Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 66 of 210
Found at i:19872482 original size:16 final size:16
Alignment explanation
Indices: 19872463--19872508 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
19872453 CTATTACGCC
*
19872463 TCTATTCCATTACTCA
1 TCTATTCCATTACACA
* *
19872479 TCTATTCTATTACACC
1 TCTATTCCATTACACA
*
19872495 TCTATTTCATTACA
1 TCTATTCCATTACA
19872509 ACGAACCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (16 bp):
TCTATTCCATTACACA
Found at i:19873534 original size:25 final size:24
Alignment explanation
Indices: 19873465--19873535 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 24
19873455 AATTTTCTCG
19873465 AAATTTTACCGATGGTAAAATCGTCA
1 AAATTTTA-CGAT-GTAAAATCGTCA
* * *
19873491 AAATTTTACTAGGGGAAAATCGTCA
1 AAATTTTACGA-TGTAAAATCGTCA
19873516 AAATTTTATCGATGTAAAAT
1 AAATTTTA-CGATGTAAAAT
19873536 TGTGATGAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
25 27 0.73
26 10 0.27
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.32
Consensus pattern (24 bp):
AAATTTTACGATGTAAAATCGTCA
Found at i:19874973 original size:8 final size:8
Alignment explanation
Indices: 19874960--19874989 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
19874950 AAAAATAGGG
19874960 CCCAAAAA
1 CCCAAAAA
19874968 CCCAAAAA
1 CCCAAAAA
19874976 CCCAAAAA
1 CCCAAAAA
19874984 CCCAAA
1 CCCAAA
19874990 CCTTAAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.60, C:0.40, G:0.00, T:0.00
Consensus pattern (8 bp):
CCCAAAAA
Found at i:19876183 original size:22 final size:20
Alignment explanation
Indices: 19876146--19876185 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19876136 CTTGCTATTT
19876146 TATTTTTAATTAATTAATAA
1 TATTTTTAATTAATTAATAA
*
19876166 TATTTATTTATTATATTAAT
1 TATTT-TTAATTA-ATTAAT
19876186 TATTTGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 6 0.35
22 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAATTAATTAATAA
Found at i:19879393 original size:8 final size:8
Alignment explanation
Indices: 19879392--19879424 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
19879382 TGAAAAAATG
19879392 AATGAAAA
1 AATGAAAA
19879400 AATG-AAA
1 AATGAAAA
19879407 AATGAAAAA
1 AATG-AAAA
19879416 AATGAAAA
1 AATGAAAA
19879424 A
1 A
19879425 GTAAAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 7 0.30
8 9 0.39
9 7 0.30
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AATGAAAA
Found at i:19879431 original size:16 final size:16
Alignment explanation
Indices: 19879392--19879424 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
19879382 TGAAAAAATG
19879392 AATG-AAAAAATGAAA
1 AATGAAAAAAATGAAA
19879407 AATGAAAAAAATGAAA
1 AATGAAAAAAATGAAA
19879423 AA
1 AA
19879425 GTAAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AATGAAAAAAATGAAA
Found at i:19880712 original size:46 final size:46
Alignment explanation
Indices: 19880645--19881172 Score: 804
Period size: 46 Copynumber: 11.5 Consensus size: 46
19880635 ACAGATCAAT
* ***
19880645 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAAAAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * *
19880691 GGAGATAGCAGATCTTATCTTCATGTATTTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
19880737 GAGGATAGCAGATCTTGTCCTCCTGTAATTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
19880783 GAAGATAGCAGATATTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
19880829 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
19880875 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * *
19880921 GAAGATAACATATCTTGTCTTCCTGTATTTGGCAGCAGAGGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
19880967 GATGATAGCAGATCTTGTCTTCCTATAATTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
** *
19881013 GAAGATAGCAGATCTTGTCTTTTTGTATTTGGCAGCGGAAGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
19881059 AAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * *
19881105 GAAGATAGCAGATCTTATTTTCCTGTAATTGGCAGCGGAAGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
19881151 GAAGATAGCAAATCTTGTCTTC
1 GAAGATAGCAGATCTTGTCTTC
19881173 NNNNNNNNNN
Statistics
Matches: 435, Mismatches: 47, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 435 1.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.29
Consensus pattern (46 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
Found at i:19888212 original size:126 final size:125
Alignment explanation
Indices: 19887805--19888371 Score: 680
Period size: 126 Copynumber: 4.5 Consensus size: 125
19887795 GATAAAATCA
* * * * * * *
19887805 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGGCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
19887870 AGGTCCT-AGAAAAATAATTTCGACTTGACGTTTTTGAGCAAATAGTTTAAA-AACGCTTC
66 AGGTCCTGA-AAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTAAAACAACGCTTC
* * *
19887929 AAGTAAGATGCTTTATGAGAAGAATTTGT-AAATTCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAA-TCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * * * * *
19887993 TTGGTCCTGGAAGAAATAATTTCGAGTCGACGTTTTTGAGCAAATAGTTAAAAAAAAGGCTTC
65 TAGGTCCT-GAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTT-AAAACAACGCTTC
* * * *
19888056 AAGCAGGATGATTTATAAGAAGAATGTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * *
19888121 GGGTCCTGAAAAAATAATTTTGAATTGACGTTCCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGT-TAAAACAACGCTTC
* * * *
19888182 AAGCAGCATGCTATT-TGAGAAGAGTTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * *
19888246 TAGGTCCTGGAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAATC-A--TTTC
65 TAGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGT-TAAAACAACGCTTC
* *
19888305 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACACGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
19888370 AG
66 AG
19888372 CATGTTTAGG
Statistics
Matches: 380, Mismatches: 54, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
122 2 0.01
123 62 0.16
124 58 0.15
125 36 0.09
126 149 0.39
127 71 0.19
128 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTAAAACAACGCTTC
Found at i:19891559 original size:22 final size:22
Alignment explanation
Indices: 19891518--19891927 Score: 469
Period size: 22 Copynumber: 19.0 Consensus size: 22
19891508 TCAAATTATA
19891518 TTTAAGTTAA-GGGTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
* * *
19891539 TTTAATTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
*
19891561 TTAAAGTTAA-GGGTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
*
19891582 TTTAAGTTAA-GGGTTAAGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
* * *
19891603 TTTAGGTTAAGGGTTTATGAG-T
1 TTTAAGTTAAGGGGTTA-GGGTT
* * *
19891625 TTTAATTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGGTTAGGGTT
* *
19891647 TTTAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
* * *
19891669 TTTAATTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGGTTAGGGTT
* * *
19891691 TTAAAGTTAA-AGGTTAGTGTT
1 TTTAAGTTAAGGGGTTAGGGTT
*
19891712 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
*
19891734 TTTAAGTTAAGGGGTTAGGTTT
1 TTTAAGTTAAGGGGTTAGGGTT
*
19891756 TTTAAGTTAA-GGGTTAGGATT
1 TTTAAGTTAAGGGGTTAGGGTT
19891777 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
19891799 TTTAAGTTAA-GGGTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
19891820 TTTAAGTTAA-GGGTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
* *
19891841 TTTAGGTTAATGGGTTAGGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
* *
19891863 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
* * *
19891885 TTTAGGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGGGTTAGGGTT
* *
19891907 TTTAATTTAA-GGGTTAAGGTT
1 TTTAAGTTAAGGGGTTAGGGTT
19891928 AGGGTTTTTA
Statistics
Matches: 340, Mismatches: 42, Indels: 14
0.86 0.11 0.04
Matches are distributed among these distances:
21 135 0.40
22 204 0.60
23 1 0.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (22 bp):
TTTAAGTTAAGGGGTTAGGGTT
Found at i:19891578 original size:43 final size:43
Alignment explanation
Indices: 19891518--19891927 Score: 524
Period size: 43 Copynumber: 9.5 Consensus size: 43
19891508 TCAAATTATA
* *
19891518 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
19891561 TTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
19891603 TTTAGGTTAAGGGTTTATGAG-TTTTAATTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGG-TTA-GGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
19891647 TTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
19891691 TTAAAGTTAAAGGTTAGTGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
19891734 TTTAAGTTAAGGGGTTAGGTTTTTTAAGTTAAGGG-TTAGGATT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
19891777 TTTAAGTTAAGGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
19891820 TTTAAGTTAAGGGTTAGGGTTTTTAGGTTAATGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAA-GGGTTTAGGGTT
* * *
19891863 TTTAAGTTAAGGGTTTAAGGTTTTTAGGTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
19891907 TTTAATTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
19891928 AGGGTTTTTA
Statistics
Matches: 328, Mismatches: 31, Indels: 16
0.87 0.08 0.04
Matches are distributed among these distances:
42 38 0.12
43 178 0.54
44 112 0.34
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:19891661 original size:65 final size:62
Alignment explanation
Indices: 19891518--19891927 Score: 484
Period size: 65 Copynumber: 6.3 Consensus size: 62
19891508 TCAAATTATA
* * *
19891518 TTTAAGTTAAGGGTTAGGGTTTTTAATTTAATGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTT-AAGTTAAGGGTTA-GGTT
* * *
19891582 TTTAAGTTAAGGGTTAAGGTTTTTAGGTTAAGGGTTTATGAGTTTTAATTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GAGTTTTAAGTTAAGGG-TTAG-GTT
* * *
19891647 TTTAATTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGAGTTTTAAAGTTAAAGGTTAGTGTT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTT-AAGTTAAGGGTTAG-GTT
*
19891712 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGGTTAG-GTTTTTTAAGTTAAGGGTTAGGAT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGAG--TTTTAAGTTAAGGGTTAGG-T
19891776 T
62 T
*
19891777 TTTAAGTTAAGGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGAG-TTTTAAGTTAAGGGTTA-GGTT
* *
19891841 TTTAGGTTAATGGGTTAGGGTTTTTAAGTTAAGGGTTTA-AGGTTTTTAGGTTAAGGGTTTAGGA
1 TTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTTAGA-G-TTTTAAGTTAAGGG-TTAGG-
19891905 TT
61 TT
* *
19891907 TTTAATTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTT
19891928 AGGGTTTTTA
Statistics
Matches: 308, Mismatches: 23, Indels: 29
0.86 0.06 0.08
Matches are distributed among these distances:
64 103 0.33
65 155 0.50
66 50 0.16
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (62 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGAGTTTTAAGTTAAGGGTTAGGTT
Found at i:19891915 original size:27 final size:27
Alignment explanation
Indices: 19891889--19891955 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
19891879 AAGGTTTTTA
19891889 GGTTAAGGGTTTAGGATTTTTAATTTAAG
1 GGTTAA-GG-TTAGGATTTTTAATTTAAG
* **
19891918 GGTTAAGGTTAGGGTTTTTAGGTTAAG
1 GGTTAAGGTTAGGATTTTTAATTTAAG
*
19891945 TGTTTAAGGTT
1 -GGTTAAGGTT
19891956 TGTCAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 16 0.48
28 11 0.33
29 6 0.18
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (27 bp):
GGTTAAGGTTAGGATTTTTAATTTAAG
Found at i:19892240 original size:21 final size:21
Alignment explanation
Indices: 19892214--19892260 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
19892204 GCGGCGGTTG
* *
19892214 TGGTTCTTCCAGT-GGGGATTC
1 TGGTTCTCCCAGTAGGGCA-TC
19892235 TGGTTCTCCCAGTAGGGCATC
1 TGGTTCTCCCAGTAGGGCATC
19892256 TGGTT
1 TGGTT
19892261 GTCGGAGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.11, C:0.21, G:0.32, T:0.36
Consensus pattern (21 bp):
TGGTTCTCCCAGTAGGGCATC
Found at i:19893385 original size:20 final size:20
Alignment explanation
Indices: 19893348--19893385 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19893338 TTTATTTTTA
*
19893348 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
19893368 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
19893386 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:19894384 original size:11 final size:11
Alignment explanation
Indices: 19894370--19894446 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
19894360 ATAAATATGG
19894370 ATTTGAGAGAA
1 ATTTGAGAGAA
*
19894381 ATTTTGA-AGGA
1 A-TTTGAGAGAA
19894392 ATTTGAGAGCAA
1 ATTTGAGAG-AA
19894404 A-TTGAGAGGAA
1 ATTTGAGA-GAA
19894415 ATTT-AGAAGAA
1 ATTTGAG-AGAA
19894426 A-TTGAGAGAAA
1 ATTTGAGAG-AA
19894437 ATTTGAGAGA
1 ATTTGAGAGA
19894447 GGATTAGTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 18
0.73 0.03 0.24
Matches are distributed among these distances:
10 9 0.16
11 28 0.51
12 18 0.33
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:19894409 original size:33 final size:33
Alignment explanation
Indices: 19894370--19894446 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
19894360 ATAAATATGG
* * *
19894370 ATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAA
1 ATTTGAGAGAAATTTAGAA-GAAATTGAGAGAAA
19894404 A-TTGAGAGGAAATTTAGAAGAAATTGAGAGAAA
1 ATTTGAGA-GAAATTTAGAAGAAATTGAGAGAAA
19894437 ATTTGAGAGA
1 ATTTGAGAGA
19894447 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
33 21 0.55
34 17 0.45
ACGTcount: A:0.45, C:0.01, G:0.27, T:0.26
Consensus pattern (33 bp):
ATTTGAGAGAAATTTAGAAGAAATTGAGAGAAA
Found at i:19902447 original size:3 final size:3
Alignment explanation
Indices: 19902439--19902507 Score: 138
Period size: 3 Copynumber: 23.0 Consensus size: 3
19902429 AACTTAATGT
19902439 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
19902487 ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
19902508 GTTAGTGGAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:19907412 original size:15 final size:16
Alignment explanation
Indices: 19907385--19907415 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
19907375 TATATGCTTT
19907385 TTTAATGTTTTTTTAA
1 TTTAATGTTTTTTTAA
19907401 TTTAAT-TTTTTTTAA
1 TTTAATGTTTTTTTAA
19907416 AAAATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTAATGTTTTTTTAA
Found at i:19908213 original size:15 final size:15
Alignment explanation
Indices: 19908166--19908216 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
19908156 TCCACCAAAT
19908166 AAAATATTATTGTTT-
1 AAAATATTATT-TTTA
* ** *
19908181 AAAATTTTAAATTAA
1 AAAATATTATTTTTA
19908196 AAAATATTATTTTTA
1 AAAATATTATTTTTA
19908211 AAAATA
1 AAAATA
19908217 AAAAACACAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 2 0.07
15 25 0.93
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
AAAATATTATTTTTA
Found at i:19909787 original size:15 final size:14
Alignment explanation
Indices: 19909766--19909801 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
19909756 ATAATCTTTA
*
19909766 ATAATTATCTTAAT
1 ATAATTATCCTAAT
19909780 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
19909795 ATAATTA
1 ATAATTA
19909802 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:19913767 original size:36 final size:33
Alignment explanation
Indices: 19913691--19913773 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 33
19913681 AGTTTGTTCC
* *
19913691 AAGTTTGTTGCAATGAATCTAATTTAAGTTACA
1 AAGTTTGTTCCAATGAATCTAATTTAAGATACA
*
19913724 AAATTTGTTCCAATGAATCTCAATTAAATAA-ATACA
1 AAGTTTGTTCCAATGAATCT-AATT---TAAGATACA
19913760 AAGTTTGTTCCAAT
1 AAGTTTGTTCCAAT
19913774 TTTGTTCCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 18 0.43
34 4 0.10
36 17 0.40
37 3 0.07
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (33 bp):
AAGTTTGTTCCAATGAATCTAATTTAAGATACA
Found at i:19917253 original size:19 final size:19
Alignment explanation
Indices: 19917225--19917337 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
19917215 AATTTTTGAG
*
19917225 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
**
19917244 GATATACAATCCAAGATAT
1 GATATACAATCTTAGATAT
*
19917263 GATATATGCAATCCTAGATAT
1 GATATA--CAATCTTAGATAT
*
19917284 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
19917303 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
19917322 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
19917338 ATATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
21 17 0.21
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:19917270 original size:40 final size:40
Alignment explanation
Indices: 19917226--19917332 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
19917216 ATTTTTGAGG
*
19917226 ATATGCAATCTTAGATATGATATACAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
* **
19917266 ATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19917306 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
19917333 TTAGAATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 22 0.35
40 40 0.65
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
Found at i:19918943 original size:97 final size:98
Alignment explanation
Indices: 19918821--19919016 Score: 313
Period size: 98 Copynumber: 2.0 Consensus size: 98
19918811 TAAAAAATAA
* * *
19918821 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGAG-CCTTACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTC
19918885 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* * * * *
19918918 TAAATGAAATATTCGGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGTGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTC
19918983 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
19919016 T
1 T
19919017 TTTATTGTAC
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
97 35 0.39
98 55 0.61
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:19925445 original size:44 final size:44
Alignment explanation
Indices: 19925397--19925713 Score: 145
Period size: 44 Copynumber: 7.2 Consensus size: 44
19925387 AAGATTGTAG
*
19925397 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
* * * *
19925441 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCATATTTAA-ATC-ACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGA-CGACGA
* * * * * * * * *
19925484 AGCCTTGTCTCCGTCAGCAGCAGCGGAGAAGGTTGAAGATTGTA-G-
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* * *
19925529 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
** * * *
19925573 ATCTTATCTTTCTAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGA
* * * * * * * *
19925616 AGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTAAAGATTGTA-G-
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* * *
19925661 ATCTTATCTCCCTAAGAAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
19925705 ATCTTATCT
1 ATCTTATCT
19925714 TTCCAAGATA
Statistics
Matches: 190, Mismatches: 60, Indels: 46
0.64 0.20 0.16
Matches are distributed among these distances:
42 8 0.04
43 20 0.11
44 142 0.75
45 13 0.07
46 5 0.03
47 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
Found at i:19925845 original size:44 final size:44
Alignment explanation
Indices: 19925797--19926174 Score: 219
Period size: 44 Copynumber: 8.6 Consensus size: 44
19925787 TTGTAAATCC
**
19925797 TATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAACCTCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCT
* * ** *** *
19925841 TATCTCTCTGAAGTTACAG-AAAGCAGA-TCGCATCT-AG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCT
* * *
19925881 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTCAGATCT
* * * ***
19925925 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA-AGTCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAAAACCTCAGA-TCT
* *
19925970 TATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCTCAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCT
* * * *
19926014 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AAG-TCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AACCTCAGATCT
* * * *
19926058 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAA-TTGGCA-AGTCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAAACCT--CAGA-TCT
* * ** *
19926103 TATCTCCCTGAAGTTGCACTGGAGCAGACTAAATAAGTAAG-TCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA-ACCTCAGATCT
*
19926147 TATC-CTCCTGAAGTTGCAGTGGGGCAGA
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGA
19926175 CTGAAGATGG
Statistics
Matches: 258, Mismatches: 51, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
40 20 0.08
41 8 0.03
42 7 0.03
43 8 0.03
44 146 0.57
45 63 0.24
46 5 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCT
Found at i:19925868 original size:132 final size:132
Alignment explanation
Indices: 19925285--19925805 Score: 880
Period size: 132 Copynumber: 3.9 Consensus size: 132
19925275 CTGCATTGAC
* *
19925285 AGTGAAGCAGATCGAAGATGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
19925350 CAAGACTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
19925415 GT
131 GT
* * **
19925417 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCATATTTAAATCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
19925482 CAAGCCTTGTCTCCGTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
19925547 GT
131 GT
* *
19925549 AGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCTAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
19925614 CAAGCCTTGTCTCCCTCAGCAGTAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGAA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
19925679 GT
131 GT
19925681 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
19925746 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCCTATCTCCCT
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCT
19925806 GAAGTTGCAG
Statistics
Matches: 362, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 362 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTAAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:19926031 original size:133 final size:133
Alignment explanation
Indices: 19925876--19926176 Score: 473
Period size: 133 Copynumber: 2.3 Consensus size: 133
19925866 GATCGCATCT
*
19925876 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTTG
* * * *
19925941 CAGTGGGGCAGACTGAAGA-TGGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAA-G
66 CAGTGGGGCAGACTGAA-ATTGGCAAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAATA
* *
19926004 CCTC
130 ACTA
19926008 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTT
19926073 GCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAATA
65 GCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAATA
*
19926138 AGTA
130 ACTA
*
19926142 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT
19926177 GAAGATGGCA
Statistics
Matches: 156, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
132 4 0.03
133 149 0.96
134 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (133 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCCTATCCTCCTGAAGTTG
CAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAATAA
CTA
Found at i:19926175 original size:44 final size:44
Alignment explanation
Indices: 19925876--19926176 Score: 351
Period size: 44 Copynumber: 6.8 Consensus size: 44
19925866 GATCGCATCT
*
19925876 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* *
19925920 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AA-ATAAGCA
* * ****
19925965 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCTC-
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
*
19926008 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
* * **
19926053 AGTCCTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAATTGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAATAAGCA
* *
19926098 AGTCTTATCTCCCTGAAGTTGCACTGGAGCAGACTAAATAAGTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
*
19926142 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT
19926177 GAAGATGGCA
Statistics
Matches: 217, Mismatches: 29, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
43 6 0.03
44 135 0.62
45 73 0.34
46 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA
Found at i:19926177 original size:89 final size:88
Alignment explanation
Indices: 19925876--19926186 Score: 357
Period size: 89 Copynumber: 3.5 Consensus size: 88
19925866 GATCGCATCT
* *
19925876 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAGTCTTATC-CTCCTGAAGT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAT-GGCAAGTCTTATCTC-CCTGAAGT
* *
19925939 TGCAGTGGGGCAGACTGAAGAT-GGCA
64 TGCAGTGGAGCAGACT-AA-ATAAGCA
* * * *
19925965 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGA-TTAAA-GCCTCAGATCTTATCTCCCTGAAGT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGGC-AAG-TCTTATCTCCCTGAAGT
*
19926028 TGCAGTGGAGCAGACTAAGTAAGCA
64 TGCAGTGGAGCAGACTAAATAAGCA
* *
19926053 AGTCCTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAATTGGCAAGTCTTATCTCCCTGAAGT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAAA-TGGCAAGTCTTATCTCCCTGAAGT
* *
19926117 TGCACTGGAGCAGACTAAATAAGTA
64 TGCAGTGGAGCAGACTAAATAAGCA
*
19926142 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTGAA-ATGGCA
19926187 CTAATTCCTA
Statistics
Matches: 194, Mismatches: 18, Indels: 20
0.84 0.08 0.09
Matches are distributed among these distances:
87 3 0.02
88 36 0.19
89 149 0.77
90 4 0.02
91 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (88 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAATGGCAAGTCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTAAATAAGCA
Found at i:19926376 original size:19 final size:19
Alignment explanation
Indices: 19926352--19926464 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
19926342 AATTTTTGAA
19926352 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
19926371 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
19926390 GATATATGCAATCCTAGATAT
1 G--ATATGCAATCTTAGATAT
* *
19926411 GATATGCAAACTAAGATAT
1 GATATGCAATCTTAGATAT
**
19926430 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
19926449 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
19926465 ATATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
19 62 0.77
21 18 0.22
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:19926397 original size:40 final size:40
