Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 304 of 343
Found at i:99035538 original size:35 final size:38
Alignment explanation
Indices: 99035449--99035538 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 38
99035439 TTTAAAAATT
99035449 ATATAACAAGTAAT-T-TAAAATAAATAATAATATATAA
1 ATATAA-AAGTAATATATAAAATAAATAATAATATATAA
* * *
99035486 ATATGAAA-TAATATATAAAA-AAATATTTATAT-TAA
1 ATATAAAAGTAATATATAAAATAAATAATAATATATAA
99035521 A-ATAAAAGTAATATATAA
1 ATATAAAAGTAATATATAA
99035539 TTTTTTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
34 5 0.11
35 18 0.39
36 13 0.28
37 10 0.22
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (38 bp):
ATATAAAAGTAATATATAAAATAAATAATAATATATAA
Found at i:99037505 original size:175 final size:175
Alignment explanation
Indices: 99037202--99038182 Score: 1534
Period size: 175 Copynumber: 5.6 Consensus size: 175
99037192 GTAAACACGT
* * * * * *
99037202 GAAAGCCAAATCTGCTATGTCTTCGATTTGCTCCTTGTGAACACAAGGATGCCAAATCATTTTGA
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * * *
99037267 ATCTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGTTATGTATCTGCTGTCTGTTGAAATGGA
66 ATCTGCTTCAGTATAAA-CATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGA
*
99037331 GATGCCAGATCTATTATCTTGGATCTGCTTTGGTGTGAGAACATCC
130 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* * *
99037377 AAAAGTCAAATCTGCTATGTCTTCGATTGGTTCATTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
** * **
99037442 ATCTGCTTCAGTATAAGTATCTGAAGGTTAGATCTGCTATGTATCTTCTCTCCGTTAAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
99037507 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* * *
99037552 GAAAGTCAAATCTCCTATGTCTTCTATTTATTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* * **
99037617 ATTTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATGTATCTGCTCTCTATCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
* * * * * *
99037682 AAGCCAGACCTATTATCTTGGATCTGTTTTTGTGTGAGAACATTC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
*
99037727 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATATTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
99037792 ATCCGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
*
99037857 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATTC
131 ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* *
99037902 GAAAGTCAAATCTCCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGA
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
* *
99037967 ATCTGCTTTAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCAAAATGGAG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
*
99038032 ATGCCAGA-CTTGTTATCTTGGATCTGGTTTGGTGTGAGAACATCC
131 ATGCCAGATC-TGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
* * *
99038077 GAAAGTCAAATCTGCTATGTCTTCAATTTGTTCTTTGTAAACACAAGCATGCCAAATCATCTTGG
1 GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
99038142 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG
66 ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATG
99038183 CTTTGGCCTA
Statistics
Matches: 736, Mismatches: 68, Indels: 4
0.91 0.08 0.00
Matches are distributed among these distances:
174 1 0.00
175 733 1.00
176 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (175 bp):
GAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGG
ATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAG
ATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCC
Found at i:99040523 original size:26 final size:26
Alignment explanation
Indices: 99040494--99040601 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
99040484 TGGTACAAAT
99040494 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
99040520 TGATAATTGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
99040546 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
99040572 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
99040598 TGAT
1 TGAT
99040602 GGGCATTTCA
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:99049370 original size:14 final size:16
Alignment explanation
Indices: 99049339--99049371 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
99049329 CGATGCGATG
99049339 AAATGCTATGATATGC
1 AAATGCTATGATATGC
99049355 AAATGC-ATGA-ATGC
1 AAATGCTATGATATGC
99049369 AAA
1 AAA
99049372 AAGGAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 4 0.24
16 6 0.35
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (16 bp):
AAATGCTATGATATGC
Found at i:99053378 original size:20 final size:21
Alignment explanation
Indices: 99053341--99053379 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
99053331 AATTTAAAAT
*
99053341 AAATAATAATATATAAATATG
1 AAATAATAATATAAAAATATG
99053362 AAATAAT-ATATAAAAATA
1 AAATAATAATATAAAAATA
99053380 ATATTTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (21 bp):
AAATAATAATATAAAAATATG
Found at i:99055373 original size:30 final size:30
Alignment explanation
Indices: 99055338--99055435 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 30
99055328 TTTCATACAC
99055338 TAATAAAATCATACTATAACCTCATAAAAA
1 TAATAAAATCATACTATAACCTCATAAAAA
* * ** * *
99055368 TAATAAAAATAATAAT-TTTCCTTCAT-ACAC
1 TAAT-AAAATCATACTATAACC-TCATAAAAA
99055398 TAATAAAATCATACTATAACCTCATAAAAA
1 TAATAAAATCATACTATAACCTCATAAAAA
99055428 TAATAAAA
1 TAATAAAA
99055436 ATAATAATTT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
29 13 0.25
30 26 0.50
31 13 0.25
ACGTcount: A:0.55, C:0.15, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATAAAATCATACTATAACCTCATAAAAA
Found at i:99055397 original size:60 final size:60
Alignment explanation
Indices: 99055329--99055449 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
99055319 CACCAAACTT
99055329 TTCATACACTAATAAAATCATACTATAACCTCATAAAAATAATAAAAATAATAATTTTCC
1 TTCATACACTAATAAAATCATACTATAACCTCATAAAAATAATAAAAATAATAATTTTCC
99055389 TTCATACACTAATAAAATCATACTATAACCTCATAAAAATAATAAAAATAATAATTTTCC
1 TTCATACACTAATAAAATCATACTATAACCTCATAAAAATAATAAAAATAATAATTTTCC
99055449 T
1 T
99055450 ACCATCGAAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (60 bp):
TTCATACACTAATAAAATCATACTATAACCTCATAAAAATAATAAAAATAATAATTTTCC
Found at i:99069516 original size:92 final size:92
Alignment explanation
Indices: 99069405--99069574 Score: 313
Period size: 92 Copynumber: 1.8 Consensus size: 92
99069395 GCCCCTAAGT
* *
99069405 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
99069470 CGAGTTCGGATGCCTAGTTACATTCAC
66 CGAGTTCGGATGCCTAGTTACATTCAC
*
99069497 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
99069562 CGAGTTCGGATGC
66 CGAGTTCGGATGC
99069575 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTCAC
Found at i:99069571 original size:46 final size:46
Alignment explanation
Indices: 99069400--99069571 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
99069390 AACCCGCCCC
* * *
99069400 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
99069446 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCA
* *
99069492 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
99069538 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
99069572 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 95 0.88
47 2 0.02
48 4 0.04
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:99069590 original size:46 final size:46
Alignment explanation
Indices: 99069402--99069590 Score: 151
Period size: 46 Copynumber: 4.1 Consensus size: 46
99069392 CCCGCCCCTA
* ** * *
99069402 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T
*
99069447 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTC-
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCCT
* * * * *
99069495 A-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCT
99069540 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
99069586 AGTGA
1 AGTGA
99069591 CATGTCACTT
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 95 0.82
47 1 0.01
48 4 0.03
49 1 0.01
50 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:99070015 original size:30 final size:30
Alignment explanation
Indices: 99069981--99070040 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
99069971 ATTTAATACG
99069981 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
99070011 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
99070041 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:99077055 original size:47 final size:49
Alignment explanation
Indices: 99076938--99077112 Score: 183
Period size: 45 Copynumber: 3.8 Consensus size: 49
99076928 AACCCGCCCC
* * * *
99076938 TAAGTGAACTCGGACTCAACTCAACGAGCTC-G--G-CGTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
99076983 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
99077031 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
99077076 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
99077113 TCAACCATCC
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 32 0.29
46 30 0.28
47 29 0.27
48 3 0.03
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:99077101 original size:93 final size:92
Alignment explanation
Indices: 99076943--99077112 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
99076933 GCCCCTAAGT
*
99076943 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
99077008 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
99077035 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
99077100 CGAGTTCGGATGC
65 CGAGTTCGGATGC
99077113 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:99077550 original size:30 final size:30
Alignment explanation
Indices: 99077516--99077575 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
