Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 98 of 316
Found at i:30222414 original size:82 final size:81
Alignment explanation
Indices: 30222301--30222456 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30222291 AAATTGTACA
* *
30222301 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30222365 TGCGAATTGACCTTGCG
65 TGCGAATTGACCTTGCG
* ** *
30222382 GCACTAAGTGTGGGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30222447 TGCGAGTTGA
65 TGCGAATTGA
30222457 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCTTGCG
Found at i:30226280 original size:75 final size:75
Alignment explanation
Indices: 30226190--30226337 Score: 269
Period size: 75 Copynumber: 2.0 Consensus size: 75
30226180 ATGATAGTAT
* *
30226190 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCTGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
30226255 ATGAATGTAA
66 ATGAATGTAA
*
30226265 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTTATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
30226330 ATGAATGT
66 ATGAATGT
30226338 GAAAGTGTAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (75 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTAA
Found at i:30226370 original size:49 final size:49
Alignment explanation
Indices: 30226265--30226442 Score: 306
Period size: 49 Copynumber: 3.7 Consensus size: 49
30226255 ATGAATGTAA
* *
30226265 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTTATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
30226312 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
30226361 GGCCTAATGGCCGATGTGATGAATGTGCAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
30226410 GGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
30226443 CCCGAAGGGC
Statistics
Matches: 124, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
47 33 0.27
49 87 0.70
50 4 0.03
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:30226616 original size:37 final size:37
Alignment explanation
Indices: 30226560--30226638 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
30226550 CCGAGCTCTA
* ** *
30226560 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGCAGATTATGTCCGGGT
*
30226597 AAGACCCGATAACTTCGTGTGCAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGCAGATTATGTCCGGGT
30226634 AAGAC
1 AAGAC
30226639 TTCGTAATAA
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:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGCAGATTATGTCCGGGT
Found at i:30245323 original size:27 final size:27
Alignment explanation
Indices: 30245293--30245469 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
30245283 ATATTGAGTC
* *
30245293 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30245320 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30245347 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30245375 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30245402 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
30245429 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
30245456 C-CACACTTAGTGCT
1 CGCACACTTAGTGCT
30245470 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
26 12 0.09
27 92 0.72
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30245385 original size:55 final size:54
Alignment explanation
Indices: 30245293--30245469 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
30245283 ATATTGAGTC
* * * * *
30245293 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
30245347 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
30245402 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
30245456 C-CACACTTAGTGCT
1 CGCACACTTAGTGCT
30245470 GTACAATTTA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
53 12 0.12
54 47 0.45
55 45 0.43
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:30245432 original size:82 final size:80
Alignment explanation
Indices: 30245314--30245468 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 80
30245304 TGCTATATAA
* *
30245314 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TC-CA
30245379 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * **
30245396 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCCAC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCCAC
30245460 ACTTAGTGC
65 ACTTAGTGC
30245469 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 12 0.18
81 3 0.05
82 51 0.77
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCCACA
CTTAGTGCCGCATGG
Found at i:30253374 original size:27 final size:27
Alignment explanation
Indices: 30253344--30253521 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
30253334 ATATTGAGTC
* *
30253344 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30253371 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30253398 CGCACACTTAGTGCTACATAGTAAAACT
1 CGCACACTTAGTGCTACATAAT-CAACT
** ** *
30253426 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
30253453 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
30253480 CGTACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30253507 CCCACACTTAGTGCT
1 CGCACACTTAGTGCT
30253522 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 99 0.81
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30254020 original size:12 final size:12
Alignment explanation
Indices: 30254003--30254028 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30253993 ATGGCATACT
30254003 TATGTATATATA
1 TATGTATATATA
30254015 TATGTATATATA
1 TATGTATATATA
30254027 TA
1 TA
30254029 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:30258385 original size:46 final size:46
Alignment explanation
Indices: 30258330--30258501 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
30258320 GGTTGAGCAC
30258330 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
* * * *
30258376 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--T
* *
30258423 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
*
30258469 CCGAGCTCGTTGAGTTGAG-CCTGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCC-GAGTTCACTTA
30258502 GGGGCGGGCT
Statistics
Matches: 105, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 56 0.53
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
Found at i:30263579 original size:51 final size:51
Alignment explanation
Indices: 30263498--30263609 Score: 161
Period size: 51 Copynumber: 2.2 Consensus size: 51
30263488 TATCCGGATA
*
30263498 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTATTCCAGATG
1 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
* * * * *
30263549 AAATTTGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAATTCCGGATG
1 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
*
30263600 AAGTATGAAG
1 AAATATGAAG
30263610 TAAGTTTGAG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.39, C:0.12, G:0.21, T:0.28
Consensus pattern (51 bp):
AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATAATTCCAGATG
Found at i:30265434 original size:27 final size:27
Alignment explanation
Indices: 30265404--30265581 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30265394 ATATTGAGTC
* * * *
30265404 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30265431 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30265458 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30265486 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30265513 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30265540 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30265567 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30265582 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:30265543 original size:82 final size:81
Alignment explanation
Indices: 30265425--30265580 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30265415 TGCTATATAA
* *
30265425 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30265490 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30265507 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30265571 CACTTAGTGC
65 CACTTAGTGC
30265581 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:30268005 original size:28 final size:28
Alignment explanation
Indices: 30267952--30268035 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
30267942 CACTTTGTGC
30267952 TATTCTAGTGTGTTTTGGATGGATTATAT
1 TATTCTAGTGTGTTTTGGA-GGATTATAT
* *
30267981 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTAGTGTGTTTTGGAGGATTATAT
* * *
30268009 GATACTAGTGTATTTTGGAGGATTATA
1 TATTCTAGTGTGTTTTGGAGGATTATA
30268036 CTAGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 31 0.65
29 17 0.35
ACGTcount: A:0.23, C:0.04, G:0.27, T:0.46
Consensus pattern (28 bp):
TATTCTAGTGTGTTTTGGAGGATTATAT
Found at i:30268247 original size:23 final size:23
Alignment explanation
Indices: 30268217--30268303 Score: 85
Period size: 21 Copynumber: 4.0 Consensus size: 23
30268207 GCTTTACTGA
*
30268217 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTTATGTGTCGTATT
* *
30268240 TCAGGCACCTTGTGTGTCGCA--
1 TCAGGCACCTTATGTGTCGTATT
**
30268261 TCAGGCACCTCGTGTGTC--ATT
1 TCAGGCACCTTATGTGTCGTATT
*
30268282 TCAGGCA-CTTATGTGTCATATT
1 TCAGGCACCTTATGTGTCGTATT
30268304 CTGATCAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 1 0.02
20 8 0.15
21 24 0.44
22 3 0.06
23 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTTATGTGTCGTATT
Found at i:30269512 original size:45 final size:46
Alignment explanation
Indices: 30269377--30269516 Score: 113
Period size: 52 Copynumber: 2.9 Consensus size: 46
30269367 GACCATGGTT
* * *
30269377 GGATCATGGCATCAGTGTGATATATGA-CCTGTGTAAGACCCTAGCTG
1 GGAT-ATGGCATCAGTGTGATATGTGATCC-GTGTAAGACCATAGCTA
* * * * *
30269424 GGCTATGGCATCAGAGATATGTGATTACGTGCTTCCGTATAAGACCATA-TTA
1 GGATATGGCATC--AG---TGTGA-TATGTG-ATCCGTGTAAGACCATAGCTA
30269476 GGATATGGCATCAGTGTGATATGTGATCCGTGTAAGACCAT
1 GGATATGGCATCAGTGTGATATGTGATCCGTGTAAGACCAT
30269517 GGTTGGGCTA
Statistics
Matches: 73, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
45 14 0.19
46 13 0.18
47 8 0.11
48 2 0.03
50 2 0.03
51 5 0.07
52 16 0.22
53 11 0.15
54 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (46 bp):
GGATATGGCATCAGTGTGATATGTGATCCGTGTAAGACCATAGCTA
Found at i:30271885 original size:51 final size:51
Alignment explanation
Indices: 30271804--30271915 Score: 152
Period size: 51 Copynumber: 2.2 Consensus size: 51
30271794 TATCCGAATA
* * *
30271804 AAATATGAAGCTCTTGTTAAAGCTAGAGCAACAAAGTAATTATTCCGGATG
1 AAATATGAAGCTATTGCTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
* * * *
30271855 AAATTTGAAGCTATTGCTGAAGTTAGAGCAACAAGGTAATAATTCCGGATG
1 AAATATGAAGCTATTGCTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
*
30271906 AAGTATGAAG
1 AAATATGAAG
30271916 TAAGTTTGAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (51 bp):
AAATATGAAGCTATTGCTAAAGCTAGAGCAACAAAGTAATAATTCCGGATG
Found at i:30274453 original size:18 final size:18
