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 89 of 343
Found at i:29538420 original size:46 final size:46
Alignment explanation
Indices: 29538292--29538512 Score: 223
Period size: 46 Copynumber: 4.8 Consensus size: 46
29538282 TAACATTCTA
*
29538292 TATTCTCCAGTCCACAACATATGCAGAAGCTGAGAACTAAAATCTG
1 TATTCTCCAGTCCACAACATATGCAGAAGCTGAGAACCAAAATCTG
* * *
29538338 TATT-TCCAGCCCACAACATATGCAGAAGCTGAGAACCGAAATTTG
1 TATTCTCCAGTCCACAACATATGCAGAAGCTGAGAACCAAAATCTG
* * * *
29538383 TATTCTCCAGTCCGCAACATATG-ATGAAGATGGGAACCTAAATCTG
1 TATTCTCCAGTCCACAACATATGCA-GAAGCTGAGAACCAAAATCTG
* * ** * *
29538429 TATTCTCCAATCCACAACATATGCAGGATATGAGAATCTAAATC-G
1 TATTCTCCAGTCCACAACATATGCAGAAGCTGAGAACCAAAATCTG
* * * * * *
29538474 ATATTCTCTAATTCGCAACATATGCAGGAGCTGGGAACC
1 -TATTCTCCAGTCCACAACATATGCAGAAGCTGAGAACC
29538513 TAGGCAAGAA
Statistics
Matches: 148, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
45 43 0.29
46 104 0.70
47 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (46 bp):
TATTCTCCAGTCCACAACATATGCAGAAGCTGAGAACCAAAATCTG
Found at i:29538481 original size:92 final size:92
Alignment explanation
Indices: 29538286--29538514 Score: 259
Period size: 92 Copynumber: 2.5 Consensus size: 92
29538276 AGGGCTTAAC
* * * *
29538286 ATTCTATATTCTCCAGTCCACAACATATGCAGAAGCTGAGAA-CTAAAATCTGTATTTCCAGCCC
1 ATTCGATATTCTCCAGTCCGCAACATATGCAGAAGCTGGGAACCT-AAATCTGTATTTCCAACCC
*
29538350 ACAACATATGCAGAAGCTGAGAACCGAA
65 ACAACATATGCAGAAGATGAGAACCGAA
* * *
29538378 ATTTG-TATTCTCCAGTCCGCAACATATG-ATGAAGATGGGAACCTAAATCTGTATTCTCCAATC
1 ATTCGATATTCTCCAGTCCGCAACATATGCA-GAAGCTGGGAACCTAAATCTGTATT-TCCAACC
* * * *
29538441 CACAACATATGCAGGATATGAGAATCTAA
64 CACAACATATGCAGAAGATGAGAACCGAA
* * * *
29538470 A-TCGATATTCTCTAATTCGCAACATATGCAGGAGCTGGGAACCTA
1 ATTCGATATTCTCCAGTCCGCAACATATGCAGAAGCTGGGAACCTA
29538515 GGCAAGAACA
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
90 1 0.01
91 44 0.39
92 68 0.60
93 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.26
Consensus pattern (92 bp):
ATTCGATATTCTCCAGTCCGCAACATATGCAGAAGCTGGGAACCTAAATCTGTATTTCCAACCCA
CAACATATGCAGAAGATGAGAACCGAA
Found at i:29539382 original size:20 final size:19
Alignment explanation
Indices: 29539331--29539385 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
29539321 TTAACTTATT
*
29539331 AATTAATCTTAATTAGTTT
1 AATTAATCTTAATTAGTTA
*
29539350 AATAAATCATTAATTCA-TTAA
1 AATTAATC-TTAATT-AGTT-A
29539371 AATTAATCTTAATTA
1 AATTAATCTTAATTA
29539386 ACACTTTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 8 0.27
20 14 0.47
21 8 0.27
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (19 bp):
AATTAATCTTAATTAGTTA
Found at i:29541621 original size:30 final size:30
Alignment explanation
Indices: 29541580--29541641 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
29541570 GCTAGGATTT
* * *
29541580 TTCAACTCTTTAACTAGTCATATTGAGAAG
1 TTCAACTCTTTAAATAGCCAAATTGAGAAG
* *
29541610 TTCAGCTCTTTAAATGGCCAAATTGAGAAG
1 TTCAACTCTTTAAATAGCCAAATTGAGAAG
29541640 TT
1 TT
29541642 TAAAGTAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (30 bp):
TTCAACTCTTTAAATAGCCAAATTGAGAAG
Found at i:29542913 original size:14 final size:14
Alignment explanation
Indices: 29542895--29542936 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
29542885 CTTTATTAAT
29542895 ATATTTTATTTGGG
1 ATATTTTATTTGGG
* *
29542909 TTATTTTATTTAGG
1 ATATTTTATTTGGG
29542923 ATATTTTATGTTGG
1 ATATTTTAT-TTGG
29542937 AAAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (14 bp):
ATATTTTATTTGGG
Found at i:29547391 original size:29 final size:29
Alignment explanation
Indices: 29547347--29547402 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
29547337 TTCTTTCGAA
* *
29547347 GTCACATGACTGTGTGGTAGACTGTGTGG
1 GTCACATGACTATGTGGTAGACCGTGTGG
*
29547376 GTCACATGGCTATGTGGTAGACCGTGT
1 GTCACATGACTATGTGGTAGACCGTGT
29547403 TGCAAACTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (29 bp):
GTCACATGACTATGTGGTAGACCGTGTGG
Found at i:29547487 original size:24 final size:24
Alignment explanation
Indices: 29547456--29547509 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
29547446 TCACACGACC
*
29547456 GTGTGGTAAG-CAGTGTGGCAGCCT
1 GTGTGGTAAGCCA-TGTGGCAGACT
* *
29547480 GTGTGGTAGGCCATGTGGTAGACT
1 GTGTGGTAAGCCATGTGGCAGACT
29547504 GTGTGG
1 GTGTGG
29547510 GTCACATGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.15, C:0.13, G:0.44, T:0.28
Consensus pattern (24 bp):
GTGTGGTAAGCCATGTGGCAGACT
Found at i:29549181 original size:47 final size:47
Alignment explanation
Indices: 29549106--29549412 Score: 228
Period size: 47 Copynumber: 6.7 Consensus size: 47
29549096 GGTAAGGTAC
* * * *
29549106 CGATGCAATGTCCTAGACACGGTTTTACACT-ATCTCATATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATATCTCAAGT
*
29549153 CGATGCCATGTCTCAGACATGGTCTTACACTGACT-ATCATCTC--GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-ATCTCAAGT
* *
29549198 --A--CCATGTCCTAGACACGGTCTTACACTGACTCATATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAGT
* **
29549241 CGATGCCATGTCCCAGACATGGTCTTACATTGACT-ATCATCTTGTAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCAT-ATC-TCAAGT
* ** * * * * *
29549289 TGATG-CATGTCGTAGACAT-GTCTTACACTGGCTTATGTCTCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTC-AAGT
* * * * *
29549335 CGATG-CATGTCCCAGACAT-GTCTTACACT-AGCCCTTGTCTTAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGA-CTCATATCTCAA-GT
* *
29549381 CGATGCAATGTCCCATACATGGTCTTACACTG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG
29549413 GCTCTCATAA
Statistics
Matches: 208, Mismatches: 34, Indels: 34
0.75 0.12 0.12
Matches are distributed among these distances:
41 32 0.15
42 2 0.01
43 3 0.01
45 5 0.02
46 58 0.28
47 89 0.43
48 19 0.09
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAGT
Found at i:29549262 original size:88 final size:88
Alignment explanation
Indices: 29549113--29549282 Score: 297
Period size: 88 Copynumber: 1.9 Consensus size: 88
29549103 TACCGATGCA
* *
29549113 ATGTCCTAGACACGGTTTTACACTATCTCATATCTCAAGTCGATGCCATGTCTCAGACATGGTCT
1 ATGTCCTAGACACGGTCTTACACTATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
29549178 TACACTGACTATCATCTCGTACC
66 TACACTGACTATCATCTCGTACC
29549201 ATGTCCTAGACACGGTCTTACACTGA-CTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 ATGTCCTAGACACGGTCTTACACT-ATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
*
29549265 TTACATTGACTATCATCT
65 TTACACTGACTATCATCT
29549283 TGTAGTTGAT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
88 77 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (88 bp):
ATGTCCTAGACACGGTCTTACACTATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
TACACTGACTATCATCTCGTACC
Found at i:29549374 original size:46 final size:45
Alignment explanation
Indices: 29549290--29549460 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 45
29549280 TCTTGTAGTT
** * *
29549290 GATGCATGTCGTAGACATGTCTTACACT-GGCTTATGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCT-TGTCT-GAGGCC
* *
29549336 GATGCATGTCCCAGACATGTCTTACACTAGCCCTTGTCTTAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCCTTGTC-TGAGGCC
* * * ** * *
29549382 GATGCAATGTCCCATACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATGC-ATGTCCCAGACAT-GTCTTACACTAGCCCTTGT-CTGAGGCC
*
29549430 GATACATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
29549461 TCACACACGA
Statistics
Matches: 102, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
46 51 0.50
47 28 0.27
48 23 0.23
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCCTTGTCTGAGGCC
Found at i:29550992 original size:18 final size:18
Alignment explanation
Indices: 29550971--29551005 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29550961 CTAGTTTTGT
29550971 ATCTGAATCTGAATATGC
1 ATCTGAATCTGAATATGC
* *
29550989 ATCTGTATCTGATTATG
1 ATCTGAATCTGAATATG
29551006 AAAATACATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (18 bp):
ATCTGAATCTGAATATGC
Found at i:29551029 original size:24 final size:24
Alignment explanation
Indices: 29551002--29551057 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
29550992 TGTATCTGAT
*
29551002 TATGAAAATACATTTGATTTTGTA
1 TATGAAAATACATTTGAATTTGTA
* *
29551026 TATGAGAATATATTTGAATTTGTA
1 TATGAAAATACATTTGAATTTGTA
*
29551050 TTTGAAAA
1 TATGAAAA
29551058 AGTATCTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (24 bp):
TATGAAAATACATTTGAATTTGTA
Found at i:29552037 original size:28 final size:28
Alignment explanation
Indices: 29551992--29552048 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
29551982 GAAGGCAAAT
*
29551992 ACAGTCTGGGCCTAAGCCCTTTTCAGTA
1 ACAGTCTGGGCCTAAGCCCATTTCAGTA
* * *
29552020 ACAGTTTGGGCTTTAGCCCATTTCAGTA
1 ACAGTCTGGGCCTAAGCCCATTTCAGTA
29552048 A
1 A
29552049 AGAGACAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCATTTCAGTA
Found at i:29553560 original size:22 final size:22
Alignment explanation
Indices: 29553535--29553576 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
29553525 AATCCTTACT
29553535 CCTTAAT-TTCCTCACCAAAATC
1 CCTTAATCTT-CTCACCAAAATC
*
29553557 CCTTAATCTTCTCCCCAAAA
1 CCTTAATCTTCTCACCAAAA
29553577 CTGTCCACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (22 bp):
CCTTAATCTTCTCACCAAAATC
Found at i:29565549 original size:22 final size:22
Alignment explanation
Indices: 29565493--29565586 Score: 89
Period size: 22 Copynumber: 4.1 Consensus size: 22
29565483 TACCGATATA
* *
29565493 TCAGCTCATAAGAGCTTACTGTT
1 TCAGCTCGTCAGAGCTTACTG-T
*
29565516 CTCAGGTCGTCAGAGCTTACTGT
1 -TCAGCTCGTCAGAGCTTACTGT
* *
29565539 TCAGCTTGTCAGAGCTTACTATT
1 TCAGCTCGTCAGAGCTTACT-GT
* **
29565562 TCAACTCAACAGAGCTTACTGT
1 TCAGCTCGTCAGAGCTTACTGT
29565584 TCA
1 TCA
29565587 TCAGCTCAGG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
22 22 0.38
23 18 0.31
24 18 0.31
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (22 bp):
TCAGCTCGTCAGAGCTTACTGT
Found at i:29568839 original size:43 final size:43
Alignment explanation
Indices: 29568787--29568898 Score: 122
Period size: 43 Copynumber: 2.6 Consensus size: 43
29568777 ACATATCGAC
* * * *
29568787 GCCACTGTCCCAGACAGGGTCTTACACGAAATAGAT-TA-ACGAT
1 GCCAATGTCCCAGACATGGTCTTACACGAAAT--ATCAACACAAT
* *
29568830 GCCAATGTCCCA-AGCATGGTCTTACACGTAATCTCAACACAAT
1 GCCAATGTCCCAGA-CATGGTCTTACACGAAATATCAACACAAT
29568873 GCCAATGTCCCAGACATGGTCTTACA
1 GCCAATGTCCCAGACATGGTCTTACA
29568899 TGTAATCATA
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 2 0.03
43 55 0.93
44 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAATATCAACACAAT
Found at i:29574098 original size:42 final size:43
Alignment explanation
Indices: 29574021--29574122 Score: 136
Period size: 42 Copynumber: 2.4 Consensus size: 43
29574011 TCCCGGTCGT
* * *
29574021 GGTCTTACATGTAATTCAGTATCAATGCCTCTATCCCAGATAG
1 GGTCTTACATGTAAATCAGTATCAATGCCTATATCCCAGACAG
*
29574064 GGTCTTACATG-AAATCAG-ATACAATGCCTATATCCCAGACAT
1 GGTCTTACATGTAAATCAGTAT-CAATGCCTATATCCCAGACAG
*
29574106 GGTCTTACACGTAAATC
1 GGTCTTACATGTAAATC
29574123 TCAAATCGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.04
