Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 128 of 352
Found at i:41191197 original size:27 final size:27
Alignment explanation
Indices: 41191166--41191383 Score: 249
Period size: 27 Copynumber: 8.1 Consensus size: 27
41191156 AACACCCTAG
* * *
41191166 GGGTAAAATGGGAATTTTATAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
41191193 AGGTAAAACGGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* * *
41191220 GAGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
* *
41191247 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
41191274 GGATAAAA-GAGTAATTTTGTAAATCGA
1 GGGTAAAACG-GTAATTTTGTAAATCGA
** *
41191301 GGGTAGGACGGTAATTTTGTAAATCGC
1 GGGTAAAACGGTAATTTTGTAAATCGA
** *
41191328 GGGTAAAATAGTAATTTTTTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
*
41191355 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTTTGTAAATCGA
41191382 GG
1 GG
41191384 ATATTTTGGT
Statistics
Matches: 162, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 160 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.29
Consensus pattern (27 bp):
GGGTAAAACGGTAATTTTGTAAATCGA
Found at i:41191380 original size:81 final size:81
Alignment explanation
Indices: 41191166--41191383 Score: 283
Period size: 81 Copynumber: 2.7 Consensus size: 81
41191156 AACACCCTAG
* * * * * *
41191166 GGGTAAAATGGGAATTTTATAAATCGAAGGTAAAACGGTAATTCTGTAAATCAAGAGTAAAACAG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAG
41191231 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * * * ** *
41191247 GGGTAAAATGGTAATTCTGTAAATCGAGGATAAAAGAGTAATTTTGTAAATCGAGGGTAGGACGG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAG
* *
41191312 TAATTTTGTAAATCGC
66 TAATTCTGTAAATCGA
* *
41191328 GGGTAAAATAGTAATTTTTTAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGG
1 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGG
41191384 ATATTTTGGT
Statistics
Matches: 117, Mismatches: 20, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 117 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.29
Consensus pattern (81 bp):
GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAG
TAATTCTGTAAATCGA
Found at i:41191416 original size:27 final size:27
Alignment explanation
Indices: 41191392--41191461 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
41191382 GGATATTTTG
* * *
41191392 GTAATCCTATCCTACATGGGCATTTCA
1 GTAATCCTACCCTACAAGGGCATTTAA
* *
41191419 GTAATTCTACCCTACAAGGGTATTTAA
1 GTAATCCTACCCTACAAGGGCATTTAA
* *
41191446 GTAATGCTAGCCTACA
1 GTAATCCTACCCTACA
41191462 GATATGAGAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (27 bp):
GTAATCCTACCCTACAAGGGCATTTAA
Found at i:41193313 original size:6 final size:6
Alignment explanation
Indices: 41193295--41193437 Score: 114
Period size: 6 Copynumber: 23.3 Consensus size: 6
41193285 AAGAAACATT
* *
41193295 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
41193344 ATCAGA ATCAGA ATCAGA ATCAGA ATCAAA ATCAAA ATTAG- GTGACAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
41193393 ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
41193438 GTGAATGCAA
Statistics
Matches: 110, Mismatches: 16, Indels: 22
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.05
6 93 0.85
7 9 0.08
8 3 0.03
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:41193357 original size:49 final size:49
Alignment explanation
Indices: 41193295--41193434 Score: 194
Period size: 49 Copynumber: 2.8 Consensus size: 49
41193285 AAGAAACATT
*
41193295 ATCAGAA-CTAGAATCAGAATCAGAATCAAAATCAGAATCAGGTGACAGA
1 ATCAGAATC-AGAATCAGAATCAGAATCAAAATCAAAATCAGGTGACAGA
*
41193344 ATCAGAATCAGAATCAGAATCAGAATCAAAATCAAAATTAGGTGACAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAAAATCAAAATCAGGTGACAGA
* * *
41193393 ATTAGAATCAGAATCAGTATCAGGTAA-CAGAATCAAAATCAG
1 ATCAGAATCAGAATCAGAATCA-G-AATCAAAATCAAAATCAG
41193435 AATGTGAATG
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
49 65 0.79
50 15 0.18
51 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.17, T:0.19
Consensus pattern (49 bp):
ATCAGAATCAGAATCAGAATCAGAATCAAAATCAAAATCAGGTGACAGA
Found at i:41193393 original size:31 final size:31
Alignment explanation
Indices: 41193358--41193433 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
41193348 GAATCAGAAT
* *
41193358 CAGAATCAGAATCAAAATCAAAATTAGGTGA
1 CAGAATCAGAATCAAAATCAAAATCAGGTAA
* * **
41193389 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAAAATCAGGTAA
*
41193420 CAGAATCAAAATCA
1 CAGAATCAGAATCA
41193434 GAATGTGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (31 bp):
CAGAATCAGAATCAAAATCAAAATCAGGTAA
Found at i:41193763 original size:67 final size:67
Alignment explanation
Indices: 41193616--41193765 Score: 228
Period size: 67 Copynumber: 2.2 Consensus size: 67
41193606 AAATAGATGT
*
41193616 ATATATGTGGCGAAGCCACCAAATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAAATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAAC
41193681 AA
66 AA
* * * * * *
41193683 ATATATGTGGCGAGGCCACTAGATTGCAGTGAGGCTGCTAGATATTGTGACGAAGTCACCAGAAT
1 ATATATGTGGCGAGGCCACCAAATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAAC
*
41193748 AG
66 AA
41193750 ATATATGTGGCGAGGC
1 ATATATGTGGCGAGGC
41193766 TGCCAGAACG
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 75 1.00
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAAATTGCAGCGAGGCTACCAGATATTGTGACGAAGTCACCAGAAC
AA
Found at i:41194022 original size:27 final size:27
Alignment explanation
Indices: 41193987--41194205 Score: 260
Period size: 27 Copynumber: 8.1 Consensus size: 27
41193977 TTAACACCCT
* *
41193987 AGGGATAAAATGGTAATTTTATAAATCG
1 AGGG-TAAAACGGTAATTTTGTAAATCG
* *
41194015 AGGGTAAAACGGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTTTGTAAATCG
* * * *
41194042 AGAGTAAAACAGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
* *
41194069 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
** *
41194096 AGGAG-AAAATAGTAATTTTTTAAATCG
1 AGG-GTAAAACGGTAATTTTGTAAATCG
* *
41194123 AGAGTAAGACGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
* *
41194150 AAGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
41194177 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
41194204 AG
1 AG
41194206 AGTATTTTGG
Statistics
Matches: 164, Mismatches: 25, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 158 0.96
28 5 0.03
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTTTGTAAATCG
Found at i:41194058 original size:54 final size:55
Alignment explanation
Indices: 41193999--41194209 Score: 304
Period size: 54 Copynumber: 3.9 Consensus size: 55
41193989 GGATAAAATG
41193999 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATC-AAGAGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGAGTAAAACA
* * * *
41194053 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGAG-AAAATA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGAGTAAAACA
* * * *
41194107 GTAATTTTTTAAATCGAGAGTAAGACGGTAATTTTGTAAATCGAAG-GTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGAGTAAAACA
* *
41194161 GTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCG-AGAGTA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGAGTA
41194210 TTTTGGTAAT
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
53 3 0.02
54 132 0.95
55 4 0.03
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (55 bp):
GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAAGAGTAAAACA
Found at i:41194111 original size:81 final size:81
Alignment explanation
Indices: 41193987--41194209 Score: 295
Period size: 81 Copynumber: 2.7 Consensus size: 81
41193977 TTAACACCCT
* * *
41193987 AGGGATAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGAGTAAAAC
1 AGGG-TAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGAGTAAAAC
41194052 AGTAATTCTATAAATCG
65 AGTAATTCTATAAATCG
* ** * *
41194069 AGGGTAAAACGGTAATTCTATAAATCGAGGAG-AAAATAGTAATTTTTTAAATCGAGAGTAAGAC
1 AGGGTAAAACGGTAATTTTATAAATCGAGG-GTAAAACGGTAATTTTGTAAATCGAGAGTAAAAC
* * *
41194133 GGTAATTTTGTAAATCG
65 AGTAATTCTATAAATCG
* * *
41194150 AAGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGAGTA
1 AGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGAGTA
41194210 TTTTGGTAAT
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
80 1 0.01
81 115 0.95
82 5 0.04
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.29
Consensus pattern (81 bp):
AGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGAGTAAAACA
GTAATTCTATAAATCG
Found at i:41199321 original size:55 final size:55
Alignment explanation
Indices: 41199234--41199488 Score: 250
Period size: 55 Copynumber: 4.8 Consensus size: 55
41199224 ATTAGGGTTT
*
41199234 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAA-AGA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCATAAGA-A
* * * * * *
41199289 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-ATAA-GAA
* *
41199345 AAGG-T-CCAATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGAA
1 AAGGATACC-ATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGAA
*
41199397 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-----AA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGAA
* * *
41199446 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
41199489 GTACCTGCAT
Statistics
Matches: 170, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
49 42 0.25
52 6 0.04
53 38 0.22
54 16 0.09
55 63 0.37
56 5 0.03
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.21
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCATAAGAA
Found at i:41199440 original size:108 final size:110
Alignment explanation
Indices: 41199243--41199441 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
41199233 TAAGGATACC
*
41199243 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAAGAAAGGAAATCATGTAAGACC
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAAGAAAGGAAACCATGTAAGACC
*
41199308 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCA
66 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCA
* *
41199353 ATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTC-ATAAGAAAAGGATACCATGTAAGA
1 ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTA-AAG-AAAGGAAACCATGTAAGA
*
41199414 CCATGTCAAGACATGGCAATGGTAAGTT
64 CCATGTCAAGACATGGCAATGATAAGTT