Alignment explanation
Indices: 30274403--30274454 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
30274393 CTTTGTATGG
* *
30274403 GTGTAAGTCCCGAACGCC
1 GTGTAAGTCCCAAATGCC
* *
30274421 GGGTAAGTCCTAAATGCC
1 GTGTAAGTCCCAAATGCC
30274439 GTGTAAGTCCCAAATG
1 GTGTAAGTCCCAAATG
30274455 TCTTTATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (18 bp):
GTGTAAGTCCCAAATGCC
Found at i:30276345 original size:47 final size:48
Alignment explanation
Indices: 30276273--30276443 Score: 169
Period size: 46 Copynumber: 3.7 Consensus size: 48
30276263 GGGTTATTGT
* *
30276273 GAGCTAGTGTAAGACATGTCCGGGACATGGCATCGGCATTGAGACG-A
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
* * * *
30276320 GAGCTAGTGTATGACATGTTTGGGACAT-GCATCAGCCTTGAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
* * * *
30276367 -AGCCAGTGTAAGACATGTCTGGGACAT-GCAT-TG-ACT-ACGA-GTT
1 GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGA-GACGTA
*
30276410 GAGCTAGTGTAAGACCATGTCCGGGACATGGCAT
1 GAGCTAGTGTAAGA-CATGTCTGGGACATGGCAT
30276444 TGGCATCCTA
Statistics
Matches: 104, Mismatches: 15, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
43 3 0.03
44 15 0.14
45 14 0.13
46 46 0.44
47 26 0.25
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCATTGAGACGTA
Found at i:30285169 original size:6 final size:6
Alignment explanation
Indices: 30285158--30285226 Score: 68
Period size: 6 Copynumber: 11.3 Consensus size: 6
30285148 AATCCTCCTA
* * *
30285158 TTTTAT TTTTAT TTTTA- TTTTAT TTTATTT ATTTTAT TCTTAT TTTTCT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT TTTTAT
* *
30285207 TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TT
30285227 CAATTTTCTT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 5 0.10
6 39 0.76
7 4 0.08
8 3 0.06
ACGTcount: A:0.16, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:30285190 original size:4 final size:5
Alignment explanation
Indices: 30285156--30285226 Score: 63
Period size: 5 Copynumber: 13.0 Consensus size: 5
30285146 TGAATCCTCC
30285156 TATTT TATTTT TATTTT TATTT TATTT TA-TT TATTT TATTCT TATTTT
1 TATTT TA-TTT TA-TTT TATTT TATTT TATTT TATTT TATT-T TA-TTT
*
30285204 TCTTT TGATTTT TATTT TCATTT
1 TATTT T-A-TTT TATTT T-ATTT
30285227 CAATTTTCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
4 4 0.07
5 26 0.46
6 21 0.37
7 6 0.11
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:30285191 original size:31 final size:33
Alignment explanation
Indices: 30285156--30285220 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 33
30285146 TGAATCCTCC
*
30285156 TATTTTATTTTTATTTTTATTTT-A-TTTTATT
1 TATTTTATTCTTATTTTTATTTTGATTTTTATT
*
30285187 TATTTTATTCTTATTTTTCTTTTGATTTTTATT
1 TATTTTATTCTTATTTTTATTTTGATTTTTATT
30285220 T
1 T
30285221 TCATTTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 21 0.70
32 1 0.03
33 8 0.27
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (33 bp):
TATTTTATTCTTATTTTTATTTTGATTTTTATT
Found at i:30289359 original size:66 final size:66
Alignment explanation
Indices: 30289274--30289460 Score: 275
Period size: 66 Copynumber: 2.8 Consensus size: 66
30289264 AACACTCAGT
* * * *
30289274 ACCACCCATGTGACCTAGCCAATTTATCTCGTAGGTATCTTGTCTACATGGTGTCCTTCACCTGG
1 ACCACGCATGCGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
30289339 A
66 A
* * *
30289340 ACCACGCATGCTACCTAGCCAGTTTATCTTGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
1 ACCACGCATGCGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
30289405 A
66 A
* * *
30289406 ACCACGCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGT
1 ACCACGCATGCGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGT
30289461 ACACACAGTA
Statistics
Matches: 107, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
66 78 0.73
67 29 0.27
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (66 bp):
ACCACGCATGCGACCTAGCCAATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCTGG
A
Found at i:30292606 original size:281 final size:280
Alignment explanation
Indices: 30292104--30292650 Score: 952
Period size: 281 Copynumber: 1.9 Consensus size: 280
30292094 CTAATTGTTC
* *
30292104 ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGTTTTGTTGATAGATAAGAATGGGTAT
1 ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGGTTTGTTGATAGATAAGAAGGGGTAT
*
30292169 GAATTAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTATA
66 GAATGAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTATA
*
30292234 ATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGTTGT
131 ATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGGTGT
*
30292299 GACTAATTGAATGTGTAATAGGATGACATTACAAAGATGTGAAAGTGCCATGTTGTTGAATAATT
196 GACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATAATT
30292364 GAGTGTGTAATTGTTCATGA
261 GAGTGTGTAATTGTTCATGA
* * * *
30292384 ATGCATGCATTTGTTAATGCGTTGATGA-CGTGCTATGTGGTTTGTTTGATGGATATGAAGGGGT
1 ATGCATGCATGTGTTAATGCCTTGATGATC-TGCTATGTGGTTTG-TTGATAGATAAGAAGGGGT
30292448 ATGAATGAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTA
64 ATGAATGAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTA
*
30292513 TAATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACGAAATGGT
129 TAATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGGT
* * *
30292578 GTGGCTAATTGAATGTGTAATAGGATGACATTACGAAGAAGTGAAAGTGCCATGTTGTTGAATTA
194 GTGACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATAA
30292643 TTGAGTGT
259 TTGAGTGT
30292651 CTAAATATGT
Statistics
Matches: 252, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
279 1 0.00
280 39 0.15
281 212 0.84
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (280 bp):
ATGCATGCATGTGTTAATGCCTTGATGATCTGCTATGTGGTTTGTTGATAGATAAGAAGGGGTAT
GAATGAAGTACATGAAAATAAGGAATGACTTAATGACTTAAGATGACTATAATCATGAAGGTATA
ATTTGAAGTTATGATAACAAAGTTGGTTATGCATGAAGTTGATGTGGAATGCTACCAAATGGTGT
GACTAATTGAATGTGTAATAGGATGACATTACAAAGAAGTGAAAGTGCCATGTTGTTGAATAATT
GAGTGTGTAATTGTTCATGA
Found at i:30295219 original size:22 final size:22
Alignment explanation
Indices: 30295189--30295239 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
30295179 TATTACTCCG
30295189 TACAAGATGGCTCCGACTGAGC
1 TACAAGATGGCTCCGACTGAGC
*
30295211 TACAGGATGGCTCCGACTGAGC
1 TACAAGATGGCTCCGACTGAGC
*
30295233 TAAAAGA
1 TACAAGA
30295240 ATTAAAGTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (22 bp):
TACAAGATGGCTCCGACTGAGC
Found at i:30302189 original size:63 final size:64
Alignment explanation
Indices: 30302109--30302316 Score: 206
Period size: 67 Copynumber: 3.2 Consensus size: 64
30302099 CATAATTTTG
* * * *
30302109 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGT-T-TATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCCA-TATATATCCCGT
30302171 A
64 A
* * * * *
30302172 GCTCTCTTGTCTACATGGTGTCCTTCACCTAGAACCACGCATGCGACCTAGCTATATATATCCCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCCATATATATCCCG
30302237 TA
63 TA
* * *
30302239 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGC--CAT-AT-ATATCCC
30302304 GTA
62 GTA
30302307 GCTCTCTTGT
1 GCTCTCTTGT
30302317 ACACATGATG
Statistics
Matches: 119, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.15
64 24 0.20
65 1 0.01
66 27 0.23
67 30 0.25
68 18 0.15
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCCATATATATCCCGTA
Found at i:30305444 original size:48 final size:47
Alignment explanation
Indices: 30305387--30305918 Score: 405
Period size: 48 Copynumber: 11.3 Consensus size: 47
30305377 AATCCCATAA
* *
30305387 AAGACCATATCTGGGATATGACATCGGCATCGGAAAGAGATCCAGTCT
1 AAGACCATATCTGGGATATGACATCGGCATC-GAATGAGATCCAGTGT
* * *
30305435 AAGATCATATCTGGGATATGGCATCGACATCGAGATGAGATCTC-GTGT
1 AAGACCATATCTGGGATATGACATCGGCATCGA-ATGAGATC-CAGTGT
* * *
30305483 AAGACCATATCTAGGATATGGCATCGGCATCAGTATGAGATCCCA-TGT
1 AAGACCATATCTGGGATATGACATCGGCATC-GAATGAGAT-CCAGTGT
* * *
30305531 AAAACCATATCTGGGATATGACATCGGCGTCGAAATGAGATCCCGTGT
1 AAGACCATATCTGGGATATGACATCGGCATCG-AATGAGATCCAGTGT
*
30305579 AAGACCATATCTAGGATAT-AGCATCGGCATCGAGATGAGATCTC-GTGT
1 AAGACCATATCTGGGATATGA-CATCGGCATCGA-ATGAGATC-CAGTGT
* ** * * * *
30305627 AAGACAATATCCCGGATATGGCATCAGCATTAGTATGAGATCTCA-TGT
1 AAGACCATATCTGGGATATGACATCGGCA-TCGAATGAGATC-CAGTGT
** * * *
30305675 AAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCGTAT
1 AAGACCATATCTGGGATATGACATCGGCATCGA-ATGAGATCCAGTGT
* *
30305723 AAGACCATATCTGGGATAT---A---GCATC----GACATCGAGTGT
1 AAGACCATATCTGGGATATGACATCGGCATCGAATGAGATCCAGTGT
** * * *
30305760 AAGACCATATCCAGGATATGGCATTGGCATCAGTATGAGATCCCA-TGT
1 AAGACCATATCTGGGATATGACATCGGCATC-GAATGAGAT-CCAGTGT
* * * * *
30305808 AAGACCATATCTGGGATATGGCATTGGCATCGATATGAGGTCCCGTAT
1 AAGACCATATCTGGGATATGACATCGGCATCGA-ATGAGATCCAGTGT
* * * * * *
30305856 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTC-GTGT
1 AAGACCATATCTGGGATATGACATCGGCATCG-AATGAGA-TCCAGTGT
*
30305904 AAGACCATAGCTGGG
1 AAGACCATATCTGGG
30305919 CTGTTGGCAT
Statistics
Matches: 392, Mismatches: 61, Indels: 62
0.76 0.12 0.12
Matches are distributed among these distances:
37 25 0.06
40 1 0.00
42 5 0.01
43 5 0.01
45 1 0.00
47 12 0.03
48 333 0.85
49 10 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (47 bp):
AAGACCATATCTGGGATATGACATCGGCATCGAATGAGATCCAGTGT
Found at i:30305508 original size:96 final size:95
Alignment explanation
Indices: 30305387--30305918 Score: 477
Period size: 96 Copynumber: 5.7 Consensus size: 95
30305377 AATCCCATAA
* * * * *
30305387 AAGACCATATCTGGGATATGACATCGGCATCGGAAAGAGATCCAGTCTAAGATCATATCTGGGAT
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGATCCAGTGTAAGACCATATCTGGGAT
*
30305452 ATGGCATCGACATCGAGATGAGATCTCGTGT
65 ATGGCATCGACATCGAGATGAGATCCCGTGT
* *
30305483 AAGACCATATCTAGGATATGGCATCGGCATCAGTATGAGATCCCA-TGTAAAACCATATCTGGGA
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGAT-CCAGTGTAAGACCATATCTGGGA
* * * *
30305547 TATGACATCGGCGTCGAAATGAGATCCCGTGT
64 TATGGCATCGACATCGAGATGAGATCCCGTGT
* * **
30305579 AAGACCATATCTAGGATATAGCATCGGCATCGAGATGAGATCTC-GTGTAAGACAATATCCCGGA
1 AAGACCATATCTAGGATATGGCATCGGCATCGA-ATGAGATC-CAGTGTAAGACCATATCTGGGA
* * *
30305643 TATGGCATC-AGCAT-TAGTATGAGATCTCATGT
64 TATGGCATCGA-CATCGAG-ATGAGATCCCGTGT
* * * * *
30305675 AAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGAT
1 AAGACCATATCTAGGATATGGCATCGGCATCGA-ATGAGATCCAGTGTAAGACCATATCTGGGAT
*
30305740 ATAGCATCGACATC-------GA----GTGT
65 ATGGCATCGACATCGAGATGAGATCCCGTGT
* * *
30305760 AAGACCATATCCAGGATATGGCATTGGCATCAGTATGAGATCCCA-TGTAAGACCATATCTGGGA
1 AAGACCATATCTAGGATATGGCATCGGCATC-GAATGAGAT-CCAGTGTAAGACCATATCTGGGA
* * * * *
30305824 TATGGCATTGGCATCGATATGAGGTCCCGTAT
64 TATGGCATCGACATCGAGATGAGATCCCGTGT
* * * * * * *
30305856 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTC-GTGTAAGACCATAGCTGGG
1 AAGACCATATCTAGGATATGGCATCGGCATCG-AATGAGA-TCCAGTGTAAGACCATATCTGGG
30305919 CTGTTGGCAT
Statistics
Matches: 354, Mismatches: 57, Indels: 50
0.77 0.12 0.11
