Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 171 of 199
Found at i:50001407 original size:16 final size:18
Alignment explanation
Indices: 50001379--50001412 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
50001369 TTAGAATTGG
50001379 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
50001396 ATTGAG-AAATTAATTTA
1 ATTGAGAAAATTAATTTA
50001413 GTTAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:50003710 original size:230 final size:219
Alignment explanation
Indices: 50003317--50003765 Score: 666
Period size: 230 Copynumber: 2.0 Consensus size: 219
50003307 TTACATAAAA
* * * *
50003317 GTTTCATATATTGTTATTTAGTAATAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATTT
1 GTTTCATATATTGTTATTTAGCAAGAAAGTAGTGGAAATTTAATTTCAAAGAATAAATTATATAT
50003382 TTTGGGAATTTCAATTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAAATCATTTCTAGT
66 TTTGGGAATTTCAATTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAAATCATTTCTAGT
* * *
50003447 TTTGTGTTTGGTTCATATTGCTCAATTCCACACTCAACACAATTCAAGGTACGATGATAGTAAAG
131 TTTGTGTTTGGTTCATATTGCTCAATCCCACACTCAACACAATTCAAGGTAAGAGGATAGTAAAG
*
50003512 AAGGTCGTTCAGTTGAAACCCGAG
196 AAGGCCGTTCAGTTGAAACCCGAG
50003536 GTTTCATATATTGTTATTCT-GCAAGAAAGTAGTGGAAATTTAATTTCAAAGAATAAATTATATA
1 GTTTCATATATTGTTATT-TAGCAAGAAAGTAGTGGAAATTTAATTTCAAAGAATAAATTATATA
50003600 TTTTGGGAATTTCAATTTCTATCGGTTTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAA
65 TTTTGGGAATTTC-A-----A-----TTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAA
* * *
50003665 ATCATTTCTAGTTTTTTGTTTGGTTCATATTGCTCGATCCCACACTCGACACAATTCAAGGTAAG
119 ATCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCCACACTCAACACAATTCAAGGTAAG
* *
50003730 AGGATAGTAAAGAAGGCCGTTTAGTTGAAAGCCGAG
184 AGGATAGTAAAGAAGGCCGTTCAGTTGAAACCCGAG
50003766 AATGATACAA
Statistics
Matches: 205, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
219 71 0.35
220 2 0.01
225 1 0.00
230 131 0.64
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (219 bp):
GTTTCATATATTGTTATTTAGCAAGAAAGTAGTGGAAATTTAATTTCAAAGAATAAATTATATAT
TTTGGGAATTTCAATTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAAATCATTTCTAGT
TTTGTGTTTGGTTCATATTGCTCAATCCCACACTCAACACAATTCAAGGTAAGAGGATAGTAAAG
AAGGCCGTTCAGTTGAAACCCGAG
Found at i:50004922 original size:58 final size:59
Alignment explanation
Indices: 50004825--50004940 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 59
50004815 TTTTTTCTTT
* ** *
50004825 TTCATTTTCATTTTGGATAAAACCACATTCATTTCCAAAT-TATTCCATTTCTTCATTA
1 TTCATTTTCATTTTGGAGAAAACCACATAAATTTCCAAATGTATTCCATTTCTCCATTA
* *
50004883 TTCATTTTCATTTTGGAGAAAACTTTA-ATAAATTT-CAAATGTTTTCCATTTCTCCATT
1 TTCATTTTCATTTTGGAGAAAAC--CACATAAATTTCCAAATGTATTCCATTTCTCCATT
50004941 TTTACCATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
58 27 0.55
59 21 0.43
60 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (59 bp):
TTCATTTTCATTTTGGAGAAAACCACATAAATTTCCAAATGTATTCCATTTCTCCATTA
Found at i:50006331 original size:41 final size:41
Alignment explanation
Indices: 50006255--50006345 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
50006245 CCATGTTGTT
* * *
50006255 GTTGCAAAGTTCAGAATGGGCGCTTCTCCCGCCATGTTAATA
1 GTTGCAAAGTTCAGAATGGGCCCTCCTCCCACCATGTTAA-A
*
50006297 -TTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTAAA
1 GTTGCAAAGTTCAGAATGGGCCCTCCTCCCACCATGTTAAA
50006337 GTTGCAAAG
1 GTTGCAAAG
50006346 GTTCTTCCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (41 bp):
GTTGCAAAGTTCAGAATGGGCCCTCCTCCCACCATGTTAAA
Found at i:50006875 original size:230 final size:230
Alignment explanation
Indices: 50006469--50006928 Score: 839
Period size: 230 Copynumber: 2.0 Consensus size: 230
50006459 TTACACAGAA
* *
50006469 GTTTCATATATTGTTATTCTGTAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATTT
1 GTTTCATATATTGTTATTCTGCAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATAT
* * *
50006534 TTTGGGAATTTCAATTTCTATCGGTTTCTATTTGAGAGAAGTATTTATCTATTAAAAGTAATAAA
66 TTTGGGAATTTCAATTTCTATCGATTTCTATTTGAGAAAAGTACTTATCTATTAAAAGTAATAAA
* *
50006599 TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCTACACTCGACATAATTCAAGGTACGA
131 TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCCACACTCGACACAATTCAAGGTACGA
50006664 GGATAGTAAAGAAGGTCGTTCAGTTGAAACCCGAG
196 GGATAGTAAAGAAGGTCGTTCAGTTGAAACCCGAG
50006699 GTTTCATATATTGTTATTCTGCAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATAT
1 GTTTCATATATTGTTATTCTGCAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATAT
50006764 TTTGGGAATTTCAATTTCTATCGATTTCTATTTGAGAAAAGTACTTATCTATTAAAAGTAATAAA
66 TTTGGGAATTTCAATTTCTATCGATTTCTATTTGAGAAAAGTACTTATCTATTAAAAGTAATAAA
*
50006829 TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCGATCCCACACTCGACACAATTCAAGGTACGA
131 TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCCACACTCGACACAATTCAAGGTACGA
*
50006894 GGATAGTAAAGAAGGTCGTTCAGTTGAAAGCCGAG
196 GGATAGTAAAGAAGGTCGTTCAGTTGAAACCCGAG
50006929 AACGATACAA
Statistics
Matches: 221, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
230 221 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (230 bp):
GTTTCATATATTGTTATTCTGCAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATAT
TTTGGGAATTTCAATTTCTATCGATTTCTATTTGAGAAAAGTACTTATCTATTAAAAGTAATAAA
TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCCACACTCGACACAATTCAAGGTACGA
GGATAGTAAAGAAGGTCGTTCAGTTGAAACCCGAG
Found at i:50008078 original size:57 final size:59
Alignment explanation
Indices: 50007985--50008094 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 59
50007975 TTTTTTCTTT
* * * * *
50007985 TTCATTTTCATTTTGGATAAAACCACATTCATTTCCAAAT-TATT-CCATTTCTTCATTA
1 TTCATTTTCATTTTCGAGAAAACCACAATAAATTCCAAATGT-TTCCCATTTCTTCATTA
*
50008043 TTCATTTT-ATTTTCGAGAAAACCATAATAAATTCCAAATGTTTCCCATTTCT
1 TTCATTTTCATTTTCGAGAAAACCACAATAAATTCCAAATGTTTCCCATTTCT
50008095 CCGTTTTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
57 27 0.61
58 17 0.39
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.45
Consensus pattern (59 bp):
TTCATTTTCATTTTCGAGAAAACCACAATAAATTCCAAATGTTTCCCATTTCTTCATTA
Found at i:50009159 original size:41 final size:41
Alignment explanation
Indices: 50009101--50009203 Score: 163
Period size: 41 Copynumber: 2.5 Consensus size: 41
50009091 AGGTTGTTTC
* *
50009101 CGCCATGTTGATGTTGCAAAGTTCAGAATGGGCCCTTCTC-
1 CGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTCT
50009141 CTGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTCT
1 C-GCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTCT
*
50009183 CGCCATGTTAAAGTTGCAAAG
1 CGCCATGTTAATGTTGCAAAG
50009204 GTTTTTCCCG
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.02
41 56 0.97
42 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.29
Consensus pattern (41 bp):
CGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTCT
Found at i:50009217 original size:70 final size:69
Alignment explanation
Indices: 50009139--50009443 Score: 319
Period size: 70 Copynumber: 4.4 Consensus size: 69
50009129 TGGGCCCTTC
* * * * *
50009139 TCCTGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTCTCGCCATGTTAAAGTTGCAAAG
1 TCCTGCCATGTTGATGGTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTGAAGTTG-AAAA
50009204 GTTTT
65 GTTTT
* * ** * *
50009209 TCCCGCCATTTTGATGGTGCAAAGTTTGGAATGGGCTCTCCTTTCACCATGTTGAAGTTGTAAAA
1 TCCTGCCATGTTGATGGTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTGAAGTTG-AAAA
*
50009274 GTTCT
65 GTTTT
* * ** *
50009279 TCTTGCCATGTTGATGGTGCAAAGTTTAGAATGGGTTCTCCTCTCACCATGTTGAAGTTGAAAAT
1 TCCTGCCATGTTGATGGTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTGAAGTTGAAAAG
50009344 TTTCT
66 TTT-T
* * * *
50009349 TCCTGCCATGTTGATGGTGCATAGTTC-GAAATAGACCCTCCTCTCGCCATGTTGAA-TTGAAAA
1 TCCTGCCATGTTGATGGTGCAAAGTTCAG-AATGGGCCCTCCTCTCACCATGTTGAAGTTGAAAA
*
50009412 ATTTCT
65 GTTT-T
* *
50009418 T-CTCACCATGATGATGGTGCAAAGTT
1 TCCT-GCCATGTTGATGGTGCAAAGTT
50009444 TGGAATAGGA
Statistics
Matches: 199, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
68 2 0.01
69 39 0.20
70 158 0.79
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (69 bp):
TCCTGCCATGTTGATGGTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTGAAGTTGAAAAG
TTTT
Found at i:50009338 original size:140 final size:139
Alignment explanation
Indices: 50009142--50009449 Score: 366
Period size: 140 Copynumber: 2.2 Consensus size: 139
50009132 GCCCTTCTCC
* * * * *
50009142 TGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTCTCGCCATGTTAAAGTTGCAAAGGTT
1 TGCCATGTTGATGGTGCAAAGTTTAGAATGGGCCCTCCTCTCACCATGTTAAAGTTG-AAAAGTT
* * * * * * * *
50009207 T-TTCCCGCCATTTTGATGGTGCAAAGTTTGGAATGGGCTCTCCTTTCACCATGTTGAAGTTGTA
65 TCTTCCCGCCATGTTGATGGTGCAAAGTTCGAAATAGACCCTCCTCTCACCATGTTGAA-TTGAA
50009271 AAAGTTCTTCT
129 AAAGTTCTTCT
** * *
50009282 TGCCATGTTGATGGTGCAAAGTTTAGAATGGGTTCTCCTCTCACCATGTTGAAGTTGAAAATTTT
1 TGCCATGTTGATGGTGCAAAGTTTAGAATGGGCCCTCCTCTCACCATGTTAAAGTTGAAAAGTTT
* * *
50009347 CTTCCTGCCATGTTGATGGTGCATAGTTCGAAATAGACCCTCCTCTCGCCATGTTGAATTGAAAA
66 CTTCCCGCCATGTTGATGGTGCAAAGTTCGAAATAGACCCTCCTCTCACCATGTTGAATTGAAAA
*
50009412 ATTTCTTCT
131 AGTTCTTCT
** * *
50009421 CACCATGATGATGGTGCAAAGTTTGGAAT
1 TGCCATGTTGATGGTGCAAAGTTTAGAAT
50009450 AGGACCTGTT
Statistics
Matches: 142, Mismatches: 25, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
139 45 0.32
140 97 0.68
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (139 bp):
TGCCATGTTGATGGTGCAAAGTTTAGAATGGGCCCTCCTCTCACCATGTTAAAGTTGAAAAGTTT
CTTCCCGCCATGTTGATGGTGCAAAGTTCGAAATAGACCCTCCTCTCACCATGTTGAATTGAAAA
AGTTCTTCT
Found at i:50013857 original size:3 final size:3
Alignment explanation
Indices: 50013849--50013891 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
50013839 CAAGTGTATC
50013849 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
50013892 TCTATATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:50026374 original size:54 final size:54
Alignment explanation
Indices: 50026303--50026637 Score: 320
Period size: 54 Copynumber: 6.2 Consensus size: 54
50026293 CCTCAAAATA
* * * * * *
50026303 GGTAAAATGACCAAAATAGCCCTATAA-GATAAAATGACCGAAATACCCCCGAAA
1 GGTAAAATGATCGAAATA-CCCTATAAGGGTAAAATAACCAAAATACCCCCGAAG
* * *
50026357 GATAAAATGATCGAAATACCCT-TGAAAGGTAAAATAACCAAAATACCCCCGAAT
1 GGTAAAATGATCGAAATACCCTAT-AAGGGTAAAATAACCAAAATACCCCCGAAG
* * * * * *
50026411 GATAAAATAATTGAAATACCCTCA-AAGGGTAAAATGACTAAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACCCT-ATAAGGGTAAAATAACCAAAATACCCCCGAAG
* * * **
50026465 GGTAAAATGACCAAAATACCCTAAAAGGGTAAAATAACCAAAATACCCCTAAAG
1 GGTAAAATGATCGAAATACCCTATAAGGGTAAAATAACCAAAATACCCCCGAAG
* ** *
50026519 GGTAAAATGACCGAAATACCTCTA-AATAGTAAAATAACCAAAATACCCTCGAAG
1 GGTAAAATGATCGAAATACC-CTATAAGGGTAAAATAACCAAAATACCCCCGAAG
* * * * * *