41199442 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
106 1 0.01
107 6 0.07
108 43 0.52
109 7 0.09
110 25 0.30
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAAGAAAGGAAACCATGTAAGACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCA
Found at i:41199464 original size:49 final size:49
Alignment explanation
Indices: 41199395--41199488 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
41199385 AGTTCATAAG
* *
41199395 AAAAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTTC
1 AAAAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTTC
*
41199444 AAAAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAAAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAG
41199489 GTACCTGCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (49 bp):
AAAAGGATACCACGTAAGACCATGACAAGACATGGCAATGGTAAGTTTC
Found at i:41199678 original size:16 final size:16
Alignment explanation
Indices: 41199657--41199687 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41199647 ATAAATTTGA
41199657 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
41199673 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
41199688 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:41207333 original size:40 final size:41
Alignment explanation
Indices: 41207276--41207525 Score: 264
Period size: 40 Copynumber: 6.3 Consensus size: 41
41207266 CAAACGGGGT
* * * *
41207276 TAAGTCCTGAAGACATTTGTGCTAGTGATTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
41207316 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * *
41207356 TAAGTACTGAAGGCATTTGTGCGAGTTACTAAT-TCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * *
41207396 TAAGTCTCGAAGGCATTTGTGCAAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* *
41207436 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
* * * * *
41207476 TAAGACCCGATGGC-CTTGTGCGAGTG-GTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
*
41207514 TAAATCCCGAAG
1 TAAGTCCCGAAG
41207526 ATAATTGGGT
Statistics
Matches: 182, Mismatches: 25, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
38 12 0.07
39 18 0.10
40 152 0.84
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (41 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATATCCGGGC
Found at i:41210351 original size:55 final size:53
Alignment explanation
Indices: 41210243--41210450 Score: 201
Period size: 55 Copynumber: 3.8 Consensus size: 53
41210233 ATTAGGGTTT
* * *
41210243 AAGGATACCATGTAAGACCATGCCAAG-GCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGAG-ATGG-CATTGATAA-G-TTCATAAGGC
* *
41210298 AAGGAAATCATGTAAGACCATGTCAAGAGATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGAGATGGCATTGATAAGTT-C-ATAAGGC
* * *
41210353 AAAGG-TCCCATGTAAGACCATGCCAAG-GCATGGCATT-AGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGAG-ATGGCATTGA-TAAGTTCATAAGGC
* * *
41210406 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGAGATGGCATTGATAAGTT
41210451 TCGAAAGGAT
Statistics
Matches: 127, Mismatches: 16, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
52 6 0.05
53 41 0.32
54 10 0.08
55 65 0.51
56 5 0.04
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGAGATGGCATTGATAAGTTCATAAGGC
Found at i:41210449 original size:108 final size:110
Alignment explanation
Indices: 41210250--41210450 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
41210240 TTTAAGGATA
* *
41210250 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
* *
41210315 CCATGTCAAGAGATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
41210360 CCATGTAAGACCATGCCAAGGCATGG-CATTAGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
41210422 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
41210451 TCGAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 6 0.07
110 26 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTAGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:41210687 original size:16 final size:16
Alignment explanation
Indices: 41210666--41210696 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
41210656 ATAAATTTGA
41210666 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
41210682 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
41210697 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:41217986 original size:53 final size:53
Alignment explanation
Indices: 41217812--41218014 Score: 185
Period size: 55 Copynumber: 3.8 Consensus size: 53
41217802 ATTAGGGTGT
* * *
41217812 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTTGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGT--GATTTCATAAGGC
* * * * * * ** * *
41217867 AAGGAAATCATGTAAGACCATGTCAATAAATGCCATTAATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTGA-TTTC-ATAAGGC
* *
41217922 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGATTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTGATTTCATAAGGC
* *
41217975 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT
41218015 AAGTTTCAAA
Statistics
Matches: 115, Mismatches: 28, Indels: 12
0.74 0.18 0.08
Matches are distributed among these distances:
52 4 0.03
53 41 0.36
54 7 0.06
55 59 0.51
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTGATTTCATAAGGC
Found at i:41222887 original size:14 final size:15
Alignment explanation
Indices: 41222854--41222887 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
41222844 AGAAATCACA
41222854 GAAAATAAATTTTGG
1 GAAAATAAATTTTGG
*
41222869 GAAAATACATTTT-G
1 GAAAATAAATTTTGG
41222883 GAAAA
1 GAAAA
41222888 CACGATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.50, C:0.03, G:0.18, T:0.29
Consensus pattern (15 bp):
GAAAATAAATTTTGG
Found at i:41224498 original size:25 final size:25
Alignment explanation
Indices: 41224467--41224587 Score: 100
Period size: 25 Copynumber: 4.8 Consensus size: 25
41224457 ACGTTTCGAC
*
41224467 CTACAACTCGTGTGAGCATACCAAT
1 CTACAGCTCGTGTGAGCATACCAAT
* * * ** *
41224492 TTACAACTTGTCAGATCATACCAAT
1 CTACAGCTCGTGTGAGCATACCAAT
** *
41224517 CTACAGCTCAAGTGAGCATACCGAT
1 CTACAGCTCGTGTGAGCATACCAAT
* *
41224542 CTACAGCTCGAGTGAGCATACCGAT
1 CTACAGCTCGTGTGAGCATACCAAT
* *
41224567 -TCACAGCTCGTATGGGCATAC
1 CT-ACAGCTCGTGTGAGCATAC
41224588 ATGTACAAGA
Statistics
Matches: 77, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
24 1 0.01
25 76 0.99
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (25 bp):
CTACAGCTCGTGTGAGCATACCAAT
Found at i:41224787 original size:13 final size:13
Alignment explanation
Indices: 41224769--41224815 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
41224759 ACATAGTATA
41224769 TGGATGATTGAAT
1 TGGATGATTGAAT
41224782 TGGATGA-T-ACAT
1 TGGATGATTGA-AT
*
41224794 ATGGATAATTGAAT
1 -TGGATGATTGAAT
41224808 TGGATGAT
1 TGGATGAT
41224816 ACATGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
11 1 0.04
12 3 0.11
13 20 0.71
14 3 0.11
15 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.28, T:0.36
Consensus pattern (13 bp):
TGGATGATTGAAT
Found at i:41224804 original size:26 final size:26
Alignment explanation
Indices: 41224766--41224819 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
41224756 GTTACATAGT
*
41224766 ATATGGATGATTGAATTGGATGATAC
1 ATATGGATAATTGAATTGGATGATAC
41224792 ATATGGATAATTGAATTGGATGATAC
1 ATATGGATAATTGAATTGGATGATAC
41224818 AT
1 AT
41224820 GTATATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (26 bp):
ATATGGATAATTGAATTGGATGATAC
Found at i:41227929 original size:35 final size:35
Alignment explanation
Indices: 41227883--41227956 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 35
41227873 AAAAAGGGTT
41227883 AGAATCGAGATTGAATTGAAGGATTGCCTAATTAC
1 AGAATCGAGATTGAATTGAAGGATTGCCTAATTAC
*
41227918 AGAATCGAGATTGAATTGAAGGATTGCCTAATTAG
1 AGAATCGAGATTGAATTGAAGGATTGCCTAATTAC
41227953 AGAA
1 AGAA
41227957 AGAGGTAGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (35 bp):
AGAATCGAGATTGAATTGAAGGATTGCCTAATTAC
Found at i:41228873 original size:16 final size:16
Alignment explanation
Indices: 41228849--41228885 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
41228839 TTTAAAAAGG
*
41228849 AAAACAAATGAATCTT
1 AAAAAAAATGAATCTT
*
41228865 AAAAAAAATGAGTCTT
1 AAAAAAAATGAATCTT
41228881 AAAAA
1 AAAAA
41228886 CTTAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.62, C:0.08, G:0.08, T:0.22
Consensus pattern (16 bp):
AAAAAAAATGAATCTT
Found at i:41243480 original size:40 final size:40
Alignment explanation
Indices: 41243334--41243481 Score: 181
Period size: 40 Copynumber: 3.7 Consensus size: 40
41243324 TGAATGATAT
* * * * *
41243334 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-TATAC
* *
41243374 CCGGGCTAAGATCCGAAGGCATTTGTGCGAGTTGATATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
* *
41243414 CCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
* *
41243454 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
41243482 TTGTGGTTAT
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 92 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATATAC
Found at i:41243493 original size:80 final size:80
Alignment explanation
Indices: 41243330--41243501 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
41243320 CATTTGAATG
* * * * * * *
41243330 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCAAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
41243395 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
41243410 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCAAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
41243474 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
41243490 ATATCC-GGCTAA
1 ATATCCGGGCTAA
41243502 ATTCTGAAGA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 6 0.08
80 69 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCAAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:41250750 original size:28 final size:29
Alignment explanation
Indices: 41250718--41250814 Score: 103
Period size: 28 Copynumber: 3.4 Consensus size: 29
41250708 AATAAGCCCA
*
41250718 CACACTTAGTGCTTA-ATAGTCGAACTCG
1 CACACTTAGTGCTTACATAATCGAACTCG
*
41250746 CACACTTAGTGC-TATATAATC-AACCTCG
1 CACACTTAGTGCTTACATAATCGAA-CTCG
* * *
41250774 CACACTTAGTGCTATACA-ATTTGAACCCG
1 CACACTTAGTGCT-TACATAATCGAACTCG
41250803 CACACTTAGTGC
