Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 61 of 235
Found at i:20815333 original size:15 final size:15
Alignment explanation
Indices: 20815313--20815361 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
20815303 AATGGCCGAT
*
20815313 GTGATGAATGTGAAC
1 GTGATGAATGTGAAA
*
20815328 GTGATGGATGTGAAA
1 GTGATGAATGTGAAA
*
20815343 GTGTATAAATGTGATAA
1 GTG-ATGAATGTGA-AA
20815360 GT
1 GT
20815362 CCCGAAGGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 16 0.57
16 8 0.29
17 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.33, T:0.31
Consensus pattern (15 bp):
GTGATGAATGTGAAA
Found at i:20815535 original size:37 final size:37
Alignment explanation
Indices: 20815479--20815557 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20815469 CCGAGCTCTA
* * *
20815479 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
20815516 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
20815553 AAGAC
1 AAGAC
20815558 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:20820152 original size:47 final size:45
Alignment explanation
Indices: 20820054--20820177 Score: 169
Period size: 47 Copynumber: 2.7 Consensus size: 45
20820044 CATCTGTGTT
*
20820054 GATGCCATGTCCCAGACA-GGTCTTACACTAACACATGTCAAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCAAGCC
* * ** *
20820098 GATGCCATGTCCCAAACATGGCCTTACACTGGCTTACATCTCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAAC--ACATCTCAAGCC
20820145 GATGCCATGTCCCAGACATGGTCTTACACTAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAAC
20820178 TATCATCATC
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 17 0.25
45 11 0.16
47 39 0.58
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (45 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCAAGCC
Found at i:20822499 original size:37 final size:34
Alignment explanation
Indices: 20822449--20822520 Score: 81
Period size: 37 Copynumber: 2.0 Consensus size: 34
20822439 AATGTGCCGT
* *
20822449 TTTTTCTGACCATCTTTCCTCCTCCTCCTTTCTTTTC
1 TTTTTCTCACCATC-TACCTCCTCCT-C-TTCTTTTC
* *
20822486 TTTTTCTCTCCATCTACCTTCTCCTCTTCTTTTC
1 TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
20822520 T
1 T
20822521 CCATAGTCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 9 0.29
35 1 0.03
36 9 0.29
37 12 0.39
ACGTcount: A:0.06, C:0.38, G:0.01, T:0.56
Consensus pattern (34 bp):
TTTTTCTCACCATCTACCTCCTCCTCTTCTTTTC
Found at i:20823518 original size:31 final size:31
Alignment explanation
Indices: 20823469--20823585 Score: 157
Period size: 31 Copynumber: 3.8 Consensus size: 31
20823459 TCAAGCTCAG
*
20823469 CATAT-ACTGGGCCAAAGCCTTTACATTATC
1 CATATCACTGGGCCAAAGCCTTTACATTATT
* **
20823499 CATGTCACTGGGCTGAAGCCTTTTA-ATTATT
1 CATATCACTGGGCCAAAGCC-TTTACATTATT
* *
20823530 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCAAAGCCTTTACATTATT
20823561 CATATCACTGGGCCAAAGCCTTTAC
1 CATATCACTGGGCCAAAGCCTTTAC
20823586 TGTAAACGGT
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.09
31 64 0.85
32 4 0.05
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCAAAGCCTTTACATTATT
Found at i:20823842 original size:25 final size:25
Alignment explanation
Indices: 20823809--20823873 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
20823799 TTAATAATTG
*
20823809 GGGCAAAGCCCTTTTTGATAAACTA
1 GGGCAAAGCCCTTTTCGATAAACTA
* *
20823834 GGGCAAAGCCCTTTTCGGTAAACTG
1 GGGCAAAGCCCTTTTCGATAAACTA
*
20823859 GGGCATAGCCCTTTT
1 GGGCAAAGCCCTTTT
20823874 AGCACTTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGATAAACTA
Found at i:20824111 original size:18 final size:18
Alignment explanation
Indices: 20824088--20824123 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20824078 TAATTTTACC
20824088 CCACAAAGGTATCTCGGT
1 CCACAAAGGTATCTCGGT
*
20824106 CCACAAGGGTATCTCGGT
1 CCACAAAGGTATCTCGGT
20824124 AATTCTACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (18 bp):
CCACAAAGGTATCTCGGT
Found at i:20824152 original size:27 final size:27
Alignment explanation
Indices: 20824112--20824169 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
20824102 CGGTCCACAA
* *
20824112 GGGTATCTCGGTAATTCTACCCTATAG
1 GGGTATCTCAGTAATTCTACCCTACAG
*
20824139 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATCTCAGTAATTCTACCCTACAG
20824166 GGGT
1 GGGT
20824170 TGTAATAGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (27 bp):
GGGTATCTCAGTAATTCTACCCTACAG
Found at i:20826147 original size:31 final size:30
Alignment explanation
Indices: 20826031--20826149 Score: 123
Period size: 31 Copynumber: 3.8 Consensus size: 30
20826021 ACAAATGACA
* *
20826031 AGTGAAAAGTAGTAGCTTCTGCTACCTGAT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGAT
* * *
20826061 AGATAAAAAAATGGTAGCTTCGGCAACCTGATT
1 AG-T-GAAAAGTGGTAGCTTCGGCTACCTGA-T
*
20826094 AGTGAAAAGTGGTAG-TACCGGCTACCTGAT
1 AGTGAAAAGTGGTAGCT-TCGGCTACCTGAT
*
20826124 CAGTGAATAGTGGTAGCTTCGGCTAC
1 -AGTGAAAAGTGGTAGCTTCGGCTAC
20826150 AAGTGACAAG
Statistics
Matches: 72, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
30 4 0.06
31 42 0.58
32 23 0.32
33 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (30 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGAT
Found at i:20826319 original size:49 final size:48
Alignment explanation
Indices: 20826249--20826354 Score: 158
Period size: 49 Copynumber: 2.2 Consensus size: 48
20826239 GCATTAGTCA
* *
20826249 GATATGTGATTCGTGTAAGACCATAGCAGGGCTATGGCATCGATATGT
1 GATATGTGATTCGTGTAAGACCATAGCAGGGCTATGGCATCGAGATAT
**
20826297 GATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGAGATAT
1 GATATGTGATT-CGTGTAAGACCATAGCAGGGCTATGGCATCGAGATAT
20826346 GAATATGTG
1 G-ATATGTG
20826355 TAAGACCATA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
48 11 0.21
49 34 0.65
50 7 0.13
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.30
Consensus pattern (48 bp):
GATATGTGATTCGTGTAAGACCATAGCAGGGCTATGGCATCGAGATAT
Found at i:20826358 original size:42 final size:42
Alignment explanation
Indices: 20826310--20826423 Score: 140
Period size: 42 Copynumber: 2.7 Consensus size: 42
20826300 ATGTGATTAC
*
20826310 GTGTAAGACCATAGTTGGGCTATGGCATCGA-GATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATC-ATGATATGAAGAT
* * * * *
20826352 GTGTAAGACCATAGCTGGGCTATAGAATCATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCATGATATGAAGAT
**
20826394 GTGTAAGACCATAGTTGAACTATGGCATCA
1 GTGTAAGACCATAGTTGGGCTATGGCATCA
20826424 AGAAAATGAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCATGATATGAAGAT
Found at i:20827259 original size:27 final size:27
Alignment explanation
Indices: 20827228--20827323 Score: 158
Period size: 27 Copynumber: 3.6 Consensus size: 27
20827218 GTAAGGGGTG
20827228 TTACAGGGGTATTTCGGTAATTCTACC
1 TTACAGGGGTATTTCGGTAATTCTACC
20827255 TTACAGGGGTATTTCGGTAATTCTACC
1 TTACAGGGGTATTTCGGTAATTCTACC
* *
20827282 TTATAGGGGTATTTTGGTAATTCTACC
1 TTACAGGGGTATTTCGGTAATTCTACC
*
20827309 CTACA-GGGTATTTCG
1 TTACAGGGGTATTTCG
20827324 ATATTTTACA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
26 9 0.14
27 55 0.86
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.39
Consensus pattern (27 bp):
TTACAGGGGTATTTCGGTAATTCTACC
Found at i:20827363 original size:27 final size:27
Alignment explanation
Indices: 20827312--20827411 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
20827302 TTCTACCCTA
*
20827312 CAGG-GTATTTCGAT-ATTTTACAAAT
1 CAGGAGTATTTTGATAATTTTACAAAT
*
20827337 C-GAGAGTATTTTGATAATTTCACAAAT
1 CAG-GAGTATTTTGATAATTTTACAAAT
* * **
20827364 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGAGTATTTTGATAATTTTACAAAT
* *
20827391 CAGGGGTATTTTGGTAATTTT
1 CAGGAGTATTTTGATAATTTT
20827412 GTAAACCAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
24 1 0.02
25 2 0.03
26 9 0.14
27 51 0.80
28 1 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGGAGTATTTTGATAATTTTACAAAT
Found at i:20827424 original size:27 final size:27
Alignment explanation
Indices: 20827367--20827470 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 27
20827357 CACAAATCAG
* ** * *
20827367 GGGTATTTTGGTAATTTTACAAGCCAG
1 GGGTATTTCGGTAATTTTGTAAACCAA
*
20827394 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCGGTAATTTTGTAAACCAA
** *
20827421 GGGTATTTCAATAATTTTGTAAATCAA
1 GGGTATTTCGGTAATTTTGTAAACCAA
* ***
20827448 AGGTAAAACGGTAATTTTGTAAA
1 GGGTATTTCGGTAATTTTGTAAA
20827471 TCGAGAGTAA
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGTAAACCAA
Found at i:20827489 original size:81 final size:80
Alignment explanation
Indices: 20827403--20827668 Score: 284
Period size: 81 Copynumber: 3.3 Consensus size: 80
20827393 GGGGTATTTT
* ** * *
20827403 GGTAATTTTGTAAACCAAGGGTATTTCAATAATTTTGTAAATCAAAGGTAAAACGGTAATTTTGT
1 GGTAATTCTGTAAACCAAGGGTAAATCAATAATTTTGTAAATCGAGGGTAAAACGGTAATTTT-T
*
20827468 AAATCGAGAGTAAAAC
65 AAATCGAGGGTAAAAC
* * ** *
20827484 AGTAATTCTGTAAATCGAA-GGTAAAATGGA-AATTTTGTAAATCGAGGGTAAAATGGTAATTCT
1 GGTAATTCTGTAAA-CCAAGGGT-AAATCAATAATTTTGTAAATCGAGGGTAAAACGGTAATT-T
*
20827547 ATAAATCGAGGGTAAAAC
63 TTAAATCGAGGGTAAAAC
* * * * **
20827565 GGTAATTCTGTAAACCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAACAATAATTCTTT
1 GGTAATTCTGTAAACCAAGGGTAAATCAATAATTTTGTAAATCGAGGGTAAAACGGTAATT-TTT
20827630 AAATCGAGGGTAAAAC
65 AAATCGAGGGTAAAAC
* * *
20827646 GGTAATTTTGTAAATCGAGGGTA
1 GGTAATTCTGTAAACCAAGGGTA
20827669 CTTTGGTAAT
Statistics
Matches: 154, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
80 5 0.03
81 142 0.92
82 7 0.05
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (80 bp):
GGTAATTCTGTAAACCAAGGGTAAATCAATAATTTTGTAAATCGAGGGTAAAACGGTAATTTTTA
AATCGAGGGTAAAAC
Found at i:20827679 original size:54 final size:54
Alignment explanation
Indices: 20827403--20827668 Score: 300
Period size: 54 Copynumber: 4.9 Consensus size: 54
20827393 GGGGTATTTT
* * *** * * * *
20827403 GGTAATTTTGTAAACCAAGGGTATTTCAATAATTTTGTAAATCAAAGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * *
20827457 GGTAATTTTGTAAATCGAGAGTAAAACAGTAATTCTGTAAATCGAAGGTAAAAT
1 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* ** *
20827511 GGAAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
* * * *
20827565 GGTAATTCTGTAAACCGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAAC
1 GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
** * *
20827619 AATAATTCTT-TAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
1 GGTAATT-TTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
20827669 CTTTGGTAAT
Statistics
Matches: 180, Mismatches: 31, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
54 179 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.30
Consensus pattern (54 bp):
GGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:20827681 original size:27 final size:27
Alignment explanation
Indices: 20827432--20827668 Score: 305
Period size: 27 Copynumber: 8.8 Consensus size: 27
20827422 GGTATTTCAA
* *
20827432 TAATTTTGTAAATCAAAGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
20827459 TAATTTTGTAAATCGAGAGTAAAACAG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* * *
20827486 TAATTCTGTAAATCGAAGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
20827513 AAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* *
20827540 TAATTCTATAAATCGAGGGTAAAACGG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* * *
20827567 TAATTCTGTAAACCGAGGGTAAAACAG
1 TAATTTTGTAAATCGAGGGTAAAACGG
* **
20827594 TAATTTTGTAAATTGAGGGTAAAACAA
1 TAATTTTGTAAATCGAGGGTAAAACGG
20827621 TAATTCTT-TAAATCGAGGGTAAAACGG
1 TAATT-TTGTAAATCGAGGGTAAAACGG
20827648 TAATTTTGTAAATCGAGGGTA
1 TAATTTTGTAAATCGAGGGTA
20827669 CTTTGGTAAT
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 178 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
TAATTTTGTAAATCGAGGGTAAAACGG
Found at i:20827706 original size:81 final size:81
Alignment explanation
Indices: 20827452--20827695 Score: 218
Period size: 81 Copynumber: 3.0 Consensus size: 81
20827442 AATCAAAGGT
* * * * * * * ** *
20827452 AAAACGGTAATTTTGTAAATCGAGAGTAAAACAGTAATTCTGTAAATCGAAGGTAAAATGGAAAT
1 AAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACCGAGGGTAAAACAGTAAT
** ** *
20827517 TTTGTAAATCGAGGGT
66 TTTACAAATTAAGGGC
**
20827533 AAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACCGAGGGTAAAACAGTAAT
1 AAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACCGAGGGTAAAACAGTAAT
** * *
20827598 TTTGTAAATTGAGGGT
66 TTTACAAATTAAGGGC
* * * * *****
20827614 AAAACAATAATTCTTTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTACTTTGGTAAT
1 AAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACCGAGGGTAAAACAGTAAT
20827679 TTTACAAATTAAGGGC
66 TTTACAAATTAAGGGC
20827695 A
1 A
20827696 TTTTAGTAAT
Statistics
Matches: 137, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 137 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.30
Consensus pattern (81 bp):
AAAACAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAACCGAGGGTAAAACAGTAAT
TTTACAAATTAAGGGC
Found at i:20829394 original size:47 final size:47
Alignment explanation
Indices: 20829335--20829431 Score: 160
Period size: 47 Copynumber: 2.1 Consensus size: 47
20829325 CCTAGCCTCT
*
20829335 TTTAGTAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
*
20829382 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
20829429 TTT
1 TTT
20829432 TGCACTTCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 41 0.87
48 6 0.13
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:20829433 original size:24 final size:24
Alignment explanation
Indices: 20829314--20829432 Score: 163
Period size: 24 Copynumber: 5.0 Consensus size: 24
20829304 GCTTTATCAT
*
20829314 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
20829339 GTAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
20829363 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
20829386 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
20829410 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
20829433 GCACTTCCTC
Statistics
Matches: 86, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
23 24 0.28
24 49 0.57
25 13 0.15
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:20829503 original size:9 final size:9
Alignment explanation
Indices: 20829489--20829564 Score: 55
Period size: 9 Copynumber: 7.9 Consensus size: 9
20829479 ATCTCGTGTG
20829489 CATATCATA
1 CATATCATA
* *
20829498 CATATCGTGTG
1 CATATC--ATA
20829509 CATATCATA
1 CATATCATA
*
20829518 CATATCATGTG
1 CATATCA--TA
20829529 CATATCATA
1 CATATCATA
*
20829538 CAT-TCATGTG
1 CATATCA--TA
20829548 CATATCATA
1 CATATCATA
20829557 CATATCAT
1 CATATCAT
20829565 GTTTATCAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
8 3 0.06
9 27 0.52
10 4 0.08
11 18 0.35
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (9 bp):
CATATCATA
Found at i:20829505 original size:20 final size:20
Alignment explanation
Indices: 20829485--20829566 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
20829475 GAACATCTCG
*
20829485 TGTGCATATCATACATATCG
1 TGTGCATATCATACATATCA
20829505 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
20829525 TGTGCATATCATACAT-TCA
1 TGTGCATATCATACATATCA
20829544 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
20829564 TGT
1 TGT
20829567 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 19 0.32
20 41 0.68
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:20829532 original size:11 final size:11
Alignment explanation
Indices: 20829485--20829555 Score: 57
Period size: 9 Copynumber: 7.1 Consensus size: 11
20829475 GAACATCTCG
20829485 TGTGCATATCA
1 TGTGCATATCA
* *
20829496 --TACATATCG
1 TGTGCATATCA
20829505 TGTGCATATCA
1 TGTGCATATCA
*
20829516 --TACATATCA
1 TGTGCATATCA
20829525 TGTGCATATCA
1 TGTGCATATCA
*
20829536 --TACAT-TCA
1 TGTGCATATCA
20829544 TGTGCATATCA
1 TGTGCATATCA
20829555 T
1 T
20829556 ACATATCATG
Statistics
Matches: 45, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
8 3 0.07
9 19 0.42
10 4 0.09
11 19 0.42
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.37
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:20829559 original size:39 final size:40
Alignment explanation
Indices: 20829485--20829566 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 40
20829475 GAACATCTCG
*
20829485 TGTGCATATCATACATATCGTGTGCATATCATACATATCA
1 TGTGCATATCATACATATCATGTGCATATCATACATATCA
20829525 TGTGCATATCATACAT-TCATGTGCATATCATACATATCA
1 TGTGCATATCATACATATCATGTGCATATCATACATATCA
20829564 TGT
1 TGT
20829567 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 25 0.61
40 16 0.39
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (40 bp):
TGTGCATATCATACATATCATGTGCATATCATACATATCA
Found at i:20829631 original size:25 final size:25
Alignment explanation
Indices: 20829603--20829650 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
20829593 ATATATAAAC
* *
20829603 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
20829628 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
20829651 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:20836332 original size:25 final size:24
Alignment explanation
Indices: 20836281--20836332 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
20836271 GCCTAGCCTC
*
20836281 TTTTAGTAACTGGGGTGAAGCCCT
1 TTTTAATAACTGGGGTGAAGCCCT
20836305 TTTTAATAACTGGGGCAT-AAGCCCT
1 TTTTAATAACTGGGG--TGAAGCCCT
20836330 TTT
1 TTT
20836333 GCACTTCGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 14 0.56
25 10 0.40
26 1 0.04
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (24 bp):
TTTTAATAACTGGGGTGAAGCCCT
Found at i:20836408 original size:20 final size:20
Alignment explanation
Indices: 20836385--20836527 Score: 277
Period size: 20 Copynumber: 7.2 Consensus size: 20
20836375 GAACATCCCG
20836385 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
20836405 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
20836425 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
20836445 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
20836465 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
20836485 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
20836505 TGTGCATATCATACATTTCA
1 TGTGCATATCATACATATCA
20836525 TGT
1 TGT
20836528 TTATCAAAAT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 122 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:20839068 original size:764 final size:768
Alignment explanation
Indices: 20837550--20839089 Score: 2881
Period size: 764 Copynumber: 2.0 Consensus size: 768
20837540 GGTTGCTGGT
20837550 CACAAAGAATCGGCACCCACCTATCTTCACTAATTTCGGCTTTTTTTGCGGTATTTCGGCAGAAG
1 CACAAAGAATCGGCACCCACCTATCTTCACTAATTTCGGCTTTTTTTGCGGTATTTCGGCAGAAG
20837615 TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTGGATATTGAAAAAGAA
66 TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTGGATATTGAAAAAGAA
**
20837680 AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTTTGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
131 AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
*
20837745 TAAAACAAAGGAGAAAACGGCACAGCTAGGACCCTAATGCCGAAATTACTAACCTTACTAACCTA
196 TAAAACAAAGGAGAAAACGACACAGCTAGGACCCTAATGCCG--A--AC-AA-CTTACTAACCTA
*
20837810 ATACCCTTCGGCCGAATTCCCCTCTCTAACCCCTTCCAAACGGCTAAGCTCTATCCTTCTCTCAA
255 ATACCCTTCGGCCGAATTCCCCTCTCTAACCCCTTCCAAACAGCTAAGCTCTATCCTTCTCTCAA
*
20837875 ATCCCTAAAATCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCT
320 ATCCCTAAAACCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCT
*
20837940 TACAGAATCTACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGC
385 TACAGAATCCACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGC
20838005 CAACACAGGGAATCGATCCCAGGTCTTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTAGT
450 CAACACAGGGAATCGATCCCAGGTCTTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTAGT
*
20838070 GGCGTCACCCTTGCCGCTTTACTACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAA
515 GGCGTCACCCTTGCCACTTTACTACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAA
20838135 GGGCACCTAGCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTA
580 GGGCACCTAGCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTA
20838200 ACTCATAAGCCTTCCATAAGCCCATTTACACACCCAAATAATGAATTCCATAATCACATACCAAA
645 ACTCATAAGCCTTCCATAAGCCCATTTACACACCCAAATAATGAATTCCATAATCACATACCAAA
**
20838265 TTTTAGAAAAATTACTTAAAATATCAGGAATCGCGAAAAACCAGAAAATCAGGATGTTA
710 TTTTAGAAAAATTACTTAAAATATCAGGAATAACGAAAAACCAGAAAATCAGGATGTTA
*
20838324 CACAAAGAATCGGCACCCACCTATCTTCACTGATTTCGGC-TTTTTTGCGGTATTTCGGCAGAAG
1 CACAAAGAATCGGCACCCACCTATCTTCACTAATTTCGGCTTTTTTTGCGGTATTTCGGCAGAAG
20838388 TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTGGATATTGAAAAAGAA
66 TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTGGATATTGAAAAAGAA
*
20838453 AAGGGAGAAAATATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
131 AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
20838518 TAAAACAAAGGAGAAAACGACACAGCTAGGACCCTAATGCCG-A-AA-TTACTAACCTAATACCC
196 TAAAACAAAGGAGAAAACGACACAGCTAGGACCCTAATGCCGAACAACTTACTAACCTAATACCC
20838580 TTCGGCCGAATTCCCCTCTCTAACCCCTTCCAAACAGCTAAGCTCTATCCTTCTCTCAAATCCCT
261 TTCGGCCGAATTCCCCTCTCTAACCCCTTCCAAACAGCTAAGCTCTATCCTTCTCTCAAATCCCT
20838645 AAAACCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCTTACAGA
326 AAAACCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCTTACAGA
20838710 ATCCACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGCCAACAC
391 ATCCACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGCCAACAC
20838775 AGGGAATCGATCCCAGGTCTTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTAGTGGCGTC
456 AGGGAATCGATCCCAGGTCTTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTAGTGGCGTC
20838840 ACCCTTGCCACTTTACTACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAAGGGCAC
521 ACCCTTGCCACTTTACTACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAAGGGCAC
20838905 CTAGCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTAACTCAT
586 CTAGCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTAACTCAT
*
20838970 AAGCCTTCCATAAGCCCATTTACACACCCAAATTATGAATTCCATAATCACATACCAAATTTTAG
651 AAGCCTTCCATAAGCCCATTTACACACCCAAATAATGAATTCCATAATCACATACCAAATTTTAG