50026573 GCTAAAATAATTGAAATACCCT-TGAAGGGTAAAATGACCGAAATAGCCCCGAAG
1 GGTAAAATGATCGAAATACCCTAT-AAGGGTAAAATAACCAAAATACCCCCGAAG
50026627 GGTAAAATGAT
1 GGTAAAATGAT
50026638 TTTTATACCC
Statistics
Matches: 231, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
52 1 0.00
53 9 0.04
54 218 0.94
55 3 0.01
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (54 bp):
GGTAAAATGATCGAAATACCCTATAAGGGTAAAATAACCAAAATACCCCCGAAG
Found at i:50026626 original size:27 final size:27
Alignment explanation
Indices: 50026303--50026636 Score: 271
Period size: 27 Copynumber: 12.4 Consensus size: 27
50026293 CCTCAAAATA
**
50026303 GGTAAAATGACCAAAATAGCCCTATAA-
1 GGTAAAATGACCAAAATA-CCCTCGAAG
* * * *
50026330 GATAAAATGACCGAAATACCCCCGAAA
1 GGTAAAATGACCAAAATACCCTCGAAG
* * * * *
50026357 GATAAAATGATCGAAATACCCTTGAAA
1 GGTAAAATGACCAAAATACCCTCGAAG
* * *
50026384 GGTAAAATAACCAAAATACCCCCGAAT
1 GGTAAAATGACCAAAATACCCTCGAAG
* * *** *
50026411 GATAAAATAATTGAAATACCCTCAAAG
1 GGTAAAATGACCAAAATACCCTCGAAG
*
50026438 GGTAAAATGACTAAAATACCCTCGAAG
1 GGTAAAATGACCAAAATACCCTCGAAG
**
50026465 GGTAAAATGACCAAAATACCCTAAAAG
1 GGTAAAATGACCAAAATACCCTCGAAG
* *
50026492 GGTAAAATAACCAAAATACCC-CTAAAG
1 GGTAAAATGACCAAAATACCCTC-GAAG
* * *
50026519 GGTAAAATGACCGAAATA-CCTCTAAAT
1 GGTAAAATGACCAAAATACCCTC-GAAG
* *
50026546 AGTAAAATAACCAAAATACCCTCGAAG
1 GGTAAAATGACCAAAATACCCTCGAAG
* * *** *
50026573 GCTAAAATAATTGAAATACCCTTGAAG
1 GGTAAAATGACCAAAATACCCTCGAAG
*
50026600 GGTAAAATGACCGAAATAGCCC-CGAAG
1 GGTAAAATGACCAAAATA-CCCTCGAAG
50026627 GGTAAAATGA
1 GGTAAAATGA
50026637 TTTTTATACC
Statistics
Matches: 251, Mismatches: 51, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
26 7 0.03
27 237 0.94
28 7 0.03
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCTCGAAG
Found at i:50026647 original size:81 final size:80
Alignment explanation
Indices: 50026303--50026636 Score: 321
Period size: 81 Copynumber: 4.1 Consensus size: 80
50026293 CCTCAAAATA
** * ** ** *
50026303 GGTAAAATGACCAAAATAGCCCTATAA-GATAAAATGACCGAAATACCCCCGAAA-GATAAAATG
1 GGTAAAATGACCAAAATA-CCCTCGAAGGATAAAATAATTGAAATA-CCCTTAAAGGGTAAAATG
* * *
50026366 ATCGAAATACCCTTGAAA
64 ACCGAAATACCC-CGAAG
* * * *
50026384 GGTAAAATAACCAAAATACCCCCGAATGATAAAATAATTGAAATACCCTCAAAGGGTAAAATGAC
1 GGTAAAATGACCAAAATACCCTCGAAGGATAAAATAATTGAAATACCCTTAAAGGGTAAAATGAC
**
50026449 TAAAATACCCTCGAAG
66 CGAAATACCC-CGAAG
** * *** *
50026465 GGTAAAATGACCAAAATACCCTAAAAGGGTAAAATAACCAAAATACCCCTAAAGGGTAAAATGAC
1 GGTAAAATGACCAAAATACCCTCGAAGGATAAAATAATTGAAATACCCTTAAAGGGTAAAATGAC
** *
50026530 CGAAATACCTCTAAAT
66 CGAAATACC-CCGAAG
* * * *
50026546 AGTAAAATAACCAAAATACCCTCGAAGGCTAAAATAATTGAAATACCCTTGAAGGGTAAAATGAC
1 GGTAAAATGACCAAAATACCCTCGAAGGATAAAATAATTGAAATACCCTTAAAGGGTAAAATGAC
50026611 CGAAATAGCCCCGAAG
66 CGAAATA-CCCCGAAG
50026627 GGTAAAATGA
1 GGTAAAATGA
50026637 TTTTTATACC
Statistics
Matches: 203, Mismatches: 46, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
80 11 0.05
81 189 0.93
82 3 0.01
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (80 bp):
GGTAAAATGACCAAAATACCCTCGAAGGATAAAATAATTGAAATACCCTTAAAGGGTAAAATGAC
CGAAATACCCCGAAG
Found at i:50032399 original size:27 final size:26
Alignment explanation
Indices: 50032355--50032442 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
50032345 ACCCCAAAAT
* **
50032355 AGGTAAAATTACCAAAATAGCCCCATA
1 AGGTAAAATGACTGAAATA-CCCCATA
*
50032382 AGGTAAAATGATTGAAATACCCC-TAA
1 AGGTAAAATGACTGAAATACCCCAT-A
50032408 AGGGTAAAATGACTGAAATACCCCTATA
1 A-GGTAAAATGACTGAAATACCCC-ATA
*
50032436 GGGTAAA
1 AGGTAAA
50032443 CTAATTTTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 42 0.82
28 1 0.02
29 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.20
Consensus pattern (26 bp):
AGGTAAAATGACTGAAATACCCCATA
Found at i:50032860 original size:28 final size:27
Alignment explanation
Indices: 50032819--50032878 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
50032809 ACTGTAATGT
* *
50032819 TACTGTATTGGGCTAGGGCCCACACTG
1 TACTGAATTGGGCTAAGGCCCACACTG
*
50032846 ATACTGAATTTGGCTAAGGCCCACACTG
1 -TACTGAATTGGGCTAAGGCCCACACTG
50032874 TACTG
1 TACTG
50032879 TCACTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (27 bp):
TACTGAATTGGGCTAAGGCCCACACTG
Found at i:50035246 original size:21 final size:21
Alignment explanation
Indices: 50035222--50035263 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
50035212 TGGTTTGTCC
*
50035222 ATGAGTGGTTCGTCCACAATG
1 ATGAGTGGTTCATCCACAATG
*
50035243 ATGAGTGGTTTATCCACAATG
1 ATGAGTGGTTCATCCACAATG
50035264 TGGTGTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (21 bp):
ATGAGTGGTTCATCCACAATG
Found at i:50039601 original size:13 final size:13
Alignment explanation
Indices: 50039583--50039607 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50039573 TAATATATTT
50039583 ATTAATTAAAAAC
1 ATTAATTAAAAAC
50039596 ATTAATTAAAAA
1 ATTAATTAAAAA
50039608 TAAAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:50042120 original size:25 final size:28
Alignment explanation
Indices: 50042092--50042145 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
50042082 TCTACAAATG
*
50042092 TTATGAA-AAA-A-ATTATAACATTTTT
1 TTATGAATAAATATATTATAACACTTTT
50042117 TTATGAATAAATATATTATAACACTTTT
1 TTATGAATAAATATATTATAACACTTTT
50042145 T
1 T
50042146 ATAACATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 3 0.12
27 1 0.04
28 14 0.56
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (28 bp):
TTATGAATAAATATATTATAACACTTTT
Found at i:50042202 original size:25 final size:26
Alignment explanation
Indices: 50042174--50042224 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
50042164 TTATAATAAT
50042174 TTTTTTGCCATAACTTGA-AAATATA
1 TTTTTTGCCATAACTTGATAAATATA
** *
50042199 TTTTTTGTTATAACTTTATAAATATA
1 TTTTTTGCCATAACTTGATAAATATA
50042225 AATAAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (26 bp):
TTTTTTGCCATAACTTGATAAATATA
Found at i:50043590 original size:23 final size:24
Alignment explanation
Indices: 50043546--50043590 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
50043536 AAAATCATAC
*
50043546 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
50043570 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
50043591 ATGAGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:50047700 original size:26 final size:27
Alignment explanation
Indices: 50047648--50047710 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
50047638 ATAAAAAATA
50047648 ATCAAAATATTATAATTTTTTTTATTT
1 ATCAAAATATTATAATTTTTTTTATTT
50047675 ATCAAAATATTATAA-TTTTTTTATTT
1 ATCAAAATATTATAATTTTTTTTATTT
*
50047701 ACCAAAATAT
1 ATCAAAATAT
50047711 ACCAAAGGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.52
Consensus pattern (27 bp):
ATCAAAATATTATAATTTTTTTTATTT
Found at i:50047759 original size:27 final size:27
Alignment explanation
Indices: 50047711--50047780 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
50047701 ACCAAAATAT
* *
50047711 ACCAAAGGTACCAAAGAGATTGACAGC
1 ACCAATGGTGCCAAAGAGATTGACAGC
* ***
50047738 ATCAATGGTGCCAAAGAGATTGGTGGC
1 ACCAATGGTGCCAAAGAGATTGACAGC
50047765 ACCAATGGTGCCAAAG
1 ACCAATGGTGCCAAAG
50047781 GACTAAAATG
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:0.37, C:0.20, G:0.27, T:0.16
Consensus pattern (27 bp):
ACCAATGGTGCCAAAGAGATTGACAGC
Found at i:50048012 original size:18 final size:18
Alignment explanation
Indices: 50047983--50048043 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
50047973 TCTAATTAAG
*
50047983 TAATAAATCTATTTTAATT
1 TAATAAA-CTATTCTAATT
*
50048002 TAATAAACTATTCTCATT
1 TAATAAACTATTCTAATT
50048020 TAAT-AA--ATTCTAATT
1 TAATAAACTATTCTAATT
50048035 TAATAAACT
1 TAATAAACT
50048044 CTATTTTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
15 12 0.33
16 2 0.06
17 2 0.06
18 13 0.36
19 7 0.19
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAACTATTCTAATT
Found at i:50048035 original size:15 final size:15
Alignment explanation
Indices: 50047997--50048046 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
50047987 AAATCTATTT
50047997 TAATTTAATAAACTATTC
1 TAATTTAAT-AA--ATTC
*
50048015 TCATTTAATAAATTC
1 TAATTTAATAAATTC
*
50048030 TAATTTAATAAACTC
1 TAATTTAATAAATTC
50048045 TA
1 TA
50048047 TTTTGGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 19 0.66
17 2 0.07
18 8 0.28
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTTAATAAATTC
Found at i:50048080 original size:23 final size:23
Alignment explanation
Indices: 50048054--50048125 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
50048044 CTATTTTGGT
50048054 AATTTGATGAGAATAGTTTATTA
1 AATTTGATGAGAATAGTTTATTA
*
50048077 AA-TT-A--A-AATAGAGTTATTAA
1 AATTTGATGAGAATAG-TTTATT-A
50048097 GTAATTTGATGAGAATAGTTTATTA
1 --AATTTGATGAGAATAGTTTATTA
50048122 AATT
1 AATT
50048126 AAAATAGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 5 0.13
19 6 0.16
20 1 0.03
21 1 0.03
22 4 0.11
23 8 0.21
24 1 0.03
25 1 0.03
26 6 0.16
27 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (23 bp):
AATTTGATGAGAATAGTTTATTA
Found at i:50048147 original size:45 final size:45
Alignment explanation
Indices: 50048052--50048140 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
50048042 CTCTATTTTG
50048052 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
50048097 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
50048141 CTTAATTAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (45 bp):
GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
Found at i:50048606 original size:81 final size:80
Alignment explanation
Indices: 50048387--50048659 Score: 273
Period size: 81 Copynumber: 3.4 Consensus size: 80
50048377 CATTTTGGGG
** *
50048387 GCTTTAGCGGCGTTTATAAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTT-GAAAAA
1 GCTTTAGCGGCGTTT-TTTATAAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTAG-AAAA
* *
50048451 GCGACACTAATGCTTAG
64 GCGACACTAATGCTAAA
** * * * *
50048468 GCTTTTAGCGGCACTTTTT-TAAGTGCCGCTAGTGCTCAGGCTTTTAGCGACGCTTTTAGAAAAG
1 GC-TTTAGCGGCGTTTTTTATAAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTAGAAAAG
* * *
50048532 TGTCGCTAATGCTCAAA
65 CGACACTAATGCT-AAA
* * *
50048549 GCTTTAGCGGCGTTTTTTATAAGCGCCGCTAATGCTCTGGCTTTTAGCGGCTTTTTTAGAGAAGC
1 GCTTTAGCGGCGTTTTTTATAAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTAGAAAAGC
* * *
50048614 GGCACTAATGCTTAG
66 GACACTAATGCTAAA
*
50048629 GCTTTTAGCGGCATTTTTGT-TAAAGCGCCGC
1 GC-TTTAGCGGCGTTTTT-TAT-AAGCGCCGC
50048660 AAAAACATTT
Statistics
Matches: 156, Mismatches: 29, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
80 65 0.42
81 70 0.45
82 21 0.13
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (80 bp):
GCTTTAGCGGCGTTTTTTATAAGCGCCGCTAATGCTCAGGCTTTTAGCGGCGTTTTTAGAAAAGC
GACACTAATGCTAAA
Found at i:50048646 original size:41 final size:41