Alignment explanation
Indices: 19926353--19926459 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
19926343 ATTTTTGAAG
19926353 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
* * *
19926393 ATATGCAATCCTAGATATGATATGCAAACTAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
19926433 ATAT--AATCTTAGATATGATATGCAATC
1 ATATGCAATCTTAGATATGATATGCAATC
19926460 TTAGAATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 21 0.34
40 41 0.66
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
Found at i:19927277 original size:23 final size:25
Alignment explanation
Indices: 19927223--19927271 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
19927213 TATGTACATG
*
19927223 TATATTTTTTTAACGAATATTTTCC
1 TATATTTTTTTAAAGAATATTTTCC
19927248 TATATTTTTTTAAAGAATATTTTC
1 TATATTTTTTTAAAGAATATTTTC
19927272 ATATTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (25 bp):
TATATTTTTTTAAAGAATATTTTCC
Found at i:19928059 original size:98 final size:98
Alignment explanation
Indices: 19927943--19928133 Score: 328
Period size: 98 Copynumber: 1.9 Consensus size: 98
19927933 ATAATAAAGG
* *
19927943 AAATATTCCGAGTTTGGGATTTTAAAGGAATTGAGCCCTAACGTATTGGGTGTGATTTCTTAAAT
1 AAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTCTTAAAT
19928008 CTTGGATAAGTGGATGTTCTTTTAAAGTAAATA
66 CTTGGATAAGTGGATGTTCTTTTAAAGTAAATA
* * * *
19928041 AAATATTCGGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGTGTGTGATTTCTTAAAT
1 AAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTCTTAAAT
19928106 CTTGGATAAGTGGATGTTCTTTTAAAGT
66 CTTGGATAAGTGGATGTTCTTTTAAAGT
19928134 TTTATTGTAC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 87 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (98 bp):
AAATATTCCGAGTTTGGGATTCTAAAGGAATCGAGCCCTAACGTATTGGGTGTGATTTCTTAAAT
CTTGGATAAGTGGATGTTCTTTTAAAGTAAATA
Found at i:19928565 original size:20 final size:19
Alignment explanation
Indices: 19928540--19928597 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
19928530 TGCAGATGAA
*
19928540 AAAAATGATATTTTATATAT
1 AAAAATAATATTTTATAT-T
*
19928560 AAAAATAATA-ATTATATT
1 AAAAATAATATTTTATATT
*
19928578 TAAAATAATTATTTTATATT
1 AAAAATAA-TATTTTATATT
19928598 TTAATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.25
19 8 0.25
20 16 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (19 bp):
AAAAATAATATTTTATATT
Found at i:19928574 original size:19 final size:19
Alignment explanation
Indices: 19928552--19928596 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
19928542 AAATGATATT
19928552 TTATATATAAAAATAATAA
1 TTATATATAAAAATAATAA
* *
19928571 TTATAT-TTAAAATAATTA
1 TTATATATAAAAATAATAA
*
19928589 TTTTATAT
1 TTATATAT
19928597 TTTAATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATATATAAAAATAATAA
Found at i:19929360 original size:3 final size:3
Alignment explanation
Indices: 19929354--19929407 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
19929344 CGTCGTCATC
19929354 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19929402 ATT ATT
1 ATT ATT
19929408 GTTGTTGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19929904 original size:7 final size:7
Alignment explanation
Indices: 19929864--19929890 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
19929854 ATATATTGCC
19929864 ACTATTT
1 ACTATTT
19929871 ACTATTT
1 ACTATTT
19929878 ACTATTT
1 ACTATTT
19929885 ACTATT
1 ACTATT
19929891 CAATTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.56
Consensus pattern (7 bp):
ACTATTT
Found at i:19929953 original size:18 final size:20
Alignment explanation
Indices: 19929919--19929956 Score: 62
Period size: 18 Copynumber: 2.0 Consensus size: 20
19929909 ATAGTCAATA
19929919 AATTAATCATAATAATTTAT
1 AATTAATCATAATAATTTAT
19929939 AATTAAT-AT-ATAATTTAT
1 AATTAATCATAATAATTTAT
19929957 TTATTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTAATCATAATAATTTAT
Found at i:19930655 original size:23 final size:23
Alignment explanation
Indices: 19930626--19930669 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
19930616 TGTATATATT
* *
19930626 TGTTGAGGAAAAATTATATTTCA
1 TGTTGAGCAAAAATAATATTTCA
*
19930649 TGTTGAGCTAAAATAATATTT
1 TGTTGAGCAAAAATAATATTT
19930670 TGCATCGCCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTTGAGCAAAAATAATATTTCA
Found at i:19938225 original size:16 final size:16
Alignment explanation
Indices: 19938182--19938227 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
19938172 AAGTGCCTTG
19938182 GAAAACACATTTTTTC
1 GAAAACACATTTTTTC
19938198 GAAAA-ACATTTTTTAC
1 GAAAACACATTTTTT-C
*
19938214 -AAAACACGTTTTTT
1 GAAAACACATTTTTT
19938228 GTTAACTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (16 bp):
GAAAACACATTTTTTC
Found at i:19938797 original size:28 final size:27
Alignment explanation
Indices: 19938766--19938825 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
19938756 GTTTTTGCTT
* * * *
19938766 TTAATTAATAAATTTTTATTTATATAGA
1 TTAAATAATAAATATGTAATTATAT-GA
*
19938794 TTAAATATTAAATATGTAATTATATGA
1 TTAAATAATAAATATGTAATTATATGA
19938821 TTAAA
1 TTAAA
19938826 ATATATATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
TTAAATAATAAATATGTAATTATATGA
Found at i:19938840 original size:32 final size:32
Alignment explanation
Indices: 19938798--19938867 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
19938788 TATAGATTAA
*
19938798 ATATTAAATATGTAAT-TAT-ATGATTAAAATAT
1 ATATTTAATATGTAATGTATAAT-ATT-AAATAT
*
19938830 ATATTTAATATTTAATGTATAATATTAAATAT
1 ATATTTAATATGTAATGTATAATATTAAATAT
19938862 AT-TTTA
1 ATATTTA
19938868 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 4 0.12
32 22 0.65
33 6 0.18
34 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (32 bp):
ATATTTAATATGTAATGTATAATATTAAATAT
Found at i:19939083 original size:172 final size:172
Alignment explanation
Indices: 19938764--19939088 Score: 451
Period size: 172 Copynumber: 1.9 Consensus size: 172
19938754 TTGTTTTTGC
* * * * * *
19938764 TTTTAATTAATAAATTTTTATTTATATAGATTAAATATTAAATATGTAATTATATGATTAAAATA
1 TTTTAATTAATAAATTTTTATTTATATAAATAAAATAATAAATATGTAAATATACGATGAAAATA
* * * *
19938829 TATATTTAATATTTAATGTATAATATTAAATATATTTTATTTTTTAAAACATCATTTAATTATTT
66 TATATTTAATATATAATATATAATATTAAATATATGTTATTTTTTAAAACATCATCTAATTATTT
* *
19938894 TGATATACTTTTCCTTATTTATTAATTTTCTCTTAATTCATG
131 TGATATACTTATCCTTATATATTAATTTTCTCTTAATTCATG
*
19938936 TTTTAATTAATAAATTTTTATTTATATAAATAAAATAATAAATATTTAAATATACGATGAAAATA
1 TTTTAATTAATAAATTTTTATTTATATAAATAAAATAATAAATATGTAAATATACGATGAAAATA
* *
19939001 TATTATTTCAATATAT-ATCAT-TAA-GTTAAATATATGTTATTTTTTTAAAACATCATCTATTT
66 TA-TATTT-AATATATAAT-ATATAATATTAAATATATGTTA-TTTTTTAAAACATCATCTAATT
19939063 ATTTTGATATA-TTATCCTTATATATT
127 ATTTTGATATACTTATCCTTATATATT
19939089 TTTTAAATTA
Statistics
Matches: 134, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
172 86 0.64
173 41 0.31
174 7 0.05
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.51
Consensus pattern (172 bp):
TTTTAATTAATAAATTTTTATTTATATAAATAAAATAATAAATATGTAAATATACGATGAAAATA
TATATTTAATATATAATATATAATATTAAATATATGTTATTTTTTAAAACATCATCTAATTATTT
TGATATACTTATCCTTATATATTAATTTTCTCTTAATTCATG
Found at i:19939331 original size:14 final size:13
Alignment explanation
Indices: 19939314--19939350 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
19939304 ATAATAAATT
19939314 AAAAGAAAAAAAGG
1 AAAAGAAAAAAA-G
19939328 AAAAGAATAAAAAG
1 AAAAGAA-AAAAAG
19939342 AAAAGAAAA
1 AAAAGAAAA
19939351 TTGCCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 15 0.68
15 5 0.23
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (13 bp):
AAAAGAAAAAAAG
Found at i:19940321 original size:43 final size:43
Alignment explanation
Indices: 19940273--19940438 Score: 260
Period size: 43 Copynumber: 3.9 Consensus size: 43
19940263 TTATGTGAAA
*
19940273 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* **
19940316 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTGCCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* *
19940359 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGTTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* *
19940402 AAACGCAGCTAAAGATCGTGACCTTTAGCGGCGCTTT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTT
19940439 AGCCACAAAC
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 111 1.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
Found at i:19940375 original size:86 final size:86
Alignment explanation
Indices: 19940273--19940450 Score: 293
Period size: 86 Copynumber: 2.1 Consensus size: 86
19940263 TTATGTGAAA
*
19940273 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAACAAACGCCGCTAAAGAACATGAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAACAAACGCAGCTAAAGAACATGAC
*
19940338 CTTTAGCGGCGCTTTTGCCAC
66 CTTTAGCGGCGCTTTAGCCAC
* * * * *
19940359 AAACGCCGCTAAAGATCTTGACCTTTAGCGGCGTTTTTATCACAAACGCAGCTAAAGATCGTGAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAACAAACGCAGCTAAAGAACATGAC
19940424 CTTTAGCGGCGCTTTAGCCAC
66 CTTTAGCGGCGCTTTAGCCAC
19940445 AAACGC
1 AAACGC
19940451 TTTAGATACA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATAACAAACGCAGCTAAAGAACATGAC
CTTTAGCGGCGCTTTAGCCAC
Found at i:19949551 original size:19 final size:19
Alignment explanation
Indices: 19949511--19949553 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19949501 AATTTTAATT
*
19949511 AATATAAATAAACAAATTA
1 AATATAAATAAACAAATAA
*
19949530 AATAGTAAAT-AACAGATAA
1 AATA-TAAATAAACAAATAA
19949549 AATAT
1 AATAT
19949554 TTTTGCGGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
AATATAAATAAACAAATAA
Found at i:19949615 original size:41 final size:41
Alignment explanation
Indices: 19949558--19949756 Score: 326
Period size: 41 Copynumber: 4.9 Consensus size: 41
19949548 AAATATTTTT
* *
19949558 GCGGCGCTTTCTCAAAAACGCCGCTAAAGCTCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
19949599 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
19949640 GCGGTGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* * *
19949681 GCGCCGCTTTTTTAAAAACGCTGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
19949722 GCGGCGCTTTTTTAAAAACGCCGCTAAAGACCTGA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGA
19949757 TAGGTCAAAA
Statistics
Matches: 148, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 148 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:19949841 original size:41 final size:39
Alignment explanation
Indices: 19949796--19949887 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 39
19949786 GGTTTTTTTT
19949796 GCGGCGTTTTTCCAAAAAACGCCGCTAATGCTTGATCTTTA
1 GCGGCGTTTTT--AAAAAACGCCGCTAATGCTTGATCTTTA
** ** *
19949837 GCGGCGTTTTGTGTAAAGGGCCGCTAATGCTTGATTTTTA
1 GCGGCGTTTT-TAAAAAACGCCGCTAATGCTTGATCTTTA
19949877 GCGGCGTTTTT
1 GCGGCGTTTTT
19949888 TGTCCAAACG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
39 1 0.02
40 33 0.73
41 10 0.22
42 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.26, T:0.36
Consensus pattern (39 bp):
GCGGCGTTTTTAAAAAACGCCGCTAATGCTTGATCTTTA
Found at i:19953719 original size:39 final size:40
Alignment explanation
Indices: 19953598--19953719 Score: 142
Period size: 40 Copynumber: 3.1 Consensus size: 40
19953588 GCGGCATTTT
* *
19953598 AAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTCA-A
1 AAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTGAGA
* * *
19953637 AAATCGCCGCTAAAGATCCAGCATTAGCGGCCCTTTTTG-GA
1 AAA-CGCCGCTAAAAATCAAGCATTAGCGG-CGTTTTTGAGA
* *
19953678 AAACGCCGCTAAAAAT-GAGCATTAGTGGCGTTTTTGAGA
1 AAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTGAGA
19953717 AAA
1 AAA
19953720 GCTCCGCAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
38 7 0.10
39 18 0.26
40 36 0.51
41 9 0.13
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.23
Consensus pattern (40 bp):
AAACGCCGCTAAAAATCAAGCATTAGCGGCGTTTTTGAGA
Found at i:19953830 original size:41 final size:41
Alignment explanation
Indices: 19953770--19954085 Score: 418
Period size: 41 Copynumber: 7.7 Consensus size: 41
19953760 CCTTTAGAGG
*
19953770 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * * *
19953811 CTTTACCGGCGTTTATGGAAAAGTGCCGCTAATGCTCATAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * * * *
19953852 CTTTAGCGACGTTTTT-GAAAACCGACGCTAATGCTTAAAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
19953892 CTTTAGCGGCGTTTTTGGAAAATCGCCGCTAATGCTCAGAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
19953933 CTTTAGCGGCGTTTTTGGAAAATCGCCGCTAATGCTCAGAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* * *
19953974 CTTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGCTCAGAG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
* *
19954015 CTTTAGCGGCGTTTATGGAAAAGAGCCGCTAATGCTCAGAC
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
** *
19954056 CTTTAGCGGTTTTTTTTGAAAAAGCGCCGC
1 CTTTAGCGG-CGTTTTTGGAAAAGCGCCGC
19954086 AAAAACATTT
Statistics
Matches: 242, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
40 34 0.14
41 193 0.80
42 15 0.06
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGAC
Found at i:19953989 original size:122 final size:123