*
20839035 AAAAATTACTTAAAATATCAGGAATAACGAAAAACCCGAAAATCAGGATGTTA
716 AAAAATTACTTAAAATATCAGGAATAACGAAAAACCAGAAAATCAGGATGTTA
20839088 CA
1 CA
20839090 TGCCAGCGTC
Statistics
Matches: 753, Mismatches: 13, Indels: 10
0.97 0.02 0.01
Matches are distributed among these distances:
764 519 0.69
766 2 0.00
768 1 0.00
773 192 0.25
774 39 0.05
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (768 bp):
CACAAAGAATCGGCACCCACCTATCTTCACTAATTTCGGCTTTTTTTGCGGTATTTCGGCAGAAG
TAGAGATTAAAGAAAGAAATAATAAATGAGTAGAGGAAAGTAATAGGCTGGATATTGAAAAAGAA
AAGGGAGAAAAGATGAGAGGAAGGATGGTAGATTCGGCTAGGGAAGAAAAAAAAGAAGAGAAAAC
TAAAACAAAGGAGAAAACGACACAGCTAGGACCCTAATGCCGAACAACTTACTAACCTAATACCC
TTCGGCCGAATTCCCCTCTCTAACCCCTTCCAAACAGCTAAGCTCTATCCTTCTCTCAAATCCCT
AAAACCTCTCCCCTTATCCCTCCTTAATCCATGCGTTTGACTTGATCCAACTCTCCTCTTACAGA
ATCCACTTAGGTTCCAACACTTACCCTTCCTGCACATAAAAATAAATACTCTTATTTGCCAACAC
AGGGAATCGATCCCAGGTCTTCCCTTATGCTCCACACGCCACCTTTTTAGGAGCTTAGTGGCGTC
ACCCTTGCCACTTTACTACAGCTCTTTTTGTGATACACTTTACCCACAACTTAATATAAGGGCAC
CTAGCCAGAACCCCTAACACCTAAGTCTAAAATTTAAAAATTCAACCGGGTTTTGGCTAACTCAT
AAGCCTTCCATAAGCCCATTTACACACCCAAATAATGAATTCCATAATCACATACCAAATTTTAG
AAAAATTACTTAAAATATCAGGAATAACGAAAAACCAGAAAATCAGGATGTTA
Found at i:20840675 original size:31 final size:31
Alignment explanation
Indices: 20840632--20840748 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
20840622 TCAAGCTCAG
* *
20840632 CATAT-ACTGGGCCAAAGCCTTTACATTATC
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
20840662 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
20840693 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
*
20840724 CATATCACTAGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
20840749 TGTAAACGGT
Statistics
Matches: 79, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
30 4 0.05
31 75 0.95
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:20840987 original size:24 final size:25
Alignment explanation
Indices: 20840960--20841011 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
20840950 GCCTAGCCTC
20840960 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
* *
20840984 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
20841009 TTT
1 TTT
20841012 CGGCAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:20840995 original size:25 final size:25
Alignment explanation
Indices: 20840967--20841036 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
20840957 CTCTTTTAAT
* * *
20840967 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGACA
*
20840992 AACTGGGGCAAAGCCCTTTTCGGCA
1 AACTGGGGCAAAGCCCTTTTCGACA
*
20841017 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
20841037 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGACA
Found at i:20841277 original size:27 final size:27
Alignment explanation
Indices: 20841243--20841368 Score: 157
Period size: 27 Copynumber: 4.7 Consensus size: 27
20841233 CAAAATGGTA
* * *
20841243 AATT-TACCCCACAAGGGTATCTCGAT
1 AATTCTACCCTACAGGGGTATTTCGAT
* *
20841269 AATTCTACCCTACAGGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
20841296 AATTCTACCCTACAGGGGTATTTC-AGT
1 AATTCTACCCTACAGGGGTATTTCGA-T
* * *
20841323 AATTCTACCTTACAGGGGTATTTTGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
20841350 AATTCTACCCTACAGGGGT
1 AATTCTACCCTACAGGGGT
20841369 TGTAACAGCC
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 4 0.05
27 82 0.95
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGAT
Found at i:20841296 original size:54 final size:54
Alignment explanation
Indices: 20841238--20841368 Score: 194
Period size: 54 Copynumber: 2.4 Consensus size: 54
20841228 AGGGGCAAAA
* *
20841238 TGGTAAATT-TACCCCACAAGGGTATCTC-GATAATTCTACCCTACAGGGGTATTT
1 TGGT-AATTCTACCCTACAGGGGTATCTCAG-TAATTCTACCCTACAGGGGTATTT
* *
20841292 TGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATCTCAGTAATTCTACCCTACAGGGGTATTT
20841346 TGGTAATTCTACCCTACAGGGGT
1 TGGTAATTCTACCCTACAGGGGT
20841369 TGTAACAGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
53 4 0.06
54 66 0.93
55 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (54 bp):
TGGTAATTCTACCCTACAGGGGTATCTCAGTAATTCTACCCTACAGGGGTATTT
Found at i:20844144 original size:27 final size:27
Alignment explanation
Indices: 20844113--20844184 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
20844103 TAAGGGGTGT
*
20844113 TACAGGGGTATTTCGGTAATTCTACCC
1 TACAGGGGTATTTCGATAATTCTACCC
20844140 TACAGGGGTATTTCGATAATTCTACCC
1 TACAGGGGTATTTCGATAATTCTACCC
*
20844167 TACAGGGGTATTTTGATA
1 TACAGGGGTATTTCGATA
20844185 TTTTACAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (27 bp):
TACAGGGGTATTTCGATAATTCTACCC
Found at i:20844222 original size:27 final size:27
Alignment explanation
Indices: 20844169--20844269 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
20844159 TTCTACCCTA
*
20844169 CAGGGGTATTTTGAT-ATTTTACAAAT
1 CAGGAGTATTTTGATAATTTTACAAAT
*
20844195 C-GAGAGTATTTTGATAATTTCACAAAT
1 CAG-GAGTATTTTGATAATTTTACAAAT
* * **
20844222 CAGGGGTATTTTGTTAATTTTACAAGC
1 CAGGAGTATTTTGATAATTTTACAAAT
* *
20844249 CAGGGGTATTTTGGTAATTTT
1 CAGGAGTATTTTGATAATTTT
20844270 GTAAACCAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
25 1 0.02
26 12 0.19
27 50 0.78
28 1 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.42
Consensus pattern (27 bp):
CAGGAGTATTTTGATAATTTTACAAAT
Found at i:20844282 original size:27 final size:27
Alignment explanation
Indices: 20844225--20844328 Score: 91
Period size: 27 Copynumber: 3.9 Consensus size: 27
20844215 CACAAATCAG
* ** * *
20844225 GGGTATTTTGTTAATTTTACAAGCCAG
1 GGGTATTTTGGTAATTTTGTAAACCAA
20844252 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTGTAAACCAA
** * *
20844279 GGGTATTTCAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTGTAAACCAA
*** *
20844306 GGGTAAAATGATAATTTTGTAAA
1 GGGTATTTTGGTAATTTTGTAAA
20844329 TCGAGAGTAA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTGTAAACCAA
Found at i:20844591 original size:27 final size:27
Alignment explanation
Indices: 20844289--20844580 Score: 368
Period size: 27 Copynumber: 10.8 Consensus size: 27
20844279 GGGTATTTCA
* *
20844289 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * * **
20844316 ATAATTTTGTAAATCGAGAGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
20844343 GTAATTCTGTAAATCGAAGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
20844370 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
20844397 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
20844424 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
20844451 GTAATTCTATAAATTGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
20844478 GTAATTCTATAAATTGAGGGTAAAGCG
1 GTAATTCTATAAATCGAGGGTAAAATG
* **
20844505 GTAATTCTATAAATTGAGGGTAAAGCG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * * *
20844532 GTAATTCTGTAAATCGAAGGCAAAACG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
20844559 GTAATTCTATAAATCGATGGTA
1 GTAATTCTATAAATCGAGGGTA
20844581 CTTTGGTAAT
Statistics
Matches: 238, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 238 1.00
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:20849511 original size:32 final size:32
Alignment explanation
Indices: 20849464--20849530 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
20849454 TCATATGTGT
* *
20849464 TTGATATTGAAATGGGCTAGGCCCAACTGATA
1 TTGATATTGAAATGGGCAAGGCCCAACTGAGA
* * *
20849496 TTGATTTTGAGATGGGCAAGGCCCAATTGAGA
1 TTGATATTGAAATGGGCAAGGCCCAACTGAGA
20849528 TTG
1 TTG
20849531 TGATGGGTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (32 bp):
TTGATATTGAAATGGGCAAGGCCCAACTGAGA
Found at i:20850401 original size:16 final size:16
Alignment explanation
Indices: 20850380--20850413 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20850370 TATTATGCAA
*
20850380 TAGGAAACATTGTGAT
1 TAGGAAACACTGTGAT
20850396 TAGGAAACACTGTGAT
1 TAGGAAACACTGTGAT
20850412 TA
1 TA
20850414 CTTTAGAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (16 bp):
TAGGAAACACTGTGAT
Found at i:20854265 original size:32 final size:32
Alignment explanation
Indices: 20854214--20854302 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 32
20854204 TATATGGGTT
*
20854214 TGATATTGAAATGGGCTAGGCCCAACTGATAC
1 TGATTTTGAAATGGGCTAGGCCCAACTGATAC
* * * *
20854246 TGGTTTTGATATGGGCTAGGCCCAATTGATAT
1 TGATTTTGAAATGGGCTAGGCCCAACTGATAC
** *
20854278 TGATTCAGAGATGGGCTAGGCCCAA
1 TGATTTTGAAATGGGCTAGGCCCAA
20854303 TTGAGGCTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (32 bp):
TGATTTTGAAATGGGCTAGGCCCAACTGATAC
Found at i:20854303 original size:32 final size:32
Alignment explanation
Indices: 20854224--20854306 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
20854214 TGATATTGAA
* * ** *
20854224 ATGGGCTAGGCCCAACTGATACTGGTTTTGAT
1 ATGGGCTAGGCCCAATTGATACTGATTCAGAG
*
20854256 ATGGGCTAGGCCCAATTGATATTGATTCAGAG
1 ATGGGCTAGGCCCAATTGATACTGATTCAGAG
20854288 ATGGGCTAGGCCCAATTGA
1 ATGGGCTAGGCCCAATTGA
20854307 GGCTGTGATA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (32 bp):
ATGGGCTAGGCCCAATTGATACTGATTCAGAG
Found at i:20856054 original size:20 final size:18
Alignment explanation
Indices: 20856017--20856067 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
20856007 CTATAGCAAC
20856017 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
20856034 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
20856054 TTACAACTTTACAA
1 TCACAA-TTTACAA
20856068 AATAACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:20860809 original size:49 final size:48
Alignment explanation
Indices: 20860563--20860829 Score: 220
Period size: 46 Copynumber: 5.7 Consensus size: 48
20860553 TTATTTGTGT
* * * * *
20860563 GCTACTGTAAGA-CATGTCTGTGACAT-GCATCAGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-TATGATA
* * * * * * *
20860609 GCAAGTGTAAGACCATGTCTGGGACATGGCATAGGCATTGAAACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGATA
*
20860657 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCTGCCTCG-TGATG-TAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAT-ATGAT-A
* *
20860703 GCTAGTGTAAGA-CATGTCTGAGACAT-GCATCGG-CTACGAGATG-T-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATATGATA
*
20860747 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTGAATA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATG-ATA
*
20860796 G-TCAGTGTAAGACCATGTCTGTGACATGGCATCG
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
20860830 ACATTCTACT
Statistics
Matches: 182, Mismatches: 25, Indels: 25
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 10 0.05
45 15 0.08
46 70 0.38
47 29 0.16
48 23 0.13
49 34 0.19
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGATA
Found at i:20860822 original size:140 final size:141
Alignment explanation
Indices: 20860563--20860828 Score: 326
Period size: 140 Copynumber: 1.9 Consensus size: 141
20860553 TTATTTGTGT
* *
20860563 GCTACTGTAAGACATGTCTGTGACATGCATCAGCCACATTATGAGAGCAAGTGTAAGACCATGTC
1 GCTACTGTAAGACATGTCTGAGACATGCATCAGCCACATGATGAGAGCAAGTGTAAGACCATGTC
*