Alignment explanation
Indices: 50048389--50048659 Score: 225
Period size: 41 Copynumber: 6.7 Consensus size: 41
50048379 TTTTGGGGGC
* * *
50048389 TTTAGCGGCGTTTATAAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTAGGCT
* *
50048430 TTTAGCGGCGTTTTT-GAAAAAGCGACACTAATGCTTAGGCT
1 TTTAGCGGCGTTTTTAG-AAAAGCGCCGCTAATGCTTAGGCT
* * * * *
50048471 TTTAGCGGCACTTTTT---TAAGTGCCGCTAGTGCTCAGGCT
1 TTTAGCGGC-GTTTTTAGAAAAGCGCCGCTAATGCTTAGGCT
* * * * * *
50048510 TTTAGCGACGCTTTTAGAAAAGTGTCGCTAATGCTCAAAGC-
1 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCT-TAGGCT
* *
50048551 TTTAGCGGCGTTTTT-TATAAGCGCCGCTAATGCTCT-GGCT
1 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCT-TAGGCT
* * * *
50048591 TTTAGCGGCTTTTTTAGAGAAGCGGCACTAATGCTTAGGCT
1 TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTAGGCT
* *
50048632 TTTAGCGGCATTTTT-GTTAAAGCGCCGC
1 TTTAGCGGCGTTTTTAG-AAAAGCGCCGC
50048660 AAAAACATTT
Statistics
Matches: 182, Mismatches: 38, Indels: 20
0.76 0.16 0.08
Matches are distributed among these distances:
38 4 0.02
39 27 0.15
40 32 0.18
41 111 0.61
42 8 0.04
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCTTAGGCT
Found at i:50049080 original size:189 final size:186
Alignment explanation
Indices: 50048762--50049145 Score: 678
Period size: 189 Copynumber: 2.0 Consensus size: 186
50048752 AGTGAATAAA
*
50048762 TTTAAAATAATGACACGTAGAAATAATTTGAAAAAAAAAACAAAGAAAAATATTTTTTAAAAATA
1 TTTAAAATAATGACACATAGAAATAATTTGAAAAAAAAAACAAAGAAAAATATTTTTTAAAAATA
50048827 GAAAAATTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATGACTGATTGATTT
66 GAAAAATTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATGACTGATTGA-TT
50048892 TTAATTTATATATTAAATAATTTCATATACAATTGTAAAAGATACGATAGTATTAAT
130 TTAATTTATATATTAAATAATTTCATATACAATTGTAAAAGATACGATAGTATTAAT
* * * **
50048949 TTTAAAATAATGACACATAGAAATGATTTGAAATAAAAAACATAGAAAAATATATTTTTTTTAAA
1 TTTAAAATAATGACACATAGAAATAATTTGAAAAAAAAAACAAAG-AAAA-ATATTTTTTAAAAA
*
50049014 TAGAAAAATTAAAATACTATTATTTAAAATAATTTTAAATTTTTTTGGGTACATGACTGATTGAT
64 TAGAAAAATTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATGACTGATTGAT
50049079 TTTAATTTATATATTAAATAATTTCATATACAATTGTAAAAGATACGATAGTATTAAT
129 TTTAATTTATATATTAAATAATTTCATATACAATTGTAAAAGATACGATAGTATTAAT
50049137 TTTAAAATA
1 TTTAAAATA
50049146 TTTAATTAAT
Statistics
Matches: 188, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
187 41 0.22
188 72 0.38
189 75 0.40
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (186 bp):
TTTAAAATAATGACACATAGAAATAATTTGAAAAAAAAAACAAAGAAAAATATTTTTTAAAAATA
GAAAAATTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATGACTGATTGATTT
TAATTTATATATTAAATAATTTCATATACAATTGTAAAAGATACGATAGTATTAAT
Found at i:50049441 original size:133 final size:132
Alignment explanation
Indices: 50049304--50049547 Score: 362
Period size: 133 Copynumber: 1.8 Consensus size: 132
50049294 GGGTTGTGAT
* * * * *
50049304 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGAGATTTAGGGTTTATAGATTTGGTGTCAAGTTA
1 TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGAGATTTAGGATTTAGAGATTCGGGGTCAAGTTA
** *
50049369 GGGTTTAGGGTTTAGATTAATTAGTATTTTTTTAATTTATATATTAAATAAAATTTAGGGGTTAG
66 GGGTTTAAAGTTTAGATTAATTAATA-TTTTTTAATTTATATATTAAATAAAATTTAGGGGTTAG
50049434 TAG
130 TAG
* * ***
50049437 TTAGGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAGGATTTAGAGATTCGGGGTTGGGTTA
1 TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGAGATTTAGGATTTAGAGATTCGGGGTCAAGTTA
50049502 GGGTTTAAAGTTTAGATTAATTAATATTTTTTAATTTATATATTAA
66 GGGTTTAAAGTTTAGATTAATTAATATTTTTTAATTTATATATTAA
50049548 TTAAGTTCTT
Statistics
Matches: 98, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
132 20 0.20
133 78 0.80
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.42
Consensus pattern (132 bp):
TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGAGATTTAGGATTTAGAGATTCGGGGTCAAGTTA
GGGTTTAAAGTTTAGATTAATTAATATTTTTTAATTTATATATTAAATAAAATTTAGGGGTTAGT
AG
Found at i:50049442 original size:14 final size:14
Alignment explanation
Indices: 50049423--50049460 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
50049413 TAAATAAAAT
50049423 TTAGGGGTTAGTA-G
1 TTAGGGGTTAG-AGG
50049437 TTAGGGGTTAGAGG
1 TTAGGGGTTAGAGG
*
50049451 TTAGAGGTTA
1 TTAGGGGTTA
50049461 AGAGTTAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGAGG
Found at i:50049760 original size:28 final size:28
Alignment explanation
Indices: 50049728--50049816 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
50049718 ATAATTTTAA
50049728 TTTTAATATATTAAAATTATGATTATAG
1 TTTTAATATATTAAAATTATGATTATAG
* *
50049756 TTTTAAT-TATTTAAGAGATAATAGA-TA-AA
1 TTTTAATATA-TTAA-A-ATTAT-GATTATAG
*
50049785 TTTTATATATATTAAAAATATGATTATAG
1 TTTTA-ATATATTAAAATTATGATTATAG
50049814 TTT
1 TTT
50049817 CTGATTCTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
27 4 0.08
28 16 0.33
29 12 0.25
30 12 0.25
31 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (28 bp):
TTTTAATATATTAAAATTATGATTATAG
Found at i:50050866 original size:16 final size:16
Alignment explanation
Indices: 50050845--50050876 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50050835 GTGCCGCCAC
*
50050845 AGGTTTTTTTTTTTGT
1 AGGTTTTTGTTTTTGT
50050861 AGGTTTTTGTTTTTGT
1 AGGTTTTTGTTTTTGT
50050877 TTTTTTGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.00, G:0.22, T:0.72
Consensus pattern (16 bp):
AGGTTTTTGTTTTTGT
Found at i:50050916 original size:26 final size:27
Alignment explanation
Indices: 50050886--50050948 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
50050876 TTTTTTTGGT
50050886 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
*
50050912 ATATTTTGATAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
50050939 ATATTTTGGT
1 ATATTTTGGT
50050949 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Found at i:50055399 original size:39 final size:43
Alignment explanation
Indices: 50055317--50055401 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 43
50055307 ATTATAAAAT
*
50055317 ATATAAATAATAATTAACATAAAGTATATGCTAATATATTAAA
1 ATATAAATAATAATTAAAATAAAGTATATGCTAATATATTAAA
*
50055360 ATATAAA-AA-AATTAAAATAACG-ATATG-TAATGA-ATTAAA
1 ATATAAATAATAATTAAAATAAAGTATATGCTAAT-ATATTAAA
50055399 ATA
1 ATA
50055402 ATGTATGTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
39 13 0.33
40 6 0.15
41 11 0.28
42 2 0.05
43 7 0.18
ACGTcount: A:0.59, C:0.04, G:0.06, T:0.32
Consensus pattern (43 bp):
ATATAAATAATAATTAAAATAAAGTATATGCTAATATATTAAA
Found at i:50057131 original size:44 final size:44
Alignment explanation
Indices: 50057042--50057201 Score: 117
Period size: 44 Copynumber: 3.6 Consensus size: 44
50057032 ACGTTAACCC
* * * ** * *
50057042 GCTCCACTACAACCTCAGAGAGATAGGATTAT-CAACTTCAATCT
1 GCTCCACTACAACCTTAGGGAGATAAGATT-TGCTTCCTCAGTCT
50057086 GCTCCACTACAACCTTAGGGAGATAAGATTTGCTTCCTCAGTCT
1 GCTCCACTACAACCTTAGGGAGATAAGATTTGCTTCCTCAGTCT
* * *** * * * *
50057130 GCCCCATTGTGA-CTTCAGGGGGATAAGACTTGTTTTCTCAGTCT
1 GCTCCACTACAACCTT-AGGGAGATAAGATTTGCTTCCTCAGTCT
* * *
50057174 GCTCCGCTGCAACTTTAGGGAGATAAGA
1 GCTCCACTACAACCTTAGGGAGATAAGA
50057202 CCCGATGTGA
Statistics
Matches: 90, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
43 4 0.04
44 84 0.93
45 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTCCACTACAACCTTAGGGAGATAAGATTTGCTTCCTCAGTCT
Found at i:50057202 original size:44 final size:44
Alignment explanation
Indices: 50057083--50057202 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
50057073 TCAACTTCAA
* * *
50057083 TCTGCTCCACTACAACCTTAGGGAGATAAGATTTGCTTCCTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTTCCTCAG
* * ** * * * *
50057127 TCTGCCCCATTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTTCCTCAG
*
50057171 TCTGCTCCGCTGCAACTTTAGGGAGATAAGAC
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGAC
50057203 CCGATGTGAT
Statistics
Matches: 58, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTTCCTCAG
Found at i:50078590 original size:25 final size:25
Alignment explanation
Indices: 50078533--50078591 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
50078523 CCATACAAAG
*
50078533 CTTCGTACAATACCATTTTAATGTT
1 CTTCGTACAATACCATTTTAATGCT
* * **
50078558 GTTTGTACAATGTCATTTTAATGCT
1 CTTCGTACAATACCATTTTAATGCT
50078583 CTTCGTACA
1 CTTCGTACA
50078592 GCAACGGAGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (25 bp):
CTTCGTACAATACCATTTTAATGCT
Found at i:50095998 original size:45 final size:45
Alignment explanation
Indices: 50095887--50096237 Score: 409
Period size: 45 Copynumber: 7.8 Consensus size: 45
50095877 AGAACAGATC
* * *
50095887 ATTGAAGATTGCAAATCCTATCTCCCTGAAGTTGCAG-TGAGTGG
1 ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG
* * *
50095931 ATTGAAGATAACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGTAG
1 ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG
* * ** *
50095976 ACTGAAGATAGCAAATCCTATCTCCCTAAAGTTATAGTGGAGT-G
1 ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG
* * * * *
50096020 CATTGAAGATAGCAAGTCTTATCTCCCTGAATTTGCAGCAGAGCAG
1 -ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG
* * * *
50096066 ACTGAAGATAGCAAATTCTATCTCCCTGAAGTTGCAGTGGAGTGG
1 ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG
* * * * *
50096111 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
1 ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG
* * *
50096156 ATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAG
1 ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG
* *
50096201 ACTGAAGATAGCAAATCCTATCTCCCTGAAGTGGCAG
1 ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAG
50096238 TAGAGTGGAT
Statistics
Matches: 258, Mismatches: 46, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
44 34 0.13
45 223 0.86
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (45 bp):
ATTGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG
Found at i:50096045 original size:90 final size:90
Alignment explanation
Indices: 50095889--50096237 Score: 484
Period size: 90 Copynumber: 3.9 Consensus size: 90
50095879 AACAGATCAT
* *
50095889 TGAAGATTGCAAATCCTATCTCCCTGAAGTTGCAGT-GAGTGGATTGAAGATAACAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
50095953 TCCCTGAAGTTGCAGCGGAGTAGAC
66 TCCCTGAAGTTGCAGCGGAGTAGAC
* ** *
50095978 TGAAGATAGCAAATCCTATCTCCCTAAAGTTATAGTGGAGTGCATTGAAGATAGCAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
* * *
50096043 TCCCTGAATTTGCAGCAGAGCAGAC
66 TCCCTGAAGTTGCAGCGGAGTAGAC
* *
50096068 TGAAGATAGCAAATTCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
* * *
50096133 TCCCTGAAGTTGCAGTGGAGTGGAT
66 TCCCTGAAGTTGCAGCGGAGTAGAC
* * * ** * * *
50096158 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
*
50096223 TCCCTGAAGTGGCAG
66 TCCCTGAAGTTGCAG
50096238 TAGAGTGGAT