99077506 ATTTAATACG
99077516 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
99077546 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
99077576 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:99083674 original size:69 final size:69
Alignment explanation
Indices: 99083507--99083681 Score: 208
Period size: 70 Copynumber: 2.5 Consensus size: 69
99083497 CTTTCCAAGG
* ** * *
99083507 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGATATTTTTAATTTTG
99083572 TTTT
66 TTTT
* ** * *
99083576 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGATATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGATATTTTTAATTT-
99083641 TGTTTT
64 TGTTTT
** *
99083647 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
99083682 TTTAATTTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
69 31 0.34
70 54 0.60
71 5 0.06
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGATATTTTTAATTTTG
TTTT
Found at i:99083813 original size:75 final size:74
Alignment explanation
Indices: 99083699--99084036 Score: 432
Period size: 75 Copynumber: 4.5 Consensus size: 74
99083689 TTTGTTTTTC
*
99083699 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
99083764 GTTGTTAAAA
66 GTT-TTAAAA
** *
99083774 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGCTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
99083839 GTTTT--CA
66 GTTTTAAAA
* * ** * *
99083846 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
99083910 GTTTTCAAAAA
66 GTTTT--AAAA
* * * *
99083921 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAAATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
99083985 TCTGTTTTTTAAA
63 TCTG-TTTTAAAA
*
99083998 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
99084037 ATTACACACT
Statistics
Matches: 233, Mismatches: 20, Indels: 17
0.86 0.07 0.06
Matches are distributed among these distances:
71 22 0.09
72 43 0.18
74 3 0.01
75 99 0.42
77 41 0.18
78 21 0.09
79 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:99083952 original size:147 final size:147
Alignment explanation
Indices: 99083685--99084031 Score: 450
Period size: 147 Copynumber: 2.3 Consensus size: 147
99083675 TAAGCCTTTT
* * *
99083685 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
1 AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
99083750 TAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG-
66 TAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-GGT
*
99083814 ACACGCTGAGCTAATTTC
130 AAACGCTGAGCTAATTTC
* **
99083832 AATTTCTG-TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACG-TGAG
1 AATTTCTGTTTTTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAG
* * **
99083895 GTATTTTCAATTTCTGTT-TTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCG
65 GTAATTTCAATTTCTGTTGTT--AAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCG
* * *
99083959 GTTCAAATGCTGAGGTATTTTC
128 G-T-AAACGCTGAGCTAATTTC
*
99083981 AATTTCTGTTTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AATTTCTG-TTTTT--CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
99084032 TTCAGATTAC
Statistics
Matches: 172, Mismatches: 18, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
145 2 0.01
146 32 0.19
147 81 0.47
149 22 0.13
151 4 0.02
152 27 0.16
153 4 0.02
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (147 bp):
AATTTCTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGG
TAATTTCAATTTCTGTTGTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCGGTA
AACGCTGAGCTAATTTC
Found at i:99084413 original size:73 final size:73
Alignment explanation
Indices: 99084336--99084521 Score: 299
Period size: 73 Copynumber: 2.6 Consensus size: 73
99084326 TATGTTTCAA
*
99084336 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-AGACGCTGAGGTAATTTCAATTT
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTT
*
99084400 TTGTTTGTC
66 CTG-TTGTC
*
99084409 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA-GACACGCTGAGGTAATTTCAATT
99084472 TCTGTTGTC
65 TCTGTTGTC
99084481 AAAAAAATCAACTCATATTGCGA-AAGTGAGTTGAGCCTCAG
1 AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
99084522 TTCACATGTT
Statistics
Matches: 105, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
71 38 0.36
72 6 0.06
73 40 0.38
74 21 0.20
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (73 bp):
AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTT
CTGTTGTC
Found at i:99084470 original size:161 final size:158
Alignment explanation
Indices: 99084181--99084472 Score: 444
Period size: 161 Copynumber: 1.8 Consensus size: 158
99084171 TCTACTTTTC
* * * *
99084181 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGCACGCTGAGGTATTTTCAATTTTGTG
1 AAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGCACGCTGAGGTAATTTCAATTTTGTG
** * *
99084246 TTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATT
66 TTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
99084311 TTCGTTTTTTTAATTTATGTTTCAAAAA
131 TTCGTTTTTTTAATTTATGTTTCAAAAA
*
99084339 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG-ACGCTGAGGTAATTTCAATTTT-T
1 AAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTC-AGCACGCTGAGGTAATTTCAATTTTGT
99084402 GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
65 G-TT-T--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
99084467 CAATTT
126 CAATTT
99084473 CTGTTGTCAA
Statistics
Matches: 120, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
157 2 0.02
158 57 0.47
159 2 0.02
161 59 0.49
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (158 bp):
AAAATCAACTCATATTGCAAGAAGTGAGTTGAGCCTCAGCACGCTGAGGTAATTTCAATTTTGTG
TTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATT
TTCGTTTTTTTAATTTATGTTTCAAAAA
Found at i:99085319 original size:30 final size:30
Alignment explanation
Indices: 99085283--99085457 Score: 237
Period size: 30 Copynumber: 5.8 Consensus size: 30
99085273 ACTTTTCTCA
*
99085283 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
99085313 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
* *
99085343 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
*
99085373 ACTAGCCACACCTTCTCCACCACCAAATCC
1 ACTAGCCACACCTTCTCCACCACCAACTCC
** *
99085403 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-CTCCACCACCAACTCC
*
99085433 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-CTCCACCACCA
99085458 CTTGTACCTA
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
29 3 0.02
30 129 0.98
ACGTcount: A:0.27, C:0.49, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTCTCCACCACCAACTCC
Found at i:99086038 original size:27 final size:25
Alignment explanation
Indices: 99086010--99086066 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
99086000 ATATTACGTA
*
99086010 TATATATATTCT-ATACTATTTTATT
1 TATATATATT-TAATACTATATTATT
* *
99086035 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
99086060 TATATAT
1 TATATAT
99086067 TTTTTTTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:99086114 original size:22 final size:24
Alignment explanation
Indices: 99086086--99086143 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
99086076 ACATGTTATC
99086086 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
*
99086108 TTATGTAGTAT-TTTTAACACTATA
1 TTATGTA-TATATCTTAACACTATA
*
99086132 TTATGTACATAT
1 TTATGTATATAT
99086144 TTTTAATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
22 10 0.33
23 6 0.20
24 14 0.47
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:99086134 original size:24 final size:25
Alignment explanation
Indices: 99086102--99086149 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
99086092 ATATATCTTA
*
99086102 ACTATATTATGTA-GTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
99086126 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
99086150 TATTATCATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:99086322 original size:16 final size:15
Alignment explanation
Indices: 99086298--99086345 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
99086288 TAATTATTAT
*
99086298 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
99086314 TATTTTAATATTTTA
1 TATTTTAATATTTTA
99086329 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
99086345 T
1 T
99086346 TATTCCCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:99086333 original size:7 final size:8
Alignment explanation
Indices: 99086298--99086349 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
99086288 TAATTATTAT
*
99086298 TATTCTAA
1 TATTTTAA
*
99086306 TATTTTGA
1 TATTTTAA
99086314 TATTTTAA
1 TATTTTAA
99086322 TATTTT-A
1 TATTTTAA
99086329 TATTTTATA
1 TATTTTA-A
*
99086338 TATTTTAT
1 TATTTTAA
99086346 TATT
1 TATT
99086350 CCCATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:99087260 original size:19 final size:19
Alignment explanation
Indices: 99087238--99087282 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
99087228 AAAAAATATT
99087238 TAAAAATTCATATTTTTGA
1 TAAAAATTCATATTTTTGA
* *
99087257 TAAAAATACATATTTTTTA
1 TAAAAATTCATATTTTTGA
99087276 -AAAAATT
1 TAAAAATT
99087283 ATTAAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAAATTCATATTTTTGA
Found at i:99090475 original size:18 final size:20
Alignment explanation
Indices: 99090448--99090486 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
99090438 CCTTTTTGTT
99090448 TTTTTATATTCGA-TTTCTA
1 TTTTTATATTCGATTTTCTA
99090467 TTTTT-TATTCGATTTTCTA
1 TTTTTATATTCGATTTTCTA
99090486 T
1 T
99090487 GAAAAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTTTATATTCGATTTTCTA
Found at i:99090591 original size:15 final size:15
Alignment explanation