20860628 TGGGACATGGCATAGGCATTGAAACGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCTGCC
66 TGGGACATGGCATAGGCATCGAAACGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCTGCC
20860692 TCGTGATGTAA
131 TCGTGATGTAA
* * * * *
20860703 GCTAGTGTAAGACATGTCTGAGACATGCATCGGCTACGA-GATGTG-TC-AGTGTAAGACCATGT
1 GCTACTGTAAGACATGTCTGAGACATGCATCAGCCAC-ATGATGAGAGCAAGTGTAAGACCATGT
* * *** * *
20860765 CTGGGACATGGCATCGGCCTCGATTTGAATAG-TCAGTGTAAGACCATGTCTGTGACATGGCATC
65 CTGGGACATGGCATAGGCATCGAAACG-AGAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATC
20860829 GACATTCTAC
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
138 37 0.35
139 13 0.12
140 50 0.47
141 6 0.06
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (141 bp):
GCTACTGTAAGACATGTCTGAGACATGCATCAGCCACATGATGAGAGCAAGTGTAAGACCATGTC
TGGGACATGGCATAGGCATCGAAACGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCTGCC
TCGTGATGTAA
Found at i:20865191 original size:38 final size:38
Alignment explanation
Indices: 20865146--20865271 Score: 162
Period size: 38 Copynumber: 3.3 Consensus size: 38
20865136 TGATGTGTAT
**
20865146 CTGGTAATATATCCGGGTTAAATCCTGCAGGCTTCGTG
1 CTGGTAATATATCAAGGTTAAATCCTGCAGGCTTCGTG
*
20865184 CTGGTAATATATCAAGGTTAAATCCCGCAGGCTTCGTG
1 CTGGTAATATATCAAGGTTAAATCCTGCAGGCTTCGTG
* * * * * *
20865222 CTGGTATTATATCTAGGTTAAATCCTGTAGGCCTAGTA
1 CTGGTAATATATCAAGGTTAAATCCTGCAGGCTTCGTG
*
20865260 CTGGTATTATAT
1 CTGGTAATATAT
20865272 TTAGGCCTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 78 1.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (38 bp):
CTGGTAATATATCAAGGTTAAATCCTGCAGGCTTCGTG
Found at i:20869692 original size:40 final size:39
Alignment explanation
Indices: 20869594--20869776 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
20869584 TCCTCGTTCA
* * *
20869594 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
20869633 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
20869672 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
20869712 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
20869753 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
20869777 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 38 0.31
40 76 0.62
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:20869785 original size:41 final size:41
Alignment explanation
Indices: 20869708--20869785 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20869698 TTAGTATCTC
* * *
20869708 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20869749 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20869786 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20873782 original size:14 final size:14
Alignment explanation
Indices: 20873765--20873794 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
20873755 TCTTTCCCAC
20873765 TTATTCTTTGAGAA
1 TTATTCTTTGAGAA
20873779 TTATTCTTTGAGAA
1 TTATTCTTTGAGAA
20873793 TT
1 TT
20873795 GCCACATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (14 bp):
TTATTCTTTGAGAA
Found at i:20878166 original size:80 final size:80
Alignment explanation
Indices: 20878061--20878246 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
20878051 AGTAACTCAT
* * *
20878061 ACAATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
20878124 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
20878140 ACAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCG
20878205 GATATAGTCACTTAGC
65 GATATAGTCACTTAGC
*
20878221 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
20878247 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:20878206 original size:40 final size:40
Alignment explanation
Indices: 20878063--20878246 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
20878053 TAACTCATAC
* *
20878063 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
20878103 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
20878143 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
20878183 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
20878224 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
20878247 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:20885994 original size:93 final size:93
Alignment explanation
Indices: 20885835--20886005 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
20885825 GGATGGTTGA
*
20885835 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCCGAACTCGTTGAGT
20885900 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * *
20885928 GCATCCGAACTTGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCC-GAACTCGTTGAG
*
20885992 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
20886006 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACCTATAGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20891341 original size:15 final size:15
Alignment explanation
Indices: 20891321--20891351 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20891311 CCAACCTTCA
20891321 AATTTTACCTCAATT
1 AATTTTACCTCAATT
20891336 AATTTTACCTCAATT
1 AATTTTACCTCAATT
20891351 A
1 A
20891352 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:20893611 original size:11 final size:11
Alignment explanation
Indices: 20893595--20893621 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
20893585 TAGAAATTAG
20893595 TTTGTGAAACT
1 TTTGTGAAACT
20893606 TTTGTGAAACT
1 TTTGTGAAACT
20893617 TTTGT
1 TTTGT
20893622 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:20895157 original size:92 final size:92
Alignment explanation
Indices: 20895021--20895214 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
20895011 TTGATTTTAG
* *
20895021 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
20895085 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
20895112 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
20895177 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
20895205 CAAATTCATA
1 TAAATTCATA
20895215 AACTATAATA
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:20895271 original size:17 final size:17
Alignment explanation
Indices: 20895246--20895279 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
20895236 ATAATTTTAA
*
20895246 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
20895263 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
20895280 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:20895296 original size:17 final size:16
Alignment explanation
Indices: 20895251--20895298 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
20895241 TTTAAATTTT
20895251 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
20895268 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
20895282 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
20895299 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:20895378 original size:15 final size:15
Alignment explanation
Indices: 20895343--20895394 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
20895333 TTAAGAATTT
*
20895343 TATTAAATTAT-ATA
1 TATTTAATTATAATA
20895357 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
20895371 TATTTAATAATAAT-
1 TATTTAATTATAATA
20895385 TATGTTAATT
1 TAT-TTAATT
20895395 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:20901333 original size:48 final size:48
Alignment explanation
Indices: 20901262--20901359 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
20901252 AAATTGCAAA
*
20901262 ATCTTTATATTTTAGTACCAAGGTCAGTTCATGTGCAAATAATGTAGC
1 ATCTTTATATTTTAGTACCAAGGTAAGTTCATGTGCAAATAATGTAGC
* *
20901310 ATCTTTATATTTTAGTACCAAGGTAAGTTCATTTGTAAATAATGTAGC
1 ATCTTTATATTTTAGTACCAAGGTAAGTTCATGTGCAAATAATGTAGC
20901358 AT
1 AT
20901360 AAATGTTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (48 bp):
ATCTTTATATTTTAGTACCAAGGTAAGTTCATGTGCAAATAATGTAGC
Found at i:20902516 original size:46 final size:46
Alignment explanation
Indices: 20901609--20902513 Score: 1756
Period size: 46 Copynumber: 19.7 Consensus size: 46
20901599 TGGTTGAGCA
20901609 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20901655 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20901701 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20901747 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20901793 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20901839 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20901885 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20901931 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20901977 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902023 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902069 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902115 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902161 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902207 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902253 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902299 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902345 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
20902391 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
20902437 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
20902483 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
20902514 TTAGGGGCGG
Statistics
Matches: 853, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 853 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:20904304 original size:41 final size:41
Alignment explanation
Indices: 20904212--20904401 Score: 240
Period size: 41 Copynumber: 4.7 Consensus size: 41
20904202 CGACAAATCA
* * * * *
20904212 GCTATATATGGCACTTAGTGTACGA-TTTAACATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* *
20904252 GCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCA
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
*
20904293 GCTATAAATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * *
20904334 GCTATATATGGCACTTAGTGTGTGA-TTTGAGATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * *
20904374 GCTATGTACGACACTTAGTGTGCGAGAT
1 GCTATATATGGCACTTAGTGTGCGAGAT
20904402 ATTAAATATT
Statistics
Matches: 129, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 58 0.45
41 71 0.55
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
Found at i:20904367 original size:81 final size:82
Alignment explanation
Indices: 20904209--20904401 Score: 246
Period size: 81 Copynumber: 2.4 Consensus size: 82
20904199 CAACGACAAA
* * *
20904209 TCAGCTATATATGGCACTTAGTGTACGA-TTTAACATAGCTTTGGCTATATATGGCACTTAGTGT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGT
20904273 GCGAGATCGAGATAGCT
66 GCGAGATCGAGATAGCT
* * *
20904290 TCAGCTATAAATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATGGCACTTAGTGT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGT
* * *
20904355 GTGA-TTTGAGATAGCT
66 GCGAGATCGAGATAGCT
** * * *
20904371 TTGGCTATGTACGACACTTAGTGTGCGAGAT
1 TCAGCTATATATGGCACTTAGTGTGCGAGAT
20904402 ATTAAATATT
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 61 0.64
82 35 0.36
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (82 bp):
TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGT
GCGAGATCGAGATAGCT
Found at i:20906506 original size:37 final size:37
Alignment explanation
Indices: 20906456--20906534 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
20906446 TTATTACGAA
* * *
20906456 GTCTTACCCGGACATAATCTCCACACGAAGTTATCCG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCCG
* *
20906493 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCCG
20906530 GTCTT
1 GTCTT
20906535 TAGAGCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCCG
Found at i:20906771 original size:48 final size:48
Alignment explanation
Indices: 20906652--20907077 Score: 335
Period size: 47 Copynumber: 9.2 Consensus size: 48
20906642 CCCTTCGGGA
* * * * * *
20906652 CTTA-TCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20906699 CCT-GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20906746 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20906794 CTTA-TCACATACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATTCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * ** *
20906843 CTTATCGCACACAT-T-CA---TCACA-TCGGC-CATTAGGCCCTATTCA--C
1 CTTAT-TCACATATATACACTTTCACATTCATCACA-TCGG-CC-ATT-AGGC
* * * * * ** ** *
20906887 ATATATACAC-T-T-T-CACATT--CA-TCA-CATC--GGCCATTAGGCC
1 CT-TATTCACATATATACACTTTCACATTCATCA-CATCGGCCATTAGGC
20906927 C-TATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20906974 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20907022 CTTA-TCACATATATACACTTTGACATTCATCACATCGGCCATTAGGC
1 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20907069 CTTA-TCACA
1 CTTATTCACA
20907078 ATTTAGAATT
Statistics
Matches: 308, Mismatches: 42, Indels: 58
0.75 0.10 0.14
Matches are distributed among these distances:
38 6 0.02
39 2 0.01
40 3 0.01
41 2 0.01
42 12 0.04
43 10 0.03
44 14 0.05
45 11 0.04
46 3 0.01
47 106 0.34
48 94 0.31
49 41 0.13
51 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (48 bp):
CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20906884 original size:132 final size:136
Alignment explanation
Indices: 20906652--20907077 Score: 524
Period size: 132 Copynumber: 3.1 Consensus size: 136
20906642 CCCTTCGGGA
* * * * * *
20906652 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG--C---CACATATATACAC
*
20906717 TTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACAT
61 -TACACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACAT
*
20906782 CGGCCATTAAGC
125 CGGCCATTAGGC
* *
20906794 CTTATCACATACATATACACTTTCACATTCATCACATCGGCTATTAGG-C-C-T-TAT-CGC-AC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCACATATATACACTAC
20906853 ACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGGC
64 ACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGGC
20906918 CATTAGGC
129 CATTAGGC
*
20906926 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATAC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGG--C----CACATATATAC
* * * *
20906991 ACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACATATATACACTTTGACATTCATCAC
59 AC-TACACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCAC
20907055 ATCGGCCATTAGGC
123 ATCGGCCATTAGGC
20907069 CTTATCACA
1 CTTATCACA
20907078 ATTTAGAATT
Statistics
Matches: 250, Mismatches: 18, Indels: 32
0.83 0.06 0.11
Matches are distributed among these distances:
131 35 0.14
132 76 0.30
133 6 0.02
134 2 0.01
135 3 0.01
136 1 0.00
137 1 0.00
138 2 0.01
139 1 0.00
140 1 0.00
141 3 0.01
142 17 0.07
143 45 0.18
144 57 0.23
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (136 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCACATATATACACTACAC
ATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCA
TTAGGC
Found at i:20907016 original size:96 final size:95
Alignment explanation
Indices: 20906852--20907077 Score: 400
Period size: 96 Copynumber: 2.4 Consensus size: 95
20906842 CCTTATCGCA
20906852 CACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGG
1 CACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGG
*
20906917 CCATTAGGCCCTATTCACATATATACACTTT
66 CCATTAAGCCCTA-TCACATATATACACTTT
20906948 CACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGG
1 CACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGG
*
20907013 CCATTAAGCCTTATCACATATATACACTTT
66 CCATTAAGCCCTATCACATATATACACTTT
* *
20907043 GACATTCATCACATCGGCCATTAGGCCTTA-TCACA
1 CACATTCATCACATCGGCCATTAGGCCCTATTCACA
20907078 ATTTAGAATT
Statistics
Matches: 126, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
94 5 0.04
95 45 0.36
96 76 0.60
ACGTcount: A:0.30, C:0.31, G:0.09, T:0.31
Consensus pattern (95 bp):
CACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGG
CCATTAAGCCCTATCACATATATACACTTT
Found at i:20907825 original size:35 final size:35
Alignment explanation
Indices: 20907776--20907853 Score: 131
Period size: 35 Copynumber: 2.3 Consensus size: 35
20907766 GTACGTCAAT
*
20907776 TCCGAC-TATTCGACCAATTTCCCTTTTTCCACGA
1 TCCGACTTTTTCGACCAATTTCCCTTTTTCCACGA
20907810 TCCGACTTTTTCGACCAATTTCCCTTTTTCCACGA
1 TCCGACTTTTTCGACCAATTTCCCTTTTTCCACGA
*
20907845 GCCGACTTT
1 TCCGACTTT
20907854 GTTTCCTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
34 6 0.15
35 35 0.85
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (35 bp):
TCCGACTTTTTCGACCAATTTCCCTTTTTCCACGA
Found at i:20907836 original size:18 final size:18
Alignment explanation
Indices: 20907784--20907839 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
20907774 ATTCCGACTA
20907784 TTCGACCAATTTCCCTTT
1 TTCGACCAATTTCCCTTT
* *
20907802 TTCCA-CGA--TCCGACTTT
1 TTCGACCAATTTCC--CTTT
20907819 TTCGACCAATTTCCCTTT
1 TTCGACCAATTTCCCTTT
20907837 TTC
1 TTC
20907840 CACGAGCCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
15 3 0.10
17 10 0.34
18 13 0.45
20 3 0.10
ACGTcount: A:0.16, C:0.34, G:0.07, T:0.43
Consensus pattern (18 bp):
TTCGACCAATTTCCCTTT
Found at i:20910582 original size:40 final size:41
Alignment explanation
Indices: 20910468--20910679 Score: 149
Period size: 40 Copynumber: 5.3 Consensus size: 41
20910458 CTTCGGGACC
* * *
20910468 TAGCCCAGATATA-ACACCAGCACGAA-TGCTCTTCGGAA-CT
1 TAGCCCGGATATATA-ACTAGCACCAATTGC-CTTCGGAATCT
* ** * *
20910508 TAGTCCGGATACCTCACTAGCACGAA-TGCTCTTCGGAAT-T
1 TAGCCCGGATATATAACTAGCACCAATTGC-CTTCGGAATCT
* * *
20910548 TAGCCCGGATTTAGTAACTCGCACCAA-TGCCTTC-GAGTCT
1 TAGCCCGGATATA-TAACTAGCACCAATTGCCTTCGGAATCT
* *
20910588 TAGCCCGGATATATCAACTTGCA-CAATTGCCTTCGG-GTCT
1 TAGCCCGGATATAT-AACTAGCACCAATTGCCTTCGGAATCT
* * *
20910628 TAGCCCGGATATAATCACTAGC-TCAATTGCCTTCGGGA-CT
1 TAGCCCGGATAT-ATAACTAGCACCAATTGCCTTCGGAATCT
20910668 TAGCCCGGATAT
1 TAGCCCGGATAT
20910680 CATTCAAATG
Statistics
Matches: 143, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
39 7 0.05
40 120 0.84
41 16 0.11
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.26
Consensus pattern (41 bp):
TAGCCCGGATATATAACTAGCACCAATTGCCTTCGGAATCT
Found at i:20911005 original size:29 final size:29
Alignment explanation
Indices: 20910971--20911044 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
20910961 TAATCCACCA
* *
20910971 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACC
*
20911000 CGCACACTTAGTGCCATGCATTTCAAGCC
1 CGCACACTTAGTGCCATGCATTTCAAACC
20911029 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
20911045 ATCTCACGAC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 3 0.07
29 38 0.93
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACC
Found at i:20911087 original size:43 final size:43
Alignment explanation
Indices: 20911026--20911128 Score: 179
Period size: 43 Copynumber: 2.4 Consensus size: 43
20911016 TGCATTTCAA
* *
20911026 GCCCGCACACTTAGTGCCAATCTCACGACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
20911069 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
20911112 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
20911129 TGAAAACCAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:20911357 original size:32 final size:32
Alignment explanation
Indices: 20911321--20911384 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
20911311 AGTCATAACA
*
20911321 CTCTTTCAAAATTGCATCACTTATACCCTTAT
1 CTCTTTCAAAACTGCATCACTTATACCCTTAT
20911353 CTCTTTCAAAACTGCATCACTTATACCCTTAT
1 CTCTTTCAAAACTGCATCACTTATACCCTTAT
20911385 AATTCAATCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.28, C:0.30, G:0.03, T:0.39
Consensus pattern (32 bp):
CTCTTTCAAAACTGCATCACTTATACCCTTAT
Found at i:20912736 original size:19 final size:20
Alignment explanation
Indices: 20912702--20912740 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
20912692 TCAAGATAAT
20912702 ATTATTGTGAGAAATAATTA
1 ATTATTGTGAGAAATAATTA
*
20912722 ATTATTGT-TGAAATAATTA
1 ATTATTGTGAGAAATAATTA
20912741 TCTGAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (20 bp):
ATTATTGTGAGAAATAATTA
Found at i:20917612 original size:79 final size:81
Alignment explanation
Indices: 20917473--20917655 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
20917463 TCGAATGATG
* *
20917473 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
20917537 TGTGCGAGATAC-TAA
66 TGTGCGAGATACGTAA
* * * **
20917552 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCTGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
20917614 TTTGTGCGAGTTACTGTAA
64 TTTGTGCGAGATAC-GTAA
*
20917633 -CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
20917656 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
78 1 0.01
79 56 0.63
80 29 0.33
81 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACGTAA
Found at i:20917664 original size:40 final size:40
Alignment explanation
Indices: 20917473--20917657 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
20917463 TCGAATGATG
* * *
20917473 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
20917513 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20917553 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
20917592 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTGTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAA
*
20917633 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20917658 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20930202 original size:39 final size:39
Alignment explanation
Indices: 20930146--20930590 Score: 559
Period size: 39 Copynumber: 11.4 Consensus size: 39
20930136 CAAAGCCTAC
* * * * * * * *
20930146 CGGACTTTAAGCCCGGATATAGTACCAGTACAAAGCCTA
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
* * * * *
20930185 CAGACCTTAAGTCCGGATATAGTACCAGTACGAAGCCTG
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
*
20930224 CGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
* * * *
20930263 CAGGTCTTTAAGCCCGGATACAATTTCAGCACGAAGCCTG
1 C-GGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
*
20930303 CGGACCTTAAGTCCGGATACAATTCCAGCACGACGCCTG
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
*
20930342 CGGACCTTAAGTCTGGATACAATTCCAGCACGAAGCCTG
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
* * * * * *
20930381 CAGACTTTAAGTCCGGATATAGTACCAGTACGAAGCCTG
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
* *