Matches are distributed among these distances:
85 68 0.19
86 2 0.01
89 2 0.01
92 1 0.00
95 5 0.01
96 271 0.77
97 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (95 bp):
AAGACCATATCTAGGATATGGCATCGGCATCGAATGAGATCCAGTGTAAGACCATATCTGGGATA
TGGCATCGACATCGAGATGAGATCCCGTGT
Found at i:30305612 original size:144 final size:143
Alignment explanation
Indices: 30305369--30305912 Score: 662
Period size: 144 Copynumber: 3.8 Consensus size: 143
30305359 ATGACATGTG
* ** *
30305369 AGTATTGAAATCCCATAAAAGACCATATCTGGGATATGACATCGGCATCGGAAA-GAGATCCAGT
1 AGTA-TGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATC-GAAATGAGATCCCGT
* * * * *
30305433 CTAAGATCATATCTGGGATATGGCATCGACATCGAGATGAGATCTCGTGTAAGACCATATCTAGG
64 ATAAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGA-CTCGTGTAAGACCATATCCAGG
30305498 ATATGGCATCGGCATC
128 ATATGGCATCGGCATC
* * *
30305514 AGTATGAGATCCCATGTAAAACCATATCTGGGATATGACATCGGCGTCGAAATGAGATCCCGTGT
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
* * *
30305579 AAGACCATATCTAGGATATAGCATCGGCATCGAGATGAGATCTCGTGTAAGACAATATCCCGGAT
66 AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGA-CTCGTGTAAGACCATATCCAGGAT
* *
30305644 ATGGCATCAGCATT
130 ATGGCATCGGCATC
* **
30305658 AGTATGAGATCTCATGTAAGACCATATCAAGGATATGACATCGGCATC-AACATGAGATCCCGTA
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAA-ATGAGATCCCGTA
*
30305722 TAAGACCATATCTGGGATATAGCATC-G-A-C---AT-CGA---GTGTAAGACCATATCCAGGAT
65 TAAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGACTCGTGTAAGACCATATCCAGGAT
*
30305777 ATGGCATTGGCATC
130 ATGGCATCGGCATC
* * * *
30305791 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCGATATGAGGTCCCGTAT
1 AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
* * * * **
30305856 AAGACCATGTCTGGGACATGGCATCGGCATTGTTATGAGACTTCGTGTAAGACCATA
66 AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGAC-TCGTGTAAGACCATA
30305913 GCTGGGCTGT
Statistics
Matches: 344, Mismatches: 41, Indels: 29
0.83 0.10 0.07
Matches are distributed among these distances:
133 108 0.31
134 2 0.01
135 1 0.00
137 2 0.01
138 2 0.01
139 2 0.01
140 2 0.01
141 1 0.00
142 1 0.00
143 7 0.02
144 212 0.62
145 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.25
Consensus pattern (143 bp):
AGTATGAGATCCCATGTAAGACCATATCTGGGATATGACATCGGCATCGAAATGAGATCCCGTAT
AAGACCATATCTGGGATATAGCATCGGCATCGAGATGAGACTCGTGTAAGACCATATCCAGGATA
TGGCATCGGCATC
Found at i:30305778 original size:85 final size:85
Alignment explanation
Indices: 30305672--30305840 Score: 248
Period size: 85 Copynumber: 2.0 Consensus size: 85
30305662 TGAGATCTCA
*
30305672 TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGG
1 TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCATATAAGACCATATCTGG
30305737 GATATAGCATCGACATCGAG
66 GATATAGCATCGACATCGAG
* * * ** *
30305757 TGTAAGACCATATCCAGGATATGGCATTGGCATCAGTATGAGATCCCATGTAAGACCATATCTGG
1 TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCATATAAGACCATATCTGG
* * *
30305822 GATATGGCATTGGCATCGA
66 GATATAGCATCGACATCGA
30305841 TATGAGGTCC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (85 bp):
TGTAAGACCATATCAAGGATATGACATCGGCATCAACATGAGATCCCATATAAGACCATATCTGG
GATATAGCATCGACATCGAG
Found at i:30305861 original size:133 final size:133
Alignment explanation
Indices: 30305623--30305881 Score: 374
Period size: 133 Copynumber: 1.9 Consensus size: 133
30305613 ATGAGATCTC
* * *
30305623 GTGTAAGACAATATCCCGGATATGGCATCAGCATTAGTATGAGATCTCATGTAAGACCATATCAA
1 GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
*
30305688 GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGATATAGCATCGACAT
66 GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCGACAT
30305753 CGA
131 CGA
* ** **
30305756 GTGTAAGACCATATCCAGGATATGGCATTGGCATCAGTATGAGATCCCATGTAAGACCATATCTG
1 GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
* * * * * * *
30305821 GGATATGGCATTGGCATCGATATGAGGTCCCGTATAAGACCATGTCTGGGACATGGCATCG
66 GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCG
30305882 GCATTGTTAT
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
133 110 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (133 bp):
GTGTAAGACAATATCCAGGATATGGCATCAGCATCAGTATGAGATCCCATGTAAGACCATATCAA
GGATATGACATCGGCATCAACATGAGATCCCGTATAAGACCATATCTGGGACATAGCATCGACAT
CGA
Found at i:30308538 original size:25 final size:25
Alignment explanation
Indices: 30308482--30308538 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
30308472 TGACAAAGTT
*
30308482 TGGTGGAAAGACACACAACAACATC
1 TGGTGGGAAGACACACAACAACATC
*
30308507 TAGTGGGAAGACACACAACAACATC
1 TGGTGGGAAGACACACAACAACATC
30308532 TGGTGGG
1 TGGTGGG
30308539 CTATCTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.14
Consensus pattern (25 bp):
TGGTGGGAAGACACACAACAACATC
Found at i:30309584 original size:28 final size:28
Alignment explanation
Indices: 30309544--30309602 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
30309534 GATACCACAC
* *
30309544 TTAATTATATATATTTTATTTGTAATAT
1 TTAATTATATATATATTATTTGCAATAT
30309572 TTAATTATATATATATTATTTGCAATAT
1 TTAATTATATATATATTATTTGCAATAT
30309600 TTA
1 TTA
30309603 CATTCTCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (28 bp):
TTAATTATATATATATTATTTGCAATAT
Found at i:30309771 original size:13 final size:15
Alignment explanation
Indices: 30309752--30309791 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 15
30309742 TAAATTTTTT
*
30309752 TTATTTTTGTTTA-A
1 TTATTTTTATTTACA
30309766 -TATTTTTATTTACA
1 TTATTTTTATTTACA
30309780 TTATTTTTATTT
1 TTATTTTTATTT
30309792 TATTTACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 11 0.48
14 1 0.04
15 11 0.48
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (15 bp):
TTATTTTTATTTACA
Found at i:30310628 original size:27 final size:28
Alignment explanation
Indices: 30310580--30310634 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
30310570 TCGAAATTCA
*
30310580 CACTTTAATTATAAAATAATT-AATTTT
1 CACTTAAATTATAAAATAATTAAATTTT
*
30310607 CACTTAAATTATTAACAT-ATTAAATTTT
1 CACTTAAATTA-TAAAATAATTAAATTTT
30310635 AATATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 11 0.46
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (28 bp):
CACTTAAATTATAAAATAATTAAATTTT
Found at i:30317075 original size:20 final size:20
Alignment explanation
Indices: 30317050--30317087 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
30317040 TAGTAGACTA
30317050 TATATCTAAGTTGAGGCCTG
1 TATATCTAAGTTGAGGCCTG
30317070 TATATCTAAGTTGAGGCC
1 TATATCTAAGTTGAGGCC
30317088 GAAGCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (20 bp):
TATATCTAAGTTGAGGCCTG
Found at i:30319839 original size:40 final size:40
Alignment explanation
Indices: 30319605--30319823 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
30319595 TGGATGATAA
* * *
30319605 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
30319645 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30319685 CCGGGCTAAGT-CCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
30319724 TCGGGCTAAGT-TCAAAGGCATTTGTGCGAGTTAC--TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30319761 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
30319801 CCGGGCTACGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
30319824 CGAACGAGTA
Statistics
Matches: 162, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
37 13 0.08
38 20 0.12
39 58 0.36
40 71 0.44
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:30323255 original size:3 final size:3
Alignment explanation
Indices: 30323247--30323280 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
30323237 GAGGATCTCA
*
30323247 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
30323281 TACCACAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:30330401 original size:31 final size:31
Alignment explanation
Indices: 30330364--30330425 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
30330354 ATGAAAAAGA
* *
30330364 AAAAAAATGCTATTTACGTAATTATCAGTTG
1 AAAAAAATGCTATTGACATAATTATCAGTTG
*
30330395 AAAAAAATGCTATTGGCATAATTATCAGTTG
1 AAAAAAATGCTATTGACATAATTATCAGTTG
30330426 TTTGATGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (31 bp):
AAAAAAATGCTATTGACATAATTATCAGTTG
Found at i:30333447 original size:16 final size:16
Alignment explanation
Indices: 30333426--30333463 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
30333416 GTAAAAGTCG
*
30333426 AAAAGCTGAAATGCCA
1 AAAAGCTGAAATACCA
*
30333442 AAAAGCTGAAATACCG
1 AAAAGCTGAAATACCA
30333458 AAAAGC
1 AAAAGC
30333464 CAAAAGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.18, G:0.18, T:0.11
Consensus pattern (16 bp):
AAAAGCTGAAATACCA
Found at i:30333773 original size:28 final size:29
Alignment explanation
Indices: 30333693--30333788 Score: 108
Period size: 28 Copynumber: 3.4 Consensus size: 29
30333683 TAAAGGTGAT
*
30333693 ATGGGCCATATGAATATGA-TTTGGGCCTA
1 ATGGGCCATATGAA-ATGAGATTGGGCCTA
* * *
30333722 ATGGGCCACAT-AAATGTGAATGGGCCTA
1 ATGGGCCATATGAAATGAGATTGGGCCTA
*
30333750 ATGGGCCATATGAAA-GAGATTGGGTCTA
1 ATGGGCCATATGAAATGAGATTGGGCCTA
*
30333778 GTGGGCCATAT
1 ATGGGCCATAT
30333789 ATATATAGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 3 0.05
28 40 0.71
29 13 0.23
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAAATGAGATTGGGCCTA
Found at i:30336169 original size:17 final size:17
Alignment explanation
Indices: 30336147--30336179 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30336137 ATTTTGGCAA
*
30336147 TGTGGGCCACAGGGGTG
1 TGTGGGCCACACGGGTG
30336164 TGTGGGCCACACGGGT
1 TGTGGGCCACACGGGT
30336180 AGGCTACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.21, G:0.48, T:0.18
Consensus pattern (17 bp):
TGTGGGCCACACGGGTG
Found at i:30344401 original size:13 final size:13
Alignment explanation
Indices: 30344383--30344407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30344373 CCAAACCAAA
30344383 ACATACCAAACTT
1 ACATACCAAACTT
30344396 ACATACCAAACT
1 ACATACCAAACT
30344408 CATTCATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
ACATACCAAACTT
Found at i:30344488 original size:13 final size:13
Alignment explanation
Indices: 30344470--30344496 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30344460 AAATCATACC
30344470 ATTTTCATAACTA
1 ATTTTCATAACTA
30344483 ATTTTCATAACTA
1 ATTTTCATAACTA
30344496 A
1 A
30344497 CTTACCAAAT
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:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTTCATAACTA
Found at i:30345207 original size:43 final size:42
Alignment explanation
Indices: 30345139--30345219 Score: 108
Period size: 43 Copynumber: 1.9 Consensus size: 42
30345129 AATTCCAACG
* * *
30345139 TCCAGACATGGTCTTACATGTAATCAAATATCAATGCCACTAT
1 TCCAGACAGGGTCTTACACGAAATCAAATA-CAATGCCACTAT
* *
30345182 TCCAGATAGGGTCTTACACGAAATCAAATACGATGCCA
1 TCCAGACAGGGTCTTACACGAAATCAAATACAATGCCA
30345220 ATGTAACAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 7 0.21