Indices: 99090551--99090595 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
99090541 TATAAAACTA
99090551 TTTGTT-TCTATTTT-
1 TTTGTTGTCT-TTTTC
*
99090565 TTT-TTGTTTTTTTC
1 TTTGTTGTCTTTTTC
99090579 TTTGTTGTCTTTTTC
1 TTTGTTGTCTTTTTC
99090594 TT
1 TT
99090596 CTTACGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 6 0.23
14 8 0.31
15 12 0.46
ACGTcount: A:0.02, C:0.09, G:0.09, T:0.80
Consensus pattern (15 bp):
TTTGTTGTCTTTTTC
Found at i:99099262 original size:167 final size:167
Alignment explanation
Indices: 99098986--99099322 Score: 665
Period size: 167 Copynumber: 2.0 Consensus size: 167
99098976 CTCAAGACTC
99098986 TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGGTGTCCAATGATGGAA
1 TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGGTGTCCAATGATGGAA
99099051 GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
66 GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
*
99099116 TGGGGGATTAATAGTCTGTTGATGGTTCAGACACAAG
131 TGGGGGATTAATAGTATGTTGATGGTTCAGACACAAG
99099153 TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGGTGTCCAATGATGGAA
1 TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGGTGTCCAATGATGGAA
99099218 GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
66 GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
99099283 TGGGGGATTAATAGTATGTTGATGGTTCAGACACAAG
131 TGGGGGATTAATAGTATGTTGATGGTTCAGACACAAG
99099320 TTC
1 TTC
99099323 TTTGGAGACA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
167 169 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (167 bp):
TTCCGGAAAACAACATGCTTTCTTCGCTTTTGAAGCTAAATATCGTGGGGTGTCCAATGATGGAA
GAAAGGTGCAAAAGGGATAAAGGACCTGATTGGTCCAAAATTAGCCACATACCTTATGTTGCTAT
TGGGGGATTAATAGTATGTTGATGGTTCAGACACAAG
Found at i:99110076 original size:93 final size:92
Alignment explanation
Indices: 99109909--99110376 Score: 659
Period size: 93 Copynumber: 5.0 Consensus size: 92
99109899 TGATTGTCCA
* * * * * ** *
99109909 CCAAAATTCTCTACATCTCTTGAGATGGAAATCATAGGCAAGGCATTTACTGCACAAGAACTATC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
* * *
99109974 TTTAGTTTGTATCAAGGTAGTCTTTTCT
66 TTCATTTTGTATC-AGGCAGTCTTTTCT
* * * *
99110002 CCAACATTCTCCACATCTCTCGGGTTGGAAGTTATAGGCAAAGCATTTACCCCACAAGCACTCTC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
99110067 TTCATTTTGTATCAGGGCAGTCTTTTCT
66 TTCATTTTGTATCA-GGCAGTCTTTTCT
* *
99110095 CCAACATTCTCCACATCTCTTTGGG-TGGAAATTATAGGCAAAGCATTGACCCCACAAGCGCTAT
1 CCAACATTCTCCACATCTC-TTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTAT
99110159 CTTCATTTTGTATCAGGACAGTCTTTTCT
65 CTTCATTTTGTATCAGG-CAGTCTTTTCT
99110188 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
99110253 TTCATTTTGTATCAGCGCAGTCTTTTCT
66 TTCATTTTGTATCAG-GCAGTCTTTTCT
* * *
99110281 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACCATG
1 CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
* * * *
99110346 TTCACTTTGTACCGAGTCATTCTTTTCT
66 TTCATTTTGTATC-AGGCAGTCTTTTCT
99110374 CCA
1 CCA
99110377 GCTGGTATTT
Statistics
Matches: 340, Mismatches: 29, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
92 8 0.02
93 325 0.96
94 7 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (92 bp):
CCAACATTCTCCACATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTATC
TTCATTTTGTATCAGGCAGTCTTTTCT
Found at i:99114916 original size:18 final size:20
Alignment explanation
Indices: 99114878--99114916 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
99114868 TTTTTATTTT
99114878 ATTTAAAATGTAAGTTATCA
1 ATTTAAAATGTAAGTTATCA
*
99114898 ATTTACAATG-AAG-TATCA
1 ATTTAAAATGTAAGTTATCA
99114916 A
1 A
99114917 CATTTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 3 0.17
20 9 0.50
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (20 bp):
ATTTAAAATGTAAGTTATCA
Found at i:99116589 original size:11 final size:11
Alignment explanation
Indices: 99116562--99116614 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
99116552 TGACCTTTCC
99116562 AAGGTAT-GGA
1 AAGGTATGGGA
*
99116572 TAGGTATGGGA
1 AAGGTATGGGA
*
99116583 AAGGTATGGGC
1 AAGGTATGGGA
*
99116594 AAGGTATGGGC
1 AAGGTATGGGA
*
99116605 AAGGAATGGG
1 AAGGTATGGG
99116615 TATATTCTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
10 6 0.16
11 32 0.84
ACGTcount: A:0.32, C:0.04, G:0.45, T:0.19
Consensus pattern (11 bp):
AAGGTATGGGA
Found at i:99120677 original size:18 final size:18
Alignment explanation
Indices: 99120654--99120708 Score: 83
Period size: 18 Copynumber: 3.1 Consensus size: 18
99120644 CAATCCTAAC
*
99120654 TACTGTATACGTGAATAT
1 TACTGTATACGTGAATAG
*
99120672 TACTGTATACGTAAATAG
1 TACTGTATACGTGAATAG
*
99120690 TACCGTATACGTGAATAG
1 TACTGTATACGTGAATAG
99120708 T
1 T
99120709 GTCGTAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.35
Consensus pattern (18 bp):
TACTGTATACGTGAATAG
Found at i:99120714 original size:18 final size:17
Alignment explanation
Indices: 99120658--99120714 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
99120648 CCTAACTACT
99120658 GTATACGTGAATA-TTAC
1 GTATACGTGAATAGTT-C
* *
99120675 TGTATACGTAAATAGTACC
1 -GTATACGTGAATAGT-TC
99120694 GTATACGTGAATAGTGTC
1 GTATACGTGAATAGT-TC
99120712 GTA
1 GTA
99120715 AATGGTCGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 30 0.94
19 2 0.06
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.33
Consensus pattern (17 bp):
GTATACGTGAATAGTTC
Found at i:99121275 original size:11 final size:11
Alignment explanation
Indices: 99121247--99121294 Score: 71
Period size: 11 Copynumber: 4.5 Consensus size: 11
99121237 TTGACCTTTC
99121247 CAAGGTATGGG
1 CAAGGTATGGG
*
99121258 -TAGGTATGGG
1 CAAGGTATGGG
*
99121268 AAAGGTATGGG
1 CAAGGTATGGG
99121279 CAAGGTATGGG
1 CAAGGTATGGG
99121290 CAAGG
1 CAAGG
99121295 AATAGGTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.29, C:0.06, G:0.46, T:0.19
Consensus pattern (11 bp):
CAAGGTATGGG
Found at i:99121574 original size:17 final size:17
Alignment explanation
Indices: 99121552--99121587 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
99121542 GGCTAAACTA
99121552 TACTTAAACTTCTAAAC
1 TACTTAAACTTCTAAAC
99121569 TACTTAAACTTCTAAAC
1 TACTTAAACTTCTAAAC
99121586 TA
1 TA
99121588 AAAGACTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (17 bp):
TACTTAAACTTCTAAAC
Found at i:99127749 original size:31 final size:31
Alignment explanation
Indices: 99127691--99127751 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
99127681 TTAGCCCTAC
** * * *
99127691 TAACCCACCAAAATTAAACTCATAACCCAAA
1 TAACCCAAAAAAATTAAAATAAAAACCCAAA
99127722 TAACCCAAAAAAATTAAAATAAAAACCCAA
1 TAACCCAAAAAAATTAAAATAAAAACCCAA
99127752 TTACAAAATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (31 bp):
TAACCCAAAAAAATTAAAATAAAAACCCAAA
Found at i:99128147 original size:16 final size:19
Alignment explanation
Indices: 99128100--99128147 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
99128090 CCAAACCACC
99128100 AAAGCAGAGAATAACACTA
1 AAAGCAGAGAATAACACTA
*
99128119 AAA-CAGAGGATAAC-C-A
1 AAAGCAGAGAATAACACTA
99128135 AAAGCA-AGAATAA
1 AAAGCAGAGAATAA
99128148 AAACAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 10 0.38
19 3 0.12
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (19 bp):
AAAGCAGAGAATAACACTA
Found at i:99128231 original size:21 final size:23
Alignment explanation
Indices: 99128186--99128244 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
99128176 CATCATTTTC
*
99128186 TTCTTTTTTTCTTCTTTCGAATTT
1 TTCTTTCTTTCTTCTTTCG-ATTT
*
99128210 TTCTTTCTTTCTT-TTTCGTTTT
1 TTCTTTCTTTCTTCTTTCGATTT
* *
99128232 TTTTTTGTTTCTT
1 TTCTTTCTTTCTT
99128245 TCTCTCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 14 0.45
23 5 0.16
24 12 0.39
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.76
Consensus pattern (23 bp):
TTCTTTCTTTCTTCTTTCGATTT
Found at i:99128970 original size:16 final size:16
Alignment explanation
Indices: 99128949--99128983 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
99128939 ACTTAATACT
99128949 TATATATATTATATAG
1 TATATATATTATATAG
99128965 TATATATATTATATAG
1 TATATATATTATATAG
99128981 TAT
1 TAT
99128984 TATTAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (16 bp):
TATATATATTATATAG
Found at i:99129133 original size:9 final size:9
Alignment explanation
Indices: 99129079--99129149 Score: 58
Period size: 9 Copynumber: 8.0 Consensus size: 9
99129069 ATATTACGCA
99129079 TATATATAT
1 TATATATAT
99129088 TAATATTATAT
1 T-ATA-TATAT
* *
99129099 TATGTATGT
1 TATATATAT
99129108 TAT-T-T-T
1 TATATATAT
* *
99129114 TTTAAATAT
1 TATATATAT
99129123 TATATATAT
1 TATATATAT
99129132 TATATATAT
1 TATATATAT
*
99129141 TATGTATAT
1 TATATATAT
99129150 ATTTTTAATC
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
6 3 0.06
7 1 0.02
8 2 0.04
9 33 0.66
10 5 0.10
11 6 0.12
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (9 bp):
TATATATAT
Found at i:99129148 original size:13 final size:13
Alignment explanation
Indices: 99129123--99129246 Score: 75
Period size: 13 Copynumber: 10.7 Consensus size: 13
99129113 TTTTAAATAT
99129123 TATATA-TAT-TA
1 TATATATTATGTA
99129134 TATATATTATGTA
1 TATATATTATGTA
99129147 TATAT-TT-T-TA
1 TATATATTATGTA
*
99129157 -ATCTATTATGTA
1 TATATATTATGTA
99129169 TATATATTATGTA
1 TATATATTATGTA
* *
99129182 CATA-CTT-T-TA
1 TATATATTATGTA
99129192 -ATATTATTATGTA
1 TATA-TATTATGTA
*
99129205 T-T-TATT-TTTA
1 TATATATTATGTA
99129215 -ATATA-TATGTA
1 TATATATTATGTA
99129226 TATAT-TTATGTA
1 TATATATTATGTA
99129238 -ATATTATTA
1 TATA-TATTA
99129247 ATAATTGTTT
Statistics
Matches: 88, Mismatches: 7, Indels: 34
0.68 0.05 0.26
Matches are distributed among these distances:
