1 AATACTA
26483182 AATACTA
1 AATACTA
26483189 AATACTA
1 AATACTA
26483196 AATACTA
1 AATACTA
26483203 AATACTA
1 AATACTA
26483210 AATACTA
1 AATACTA
26483217 AATAC
1 AATAC
26483222 CAATCAACTA
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 122 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:26484438 original size:11 final size:12
Alignment explanation
Indices: 26484424--26484499 Score: 92
Period size: 11 Copynumber: 6.8 Consensus size: 12
26484414 ATAAATATGG
26484424 ATTTGAGA-GAA
1 ATTTGAGAGGAA
26484435 ATTTTGA-AGGAA
1 A-TTTGAGAGGAA
26484447 A-TTGAGAGGAA
1 ATTTGAGAGGAA
26484458 A-TTGAGAGGAA
1 ATTTGAGAGGAA
*
26484469 ATTT-AGAAGAA
1 ATTTGAGAGGAA
26484480 A-TTGAGAGGAA
1 ATTTGAGAGGAA
26484491 ATTTGAGAG
1 ATTTGAGAG
26484500 AGGATTAGTT
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
10 6 0.11
11 33 0.58
12 18 0.32
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:26484446 original size:51 final size:51
Alignment explanation
Indices: 26484365--26484462 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
26484355 AATTATTTAA
* *
26484365 AAATAGGGATTTAAGAGAAATTTAAGAGGAACTTTAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAATTGAAAAT
* * * *
26484416 AAATATGGATTTGAGAGAAATTT-TGAAGGAAATTGAGAGGAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAAG-AGGAAATTGAGAGCAAATTGA
26484463 GAGGAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAATTGAAAAT
Found at i:26484463 original size:33 final size:33
Alignment explanation
Indices: 26484424--26484500 Score: 120
Period size: 33 Copynumber: 2.3 Consensus size: 33
26484414 ATAAATATGG
*
26484424 ATTTGAGAGAAATTTTGAAGGAAATTGAGAGGAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGGAA
26484458 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGGAA
26484491 ATTTGAGAGA
1 ATTTGAGAGA
26484501 GGATTAGTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
33 23 0.57
34 17 0.43
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGGAA
Found at i:26486796 original size:93 final size:93
Alignment explanation
Indices: 26486629--26486865 Score: 289
Period size: 93 Copynumber: 2.5 Consensus size: 93
26486619 TTACTCTAAA
* * * * *
26486629 TACAAGTTGTTCTAAAGAATGATTGTTCTAAACATAACTATTCCCGGAACACTATTGTTCTAAAA
1 TACAAGTTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAA
26486694 AAGAGTTGTTCCAAACTTTAATTGTTAT
66 AAGAGTTGTTCCAAACTTTAATTGTTAT
*
26486722 TACAAGTTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAT
1 TACAAGTTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAA
* *** *
26486787 AAGATTTGTTTTGAACTTTAGTTGTTAT
66 AAGAGTTGTTCCAAACTTTAATTGTTAT
* * *
26486815 AACTAAAGTCCTGTTCTAAAC-AT-ATCTATTCTAGATATAACTATTCTCGAA
1 TAC--AAGT--TGTTCTAAACAATGAT-TGTTCTAAATATAACTATTCTCGAA
26486866 CAACAGTTGT
Statistics
Matches: 125, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
93 84 0.67
95 6 0.05
96 25 0.20
97 10 0.08
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (93 bp):
TACAAGTTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAA
AAGAGTTGTTCCAAACTTTAATTGTTAT
Found at i:26497067 original size:21 final size:20
Alignment explanation
Indices: 26497038--26497077 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
26497028 AAACAAGGTG
26497038 AAAAGAAGAAACAAAGAAAGA
1 AAAAGAAGAAA-AAAGAAAGA
* *
26497059 AAAATAAGAAAAAGGAAAG
1 AAAAGAAGAAAAAAGAAAG
26497078 TTATGTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.75, C:0.03, G:0.20, T:0.03
Consensus pattern (20 bp):
AAAAGAAGAAAAAAGAAAGA
Found at i:26499128 original size:34 final size:34
Alignment explanation
Indices: 26499079--26499167 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
26499069 ATTTGGAAGG
26499079 CTTTTCGGCTATCTTGTGTAAGTTATATGG-GCAC
1 CTTTTCGGCTATCTTGTGTAAGTTATATGGTG-AC
* * * *
26499113 CTTTGT-GGCTATCTTGAGTAAGTTTTGTGGTGGC
1 CTTT-TCGGCTATCTTGTGTAAGTTATATGGTGAC
26499147 CTTTTCGGCTATCTTGTGTAA
1 CTTTTCGGCTATCTTGTGTAA
26499168 TAGAGGGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
33 1 0.02
34 44 0.94
35 2 0.04
ACGTcount: A:0.15, C:0.16, G:0.26, T:0.44
Consensus pattern (34 bp):
CTTTTCGGCTATCTTGTGTAAGTTATATGGTGAC
Found at i:26499201 original size:45 final size:45
Alignment explanation
Indices: 26499146--26499236 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
26499136 TTTGTGGTGG
*
26499146 CCTTTTCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
1 CCTTTGCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
26499191 CCTTTGCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
1 CCTTTGCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
26499236 C
1 C
26499237 AAAGGAAGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.38
Consensus pattern (45 bp):
CCTTTGCGGCTATCTTGTGTAATAGAGGGAATAATATGGTTATCT
Found at i:26507586 original size:71 final size:71
Alignment explanation
Indices: 26507465--26507820 Score: 401
Period size: 71 Copynumber: 5.0 Consensus size: 71
26507455 ATAGAATATC
* * * * *
26507465 AGCTGAGAGCGTATGCTTGCGCTAACTATTTTTGGAAGTTACGGTATTAAACCTATGAGCCTTAA
1 AGCTGAGAGCGTAGGCTCGCGCTAACTA-TTTTGGAGGCTACGGTATTGAACCTATGAGCCTTAA
26507530 GATATTT
65 GATATTT
* * * * ** *
26507537 AGCTGAGAGCGTAGGCTCGCGCTAATTTTTTTGGAGGCTACGGTATTAAACTTGCGAGCCTTAAA
1 AGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTATGAGCCTTAAG
*
26507602 ATATTC
66 ATATTT
* * * ** * *
26507608 AGCTGCGAGAGTAGGCTCGCGCTAACTATTTTGGAGGTTACGGGGTTGAGCTCT-TAAGCCTTAA
1 AGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAAC-CTATGAGCCTTAA
26507672 GATATTT
65 GATATTT
* * * * *
26507679 AGAT-AGAAGTGTAGGCTCGCGCTAACTATTTTGGAGGCTACAGTATTGAATCTACGAGCCTTAA
1 AGCTGAG-AGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTATGAGCCTTAA
26507743 GATATTT
65 GATATTT
* * * * *
26507750 TGCTGAGAGCGTAGGCTTGTGCTAACTATTTTGGAGGCTGCAGTATTGAACCTATGAGCCTTAAG
1 AGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTATGAGCCTTAAG
26507815 ATATTT
66 ATATTT
26507821 CCAAGTACAA
Statistics
Matches: 236, Mismatches: 44, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
70 3 0.01
71 206 0.87
72 27 0.11
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (71 bp):
AGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTATGAGCCTTAAG
ATATTT
Found at i:26509898 original size:45 final size:44
Alignment explanation
Indices: 26509832--26509922 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
26509822 GTATTAGAGG
* *
26509832 TGTAATGGGATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
26509877 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
26509921 TG
1 TG
26509923 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:26510104 original size:16 final size:16
Alignment explanation
Indices: 26510067--26510108 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26510057 TTAATCATAT
*
26510067 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
26510083 TT-AAATATATTATAA
1 TTAAAATATATTATAA
26510098 TTAAAATATAT
1 TTAAAATATAT
26510109 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:26510115 original size:14 final size:15
Alignment explanation
Indices: 26510076--26510117 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26510066 TTTAAACATA
*
26510076 ATTATTATTAAATAT
1 ATTATAATTAAATAT
26510091 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
26510105 A-TATAATTTAATA
1 ATTATAATTAAATA
26510118 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:26510189 original size:107 final size:107
Alignment explanation
Indices: 26510065--26510386 Score: 592
Period size: 107 Copynumber: 3.0 Consensus size: 107
26510055 ATTTAATCAT
26510065 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
26510130 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
65 ATTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
26510173 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
26510238 TTAATATTCTTACATGAATTTACTCAAATCATAATATAGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
26510280 ATTTAACATAATTATTATTAAATATATTATAATTAAAAT-TATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
26510344 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATA
66 TTAATATTCTTATATGAATTTACTCAAATCATAATATA-GATA
26510387 CTATAAAATA
Statistics
Matches: 209, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
106 60 0.29
107 145 0.69
108 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (107 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TTAATATTCTTATATGAATTTACTCAAATCATAATATAGATA
Found at i:26510213 original size:16 final size:16
Alignment explanation
Indices: 26510170--26510215 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
26510160 CATAATATAG
*
26510170 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
26510186 ATTATT-AAATATATT
1 ATAATTAAAATATATT
26510201 ATAATTAAAATATAT
1 ATAATTAAAATATAT
26510216 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:26510222 original size:14 final size:15
Alignment explanation
Indices: 26510170--26510224 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
26510160 CATAATATAG
26510170 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
26510186 ATTATTAAATATATT
1 ATAATTAAATATATT
26510201 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
26510214 ATAATTTAATA
1 ATAATTAAATA
26510225 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:26510506 original size:47 final size:45
Alignment explanation
Indices: 26510437--26510711 Score: 187
Period size: 47 Copynumber: 5.9 Consensus size: 45
26510427 TTTATTAAAA
* *
26510437 TATATGATTTAATAAAATTTAAAATAATTATACTTAATAAATTTTCT
1 TATATGAATT-ATATAATTTAAAATAATTATA-TTAATAAATTTTCT
* **
26510484 TATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA-TTTAA
1 TATATGAA-TTATATAATTTAAAATAATTA-TATT-AATA-AATTTTCT
* *
26510532 TA-AT-AA-TATATAATTTCATAA-AATTCT-TGATAATAAATTTTCT
1 TATATGAATTATATAATTT-AAAATAATTATAT--TAATAAATTTTCT
**
26510575 TATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA-TTTAA
1 TATATGAA-TTATATAATTTAAAATAATT-ATATT-AATA-AATTTTCT
* *
26510623 TA-ATG-A-TATATAATTTCATAA-AATTCT-TGATAATAAATTTTCT
1 TATATGAATTATATAATTT-AAAATAATTATAT--TAATAAATTTTCT
26510666 TATATGAATATATATAATTTAAAATAATTAATATTAAATATAATTT
1 TATATGAAT-TATATAATTTAAAATAATT-ATATT-AATA-AATTT
26510712 AATAATGATA
Statistics
Matches: 178, Mismatches: 20, Indels: 58
0.70 0.08 0.23
Matches are distributed among these distances:
42 6 0.03
43 20 0.11
44 34 0.19
45 9 0.05
46 9 0.05
47 61 0.34
48 28 0.16
49 11 0.06
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (45 bp):