43 26 0.79
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (42 bp):
TCCAGACAGGGTCTTACACGAAATCAAATACAATGCCACTAT
Found at i:30364779 original size:239 final size:232
Alignment explanation
Indices: 30364311--30364782 Score: 576
Period size: 239 Copynumber: 2.0 Consensus size: 232
30364301 CCACACAGGC
* *
30364311 GTGTGAGCCCTGTAACTTGGAAAAATTTTAAAATTTCACTAAAAATTTTTAGAGTTCCGATTTAA
1 GTGTGAGCCCTGCAACTTGGAAAAATTTTAAAATTTCAC-AAAAATTCTTAGAGTTCCGATTTAA
*
30364376 GTCCCGATTCAATTCAAAAGCTCATATTGCGAAGGTCCATTTAAGGGACGTTACGAATAATCTTG
65 GTCCCGATTCAATTCAAAAGCTCATATTGCGAAGGTCCATTTAAGGGACGTTACGAACAATCTTG
* * *
30364441 GTTAATGAATAGTAATTGTTGAAATTATCTGAAAATGTTCTGAAAGTTCTAGTAATGCTTCGTAA
130 GTAAATGAATAGTAATTGTTGAAATTATCTAAAAATGTTCTGAAAGTTCTAGTAATACTTCGTAA
**** * *
30364506 CCCTATTCTGGCGATGGATACGGATTAGGGGTGTTACA
195 CCCTATTCCAAAGATGAATACGGATTAAGGGTGTTACA
* * *
30364544 GTGTGAGCCCTGCACCTTGGAAAAATTTTGAAATTATCA-AAAAATTCTTAGAGTTTTCGA-TTA
1 GTGTGAGCCCTGCAACTTGGAAAAATTTTAAAATT-TCACAAAAATTCTTAGAG-TTCCGATTTA
* ** *
30364607 AGTCTCGATTTGATTCTAAAA-CTCATATTGGGCCTCGAGGGTCCATTTAAGGGACGTTACGAAC
64 AGTCCCGATTCAATTC-AAAAGCTCATATT--G---CGAAGGTCCATTTAAGGGACGTTACGAAC
* * * *
30364671 AATTTTCGG-AAAGTGAATAGTAATTGTTGTAACTTATCTAAAAATGTTTTGAAAGTTCTGGTAA
123 AATCTT-GGTAAA-TGAATAGTAATTGTTG-AAATTATCTAAAAATGTTCTGAAAGTTCTAGTAA
*
30364735 TAC-TCTGTAACCCTATTCCAAAGATGAATACGGGTTAAGGGTGTTACA
185 TACTTC-GTAACCCTATTCCAAAGATGAATACGGATTAAGGGTGTTACA
30364783 ATAAAAGTCT
Statistics
Matches: 203, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
232 37 0.18
233 41 0.20
234 4 0.02
237 34 0.17
238 20 0.10
239 67 0.33
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (232 bp):
GTGTGAGCCCTGCAACTTGGAAAAATTTTAAAATTTCACAAAAATTCTTAGAGTTCCGATTTAAG
TCCCGATTCAATTCAAAAGCTCATATTGCGAAGGTCCATTTAAGGGACGTTACGAACAATCTTGG
TAAATGAATAGTAATTGTTGAAATTATCTAAAAATGTTCTGAAAGTTCTAGTAATACTTCGTAAC
CCTATTCCAAAGATGAATACGGATTAAGGGTGTTACA
Found at i:30385994 original size:38 final size:38
Alignment explanation
Indices: 30385950--30386122 Score: 211
Period size: 38 Copynumber: 4.5 Consensus size: 38
30385940 GCTTAAAGGT
* * * *
30385950 CCGCAGGCTTTGTGCTAGTGTTATATCTAGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
*
30385988 TCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
* *
30386026 CCGTAGGCTTCGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
** * *
30386064 CCGCAGGCTTCGTAATGGTATTATATCCGAGCTTAAAGTC
1 CCGCAGGCTTCGTGCTGGTATTATATCTG-GGTTAAA-TC
* *
30386104 CCGCAGGTTTTGTGCTGGT
1 CCGCAGGCTTCGTGCTGGT
30386123 GACTGGATTC
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
38 94 0.80
39 6 0.05
40 17 0.15
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (38 bp):
CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
Found at i:30392716 original size:38 final size:37
Alignment explanation
Indices: 30392651--30392810 Score: 221
Period size: 38 Copynumber: 4.2 Consensus size: 37
30392641 ATTTGATGTG
* *
30392651 TATCCGGGCTTAAAGGTCCGCAGGCTTCGTGCTGGTGTTA
1 TATCCGGG-TTAAA--TCTGCAGGCTTCGTGCTGGTATTA
*
30392691 TATCCGGGTTAAATCCTACAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAAT-CTGCAGGCTTCGTGCTGGTATTA
30392729 TATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCT-GCAGGCTTCGTGCTGGTATTA
* *
30392767 TATCCGGGTTAAATTCTGCAGGCTTCGTACTAGTATTA
1 TATCCGGGTTAAA-TCTGCAGGCTTCGTGCTGGTATTA
30392805 TATCCG
1 TATCCG
30392811 AGCTTAAAGT
Statistics
Matches: 111, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
37 3 0.03
38 92 0.83
39 8 0.07
40 8 0.07
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (37 bp):
TATCCGGGTTAAATCTGCAGGCTTCGTGCTGGTATTA
Found at i:30392756 original size:76 final size:76
Alignment explanation
Indices: 30392651--30392841 Score: 258
Period size: 76 Copynumber: 2.5 Consensus size: 76
30392641 ATTTGATGTG
30392651 TATCCGGGCTTAAAGGTCCGCAGGCTTCGTGCTGGTGTTATATCCGGGTTAAATCCTACAGGCTT
1 TATCCGGG-TTAAA-GTCCGCAGGCTTCGTGCTGGTGTTATATCCGGGTTAAATCCTACAGGCTT
* *
30392716 CGTGCTGGTATTA
64 CGTACTAGTATTA
* * *
30392729 TATCCGGGTTAAA-TCTCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATTCTGCAGGCTTC
1 TATCCGGGTTAAAGTC-CGCAGGCTTCGTGCTGGTGTTATATCCGGGTTAAATCCTACAGGCTTC
30392793 GTACTAGTATTA
65 GTACTAGTATTA
* * *
30392805 TATCCGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGTG
1 TATCCG-GGTTAAAGT-CCGCAGGCTTCGTGCTGGTG
30392842 ACTGGATTCG
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
75 2 0.02
76 61 0.61
77 11 0.11
78 25 0.25
79 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.34
Consensus pattern (76 bp):
TATCCGGGTTAAAGTCCGCAGGCTTCGTGCTGGTGTTATATCCGGGTTAAATCCTACAGGCTTCG
TACTAGTATTA
Found at i:30400516 original size:25 final size:25
Alignment explanation
Indices: 30400485--30400540 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
30400475 CACTATTAAA
*
30400485 CAGAGAGCA-TAAATGTGCTAATAAT
1 CAGAGAGCACT-AACGTGCTAATAAT
* *
30400510 TAGAGAGCACTAACGTGCTATTAAT
1 CAGAGAGCACTAACGTGCTAATAAT
30400535 CAGAGA
1 CAGAGA
30400541 ATGTGCGAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.23
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:30411009 original size:3 final size:3
Alignment explanation
Indices: 30410988--30411026 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
30410978 TTTATTTATG
* * *
30410988 TTA TTG TTA TTA TTT TTA TTA TTA TTA TGA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30411027 GAATTTTCCT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30413867 original size:12 final size:12
Alignment explanation
Indices: 30413850--30413880 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30413840 ATGGGGTTTA
30413850 GGTTACAGGTAT
1 GGTTACAGGTAT
30413862 GGTTACAGGTAT
1 GGTTACAGGTAT
*
30413874 GGATACA
1 GGTTACA
30413881 AGTCGAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.32, T:0.29
Consensus pattern (12 bp):
GGTTACAGGTAT
Found at i:30415173 original size:12 final size:12
Alignment explanation
Indices: 30415158--30415183 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30415148 AATGAAAAGG
30415158 AAAATAAGAATA
1 AAAATAAGAATA
30415170 AAAATAAGAATA
1 AAAATAAGAATA
30415182 AA
1 AA
30415184 TAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AAAATAAGAATA
Found at i:30421784 original size:5 final size:5
Alignment explanation
Indices: 30421774--30421834 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
30421764 CCTTTGAGTC
* *
30421774 ATTTT ATTTT ATTATT ATTACT ATTTT -TTTA ATTTT AATTTT ATTTT
1 ATTTT ATTTT ATT-TT ATT-TT ATTTT ATTTT ATTTT -ATTTT ATTTT
*
30421821 CTTTT A-TTT ATTTT
1 ATTTT ATTTT ATTTT
30421835 TGAAGACATG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 7 0.15
5 24 0.52
6 15 0.33
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:30423626 original size:21 final size:20
Alignment explanation
Indices: 30423600--30423641 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
30423590 CATAGGAAGG
*
30423600 CAAAAAGAGTAAGAAATGGGC
1 CAAAAACAG-AAGAAATGGGC
*
30423621 CAAAAACAGATGAAATGGGC
1 CAAAAACAGAAGAAATGGGC
30423641 C
1 C
30423642 TAATTCAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.50, C:0.14, G:0.26, T:0.10
Consensus pattern (20 bp):
CAAAAACAGAAGAAATGGGC
Found at i:30425831 original size:36 final size:33
Alignment explanation
Indices: 30425707--30425833 Score: 103
Period size: 33 Copynumber: 3.8 Consensus size: 33
30425697 ATTTTCTTTA
* * * * *
30425707 TGCCATAGTCCAACTATGGTCTTACACTTGTAT
1 TGCCATAGCCCAGCTATGGTCTTACTCATGTAG
* *
30425740 TGCCATGGCCCAGCCATGGTCTTACTCATGTAG
1 TGCCATAGCCCAGCTATGGTCTTACTCATGTAG
* * * * *
30425773 TGCCATATCCTAGATATTGTCTTA-TCATCTTCATG
1 TGCCATAGCCCAGCTATGGTCTTACTCAT-GT-A-G
30425808 ATGCCATAGCCCAGCTATGGTCTTAC
1 -TGCCATAGCCCAGCTATGGTCTTAC
30425834 ACGTGCACAT
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
32 4 0.06
33 45 0.63
34 1 0.01
35 1 0.01
36 20 0.28
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTACTCATGTAG
Found at i:30428424 original size:14 final size:16
Alignment explanation
Indices: 30428407--30428440 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30428397 CCTGTCTTTA
30428407 TTTTCTTT-A-TTTGT
1 TTTTCTTTAATTTTGT
30428421 TTTTCTTTAATTTTGT
1 TTTTCTTTAATTTTGT
30428437 TTTT
1 TTTT
30428441 ACGATTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTTCTTTAATTTTGT
Found at i:30430778 original size:17 final size:17
Alignment explanation
Indices: 30430756--30430789 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
30430746 TAAATTCTAG
30430756 TAGCTATAAGAA-TCAAA
1 TAGCTAT-AGAATTCAAA
30430773 TAGCTATAGAATTCAAA
1 TAGCTATAGAATTCAAA
30430790 ACTAGAGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (17 bp):
TAGCTATAGAATTCAAA
Found at i:30431267 original size:20 final size:20
Alignment explanation
Indices: 30431242--30431286 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
30431232 AGGGACTAAA
* *
30431242 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
30431262 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
30431282 ATGAA
1 ATGAA
30431287 TACATATGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:30434134 original size:27 final size:27
Alignment explanation
Indices: 30434103--30434279 Score: 194
Period size: 27 Copynumber: 6.5 Consensus size: 27
30434093 TAAATTGTAC
*
30434103 AGCACTAAGTGTACGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30434130 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30434156 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30434184 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30434212 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30434239 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30434266 AGCACTGAGTGTGC
1 AGCACTAAGTGTGC
30434280 AGACTCAATA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30434217 original size:82 final size:81
Alignment explanation
Indices: 30434104--30434259 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30434094 AAATTGTACA
* *
30434104 GCACTAAGTGTACGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
30434168 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
30434185 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTACGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
30434250 TGCGAGTTGA
65 TGCGAATTGA
30434260 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTACGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30434271 original size:82 final size:81
Alignment explanation
Indices: 30434100--30434279 Score: 218
Period size: 82 Copynumber: 2.2 Consensus size: 81
30434090 GATTAAATTG
* * *
30434100 TACAGCACTAAGTGTACGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
30434165 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
30434181 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
30434245 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30434263 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