9 6 0.07
10 11 0.12
11 23 0.26
12 21 0.24
13 27 0.31
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.56
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:99129171 original size:42 final size:38
Alignment explanation
Indices: 99129090--99129181 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 38
99129080 ATATATATTA
*
99129090 ATATTATATTATGTATGTTATTTTTTTAAATATTATAT
1 ATATTATATTATGTATGTTATATTTTTAAATATTATAT
* *
99129128 ATATTATATATAT-TATGTATATATTTTTAATCTATTATGT
1 ATATTATAT-TATGTATGT-TATATTTTTAA-ATATTATAT
99129168 ATA-TATATTATGTA
1 ATATTATATTATGTA
99129182 CATACTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
38 17 0.36
39 20 0.43
40 10 0.21
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (38 bp):
ATATTATATTATGTATGTTATATTTTTAAATATTATAT
Found at i:99129178 original size:35 final size:36
Alignment explanation
Indices: 99129132--99129205 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 36
99129122 TTATATATAT
* *
99129132 TATATATATTATGTATATATTTTTAAT-CTATTATG
1 TATATATATTATGTACATACTTTTAATACTATTATG
*
99129167 TATATATATTATGTACATACTTTTAATATTATTATG
1 TATATATATTATGTACATACTTTTAATACTATTATG
99129203 TAT
1 TAT
99129206 TTATTTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
35 25 0.71
36 10 0.29
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.55
Consensus pattern (36 bp):
TATATATATTATGTACATACTTTTAATACTATTATG
Found at i:99129202 original size:23 final size:23
Alignment explanation
Indices: 99129168--99129246 Score: 90
Period size: 23 Copynumber: 3.4 Consensus size: 23
99129158 TCTATTATGT
* *
99129168 ATATATATTATGTACATACTTTTA
1 ATAT-TATTATGTATATATTTTTA
*
99129192 ATATTATTATGTATTTATTTTTA
1 ATATTATTATGTATATATTTTTA
99129215 ATA-TA-TATGTATATATTTATGTA
1 ATATTATTATGTATATATTT-T-TA
99129238 ATATTATTA
1 ATATTATTA
99129247 ATAATTGTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 12 0.26
22 3 0.06
23 24 0.51
24 6 0.13
25 2 0.04
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (23 bp):
ATATTATTATGTATATATTTTTA
Found at i:99129231 original size:25 final size:23
Alignment explanation
Indices: 99129187--99129270 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
99129177 ATGTACATAC
*
99129187 TTTTAATATTATTATGTATTTAT
1 TTTTAATATTATTATATATTTAT
99129210 TTTTAATATATATGTATATATTTA-
1 TTTTAATAT-TAT-TATATATTTAT
*
99129234 -TGTAATATTATTA-ATAATTGT-T
1 TTTTAATATTATTATAT-ATT-TAT
*
99129256 TTTTAACATTATTAT
1 TTTTAATATTATTAT
99129271 CATTTCTAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
20 2 0.04
21 5 0.10
22 4 0.08
23 27 0.54
24 3 0.06
25 9 0.18
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTATATATTTAT
Found at i:99129320 original size:23 final size:23
Alignment explanation
Indices: 99129280--99129338 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
99129270 TCATTTCTAA
* *
99129280 TATATATGTGTATCGTATATGTTTT
1 TATATATAT-TAT-GTATATATTTT
*
99129305 TATATATATTATGTATATATCTT
1 TATATATATTATGTATATATTTT
99129328 TAGTAT-TATTA
1 TA-TATATATTA
99129339 GTTTTATGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 16 0.53
24 6 0.20
25 8 0.27
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (23 bp):
TATATATATTATGTATATATTTT
Found at i:99129551 original size:26 final size:26
Alignment explanation
Indices: 99129506--99129582 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 26
99129496 TCTAATATGT
* *
99129506 ATATACTATGTA-A-ATATTTTAATA
1 ATATATTATGTATACATTTTTTAATA
*
99129530 ATATATTATGTATACATTTTTT-GT-
1 ATATATTATGTATACATTTTTTAATA
*
99129554 ATATATTACGTATATCTATCTTTTTAATA
1 ATATATTATGTATA-C-AT-TTTTTAATA
99129583 TTGTATTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 24 0.59
25 3 0.07
26 8 0.20
27 5 0.12
28 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.05, T:0.52
Consensus pattern (26 bp):
ATATATTATGTATACATTTTTTAATA
Found at i:99129868 original size:12 final size:12
Alignment explanation
Indices: 99129853--99129965 Score: 56
Period size: 12 Copynumber: 9.3 Consensus size: 12
99129843 TTTTTACCCC
99129853 TATTATATTTAT
1 TATTATATTTAT
*
99129865 TATTA-ATATTAG
1 TATTATAT-TTAT
99129877 TATGTAT-TTTAT
1 TAT-TATATTTAT
** *
99129889 TA-TACGTGTAT
1 TATTATATTTAT
99129900 ATATATATACTTT-T
1 -TAT-TATA-TTTAT
*
99129914 TA-TATATAGTAT
1 TATTATAT-TTAT
* *
99129926 TATTTTATATAT
1 TATTATATTTAT
*
99129938 CATTATATTTAT
1 TATTATATTTAT
*
99129950 TATTATACTTAT
1 TATTATATTTAT
99129962 TATT
1 TATT
99129966 TTCACTATTG
Statistics
Matches: 75, Mismatches: 15, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
10 3 0.04
11 11 0.15
12 47 0.63
13 9 0.12
14 3 0.04
15 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:99129947 original size:17 final size:17
Alignment explanation
Indices: 99129899--99129937 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
99129889 TATACGTGTA
*
99129899 TATATATA-TACT-TTT
1 TATATATAGTATTATTT
99129914 TATATATAGTATTATTT
1 TATATATAGTATTATTT
99129931 TATATAT
1 TATATAT
99129938 CATTATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 3 0.14
17 10 0.48
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TATATATAGTATTATTT
Found at i:99134686 original size:13 final size:13
Alignment explanation
Indices: 99134668--99134701 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
99134658 AAGAAATTTG
99134668 ATAAAAACAT-AAA
1 ATAAAAA-ATAAAA
99134681 ATAAAAAATAAAA
1 ATAAAAAATAAAA
99134694 ATAAAAAA
1 ATAAAAAA
99134702 ATGCAATCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 18 0.90
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:99140753 original size:21 final size:22
Alignment explanation
Indices: 99140727--99140781 Score: 58
Period size: 25 Copynumber: 2.4 Consensus size: 22
99140717 TATATATATA
99140727 ATATAAATTT-ATTTTATTTAT
1 ATATAAATTTCATTTTATTTAT
*
99140748 ATATAATTTTTTTCATTTTATTTAT
1 ATATAA---ATTTCATTTTATTTAT
*
99140773 ATTTAAATT
1 ATATAAATT
99140782 AATAAATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
21 6 0.22
22 2 0.07
24 3 0.11
25 16 0.59
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATAAATTTCATTTTATTTAT
Found at i:99140765 original size:20 final size:19
Alignment explanation
Indices: 99140727--99140765 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
99140717 TATATATATA
99140727 ATATAAATTTATTTTATTT
1 ATATAAATTTATTTTATTT
99140746 ATATATAATTT-TTTTCATTT
1 ATATA-AATTTATTTT-ATTT
99140766 TATTTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
ATATAAATTTATTTTATTT
Found at i:99141740 original size:16 final size:17
Alignment explanation
Indices: 99141709--99141741 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
99141699 TTTATTTTCA
99141709 TATTTGATTAATATAAT
1 TATTTGATTAATATAAT
*
99141726 TATTTG-TTTATATAAT
1 TATTTGATTAATATAAT
99141742 ATCCAATGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (17 bp):
TATTTGATTAATATAAT
Found at i:99143769 original size:104 final size:104
Alignment explanation
Indices: 99143589--99143798 Score: 420
Period size: 104 Copynumber: 2.0 Consensus size: 104
99143579 CTGACAGTAC
99143589 ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
1 ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
99143654 TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
66 TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
99143693 ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
1 ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
99143758 TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
66 TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
99143797 AT
1 AT
99143799 GCGCGACTTA
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (104 bp):
ATTGAATAGGATGTAGAATAGATCATGAATCCGTTTATGGATTTATTCACTTGTGACATTCATAA
TGTGGCATACCTTAATCTTGAGTAGATGATGGATTATGT
Found at i:99144661 original size:17 final size:17
Alignment explanation
Indices: 99144641--99144686 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
99144631 TAAAATTTGG
*
99144641 TTGAGAAATTTATTTAA
1 TTGAGAAATTAATTTAA
99144658 TTGAGAAATTAATTT-A
1 TTGAGAAATTAATTTAA
* *
99144674 TTTAGAAAATAAT
1 TTGAGAAATTAAT
99144687 ATTTAATTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:99144926 original size:19 final size:19
Alignment explanation
Indices: 99144902--99144938 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99144892 AAAATTAATT
*
99144902 AATTTAATTTAATAAATAA
1 AATTTAATTTAAAAAATAA
*
99144921 AATTTATTTTAAAAAATA
1 AATTTAATTTAAAAAATA
99144939 GAAAAACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
AATTTAATTTAAAAAATAA
Found at i:99146102 original size:24 final size:24
Alignment explanation
Indices: 99146073--99146124 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
99146063 TTTTTAGAAG
* * *
99146073 ATTTAATATTTATTAGTATAATAT
1 ATTTAACATGTATTAGCATAATAT
*
99146097 ATTTAACATGTATTAGCATAATTT
1 ATTTAACATGTATTAGCATAATAT
99146121 ATTT
1 ATTT
99146125 GACCTATGAT
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:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (24 bp):
ATTTAACATGTATTAGCATAATAT
Found at i:99148673 original size:32 final size:31
Alignment explanation
Indices: 99148626--99148715 Score: 108
Period size: 32 Copynumber: 2.8 Consensus size: 31
99148616 TACCCAAATG
*
99148626 GTACAACTTGTAAAGGCTATGTACACTTTGTGT
1 GTAC-ACTTGGAAAGG-TATGTACACTTTGTGT
* *
99148659 GTACACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACACTTGGAAAGG-TATGTACACTTTGTGT
*
99148691 GTACCACTTGGAAAGGAATGTACAC
1 GTA-CACTTGGAAAGGTATGTACAC
99148716 CTCAAGTGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 33 0.67
33 16 0.33
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.32
Consensus pattern (31 bp):