20930420 CGGATCTTAAGTCCGGATGCAATTCCAGCACGAAGCCTG
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
* * * *
20930459 CGAGTCTTTAAGCCCGGATACAATTCCAGCATGAAGCCTG
1 CG-GACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
*
20930499 CGGACCTTAAGTCC-GATACAATTCCAGCATGAAGCCTG
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
*
20930537 CAGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
1 CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
20930576 CGGACCTTAAGTCCG
1 CGGACCTTAAGTCCG
20930591 AATATACATC
Statistics
Matches: 353, Mismatches: 50, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
38 37 0.10
39 249 0.71
40 67 0.19
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (39 bp):
CGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTG
Found at i:20937201 original size:31 final size:31
Alignment explanation
Indices: 20937126--20937204 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
20937116 TTTAACGGTT
20937126 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
* **
20937157 ACTAGGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
*
20937188 ATTGGGCTGAAGCCTTT
1 ACTGGGCTGAAGCCTTT
20937205 ACTGTAAACG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (31 bp):
ACTGGGCTGAAGCCTTTTCATAAATCATATC
Found at i:20937275 original size:42 final size:42
Alignment explanation
Indices: 20937228--20937319 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
20937218 TGGCCCTTAG
* ** *
20937228 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
20937270 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
20937312 GCCCATTT
1 GCCCATTT
20937320 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:20937535 original size:26 final size:26
Alignment explanation
Indices: 20937464--20937690 Score: 368
Period size: 26 Copynumber: 8.8 Consensus size: 26
20937454 CCTCTTTAAT
**
20937464 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
20937489 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
20937514 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
20937540 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
20937566 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
20937592 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
20937618 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
20937644 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
20937670 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
20937691 GCACTTCCTC
Statistics
Matches: 187, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
25 33 0.18
26 154 0.82
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:20937575 original size:52 final size:52
Alignment explanation
Indices: 20937464--20937690 Score: 440
Period size: 52 Copynumber: 4.4 Consensus size: 52
20937454 CCTCTTTAAT
20937464 AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
20937514 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
20937566 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
20937618 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
20937670 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
20937691 GCACTTCCTC
Statistics
Matches: 175, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
50 10 0.06
51 25 0.14
52 140 0.80
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:20938581 original size:27 final size:27
Alignment explanation
Indices: 20938492--20938584 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
20938482 GGGCATATTC
* * *
20938492 GTCATTTTACCATACAGGCG-TATTACG
1 GTCACTTTACCTTACAGGGGCT-TTACG
*
20938519 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCTTACAGGGGCTTTACG
20938546 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCTTACAGGGGCTTTACG
**
20938573 GTCTTTTTACCT
1 GTCACTTTACCT
20938585 AATAGGGGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.35
Consensus pattern (27 bp):
GTCACTTTACCTTACAGGGGCTTTACG
Found at i:20938591 original size:27 final size:27
Alignment explanation
Indices: 20938514--20938592 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 27
20938504 TACAGGCGTA
20938514 TTACGGTCACTTTACCCT-ACAGGGGCT
1 TTACGGTCACTTTA-CCTAACAGGGGCT
*
20938541 TTACGGTCACTTTACCTTACAGGGGCT
1 TTACGGTCACTTTACCTAACAGGGGCT
** *
20938568 TTACGGTCTTTTTACCTAATAGGGG
1 TTACGGTCACTTTACCTAACAGGGG
20938593 TATTTTAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
TTACGGTCACTTTACCTAACAGGGGCT
Found at i:20938667 original size:27 final size:27
Alignment explanation
Indices: 20938614--20939000 Score: 181
Period size: 27 Copynumber: 14.3 Consensus size: 27
20938604 TTTCATCCTA
* * * * * *
20938614 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
20938641 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** *
20938668 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTCGGTAA-TTTTATAAA-T
* * *
20938697 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
20938724 CAGGGGTATTTCGATAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
** * * *
20938751 TGAGGATATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
20938777 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTCGGTAATTTTATAAAT
* *
20938804 CTAGGGATATTTTGGTAATTTTATAAAT
1 CAAGGG-TATTTCGGTAATTTTATAAAT
** * *
20938832 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
* ** * * * *
20938859 CAGGGGTATTTTAGCAATTATACAGAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
* * *
20938886 -TAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTCGGTAATTTTA-TAAAT
* * * *
20938912 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAT
** *
20938939 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAT
** ** * *
20938966 TGAGGGTAAAAT-AGTAATTTTGTAAAT
1 CAAGGGT-ATTTCGGTAATTTTATAAAT
20938993 CAAGGGTA
1 CAAGGGTA
20939001 AAACAATAAT
Statistics
Matches: 281, Mismatches: 70, Indels: 19
0.76 0.19 0.05
Matches are distributed among these distances:
26 25 0.09
27 223 0.79
28 19 0.07
29 14 0.05
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAT
Found at i:20938825 original size:81 final size:80
Alignment explanation
Indices: 20938727--20938957 Score: 264
Period size: 81 Copynumber: 2.9 Consensus size: 80
20938717 TGTAAATCAG
* * * * * *
20938727 GGGTATTTCGATAATTTTACAAATTGAGGATATTTCGGTAATTTCACAAACTAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAG
* *
20938792 TAATTTTACAAACTA
66 CAATTATACAAACTA
* *
20938807 GGGATATTTTGGTAATTTTATAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTA
1 GGG-TATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTA
* *
20938872 GCAATTATACAGATTA
65 GCAATTATACAAACTA
** * * *** *
20938888 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAG
*
20938953 TAATT
66 CAATT
20938958 TTGTAAATTG
Statistics
Matches: 129, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 61 0.47
81 68 0.53
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGGGGTATTTTAG
CAATTATACAAACTA
Found at i:20939001 original size:27 final size:27
Alignment explanation
Indices: 20938925--20939056 Score: 115
Period size: 27 Copynumber: 4.9 Consensus size: 27
20938915 GGGTATTTTG
* ***
20938925 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTTTGTAAATCAAGGGTAAAATA
**
20938952 GTAATTTTGTAAATTGAGGGTAAAATA
1 GTAATTTTGTAAATCAAGGGTAAAATA
*
20938979 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTTTGTAAATCAAGGGTAAAATA
* * * * *
20939006 ATAATTCTATAAATCGAGGGTAAAA-C
1 GTAATTTTGTAAATCAAGGGTAAAATA
*
20939032 GATAATTCTGTAAATCGAA-GGTAAA
1 G-TAATTTTGTAAATC-AAGGGTAAA
20939057 CGGTAATTCT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
27 85 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.33
Consensus pattern (27 bp):
GTAATTTTGTAAATCAAGGGTAAAATA
Found at i:20939011 original size:54 final size:53
Alignment explanation
Indices: 20938925--20939080 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 53
20938915 GGGTATTTTG
* **** * * * *
20938925 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAATA
1 GTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAA-A
*
20938979 GTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAAC
1 GTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAAA
* **
20939032 GATAATTCTGTAAATCGAA-GGT-AAACGGTAATTCTATAAATCGAGGGTA
1 G-TAATTTTGTAAATC-AAGGGTAAAACAATAATTCTATAAATCGAGGGTA
20939081 CTTTGGTAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
53 26 0.30
54 59 0.68
55 2 0.02
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (53 bp):
GTAATTTTGTAAATCAAGGGTAAAACAATAATTCTATAAATCGAGGGTAAAAA
Found at i:20942631 original size:17 final size:17
Alignment explanation
Indices: 20942609--20942650 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
20942599 AATTGGGCTG
20942609 TGTGGGCCCAATGGGCC
1 TGTGGGCCCAATGGGCC
20942626 TGTGGGCCCAATGGGCC
1 TGTGGGCCCAATGGGCC
20942643 TGTGGGCC
1 TGTGGGCC
20942651 ACACACGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.10, C:0.29, G:0.43, T:0.19
Consensus pattern (17 bp):
TGTGGGCCCAATGGGCC
Found at i:20952422 original size:46 final size:46
Alignment explanation
Indices: 20952364--20952535 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
20952354 TCACTTGTGT
* *
20952364 GAGCTAGTGTAAGACATGTCTGGGACATGCATCTGCTACATTATG-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCT-CATTATGAA
20952410 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG--CATTGA-GAA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTCATT-ATGAA
* ** *
20952456 GAGCGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA
1 GAGC-C-AGTGTAAGACATGTCTGGGACATGCATCAG-CTCATTATGAA
20952505 -AGCCAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT
20952536 TGGCCATGAA
Statistics
Matches: 110, Mismatches: 6, Indels: 20
0.81 0.04 0.15
Matches are distributed among these distances:
45 5 0.05
46 52 0.47
47 30 0.27
48 19 0.17
49 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTCATTATGAA
Found at i:20953783 original size:21 final size:20
Alignment explanation
Indices: 20953749--20953788 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20953739 GTGAAATTGG
*
20953749 CCACACGGGCGTGTTGCCCTT
1 CCACACGAGCGTG-TGCCCTT
*
20953770 CCACACGAGTGTGTGCCCT
1 CCACACGAGCGTGTGCCCT
20953789 ATTTCCAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACGAGCGTGTGCCCTT
Found at i:20955697 original size:19 final size:20
Alignment explanation
Indices: 20955660--20955697 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20955650 AAGGATAAGT
20955660 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
20955680 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
20955698 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:20957551 original size:34 final size:34
Alignment explanation
Indices: 20957508--20957574 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
20957498 GAGTTTGTTC
20957508 GATTAAGTAAGTATGCCAGGGAATATGTGCCTAA
1 GATTAAGTAAGTATGCCAGGGAATATGTGCCTAA
* *
20957542 GATTAAGTAAGTATGCTAGGGAATATGTTCCTA
1 GATTAAGTAAGTATGCCAGGGAATATGTGCCTA
20957575 CAGAAGCCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (34 bp):
GATTAAGTAAGTATGCCAGGGAATATGTGCCTAA
