Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 259 of 295
Found at i:82967207 original size:44 final size:44
Alignment explanation
Indices: 82967157--82967309 Score: 157
Period size: 44 Copynumber: 3.5 Consensus size: 44
82967147 AATCCGACCT
* *
82967157 ACTGCAACTTCAGAGG-TATAGGACTTGTCACTTTAATCTGCTCC
1 ACTGCAACTTCAG-GGAGATAGGACTTGTGACTTTAATCTGCTCC
* *
82967201 ACTGCAACTTCAGGGAGATAGGA-TTAGTTGTCTTTAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAGGACTT-G-TGACTTTAATCTGCTCC
* * * * **
82967246 GCTGCAACTTCAGGGAGATAAGACTTGTGGCTTTAATTTGCTTT
1 ACTGCAACTTCAGGGAGATAGGACTTGTGACTTTAATCTGCTCC
* *
82967290 ACTGCAACTTTAGGGGGATA
1 ACTGCAACTTCAGGGAGATA
82967310 AGATTTGCCA
Statistics
Matches: 91, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
43 4 0.04
44 49 0.54
45 36 0.40
46 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAGGACTTGTGACTTTAATCTGCTCC
Found at i:82967597 original size:45 final size:44
Alignment explanation
Indices: 82967529--82967653 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 44
82967519 AGGACTCACC
* *
82967529 ATTTTAATCCGCTCCACTGCAACTTCAAGGAGATAAGA-TTAGCT-
1 ATTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTT-G-TA
* * *
82967573 CTCTTCAATCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTGTA
1 AT-TTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTA
* * *
82967618 ATTTCAACCTGTTCCACTGCAACTTTAAGGAGATAA
1 ATTTCAATCTGCTCCACTGCAACTTCAAGGAGATAA
82967654 AGTTTGCTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 31 0.46
45 34 0.51
46 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
ATTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTA
Found at i:82967640 original size:44 final size:45
Alignment explanation
Indices: 82967539--82967653 Score: 137
Period size: 44 Copynumber: 2.6 Consensus size: 45
82967529 ATTTTAATCC
* *
82967539 GCTCCACTGCAACTTCAAGGAGATAAGATTAGCTCTCTTCAATCT
1 GCTCCACTGCAACTTCAAGGAGATAAGATTAGCTATCTTCAACCT
* *
82967584 GCTCCGCTGCAACTTCAGGGAGATAAGACTT-G-TAAT-TTCAACCT
1 GCTCCACTGCAACTTCAAGGAGATAAGA-TTAGCT-ATCTTCAACCT
* *
82967628 GTTCCACTGCAACTTTAAGGAGATAA
1 GCTCCACTGCAACTTCAAGGAGATAA
82967654 AGTTTGCTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
44 30 0.50
45 28 0.47
46 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (45 bp):
GCTCCACTGCAACTTCAAGGAGATAAGATTAGCTATCTTCAACCT
Found at i:82967750 original size:52 final size:52
Alignment explanation
Indices: 82967672--82967798 Score: 209
Period size: 52 Copynumber: 2.4 Consensus size: 52
82967662 ATGATCTGCT
*
82967672 CACTGCAACTTTAGAGAGATAAGATCTGTTTATTTATAGCTTCAATATATTC
1 CACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATATATTC
* *
82967724 CACTGCAAGTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTATTC
1 CACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATATATTC
* *
82967776 CACTGCAACTTCAGGGAAATAAG
1 CACTGCAACTTCAGAGAGATAAG
82967799 GTTCGCTATC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (52 bp):
CACTGCAACTTCAGAGAGATAAGATCTGTTTATTTATAGCTTCAATATATTC
Found at i:82967961 original size:44 final size:44
Alignment explanation
Indices: 82967913--82968016 Score: 122
Period size: 44 Copynumber: 2.4 Consensus size: 44
82967903 TCTGCCCCAC
*
82967913 TGCTATCTCGAGG-AGACAAAATCTG-AATCATCAGTCTGCTCCCT
1 TGCTACCTC-AGGAAGACAAAA-CTGTAATCATCAGTCTGCTCCCT
* * *
82967957 TGCTACCTCAGGAAGATAAGACTGTAATCTTCAGTCTGCTCCCT