30434280 AGACTCAATA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30459622 original size:40 final size:41
Alignment explanation
Indices: 30459578--30459671 Score: 113
Period size: 40 Copynumber: 2.3 Consensus size: 41
30459568 AGTATGATTG
*
30459578 GCACTAAGTGTGCGGT-TTAATATAACTTCGGCTATA-AATA
1 GCACTAAGTGTGCGGTGTTAACATAACTTCGGCTATATAA-A
** * *
30459618 GCACTAAGTGTGC-GTGTTGGCATAGCTTCGGCTATATAAG
1 GCACTAAGTGTGCGGTGTTAACATAACTTCGGCTATATAAA
30459658 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
30459672 ATATCGACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.04
40 42 0.91
41 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (41 bp):
GCACTAAGTGTGCGGTGTTAACATAACTTCGGCTATATAAA
Found at i:30469511 original size:27 final size:27
Alignment explanation
Indices: 30469454--30469517 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
30469444 GGGGAAAATG
* *
30469454 GTAATTTTACCCTACAAGGGTATCTCG
1 GTAATTCTACCCTACAAGGGTATCTCA
* *
30469481 GTAATTCTACCCTAC-AGTGGTATTTTA
1 GTAATTCTACCCTACAAG-GGTATCTCA
30469508 GTAATTCTAC
1 GTAATTCTAC
30469518 AACTTATCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.38
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATCTCA
Found at i:30474360 original size:83 final size:79
Alignment explanation
Indices: 30474240--30474463 Score: 331
Period size: 83 Copynumber: 2.8 Consensus size: 79
30474230 AACCCAAGTA
* * *
30474240 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATGCAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATACAGT
*
30474305 CACTAGCACAAATG
66 CACAAGCACAAATG
* *
30474319 CCTTCGGGACTTAGCCTGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCC-GGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
*
30474384 TAGTCACAAGCACAAATG
62 CAGTCACAAGCACAAATG
*
30474402 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
1 CCTTCGGGACTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
30474464 TCATCCGAAT
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
79 15 0.12
80 42 0.32
81 1 0.01
82 1 0.01
83 69 0.53
84 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATACAGT
CACAAGCACAAATG
Found at i:30474464 original size:40 final size:40
Alignment explanation
Indices: 30474240--30474464 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
30474230 AACCCAAGTA
* *
30474240 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* ** * *
30474279 CCTTCGGGTCTTAGCCCGGATGCAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
30474319 CCTTCGGGACTTAGCCTGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TA--ACTCGCACAAATG
* * **
30474362 CCTTCGGGACTTCGCCCGGATATAGTCACAAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30474402 CCTTCGGGACTTAGCCCGGATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30474442 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
30474465 CATCCGAATA
Statistics
Matches: 155, Mismatches: 27, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
39 12 0.08
40 109 0.70
43 34 0.22
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30482413 original size:40 final size:40
Alignment explanation
Indices: 30482339--30482440 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
30482329 AACCCAAGTA
*
30482339 CCTTCGGGAT-TTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGCAACTAGCACAAATG
30482378 CCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAG-CAACTAGCACAAATG
* *
30482418 CCTTTGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
30482441 CATTCGAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
38 1 0.02
39 12 0.21
40 43 0.75
41 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATG
Found at i:30486115 original size:14 final size:16
Alignment explanation
Indices: 30486098--30486130 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30486088 ATGCCTTTAC
30486098 TTTCTTT-A-TTTGTT
1 TTTCTTTAATTTTGTT
30486112 TTTCTTTAATTTTGTT
1 TTTCTTTAATTTTGTT
30486128 TTT
1 TTT
30486131 ACGATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 1 0.06
16 9 0.53
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (16 bp):
TTTCTTTAATTTTGTT
Found at i:30488980 original size:20 final size:20
Alignment explanation
Indices: 30488955--30489004 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
30488945 AGGGACTAAA
* *
30488955 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
30488975 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
30488995 ATGAATAAAT
1 ATGAA-AAAT
30489005 ATGCTGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:30494237 original size:40 final size:40
Alignment explanation
Indices: 30494054--30494223 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
30494044 TCCTCGTTCA
* * * ** *
30494054 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
30494093 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30494133 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
30494173 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
30494213 AAGGCCTTCGG
1 AATGCCTTCGG
30494224 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:30511804 original size:46 final size:49
Alignment explanation
Indices: 30511737--30511835 Score: 132
Period size: 46 Copynumber: 2.1 Consensus size: 49
30511727 ACAGGACAAA
* *
30511737 AATGAGCCATGTAAGTCCATATCAG-A-A-ATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCAGAATATATATGGCATTGGAGACAGG
* *
30511783 AATGAGCCATGTATGCCCATATTAGATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCAGA-ATATATATGGCATTGGAGACAGG
30511833 AAT
1 AAT
30511836 AATTCATGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
46 22 0.49
48 1 0.02
49 1 0.02
50 21 0.47
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.26
Consensus pattern (49 bp):
AATGAGCCATGTAAGCCCATATCAGAATATATATGGCATTGGAGACAGG
Found at i:30514491 original size:40 final size:40
Alignment explanation
Indices: 30514421--30514633 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
30514411 CAACCAAGTA
* * *
30514421 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
30514460 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30514500 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30514540 CCTTCGGGACTTAGCCCGGATATAGTAACTC-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30514579 CCTTCGGGACTT-GCCC-G-TATAGT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30514615 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30514634 TTATCATCCG
Statistics
Matches: 166, Mismatches: 3, Indels: 11
0.92 0.02 0.06
Matches are distributed among these distances:
35 4 0.02
36 26 0.16
37 5 0.03
38 5 0.03
39 34 0.20
40 92 0.55
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30522478 original size:40 final size:40
Alignment explanation
Indices: 30522397--30522534 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
30522387 AAACCAAGTA
* * * *
30522397 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
30522436 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
30522476 CCTTCGGGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
30522516 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
30522535 TTATCATCCG
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 13 0.14
40 77 0.86
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:30529375 original size:47 final size:47
Alignment explanation
Indices: 30529303--30529444 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
30529293 GTTGAATTTA
*
30529303 AAGCTTGTTAAA-TTGCTCTTAATATTTCTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
30529349 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* *
30529396 AAGCTTGTTAAATTTGCCCTTATTATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
30529443 AA
1 AA
30529445 AGAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 12 0.13
47 80 0.87
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:30530289 original size:45 final size:45
Alignment explanation
Indices: 30530225--30530445 Score: 306
Period size: 45 Copynumber: 5.0 Consensus size: 45
30530215 ATATCGCACA
*
30530225 ATACTATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
*
30530270 ATACTATTCGGGCCATTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
*
30530315 ATACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
* * * *
30530360 ATACTATTTGGG-CTTTCGAGCCTAGCGGGCTATAATGCCAGTGAA
1 ATACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAG
* * * *
30530405 ATAATA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATGCCAGTGA
1 ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
30530446 ATGAATTCGG
Statistics
Matches: 163, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
42 12 0.07
43 12 0.07
44 11 0.07
45 128 0.79
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (45 bp):
ATACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAG
Found at i:30543479 original size:37 final size:37
Alignment explanation
Indices: 30543420--30543565 Score: 211
Period size: 37 Copynumber: 3.9 Consensus size: 37
30543410 AGCTCAGACG
* * * *
30543420 AAATCTCCACATGAAGTTATCGGGTCTTACGCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
**
30543457 AAATCTCCACACGTAGTCATCGGGTCTTACCCAAACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
30543494 TAATCTCAACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30543531 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
30543566 ATATATTTCC
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30543838 original size:47 final size:47
Alignment explanation
Indices: 30543776--30544456 Score: 912
Period size: 47 Copynumber: 14.1 Consensus size: 47
30543766 ACACGTTTCG
* * * **
30543776 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
30543823 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
30543870 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
30543917 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
** *
30543964 CATTGGCCATTCGGCCTTATCACACACATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTAT--CACAC----ATACGCATGTTCACATTCATCA
* *
30544017 TATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
30544064 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * ** *
30544111 CATTGGCCATTCGACCTTATCACGCATATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C----ACATACGCATGTTCACATTCATCA
30544164 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
30544211 CATTGACCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
* *
30544262 CATTGGCCATTCAGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
30544309 CATTGGCCATTTGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ***
30544356 CATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCAT----GTTCACATTCATCA
*
30544407 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
30544454 CAT
1 CAT
30544457 AAAATCCTAA
Statistics
Matches: 564, Mismatches: 50, Indels: 40
