Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 266 of 362
Found at i:89641270 original size:19 final size:19
Alignment explanation
Indices: 89641235--89641271 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
89641225 ATATATTACC
**
89641235 TAAATATTTTAGTATTATG
1 TAAATATTTTAACATTATG
89641254 TAAATATTTTAACATTAT
1 TAAATATTTTAACATTAT
89641272 ATTATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (19 bp):
TAAATATTTTAACATTATG
Found at i:89643327 original size:11 final size:10
Alignment explanation
Indices: 89643312--89643419 Score: 80
Period size: 10 Copynumber: 10.6 Consensus size: 10
89643302 TATAAATGTG
89643312 ATTTTTAATA
1 ATTTTTAATA
89643322 ATTTTTTTAATA
1 A--TTTTTAATA
*
89643334 AATTTTAAGTA
1 ATTTTTAA-TA
* *
89643345 ATTCTTATTA
1 ATTTTTAATA
89643355 ATTTTTAAT-
1 ATTTTTAATA
89643364 ATTTTTAAT-
1 ATTTTTAATA
* *
89643373 ATTTTTTACA
1 ATTTTTAATA
89643383 ATTTTTAAT-
1 ATTTTTAATA
89643392 ATCTTTTAA-A
1 AT-TTTTAATA
*
89643402 TATTTTTCATAA
1 -ATTTTTAAT-A
89643414 ATTTTT
1 ATTTTT
89643420 TATTTTTTGC
Statistics
Matches: 78, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
9 18 0.23
10 34 0.44
11 15 0.19
12 11 0.14
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:89643369 original size:9 final size:9
Alignment explanation
Indices: 89643355--89643408 Score: 65
Period size: 9 Copynumber: 5.7 Consensus size: 9
89643345 ATTCTTATTA
89643355 ATTTTTAAT
1 ATTTTTAAT
89643364 ATTTTTAAT
1 ATTTTTAAT
89643373 ATTTTTTACA-
1 A-TTTTTA-AT
89643383 ATTTTTAAT
1 ATTTTTAAT
89643392 ATCTTTTAAAT
1 AT-TTTT-AAT
89643403 ATTTTT
1 ATTTTT
89643409 CATAAATTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.03
9 18 0.45
10 15 0.38
11 6 0.15
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:89643380 original size:19 final size:20
Alignment explanation
Indices: 89643356--89643408 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
89643346 TTCTTATTAA
89643356 TTTTTAATATTTTTAATAT-
1 TTTTTAATATTTTTAATATC
89643375 TTTTTACA-ATTTTTAATATC
1 TTTTTA-ATATTTTTAATATC
*
89643395 TTTTAAATATTTTT
1 TTTTTAATATTTTT
89643409 CATAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTAATATTTTTAATATC
Found at i:89645321 original size:3 final size:3
Alignment explanation
Indices: 89645267--89645302 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
89645257 ATTAAGTTGC
89645267 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
89645303 AAATTTACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:89646004 original size:12 final size:12
Alignment explanation
Indices: 89645987--89646014 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
89645977 ATCTAATTCG
89645987 GTTAATCGGTCA
1 GTTAATCGGTCA
89645999 GTTAATCGGTCA
1 GTTAATCGGTCA
89646011 GTTA
1 GTTA
89646015 GTCGATCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (12 bp):
GTTAATCGGTCA
Found at i:89651264 original size:20 final size:20
Alignment explanation
Indices: 89651223--89651260 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
89651213 CAGTTACAGA
**
89651223 GAAAAATAATTGAAGCAGCT
1 GAAAAATAATTGAAAAAGCT
89651243 GAAAAA-AATTGAAAAAGC
1 GAAAAATAATTGAAAAAGC
89651261 CTGATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.58, C:0.08, G:0.18, T:0.16
Consensus pattern (20 bp):
GAAAAATAATTGAAAAAGCT
Found at i:89660477 original size:21 final size:20
Alignment explanation
Indices: 89660452--89660497 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
89660442 CTGTTTTTAG
89660452 AAAATCATTATAAATTGTACA
1 AAAATCATTAT-AATTGTACA
** *
89660473 AAAATGGTTATAATTGTACT
1 AAAATCATTATAATTGTACA
89660493 AAAAT
1 AAAAT
89660498 GGTTATATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.50, C:0.07, G:0.09, T:0.35
Consensus pattern (20 bp):
AAAATCATTATAATTGTACA
Found at i:89660487 original size:20 final size:20
Alignment explanation
Indices: 89660459--89660504 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
89660449 TAGAAAATCA
89660459 TTATAAATTGTACAAAAATGG
1 TTAT-AATTGTACAAAAATGG
*
89660480 TTATAATTGTACTAAAATGG
1 TTATAATTGTACAAAAATGG
89660500 TTATA
1 TTATA
89660505 TGCATTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.39
Consensus pattern (20 bp):
TTATAATTGTACAAAAATGG
Found at i:89661371 original size:40 final size:40
Alignment explanation
Indices: 89661316--89661422 Score: 178
Period size: 40 Copynumber: 2.7 Consensus size: 40
89661306 AGCATTGGAT
89661316 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
89661356 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
** *
89661396 TATGCCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
89661423 ATGTGTTTGC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
Found at i:89669903 original size:40 final size:40
Alignment explanation
Indices: 89669848--89669954 Score: 178
Period size: 40 Copynumber: 2.7 Consensus size: 40
89669838 AGCATTGGAT
89669848 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
89669888 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
** *
89669928 TATGCCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
89669955 ATGTGTTTGC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.20
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
Found at i:89672577 original size:44 final size:42
Alignment explanation
Indices: 89672510--89672607 Score: 144
Period size: 44 Copynumber: 2.3 Consensus size: 42
89672500 ATATGTGTTA
*
89672510 TCGTGTAAGACCACGTCTGGGATGTTGGCATCG-ACTTATGATT
1 TCGTGTAAGACCACGTCTAGGATGTTGGCATCGTA-TT-TGATT
*
89672553 TACGTGTAAGACCACGTCTAGGATGTTGGCATCGTATTTGGTT
1 T-CGTGTAAGACCACGTCTAGGATGTTGGCATCGTATTTGATT
89672596 TCGTGTAAGACC
1 TCGTGTAAGACC
89672608 CTATCTGGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
42 11 0.22
43 6 0.12
44 33 0.65
45 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (42 bp):
TCGTGTAAGACCACGTCTAGGATGTTGGCATCGTATTTGATT
Found at i:89678610 original size:85 final size:85
Alignment explanation
Indices: 89678467--89678644 Score: 338
Period size: 85 Copynumber: 2.1 Consensus size: 85
89678457 GGCCGGCCAT
*
89678467 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAAATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
89678532 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
89678552 GAGCATGGGTGGACAAAATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAAATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
89678617 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
89678637 GGGCATGG
1 GAGCATGG
89678645 ACAATAAAAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAAATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:89679967 original size:47 final size:46
Alignment explanation
Indices: 89679913--89680507 Score: 803
Period size: 47 Copynumber: 12.6 Consensus size: 46
89679903 TATTTGAATA
*
89679913 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
89679960 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
89680009 AATGTGAAAGTGTATCTATGTGATAAGGCCTAATAGCCAATGTGATG
1 AATGTGAAA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
89680056 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAA-TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
89680105 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
89680152 AATGTGAACATGTGTATGTGTGATAAGGCTGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
89680199 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
89680246 AATGTAAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
89680293 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
89680340 AATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCTATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
89680387 AATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
89680434 AATGTGAAACTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAA-TGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
89680481 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGT-GAAATGTATATATGTGATAAG
89680508 TCCCGAAGGG
Statistics
Matches: 501, Mismatches: 40, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 408 0.81
48 3 0.01
49 88 0.18
50 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
AATGTGAAATGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:89684220 original size:6 final size:6
Alignment explanation
Indices: 89684209--89684238 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
89684199 CTTCAAAAAT
89684209 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
89684239 TATGAGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:89688771 original size:49 final size:48
Alignment explanation
Indices: 89688699--89688801 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 48
89688689 ATGCCCGTGT
* * * * * *
89688699 GACACGCCCGTGTGAGGTGGCTTAGGCCGTATTTAGAGTCTGTTAAATA
1 GACACGACCGTGTGAGGCGGCTTAGGCAGT-GTTACAATCTGTTAAATA
89688748 GACACGACCGTGTG-GTGCGGCTTAGGCAGTGTTACAATCTGTTAAATA
1 GACACGACCGTGTGAG-GCGGCTTAGGCAGTGTTACAATCTGTTAAATA
89688796 GACACG
1 GACACG
89688802 GGCTTGTGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
48 22 0.47
49 25 0.53
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.26
Consensus pattern (48 bp):
GACACGACCGTGTGAGGCGGCTTAGGCAGTGTTACAATCTGTTAAATA
Found at i:89692966 original size:43 final size:43
Alignment explanation
Indices: 89692902--89693003 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
89692892 GAGAAATGCA
*
89692902 TGGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGAT
1 TGGCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGAT
*
89692945 TGGCACTAAGCGTGCGAGCAATAAGTGTTCACGGTTGTGAGAT
1 TGGCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGAT
*
89692988 TGACACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89693004 GGCTTGAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (43 bp):
TGGCACTAAGTGTGCGAGCAATAAGTGTTCACGGTTGTGAGAT
Found at i:89693026 original size:29 final size:29
Alignment explanation
Indices: 89692991--89693061 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
89692981 GTGAGATTGA
* *
89692991 CACTAAGTGTGCGGGCTTGAAA-TGCATGG
1 CACTAAGTGTGCGAG-TTGAAAGTACATGG
*
89693020 CACTAAGTGTGCGAGTTTAAAGTACATGG
1 CACTAAGTGTGCGAGTTGAAAGTACATGG
89693049 CACTAAGTGTGCG
1 CACTAAGTGTGCG
89693062 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (29 bp):
CACTAAGTGTGCGAGTTGAAAGTACATGG