GTACACTTGGAAAGGTATGTACACTTTGTGT
Found at i:99150793 original size:24 final size:24
Alignment explanation
Indices: 99150765--99150810 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
99150755 TTTCTAGAAG
* *
99150765 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
99150789 ATTTAGCATTTATTAGCATAAT
1 ATTTAGCATTTATTAGCATAAT
99150811 TTAGTTGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.04, G:0.09, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:99152678 original size:48 final size:48
Alignment explanation
Indices: 99152352--99152666 Score: 273
Period size: 48 Copynumber: 6.6 Consensus size: 48
99152342 CGAGGCTAAA
*
99152352 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATA--ATGTAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATG--GCCGAT
** ** * * *
99152400 GCCATGTCTTAGACATGGTCTTACACTAACGCACATATCAAT-ACCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATC-ATGGCCGAT
* ***
99152448 GCCATGTCCCAGACATGGTTTTACACTGGCTCTCAT-TACATTATCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-CATGGCCGAT
* * * *
99152496 GCCATGTTCCA-AGCATGGTCTTACACTGGCTTTCAT-TACATTGCTGAT
1 GCCATGTCCCAGA-CATGGTCTTACACTGGCTCTCATAT-CATGGCCGAT
* * * *
99152544 ACCATGTTCCAAACATGGTCTTACACTGGCTCTTATATCATGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGAT
** * * * * * * *
99152592 GCCATGTTTCAAAAATGATCTTGCATTGACTCTCATATCGTGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGAT
99152640 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
99152667 AGCACACATA
Statistics
Matches: 216, Mismatches: 43, Indels: 16
0.79 0.16 0.06
Matches are distributed among these distances:
47 4 0.02
48 208 0.96
49 2 0.01
51 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCATGGCCGAT
Found at i:99158008 original size:6 final size:6
Alignment explanation
Indices: 99157997--99158026 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
99157987 AACCAGGGTT
99157997 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA
1 AAGGCA AAGGCA AAGGCA AAGGCA AAGGCA
99158027 GTCCTAATTG
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:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (6 bp):
AAGGCA
Found at i:99167785 original size:20 final size:18
Alignment explanation
Indices: 99167753--99167797 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
99167743 TGACTATCTT
99167753 AGTAAAAAATCCAAAAAG
1 AGTAAAAAATCCAAAAAG
99167771 AGTACAAAAATTCCAAAAA-
1 AGTA-AAAAA-TCCAAAAAG
99167790 A-TAAAAAA
1 AGTAAAAAA
99167798 AGAAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 5 0.20
18 6 0.24
19 6 0.24
20 8 0.32
ACGTcount: A:0.69, C:0.11, G:0.07, T:0.13
Consensus pattern (18 bp):
AGTAAAAAATCCAAAAAG
Found at i:99168428 original size:23 final size:21
Alignment explanation
Indices: 99168402--99168441 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99168392 AGTTTTTCTA
*
99168402 TATATATTATTTAAAAAATGC
1 TATATATTTTTTAAAAAATGC
99168423 TATATATTTTTTAAAAAAT
1 TATATATTTTTTAAAAAAT
99168442 AGTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (21 bp):
TATATATTTTTTAAAAAATGC
Found at i:99168429 original size:50 final size:52
Alignment explanation
Indices: 99168364--99168472 Score: 170
Period size: 50 Copynumber: 2.1 Consensus size: 52
99168354 ATATTTATAT
*
99168364 ATAAAATGCTCTATATTTTTTAAAAAATAGTTT-TTCTATATAT-ATTATTTA
1 ATAAAATGCTATATATTTTTTAAAAAATAGTTTATT-TATATATAATTATTTA
99168415 A-AAAATGCTATATATTTTTTAAAAAATAGTTTATTTATATATAAATTATTTA
1 ATAAAATGCTATATATTTTTTAAAAAATAGTTTATTTATATAT-AATTATTTA
99168467 ATAAAA
1 ATAAAA
99168473 ATATTTTTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
50 37 0.70
51 3 0.06
52 9 0.17
53 4 0.08
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.48
Consensus pattern (52 bp):
ATAAAATGCTATATATTTTTTAAAAAATAGTTTATTTATATATAATTATTTA
Found at i:99177008 original size:30 final size:28
Alignment explanation
Indices: 99176952--99177023 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
99176942 ATTTTAAAAA
* *
99176952 TTTTAAA-TAAAAAACTTAGTGAGTGAT
1 TTTTAAATTTAAAAACTTAGGGAGTGAT
99176979 TTTTAAATTTAAAAACTTAAGAGGAGTGAT
1 TTTTAAATTTAAAAACTT-AG-GGAGTGAT
99177009 TTTTAATATCTTAAA
1 TTTTAA-AT-TTAAA
99177024 GTATTAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
27 7 0.18
28 9 0.24
29 2 0.05
30 13 0.34
31 2 0.05
32 5 0.13
ACGTcount: A:0.43, C:0.04, G:0.12, T:0.40
Consensus pattern (28 bp):
TTTTAAATTTAAAAACTTAGGGAGTGAT
Found at i:99182233 original size:118 final size:118
Alignment explanation
Indices: 99182025--99182262 Score: 467
Period size: 118 Copynumber: 2.0 Consensus size: 118
99182015 TTGATTGCAG
99182025 ATGTCAGAAGTGAAAGGCTGGTGGTTGGCTCGAGGGGAGGCCAAGGGTTCGACAGCACGCGTGGC
1 ATGTCAGAAGTGAAAGGCTGGTGGTTGGCTCGAGGGGAGGCCAAGGGTTCGACAGCACGCGTGGC
*
99182090 TGTTGAAAAAATAAATGTAGTGGGCTATTAGGGTTAGTTTAGGAAATGGGCTA
66 TGTTGAAAAAATAAAGGTAGTGGGCTATTAGGGTTAGTTTAGGAAATGGGCTA
99182143 ATGTCAGAAGTGAAAGGCTGGTGGTTGGCTCGAGGGGAGGCCAAGGGTTCGACAGCACGCGTGGC
1 ATGTCAGAAGTGAAAGGCTGGTGGTTGGCTCGAGGGGAGGCCAAGGGTTCGACAGCACGCGTGGC
99182208 TGTTGAAAAAATAAAGGTAGTGGGCTATTAGGGTTAGTTTAGGAAATGGGCTA
66 TGTTGAAAAAATAAAGGTAGTGGGCTATTAGGGTTAGTTTAGGAAATGGGCTA
99182261 AT
1 AT
99182263 AGGGTTTTGA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 119 1.00
ACGTcount: A:0.27, C:0.12, G:0.37, T:0.24
Consensus pattern (118 bp):
ATGTCAGAAGTGAAAGGCTGGTGGTTGGCTCGAGGGGAGGCCAAGGGTTCGACAGCACGCGTGGC
TGTTGAAAAAATAAAGGTAGTGGGCTATTAGGGTTAGTTTAGGAAATGGGCTA
Found at i:99194970 original size:25 final size:26
Alignment explanation
Indices: 99194942--99194993 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
99194932 TACGACTGGT
* *
99194942 TTATGAATTGATGTTTA-TTGAATAC
1 TTATGAATTGATATTCATTTGAATAC
*
99194967 TTATTAATTGATATTCATTTGAATAC
1 TTATGAATTGATATTCATTTGAATAC
99194993 T
1 T
99194994 AATTCCAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.50
Consensus pattern (26 bp):
TTATGAATTGATATTCATTTGAATAC
Found at i:99199126 original size:20 final size:20
Alignment explanation
Indices: 99199087--99199126 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
99199077 ATACATTTAG
*
99199087 AATTTAGTTCCTTTATTTTT
1 AATTTAGTTCCTTTACTTTT
99199107 AATTTAG-TCCTTCTACTTTT
1 AATTTAGTTCCTT-TACTTTT
99199127 CATATTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.60
Consensus pattern (20 bp):
AATTTAGTTCCTTTACTTTT
Found at i:99199877 original size:25 final size:25
Alignment explanation
Indices: 99199848--99199897 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
99199838 AATTTGAAAG
*
99199848 TTAAAAAGGATTAAATTATTCTAAA
1 TTAAAAAAGATTAAATTATTCTAAA
99199873 TTAAAAAAGATTAAATTATTCTAAA
1 TTAAAAAAGATTAAATTATTCTAAA
99199898 AATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (25 bp):
TTAAAAAAGATTAAATTATTCTAAA
Found at i:99199904 original size:25 final size:25
Alignment explanation
Indices: 99199849--99199905 Score: 87
Period size: 25 Copynumber: 2.2 Consensus size: 25
99199839 ATTTGAAAGT
*
99199849 TAAAAAGGATTAAATTATTCTAAAT
1 TAAAAAGGATTAAATTATTCTAAAA
*
99199874 TAAAAAAGATTAAATTATTCTAAAAA
1 TAAAAAGGATTAAATTATTCT-AAAA
99199900 TAAAAA
1 TAAAAA
99199906 TTAAAATCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 20 0.69
26 9 0.31
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (25 bp):
TAAAAAGGATTAAATTATTCTAAAA
Found at i:99202556 original size:20 final size:21
Alignment explanation
Indices: 99202511--99202556 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
99202501 ACGTAAGAAG
*
99202511 TTCACATGTGTTTAAACCTTTA
1 TTCACATGTGTTTAAA-CTATA
99202533 TTCACATGT-TTTAAA-TATA
1 TTCACATGTGTTTAAACTATA
99202552 CTTCA
1 -TTCA
99202557 AGTCAAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 3 0.14
20 4 0.18
21 6 0.27
22 9 0.41
ACGTcount: A:0.30, C:0.17, G:0.07, T:0.46
Consensus pattern (21 bp):
TTCACATGTGTTTAAACTATA
Found at i:99205673 original size:52 final size:52
Alignment explanation
Indices: 99205611--99205715 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
99205601 CAATTACATA
99205611 TGATGAAACTCAAAGATCTATATATATAATTGCTCATAGTAGATATTGAGTT
1 TGATGAAACTCAAAGATCTATATATATAATTGCTCATAGTAGATATTGAGTT
*
99205663 TGATGAAACTCAAAGATCTATATATATAATTGCTCATGGTAGATATTGAGTT
1 TGATGAAACTCAAAGATCTATATATATAATTGCTCATAGTAGATATTGAGTT
99205715 T
1 T
99205716 AAGTATGCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (52 bp):
TGATGAAACTCAAAGATCTATATATATAATTGCTCATAGTAGATATTGAGTT
Found at i:99206292 original size:33 final size:33
Alignment explanation
Indices: 99206250--99206316 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
99206240 ACAATGTGAC
99206250 TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
1 TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
99206283 TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
1 TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
99206316 T
1 T
99206317 CTTTTACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (33 bp):
TGCGCTGTACTTTGAGATGAACCTCAATTCTCT
Found at i:99209945 original size:12 final size:13
Alignment explanation
Indices: 99209928--99209962 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
99209918 ATTTGTAACA
99209928 ATTGGGGTTGG-G
1 ATTGGGGTTGGTG
99209940 ATTGGGGTTGGTG
1 ATTGGGGTTGGTG
99209953 -TTGGGGTTGG
1 ATTGGGGTTGG
99209963 AACTACTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 21 0.95
13 1 0.05
ACGTcount: A:0.06, C:0.00, G:0.57, T:0.37
Consensus pattern (13 bp):
ATTGGGGTTGGTG
Found at i:99209955 original size:6 final size:6
Alignment explanation
Indices: 99209929--99209962 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
99209919 TTTGTAACAA
* *