1 CACACTTAGTGC
41250815 CAATCTCATG
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 33 0.56
29 17 0.29
30 5 0.08
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (29 bp):
CACACTTAGTGCTTACATAATCGAACTCG
Found at i:41258750 original size:28 final size:29
Alignment explanation
Indices: 41258718--41258789 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
41258708 ATAATAAGCC
*
41258718 CGCACACTTAGTGCTTA-ATAGTCGAA-CT
1 CGCACACTTAGTGCTTATATAATC-AACCT
41258746 CGCACACTTAGTGCTTATATAATCAACCT
1 CGCACACTTAGTGCTTATATAATCAACCT
41258775 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
41258790 ATACAATTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
28 19 0.46
29 22 0.54
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAACCT
Found at i:41258813 original size:30 final size:27
Alignment explanation
Indices: 41258716--41258818 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 27
41258706 GTATAATAAG
*
41258716 CCCGCACACTTAGTGCT-TAATAGTCGAA
1 CCCGCACACTTAGTGCTATAA-A-TTGAA
* *
41258744 CTCGCACACTTAGTGCTTATATAA-TCAA
1 CCCGCACACTTAGTGC-TATA-AATTGAA
41258772 CCTCGCACACTTAGTGCTATACAATTTGAA
1 CC-CGCACACTTAGTGCTATA-AA-TTGAA
41258802 CCCGCCACACTTAGTGC
1 CCCG-CACACTTAGTGC
41258819 CCAATCTCAT
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
28 24 0.39
29 17 0.27
30 20 0.32
31 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (27 bp):
CCCGCACACTTAGTGCTATAAATTGAA
Found at i:41265479 original size:21 final size:20
Alignment explanation
Indices: 41265421--41265481 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 20
41265411 TTTTATTTTG
41265421 ATAAAAATAATTAATATTATAT
1 ATAAAAAT-ATTAA-ATTATAT
* *
41265443 TTAATCAAA-ATAAAATTATAT
1 ATAA--AAATATTAAATTATAT
41265464 ATAAGAAATATTAAATTA
1 ATAA-AAATATTAAATTA
41265482 ATGTTTAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
20 3 0.10
21 18 0.58
22 7 0.23
24 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAAATATTAAATTATAT
Found at i:41269734 original size:46 final size:47
Alignment explanation
Indices: 41269642--41269855 Score: 192
Period size: 46 Copynumber: 4.6 Consensus size: 47
41269632 GTGCCAATGC
* * *
41269642 CATGTCCCAGACATGGTCTTACATTGACAC-A--TCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTATGTCTCG-AGGCCGATG
*
41269687 CATGTCTCAGACATGTCTTACACTGGCT-TATGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTATGTCTCGAGGCCGATG
* * * * * *
41269733 CATGTCCTAGACATATCTTACACTAGCTCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTATGTCTCGAGGCCGATG
* ** *
41269779 TCATGTCCCGGACATGGTCTTACACTGGCTCTCAT-AAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCT-ATGTCTCGAGGCCGATG
*
41269827 CATGTCCCAGACATGTCTTACACTAGCTC
1 CATGTCCCAGACATGTCTTACACTGGCTC
41269856 ACATGCATGA
Statistics
Matches: 137, Mismatches: 23, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
44 12 0.09
45 14 0.10
46 63 0.46
47 26 0.19
48 21 0.15
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTATGTCTCGAGGCCGATG
Found at i:41269799 original size:94 final size:92
Alignment explanation
Indices: 41269680--41269855 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 92
41269670 ACATCTCGTA
* ** *
41269680 GCCGATGCATGTCTCAGACATGTCTTACACTGGCT-T-ATGTCTCGAGGCCGATGCATGTCCTAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-AAT-GAGGCCGATGCATGTCCCAG
41269743 ACATATCTTACACTAGCTCTCGTCTCAAT
64 ACATATCTTACACTAGCTCTCGTCTCAAT
* *
41269772 GCCGATGTCATGTCCCGGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAG
*
41269837 ACATGTCTTACACTAGCTC
64 ACATATCTTACACTAGCTC
41269856 ACATGCATGA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 7 0.10
93 12 0.16
94 50 0.68
95 2 0.03
96 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGAC
ATATCTTACACTAGCTCTCGTCTCAAT
Found at i:41273164 original size:86 final size:85
Alignment explanation
Indices: 41273020--41273179 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 85
41273010 GACAAGTACA
* * * *
41273020 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATTCAGTATCGATGCCTCTATCCCAGACAGGAT
1 ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAGAATCGATGCCTCTATCCCAGACACGAT
*
41273085 CTTATACGAAAACAGATACG
66 CTTACACGAAAACAGATACG
* * *
41273105 ATGCCGATG-CCCTAGACATGGTCTTACACGTAAATTTCA-AATCGATGCCTGTGTCCCAGACAC
1 ATGCCGACGTCCC-AGACATGGTCTTACACGT-AA-TTCAGAATCGATGCCTCTATCCCAGACAC
41273168 GATCTTACACGA
63 GATCTTACACGA
41273180 TAATTCAGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
84 3 0.05
85 24 0.38
86 33 0.52
87 4 0.06
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (85 bp):
ATGCCGACGTCCCAGACATGGTCTTACACGTAATTCAGAATCGATGCCTCTATCCCAGACACGAT
CTTACACGAAAACAGATACG
Found at i:41273166 original size:44 final size:43
Alignment explanation
Indices: 41273028--41273186 Score: 116
Period size: 43 Copynumber: 3.7 Consensus size: 43
41273018 CAATGCCGAC
* * * *
41273028 GTCCCAGACGTGGTCTTACATGT-AATTCAGTATCGATGCCTCT
1 GTCCCAGACATGGTCTTACACGTAAATTCA-AATCGATGCCTGT
* * * *
41273071 ATCCCAGACA-GGATCTTATACG-AAA-ACAGATACGATGCC-GAT
1 GTCCCAGACATGG-TCTTACACGTAAATTCAAAT-CGATGCCTG-T
41273113 G-CCCTAGACATGGTCTTACACGTAAATTTCAAATCGATGCCTGT
1 GTCCC-AGACATGGTCTTACACGTAAA-TTCAAATCGATGCCTGT
* *
41273157 GTCCCAGACACGATCTTACACG-ATAATTCA
1 GTCCCAGACATGGTCTTACACGTA-AATTCA
41273187 GATTAATACC
Statistics
Matches: 91, Mismatches: 13, Indels: 24
0.71 0.10 0.19
Matches are distributed among these distances:
41 5 0.05
42 25 0.27
43 27 0.30
44 26 0.29
45 8 0.09
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGTAAATTCAAATCGATGCCTGT
Found at i:41278225 original size:30 final size:31
Alignment explanation
Indices: 41278153--41278226 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
41278143 ACGGTTACTG
41278153 GGCCGAAGCCTTTTCATAAATCATATCACTA
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
* * *
41278184 AGCCAAAGCCTTTTCCTAAATCATATCACT-
1 GGCCGAAGCCTTTTCATAAATCATATCACTA
41278214 GGCCGAAGCCTTT
1 GGCCGAAGCCTTT
41278227 ACTATAAGCG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 11 0.29
31 27 0.71
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (31 bp):
GGCCGAAGCCTTTTCATAAATCATATCACTA
Found at i:41278474 original size:25 final size:25
Alignment explanation
Indices: 41278446--41278515 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
41278436 CGCTTTTAAT
*
41278446 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
41278471 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
41278496 AATTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
41278516 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:41279473 original size:27 final size:27
Alignment explanation
Indices: 41279443--41279528 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
41279433 GTAAATCTAC
41279443 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
41279470 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* **
41279496 AGAAAGTCAAGGGTATTTTTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
41279526 AAA
1 AAA
41279529 TTAGGGGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
26 1 0.02
27 22 0.46
28 7 0.15
29 17 0.35
30 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:41279546 original size:27 final size:27
Alignment explanation
Indices: 41279506--41279629 Score: 142
Period size: 27 Copynumber: 4.6 Consensus size: 27
41279496 AGAAAGTCAA
* * *
41279506 GGGTATTTTTGTAATTTTGTAAATTAG
1 GGGTATTTTGGTAATTTTATAAACTAG
* * *
41279533 GGGTAGTTTGGTAATTTTACAAA-TCG
1 GGGTATTTTGGTAATTTTATAAACTAG
* * *
41279559 AGGGTATTTCGGTAATTTCAGAAACTAG
1 -GGGTATTTTGGTAATTTTATAAACTAG
*
41279587 TGGTATTTTGGTAATTTTATAAACTAG
1 GGGTATTTTGGTAATTTTATAAACTAG
41279614 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
41279630 CTACCCTATA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 2 0.03
27 76 0.95
28 2 0.03
ACGTcount: A:0.27, C:0.05, G:0.24, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACTAG
Found at i:41279597 original size:54 final size:54
Alignment explanation
Indices: 41279428--41279629 Score: 176
Period size: 54 Copynumber: 3.7 Consensus size: 54
41279418 TACAAGGGTG
* * * * * *
41279428 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACTAGTGGTA
* * ** * *
41279482 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATTAGGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTATTTCGGTAATTTTGTAAACTAGTGGTA
* * *
41279538 GTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCAG-AAACTAGTGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTT-TGTAAACTAGTGGTA
* * *
41279592 TTTTGGTAATTTTATAAA-CTAGGGGTATTTTGGTAATT
1 TTTTGGTAATTTTACAAATC-AAGGGTATTTCGGTAATT
41279630 CTACCCTATA
Statistics
Matches: 117, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
53 1 0.01
54 65 0.56
55 17 0.15
56 34 0.29
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTTGTAAACTAGTGGTA
Found at i:41279602 original size:110 final size:108
Alignment explanation
Indices: 41279429--41279629 Score: 235
Period size: 110 Copynumber: 1.8 Consensus size: 108
41279419 ACAAGGGTGT
*
41279429 TTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTT
1 TTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTAGTAAACCAATGGTATTTCTATAA-TT
* *
41279494 TTAGAAAGTCAAGGGTATTTTTGTAATTTTGTAAATTAGGGGTAG
65 TTAGAAACT-AAGGGTATTTTGGTAATTTTGTAAATTAGGGGTAG
* * * * * * * *
41279539 TTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTCAG-AAACTAGTGGTATTT-TGGTAAT
1 TTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTT-AGTAAACCAATGGTATTTCT-ATAAT
* *
41279602 TTTATAAACTAGGGGTATTTTGGTAATT
64 TTTAGAAACTAAGGGTATTTTGGTAATT
41279630 CTACCCTATA
Statistics
Matches: 76, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
108 16 0.21
109 10 0.13
110 49 0.64
111 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (108 bp):
TTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTAGTAAACCAATGGTATTTCTATAATTT
TAGAAACTAAGGGTATTTTGGTAATTTTGTAAATTAGGGGTAG
Found at i:41279646 original size:81 final size:81
Alignment explanation
Indices: 41279507--41279659 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
41279497 GAAAGTCAAG
* * * * * *
41279507 GGTATTTTTGTAATTTTGTAAATTAGGGGTAGTTTGGTAATTTTACAAATCGAGGGTATTTCGGT
1 GGTATTTTGGTAATTTTATAAACTAGGGGTAGTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