0.86 0.08 0.06
Matches are distributed among these distances:
47 388 0.69
49 6 0.01
51 91 0.16
53 79 0.14
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:30544049 original size:147 final size:145
Alignment explanation
Indices: 30543776--30544432 Score: 916
Period size: 147 Copynumber: 4.5 Consensus size: 145
30543766 ACACGTTTCG
* * * *
30543776 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
30543841 AT----CTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
66 ATCACACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
30543902 TGTTCACATTCATCA
131 TGTTCACATTCATCA
**
30543917 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
*
30543982 ATCACACACATATATATACAGGTTCACATTCATCATATTGGCCATTCGGCCTTATCACACATACG
66 ATCACACAC--ATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
*
30544047 CATGTTCACATCCATCA
129 CATGTTCACATTCATCA
** *
30544064 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGACCTT
1 CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* *
30544129 ATCACGCATATATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
66 ATCA--CACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
30544194 CATGTTCACATTCATCA
129 CATGTTCACATTCATCA
* * *
30544211 CATTGACCATTCGGCCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCAG
1 CATTGGCCATTCGGCCTTATCACACATATACAT----GTTCACATTCATCACATTGGCCATTCGG
** * * *
30544276 CCTTAT--CACAC--ATACGCATGTTCACATCCATCACATTGGCCATTTGGCCTTATCACACATA
62 CCTTATCACACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATA
30544337 CGCATGTTCACATTCATCA
127 CGCATGTTCACATTCATCA
* *
30544356 CATTGGCCATTCGACCTTATCACACATATATATACGGGTTCACATTCATCACATTGGCCATTCGG
1 CATTGGCCATTCGGCCTTATCACACATATACAT----GTTCACATTCATCACATTGGCCATTCGG
30544421 CCTTATCACACA
62 CCTTATCACACA
30544433 TACGCATGTT
Statistics
Matches: 471, Mismatches: 31, Indels: 22
0.90 0.06 0.04
Matches are distributed among these distances:
141 62 0.13
145 134 0.28
147 240 0.51
149 3 0.01
151 32 0.07
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.31
Consensus pattern (145 bp):
CATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCACACACATATATACAGGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCA
TGTTCACATTCATCA
Found at i:30544356 original size:25 final size:25
Alignment explanation
Indices: 30544280--30544357 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 25
30544270 ATTCAGCCTT
*
30544280 ATCACACATACGCATGTTCACATCC
1 ATCACACATACGCATGTTCACATTC
** ** *
30544305 AT--CACATTGGCCAT-TTGGCCTT-
1 ATCACACATACG-CATGTTCACATTC
30544327 ATCACACATACGCATGTTCACATTC
1 ATCACACATACGCATGTTCACATTC
30544352 ATCACA
1 ATCACA
30544358 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 2 0.05
23 13 0.35
24 14 0.38
25 8 0.22
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATACGCATGTTCACATTC
Found at i:30568268 original size:13 final size:13
Alignment explanation
Indices: 30568252--30568278 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30568242 TCAAGTATTC
30568252 TTATATACATATA
1 TTATATACATATA
30568265 TTATATACATATA
1 TTATATACATATA
30568278 T
1 T
30568279 GAATATACTT
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:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (13 bp):
TTATATACATATA
Found at i:30572307 original size:29 final size:30
Alignment explanation
Indices: 30572271--30572504 Score: 166
Period size: 29 Copynumber: 8.1 Consensus size: 30
30572261 AGCTTGGGCT
* *
30572271 ATCG-ATTATTAAAAGGGATGTTGACGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
* * *
30572300 AT-TAATTATGAAAAGGGGTGGTGATGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
* ** *
30572329 ATCGAA-TATGAAAAGGGATAGCTTTCG-CT
1 ATCGAATTATGAAAAGGGAT-GGTGACGACC
* * * * * *
30572358 ATCG-ATTATG-TAACGGATAGCT-TCGGCT
1 ATCGAATTATGAAAAGGGAT-GGTGACGACC
* *
30572386 ATCG-ATTATGAAAAGGGATGGTGATGACT
1 ATCGAATTATGAAAAGGGATGGTGACGACC
* *
30572415 AT-AAACTATGAAAAGGGATGGTGACGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
**
30572444 ATCGAA-TATGAAAAGGGATGGTTTCGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
* *
30572473 ATCGAA-TATGAAAAGGAATGGTTACGACC
1 ATCGAATTATGAAAAGGGATGGTGACGACC
30572502 ATC
1 ATC
30572505 ATTTAGCACA
Statistics
Matches: 167, Mismatches: 29, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.02
28 25 0.15
29 132 0.79
30 7 0.04
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (30 bp):
ATCGAATTATGAAAAGGGATGGTGACGACC
Found at i:30572448 original size:86 final size:87
Alignment explanation
Indices: 30572295--30572505 Score: 203
Period size: 86 Copynumber: 2.4 Consensus size: 87
30572285 GGGATGTTGA
** * * ** *
30572295 CGACCATTAATTATGAAAAGGGGTGGTGATGACCATCGAATATGAAAAGGGATAGCTTTCGCTAT
1 CGACCATCGATTATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATAGCTGACGCCAT
* *
30572360 CGATTATG-TAACGGATAGCTT
66 CGAATATGAAAACGGATAGCTT
* * * *
30572381 CGGCTATCGATTATGAAAAGGGATGGTGATGACTAT-AAACTATGAAAAGGGAT-GGTGACGACC
1 CGACCATCGATTATGAAAAGGGATGGTGATGACCATCAAA-TATGAAAAGGGATAGCTGACG-CC
* * *
30572444 ATCGAATATGAAAAGGGATGGTTT
64 ATCGAATATGAAAACGGATAGCTT
* * * *
30572468 CGACCATCGAATATGAAAAGGAATGGTTACGACCATCA
1 CGACCATCGATTATGAAAAGGGATGGTGATGACCATCA
30572506 TTTAGCACAC
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
85 6 0.06
86 53 0.54
87 38 0.39
88 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.25
Consensus pattern (87 bp):
CGACCATCGATTATGAAAAGGGATGGTGATGACCATCAAATATGAAAAGGGATAGCTGACGCCAT
CGAATATGAAAACGGATAGCTT
Found at i:30572477 original size:115 final size:115
Alignment explanation
Indices: 30572259--30572482 Score: 324
Period size: 115 Copynumber: 1.9 Consensus size: 115
30572249 ATGAAAAGGA
* * * * * *
30572259 ATAGCTTGGGCTATCGATTATTAAAAGGGATGTTGACGACCATTAATTATGAAAAGGGGTGGTGA
1 ATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATAAACTATGAAAAGGGATGGTGA
* * *
30572324 TGACCATCGAATATGAAAAGGGATAGCTTTCGCTATCGATTATGTAACGG
66 CGACCATCGAATATGAAAAGGGATAGCTTTCGCCATCGAATATGTAACGG
* *
30572374 ATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACTATAAACTATGAAAAGGGATGGTGA
1 ATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATAAACTATGAAAAGGGATGGTGA
*
30572439 CGACCATCGAATATGAAAAGGGAT-GGTTTCGACCATCGAATATG
66 CGACCATCGAATATGAAAAGGGATAGCTTTCG-CCATCGAATATG
30572483 AAAAGGAATG
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
114 6 0.06
115 90 0.94
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (115 bp):
ATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATAAACTATGAAAAGGGATGGTGA
CGACCATCGAATATGAAAAGGGATAGCTTTCGCCATCGAATATGTAACGG
Found at i:30577796 original size:13 final size:13
Alignment explanation
Indices: 30577778--30577802 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30577768 GATGTTATTG
30577778 TTATTATTATTTA
1 TTATTATTATTTA
30577791 TTATTATTATTT
1 TTATTATTATTT
30577803 TGTAGGTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:30578814 original size:18 final size:18
Alignment explanation
Indices: 30578793--30578849 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
30578783 GTTTCTAACA
*
30578793 TTCTTTTCTCTTCTTCTT
1 TTCTTCTCTCTTCTTCTT
* *
30578811 TTCTCCTCTCTTCATCTAT
1 TTCTTCTCTCTTCTTCT-T
30578830 TGTC-TCT-TCTTCTTCTT
1 T-TCTTCTCTCTTCTTCTT
30578847 TTC
1 TTC
30578850 CTCTATAGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 22 0.69
19 4 0.12
20 2 0.06
ACGTcount: A:0.04, C:0.32, G:0.02, T:0.63
Consensus pattern (18 bp):
TTCTTCTCTCTTCTTCTT
Found at i:30580151 original size:27 final size:27
Alignment explanation
Indices: 30580085--30580161 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
30580075 GAGGAAGCGT
* * *
30580085 TCTGGTGGCTCTGCCACAAATATTTATT
1 TCTGGTGACTCTGCCAC-AATATCTATA
* *
30580113 TCTGGTGTCTCTGCCACAATATCTGTA
1 TCTGGTGACTCTGCCACAATATCTATA
* *
30580140 TCTTGTGACTCTGTCACAATAT
1 TCTGGTGACTCTGCCACAATAT
30580162 TGTGACGTGT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 26 0.62
28 16 0.38
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (27 bp):
TCTGGTGACTCTGCCACAATATCTATA
Found at i:30583847 original size:30 final size:31
Alignment explanation
Indices: 30583823--30583881 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
30583813 GTAAATACTC
* * *
30583823 AAAATTTGAAGGGCTGA-AGTGTAAATATGA
1 AAAAGTTGAAGGACTAATAGTGTAAATATGA
30583853 AAAAGTTGAAGGACTAATAGTGTAAATAT
1 AAAAGTTGAAGGACTAATAGTGTAAATAT
30583882 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.46, C:0.03, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAAGTTGAAGGACTAATAGTGTAAATATGA
Found at i:30583946 original size:16 final size:17
Alignment explanation
Indices: 30583920--30583953 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30583910 GGAAAATGGA
30583920 TGAATTAGGAAAAAAAT
1 TGAATTAGGAAAAAAAT
*
30583937 TGAA-TAGGAAAAGAAT
1 TGAATTAGGAAAAAAAT
30583953 T
1 T
30583954 ATGAGGGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.24
Consensus pattern (17 bp):
TGAATTAGGAAAAAAAT
Found at i:30584092 original size:45 final size:45
Alignment explanation
Indices: 30584026--30584115 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 45
30584016 ATCACAAAGG
*
30584026 ATGAAATGGTCTATTGAAAGAGAGAGAAATCTAGAAAGTAATGAT
1 ATGAAATGGTCAATTGAAAGAGAGAGAAATCTAGAAAGTAATGAT
* *
30584071 ATGAAATGGTCAATTGGAAGAGATAGAAATCTAGAAAGTAATGAT
1 ATGAAATGGTCAATTGAAAGAGAGAGAAATCTAGAAAGTAATGAT
30584116 GATATTGATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (45 bp):
ATGAAATGGTCAATTGAAAGAGAGAGAAATCTAGAAAGTAATGAT
Found at i:30584857 original size:17 final size:17
Alignment explanation
Indices: 30584830--30584873 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
30584820 AATTAAACAT
* * *
30584830 TAAATTAATATATGTTA
1 TAAAATAATATATATCA
*
30584847 TAATATAATATATATCA
1 TAAAATAATATATATCA
30584864 TAAAATAATA
1 TAAAATAATA
30584874 ATAAGCCATG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAAATAATATATATCA
Found at i:30585989 original size:56 final size:56
Alignment explanation
Indices: 30585918--30586108 Score: 274
Period size: 56 Copynumber: 3.4 Consensus size: 56
30585908 ATGTTACTTT
* *
30585918 GATATATGTGGGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* * *
30585974 GATATATGTGTGCGAGTAAGTCCACGTTTAATAGGTTGGCATCAATATGTGATTCC
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* * * *
30586030 GATATATGTGTGCGAGTAAGTCCACATTTCATACGTTGGCATCGATATGTGATTCT
1 GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
* * *
30586086 GATATGTGTTTACGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
30586109 CTATCTGGGA
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 121 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.34
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCC
Found at i:30592298 original size:56 final size:56
Alignment explanation
Indices: 30592213--30592373 Score: 209
Period size: 56 Copynumber: 2.9 Consensus size: 56
30592203 TACCTGGAAG