99209929 TTGGGG TTGGGA TTGGGG TTGGTG TTGGGG TTGG
1 TTGGGG TTGGGG TTGGGG TTGGGG TTGGGG TTGG
99209963 AACTACTTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.03, C:0.00, G:0.59, T:0.38
Consensus pattern (6 bp):
TTGGGG
Found at i:99212701 original size:20 final size:22
Alignment explanation
Indices: 99212676--99212720 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
99212666 ATCTAACACC
99212676 ATAATTAAATTTAT-TT-AAAA
1 ATAATTAAATTTATATTGAAAA
*
99212696 ATAATTAATTTTATATTGAAAA
1 ATAATTAAATTTATATTGAAAA
99212718 ATA
1 ATA
99212721 TTTTACCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
21 2 0.09
22 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATAATTAAATTTATATTGAAAA
Found at i:99213806 original size:22 final size:22
Alignment explanation
Indices: 99213778--99213831 Score: 72
Period size: 24 Copynumber: 2.4 Consensus size: 22
99213768 ATAATAAAAG
99213778 AAATATATAACAAATAACATAA
1 AAATATATAACAAATAACATAA
**
99213800 AAATATATGTATGAAATAACATAA
1 AAATATA--TAACAAATAACATAA
99213824 AAATATAT
1 AAATATAT
99213832 GAATAGCGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.29
24 20 0.71
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (22 bp):
AAATATATAACAAATAACATAA
Found at i:99216479 original size:54 final size:54
Alignment explanation
Indices: 99216400--99216581 Score: 307
Period size: 54 Copynumber: 3.4 Consensus size: 54
99216390 GAAAAGTAGA
* *
99216400 TTTTGAAAAACAGACATTAAAAGGCTCAACTCACCTCTCGTAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
99216454 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
99216508 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGA-TTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
99216561 TCTTTG--AAACAGACATTAAAA
1 T-TTTGAAAAACAGAAATTAAAA
99216582 ATAGAAATTG
Statistics
Matches: 124, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
52 14 0.11
53 6 0.05
54 104 0.84
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.29
Consensus pattern (54 bp):
TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:99216809 original size:88 final size:85
Alignment explanation
Indices: 99216529--99216846 Score: 348
Period size: 86 Copynumber: 3.7 Consensus size: 85
99216519 AGAAATTAAA
* * *
99216529 AGGCTCAACTCACCTCTCGCAATATGA-TTGATTCTTTG-AAACAGACATTAAAAA-TAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTAAAAACAAG-AATT
* *
99216591 GAAAATAGCTCAGTGCGTGAGCCA
65 GAAAATACCTCA--GCGTGA-CCG
* *
99216615 AGACGT-AACTCACCTCTCGCAATATGAGTTG-GTTTTTGAAAACATG-AATT-AAAAC-AGAAT
1 AGGC-TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACA-GAAATTAAAAACAAGAA-
* *
99216675 TTAAAAATACCTCGGCATGTGACCCG
63 TTGAAAATACCTCAGC--GTGA-CCG
99216701 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAACAAGAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAACAGAAATTAAAAACAAGAAT
*
99216766 TGAAAATACCTCAGCGTGTCCTG
64 TGAAAATACCTCAGCGTGACC-G
*
99216789 AGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAACAGAAA-TAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAACAGAAATTAAAAACA
99216847 TCAAAATACC
Statistics
Matches: 201, Mismatches: 15, Indels: 32
0.81 0.06 0.13
Matches are distributed among these distances:
84 2 0.01
85 3 0.01
86 88 0.44
87 24 0.12
88 51 0.25
89 10 0.05
90 19 0.09
91 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (85 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTAAAAACAAGAATTG
AAAATACCTCAGCGTGACCG
Found at i:99216817 original size:174 final size:171
Alignment explanation
Indices: 99216529--99216843 Score: 415
Period size: 176 Copynumber: 1.8 Consensus size: 171
99216519 AGAAATTAAA
* *
99216529 AGGCTCAACTCACCTCTCGCAATATGATTGATTCTTTGAAACAGACATTAAAAATAGAAATTGAA
1 AGGCTCAACTCACCTCTCGCAATATGATTGATTCTTTGAAACAGAAATTAAAAAAAGAAATTGAA
* *
99216594 AATAGCTCAGTGCGTGAGCCAAGACGTAACTCACCTCTCGCAATATGAGTTG-GTTTTTGAAAAC
66 AATACCTCAG-GCGTGAGCCAAGACGTAACTCACCTATCGCAATATGAGTTGAGTTTTTGAAAAC
*
99216658 ATGAATTAAAACAGAATTTAAAAATACCTCGGCATGTGACCCG
130 A-GAAATAAAACAGAATTTAAAAATACCTCGGCATGTGACCCG
*
99216701 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTAAAAACAAG-AA
1 AGGCTCAACTCACCTCTCGCAATATGA-TTGA-TTCTTTG--AAACAGAAATTAAAAA-AAGAAA
* * * *
99216765 TTGAAAATACCTCA-GCGTG-TCC-TGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTT
61 TTGAAAATACCTCAGGCGTGAGCCAAGACG-T-AACTCACCTATCGCAATATGAGTTGA-GTTTT
99216827 TGAAAACAGAAATAAAA
123 TGAAAACAGAAATAAAA
99216844 ACATCAAAAT
Statistics
Matches: 124, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
172 30 0.24
173 7 0.06
174 35 0.28
175 8 0.06
176 42 0.34
177 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (171 bp):
AGGCTCAACTCACCTCTCGCAATATGATTGATTCTTTGAAACAGAAATTAAAAAAAGAAATTGAA
AATACCTCAGGCGTGAGCCAAGACGTAACTCACCTATCGCAATATGAGTTGAGTTTTTGAAAACA
GAAATAAAACAGAATTTAAAAATACCTCGGCATGTGACCCG
Found at i:99229357 original size:23 final size:24
Alignment explanation
Indices: 99229306--99229358 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
99229296 TTATAAGAAA
* *
99229306 ATATAACTAATAATATTGAAAATAT
1 ATATAAC-AATAATATTGAAAACAC
*
99229331 ATATAAC-ATAATATTTAAAACAC
1 ATATAACAATAATATTGAAAACAC
99229354 ATATA
1 ATATA
99229359 TATATGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.72
25 7 0.28
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (24 bp):
ATATAACAATAATATTGAAAACAC
Found at i:99230774 original size:30 final size:30
Alignment explanation
Indices: 99230740--99230802 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
99230730 ACTTAACAAG
*
99230740 CAAATGCTTTTAAAATAATAAAAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
*
99230770 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAAAAAATTAA
99230800 CAA
1 CAA
99230803 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAAAAAATTAA
Found at i:99230828 original size:28 final size:32
Alignment explanation
Indices: 99230780--99230847 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 32
99230770 CAAATGCCTT
* *
99230780 TAAAATAATAAGAAAATTAACAAT-AAA-ATA
1 TAAAAAAACAAGAAAATTAACAATCAAATATA
*
99230810 -AAAAAAACAAGAAAA-TAACATTCAAATATA
1 TAAAAAAACAAGAAAATTAACAATCAAATATA
99230840 TAAAAAAA
1 TAAAAAAA
99230848 TATATGCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.19
29 16 0.50
30 3 0.09
31 7 0.22
ACGTcount: A:0.72, C:0.06, G:0.03, T:0.19
Consensus pattern (32 bp):
TAAAAAAACAAGAAAATTAACAATCAAATATA
Found at i:99231742 original size:17 final size:18
Alignment explanation
Indices: 99231706--99231742 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
99231696 TAACATATTT
99231706 TTTAATATTTACATTATA
1 TTTAATATTTACATTATA
99231724 TTTAAT-TTT-CATATATA
1 TTTAATATTTACAT-TATA
99231741 TT
1 TT
99231743 ATAAATTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.17
17 9 0.50
18 6 0.33
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAATATTTACATTATA
Found at i:99235805 original size:22 final size:22
Alignment explanation
Indices: 99235777--99235864 Score: 76
Period size: 22 Copynumber: 4.0 Consensus size: 22
99235767 AGCTTACTAT
*
99235777 TTTCAGCTCATTGGAGCTTACC
1 TTTCAGCTCATTAGAGCTTACC
99235799 TTTCAGCT--TGTATGAGCTTA-C
1 TTTCAGCTCAT-TA-GAGCTTACC
99235820 TATTCAGCTCGA-TAGAGCTTACC
1 T-TTCAGCTC-ATTAGAGCTTACC
* *
99235843 ATTTCAACTCAATAGAGCTTAC
1 -TTTCAGCTCATTAGAGCTTAC
99235865 TATTCATCAG
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
20 1 0.02
21 3 0.05
22 30 0.55
23 20 0.36
24 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (22 bp):
TTTCAGCTCATTAGAGCTTACC
Found at i:99235816 original size:46 final size:45
Alignment explanation
Indices: 99235755--99235870 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 45
99235745 TACCGATATA
*
99235755 TCAGCTCGTAAGAGCTTACTATTTTCAGCTC-ATTGGAGCTTACC-TT
1 TCAGCTCGTAAGAGCTTACTA--TTCAGCTCGA-TAGAGCTTACCATT
* *
99235801 TCAGCTTGTATGAGCTTACTATTCAGCTCGATAGAGCTTACCATT
1 TCAGCTCGTAAGAGCTTACTATTCAGCTCGATAGAGCTTACCATT
* *
99235846 TCAACTC-AATAGAGCTTACTATTCA
1 TCAGCTCGTA-AGAGCTTACTATTCA
99235871 TCAGCTTAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
44 19 0.32
45 22 0.37
46 19 0.32
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (45 bp):
TCAGCTCGTAAGAGCTTACTATTCAGCTCGATAGAGCTTACCATT
Found at i:99235857 original size:23 final size:22
Alignment explanation
Indices: 99235812--99235870 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
99235802 CAGCTTGTAT
* * *
99235812 GAGCTTACTATTCAGCTCGATA
1 GAGCTTACCATTCAACTCAATA
99235834 GAGCTTACCATTTCAACTCAATA
1 GAGCTTACCA-TTCAACTCAATA
*
99235857 GAGCTTACTATTCA
1 GAGCTTACCATTCA
99235871 TCAGCTTAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (22 bp):
GAGCTTACCATTCAACTCAATA
Found at i:99243475 original size:23 final size:23
Alignment explanation
Indices: 99243444--99243500 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
99243434 GAGCTTATTG
* *
99243444 TTCAACTCAATAAAGCTTACCGT
1 TTCAGCTCAATAAAGATTACCGT
*
99243467 TTCAGCTCAATAAAGATTACTGT
1 TTCAGCTCAATAAAGATTACCGT
99243490 TCATCAGCTCA
1 T--TCAGCTCA
99243501 GGAGGAGCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.72
25 8 0.28
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.32
Consensus pattern (23 bp):
TTCAGCTCAATAAAGATTACCGT
Found at i:99245057 original size:27 final size:27
Alignment explanation
Indices: 99245027--99245081 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
99245017 GTTATGAGAG
* *
99245027 TGTGGATAATCTTAGCATTTATTCTAT
1 TGTGGAGAATCTTAGCACTTATTCTAT
99245054 TGTGGAGAATCTTAGCACTTATTCTAT
1 TGTGGAGAATCTTAGCACTTATTCTAT
99245081 T
1 T
99245082 ATTTAGAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (27 bp):