Found at i:89693499 original size:40 final size:40
Alignment explanation
Indices: 89693455--89693568 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 40
89693445 TTACTAAATT
*
89693455 CGGGCTAAGTTCCTAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTTCCTAAGAGCATTCATGCTAGTGATATATC
*
89693495 CGGGCTAAGTT-CTGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTTCCT-AAGAGCATTCATGCTAGTGATATATC
* * * * * *
89693535 CGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 CGGGCTAAGTTCCTAAGAGCATTCATGCTAGTGA
89693569 CGTGTATTCG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 2 0.03
40 60 0.95
41 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTTCCTAAGAGCATTCATGCTAGTGATATATC
Found at i:89696909 original size:47 final size:47
Alignment explanation
Indices: 89696761--89696885 Score: 216
Period size: 47 Copynumber: 2.7 Consensus size: 47
89696751 TTAGGATTCT
* *
89696761 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
89696808 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
89696855 ATGTGATGAATGTGAAAGTGTATATATGTGA
1 ATGTGATGAATGTGAAAGTGTATATATGTGA
89696886 CAGGGCCGAG
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
46 1 0.01
47 74 0.99
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:89697110 original size:37 final size:37
Alignment explanation
Indices: 89697054--89697132 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
89697044 CCGAGCTCTA
* * *
89697054 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
89697091 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
89697128 AAGAC
1 AAGAC
89697133 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:89698817 original size:20 final size:21
Alignment explanation
Indices: 89698792--89698831 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89698782 CACTTCAAGC
89698792 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
89698812 AGGGCAACACGCCTGTGTGG
1 AGGGCAACACGCCCGTGTGG
89698832 CCCTGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:89700844 original size:40 final size:40
Alignment explanation
Indices: 89700799--89701663 Score: 1462
Period size: 40 Copynumber: 21.6 Consensus size: 40
89700789 CAAGCTCAAT
* * * * *
89700799 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
89700839 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
89700879 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
89700919 CGCCATCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
89700959 CGCCATCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
89700999 TGCCTTCGGGTCTTATCCTGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
89701039 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
89701079 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
89701119 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
89701159 TGCCTTCGGGTCTTATCCCGGATATATCAATTCACACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
89701199 TGCCTTCAGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
89701239 TGCCTTCGGGTCTTATCCCGAATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
89701279 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
89701319 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
89701359 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
89701399 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
89701439 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
89701479 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
89701519 TGCCTTCAGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
89701559 TGCCTTCGGGTCTTAACCCGGATATATCAATTCACACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
89701599 TGCCTTCGGGTCTTAACCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
89701639 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
89701664 CATTCAAATG
Statistics
Matches: 790, Mismatches: 33, Indels: 4
0.96 0.04 0.00
Matches are distributed among these distances:
39 2 0.00
40 787 1.00
41 1 0.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:89706758 original size:23 final size:24
Alignment explanation
Indices: 89706714--89706758 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
89706704 TAGCCCTTTC
* * *
89706714 GAGCTTTCCATATATGGTTCTTGT
1 GAGCTTCCCATATATAGCTCTTGT
89706738 GAGCTTCCCAT-TATAGCTCTT
1 GAGCTTCCCATATATAGCTCTT
89706759 CGGAGCGTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 8 0.44
24 10 0.56
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (24 bp):
GAGCTTCCCATATATAGCTCTTGT
Found at i:89708238 original size:55 final size:55
Alignment explanation
Indices: 89708133--89708384 Score: 258
Period size: 55 Copynumber: 4.7 Consensus size: 55
89708123 AGGGTTTAAA
* *
89708133 GATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTCTATAAGGCAAG
* * *
89708188 GATATCATGTAAGACCATGTCAAGACATGGC-ATCGGTAAGTTACTATAAGGCAAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT-CTATAAGGC-AAG
* * *
89708244 G-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTCTATAAGGCAAG
* *
89708296 GATACCATGTAAGACCATGTCGAGACATGGCAA-TGGTAAGTT-TA-AA---AAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTCTATAAGGCAAG
** * * *
89708345 GATACCACATAAGACCACGACAAGTCATGGCAA-TGGTAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
89708385 GTACTCGTGT
Statistics
Matches: 169, Mismatches: 22, Indels: 18
0.81 0.11 0.09
Matches are distributed among these distances:
49 37 0.22
52 6 0.04
53 44 0.26
54 9 0.05
55 69 0.41
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (55 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTCTATAAGGCAAG
Found at i:89708334 original size:108 final size:110
Alignment explanation
Indices: 89708137--89708337 Score: 329
Period size: 108 Copynumber: 1.8 Consensus size: 110
89708127 TTTAAAGATA
*
89708137 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
89708202 CCATGTCAAGACATGGCATCGGTAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCATCGGTAAGTTACTATAAGGCAAAGGTC
*
89708247 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAG
*
89708309 ACCATGTCGAGACATGGCAAT-GGTAAGTT
65 ACCATGTCAAGACATGGC-ATCGGTAAGTT
89708338 TAAAAAGGAT
Statistics
Matches: 86, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
107 3 0.03
108 47 0.55
109 9 0.10
110 27 0.31
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCATCGGTAAGTTACTATAAGGCAAAGGTC
Found at i:89715059 original size:28 final size:28
Alignment explanation
Indices: 89714983--89715051 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
89714973 ATCCATACTT
* * *
89714983 ATTCATTTGGCCCCTTCAGGCCAAATCTC
1 ATTCATATGG-CCCATCAGGCCAAATCAC
*
89715012 ATTCATATGGCCCATCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCAAATCAC
*
89715040 TTTCATATGGCC
1 ATTCATATGGCC
89715052 TGTCAGGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 26 0.74
29 9 0.26
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.29
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCAAATCAC
Found at i:89715571 original size:21 final size:21
Alignment explanation
Indices: 89715547--89715586 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
89715537 ACTAAACACC
*
89715547 AAGTGACTCGTAAATCATCTT
1 AAGTCACTCGTAAATCATCTT
*
89715568 AAGTCACTCTTAAATCATC
1 AAGTCACTCGTAAATCATC
89715587 CATGACCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
AAGTCACTCGTAAATCATCTT
Found at i:89720274 original size:39 final size:41
Alignment explanation
Indices: 89720173--89720356 Score: 206
Period size: 40 Copynumber: 4.6 Consensus size: 41
89720163 TTGAATGATG
* *
89720173 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
89720213 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
89720253 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
89720292 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
89720332 ACC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89720357 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
39 56 0.44
40 58 0.46
41 12 0.09
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:89720309 original size:79 final size:81
Alignment explanation
Indices: 89720173--89720356 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
89720163 TTGAATGATG
*
89720173 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
89720237 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
89720252 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
89720314 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
89720332 ACC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
89720357 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 7 0.08
79 65 0.71
80 19 0.21
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:89720374 original size:79 final size:78
Alignment explanation
Indices: 89720174--89720389 Score: 190
Period size: 79 Copynumber: 2.7 Consensus size: 78
89720164 TGAATGATGT
** * * * *
89720174 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGG-TTAA-ATCCCGAAGGCATT
*
89720237 TGTGCGAGATACTAATT
62 TGTGCGAGATACTAATA
** * *
89720254 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGT
*
89720319 GCGAGTTACT-ATAA
65 GCGAGATACTAAT-A
* * *
89720333 CC-GGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
89720390 TACGTGATTT
Statistics
Matches: 115, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
78 24 0.21
79 72 0.63
80 19 0.17
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:89728848 original size:21 final size:21
Alignment explanation
Indices: 89728819--89728858 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
89728809 ACTAAACAAC
*
89728819 AAGTGACTCGCAAATCATCTT
1 AAGTCACTCGCAAATCATCTT
**
89728840 AAGTCACTCTTAAATCATC
1 AAGTCACTCGCAAATCATC
89728859 CATGACCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (21 bp):
AAGTCACTCGCAAATCATCTT
Found at i:89731184 original size:13 final size:13
Alignment explanation
Indices: 89731146--89731191 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
89731136 CATAGGTGAA
89731146 ATGTGTTTATTTTG
1 ATGT-TTTATTTTG
89731160 ATGTTTTA---TG
1 ATGTTTTATTTTG
*
89731170 ATATTTTATTTTG
1 ATGTTTTATTTTG
89731183 ATGTTTTAT
1 ATGTTTTAT
89731192 GGTAGAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
10 9 0.33
13 14 0.52
14 4 0.15
ACGTcount: A:0.20, C:0.00, G:0.15, T:0.65
Consensus pattern (13 bp):
ATGTTTTATTTTG