TATATGAATTATATAATTTAAAATAATTATATTAATAAATTTTCT
Found at i:26510509 original size:101 final size:94
Alignment explanation
Indices: 26510394--26510732 Score: 315
Period size: 91 Copynumber: 3.6 Consensus size: 94
26510384 ATACTATAAA
*
26510394 ATATAATTTGAAATAATTAATATTAAATATATTTTTATTAAAATATATGATTTAATAAAATTTAA
1 ATATAATTTAAAATAATTAATATTAAATATA--TTTATTAAAATATATGATTT-ATAAAATTT-A
26510459 AATAATTATACTTAATAAATTTTCTTATATGAATTT
62 AATAATT-TA--TAATAAATTTTCTTATATGAATTT
* * * *
26510495 GTATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAA--T--
1 ATATAATTTAAAATAATTAATATTAAATAT-ATTTATTAA-AATATATGATTT-ATAAAATTTAA
* *
26510556 -T-CTTGATAATAAATTTTCTTATATGAATTT
63 ATAATTTATAATAAATTTTCTTATATGAATTT
* * *
26510586 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--T--
1 ATATAATTTAAAATAATTAATATTAAATAT-ATTTATTAA-AATATATGATTT-ATAAAATTTAA
* * *
26510647 -T-CTTGATAATAAATTTTCTTATATGAATAT
63 ATAATTTATAATAAATTTTCTTATATGAATTT
* * *
26510677 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTATA
1 ATATAATTTAAAATAATTAATATTAAATAT-ATTTATTAA-AATATATGATTTATA
26510733 CATTTAACCA
Statistics
Matches: 224, Mismatches: 12, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
90 3 0.01
91 164 0.73
93 1 0.00
94 2 0.01
95 1 0.00
99 1 0.00
100 7 0.03
101 44 0.20
102 1 0.00
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.46
Consensus pattern (94 bp):
ATATAATTTAAAATAATTAATATTAAATATATTTATTAAAATATATGATTTATAAAATTTAAATA
ATTTATAATAAATTTTCTTATATGAATTT
Found at i:26510546 original size:44 final size:43
Alignment explanation
Indices: 26510496--26510730 Score: 194
Period size: 44 Copynumber: 5.2 Consensus size: 43
26510486 TATGAATTTG
26510496 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * * *
26510540 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
26510587 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
* * *
26510631 TATAATTTCATAA-AATTCTTGATAATAAAT-T-TTCTTATATGAATATA
1 TATAATTT-AAAATAATTATT-AT--TAAATATAAT-TTA-AT-AATATA
*
26510678 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAAT-ATA
26510722 TATAATTTA
1 TATAATTTA
26510731 TACATTTAAC
Statistics
Matches: 152, Mismatches: 17, Indels: 44
0.71 0.08 0.21
Matches are distributed among these distances:
43 6 0.04
44 55 0.36
45 20 0.13
46 20 0.13
47 45 0.30
48 6 0.04
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATATA
Found at i:26510569 original size:91 final size:91
Alignment explanation
Indices: 26510471--26510729 Score: 482
Period size: 91 Copynumber: 2.8 Consensus size: 91
26510461 TAATTATACT
* *
26510471 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
26510536 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
26510562 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
26510627 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
*
26510653 TAATAAATTTTCTTATATGAATATATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
26510718 GATATATAATTT
66 GATATATAATTT
26510730 ATACATTTAA
Statistics
Matches: 164, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 164 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:26511749 original size:17 final size:17
Alignment explanation
Indices: 26511727--26511762 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
26511717 GCACCTAATA
26511727 TAACTCATATTTCAAAT
1 TAACTCATATTTCAAAT
26511744 TAACTCATATTTCAAAT
1 TAACTCATATTTCAAAT
26511761 TA
1 TA
26511763 CAGCAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
TAACTCATATTTCAAAT
Found at i:26513343 original size:27 final size:27
Alignment explanation
Indices: 26513290--26513350 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
26513280 CCACTGCTGT
* **
26513290 TGATGTTGTTGCTGTTGCAGATGATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
**
26513317 TGATGATGTTGCTGTTGTTGAAAATGA
1 TGATGATGTTGCTGTTGCAGAAAATGA
26513344 TGATGAT
1 TGATGAT
26513351 TCTGCACCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.05, G:0.31, T:0.41
Consensus pattern (27 bp):
TGATGATGTTGCTGTTGCAGAAAATGA
Found at i:26518803 original size:19 final size:19
Alignment explanation
Indices: 26518779--26518821 Score: 63
Period size: 18 Copynumber: 2.3 Consensus size: 19
26518769 ATCATTTTAG
26518779 ATTTTAAAT-TAATTTTCAA
1 ATTTTAAATAT-ATTTTCAA
26518798 ATTTT-AATATATTTTCAA
1 ATTTTAAATATATTTTCAA
26518816 ATTTTA
1 ATTTTA
26518822 GAATCCCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTTAAATATATTTTCAA
Found at i:26520339 original size:16 final size:16
Alignment explanation
Indices: 26520303--26520334 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
26520293 AATATTTTTG
26520303 ATAAATGTTATATATT
1 ATAAATGTTATATATT
26520319 ATAAAT-TT-TATATT
1 ATAAATGTTATATATT
26520333 AT
1 AT
26520335 TTAAACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAAATGTTATATATT
Found at i:26521706 original size:61 final size:60
Alignment explanation
Indices: 26521582--26521708 Score: 168
Period size: 61 Copynumber: 2.1 Consensus size: 60
26521572 CAACAATAAT
* * *
26521582 AACAATAACAACAGCACAACAAGATTATAATAAAGAAACATAAGCAAAAGTCCAAGTAAAC
1 AACAACAACAACAACACAACAAGATTATAATAAAAAAACATAAGCAAAAGTCCAAG-AAAC
*
26521643 AACAACAACAACAACACAACAAGATTATAATAATAAAAACATCAA-CAAAAGTTCAA-AATAC
1 AACAACAACAACAACACAACAAGATTATAATAA-AAAAACAT-AAGCAAAAGTCCAAGAA-AC
26521704 AACAA
1 AACAA
26521709 AAACCTACAC
Statistics
Matches: 59, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
60 2 0.03
61 38 0.64
62 17 0.29
63 2 0.03
ACGTcount: A:0.61, C:0.19, G:0.06, T:0.13
Consensus pattern (60 bp):
AACAACAACAACAACACAACAAGATTATAATAAAAAAACATAAGCAAAAGTCCAAGAAAC
Found at i:26525641 original size:47 final size:47
Alignment explanation
Indices: 26525562--26525663 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 47
26525552 AATGAAGAAA
26525562 AAGAAGAAGAAGAAGAAGAATGGAGGGTTTAA-TTAAGGTTTTTTTTT
1 AAGAAGAAGAAGAAGAAGAATGGAGGGTTTAATTTAAGG-TTTTTTTT
* *
26525609 AAGAAGAAG-AGAAGAATTGATTTGAGGG-TTAATTTAAGGTTTTTTTT
1 AAGAAGAAGAAGAAGAA--GAATGGAGGGTTTAATTTAAGGTTTTTTTT
26525656 AAGAAGAA
1 AAGAAGAA
26525664 TAAACTTGAC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
46 7 0.14
47 29 0.58
48 14 0.28
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.32
Consensus pattern (47 bp):
AAGAAGAAGAAGAAGAAGAATGGAGGGTTTAATTTAAGGTTTTTTTT
Found at i:26527109 original size:19 final size:20
Alignment explanation
Indices: 26527073--26527110 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26527063 CTCTAATTAA
*
26527073 CACTTCTGTGCTCTCTGTTG
1 CACTTCGGTGCTCTCTGTTG
26527093 CACTTCGGTGC-CTCTGTT
1 CACTTCGGTGCTCTCTGTT
26527111 CAGCTATACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.05, C:0.32, G:0.21, T:0.42
Consensus pattern (20 bp):
CACTTCGGTGCTCTCTGTTG
Found at i:26532436 original size:21 final size:21
Alignment explanation
Indices: 26532412--26532465 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
26532402 AAATTAGATT
*
26532412 TCTGTTTGCACTTTTGTGCTC
1 TCTGTTAGCACTTTTGTGCTC
*
26532433 TCTGTTAGCATTTTTGTGC-C
1 TCTGTTAGCACTTTTGTGCTC
*
26532453 TTTGTTCAGCACT
1 TCTGTT-AGCACT
26532466 GCGATGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 6 0.21
21 22 0.79
ACGTcount: A:0.09, C:0.22, G:0.19, T:0.50
Consensus pattern (21 bp):
TCTGTTAGCACTTTTGTGCTC
Found at i:26533694 original size:22 final size:22
Alignment explanation
Indices: 26533664--26533712 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
26533654 AAAAAAACAG
*
26533664 AAAAA-AAGCAAAAAGCGCAAA
1 AAAAAGAAGCAAAAAGCACAAA
26533685 AAAAAGAAGCAAAAAGCACAAA
1 AAAAAGAAGCAAAAAGCACAAA
26533707 AAAAAG
1 AAAAAG
26533713 TTGCCTACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 5 0.19
22 21 0.81
ACGTcount: A:0.73, C:0.12, G:0.14, T:0.00
Consensus pattern (22 bp):
AAAAAGAAGCAAAAAGCACAAA
Found at i:26542399 original size:189 final size:189
Alignment explanation
Indices: 26542077--26542423 Score: 500
Period size: 189 Copynumber: 1.8 Consensus size: 189
26542067 TGGATGAGTT
** * * *
26542077 GGAGCACGCGTAAAACCCTGCAGTTCCTATGTATGAACATGTTGAGGGAATTGCATTGGACCAGA
1 GGAGCACGCAAAAAACCCTGCAGTTCCTATGTATGAACATGCTGAGGGAATTGCATGGGAACAGA
* ** * * *
26542142 ACAAGCCACAGATAGAGAAACGAAACAATATGCAAAGCCGGAGAAAGATAATCAGTGACTTGAAA
66 ACAAGCCACAGATAGAGAAACAAAACAATAACCAAAGCCGGAGAAAGACAATCAGTGACATCAAA
*
26542207 ATGAAGGATGTCAAACCTGATTCATCAAATGGACTCGTCATTGGGACCTTCAATGAGCC
131 ATGAAGAATGTCAAACCTGATTCATCAAATGGACTCGTCATTGGGACCTTCAATGAGCC
26542266 GGAGCACGCAAAAAACCCTGCAGTTCCTATGTATGAACATGCTGAGGGAGA-TGCATGGGAACAG
1 GGAGCACGCAAAAAACCCTGCAGTTCCTATGTATGAACATGCTGAGGGA-ATTGCATGGGAACAG
* * * * * *
26542330 AACCAGTCACAGATAGAGAAACAAAACGATAACCGAAGCTCGG-GAGAGACGATCAGTGACATCA
65 AACAAGCCACAGATAGAGAAACAAAACAATAACCAAAGC-CGGAGAAAGACAATCAGTGACATCA
26542394 AAATGAAGAATGTCAAACCTGATTCATCAA
129 AAATGAAGAATGTCAAACCTGATTCATCAA
26542424 CAAGACTAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
189 134 0.97
190 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (189 bp):
GGAGCACGCAAAAAACCCTGCAGTTCCTATGTATGAACATGCTGAGGGAATTGCATGGGAACAGA
ACAAGCCACAGATAGAGAAACAAAACAATAACCAAAGCCGGAGAAAGACAATCAGTGACATCAAA
ATGAAGAATGTCAAACCTGATTCATCAAATGGACTCGTCATTGGGACCTTCAATGAGCC
Found at i:26549713 original size:16 final size:17
Alignment explanation
Indices: 26549685--26549716 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
26549675 GAAGATAAGT
26549685 ATTAAATTATATTAAAC
1 ATTAAATTATATTAAAC
26549702 ATTAAA-TATATTAAA
1 ATTAAATTATATTAAA
26549717 ATAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAATTATATTAAAC
Found at i:26576336 original size:19 final size:19
Alignment explanation
Indices: 26576309--26576348 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
26576299 ATAGTGCATA
*
26576309 CTGGCGCATGAAGCTCATC
1 CTGGCGCATGAAGCACATC
*
26576328 CTGGTGCATGAAGCACATC
1 CTGGCGCATGAAGCACATC
26576347 CT
1 CT
26576349 AGCACACGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.23
Consensus pattern (19 bp):
CTGGCGCATGAAGCACATC
Found at i:26577154 original size:15 final size:15
Alignment explanation
Indices: 26577105--26577158 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
26577095 CCTAAAAGTG
26577105 TTAATTAAGCTTAAT
1 TTAATTAAGCTTAAT
*
26577120 ATTAATTAAGCATAGA-
1 -TTAATTAAGCTTA-AT
26577136 TTAATTAAG-TTAAT
1 TTAATTAAGCTTAAT
26577150 CTTAATTAA
1 -TTAATTAA
26577159 TAACTAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 1 0.03
14 2 0.06
15 17 0.52
16 12 0.36
17 1 0.03
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (15 bp):