Alignment explanation
Indices: 19953770--19954064 Score: 423
Period size: 122 Copynumber: 2.4 Consensus size: 123
19953760 CCTTTAGAGG
* *
19953770 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAAACCTTTACCGGCGTTTATGGAAAAGT
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTATGGAAAAGT
* * *
19953835 GCCGCTAATGCTCATACCTTTAGCGACGTTTTT-GAAAACCGACGCTAATGCTTAAAC
66 GCCGCTAATGCTCAGACCTTTAGCGACATTTTTAGAAAACCGACGCTAATGCTCAAAC
* * *
19953892 CTTTAGCGGCGTTTTTGGAAAATCGCCGCTAATGCTCAGAGCTTTAGCGGCGTTTTTGGAAAA-T
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTATGGAAAAGT
* * * * * *
19953956 CGCCGCTAATGCTCAGAGCTTTAGCGGCATTTTTAGAAAAGCGCCGCTAATGCTCAGAG
66 -GCCGCTAATGCTCAGACCTTTAGCGACATTTTTAGAAAACCGACGCTAATGCTCAAAC
* *
19954015 CTTTAGCGGCGTTTATGGAAAAGAGCCGCTAATGCTCAGACCTTTAGCGG
1 CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGG
19954065 TTTTTTTTGA
Statistics
Matches: 153, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
121 1 0.01
122 87 0.57
123 65 0.42
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (123 bp):
CTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGACCTTTAGCGGCGTTTATGGAAAAGT
GCCGCTAATGCTCAGACCTTTAGCGACATTTTTAGAAAACCGACGCTAATGCTCAAAC
Found at i:19954516 original size:14 final size:15
Alignment explanation
Indices: 19954488--19954520 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19954478 AAGGTTTATA
19954488 GATTATGGAATTAGG
1 GATTATGGAATTAGG
19954503 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
19954517 GATT
1 GATT
19954521 CTAGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:19954722 original size:7 final size:7
Alignment explanation
Indices: 19954666--19954732 Score: 55
Period size: 7 Copynumber: 9.6 Consensus size: 7
19954656 TAAATAATGT
19954666 TTAGGGG
1 TTAGGGG
*
19954673 TTGGGGG
1 TTAGGGG
*
19954680 CTAGGGG
1 TTAGGGG
**
19954687 TTAGTAG
1 TTAGGGG
*
19954694 TTAGGGA
1 TTAGGGG
*
19954701 TTAAGGGT
1 TT-AGGGG
19954709 TTA-GGG
1 TTAGGGG
*
19954715 TTGGGGG
1 TTAGGGG
19954722 TTAGGGG
1 TTAGGGG
19954729 TTAG
1 TTAG
19954733 ATTAATTGGT
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
6 4 0.09
7 35 0.78
8 6 0.13
ACGTcount: A:0.16, C:0.01, G:0.51, T:0.31
Consensus pattern (7 bp):
TTAGGGG
Found at i:19954729 original size:21 final size:21
Alignment explanation
Indices: 19954664--19954730 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
19954654 ATTAAATAAT
*
19954664 GTTTAGGGGTTGGGGGCTAGGG
1 GTTTA-GGGTTGGGGGTTAGGG
* * * *
19954686 G-TTAGTAGTTAGGGATTAAGG
1 GTTTAG-GGTTGGGGGTTAGGG
19954707 GTTTAGGGTTGGGGGTTAGGG
1 GTTTAGGGTTGGGGGTTAGGG
19954728 GTT
1 GTT
19954731 AGATTAATTG
Statistics
Matches: 34, Mismatches: 9, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.03
21 28 0.82
22 5 0.15
ACGTcount: A:0.15, C:0.01, G:0.51, T:0.33
Consensus pattern (21 bp):
GTTTAGGGTTGGGGGTTAGGG
Found at i:19959191 original size:18 final size:18
Alignment explanation
Indices: 19959168--19959227 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
19959158 ATGTAATTCT
19959168 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
19959186 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
19959203 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
19959221 AATGTAA
1 AATGTAA
19959228 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:19968166 original size:32 final size:32
Alignment explanation
Indices: 19968129--19968194 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
19968119 TGTTTTAGAC
19968129 TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
1 TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
19968161 TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
1 TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
19968193 TT
1 TT
19968195 GTCTATTGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.27, C:0.12, G:0.21, T:0.39
Consensus pattern (32 bp):
TTCTTTTAAAGTCTTTCCAAGATGGAGGAAGT
Found at i:19968980 original size:30 final size:28
Alignment explanation
Indices: 19968939--19969035 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 28
19968929 TTATTTTTTT
*
19968939 AAAATTACATTTTGACCTTTAAAATTTCAA
1 AAAATTACATTTTGACC-CTAAAATTTC-A
* * *
19968969 AAAAGTACATTTTGACCCCTAAACTTTCT
1 AAAATTACATTTTGA-CCCTAAAATTTCA
*
19968998 AAAATTACATTTTGACCCTAAAATTTTGA
1 AAAATTACATTTTGACCCTAAAA-TTTCA
19969027 AAAATTACA
1 AAAATTACA
19969036 CTTTAGCCCT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
28 7 0.12
29 26 0.46
30 22 0.39
31 2 0.04
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (28 bp):
AAAATTACATTTTGACCCTAAAATTTCA
Found at i:19969010 original size:29 final size:30
Alignment explanation
Indices: 19968938--19969023 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 30
19968928 TTTATTTTTT
**
19968938 TAAAATTACATTTTGACCTTTAAAATTTCA
1 TAAAATTACATTTTGACCCCTAAAATTTCA
* * *
19968968 AAAAAGTACATTTTGACCCCTAAACTTTC-
1 TAAAATTACATTTTGACCCCTAAAATTTCA
19968997 TAAAATTACATTTTGA-CCCTAAAATTT
1 TAAAATTACATTTTGACCCCTAAAATTT
19969024 TGAAAAATTA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.21
29 14 0.29
30 24 0.50
ACGTcount: A:0.40, C:0.17, G:0.05, T:0.38
Consensus pattern (30 bp):
TAAAATTACATTTTGACCCCTAAAATTTCA
Found at i:19969045 original size:29 final size:30
Alignment explanation
Indices: 19968939--19969055 Score: 80
Period size: 29 Copynumber: 4.0 Consensus size: 30
19968929 TTATTTTTTT
* * **
19968939 AAAATTACATTTTGA-CCTTTAAAATTTCAA
1 AAAATTACATTTAGACCCTAT-AAATTTTGA
* * * * **
19968969 AAAAGTACATTTTGACCC-CTAAACTTTCT
1 AAAATTACATTTAGACCCTATAAATTTTGA
*
19968998 AAAATTACATTTTGACCCTA-AAATTTTGA
1 AAAATTACATTTAGACCCTATAAATTTTGA
*
19969027 AAAATTACACTTTAG-CCCTATAAGTTTTG
1 AAAATTACA-TTTAGACCCTATAAATTTTG
19969056 CTACATTTAC
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
29 42 0.60
30 26 0.37
31 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (30 bp):
AAAATTACATTTAGACCCTATAAATTTTGA
Found at i:19969423 original size:10 final size:10
Alignment explanation
Indices: 19969405--19969460 Score: 69
Period size: 10 Copynumber: 5.5 Consensus size: 10
19969395 TAGAGCAAGG
19969405 AGAAAGAAGA
1 AGAAAGAAGA
*
19969415 AGAATGAAGGA
1 AGAAAGAA-GA
*
19969426 AAAAAGAAGA
1 AGAAAGAAGA
19969436 AGAAAGAAGA
1 AGAAAGAAGA
19969446 AGGAAAGAA-A
1 A-GAAAGAAGA
19969456 AGAAA
1 AGAAA
19969461 AAAATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
9 4 0.10
10 21 0.52
11 15 0.38
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (10 bp):
AGAAAGAAGA
Found at i:19969447 original size:24 final size:23
Alignment explanation
Indices: 19969407--19969479 Score: 73
Period size: 24 Copynumber: 3.3 Consensus size: 23
19969397 GAGCAAGGAG
19969407 AAAGAAGAAGAATGAAGGAAAAA
1 AAAGAAGAAGAATGAAGGAAAAA
*
19969430 AGAAGAAGAAAGAA-GAAGGAAAGA
1 A-AAGAAG-AAGAATGAAGGAAAAA
* *
19969454 AAAGAA-AAAAAT-AA-AAAAAA
1 AAAGAAGAAGAATGAAGGAAAAA
19969474 AAAGAA
1 AAAGAA
19969480 AAAAATATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
20 10 0.23
21 6 0.14
23 6 0.14
24 16 0.37
25 5 0.12
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (23 bp):
AAAGAAGAAGAATGAAGGAAAAA
Found at i:19969452 original size:21 final size:21
Alignment explanation
Indices: 19969401--19969460 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
19969391 AAACTAGAGC
*
19969401 AAGG-AGAAAGAAGAAGAATG
1 AAGGAAGAAAGAAGAAGAAAG
*
19969421 AAGGAAAAAAGAAGAAGAAAG
1 AAGGAAGAAAGAAGAAGAAAG
19969442 AA-GAAGGAAAGAA-AAGAAA
1 AAGGAA-GAAAGAAGAAGAAA
19969461 AAAATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 13 0.37
21 22 0.63
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (21 bp):
AAGGAAGAAAGAAGAAGAAAG
Found at i:19969453 original size:18 final size:17
Alignment explanation
Indices: 19969405--19969454 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
19969395 TAGAGCAAGG
*
19969405 AGAAAGAAGAAGAATGA
1 AGAAAGAAGAAGAAAGA
*
19969422 AGGAA-AA-AAG-AAGA
1 AGAAAGAAGAAGAAAGA
19969436 AGAAAGAAGAAGGAAAGA
1 AGAAAGAAGAA-GAAAGA
19969454 A
1 A
19969455 AAGAAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 7
0.72 0.08 0.19
Matches are distributed among these distances:
14 7 0.27
15 5 0.19
16 4 0.15
17 5 0.19
18 5 0.19
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (17 bp):
AGAAAGAAGAAGAAAGA
Found at i:19969716 original size:28 final size:28
Alignment explanation
Indices: 19969682--19969735 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
19969672 GGCCCAAACT
**
19969682 AGCAGGCTAGTGCCTGGCCCAACAGCAC
1 AGCAGGCTAGCACCTGGCCCAACAGCAC
*
19969710 AGCAGGCTAGCACTTGGCCCAACAGC
1 AGCAGGCTAGCACCTGGCCCAACAGC
19969736 CAACAGCCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.35, G:0.28, T:0.11
Consensus pattern (28 bp):
AGCAGGCTAGCACCTGGCCCAACAGCAC
Found at i:19979081 original size:78 final size:77
Alignment explanation
Indices: 19978798--19979927 Score: 1241
Period size: 78 Copynumber: 14.6 Consensus size: 77
19978788 TCTTTTTATG
*
19978798 TTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTATTT
19978863 TTCAATTTCTATTT
65 TTCAATTTCTA-TT
* * *
19978877 TTTTTCAAAACTCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGATCGCACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
19978942 TTTAATTTCTA--
65 TTCAATTTCTATT
* * **
19978953 TTTTTCAAAAATCAACTCATAATGCGAGAGATCAGTTGAGCCTCGGGTCACACGTCGAACTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTATTT
19979018 TTCAATTTCTATT
65 TTCAATTTCTATT
* * * * * *
19979031 TTTTTTAAAACTCAACTCATAATGCCAGAGGTGAGTTGAGCCACGAGTCACACGCTGATGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
19979096 TTCAA-TT-TATG
65 TTCAATTTCTATT
* * * *
19979107 TTTTTCAAAAAAATCAACACATAATGCGAGAGGTGAGTTGAGACTAGGGTCACACGCTAAGGTAT
1 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTAT
*
19979172 TTTTCAATTTCTATA
63 TTTTCAATTTCTATT
* * *
19979187 TTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTAGGGTCACACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
19979252 TTCAATTTCTGTT
65 TTCAATTTCTATT
* *
19979265 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCGCACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
19979330 TTCAA-TT-TATG
65 TTCAATTTCTATT
* *
19979341 TTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGGGTCGCACGCCGAGGTAT
1 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTAT
19979406 TTTTCAA-TT-TATGT
63 TTTTCAATTTCTAT-T
* * *
19979420 TTTTTCAAAAAAAATCAACTCATAATGCGAGATGTGAGTTGAGCCTCGAGTTACACGTCGAGGTA
1 TTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTA
* *
19979485 TTTTTGAA-TT-TATG
62 TTTTTCAATTTCTATT
* * * * *
19979499 TTTTTCAAAAATATCAGCTCATAATACGAGAGGTGAGTT-ATGCCTCGGGTCGCATGTTGAGGTA
1 TTTTTC-AAAA-ATCAACTCATAATGCGAGAGGTGAGTTGA-GCCTCGGGTCACACG-CGAGGTA
*
19979563 TTTTTCAATTTC--TG
62 TTTTTCAATTTCTATT
* *
19979577 TTTTTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-CACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTATTT
*
19979641 TTCAATTTCCA-T
65 TTCAATTTCTATT
** * * *
19979653 TTTTTCAAAAATCAACTCATAATATGATAGGTGAGTTGAGCCTCGGG-CAAATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACG-CGAGGTATTT
*
19979717 TTCAA-TT-TATG
65 TTCAATTTCTATT
* * *
19979728 TTTTTCAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCGCGCTGAGG-A-
1 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTAT
*
19979791 TTTTCAATTTC--TG
63 TTTTCAATTTCTATT
* * * * * * *
19979804 TTCTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTTGGGTCGCGCGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC-GAGGTATTT
*
19979869 TT-AATTTC--TG
65 TTCAATTTCTATT
* *
19979879 TTTTTCAAAGATCAACTCATAAT-CTGAGAGGTGAGTTGAGCTTCGGGTC
1 TTTTTCAAAAATCAACTCATAATGC-GAGAGGTGAGTTGAGCCTCGGGTC
19979928 GTACCCTGAG
Statistics
Matches: 926, Mismatches: 94, Indels: 66
0.85 0.09 0.06
Matches are distributed among these distances:
74 53 0.06
75 85 0.09
76 196 0.21
77 59 0.06
78 374 0.40
79 86 0.09
80 73 0.08
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (77 bp):
TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCGAGGTATTTT
TCAATTTCTATT
Found at i:19979191 original size:156 final size:154
Alignment explanation
Indices: 19978792--19979964 Score: 1403
Period size: 156 Copynumber: 7.6 Consensus size: 154
19978782 ACCATTTCTT
* *
19978792 TTTATGTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAG
1 TTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG
* * *
19978857 GTATTTTTCAATTTCTATTTTTTTTCAAAACTCAACTCATAATGCGAGAGGTGAGTTGAGCCTCG
66 GTATTTTTCAATTTCTA-TGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
* *
19978922 GATCGCACGCTGAGGTATTTTTTAA
130 GGTCGCACGCTGAGGTATTTTTCAA
* * * *
19978947 TTTCTATTTTTCAAAAATCAACTCATAATGCGAGAGATCAGTTGAGCCTCGGGTCACACG-TCGA
1 TTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GA
** * * * * * *
19979011 ACTATTTTTCAATTTCTATTTTTTTTAAAACTCAACTCATAATGCCAGAGGTGAGTTGAGCCACG
65 GGTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCG
* * *
19979076 AGTCACACGCTGATGTATTTTTCAA
130 GGTCGCACGCTGAGGTATTTTTCAA
* * * *
19979101 TTTATGTTTTTCAAAAAAATCAACACATAATGCGAGAGGTGAGTTGAGACTAGGGTCACACGCTA
1 TTTATGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
* * *