42 34 0.65
43 16 0.31
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGTATCAATGCCTATATCCCAGACAG
Found at i:29587163 original size:56 final size:56
Alignment explanation
Indices: 29587073--29587192 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
29587063 ACAAGGGATG
*
29587073 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
*
29587129 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
29587185 ATGGGCAA
1 ATGGGCAA
29587193 TAAACTAATA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGCGTTAATGGAAAAATAAAATAAGAAGC
Found at i:29589045 original size:49 final size:49
Alignment explanation
Indices: 29588973--29589330 Score: 597
Period size: 49 Copynumber: 7.5 Consensus size: 49
29588963 TGCATACGTC
29588973 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29589022 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29589071 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29589120 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29589167 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29589216 AAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * * *
29589263 AAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
29589310 AAAGTGTATA-A-ATGTGATAAG
1 AAAGTGTATATATATGTGATAAG
29589331 TCCCGAAGGG
Statistics
Matches: 296, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
47 142 0.48
48 1 0.00
49 153 0.52
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:29589148 original size:47 final size:47
Alignment explanation
Indices: 29588981--29589330 Score: 574
Period size: 47 Copynumber: 7.3 Consensus size: 47
29588971 TCAAAGTGTA
29588981 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
29589028 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
29589077 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
29589126 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
29589173 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
29589222 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * * *
29589269 TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
29589316 TATAAATGTGATAAG
1 TATATATGTGATAAG
29589331 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
47 146 0.51
49 143 0.49
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:29589155 original size:96 final size:96
Alignment explanation
Indices: 29588973--29589330 Score: 612
Period size: 96 Copynumber: 3.7 Consensus size: 96
29588963 TGCATACGTC
29588973 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATG
29589038 TGATAAGGCCTAATGGCCGATGTGATGAATGTG
64 TGATAAGGCCTAATGGCCGATGTGATGAATGTG
29589071 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
29589136 ATAAGGCCTAATGGCCGATGTGATGAATGTG
66 ATAAGGCCTAATGGCCGATGTGATGAATGTG
29589167 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
29589232 ATAAGGCCTAATGGCCGATGTGATGAATGTG
66 ATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * * * * *
29589263 AAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTG
1 AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
29589326 ATAAG
66 ATAAG
29589331 TCCCGAAGGG
Statistics
Matches: 252, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
94 54 0.21
96 143 0.57
98 55 0.22
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (96 bp):
AAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG
ATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:29589491 original size:37 final size:37
Alignment explanation
Indices: 29589449--29589527 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
29589439 CCGAGCTCTA
* * *
29589449 AAGACCCAATGACTACGTGTGGGGATTTTATCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATATCCGGGT
* * *
29589486 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATATCCGGGT
29589523 AAGAC
1 AAGAC
29589528 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATATCCGGGT
Found at i:29596424 original size:27 final size:25
Alignment explanation
Indices: 29596392--29596450 Score: 82
Period size: 27 Copynumber: 2.3 Consensus size: 25
29596382 GTTAACACTT
29596392 TGAAATGACTATATGAATTGGTTATA
1 TGAAATGACTATATGAATT-GTTATA
* *
29596418 TGGAAATAATTATATGAATTGTTATA
1 T-GAAATGACTATATGAATTGTTATA
29596444 TGAAATG
1 TGAAATG
29596451 TTTACATGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 5 0.17
26 8 0.28
27 16 0.55
ACGTcount: A:0.41, C:0.02, G:0.19, T:0.39
Consensus pattern (25 bp):
TGAAATGACTATATGAATTGTTATA
Found at i:29596444 original size:12 final size:12
Alignment explanation
Indices: 29596401--29596452 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
29596391 TTGAAATGAC
29596401 TATATGAATTGGT
1 TATATGAATT-GT
**
29596414 TATATGGAAATAAT
1 TATAT-G-AATTGT
29596428 TATATGAATTGT
1 TATATGAATTGT
*
29596440 TATATGAAATGT
1 TATATGAATTGT
29596452 T
1 T
29596453 TACATGGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
12 16 0.50
13 6 0.19
14 7 0.22
15 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.44
Consensus pattern (12 bp):
TATATGAATTGT
Found at i:29602869 original size:40 final size:40
Alignment explanation
Indices: 29602675--29602861 Score: 286
Period size: 40 Copynumber: 4.7 Consensus size: 40
29602665 TTGATAATCA
** *
29602675 GGCTAAG-CCCGAAGGCATTTGTGTTAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
29602714 GGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
* * *
29602754 GGCCAAGTCCCGAAGACAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
29602794 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
*
29602834 GGCTAAGTCCCGAAGGCATTTGAGCGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAG
29602862 AAGCTATATC
Statistics
Matches: 137, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 7 0.05
40 130 0.95
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
Found at i:29602869 original size:80 final size:80
Alignment explanation
Indices: 29602675--29602888 Score: 290
Period size: 80 Copynumber: 2.7 Consensus size: 80
29602665 TTGATAATCA
** * *
29602675 GGCTAAG-CCCGAAGGCATTTGTGTTAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAATTGTGC
29602739 GAGTTACTATAACCG
66 GAGTTACTATAACCG
* * * *
29602754 GGCCAAGTCCCGAAGACAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAATTGTGC
29602819 GAGTTACTATAACCG
66 GAGTTACTATAACCG
* * **
29602834 GGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAAACCCCGAAGG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
29602889 TACTTGGTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
79 21 0.18
80 96 0.82
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAATTGTGC
GAGTTACTATAACCG
Found at i:29602888 original size:39 final size:40
Alignment explanation
Indices: 29602704--29602888 Score: 158
Period size: 40 Copynumber: 4.7 Consensus size: 40
29602694 TGTGTTAGTT
* ** * * * *
29602704 ACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTT
1 ACTATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTA
* ** * * *
29602744 ACTATAACCGGGCCAAGTCCCGAAGACAATTGTGCGAGTT
1 ACTATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTA
** * *
29602784 ACTATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTT
1 ACTATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTA
** *
29602824 ACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-A
1 ACTATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTA
*
29602863 AGCTATATCC-GGCTAAACCCCGAAGG
1 A-CTATAACCGGGCTAAACCCCGAAGG
29602889 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 15 0.11
40 116 0.89
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ACTATAACCGGGCTAAACCCCGAAGGCAATTGAGCGAGTA
Found at i:29610923 original size:40 final size:40
Alignment explanation
Indices: 29610722--29610915 Score: 309
Period size: 40 Copynumber: 4.9 Consensus size: 40
29610712 ATTCGGATTG
* *
29610722 ATAACCGGGCTAAG-CCCGGAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29610761 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
29610801 AAAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29610841 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
29610881 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
29610916 AAGCTATATC
Statistics
Matches: 143, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.09
40 130 0.91
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:29610923 original size:80 final size:80
Alignment explanation
Indices: 29610722--29610942 Score: 313
Period size: 80 Copynumber: 2.8 Consensus size: 80
29610712 ATTCGGATTG
* *
29610722 ATAACCGGGCTAAG-CCCGGAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
29610786 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * *
29610801 AAAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
29610866 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * **
29610881 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
29610943 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 27 0.22
80 98 0.78
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:29628655 original size:93 final size:92
Alignment explanation
Indices: 29628514--29628685 Score: 217
Period size: 93 Copynumber: 1.9 Consensus size: 92
29628504 CATTTCATAG
*
29628514 CCGATGCATGTCCCAGACACGTCTTACACTGGCTTACGTCTTGAGGCTGATGCATGTCCTGGA-A
1 CCGATGCATGTCCCAGACACGTCTTACACTGGCTTACGTCTTGAGGCTGATGCATGTCCTAGACA
*
29628578 TGTCTTATACTAGCACTTGTCTCAACC
66 TGTCTTAAACTAGCACTTGTCTCAACC
* * * *
29628605 CCGATGCGATGTCCCAGACATGGTCTTACACTGG-TT-C-TCCTAATGTGGCTGATGTATGTCTT
1 CCGATGC-ATGTCCCAGACA-CGTCTTACACTGGCTTACGT-CT--TGAGGCTGATGCATGTCCT
29628667 AGACATGTCTTAAACTAGC
61 AGACATGTCTTAAACTAGC
29628686 TCACACAAGC
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
90 1 0.01
91 10 0.14
92 14 0.20
93 30 0.43
94 14 0.20
ACGTcount: A:0.22, C:0.26, G:0.22, T:0.31
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACACGTCTTACACTGGCTTACGTCTTGAGGCTGATGCATGTCCTAGACA
TGTCTTAAACTAGCACTTGTCTCAACC
Found at i:29629765 original size:50 final size:51
Alignment explanation
Indices: 29629707--29629947 Score: 220
Period size: 50 Copynumber: 4.7 Consensus size: 51
29629697 GCGACCAAAT
* *
29629707 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACATACGTGACCT-AACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACC
* ***
29629757 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AAACC
* * * * * * *
29629808 GTCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT-AACT
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACC
* * * * * *
29629858 ATCTGGTACACGTAGTAGCTTGCATTTAGTACTAAACACGTGACATAAAACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCT-AAACC
* * * *
29629910 ATTTTAAACACATATTAGCCTGCA-TATAGTACTACACA
1 ATCTGATACACATAGTAGCCTGCACT-TAGTACTACACA
29629948 TGTGTTCTCA
Statistics
Matches: 151, Mismatches: 34, Indels: 10
0.77 0.17 0.05
Matches are distributed among these distances:
49 1 0.01
50 79 0.52
51 39 0.26
52 32 0.21
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.27
Consensus pattern (51 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAACC
Found at i:29629792 original size:26 final size:26
Alignment explanation
Indices: 29629763--29629846 Score: 66
Period size: 26 Copynumber: 3.3 Consensus size: 26
29629753 AACCATCTGA
29629763 TACACATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
* ** * * *
29629789 TACACA-CGT-GATTGAAGTT-GTCAGG
1 TACACATAGTAGCCTGCACTTAGT-A-C
*
29629814 TACGCATAGTAGCCTGCACTTAGTAC
1 TACACATAGTAGCCTGCACTTAGTAC
29629840 TACACAT
1 TACACAT
29629847 GCGACCTAAC
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
23 2 0.05
24 7 0.18
25 7 0.18
26 14 0.36
27 7 0.18
28 2 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (26 bp):
TACACATAGTAGCCTGCACTTAGTAC
Found at i:29629840 original size:101 final size:101
Alignment explanation
Indices: 29629719--29629900 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
29629709 CTGATACACG
* *
29629719 TAGTAGCCTGCACTTAGTACTACATACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
*
29629784 AGTACTACACACGTGATTGAAGTTGTCAGGTACGCA
66 AGTACTAAACACGTGATTGAAGTTGTCAGGTACGCA
* * * * * *
29629820 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCTTGCATTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
29629885 AGTACTAAACACGTGA
66 AGTACTAAACACGTGA
29629901 CATAAAACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTGATACACATAGTAGCCTGCACTT
AGTACTAAACACGTGATTGAAGTTGTCAGGTACGCA
Found at i:29632573 original size:14 final size:14
Alignment explanation
Indices: 29632554--29632582 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29632544 AAGTTCACTT
29632554 ATTATACTAATCAA
1 ATTATACTAATCAA
29632568 ATTATACTAATCAA
1 ATTATACTAATCAA
29632582 A
1 A
29632583 ATCCATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTATACTAATCAA
Found at i:29634076 original size:20 final size:21
Alignment explanation
Indices: 29634036--29634082 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
29634026 ACCATATTTT
*
29634036 CAGGCCACACGCCTGTGTCAC
1 CAGGCCACACGCCTATGTCAC
*
29634057 CAGGCCATACGCC-ATGTCAC
1 CAGGCCACACGCCTATGTCAC
*
29634077 TAGGCC
1 CAGGCC
29634083 GTGTCTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.21, C:0.40, G:0.23, T:0.15
Consensus pattern (21 bp):
CAGGCCACACGCCTATGTCAC
Found at i:29635431 original size:16 final size:15
Alignment explanation
Indices: 29635405--29635435 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
29635395 AAGTGTTTTA
29635405 TTACAAATTTCACTT
1 TTACAAATTTCACTT
29635420 TTACATAATTTCACTT
1 TTACA-AATTTCACTT
29635436 ACTCCATTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.48
Consensus pattern (15 bp):
TTACAAATTTCACTT
Found at i:29635756 original size:52 final size:50
Alignment explanation
Indices: 29635642--29635775 Score: 171
Period size: 52 Copynumber: 2.6 Consensus size: 50
29635632 ATCTGGTACG
* ** *
29635642 CATAGTAGCCTGCACTTAGTACTACACATGCAACCTAACTATCTGTTACA
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCTAACTATCTGTAACA
* *
29635692 CGTAATAGCCTACACTTAGTACTACACATGTGACCTAAAACTATCT-TAAACA
1 CATAGTAGCCTACACTTAGTACTACACATGTGACCT--AACTATCTGT-AACA
*
29635744 CATAGTAGCCTACACATAGTACTACACATGTG
1 CATAGTAGCCTACACTTAGTACTACACATGTG
29635776 TTCTAACAAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
50 31 0.43
51 1 0.01
52 40 0.56
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACATGTGACCTAACTATCTGTAACA
Found at i:29638632 original size:2 final size:2
Alignment explanation
Indices: 29638625--29638656 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
29638615 CGAATTCATT
29638625 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
29638657 TATATATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:29639370 original size:33 final size:32
Alignment explanation
Indices: 29639295--29639370 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
29639285 GTGTTTATAT
* * *
29639295 GTAAAACCATAGTTAGGCTATGGCATTATGAT
1 GTAAAACCATAATTAGGCTATGGCATTATAAC
* * *
29639327 GATAAGACCATAATTTGGTTATGGCATTATAAAC
1 G-TAAAACCATAATTAGGCTATGGCATTAT-AAC
29639361 GTAAAACCAT
1 GTAAAACCAT
29639371 GGCAGGGCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
32 1 0.03
33 32 0.91
34 2 0.06
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (32 bp):
GTAAAACCATAATTAGGCTATGGCATTATAAC
Found at i:29639370 original size:101 final size:100
Alignment explanation
Indices: 29639166--29639416 Score: 222
Period size: 101 Copynumber: 2.5 Consensus size: 100
29639156 TATTTAATAT
* * * * *
29639166 CATGGTTTGACCATGGCAGTGTATATATGTAAGACCATTGCTGGGCTAT-GAATTTTTAATGATA
1 CATGGTTGGACCATGGCAGTGT-TATATGTAAAACCATAG-TTGGCTATGGAATTTATAATGATA
** *
29639230 AGACCATAACTGAGCTATGGAACTAGGGACATAAGAC
64 AGACCATAACTGAGCTATGGAACTAGAAACATAAAAC
* *
29639267 CATGGTTGGACCATGGCAGTGTTTATATGTAAAACCATAGTTAGGCTATGGCA-TTATGATGATA
1 CATGGTTGGACCATGGCAGTG-TTATATGTAAAACCATAGTT-GGCTATGGAATTTATAATGATA
* * * * * *
29639331 AGACCATAATTTG-GTTATGGCATTATAAACGTAAAAC
64 AGACCATAA-CTGAGCTATGGAACTAGAAACATAAAAC
** * * * *
29639368 CATGGCAGGGCTATGGCAATG-CATATGTAAAACCATAGTTGGACTATGG
1 CATGGTTGGACCATGGCAGTGTTATATGTAAAACCATAGTTGG-CTATGG
29639417 TACAATAGGA
Statistics
Matches: 123, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
98 2 0.02
99 24 0.20
100 1 0.01
101 91 0.74
102 5 0.04
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (100 bp):
CATGGTTGGACCATGGCAGTGTTATATGTAAAACCATAGTTGGCTATGGAATTTATAATGATAAG
ACCATAACTGAGCTATGGAACTAGAAACATAAAAC
Found at i:29639652 original size:14 final size:14
Alignment explanation
Indices: 29639633--29639661 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29639623 TTTGAACTAA
29639633 TGTTTGAGCATTAC
1 TGTTTGAGCATTAC
29639647 TGTTTGAGCATTAC
1 TGTTTGAGCATTAC
29639661 T
1 T
29639662 CAACTATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.45
Consensus pattern (14 bp):
TGTTTGAGCATTAC
Found at i:29647320 original size:47 final size:47
Alignment explanation
Indices: 29647262--29647703 Score: 740
Period size: 47 Copynumber: 9.4 Consensus size: 47
29647252 CAGCCAAGAC
*
29647262 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
29647309 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
29647356 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
29647403 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
29647450 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
29647497 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
29647544 AGTGTATATATGTAATAAGGCCAAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
29647591 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
29647638 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
29647685 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
29647704 TCCCGAAGGG
Statistics
Matches: 371, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 371 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:29647878 original size:37 final size:37
Alignment explanation
Indices: 29647822--29647900 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29647812 CCGAGCTCTA
* *
29647822 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
29647859 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29647896 AAGAC
1 AAGAC
29647901 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29649813 original size:43 final size:43
Alignment explanation
Indices: 29649765--29649867 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
29649755 TTGGTTTTCA
29649765 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
29649808 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
29649851 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
29649868 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:29649884 original size:29 final size:29
Alignment explanation
Indices: 29649849--29649922 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
29649839 GTTGTGAGAT
* *
29649849 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
29649878 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
29649907 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
29649923 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:29650319 original size:40 final size:40
Alignment explanation
Indices: 29650231--29650412 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
29650221 TTGAATGATG
* * *
29650231 TCCGGGCTAAGTCCCG-A-AGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* *
29650270 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
29650310 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
** * *
29650350 TCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTATA
1 TCCG-GACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
29650390 TACGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTCCCGAAGAGCA
29650413 ATCATGCTGG
Statistics
Matches: 123, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 15 0.12
40 92 0.75
41 9 0.07
42 7 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:29662268 original size:40 final size:39
Alignment explanation
Indices: 29662203--29662288 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
29662193 TATAAATATA
**
29662203 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * *
29662243 TAGCCGAAGCTATTTCGAACCGCACACTAAGTGCCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
29662282 TAGCCGA
1 TAGCCGA
29662289 TAAGTCATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:29666266 original size:43 final size:43
Alignment explanation
Indices: 29666218--29666328 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 43
29666208 TCCTAGATAT
* * *
29666218 GGTCTTACATGTTATCACAAATCGATGCCACTGTCCCACACAG
1 GGTCTTACATGTAATCACATATCGATGCCAATGTCCCACACAG
* * * * *
29666261 GGTCTTACACGAAATCAC-TATACAATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACATAT-CGATGCCAATGTCCCACACAG
29666304 GGTCTTACATGTAATCACATATCGA
1 GGTCTTACATGTAATCACATATCGA
29666329 GTCGATGCCA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
42 2 0.04
43 50 0.91
44 3 0.05
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATATCGATGCCAATGTCCCACACAG
Found at i:29666395 original size:50 final size:49
Alignment explanation
Indices: 29666322--29666464 Score: 151
Period size: 50 Copynumber: 2.9 Consensus size: 49
29666312 ATGTAATCAC
* * *
29666322 ATATCGAGTCGATGCCATGTCCCAAACATGGTCTTACGCTGACTCTCTT
1 ATATCGAGGCGATGCCATATCCCAAACATGGTCTTACACTGACTCTCTT
* *
29666371 ATATCGAGGCTGATGCCATATCCCAAACATGGTCTTACACTGGCTCTCCT
1 ATATCGAGGC-GATGCCATATCCCAAACATGGTCTTACACTGACTCTCTT
* * * * * * * *
29666421 CTTTCCGTGCCAATACCATGTCCCAGACATGGTCTTACACTGAC
1 ATAT-CGAGGCGATGCCATATCCCAAACATGGTCTTACACTGAC
29666465 ACATATCAAG
Statistics
Matches: 78, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 9 0.12
50 65 0.83
51 4 0.05
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (49 bp):
ATATCGAGGCGATGCCATATCCCAAACATGGTCTTACACTGACTCTCTT
Found at i:29674039 original size:21 final size:20
Alignment explanation
Indices: 29673997--29674034 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
29673987 GATACAAAAT
*
29673997 TTTTTATTTTTCTTTAACTA
1 TTTTTATTTTTCTATAACTA
29674017 TTTTTATTTTT-TATAACT
1 TTTTTATTTTTCTATAACT