Found at i:89731853 original size:55 final size:55
Alignment explanation
Indices: 89731792--89732048 Score: 207
Period size: 55 Copynumber: 4.8 Consensus size: 55
89731782 ATTAGGGTTT
* *
89731792 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * * * *
89731847 AAGGATATCATGTAAGACCATATCAAGACATGAC-ATTGATAA-GTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTT--TCTAAGGC
* * * * * *
89731902 AAAGG-TCCCATGTAAGACTATGGCAAGGCATGGC-ATTGGTGA-G-TTCATAAAGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTC-TAAGGC
* *
89731955 AAGGATACCATGTAAGACCATGTCGAGACATGG-AAATGGT-AGGTTTC-AA---
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* ** * *
89732004 AAGGATACCACGTAAGACCATGAAAAGTCATGG-AAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGT
89732049 ACCCGTGTAT
Statistics
Matches: 164, Mismatches: 29, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
49 35 0.21
50 4 0.02
52 8 0.05
53 37 0.23
54 11 0.07
55 65 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
Found at i:89732259 original size:16 final size:16
Alignment explanation
Indices: 89732238--89732268 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
89732228 ATAAATTTGA
89732238 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
89732254 TTAAGTAAGTAAGTA
1 TTAAGTAAGTAAGTA
89732269 AGTGAAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:89734189 original size:22 final size:23
Alignment explanation
Indices: 89734164--89734206 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
89734154 ATTCCATATC
*
89734164 ATAAACA-ACCAAATTCATGCTT
1 ATAAACATACCAAAATCATGCTT
*
89734186 ATAATCATACCAAAATCATGC
1 ATAAACATACCAAAATCATGC
89734207 CAAAACATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.26
Consensus pattern (23 bp):
ATAAACATACCAAAATCATGCTT
Found at i:89742485 original size:40 final size:40
Alignment explanation
Indices: 89742421--89742496 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
89742411 CTATCTCGAT
89742421 TTTGCACACTTAGTGCCTCATATAGCC-AGAGCTATTCCAA
1 TTTGCACACTTAGTGCCTCATATAGCCGA-AGCTATTCCAA
89742461 TTTGCACACTTAGTG-CT-ATTTATAGCCGAAGCTATT
1 TTTGCACACTTAGTGCCTCA--TATAGCCGAAGCTATT
89742497 TTGAATCGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
38 1 0.03
39 2 0.06
40 29 0.88
41 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (40 bp):
TTTGCACACTTAGTGCCTCATATAGCCGAAGCTATTCCAA
Found at i:89745729 original size:39 final size:39
Alignment explanation
Indices: 89745532--89745729 Score: 279
Period size: 39 Copynumber: 5.1 Consensus size: 39
89745522 GGATTCCATT
* *
89745532 CCAGCACGTAGCCTGCGGACTTCAAGTCCGGATATATTT
1 CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
* *
89745571 CCAGAACATAGCCTGCGGACTTCAAGTCCGGATATATTT
1 CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
* *
89745610 CCAGCACATAGCTTGTGGACTTCAAGTCCGGATATATTC
1 CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
* * * *
89745649 CCAGCATATAGCCTGCGGACCTCATGTCCGGATATACTC
1 CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
* * *
89745688 CCAGCATATAGCCTGCGGACCTCATGTCCGGATATATTC
1 CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
89745727 CCA
1 CCA
89745730 ATATCATGCA
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 146 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CCAGCACATAGCCTGCGGACTTCAAGTCCGGATATATTC
Found at i:89753485 original size:39 final size:39
Alignment explanation
Indices: 89753431--89753625 Score: 239
Period size: 39 Copynumber: 5.0 Consensus size: 39
89753421 CTGGATTCCC
*
89753431 TTCCAGCACGTAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * * *
89753470 TTCCAGAACATAGCCTACGGACTTTAAGTCCGAATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
*
89753509 TTCTAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * * * *
89753548 TCCCAGCATATAGCCTGCTGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
* * * * *
89753587 TCCCAGCA-TTATCCTGCGGACCTCATGTCCGGATATAT
1 TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
89753625 T
1 T
89753626 CCCAATATTG
Statistics
Matches: 137, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
38 28 0.20
39 109 0.80
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATAT
Found at i:89764268 original size:9 final size:9
Alignment explanation
Indices: 89764254--89764288 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
89764244 TATAGTTTGA
89764254 TATTCGAAT
1 TATTCGAAT
89764263 TATTCGAAT
1 TATTCGAAT
89764272 TATTC-AAGT
1 TATTCGAA-T
89764281 TATTCGAA
1 TATTCGAA
89764289 ATCGAAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 2 0.08
9 20 0.83
10 2 0.08
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:89767239 original size:40 final size:40
Alignment explanation
Indices: 89767087--89767232 Score: 208
Period size: 40 Copynumber: 3.7 Consensus size: 40
89767077 TACCAGCTCG
* * * *
89767087 TAGCCTGCGGGTCTCT-AGCCCGGATAGCATTCTAGCACGA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCA-TA
*
89767127 -AGCCTGCGAGTCTTTAAGCCCGGATAACATTCCAGCATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
89767166 TAGCCTGCAGGG-CTTTAAGCCCGGATAACATTCCAGCATA
1 TAGCCTGC-GGGTCTTTAAGCCCGGATAACATTCCAGCATA
89767206 TAGCCTGCGGGTCTTTAAGCCCGGATA
1 TAGCCTGCGGGTCTTTAAGCCCGGATA
89767233 CAATTCCTCA
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
39 17 0.18
40 77 0.80
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
TAGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCATA
Found at i:89769469 original size:40 final size:40
Alignment explanation
Indices: 89769287--89769509 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
89769277 TCCTCGTTCA
* * * * *
89769287 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
89769326 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
89769366 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
89769406 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
89769446 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
89769486 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
89769510 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:89769518 original size:41 final size:41
Alignment explanation
Indices: 89769441--89769518 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
89769431 TTAGTATCTC
* * *
89769441 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
89769482 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
89769519 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:89777184 original size:39 final size:40
Alignment explanation
Indices: 89777141--89777361 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
89777131 TCCTCGTTCA
* * * * *
89777141 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
89777180 AATGCCTTCGGGAC-TAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
89777219 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
89777259 AATGCCTTCGGG-CTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
89777298 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
89777338 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
89777362 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 17, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
38 22 0.14
39 60 0.38
40 69 0.43
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:89777285 original size:79 final size:78
Alignment explanation
Indices: 89777139--89777308 Score: 234
Period size: 79 Copynumber: 2.2 Consensus size: 78
89777129 GCTCCTCGTT
* * *
89777139 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTAACCCGGAT
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTAACCCGGAT
89777204 TTAATAACTCGCA
66 TTAATAACTCGCA
* * *
89777217 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGG-CTTAACCCGG
1 CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGAC-TAACCCGG
* *
89777281 ATTTAGTATCTCGCA
64 ATTTAATAACTCGCA
*
89777296 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
89777309 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
78 36 0.45
79 44 0.55
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTAACCCGGAT
TTAATAACTCGCA
Found at i:89777321 original size:79 final size:78
Alignment explanation
Indices: 89777139--89777361 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 78
89777129 GCTCCTCGTT
* * * * *
89777139 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTAACCCGGAT
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTAACCCGGAT
89777204 TTAATAACTCGCA
66 TTAATAACTCGCA
* * *
89777217 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGG-CTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGAC-TAACCCGG
* *
89777281 ATTTAGTATCTCGCA
64 ATTTAATAACTCGCA
** * * * * * *
89777296 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACAATGCCTTCGGGAC-TAACCCG
89777360 GA
63 GA
89777362 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
78 39 0.32
79 69 0.57
80 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTAACCCGGAT
TTAATAACTCGCA
Found at i:89777370 original size:41 final size:41
Alignment explanation
Indices: 89777293--89777370 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
89777283 TTAGTATCTC
* * *
89777293 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
89777334 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
89777371 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:89784269 original size:215 final size:216
Alignment explanation
Indices: 89783892--89784314 Score: 555
Period size: 215 Copynumber: 2.0 Consensus size: 216
89783882 TTTCCTTTTT
* * *
89783892 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCAAT
1 GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAAT
* *
89783957 GCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTACAGTAACTCATCAATGCCATGTCTT
66 GCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCCTACAGTAACTCATCAATGCCATGCCTT
* * *
89784022 GACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCACGCCTTGGCATGGTCTT
131 GACATGGTCTTACATGATATCCATACCTTATAGAACTTATCAATGCCACGCCTTGGCATGGTCTT
*
89784087 ACATGATTTCCTTGCCTTATA
196 ACATGATATCCTTGCCTTATA
* * * * * * *
89784108 GAACTTATCAATGCCCTG-CTTGGCATGGTCTTACATGATTTCCTTGCCTTATAGAATTTATCAA
1 GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAA
* *** ** *
89784172 TGCCATGCCTTGGCATGGTCTTACATGATTTCC-TTGCCCTA-TTTAACTTATCAATGCCATGCC