TGTGGAGAATCTTAGCACTTATTCTAT
Found at i:99254392 original size:27 final size:27
Alignment explanation
Indices: 99254362--99254421 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
99254352 AAAAATCATC
*
99254362 AAAAATTATAATTTCAAAAAAATATAT
1 AAAAATAATAATTTCAAAAAAATATAT
** * * *
99254389 AAAAATAATTCTTTTAAATATATATAT
1 AAAAATAATAATTTCAAAAAAATATAT
99254416 AAAAAT
1 AAAAAT
99254422 GCACTCAAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (27 bp):
AAAAATAATAATTTCAAAAAAATATAT
Found at i:99265495 original size:25 final size:26
Alignment explanation
Indices: 99265467--99265517 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
99265457 TATTTTATAA
*
99265467 TTTTTAT-TTTTAAAAAA-TATGATT
1 TTTTTATATTTTAAAAAAGTATAATT
99265491 TTTTTATATTTTAAAAAAGTATAATT
1 TTTTTATATTTTAAAAAAGTATAATT
99265517 T
1 T
99265518 AAAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTTATATTTTAAAAAAGTATAATT
Found at i:99265555 original size:21 final size:22
Alignment explanation
Indices: 99265519--99265559 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
99265509 GTATAATTTA
*
99265519 AAATTTTTATTTTTTTAAATGT
1 AAATATTTATTTTTTTAAATGT
99265541 AAATATTTA-TTTTTTAAAT
1 AAATATTTATTTTTTTAAAT
99265560 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
AAATATTTATTTTTTTAAATGT
Found at i:99266802 original size:18 final size:19
Alignment explanation
Indices: 99266763--99266825 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
99266753 CCCAACTTGA
*
99266763 ATATTATGTT-ATAAACTA-
1 ATATTATATTAAT-AACTAT
*
99266781 ATATTATATTAATTA-TAT
1 ATATTATATTAATAACTAT
*
99266799 ATATTA-AATAATAACTAT
1 ATATTATATTAATAACTAT
99266817 ATATT-TATT
1 ATATTATATT
99266826 TATATTAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 8 0.22
18 26 0.72
19 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATTATATTAATAACTAT
Found at i:99267042 original size:19 final size:19
Alignment explanation
Indices: 99267018--99267082 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
99267008 ATATAAATAT
99267018 TTTTTAATGTGTTAGAAAA
1 TTTTTAATGTGTTAGAAAA
* * ** *
99267037 TTTTTATTTTAATATTAAATA
1 TTTTTAATGTGTTA-GAAA-A
99267058 TTTTTAATGTGTTAGAAAA
1 TTTTTAATGTGTTAGAAAA
99267077 TTTTTA
1 TTTTTA
99267083 TTTTAACATT
Statistics
Matches: 34, Mismatches: 10, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 17 0.50
20 6 0.18
21 11 0.32
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTTAATGTGTTAGAAAA
Found at i:99267049 original size:40 final size:40
Alignment explanation
Indices: 99267003--99267088 Score: 156
Period size: 40 Copynumber: 2.1 Consensus size: 40
99266993 TGGCGGAGTT
99267003 TTTTAATA-TAAATATTTTTTAATGTGTTAGAAAATTTTTA
1 TTTTAATATTAAATA-TTTTTAATGTGTTAGAAAATTTTTA
99267043 TTTTAATATTAAATATTTTTAATGTGTTAGAAAATTTTTA
1 TTTTAATATTAAATATTTTTAATGTGTTAGAAAATTTTTA
99267083 TTTTAA
1 TTTTAA
99267089 CATTTTTAGT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 39 0.87
41 6 0.13
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (40 bp):
TTTTAATATTAAATATTTTTAATGTGTTAGAAAATTTTTA
Found at i:99267777 original size:30 final size:30
Alignment explanation
Indices: 99267741--99267803 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
99267731 ATTTATTTTA
99267741 TTGTTAATTTTGTT-ATTATTTTAAAGGCAT
1 TTGTTAA-TTTGTTAATTATTTTAAAGGCAT
*
99267771 TTGTTAATTTGTTAATTATTTTAGAGGCAT
1 TTGTTAATTTGTTAATTATTTTAAAGGCAT
99267801 TTG
1 TTG
99267804 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.25, C:0.03, G:0.16, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTGTTAATTATTTTAAAGGCAT
Found at i:99268096 original size:9 final size:9
Alignment explanation
Indices: 99268082--99268106 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
99268072 CGGCCCGAAC
99268082 CCAACCCGA
1 CCAACCCGA
99268091 CCAACCCGA
1 CCAACCCGA
99268100 CCAACCC
1 CCAACCC
99268107 ATGAACACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.60, G:0.08, T:0.00
Consensus pattern (9 bp):
CCAACCCGA
Found at i:99268390 original size:20 final size:21
Alignment explanation
Indices: 99268334--99268392 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
99268324 AAAACTGCTT
99268334 TTATTTAACTAAATTAAACCA
1 TTATTTAACTAAATTAAACCA
* *
99268355 TTATTTGAA-TACATTAATCC-
1 TTATTT-AACTAAATTAAACCA
*
99268375 TTATTTAACCAAATTAAA
1 TTATTTAACTAAATTAAA
99268393 AAATTTTAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.39
21 15 0.48
22 2 0.06
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.41
Consensus pattern (21 bp):
TTATTTAACTAAATTAAACCA
Found at i:99269729 original size:116 final size:116
Alignment explanation
Indices: 99269495--99269712 Score: 305
Period size: 116 Copynumber: 1.9 Consensus size: 116
99269485 AAGGATATTC
*
99269495 AAATACTTAAATCGAATAAAAAACGAAACCCAGTACAGTAGGGCACGTTTTTTTAAAACGATTAA
1 AAATACTTAAATCGAATAAAAAACGAAACCCAATACAGTAGGGCACGTTTTTTTAAAACGATTAA
* * * * *
99269560 GTATAGAAAATTGCCTTTATTAAAAACTATTTGGGAACAAAACGTTGAATA
66 GTATAGAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATA
* *
99269611 AAATACTTAAATCGAATAAAAAAACG-AACCCAATACGGTAGGGCATG-TTTTTTAAAACGATTA
1 AAATACTTAAATCGAAT-AAAAAACGAAACCCAATACAGTAGGGCACGTTTTTTTAAAACGATTA
** *
99269674 AGTATAGAAAATTGTTTTTATGTTAAAACAAGTTGAGAA
65 AGTATAGAAAATTGCCTTTAT-TAAAAACAAGTTGAGAA
99269713 TACATTATGG
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
115 35 0.38
116 48 0.53
117 8 0.09
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.28
Consensus pattern (116 bp):
AAATACTTAAATCGAATAAAAAACGAAACCCAATACAGTAGGGCACGTTTTTTTAAAACGATTAA
GTATAGAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATA
Found at i:99269747 original size:116 final size:117
Alignment explanation
Indices: 99269499--99269747 Score: 281
Period size: 116 Copynumber: 2.1 Consensus size: 117
99269489 ATATTCAAAT
* *
99269499 ACTTAAATCGAAT-AAAAAACGAAACCCAGTACAGTAGGGCACGTTTTTTTAAAACGATTAAGTA
1 ACTTAAAACGAATAAAAAAACGAAACCCAATACAGTAGGGCACGTTTTTTTAAAACGATTAAGTA
* * * * * *
99269563 TAGAAAATTGCCTTTATTAAAAACTATTTGGGAACAAAACGTTGAATAAAAT
66 TAGAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATAAAAA
* * *
99269615 ACTTAAATCGAATAAAAAAACG-AACCCAATACGGTAGGGCATG-TTTTTTAAAACGATTAAGTA
1 ACTTAAAACGAATAAAAAAACGAAACCCAATACAGTAGGGCACGTTTTTTTAAAACGATTAAGTA
** * * * **
99269678 TAGAAAATTGTTTTTATGTTAAAACAAGTTGAGAATACATTATGGAATAAAAGA
66 TAGAAAATTGCCTTTAT-TAAAAACAAGTTGAGAACAAAACATGGAATAAAA-A
*
99269732 AC-TAAAACGATTAAAA
1 ACTTAAAACGAATAAAA
99269748 TTTGGGGAGG
Statistics
Matches: 112, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
115 35 0.31
116 67 0.60
117 10 0.09
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (117 bp):
ACTTAAAACGAATAAAAAAACGAAACCCAATACAGTAGGGCACGTTTTTTTAAAACGATTAAGTA
TAGAAAATTGCCTTTATTAAAAACAAGTTGAGAACAAAACATGGAATAAAAA
Found at i:99270686 original size:17 final size:18
Alignment explanation
Indices: 99270666--99270699 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
99270656 ACTAAAGGGA
99270666 TAATC-TATAAATAAAAC
1 TAATCATATAAATAAAAC
*
99270683 TAATCATTTAAATAAAA
1 TAATCATATAAATAAAA
99270700 TTACGGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCATATAAATAAAAC
Found at i:99274415 original size:19 final size:19
Alignment explanation
Indices: 99274391--99274429 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
99274381 AGCACATAAT
99274391 AACAATCTTCTCATTCTCA
1 AACAATCTTCTCATTCTCA
99274410 AACAATCTTCTCATTCTCA
1 AACAATCTTCTCATTCTCA
99274429 A
1 A
99274430 CTTTGCAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (19 bp):
AACAATCTTCTCATTCTCA
Found at i:99294456 original size:27 final size:28
Alignment explanation
Indices: 99294377--99294456 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
99294367 ATTTAAATAA
* *
99294377 ATTTTTAAAATTTAAAAATAATAAAAACT
1 ATTTTTAAAAATTAAAAATAAT-TAAACT
* * *
99294406 ATTTTCAAAAATTAAATATCATTAAA-T
1 ATTTTTAAAAATTAAAAATAATTAAACT
* *
99294433 TTTTTTAAAAATTAAAAAAAATTA
1 ATTTTTAAAAATTAAAAATAATTA
99294457 CAAATATATA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 20 0.49
28 3 0.07
29 18 0.44
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (28 bp):
ATTTTTAAAAATTAAAAATAATTAAACT
Found at i:99297725 original size:23 final size:22
Alignment explanation
Indices: 99297657--99297741 Score: 93
Period size: 21 Copynumber: 3.9 Consensus size: 22
99297647 CCTGATCAGT
* *
99297657 ATACGACACATAAAGTGCCTAA
1 ATACGACACATGAGGTGCCTAA
*
99297679 A-ACGACACATGAGGTGCCT-G
1 ATACGACACATGAGGTGCCTAA
*
99297699 ATACGACACACGAGGTGCCTAAA
1 ATACGACACATGAGGTGCCT-AA
* *
99297722 ATACGACACATAAAGTGCCT
1 ATACGACACATGAGGTGCCT
99297742 GATCGATAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.02
21 33 0.63
22 1 0.02
23 17 0.33
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (22 bp):
ATACGACACATGAGGTGCCTAA
Found at i:99297743 original size:44 final size:42
Alignment explanation
Indices: 99297657--99297744 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 42
99297647 CCTGATCAGT
* * *
99297657 ATACGACACATAAAGTGCCTAAAACGACACATGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACATAAAGTGCCTG
* *
99297699 ATACGACACACGAGGTGCCTAAAATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCT-AAA-ACGACACATAAAGTGCCTG
99297743 AT
1 AT
99297745 CGATAAAGCC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 17 0.44
43 3 0.08
44 19 0.49
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTAAAACGACACATAAAGTGCCTG
Found at i:99298142 original size:15 final size:15
Alignment explanation
Indices: 99298116--99298172 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
99298106 CATATATATT
99298116 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