29674035 CTATTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTATTTTTCTATAACTA
Found at i:29676536 original size:19 final size:19
Alignment explanation
Indices: 29676500--29676535 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29676490 GTCAGAACAT
*
29676500 ATTTTGATTATCAATTTTA
1 ATTTTGATAATCAATTTTA
29676519 ATTTTGATAAT-AATTTT
1 ATTTTGATAATCAATTTT
29676536 TTAAATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (19 bp):
ATTTTGATAATCAATTTTA
Found at i:29677450 original size:14 final size:15
Alignment explanation
Indices: 29677420--29677452 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
29677410 GGTTAATGAA
29677420 ATTTTAGAAACAATT
1 ATTTTAGAAACAATT
*
29677435 ATTTTA-AAACATTT
1 ATTTTAGAAACAATT
29677449 ATTT
1 ATTT
29677453 AATTTGGTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (15 bp):
ATTTTAGAAACAATT
Found at i:29677603 original size:24 final size:21
Alignment explanation
Indices: 29677545--29677604 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
29677535 TTAAAATAAC
29677545 ATAAAATTTGTAT-CAATCTAT
1 ATAAAATTTG-ATCCAATCTAT
*
29677566 ATGAAA-TTGATCCAATCTAGT
1 ATAAAATTTGATCCAATCTA-T
29677587 ATTAAAATTTGAATCCAA
1 A-TAAAATTTG-ATCCAA
29677605 CTGTAACACC
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 2 0.06
20 10 0.31
21 7 0.22
22 4 0.12
23 3 0.09
24 6 0.19
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (21 bp):
ATAAAATTTGATCCAATCTAT
Found at i:29698270 original size:56 final size:56
Alignment explanation
Indices: 29698201--29698321 Score: 142
Period size: 56 Copynumber: 2.2 Consensus size: 56
29698191 CATTTTAGGT
* *
29698201 CCCC-TAAAAGTTGGTAAAAAAT-TTTGGGCCCCTAAAA-TCTAAATTTTTTTTGG-G
1 CCCCTTAAAAGTTGGAAAAAAATATTTGGGCCCCTAAAAGT-T-AACTTTTTTTGGAG
* **
29698255 ACCCCTTAAAAGTTGGAAAAAAATATTTTGGCCTTTAAAAGTTAACTTTTTTTGGAG
1 -CCCCTTAAAAGTTGGAAAAAAATATTTGGGCCCCTAAAAGTTAACTTTTTTTGGAG
29698312 CCCCTTAAAA
1 CCCCTTAAAA
29698322 ACTGGAAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
55 4 0.07
56 38 0.67
57 14 0.25
58 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (56 bp):
CCCCTTAAAAGTTGGAAAAAAATATTTGGGCCCCTAAAAGTTAACTTTTTTTGGAG
Found at i:29700019 original size:32 final size:32
Alignment explanation
Indices: 29699978--29700083 Score: 212
Period size: 32 Copynumber: 3.3 Consensus size: 32
29699968 TGCCAGTGAG
29699978 GGCCCACACGCCCAAATTGGCCTTGCCCGTGT
1 GGCCCACACGCCCAAATTGGCCTTGCCCGTGT
29700010 GGCCCACACGCCCAAATTGGCCTTGCCCGTGT
1 GGCCCACACGCCCAAATTGGCCTTGCCCGTGT
29700042 GGCCCACACGCCCAAATTGGCCTTGCCCGTGT
1 GGCCCACACGCCCAAATTGGCCTTGCCCGTGT
29700074 GGCCCACACG
1 GGCCCACACG
29700084 GCTTGGCCTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 74 1.00
ACGTcount: A:0.16, C:0.42, G:0.25, T:0.17
Consensus pattern (32 bp):
GGCCCACACGCCCAAATTGGCCTTGCCCGTGT
Found at i:29704730 original size:42 final size:42
Alignment explanation
Indices: 29704648--29704794 Score: 170
Period size: 42 Copynumber: 3.5 Consensus size: 42
29704638 ATGTGTAAAG
* * *
29704648 CCATATCTGGGATATGACATCTATATGAGACTTCGTGTAAGA
1 CCATATCTGGGATATGGCATCGATATGAGACTTCATGTAAGA
* *
29704690 CCATATCTAGGATATAGCATCGATATGAGACTTCATGTAAGA
1 CCATATCTGGGATATGGCATCGATATGAGACTTCATGTAAGA
* * * * * *
29704732 CTATAGCCGGGCTATTGGCATCGATACGAGA-TCCCATGTAAGA
1 CCATATCTGGGATA-TGGCATCGATATGAGACT-TCATGTAAGA
29704775 CCATATCTGGGATATGGCAT
1 CCATATCTGGGATATGGCAT
29704795 TGGTATGGTA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
42 53 0.62
43 33 0.38
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (42 bp):
CCATATCTGGGATATGGCATCGATATGAGACTTCATGTAAGA
Found at i:29707692 original size:40 final size:39
Alignment explanation
Indices: 29707618--29707841 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 39
29707608 AACCCAAGTA
* *
29707618 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCACAAATG
*
29707657 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAAATG
*
29707697 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTA---GCACAAATG
* *
29707740 CCTTCGGGACTTCGCCCGGATATAGTCACT-GACATAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAG-CACAAATG
* * *
29707780 CCTTCGGGACTT-GCCCGAATATAGGAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAAATG
29707819 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
29707842 CATCCGAATA
Statistics
Matches: 162, Mismatches: 12, Indels: 21
0.83 0.06 0.11
Matches are distributed among these distances:
39 46 0.28
40 79 0.49
41 1 0.01
43 35 0.22
44 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAAATG
Found at i:29707738 original size:83 final size:80
Alignment explanation
Indices: 29707618--29707841 Score: 328
Period size: 83 Copynumber: 2.8 Consensus size: 80
29707608 AACCCAAGTA
* *
29707618 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
29707682 TCACT-AGCACAAATG
66 TCACTGA-CACAAATG
* *
29707697 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATA
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA
*
29707762 TAGTCACTGACATAAATG
63 TAGTCACTGACACAAATG
* *
29707780 CCTTCGGGACTT-GCCCGAATATAGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
29707842 CATCCGAATA
Statistics
Matches: 131, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
79 48 0.37
80 10 0.08
81 2 0.02
82 10 0.08
83 60 0.46
84 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTGACACAAATG
Found at i:29707835 original size:122 final size:122
Alignment explanation
Indices: 29707618--29707837 Score: 320
Period size: 122 Copynumber: 1.8 Consensus size: 122
29707608 AACCCAAGTA
* * * *
29707618 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGG
*
29707683 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
* *
29707740 CCTTCGGGACTTCGCCCGGATATAGTC-ACT-GACATAAATGCCTTCGGGACTT-GCCCGAATAT
1 CCTTCGGGACTTAG-CCGGATATAG-CAACTCG-CACAAATGCCTTCGGGACTTAGCCCGAATAT
*
29707802 AGGAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
63 AGGAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
29707838 ATATCATCCG
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
122 55 0.63
123 31 0.36
124 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (122 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGAATATAGG
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
Found at i:29715849 original size:39 final size:40
Alignment explanation
Indices: 29715758--29715979 Score: 253
Period size: 39 Copynumber: 5.6 Consensus size: 40
29715748 AACCCAAGTA
* *
29715758 CCTTCGGGATTTAG-CCAGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATG
* * *
29715797 CATTCAGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
29715837 CCTTC-GGACTTAGCCCGG-TATA-TCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATG
*
29715878 CCTTCGGGACTTCGCCCGGATATAGTCACT-GCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
**
29715917 CCTTCGGGACTTAGCCCGGATATAGGAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACT-AGCACAAATG
29715957 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
29715980 CATCCGAATA
Statistics
Matches: 160, Mismatches: 11, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
37 2 0.01
38 8 0.05
39 59 0.37
40 55 0.34
41 15 0.09
42 12 0.08
43 7 0.04
44 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:29715895 original size:81 final size:79
Alignment explanation
Indices: 29715758--29715979 Score: 304
Period size: 81 Copynumber: 2.8 Consensus size: 79
29715748 AACCCAAGTA
* * * * * *
29715758 CCTTCGGGATTTAG-CCAGATATAGCAACTCACACAAATGCATTCAGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
29715822 TCACTAGCACAAATG
66 TCACT-GCACAAATG
* * *
29715837 CCTTC-GGACTTAGCCCGGTATATCAACTACTCGCACAAATGCCTTCGGGACTTCGCCCGGATAT
1 CCTTCGGGACTTAGCCCGG-ATAT-AACAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
29715901 AGTCACTGCACAAATG
64 AGTCACTGCACAAATG
**
29715917 CCTTCGGGACTTAGCCCGGATATAGGAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGACTTAGCCCGGATAT
29715980 CATCCGAATA
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 7 0.06
79 43 0.34
80 22 0.18
81 53 0.42
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAACAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTGCACAAATG
Found at i:29724379 original size:25 final size:25
Alignment explanation
Indices: 29724349--29724402 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
29724339 ATACACTCTT
*
29724349 TTATTTTCTTTTATTATA-AATATTA
1 TTATTTTATTTTATT-TACAATATTA
* *
29724374 TTATTTTATTTTCTTTACATTATTA
1 TTATTTTATTTTATTTACAATATTA
29724399 TTAT
1 TTAT
29724403 ATTGTATCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (25 bp):
TTATTTTATTTTATTTACAATATTA
Found at i:29724778 original size:23 final size:23
Alignment explanation
Indices: 29724708--29724769 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 23
29724698 GTATGTATTA
29724708 TATATTTTTA-ATACTATAT-TAT
1 TATATTTTTATATA-TATATCTAT
29724730 GTATA---TTATATATATATCTAT
1 -TATATTTTTATATATATATCTAT
*
29724751 TATATTTTTATGTATATAT
1 TATATTTTTATATATATAT
29724770 TTTTAATATC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
20 12 0.36
21 6 0.18
23 15 0.45
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (23 bp):
TATATTTTTATATATATATCTAT
Found at i:29724931 original size:12 final size:12
Alignment explanation
Indices: 29724910--29724940 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
29724900 ATGTCTTTGG
*
29724910 TATATGTATGTA
1 TATATATATGTA
29724922 TATATATATGTA
1 TATATATATGTA
29724934 TATATAT
1 TATATAT
29724941 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (12 bp):
TATATATATGTA
Found at i:29734528 original size:54 final size:54
Alignment explanation
Indices: 29734460--29734639 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 54
29734450 CATCAAATAG
* * * *
29734460 GGGCTAAACAGTCATTTTGACACATAAGGTTAAAACCATCAATTTAACGCATAA
1 GGGCAAAATAGTCATTTTGACACATAAGGCTAAAACCATCAATTTAACACATAA
* *
29734514 GGGCAAACTAGTCATTTT-ACCACATAAGGGC-AAAATCATCAATTTAACACATAA
1 GGGCAAAATAGTCATTTTGA-CACATAA-GGCTAAAACCATCAATTTAACACATAA
* * **
29734568 GGGCAAAATAGTTATTTTGCCACATAATGGCT-AAACTGTCAATTTAACACATAA
1 GGGCAAAATAGTCATTTTGACACATAA-GGCTAAAACCATCAATTTAACACATAA
* *
29734622 AGGTAAAATAGTCATTTT
1 GGGCAAAATAGTCATTTT
29734640 ACCCTATAGG
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 103 0.97
55 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (54 bp):
GGGCAAAATAGTCATTTTGACACATAAGGCTAAAACCATCAATTTAACACATAA
Found at i:29734576 original size:27 final size:27
Alignment explanation
Indices: 29734479--29734576 Score: 117
Period size: 27 Copynumber: 3.6 Consensus size: 27
29734469 AGTCATTTTG
** *
29734479 ACACATAAGGTTAAAACCATCAATTTA
1 ACACATAAGGGCAAAATCATCAATTTA
* * *
29734506 ACGCATAAGGGCAAACT-AGTCATTTTA
1 ACACATAAGGGCAAAATCA-TCAATTTA
*
29734533 CCACATAAGGGCAAAATCATCAATTTA
1 ACACATAAGGGCAAAATCATCAATTTA
29734560 ACACATAAGGGCAAAAT
1 ACACATAAGGGCAAAAT
29734577 AGTTATTTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.22
Consensus pattern (27 bp):
ACACATAAGGGCAAAATCATCAATTTA
Found at i:29734591 original size:27 final size:27