41279572 AATTTCAGAAACTAGT
66 AATTTCAGAAACTAGT
* ** *
41279588 GGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTCTACCCTATAGA-GGTATTTTAG
1 GGTATTTTGGTAATTTTATAAACTAGGGGTAGTTTGGTAATTCTA-CAAATAGAGGGTATTTCAG
41279652 TAATTTCA
65 TAATTTCA
41279660 CAATCGAGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 56 0.92
82 5 0.08
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTATAAACTAGGGGTAGTTTGGTAATTCTACAAATAGAGGGTATTTCAGT
AATTTCAGAAACTAGT
Found at i:41279697 original size:27 final size:28
Alignment explanation
Indices: 41279661--41279752 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 28
41279651 GTAATTTCAC
*
41279661 AATCGAGGGTAAAACGA-TAATTTTGTA
1 AATCGAGGGTAAAACGAGTAATTTTATA
* *
41279688 AATTGAGGGTAAAA-TAGTAATTTTATA
1 AATCGAGGGTAAAACGAGTAATTTTATA
* * *
41279715 AATCAAGGGTAAAAC-AGTGATTCTATA
1 AATCGAGGGTAAAACGAGTAATTTTATA
41279742 AATCGAGGGTA
1 AATCGAGGGTA
41279753 CTTGGGTAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.02
27 54 0.98
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (28 bp):
AATCGAGGGTAAAACGAGTAATTTTATA
Found at i:41281232 original size:7 final size:8
Alignment explanation
Indices: 41281221--41281246 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
41281211 TGAAAAAAGA
41281221 AAAAAAAT
1 AAAAAAAT
41281229 AAAAAAAT
1 AAAAAAAT
41281237 AAAAAAAT
1 AAAAAAAT
41281245 AA
1 AA
41281247 CAATAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:41282365 original size:25 final size:25
Alignment explanation
Indices: 41282333--41282402 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
41282323 CTCTTTTAAT
* *
41282333 AACTGGGGCAAAGGCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
41282358 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
41282383 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
41282403 AGCAGTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:41283275 original size:27 final size:27
Alignment explanation
Indices: 41283213--41283290 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
41283203 GGGCATATTC
41283213 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
41283240 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
41283267 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
41283291 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:41283362 original size:27 final size:27
Alignment explanation
Indices: 41283331--41283382 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
41283321 GTAGATCTAC
41283331 AAACCAA-GGTTATTTC-AGTAATTTTGT
1 AAACCAATGG-TATTTCTA-TAATTTTGT
41283358 AAACCAATGGTATTTCTATAATTTT
1 AAACCAATGGTATTTCTATAATTTT
41283383 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (27 bp):
AAACCAATGGTATTTCTATAATTTTGT
Found at i:41283430 original size:27 final size:27
Alignment explanation
Indices: 41283393--41283519 Score: 121
Period size: 27 Copynumber: 4.7 Consensus size: 27
41283383 TAGAAAGTCA
* * ** *
41283393 AGGGGTTTTTTTGTAATTTTGTAAATT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
41283420 AGGGGTATTTTTTGTAATTTTACAAA-T
1 AGGGGTA-TTTTGGTAATTTTACAAACT
* * * *
41283447 CGAGGGTATTTCGGTAATTTCATAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACT
* *
41283475 AGTGGTATTTTCGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
41283502 AGGGGTATTTTGGTAATT
1 AGGGGTATTTTGGTAATT
41283520 CTACCCTATA
Statistics
Matches: 81, Mismatches: 16, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
27 58 0.72
28 23 0.28
ACGTcount: A:0.27, C:0.06, G:0.21, T:0.46
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:41283508 original size:54 final size:55
Alignment explanation
Indices: 41283405--41283519 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 55
41283395 GGGTTTTTTT
** * * *
41283405 GTAATTTTGTAAATTAGGGGTATTTTTTGTAATTTTACAAATCGAGGGTATTTCG
1 GTAATTTCATAAACTAGGGGTATTTTTCGTAATTTTACAAATAGAGGGTATTTCG
* *
41283460 GTAATTTCATAAACTAGTGGTA-TTTTCGTAATTTTACAAACTAG-GGGTATTTTG
1 GTAATTTCATAAACTAGGGGTATTTTTCGTAATTTTACAAA-TAGAGGGTATTTCG
41283514 GTAATT
1 GTAATT
41283520 CTACCCTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
54 32 0.62
55 20 0.38
ACGTcount: A:0.29, C:0.07, G:0.20, T:0.44
Consensus pattern (55 bp):
GTAATTTCATAAACTAGGGGTATTTTTCGTAATTTTACAAATAGAGGGTATTTCG
Found at i:41283588 original size:27 final size:27
Alignment explanation
Indices: 41283555--41283642 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
41283545 TTTCACAATT
*
41283555 GAGGGTAAAACGGTAATTTTGTAAATC
1 GAGGGTAAAACAGTAATTTTGTAAATC
*
41283582 GAGGGTAAAATAGTAATTTTGTAAATC
1 GAGGGTAAAACAGTAATTTTGTAAATC
* * * *
41283609 AAGGGTAAAACAGTGATTCTATAAATC
1 GAGGGTAAAACAGTAATTTTGTAAATC
41283636 GAGGGTA
1 GAGGGTA
41283643 CTTGGGTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (27 bp):
GAGGGTAAAACAGTAATTTTGTAAATC
Found at i:41287135 original size:30 final size:30
Alignment explanation
Indices: 41287101--41287161 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
41287091 TCCTTAACTC
41287101 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
41287131 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
41287161 A
1 A
41287162 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:41291489 original size:26 final size:26
Alignment explanation
Indices: 41291460--41291510 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
41291450 AGCTCGGGCA
41291460 TTCGCATCCATAAGTGAACTCGGACG
1 TTCGCATCCATAAGTGAACTCGGACG
41291486 TTCGCATCCATAAGTGAACTCGGAC
1 TTCGCATCCATAAGTGAACTCGGAC
41291511 TCAACTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (26 bp):
TTCGCATCCATAAGTGAACTCGGACG
Found at i:41292867 original size:21 final size:20
Alignment explanation
Indices: 41292833--41292877 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
41292823 AAAACAGGGC
41292833 ACACGCTCTGTGGAAG-GTTA
1 ACACGCTCTGTGGAAGAG-TA
41292853 ACACGCTCGTGTGGAAGAGTA
1 ACACGCTC-TGTGGAAGAGTA
41292874 ACAC
1 ACAC
41292878 ACCCGTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.35
21 14 0.61
22 1 0.04
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (20 bp):
ACACGCTCTGTGGAAGAGTA
Found at i:41293118 original size:27 final size:27
Alignment explanation
Indices: 41293047--41293124 Score: 119
Period size: 23 Copynumber: 3.0 Consensus size: 27
41293037 AAAAACTAAG
41293047 TGTGGGATCTATCCCATGCCAACACAT
1 TGTGGGATCTATCCCATGCCAACACAT
41293074 TGTGGG----ATCCCATGCCAACACAT
1 TGTGGGATCTATCCCATGCCAACACAT
*
41293097 TGTGGGATCTATCCCAAGCCAACACAT
1 TGTGGGATCTATCCCATGCCAACACAT
41293124 T
1 T
41293125 TGGCCAAATC
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
23 23 0.50
27 23 0.50
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (27 bp):
TGTGGGATCTATCCCATGCCAACACAT
Found at i:41293731 original size:46 final size:47
Alignment explanation
Indices: 41293672--41293810 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
41293662 TACATTGACA
*
41293672 CATCTC-ATAGCCGATGCACGTCCCAGACATGTCTTACACTAGCTCT
1 CATCTCAATAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
*
41293718 CATCTCAAT-GCCGATGCCATGTCCCAAACATGGTCTTACACT-GC-CT
1 CATCTCAATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT
* * * *
41293764 C-TCAT-AATGTGGTCGATGCATGTCCCAGATATGTTTTACACTAGCTC
1 CATC-TCAA--TAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
41293811 ACATGCATGA
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
45 4 0.05
46 26 0.33
47 31 0.40
48 17 0.22
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (47 bp):
CATCTCAATAGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT
Found at i:41293766 original size:48 final size:46
Alignment explanation
Indices: 41293672--41293768 Score: 126
Period size: 48 Copynumber: 2.1 Consensus size: 46
41293662 TACATTGACA
*
41293672 CATCTCATAGCCGATGCACGTCCCAGACATGTCTTACACTAGCTCT
1 CATCTCATAGCCGATGCACGTCCCAAACATGTCTTACACTAGCTCT
*
41293718 CATCTCA-ATGCCGATGCCATGTCCCAAACATGGTCTTACACT-GCCTCT
1 CATCTCATA-GCCGATG-CACGTCCCAAACAT-GTCTTACACTAG-CTCT
41293766 CAT
1 CAT
41293769 AATGTGGTCG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
45 1 0.02
46 14 0.31
47 13 0.29
48 17 0.38
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.27
Consensus pattern (46 bp):
CATCTCATAGCCGATGCACGTCCCAAACATGTCTTACACTAGCTCT
Found at i:41295961 original size:35 final size:35
Alignment explanation
Indices: 41295879--41295977 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
41295869 TTATGAATAT
* * ***
41295879 TCTAATTAC-GATTCATATGTTAAGCATGCTATTGT
1 TCTAATT-CTGATTCACATGTTAAGCATGCCATAAA
* *
41295914 TCTACTTATGATTCACATGTTAAGCATGCCATAAA
1 TCTAATTCTGATTCACATGTTAAGCATGCCATAAA
*
41295949 TCTAATTCTGATTCGCATGTTAAGCATGC
1 TCTAATTCTGATTCACATGTTAAGCATGC
41295978 AACTGTGTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.38
Consensus pattern (35 bp):
TCTAATTCTGATTCACATGTTAAGCATGCCATAAA
Found at i:41296143 original size:49 final size:50
Alignment explanation
Indices: 41296090--41296186 Score: 115
Period size: 50 Copynumber: 2.0 Consensus size: 50
41296080 TACGGAGGAA
* * * *
41296090 GTATCTGGCAATATATCTACAAT-TTTTGTTGGCTTAACCACAATATTAT
1 GTATCTGACAATATATCTACAATCATTTGGTGGCTCAACCACAATATTAT
* * * *
41296139 GTATCTGATAGTATATCTGCAATCATTTGGTGGCTCAGCCACAATATT
1 GTATCTGACAATATATCTACAATCATTTGGTGGCTCAACCACAATATT
41296187 CTAGTTTTGG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
49 19 0.49
50 20 0.51
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (50 bp):
GTATCTGACAATATATCTACAATCATTTGGTGGCTCAACCACAATATTAT
Found at i:41304167 original size:42 final size:42
Alignment explanation
Indices: 41304046--41304167 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
41304036 TACCGTACCA
*
41304046 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
** * ** * *
41304088 ATGTTAATAGCTTAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATG-CCATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
*
41304131 ATGCCATATCCCAGATATTGTCTTACATGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
41304168 GTAACCCTAA
Statistics
Matches: 61, Mismatches: 16, Indels: 6
0.73 0.19 0.07
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:41305267 original size:13 final size:13
Alignment explanation
Indices: 41305249--41305274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41305239 GCCCAAACGT