65 TGCCATGCCTTAGCATGGTCTTACATG-GGACCTTTGCCCTACAGTAACTCATCAATGCCATGCC
* * * * *
89784235 TTGGCATGGTCTTAGATGATATCCATATCTTATAGAACTTATCAATGCCATGCCTTGTCATGGTC
129 TTGACATGGTCTTACATGATATCCATACCTTATAGAACTTATCAATGCCACGCCTTGGCATGGTC
89784300 TTACATGATATCCTT
194 TTACATGATATCCTT
89784315 ATCTTACAAA
Statistics
Matches: 177, Mismatches: 28, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
215 119 0.67
216 56 0.32
217 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (216 bp):
GAACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAAT
GCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCCTACAGTAACTCATCAATGCCATGCCTT
GACATGGTCTTACATGATATCCATACCTTATAGAACTTATCAATGCCACGCCTTGGCATGGTCTT
ACATGATATCCTTGCCTTATA
Found at i:89784320 original size:54 final size:54
Alignment explanation
Indices: 89783892--89784314 Score: 537
Period size: 54 Copynumber: 7.9 Consensus size: 54
89783882 TTTCCTTTTT
* * * * * *
89783892 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * * ** *
89783945 GAACTCACCAATGCCATGCCTTAGCATGGTCTTACATGGGA-CCTTTGCCTTACA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
89783999 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* *
89784054 GAACTTATCAATGCCACGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* *
89784108 GAACTTATCAATGCCCTG-CTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * * *
89784161 GAATTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCCTATT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
* * * **
89784215 TAACTTATCAATGCCATGCCTTGGCATGGTCTTAGATGATATCCATATCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
*
89784269 GAACTTATCAATGCCATGCCTTGTCATGGTCTTACATGATATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
89784315 ATCTTACAAA
Statistics
Matches: 326, Mismatches: 39, Indels: 9
0.87 0.10 0.02
Matches are distributed among these distances:
52 2 0.01
53 93 0.29
54 186 0.57
55 43 0.13
56 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATA
Found at i:89784499 original size:45 final size:45
Alignment explanation
Indices: 89784272--89784500 Score: 136
Period size: 45 Copynumber: 5.0 Consensus size: 45
89784262 TCTTATAGAA
* * * **
89784272 CTTATCAATGCCATGCCTTGTCATGGTCTTACATGATATCCTTAT
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGC
* * *** * *
89784317 CTTACAAATGCTATGTTCCAAACATGGTCTTACATGGTATCCTTGT
1 CTTACCAATGCCATG-TCTTGACATGGTCTTACATGATATCCTTGC
** ** * * * *
89784363 CTTAGTGCCAATGCCACATCTTGATGTGGTCTTATATGGA-GTCTTTAATC
1 CTTA---CCAATGCCATGTCTTGACATGGTCTTACAT-GATATCCTT--GC
** * * * * **
89784413 AATGCCGATGCCATGTCTTGACATGGTTTTACACGGGATCCTTGC
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGC
89784458 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTT
89784501 AACCATCAAT
Statistics
Matches: 128, Mismatches: 48, Indels: 16
0.67 0.25 0.08
Matches are distributed among these distances:
45 48 0.38
46 28 0.22
47 26 0.20
48 17 0.13
49 8 0.06
50 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (45 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGC
Found at i:89785167 original size:30 final size:31
Alignment explanation
Indices: 89785124--89785181 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
89785114 CTAACTCAAA
89785124 CTTTGACAAAATTACAATTTTACCCCTAAAC
1 CTTTGACAAAATTACAATTTTACCCCTAAAC
* ** *
89785155 CTTTG-CAGAATTATGATTTTTCCCCTA
1 CTTTGACAAAATTACAATTTTACCCCTA
89785182 GGCTCAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (31 bp):
CTTTGACAAAATTACAATTTTACCCCTAAAC
Found at i:89789167 original size:3 final size:3
Alignment explanation
Indices: 89789161--89789189 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
89789151 TAGAAGACTT
89789161 ACC ACC ACC ACC ACC ACC ACC ACC ACC AC
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC AC
89789190 AGCTACCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:89789923 original size:28 final size:28
Alignment explanation
Indices: 89789891--89789944 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
89789881 GTACAGTCTA
* *
89789891 GGCCTTAGCCCTATACAGTAACAGTGTG
1 GGCCTAAGCCCCATACAGTAACAGTGTG
* *
89789919 GGCCTAAGCCCCATGCAGTATCAGTG
1 GGCCTAAGCCCCATACAGTAACAGTG
89789945 CAGTGTAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.24, C:0.28, G:0.26, T:0.22
Consensus pattern (28 bp):
GGCCTAAGCCCCATACAGTAACAGTGTG
Found at i:89790157 original size:27 final size:26
Alignment explanation
Indices: 89790098--89790179 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
89790088 AGCTGTCAGA
* *
89790098 AACAGTAAATGTGGCAAAGCCACCATT
1 AACAGT-AATGTGGCATAGCCACCAGT
*
89790125 ATCAGTAATTGTGGCATAGCCACCAGT
1 AACAGTAA-TGTGGCATAGCCACCAGT
* *
89790152 AACAGTGAATGTGACATAGTCACCAGT
1 AACAGT-AATGTGGCATAGCCACCAGT
89790179 A
1 A
89790180 CTGTAACGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 43 0.91
28 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (26 bp):
AACAGTAATGTGGCATAGCCACCAGT
Found at i:89791460 original size:46 final size:46
Alignment explanation
Indices: 89791289--89791464 Score: 149
Period size: 46 Copynumber: 3.8 Consensus size: 46
89791279 TGTAACCCGC
* * * *
89791289 CCATAAGCGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* ** * * *
89791335 CCGTAATTGAACTCGGACTCAACTCAACGAGCTCGGATG-CCTCATT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCA-T
* * * * *
89791381 ACATCTCA-CGAACTCAGACTCAACCCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * *
89791428 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
89791465 TGCCCAAATA
Statistics
Matches: 99, Mismatches: 26, Indels: 10
0.73 0.19 0.07
Matches are distributed among these distances:
45 4 0.04
46 60 0.61
47 30 0.30
48 5 0.05
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:89795847 original size:33 final size:33
Alignment explanation
Indices: 89795805--89795870 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
89795795 AATATATAAC
*
89795805 ACAGTCTGGGCTTTAGCCCTATACAGTATCAGT
1 ACAGTCTGGGCTTTAGCCCTATACAGTAACAGT
89795838 ACAGTCTGGGCTTTAGCCCTATACAGTAACAGT
1 ACAGTCTGGGCTTTAGCCCTATACAGTAACAGT
89795871 GTGGGCTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (33 bp):
ACAGTCTGGGCTTTAGCCCTATACAGTAACAGT
Found at i:89796086 original size:27 final size:27
Alignment explanation
Indices: 89796056--89796134 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
89796046 TGCCAGAAAC
*
89796056 AGTAAATGTGGCAAAGCCACTAGTATT
1 AGTAAATGTGGCAAAGCCACCAGTATT
** * **
89796083 AGTAGTTGTGGCATAGCCACCAGTAAC
1 AGTAAATGTGGCAAAGCCACCAGTATT
* * * *
89796110 AGTGAATGTGACATAGTCACCAGTA
1 AGTAAATGTGGCAAAGCCACCAGTA
89796135 CAATACTTCC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (27 bp):
AGTAAATGTGGCAAAGCCACCAGTATT
Found at i:89796360 original size:26 final size:26
Alignment explanation
Indices: 89796275--89796364 Score: 99
Period size: 27 Copynumber: 3.4 Consensus size: 26
89796265 GGCATAATCT
**
89796275 TCATTTTACCAAACATGGGTATTACGG
1 TCATTTTACCCTACA-GGGTATTACGG
* * *
89796302 CCATTTTACCCTACCGGGGCATTACGG
1 TCATTTTACCCTA-CAGGGTATTACGG
* *
89796329 TTATTTTACCCTACAGGGTATTACGA
1 TCATTTTACCCTACAGGGTATTACGG
89796355 TCATTTTACC
1 TCATTTTACC
89796365 TATTTTGGGG
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
26 19 0.37
27 31 0.61
28 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGTATTACGG
Found at i:89804992 original size:46 final size:45
Alignment explanation
Indices: 89804942--89805117 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
89804932 TGGTTGAGCA
89804942 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
89804988 TCCGAACTCGTTGAGTTGAGTTCGAGTTCA-TGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * **
89805033 CATCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
89805081 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89805118 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.59
47 27 0.26
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:89805098 original size:93 final size:93
Alignment explanation
Indices: 89804939--89805110 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
89804929 GGATGGTTGA
***
89804939 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
*
89805004 TGAGTTCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
* * * * *
89805032 GCATCTGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACACCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
89805097 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
89805111 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:89816984 original size:40 final size:40
Alignment explanation
Indices: 89816821--89816971 Score: 250
Period size: 40 Copynumber: 3.8 Consensus size: 40
89816811 TATTCGAATG
89816821 ATATCCGGGCTAAG-CCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
89816860 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
89816900 ATATCTGGGCTAAGTCCCGAATGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
89816940 ATATCCGGGCTAAGACCCGAAGGTATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
89816972 GAGTTGCGAT
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:89816984 original size:80 final size:79
Alignment explanation
Indices: 89816820--89816991 Score: 249
Period size: 80 Copynumber: 2.2 Consensus size: 79
89816810 TTATTCGAAT
* *
89816820 GATATCCGGGCTAAGCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA
1 GATATCTGGGCTAAGCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
89816885 TTTGTGCTAGTGAC
66 TTTGTGCGAGTGAC
* * * *
89816899 TATATCTGGGCTAAGTCCCGAATGCATTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGT
1 GATATCTGGGCTAAG-CCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGC
89816964 ATTTGTGCGAGTTG-C
65 ATTTGTGCGAG-TGAC
89816979 GATATCT-GGCTAA
1 GATATCTGGGCTAA
89816992 ATCCTGAAGG
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
79 19 0.23
80 62 0.75
81 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (79 bp):
GATATCTGGGCTAAGCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTGAC
Found at i:89820323 original size:280 final size:280
Alignment explanation
Indices: 89819822--89820382 Score: 1061
Period size: 280 Copynumber: 2.0 Consensus size: 280
89819812 GTGATTGCAT
*
89819822 TGATTGACCCTGGTTCTACTCATTCTTATATATGTGAGACTTTAGCATCTAGTAAGACTTTACCT
1 TGATTGACCCTGGTTCTACTCATTCTTATATATGTGAGACTTTAGCATCCAGTAAGACTTTACCT