19979166 AGGTATTTTTCAATTTCTATATTTTTCAAAAATCAACTTATAATACGAGAGGTGAGTTGAGCCTA
64 AGGTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
*
19979231 GGGTCACACGCTGAGGTATTTTTCAA
129 GGGTCGCACGCTGAGGTATTTTTCAA
* * *
19979257 TTTCTGTTTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGGGTCGCACGCTG
1 TTTATG--TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
* *
19979322 AGGTATTTTTCAA-TT-TATGTTTTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCC
64 AGGTATTTTTCAATTTCTATGTTTTTC--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCC
*
19979385 TCGGGTCGCACGCCGAGGTATTTTTCAA
127 TCGGGTCGCACGCTGAGGTATTTTTCAA
* * *
19979413 TTTATGTTTTTTCAAAAAAAATCAACTCATAATGCGAGATGTGAGTTGAGCCTCGAGTTACACG-
1 TTTATG-TTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
* *
19979477 TCGAGGTATTTTTGAA-TT-TATGTTTTTCAAAAATATCAGCTCATAATACGAGAGGTGAGTT-A
62 T-GAGGTATTTTTCAATTTCTATGTTTTTC-AAAA-ATCAACTCATAATACGAGAGGTGAGTTGA
* *
19979539 TGCCTCGGGTCGCATGTTGAGGTATTTTTCAA
124 -GCCTCGGGTCGCACGCTGAGGTATTTTTCAA
* * * *
19979571 TTTCTGTTTTTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGG-CACATGCCGAG
1 TTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG
* * *
19979635 GTATTTTTCAATTTCCAT-TTTTTCAAAAATCAACTCATAATATGATAGGTGAGTTGAGCCTCGG
66 GTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
** * *
19979699 G-CAAATGCCGAGGTATTTTTCAA
131 GTCGCACGCTGAGGTATTTTTCAA
* * *
19979722 TTTATGTTTTTCAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCGCGCTG
1 TTTATGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTG
* * * * *
19979787 AGG-A-TTTTCAATTTC--TGTTCTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCTTT
64 AGGTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTC
*
19979848 GGGTCGCGCGCTGAGGTATTTTT-AA
129 GGGTCGCACGCTGAGGTATTTTTCAA
* * * ** *
19979873 TTTCTGTTTTTCAAAGATCAACTCATAAT-CTGAGAGGTGAGTTGAGCTTCGGGTCGTACCCTGA
1 TTTATGTTTTTCAAAAATCAACTCATAATGC-GAGAGGTGAGTTGAGCCTCGGGTCACACGCTGA
* *
19979937 GCTATTTTT-GATTTC--TGTTTTTCAAAAA
65 GGTATTTTTCAATTTCTATGTTTTTCAAAAA
19979965 AAAATTTAGA
Statistics
Matches: 886, Mismatches: 106, Indels: 57
0.84 0.10 0.05
Matches are distributed among these distances:
148 1 0.00
149 46 0.05
150 18 0.02
151 86 0.10
152 57 0.06
153 62 0.07
154 137 0.15
155 84 0.09
156 249 0.28
157 14 0.02
158 132 0.15
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (154 bp):
TTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAG
GTATTTTTCAATTTCTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGG
GTCGCACGCTGAGGTATTTTTCAA
Found at i:19980136 original size:29 final size:30
Alignment explanation
Indices: 19980092--19980245 Score: 172
Period size: 29 Copynumber: 5.2 Consensus size: 30
19980082 ATTTTTTTAT
* * *
19980092 AATTACATTTTGACCCCTAAATTTTCCTAA
1 AATTACATTTTAACCCTTAAACTTTCCTAA
*
19980122 AATTA-GTTTTAACCCTTAAACTTTCCTAA
1 AATTACATTTTAACCCTTAAACTTTCCTAA
* *
19980151 AATTGCATTTTGA-CCTTGAAACTTTCCTAA
1 AATTACATTTTAACCCTT-AAACTTTCCTAA
*
19980181 AATTACATTTTAACCCTTAAAC-TTCTTAA
1 AATTACATTTTAACCCTTAAACTTTCCTAA
* * * *
19980210 AACTACATTTTAA-CCATAAATTTTCCAAA
1 AATTACATTTTAACCCTTAAACTTTCCTAA
19980239 AATTACA
1 AATTACA
19980246 CTTTGGCACC
Statistics
Matches: 104, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
28 6 0.06
29 57 0.55
30 37 0.36
31 4 0.04
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (30 bp):
AATTACATTTTAACCCTTAAACTTTCCTAA
Found at i:19980211 original size:59 final size:59
Alignment explanation
Indices: 19980092--19980245 Score: 195
Period size: 59 Copynumber: 2.6 Consensus size: 59
19980082 ATTTTTTTAT
* *
19980092 AATTACATTTTGACCCCTAAATTTTCCTAAAATTA-GTTTTAACCCTTAAACTTTCCTAA
1 AATTACATTTTGA-CCATAAATTTTCCTAAAATTACATTTTAACCCTTAAACTTTCCTAA
* * * *
19980151 AATTGCATTTTGACCTTGAAACTTTCCTAAAATTACATTTTAACCCTTAAAC-TTCTTAA
1 AATTACATTTTGACCAT-AAATTTTCCTAAAATTACATTTTAACCCTTAAACTTTCCTAA
* * *
19980210 AACTACATTTTAACCATAAATTTTCCAAAAATTACA
1 AATTACATTTTGACCATAAATTTTCCTAAAATTACA
19980246 CTTTGGCACC
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
58 20 0.24
59 47 0.57
60 15 0.18
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.39
Consensus pattern (59 bp):
AATTACATTTTGACCATAAATTTTCCTAAAATTACATTTTAACCCTTAAACTTTCCTAA
Found at i:19980639 original size:19 final size:19
Alignment explanation
Indices: 19980602--19980639 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
19980592 TAGGAGAAAG
* *
19980602 AAGAAGAAGGAAGGGAAAA
1 AAGAAGAAGGAAAGAAAAA
19980621 AAGAAGAAGGAAAGAAAAA
1 AAGAAGAAGGAAAGAAAAA
19980640 GAAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (19 bp):
AAGAAGAAGGAAAGAAAAA
Found at i:19980914 original size:28 final size:28
Alignment explanation
Indices: 19980878--19980931 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
19980868 AGCCCAAACT
19980878 AGCAAGCCAGCACCTGGCCCAACAGCAC
1 AGCAAGCCAGCACCTGGCCCAACAGCAC
* *
19980906 AGCAGGCCAGCACTTGGCCCAACAGC
1 AGCAAGCCAGCACCTGGCCCAACAGC
19980932 TAGTAACCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.30, C:0.41, G:0.24, T:0.06
Consensus pattern (28 bp):
AGCAAGCCAGCACCTGGCCCAACAGCAC
Found at i:19985909 original size:41 final size:41
Alignment explanation
Indices: 19985842--19985938 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 41
19985832 AATACACCTA
* * *
19985842 CATTAAACCTGCTAGACGTAAGGTCTGAAATATTTCACCGG
1 CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACCGG
*
19985883 CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACTGG
1 CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACCGG
19985924 CATTAAGCCTGCTAG
1 CATTAAGCCTGCTAG
19985939 GCACAAAGCC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACCGG
Found at i:19985952 original size:41 final size:41
Alignment explanation
Indices: 19985842--19985953 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 41
19985832 AATACACCTA
* * * * *
19985842 CATTAAACCTGCTAGACGTAAGGTCTGAAATATTTCACCGG
1 CATTAAGCCTGCTAGAAGCAAAGCCTGAAATATTTCACCGG
* * *
19985883 CATTAAGCCTGCTAGAAGTAAAGTCTGAAATATTTCACTGG
1 CATTAAGCCTGCTAGAAGCAAAGCCTGAAATATTTCACCGG
*
19985924 CATTAAGCCTGCTAGGCA-CAAAGCCTGAAA
1 CATTAAGCCTGCTA-GAAGCAAAGCCTGAAA
19985954 ATCACATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 61 0.97
42 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (41 bp):
CATTAAGCCTGCTAGAAGCAAAGCCTGAAATATTTCACCGG
Found at i:19986242 original size:71 final size:65
Alignment explanation
Indices: 19986096--19986257 Score: 175
Period size: 65 Copynumber: 2.4 Consensus size: 65
19986086 AATTCACGAC
* * *
19986096 TTTAACTTCAGCTCAAGGAATTTGTAACTAATATTCGAACCTCATATGTATATAAAATTCATACA
1 TTTAAATTCAGCTCAAGAAACTTGTAACTAATATTCGAACCTCATATGTATATAAAATTCATACA
* *
19986161 TTAAAATTCAGCTCAAGAAACTTGTAACCT-ATATTCGAACCATATATATATGTATATATGAAAT
1 TTTAAATTCAGCTCAAGAAACTTGTAA-CTAATATTCGAACC---T-CATATGTATATA--AAAT
19986225 TCATA-A
59 TCATACA
* *
19986231 TATTAAGTTCAGCTCAATAAACTTGTA
1 T-TTAAATTCAGCTCAAGAAACTTGTA
19986258 TCATACATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
65 34 0.42
66 2 0.02
68 1 0.01
69 11 0.14
70 2 0.02
71 31 0.38
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (65 bp):
TTTAAATTCAGCTCAAGAAACTTGTAACTAATATTCGAACCTCATATGTATATAAAATTCATACA
Found at i:19986268 original size:71 final size:69
Alignment explanation
Indices: 19986139--19986270 Score: 176
Period size: 71 Copynumber: 1.9 Consensus size: 69
19986129 TTCGAACCTC
* *
19986139 ATATGTATATAAAATTCATACATTAAAATTCAGCTCAAGAAACTTGTAACCTATATTCGAACCAT
1 ATATGTATATAAAATTCATACATTAAAATTCAGCTCAAGAAACTTGTAACATACATTCGAACCAT
19986204 ATAT
66 ATAT
* * * *
19986208 ATATGTATATATGAAATTCATA-ATATTAAGTTCAGCTCAATAAACTTGTATCATACATTCGAA
1 ATATGTATATA--AAATTCATACAT-TAAAATTCAGCTCAAGAAACTTGTAACATACATTCGAA
19986271 ATTTAACCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
69 11 0.20
70 2 0.04
71 41 0.76
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.35
Consensus pattern (69 bp):
ATATGTATATAAAATTCATACATTAAAATTCAGCTCAAGAAACTTGTAACATACATTCGAACCAT
ATAT
Found at i:19993204 original size:6 final size:6
Alignment explanation
Indices: 19993193--19993265 Score: 53
Period size: 6 Copynumber: 11.8 Consensus size: 6
19993183 CGCAATGAAC
* **
19993193 AAAAAG AAAAAG AAAAAG -AGAAG AAATGTG AAAGAAG -AAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA-AAG AAA-AAG AAAAAG AAAAAG
19993241 AAGAACA- AAAGAAG AAAAAG AAAAA
1 AA-AA-AG AAA-AAG AAAAAG AAAAA
19993266 ACGTTAAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
5 7 0.13
6 32 0.60
7 13 0.25
8 1 0.02
ACGTcount: A:0.75, C:0.01, G:0.21, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:19993218 original size:17 final size:18
Alignment explanation
Indices: 19993196--19993263 Score: 57
Period size: 20 Copynumber: 3.7 Consensus size: 18
19993186 AATGAACAAA
19993196 AAGAAAAAGAAA-AAGAG
1 AAGAAAAAGAAACAAGAG
** * *
19993213 AAGAAATGTGAAAGAAGAA
1 AAGAAA-AAGAAACAAGAG
*
19993232 AAGAAAAAGAAGAACAAAAG
1 AAGAAAAAG-A-AACAAGAG
19993252 AAGAAAAAGAAA
1 AAGAAAAAGAAA
19993264 AAACGTTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 6 0.15
18 7 0.18
19 12 0.31
20 14 0.36
ACGTcount: A:0.74, C:0.01, G:0.22, T:0.03
Consensus pattern (18 bp):
AAGAAAAAGAAACAAGAG
Found at i:19994498 original size:138 final size:138
Alignment explanation
Indices: 19994247--19994517 Score: 413
Period size: 138 Copynumber: 2.0 Consensus size: 138
19994237 TAACAAGTTT
* *
19994247 ACTAGAAGGACATTGTCCAATTGGAGTCAAATGGATGTACAAGACAAAGACCAACAAAAAAGGAA
1 ACTAGAAGGACATAGTCCAATTGAAGTCAAATGGATGTACAAGACAAAGACCAACAAAAAAGGAA
* *
19994312 AAGTGGAGAAATACAAAGCAAGACTGATTGCAAAGGGCTTCAAGTAAAGAC-ATAGAGTGGACTA
66 AAGTGGAGAAATACAAAGCAAGACTGATTGCAAAAGGCTACAAGTAAAGACAAT-GAGTGGACTA
19994376 TGATGAAGG
130 TGATGAAGG
* * *
19994385 ACTAGAAGGACATAGTCCAATTGAAGTCAAAT-GAGTGTACAAGACAAATACTAACAAAGAAGGA
1 ACTAGAAGGACATAGTCCAATTGAAGTCAAATGGA-TGTACAAGACAAAGACCAACAAAAAAGGA
* *
19994449 AAATTGGAGAAATACAAAGCAAGACT-AGTTGCAAAAGGCTACAATTAAAGACAATGAGTGGACT
65 AAAGTGGAGAAATACAAAGCAAGACTGA-TTGCAAAAGGCTACAAGTAAAGACAATGAGTGGACT
19994513 ATGAT
129 ATGAT
19994518 TGAGTATTTA
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
137 3 0.02
138 116 0.96
139 2 0.02
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.18
Consensus pattern (138 bp):
ACTAGAAGGACATAGTCCAATTGAAGTCAAATGGATGTACAAGACAAAGACCAACAAAAAAGGAA
AAGTGGAGAAATACAAAGCAAGACTGATTGCAAAAGGCTACAAGTAAAGACAATGAGTGGACTAT
GATGAAGG
Found at i:19995753 original size:36 final size:36
Alignment explanation
Indices: 19995706--19995778 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
19995696 TTGGAATGAA
19995706 AGCTCAATTTGATGGGGCGTGTTAGAAGTCAAACTG
1 AGCTCAATTTGATGGGGCGTGTTAGAAGTCAAACTG
19995742 AGCTCAATTTGATGGGGCGTGTTAGAAGTCAAACTG
1 AGCTCAATTTGATGGGGCGTGTTAGAAGTCAAACTG
19995778 A
1 A
19995779 CTTCTCAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (36 bp):
AGCTCAATTTGATGGGGCGTGTTAGAAGTCAAACTG
Found at i:19996311 original size:3 final size:3
Alignment explanation
Indices: 19996303--19996359 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
19996293 GTGAGTAAAG
19996303 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
19996351 GAA GAA GAA
1 GAA GAA GAA
19996360 AGACTATGTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20006254 original size:15 final size:15
Alignment explanation
Indices: 20006234--20006268 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20006224 ATCAATACTG
20006234 CCCAATTAGCCTAAA
1 CCCAATTAGCCTAAA
* *
20006249 CCCAATTAGCTTTAA
1 CCCAATTAGCCTAAA
20006264 CCCAA
1 CCCAA
20006269 ACTCTAGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.34, G:0.06, T:0.23
Consensus pattern (15 bp):
CCCAATTAGCCTAAA
Found at i:20014121 original size:75 final size:75
Alignment explanation
Indices: 20014028--20014174 Score: 249
Period size: 75 Copynumber: 2.0 Consensus size: 75
20014018 TCTTAATTTA
*
20014028 TAGTAGGATTTTCAAGAGTCAAATTAAAACTGGAAAAATCGCGCGTACCAAATCGTAAAACGCTC
1 TAGTAGGATTTTCAAGAGTCAAATTAAAACTGGAAAAATCGCGCATACCAAATCGTAAAACGCTC
20014093 GATCGCTTTC
66 GATCGCTTTC
** * *
20014103 TAGTAGGATTTTCAAGAGTTGAATTAAAACTGGAAAATTCGCGCATACCAAATCGTAAAGCGCTC
1 TAGTAGGATTTTCAAGAGTCAAATTAAAACTGGAAAAATCGCGCATACCAAATCGTAAAACGCTC
20014168 GATCGCT
66 GATCGCT
20014175 CGTTCGATGC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (75 bp):
TAGTAGGATTTTCAAGAGTCAAATTAAAACTGGAAAAATCGCGCATACCAAATCGTAAAACGCTC
GATCGCTTTC
Found at i:20015510 original size:14 final size:14
Alignment explanation
Indices: 20015493--20015520 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20015483 TCTTTTTATT
20015493 TTATTTTCTTTTAA
1 TTATTTTCTTTTAA
20015507 TTATTTTCTTTTAA
1 TTATTTTCTTTTAA
20015521 CTTTCATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTTCTTTTAA
Found at i:20017690 original size:27 final size:27
Alignment explanation
Indices: 20017652--20017711 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
20017642 ACTGTGATAA
20017652 GTCCTACTGCTGAGGACTTCTAGGATT
1 GTCCTACTGCTGAGGACTTCTAGGATT
20017679 GTCCTACTGCTGAGGACTTCTAGGATT
1 GTCCTACTGCTGAGGACTTCTAGGATT
*
20017706 ATCCTA
1 GTCCTA
20017712 AGTAACTTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (27 bp):