41305249 CAAAATTTTCAAA
1 CAAAATTTTCAAA
41305262 CAAAATTTTCAAA
1 CAAAATTTTCAAA
41305275 AAATTATTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
CAAAATTTTCAAA
Found at i:41307526 original size:40 final size:40
Alignment explanation
Indices: 41307471--41307628 Score: 271
Period size: 40 Copynumber: 4.0 Consensus size: 40
41307461 TGGAAAAAAA
**
41307471 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGTTGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
41307511 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
41307551 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * *
41307591 TATAATCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
41307629 GTTACATCCG
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 113 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:41307652 original size:80 final size:80
Alignment explanation
Indices: 41307486--41307654 Score: 230
Period size: 80 Copynumber: 2.1 Consensus size: 80
41307476 CCGGGTTAAG
**
41307486 TCCCGAAGGCATTCGTGTTGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* * * *
41307551 TATAACCGGGTTAAG
66 TACAACCGAGTCAAA
* * * *
41307566 TCCCGAAGGCATTCGTGCGGGTTATTATAATCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTTGT
1 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
*
41307631 TACATCCGAGTCAAA
66 TACAACCGAGTCAAA
*
41307646 TTCCGAAGG
1 TCCCGAAGG
41307655 TATTTATGTT
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
TACAACCGAGTCAAA
Found at i:41309361 original size:16 final size:16
Alignment explanation
Indices: 41309340--41309375 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
41309330 GTATGAAAAT
41309340 GGTTCGGCTAGGCTTG
1 GGTTCGGCTAGGCTTG
41309356 GGTTCGGCTAGGCTTG
1 GGTTCGGCTAGGCTTG
41309372 GGTT
1 GGTT
41309376 TTGAAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.06, C:0.17, G:0.44, T:0.33
Consensus pattern (16 bp):
GGTTCGGCTAGGCTTG
Found at i:41315771 original size:13 final size:14
Alignment explanation
Indices: 41315753--41315790 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
41315743 TATACGTACT
*
41315753 AAATAATATAAT-A
1 AAATAATAAAATGA
41315766 AAATAATAAAATGA
1 AAATAATAAAATGA
*
41315780 AAATAACAAAA
1 AAATAATAAAA
41315791 AAAAGAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (14 bp):
AAATAATAAAATGA
Found at i:41317506 original size:20 final size:20
Alignment explanation
Indices: 41317464--41317507 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
41317454 TCACATGCCT
* *
41317464 GTGTGGCTTGGGACATGCTC
1 GTGTGGCTTGGGACACGCCC
41317484 GTGTGGCTTGGGACACGCCC
1 GTGTGGCTTGGGACACGCCC
41317504 GTGT
1 GTGT
41317508 CCTCAGCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.23, G:0.41, T:0.27
Consensus pattern (20 bp):
GTGTGGCTTGGGACACGCCC
Found at i:41319729 original size:31 final size:31
Alignment explanation
Indices: 41319666--41319729 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
41319656 CCTTTTCATA
*
41319666 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGACGAAGCCT
** * *
41319697 TTTCATATTTCATATTATTGGGACGAATCCT
1 TTTCATATTTCATAACACTGGGACGAAGCCT
41319728 TT
1 TT
41319730 ACTGTAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGACGAAGCCT
Found at i:41319977 original size:24 final size:24
Alignment explanation
Indices: 41319923--41320041 Score: 163
Period size: 23 Copynumber: 5.0 Consensus size: 24
41319913 GCTTTATCAT
*
41319923 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
41319948 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
41319972 ACAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
41319995 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
41320018 ATAATTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
41320042 CACTTCCTCC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 44 0.51
24 30 0.35
25 12 0.14
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:41320115 original size:20 final size:20
Alignment explanation
Indices: 41320090--41320156 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
41320080 TTATGATTAC
*
41320090 ATCATGTGCATATCATAAAT
1 ATCATGTGCATATCATACAT
*
41320110 ATCATGTCCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41320130 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
41320150 ACCATGT
1 ATCATGT
41320157 TTATTAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:41320225 original size:25 final size:25
Alignment explanation
Indices: 41320193--41320240 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41320183 ATACATAAAC
* * *
41320193 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41320218 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
41320241 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41322419 original size:40 final size:40
Alignment explanation
Indices: 41322357--41322574 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
41322347 AAGCCAGGTA
* *
41322357 CCTTCGGGATTTA-ACCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
*
41322396 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
* * *
41322436 CCTTCGGGACTTAGCCCGGATACAGTGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
* *
41322476 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
* * *
41322516 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGC-GCAGATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACCA-ATG
41322556 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
41322575 TTATCATCCG
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.09
40 147 0.91
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
Found at i:41331124 original size:31 final size:31
Alignment explanation
Indices: 41331086--41331149 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
41331076 CCTTTTCATA
41331086 TTTCATATTTCATAACACTA-GGCCGAAGCCT
1 TTTCATATTTCATAACAC-AGGGCCGAAGCCT
**
41331117 TTTCATATTTCATATTACAGGGCCGAAGCCT
1 TTTCATATTTCATAACACAGGGCCGAAGCCT
41331148 TT
1 TT
41331150 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 1 0.03
31 29 0.97
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCATAACACAGGGCCGAAGCCT
Found at i:41331394 original size:24 final size:24
Alignment explanation
Indices: 41331357--41331461 Score: 160
Period size: 23 Copynumber: 4.4 Consensus size: 24
41331347 CTGGAGGCCT
*
41331357 AGCCTCTTTTAATAACTAGGGCAAA
1 AGCC-CTTTTAATAACTAGGGCATA
41331382 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
41331406 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
41331429 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
41331452 AGCCCTTTTA
1 AGCCCTTTTA
41331462 CACTTCCTCC
Statistics
Matches: 77, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
23 45 0.58
24 28 0.36
25 4 0.05
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTAGGGCATA
Found at i:41331537 original size:20 final size:20
Alignment explanation
Indices: 41331512--41331576 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
41331502 ATGATTACAT
*
41331512 CATGTGCATATCACACATAC
1 CATGTGCATATCATACATAC
**
41331532 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
41331552 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
41331572 CATGT
1 CATGT
41331577 TTATCAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:41333945 original size:28 final size:28
Alignment explanation
Indices: 41333887--41333951 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
41333877 ATTTACTAGA
* *
41333887 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTACGTATGCAAAATGACCATT
*
41333915 ATACACCTACGTATGCAAAATGACC-TCT
1 ATACCCCTACGTATGCAAAATGACCAT-T
41333943 ATACCCCTA
1 ATACCCCTA
41333952 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.28
Consensus pattern (28 bp):
ATACCCCTACGTATGCAAAATGACCATT
Found at i:41334088 original size:28 final size:27
Alignment explanation
Indices: 41334057--41334146 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 27
41334047 AGGGAGCGTC
*
41334057 CTGGTGGTTATGCCACAAACTATCTGTT
1 CTGGTGG-CATGCCACAAACTATCTGTT
* * *
41334085 CTGGTAGCCCTGCCACATA-TATCTGTT
1 CTGGT-GGCATGCCACAAACTATCTGTT
41334112 CTGGTGGCACTGCCAC-AACATATCTGTAT
1 CTGGTGGCA-TGCCACAAAC-TATCTGT-T
41334141 CTGGTG
1 CTGGTG
41334147 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
26 3 0.06
27 19 0.38
28 20 0.40
29 8 0.16
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCATGCCACAAACTATCTGTT
Found at i:41334115 original size:27 final size:27
Alignment explanation
Indices: 41334067--41334145 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 27
41334057 CTGGTGGTTA
*
41334067 TGCCACAAACTATCTGTTCTGGTAGCCC
1 TGCCACAAA-TATCTGTTCTGGTAGCAC
* *
41334095 TGCCACATATATCTGTTCTGGTGGCAC
1 TGCCACAAATATCTGTTCTGGTAGCAC
41334122 TGCCACAACATATCTGTATCTGGT
1 TGCCACAA-ATATCTGT-TCTGGT
41334146 GACTCTGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 23 0.51
28 16 0.36
29 6 0.13
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.32
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTAGCAC
Found at i:41334157 original size:29 final size:28
Alignment explanation
Indices: 41334067--41334157 Score: 89
Period size: 27 Copynumber: 3.2 Consensus size: 28
41334057 CTGGTGGTTA
*
41334067 TGCCACAA-ACTATCTGTTCTGGT-AGCCC
1 TGCCACAACA-TATCTGTTCTGGTGA-CAC
* *
41334095 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAACATATCTGTTCTGGTGACAC
*
41334122 TGCCACAACATATCTGTATCTGGTGACTC
1 TGCCACAACATATCTGT-TCTGGTGACAC
*
41334151 TGTCACA
1 TGCCACA
41334158 TTTTCAGTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
27 22 0.42
28 16 0.30
29 15 0.28
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAACATATCTGTTCTGGTGACAC
Found at i:41339251 original size:47 final size:47
Alignment explanation
Indices: 41339173--41339428 Score: 413
Period size: 47 Copynumber: 5.4 Consensus size: 47
41339163 CCCTTCGGGA
* * * * * *
41339173 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41339220 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41339267 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41339314 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41339361 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41339408 CTTATCACATATATACACTTT
1 CTTATCACATATATACACTTT