* *
30592213 AATATG-TGGCATCAATTTGTGACTT-TGATATATGTGTGCGAGTAAGACCACGTTT
1 AATATGTTGGCATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAGACCACGTTT
* *
30592268 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCCATGTTT
1 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTT
* ** * * *
30592324 CATGCGTTGGCATCGATATGTGATTCTGATATGTGTTTACGAGTAAGACC
1 AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACC
30592374 CTGTCTGGGA
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
55 8 0.09
56 85 0.91
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (56 bp):
AATATGTTGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGACCACGTTT
Found at i:30594499 original size:13 final size:13
Alignment explanation
Indices: 30594481--30594508 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
30594471 TGGACAGTGA
30594481 TACCTCGTAACCC
1 TACCTCGTAACCC
30594494 TACCTCGTAACCC
1 TACCTCGTAACCC
30594507 TA
1 TA
30594509 ATTCAGCGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.43, G:0.07, T:0.25
Consensus pattern (13 bp):
TACCTCGTAACCC
Found at i:30595871 original size:43 final size:43
Alignment explanation
Indices: 30595824--30595925 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 43
30595814 TCTCGGATGT
* * *
30595824 GGTCTTACATGTAATTTAG-TATCAATGCCTCTATCCCAGACAG
1 GGTCTTACATGTAAATCAGATA-CAATGCCTATATCCCAGACAG
* * *
30595867 GGTCTTACATG-AAATCAGATACAATGCTTATGTCCCAGACAT
1 GGTCTTACATGTAAATCAGATACAATGCCTATATCCCAGACAG
30595909 GGTCTTACATGTAAATC
1 GGTCTTACATGTAAATC
30595926 TCAAATCGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
42 33 0.65
43 18 0.35
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGATACAATGCCTATATCCCAGACAG
Found at i:30600135 original size:39 final size:39
Alignment explanation
Indices: 30600087--30600296 Score: 316
Period size: 39 Copynumber: 5.3 Consensus size: 39
30600077 GGACTAAGAT
30600087 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
30600126 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
30600165 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
30600204 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
30600244 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
30600284 CCGAAGGCATTTG
1 CCGAAGGCATTTG
30600297 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 112 0.71
40 46 0.29
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:30608162 original size:39 final size:40
Alignment explanation
Indices: 30608059--30608281 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
30608049 TTGAATGATG
*
30608059 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
30608097 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
30608138 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30608177 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
30608216 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
30608255 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30608282 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
39 91 0.56
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30608245 original size:79 final size:81
Alignment explanation
Indices: 30608059--30608281 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
30608049 TTGAATGATG
* * * *
30608059 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCAAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
30608121 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
30608138 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
30608199 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
30608216 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
30608280 TG
66 TG
30608282 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 45 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:30608303 original size:79 final size:79
Alignment explanation
Indices: 30608059--30608314 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
30608049 TTGAATGATG
* * * * *
30608059 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCAAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
30608120 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
30608138 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
30608202 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
30608216 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
30608279 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
30608296 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30608315 TACGTGATTT
Statistics
Matches: 152, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
77 1 0.01
78 45 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:30614987 original size:36 final size:36
Alignment explanation
Indices: 30614939--30615011 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
30614929 ACAGGGGACA
*
30614939 CACAGCCGTATACCAAGGCCATGTGTCACACACGGT
1 CACAGCCATATACCAAGGCCATGTGTCACACACGGT
30614975 CACAGCCATATACCAAGGCCATGTGTCACACACGGT
1 CACAGCCATATACCAAGGCCATGTGTCACACACGGT
30615011 C
1 C
30615012 GAGCCACACG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.29, C:0.34, G:0.21, T:0.16
Consensus pattern (36 bp):
CACAGCCATATACCAAGGCCATGTGTCACACACGGT
Found at i:30616153 original size:43 final size:42
Alignment explanation
Indices: 30616011--30616161 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 42
30616001 TATCTCGGAT
* * * *
30616011 ATGGTCTTACATGTTATCACATATCGATGCCACTGCCCCAAAC
1 ATGGTCTTACATGTAATCACATA-CGATGCCAATGTCCCAGAC
* * * * * * *
30616054 AGGGACTTACATGAAACCATATAACGATACCAATGTCTCAGAC
1 ATGGTCTTACATGTAATCACAT-ACGATGCCAATGTCCCAGAC
*
30616097 ATGGTCTTACATGTAATCACCATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCA-CATACGATGCCAATGTCCCAGAC
30616140 ATGGTCTTACATGTAATCACAT
1 ATGGTCTTACATGTAATCACAT
30616162 CTTGGTAATC
Statistics
Matches: 87, Mismatches: 19, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 3 0.03
43 81 0.93
44 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
ATGGTCTTACATGTAATCACATACGATGCCAATGTCCCAGAC
Found at i:30622383 original size:13 final size:13
Alignment explanation
Indices: 30622365--30622394 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
30622355 TGTGGACTTG
30622365 AATAAGAACCATT
1 AATAAGAACCATT
30622378 AATAAGAACCATT
1 AATAAGAACCATT
30622391 AATA
1 AATA
30622395 TTCGGTGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (13 bp):
AATAAGAACCATT
Found at i:30622969 original size:42 final size:43
Alignment explanation
Indices: 30622899--30622999 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
30622889 TCTGTTTTAT
*
30622899 GTGTAAGACCATGTCTGGAACATCGGCATC-ATATCTGATTTC
1 GTGTAAGACCATGTCTGGAACATCGGCATCGATATCTGATTAC
* * * * *
30622941 GTGTAAGACCCTGTCTGGGATAGT-GGCATCGATGTTTGATTAC
1 GTGTAAGACCATGTCTGGAACA-TCGGCATCGATATCTGATTAC
*
30622984 ATGTAAGACCATGTCT
1 GTGTAAGACCATGTCT
30623000 AGGACGTTGG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 25 0.51
43 24 0.49
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGAACATCGGCATCGATATCTGATTAC
Found at i:30623011 original size:43 final size:42
Alignment explanation
Indices: 30622855--30623012 Score: 124
Period size: 43 Copynumber: 3.7 Consensus size: 42
30622845 ATGTGATTTT
** * * *
30622855 GTGTAAGACCACATCTAGGACGTTTGCATCGACTTCTGTTTTAT
1 GTGTAAGACCATGTCTAGGACGTTGGCATCGA-TTCTG-ATTAC
* * *
30622899 GTGTAAGACCATGTCT-GGAACATCGGCATC-ATATCTGATTTC
1 GTGTAAGACCATGTCTAGG-ACGTTGGCATCGAT-TCTGATTAC
* * * *
30622941 GTGTAAGACCCTGTCTGGGATAG-TGGCATCGATGTTTGATTAC
1 GTGTAAGACCATGTCTAGGA-CGTTGGCATCGAT-TCTGATTAC
*
30622984 ATGTAAGACCATGTCTAGGACGTTGGCAT
1 GTGTAAGACCATGTCTAGGACGTTGGCAT
30623013 TGTTTATGTT
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
42 26 0.29
43 41 0.46
44 22 0.25
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATGTCTAGGACGTTGGCATCGATTCTGATTAC
Found at i:30630715 original size:46 final size:46
Alignment explanation
Indices: 30630626--30630831 Score: 176
Period size: 46 Copynumber: 4.5 Consensus size: 46
30630616 GCCAATGCCA
* * *
30630626 GTCCCAGACATGGTCTTACACTGAC--ACATCTCGTAGTCGATGCAT
1 GTCCCAAACATGGTCTTACACTGGCTTACATCTCG-AGCCGATGCAT
*
30630671 GTCCCAAACAT-GTCTTACACTGGCTTACATCTCGAGGCCTATGCAT
1 GTCCCAAACATGGTCTTACACTGGCTTACATCTCGA-GCCGATGCAT
* * * *
30630717 GTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGCCGATGCTAT
1 GTCCCAAACATGGTCTTACACTGGCT-TACATCTCGA-GCCGATGC-AT
* *
30630764 GTCCCAAACATGGTCTTACACTGGCTCTTATAATGT-G-GCCGATGCAT
1 GTCCCAAACATGGTCTTACACTGG--CTTA-CATCTCGAGCCGATGCAT
* *
30630811 GTCCCAGACAT-GCCTTACACT
1 GTCCCAAACATGGTCTTACACT
30630832 AGCAAACAAA
Statistics
Matches: 133, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
44 12 0.09
45 11 0.08
46 61 0.46
47 25 0.19
48 19 0.14
49 1 0.01
50 2 0.02
51 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GTCCCAAACATGGTCTTACACTGGCTTACATCTCGAGCCGATGCAT
Found at i:30630789 original size:94 final size:92
Alignment explanation
Indices: 30630663--30630834 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 92
30630653 ATCTCGTAGT
* *
30630663 CGATGCATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCGAGGCCTATGCATGTCCCAGAC
1 CGATGCATGTCCCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCGATGCATGTCCCAGAC
*
30630726 ATGTCTTACACTAGCTCTCGTCTCAATGC
64 ATGCCTTACACTAGCTCTCGTCTCAATGC
* *
30630755 CGATGCTATGTCCCAAACATGGTCTTACACTGGCTCTTATAATGTGGCCGATGCATGTCCCAGAC
1 CGATGC-ATGTCCCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGAC
30630820 ATGCCTTACACTAGC
64 ATGCCTTACACTAGC
30630835 AAACAAATAA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 6 0.08
93 13 0.18
94 50 0.70
95 2 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATAATGAGGCCGATGCATGTCCCAGACAT
GCCTTACACTAGCTCTCGTCTCAATGC
Found at i:30636989 original size:16 final size:16
Alignment explanation
Indices: 30636968--30637000 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30636958 CATTTTTGAC
*
30636968 CATACAAAGCCTTATA
1 CATACAAAGCCTCATA
30636984 CATACAAAGCCTCATA
1 CATACAAAGCCTCATA
30637000 C
1 C
30637001 GGTACCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.06, T:0.21
Consensus pattern (16 bp):
CATACAAAGCCTCATA
Found at i:30639138 original size:43 final size:42
Alignment explanation
Indices: 30638974--30639138 Score: 122
Period size: 43 Copynumber: 3.9 Consensus size: 42
30638964 TTTCGTTATG
* *
30638974 TGATTTCATGTAAGACCACG-CTTGGGACGTTGGCATCGACTTC
1 TGATTACATGTAAGACCACGTC-TGGGACGTCGGCATCGA-TTC
* * * * *
30639017 TGTTTTACATGTAAGACAATGTCTGGGACATCGGTATCG-TATC
1 TG-ATTACATGTAAGACCACGTCTGGGACGTCGGCATCGAT-TC
*** * *
30639060 TGATTTTGTGTAAGACC-CTGTTTGGGACAGT-GGCATCGATGTT
1 TGATTACATGTAAGACCAC-GTCTGGGAC-GTCGGCATCGAT-TC
*
30639103 TGATTACATGTAAGACCACGTCTGGGATGTCGGCAT
1 TGATTACATGTAAGACCACGTCTGGGACGTCGGCAT
30639139 TGTATATGCT
Statistics
Matches: 91, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
42 27 0.30
43 35 0.38
44 28 0.31