GTCCTACTGCTGAGGACTTCTAGGATT
Found at i:20022934 original size:30 final size:31
Alignment explanation
Indices: 20022877--20022936 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
20022867 AGGGAGGAGA
*
20022877 TGGGAGAGAAGTAAAAGTTTTTGGGGAAAAG
1 TGGGAGAGAAGTAAAAGATTTTGGGGAAAAG
*
20022908 TGGGAGGGAA-TAAAA-ATTTTGAGGGAAAA
1 TGGGAGAGAAGTAAAAGATTTTG-GGGAAAA
20022937 TAAAAAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 5 0.19
30 12 0.46
31 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (31 bp):
TGGGAGAGAAGTAAAAGATTTTGGGGAAAAG
Found at i:20022999 original size:23 final size:23
Alignment explanation
Indices: 20022955--20023000 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20022945 TTTAATGGTT
*
20022955 CTTTTTTTTCCCTCCTCTCCCTC
1 CTTTTTTTTCCCTCCTCCCCCTC
* **
20022978 CTTTTTTTTTCCTTTTCCCCCTC
1 CTTTTTTTTCCCTCCTCCCCCTC
20023001 TTTCCTCCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (23 bp):
CTTTTTTTTCCCTCCTCCCCCTC
Found at i:20024334 original size:31 final size:31
Alignment explanation
Indices: 20024277--20024342 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
20024267 AATTTTCAAT
20024277 AAATAAAAAATGTATAAAATTATT-AAATATTA
1 AAATAAAAAA-GTATAAAATTATTAAAAT-TTA
*
20024309 AAATAAAAAA-TATAAATATTTTTAAAATTTA
1 AAATAAAAAAGTATAAA-ATTATTAAAATTTA
20024340 AAA
1 AAA
20024343 ATAATATAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 6 0.19
31 11 0.35
32 14 0.45
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (31 bp):
AAATAAAAAAGTATAAAATTATTAAAATTTA
Found at i:20024346 original size:32 final size:31
Alignment explanation
Indices: 20024277--20024342 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
20024267 AATTTTCAAT
20024277 AAATAAAAAATGTATAAAATTATTAAATATTA
1 AAATAAAAAA-GTATAAAATTATTAAATATTA
*
20024309 AAATAAAAAA-TATAAATATTTTTAAA-ATTTA
1 AAATAAAAAAGTATAAA-ATTATTAAATA-TTA
20024340 AAA
1 AAA
20024343 ATAATATAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 14 0.45
32 10 0.32
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (31 bp):
AAATAAAAAAGTATAAAATTATTAAATATTA
Found at i:20030336 original size:46 final size:46
Alignment explanation
Indices: 20030202--20030548 Score: 480
Period size: 46 Copynumber: 7.5 Consensus size: 46
20030192 NNNNNNNNNN
* * *
20030202 TTGGCAGCGAAGGAGATCGAAGATAGCAGATCTCGTCTTCTTGTAT
1 TTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* * *
20030248 TTGGCAGCGGAAGAGGTCGAAAGGTAGCAGATCTTGTCTTCCTGTAT
1 TTGGCAGCGGAGGAGATCG-AAGATAGCAGATCTTGTCTTCCTGTAT
* * *
20030295 TTGCCAACGGAGGAGATCGAAGATAGCAGATCTTGTTTTCCTGTAT
1 TTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* * * *
20030341 TTGACAGCGGAAGAGATCGAAGATAGTAGATCTTGTTTTCCTGTAT
1 TTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
*
20030387 TTGACAGCGGAGGAGATCGAAGATAGCAGA-CATTGTCTTCCTGTAT
1 TTGGCAGCGGAGGAGATCGAAGATAGCAGATC-TTGTCTTCCTGTAT
*
20030433 TTGGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
1 TTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* *
20030479 TTGGCAGCGAAGGAGATCGAAGATAGCAGATCTTGTCTTTCTGTAT
1 TTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* * * *
20030525 TTAGTAGTGGAGTAGATCGAAGAT
1 TTGGCAGCGGAGGAGATCGAAGAT
20030549 GGTGAATCTT
Statistics
Matches: 269, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
45 1 0.00
46 228 0.85
47 40 0.15
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (46 bp):
TTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
Found at i:20030764 original size:132 final size:132
Alignment explanation
Indices: 20030527--20030938 Score: 671
Period size: 132 Copynumber: 3.1 Consensus size: 132
20030517 TTCTGTATTT
*
20030527 AGTAGTGGAGTAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAG
1 AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAG
* *
20030592 CCATTAGTCCTATCATCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAAATTCTGTCACCCTAA
66 CCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAA
20030657 GC
131 GC
* * *
20030659 AGTAGTGGAGCAAATCGAAAATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCGGATTTAAG
1 AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAG
*
20030724 CCATTAGTCCTATCACCCTAAGCAGTAGTGGGGTAGGTTGAAGATTGCAGATTCTGTCACCCTAA
66 CCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAA
20030789 GC
131 GC
20030791 AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAG
1 AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAG
* * * ** * * * *
20030856 CCATTAGTCCTATCACTCTAAGTAGTAGTGGAGTATGTCAAAGACTGTAGATTCTATCCCCCTAA
66 CCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAA
*
20030921 TC
131 GC
20030923 AGTAGTGGAGCAGATC
1 AGTAGTGGAGCAGATC
20030939 AACAATAACG
Statistics
Matches: 259, Mismatches: 21, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
132 259 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAG
CCATTAGTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAA
GC
Found at i:20034941 original size:19 final size:21
Alignment explanation
Indices: 20034908--20034947 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
20034898 AGATTTCAAC
20034908 CTTTGTCAATAATAT-CAAAA
1 CTTTGTCAATAATATACAAAA
*
20034928 CTTTGTTAAT-ATATACAAAA
1 CTTTGTCAATAATATACAAAA
20034948 AATATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (21 bp):
CTTTGTCAATAATATACAAAA
Found at i:20035302 original size:31 final size:32
Alignment explanation
Indices: 20035241--20035302 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 32
20035231 AAAATTCACA
* * *
20035241 ATATTTATATTACAAAAATGTATTAGGAATGC
1 ATATTTAAATTACAAAAATGTAATACGAATGC
20035273 ATATTTAAATTAC-AAAATGTAA-ATCGAATG
1 ATATTTAAATTACAAAAATGTAATA-CGAATG
20035303 AAAATACCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
30 1 0.04
31 13 0.50
32 12 0.46
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.35
Consensus pattern (32 bp):
ATATTTAAATTACAAAAATGTAATACGAATGC
Found at i:20038348 original size:25 final size:24
Alignment explanation
Indices: 20038318--20038370 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
20038308 GGTCTGAATA
20038318 AATTAGATGTAAATGTCGATTTTTT
1 AATTAGATGTAAATGTCG-TTTTTT
* * **
20038343 AATTAGGTTTTTATGTCGTTTTTT
1 AATTAGATGTAAATGTCGTTTTTT
20038367 AATT
1 AATT
20038371 TAGAGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.26, C:0.04, G:0.15, T:0.55
Consensus pattern (24 bp):
AATTAGATGTAAATGTCGTTTTTT
Found at i:20038537 original size:28 final size:28
Alignment explanation
Indices: 20038506--20038581 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 28
20038496 TTCTCTCTTC
*
20038506 TAGGGTTATGGTTTTAAATTTTTAAGGT
1 TAGGGTTATGGTTTTAAATTTTTAAGGG
*
20038534 TA-GG--AT--TTTT-AATTTTTAGGGG
1 TAGGGTTATGGTTTTAAATTTTTAAGGG
* *
20038556 TAGTGTTATGGGTTTAAATATTTTAA
1 TAGGGTTATGGTTTTAAAT-TTTTAA
20038582 AGTTTAGGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 13
0.67 0.09 0.24
Matches are distributed among these distances:
22 12 0.33
23 5 0.14
25 4 0.11
27 5 0.14
28 5 0.14
29 5 0.14
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (28 bp):
TAGGGTTATGGTTTTAAATTTTTAAGGG
Found at i:20040320 original size:21 final size:21
Alignment explanation
Indices: 20040208--20040323 Score: 130
Period size: 21 Copynumber: 5.4 Consensus size: 21
20040198 TTTCTTTATT
*
20040208 TTTTTATAAAATTTTAAATGTA
1 TTTTT-TAAAATTTTAAATATA
* *
20040230 TATTTGAAAAGTTTTATAATATTA
1 TTTTTTAAAA-TTTTA-AATA-TA
20040254 TTTTTTAAAATTTTAAA-ATTA
1 TTTTTTAAAATTTTAAATA-TA
20040275 TTTTTTAAAA-TTTAAATAT-
1 TTTTTTAAAATTTTAAATATA
20040294 TATTTTTAAAATTTTAAATATA
1 T-TTTTTAAAATTTTAAATATA
20040316 TTTTTTAA
1 TTTTTTAA
20040324 TAAATAAAAC
Statistics
Matches: 82, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.01
20 16 0.20
21 35 0.43
22 12 0.15
23 8 0.10
24 10 0.12
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (21 bp):
TTTTTTAAAATTTTAAATATA
Found at i:20040452 original size:20 final size:20
Alignment explanation
Indices: 20040429--20040466 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20040419 TGTTTTTTTA
*
20040429 TTTTTT-AAATATTTTTAAT
1 TTTTTTAAAATATATTTAAT
20040448 TTTTTTAAAATATATTTAA
1 TTTTTTAAAATATATTTAA
20040467 AGATATGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAAAATATATTTAAT
Found at i:20040550 original size:118 final size:114
Alignment explanation
Indices: 20040338--20040586 Score: 331
Period size: 118 Copynumber: 2.1 Consensus size: 114
20040328 TAAAACATTT
**
20040338 AAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAATGTATATTT
1 AAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACATATATTT
** * * *
20040403 TAAATATTTTTTAATTTGTTTTTTTATTTTT-TAAATATTTTTAATTTTTTTA
66 TAAATATTTTTTAATTTGTAATATAATTTTTAT-AA-ATTATTAA--TTTTTA
* *
20040455 AAATATATTTAAAGATATGGCTTTTCAAATTTATTATTTGTTTTATAATATTTTAAACATATATT
1 AAATAT-TTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACATATATT
20040520 TTAAATATTTTTTAATTT-TAAATATAATTTTTATAAATTATTAATTTTTA
65 TTAAATATTTTTTAATTTGT-AATATAATTTTTATAAATTATTAATTTTTA
*
20040570 AATTATTTTTAAAGATA
1 AAATA-TTTTAAAGATA
20040587 CTAAAATATT
Statistics
Matches: 118, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
115 20 0.17
116 1 0.01
117 14 0.12
118 82 0.69
119 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (114 bp):
AAATATTTTAAAGATATGACCTTTCAAATTTATTATTTGTTTTATAATATTTTAAACATATATTT
TAAATATTTTTTAATTTGTAATATAATTTTTATAAATTATTAATTTTTA
Found at i:20040552 original size:30 final size:27
Alignment explanation
Indices: 20040504--20040582 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 27
20040494 GTTTTATAAT
* *
20040504 ATTTTAAACATATATTTTAAATATTTTTTA
1 ATTTTAAATATAT-TTTTAAA-A-TTATTA
20040534 ATTTTAAATATAATTTTTATAAATTATTA
1 ATTTTAAATAT-ATTTTTA-AAATTATTA
20040563 ATTTTTAAAT-TATTTTTAAA
1 A-TTTTAAATATATTTTTAAA
20040583 GATACTAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
27 2 0.05
28 7 0.16
29 7 0.16
30 24 0.55
31 4 0.09
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTTAAATATATTTTTAAAATTATTA
Found at i:20040571 original size:15 final size:15
Alignment explanation
Indices: 20040531--20040576 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
20040521 TAAATATTTT
20040531 TTAA-TTTTAAA-TA
1 TTAATTTTTAAATTA
20040544 -TAATTTTTATAAATTA
1 TTAA-TTTT-TAAATTA
20040560 TTAATTTTTAAATTA
1 TTAATTTTTAAATTA
20040575 TT
1 TT
20040577 TTTAAAGATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 3 0.11
14 3 0.11
15 13 0.46
16 6 0.21
17 3 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATTTTTAAATTA
Found at i:20045447 original size:25 final size:24
Alignment explanation
Indices: 20045411--20045553 Score: 96
Period size: 25 Copynumber: 5.8 Consensus size: 24
20045401 CTCTTTTATA
*
20045411 AGCTTCCTGATATATGGCTCTTTGG
1 AGCTTCCCGATATATGGCTCTTT-G
*
20045436 AGCTTCCCGATAT-TGGCTCGCTTG
1 AGCTTCCCGATATATGGCTC-TTTG
* *
20045460 AACTTCCCTAT-TATGGCTCTTATG
1 AGCTTCCCGATATATGGCTCTT-TG
* * * **
20045484 AGCTTCCTGTTATATAGCTCGAATG
1 AGCTTCCCGATATATGGCTC-TTTG
*
20045509 AGCTTCCC-ATTACATGGCTCATATT-
1 AGCTTCCCGA-TATATGGCTC-T-TTG
*
20045534 AGCTTCCCGTTATATGGCTC
1 AGCTTCCCGATATATGGCTC
20045554 GAGAGAGAGC
Statistics
Matches: 89, Mismatches: 21, Indels: 16
0.71 0.17 0.13
Matches are distributed among these distances:
23 2 0.02
24 31 0.35
25 55 0.62
26 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (24 bp):
AGCTTCCCGATATATGGCTCTTTG
Found at i:20045487 original size:48 final size:48
Alignment explanation
Indices: 20045423--20045555 Score: 144
Period size: 50 Copynumber: 2.7 Consensus size: 48
20045413 CTTCCTGATA
* **
20045423 TATGGCTCTT-TGGAGCTTCCCGATAT-TGGCTCGCTTGAACTTCCCTAT
1 TATGGCTCTTAT-GAGCTTCCCGTTATATGGCTCGAATGAACTTCCC-AT
* * *
20045471 TATGGCTCTTATGAGCTTCCTGTTATATAGCTCGAATGAGCTTCCCAT
1 TATGGCTCTTATGAGCTTCCCGTTATATGGCTCGAATGAACTTCCCAT
* *
20045519 TACATGGCTCATATTAGCTTCCCGTTATATGGCTCGA
1 T--ATGGCTCTTATGAGCTTCCCGTTATATGGCTCGA
20045556 GAGAGAGCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 25 0.35
49 16 0.23
50 30 0.42
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.37
Consensus pattern (48 bp):
TATGGCTCTTATGAGCTTCCCGTTATATGGCTCGAATGAACTTCCCAT
Found at i:20045489 original size:24 final size:23
Alignment explanation
Indices: 20045423--20045490 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
20045413 CTTCCTGATA
*
20045423 TATGGCTCTTTGGAGCTTCCCGA-
1 TATGGCTCTTT-GAGCTTCCCTAT
* *
20045446 TATTGGCTCGCTTGAACTTCCCTAT
1 TA-TGGCTC-TTTGAGCTTCCCTAT
20045471 TATGGCTCTTATGAGCTTCC
1 TATGGCTCTT-TGAGCTTCC
20045491 TGTTATATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.08
24 29 0.81
25 4 0.11
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (23 bp):
TATGGCTCTTTGAGCTTCCCTAT
Found at i:20052338 original size:256 final size:256
Alignment explanation
Indices: 20051959--20052986 Score: 965
Period size: 256 Copynumber: 4.0 Consensus size: 256
20051949 AAAACCGAAG
* * * * * *
20051959 AAAACCCTCTGTTGAAACCCA-TATGTAGTAGTGATGAA-TGAAGAGATTAAATAAGGGAT-AGT
1 AAAACCCTCTGTTG-AA-CCAGTCTCTAATAGGGATGAATTG-AGAGATTTAATTAGGGATGA-T
* * * * * * * * **
20052021 GATAGGATGCCAAGTCTTAAACTGTTTTACC-AGAAATAAATTATGAGCAGCCGCTTCTTCTCCT