Statistics
Matches: 227, Mismatches: 32, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
89 32 0.14
90 195 0.86
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.26
Consensus pattern (90 bp):
TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
TCCCTGAAGTTGCAGCGGAGTAGAC
Found at i:50096133 original size:135 final size:135
Alignment explanation
Indices: 50095886--50096363 Score: 492
Period size: 135 Copynumber: 3.6 Consensus size: 135
50095876 GAGAACAGAT
* * * * ** * * *
50095886 CATTGAAGATTGCAAATCCTATCTCCCTGAAGTTGCAG-TGAGTGGATTGAAGATAAC-AAGTCT
1 CATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATTC-
* * * * *
50095949 TATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATCCTATCTCCCTAAAGTTATAGT
65 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAATCCTATCTCCCTAAAGTTACAGT
50096014 GGAGTG
130 GGAGTG
*
50096020 CATTGAAGATAGCAAGTCTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAGCAAATTCT
1 CATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATTCT
* * * *
50096085 ATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTG
66 ATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAATCCTATCTCCCTAAAGTTACAGTG
50096150 GAGTG
131 GAGTG
* * *
50096155 GATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCCT
1 CATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATTCT
* * * ** * * *
50096220 ATCTCCCTGAAGTGGCAGTAGAGTGGATTAAAAAT-GACGGATCTTATCTCTCTAAAGTTGCAGT
66 ATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAG-CAAATCCTATCTCCCTAAAGTTACAGT
*
50096284 --AGAG
130 GGAGTG
* ** * *
50096288 CA--GATCGCAT--CAAGTCTTATCTCCCTG-A-TTGCAGTGGAGAAGACTGAAGATAGCAAGTT
1 CATTGA-AG-ATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATT
* * *
50096347 TTATCTCTCTCAAGTTG
64 CTATCTCCCTGAAGTTG
50096364 TAGAGAGCAG
Statistics
Matches: 297, Mismatches: 42, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
129 40 0.13
130 1 0.00
131 19 0.06
132 1 0.00
133 6 0.02
134 35 0.12
135 191 0.64
136 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (135 bp):
CATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATTCT
ATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAATCCTATCTCCCTAAAGTTACAGTG
GAGTG
Found at i:50096268 original size:45 final size:45
Alignment explanation
Indices: 50095887--50096363 Score: 398
Period size: 45 Copynumber: 10.8 Consensus size: 45
50095877 AGAACAGATC
* * * *
50095887 ATTGAAGATTGCAAATCCTATCTCCCTGAAGTTGCAGT-GAGTGG
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * * *
50095931 ATTGAAGATAACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGTAG
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * * * * ** *
50095976 ACTGAAGATAGCAAATCCTATCTCCCTAAAGTTATAGTGGAGTGC
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * ** **
50096021 ATTGAAGATAGCAAGTCTTATCTCCCTGAATTTGCAGCAGAGCAG
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * *
50096066 ACTGAAGATAGCAAAT-TCTATCTCCCTGAAGTTGCAGTGGAGTGG
1 ATTGAAAATAGCAAGTCT-TATCTCCCTGAAGTTGCAGTGGAGTGG
50096111 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * **
50096156 ATTGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAG
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * * * * *
50096201 ACTGAAGATAGCAAATCCTATCTCCCTGAAGTGGCAGTAGAGTGG
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * * * * **
50096246 ATTAAAAAT-G-ACGGATCTTATCTCTCTAAAGTTGCAGTAGAGCAG
1 ATTGAAAATAGCA-AG-TCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * **
50096291 ATCG--CAT--CAAGTCTTATCTCCCTG-A-TTGCAGTGGAGAAG
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
* * * * *
50096330 ACTGAAGATAGCAAGTTTTATCTCTCTCAAGTTG
1 ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTG
50096364 TAGAGAGCAG
Statistics
Matches: 346, Mismatches: 75, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
39 14 0.04
40 1 0.00
41 13 0.04
42 1 0.00
43 18 0.05
44 36 0.10
45 262 0.76
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
ATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGG
Found at i:50097688 original size:21 final size:22
Alignment explanation
Indices: 50097648--50097691 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
50097638 GCAAGTAAAT
50097648 GGGGTTTCATTTAGGGTTTGAAA
1 GGGGTTTCATTTA-GGTTTGAAA
*
50097671 GGGGTTTTATTT-GGTTTGAAA
1 GGGGTTTCATTTAGGTTTGAAA
50097692 AATGACGCTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
23 11 0.55
ACGTcount: A:0.20, C:0.02, G:0.34, T:0.43
Consensus pattern (22 bp):
GGGGTTTCATTTAGGTTTGAAA
Found at i:50101567 original size:12 final size:12
Alignment explanation
Indices: 50101552--50101584 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50101542 TCAGTAGCAA
50101552 TGGCAGTGGTAG
1 TGGCAGTGGTAG
50101564 TGGCA-TCGGTAG
1 TGGCAGT-GGTAG
50101576 TGGCAGTGG
1 TGGCAGTGG
50101585 CTTGCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.15, C:0.12, G:0.48, T:0.24
Consensus pattern (12 bp):
TGGCAGTGGTAG
Found at i:50114120 original size:98 final size:97
Alignment explanation
Indices: 50113950--50114132 Score: 296
Period size: 98 Copynumber: 1.9 Consensus size: 97
50113940 TTGTGCGAAG
* *
50113950 AAAACTCTTAGTTGTGCCCAAATCTCCCGCAATGAAAGAAACCATAGGTAAGGATTCATACTCGA
1 AAAACTCTCAGTTATGCCCAAATCTCCCGCAATGAAAGAAACCATAGGTAAGGATTCATACTCGA
50114015 AACATTGAGTTTTCCCATCGATTTGTGTGGAC
66 AACATTGAGTTTTCCCATCGATTTGTGTGGAC
* *
50114047 AAAACTCTCGGTTATGCCCAAATCTTCCGCAATCG-AAGCAAACCATAGGTAAGGATTCATACTC
1 AAAACTCTCAGTTATGCCCAAATCTCCCGCAAT-GAAAG-AAACCATAGGTAAGGATTCATACTC
*
50114111 GACACATTGAGTTTTCCCATCG
64 GAAACATTGAGTTTTCCCATCG
50114133 TTTTTAACTT
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
97 32 0.41
98 47 0.59
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (97 bp):
AAAACTCTCAGTTATGCCCAAATCTCCCGCAATGAAAGAAACCATAGGTAAGGATTCATACTCGA
AACATTGAGTTTTCCCATCGATTTGTGTGGAC
Found at i:50115373 original size:16 final size:16
Alignment explanation
Indices: 50115354--50115387 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50115344 TTTATTTTGC
* *
50115354 TTTGGCTGCATGGCAT
1 TTTGACTGCATGACAT
50115370 TTTGACTGCATGACAT
1 TTTGACTGCATGACAT
50115386 TT
1 TT
50115388 CATTATAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGACTGCATGACAT
Found at i:50116751 original size:16 final size:17
Alignment explanation
Indices: 50116726--50116759 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
50116716 GCGCAAGCGT
50116726 TCATGAAACA-ATATAG
1 TCATGAAACAGATATAG
*
50116742 TCATGTAACAGATATAG
1 TCATGAAACAGATATAG
50116759 T
1 T
50116760 TCTTGATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (17 bp):
TCATGAAACAGATATAG
Found at i:50118606 original size:5 final size:5
Alignment explanation
Indices: 50118596--50118629 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
50118586 AAATGATGGA
*
50118596 AAAAG AAAAG AAAAG GAAA- AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
50118630 GAGAGGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:50118619 original size:19 final size:19
Alignment explanation
Indices: 50118595--50118631 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
50118585 AAAATGATGG
50118595 AAAAAGAAAAGAAAAGGAA
1 AAAAAGAAAAGAAAAGGAA
50118614 AAAAAGAAAAGAAAAGGA
1 AAAAAGAAAAGAAAAGGA
50118632 GAGGAGAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AAAAAGAAAAGAAAAGGAA
Found at i:50120158 original size:135 final size:135
Alignment explanation
Indices: 50119913--50120715 Score: 980
Period size: 135 Copynumber: 6.2 Consensus size: 135
50119903 TCTTTGAGCA
* * * * * * *
50119913 GTAGTGAAGCAGGTTGAAGATAGCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGA
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA
* * * *
50119978 TAACAGATCTTGTCTTCTTGTATTGGCAACGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTA
66 TAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTA
50120043 TATTG
131 TATTG
50120048 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA
* * * *
50120113 TAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTA
66 TAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTA
50120178 TATTG
131 TATTG
* *
50120183 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATTTAAA-
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-TCAAAG
* * * * ** *
50120247 ATAGCAGATCTGGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCTT
65 ATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCT
50120312 ATATTG
130 ATATTG
* * * * * *
50120318 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCTTATAATGGTAGTGAAGTAGATCGAAGA
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA
* * *
50120383 TAACAGATCTTGTCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTCCTA
66 TAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTA
50120448 TATTG
131 TATTG
50120453 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATT---AGC-----AG--C---GA
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA
* *
50120505 -AACAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAGCAGATCTTGTCTTCC--
66 TAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTA
50120567 ---T-
131 TATTG
* * *
50120568 GTATTG--GCAG--C---GA-AACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAGGA
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA
* * * *
50120625 TAGCAGATCTTATCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCTA
66 TAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTA
50120690 TATTG
131 TATTG
* ** *
50120695 GCAACGAAGAAGATCGAAGAT
1 GTAGTGAAGTAGATCGAAGAT
50120716 TGCATCCAGT
Statistics
Matches: 581, Mismatches: 57, Indels: 60
0.83 0.08 0.09
Matches are distributed among these distances:
107 23 0.04
108 2 0.00
110 3 0.01
111 1 0.00
113 3 0.01
115 7 0.01
116 1 0.00
117 1 0.00
120 2 0.00
121 115 0.20
122 2 0.00
125 1 0.00
126 1 0.00
127 5 0.01
129 3 0.01
131 1 0.00
132 2 0.00
134 5 0.01
135 399 0.69
136 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (135 bp):
GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA
TAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTA
TATTG
Found at i:50120512 original size:31 final size:31
Alignment explanation
Indices: 50120474--50120543 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
50120464 GATCGAAGAT
*
50120474 AACAGATCTTGTCTTCCTGTATTAGCAGCGA
1 AACAGATCTTGTCTTCCTATATTAGCAGCGA
* *
50120505 AACAGATCTTGTCTTCCTATATTGGTAGCGA
1 AACAGATCTTGTCTTCCTATATTAGCAGCGA
*
50120536 AATAGATC
1 AACAGATC
50120544 GAAGATAGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (31 bp):
AACAGATCTTGTCTTCCTATATTAGCAGCGA
Found at i:50120512 original size:45 final size:45
Alignment explanation
Indices: 50119913--50120496 Score: 835
Period size: 45 Copynumber: 13.0 Consensus size: 45
50119903 TCTTTGAGCA
* * * *