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (42 bp):
TGATTACATGTAAGACCACGTCTGGGACGTCGGCATCGATTC
Found at i:30646619 original size:40 final size:40
Alignment explanation
Indices: 30646560--30646653 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
30646550 ACAATTTTAA
* *
30646560 AATCAAGTGAAAATGATTTTAACCA-AGTCAAAATGA-TTTC
1 AATCAAGTCAAAATAATTTTAA-CATA-TCAAAATGATTTTC
* *
30646600 AATCAAGTTAAAATAATTTTAACATATCAAAATTATTTTC
1 AATCAAGTCAAAATAATTTTAACATATCAAAATGATTTTC
*
30646640 AAACAAGTCAAAAT
1 AATCAAGTCAAAAT
30646654 TGCTCCAGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 10 0.21
40 37 0.79
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (40 bp):
AATCAAGTCAAAATAATTTTAACATATCAAAATGATTTTC
Found at i:30646654 original size:21 final size:20
Alignment explanation
Indices: 30646553--30646653 Score: 89
Period size: 20 Copynumber: 5.0 Consensus size: 20
30646543 TTTTGAAACA
*
30646553 ATTTTAAAATCAAGTGAAAATG
1 ATTTT-AAA-CAAGTCAAAATG
*
30646575 ATTTTAACCAAGTCAAAATG
1 ATTTTAAACAAGTCAAAATG
* * * *
30646595 ATTTCAATCAAGTTAAAATA
1 ATTTTAAACAAGTCAAAATG
*
30646615 ATTTT-AACATA-TCAAAATT
1 ATTTTAAACA-AGTCAAAATG
30646634 ATTTTCAAACAAGTCAAAAT
1 ATTTT-AAACAAGTCAAAAT
30646654 TGCTCCAGGC
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 14 0.22
20 33 0.51
21 13 0.20
22 5 0.08
ACGTcount: A:0.49, C:0.11, G:0.07, T:0.34
Consensus pattern (20 bp):
ATTTTAAACAAGTCAAAATG
Found at i:30650507 original size:47 final size:47
Alignment explanation
Indices: 30650418--30650942 Score: 802
Period size: 47 Copynumber: 11.4 Consensus size: 47
30650408 CAGCCAAGAC
30650418 AGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
30650464 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATCAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30650511 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30650558 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
** *
30650605 AGTGTATATGCGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30650652 AGTGTATATAGGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30650699 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
30650746 AGTGTATATGTGTGATAA-GCCTAATAGCCGAT-TGATG-ATGTG-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
30650789 AGTG--TATAT-TAATAAGG-CTAATGGCCGATGTGATGAATG-G-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
30650830 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
30650877 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
30650924 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
30650943 TCCCGAAGGG
Statistics
Matches: 439, Mismatches: 30, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
40 16 0.04
41 16 0.04
42 3 0.01
43 10 0.02
44 12 0.03
45 27 0.06
46 33 0.08
47 322 0.73
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:30651118 original size:37 final size:37
Alignment explanation
Indices: 30651061--30651139 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
30651051 CCGAGCTCTA
* *
30651061 AAGACCCGATGACTATGTGT-GAGAATTTTGTCCGGGT
1 AAGACCCGATAACTATGTGTGGAG-ATTATGTCCGGGT
30651098 AAGACCCGATAACT-TCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTAT-GTGTGGAGATTATGTCCGGGT
30651135 AAGAC
1 AAGAC
30651140 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 1 0.03
37 34 0.89
38 3 0.08
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTATGTGTGGAGATTATGTCCGGGT
Found at i:30661472 original size:79 final size:82
Alignment explanation
Indices: 30661330--30661512 Score: 234
Period size: 79 Copynumber: 2.3 Consensus size: 82
30661320 NNNNNNNNNN
* *
30661330 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
30661394 TTTAGTAAC-TCGCACA
66 TGTAGTAACTTAGCACA
* **
30661410 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
30661472 ATGTGGTCACTTAGCACA
65 ATGTAGTAACTTAGCACA
30661490 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30661513 CATCATTCAA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.61
80 32 0.36
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TGTAGTAACTTAGCACA
Found at i:30661512 original size:40 final size:39
Alignment explanation
Indices: 30661330--30661512 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
30661320 NNNNNNNNNN
* *
30661330 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCACA
*
30661370 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCACA
*
30661410 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCACA
* * * *
30661449 AATGCCTTC-GGATCTTAGTCCGGATGTGGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCACA
30661490 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30661513 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 34 0.27
40 77 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCACA
Found at i:30663622 original size:292 final size:293
Alignment explanation
Indices: 30663097--30663683 Score: 1158
Period size: 292 Copynumber: 2.0 Consensus size: 293
30663087 ACACATGCAC
30663097 ATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACTCGGTTTAGTGGTCCCA
1 ATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACTCGGTTTAGTGGTCCCA
*
30663162 AAACCACTTCCCGACTAGGGTCAATTTTGGGCTGTCACATGCATTCATGATATATATTTTTTCTG
66 AAACCACTTCCCGACTAGGGTCAATTTTGCGCTGTCACATGCATTCATGATATATATTTTTTCTG
30663227 TATCTGCTATGGGCCTATGGGTTTCATTCTGATTTCTGTACTAGGCCAAGGCCCAGATAAGTCTG
131 TATCTGCTATGGGCCTATGGGTTTCATTCTGATTTCTGTACTAGGCCAAGGCCCAGATAAGTCTG
30663292 ACTCTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTC
196 ACTCTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTC
30663357 ACCCTTTATTTTCATCTTTGCAGGAAATCCCCA
261 ACCCTTTATTTTCATCTTTGCAGGAAATCCCCA
30663390 ATGTACATATAATGAGCATCAATTATGACGGTTAATTA-TTTTATGACTCGGTTTAGTGGTCCCA
1 ATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACTCGGTTTAGTGGTCCCA
30663454 AAACCACTTCCCGACTAGGGTCAATTTTGCGCTGTCACATGCATTCATGATATATATTTTTTCTG
66 AAACCACTTCCCGACTAGGGTCAATTTTGCGCTGTCACATGCATTCATGATATATATTTTTTCTG
30663519 TATCTGCTATGGGCCTATGGGTTTCATTCTGATTTCTGTACTAGGCCAAGGCCCAGATAAGTCTG
131 TATCTGCTATGGGCCTATGGGTTTCATTCTGATTTCTGTACTAGGCCAAGGCCCAGATAAGTCTG
30663584 ACTCTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTC
196 ACTCTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTC
30663649 ACCCTTTATTTTCATCTTTGCAGGAAATCCCCA
261 ACCCTTTATTTTCATCTTTGCAGGAAATCCCCA
30663682 AT
1 AT
30663684 CATAGCGGGC
Statistics
Matches: 293, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
292 255 0.87
293 38 0.13
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (293 bp):
ATGTACATATAATGAGCATCAATTATGACGGTTAATTATTTTTATGACTCGGTTTAGTGGTCCCA
AAACCACTTCCCGACTAGGGTCAATTTTGCGCTGTCACATGCATTCATGATATATATTTTTTCTG
TATCTGCTATGGGCCTATGGGTTTCATTCTGATTTCTGTACTAGGCCAAGGCCCAGATAAGTCTG
ACTCTGAGGTTTGATCTGTTTTGGGCTATGGTTGGGTTATGTTACACACTGAGTTTACCGAACTC
ACCCTTTATTTTCATCTTTGCAGGAAATCCCCA
Found at i:30665324 original size:27 final size:27
Alignment explanation
Indices: 30665294--30665471 Score: 189
Period size: 27 Copynumber: 6.6 Consensus size: 27
30665284 ATATTGAGCC
* *
30665294 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30665321 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30665348 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** * *
30665376 CGCACACTTAGTGCCGCATGATCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30665403 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
30665430 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
30665457 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30665472 GTATAATTAA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30665433 original size:82 final size:81
Alignment explanation
Indices: 30665314--30665470 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
30665304 GTGCTATATA
* *
30665314 ATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
30665379 ACACTTAGTGCCGCATG
65 ACACTTAGTGCCGCATG
* * ** *
30665396 ATCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGC
1 ATCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGC
30665460 ACACTTAGTGC
65 ACACTTAGTGC
30665471 TGTATAATTA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
ATCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATG
Found at i:30683712 original size:27 final size:27
Alignment explanation
Indices: 30683682--30683859 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
30683672 ATATTGAGTC
* * * *
30683682 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
30683709 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30683736 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
30683764 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
30683791 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
30683818 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
30683845 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
30683860 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:30683821 original size:82 final size:81
Alignment explanation
Indices: 30683703--30683858 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
30683693 TGCTATATAA
* *
30683703 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
30683768 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
30683785 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
30683849 CACTTAGTGC
65 CACTTAGTGC
30683859 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:30691792 original size:27 final size:27
Alignment explanation
Indices: 30691762--30691937 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
30691752 ATATTGAGTC
* *
30691762 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
30691789 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30691816 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
30691844 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30691871 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
30691898 CGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTACATAATCAACT
30691924 CGCACAC-TAGTGCT
1 CGCACACTTAGTGCT
30691938 GTACAATTTA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
25 6 0.05
26 9 0.07
27 88 0.69
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30691854 original size:55 final size:54
Alignment explanation
Indices: 30691762--30691937 Score: 196
Period size: 55 Copynumber: 3.3 Consensus size: 54
30691752 ATATTGAGTC
* * * * *
30691762 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
30691816 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
30691871 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGT-AAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
30691924 CGCACAC-TAGTGCT
1 CGCACACTTAGTGCT
30691938 GTACAATTTA
Statistics
Matches: 103, Mismatches: 16, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
52 6 0.06
53 10 0.10
54 42 0.41
55 45 0.44
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Done.