62 GATCGGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTTGAGCAGCTACTTCTTCTCCT
* * * * *
20052085 CAAATACAAGTTGCAGATTTTGTTGGAGATGGAATCAAGTTTACTCTTTAATCGAAAGAGAAAGG
127 CAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAAG
* * * * *
20052150 GTTATCAT-AACCCTTAGAAAAAACCGTTTTCCAACT-TGGTTGAATGCAAAGCTTTGAAGATCC
192 GTTATC-TCAACCCTTAGAGAAATCCGATTTCCAACTCTGG-TGAATGGAAAGATTTGAAGATCC
20052213 AA
255 AA
* * *
20052215 AAAACCCTATGTTGAACCTGTCTCTAATAGGGATGAATTGAGAGATTTAATTAGGGATGATGGTC
1 AAAACCCTCTGTTGAACCAGTCTCTAATAGGGATGAATTGAGAGATTTAATTAGGGATGATGATC
* *
20052280 GGCTACCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTTGAGTAGCTACTTCTTCTCCTCAAA
66 GGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTTGAGCAGCTACTTCTTCTCCTCAAA
* *
20052345 TACAAGTTACAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATAGAAAGAGAAAAGGTTA
131 TACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAAGGTTA
*
20052410 TCTCAACCCTTTA-AGAAATCCAATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCC-A
196 TCTCAACCC-TTAGAGAAATCCGATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCCAA
* * * * * *
20052470 AGAACCCTCTGTTTATACCCA-TCTCTAATAGGGATAAATAGATAGATTTAATTAAGGATGATGA
1 AAAACCCTCTGTTGA-A-CCAGTCTCTAATAGGGATGAATTGAGAGATTTAATTAGGGATGATGA
* * * * * * ** *
20052534 TCGGCGGTCAAGTCTCAACTAGATTTT-CATACAAATAGA-TTCGAAGCTTCTACTTCTTCCCCT
64 TCGGCTGCCAAGTCTCAACCAGTTTTTCCA-AGAAATAGATTTTG-AGCAGCTACTTCTTCTCCT
* * * * * * *
20052597 CAAATACAAGTTGCAAATTTTGTTGGTGATGAAATCAAATTCATTTCTCAAT-AAAAGAGAAAAT
127 CAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAAG
* * * * * * * *
20052661 TTTATCTCAACCTTTTGAGAAATCTGATTTCCAAATCTCGTGAATGGAAAGGTTTGAATAT-CAA
192 GTTATCTCAACCCTTAGAGAAATCCGATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCCAA
* *
20052725 AGATAACCCTCTCTTGAAACCAGTCTCTAATGGGGATGAA-TGTAGAGATTTAATTAGGGATGAT
1 A-A-AACCCTCTGTTG-AACCAGTCTCTAATAGGGATGAATTG-AGAGATTTAATTAGGGATGAT
* ** * * *
20052789 GATCGGCTGCCAAGTCTAAACCAAG--TTGACAAGAAATAGATTCTGAGCGGCTACTTCTTTTCC
62 GATCGGCTGCCAAGTCTCAACC-AGTTTTTCCAAGAAATAGATTTTGAGCAGCTACTTCTTCTCC
* * * * * * *
20052852 TCATATACAACTAGCAGATTTTATTGGAGATGGAATCAAATTCACTCCTAAATCGAAAGAGAAAG
126 TCAAATACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAA
* * * ** * ** * * * *
20052917 GGTCATCTCAACACTTTA-AAAAATTTGTTTTAGAACTTTGGTGAATAGAAAGCTTTAAAGATCC
191 GGTTATCTCAAC-CCTTAGAGAAATCCGATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCC
20052981 AA
255 AA
20052983 AAAA
1 AAAA
20052987 AAAAATCCAA
Statistics
Matches: 629, Mismatches: 119, Indels: 48
0.79 0.15 0.06
Matches are distributed among these distances:
254 5 0.01
255 135 0.21
256 352 0.56
257 126 0.20
258 11 0.02
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (256 bp):
AAAACCCTCTGTTGAACCAGTCTCTAATAGGGATGAATTGAGAGATTTAATTAGGGATGATGATC
GGCTGCCAAGTCTCAACCAGTTTTTCCAAGAAATAGATTTTGAGCAGCTACTTCTTCTCCTCAAA
TACAAGTTGCAGATTTTGTTGGAGATGAAATCAAATTCACTCCTTAATCGAAAGAGAAAAGGTTA
TCTCAACCCTTAGAGAAATCCGATTTCCAACTCTGGTGAATGGAAAGATTTGAAGATCCAA
Found at i:20053073 original size:105 final size:105
Alignment explanation
Indices: 20052885--20053087 Score: 273
Period size: 105 Copynumber: 1.9 Consensus size: 105
20052875 TTGGAGATGG
* *
20052885 AATCAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATTTGTTTTAG
1 AATCAAATTCACTCCTAAATCGAAAGAGAAAGAGTCATCTCAACACTTTAAAAAATTTGTTTTAC
**
20052950 AACTTTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAAA
66 AACTCAGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAAA
* * * * * * *
20052990 AATCCAATTCACTCCTCAATCGAAAGAGAATA-AGTTATCTTAACCCTTTGAAAAATTTGTTTTC
1 AATCAAATTCACTCCTAAATCGAAAGAGAA-AGAGTCATCTCAACACTTTAAAAAATTTGTTTTA
* *
20053054 CAACTCAGGTGAATGGAAAGCTTTGAAGATCCAA
65 CAACTCAGGTGAATAGAAAGCTTTAAAGATCCAA
20053088 GATAACCCTA
Statistics
Matches: 84, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 83 0.99
106 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (105 bp):
AATCAAATTCACTCCTAAATCGAAAGAGAAAGAGTCATCTCAACACTTTAAAAAATTTGTTTTAC
AACTCAGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAAA
Found at i:20053323 original size:362 final size:361
Alignment explanation
Indices: 20052628--20053341 Score: 873
Period size: 362 Copynumber: 2.0 Consensus size: 361
20052618 GTTGGTGATG
* * * * *
20052628 AAATCAAATTCATTTCTCAATAAAAGAGAAAATTTTATCTCAACCTTTTGAGAAATCTGATTTCC
1 AAATCAAATTCACTCCTCAATAAAAGAGAAAATGTTATCTCAACCCTTTGAAAAATCTGATTTCC
* * * * *
20052693 AAATCTCGTGAATGGAAAGGTTTGAATATCAAAGATAACCCTCTCTTGAAACCAGTCTCTAATGG
66 AAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTGAAACCAGTCTCTAATAG
* * *
20052758 GGATGAATGTAGAGATTTAATTAGGGATGATGATCGGCTGCCAAGTCTAAACCAAGTTGACAAGA
131 GGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAAGTCTAAACCAAGTTGACAAGA
* * * * **
20052823 AATAGATTCTGAGCGGCTACTTCTTTTCCTCATATACAACTAGCAGATTTTATTGGAGATGGAAT
196 AATAGATTCTGAGCGGCTACTTCTTCTCCTAAAATACAAATAGCAGATTTTATTGGAGATAAAAT
* * *
20052888 CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATTTGTTTTAGAAC
261 CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATCTGATTTACAAC
*
20052953 TTTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
326 TCTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
* * * * *
20052989 AAATCCAATTCACTCCTCAATCGAAAGAGAATAA-GTTATCTTAACCCTTTGAAAAATTTGTTTT
1 AAATCAAATTCACTCCTCAAT-AAAAGAGAA-AATGTTATCTCAACCCTTTGAAAAATCTGATTT
* * * *
20053053 CCAACTCAGGTGAATGGAAAGCTTTGAAGATCCAAGATAACCCTATGTTG-AACACA-TCTCTAA
64 CCAAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTGAAAC-CAGTCTCTAA
* * **
20053116 TAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACT-ACAAGGTCTCAACCAATTTTTC
128 TAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAA-GTCTAAACCAA-GTTGA
* * * * *
20053180 CATGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGTA-ATTTTTTTTGGAGA
191 CAAGAAATAGATTCTGAGCGGCTACTTCTTCTCCTAAAATACAAATAGCAGA-TTTTATTGGAGA
* * * * * *
20053244 TAAAATCAATTTCACTCCTCAATTGAAAGAGGAAGGGTTATCTCAA-ACCTTTAAGAAATCTGAT
255 TAAAATCAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACA-CTTTAAAAAATCTGAT
* * *
20053308 TTCCAACTCTGGTGAATCGAAAGCTTTGAAGATC
319 TTACAACTCTGGTGAATAGAAAGCTTTAAAGATC
20053342 AAGGAAAACC
Statistics
Matches: 296, Mismatches: 50, Indels: 13
0.82 0.14 0.04
Matches are distributed among these distances:
360 3 0.01
361 79 0.27
362 212 0.72
363 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (361 bp):
AAATCAAATTCACTCCTCAATAAAAGAGAAAATGTTATCTCAACCCTTTGAAAAATCTGATTTCC
AAATCACGTGAATGGAAAGCTTTGAAGATCAAAGATAACCCTATCTTGAAACCAGTCTCTAATAG
GGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTGACAAGTCTAAACCAAGTTGACAAGA
AATAGATTCTGAGCGGCTACTTCTTCTCCTAAAATACAAATAGCAGATTTTATTGGAGATAAAAT
CAAATTCACTCCTAAATCGAAAGAGAAAGGGTCATCTCAACACTTTAAAAAATCTGATTTACAAC
TCTGGTGAATAGAAAGCTTTAAAGATCCAAAAAAAA
Found at i:20053540 original size:258 final size:257
Alignment explanation
Indices: 20052988--20053743 Score: 786
Period size: 258 Copynumber: 2.9 Consensus size: 257
20052978 TCCAAAAAAA
* * * * * *
20052988 AAAATCCAATTCACTCCTCAATCGAAAGAGAATA-AGTTATCTTAACCCTTTGAA-AAATTTGTT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAA-AGGGTTATCTCAAACCTTT-AAGAAATCTGAT
* * *
20053051 TTCCAACTCAGGTGAATGGAAAGCTTTGAAGATCCAAGATAACCCTATGTTG-AACACATCTCTA
64 TTCCAACTCTGGTGAATGGAAAGCTTTGAAGAT-CAAGAAAACCCTATGTTGAAACCCATCTCTA
* * * * **
20053115 ATAGGGATGAATGAAGAGATTTAATTAGGGATGATGATCGACTACAAGGTCTCAACCAATTTTTC
128 ATAGGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTACAAGGTCTCAACCAACTTGAC
* * * **
20053180 CATGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGTAATTTTTTTTGGAGAT
193 AAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTACTGGAGAT
* * *
20053245 AAAATCAATTTCACTCCTCAATTGAAAGAGGAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
* * * *
20053310 CCAACTCTGGTGAATCGAAAGCTTTGAAGATCAAGGAAAACCCTCTATTGAAACCCATATCTAAT
66 CCAACTCTGGTGAATGGAAAGCTTTGAAGATCAA-GAAAACCCTATGTTGAAACCCATCTCTAAT
* * *
20053375 AAAGG-TGAATGGAGAGATTTAATTAGGAATGATAATCGGCTACCAA-GTCTGC-ACTAACTTGA
130 -AGGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTA-CAAGGTCT-CAACCAACTTGA
* * * * *
20053437 CAAAGAAATGGATTTTGAGCT-GCTACTTCTTCTCGTAAAATACAAGTTGCAGA-TTTTACTGGT
192 CAAAGAAATAGATTCTGAG-TGGCTACTTCTTCTCCTAAAATACAAATTGCA-ATTTTTACTGGA
20053500 GAT
255 GAT
** * * * *
20053503 GTAATCAAATTCACTTCTTAATCGGAAGAGAAAGGGTTATCTC-AACACTTTGAGAAATCTGATT
1 AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAAC-CTTTAAGAAATCTGATT
* * *
20053567 TCCAACTCTGGTGAATGGAAAGCTTTGAAGATCTAAGAAAACCATATGTTGAAACCTATCTCTTA
65 TCCAACTCTGGTGAATGGAAAGCTTTGAAGATC-AAGAAAACCCTATGTTGAAACCCATCTCTAA
* * * * *
20053632 TAGGGAAGAATGGAGTGATTTAATTAGGTAAT-ATGATCGACTGTCAA-GTCTCAA-CAAGTTTG
129 TAGGGATGAATGGAGAGATTTAATTAGG-AATGATAATCGACT-ACAAGGTCTCAACCAA-CTTG
* * * * *
20053694 AC-AAGAAATAGATTCTAAGCGGCTATTTTTTATCCTCAAAA-AC-AATTGCA
191 ACAAAGAAATAGATTCTGAGTGGCTACTTCTTCTCCT-AAAATACAAATTGCA
20053744 TATTGTAACA
Statistics
Matches: 413, Mismatches: 68, Indels: 37
0.80 0.13 0.07
Matches are distributed among these distances:
256 12 0.03
257 128 0.31
258 259 0.63
259 14 0.03
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (257 bp):
AAAATCAAATTCACTCCTCAATCGAAAGAGAAAGGGTTATCTCAAACCTTTAAGAAATCTGATTT
CCAACTCTGGTGAATGGAAAGCTTTGAAGATCAAGAAAACCCTATGTTGAAACCCATCTCTAATA
GGGATGAATGGAGAGATTTAATTAGGAATGATAATCGACTACAAGGTCTCAACCAACTTGACAAA
GAAATAGATTCTGAGTGGCTACTTCTTCTCCTAAAATACAAATTGCAATTTTTACTGGAGAT
Found at i:20057774 original size:258 final size:259
Alignment explanation
Indices: 20056864--20057805 Score: 865
Period size: 258 Copynumber: 3.7 Consensus size: 259
20056854 AGAGGTTACA
* * * * *
20056864 CAGATTTTATTTGAGATTGAATAAAATTCACACCAT-AATCAAAAGAGAAAAGGGTTATCTCAAC
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCC-TCAATCAAAAGACAAAAGGGTTATCTCAAC
* * * * * * * * * * *
20056928 CCTTTGAAAAATCCATTTTCCAACTTCGATGAATGTAAAGTTTTGAAGATC-CAAAAACACCCTT
65 CTTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGCTTTGAAGTTCTAAAAAAAACCCTC
* ** * * ** *
20056992 TGTCG-AATTTCGTCTCTAATAGGGATGAATGGAGAGATTTTACTAGGGATTATGACCGACTGTC
130 TGTTGAAACCT-ATCTCTAATAGGGATGAATGGAGAGA-TTTAATAGGGAAGATGATCGACTGTC
* * ** *
20057056 AAGTCTTAACCAATTTTTCCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCTAATACA-AG
193 AAGTCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAGA-
20057120 TTG
257 TTG
* * *
20057123 CAGATTTTGTTAGAGATTGAATCAAATTCACTCCTCAATCGAAAA-A-GAAAGGGTTATCTCAAT
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATC-AAAAGACAAAAGGGTTATCTCAAC
* * * *
20057186 CTTTTGAGAAATCCAATTACCAACTCCGGTGAATGGAAA-CTTTTGAAG--ATACAAGAAAACTC
65 CTTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGC-TTTGAAGTTCTA-AAAAAAACCC
* * * * * * * **
20057248 TTTCTTGAACCCCATATCTAATAGGGATGAATAGAGAGATTTAATACGGAATGATGATCGACTAC
128 TCTGTTGAAACCTATCTCTAATAGGGATGAATGGAGAGATTTAATAGGGAA-GATGATCGACTGT
* * * *
20057313 CAAGTCTCAACTAGCTTAACCAAGAAATAGATTATGAGCTGCTACTTATTCTCCTAAAATACATG
192 CAAGTCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACA-G
20057378 -TTG
256 ATTG
* * * **
20057381 CAGATCTTGTTGGTGATAGAATCAAATTCACTCCTCCCTCAAAAGACAAAA-GGTTATCTCAA-C
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGACAAAAGGGTTATCTCAACC
* * * * * **
20057444 TCTTTAAGAAATTCAATTTCCAACTCCAGTGAATGGAAATCTTTGATAATT-T-AAGCAAACCCT
66 T-TTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGCTTTGA-AGTTCTAAAAAAAACCCT
* * * * * *
20057507 CTATTGAAACCTGTCTCAAATAGGGATTAATTGAGAGATTTAATTAGGGAAGATGATC-AGTTGT
129 CTGTTGAAACCTATCTCTAATAGGGATGAATGGAGAGATTTAA-TAGGGAAGATGATCGA-CTGT
* * * * * * ** * *
20057571 GAGGTCTCAACCAGTTTGACTAAGAAATATATTTTGAACTAATACTTCTTCTCTTCAAATACAGA
192 CAAGTCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAGA
20057636 TTG
257 TTG
* * **
20057639 CAG-TTTTTTTGGAGATTGAATCAAATTCACTCCTTAATTGAAAGA-AAAAGGGTTATCTCAACC
1 CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGACAAAAGGGTTATCTCAACC
* * *
20057702 TTTTGAGAAATCTAATTTCCAACTCCGGTGAATAGAAAGCTTTGAAGTTCTAAAAAAAACCATCT
66 TTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGCTTTGAAGTTCTAAAAAAAACCCTCT
** *
20057767 GTTGAAACCTATCTCTAATATCGATAAATGGAGAGATTT
131 GTTGAAACCTATCTCTAATAGGGATGAATGGAGAGATTT
20057806 GAAGATCCAG
Statistics
Matches: 549, Mismatches: 111, Indels: 47
0.78 0.16 0.07
Matches are distributed among these distances:
256 7 0.01
257 100 0.18
258 390 0.71
259 47 0.09
260 5 0.01
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (259 bp):
CAGATTTTGTTGGAGATTGAATCAAATTCACTCCTCAATCAAAAGACAAAAGGGTTATCTCAACC
TTTTGAGAAATCCAATTTCCAACTCCGGTGAATGGAAAGCTTTGAAGTTCTAAAAAAAACCCTCT
GTTGAAACCTATCTCTAATAGGGATGAATGGAGAGATTTAATAGGGAAGATGATCGACTGTCAAG
TCTCAACCAGTTTAACCAAGAAATAGATTTTGAGCTGCTACTTATTCTCCTCAAATACAGATTG
Found at i:20058116 original size:317 final size:317
Alignment explanation
Indices: 20057539--20058122 Score: 694
Period size: 317 Copynumber: 1.8 Consensus size: 317
20057529 GGGATTAATT
* * * *
20057539 GAGAGATTTAATTAGGGAAGATGATCAGTTGTGAGGTCTCAACCAGTTTGACTAAGAAATATATT
1 GAGAGATTTAATTAGGGAAGATGATCAGCTGTGAAGTCTCAACCAGTTTGACCAAGAAATAGATT