Alignment explanation
Indices: 29734509--29734642 Score: 137
Period size: 27 Copynumber: 5.0 Consensus size: 27
29734499 CAATTTAACG
*
29734509 CATAAGGGCAAACTAGTCATTTTACCA
1 CATAAGGGCAAAATAGTCATTTTACCA
* *
29734536 CATAAGGGCAAAATCA-TCAATTTAACA
1 CATAAGGGCAAAAT-AGTCATTTTACCA
* *
29734563 CATAAGGGCAAAATAGTTATTTTGCCA
1 CATAAGGGCAAAATAGTCATTTTACCA
* * * *
29734590 CATAATGGCTAAACT-GTCAATTTAACA
1 CATAAGGGC-AAAATAGTCATTTTACCA
* *
29734617 CATAAAGGTAAAATAGTCATTTTACC
1 CATAAGGGCAAAATAGTCATTTTACC
29734643 CTATAGGGGT
Statistics
Matches: 85, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.06
27 75 0.88
28 5 0.06
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (27 bp):
CATAAGGGCAAAATAGTCATTTTACCA
Found at i:29735890 original size:25 final size:24
Alignment explanation
Indices: 29735861--29735940 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
29735851 CACTCGGCCC
29735861 TATCACATATATACACTTTCACAT
1 TATCACATATATACACTTTCACAT
** * * *
29735885 TCATCACAT-T-GGC-CATTCGGCCT
1 T-ATCACATATATACACTTTC-ACAT
29735908 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACA-T
29735933 TATCACAT
1 TATCACAT
29735941 CGGCCATTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 11
0.66 0.16 0.18
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 4 0.10
25 20 0.50
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (24 bp):
TATCACATATATACACTTTCACAT
Found at i:29735982 original size:47 final size:47
Alignment explanation
Indices: 29735812--29735979 Score: 264
Period size: 47 Copynumber: 3.6 Consensus size: 47
29735802 CCCTTCGGGA
* * * *
29735812 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
29735859 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
29735906 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
29735953 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
29735980 TATTCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 112 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:29737644 original size:19 final size:19
Alignment explanation
Indices: 29737611--29737679 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
29737601 GGGGCCCATA
*
29737611 GGCCC-ATTGGGCCTACG-T
1 GGCCCAATTTGGCCTA-GAT
29737629 GGCCCAATTTGGCCTAGAAT
1 GGCCCAATTTGGCCTAG-AT
29737649 GGCCCAATTTGGCCTAGAAT
1 GGCCCAATTTGGCCTAG-AT
*
29737669 GGCCCAGTTTG
1 GGCCCAATTTG
29737680 TCCCAGTTCG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.13
19 9 0.20
20 31 0.67
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.25
Consensus pattern (19 bp):
GGCCCAATTTGGCCTAGAT
Found at i:29737651 original size:20 final size:20
Alignment explanation
Indices: 29737628--29737679 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
29737618 TGGGCCTACG
29737628 TGGCCCAATTTGGCCTAGAA
1 TGGCCCAATTTGGCCTAGAA
29737648 TGGCCCAATTTGGCCTAGAA
1 TGGCCCAATTTGGCCTAGAA
*
29737668 TGGCCCAGTTTG
1 TGGCCCAATTTG
29737680 TCCCAGTTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (20 bp):
TGGCCCAATTTGGCCTAGAA
Found at i:29740191 original size:38 final size:38
Alignment explanation
Indices: 29740091--29740194 Score: 136
Period size: 38 Copynumber: 2.7 Consensus size: 38
29740081 TGATGTATGC
29740091 CTACTGTTACTGTTGAACCAAATACATGATAAACATCT
1 CTACTGTTACTGTTGAACCAAATACATGATAAACATCT
* ** *** *
29740129 CTATTGTTACCATTGAATTGAATACATGATAAACATGT
1 CTACTGTTACTGTTGAACCAAATACATGATAAACATCT
*
29740167 CTACTGTTACTGTTGAGCCAAATACATG
1 CTACTGTTACTGTTGAACCAAATACATG
29740195 TGTAACACCC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (38 bp):
CTACTGTTACTGTTGAACCAAATACATGATAAACATCT
Found at i:29742473 original size:16 final size:16
Alignment explanation
Indices: 29742452--29742489 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
29742442 TATTTGAGAG
29742452 TTGATTAAGTGGTAAA
1 TTGATTAAGTGGTAAA
*
29742468 TTGATTAAGTGGTAAC
1 TTGATTAAGTGGTAAA
29742484 TTGATT
1 TTGATT
29742490 TAGTTTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.42
Consensus pattern (16 bp):
TTGATTAAGTGGTAAA
Found at i:29747764 original size:43 final size:43
Alignment explanation
Indices: 29747669--29747826 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
29747659 ACCGAGATGT
* * * * *
29747669 GATTACATGTAAGACCATTTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTAATGA
* *
29747712 GATTACGTGTAAGACCATGTCTGAGATATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGATATTGGCATCG-TAATGA
* *
29747755 GATTTCGTGTAAGATCC-TGTCTGGGATAGTGGCATCG-ATAT-A
1 GATTACGTGTAAGA-CCATGTCTGGGATATTGGCATCGTA-ATGA
* * **
29747797 TATTAACATGTAAGACCATAACTGGGATAT
1 GATT-ACGTGTAAGACCATGTCTGGGATAT
29747827 GGTATTGTAC
Statistics
Matches: 93, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
41 1 0.01
42 7 0.08
43 80 0.86
44 5 0.05
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGATATTGGCATCGTAATGA
Found at i:29756662 original size:40 final size:40
Alignment explanation
Indices: 29756584--29756807 Score: 274
Period size: 40 Copynumber: 5.5 Consensus size: 40
29756574 ACCCAAGTAT
* *
29756584 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * **
29756623 CTTCAGGTCTTTGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
29756663 CTTCAGGACTTAGCCTGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
29756703 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
29756746 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
29756786 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
29756808 CATCCGAATA
Statistics
Matches: 160, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 10 0.06
40 113 0.71
41 1 0.01
43 36 0.22
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:29756767 original size:83 final size:80
Alignment explanation
Indices: 29756584--29756807 Score: 274
Period size: 83 Copynumber: 2.8 Consensus size: 80
29756574 ACCCAAGTAT
* * * * *
29756584 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGCCTTCAGGTCTTTGCCCGGATATAG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
**
29756647 TCACTAGCATGAATGC
65 TCACTAGCACAAATGC
* * *
29756663 CTTCAGGACTTAGCCTGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
29756727 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
* *
29756746 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
29756808 CATCCGAATA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
79 12 0.10
80 46 0.37
81 1 0.01
83 65 0.52
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:29764470 original size:13 final size:13
Alignment explanation
Indices: 29764452--29764477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29764442 TTCAAACTAC
29764452 TTTTTATTTTTTA
1 TTTTTATTTTTTA
29764465 TTTTTATTTTTTA
1 TTTTTATTTTTTA
29764478 GTAGATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:29776021 original size:48 final size:47
Alignment explanation
Indices: 29775887--29776222 Score: 210
Period size: 48 Copynumber: 6.9 Consensus size: 47
29775877 TGATACTAGG
* * * * **
29775887 GTTATGAGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACCG
1 GTTATGTGAGCTAGTGTAAGACCATGT-TTGGACATGGCATCGGCA-TT
** * *
29775936 GTTTATAAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCATT
1 G-TTATGTGAGCTAGTGTAAGACCATGTTTGG-ACATGGCATCGGCATT
* * * * *
29775985 GTTATGTGAGCTAGTGTAAGAGCATGTCTAGGACATGGCGTCGGCCTC
1 GTTATGTGAGCTAGTGTAAGACCATGT-TTGGACATGGCATCGGCATT
** * * * *
29776033 AATATGCT-AGCTAATGTAAGACCATTTTTGGAGCATGACATCGACATT
1 GTTATG-TGAGCTAGTGTAAGACCATGTTTGGA-CATGGCATCGGCATT
* *
29776081 GTTATGTGAGTTAGTGTAAGACCATGTTTGGAACATGGCATCGGTATT
1 GTTATGTGAGCTAGTGTAAGACCATGTTTGG-ACATGGCATCGGCATT
* * * ** * * *
29776129 GTTATACT-TG-TCAGTGTAAGACCATGTCTAGGATGTTGCATCGACACT
1 GTTAT-GTGAGCT-AGTGTAAGACCATGT-TTGGACATGGCATCGGCATT
* * * *
29776177 GATGTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGAATCGG
1 G-T-TATGTGAGCTAGTGTAAGACCATGT-TTGGACATGGCATCGG
29776223 TATTTTACCC
Statistics
Matches: 218, Mismatches: 55, Indels: 27
0.73 0.18 0.09
Matches are distributed among these distances:
47 6 0.03
48 132 0.61
49 15 0.07
50 65 0.30
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (47 bp):
GTTATGTGAGCTAGTGTAAGACCATGTTTGGACATGGCATCGGCATT
Found at i:29776088 original size:96 final size:96
Alignment explanation
Indices: 29775951--29776124 Score: 251
Period size: 96 Copynumber: 1.8 Consensus size: 96
29775941 TAAGAGCCAG
* * * *
29775951 TGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGTGAGCTAGTGTAAGAGCATGTCTAG
1 TGTAAGACCATGTTTGGAACATGACATCGACATTGTTATGTGAGCTAGTGTAAGACCATGT-TAG
*
29776016 G-ACATGGCGTCGGCCTCAATATGCTAGCTAA
65 GAACATGGCATCGGCCTCAATATGCTAGCTAA
* * * *
29776047 TGTAAGACCATTTTTGGAGCATGACATCGACATTGTTATGTGAGTTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGAACATGACATCGACATTGTTATGTGAGCTAGTGTAAGACCATGTTAGG
29776112 AACATGGCATCGG
66 AACATGGCATCGG
29776125 TATTGTTATA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
95 3 0.04
96 65 0.96
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (96 bp):
TGTAAGACCATGTTTGGAACATGACATCGACATTGTTATGTGAGCTAGTGTAAGACCATGTTAGG
AACATGGCATCGGCCTCAATATGCTAGCTAA
Found at i:29776147 original size:96 final size:93
Alignment explanation
Indices: 29775948--29776226 Score: 236
Period size: 96 Copynumber: 2.9 Consensus size: 93
29775938 TTATAAGAGC
* * * * *
29775948 CAGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGTGAGCTAGTGTAAGAGCATGTC
1 CAGTGTAAGACCATTTTTGGAGCAT-GCATCGACATTGTTATGTGAGCTAGTGTAAGACCATGT-
* * ** * *
29776013 TAGGACATGGCGTCGGCCTCAATATGCTAG
64 TTGGACATGGCATCGGTATTAATATACTAG
* *
29776043 CTAATGTAAGACCATTTTTGGAGCATGACATCGACATTGTTATGTGAGTTAGTGTAAGACCATGT
1 C-AGTGTAAGACCATTTTTGGAGCATG-CATCGACATTGTTATGTGAGCTAGTGTAAGACCATGT
** *
29776108 TTGGAACATGGCATCGGTATTGTTATACTTG
64 TTGG-ACATGGCATCGGTATTAATATACTAG
* * * * * *
29776139 TCAGTGTAAGACCATGTCTAGGATG-TTGCATCGACACTGATGTATGAGAGCCAGTGTAAGACCA
1 -CAGTGTAAGACCAT-TTTTGGA-GCATGCATCGACATTG-T-TATGTGAGCTAGTGTAAGACCA
* *
29776203 TGTCTGGGACATGGAATCGGTATT
61 TGT-TTGGACATGGCATCGGTATT
29776227 TTACCCATTT
Statistics
Matches: 149, Mismatches: 26, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
95 5 0.03
96 94 0.63
97 9 0.06
98 38 0.26
99 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (93 bp):
CAGTGTAAGACCATTTTTGGAGCATGCATCGACATTGTTATGTGAGCTAGTGTAAGACCATGTTT
GGACATGGCATCGGTATTAATATACTAG
Found at i:29786328 original size:48 final size:48
Alignment explanation
Indices: 29786162--29786542 Score: 370
Period size: 48 Copynumber: 7.9 Consensus size: 48
29786152 TGATACTAGG
* * * * * *
29786162 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTC
1 GTTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
* * * * * * *
29786210 GATATGT--GTCAGTGTAAGACCATGTCTGGGACATAGCACCGACACTA
1 GTTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCA-TT
* * *
29786257 GTTTATGAGAGCCAGTGTAAGACCATGTTTGGAACATGACATCGGCATT
1 G-TTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
* * * * *
29786306 GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
1 GTTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