89819887 GTTGAGTCTACTGAGTTCGTTATTATGGTGTCGAATCCCTTGGGTCATTGTGTGCTTGTTGATAA
66 GTTGAGTCTACTGAGTTCGTTATTATGGTGTCGAATCCCTTGGGTCATTGTGTGCTTGTTGATAA
89819952 AGTGTGTAAGAAATGTCCCCTAGTAATCCGAGGTTCCTATTTTCCGGCCGATTTGATGCTTTCAC
131 AGTGTGTAAGAAATGTCCCCTAGTAATCCGAGGTTCCTATTTTCCGGCCGATTTGATGCTTTCAC
*
89820017 CTTTTGATGAATTTGATGTTATCCTCGGTATGGATTGGTTAACCGTACATGATGCAATTGTAAAT
196 CGTTTGATGAATTTGATGTTATCCTCGGTATGGATTGGTTAACCGTACATGATGCAATTGTAAAT
89820082 TGCAAAAGAAAAACCATTGA
261 TGCAAAAGAAAAACCATTGA
*
89820102 TGATTGACCCTGGTTCTACTCATTCTTATATATGTGAGGCTTTAGCATCCAGTAAGACTTTACCT
1 TGATTGACCCTGGTTCTACTCATTCTTATATATGTGAGACTTTAGCATCCAGTAAGACTTTACCT
89820167 GTTGAGTCTACTGAGTTCGTTATTA-GAGTGTCGAATCCCTTGGGTCATTGTGTGCTTGTTGATA
66 GTTGAGTCTACTGAGTTCGTTATTATG-GTGTCGAATCCCTTGGGTCATTGTGTGCTTGTTGATA
* *
89820231 AAGTGTGTAAGAAATGTCCCCTAGTAATCCGAGGTTCCTGTTTTCCGGCCGATTTGATGCTTTTA
130 AAGTGTGTAAGAAATGTCCCCTAGTAATCCGAGGTTCCTATTTTCCGGCCGATTTGATGCTTTCA
89820296 CCGTTTGATGAATTTGATGTTATCCTCGGTATGGATTGGTTAACCGTACATGATGCAATTGTAAA
195 CCGTTTGATGAATTTGATGTTATCCTCGGTATGGATTGGTTAACCGTACATGATGCAATTGTAAA
89820361 TTGCAAAAGAAAAACCATTGA
260 TTGCAAAAGAAAAACCATTGA
89820382 T
1 T
89820383 TTGAGGTGTG
Statistics
Matches: 275, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
279 1 0.00
280 274 1.00
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (280 bp):
TGATTGACCCTGGTTCTACTCATTCTTATATATGTGAGACTTTAGCATCCAGTAAGACTTTACCT
GTTGAGTCTACTGAGTTCGTTATTATGGTGTCGAATCCCTTGGGTCATTGTGTGCTTGTTGATAA
AGTGTGTAAGAAATGTCCCCTAGTAATCCGAGGTTCCTATTTTCCGGCCGATTTGATGCTTTCAC
CGTTTGATGAATTTGATGTTATCCTCGGTATGGATTGGTTAACCGTACATGATGCAATTGTAAAT
TGCAAAAGAAAAACCATTGA
Found at i:89826697 original size:40 final size:40
Alignment explanation
Indices: 89826642--89826783 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
89826632 TATTCGAATG
89826642 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
89826682 ATATCCGGGCCAAGTCTCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
89826722 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTG-CG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
89826762 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
89826784 TACTTGGGTT
Statistics
Matches: 88, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 13 0.15
40 73 0.83
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:89828492 original size:24 final size:24
Alignment explanation
Indices: 89828442--89828493 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
89828432 GTGTTTTGTT
* *
89828442 GAGAAAATCAAGGAGAGGATTGGG
1 GAGAAAAGCAAGGAGAGGATTAGG
*
89828466 GAGAAAAGCAAGGAGAGGATTATG
1 GAGAAAAGCAAGGAGAGGATTAGG
89828490 GAGA
1 GAGA
89828494 GTTTTTAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.40, T:0.12
Consensus pattern (24 bp):
GAGAAAAGCAAGGAGAGGATTAGG
Found at i:89832634 original size:39 final size:39
Alignment explanation
Indices: 89832575--89832754 Score: 281
Period size: 39 Copynumber: 4.6 Consensus size: 39
89832565 TATACATATA
*
89832575 TGCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
*
89832614 TGCTTCAGTTAGCCTTCGGGCTTTCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
* *
89832653 TGCTTCAGTTAGCC-TCTAGGCTTCCATTTAGCACTTATG
1 TGCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATG
89832692 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
* **
89832731 TGCTTCAGCTAGATTTCGGGCTTC
1 TGCTTCAGTTAGCCTTCGGGCTTC
89832755 AGATCACGAT
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 2 0.02
39 125 0.97
40 2 0.02
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (39 bp):
TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
Found at i:89836104 original size:38 final size:38
Alignment explanation
Indices: 89836035--89836158 Score: 194
Period size: 39 Copynumber: 3.2 Consensus size: 38
89836025 TATACATATA
*
89836035 TGCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCT-CGGGCTTCCATTTAGCACTTATG
*
89836074 TGCTTCAGTTAGCCTCTGGCTTCCATTTAGCACTTATG
1 TGCTTCAGTTAGCCTCGGGCTTCCATTTAGCACTTATG
* *
89836112 TGCTTTAGCTAGCCTTCGGGCTTCCATTTAGCACTTATG
1 TGCTTCAGTTAGCC-TCGGGCTTCCATTTAGCACTTATG
89836151 TGCTTCAG
1 TGCTTCAG
89836159 CTATATTTCG
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 33 0.42
39 45 0.58
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.38
Consensus pattern (38 bp):
TGCTTCAGTTAGCCTCGGGCTTCCATTTAGCACTTATG
Found at i:89836169 original size:39 final size:39
Alignment explanation
Indices: 89836051--89836174 Score: 162
Period size: 39 Copynumber: 3.2 Consensus size: 39
89836041 AGTTAGCCTC
* *
89836051 CGGGCTTCCGTTTAGCACTTATGTGCTTCAG-T-TAGCCT
1 CGGGCTTCCATTTAGCACTTATGTGCTTCAGCTATA-CTT
* * **
89836089 CTGGCTTCCATTTAGCACTTATGTGCTTTAGCTAGCCTT
1 CGGGCTTCCATTTAGCACTTATGTGCTTCAGCTATACTT
*
89836128 CGGGCTTCCATTTAGCACTTATGTGCTTCAGCTATATTT
1 CGGGCTTCCATTTAGCACTTATGTGCTTCAGCTATACTT
89836167 CGGGCTTC
1 CGGGCTTC
89836175 AGATCACGAT
Statistics
Matches: 73, Mismatches: 11, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
38 28 0.38
39 45 0.62
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.39
Consensus pattern (39 bp):
CGGGCTTCCATTTAGCACTTATGTGCTTCAGCTATACTT
Found at i:89837523 original size:31 final size:31
Alignment explanation
Indices: 89837485--89837603 Score: 143
Period size: 31 Copynumber: 3.8 Consensus size: 31
89837475 ACAAATGACA
* *
89837485 AGTGAAAAGTAGTAGCTTCGGCTACCTGGTC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
89837516 AGTGAAAAGTGGTAGC-TCTGGCTACCTGAT-
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
89837546 AGATAAAAAGATGGTAGCTCCGGCTACCTGATC
1 AG-TGAAAAG-TGGTAGCTTCGGCTACCTGATC
* *
89837579 AGTGAATAGTGGTAGCTTCGTCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
89837604 AAGTGACAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
30 4 0.05
31 45 0.60
32 23 0.31
33 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:89840957 original size:32 final size:31
Alignment explanation
Indices: 89840872--89840990 Score: 159
Period size: 31 Copynumber: 3.8 Consensus size: 31
89840862 ACAAATGACA
* *
89840872 AGTGAAAAGTAGTAGCTTCAGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
*
89840903 AGTGAAAAGTGGTAGCTCCGGCTACCTGA-T
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
* *
89840933 AGATAAAAAAATGGTAGCTTCGGCTACCTGATT
1 AG-T-GAAAAGTGGTAGCTTCGGCTACCTGATT
*
89840966 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
89840991 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
30 3 0.04
31 46 0.61
32 24 0.32
33 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
Found at i:89844357 original size:32 final size:31
Alignment explanation
Indices: 89844272--89844390 Score: 159
Period size: 31 Copynumber: 3.8 Consensus size: 31
89844262 ACAAATGACA
* *
89844272 AGTGAAAAGTAGTAGCTTCAGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
*
89844303 AGTGAAAAGTGGTAGCTCCGGCTACCTGA-T
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
* *
89844333 AGATAAAAAAATGGTAGCTTCGGCTACCTGATT
1 AG-T-GAAAAGTGGTAGCTTCGGCTACCTGATT
*
89844366 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
89844391 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
30 3 0.04
31 46 0.61
32 24 0.32
33 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
Found at i:89844480 original size:46 final size:47
Alignment explanation
Indices: 89844413--89844506 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 47
89844403 ACAAGTGATT
*
89844413 TCCGTATAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTGA
1 TCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGA
* * * * *
89844459 TCCGTGTAAGACCATGGCTGGGCTATGGCTTCGGTGTGTGATATGTGA
1 TCCGTATAAGACCATAGCTGGGATATGGCATC-GAGTGTGATATGTGA
89844507 CTATGTGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
46 27 0.68
48 13 0.32
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (47 bp):
TCCGTATAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGA
Found at i:89844718 original size:20 final size:20
Alignment explanation
Indices: 89844664--89844734 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
89844654 AAGATGTATA
**
89844664 ACAGAGGCACCAAAATGTAG
1 ACAGAGGCACCAATGTGTAG
* * *
89844684 ACAAAGACACAAATGTGTAG
1 ACAGAGGCACCAATGTGTAG
* * *
89844704 TCAGAGGCACCAATGTGCAA
1 ACAGAGGCACCAATGTGTAG
*
89844724 ACAGGGGCACC
1 ACAGAGGCACC
89844735 GAAGTGCAAA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.41, C:0.23, G:0.25, T:0.11
Consensus pattern (20 bp):
ACAGAGGCACCAATGTGTAG
Found at i:89845783 original size:15 final size:15
Alignment explanation
Indices: 89845763--89845799 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
89845753 AGATGATACC
*
89845763 TTATTTTTATTTTAT
1 TTATTTATATTTTAT
*
89845778 TTATTTATGTTTTAT
1 TTATTTATATTTTAT
89845793 TTATTTA
1 TTATTTA
89845800 ATTACAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (15 bp):
TTATTTATATTTTAT
Found at i:89845795 original size:19 final size:19
Alignment explanation
Indices: 89845763--89845799 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
89845753 AGATGATACC
89845763 TTATTTTTATTTTATTTAT
1 TTATTTTTATTTTATTTAT
89845782 TTATGTTTTA-TTTATTTA
1 TTAT-TTTTATTTTATTTA
89845800 ATTACAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (19 bp):
TTATTTTTATTTTATTTAT
Found at i:89851408 original size:27 final size:26
Alignment explanation
Indices: 89851377--89851581 Score: 180
Period size: 27 Copynumber: 7.6 Consensus size: 26
89851367 TAAATTGTAC
89851377 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
89851404 TGCACTAAGTGTGCGAAATGGA-TATG-
1 AGCACTAAGTGTGCG--ATTGACTATGT
* *
89851430 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
89851458 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGC--GATTGACTATGT
* * *
89851486 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
89851513 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
89851540 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
89851567 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89851582 GGCTCAATAA
Statistics
Matches: 153, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.05
27 119 0.78
28 24 0.16
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:89851438 original size:54 final size:54
Alignment explanation
Indices: 89851378--89851581 Score: 207