41339429 GTGACAGCCC
Statistics
Matches: 195, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 195 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41340437 original size:49 final size:49
Alignment explanation
Indices: 41340384--41340491 Score: 193
Period size: 49 Copynumber: 2.2 Consensus size: 49
41340374 GGGGTGTTAC
*
41340384 ACACTTTCACATTCATCACATCGGCCATTAGGTCTTATCACATATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
41340433 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
41340482 ACA--TTCACAT
1 ACACTTTCACAT
41340492 CACAATTATC
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
47 7 0.12
49 51 0.88
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.33
Consensus pattern (49 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
Found at i:41343649 original size:40 final size:40
Alignment explanation
Indices: 41343552--41343987 Score: 667
Period size: 40 Copynumber: 10.9 Consensus size: 40
41343542 CGAATACACG
* * * *
41343552 TCACCAGCATGATTGCTCTTTGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * ** *
41343592 -AACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
41343631 TCACTAGCACGAATGCTCTTCAGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
41343671 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
41343711 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
41343751 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
*
41343791 CCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* *
41343831 TCACTAGCTTGAATGCTTTTCGGGACTTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
*
41343871 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
*
41343911 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
41343951 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
41343988 CATTGTCGAG
Statistics
Matches: 362, Mismatches: 33, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 31 0.09
40 331 0.91
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:41344114 original size:38 final size:38
Alignment explanation
Indices: 41344040--41344117 Score: 104
Period size: 38 Copynumber: 2.1 Consensus size: 38
41344030 CCAGCGAATT
* *
41344040 TTAATCCGGACATAATCTCTGTACATAGCCATCGGGTC
1 TTAACCCGGACATAATCTCTGTACATAGCCAGCGGGTC
* *
41344078 TTAACCCGGACATAATCTCT-TCATATAGTCAGCGGGTC
1 TTAACCCGGACATAATCTCTGT-ACATAGCCAGCGGGTC
41344116 TT
1 TT
41344118 TAAACTCGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.03
38 34 0.97
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.31
Consensus pattern (38 bp):
TTAACCCGGACATAATCTCTGTACATAGCCAGCGGGTC
Found at i:41346329 original size:47 final size:47
Alignment explanation
Indices: 41346251--41346609 Score: 592
Period size: 47 Copynumber: 7.6 Consensus size: 47
41346241 CCCTTCGGGA
* * * * * *
41346251 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41346298 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41346345 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41346392 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41346439 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41346486 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41346533 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41346582 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
41346610 CACAATTATC
Statistics
Matches: 296, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 229 0.77
49 67 0.23
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41353179 original size:28 final size:28
Alignment explanation
Indices: 41353121--41353185 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
41353111 ATTTACTAGA
*
41353121 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
41353149 ATACCCCTATGTATTCAAAATGAGC-TCT
1 ATACCCCTATGTATGCAAAATGACCAT-T
41353177 ATACCCCTA
1 ATACCCCTA
41353186 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:41353349 original size:27 final size:27
Alignment explanation
Indices: 41353291--41353380 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
41353281 AGGAAGCATC
41353291 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
41353319 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
41353346 CTGGTGGCACTGCCACAACATATCTGTAT
1 CTGGTGGCACTGCCACAA-ATATCTGT-T
41353375 CTGGTG
1 CTGGTG
41353381 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:41360869 original size:14 final size:14
Alignment explanation
Indices: 41360850--41360883 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
41360840 TGTGTTTAGC
41360850 TTAA-TTTTTCTTTT
1 TTAATTTTTTC-TTT
41360864 TTAATTTTTTCTTT
1 TTAATTTTTTCTTT
41360878 TTAATT
1 TTAATT
41360884 GCTTCGGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (14 bp):
TTAATTTTTTCTTT
Found at i:41361195 original size:9 final size:9
Alignment explanation
Indices: 41361181--41361208 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
41361171 ATTGTTAGAC
41361181 CTACAATTG
1 CTACAATTG
41361190 CTACAATTG
1 CTACAATTG
41361199 CTACAATTG
1 CTACAATTG
41361208 C
1 C
41361209 CACAGTTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (9 bp):
CTACAATTG
Found at i:41368951 original size:55 final size:55
Alignment explanation
Indices: 41368854--41368964 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
41368844 CAAGCCTGCC
* * *
41368854 AAAACAACACGGGCGTGCAACACGCCTATGTGGAAGAACCGTGGGCGAACTTGTT
1 AAAACAACACGAGCGTGCAACACGCCCATGTGGAAGAACCGTGGGCGAACCTGTT
* * * * *
41368909 AAAACAGCACGAGCGTGCGACACGCCCATGT-GTAGCACCCGTGGTCGAACCTGTT
1 AAAACAACACGAGCGTGCAACACGCCCATGTGGAAG-AACCGTGGGCGAACCTGTT
41368964 A
1 A
41368965 GATTGACACG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 3 0.06
55 44 0.94
ACGTcount: A:0.29, C:0.27, G:0.28, T:0.16
Consensus pattern (55 bp):
AAAACAACACGAGCGTGCAACACGCCCATGTGGAAGAACCGTGGGCGAACCTGTT
Found at i:41378210 original size:48 final size:48
Alignment explanation
Indices: 41378142--41378658 Score: 872
Period size: 48 Copynumber: 10.8 Consensus size: 48
41378132 CAAGATAAAT
* * *
41378142 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
41378190 ATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * *
41378238 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
*
41378286 ATATGTATATGTGGTAAAGCCGAATGTCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
41378334 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * * *
41378382 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
41378430 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
41378478 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
41378526 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
* * * *
41378574 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
41378622 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
41378659 TGTTGTAACA
Statistics
Matches: 440, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 440 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
Found at i:41380811 original size:40 final size:40
Alignment explanation
Indices: 41380716--41381018 Score: 464
Period size: 40 Copynumber: 7.5 Consensus size: 40
41380706 AGTTGTATAG
*
41380716 CCGGGCTAAGTCCCGAAGAGCATTCGAGCTAGTGATGTATT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA-T
*
41380757 CCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
41380797 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAA
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
41380837 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
*
41380877 CCGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * *
41380917 TCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
* * * * *
41380957 CCGTGCTAA-ACCCTGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCC-GAAGAGCATTCGTGCTAGTGATGTAT
*
41380997 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
41381019 ATCTTGCTGG
Statistics
Matches: 241, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 199 0.83
41 40 0.17
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTAT
Found at i:41381244 original size:25 final size:25
Alignment explanation
Indices: 41381194--41381244 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
41381184 TGTGTAACAA
* *
41381194 CAAATGAATAGGGGCACTATGTGTG
1 CAAATGAATAGAGGCACTATGAGTG
*
41381219 CAAATGATTAGAGGCACTGA-GAGTG
1 CAAATGAATAGAGGCACT-ATGAGTG
41381244 C
1 C
41381245 GAGTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.33, C:0.14, G:0.31, T:0.22
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATGAGTG
Found at i:41384150 original size:48 final size:48
Alignment explanation
Indices: 41384082--41384591 Score: 782
Period size: 48 Copynumber: 10.8 Consensus size: 48
41384072 TACAAGATAA
* * * * *
41384082 ATATATATGTGTGGTGAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * *
41384130 ATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * *
41384178 ATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
41384226 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
41384274 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
*
41384322 ATATGTATATGTGGTAAAGCC-----G--AATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
41384363 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
41384411 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* * *
41384459 ATATGTATATGTGGTAAAGCCGAACGGCTAATGTGAAATATATGTGTG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
* *
41384507 ATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
41384555 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
41384592 TGTTGTAACA
Statistics
Matches: 427, Mismatches: 28, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
41 37 0.09
43 1 0.00
46 1 0.00
48 388 0.91
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
Found at i:41384518 original size:233 final size:233
Alignment explanation
Indices: 41384111--41384580 Score: 778
Period size: 233 Copynumber: 2.0 Consensus size: 233
41384101 CCGAATGGCT
* * * *
41384111 AATGTGAAATATATGTGTGATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTG
1 AATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
* *
41384176 TGATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATGTATGAGATATGTATATGTGGT
66 AGATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATATATGAGATATGTATATGTGGT
* *
41384241 AAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
131 AAAGCCGAACGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCGAAT
* *
41384306 GTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
196 GTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
*
41384344 AATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
1 AATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
* * * *
41384409 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGT
66 AGATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATATATGAGATATGTATATGTGGT
* *
41384474 AAAGCCGAACGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCGAAT
131 AAAGCCGAACGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCGAAT
*
41384539 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCG
196 GTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
41384577 AATG
1 AATG
41384581 GCTAATGTGA
Statistics
Matches: 219, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
233 219 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (233 bp):
AATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATG
AGATATGTATATGTGGTAAAGCCGAATGACGAATGTGAAATATATATGAGATATGTATATGTGGT
AAAGCCGAACGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCGAAT
GTGAAATATATATGAGATATGTATATGTGGTAAAGCCG
Found at i:41387587 original size:85 final size:85
Alignment explanation
Indices: 41387479--41387880 Score: 260
Period size: 86 Copynumber: 4.7 Consensus size: 85
41387469 GTTTGAACGG
* * *
41387479 AAAACGCCGCTAAAAGTAGATACCTTTAGCGGCGCTTTA-CCATAAACGCCGCTAATA-GTATAG
1 AAAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTACCCACAAACGCCACTAA-AGGTATAG
41387542 ACCTTTAGCGGCGCTT-AGCAA
65 ACCTTTAGCGGCGCTTCAG-AA
* * *
41387563 ACAAACGCCGCTAAAAGCACATACCTTTAGCGGCGTTTTACCCACAAACGCCACTAAAGGTGTAG
1 A-AAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTACCCACAAACGCCACTAAAGGTATAG
* *
41387628 ACCTTTAGCGGCGTTTCCAGGA
65 ACCTTTAGCGGCGCTT-CAGAA
* * * * *** * * * * *
41387650 AAAGCGCCGCTAAAAGTGCAAACCTTTAGCGGCGTTTGTTTGCA-AAGCGTCGCTAAAAGTACAG
1 AAAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTT-TACCCACAAACGCCACTAAAGGTATAG
* **
41387714 ACCTTTAGCGGAGCTTTTGCCCAA
65 ACCTTTAGCGGCGC--TT-CAGAA
* ** * * * * * * * *
41387738 AAAA-GCTGCTAAATTTACAGACCTATAGCGGCGC-TTACACCAAAAATGCCGCCAAAAGTACAG
1 AAAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTAC-CCACAAACGCCACTAAAGGTATAG
***
41387801 ACCTTTTAGCGGCGCTTTCTCCA
65 ACC-TTTAGCGGCGC-TTCAGAA
* * * * * *
41387824 CAAATGCCGCCAAAAGTAGAGT-CCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAA
1 AAAACGCCGCTAAAAGTACA-TACCTTTAGCGGCGCTTTACCCACAAACGCCACTAAA
41387881 TTTACAGATT
Statistics
Matches: 247, Mismatches: 57, Indels: 25
0.75 0.17 0.08
Matches are distributed among these distances:
84 1 0.00
85 37 0.15
86 101 0.41
87 86 0.35
88 22 0.09
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (85 bp):
AAAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTACCCACAAACGCCACTAAAGGTATAGA
CCTTTAGCGGCGCTTCAGAA
Found at i:41387589 original size:43 final size:42
Alignment explanation
Indices: 41387437--41387880 Score: 224
Period size: 43 Copynumber: 10.3 Consensus size: 42
41387427 TTATGTGAAA
* * *
41387437 AAACGCCACTAAAAGT-CATCACTTTTAGCGGCG-TTT-GAAC
1 AAACGCCGCTAAAAGTACAT-ACCTTTAGCGGCGCTTTACAAC
* * *
41387477 GGAAAACGCCGCTAAAAGTAGATACCTTTAGCGGCGCTTTACCAT
1 ---AAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTACAAC
* * *
41387522 AAACGCCGCTAATAGTATAGACCTTTAGCGGCGC-TTAGCAAAC
1 AAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTA-C-AAC
* * *
41387565 AAACGCCGCTAAAAGCACATACCTTTAGCGGCGTTTTACCCAC
1 AAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTA-CAAC
* * ** * *
41387608 AAACGCCACTAAAGGTGTAGACCTTTAGCGGCG-TTTCCAGGA-
1 AAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTACA--AC
* * ****
41387650 AAAGCGCCGCTAAAAGTGCAAACCTTTAGCGGCG-TTTGTTTGC
1 AAA-CGCCGCTAAAAGTACATACCTTTAGCGGCGCTTT-ACAAC
* * * *
41387693 AAAGCGTCGCTAAAAGTACAGACCTTTAGCGGAGCTTTTGCCCAA-
1 AAA-CGCCGCTAAAAGTACATACCTTTAGCGGCGC-TTT--ACAAC
* * ** * * *
41387738 AAAAGCTGCTAAATTTACAGACCTATAGCGGCGC-TTACACCAA
1 AAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTACA--AC
* * * * *
41387781 AAATGCCGCCAAAAGTACAGACCTTTTAGCGGCGCTTTCTCCAC
1 AAACGCCGCTAAAAGTACATACC-TTTAGCGGCGCTTT-ACAAC
* * * * *
41387825 AAATGCCGCCAAAAGTAGAGT-CCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAAGTACA-TACCTTTAGCGGCGCTTT-ACAAC
41387868 AAACGCCGCTAAA
1 AAACGCCGCTAAA
41387881 TTTACAGATT
Statistics
Matches: 315, Mismatches: 65, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
40 2 0.01
41 4 0.01
42 41 0.13
43 194 0.62
44 64 0.20
45 9 0.03
46 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (42 bp):
AAACGCCGCTAAAAGTACATACCTTTAGCGGCGCTTTACAAC
Found at i:41387664 original size:86 final size:82
Alignment explanation
Indices: 41387437--41387686 Score: 261
Period size: 85 Copynumber: 2.9 Consensus size: 82
41387427 TTATGTGAAA
* * * *
41387437 AAACGCCACTAAAAGTCAT-CACTTTTAGCGGCGTTTGAACGGAAAACGCCGCTAAAAGTAGATA
1 AAACGCCACTAATAGT-ATAGACCTTTAGCGGCGTTT--A-GGAAAACGCCGCTAAAAGTACATA
* *
41387501 CCTTTAGCGGCGCTTTACCAT
62 CCTTTAGCGGCGTTTTACCAC
* * * *
41387522 AAACGCCGCTAATAGTATAGACCTTTAGCGGCGCTTAGCAAACAAACGCCGCTAAAAGCACATAC
1 AAACGCCACTAATAGTATAGACCTTTAGCGGCGTTTAG--GA-AAACGCCGCTAAAAGTACATAC
41387587 CTTTAGCGGCGTTTTACCCAC
63 CTTTAGCGGCGTTTTA-CCAC
* * *
41387608 AAACGCCACTAA-AGGTGTAGACCTTTAGCGGCGTTTCCAGGAAAAGCGCCGCTAAAAGTGCAAA
1 AAACGCCACTAATA-GTATAGACCTTTAGCGGCGTTT--AGGAAAA-CGCCGCTAAAAGTACATA
41387672 CCTTTAGCGGCGTTT
62 CCTTTAGCGGCGTTT
41387687 GTTTGCAAAG
Statistics
Matches: 139, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
82 1 0.01
83 1 0.01
84 3 0.02
85 67 0.48
86 65 0.47
88 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (82 bp):
AAACGCCACTAATAGTATAGACCTTTAGCGGCGTTTAGGAAAACGCCGCTAAAAGTACATACCTT
TAGCGGCGTTTTACCAC
Found at i:41388253 original size:21 final size:20
Alignment explanation
Indices: 41388208--41388265 Score: 71
Period size: 21 Copynumber: 2.9 Consensus size: 20
41388198 GCTCTGCTTC
* *
41388208 GCCTCTCTCGCTGCTGCGCT
1 GCCTCCCTCACTGCTGCGCT
*
41388228 ACCTCCCTCACTGCTGTCGCT
1 GCCTCCCTCACTGCTG-CGCT
*
41388249 GCCTCCCTCTCTGCTGC
1 GCCTCCCTCACTGCTGC
41388266 ATCGGCTAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.03, C:0.48, G:0.19, T:0.29
Consensus pattern (20 bp):
GCCTCCCTCACTGCTGCGCT
Found at i:41393837 original size:9 final size:9
Alignment explanation
Indices: 41393823--41393959 Score: 112
Period size: 9 Copynumber: 14.6 Consensus size: 9
41393813 ATGTATTAGT
41393823 TAAGTTATG
1 TAAGTTATG
41393832 TAAGTTATG
1 TAAGTTATG
*
41393841 TGAGTTATG
1 TAAGTTATG
*
41393850 TAAGTTGTTATA
1 TAA---GTTATG
*
41393862 TACGTTATG
1 TAAGTTATG
* *
41393871 TGAGTTATA
1 TAAGTTATG
*
41393880 TAAATTATG
1 TAAGTTATG
41393889 TAAGTTATG
1 TAAGTTATG
41393898 TAAGTTATG
1 TAAGTTATG
*
41393907 TAGGTTGTTATG
1 TA---AGTTATG
*
41393919 TAAATTATG
1 TAAGTTATG
*
41393928 TAAGTTACG
1 TAAGTTATG
*
41393937 TGAGTTATG
1 TAAGTTATG
* *
41393946 TAACTTATT
1 TAAGTTATG
41393955 TAAGT
1 TAAGT
41393960 AATGATCAAT
Statistics
Matches: 99, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
9 84 0.85
12 15 0.15
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:41393917 original size:48 final size:48
Alignment explanation
Indices: 41393823--41393954 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
41393813 ATGTATTAGT
* *
41393823 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTGTTATATACGTTATG
1 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATTAGATACGTTATG
* * * * * *
41393871 TGAGTTATATAAATTATGTAAGTTATGTAAGTTATGTAGGT-TGTTATG
1 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTAT-TAGATACGTTATG
* * *
41393919 TAAATTATGTAAGTTACGTGAGTTATGTAACTTATT
1 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATT
41393955 TAAGTAATGA
Statistics
Matches: 68, Mismatches: 15, Indels: 3
0.79 0.17 0.03
Matches are distributed among these distances:
47 1 0.01
48 64 0.94
49 3 0.04
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (48 bp):
TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTATTAGATACGTTATG
Found at i:41393945 original size:57 final size:57
Alignment explanation
Indices: 41393823--41393959 Score: 166
Period size: 57 Copynumber: 2.4 Consensus size: 57
41393813 ATGTATTAGT
* ** * *
41393823 TAAGTTATGTAAGTTATGTGAGTTATGTAAGTTGTTATATACGTTATGTGAGTTATA
1 TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACA
* * * *
41393880 TAAATTATGTAAGTTATGTAAGTTATGTAGGTTGTTATGTAAATTATGTAAGTTACG
1 TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACA
* * *
41393937 TGAGTTATGTAACTTATTTAAGT
1 TAAGTTATGTAAGTTATGTAAGT
41393960 AATGATCAAT
Statistics
Matches: 67, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
57 67 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.45
Consensus pattern (57 bp):
TAAGTTATGTAAGTTATGTAAGTTATGTAAGTTGTTATATAAATTATGTAAGTTACA
Found at i:41395914 original size:24 final size:26
Alignment explanation
Indices: 41395860--41395914 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
41395850 TTATAATTAA
* *
41395860 ATTAATATAATATATAAAAATTTAGG
1 ATTAATATAAGATATAAAAATTTACG
*
41395886 A-TAATATTAGATA-AAAAATTT-CG
1 ATTAATATAAGATATAAAAATTTACG
41395909 ATTAAT
1 ATTAAT
41395915 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 2 0.08
24 12 0.48
25 10 0.40
26 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (26 bp):
ATTAATATAAGATATAAAAATTTACG
Found at i:41397326 original size:7 final size:7
Alignment explanation
Indices: 41397314--41397359 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
41397304 ACAAAATCAG
41397314 ACCCTAA
1 ACCCTAA
41397321 ACCCTAA
1 ACCCTAA
* *
41397328 ATCTTAA
1 ACCCTAA
41397335 ACCCTAA
1 ACCCTAA
*
41397342 ACTCTAA
1 ACCCTAA
*
41397349 ACCATAA
1 ACCCTAA
41397356 ACCC
1 ACCC
41397360 CTAACCTTAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (7 bp):
ACCCTAA
Found at i:41397339 original size:21 final size:21
Alignment explanation
Indices: 41397314--41397386 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
41397304 ACAAAATCAG
*
41397314 ACCCTAAACCCTAAATCTTAA