** * *
29786354 AATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATT
1 GTTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
* * * *
29786402 GTTATGTGAGCTAGTGTAAGATCATGTTTGGAACATGGCATCAGCATT
1 GTTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
** * * * * *
29786450 GTTATACGTGTCAGTGTAAGACTATGTTTGGGACATGGCATCGACACT
1 GTTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
* *
29786498 GATGTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 G-T-TATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
29786543 ATATTTTACC
Statistics
Matches: 267, Mismatches: 60, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
46 30 0.11
47 2 0.01
48 167 0.63
49 3 0.01
50 65 0.24
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
GTTATGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATT
Found at i:29786422 original size:144 final size:146
Alignment explanation
Indices: 29786162--29786543 Score: 488
Period size: 144 Copynumber: 2.6 Consensus size: 146
29786152 TGATACTAGG
* * * *
29786162 GTTATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGT--GTCAGTGT
1 GTTATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
* *
29786225 AAGACCATGTCTGGGACATAGCACCGACACTAGTTTATGAGAGCCAGTGTAAGACCATGTTTGGA
66 AAGACCATGTCTGGGACATGGCATCGACACTAGTTTATGAGAGCCAGTGTAAGACCATGTTTGGA
*
29786290 ACATGACATCGGCATT
131 ACATGACATCAGCATT
*
29786306 GTTATGTGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
1 GTTATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
* * * * * *
29786371 AAGACCATGTTTGGAACATGGCATCGACA-TTG-TTATGTGAGCTAGTGTAAGATCATGTTTGGA
66 AAGACCATGTCTGGGACATGGCATCGACACTAGTTTATGAGAGCCAGTGTAAGACCATGTTTGGA
*
29786434 ACATGGCATCAGCATT
131 ACATGACATCAGCATT
* * * * * * *
29786450 GTTATACGTG-TC-AGTGTAAGACTATGTTTGGGACATGGCATCGACACTGATGTATGAGAGCCA
1 GTTAT--GTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCA-ATATGTGAGCCA
29786513 GTGTAAGACCATGTCTGGGACATGGCATCGA
62 GTGTAAGACCATGTCTGGGACATGGCATCGA
29786544 TATTTTACCC
Statistics
Matches: 207, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
144 127 0.61
145 6 0.03
146 74 0.36
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (146 bp):
GTTATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGT
AAGACCATGTCTGGGACATGGCATCGACACTAGTTTATGAGAGCCAGTGTAAGACCATGTTTGGA
ACATGACATCAGCATT
Found at i:29791173 original size:39 final size:38
Alignment explanation
Indices: 29791130--29791283 Score: 128
Period size: 39 Copynumber: 3.9 Consensus size: 38
29791120 AATTATTGTA
*
29791130 TGATTGCACATATGTGCCTCTATTTGTACTTCGGTACCC
1 TGATTGCACATACGTGCCT-TATTTGTACTTCGGTACCC
* * * *
29791169 TGATTGCACATACATGCCATTGTCTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCC-TTATTTGTACTTCGGTA-CCC
* * * *
29791209 TAATTACACATACGTGGCCTTGTTTGTACTTTGGTACCC
1 TGATTGCACATACGT-GCCTTATTTGTACTTCGGTACCC
* * * * * *
29791248 TTAATGCACATTCGTGCCCCTATTTATATTTCGGTA
1 TGATTGCACATACGTG-CCTTATTTGTACTTCGGTA
29791284 ACTCTAAATC
Statistics
Matches: 93, Mismatches: 18, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 57 0.61
40 32 0.34
41 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (38 bp):
TGATTGCACATACGTGCCTTATTTGTACTTCGGTACCC
Found at i:29791237 original size:40 final size:40
Alignment explanation
Indices: 29791152--29791252 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 40
29791142 TGTGCCTCTA
* * *
29791152 TTTGTACTTCGGTA-CCCTGATTGCACATACATGCCATTG
1 TTTGTACTTTGGTACCCCTAATTACACATACATGCCATTG
* *
29791191 TCTGTACTTTGGTACCCCTAATTACACATACGTGGCC-TTG
1 TTTGTACTTTGGTACCCCTAATTACACATACAT-GCCATTG
*
29791231 TTTGTACTTTGGTACCCTTAAT
1 TTTGTACTTTGGTACCCCTAAT
29791253 GCACATTCGT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 12 0.23
40 38 0.72
41 3 0.06
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.39
Consensus pattern (40 bp):
TTTGTACTTTGGTACCCCTAATTACACATACATGCCATTG
Found at i:29793545 original size:11 final size:10
Alignment explanation
Indices: 29793507--29793549 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
29793497 CAATTCACTA
29793507 ACCAAATCAT
1 ACCAAATCAT
*
29793517 ACCAAATCTAA
1 ACCAAATC-AT
29793528 ACCAAAGTCAT
1 ACCAAA-TCAT
*
29793539 ACCAAAGCAT
1 ACCAAATCAT
29793549 A
1 A
29793550 TGATTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.51, C:0.28, G:0.05, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:29794409 original size:33 final size:34
Alignment explanation
Indices: 29794379--29794443 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
29794369 GTCTCAGTTA
*
29794379 GGGCTTTAG-CCCATTCAGTAACAGTATCAGTGT
1 GGGCTTTAGACCAATTCAGTAACAGTATCAGTGT
*
29794412 GGGCTTTAGACTAATTCAGTAACAGTATCAGT
1 GGGCTTTAGACCAATTCAGTAACAGTATCAGT
29794444 ACAAAATGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 9 0.31
34 20 0.69
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (34 bp):
GGGCTTTAGACCAATTCAGTAACAGTATCAGTGT
Found at i:29797116 original size:44 final size:42
Alignment explanation
Indices: 29796974--29797132 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 42
29796964 AGCTCATACA
* * *
29796974 ATGCCAACGTCCCAGACGTGGTCTTCCATGT-AATCAAATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATC-AA-ATCG
* *
29797017 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC-AAAATCAAATACG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACACGTAAATCAAAT-CG
*
29797059 ATGCCAACATCCCAAACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCA-AA-TCG
*
29797103 ATGCCAATGTCCCAAACGTGGTCTTACACG
1 ATGCCAACGTCCCAAACGTGGTCTTACACG
29797133 ATAACACATA
Statistics
Matches: 99, Mismatches: 8, Indels: 17
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 28 0.28
43 34 0.34
44 33 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGTAAATCAAATCG
Found at i:29797126 original size:86 final size:85
Alignment explanation
Indices: 29796969--29797131 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
29796959 TGGAAAGCTC
* * * * * *
29796969 ATACAATGCCAACGTCCCAGACGTGGTCTTCCATGTAATCAAATATCGATGCCACTGTCCCAGAC
1 ATACAATGCCAACATCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAAC
29797034 AGGGTCTTACACAAAATCAA
66 AGGGTCTTACACAAAATCAA
* *
29797054 ATACGATGCCAACATCCCAAACGTGGTCTTACACGTAAATCATAA-GTCGATGCCAATGTCCCAA
1 ATACAATGCCAACATCCCAAACGTGGTCTTACACGT-AATCA-AATATCGATGCCAATGTCCCAA
29797118 AC-GTGGTCTTACAC
64 ACAG-GGTCTTACAC
29797132 GATAACACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
85 32 0.48
86 33 0.49
87 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.23
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAAACGTGGTCTTACACGTAATCAAATATCGATGCCAATGTCCCAAAC
AGGGTCTTACACAAAATCAA
Found at i:29799805 original size:29 final size:29
Alignment explanation
Indices: 29799763--29799819 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
29799753 AGTTCAAACA
*
29799763 AAACATAATAGCCTATACATTCCGAAATG
1 AAACATAATAGCCTATACATGCCGAAATG
29799792 AAACATAATAGCCTATACATGCCGAAAT
1 AAACATAATAGCCTATACATGCCGAAAT
29799820 TTTCTCTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.23
Consensus pattern (29 bp):
AAACATAATAGCCTATACATGCCGAAATG
Found at i:29807125 original size:10 final size:10
Alignment explanation
Indices: 29807110--29807152 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
29807100 TACTTCACCA
29807110 ACCAAATCAT
1 ACCAAATCAT
*
29807120 ACCAAATCTAA
1 ACCAAATC-AT
29807131 ACCAAAATCAT
1 ACC-AAATCAT
*
29807142 ACCAAAGCAT
1 ACCAAATCAT
29807152 A
1 A
29807153 TGATTCAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 15 0.54
11 8 0.29
12 5 0.18
ACGTcount: A:0.53, C:0.28, G:0.02, T:0.16
Consensus pattern (10 bp):
ACCAAATCAT
Found at i:29810555 original size:51 final size:51
Alignment explanation
Indices: 29810490--29810632 Score: 167
Period size: 51 Copynumber: 3.0 Consensus size: 51
29810480 CTACCTTATA
* *
29810490 ACATGTAACACATCCATAATGAACTCGGACCTCTCAATGAGCTCGGATGTT
1 ACATGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTT
* * *
29810541 ACATGTATCGCATCCATTATGAACTCGGACCACTCAACGAGCTCGGATG--
1 ACATGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTT
* *
29810590 -C---T--CTCATCCATAATGAACTCGGACCACTCAACAAGCTCGGATG
1 ACATGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATG
29810633 CCATATAATC
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
43 38 0.45
45 1 0.01
48 1 0.01
51 44 0.52
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (51 bp):
ACATGTAACACATCCATAATGAACTCGGACCACTCAACGAGCTCGGATGTT
Found at i:29810664 original size:41 final size:43
Alignment explanation
Indices: 29810562--29810715 Score: 168
Period size: 43 Copynumber: 3.6 Consensus size: 43
29810552 ATCCATTATG
* * ** * **
29810562 AACTCGGACCACTCAACGAGCTCGGATGCTCTCATCCATAATG
1 AACTCGGACCACTCAACAAGCTCGGATGCTCACATATATCACA
*
29810605 AACTCGGACCACTCAACAAGCTCGGATGC-CATATA-ATCACA
1 AACTCGGACCACTCAACAAGCTCGGATGCTCACATATATCACA
* * * * *
29810646 AACTTGGACCACTCAACAAGTTCGAATTCTCACATATATCACG
1 AACTCGGACCACTCAACAAGCTCGGATGCTCACATATATCACA
*
29810689 AACTCGGACCACTCAACGAGCTCGGAT
1 AACTCGGACCACTCAACAAGCTCGGAT
29810716 ATCTTAATTC
Statistics
Matches: 92, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 28 0.30
42 8 0.09
43 56 0.61
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.20
Consensus pattern (43 bp):
AACTCGGACCACTCAACAAGCTCGGATGCTCACATATATCACA
Found at i:29817155 original size:30 final size:30
Alignment explanation
Indices: 29817121--29817181 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
29817111 TCCTTAACTC
29817121 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
29817151 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
29817181 A
1 A
29817182 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:29823266 original size:20 final size:20
Alignment explanation
Indices: 29823241--29823280 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
29823231 TGATAAAATA
*
29823241 AAGATTATTTATCATCCATC
1 AAGATTATTTAGCATCCATC
29823261 AAGATTATTTAGCATCCATC
1 AAGATTATTTAGCATCCATC
29823281 CATTATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (20 bp):
AAGATTATTTAGCATCCATC
Found at i:29826366 original size:17 final size:18
Alignment explanation
Indices: 29826334--29826369 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
29826324 GATGGGTCAA
*
29826334 AATGGGCCTTGTAGGCCC
1 AATGGGCCTCGTAGGCCC
29826352 AATGGG-CTCGTAGGCCC
1 AATGGGCCTCGTAGGCCC
29826369 A
1 A
29826370 CACGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.19
Consensus pattern (18 bp):
AATGGGCCTCGTAGGCCC
Found at i:29826640 original size:26 final size:26
Alignment explanation
Indices: 29826576--29826766 Score: 161
Period size: 27 Copynumber: 7.2 Consensus size: 26
29826566 GGTCGTTAAG
* *
29826576 ACCCTGATTTGTAAAATTACTGAAAT
1 ACCCCGATTTGTAAAATTACCGAAAT
*
29826602 ACCCCCGATTTGTAAAATTACCGAAGT
1 A-CCCCGATTTGTAAAATTACCGAAAT
*
29826629 ACCCCGATTTGTAAAATTACTGAAAT
1 ACCCCGATTTGTAAAATTACCGAAAT
* *
29826655 ACCCTCGGTTTGTAAAATTACCAAAAT
1 ACCC-CGATTTGTAAAATTACCGAAAT
* * * **
29826682 ACTCTCG-GTTATAAAATTACTAAAAT
1 AC-CCCGATTTGTAAAATTACCGAAAT
* * *
29826708 ATCCTC-AGTTTTTAAAATTATCGAAAT