TTAATTAAGCTTAAT
Found at i:26582338 original size:25 final size:25
Alignment explanation
Indices: 26582310--26582473 Score: 82
Period size: 25 Copynumber: 6.6 Consensus size: 25
26582300 GAATTCTCTA
26582310 GAAAGTCTTTT-TGGCATATCATTGG
1 GAAAG-CTTTTGTGGCATATCATTGG
* *
26582335 GAAAGCTTTTGTGGTATATCATTTG
1 GAAAGCTTTTGTGGCATATCATTGG
* * * * **
26582360 GAAAGCCTTTGTAGTAAATTTTCTGG
1 GAAAGCTTTTGTGGCATATCAT-TGG
* * * *
26582386 G-AAGCCTTTATGGCGTATCATTTG
1 GAAAGCTTTTGTGGCATATCATTGG
* * * *
26582410 GAAAGCCTTTGTGGTGATTTCACT-G
1 GAAAGCTTTTGTGG-CATATCATTGG
* * * **
26582435 GAAAGCCTCTGTGGCGTATCATTTA
1 GAAAGCTTTTGTGGCATATCATTGG
*
26582460 GAAAGCCTTTGTGG
1 GAAAGCTTTTGTGG
26582474 TGAACTCTCT
Statistics
Matches: 106, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
24 13 0.12
25 85 0.80
26 8 0.08
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (25 bp):
GAAAGCTTTTGTGGCATATCATTGG
Found at i:26582405 original size:50 final size:50
Alignment explanation
Indices: 26582334--26582729 Score: 400
Period size: 50 Copynumber: 7.9 Consensus size: 50
26582324 CATATCATTG
* ** * *
26582334 GGAAAGCTTTTGTGGTATATCATTTGGAAAGCCTTTGTAGTAAATT-TTCT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATT-T
* * * *
26582384 GGGAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGTGATTTCA-CT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATT-ATTT
* * * * *
26582434 GGAAAGCCTCTGTGGCGTATCATTTAGAAAGCCTTTGTGGTGAACTCTCT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* ** * * ** *
26582484 AGAAAGATTTTTTGACGTATCATTTGGAAAGCCTTTGTGGCAAATTCTTT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* ** * * * * *
26582534 GGAAAGCCTTTATGAAGAATTATCTGGAAAGCCTTTATGGCGAATTATTT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* *
26582584 GAAAAGCCCTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* * *
26582634 GGAGAGCCCTTGTGGCGTATCATTTGGAAAGCCTTTATGGTGAATTATTT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
* * * * *
26582684 GGAAAGCCCTTGTGGTGTATCATTTAGAAAGCCTTTATGGCGAATT
1 GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATT
26582730 CTCTAGAAAT
Statistics
Matches: 288, Mismatches: 55, Indels: 6
0.83 0.16 0.02
Matches are distributed among these distances:
50 288 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (50 bp):
GGAAAGCCTTTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATTATTT
Found at i:26582738 original size:25 final size:25
Alignment explanation
Indices: 26582356--26582731 Score: 226
Period size: 25 Copynumber: 15.0 Consensus size: 25
26582346 TGGTATATCA
* **
26582356 TTTGGAAAGCCTTTGTAGTAAATT-
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
26582380 TTCTGGGAAGCCTTTATGGCGTA-TC
1 TT-TGGAAAGCCTTTGTGGCGAATTC
* *
26582405 ATTTGGAAAGCCTTTGTGGTGATTTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
** * *
26582431 ACTGGAAAGCCTCTGTGGCGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
26582455 ATTTAGAAAGCCTTTGTGGTGAACTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* * ** * * *
26582481 TCTAGAAAGATTTTTTGACGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
*
26582505 ATTTGGAAAGCCTTTGTGGCAAATTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* ** *
26582531 TTTGGAAAGCCTTTATGAAGAATTA
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
26582556 TCTGGAAAGCCTTTATGGCGAATTA
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
26582581 TTTGAAAAGCCCTTGTGGCGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* *
26582605 ATTTGGAAAGCCTTTGTGGTGAATTA
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* * *
26582631 TTTGGAGAGCCCTTGTGGCGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
26582655 ATTTGGAAAGCCTTTATGGTGAATTA
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* * *
26582681 TTTGGAAAGCCCTTGTGGTGTA-TC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* *
26582705 ATTTAGAAAGCCTTTATGGCGAATTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
26582731 T
1 T
26582732 CTAGAAATTT
Statistics
Matches: 261, Mismatches: 77, Indels: 27
0.72 0.21 0.07
Matches are distributed among these distances:
24 10 0.04
25 239 0.92
26 12 0.05
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (25 bp):
TTTGGAAAGCCTTTGTGGCGAATTC
Found at i:26591064 original size:27 final size:27
Alignment explanation
Indices: 26591033--26591392 Score: 288
Period size: 27 Copynumber: 13.4 Consensus size: 27
26591023 CGGCCTAGAT
26591033 GTCATTTTACCCTTTAGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
26591060 ATCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* **
26591087 GTCATTTTATCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
26591114 GTCATTTTACCCTTT-GAGGATATTTCA
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * *
26591141 GTCATTTCA-CCTTTCAGAGGTATTTCA
1 GTCATTTTACCCTTT-AGGGGTATTTCG
* * *
26591168 ATCATTTTACCC-TTCGAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
26591195 GTCA-TTTACCCTTT-GGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* * * **
26591220 GTTATTTTATCCTTCAAAGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
** * *
26591247 GTCATTTTACCAATCAAGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
* *
26591274 GTTATTTTACCCATT-GAGGGTATTTCG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * * *
26591301 GCCATTTCACCCATT-GAGGGTATTTTG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * *
26591328 ATCATTTTACCC-ATCGAGGGTATTTCG
1 GTCATTTTACCCTTTAG-GGGTATTTCG
* * *
26591355 GTCATTTTACCCATCAAGGGTATTTCG
1 GTCATTTTACCCTTTAGGGGTATTTCG
*
26591382 GTTA-TTTACCC
1 GTCATTTTACCC
26591393 ACGAATCGCA
Statistics
Matches: 273, Mismatches: 49, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
25 12 0.04
26 31 0.11
27 227 0.83
28 3 0.01
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTTTAGGGGTATTTCG
Found at i:26591119 original size:54 final size:54
Alignment explanation
Indices: 26591033--26591392 Score: 370
Period size: 54 Copynumber: 6.7 Consensus size: 54
26591023 CGGCCTAGAT
* * * *
26591033 GTCATTTTACCCTTTAGGGGTATTTCGATCATTTTACCCTTTGGGGGTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* * * * *
26591087 GTCATTTTATCCTTCGGGGGTATTTCGGTCATTTTACCCTTTGAGGATATTTCA
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* * * ** *
26591141 GTCATTTCACCTTTCAGAGGTATTTCAATCATTTTACCCTTCGAGGGTATTTTG
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* * * * *
26591195 GTCA-TTTACCCTT-TGGGGTATTTCGGTTATTTTATCCTTCAAAGGTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
** * *
26591247 GTCATTTTACCAATCAAGGGTATTTCGGTTATTTTACCCATT-GAGGGTATTTCG
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCC-TTCGAGGGTATTTCG
* * * * * *
26591301 GCCATTTCACCCATTGA-GGGTATTTTGATCATTTTACCCATCGAGGGTATTTCG
1 GTCATTTTACCC-TTCAGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
* * *
26591355 GTCATTTTACCCATCAAGGGTATTTCGGTTA-TTTACCC
1 GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCC
26591393 ACGAATCGCA
Statistics
Matches: 248, Mismatches: 52, Indels: 13
0.79 0.17 0.04
Matches are distributed among these distances:
52 34 0.14
53 24 0.10
54 186 0.75
55 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTTCAGGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCG
Found at i:26591173 original size:81 final size:82
Alignment explanation
Indices: 26591033--26591392 Score: 385
Period size: 81 Copynumber: 4.5 Consensus size: 82
26591023 CGGCCTAGAT
* * * * *
26591033 GTCATTTTACCCTTT-AGGGGTATTTCGATCATTTTACCCTTT-GGGGGTATTTCGGTCATTTTA
1 GTCATTTTACCCTTTGA-GGGTATTTCGGTCATTTCACCCTTTCAGAGGTATTTCGATCATTTTA
* * *
26591096 TCCTTCGGGGGTATTTCG
65 CCCATCGAGGGTATTTCG
* * *
26591114 GTCATTTTACCCTTTGAGGATATTTCAGTCATTTCA-CCTTTCAGAGGTATTTCAATCATTTTAC
1 GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTCACCCTTTCAGAGGTATTTCGATCATTTTAC
* *
26591178 CCTTCGAGGGTATTTTG
66 CCATCGAGGGTATTTCG
* * * * *
26591195 GTCA-TTTACCCTTTG-GGGTATTTCGGTTATTTTATCC-TTCAAAGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTCACCCTTTCAGAGGTATTTCGATCATTTTAC
* *
26591257 CAATCAAGGGTATTTCG
66 CCATCGAGGGTATTTCG
* * * * * *
26591274 GTTATTTTACCCATTGAGGGTATTTCGGCCATTTCACCCATTGAG-GGTATTTTGATCATTTTAC
1 GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTCACCCTTTCAGAGGTATTTCGATCATTTTAC
26591338 CCATCGAGGGTATTTCG
66 CCATCGAGGGTATTTCG
* ** *
26591355 GTCATTTTACCCATCAAGGGTATTTCGGTTATTT-ACCC
1 GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTCACCC
26591393 ACGAATCGCA
Statistics
Matches: 234, Mismatches: 39, Indels: 13
0.82 0.14 0.05
Matches are distributed among these distances:
79 53 0.23
80 32 0.14
81 145 0.62
82 4 0.02
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (82 bp):
GTCATTTTACCCTTTGAGGGTATTTCGGTCATTTCACCCTTTCAGAGGTATTTCGATCATTTTAC
CCATCGAGGGTATTTCG
Found at i:26599987 original size:51 final size:51
Alignment explanation
Indices: 26599932--26600381 Score: 387
Period size: 51 Copynumber: 8.9 Consensus size: 51
26599922 GTGAAAGTGT
* *
26599932 TGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * * * * * *
26599983 TGGTCACATGTTTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
26600034 TGGTCACGTGTGTAGTAC-AGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTA-TGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * ** * * * * *
26600085 TGATCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATAA
* * * *
26600136 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAGTGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* * * * * * *
26600187 TGGTCACATGAGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA--TAA
* * *
26600238 TAGTCACGTATGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-A
* * * *
26600288 TGATCACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
* *
26600337 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
26600382 ATGATAAAAG
Statistics
Matches: 311, Mismatches: 75, Indels: 26
0.75 0.18 0.06
Matches are distributed among these distances:
50 87 0.28
51 220 0.71
52 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAA
Found at i:26600107 original size:102 final size:102
Alignment explanation
Indices: 26599931--26600381 Score: 581
Period size: 102 Copynumber: 4.4 Consensus size: 102
26599921 AGTGAAAGTG
** * *
26599931 TTGGTCACGTGTGTAGTATTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTTT
1 TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
26599996 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