Period size: 54 Copynumber: 3.7 Consensus size: 54
89851368 AAATTGTACA
*
89851378 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGA-TATGAT-
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGGACTATG-TG
* ** *
89851432 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGGACTATGTG
* * * * * * *
89851487 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCG-ATTTGATTACGTA
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAAATGGACTATGTG
* * *
89851541 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
89851582 GGCTCAATAA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
54 86 0.68
55 41 0.32
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGGACTATGTG
Found at i:89851518 original size:82 final size:82
Alignment explanation
Indices: 89851376--89851556 Score: 215
Period size: 82 Copynumber: 2.2 Consensus size: 82
89851366 TTAAATTGTA
* * *
89851376 CAGCACTAAGTGTGCGA-TTCGACTATGTTGCACTAAGTGTGCGAAATGGATATGATGCACTAAG
1 CAGCACTAAGTGTGCGAGATCGACTATGTGGCACTAAGTGTGCGAAATGGATACGATGCACTAAG
*
89851440 TGTGCGAATTGACCATG
66 TGTGCGAATTGACCACG
* * * *
89851457 CGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTA
1 CAGCACTAAGTGTGCGAGATCGACTATGTGGCACTAAGTGTGCGAAATGGA-TACGAT-GCACTA
* **
89851520 AGTGTGCGATTTGATTACG
64 AGTGTGCGAATTGACCACG
*
89851539 TAGCACTAAGTGTGCGAG
1 CAGCACTAAGTGTGCGAG
89851557 TTGATTATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 21 0.25
82 63 0.75
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (82 bp):
CAGCACTAAGTGTGCGAGATCGACTATGTGGCACTAAGTGTGCGAAATGGATACGATGCACTAAG
TGTGCGAATTGACCACG
Found at i:89851572 original size:109 final size:109
Alignment explanation
Indices: 89851378--89851581 Score: 250
Period size: 109 Copynumber: 1.9 Consensus size: 109
89851368 AAATTGTACA
* * *
89851378 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
* *
89851443 GCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
66 GCGAATTGACCATACAGCACTAAGTGTGCGAGATGGACTATGTG
* * * *
89851487 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGGA-TACGAT-GCACTAAGT
* ** * *
89851550 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
64 GTGCGAATTGACCATACAGCACTAAGTGTGCG
89851582 GGCTCAATAA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
108 5 0.06
109 74 0.94
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (109 bp):
GCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
GCGAATTGACCATACAGCACTAAGTGTGCGAGATGGACTATGTG
Found at i:89859546 original size:27 final size:26
Alignment explanation
Indices: 89859515--89859718 Score: 187
Period size: 27 Copynumber: 7.6 Consensus size: 26
89859505 TAAATTGTAC
89859515 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
89859542 TGCACTAAGTGTGCGAAATGA-TATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
89859567 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
89859595 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGC--GATTGACTATGT
* * *
89859623 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
89859650 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
89859677 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
89859704 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89859719 GGCTCAATAA
Statistics
Matches: 153, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
26 25 0.16
27 103 0.67
28 24 0.16
29 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:89869238 original size:27 final size:26
Alignment explanation
Indices: 89869207--89869411 Score: 180
Period size: 27 Copynumber: 7.6 Consensus size: 26
89869197 TAAATTGTAC
89869207 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
89869234 TGCACTAAGTGTGCGAAATGGA-TATG-
1 AGCACTAAGTGTGCG--ATTGACTATGT
* *
89869260 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* *
89869288 GGCACTAAGTGTGCGAGATGGACTATGT
1 AGCACTAAGTGTGC--GATTGACTATGT
* * *
89869316 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
89869343 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
89869370 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
89869397 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89869412 GGCTCAATAA
Statistics
Matches: 153, Mismatches: 17, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
26 7 0.05
27 119 0.78
28 24 0.16
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:89869268 original size:54 final size:54
Alignment explanation
Indices: 89869208--89869411 Score: 207
Period size: 54 Copynumber: 3.7 Consensus size: 54
89869198 AAATTGTACA
*
89869208 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGA-TATGAT-
1 GCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGGACTATG-TG
* ** *
89869262 GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
1 GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGGACTATGTG
* * * * * * *
89869317 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCG-ATTTGATTACGTA
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCGAAATGGACTATGTG
* * *
89869371 GCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
89869412 GGCTCAATAA
Statistics
Matches: 127, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
54 86 0.68
55 41 0.32
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGGACTATGTG
Found at i:89869348 original size:82 final size:82
Alignment explanation
Indices: 89869206--89869386 Score: 215
Period size: 82 Copynumber: 2.2 Consensus size: 82
89869196 TTAAATTGTA
* * *
89869206 CAGCACTAAGTGTGCGA-TTCGACTATGTTGCACTAAGTGTGCGAAATGGATATGATGCACTAAG
1 CAGCACTAAGTGTGCGAGATCGACTATGTGGCACTAAGTGTGCGAAATGGATACGATGCACTAAG
*
89869270 TGTGCGAATTGACCATG
66 TGTGCGAATTGACCACG
* * * *
89869287 CGGCACTAAGTGTGCGAGATGGACTATGTGGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTA
1 CAGCACTAAGTGTGCGAGATCGACTATGTGGCACTAAGTGTGCGAAATGGA-TACGAT-GCACTA
* **
89869350 AGTGTGCGATTTGATTACG
64 AGTGTGCGAATTGACCACG
*
89869369 TAGCACTAAGTGTGCGAG
1 CAGCACTAAGTGTGCGAG
89869387 TTGATTATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 21 0.25
82 63 0.75
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (82 bp):
CAGCACTAAGTGTGCGAGATCGACTATGTGGCACTAAGTGTGCGAAATGGATACGATGCACTAAG
TGTGCGAATTGACCACG
Found at i:89869402 original size:109 final size:109
Alignment explanation
Indices: 89869208--89869411 Score: 250
Period size: 109 Copynumber: 1.9 Consensus size: 109
89869198 AAATTGTACA
* * *
89869208 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
* *
89869273 GCGAATTGACCATGCGGCACTAAGTGTGCGAGATGGACTATGTG
66 GCGAATTGACCATACAGCACTAAGTGTGCGAGATGGACTATGTG
* * * *
89869317 GCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCG-ATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGGA-TACGAT-GCACTAAGT
* ** * *
89869380 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
64 GTGCGAATTGACCATACAGCACTAAGTGTGCG
89869412 GGCTCAATAA
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
108 5 0.06
109 74 0.94
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (109 bp):
GCACTAAGTGTGCGATTCGACTACGTAGCACTAAGTGTGCGAAATGGATACGATGCACTAAGTGT
GCGAATTGACCATACAGCACTAAGTGTGCGAGATGGACTATGTG
Found at i:89880466 original size:44 final size:44
Alignment explanation
Indices: 89880407--89880562 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 44
89880397 TGTGATTTTG
* * *
89880407 TGTAAGACTACGTTTGGGACGTTGGCATCGGT-TTGAGATTTACA
1 TGTAAGACCATGTTTGGGACGTTGGCATCGGTATT-TGATTTACA
* * * * *
89880451 TGTAAGACCATGTTTGGGACATCGACATC-GTATTTG-TTTTCG
1 TGTAAGACCATGTTTGGGACGTTGGCATCGGTATTTGATTTACA
* *
89880493 TGTAAGACCCTGTTTGGGACAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCATGTTTGGGAC-GTTGGCATCGGTATTTGATTTACA
* * *
89880536 TGTAATACCAAGTCTGGG-CGTTGGCAT
1 TGTAAGACCATGTTTGGGACGTTGGCAT
89880563 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
41 1 0.01
42 35 0.40
43 26 0.30
44 26 0.30
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (44 bp):
TGTAAGACCATGTTTGGGACGTTGGCATCGGTATTTGATTTACA
Found at i:89891591 original size:54 final size:54
Alignment explanation
Indices: 89891395--89891709 Score: 418
Period size: 54 Copynumber: 5.8 Consensus size: 54
89891385 TTTCCTTTTT
* * * * * * *
89891395 GAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
* * * *** *
89891448 GAACTCACCAATGCCATGCCTTAGCATGGTCTTACATG-GGACCTTTGCCTTACA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCC-TTGCCTTATA
* * *
89891502 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
*
89891557 GAACTTATCAATGCCACGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
*
89891611 GAACTTATCAATGCCCTGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
*
89891665 GAATTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCT
89891710 AACTTATCAA
Statistics
Matches: 232, Mismatches: 26, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
52 2 0.01
53 40 0.17
54 145 0.62
55 43 0.19
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATTTCCTTGCCTTATA
Found at i:89891607 original size:29 final size:29
Alignment explanation
Indices: 89891574--89891661 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 29
89891564 TCAATGCCAC
89891574 GCCTTGGCATGGTCTTACATGATTTCCTT
1 GCCTTGGCATGGTCTTACATGATTTCCTT
** * *
89891603 GCCTT---ATAGAACTTATCA--A-TGCCCT
1 GCCTTGGCAT-GGTCTTA-CATGATTTCCTT
89891628 GCCTTGGCATGGTCTTACATGATTTCCTT
1 GCCTTGGCATGGTCTTACATGATTTCCTT
89891657 GCCTT
1 GCCTT
89891662 ATAGAATTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
25 9 0.21
26 5 0.12
27 10 0.23
28 5 0.12
29 14 0.33
ACGTcount: A:0.17, C:0.26, G:0.18, T:0.39
Consensus pattern (29 bp):
GCCTTGGCATGGTCTTACATGATTTCCTT
Found at i:89891760 original size:29 final size:29
Alignment explanation
Indices: 89891728--89891788 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
89891718 AATGCCATGC
*
89891728 CTTGGCATGGTCTTAGATGATATCCATAT
1 CTTGGCATGGTCTTACATGATATCCATAT
*
89891757 CTTGGCATGGTCTTACATGATATCCTTAT
1 CTTGGCATGGTCTTACATGATATCCATAT
89891786 CTT
1 CTT
89891789 ACCAAATGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (29 bp):
CTTGGCATGGTCTTACATGATATCCATAT
Found at i:89892642 original size:30 final size:31
Alignment explanation
Indices: 89892599--89892656 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
89892589 CTAACTCAAA
89892599 CTTTGACAAAATTACAATTTTACCCCTAAAC
1 CTTTGACAAAATTACAATTTTACCCCTAAAC
* ** *
89892630 CTTTG-CAGAATTATGATTTTGCCCCTA