1 TGCTACCTCAGGAAGACAAAACTGTAATCATCAGTCTGCTCCCT
* *
82968001 TGCTTCCTTAGGAAGA
1 TGCTACCTCAGGAAGA
82968017 TAAGGCTAGT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 6 0.12
44 46 0.88
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (44 bp):
TGCTACCTCAGGAAGACAAAACTGTAATCATCAGTCTGCTCCCT
Found at i:82968039 original size:44 final size:44
Alignment explanation
Indices: 82967947--82968043 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
82967937 GAATCATCAG
* ** *
82967947 TCTGCTCCCTTGCTACCTCAGGAAGATAAGACTGTAATCTTCAG
1 TCTGCTCCCTTGCTACCTCAGGAAGATAAGACTGTAAGCTAAAA
* * * *
82967991 TCTGCTCCCTTGCTTCCTTAGGAAGATAAGGCTAGT-GGCTAAAA
1 TCTGCTCCCTTGCTACCTCAGGAAGATAAGACT-GTAAGCTAAAA
82968035 TCTGCTCCC
1 TCTGCTCCC
82968044 CTGCCACTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
44 42 0.95
45 2 0.05
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (44 bp):
TCTGCTCCCTTGCTACCTCAGGAAGATAAGACTGTAAGCTAAAA
Found at i:82968084 original size:133 final size:132
Alignment explanation
Indices: 82967947--82968731 Score: 618
Period size: 133 Copynumber: 5.9 Consensus size: 132
82967937 GAATCATCAG
* * *
82967947 TCTGCTCCCTTGCTACCTCAGGAAGATAAGA-CTGTAATCTTCAGTCTGCTCC-CTTGCTTCCTT
1 TCTGCTCCCTTGCTA-CTCAGGAAGATAAGATCTGCAATCTTCAG-CTGCTCCAC-TGCTTGCTC
* * * *
82968010 AGGAAGATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCCA-CTTTGGGAAGATAAGATTCGTCG-
63 AGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGG-AGATAAGATTCGCCGT
82968073 CTTTCGA
127 C-TTCGA
* * * * *
82968080 TCTGC-CGGC--ACTACTGCTTGGGAGATAAGATCTACAATCTTCAGCTTGCTCCACTGC-TGCT
1 TCTGCTC-CCTTGCTACT-C-AGGAAGATAAGATCTGCAATCTTCAGC-TGCTCCACTGCTTGCT
* * * *
82968141 CAGGGAGACAAGGATAGTGGCTTAAATCTGCTCCCTTGCTACCTTAGGGAGATAAGATTCGCCGT
62 CAGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATTCGCCGT
82968206 CTTCGA
127 CTTCGA
* *
82968212 TCTGCTCCATTGCTATCTCA-TAGAGATAAGATCTGCAATCTTCAGCCTGCTCCACTG-TTGCTC
1 TCTGCTCCCTTGCTA-CTCAGGA-AGATAAGATCTGCAATCTTCAG-CTGCTCCACTGCTTGCTC
* * * * ** *
82968275 A-GAGAGACAAGGCTAATGGCTTAAATCTGCTCCCTTGCTACCTCAAAGAGATAAGATTCACCGT
63 AGGA-AGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATTCGCCGT
*
82968339 TTTCGA
127 CTTCGA
* ** * * * * *
82968345 TCTACTCTATGGCTACCTTATGG-AGACAAGATCTACAATCTTCAATCTGCTCCACTGC-TGCTC
1 TCTGCTCCCTTGCTA-CTCA-GGAAGATAAGATCTGCAATCTTC-AGCTGCTCCACTGCTTGCTC
* * * *** * * * *
82968408 AGGGAGACAAGGCTATTGGCTTAAATCTGCTCCCTTATTACCTCAAGGAGGTAAGATTCACCGTC
63 AGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATTCGCCGTC
82968473 TTCGA
128 TTCGA
** * * * *
82968478 TCTGCTCTATTGCTACCTCATGG-AGATAAGATCTACAATCTTCATCCTGCTACACTGCTT-CTT
1 TCTGCTCCCTTGCTA-CTCA-GGAAGATAAGATCTGCAATCTTCA-GCTGCTCCACTGCTTGCTC
* * * * *
82968541 A-AAGAGACAAGGCTAGTGGCTTAAATCT-CTTCCCTTGCTACCTTAGGGAGATAAGATCCACCG
63 AGGA-AGACAAGGCTAGTGGCTTAAATCTGC-TCCCCTGCCACCTTAGGGAGATAAGATTCGCCG
82968604 TCTTCGA
126 TCTTCGA
* * * * *
82968611 TCTGCTTCATTGCTACCTCA-TAGAGATAAGATCTACAATTTTCAGCCTGCTCCACTGC-TGCTC
1 TCTGCTCCCTTGCTA-CTCAGGA-AGATAAGATCTGCAATCTTCAG-CTGCTCCACTGCTTGCTC
* * ** * * *
82968674 AGGGAGACAAGGCTAGTGGCTTAGATCTGCTCCATTGCTACCTCATGGAGATAAGATT
63 AGGAAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATT
82968732 TACAATCTTC
Statistics
Matches: 544, Mismatches: 77, Indels: 62
0.80 0.11 0.09
Matches are distributed among these distances:
130 2 0.00
131 4 0.01
132 77 0.14
133 449 0.83
134 10 0.02