50119913 GTAGTGAAGCAGGTTGAAGATAGCAGATCTTGTCTTCCTATATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * *
50119958 GTAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCTTGTATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* ** * *
50120003 GCAACGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
*
50120048 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * *
50120093 GCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
50120138 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
*
50120183 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* ** ** * * *
50120228 GCAACGAAGTAGATTTAAAATAGCAGATCTGGTCTTCCTATATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* *
50120273 GTAGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCTTATATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* *
50120318 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCTTATAATG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
*
50120363 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
* * * * *
50120408 GCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTCCTATATTG
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
*
50120453 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATT
1 GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATT
50120497 AGCAGCGAAA
Statistics
Matches: 474, Mismatches: 65, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 474 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (45 bp):
GTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTG
Found at i:50120619 original size:31 final size:31
Alignment explanation
Indices: 50120552--50120612 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
50120542 TCGAAGATAG
50120552 CAGATCTTGTCTTCCTGTATTGGCAGCGAAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAA
50120583 CAGATCTTGTCTTCCTGTATTGGCAGCGAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAA
50120613 GTAGATCAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (31 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAA
Found at i:50120647 original size:45 final size:45
Alignment explanation
Indices: 50120583--50120715 Score: 194
Period size: 45 Copynumber: 3.0 Consensus size: 45
50120573 GGCAGCGAAA
*
50120583 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAGGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* *
50120628 CAGATCTTATCTTCCTGTATTGGTAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* * * * *
50120673 CAAATCTTGTCTTCCTATATTGGCAACGAAGAAGATCGAAGAT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
50120716 TGCATCCAGT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
Found at i:50120664 original size:76 final size:76
Alignment explanation
Indices: 50120431--50120657 Score: 366
Period size: 76 Copynumber: 3.0 Consensus size: 76
50120421 TCAAAGATAG
* *
50120431 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTAT
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
*
50120496 TAGCAGCGAAA
66 TGGCAGCGAAA
*
50120507 CAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
50120572 TGGCAGCGAAA
66 TGGCAGCGAAA
* * *
50120583 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAGGATAGCAGATCTTATCTTCCTGTA
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAA-GATAGCAGATCTTGTCTTCCTGTA
*
50120647 TTGGTAGCGAA
65 TTGGCAGCGAA
50120658 GTAGATCAAA
Statistics
Matches: 141, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
75 2 0.01
76 139 0.99
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (76 bp):
CAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
TGGCAGCGAAA
Found at i:50120882 original size:44 final size:44
Alignment explanation
Indices: 50120818--50120934 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
50120808 CGGCAAATAT
* * *
50120818 TATCTCCCTGAAATTGCAGTGGAGTAGATTAAAGCCAATA-ATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAG-CAATAGATCC
* * ** *
50120862 TATCTCTCTGAAGTTACAGTGGAGCGGATTAAAGTGATAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAGATCC
* *
50120906 TATCTCTCTGAAGTTGCAGTAGAACAGAT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGAT
50120935 CGAAGATAGC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.05
44 57 0.95
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCAATAGATCC
Found at i:50122386 original size:5 final size:5
Alignment explanation
Indices: 50122367--50122401 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
50122357 TACATGTACA
50122367 TATTT TATTT ATATTT TATTT TATTAT TATTT TAT
1 TATTT TATTT -TATTT TATTT TATT-T TATTT TAT
50122402 CTTCACAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:50122388 original size:16 final size:16
Alignment explanation
Indices: 50122367--50122401 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
50122357 TACATGTACA
50122367 TATTTTATT-TATATTT
1 TATTTTATTAT-TATTT
50122383 TATTTTATTATTATTT
1 TATTTTATTATTATTT
50122399 TAT
1 TAT
50122402 CTTCACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTATTATTATTT
Found at i:50122399 original size:11 final size:10
Alignment explanation
Indices: 50122367--50122401 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
50122357 TACATGTACA
50122367 TATTTTATTT
1 TATTTTATTT
50122377 ATATTTTATTT
1 -TATTTTATTT
50122388 TATTATTATTT
1 TATT-TTATTT
50122399 TAT
1 TAT
50122402 CTTCACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTATTT
Found at i:50131045 original size:13 final size:13
Alignment explanation
Indices: 50131027--50131088 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 13
50131017 TTCTTCATTG
50131027 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
50131040 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
* *
50131053 CTGTGGAAAAGTA
1 CTTTTGAAAAGTA
* *
50131066 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
50131079 CTTTTGAAAA
1 CTTTTGAAAA
50131089 TTTTGAGTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:50131087 original size:26 final size:26
Alignment explanation
Indices: 50131025--50131088 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
50131015 AGTTCTTCAT
50131025 TGCTTTTGAAAAGTACTTTTGAAAAG
1 TGCTTTTGAAAAGTACTTTTGAAAAG
* * *
50131051 TGCTGTGGAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAAAAG
50131077 TGCTTTTGAAAA
1 TGCTTTTGAAAA
50131089 TTTTGAGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTTTTGAAAAG
Found at i:50131360 original size:18 final size:18
Alignment explanation
Indices: 50131315--50131374 Score: 50
Period size: 19 Copynumber: 3.1 Consensus size: 18
50131305 TAATTATTTA
* *
50131315 TTAAATTTAATTAGAATA-
1 TTAAATATATTTA-AATAT
50131333 TTAAACTATATTTAAATAT
1 TTAAA-TATATTTAAATAT
50131352 TTAAATATAATAATTAAATAT
1 TTAAATAT-AT--TTAAATAT
50131373 TT
1 TT
50131375 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
18 12 0.34
19 13 0.37
21 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAAATATATTTAAATAT
Found at i:50133234 original size:72 final size:73
Alignment explanation
Indices: 50133144--50133318 Score: 248
Period size: 72 Copynumber: 2.4 Consensus size: 73
50133134 AAAATCACAT
* *
50133144 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCCAAA
*
50133208 GACCAAAC
66 AACCAAAC
* * *
50133216 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAATATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCCAA
50133279 AAACCAAAC
65 AAACCAAAC
* *
50133288 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
50133319 TTGTTGTTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
71 1 0.01
72 85 0.96
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCCAAA
AACCAAAC
Found at i:50133762 original size:18 final size:18
Alignment explanation
Indices: 50133741--50133806 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
50133731 TCCATCAATT
50133741 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
50133759 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
50133777 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
50133795 TGAACATCATTT
1 TGAACATCATTT
50133807 CTCATATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:50134711 original size:15 final size:15
Alignment explanation
Indices: 50134691--50134743 Score: 74
Period size: 15 Copynumber: 3.6 Consensus size: 15
50134681 GGCACAAGTT
50134691 TGTAATTAATATTTA
1 TGTAATTAATATTTA
*
50134706 TGTAATT-ATAAGTT-
1 TGTAATTAAT-ATTTA
50134720 TGTAATTAATATTTA
1 TGTAATTAATATTTA
50134735 TGTAATTAA
1 TGTAATTAA
50134744 AAATAGTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (15 bp):
TGTAATTAATATTTA
Found at i:50134720 original size:29 final size:30
Alignment explanation
Indices: 50134686--50134760 Score: 116
Period size: 29 Copynumber: 2.5 Consensus size: 30
50134676 TTATAGGCAC
*
50134686 AAGTTTGTAATTAATATTTATGTAATT-AT
1 AAGTTTGTAATTAATATTTATGTAATTAAA
50134715 AAGTTTGTAATTAATATTTATGTAATTAAAA
1 AAGTTTGTAATTAATATTTATGTAATT-AAA
50134746 ATAGTTTGTAATTAA
1 A-AGTTTGTAATTAA
50134761 GATGATTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 27 0.64
31 2 0.05
32 13 0.31
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (30 bp):
AAGTTTGTAATTAATATTTATGTAATTAAA
Found at i:50134725 original size:14 final size:13
Alignment explanation
Indices: 50134686--50134744 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 13
50134676 TTATAGGCAC
50134686 AAGTTTGTAATTA
1 AAGTTTGTAATTA
*
50134699 ATATTTATGTAATTA
1 A-AGTT-TGTAATTA
50134714 TAAGTTTGTAATTA
1 -AAGTTTGTAATTA
*
50134728 ATATTTATGTAATTA
1 A-AGTT-TGTAATTA
50134743 AA
1 AA
50134745 AATAGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.05
14 15 0.39
15 20 0.53
16 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (13 bp):
AAGTTTGTAATTA
Found at i:50135852 original size:14 final size:15
Alignment explanation
Indices: 50135817--50135858 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
50135807 TATAATATCT
50135817 TTTGTTTCTTAAATA
1 TTTGTTTCTTAAATA
50135832 TTGTGTTTCTTAAATA
1 TT-TGTTTCTTAAATA
50135848 -TTGTTTCTTAA
1 TTTGTTTCTTAA
50135859 TCTGCAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.38
15 3 0.12
16 13 0.50
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTGTTTCTTAAATA
Found at i:50137895 original size:19 final size:19
Alignment explanation
Indices: 50137867--50137903 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50137857 GGTGGAGAAG
* *
50137867 AGGAACAAAGCACCAGCAA
1 AGGAAAAAAGAACCAGCAA
50137886 AGGAAAAAAGAACCAGCA
1 AGGAAAAAAGAACCAGCA
50137904 CCAGCAGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.22, G:0.22, T:0.00
Consensus pattern (19 bp):
AGGAAAAAAGAACCAGCAA
Found at i:50137903 original size:25 final size:25
Alignment explanation
Indices: 50137875--50137926 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
50137865 AGAGGAACAA
50137875 AGCACCAGCAAAGGAAAAAAGAACC