1 A-CCCCGA-TTTGTAAAATTACCGAAAT
** *
29826735 ACCCTTAGTTTATAAAATTACCGAAAT
1 ACCCCGA-TTTGTAAAATTACCGAAAT
29826762 ACCCC
1 ACCCC
29826767 CGATCGAAAT
Statistics
Matches: 136, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
26 50 0.37
27 85 0.62
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (26 bp):
ACCCCGATTTGTAAAATTACCGAAAT
Found at i:29826667 original size:53 final size:53
Alignment explanation
Indices: 29826576--29826765 Score: 202
Period size: 53 Copynumber: 3.6 Consensus size: 53
29826566 GGTCGTTAAG
* * * * *
29826576 ACCCTGATTTGTAAAATTACTGAAATACCCCCGATTTGTAAAATTACCGAAGT
1 ACCCCGATTTATAAAATTACTGAAATACCCTCGGTTTGTAAAATTACCGAAAT
* *
29826629 ACCCCGATTTGTAAAATTACTGAAATACCCTCGGTTTGTAAAATTACCAAAAT
1 ACCCCGATTTATAAAATTACTGAAATACCCTCGGTTTGTAAAATTACCGAAAT
* * * * * * *
29826682 ACTCTCG-GTTATAAAATTACTAAAATATCCTCAGTTTTTAAAATTATCGAAAT
1 AC-CCCGATTTATAAAATTACTGAAATACCCTCGGTTTGTAAAATTACCGAAAT
** *
29826735 ACCCTTAGTTTATAAAATTACCGAAATACCC
1 ACCCCGA-TTTATAAAATTACTGAAATACCC
29826766 CCGATCGAAA
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
52 1 0.01
53 90 0.80
54 22 0.19
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (53 bp):
ACCCCGATTTATAAAATTACTGAAATACCCTCGGTTTGTAAAATTACCGAAAT
Found at i:29826774 original size:42 final size:42
Alignment explanation
Indices: 29826727--29826807 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
29826717 TTTTAAAATT
29826727 ATCGAAATACCCTTAGTTTATAAAATTACCGAAATACCCCCG
1 ATCGAAATACCCTTAGTTTATAAAATTACCGAAATACCCCCG
* * * **
29826769 ATCGAAATAGCCTTGGTTTGTAAAATTATTGAAATACCC
1 ATCGAAATACCCTTAGTTTATAAAATTACCGAAATACCC
29826808 TTATAGTGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.12, T:0.30
Consensus pattern (42 bp):
ATCGAAATACCCTTAGTTTATAAAATTACCGAAATACCCCCG
Found at i:29829850 original size:54 final size:54
Alignment explanation
Indices: 29829785--29830565 Score: 1034
Period size: 54 Copynumber: 14.5 Consensus size: 54
29829775 AAGTACTCTC
*
29829785 ATTTACAGAATTATCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* * **
29829839 ATTTACAGAATTACCATTTTACCCTCAGTTTACAAAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* *
29829893 ATTTATAGAATTACCGTTTTACCCTCAGGTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* * *
29829947 ATTTACAGAATTACTGTTTTACCCTCAATTTATAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* * *
29830001 ATTTATAGAATTACCGTTTTACCCTCGATTTGTA-A-AATTA-TCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACT-ATTTTACCCTCG
* *
29830055 ATTTACAGAATTATCGTTTTATCCTCAGTTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* *
29830109 ATTTACAAAATTATCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* **
29830163 ATTTACAGAATTATCGTTTTACCCTCAGTTTACAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* * * *
29830217 ATTTATAGAATTATCGTTTTACCCTCAGGTTACAGAATTACTATTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* * *
29830271 ATTTATATAATTACCGTTTTACCCTCAATTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* * * ** * *
29830325 ATTTACAAAATTACCGTTTTACCCTTAATTTGTAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* * * *
29830379 ATTTAGAGAATTACCGTTTTACCTTCAGTTTACAGAATTACCATTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
* * * ** *
29830433 ATTTACAAAATTACCATTTTACCCTCGATTTGTA-A-AATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTC-AGTT-TACAGAATTACTATTTTACCCTCG
* * * *
29830487 ATTTACAGAATTACTGGTTTACCCTCAGTTTACAAAATTA-TCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACT-ATTTTACCCTCG
29830541 ATTTACAGAATTACCGTTTTACCCT
1 ATTTACAGAATTACCGTTTTACCCT
29830566 TGATTGTGAA
Statistics
Matches: 643, Mismatches: 73, Indels: 22
0.87 0.10 0.03
Matches are distributed among these distances:
52 4 0.01
53 9 0.01
54 617 0.96
55 9 0.01
56 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (54 bp):
ATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCG
Found at i:29830570 original size:27 final size:27
Alignment explanation
Indices: 29829785--29830570 Score: 879
Period size: 27 Copynumber: 29.1 Consensus size: 27
29829775 AAGTACTCTC
*
29829785 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
29829811 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
29829839 ATTTACAGAATTACCATTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
*
29829865 AGTTTACAAAATTACCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
29829893 ATTTATAGAATTACCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* **
29829919 AGGTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
29829947 ATTTACAGAATTACTGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCG
* **
29829974 ATTTATAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
*
29830001 ATTTATAGAATTACCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
29830028 ATTTGTAAAATTATCGTTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
29830055 ATTTACAGAATTATCGTTTTATCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
29830081 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
29830109 ATTTACAAAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
**
29830135 AGTTTACAGAATTACTATTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
29830163 ATTTACAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
29830189 AGTTTACAGAATTACCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
29830217 ATTTATAGAATTATCGTTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* ** *
29830243 AGGTTACAGAATTACTATTTTACCCTCA
1 A-TTTACAGAATTACCGTTTTACCCTCG
* * *
29830271 ATTTATATAATTACCGTTTTACCCTCA
1 ATTTACAGAATTACCGTTTTACCCTCG
**
29830298 ATTTACAGAATTACTATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* **
29830325 ATTTACAAAATTACCGTTTTACCCTTA
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
29830352 ATTTGTAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
29830379 ATTTAGAGAATTACCGTTTTACCTTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
29830405 AGTTTACAGAATTACCATTTTACCCTCA
1 A-TTTACAGAATTACCGTTTTACCCTCG
* *
29830433 ATTTACAAAATTACCATTTTACCCTCG
1 ATTTACAGAATTACCGTTTTACCCTCG
** * *
29830460 ATTTGTAAAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
29830487 ATTTACAGAATTACTGGTTTACCCTC-
1 ATTTACAGAATTACCGTTTTACCCTCG
* *
29830513 AGTTTACAAAATTATCGTTTTACCCTCG
1 A-TTTACAGAATTACCGTTTTACCCTCG
*
29830541 ATTTACAGAATTACCGTTTTACCCTTG
1 ATTTACAGAATTACCGTTTTACCCTCG
29830568 ATT
1 ATT
29830571 GTGAAATTAC
Statistics
Matches: 645, Mismatches: 97, Indels: 35
0.83 0.12 0.05
Matches are distributed among these distances:
26 9 0.01
27 627 0.97
28 9 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACCGTTTTACCCTCG
Found at i:29830643 original size:54 final size:54
Alignment explanation
Indices: 29830575--29830771 Score: 270
Period size: 54 Copynumber: 3.6 Consensus size: 54
29830565 TTGATTGTGA
* ** *
29830575 AATTACTGAAATACCCCTGTAGGGTAGAATTTTCAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
29830629 AATTACTGAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
29830683 AATTA-TCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * *
29830737 AATTACCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTACTGAAATACCCTTGTAGGGTAGAATTACCA
29830772 TTTTGCCCCT
Statistics
Matches: 125, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.01
54 124 0.99
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:29830770 original size:27 final size:27
Alignment explanation
Indices: 29830575--29830770 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
29830565 TTGATTGTGA
* *
29830575 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * *
29830602 AATTTTCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
29830629 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
29830656 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
29830683 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
29830710 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
29830737 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
29830764 AATTACC
1 AATTACC
29830771 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:29831012 original size:27 final size:25
Alignment explanation
Indices: 29830969--29831051 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 25
29830959 CGGAGGAAGC
*
29830969 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGT-GCTCTGCCAC-AATATCT
29830996 GTTCTGGTAGCTCTGCCACAATATCT
1 GTTCTGGT-GCTCTGCCACAATATCT
*
29831022 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTG-CTCTGCCACAATATCT
29831049 GTT
1 GTT
29831052 GACTGATCGA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
26 11 0.22
27 40 0.78
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (25 bp):
GTTCTGGTGCTCTGCCACAATATCT
Found at i:29831375 original size:27 final size:27
Alignment explanation
Indices: 29831353--29831426 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
29831343 TAGGTGCGTT
*
29831353 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
29831380 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
29831407 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
29831427 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:29831559 original size:12 final size:12
Alignment explanation
Indices: 29831544--29831694 Score: 62
Period size: 12 Copynumber: 12.4 Consensus size: 12
29831534 TTGAATTCAC
29831544 ATTCTTATTCTG
1 ATTCTTATTCTG
* *
29831556 ATTCTGTCA-CCTA
1 ATTCT-T-ATTCTG
29831569 ATT-TTGATTCTG
1 ATTCTT-ATTCTG
*
29831581 ATTCTGATTCTG
1 ATTCTTATTCTG
* *
29831593 -TTACTAATACTG
1 ATT-CTTATTCTG
*
29831605 ATTCTGATTCTG
1 ATTCTTATTCTG
*
29831617 ATTCTGT-TACTG
1 ATTCT-TATTCTG
*
29831629 ATTCTGATTCTG
1 ATTCTTATTCTG
* *
29831641 ATTCTGTCA-CCTA
1 ATTCT-T-ATTCTG
*
29831654 ATTCTGATTCTG
1 ATTCTTATTCTG
*
29831666 ATTCTGT-TACTG
1 ATTCT-TATTCTG
* *
29831678 ATTCTGATTCTA
1 ATTCTTATTCTG
29831690 ATTCT
1 ATTCT
29831695 CATTTTGGTT
Statistics
Matches: 101, Mismatches: 25, Indels: 26
0.66 0.16 0.17
Matches are distributed among these distances:
11 5 0.05
12 78 0.77
13 16 0.16
14 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.49
Consensus pattern (12 bp):
ATTCTTATTCTG
Found at i:29831584 original size:6 final size:6
Alignment explanation
Indices: 29831573--29831694 Score: 126
Period size: 6 Copynumber: 20.2 Consensus size: 6
29831563 CACCTAATTT
* *
29831573 TGATTC TGATTC TGATTC TG-TTAC TAATAC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT-C TGATTC TGATTC TGATTC TGATTC
* *
29831621 TG-TTAC TGATTC TGATTC TGATTC TG-TCACC TAATTC TGATTC TGATTC
1 TGATT-C TGATTC TGATTC TGATTC TGAT--TC TGATTC TGATTC TGATTC
*
29831670 TG-TTAC TGATTC TGATTC TAATTC T
1 TGATT-C TGATTC TGATTC TGATTC T
29831695 CATTTTGGTT
Statistics
Matches: 98, Mismatches: 9, Indels: 18
0.78 0.07 0.14
Matches are distributed among these distances:
5 7 0.07
6 83 0.85
7 7 0.07
8 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:29831607 original size:30 final size:30
Alignment explanation
Indices: 29831544--29831646 Score: 152
Period size: 30 Copynumber: 3.4 Consensus size: 30