1 CTTTGACAAAATTACAATTTTACCCCTA
89892657 GGCACAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (31 bp):
CTTTGACAAAATTACAATTTTACCCCTAAAC
Found at i:89894340 original size:22 final size:23
Alignment explanation
Indices: 89894301--89894343 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
89894291 GAAATCCTAC
89894301 CCATCCAGCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
*
89894324 CCATCTAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
89894344 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.51, G:0.05, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:89894739 original size:17 final size:18
Alignment explanation
Indices: 89894707--89894740 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89894697 CCATAATGCG
89894707 TGCCCATGTGGGCCCACA
1 TGCCCATGTGGGCCCACA
*
89894725 TGCCCGTGT-GGCCCAC
1 TGCCCATGTGGGCCCAC
89894741 TTAGCCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.12, C:0.41, G:0.29, T:0.18
Consensus pattern (18 bp):
TGCCCATGTGGGCCCACA
Found at i:89897584 original size:27 final size:26
Alignment explanation
Indices: 89897544--89897625 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 26
89897534 AGCTGTCAGA
*
89897544 AACAGTAAATGTGGCAAAGCCACCAGT
1 AACAGT-AATGTGGCATAGCCACCAGT
*
89897571 ATCAGTAATTGTGGCATAGCCACCAGT
1 AACAGTAA-TGTGGCATAGCCACCAGT
* *
89897598 AACAGTGAATGTGACATAGTCACCAGT
1 AACAGT-AATGTGGCATAGCCACCAGT
89897625 A
1 A
89897626 CTGTAACGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 44 0.92
28 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (26 bp):
AACAGTAATGTGGCATAGCCACCAGT
Found at i:89900375 original size:27 final size:26
Alignment explanation
Indices: 89900325--89900415 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 26
89900315 GGCATAATCG
**
89900325 TCATTTTACCAAACAAGGGTATTACGA
1 TCATTTTACCCTAC-AGGGTATTACGA
* *
89900352 TCATTTTACCCTACATGGGCATTACGG
1 TCATTTTACCCTACA-GGGTATTACGA
* *
89900379 TTATTTTACCCTATAGTGGTATTACGA
1 TCATTTTACCCTACAG-GGTATTACGA
89900406 TCATTTTACC
1 TCATTTTACC
89900416 TATTTTGGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.37
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGTATTACGA
Found at i:89907090 original size:33 final size:32
Alignment explanation
Indices: 89907048--89907112 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
89907038 AATATATAAC
*
89907048 ACAGTTGGGCTTTAGCCCTATACAGTATCAGT
1 ACAGTTGGGCTTTAGCCCTATACAGTAACAGT
89907080 ACAGTCTGGGCTTTAGCCCTATACAGTAACAGT
1 ACAGT-TGGGCTTTAGCCCTATACAGTAACAGT
89907113 GTGGGCCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (32 bp):
ACAGTTGGGCTTTAGCCCTATACAGTAACAGT
Found at i:89907327 original size:27 final size:27
Alignment explanation
Indices: 89907297--89907375 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
89907287 TGCCAGAAAC
*
89907297 AGTAAATGTGGCAAAGCCACTAGTATT
1 AGTAAATGTGGCAAAGCCACCAGTATT
** * **
89907324 AGTAGTTGTGGCATAGCCACCAGTAAC
1 AGTAAATGTGGCAAAGCCACCAGTATT
* * * *
89907351 AGTGAATGTGACATAGTCACCAGTA
1 AGTAAATGTGGCAAAGCCACCAGTA
89907376 CAATACTTCC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (27 bp):
AGTAAATGTGGCAAAGCCACCAGTATT
Found at i:89907602 original size:26 final size:26
Alignment explanation
Indices: 89907517--89907606 Score: 108
Period size: 27 Copynumber: 3.4 Consensus size: 26
89907507 GGCATAATCT
**
89907517 TCATTTTACCAAACATGGGTATTACGG
1 TCATTTTACCCTACA-GGGTATTACGG
* *
89907544 TCATTTTACCCTATCGGGGCATTACGG
1 TCATTTTACCCTA-CAGGGTATTACGG
* *
89907571 TTATTTTACCCTACAGGGTATTACGC
1 TCATTTTACCCTACAGGGTATTACGG
89907597 TCATTTTACC
1 TCATTTTACC
89907607 TATTTTGGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
26 19 0.36
27 33 0.62
28 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (26 bp):
TCATTTTACCCTACAGGGTATTACGG
Found at i:89918193 original size:17 final size:17
Alignment explanation
Indices: 89918171--89918216 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
89918161 AATAGGCTGT
89918171 GTGGGCCCCACAAACTC
1 GTGGGCCCCACAAACTC
*
89918188 GTGGGCCTCACAAACTC
1 GTGGGCCCCACAAACTC
89918205 GTGGGCCCCACA
1 GTGGGCCCCACA
89918217 CGGGTAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.22, C:0.39, G:0.26, T:0.13
Consensus pattern (17 bp):
GTGGGCCCCACAAACTC
Found at i:89921723 original size:26 final size:26
Alignment explanation
Indices: 89921667--89921743 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
89921657 ACATATTCTG
* *
89921667 TTACTGGCAGTTTTGCTGCGTTACTGA
1 TTACTGGCAGTTTTGCTGCGATA-TTA
* *
89921694 -TACTAGCAGCTTTGCTGCGATATTA
1 TTACTGGCAGTTTTGCTGCGATATTA
* *
89921719 TTACTGGCAGTTTTACTGTGATATT
1 TTACTGGCAGTTTTGCTGCGATATT
89921744 GGTTTATTGG
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 2 0.05
26 39 0.95
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (26 bp):
TTACTGGCAGTTTTGCTGCGATATTA
Found at i:89923908 original size:24 final size:24
Alignment explanation
Indices: 89923858--89923909 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
89923848 GTGTTTTGTT
* *
89923858 GAGAAAATCAAGGAGAGGATTGGG
1 GAGAAAAGCAAGGAGAGGATTAGG
* *
89923882 GAGAAAAGCAAGGAGATGATTATG
1 GAGAAAAGCAAGGAGAGGATTAGG
89923906 GAGA
1 GAGA
89923910 GTTTTTAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.38, T:0.13
Consensus pattern (24 bp):
GAGAAAAGCAAGGAGAGGATTAGG
Found at i:89928132 original size:39 final size:39
Alignment explanation
Indices: 89928078--89928257 Score: 281
Period size: 39 Copynumber: 4.6 Consensus size: 39
89928068 TATACATATA
89928078 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
**
89928117 TGCTTCAGTTAGCCTTCGGGCTTTTGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
*
89928156 TGCTTCAGTTAGCC-TCTGGGCTTCCATTTAGCACTTATG
1 TGCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATG
89928195 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
* * **
89928234 TGCTTCGGCTAGATTTCGGGCTTC
1 TGCTTCAGTTAGCCTTCGGGCTTC
89928258 AGATGACGAT
Statistics
Matches: 129, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 2 0.02
39 125 0.97
40 2 0.02
ACGTcount: A:0.13, C:0.24, G:0.23, T:0.39
Consensus pattern (39 bp):
TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
Found at i:89929654 original size:30 final size:31
Alignment explanation
Indices: 89929569--89929685 Score: 157
Period size: 31 Copynumber: 3.8 Consensus size: 31
89929559 ATAAATGACA
**
89929569 AGTGAAAAGCAGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
89929600 AGTGAAAAGTGGTAGCTCCGGCTACCTGAT-
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
89929630 AGATAAAAAATGGTAGC-TCGGCTACCTGATC
1 AG-TGAAAAGTGGTAGCTTCGGCTACCTGATC
*
89929661 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
89929686 AAGTGACAAG
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
30 25 0.34
31 49 0.66
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:89929781 original size:46 final size:46
Alignment explanation
Indices: 89929714--89929806 Score: 116
Period size: 46 Copynumber: 2.0 Consensus size: 46
89929704 GATTTCCGTA
*
89929714 TAAGACCATATCTGGGATATGGCATC-AGTGTGATATGTGACCTATG
1 TAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGA-CTATG
* * * *
89929760 TAAGACCATGGCTGGGCTATGGCTTCGGTGTGTGATATGTGACTATG
1 TAAGACCATAGCTGGGATATGGCATC-GAGTGTGATATGTGACTATG
89929807 CGCAAGACCA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
46 22 0.55
47 5 0.12
48 13 0.32
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (46 bp):
TAAGACCATAGCTGGGATATGGCATCGAGTGTGATATGTGACTATG
Found at i:89931655 original size:39 final size:39
Alignment explanation
Indices: 89931596--89931775 Score: 281
Period size: 39 Copynumber: 4.6 Consensus size: 39
89931586 TATACATATA
*
89931596 TGCTTCAGTTAGCCTCCGGGCTTCCATTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATG
*
89931635 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATG
89931674 TGCTTCAGTTAGCC-TCTGGGCTTCCATTTAGCACTTATG
1 TGCTTCAGTTAGCCTTC-GGGCTTCCATTTAGCACTTATG
*
89931713 TGCTTCAGTTAGCCTTCAGGCTTCCATTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATG
* * **
89931752 TGCTTTAGCTAGATTTCGGGCTTC
1 TGCTTCAGTTAGCCTTCGGGCTTC
89931776 AGATCACGAT
Statistics
Matches: 130, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
38 2 0.02
39 126 0.97
40 2 0.02
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.38
Consensus pattern (39 bp):
TGCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATG
Found at i:89933063 original size:31 final size:31
Alignment explanation
Indices: 89933025--89933142 Score: 157
Period size: 31 Copynumber: 3.8 Consensus size: 31
89933015 ACAAATGACA
** *
89933025 AGTGAAAAGCAGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
89933056 AGTGAAAAGTGGTAGCTCCGGCTACCTGAT-
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
89933086 AGATAAAAAATGGTAGCTCCGGCTACCTGATC
1 AG-TGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
89933118 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTCCGGCTAC
89933143 AAGTGACAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
30 2 0.03
31 72 0.95
32 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:89935107 original size:39 final size:39
Alignment explanation
Indices: 89935048--89935227 Score: 263
Period size: 39 Copynumber: 4.6 Consensus size: 39
89935038 TATACATATA
*
89935048 TGCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
89935087 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
* * *
89935126 TGCTTCTGTTAGCC-TCTGGGCGTCCATTTAGCACTTATG
1 TGCTTCAGTTAGCCTTC-GGGCTTCCGTTTAGCACTTATG
**
89935165 CACTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
1 TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
* **
89935204 TGCTTCAGCTAGATTTCGGGCTTC
1 TGCTTCAGTTAGCCTTCGGGCTTC
89935228 AGATCACGAT
Statistics
Matches: 125, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 2 0.02
39 121 0.97
40 2 0.02
ACGTcount: A:0.13, C:0.27, G:0.23, T:0.37
Consensus pattern (39 bp):
TGCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATG
Found at i:89936647 original size:46 final size:46
Alignment explanation
Indices: 89936591--89936766 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
89936581 TATTTGGGCA
* *
89936591 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
89936637 TCTGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
89936684 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