1 AGCACCAGCAAAGGAAAAAAGAACC
* *
50137900 AGCACCAGCAGAGGAATAAAGAACC
1 AGCACCAGCAAAGGAAAAAAGAACC
50137925 AG
1 AG
50137927 TGTAACACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.23, G:0.23, T:0.02
Consensus pattern (25 bp):
AGCACCAGCAAAGGAAAAAAGAACC
Found at i:50138577 original size:45 final size:45
Alignment explanation
Indices: 50138504--50138800 Score: 481
Period size: 45 Copynumber: 6.6 Consensus size: 45
50138494 TGCGTATGAT
* *
50138504 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTAC
* *
50138547 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACT-AGGCTAC
50138593 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTAC
*
50138638 CATTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTAC
*
50138683 CACTTATCACTTTGTCACTTGATTAGATAAGTGTAACTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTAC
* * *
50138728 AACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACT-AGGCTAC
50138774 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
50138801 AGTACTCAAA
Statistics
Matches: 238, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
43 10 0.04
44 5 0.02
45 148 0.62
46 75 0.32
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTAC
Found at i:50138773 original size:136 final size:136
Alignment explanation
Indices: 50138504--50138800 Score: 483
Period size: 136 Copynumber: 2.2 Consensus size: 136
50138494 TGCGTATGAT
* *
50138504 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
* *
50138567 GATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTA
66 GATCAGATAAGTGTAACTAAAGCTACAACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTA
*
50138632 GGCTAC
131 AGCTAC
*
50138638 CATTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
* * *
50138703 GATTAGATAAGTGTAACT-AGGCTACAACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTA
66 GATCAGATAAGTGTAACTAAAGCTACAACTTATCACTTTGTCACTTGATCAGATAAGTGTAACT-
50138767 AAGCTAC
130 AAGCTAC
50138774 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
50138801 AGTACTCAAA
Statistics
Matches: 150, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
134 9 0.06
135 47 0.31
136 94 0.63
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (136 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAACTAAAGCTACAACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTA
AGCTAC
Found at i:50141051 original size:19 final size:20
Alignment explanation
Indices: 50141029--50141066 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
50141019 AACAGAGGAT
*
50141029 CAAAGAAGCAGC-AGAGAAA
1 CAAAGAACCAGCGAGAGAAA
50141048 CAAAGAACCAGCGAGAGAA
1 CAAAGAACCAGCGAGAGAA
50141067 GAGATGAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.55, C:0.18, G:0.26, T:0.00
Consensus pattern (20 bp):
CAAAGAACCAGCGAGAGAAA
Found at i:50144048 original size:10 final size:10
Alignment explanation
Indices: 50144021--50144080 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
50144011 TTTTTAAATC
*
50144021 TTAAAAATAA
1 TTAAAAATTA
* *
50144031 ATATAAATTA
1 TTAAAAATTA
50144041 TTAAAAA-TA
1 TTAAAAATTA
50144050 TTAAAAATTA
1 TTAAAAATTA
*
50144060 TGTTAAAATATTT
1 --TTAAAA-ATTA
50144073 TTAAAAAT
1 TTAAAAAT
50144081 AAACATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 9 0.22
10 16 0.40
11 6 0.15
12 6 0.15
13 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:50144162 original size:34 final size:33
Alignment explanation
Indices: 50144094--50144163 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 33
50144084 CATTATAAAT
* *
50144094 AAAAATTTATAAAAGTTCAAAATATATATGTAA
1 AAAAATTTATAAAAGTTCAAAAAAAATATGTAA
* *
50144127 AAAAATCTTA-AAAAGTTACAAAAAAAATCTTTAA
1 AAAAAT-TTATAAAAGTT-CAAAAAAAATATGTAA
50144161 AAA
1 AAA
50144164 TTTTATCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (33 bp):
AAAAATTTATAAAAGTTCAAAAAAAATATGTAA
Found at i:50146230 original size:11 final size:11
Alignment explanation
Indices: 50146204--50146254 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
50146194 AATTTTTTGA
*
50146204 ATTTTTAACAT
1 ATTTTTAATAT
50146215 AATTTTTAATAT
1 -ATTTTTAATAT
50146227 ATTTTTAATA-
1 ATTTTTAATAT
*
50146237 ATTTAT-ATAT
1 ATTTTTAATAT
50146247 -TTTTTAAT
1 ATTTTTAAT
50146255 TTTTTTAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.21
10 7 0.21
11 10 0.29
12 10 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:50146254 original size:16 final size:17
Alignment explanation
Indices: 50146223--50146256 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50146213 ATAATTTTTA
50146223 ATATATTTTTAATAATTT
1 ATATATTTTT-ATAATTT
50146241 ATATATTTTT-TAATTT
1 ATATATTTTTATAATTT
50146257 TTTTAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATATTTTTATAATTT
Found at i:50146726 original size:49 final size:49
Alignment explanation
Indices: 50146654--50146752 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
50146644 TAAGGGTGGG
50146654 TTTGGAAGGCGATTGGGTGCAGTGCGGTGCATTTAGCTTATTTTTTGTC
1 TTTGGAAGGCGATTGGGTGCAGTGCGGTGCATTTAGCTTATTTTTTGTC
50146703 TTTGGAAGGCGATTGGGTGCAGTGCGGTGCATTTAGCTTATTTTTTGTC
1 TTTGGAAGGCGATTGGGTGCAGTGCGGTGCATTTAGCTTATTTTTTGTC
50146752 T
1 T
50146753 CACGCTACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.14, C:0.12, G:0.32, T:0.41
Consensus pattern (49 bp):
TTTGGAAGGCGATTGGGTGCAGTGCGGTGCATTTAGCTTATTTTTTGTC
Found at i:50146771 original size:11 final size:11
Alignment explanation
Indices: 50146755--50146788 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
50146745 TTTTGTCTCA
*
50146755 CGCTACAATAT
1 CGCTACAGTAT
50146766 CGCTACAGTAT
1 CGCTACAGTAT
50146777 CGCTACAGTAT
1 CGCTACAGTAT
50146788 C
1 C
50146789 TAATCTCACC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (11 bp):
CGCTACAGTAT
Found at i:50148496 original size:18 final size:18
Alignment explanation
Indices: 50148468--50148526 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
50148458 ATTTGTATAA
*
50148468 TATATATTTTTATAAATT
1 TATATAATTTTATAAATT
* *
50148486 TATA-AGCTTTTATATATT
1 TATATA-ATTTTATAAATT
*
50148504 TATATAATTTTATAATTT
1 TATATAATTTTATAAATT
50148522 TATAT
1 TATAT
50148527 TTTATATGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATATAATTTTATAAATT
Found at i:50148499 original size:43 final size:43
Alignment explanation
Indices: 50148452--50148539 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
50148442 ATAATATAAG
* *
50148452 TTATAAATTTGTATAA-TATATATTTTTATAAATTTATAAGCTT
1 TTATAAATTTATATAATTATATAATTTTAT-AATTTATAAGCTT
* * * *
50148495 TTATATATTTATATAATTTTATAATTTTATATTTTATATGCTT
1 TTATAAATTTATATAATTATATAATTTTATAATTTATAAGCTT
50148538 TT
1 TT
50148540 CAAAATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 27 0.71
44 11 0.29
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.59
Consensus pattern (43 bp):
TTATAAATTTATATAATTATATAATTTTATAATTTATAAGCTT
Found at i:50148509 original size:28 final size:26
Alignment explanation
Indices: 50148468--50148533 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 26
50148458 ATTTGTATAA
*
50148468 TATATATTTTTATAAATTTATAAGCTTT
1 TATATATTTATATAAATTTATAA--TTT
*
50148496 TATATATTTATATAATTTTATAATTT
1 TATATATTTATATAAATTTATAATTT
50148522 TATAT-TTTATAT
1 TATATATTTATAT
50148534 GCTTTTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 7 0.19
26 8 0.22
28 21 0.58
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TATATATTTATATAAATTTATAATTT
Found at i:50155248 original size:21 final size:21
Alignment explanation
Indices: 50155222--50155275 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
50155212 CAACGGTGGT
*
50155222 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
50155243 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
50155264 GGTGAGATTAGA
1 GGTGAGATTAGA
50155276 AACAAGGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.07, G:0.37, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:50160516 original size:16 final size:15
Alignment explanation
Indices: 50160493--50160526 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
50160483 TAAAAATTAG
*
50160493 AAAAAATAAATTATA
1 AAAAAATAAATAATA
50160508 AAAATAATAAATAATA
1 AAAA-AATAAATAATA
50160524 AAA
1 AAA
50160527 TTTAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAAATAAATAATA
Found at i:50160600 original size:44 final size:43
Alignment explanation
Indices: 50160503--50160600 Score: 101
Period size: 45 Copynumber: 2.2 Consensus size: 43
50160493 AAAAAATAAA
* *
50160503 TTATAAAAATAATAAATAATAAAATTTAGAAAAATTATTAAATTT
1 TTATAAAAATAAAAAATAATAAAATTTACAAAAATTATT--ATTT
* *
50160548 TAATAAAAATATAAAAAT-ATAAAATTTATCAACAATTAATT-TTT
1 TTATAAAAATA-AAAAATAATAAAATTTA-CAAAAATT-ATTATTT
50160592 TTATAAAAA
1 TTATAAAAA
50160601 GCGTAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.24
45 20 0.44
46 11 0.24
47 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (43 bp):
TTATAAAAATAAAAAATAATAAAATTTACAAAAATTATTATTT
Found at i:50160628 original size:19 final size:19
Alignment explanation
Indices: 50160606--50160653 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
50160596 AAAAAGCGTA
*
50160606 AAAAATTTAAAAAAATTGT
1 AAAAATTTAAAAAAATTAT
* * *
50160625 AAAATTTTATAAAATTTAT
1 AAAAATTTAAAAAAATTAT
*
50160644 AAAAAATTAA
1 AAAAATTTAA
50160654 CGACCTCTAG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTTAAAAAAATTAT
Found at i:50160881 original size:18 final size:18
Alignment explanation
Indices: 50160834--50160882 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
50160824 TTCTTATGAC
50160834 TTTATAAAATTTTACAATT
1 TTTAT-AAATTTTACAATT
* *
50160853 TTT-TATTATTTTACGATT
1 TTTATA-AATTTTACAATT
50160871 TTTATAAATTTT
1 TTTATAAATTTT
50160883 TTTCTAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.04
18 19 0.76
19 5 0.20
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTATAAATTTTACAATT
Found at i:50163927 original size:79 final size:81
Alignment explanation
Indices: 50163744--50163966 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
50163734 TTGAATGATG
* * *
50163744 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
50163806 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
*
50163823 TTCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
50163884 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
50163901 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
50163965 TG
66 TG
50163967 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 45 0.36
79 55 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:50163928 original size:40 final size:40
Alignment explanation
Indices: 50163744--50163966 Score: 262
Period size: 39 Copynumber: 5.7 Consensus size: 40
50163734 TTGAATGATG
* *
50163744 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
50163783 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