26600033 TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
1 TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
*
26600098 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * * * *
26600135 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAGTGATGGTCACATGAGT
1 TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
* *
26600200 AGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCT
66 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
* * * *
26600237 TTAGTCACGTATGTAGTACTA-TGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGATCACGTGT
1 TTGGTCACGTGTGTAGTAC-AGTGTGAAGGCTACTACGTGAATCGATAAATA-ATGATCACATGT
* * ** * * **
26600299 ATAGTACTATGTGAAGGCTATTACGTGAACCGTA-AA-AA
64 GTAGTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCT
* *
26600337 TTGATCACGTGTGTAGTACTA-TGTGAAGGCTACTACGTGTATCGA
1 TTGGTCACGTGTGTAGTAC-AGTGTGAAGGCTACTACGTGAATCGA
26600382 ATGATAAAAG
Statistics
Matches: 310, Mismatches: 35, Indels: 9
0.88 0.10 0.03
Matches are distributed among these distances:
100 40 0.13
101 40 0.13
102 230 0.74
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGTCACGTGTGTAGTACAGTGTGAAGGCTACTACGTGAATCGATAAATAATGATCACATGTGT
AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT
Found at i:26601741 original size:11 final size:11
Alignment explanation
Indices: 26601721--26601789 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
26601711 TTAAAATTAA
26601721 AAAAAGTATTTT
1 AAAAA-TATTTT
26601733 AAAAATATTTT
1 AAAAATATTTT
**
26601744 --AAA-ATTAA
1 AAAAATATTTT
26601752 AAAAAGTATTTT
1 AAAAA-TATTTT
*
26601764 AAAAAAATTTT
1 AAAAATATTTT
* *
26601775 AAAAAAAATTT
1 AAAAATATTTT
26601786 AAAA
1 AAAA
26601790 TTAAAAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
8 3 0.06
9 3 0.06
10 3 0.06
11 25 0.53
12 13 0.28
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:26601749 original size:31 final size:31
Alignment explanation
Indices: 26601711--26601778 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
26601701 AAAATTAAAA
*
26601711 TTAAAATTAAAAAAAGTATTTTAAAAATATT
1 TTAAAATTAAAAAAAGTATTTTAAAAAAATT
26601742 TTAAAATTAAAAAAAGTATTTTAAAAAAATT
1 TTAAAATTAAAAAAAGTATTTTAAAAAAATT
26601773 TTAAAA
1 TTAAAA
26601779 AAAATTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (31 bp):
TTAAAATTAAAAAAAGTATTTTAAAAAAATT
Found at i:26601818 original size:11 final size:11
Alignment explanation
Indices: 26601804--26601829 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26601794 AAAATTAAAA
26601804 AAAAGTATTTT
1 AAAAGTATTTT
26601815 AAAAGTATTTT
1 AAAAGTATTTT
26601826 AAAA
1 AAAA
26601830 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:26606308 original size:51 final size:46
Alignment explanation
Indices: 26606243--26606347 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 46
26606233 ATAAATAATA
*
26606243 TAAACAAATATTTATATTTATGTAAAAACACCAGATCTAAAGAAAACATAT
1 TAAATAAATATTTATATTTAT-TAAAAACACCAGATCT---GAAAACA-AT
* *
26606294 TAAATAAATATTTATATTTATTTAAAACATCAGATCTGAAAACAAT
1 TAAATAAATATTTATATTTATTAAAAACACCAGATCTGAAAACAAT
26606340 TAAATAAA
1 TAAATAAA
26606348 CAAGATCTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
46 10 0.20
47 7 0.14
50 14 0.27
51 20 0.39
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (46 bp):
TAAATAAATATTTATATTTATTAAAAACACCAGATCTGAAAACAAT
Found at i:26613258 original size:43 final size:43
Alignment explanation
Indices: 26613211--26613375 Score: 242
Period size: 43 Copynumber: 3.8 Consensus size: 43
26613201 CACATATTGC
* * * * * *
26613211 TGCCACTGCCCCAGACATGGTCTTATACGAAATCA-TATAACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT-ACAA
26613254 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
26613297 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
1 TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
* *
26613340 TGCCAATGTCCCAGACATGGTCTTACATGTTATCAC
1 TGCCAATGTCCCAGACATGGTCTTACACGTAATCAC
26613376 CACTTAGTAA
Statistics
Matches: 113, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
43 111 0.98
44 2 0.02
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
TGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACAA
Found at i:26617926 original size:28 final size:28
Alignment explanation
Indices: 26617895--26617950 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
26617885 ACAAAGTGAA
* *
26617895 AATAATGATAAGCACCGAACTGCAAATT
1 AATAACGATAAGCACCAAACTGCAAATT
*
26617923 AATAACGATAAGCACCAAAGTGCAAATT
1 AATAACGATAAGCACCAAACTGCAAATT
26617951 TTTACAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (28 bp):
AATAACGATAAGCACCAAACTGCAAATT
Found at i:26633049 original size:3 final size:3
Alignment explanation
Indices: 26633041--26633093 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
26633031 ATTTTCACAG
26633041 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
26633089 ATA AT
1 ATA AT
26633094 TGCTGCTGCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:26637111 original size:25 final size:25
Alignment explanation
Indices: 26637077--26637128 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
26637067 AACACAAGTC
* *
26637077 ACTTCAAAGCATTTGAACTTAACCA
1 ACTTCAAAGCATTTGAACATAAACA
26637102 ACTTCAAAGCATTTGAACATAAACA
1 ACTTCAAAGCATTTGAACATAAACA
26637127 AC
1 AC
26637129 AAATGGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (25 bp):
ACTTCAAAGCATTTGAACATAAACA
Found at i:26642594 original size:2 final size:2
Alignment explanation
Indices: 26642587--26642673 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
26642577 TTTGAGATAC
26642587 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
26642629 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
26642671 TA T
1 TA T
26642674 TTAAATTGTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26647110 original size:15 final size:15
Alignment explanation
Indices: 26647092--26647126 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
26647082 TGTCTGGCGA
*
26647092 GATAATCTAAAACGC
1 GATAATCAAAAACGC
26647107 GATAATCAAAAACGC
1 GATAATCAAAAACGC
26647122 GATAA
1 GATAA
26647127 GGATTGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.17, G:0.14, T:0.17
Consensus pattern (15 bp):
GATAATCAAAAACGC
Found at i:26649845 original size:24 final size:24
Alignment explanation
Indices: 26649818--26649866 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
26649808 AACCTGAAAC
26649818 AAGACTATTGTTTAGAACGCACTA
1 AAGACTATTGTTTAGAACGCACTA
26649842 AAGACTATTGTTTAGAACGCACTA
1 AAGACTATTGTTTAGAACGCACTA
26649866 A
1 A
26649867 GTATAAAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (24 bp):
AAGACTATTGTTTAGAACGCACTA
Found at i:26650633 original size:45 final size:46
Alignment explanation
Indices: 26650564--26650668 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 46
26650554 TTAAAGTTAT
*
26650564 AAGTCTTATCTCCC-TAAAGTTGTAGTGCAGCAGACTGAAGAAAGC
1 AAGTCTTATCTCCCTTAAAGCTGTAGTGCAGCAGACTGAAGAAAGC
* ** **
26650609 AAGTCTTAT-TCCCTTGAAGCTGTAGTGTGGCAGACTGAAGATGGC
1 AAGTCTTATCTCCCTTAAAGCTGTAGTGCAGCAGACTGAAGAAAGC
*
26650654 AAATCTTATCTCCCT
1 AAGTCTTATCTCCCT
26650669 GAATTTGTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 4 0.08
45 42 0.82
46 5 0.10
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (46 bp):
AAGTCTTATCTCCCTTAAAGCTGTAGTGCAGCAGACTGAAGAAAGC
Found at i:26650687 original size:45 final size:45
Alignment explanation
Indices: 26650567--26650808 Score: 172
Period size: 44 Copynumber: 5.4 Consensus size: 45
26650557 AAGTTATAAG
* * *
26650567 TCTTATCTCCCTAAAGTTGTAGTGCAGCAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAAAGCAAA
* **
26650612 TCTTAT-TCCCTTGAAGCTGTAGTGTG-GCAGACTGAAGATGGCAAA
1 TCTTATCTCCC-TGAAGTTGTAGTG-GAGCAGACTGAAGAAAGCAAA
* * * * * *
26650657 TCTTATCTCCCTGAATTTGTAATGGAGCAGATTAAAGCCAA--TAA
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAG-AAAGCAAA
* ** * * * ** *
26650701 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGTTA-CAAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAAAGCAAA
** * *
26650745 TCTTATCTCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAAAGCAAA
*
26650790 TTTTATC-CCCATGAAGTTG
1 TCTTATCTCCC-TGAAGTTG
26650809 CAACGGGGCA
Statistics
Matches: 155, Mismatches: 34, Indels: 16
0.76 0.17 0.08
Matches are distributed among these distances:
43 1 0.01
44 75 0.48
45 75 0.48
46 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAAAGCAAA
Found at i:26650869 original size:73 final size:73
Alignment explanation
Indices: 26650746--26650883 Score: 181
Period size: 73 Copynumber: 1.9 Consensus size: 73
26650736 AGTTACAAGT
* *
26650746 CTTATCTCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGCAAGTTTTATC-CCCATGAAGTTGC
1 CTTATCCCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCC-TGAAGTTGC
26650810 AACGGGGCA
65 AACGGGGCA
* ** **
26650819 CTTATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAA-TCTTATCTCCCTGAAGTTGC
1 CTTATCCCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGC-AAGTCTTATCTCCCTGAAGTTGC
26650883 A
65 A
26650884 GTGGAGCAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
73 51 0.91
74 5 0.09
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (73 bp):
CTTATCCCCCTGAAGTTACAGTGAAGCAGACTGAAGAAAGCAAGTCTTATCTCCCTGAAGTTGCA
ACGGGGCA
Found at i:26650988 original size:44 final size:44
Alignment explanation
Indices: 26650861--26650993 Score: 160
Period size: 44 Copynumber: 3.0 Consensus size: 44
26650851 GAAGATGGCG
* * * **
26650861 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCA-A
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTACA
* *
26650904 TAATCCTATCTCCCTAAAGTTGTAGTAGAGCAGATTAAAGTTACA
1 -AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTACA
* * *
26650949 AATCCTATCTCCTTGAAGTTATAGTGGGGCAGATTAAAGTTACA
1 AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTACA
26650993 A
1 A
26650994 GTCTTATTGA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
44 75 0.99
45 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTTACA
Found at i:26651429 original size:225 final size:222
Alignment explanation
Indices: 26651027--26651456 Score: 508
Period size: 225 Copynumber: 1.9 Consensus size: 222
26651017 TATCCACCTG
* * * * * *
26651027 AAGTTGTAGTGGGGCAGACTAAAGATAGCGAATCTCATTTTCCTGAAATTGTAGTGGAACAGATT
1 AAGTTATAGTGGAGCAGACTAAAGATAGCAAATCTCATTTTCCTGAAATTGCAATGGAACAGATC
* * * *
26651092 AAAGCTATAAATCACAGATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATCATGGAAAATCTTAT
66 AAAGCTATAAATCAAAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATCAT-GAAAACCTTAT
* * * *
26651157 CTCCCTGAAGTTGAAGTGAAGCAGATTAAAGCCAATAATCCTATCTCCCT-AAAGTTGTAGTGGA
130 CTCCCTAAAGTTGAAGTGAAGCAGATTAAAGACAACAATCCTATCTCCCTGAAA-TTGCAGTGGA
26651221 GCGGATTGAAGTGAGGTCTTATCTCCCCA
194 GCGGATTGAAGTGAGGTCTTATCTCCCCA
* * * *
26651250 AAGTTATAGTGGAGCAGACTGAAGATAGCAAATGTC-GTTTCTCTGAAGATTGCAATGGAATAGA
1 AAGTTATAGTGGAGCAGACTAAAGATAGCAAATCTCATTTTC-CTGAA-ATTGCAATGGAACAGA
* *
26651314 TCAAAGCTATAAATCATAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAATTACAT-CAAACC
64 TCAAAGCTATAAATCA-AAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAA-T-CATGAAAACC
* * * * * * * *
26651378 TTATCTCCTTAAAGTTGTAGTGGAGCAGGTTGAAA-ATACCAATCTTATCTCCCTGACATTGCAG
126 TTATCTCCCTAAAGTTGAAGTGAAGCAGATT-AAAGACAACAATCCTATCTCCCTGAAATTGCAG
26651442 TGGAGCGGATTGAAG
190 TGGAGCGGATTGAAG
26651457 CTACTAATCC
Statistics
Matches: 172, Mismatches: 28, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
222 4 0.02
223 36 0.21
224 28 0.16
225 95 0.55
226 6 0.03
227 3 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (222 bp):
AAGTTATAGTGGAGCAGACTAAAGATAGCAAATCTCATTTTCCTGAAATTGCAATGGAACAGATC
AAAGCTATAAATCAAAGATCTTATCTCTCTAAAGTTGCAGTAGAGCAAATCATGAAAACCTTATC
TCCCTAAAGTTGAAGTGAAGCAGATTAAAGACAACAATCCTATCTCCCTGAAATTGCAGTGGAGC
GGATTGAAGTGAGGTCTTATCTCCCCA
Found at i:26651444 original size:44 final size:44
Alignment explanation
Indices: 26651379--26651502 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
26651369 CATCAAACCT
* * *
26651379 TATCTCCTTAAAGTTGTAGTGGAGCAGGTTGAAAATACCAATCT
1 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAAATACCAATCC
* ** *
26651423 TATCTCCCTGACA-TTGCAGTGGAGC-GGATTGAAGCTACTAATCC
1 TATCTCCCT-AAAGTTGCAGTGGAGCAGG-TTGAAAATACCAATCC
*
26651467 TATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAATA
1 TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAAATA
26651503 ATGAATCTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
43 8 0.12
44 54 0.83
45 3 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAAATACCAATCC
Found at i:26651666 original size:89 final size:89
Alignment explanation
Indices: 26651563--26651831 Score: 294
Period size: 89 Copynumber: 3.0 Consensus size: 89
26651553 CAAGTCTTAT
* *
26651563 CTCCCTGAAG-TTGCAACGGAGCAGACTGACGATAGCATATCTTGTCTTCTTGTATTGGCAGTGA
1 CTCCCTG-AGTTTGCAACGGAGCAGACTGAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGTGA
*
26651627 AGCAGATCGAAGACACCAGTCTTGC
65 AGCAGATCGAAGACACCAGCCTTGC
* * *
26651652 CTCCCTGAGTTTGCAGA-GGAACAGACTAAAGATAGCAGATAC-TGTCTTCTTGTATTGGCAGCG
1 CTCCCTGAGTTTGCA-ACGGAGCAGACTGAAGATAGCAGAT-CTTGTCTTCTTGTATTGGCAGTG
* *
26651715 AAGCAAATCGAAG-GACCAGCCTTGC
64 AAGCAGATCGAAGACACCAGCCTTGC
* * * * ** * * * **
26651740 CTCCCTGAGTTTGCAGCGGAGTAGACTGAAAACAATAGATCTTCTCTTCCTGTACTGAAAGTGAA
1 CTCCCTGAGTTTGCAACGGAGCAGACTGAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGTGAA
* *
26651805 GTAGATCGAAAACACCAGCCTTGC
66 GCAGATCGAAGACACCAGCCTTGC
26651829 CTC
1 CTC
26651832 TCTTAGTTGG
Statistics
Matches: 148, Mismatches: 26, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
87 1 0.01
88 68 0.46
89 77 0.52
90 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (89 bp):
CTCCCTGAGTTTGCAACGGAGCAGACTGAAGATAGCAGATCTTGTCTTCTTGTATTGGCAGTGAA
GCAGATCGAAGACACCAGCCTTGC
Found at i:26652016 original size:132 final size:131
Alignment explanation
Indices: 26651841--26652254 Score: 569
Period size: 131 Copynumber: 3.1 Consensus size: 131
26651831 CTCTTAGTTG
* *
26651841 GCAGTGGAGTAGGTTGAAAATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * *
26651906 GACAAATCTTATCTTCCCAAGGTAGCAGAGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
66 GGCGAATCTTATCTTCCCGAGGTAGTAGAGAAGCAGATTTAAGCCACCA-TCCTATCTCCCTGAG
26651971 TA
130 TA
* ** * *
26651973 GCAATGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTATAGCAAATCGAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * *
26652038 GGTGAATCTTATCTTCCCGAGATAGTAGA-AAGCAGATTTTAGCCACCATTCCTATCTCCCTGAG
66 GGCGAATCTTATCTTCCCGAGGTAGTAGAGAAGCAGATTTAAGCCACCA-TCCTATCTCCCTGAG
*
26652102 CA
130 TA
* *
26652104 GTAGTGGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * * *
26652169 GGCGACTCTTATCTTACCGAGGTAGTAGGGAAGCATATTTAAGCCACCAACCTTATCTCCCTGAA
66 GGCGAATCTTATCTTCCCGAGGTAGTAGAGAAGCAGATTTAAGCCACCATCC-TATCTCCCTG-A
*
26652234 GTT
129 GTA
*
26652237 GCAGTGGAGCAGGTTGAA
1 GCAGTGGAGTAGGTTGAA
26652255 ATTACCAATT
Statistics
Matches: 244, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
131 118 0.48
132 108 0.44
133 18 0.07
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (131 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
GGCGAATCTTATCTTCCCGAGGTAGTAGAGAAGCAGATTTAAGCCACCATCCTATCTCCCTGAGT
A
Found at i:26652557 original size:14 final size:14
Alignment explanation
Indices: 26652538--26652568 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
26652528 AGCTCAAATA
*
26652538 AAAATAATAAACCC
1 AAAATAATAAACAC
26652552 AAAATAATAAACAC
1 AAAATAATAAACAC
26652566 AAA
1 AAA
26652569 GTCTAAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAATAATAAACAC
Found at i:26652741 original size:22 final size:22
Alignment explanation
Indices: 26652681--26652738 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
26652671 AATCTTCAAG
26652681 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
26652700 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
26652722 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
26652739 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:26653518 original size:2 final size:2
Alignment explanation
Indices: 26653513--26653538 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26653503 TACCTACTTT
26653513 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
26653539 ATTTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26656476 original size:89 final size:89
Alignment explanation
Indices: 26656327--26656489 Score: 206
Period size: 89 Copynumber: 1.8 Consensus size: 89
26656317 ATTTTAAAAA
** *
26656327 AAAAAGCAATCAAGTTCCTGCTTTTTTTTTGTACTCAATTAGGTACTCGAACTTTCAAAATGCAT
1 AAAAAGCAATCAAGCCCCTGCTTTTTTTTTGCACTCAATTAGGTACTCGAACTTTCAAAATGCAT
*
26656392 TAAAAAGGCCCTCAAACTTTTTCG
66 CAAAAAGGCCCTCAAACTTTTTCG
* * * *
26656416 AAAAAGCAATTAAGCCCCTGCTTTTTTTCTT-CACTCAA-TCGGATACTTGAA-TTGTTAAAATG
1 AAAAAGCAATCAAGCCCCTGCTTTTTTT-TTGCACTCAATTAGG-TACTCGAACTT-TCAAAATG
26656478 CATCAAAAAGGC
63 CATCAAAAAGGC
26656490 TATTTGACTG
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
88 5 0.08
89 56 0.89
90 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (89 bp):
AAAAAGCAATCAAGCCCCTGCTTTTTTTTTGCACTCAATTAGGTACTCGAACTTTCAAAATGCAT
CAAAAAGGCCCTCAAACTTTTTCG
Found at i:26656841 original size:30 final size:30
Alignment explanation
Indices: 26656757--26656866 Score: 97
Period size: 30 Copynumber: 3.8 Consensus size: 30
26656747 ATTTTTTATA
* *
26656757 AATTTCTTACGA-CTTTAT-AAAATTTTAC
1 AATTTTTTACGATTTTTATAAAAATTTTAC
* * * * * *
26656785 AATTTTTT-CTATATTTCTATATATTTTAT
1 AATTTTTTACGATTTTTATAAAAATTTTAC
26656814 AATTTTTTACGATTTTTATAAAAATTTTAC
1 AATTTTTTACGATTTTTATAAAAATTTTAC
26656844 AATTTTTATAC--TTTTT-TAAAAAT
1 AATTTTT-TACGATTTTTATAAAAAT
26656867 AATTTTTTTC
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
27 2 0.03
28 18 0.28
29 20 0.31
30 22 0.34
31 3 0.05
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.55
Consensus pattern (30 bp):
AATTTTTTACGATTTTTATAAAAATTTTAC
Found at i:26656931 original size:19 final size:19
Alignment explanation
Indices: 26656883--26656942 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
26656873 TTTCTAAGTT
26656883 TTAATATTTTAATATTTTTA
1 TTAA-ATTTTAATATTTTTA
*
26656903 TTAAAATTTAATAATTTTTA
1 TTAAATTTTAAT-ATTTTTA
* * *
26656923 -TAACTTTTATTTTTTTTA
1 TTAAATTTTAATATTTTTA
26656941 TT
1 TT
26656943 TTTATCATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 6 0.18
19 16 0.48
20 11 0.33
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAAATTTTAATATTTTTA
Found at i:26657986 original size:22 final size:21
Alignment explanation
Indices: 26657961--26658007 Score: 76
Period size: 22 Copynumber: 2.2 Consensus size: 21
26657951 ATATAATAGT
26657961 AAAATAGCAGAAAAATAGTGAG
1 AAAATAGCAGAAAAATAGTG-G
*
26657983 AAAATAGCAGCAAAATAGTGG
1 AAAATAGCAGAAAAATAGTGG
26658004 AAAA
1 AAAA
26658008 CAATAGGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.60, C:0.06, G:0.21, T:0.13
Consensus pattern (21 bp):
AAAATAGCAGAAAAATAGTGG
Found at i:26662912 original size:23 final size:23
Alignment explanation
Indices: 26662886--26662937 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
26662876 TTTTTCCCTT
*
26662886 TCTTTTTTTATGTGTTTTTTCTC
1 TCTTTTTATATGTGTTTTTTCTC
* *
26662909 TCTTTTTATGTGTTTTTTTTCTC
1 TCTTTTTATATGTGTTTTTTCTC
26662932 TCTTTT
1 TCTTTT
26662938 ATTTCTTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.04, C:0.13, G:0.08, T:0.75
Consensus pattern (23 bp):
TCTTTTTATATGTGTTTTTTCTC
Found at i:26662916 original size:21 final size:21
Alignment explanation
Indices: 26662890--26662939 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
26662880 TCCCTTTCTT
26662890 TTTTTATGTGTTTTTTCTCTC
1 TTTTTATGTGTTTTTTCTCTC
*
26662911 TTTTTATGTGTTTTTTTTCTC
1 TTTTTATGTGTTTTTTCTCTC
26662932 TCTTTTAT
1 T-TTTTAT
26662940 TTCTTTGTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.06, C:0.12, G:0.08, T:0.74
Consensus pattern (21 bp):
TTTTTATGTGTTTTTTCTCTC
Found at i:26662953 original size:23 final size:22
Alignment explanation
Indices: 26662891--26662957 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
26662881 CCCTTTCTTT
*
26662891 TTTTATGT-GTTTT-TTCTCTC
1 TTTTATGTCTTTTTCTTCTCTC
* *
26662911 TTTTTATGTGTTTTTTTTCTCTC
1 -TTTTATGTCTTTTTCTTCTCTC
*
26662934 TTTTATTTCTTTGTTCTTCT-TC
1 TTTTATGTCTTT-TTCTTCTCTC
26662956 TT
1 TT
26662958 CTCATCCTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 8 0.21
22 18 0.46
23 13 0.33
ACGTcount: A:0.04, C:0.15, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTATGTCTTTTTCTTCTCTC
Found at i:26664266 original size:49 final size:49
Alignment explanation
Indices: 26664213--26664342 Score: 224
Period size: 49 Copynumber: 2.7 Consensus size: 49
26664203 TAAAGTTAAC
* *
26664213 AAATTGCACTGAAGTGTCACTATCACTAGCACCGAAGTGCAAAATCACT
1 AAATTGTACAGAAGTGTCACTATCACTAGCACCGAAGTGCAAAATCACT
* *
26664262 AAATTGTACAAAAGTGTCACTATCACTAACACCGAAGTGCAAAATCACT