Found at i:20964833 original size:46 final size:46
Alignment explanation
Indices: 20964783--20964955 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
20964773 TGGTTGAGCA
*
20964783 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
20964829 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
20964876 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
20964922 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
20964956 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:20964939 original size:93 final size:93
Alignment explanation
Indices: 20964780--20964950 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
20964770 GGATGGTTGA
* *
20964780 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
20964845 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
20964873 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
20964938 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
20964951 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20967079 original size:49 final size:49
Alignment explanation
Indices: 20967014--20967323 Score: 166
Period size: 49 Copynumber: 6.6 Consensus size: 49
20967004 ATCAAAGTCA
*
20967014 ATGCTATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTT-ATATATCGAGGCCG
* * * * * *
20967063 ATGCCGTGTCCCAGACAGGTCTTACATTGGCTCTTATCTATCGATGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGAGGCCG
* * * * * * * *
20967112 ATGCCATGTCCCAAACAAGTCCTACACTAACAC--ACA-A-C-AAGCTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGAGGCCG
* * * *
20967156 ACGCCATGTCCCAGATAGGTCCTACACT-AGCT-TCTATATCTCGAGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCT-TATATATCGAGGCCG
* * * ** * * *
20967205 ATG-CATCTCCCATACATGTCTTACACT-AGCTC-T-CGTCTCAATGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGA-CTCTTATATATCGAGGCCG
* * * * *
20967251 ATG-CATGTCCCAGACATGTGTTACACTGGCTCTCATA-AT-GGGGCCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGAGGCCG
* *
20967297 ATG-CATGTCCCAAACATGTCTTACACT
1 ATGCCATGTCCCAGACAGGTCTTACACT
20967324 AGCACACATA
Statistics
Matches: 197, Mismatches: 52, Indels: 27
0.71 0.19 0.10
Matches are distributed among these distances:
43 1 0.01
44 28 0.14
45 1 0.01
46 68 0.35
47 3 0.02
48 24 0.12
49 70 0.36
50 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTTATATATCGAGGCCG
Found at i:20967262 original size:46 final size:44
Alignment explanation
Indices: 20967200--20967326 Score: 148
Period size: 46 Copynumber: 2.8 Consensus size: 44
20967190 TATATCTCGA
* * *
20967200 GGCCGATGCATCTCCCATACATGTCTTACACTAGCTCTCGTCTCAAT
1 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTC--AT-AAT
* * *
20967247 -GCCGATGCATGTCCCAGACATGTGTTACACTGGCTCTCATAAT
1 GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAAT
20967290 GGGGCCGATGCATGTCCCAAACATGTCTTACACTAGC
1 --GGCCGATGCATGTCCCAAACATGTCTTACACTAGC
20967327 ACACATATTA
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
46 65 0.94
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (44 bp):
GGCCGATGCATGTCCCAAACATGTCTTACACTAGCTCTCATAAT
Found at i:20989912 original size:27 final size:27
Alignment explanation
Indices: 20989882--20990059 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20989872 ATATTGAGTC
* * * *
20989882 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
20989909 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20989936 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
20989964 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
20989991 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
20990018 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20990045 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20990060 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:20990021 original size:82 final size:81
Alignment explanation
Indices: 20989903--20990058 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20989893 TGCTATATAA
* *
20989903 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
20989968 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
20989985 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
20990049 CACTTAGTGC
65 CACTTAGTGC
20990059 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:20997437 original size:34 final size:34
Alignment explanation
Indices: 20997399--20997465 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
20997389 TAGTAACAGT
* *
20997399 TCAGTTTCAGT-TAGGGCCTTAGCCTATTACAATA
1 TCAGTATCAGTGT-GGGCCTTAGCCCATTACAATA
*
20997433 TCAGTATCAGTGTGGGCCTTAGCCCATTTCAAT
1 TCAGTATCAGTGTGGGCCTTAGCCCATTACAAT
20997466 GTCGATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.34
Consensus pattern (34 bp):
TCAGTATCAGTGTGGGCCTTAGCCCATTACAATA
Found at i:20999047 original size:50 final size:50
Alignment explanation
Indices: 20998920--20999323 Score: 357
Period size: 50 Copynumber: 8.0 Consensus size: 50
20998910 CCAATGATCC
* * * ***
20998920 ATTGTAAGATCACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * * * *
20998970 ATAGTTTTAGGTCACGTGTGTAGTACTAAGTGTACGCTACTACGTGTACCAG
1 AT--TGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * ** *
20999022 ATTGTTAGGTCGCATGTGTAGTACTAAATGCAGGCTACTACATGTA-TATG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA-G
* ** * *
20999072 ATGGTTAGGTCACATGTGTAGTACTAAGTTTAGGCTACCATGTGTATC-G
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * **
20999121 AATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACTC-G
1 -ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAG
* * * ** * * *
20999172 -TTAACTTTGATCACATGTGTAGTACTAAAAGAAGGCTACTACGTGTATCAG
1 ATT--GTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * * *
20999223 ATGGCTAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
* * *
20999273 ATTGATAGGTCACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAG
1 ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
20999323 A
1 A
20999324 GAGCTTCGGT
Statistics
Matches: 277, Mismatches: 67, Indels: 20
0.76 0.18 0.05
Matches are distributed among these distances:
49 4 0.01
50 198 0.71
51 35 0.13
52 40 0.14
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
ATTGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAG
Found at i:20999226 original size:151 final size:151
Alignment explanation
Indices: 20998924--20999319 Score: 424
Period size: 151 Copynumber: 2.6 Consensus size: 151
20998914 TGATCCATTG
* * *** ** *
20998924 TAAGATCACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGT
1 TAAG-TCACATGTGTAGTACTAAGTGCAGGCTACCATGTGTACCAGAT--TGATAGGTCACATGT
* * *** * * * * *
20998989 GTAGTACTAAGTGTACGCTACTACGTGTAC-CAGATT--GTTAGGTCGCATGTGTAGTACTAAAT
63 GTAGTACTAAGTGCAGGCTACTATACGTACTC-G-TTAACTTTGATCACATGTGTAGTACTAAAA
* *
20999051 GCAGGCTACTACATGTATATGATGGT
126 GAAGGCTACTACATGTATATGATGGC
* ** * *
20999077 TAGGTCACATGTGTAGTACTAAGTTTAGGCTACCATGTGTATC-GAATTGATAGGTCGCATGTGT
1 TAAGTCACATGTGTAGTACTAAGTGCAGGCTACCATGTGTACCAG-ATTGATAGGTCACATGTGT
20999141 AGTACTAAGTGCAGGCTACTATACGTACTCGTTAACTTTGATCACATGTGTAGTACTAAAAGAAG
65 AGTACTAAGTGCAGGCTACTATACGTACTCGTTAACTTTGATCACATGTGTAGTACTAAAAGAAG
*
20999206 GCTACTACGTGTATCA-GATGGC
130 GCTACTACATGTAT-ATGATGGC
* *
20999228 TAAGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAGGTCACATGTGTA
1 TAAGTCACATGTGTAGTACTAAGTGCAGGCTACCATGTGTACCAGATTGATAGGTCACATGTGTA
* *
20999293 GTACTAAGTGTAGGCTACTATGCGTAC
66 GTACTAAGTGCAGGCTACTATACGTAC
20999320 CAGAGAGCTT
Statistics
Matches: 204, Mismatches: 33, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
149 2 0.01
150 37 0.18
151 125 0.61
152 37 0.18
153 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (151 bp):
TAAGTCACATGTGTAGTACTAAGTGCAGGCTACCATGTGTACCAGATTGATAGGTCACATGTGTA
GTACTAAGTGCAGGCTACTATACGTACTCGTTAACTTTGATCACATGTGTAGTACTAAAAGAAGG
CTACTACATGTATATGATGGC
Found at i:21002879 original size:15 final size:15
Alignment explanation
Indices: 21002836--21002895 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
21002826 TATGATATTG
*
21002836 TATCTTGGATTTCCT
1 TATCTTGGATTTCTT
21002851 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
*
21002866 TATCTTGGACTTCTT
1 TATCTTGGATTTCTT
* * *
21002881 AATCCTGGTTTTCTT
1 TATCTTGGATTTCTT
21002896 GTTATCTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.55
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:21005965 original size:50 final size:50
Alignment explanation
Indices: 21005889--21006216 Score: 377
Period size: 50 Copynumber: 6.5 Consensus size: 50
21005879 TTTAGCTCAA
* * * * * * *
21005889 GTGTGTAGTACTAAATACAGGTTACTACGTGTACCAGATTGTTATGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGTCAC
* ** * * * * * *
21005939 ATGTGTAGTACTAAGTGCAGGCTACTATATGTACCCGATAGTTTCGATCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTG-ATAGGTCAC
* * * *
21005990 GTGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGTCAC
* *
21006040 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGATTGATAGGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGTCAC
* * * * *
21006090 GTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGATGGATAAGTCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGTCAC
* *
21006140 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGATAGGTCAT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGTCAC
*
21006190 ATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
21006217 TGCGTACCAG
Statistics
Matches: 239, Mismatches: 38, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
50 199 0.83
51 40 0.17
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (50 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGATAGGTCAC
Found at i:21006114 original size:151 final size:150
Alignment explanation
Indices: 21005838--21006227 Score: 449
Period size: 151 Copynumber: 2.6 Consensus size: 150
21005828 TGAGAACACA
* ** * * * *
21005838 TGTGTAGTACTATGTGCAGGCTACTATTTGTTTAAGACAGTTTTAGCTCAAGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGA-TG-GTTAGGTCAAGTGTGTAGTACTAA
* * * * * *
21005903 ATACAGGTTACTACGTGTACCAGATTGTTATGTCGCATGTGTAGTACTAAGTGCAGGCTACTATA
64 GTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACA
* * **
21005968 TGTACCCGATAGTTTCGATCACG
129 TGTACCAGATAGATAAG-TCACG
* * *
21005991 TGTGTAGTACTAAGTGTAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATGGTTAGGTCAAGTGTGTAGTACTAAGT
* * *
21006056 GCAGGCTACTACGTGTATCGGATTGATAGGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACATG
66 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATG
** * *
21006121 TATTAGATGGATAAGTCATG
131 TACCAGATAGATAAGTCACG
* * *
21006141 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATTGATAGGTCATA-TGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATGGTTAGGTCA-AGTGTGTAGTACTAAG
* *
21006205 TGCAGGCTACTATGCGTACCAGA
65 TGCAGGCTACTACGTGTACCAGA
21006228 GAGCTTCGGT
Statistics
Matches: 199, Mismatches: 37, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
150 80 0.40
151 87 0.44
152 1 0.01
153 31 0.16
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTATAAGATGGTTAGGTCAAGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACATG
TACCAGATAGATAAGTCACG
Found at i:21006448 original size:16 final size:16
Alignment explanation
Indices: 21006427--21006458 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21006417 AGAATGGAGT
21006427 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
21006443 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
21006459 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:21008286 original size:11 final size:11
Alignment explanation
Indices: 21008270--21008296 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21008260 ATCCACGATG
21008270 ATCCATACTAA
1 ATCCATACTAA
21008281 ATCCATACTAA
1 ATCCATACTAA
21008292 ATCCA
1 ATCCA
21008297 CTAATGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (11 bp):
ATCCATACTAA
Found at i:21015176 original size:55 final size:55
Alignment explanation
Indices: 21015092--21015205 Score: 201
Period size: 55 Copynumber: 2.1 Consensus size: 55
21015082 GCTTAAACTT
* * *
21015092 AAACTTTATACTTAGCCATTTTTGCATGGCTTAGTATATACACAACCTCAAAATC
1 AAACTTTATACTTAGCAATTTTCGCATGGCTTAATATATACACAACCTCAAAATC
21015147 AAACTTTATACTTAGCAATTTTCGCATGGCTTAATATATACACAACCTCAAAATC
1 AAACTTTATACTTAGCAATTTTCGCATGGCTTAATATATACACAACCTCAAAATC
21015202 AAAC
1 AAAC
21015206 ATATTAACTA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (55 bp):
AAACTTTATACTTAGCAATTTTCGCATGGCTTAATATATACACAACCTCAAAATC
Found at i:21017392 original size:13 final size:13
Alignment explanation
Indices: 21017374--21017400 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21017364 GAATGTATTC
21017374 ATTCGTCGTTCTA
1 ATTCGTCGTTCTA
21017387 ATTCGTCGTTCTA
1 ATTCGTCGTTCTA
21017400 A
1 A
21017401 CACGAGGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (13 bp):
ATTCGTCGTTCTA
Found at i:21018089 original size:13 final size:13
Alignment explanation
Indices: 21018071--21018097 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21018061 GAATGTATTC
21018071 ATTCGTCGTTCTA
1 ATTCGTCGTTCTA
21018084 ATTCGTCGTTCTA
1 ATTCGTCGTTCTA
21018097 A
1 A
21018098 CACGAGGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (13 bp):
ATTCGTCGTTCTA
Found at i:21039309 original size:10 final size:10
Alignment explanation
Indices: 21039294--21039333 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
21039284 CTGTATTGTA
21039294 CATGATATGC
1 CATGATATGC
21039304 CATGATATGC
1 CATGATATGC
*
21039314 ACCTGATATGC
1 -CATGATATGC
21039325 CATGATATG
1 CATGATATG
21039334 TTTATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:21039413 original size:25 final size:25
Alignment explanation
Indices: 21039379--21039448 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
21039369 GAGGAAGTGC
* *
21039379 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTCACCA
*
21039404 AAAAGGGCTTTGCCCCAGTTCATCA
1 AAAAGGGCTTTGCCCCAGTTCACCA
*
21039429 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
21039449 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTCACCA
Found at i:21039705 original size:31 final size:30
Alignment explanation
Indices: 21039669--21039752 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 30
21039659 CATTTATAGT
* *
21039669 AAAGGCTTCGACCTAGTGATATGAATAATGA
1 AAAGGCTTCGACCCAGT-ATATGAATAACGA
* *
21039700 AAAGGCTTCGGCCCAGTCATATGATTAACGA
1 AAAGGCTTCGACCCAGT-ATATGAATAACGA
21039731 AAAGGCTTCGACCCAGTATATG
1 AAAGGCTTCGACCCAGTATATG
21039753 TTGAGACTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 5 0.11
31 42 0.89
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.24
Consensus pattern (30 bp):
AAAGGCTTCGACCCAGTATATGAATAACGA
Found at i:21041825 original size:75 final size:74
Alignment explanation
Indices: 21041701--21041850 Score: 264
Period size: 75 Copynumber: 2.0 Consensus size: 74
21041691 ACTCTAGCTG
*
21041701 TGGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGTCATGTGGGCCCAATGGGCCTACGGGC
1 TGGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGCCATGTGGGCCCAATGGGCCTACGGGC
21041766 CCAATTGGA
66 CCAATTGGA
* *
21041775 TNGGGATGGCTACTTCGGGCCGTGATGGGCTGAAAGGGGCCATGTGGGCCCAATGGGCCTACGGG
1 T-GGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGCCATGTGGGCCCAATGGGCCTACGGG
21041840 CCCAATTGGA
65 CCCAATTGGA
21041850 T
1 T
21041851 AAGTTGTTTG
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
74 1 0.01
75 71 0.99
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.19
Consensus pattern (74 bp):
TGGGATGGCTACTTCGGGCCGCGATGGGCCGAAAGGGGCCATGTGGGCCCAATGGGCCTACGGGC
CCAATTGGA
Found at i:21042147 original size:27 final size:27
Alignment explanation
Indices: 21042087--21042165 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
21042077 NNNNNCGATT
**
21042087 TGTAAAATTATCGAAATACCCTC-AGTT
1 TGTAAAATTAT-GAAATACCCTCGAGCA
*
21042114 TGCAAAATTACTGAAATACCCTCGA-CA
1 TGTAAAATTA-TGAAATACCCTCGAGCA
*
21042141 TGTAAAATTATCAAAGTACCCTCGA
1 TGTAAAATTATGAAA-TACCCTCGA
21042166 ATTACAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.09
27 38 0.86
28 2 0.05
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (27 bp):
TGTAAAATTATGAAATACCCTCGAGCA
Found at i:21042174 original size:27 final size:28
Alignment explanation
Indices: 21042090--21042174 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 28
21042080 NNCGATTTGT
** *
21042090 AAAATTATCGAAATACCCTC-AGTTTGC
1 AAAATTATCGAAATACCCTCGACATTAC
21042117 AAAATTA-CTGAAATACCCTCGACATGT--
1 AAAATTATC-GAAATACCCTCGACAT-TAC
21042144 AAAATTATC-AAAGTACCCTCGA-ATTAC
1 AAAATTATCGAAA-TACCCTCGACATTAC
21042171 AAAA
1 AAAA
21042175 ATTACTATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
25 1 0.02
26 6 0.12
27 38 0.78
28 3 0.06
29 1 0.02
ACGTcount: A:0.44, C:0.21, G:0.09, T:0.26
Consensus pattern (28 bp):
AAAATTATCGAAATACCCTCGACATTAC
Found at i:21042212 original size:27 final size:27
Alignment explanation
Indices: 21042157--21042379 Score: 277
Period size: 27 Copynumber: 8.2 Consensus size: 27
21042147 ATTATCAAAG
* *
21042157 TACCCTCGAATTACAAAAATTACTATTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
*
21042185 TACCCTCGATTTACAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
21042212 TACCCTCGATTGACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
21042239 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * **
21042266 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
21042293 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
21042320 TACCCTCGATTTACAGAATTACCT-TTT
1 TACCCTCGATTTACAAAATTA-CTGTTT
* * *
21042347 CACCTTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
21042374 TACCCT
1 TACCCT
21042380 TCACATATAT
Statistics
Matches: 169, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 153 0.91
28 14 0.08
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:21042602 original size:31 final size:31
Alignment explanation
Indices: 21042567--21042636 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
21042557 TTACATTCAC
*
21042567 ATTCTGATATTGATTCTGTTACCTGATAT-TG
1 ATTCTGATATTGATTCTGTCACCTGAT-TCTG
* * *
21042598 ATTCTAATTTTGATTCTGTCACCTTATTCTG
1 ATTCTGATATTGATTCTGTCACCTGATTCTG
21042629 ATTCTGAT
1 ATTCTGAT
21042637 TCTAGTTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATATTGATTCTGTCACCTGATTCTG
Found at i:21045939 original size:46 final size:46
Alignment explanation
Indices: 21045873--21045984 Score: 145
Period size: 46 Copynumber: 2.4 Consensus size: 46
21045863 ACAAGACAGA
*
21045873 AATGAGCCATGTAAGTCCATATCAGATATATGGCTTTGGAGACAAG
1 AATGAGCCATGTAAGTCCATATCAGATATATGGCATTGGAGACAAG
* * *
21045919 AATGAGCCATGTAA-TCCCATATTATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGT-CCATATCAGATATATGGCATTGGAGACAAG
* **
21045965 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
21045985 GTCGAAGACA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 1 0.02
46 55 0.96
47 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (46 bp):
AATGAGCCATGTAAGTCCATATCAGATATATGGCATTGGAGACAAG
Found at i:21047459 original size:22 final size:22
Alignment explanation
Indices: 21047431--21047495 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
21047421 GCAAATACGT
*
21047431 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
21047453 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
21047475 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
21047496 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:21047963 original size:27 final size:27
Alignment explanation
Indices: 21047932--21048245 Score: 468
Period size: 27 Copynumber: 11.6 Consensus size: 27
21047922 TATCCCACAA
* * **
21047932 GGTATCTCGATAATTCTACCCTGTAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
21047959 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
21047986 GGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
21048013 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
21048040 GGTATTTCGGTAATTCTACCCAACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
21048067 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
21048094 GGTATTGT-GATAATTCTACCCTACAGG
1 GGTATT-TCGGTAATTCTACCCTACAGG
21048121 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
21048148 GGTATTTCGATAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
21048175 GGTATTTCGGTAATTCTACCCTACAGT
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
21048202 GGTATTTCGGTAAATCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
21048229 GGTATTTCGGTAATTCT
1 GGTATTTCGGTAATTCT
21048246 GTAAATCGAG
Statistics
Matches: 260, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
26 1 0.00
27 258 0.99
28 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:21048257 original size:27 final size:28
Alignment explanation
Indices: 21048238--21048365 Score: 140
Period size: 27 Copynumber: 4.7 Consensus size: 28
21048228 GGGTATTTCG
*
21048238 GTAATTCTGTAAATCGAGGGTAAAAT--
1 GTAATTCTATAAATCGAGGGTAAAATCA
*
21048264 GCTAATTCTATAAATTGAGGGTAAAA-CA
1 G-TAATTCTATAAATCGAGGGTAAAATCA
* * * *
21048292 GTAATTTTGTAAATCGAGGTTGAAA-CA
1 GTAATTCTATAAATCGAGGGTAAAATCA
*
21048319 GTAATTCTATAAATCGAGGGTAAAAT-G
1 GTAATTCTATAAATCGAGGGTAAAATCA
*
21048346 GTAATTCTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
21048366 CATTTCAGTA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.01
27 83 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (28 bp):
GTAATTCTATAAATCGAGGGTAAAATCA
Found at i:21048285 original size:54 final size:54
Alignment explanation
Indices: 21048238--21048365 Score: 161
Period size: 54 Copynumber: 2.4 Consensus size: 54
21048228 GGGTATTTCG
*
21048238 GTAATTCTGTAAATCGAGGGT-AAA-ATGCTAATTCTATAAATTGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTGAAACA-G-TAATTCTATAAATCGAGGGTAAAACA
* * **
21048292 GTAATTTTGTAAATCGAGGTTGAAACAGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTGAAACAGTAATTCTATAAATCGAGGGTAAAACA
**
21048346 GTAATTCTACAAATCGAGGG
1 GTAATTCTGTAAATCGAGGG
21048366 CATTTCAGTA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
54 58 0.92
55 4 0.06
56 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAGGGTGAAACAGTAATTCTATAAATCGAGGGTAAAACA
Done.