50163823 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
50163862 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
50163901 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
50163942 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50163967 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 91 0.56
40 62 0.38
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:50163988 original size:79 final size:79
Alignment explanation
Indices: 50163744--50163999 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
50163734 TTGAATGATG
* * * *
50163744 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
50163805 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* * *
50163823 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
50163887 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
50163901 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
50163964 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
50163981 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
50164000 TACGTGATTT
Statistics
Matches: 151, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 45 0.30
79 68 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:50171819 original size:39 final size:41
Alignment explanation
Indices: 50171724--50171907 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
50171714 TTGAATGATG
*
50171724 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
50171763 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
50171803 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
50171842 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
50171882 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50171908 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:50171859 original size:79 final size:81
Alignment explanation
Indices: 50171724--50171907 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
50171714 TTGAATGATG
50171724 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
50171787 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
50171802 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
50171863 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
50171882 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
50171908 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:50171929 original size:79 final size:79
Alignment explanation
Indices: 50171776--50171940 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
50171766 GGACTAAGAT
* ** *
50171776 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
50171841 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
50171855 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
50171917 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
50171934 CCGAAGG
1 CCGAAGG
50171941 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:50178854 original size:14 final size:15
Alignment explanation
Indices: 50178835--50178875 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
50178825 AAACATCTTA
50178835 AATTAATTTT-AATT
1 AATTAATTTTCAATT
50178849 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
50178865 AAATAATTTTC
1 AATTAATTTTC
50178876 TCAACTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:50180763 original size:20 final size:22
Alignment explanation
Indices: 50180735--50180785 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
50180725 GGGTCAACAA
*
50180735 GCCCATGTGG-AGG-GACACAC
1 GCCCGTGTGGAAGGAGACACAC
*
50180755 GCCCGTGTGGAAGGAGGCACAC
1 GCCCGTGTGGAAGGAGACACAC
*
50180777 GCTCGTGTG
1 GCCCGTGTG
50180786 ACCTAGGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.35
21 3 0.12
22 14 0.54
ACGTcount: A:0.20, C:0.27, G:0.39, T:0.14
Consensus pattern (22 bp):
GCCCGTGTGGAAGGAGACACAC
Found at i:50187954 original size:28 final size:28
Alignment explanation
Indices: 50187905--50187959 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
50187895 TGAGCAGCCT
**
50187905 AAATATCACAACTTGTGCGAGAAAATTC
1 AAATATCACAACTCATGCGAGAAAATTC
* *
50187933 AAATATCACAGCTCATGTGAGAAAATT
1 AAATATCACAACTCATGCGAGAAAATT
50187960 GAATTATTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (28 bp):
AAATATCACAACTCATGCGAGAAAATTC
Found at i:50191082 original size:6 final size:6
Alignment explanation
Indices: 50191067--50191100 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
50191057 CTTAAGATTT
*
50191067 ACAACC ACAACT ACAACC ACAACC ACAACC ACAA
1 ACAACC ACAACC ACAACC ACAACC ACAACC ACAA
50191101 ATGCCTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.44, G:0.00, T:0.03
Consensus pattern (6 bp):
ACAACC
Found at i:50200365 original size:16 final size:17
Alignment explanation
Indices: 50200334--50200371 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
50200324 ATATGGTATA
50200334 TATGTATTTAAGTTGT-
1 TATGTATTTAAGTTGTG
* *
50200350 TATGTATTTGATTTGTG
1 TATGTATTTAAGTTGTG
50200367 TATGT
1 TATGT
50200372 CTGTTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (17 bp):
TATGTATTTAAGTTGTG
Found at i:50202623 original size:16 final size:17
Alignment explanation
Indices: 50202592--50202626 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
50202582 ATTAATCAAA
50202592 CTAACTAAATTAATTTT
1 CTAACTAAATTAATTTT
*
50202609 CTAATTAAA-TAATTTT
1 CTAACTAAATTAATTTT
50202625 CT
1 CT
50202627 CAATCCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
CTAACTAAATTAATTTT
Found at i:50205988 original size:39 final size:40
Alignment explanation
Indices: 50205914--50205989 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
50205904 TATCTGCATT
*
50205914 CTGTATCTGATATGGGCCAAGGCCCTAATGTATTCTGAGA
1 CTGTATCTGATATGGGCCAAGGCCCAAATGTATTCTGAGA
*
50205954 CTGTATCTGA-ATGGGCTAAGGCCCAAACTG-ATTCTG
1 CTGTATCTGATATGGGCCAAGGCCCAAA-TGTATTCTG
50205990 TGATGGGCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 21 0.64
40 12 0.36
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
CTGTATCTGATATGGGCCAAGGCCCAAATGTATTCTGAGA
Found at i:50213002 original size:44 final size:44
Alignment explanation
Indices: 50212948--50213041 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
50212938 TTAATAGGTC
*
50212948 AAAC-AATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGGG
1 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGAG
50212991 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGAG
1 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGAG
50213035 AAACTAA
1 AAACTAA
50213042 AAACATAGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 4 0.08
44 45 0.92
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.28
Consensus pattern (44 bp):
AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGAG
Found at i:50216944 original size:20 final size:21
Alignment explanation
Indices: 50216919--50216958 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
50216909 ACATGTTCAA
*
50216919 TATCAAA-ATCAGGTCATACT
1 TATCAAATATCAGGACATACT
50216939 TATCAAATATCAGGACATAC
1 TATCAAATATCAGGACATAC
50216959 ATAACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (21 bp):
TATCAAATATCAGGACATACT
Found at i:50219350 original size:63 final size:63
Alignment explanation
Indices: 50219269--50219458 Score: 308
Period size: 63 Copynumber: 3.0 Consensus size: 63
50219259 AATAAAAAGA
* *
50219269 AAATGGGCAGATTTGGTCAAATGATCCACGATGACCTAAACAGAATCTTACTTAGTGGGTGTT
1 AAATGGGCAGATTTGGTCAAATGATCTACGATGACCTAAACAGAATCTTTCTTAGTGGGTGTT
* * * *
50219332 AAATGGGAAAATTTGGTCAAATGATCTACAATGACTTAAACAGAATCTTTCTTAGTGGGTGTT
1 AAATGGGCAGATTTGGTCAAATGATCTACGATGACCTAAACAGAATCTTTCTTAGTGGGTGTT
* *
50219395 AAATGGGCAGATTTGGTCAAATGATCTATGATGACCTAAGCAGAATCTTTCTTAGTGGGTGTT
1 AAATGGGCAGATTTGGTCAAATGATCTACGATGACCTAAACAGAATCTTTCTTAGTGGGTGTT
50219458 A
1 A
50219459 GGGGCAACCC
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 115 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (63 bp):
AAATGGGCAGATTTGGTCAAATGATCTACGATGACCTAAACAGAATCTTTCTTAGTGGGTGTT
Found at i:50224117 original size:31 final size:32
Alignment explanation
Indices: 50224071--50224131 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
50224061 CTCGTGTGAC
** * *
50224071 CCACACGGCTTAAATGGCC-AGCCCGTGTGGT
1 CCACACGGCCAAAATGACCTAGACCGTGTGGT
50224102 CCACACGGCCAAAATGACCTAGACCGTGTG
1 CCACACGGCCAAAATGACCTAGACCGTGTG
50224132 TCTCACATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (32 bp):
CCACACGGCCAAAATGACCTAGACCGTGTGGT
Found at i:50225734 original size:9 final size:9
Alignment explanation
Indices: 50225663--50225742 Score: 52
Period size: 9 Copynumber: 7.9 Consensus size: 9
50225653 AATTAACATC
50225663 AAAAGAAAA
1 AAAAGAAAA
50225672 AGAAAGAAATTCA
1 A-AAAGAAA---A
50225685 AAGAAGAGAAA
1 AA-AAGA-AAA
50225696 CAAAAGGAGAAA
1 -AAAA-GA-AAA
*
50225708 AAAAGAGAA
1 AAAAGAAAA
* *
50225717 TAGAGAAAA
1 AAAAGAAAA
50225726 AAAAGAAAA
1 AAAAGAAAA
50225735 AAAAGAAA
1 AAAAGAAA
50225743 CGTGAAGGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
9 24 0.42
10 9 0.16
11 7 0.12
12 9 0.16
13 6 0.11
14 2 0.04
ACGTcount: A:0.75, C:0.03, G:0.19, T:0.04
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:50226075 original size:31 final size:30
Alignment explanation
Indices: 50226055--50226113 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
50226045 CAACCCTCAG
50226055 CCATTGAACCAAATTAAATTACTTAACACAA
1 CCATTGAACCAAATTAAATTAC-TAACACAA
50226086 CCATTGAACCAAATTAAATTACTTAACA
1 CCATTGAACCAAATTAAATTAC-TAACA
50226114 TACTTTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.27
Consensus pattern (30 bp):
CCATTGAACCAAATTAAATTACTAACACAA
Found at i:50239280 original size:23 final size:23
Alignment explanation
Indices: 50239254--50239318 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 23
50239244 AGATCCTCTG
*
50239254 AAGAGCTATAATGGGAAGCTCGC
1 AAGAGCTATAATGGGAAGCTCAC
* * *
50239277 AAGAACCATATAACGGGAAGCTCAT
1 AAG-AGC-TATAATGGGAAGCTCAC
*
50239302 GAGAGCTATTAATGGGA
1 AAGAGCTA-TAATGGGA
50239319 TTCTCTTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
23 5 0.16
24 11 0.34
25 16 0.50
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.18
Consensus pattern (23 bp):
AAGAGCTATAATGGGAAGCTCAC
Found at i:50254232 original size:5 final size:6
Alignment explanation
Indices: 50254205--50254239 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
50254195 CAGTTCAAGT
50254205 AAATAA AACATTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AA-A-TAA AAATAA AAATAA AAATAA AAA
50254240 ATTCAGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:50254399 original size:18 final size:18
Alignment explanation
Indices: 50254378--50254434 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
50254368 ATTTTTTATA
50254378 ACTTTATATAATTTTAAT
1 ACTTTATATAATTTTAAT
*
50254396 ACTTCTA-ATAATTTTTAT
1 ACTT-TATATAATTTTAAT
* *