135 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
TCTGCTCCCTTGCTACTCAGGAAGATAAGATCTGCAATCTTCAGCTGCTCCACTGCTTGCTCAGG
AAGACAAGGCTAGTGGCTTAAATCTGCTCCCCTGCCACCTTAGGGAGATAAGATTCGCCGTCTTC
GA
Found at i:82968718 original size:88 final size:88
Alignment explanation
Indices: 82968609--82968819 Score: 323
Period size: 88 Copynumber: 2.4 Consensus size: 88
82968599 CACCGTCTTC
* * * *
82968609 GATCTGCTTCATTGCTACCTCATAGAGATAAGATCTACAATTTTCAGCCTGCTCCACTGCTGCTC
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTC
*
82968674 AGGGAGACAAGGCTAGTGGCTTA
66 AAGGAGACAAGGCTAGTGGCTTA
*
82968697 GATCTGCTCCATTGCTACCTCATGGAGATAAGATTTACAATCTTCAACCTGCTCCACTGCTGCTC
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTC
82968762 AAGGAGACAAGGCTAGTGGCTTA
66 AAGGAGACAAGGCTAGTGGCTTA
* * * * *
82968785 AATATACTCCCTTGCTACCTCAGGGAGATAAGATC
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATC
82968820 CGCTGTCTTC
Statistics
Matches: 111, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 111 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (88 bp):
GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTCCACTGCTGCTC
AAGGAGACAAGGCTAGTGGCTTA
Found at i:82968739 original size:221 final size:221
Alignment explanation
Indices: 82968476--82968887 Score: 648
Period size: 221 Copynumber: 1.9 Consensus size: 221
82968466 CACCGTCTTC
* * * *
82968476 GATCTGCTCTATTGCTACCTCATGGAGATAAGATCTACAATCTTCATCCTGCTACACTGCTTCTT
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTACACTGCTGCTC
* *
82968541 AAAGAGACAAGGCTAGTGGCTTAAATCT-CTTCCCTTGCTACCTTAGGGAGATAAGATCCACCGT
66 AAAGAGACAAGGCTAGTGGCTTAAATATAC-TCCCTTGCTACCTCAGGGAGATAAGATCCACCGT
* *
82968605 CTTCGATCTGCT-TCATTGCTACCTCATAGAGATAAGATCTACAATTTTCAGCCTGCTCCACTGC
130 CTTCGATCTGCTCT-ATTGCTACCTCATAGAAATAAGATCTACAATTTTCAGCCTACTCCACTGC
82968669 TGCTCAGGGAGACAAGGCTAGTGGCTTA
194 TGCTCAGGGAGACAAGGCTAGTGGCTTA
* *
82968697 GATCTGCTCCATTGCTACCTCATGGAGATAAGATTTACAATCTTCAACCTGCTCCACTGCTGCTC
1 GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTACACTGCTGCTC
* * *
82968762 AAGGAGACAAGGCTAGTGGCTTAAATATACTCCCTTGCTACCTCAGGGAGATAAGATCCGCTGTC
66 AAAGAGACAAGGCTAGTGGCTTAAATATACTCCCTTGCTACCTCAGGGAGATAAGATCCACCGTC
* * *
82968827 TTCGATCTGCTCTATTGCTACCTCATGGAAATAAGATCTACAATTTTTAGTCTACTCCACT
131 TTCGATCTGCTCTATTGCTACCTCATAGAAATAAGATCTACAATTTTCAGCCTACTCCACT
82968888 ACTATTTAAG
Statistics
Matches: 173, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
221 171 0.99
222 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (221 bp):
GATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTCAACCTGCTACACTGCTGCTC
AAAGAGACAAGGCTAGTGGCTTAAATATACTCCCTTGCTACCTCAGGGAGATAAGATCCACCGTC
TTCGATCTGCTCTATTGCTACCTCATAGAAATAAGATCTACAATTTTCAGCCTACTCCACTGCTG
CTCAGGGAGACAAGGCTAGTGGCTTA
Found at i:82968741 original size:133 final size:133
Alignment explanation
Indices: 82968101--82968731 Score: 888
Period size: 133 Copynumber: 4.7 Consensus size: 133
82968091 TACTGCTTGG
* *
82968101 GAGATAAGATCTACAATCTTCAGCTTGCTCCACTGCTGCTCAGGGAGACAAGGATAGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
* * * * *
82968166 ATCTGCTCCCTTGCTACCTTAGGGAGATAAGATTCGCCGTCTTCGATCTGCTCCATTGCTATCTC
66 ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
82968231 ATA
131 ATA
* * * *
82968234 GAGATAAGATCTGCAATCTTCAGCCTGCTCCACTGTTGCTCAGAGAGACAAGGCTAATGGCTTAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
* * * * *