* * * * *
20057604 TTGAACTAATACTTCTTCTCTTCAAATACAGATTGCAGTTTTTTTGGAGATTGAATCAAATTCAC
66 CTGAACTAATACTTCTTCTCTTCAAATACAGATTGCAGTGTTATTAGAGATGGAATCAAATTCAC
* * * * * * *
20057669 TCCTTAATTGAAAGAAAAAGGGTTATCTCAACCTTTTGAGAAATCTAATTTCCAACTCCGGTGAA
131 TCCTCAATTGAAAGAAAAAGGGTTACCTCAACCCTTTGAGAAATCCAATCTCCAAATCCGATGAA
* ** * *
20057734 TAGAAAGCTTTGAAGTTCTAAAAAAAACCATCTGTTGAAACCTATCTCTAATATCGATAAATGGA
196 TAGAAAGCTTTAAAAATCTAAAAAAAACCATCTATTGAAACATATCTCTAATATCGATAAATGGA
20057799 GAGATTTGAAGATCCAGGAAAACCATATGTTGAATTCGTCTCTAGTAGGAAGGAATG
261 GAGATTTGAAGATCCAGGAAAACCATATGTTGAATTCGTCTCTAGTAGGAAGGAATG
* * * *
20057856 GAGAGATTTGATTAGGGATGATGATCGGCTGCT-AAGTCTCAACCAGTTTGTCCAAGAAATAGAT
1 GAGAGATTTAATTAGGGAAGATGATCAGCTG-TGAAGTCTCAACCAGTTTGACCAAGAAATAGAT
** ** * *
20057920 TCTGAGTTGTTTCTTCTTCT-TCTCAAATACA-AGTTGCAGATGTTATTATAGATGGAATCAAAT
65 TCTGAACTAATACTTCTTCTCT-TCAAATACAGA-TTGCAG-TGTTATTAGAGATGGAATCAAAT
* * * *
20057983 TCATTCCTCAATTGAAATAGAAAA-GGTTACCTCAACCCTTTGAGAAATCCAATCTCTAAATCTG
127 TCACTCCTCAATTGAAAGA-AAAAGGGTTACCTCAACCCTTTGAGAAATCCAATCTCCAAATCCG
* * * * * * *
20058047 ATGAAT-GATAAGGTTTAAAAATC-CAAGAAAACCCTCTATTGAAACATGTCTCTAATATGGATG
191 ATGAATAGA-AAGCTTTAAAAATCTAAAAAAAACCATCTATTGAAACATATCTCTAATATCGATA
20058110 AATGGAGAGATTT
255 AATGGAGAGATTT
20058123 AGTTAGGGGT
Statistics
Matches: 219, Mismatches: 42, Indels: 12
0.80 0.15 0.04
Matches are distributed among these distances:
316 2 0.01
317 130 0.59
318 83 0.38
319 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (317 bp):
GAGAGATTTAATTAGGGAAGATGATCAGCTGTGAAGTCTCAACCAGTTTGACCAAGAAATAGATT
CTGAACTAATACTTCTTCTCTTCAAATACAGATTGCAGTGTTATTAGAGATGGAATCAAATTCAC
TCCTCAATTGAAAGAAAAAGGGTTACCTCAACCCTTTGAGAAATCCAATCTCCAAATCCGATGAA
TAGAAAGCTTTAAAAATCTAAAAAAAACCATCTATTGAAACATATCTCTAATATCGATAAATGGA
GAGATTTGAAGATCCAGGAAAACCATATGTTGAATTCGTCTCTAGTAGGAAGGAATG
Found at i:20058343 original size:258 final size:258
Alignment explanation
Indices: 20057836--20058368 Score: 666
Period size: 258 Copynumber: 2.1 Consensus size: 258
20057826 TGTTGAATTC
* * * * * *
20057836 GTCTCTAGTAGGAAGGAATGGAGAGATTTGATTAGGGATGATGATCGGCTGCTAAGTCTCAACCA
1 GTCTCTAATAGGGATGAATGGAGAGATTTGATTAGGGATGATGATCAGCTGCCAAGTCTCAAACA
* *
20057901 GTTTGTCCAAGAAATAGATTCTGAGTTGTTTCTTCTTCTTCTCAAATACAAGTTGCAGATGTTAT
66 GTTTGACCAAGAAATAGATTCTGAGTTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATGTTAT
* * *
20057966 TATAGATGGAATCAAATTCATTCCTCAATTGAAATAGAAAAGGTTACCTCAACCCTTTGAGAAAT
131 TAGAGATGGAATCAAATTCACTCCTCAATTGAAAGAGAAAAGGTTACCTCAACCCTTTGAGAAAT
* *
20058031 CCAATCTCTAAATCTGATGAATGATAAGGTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
196 CCAATCTCTAAATCTGATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
* * * * *
20058094 GTCTCTAATATGGATGAATGGAGAGATTT-AGTTAGGGGTGATGATCAGTTTCCAATTCTCAAAC
1 GTCTCTAATAGGGATGAATGGAGAGATTTGA-TTAGGGATGATGATCAGCTGCCAAGTCTCAAAC
* *
20058158 AGTTTGACCAAGAAATAGATTCTGAGCTT-TTACTTCTTCTTCTCAAATACAAGTTGTAGATTTT
65 AGTTTGACCAAGAAATAGATTCTGAG-TTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATGTT
* * * *
20058222 GTTAGAGATGGGATTCAAATTCACTCCTTAATTGAAAGAG-AAAGTGTTATCTCAACCCTTTGA-
129 ATTAGAGAT-GGAATCAAATTCACTCCTCAATTGAAAGAGAAAAG-GTTACCTCAACCCTTTGAG
* * * * * *
20058285 AAGTTCCATTTTC-AAA-CTTCGATGAATGAAAAGCTTTGAATATCTAAGAAAA-CCTCTATTGA
192 AA-ATCCAATCTCTAAATC-T-GATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGA
*
20058347 AACTT
254 AACAT
*
20058352 GTCTTTAATAGGGATGA
1 GTCTCTAATAGGGATGA
20058369 TGATCGGCTA
Statistics
Matches: 235, Mismatches: 33, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
257 2 0.01
258 154 0.66
259 79 0.34
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (258 bp):
GTCTCTAATAGGGATGAATGGAGAGATTTGATTAGGGATGATGATCAGCTGCCAAGTCTCAAACA
GTTTGACCAAGAAATAGATTCTGAGTTGTTACTTCTTCTTCTCAAATACAAGTTGCAGATGTTAT
TAGAGATGGAATCAAATTCACTCCTCAATTGAAAGAGAAAAGGTTACCTCAACCCTTTGAGAAAT
CCAATCTCTAAATCTGATGAATGAAAAGCTTTAAAAATCCAAGAAAACCCTCTATTGAAACAT
Found at i:20058839 original size:6 final size:6
Alignment explanation
Indices: 20058828--20058896 Score: 57
Period size: 6 Copynumber: 11.5 Consensus size: 6
20058818 TGGCTTTTTG
* * * * * *
20058828 TTCTTC TTCTTC ATCTTC CTCTTT TTCCTC TTTTTC CTCTTC TTCTTC
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
* * *
20058876 TCCCTC TTTTTC TTCTTC TTC
1 TTCTTC TTCTTC TTCTTC TTC
20058897 ATCATCATCA
Statistics
Matches: 46, Mismatches: 17, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.01, C:0.36, G:0.00, T:0.62
Consensus pattern (6 bp):
TTCTTC
Found at i:20058868 original size:24 final size:24
Alignment explanation
Indices: 20058832--20058893 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
20058822 TTTTTGTTCT
* * *
20058832 TCTTCTTCATCTTCCTCTTTTTCC
1 TCTTTTTCATCTTCCTCTTCTCCC
* *
20058856 TCTTTTTCCTCTTCTTCTTCTCCC
1 TCTTTTTCATCTTCCTCTTCTCCC
*
20058880 TCTTTTTCTTCTTC
1 TCTTTTTCATCTTC
20058894 TTCATCATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.02, C:0.37, G:0.00, T:0.61
Consensus pattern (24 bp):
TCTTTTTCATCTTCCTCTTCTCCC
Found at i:20058890 original size:18 final size:18
Alignment explanation
Indices: 20058829--20058896 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
20058819 GGCTTTTTGT
* *
20058829 TCTTCTTCTTCATCTTCC
1 TCTTTTTCTTCTTCTTCC
* *
20058847 TCTTTTTCCTCTTTTTCC
1 TCTTTTTCTTCTTCTTCC
*
20058865 TC---TTCTTCTTCTCCC
1 TCTTTTTCTTCTTCTTCC
20058880 TCTTTTTCTTCTTCTTC
1 TCTTTTTCTTCTTCTTC
20058897 ATCATCATCA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
15 12 0.31
18 27 0.69
ACGTcount: A:0.01, C:0.37, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTTTTTCTTCTTCTTCC
Found at i:20058892 original size:9 final size:9
Alignment explanation
Indices: 20058829--20058872 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
20058819 GGCTTTTTGT
*
20058829 TCTTCTTCT
1 TCTTCTTCC
*
20058838 TCATCTTCC
1 TCTTCTTCC
*
20058847 TCTTTTTCC
1 TCTTCTTCC
*
20058856 TCTTTTTCC
1 TCTTCTTCC
20058865 TCTTCTTC
1 TCTTCTTC
20058873 TTCTCCCTCT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.02, C:0.36, G:0.00, T:0.61
Consensus pattern (9 bp):
TCTTCTTCC
Found at i:20058986 original size:3 final size:3
Alignment explanation
Indices: 20058895--20058968 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
20058885 TTCTTCTTCT
20058895 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
20058943 TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TC
20058969 TTCTTCTTCT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:20059101 original size:3 final size:3
Alignment explanation
Indices: 20059093--20059143 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
20059083 NNNNNNNNNN
20059093 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
20059141 CTT
1 CTT
20059144 TTCGTGTAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:20061790 original size:20 final size:21
Alignment explanation
Indices: 20061752--20061790 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
20061742 TTTATGGTTT
*
20061752 TAAATAATTTTTGGGTAAAAA
1 TAAATAATTTTAGGGTAAAAA
*
20061773 TAAAT-ATTTTAGGTTAAA
1 TAAATAATTTTAGGGTAAA
20061791 TTGAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (21 bp):
TAAATAATTTTAGGGTAAAAA
Found at i:20071199 original size:528 final size:524
Alignment explanation
Indices: 20070195--20071789 Score: 2164
Period size: 528 Copynumber: 3.0 Consensus size: 524
20070185 CCAAGCCTTA
* * * * *
20070195 AGGGGGAATCGCAAATGTAGTACATGTATAGGTCAATCTATTTTGAAGGAAAAATTGAAGGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
* * * * * *
20070260 TTTGGTTGTAACAATGCTATTTGGAAGAGGAAATATGGAGAAGGTGGACGAA-AGACTCATTGTG
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGA-ACTCTTTTTA
* * *
20070324 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATATCAAG-AAAAGGCAATGCCTACC
130 GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACC
* * * * *
20070388 TCAAATGTCAAATCCCAATTATGTTTACCTTTGATTTGATACAAATTGCCTTGATATTTCTTCAA
195 TCAAGTGTC-AATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAA
* * * *
20070453 ATACAAAGCGTTGCGATGCCCCTAGTCTTGTTCTCAAGGCTGCTATTAGCACTTCACTTTGACAT
259 ATACAAAGCGTTGTGATG-CCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACAT
* * *
20070518 TCCTTATACCTTTTGGTAGCATTTGTTGCTTTCTCGAACAGGTTTCGGCACATATGGGAAGGGTT
323 TGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAA-GGTT
* * *
20070583 TTCTTTTGAATCATTTGTTTATATTATTATAGACTTGAAACTAACCTTACCCTCTTAAGCAATGA
387 TTCTTTTGAATCATTTG-TTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGA
* * * * *
20070648 TGTATCTAGAACATTGGGCTTTTGAAATTCTTATCTTGCTACCAGGATTGAAGCCAAATTTATAA
451 TGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAA
20070713 ATAACTTTG
516 ATAACTTTG
* ** *
20070722 AGGGGGAATCGTAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGGTAATTTGAAAGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
* *
20070787 TTTGGTTGTAACAATGTTATTTCGTAGTGGAAATAGGGAGAAGGTGGACGAAGAACTCTTTTTAG
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGAACTCTTTTTAG
* *
20070852 CTAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTTGATGCCTACCT
131 CCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACCT
20070917 CAAGTGTCGAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAA
196 CAAGTGTC-AATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAA
*
20070982 TACAAAGCGTTGTGATGTCCCTAGTCTTGTTCTCAAAGCTGCCATTGGTACTTCACTTTGACATT
260 TACAAAGCGTTGTGATG-CCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACATT
* * **
20071047 GCTTATACCTTTTGGTAGCCTTTGCTGCTTTCTCTAACAAGTTTCGGCACATATATGAATGGTTT
324 GCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAA-GGTTT
* *
20071112 TCTTTTAAATCATTTAGTTATATTATTACAGACTTGAAATTAGCCTTACCCTTTTAAGCAATGAT
388 TCTTTTGAATCATTT-GTTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGAT
* * *
20071177 GTGTCTAGAATATTGAGCTTTTGAAATTCTTGTTTTGCTGCCAGGATTGATGCCAAAATTATAAA
452 GTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAAA
20071242 TAACTTTG
517 TAACTTTG
* * *
20071250 AGGGGGAATCACAAATGCAATACGTGTATAGGTCAATCTTTTTCGAAGGACAATTTGAAGGAATA
1 AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
*
20071315 TTTGGTTGTAACAATGTTATTTCGAAGTGAAAATATGGAGAAGGTGGACGAAAGACTCATTGTAA
66 TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGAC----GA---A--G-AA
* * * *
20071380 CCAAGCTAATATTAATATTTCCCAAGCTAATATTAATATTTCTTCATCAACAGCTTGATATTTCA
121 -C--TCT--T-TT--TA---GCCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCA
* *
20071445 AGAAAAAGGTCGATGCGTACCTTAAGTGTCAAGTCCCAGTTATG--T---TTTGGTTTGATACAA
175 AGAAAAA-GTCGATGCCTACCTCAAGTGTCAA-TCCCAGTTATGTTTACCTTTGGTTTGATACAA
* * * *
20071505 ATCGTCTTGATATTTCTTCAAATACAAAGTGTTGTGATGCACCTAGTCTTCTTCTCAAGGTTGCC
238 ATAGTCTTGATATTTCTTCAAATACAAAGCGTTGTGATGC-CCTAGTCTTGTTCTCAAGGCTGCC
* * *
20071570 ATTGGTACTTTACTTTGACATTGCGTATACCTTTCGGTAGCCTTTGTTGCTTTCTCGAACAAGTT
302 ATTGGTACTTCACTTTGACATTGCTTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTT
*
20071635 TCGGCACATATGGGAAGGATTTTC--TTGAGTCATTTTGTTATATTATTACAGACTTGAAATTAG
367 TCGGCACATATGGGAAGG-TTTTCTTTTGAATCA-TTTGTTATATTATTACAGACTTGAAATTAG
* *
20071698 CCTTACCCTCTTAAGAAATAATGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCA
430 CCTTACCCTCTTAAGCAATGATGTGTCTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCA
20071763 GGATTGATGCCAAATTTATAAATAACT
495 GGATTGATGCCAAATTTATAAATAACT
20071790 ACTTCGTTGG
Statistics
Matches: 947, Mismatches: 92, Indels: 42
0.88 0.09 0.04
Matches are distributed among these distances:
527 155 0.16
528 419 0.44
529 1 0.00
532 2 0.00
535 1 0.00
537 1 0.00
538 2 0.00
539 1 0.00
541 2 0.00
543 120 0.13
544 8 0.01
545 152 0.16
546 2 0.00
548 1 0.00
549 50 0.05
550 30 0.03
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (524 bp):
AGGGGGAATCGCAAATGCAATACGTGTATAGGTCAATCTATTTCGAAGGAAAATTTGAAGGAATA
TTTGGTTGTAACAATGTTATTTCGAAGTGGAAATATGGAGAAGGTGGACGAAGAACTCTTTTTAG
CCAAGCTAATATTAATATTGCTTCATCAACAGCCTGATATTTCAAGAAAAAGTCGATGCCTACCT
CAAGTGTCAATCCCAGTTATGTTTACCTTTGGTTTGATACAAATAGTCTTGATATTTCTTCAAAT
ACAAAGCGTTGTGATGCCCTAGTCTTGTTCTCAAGGCTGCCATTGGTACTTCACTTTGACATTGC
TTATACCTTTTGGTAGCCTTTGTTGCTTTCTCGAACAAGTTTCGGCACATATGGGAAGGTTTTCT
TTTGAATCATTTGTTATATTATTACAGACTTGAAATTAGCCTTACCCTCTTAAGCAATGATGTGT
CTAGAATATTGAGCTTTTGAAATTCTTGTCTTGCTACCAGGATTGATGCCAAATTTATAAATAAC
TTTG
Found at i:20071434 original size:27 final size:21
Alignment explanation
Indices: 20071380--20071421 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20071370 CTCATTGTAA
20071380 CCAAGCTAATATTAATATTTC
1 CCAAGCTAATATTAATATTTC
20071401 CCAAGCTAATATTAATATTTC
1 CCAAGCTAATATTAATATTTC
20071422 TTCATCAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
CCAAGCTAATATTAATATTTC
Found at i:20073340 original size:17 final size:17
Alignment explanation
Indices: 20073318--20073355 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
20073308 TCATAATAGT
20073318 TTTAAAAAATA-AAAATA
1 TTTAAAAAATACAAAA-A
*
20073335 TTTAAAATATACAAAAA
1 TTTAAAAAATACAAAAA
20073352 TTTA
1 TTTA
20073356 TTAACATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
TTTAAAAAATACAAAAA
Done.