1 ACCCTAAACCCTAAAACTTAA
* * *
41397335 ACCCTAAACTCTAAACCATAA
1 ACCCTAAACCCTAAAACTTAA
*
41397356 ACCCCT-AACCTTATAAACATTAA
1 A-CCCTAAACCCTA-AAAC-TTAA
41397379 ACCCTAAA
1 ACCCTAAA
41397387 TTCTAGCTAC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
21 24 0.59
22 11 0.27
23 6 0.15
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (21 bp):
ACCCTAAACCCTAAAACTTAA
Found at i:41397856 original size:14 final size:14
Alignment explanation
Indices: 41397839--41397882 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
41397829 TTAACTTATC
*
41397839 CCCTATCCCTTAAA
1 CCCTAACCCTTAAA
*
41397853 CCCTAACCCCT-AA
1 CCCTAACCCTTAAA
41397866 CCACTAACCCTTAAA
1 CC-CTAACCCTTAAA
41397881 CC
1 CC
41397883 TTAATACCGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.32, C:0.48, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAACCCTTAAA
Found at i:41398113 original size:13 final size:13
Alignment explanation
Indices: 41398081--41398118 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
41398071 CCCTAAACCC
41398081 AAAAATA-AATTT
1 AAAAATATAATTT
*
41398093 AATCAATATAATTT
1 AA-AAATATAATTT
41398107 AAAAATATAATT
1 AAAAATATAATT
41398119 AGTCCGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 2 0.09
13 13 0.59
14 7 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAAATATAATTT
Found at i:41398600 original size:50 final size:50
Alignment explanation
Indices: 41398546--41398680 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
41398536 AGAGATCGCA
* *
41398546 AAAAAACATAAACCCATGAACCCCTAACCCTAAACCACAAACTATAAATC
1 AAAAAACATAAACCCATGAACCCCTAACCCTAAACCACAAACCATAAACC
* * * * *
41398596 -AAAAACACTAAACCCCT-AACCACTAACCCTTAAACCCCTAACCCTAAACC
1 AAAAAACA-TAAACCCATGAACCCCTAACCC-TAAACCACAAACCATAAACC
* *
41398646 AAAAAACATAAA-CCATGAACCCTTAAACCTAAACC
1 AAAAAACATAAACCCATGAACCCCTAACCCTAAACC
41398681 CATAAACCCT
Statistics
Matches: 70, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
49 27 0.39
50 36 0.51
51 7 0.10
ACGTcount: A:0.50, C:0.35, G:0.01, T:0.14
Consensus pattern (50 bp):
AAAAAACATAAACCCATGAACCCCTAACCCTAAACCACAAACCATAAACC
Found at i:41398631 original size:15 final size:14
Alignment explanation
Indices: 41398609--41398646 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
41398599 AACACTAAAC
41398609 CCCT-AACCACTAA
1 CCCTAAACCACTAA
*
41398622 CCCTTAAACCCCTAA
1 CCC-TAAACCACTAA
41398637 CCCTAAACCA
1 CCCTAAACCA
41398647 AAAAACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 3 0.14
14 7 0.33
15 11 0.52
ACGTcount: A:0.37, C:0.47, G:0.00, T:0.16
Consensus pattern (14 bp):
CCCTAAACCACTAA
Found at i:41398686 original size:14 final size:15
Alignment explanation
Indices: 41398635--41398688 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 15
41398625 TTAAACCCCT
41398635 AACCC-TAAACCA-A
1 AACCCATAAACCATA
** *
41398648 AAAACATAAACCATG
1 AACCCATAAACCATA
*
41398663 AACCCTTAAACC-TA
1 AACCCATAAACCATA
41398677 AACCCATAAACC
1 AACCCATAAACC
41398689 CTTAATACCG
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
13 3 0.10
14 19 0.61
15 9 0.29
ACGTcount: A:0.52, C:0.33, G:0.02, T:0.13
Consensus pattern (15 bp):
AACCCATAAACCATA
Found at i:41398688 original size:22 final size:21
Alignment explanation
Indices: 41398649--41398693 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
41398639 CTAAACCAAA
*
41398649 AAACATAAACCATGAACCCTT
1 AAACATAAACCATAAACCCTT
*
41398670 AAACCTAAACCCATAAACCCTT
1 AAACATAAA-CCATAAACCCTT
41398692 AA
1 AA
41398694 TACCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (21 bp):
AAACATAAACCATAAACCCTT
Found at i:41398727 original size:7 final size:7
Alignment explanation
Indices: 41398715--41398739 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
41398705 ATTAAGATCA
41398715 TAAACAC
1 TAAACAC
41398722 TAAACAC
1 TAAACAC
41398729 TAAACAC
1 TAAACAC
41398736 TAAA
1 TAAA
41398740 GCTCAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACAC
Found at i:41400609 original size:11 final size:11
Alignment explanation
Indices: 41400568--41400631 Score: 51
Period size: 11 Copynumber: 5.6 Consensus size: 11
41400558 TTTGAGTCTA
41400568 TTTATTTTTAC-
1 TTTATTTTT-CT
*
41400579 TTTATTTTACT
1 TTTATTTTTCT
*
41400590 TTTCCTTTTGT-T
1 TTT-ATTTT-TCT
41400602 TTTATTTTTCT
1 TTTATTTTTCT
*
41400613 TTTATTTTTAT
1 TTTATTTTTCT
41400624 TTCTATTT
1 TT-TATTT
41400632 CCAGTTTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
10 2 0.05
11 28 0.65
12 13 0.30
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (11 bp):
TTTATTTTTCT
Found at i:41400609 original size:17 final size:17
Alignment explanation
Indices: 41400579--41400625 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
41400569 TTATTTTTAC
41400579 TTTA-TTTTACTTTTCCT
1 TTTATTTTTA-TTTTCCT
* *
41400596 TTTGTTTTTATTTTTCT
1 TTTATTTTTATTTTCCT
41400613 TTTATTTTTATTT
1 TTTATTTTTATTT
41400626 CTATTTCCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTTTCCT
Found at i:41400621 original size:23 final size:23
Alignment explanation
Indices: 41400579--41400631 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
41400569 TTATTTTTAC
* *
41400579 TTTATTTTACTTTTCCTTTTGTT
1 TTTATTTTACTTTTACTTTTATT
* *
41400602 TTTATTTTTCTTTTATTTTTATT
1 TTTATTTTACTTTTACTTTTATT
*
41400625 TCTATTT
1 TTTATTT
41400632 CCAGTTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.77
Consensus pattern (23 bp):
TTTATTTTACTTTTACTTTTATT
Found at i:41406368 original size:42 final size:41
Alignment explanation
Indices: 41406305--41406459 Score: 175
Period size: 42 Copynumber: 3.7 Consensus size: 41
41406295 CCAAGACTAT
* * *
41406305 GTGTAAGACCATGTATTGGATATGGCATCATTATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCA-TATGAGATTTC
* *
41406347 GTGTAAGACCATATCTAGGATATGGCATCCATATGACATTTC
1 GTGTAAGACCATATCTGGGATATGGCAT-CATATGAGATTTC
* * * * *
41406389 GTGTAAAACCATAGCTGGGCTTTTGGCATCGATATGAGATTAC
1 GTGTAAGACCATATCTGGG-ATATGGCATC-ATATGAGATTTC
*
41406432 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
41406460 TGGTATGGTA
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
42 59 0.63
43 35 0.37
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCATATGAGATTTC
Found at i:41406437 original size:43 final size:43
Alignment explanation
Indices: 41406369--41406450 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
41406359 ATCTAGGATA
* *
41406369 TGGCATCCATATGACATTTCGTGTAAAACCATAGCTGGGCTTT
1 TGGCATCCATATGACATTACATGTAAAACCATAGCTGGGCTTT
* * * *
41406412 TGGCATCGATATGAGATTACATGTAAGACCATATCTGGG
1 TGGCATCCATATGACATTACATGTAAAACCATAGCTGGG
41406451 ATATGGCATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.30
Consensus pattern (43 bp):
TGGCATCCATATGACATTACATGTAAAACCATAGCTGGGCTTT
Found at i:41406798 original size:46 final size:45
Alignment explanation
Indices: 41406731--41406817 Score: 156
Period size: 46 Copynumber: 1.9 Consensus size: 45
41406721 TATTATTTTC
41406731 ATGGGAACTTACTAAGCTATATAGCTTACCCCCTTTTCTTTTTTGT
1 ATGGGAACTTACTAAGCTATATAGCTTACCCCC-TTTCTTTTTTGT
*
41406777 ATGGGAACTTACTACGCTATATAGCTTACCCCCTTTCTTTT
1 ATGGGAACTTACTAAGCTATATAGCTTACCCCCTTTCTTTT
41406818 CCTTTGTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
45 8 0.20
46 32 0.80
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (45 bp):
ATGGGAACTTACTAAGCTATATAGCTTACCCCCTTTCTTTTTTGT
Found at i:41408822 original size:40 final size:40
Alignment explanation
Indices: 41408753--41408878 Score: 182
Period size: 40 Copynumber: 3.2 Consensus size: 40
41408743 AACCCAAGCA
* * **
41408753 CCTTCGAGATTTAG-CCGGATATAACAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41408792 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
41408832 CCTTCGGGACTTAGCCCGGATATAGTCACTAGAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
41408872 CCTTCGG
1 CCTTCGG
41408879 ATCTTAGTCC
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 12 0.15
40 67 0.85
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:41417411 original size:28 final size:28
Alignment explanation
Indices: 41417380--41417433 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
41417370 AATAGATAGG
*
41417380 ATACAATTGTCACGGCATTAGGGTTAGC
1 ATACAAATGTCACGGCATTAGGGTTAGC
*
41417408 ATACAAATGTCATGGCATTAGGGTTA
1 ATACAAATGTCACGGCATTAGGGTTA
41417434 CTGAGACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (28 bp):
ATACAAATGTCACGGCATTAGGGTTAGC
Found at i:41422224 original size:47 final size:47
Alignment explanation
Indices: 41422166--41422654 Score: 807
Period size: 47 Copynumber: 10.4 Consensus size: 47
41422156 CAGCCAAGAC
*
41422166 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41422213 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41422260 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
41422307 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
41422354 AGTGTATATGTCTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
41422401 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
41422448 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
41422495 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
41422542 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
41422589 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
41422636 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
41422655 TCCCGAACGG
Statistics
Matches: 419, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 419 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:41422829 original size:37 final size:37
Alignment explanation
Indices: 41422773--41422851 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41422763 CCGAGCTCTA
* * *
41422773 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
41422810 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
41422847 AAGAC
1 AAGAC
41422852 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:41424789 original size:29 final size:29
Alignment explanation
Indices: 41424754--41424827 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
41424744 GTTGTGAGAT
* *
41424754 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
41424783 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
41424812 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41424828 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Done.