1 AAATTGTACAGAAGTGTCACTATCACTAGCACCGAAGTGCAAAATCACT
26664311 AAATTGTACAGAAGTGTCACTATCACTAGCAC
1 AAATTGTACAGAAGTGTCACTATCACTAGCAC
26664343 GCTTGAAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (49 bp):
AAATTGTACAGAAGTGTCACTATCACTAGCACCGAAGTGCAAAATCACT
Found at i:26664288 original size:27 final size:27
Alignment explanation
Indices: 26664256--26664338 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 27
26664246 GAAGTGCAAA
*
26664256 ATCACTAAATTGTACAAAAGTGTCACT
1 ATCACTAAATTGTACAGAAGTGTCACT
* * **
26664283 ATCACT-AA---CACCGAAGTG-CAAA
1 ATCACTAAATTGTACAGAAGTGTCACT
26664305 ATCACTAAATTGTACAGAAGTGTCACT
1 ATCACTAAATTGTACAGAAGTGTCACT
26664332 ATCACTA
1 ATCACTA
26664339 GCACGCTTGA
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
22 8 0.19
23 9 0.21
26 10 0.24
27 15 0.36
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (27 bp):
ATCACTAAATTGTACAGAAGTGTCACT
Found at i:26664326 original size:26 final size:26
Alignment explanation
Indices: 26664246--26664326 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
26664236 CACTAGCACC
26664246 GAAGTGCAAAATCACTAAATTGTACA
1 GAAGTGCAAAATCACTAAATTGTACA
* ** * *
26664272 AAAGTGTCACTATCACT-AA---CACC
1 GAAGTG-CAAAATCACTAAATTGTACA
26664295 GAAGTGCAAAATCACTAAATTGTACA
1 GAAGTGCAAAATCACTAAATTGTACA
26664321 GAAGTG
1 GAAGTG
26664327 TCACTATCAC
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
26 15 0.38
27 8 0.20
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (26 bp):
GAAGTGCAAAATCACTAAATTGTACA
Found at i:26667119 original size:25 final size:25
Alignment explanation
Indices: 26667070--26667161 Score: 100
Period size: 25 Copynumber: 3.7 Consensus size: 25
26667060 GTACATGTCT
26667070 GCTCATACGAGC-G-ATAAATGGTAA
1 GCTCATACGAGCTGAAT-AATGGTAA
* *
26667094 GCTCTTCCGAGCTGAATAATGGTAA
1 GCTCATACGAGCTGAATAATGGTAA
*
26667119 GCTCATACGAGCTGAGT-ATCGGTAA
1 GCTCATACGAGCTGAATAAT-GGTAA
*
26667144 GCTCATAAGAGCTAGAAT
1 GCTCATACGAGCT-GAAT
26667162 TGGTAACCCT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
24 12 0.21
25 40 0.70
26 5 0.09
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAATGGTAA
Found at i:26668695 original size:9 final size:9
Alignment explanation
Indices: 26668681--26668711 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
26668671 GTTAAACGAA
26668681 TCGAGTTAT
1 TCGAGTTAT
*
26668690 TCGAGTTAA
1 TCGAGTTAT
26668699 TCGAGTTAT
1 TCGAGTTAT
26668708 TCGA
1 TCGA
26668712 ATCAACTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:26669039 original size:30 final size:31
Alignment explanation
Indices: 26669005--26669064 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
26668995 AAACCTTTTA
*
26669005 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
26669035 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
26669065 TCTCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:26669879 original size:5 final size:5
Alignment explanation
Indices: 26669869--26669894 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
26669859 CTCAAAAATT
26669869 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
26669895 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:26676054 original size:28 final size:28
Alignment explanation
Indices: 26676023--26676080 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
26676013 TTCTTTTTCC
* *
26676023 ATTTTTTAATAAATGGCCCAATATTTTT
1 ATTTTTTAATAAATGACCCAATATGTTT
*
26676051 ATTTTTTACTAAATGACCCAATATGTTT
1 ATTTTTTAATAAATGACCCAATATGTTT
26676079 AT
1 AT
26676081 GCTTTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (28 bp):
ATTTTTTAATAAATGACCCAATATGTTT
Found at i:26676740 original size:3 final size:3
Alignment explanation
Indices: 26676732--26676808 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
26676722 AATCATTTTC
26676732 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
26676780 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
26676809 GCTGCTGCTG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:26681190 original size:143 final size:143
Alignment explanation
Indices: 26680972--26681327 Score: 542
Period size: 143 Copynumber: 2.5 Consensus size: 143
26680962 TAAAATAATG
* *
26680972 TAAAATAA--TAAAATTAAAAAATAATATATTTTTTAAAAGTAACAAAATTTGGGAAAAAAATAC
1 TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTT-GGAAAAAAATAC
* *
26681035 GAACAAAGGGTTGAAATAAG-GATTTTTTT-AATTTATTTGAAAAATACAATAAATTAATATATA
65 GAACAAAGGGTTGAAATAAGAGATTTTTTTAAATTTATTT-AAAAACACAATAAATTAATACATA
*
26681098 TCAAATATAATGTAC
129 TCAAATATAATGCAC
26681113 TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTTAAAAGTAATAAAATTTGGAAAAAAATAC
1 TAAAATAATGTAAAATTAAAAAATAGTATA-TTTTTTAAAAGTAATAAAATTTGGAAAAAAATAC
* * * *
26681178 GAACATAGGGTTGAAATAAGAGTTTTTTTTAAATTTATTTAAAAACACAGTAAATTAATACATTT
65 GAACAAAGGGTTGAAATAAGAGATTTTTTTAAATTTATTTAAAAACACAATAAATTAATACATAT
*
26681243 CAAATATAATGCAT
130 CAAATATAATGCAC
*
26681257 TAAAATAATGTAAAA-TAAAAAATAGTATATTTTTTAAAAATAATAAAATTTGAGAAAAAAATAC
1 TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTTG-GAAAAAAATAC
26681321 GAACAAA
65 GAACAAA
26681328 TAGTCAAAAT
Statistics
Matches: 197, Mismatches: 12, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
141 8 0.04
142 22 0.11
143 81 0.41
144 77 0.39
145 9 0.05
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (143 bp):
TAAAATAATGTAAAATTAAAAAATAGTATATTTTTTAAAAGTAATAAAATTTGGAAAAAAATACG
AACAAAGGGTTGAAATAAGAGATTTTTTTAAATTTATTTAAAAACACAATAAATTAATACATATC
AAATATAATGCAC
Found at i:26683418 original size:47 final size:47
Alignment explanation
Indices: 26683346--26683440 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
26683336 CACTTCTATG
*
26683346 GTGAGTTGTAAGTTGTGTTACAAGGTTTTGCACTGCTGGGAAAGAGA
1 GTGAGTTGTAAGTTGTGTTAAAAGGTTTTGCACTGCTGGGAAAGAGA
26683393 GTGAGTTGTAAGTTGTGTTAAAAGGTTTTGCACTGCTGGGAAAGAGA
1 GTGAGTTGTAAGTTGTGTTAAAAGGTTTTGCACTGCTGGGAAAGAGA
26683440 G
1 G
26683441 CATAACAATA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.07, G:0.35, T:0.32
Consensus pattern (47 bp):
GTGAGTTGTAAGTTGTGTTAAAAGGTTTTGCACTGCTGGGAAAGAGA
Found at i:26687458 original size:11 final size:11
Alignment explanation
Indices: 26687444--26687468 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
26687434 AGTTTTTTTT
26687444 TTCCTTTTCAG
1 TTCCTTTTCAG
26687455 TTCCTTTTCAG
1 TTCCTTTTCAG
26687466 TTC
1 TTC
26687469 TGAATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.08, T:0.56
Consensus pattern (11 bp):
TTCCTTTTCAG
Found at i:26691873 original size:20 final size:20
Alignment explanation
Indices: 26691844--26691883 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
26691834 TTCACCTCAT
*
26691844 GCATCGCATCATATGCATTA
1 GCATCACATCATATGCATTA
26691864 GCATCACATCATATGCATTA
1 GCATCACATCATATGCATTA
26691884 AAGACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (20 bp):
GCATCACATCATATGCATTA
Found at i:26701860 original size:3 final size:3
Alignment explanation
Indices: 26701852--26701908 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
26701842 ATTTGACATT
* ** *
26701852 TTA TTA TTA TTA TTA TTA CTA CCA TTA TTAA TCA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
26701897 TTA CTTA TTA TT
1 TTA -TTA TTA TT
26701909 CTTGTTATAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
2 2 0.04
3 38 0.84
4 5 0.11
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:26704164 original size:52 final size:48
Alignment explanation
Indices: 26704086--26704184 Score: 117
Period size: 52 Copynumber: 2.0 Consensus size: 48
26704076 ATTGTCACCT
* *
26704086 TTGATTGATGTAGATAGGATTTTCCTTCCTTCTTAAGATGACTTTGAAATCC
1 TTGATTGATGAAGATAGGATATTCCTT-C-TC--AAGATGACTTTGAAATCC
* * *
26704138 TTGATTGATGAATATGGGATATTCCTTCTCAAGATGACTTTTAAATC
1 TTGATTGATGAAGATAGGATATTCCTTCTCAAGATGACTTTGAAATC
26704185 GTGTTCTGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 16 0.38
50 2 0.05
51 1 0.02
52 23 0.55
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.41
Consensus pattern (48 bp):
TTGATTGATGAAGATAGGATATTCCTTCTCAAGATGACTTTGAAATCC
Found at i:26708200 original size:2 final size:2
Alignment explanation
Indices: 26708195--26708225 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26708185 TTTTTTTAGC
26708195 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
26708226 GGTAGAAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26713573 original size:2 final size:2
Alignment explanation
Indices: 26713566--26713604 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
26713556 GATAAGCCGC
26713566 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
26713605 GCCACATAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:26714889 original size:12 final size:12
Alignment explanation
Indices: 26714874--26714898 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26714864 TCCCCACAAT
26714874 TTTTATTTTTTA
1 TTTTATTTTTTA
26714886 TTTTATTTTTTA
1 TTTTATTTTTTA
26714898 T
1 T
26714899 CACTACACCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:26715349 original size:112 final size:113
Alignment explanation
Indices: 26715202--26715505 Score: 432
Period size: 113 Copynumber: 2.7 Consensus size: 113
26715192 TAAGCGCCGT
* * *
26715202 AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGG-ATGTTAGAATTGGTGGCGCTTATGAA
1 AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAA
* * * *
26715266 AAACGCCGCTATAGCATATTATCAGCGGCGTTTTGCACGAAACGCTGC
66 AAAAGCCGCTATAGCATAGTATCAGCGGCGTTTTGCACAAAACGCTAC
* * *
26715314 AAAAAATGTTAACCAAAATGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGTGCTAACGAA
1 AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAA
* * *
26715379 AAAAGCCGCTATAGGATAGTATTAGCGGCGTTTTGTACAAAACGCTAC
66 AAAAGCCGCTATAGCATAGTATCAGCGGCGTTTTGCACAAAACGCTAC
* * * *
26715427 AAAATATGTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCACTT-CCAA
1 AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAA
26715491 AAAATGCCGCTATAG
66 AAAA-GCCGCTATAG
26715506 GATAATATTT
Statistics
Matches: 170, Mismatches: 20, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
112 44 0.26
113 126 0.74
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (113 bp):
AAAAAATGTTAACCAAAACGCATCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTACGAA
AAAAGCCGCTATAGCATAGTATCAGCGGCGTTTTGCACAAAACGCTAC
Found at i:26716720 original size:21 final size:21
Alignment explanation
Indices: 26716694--26716786 Score: 123
Period size: 21 Copynumber: 4.4 Consensus size: 21
26716684 CTACAACTTA
* * *