50254414 GATTTTTATAGAATTTTAAT
1 -A-CTTTATATAATTTTAAT
50254434 A
1 A
50254435 TGTTTTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
18 14 0.45
19 6 0.19
20 11 0.35
ACGTcount: A:0.37, C:0.05, G:0.04, T:0.54
Consensus pattern (18 bp):
ACTTTATATAATTTTAAT
Found at i:50254442 original size:21 final size:22
Alignment explanation
Indices: 50254411--50254461 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
50254401 TAATAATTTT
*
50254411 TATGATTTTTATAGAATTTT-AA
1 TATG-TTTTTATAAAATTTTAAA
50254433 TATGTTTTTATAAAATTTTAAA
1 TATGTTTTTATAAAATTTTAAA
50254455 TATGTTT
1 TATGTTT
50254462 GATTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
TATGTTTTTATAAAATTTTAAA
Found at i:50254631 original size:27 final size:29
Alignment explanation
Indices: 50254601--50254659 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 29
50254591 TTTTTATACA
*
50254601 TTTTTAT-AAGTTTTCTAATTTTT-T-AT
1 TTTTTATAAAATTTTCTAATTTTTATGAT
50254627 TTTTTATAAAATTTTCTAATTTTTATGAT
1 TTTTTATAAAATTTTCTAATTTTTATGAT
50254656 TTTT
1 TTTT
50254660 AATTATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 7 0.24
27 15 0.52
28 1 0.03
29 6 0.21
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.68
Consensus pattern (29 bp):
TTTTTATAAAATTTTCTAATTTTTATGAT
Found at i:50254658 original size:36 final size:36
Alignment explanation
Indices: 50254591--50254668 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
50254581 ATATTTAACA
* * * *
50254591 TTTTTATACATTTTTATAAGTTTTCTAATTTTTTAT
1 TTTTTATAAAATTTTATAAGTTTTATAATTTTTAAT
* * *
50254627 TTTTTATAAAATTTTCTAATTTTTATGATTTTTAAT
1 TTTTTATAAAATTTTATAAGTTTTATAATTTTTAAT
50254663 TATTTT
1 T-TTTT
50254669 TATGGAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 30 0.88
37 4 0.12
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.67
Consensus pattern (36 bp):
TTTTTATAAAATTTTATAAGTTTTATAATTTTTAAT
Found at i:50256063 original size:297 final size:293
Alignment explanation
Indices: 50255649--50256415 Score: 836
Period size: 294 Copynumber: 2.6 Consensus size: 293
50255639 TGCAAATCCC
* * *
50255649 ATTATATGCATATTTTAATTGGTTTTTGTTAAAATGAAAATG-CTAAAATACCCTCAAACAGTAC
1 ATTATATGCATATTTTAATTGGTTTTTGTTAAAATGAAAA-GACTAAAATACCATCAAATAGTAT
* * * *
50255713 AACTTATTTTAGTTATGGAAAGACA-TTTCTATAACTTT-CTAACATAGTTGGTGACCCGATTGA
65 AACTTATTTTAATTATGGAAAGACATTTTC-GTAA-TTTCCTAACAGAGTTGGTGACCCAATTGA
* ** * * *
50255776 -G-GAAGACTCTCAGTAAAATACTTAATAAGTAGTACGTATAAATATACAACTAATGGAGATAAT
128 GGTGAACAAACTCAGTAAAACACTTAATAA--A-TA-GTATAAATAAACAACTAATAGAGATAAT
* *
50255839 AACTTATGCATATTAAAATAAAAATGTATTAAATATACCAATATGAAGCTTT-GATTGAGTGGTA
189 AACTTATGCATATTAAAATAAAAATGTATAAAATACACCAA-ATGAAGCTTTAG-TTGAGTGGTA
* *
50255903 AATTTAAGAT-TTTACTAATCCAATTAGCACAAGCTTAAATATT
252 AAATTAAG-TGATTACTAATCCAATT-GCACAAGCTTAAATATT
* * ** *
50255946 ATTTTATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGATTAAAATGTCATCAAATAATATA
1 ATTATATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATA
* *
50256011 ACTTATTTTACTTATGGAAAGACATTTTCGTAATTTCCTAACCG-GATTGGTGACCCAATTGAGG
66 ACTTATTTTAATTATGGAAAGACATTTTCGTAATTTCCTAACAGAG-TTGGTGACCCAATTGA-G
* * * * *
50256075 GTGAACAAACTTAGTAAAACATTTAATAAATATTATAGATAAACAATTAATAGAGATAATAACTT
129 GTGAACAAACTCAGTAAAACACTTAATAAATAGTATAAATAAACAACTAATAGAGATAATAACTT
*
50256140 GTGCATATTAAAATAAAAATGTATAAAATACACCAAATGAAGCTTTAGTTGAGTGGTAAAATTAA
194 ATGCATATTAAAATAAAAATGTATAAAATACACCAAATGAAGCTTTAGTTGAGTGGTAAAATTAA
* * ***** * *
50256205 GTGATTATTAATCTAATTGGTTGGGTTTAAATTTT
259 GTGATTACTAATCCAATTGCACAAGCTTAAATATT
* * ** *
50256240 ATTATATGAATATTTTAATTGATTTTCATTAAAATGAAAAGACTAAAACACCATCAAATAGTATA
1 ATTATATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATA
* *
50256305 ACTTATTTTAATAAT-GAAAGGACATTTTCGTAATTTCTTAATTCA-A-TTGGTGACCCAATTGA
66 ACTTATTTTAATTATGGAAA-GACATTTTCGTAATTTCCTAA--CAGAGTTGGTGACCCAATTGA
* * * *
50256367 TGGTGACACCAACTCAATAAAATACTTAATAAATAGTATAGATATAACA
128 -GGTGA-ACAAACTCAGTAAAACACTTAATAAATAGTATAAATA-AACA
50256416 TAATTTCTTT
Statistics
Matches: 396, Mismatches: 59, Indels: 31
0.81 0.12 0.06
Matches are distributed among these distances:
293 4 0.01
294 120 0.30
295 70 0.18
296 72 0.18
297 103 0.26
298 5 0.01
299 1 0.00
300 21 0.05
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (293 bp):
ATTATATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATA
ACTTATTTTAATTATGGAAAGACATTTTCGTAATTTCCTAACAGAGTTGGTGACCCAATTGAGGT
GAACAAACTCAGTAAAACACTTAATAAATAGTATAAATAAACAACTAATAGAGATAATAACTTAT
GCATATTAAAATAAAAATGTATAAAATACACCAAATGAAGCTTTAGTTGAGTGGTAAAATTAAGT
GATTACTAATCCAATTGCACAAGCTTAAATATT
Found at i:50256309 original size:294 final size:290
Alignment explanation
Indices: 50255524--50256415 Score: 920
Period size: 297 Copynumber: 3.0 Consensus size: 290
50255514 ATTAATATAT
* * ** *
50255524 ACAATTAATGAAGATAATAACTTGTGTATATTAAAATAAAAATGTATAAAATGCATTAAAATAAA
1 ACAATTAATG-AGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACA-CCAAATGAA
***** ** ***
50255589 GCTTTAGTTGAAAAACAAATTTAAG-GTTTTACTAATCCAATTGGTGTGGGTGCAAATCCCATTA
64 GCTTTAGTTGAGTGGTAAATTTAAGTG-TTTACTAATCCAATTGGT-TGGGTTTAAATATTATTA
* * *
50255653 TATGCATATTTTAATTGGTTTTTGTTAAAATGAAAATG-CTAAAATACCCTCAAACAGTACAACT
127 TATGCATATTTTAATTGGTTTTTGTTAAAATGAAAA-GACTAAAATACCATCAAATAGTATAACT
* * *
50255717 TATTTTAGTTATGGAAAGACA-TTTCTATAACTTT-CTAACATAGTTGGTGACCCGATTGA-G-G
191 TATTTTAATTATGGAAAGACATTTTC-GTAA-TTTCCTAACA-A-TTGGTGACCCAATTGAGGTG
* ** * *
50255778 AAGACTCTCAGTAAAATACTTAATAAGTAGTACGTATAAATAT
252 AACAAACTCAGTAAAATACTTAATAA--A-TA-GTATAGATAA
* * * *
50255821 ACAACTAATGGAGATAATAACTTATGCATATTAAAATAAAAATGTATTAAATATACCAATATGAA
1 ACAATTAAT-GAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACACCAA-ATGAA
***** *
50255886 GCTTT-GATTGAGTGGTAAATTTAAGAT-TTTACTAATCCAATTAGCACAAGCTTAAATATTATT
64 GCTTTAG-TTGAGTGGTAAATTTAAG-TGTTTACTAATCCAATT-GGTTGGGTTTAAATATTATT
* * ** *
50255949 TTATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGATTAAAATGTCATCAAATAATATAACT
126 ATATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACT
* *
50256014 TATTTTACTTATGGAAAGACATTTTCGTAATTTCCTAACCGGATTGGTGACCCAATTGAGGGTGA
191 TATTTTAATTATGGAAAGACATTTTCGTAATTTCCTAA-C-AATTGGTGACCCAATTGA-GGTGA
* * * *
50256079 ACAAACTTAGTAAAACATTTAATAAATATTATAGATAA
253 ACAAACTCAGTAAAATACTTAATAAATAGTATAGATAA
50256117 ACAATTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACACCAAATGAAG
1 ACAATTAAT-GAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACACCAAATGAAG
* * * * *
50256182 CTTTAGTTGAGTGGTAAAATTAAGTGATTATTAATCTAATTGGTTGGGTTTAAATTTTATTATAT
65 CTTTAGTTGAGTGGTAAATTTAAGTGTTTACTAATCCAATTGGTTGGGTTTAAATATTATTATAT
* * ** *
50256247 GAATATTTTAATTGATTTTCATTAAAATGAAAAGACTAAAACACCATCAAATAGTATAACTTATT
130 GCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACTTATT
* *
50256312 TTAATAAT-GAAAGGACATTTTCGTAATTTCTTAATTCAATTGGTGACCCAATTGATGGTGACAC
195 TTAATTATGGAAA-GACATTTTCGTAATTTCCTAA--CAATTGGTGACCCAATTGA-GGTGA-AC
* *
50256376 CAACTCAATAAAATACTTAATAAATAGTATAGATATA
255 AAACTCAGTAAAATACTTAATAAATAGTATAGATA-A
50256413 ACA
1 ACA
50256416 TAATTTCTTT
Statistics
Matches: 491, Mismatches: 84, Indels: 41
0.80 0.14 0.07
Matches are distributed among these distances:
293 4 0.01
294 121 0.25
295 71 0.14
296 73 0.15
297 191 0.39
298 9 0.02
299 1 0.00
300 21 0.04
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (290 bp):
ACAATTAATGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACACCAAATGAAGC
TTTAGTTGAGTGGTAAATTTAAGTGTTTACTAATCCAATTGGTTGGGTTTAAATATTATTATATG
CATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACTTATTT
TAATTATGGAAAGACATTTTCGTAATTTCCTAACAATTGGTGACCCAATTGAGGTGAACAAACTC
AGTAAAATACTTAATAAATAGTATAGATAA
Found at i:50256623 original size:20 final size:19
Alignment explanation
Indices: 50256600--50256645 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
50256590 TTTATTATTA
50256600 TATTTTTAAAAATATCTTTT
1 TATTTTTAAAAATAT-TTTT
* *
50256620 TATTTTTATATATATTTTT
1 TATTTTTAAAAATATTTTT
*
50256639 AATTTTT
1 TATTTTT
50256646 TTAGAATTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTTTTAAAAATATTTTT
Found at i:50256886 original size:3 final size:3
Alignment explanation
Indices: 50256878--50256902 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50256868 CCTAAAATTA
50256878 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
50256903 GGTGAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:50260321 original size:29 final size:29
Alignment explanation
Indices: 50260230--50260322 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 29
50260220 CCACACGCTT
* * **
50260230 GTGTGACCCACACGGCCAACCACAAGACC
1 GTGTGACCCACATGGTCTGCCACAAGACC
* * * *
50260259 GTGTAACCCACATGGTCTGGCACATGGCC
1 GTGTGACCCACATGGTCTGCCACAAGACC
* *
50260288 GTGTGACCCACATGGTTTGCCACACGACC
1 GTGTGACCCACATGGTCTGCCACAAGACC
50260317 GTGTGA
1 GTGTGA
50260323 TGTCGACAGA
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.24, C:0.33, G:0.26, T:0.17
Consensus pattern (29 bp):
GTGTGACCCACATGGTCTGCCACAAGACC
Found at i:50261903 original size:20 final size:22
Alignment explanation
Indices: 50261832--50261946 Score: 110
Period size: 23 Copynumber: 5.2 Consensus size: 22
50261822 AGCCTCTAAG
*
50261832 CACAACC-AATTTACCCTCCAAA
1 CACAACCAAATATACCCTCC-AA
* * * *
50261854 TACAACCATATGTACCTTCCAAA
1 CACAACCAAATATACCCTCC-AA
* *
50261877 CACAACCAAATATGCCCTTC-A
1 CACAACCAAATATACCCTCCAA
50261898 -ACAACCAAATATACCCTCCAAA
1 CACAACCAAATATACCCTCC-AA
50261920 CACAACCAAATATACCCTCCAAA
1 CACAACCAAATATACCCTCC-AA
50261943 CACA
1 CACA
50261947 TCCACTTAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 7
0.80 0.12 0.07
Matches are distributed among these distances:
20 17 0.22
21 1 0.01
22 7 0.09
23 52 0.68
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.17
Consensus pattern (22 bp):
CACAACCAAATATACCCTCCAA
Found at i:50261918 original size:43 final size:43
Alignment explanation
Indices: 50261855--50261937 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
50261845 CCCTCCAAAT
* * * *
50261855 ACAACCATATGTACCTTCCAAACACAACCAAATATGCCCTTCA
1 ACAACCAAATATACCCTCCAAACACAACCAAATATACCCTTCA
50261898 ACAACCAAATATACCCTCCAAACACAACCAAATATACCCT
1 ACAACCAAATATACCCTCCAAACACAACCAAATATACCCT
50261938 CCAAACACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.43, C:0.36, G:0.02, T:0.18
Consensus pattern (43 bp):
ACAACCAAATATACCCTCCAAACACAACCAAATATACCCTTCA
Found at i:50265917 original size:23 final size:23
Alignment explanation
Indices: 50265887--50265932 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50265877 TCAAGCTAAC
50265887 AAGCATGACAACGGAAGTTGCTT
1 AAGCATGACAACGGAAGTTGCTT
50265910 AAGCATGACAACGGAAGTTGCTT
1 AAGCATGACAACGGAAGTTGCTT
50265933 GAGGATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (23 bp):
AAGCATGACAACGGAAGTTGCTT
Done.