99298130 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
99298145 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
99298160 ATATAAATTCAAT
1 ATATAATTTCAAT
99298173 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:99299455 original size:5 final size:5
Alignment explanation
Indices: 99299442--99299550 Score: 188
Period size: 5 Copynumber: 22.2 Consensus size: 5
99299432 TTCTTTAGTT
99299442 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT-A
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
99299492 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT-A -ATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
99299540 TATAA TATAA T
1 TATAA TATAA T
99299551 TAAACATAAA
Statistics
Matches: 100, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
3 2 0.02
4 6 0.06
5 88 0.88
6 4 0.04
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:99308587 original size:33 final size:33
Alignment explanation
Indices: 99308542--99308619 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
99308532 TTTTGGGCCA
* * **
99308542 CACGCCCATGTCCCATGCCCGTGTGAGTTCTGC
1 CACGCCCGTGTCCCACGCCCGTGTGAGTTCCAC
*
99308575 CACGCCCGTGTCCCACGCCTGTGTGAGTTCCAC
1 CACGCCCGTGTCCCACGCCCGTGTGAGTTCCAC
99308608 CACGCCCGTGTC
1 CACGCCCGTGTC
99308620 TTAGTTTGTG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.12, C:0.42, G:0.24, T:0.22
Consensus pattern (33 bp):
CACGCCCGTGTCCCACGCCCGTGTGAGTTCCAC
Found at i:99314557 original size:14 final size:14
Alignment explanation
Indices: 99314538--99314564 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99314528 AGTCGTACAC
99314538 AGTACGAGGAGTAT
1 AGTACGAGGAGTAT
99314552 AGTACGAGGAGTA
1 AGTACGAGGAGTA
99314565 GGATTCTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.37, T:0.19
Consensus pattern (14 bp):
AGTACGAGGAGTAT
Found at i:99316930 original size:19 final size:19
Alignment explanation
Indices: 99316906--99316945 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
99316896 ACCACATGAT
99316906 ACCGCTTAGTATTAGTTAA
1 ACCGCTTAGTATTAGTTAA
99316925 ACCGCTTAGTATTAGTTAA
1 ACCGCTTAGTATTAGTTAA
99316944 AC
1 AC
99316946 ATTAGACAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (19 bp):
ACCGCTTAGTATTAGTTAA
Found at i:99317226 original size:14 final size:14
Alignment explanation
Indices: 99317204--99317234 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
99317194 CACTCTATAA
99317204 TCTTCTCTCCTTTC
1 TCTTCTCTCCTTTC
*
99317218 TCTTTTCTCCTTTC
1 TCTTCTCTCCTTTC
99317232 TCT
1 TCT
99317235 CATTTTCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (14 bp):
TCTTCTCTCCTTTC
Found at i:99321160 original size:9 final size:10
Alignment explanation
Indices: 99321145--99321173 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
99321135 CATTTATTAG
99321145 TTTTTAAAAA
1 TTTTTAAAAA
99321155 -TTTTAAAAA
1 TTTTTAAAAA
99321164 TTTTTAAAAA
1 TTTTTAAAAA
99321174 AGAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TTTTTAAAAA
Found at i:99321253 original size:23 final size:23
Alignment explanation
Indices: 99321226--99321269 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
99321216 TTTAGAAATA
*
99321226 TAAAAAATTAAAAATATAATTTT
1 TAAAAAATTAAAAAAATAATTTT
**
99321249 TAAAATTTTAAAAAAATAATT
1 TAAAAAATTAAAAAAATAATT
99321270 AATACTAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAAAATTAAAAAAATAATTTT
Found at i:99329829 original size:28 final size:27
Alignment explanation
Indices: 99329786--99329902 Score: 146
Period size: 28 Copynumber: 4.3 Consensus size: 27
99329776 AGCATGGCTG
* * *
99329786 CCAGAATAGAT-TTTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
99329812 CCAGATACAGATATTTGTGGCAGTGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
99329840 CCAGAATCAGATATTTGTGGCAGAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
* *
99329868 CCAGAAACAAATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCAGAGCCA
99329896 CCAGAAC
1 CCAGAAC
99329903 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
26 5 0.06
27 9 0.11
28 64 0.80
29 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:99329870 original size:56 final size:54
Alignment explanation
Indices: 99329786--99329901 Score: 162
Period size: 56 Copynumber: 2.1 Consensus size: 54
99329776 AGCATGGCTG
* * *
99329786 CCAGAATAGATTTTGTGACAGAGTCACCAGATACAGATATTTGTGGCAGT-GCCA
1 CCAGAATAGATTTTGTGACAGAGCCACCAGAAACAAATATTTGTGGCA-TAGCCA
*
99329840 CCAGAATCAGATATTTGTGGCAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
1 CCAGAAT-AGAT-TTTGTGACAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
99329896 CCAGAA
1 CCAGAA
99329902 CGCTTCCTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
54 7 0.13
55 5 0.09
56 43 0.78
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (54 bp):
CCAGAATAGATTTTGTGACAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
Found at i:99337043 original size:33 final size:33
Alignment explanation
Indices: 99337004--99337302 Score: 249
Period size: 33 Copynumber: 9.1 Consensus size: 33
99336994 GCTAGGAAGA
* ** *
99337004 GTGATGTTGAAGGAGTAGAAACTGATGGGGAGA
1 GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
* * * *
99337037 GTGATGTTGTAGGGGTACAAGCTAATGGGGAGG
1 GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
* * *
99337070 GTAATGTTGAAGGGGTACAAGTTGATGGGAAGG
1 GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
* * * **
99337103 GTGATGTTAAAGGAGTAGAAATTGATGATGAGG
1 GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
* * * *
99337136 GTGATGTAGAAGGGGTACAAGTTGATAGGGAGT
1 GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
* * * **
99337169 GTGATGTTAAAGGAGTAGAAATTGATGATGAGG
1 GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
* * **
99337202 GTGATGTAGAA-GAGGTACAAGCTGACAGGGAGG
1 GTGATGTTGAAGGA-GTACAAGTTGATGGGGAGG
* *
99337235 GTGATGTTGAAGGAGTAGAAGTTGATGTGGAGG
1 GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
* * * * * *
99337268 GTGATATAGAAGGGGTACAAGCTGATCGGAAGG
1 GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
99337301 GT
1 GT
99337303 AGAAGCTGAT
Statistics
Matches: 204, Mismatches: 60, Indels: 4
0.76 0.22 0.01
Matches are distributed among these distances:
32 2 0.01
33 200 0.98
34 2 0.01
ACGTcount: A:0.31, C:0.04, G:0.41, T:0.23
Consensus pattern (33 bp):
GTGATGTTGAAGGAGTACAAGTTGATGGGGAGG
Found at i:99337136 original size:66 final size:65
Alignment explanation
Indices: 99337066--99337302 Score: 323
Period size: 66 Copynumber: 3.6 Consensus size: 65
99337056 AGCTAATGGG
* * *
99337066 GAGGGTAATGTTGAAGGGGTACAAGTTGATGGGAAGGGTGATGTTAAAGGAGTAGAAATTGATGA
1 GAGGGTGATGTAGAAGGGGTACAAGCTGATGGG-AGGGTGATGTTAAAGGAGTAGAAATTGATGA
99337131 T
65 T
* *
99337132 GAGGGTGATGTAGAAGGGGTACAAGTTGATAGGGAGTGTGATGTTAAAGGAGTAGAAATTGATGA
1 GAGGGTGATGTAGAAGGGGTACAAGCTGAT-GGGAGGGTGATGTTAAAGGAGTAGAAATTGATGA
99337197 T
65 T
* * * *
99337198 GAGGGTGATGTAGAAGAGGTACAAGCTGACAGGGAGGGTGATGTTGAAGGAGTAGAAGTTGATG-
1 GAGGGTGATGTAGAAGGGGTACAAGCTGA-TGGGAGGGTGATGTTAAAGGAGTAGAAATTGATGA
99337262 T
65 T
* *
99337263 GGAGGGTGATATAGAAGGGGTACAAGCTGATCGGAAGGGT
1 -GAGGGTGATGTAGAAGGGGTACAAGCTGAT-GGGAGGGT
99337303 AGAAGCTGAT
Statistics
Matches: 154, Mismatches: 13, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 150 0.97
67 3 0.02
ACGTcount: A:0.32, C:0.03, G:0.41, T:0.23
Consensus pattern (65 bp):
GAGGGTGATGTAGAAGGGGTACAAGCTGATGGGAGGGTGATGTTAAAGGAGTAGAAATTGATGAT
Found at i:99337176 original size:99 final size:98
Alignment explanation
Indices: 99336998--99337302 Score: 285
Period size: 99 Copynumber: 3.1 Consensus size: 98
99336988 ATGACCGCTA
* * * * * * *
99336998 GGAAGAGTGATGTTGAAGGAGTAGAAACTGATGGGGAGAGTGATGTTGTAGGGGTACAAGCTAAT
1 GGAAGGGTGATGTTAAAGGAGTAGAAACTGATGAGGAGGGTGATGTTGAAGGGGTACAAGTTGAT
*
99337063 GGGGAGGGTAATGTTGAAGGGGTACAAGTTGATG
66 -GGGAGGGTGATGTTGAAGGGGTACAAGTTGATG
* * *
99337097 GGAAGGGTGATGTTAAAGGAGTAGAAATTGATGATGAGGGTGATGTAGAAGGGGTACAAGTTGAT
1 GGAAGGGTGATGTTAAAGGAGTAGAAACTGATGAGGAGGGTGATGTTGAAGGGGTACAAGTTGAT
* * * * *
99337162 AGGGAGTGTGATGTTAAAGGAGTAGAAATTGATG
66 -GGGAGGGTGATGTTGAAGGGGTACAAGTTGATG
* * * * * *
99337196 ATG-AGGGTGATG-TAGAA-GAGGTACAAGCTGA-CAGGGAGGGTGATGTTGAAGGAGTAGAAGT
1 -GGAAGGGTGATGTTA-AAGGA-GTAGAAACTGATGA-GGAGGGTGATGTTGAAGGGGTACAAGT
* * * *
99337257 TGATGTGGAGGGTGATATAGAAGGGGTACAAGCTGATC
62 TGATG-GGAGGGTGATGTTGAAGGGGTACAAGTTGATG
99337295 GGAAGGGT
1 GGAAGGGT
99337303 AGAAGCTGAT
Statistics
Matches: 164, Mismatches: 36, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
98 7 0.04
99 156 0.95
100 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.42, T:0.23
Consensus pattern (98 bp):
GGAAGGGTGATGTTAAAGGAGTAGAAACTGATGAGGAGGGTGATGTTGAAGGGGTACAAGTTGAT
GGGAGGGTGATGTTGAAGGGGTACAAGTTGATG
Found at i:99337321 original size:85 final size:86
Alignment explanation
Indices: 99337210--99337369 Score: 200
Period size: 85 Copynumber: 1.9 Consensus size: 86
99337200 GGGTGATGTA
* *
99337210 GAAGAGGTACAAGCTGACAGGGAGGGTGATGTTGAAGGAGTAGAAGTTGA-TGTGG-AGGGTGAT
1 GAAGAGGTACAAGCTGACAGGGAGGGTGATGTAGAAGGAGTACAAGTT-ATTG-GGAAGGGTGAT
99337273 ATAGAAGGGGTACAAGCTGATCG
64 ATAGAAGGGGTACAAGCTGATCG
* ** * * *
99337296 GAAG-GGTAGAAGCTGATGGGGAGGGTGATGTAGATGGGGTACAAGTTATTGGGAAGGGTGATGT
1 GAAGAGGTACAAGCTGACAGGGAGGGTGATGTAGAAGGAGTACAAGTTATTGGGAAGGGTGATAT
*
99337360 TGAAGGGGTA
66 AGAAGGGGTA
99337370 GAAGGCGATG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
84 3 0.05
85 56 0.89
86 4 0.06
ACGTcount: A:0.29, C:0.05, G:0.44, T:0.21
Consensus pattern (86 bp):
GAAGAGGTACAAGCTGACAGGGAGGGTGATGTAGAAGGAGTACAAGTTATTGGGAAGGGTGATAT
AGAAGGGGTACAAGCTGATCG
Done.