26716694 AAGCAGAGGCCGCAGCGAGGG
1 AAGCAGAGGCTGCAGCAAGAG
* *
26716715 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCAAGAG
* *
26716736 AAGCAGAGGCGGCAGTAAGAG
1 AAGCAGAGGCTGCAGCAAGAG
26716757 AAGCAGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCAAGAG
26716778 AAGCAGAGG
1 AAGCAGAGG
26716787 TTCAAAAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.37, C:0.18, G:0.42, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCAAGAG
Found at i:26717273 original size:43 final size:43
Alignment explanation
Indices: 26717173--26717297 Score: 184
Period size: 43 Copynumber: 3.0 Consensus size: 43
26717163 TTTTCTGTAA
* *
26717173 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTCTCTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
26717215 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
* * *
26717258 AAGCGTCGTTAAAGAACATGACCTTTAGCGGC--CTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTT
26717298 CGGTAAACGC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
41 8 0.10
42 34 0.44
43 35 0.45
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (43 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
Found at i:26719350 original size:27 final size:27
Alignment explanation
Indices: 26719318--26719374 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
26719308 GAATTTTTTT
*
26719318 AAATTGAGTTAAGT-GAAATAAAATTTA
1 AAATTGAGTTAAATCG-AATAAAATTTA
* *
26719345 AAATTGATTTAAATCGAGTAAAATTTA
1 AAATTGAGTTAAATCGAATAAAATTTA
26719372 AAA
1 AAA
26719375 ATTAAACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 25 0.96
28 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.12, T:0.33
Consensus pattern (27 bp):
AAATTGAGTTAAATCGAATAAAATTTA
Found at i:26719541 original size:19 final size:19
Alignment explanation
Indices: 26719517--26719566 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
26719507 TTTTTAAAAA
26719517 TATAAATTTTGGAATTTTT
1 TATAAATTTTGGAATTTTT
* *
26719536 TATAAATATTTTGATTTTTT
1 TATAAAT-TTTGGAATTTTT
* *
26719556 TGTAATTTTTG
1 TATAAATTTTG
26719567 TTGAGGGAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (19 bp):
TATAAATTTTGGAATTTTT
Found at i:26721684 original size:12 final size:12
Alignment explanation
Indices: 26721667--26721691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26721657 AGACCTGATA
26721667 AAATAAGAAAAC
1 AAATAAGAAAAC
26721679 AAATAAGAAAAC
1 AAATAAGAAAAC
26721691 A
1 A
26721692 TCTCCTGCAA
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:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAATAAGAAAAC
Found at i:26724341 original size:15 final size:15
Alignment explanation
Indices: 26724317--26724346 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
26724307 ATCTAGATTT
26724317 GTAATCAAATTTTAA
1 GTAATCAAATTTTAA
*
26724332 GTAATTAAATTTTAA
1 GTAATCAAATTTTAA
26724347 AATCAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
GTAATCAAATTTTAA
Found at i:26727841 original size:21 final size:21
Alignment explanation
Indices: 26727817--26727869 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
26727807 CATTGTTTCT
26727817 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
26727838 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTACCC
26727859 AATCTCACCGC
1 AATCTCACCGC
26727870 CACCGCTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.43, G:0.09, T:0.19
Consensus pattern (21 bp):
AATCTCACCGCTACAGTACCC
Found at i:26728221 original size:57 final size:58
Alignment explanation
Indices: 26728151--26728268 Score: 166
Period size: 57 Copynumber: 2.1 Consensus size: 58
26728141 TAGGCCTTGG
* *** *
26728151 TGTAGGAACAATTATCAAGTTCAGGGGGTAACTCG-TAAAAAAAGGTTCAAGCTCCAA
1 TGTAGGAAAAATTATCAAGTTCAGGACCTAACTCGAAAAAAAAAGGTTCAAGCTCCAA
* *
26728208 TGTAGGAAAAATTATCAAGTTCAGGACCTAACTTGAAAAAAAAAGGTTCAGGCTCCAA
1 TGTAGGAAAAATTATCAAGTTCAGGACCTAACTCGAAAAAAAAAGGTTCAAGCTCCAA
26728266 TGT
1 TGT
26728269 GAAAAAGGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 30 0.57
58 23 0.43
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (58 bp):
TGTAGGAAAAATTATCAAGTTCAGGACCTAACTCGAAAAAAAAAGGTTCAAGCTCCAA
Found at i:26735266 original size:41 final size:41
Alignment explanation
Indices: 26735221--26735495 Score: 433
Period size: 41 Copynumber: 6.7 Consensus size: 41
26735211 GGTTTTAAAA
*
26735221 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
26735262 CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
26735303 CCTAGCAGGCTAAGTGCTGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
26735344 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* *
26735385 CCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * * *
26735426 CCTAGCAAGCTAAGTGTCGGTGATCTGAATCAAGCTTTAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
26735467 CCTAGCAGGGCTAAGTGCCAGTGAATCTG
1 CCTAGCA-GGCTAAGTGCCGGTG-ATCTG
26735496 TGTAAATTAA
Statistics
Matches: 214, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 197 0.92
42 12 0.06
43 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:26735835 original size:35 final size:35
Alignment explanation
Indices: 26735796--26735865 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
26735786 TTCGATGAAG
* *
26735796 TGCAAGCGATAAGCACATATATGCATTTAGATATA
1 TGCAAGCGATAAACACATATATACATTTAGATATA
* * *
26735831 TGCAAGTGATAAATACATATATACATTTAGTTATA
1 TGCAAGCGATAAACACATATATACATTTAGATATA
26735866 ATAACTGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (35 bp):
TGCAAGCGATAAACACATATATACATTTAGATATA
Found at i:26742448 original size:41 final size:41
Alignment explanation
Indices: 26742403--26742623 Score: 388
Period size: 41 Copynumber: 5.4 Consensus size: 41
26742393 GGTTTTAAAA
*
26742403 CCTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
26742444 CCTAGCAGGCTAAGTGCCGGTGATCTGAATAAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
26742485 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
* * *
26742526 GCTAGCAGGCTAAGTGTCGGTGAACTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
*
26742567 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
26742608 CCTAGCAGGCTAAGTG
1 CCTAGCAGGCTAAGTG
26742624 NNNNNNNNNN
Statistics
Matches: 170, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 170 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
Found at i:26745276 original size:40 final size:40
Alignment explanation
Indices: 26745231--26745308 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
26745221 TTTTCAAATT
*
26745231 CACTTTCGATTCAAT-CACAATTCA-ATTCAATTTCACTTTC
1 CACTTTCGAATCAATACACAATTCAGA-T-AATTTCACTTTC
**
26745271 CACTTTTTAATCAATACACAATTCAGATAATTTCACTT
1 CACTTTCGAATCAATACACAATTCAGATAATTTCACTT
26745309 CGATTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 22 0.67
41 10 0.30
42 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (40 bp):
CACTTTCGAATCAATACACAATTCAGATAATTTCACTTTC
Found at i:26746580 original size:24 final size:23
Alignment explanation
Indices: 26746541--26746605 Score: 73
Period size: 24 Copynumber: 2.9 Consensus size: 23
26746531 TCTTAATATA
* *
26746541 ATATTTATA-TTATAATTATTTT
1 ATATATATATTTATAATTAATTT
26746563 A-ATAATATACTTTATAATTAATTT
1 ATAT-ATATA-TTTATAATTAATTT
26746587 ATATATATATTTA-AATTAA
1 ATATATATATTTATAATTAA
26746606 ATCATTATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 2 0.05
22 11 0.30
23 4 0.11
24 18 0.49
25 2 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATATATATTTATAATTAATTT
Found at i:26747523 original size:25 final size:25
Alignment explanation
Indices: 26747486--26747627 Score: 112
Period size: 25 Copynumber: 5.7 Consensus size: 25
26747476 TAAATAATAC
*
26747486 GCCATAAAGGCTTTTCACAAGATTA
1 GCCACAAAGGCTTTTCACAAGATTA
* * *
26747511 ACCACAAAAGC-TTTC-CAAGTAATA
1 GCCACAAAGGCTTTTCACAAG-ATTA
**
26747535 CGCCACAAAGGCTTTTCACGGGATTA
1 -GCCACAAAGGCTTTTCACAAGATTA
* * * *
26747561 ACCACAAAAGATTTTCAGATA-A-TA
1 GCCACAAAGGCTTTTCACA-AGATTA
* *
26747585 CGCCACAAAGGCTTTTTATAAGATTA
1 -GCCACAAAGGCTTTTCACAAGATTA
26747611 GCCACAAAGGCTTTTCA
1 GCCACAAAGGCTTTTCA
26747628 GAGAATTCTC
Statistics
Matches: 88, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
23 4 0.05
24 10 0.11
25 63 0.72
26 9 0.10
27 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (25 bp):
GCCACAAAGGCTTTTCACAAGATTA
Found at i:26747626 original size:50 final size:50
Alignment explanation
Indices: 26747479--26747629 Score: 205
Period size: 50 Copynumber: 3.0 Consensus size: 50
26747469 GTCTTTCTAA
* *
26747479 ATAATACGCCATAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTCCA-
1 ATAATACGCCACAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTTCAG
** *
26747528 AGTAATACGCCACAAAGGCTTTTCACGGGATTAACCACAAAAGATTTTCAG
1 A-TAATACGCCACAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTTCAG
* * * *
26747579 ATAATACGCCACAAAGGCTTTTTATAAGATTAGCCACAAAGGCTTTTCAG
1 ATAATACGCCACAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTTCAG
26747629 A
1 A
26747630 GAATTCTCGA
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 86 0.98
51 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (50 bp):
ATAATACGCCACAAAGGCTTTTCACAAGATTAACCACAAAAGCTTTTCAG
Found at i:26750009 original size:16 final size:16
Alignment explanation
Indices: 26749988--26750018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26749978 CGCTGTATTA
26749988 GAATAGAGGCGTAATG
1 GAATAGAGGCGTAATG
*
26750004 GAATAGAGGTGTAAT
1 GAATAGAGGCGTAAT
26750019 AGTATTCTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.35, T:0.23
Consensus pattern (16 bp):
GAATAGAGGCGTAATG
Found at i:26750224 original size:16 final size:16
Alignment explanation
Indices: 26750187--26750228 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26750177 TTAATCATAT
*
26750187 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
26750203 TT-AAATATATTATAA
1 TTAAAATATATTATAA
26750218 TTAAAATATAT
1 TTAAAATATAT
26750229 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:26750235 original size:14 final size:15
Alignment explanation
Indices: 26750196--26750237 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26750186 TTTAAACATA
*
26750196 ATTATTATTAAATAT
1 ATTATAATTAAATAT
26750211 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
26750225 A-TATAATTTAATA
1 ATTATAATTAAATA
26750238 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:26750328 original size:120 final size:120
Alignment explanation
Indices: 26750185--26750721 Score: 898