89936730 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
89936767 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:89936746 original size:93 final size:93
Alignment explanation
Indices: 89936587--89936759 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
89936577 GGGATATTTG
* * * *
89936587 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAGGCAAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGAGGCAAACGCCCGAACTCGTTGAG
89936652 TTGAGTCCGAGTTCATGAGATGTAACTA
66 TTGAGTCCGAGTTCATGAGATGTAACTA
* * *
89936680 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGAGGCAAACGCCCGAACTCGTTGAG
*
89936745 TTGAGTCTGAGTTCA
66 TTGAGTCCGAGTTCA
89936760 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGAGGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCATGAGATGTAACTA
Found at i:89938629 original size:15 final size:15
Alignment explanation
Indices: 89938609--89938640 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
89938599 CAAATCCTGC
*
89938609 AATGCCGAAAGTCGA
1 AATGCCGAAAGCCGA
89938624 AATGCCGAAAGCCGA
1 AATGCCGAAAGCCGA
89938639 AA
1 AA
89938641 AGTAATTCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.22, G:0.25, T:0.09
Consensus pattern (15 bp):
AATGCCGAAAGCCGA
Found at i:89938810 original size:29 final size:28
Alignment explanation
Indices: 89938777--89938838 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
89938767 GAAAGCATGA
* *
89938777 ATATGAAAGTGATTTGGGCCTAATGGGCC
1 ATATGAAAGAGA-ATGGGCCTAATGGGCC
* *
89938806 ATATGAATGAGAATGGGCCTAGTGGGCC
1 ATATGAAAGAGAATGGGCCTAATGGGCC
89938834 ATATG
1 ATATG
89938839 CATGTATGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (28 bp):
ATATGAAAGAGAATGGGCCTAATGGGCC
Found at i:89949082 original size:37 final size:39
Alignment explanation
Indices: 89949032--89949203 Score: 207
Period size: 39 Copynumber: 4.5 Consensus size: 39
89949022 ATTGATACCT
**
89949032 GGGCTAA-TCCCGAAGGCATTTGTGCGA-TTACTAT-GTC
1 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAACC
89949069 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACC
*
89949108 GGGCT-AGTCCCGAAGGCATTTGTGCGAGTTACTATCACC
1 GGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAACC
* *
89949147 -TGCTAGGTCC-AAGGCATTTGT-CGAAGTTTA-TATAACC
1 GGGCTAAGTCCGAAGGCATTTGTGCG-AG-TTACTATAACC
89949184 GGGCTAAGTCCGAAGGCATT
1 GGGCTAAGTCCGAAGGCATT
89949204 GAGCTAGACT
Statistics
Matches: 118, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
36 2 0.02
37 44 0.37
38 27 0.23
39 45 0.38
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
GGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:89949161 original size:76 final size:76
Alignment explanation
Indices: 89949032--89949203 Score: 226
Period size: 76 Copynumber: 2.3 Consensus size: 76
89949022 ATTGATACCT
* ** *
89949032 GGGCTAATCCCGAAGGCATTTGTGCGATTACTATGTCGGGCTAAGTCCGAAGGCATTTGTGCG-A
1 GGGCTAGTCCCGAAGGCATTTGTGCGATTACTATCACCGGCTAAGTCCGAAGGCATTTGT-CGAA
89949096 G-TTACTATAACC
65 GTTTA-TATAACC
* *
89949108 GGGCTAGTCCCGAAGGCATTTGTGCGAGTTACTATCACCTGCTAGGTCC-AAGGCATTTGTCGAA
1 GGGCTAGTCCCGAAGGCATTTGTGCGA-TTACTATCACCGGCTAAGTCCGAAGGCATTTGTCGAA
89949172 GTTTATATAACC
65 GTTTATATAACC
89949184 GGGCTAAGT-CCGAAGGCATT
1 GGGCT-AGTCCCGAAGGCATT
89949204 GAGCTAGACT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
75 2 0.02
76 62 0.72
77 22 0.26
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (76 bp):
GGGCTAGTCCCGAAGGCATTTGTGCGATTACTATCACCGGCTAAGTCCGAAGGCATTTGTCGAAG
TTTATATAACC
Found at i:89965604 original size:40 final size:40
Alignment explanation
Indices: 89965381--89965590 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
89965371 TCCTCGTTCA
* * * * **
89965381 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCATAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
89965420 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
89965460 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
89965500 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
89965540 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
89965580 AAGGCCTTCGG
1 AATGCCTTCGG
89965591 ATCTTAGTCC
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 33 0.21
40 125 0.79
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:89965627 original size:80 final size:80
Alignment explanation
Indices: 89965384--89965643 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
89965374 TCGTTCAAAT
* * * * ** * * *
89965384 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCATAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
89965448 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * *
89965463 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
89965528 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * **
89965543 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
89965607 ATTCGCTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
89965623 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
89965644 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 33 0.21
80 119 0.76
81 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:89965627 original size:120 final size:118
Alignment explanation
Indices: 89965379--89965643 Score: 298
Period size: 120 Copynumber: 2.2 Consensus size: 118
89965369 GCTCCTCGTT
* * * *
89965379 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCATACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* * * *
89965444 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * *
89965498 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** * ** * **
89965563 ATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
89965619 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
89965644 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 22, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
119 34 0.28
120 81 0.68
121 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:89968587 original size:40 final size:40
Alignment explanation
Indices: 89968543--89968725 Score: 330
Period size: 40 Copynumber: 4.6 Consensus size: 40
89968533 GCTACTAGCT
89968543 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
89968583 CAAATGCCTTCGGGACCTAGCCCGGTGATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
89968623 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
**
89968663 CAAATGCCTTCGGGACTTAGCCCGGACATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
89968703 CAAATGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
89968726 AGGTATCAAT
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:89979394 original size:42 final size:43
Alignment explanation
Indices: 89979298--89979398 Score: 125
Period size: 42 Copynumber: 2.4 Consensus size: 43
89979288 GCTAACGCCT
**
89979298 CAGACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCC
1 CAGACATGGTCTTACATAAAATCAAATATCGATGCCACTGTCC
* * *
89979341 CAGATAGGGTCTTACATAAAATTAAATAT-GATGCCGA-TGTCC
1 CAGACATGGTCTTACATAAAATCAAATATCGATGCC-ACTGTCC
*
89979383 CAGAGATGGTCTTACA
1 CAGACATGGTCTTACA
89979399 CGTAAATCTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 25 0.50
43 25 0.50
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (43 bp):
CAGACATGGTCTTACATAAAATCAAATATCGATGCCACTGTCC
Found at i:89981274 original size:47 final size:47
Alignment explanation
Indices: 89981205--89981374 Score: 195
Period size: 47 Copynumber: 3.6 Consensus size: 47
89981195 CGCCCATAAG
89981205 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
* * * * * ***
89981252 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGC-A--TCCATAAGT
1 CGAACTCGGACTCAACTCAACGAGCTC-G-GATGC-CTAGTTACATCTCT
*
89981299 -GAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCT
1 CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
*
89981345 CGAACTCGGACTCAACTCAACGAGTTCGGA
1 CGAACTCGGACTCAACTCAACGAGCTCGGA
89981375 CATTCGCATC
Statistics
Matches: 98, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 29 0.30
47 57 0.58
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (47 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:89981419 original size:46 final size:46
Alignment explanation
Indices: 89981253--89981420 Score: 198
Period size: 46 Copynumber: 3.6 Consensus size: 46
89981243 TACATCTCTC
* *
89981253 GAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * * ***
89981299 GAACTCGGACTCAACTCAACGAGCTC-GA-ATGC-CTAGTTACATCTCT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT
89981345 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 -GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
*
89981392 GAACTCGGACTCAACTCAACAAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
89981421 TGCCCAAATA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 57 0.56
47 30 0.30
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:89981424 original size:93 final size:93
Alignment explanation
Indices: 89981198--89981424 Score: 400
Period size: 93 Copynumber: 2.4 Consensus size: 93
89981188 TGTAACCCGC
*
89981198 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCAGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCAGAC
89981263 TCAACTCAACGAGTTCAGACATTCGCAT
66 TCAACTCAACGAGTTCAGACATTCGCAT
* *
89981291 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCTCGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCAGAC
*
89981356 TCAACTCAACGAGTTCGGACATTCGCAT
66 TCAACTCAACGAGTTCAGACATTCGCAT
* *
89981384 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCC
89981425 CAAATATCCT
Statistics
Matches: 127, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 127 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (93 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTCGAACTCAGAC
TCAACTCAACGAGTTCAGACATTCGCAT
Found at i:89983383 original size:30 final size:30
Alignment explanation
Indices: 89983348--89983427 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
89983338 CAAGAAAATC
*
89983348 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAGAAACCCA
* *
89983378 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAACCCA
* *
89983408 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
89983428 TGATACTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 2 0.05
30 39 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAACCCA
Done.