29831534 TTGAATTCAC
* * *
29831544 ATTCTTATTCTGATTCTGTCACCTAATTTTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
29831575 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
29831605 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
29831635 ATTCTGATTCTG
1 ATTCTGATTCTG
29831647 TCACCTAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
30 47 0.71
31 19 0.29
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:29831610 original size:24 final size:24
Alignment explanation
Indices: 29831575--29831694 Score: 141
Period size: 24 Copynumber: 4.7 Consensus size: 24
29831565 CCTAATTTTG
29831575 ATTCTGATTCTGATTCTGTTACTAATA
1 ATTCTGATTCTGATTCTGTTAC---TA
*
29831602 CTGATTCTGATTCTGATTCTGTTACTG
1 ---ATTCTGATTCTGATTCTGTTACTA
*
29831629 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTTA-CTA
*
29831654 ATTCTGATTCTGATTCTGTTACTG
1 ATTCTGATTCTGATTCTGTTACTA
*
29831678 ATTCTGATTCTAATTCT
1 ATTCTGATTCTGATTCT
29831695 CATTTTGGTT
Statistics
Matches: 83, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
24 38 0.46
25 22 0.27
27 1 0.01
30 22 0.27
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTTACTA
Found at i:29834416 original size:26 final size:26
Alignment explanation
Indices: 29834345--29834418 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
29834335 TTTCTCATCC
*
29834345 CAATTTTA-CTCTAGTAAAATTTTGA
1 CAATTTTACCACTAGTAAAATTTTGA
* *
29834370 CAATTTTACCATTCG-ATAAATTTTGA
1 CAATTTTACCACTAGTA-AAATTTTGA
** *
29834396 TGATTTTACCCCTAGTAAAATTT
1 CAATTTTACCACTAGTAAAATTT
29834419 CAAGAAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
25 9 0.24
26 28 0.74
27 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.43
Consensus pattern (26 bp):
CAATTTTACCACTAGTAAAATTTTGA
Found at i:29837014 original size:93 final size:93
Alignment explanation
Indices: 29836901--29837072 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29836891 CACCCATAAG
* *
29836901 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29836966 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
29836994 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29837059 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29837073 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29837069 original size:46 final size:46
Alignment explanation
Indices: 29836894--29837069 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
29836884 TGTAACCCAC
* * *
29836894 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
29836940 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
29836990 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
29837033 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29837070 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:29844590 original size:93 final size:93
Alignment explanation
Indices: 29844477--29844648 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
29844467 CGCCCATAAG
* *
29844477 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29844542 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
29844570 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
29844635 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
29844649 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:29844645 original size:46 final size:46
Alignment explanation
Indices: 29844470--29844645 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
29844460 TGTAACCCGC
* * *
29844470 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
29844516 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
29844566 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
29844609 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
29844646 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:29846389 original size:29 final size:28
Alignment explanation
Indices: 29846356--29846413 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
29846346 GTTCCCATCA
*
29846356 TTTCTTTTTGTTTTCCTTCCTATTTTTCT
1 TTTCTTTTTCTTTTCCTTCCT-TTTTTCT
**
29846385 TTTCTTTTTCTTTTTTTTCCTTTTTTCT
1 TTTCTTTTTCTTTTCCTTCCTTTTTTCT
29846413 T
1 T
29846414 GTTTCCATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (28 bp):
TTTCTTTTTCTTTTCCTTCCTTTTTTCT
Found at i:29849781 original size:48 final size:48
Alignment explanation
Indices: 29849725--29850448 Score: 1189
Period size: 48 Copynumber: 15.0 Consensus size: 48
29849715 TTGATGCATA
*
29849725 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
29849773 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
29849821 AGATATGTATATGTGGTAAAGCCGAATGGCTAATATGGAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
29849869 AGATGTGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
*
29849919 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
29849967 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAAG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
29850015 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * *
29850063 AGATATGTATATGTAGTAAAGCCGAATGGATAATGTCAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
29850111 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAAG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
29850159 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
* * *
29850209 AGATATGTATATGTGGTAAAGCTGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
29850259 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
29850307 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATG
*
29850355 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
*
29850403 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
29850449 GGCGATGTGT
Statistics
Matches: 634, Mismatches: 36, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 1 0.00
48 494 0.78
49 8 0.01
50 131 0.21
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:29850059 original size:194 final size:192
Alignment explanation
Indices: 29849725--29850448 Score: 1173
Period size: 194 Copynumber: 3.7 Consensus size: 192
29849715 TTGATGCATA
*
29849725 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
29849790 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
66 AAAGCCGAATGGCTAATGTGAAATATGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
* * * *
29849855 ATGGAATATGTATGAGATGTGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCG-AA-ATATGTATG
*
29849919 AGATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
29849984 AAAGCCGAATGGCTAATGTGAAATATGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
66 AAAGCCGAATGGCTAATGTGAAATATGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
* *
29850049 GTGAAATATGTATGAGATATGTATATGTAGTAAAGCCGAATGGATAATGTC-AAATATGTATG
131 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG-CGAAATATGTATG
*
29850111 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAAGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
* * * *
29850176 AAAGCCGAATGGCTAATGCGAAATATATATATGAGATATGTATATGTGGTAAAGCTGAATGGTTA
66 AAAGCCGAATGGCTAATGTGAAATATGTA-A-GAGATATGTATATGTGGTAAAGCCGAATGGCTA
* *
29850241 ATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAT
129 ATGTG-AA-ATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTAT
29850306 G
192 G
* *
29850307 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATGAGATATGTATATGTGG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATGTATGAGATATGTATATGTGG
* * *
29850371 TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAG
65 TAAAGCCGAATGGCTAATGTGAAATATGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAA
29850436 TGTGAAATATGTA
130 TGTGAAATATGTA
29850449 GGCGATGTGT
Statistics
Matches: 495, Mismatches: 28, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
192 104 0.21
193 5 0.01
194 244 0.49
195 4 0.01
196 138 0.28
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (192 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTGAAATATGTAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAAT
GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATG
Found at i:29850703 original size:37 final size:37
Alignment explanation
Indices: 29850595--29850703 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
29850585 GGAAATATAT
* *
29850595 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
29850632 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
29850669 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
29850704 CATCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29851711 original size:39 final size:39
Alignment explanation
Indices: 29851656--29851735 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
29851646 ATAAAGTGAC
* *
29851656 AAGTAAATGTCGAGTTATTGTACCCACAGAGACTATGAA
1 AAGTAAATGTCAAGTTATCGTACCCACAGAGACTATGAA
29851695 AAGTAAATGTCAAGTTATCGTACCCACAGAGACTATGAA
1 AAGTAAATGTCAAGTTATCGTACCCACAGAGACTATGAA
29851734 AA
1 AA
29851736 TAATTATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (39 bp):
AAGTAAATGTCAAGTTATCGTACCCACAGAGACTATGAA
Found at i:29856874 original size:47 final size:47
Alignment explanation
Indices: 29856820--29857133 Score: 484
Period size: 47 Copynumber: 6.6 Consensus size: 47
29856810 TATTTGAATA
*
29856820 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
29856867 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
29856914 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATG
*
29856963 AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATA--TG-TGATAAGGCCTAATGGCCAATGTGATG
*
29857013 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGCGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* * * *
29857060 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
* *
29857107 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
29857134 TCCCGAAGGG
Statistics
Matches: 248, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
47 154 0.62
48 2 0.01
49 47 0.19
50 45 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
Found at i:29857009 original size:146 final size:144
Alignment explanation
Indices: 29856820--29857130 Score: 502
Period size: 146 Copynumber: 2.2 Consensus size: 144
29856810 TATTTGAATA
29856820 AATGTGAAAGTGTATATA--TG-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
29856882 ATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT
66 ATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTG--TATATATGTGATAAGGCCG
* *
29856947 AATGGCCGATGTGATG
129 AATGGCCAACGTGATG
29856963 AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * *
29857028 ATATGTGATAAGGCCTAATGGCCAATGCGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAG
66 ATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
29857093 TGGCCAACGTGATG
131 TGGCCAACGTGATG
* *
29857107 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
29857131 AAGTCCCGAA
Statistics
Matches: 156, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
143 18 0.12
144 52 0.33
145 2 0.01
146 84 0.54
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (144 bp):
AATGTGAAAGTGTATATATGTGATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAA
TGGCCAACGTGATG
Done.