Period size: 120 Copynumber: 4.5 Consensus size: 120
26750175 ATTTAATCAT
*
26750185 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * * *
26750250 GTCAATATTGTTATATGAATTTACTTAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* * *
26750306 AATTAACATAATTATTATTAAATATATTATAATTAAAATCTATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
26750371 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGGTA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
26750426 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
26750491 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
*
26750546 ATTTAACATAATTATTATTAAATGTATTTTAATTAAAATATATAATTTAATAAAATTC-TAATAA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
26750610 TCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
* *
26750665 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
26750722 TAAAATAATT
Statistics
Matches: 396, Mismatches: 19, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
119 109 0.28
120 284 0.72
121 3 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:26750468 original size:18 final size:17
Alignment explanation
Indices: 26750447--26750481 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
26750437 TTATTATTAA
*
26750447 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
26750465 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
26750482 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:26754290 original size:22 final size:21
Alignment explanation
Indices: 26754255--26754388 Score: 77
Period size: 19 Copynumber: 6.7 Consensus size: 21
26754245 AAAGGGTATC
* *
26754255 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
26754276 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
26754299 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
26754318 TATATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
26754337 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
26754356 TATATAT--TATATCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
26754375 TGCATATCATATCT
1 TACAAATCATATCT
26754389 AAGATTGCAT
Statistics
Matches: 94, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
17 2 0.02
19 60 0.64
21 7 0.07
22 15 0.16
23 10 0.11
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:26754298 original size:23 final size:22
Alignment explanation
Indices: 26754255--26754312 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
26754245 AAAGGGTATC
* *
26754255 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
26754276 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
26754299 TGCATATCATATCT
1 TACAAATCATATCT
26754313 AAGATTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:26754315 original size:19 final size:19
Alignment explanation
Indices: 26754291--26754401 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
26754281 AATCATATCT
26754291 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
26754310 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
26754329 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
26754348 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
26754367 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
26754386 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
26754402 CCTGAAGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:26754338 original size:38 final size:38
Alignment explanation
Indices: 26754291--26754394 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
26754281 AATCATATCT
26754291 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
*
26754329 TCTAAGATTGCATATCATATCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATATCTAAGATTATATATCATA
26754367 TCTAAGATTGCATATCATATCTAAGATT
1 TCTAAGATTGCATATCATATCTAAGATT
26754395 GCATATCCCT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.40
Consensus pattern (38 bp):
TCTAAGATTGCATATCATATCTAAGATTATATATCATA
Found at i:26754952 original size:132 final size:131
Alignment explanation
Indices: 26754730--26755030 Score: 487
Period size: 132 Copynumber: 2.3 Consensus size: 131
26754720 TAGGACTTAC
* * * * *
26754730 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATGATTACTGGCTTCAATGTACTCTACTG
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GATTACTGGCTTCAATGTACTCCACTA
* * *
26754794 TAACCACAGGGAGGTAAAATCCGCCATCTTCGCTCTGCTCCACTACTGCTTAGGGAGATAAGATC
64 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGACC
26754859 TGA
129 TGA
26754862 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG-ATTACTGGCTTCAATGTACTCCACTAT
26754927 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGACCT
65 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGACCT
26754992 GA
130 GA
*
26754994 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAG
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAG
26755031 NNNNNNNNNN
Statistics
Matches: 158, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
131 1 0.01
132 155 0.98
133 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (131 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGATTACTGGCTTCAATGTACTCCACTATA
ACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGACCTG
A
Found at i:26755371 original size:132 final size:132
Alignment explanation
Indices: 26755131--26755985 Score: 1440
Period size: 132 Copynumber: 6.5 Consensus size: 132
26755121 NNNNNNNNNN
* *
26755131 TGGCTTCAATGTACTCCACTATAACCGACAAGGGAGGTAAAACTCCGCCATCTTCGATCTACTCC
1 TGGCTTCAATGTACTCCACTGTAACC-AC-AGGGAGGTAAAA-TCCGCCATCTTCGATCTGCTCC
*
26755196 ACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGA
63 ACTACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGA
26755261 ATTAC
128 ATTAC
*
26755266 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
*
26755331 ACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATT
66 ACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
26755396 AC
131 AC
*
26755398 TGGCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
* *
26755463 ACTGTTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGAAAGTAGAATT
66 ACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
26755528 AC
131 AC
* * *
26755530 TAGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
* *
26755595 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAATT
66 ACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
*
26755660 AT
131 AC
* *
26755662 TGGCTTCAATGTACTCCACTGTAACCACAGGTAGGTAAAATCCACCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
* * * *
26755727 ACTGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTATTGCCCAGGGAAATAGAATT
66 ACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
26755792 AC
131 AC
*
26755794 TGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
* * *
26755859 ACTGCTTAGGGAAATAAGATCTGAAATCTTCAATCTATTCCACTGTTGTCCAAGGAAGTAGAATT
66 ACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
26755924 AC
131 AC
* * *
26755926 TGGCTTTAATGTACTCCACTGTAACCACATGGAGGTAAAATCTGCCATCTTCGATCTGCT
1 TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCT
26755986 TCGCTGTCAA
Statistics
Matches: 685, Mismatches: 35, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
132 646 0.94
133 12 0.02
134 2 0.00
135 25 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
ACTGCTTAGGGAGATAAGACCTGAAATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATT
AC
Found at i:26755385 original size:44 final size:45
Alignment explanation
Indices: 26755180--26755512 Score: 129
Period size: 44 Copynumber: 7.6 Consensus size: 45
26755170 AAACTCCGCC
* ** *
26755180 ATCTTCGATCTACTCCACTACTG-CTTAGGGAGATAAGACCTGAA
1 ATCTTCAATCTACTCCACTGTTGTCATAGGGAGATAAGACCTGAA
* * *
26755224 ATCTTCAATCTATTCCACTGTTGTC-TAGGGAAGTAGAATTA-CTG--
1 ATCTTCAATCTACTCCACTGTTGTCATAGGG-AG-ATAA-GACCTGAA
* * *** * * * **
26755268 -GCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCC-GCC
1 ATCTTCAATCTACTCCACTGTTGTCATAGGGAGATAAGA-CCTGAA
* ** *
26755312 ATCTTCGATCTACTCCACTACTG-CTTAGGGAGATAAGACCTGAA
1 ATCTTCAATCTACTCCACTGTTGTCATAGGGAGATAAGACCTGAA
* * *
26755356 ATCTTCAATCTATTCCACTGTTGTC-TAGGGAAGTAGAATTA-CTG--
1 ATCTTCAATCTACTCCACTGTTGTCATAGGG-AG-ATAA-GACCTGAA
* * *** * * * **
26755400 -GCTTCAATATACTCCACTGTAACCACAGGGAGGTAAAATCC-GCC
1 ATCTTCAATCTACTCCACTGTTGTCATAGGGAGATAAGA-CCTGAA
* * ** *
26755444 ATCTTCGATCTGCTCCACTACTGT-TTAGGGAGATAAGACCTGAA
1 ATCTTCAATCTACTCCACTGTTGTCATAGGGAGATAAGACCTGAA
*
26755488 ATCTTCAATCTATTCCACTGTTGTC
1 ATCTTCAATCTACTCCACTGTTGTC
26755513 CAGGAAAGTA
Statistics
Matches: 201, Mismatches: 65, Indels: 45
0.65 0.21 0.14
Matches are distributed among these distances:
41 2 0.01
42 6 0.03
43 46 0.23
44 98 0.49
45 35 0.17
46 12 0.06
47 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTTCAATCTACTCCACTGTTGTCATAGGGAGATAAGACCTGAA
Found at i:26755769 original size:44 final size:44
Alignment explanation
Indices: 26755708--26755902 Score: 121
Period size: 44 Copynumber: 4.4 Consensus size: 44
26755698 AAAATCCACC
* * * *
26755708 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAAATAAGATCTGAA
* * *
26755752 ATCTTCAATCTATTCCACTATTGCCCAGGGAAAT-AGAATTACTG--
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAAATAAG-A-T-CTGAA
* * * * ** * * **
26755796 -GCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTACT--GCTCAGGGAAATAAGATCTGAA
* * *
26755840 ATCTTCGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTGAA
1 ATCTTCAATCTACTCCACTACTGCTCAGGGAAATAAGATCTGAA
*
26755884 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
26755903 GTTGTCCAAG
Statistics
Matches: 109, Mismatches: 32, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
42 3 0.03
43 19 0.17
44 66 0.61
45 17 0.16
46 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTGCTCAGGGAAATAAGATCTGAA
Found at i:26761492 original size:4 final size:4
Alignment explanation
Indices: 26761485--26761518 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
26761475 ATTTATTTAT
*
26761485 ATAA ATAA ATGA ATAA ATAAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA AT-AA ATAA ATAA ATAA A
26761519 ATTCAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:26761528 original size:13 final size:13
Alignment explanation
Indices: 26761485--26761520 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
26761475 ATTTATTTAT
*
26761485 ATAAAT-AAATGA
1 ATAAATAAAATAA
26761497 ATAAATAAAATAA
1 ATAAATAAAATAA
26761510 ATAAATAAAAT
1 ATAAATAAAAT
26761521 TCAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (13 bp):
ATAAATAAAATAA
Done.