82968299 ATCTGCTCCCTTGCTACCTCAAAGAGATAAGATTCACCGTTTTCGATCTACTCTATGGCTACCTT
66 ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
*
82968364 ATG
131 ATA
* ** *
82968367 GAGACAAGATCTACAATCTTCAATCTGCTCCACTGCTGCTCAGGGAGACAAGGCTATTGGCTTAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
** *
82968432 ATCTGCTCCCTTATTACCTCAAGGAGGTAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
66 ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
*
82968497 ATG
131 ATA
* * * * **
82968500 GAGATAAGATCTACAATCTTCATCCTGCTACACTGCTTCTTAAAGAGACAAGGCTAGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
* * *
82968565 ATCT-CTTCCCTTGCTACCTTAGGGAGATAAGATCCACCGTCTTCGATCTGCT-TCATTGCTACC
66 ATCTGC-TCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCT-ATTGCTACC
82968628 TCATA
129 TCATA
* *
82968633 GAGATAAGATCTACAATTTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAG
1 GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
* *
82968698 ATCTGCTCCATTGCTACCTCATGGAGATAAGATT
66 ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATT
82968732 TACAATCTTC
Statistics
Matches: 435, Mismatches: 60, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
132 2 0.00
133 432 0.99
134 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (133 bp):
GAGATAAGATCTACAATCTTCAGCCTGCTCCACTGCTGCTCAGGGAGACAAGGCTAGTGGCTTAA
ATCTGCTCCCTTGCTACCTCAAGGAGATAAGATTCACCGTCTTCGATCTGCTCTATTGCTACCTC
ATA
Found at i:82975126 original size:41 final size:40
Alignment explanation
Indices: 82974999--82975143 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
82974989 CTCGCACAAG
* * * * * *
82974999 GCCTTTGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
82975039 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
82975079 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
82975120 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
82975144 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:82978023 original size:50 final size:49
Alignment explanation
Indices: 82977967--82978085 Score: 120
Period size: 50 Copynumber: 2.4 Consensus size: 49
82977957 TTAATTAATT
82977967 TAATAATGATAATAACATATAAGTAAAAACACAAAA-A-AATAGTTAA-AAAA
1 TAATAATGATAATAACA-AT-AGTAAAAACA-AAAAGATAATAG-TAATAAAA
* * **
82978017 TAATAATAATAATAGCAATAGTAATTACAAAAATGATAATAGTAATAAAA
1 TAATAATGATAATAACAATAGTAAAAACAAAAA-GATAATAGTAATAAAA
*
82978067 TAA-AATGATAATAATAATA
1 TAATAATGATAATAACAATA
82978086 TTAATAATAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
47 4 0.07
48 8 0.14
49 19 0.33
50 27 0.47
ACGTcount: A:0.63, C:0.04, G:0.07, T:0.26
Consensus pattern (49 bp):
TAATAATGATAATAACAATAGTAAAAACAAAAAGATAATAGTAATAAAA
Found at i:82978074 original size:22 final size:21
Alignment explanation
Indices: 82978033--82978085 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
82978023 TAATAATAGC
* *
82978033 AATAGTAATTACAAAAATGAT
1 AATAGTAATAAAAAAAATGAT
82978054 AATAGTAATAAAATAAAATGAT
1 AATAGTAATAAAA-AAAATGAT
*
82978076 AATAATAATA
1 AATAGTAATA
82978086 TTAATAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (21 bp):
AATAGTAATAAAAAAAATGAT
Found at i:82978239 original size:3 final size:3
Alignment explanation
Indices: 82978015--82978222 Score: 76
Period size: 3 Copynumber: 71.3 Consensus size: 3
82978005 ATAGTTAAAA
** * * * * * *
82978015 AAT AAT AAT AAT AAT AGC AAT AGT AAT TAC AAA AAT GAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
82978063 AA- AAT AA- AAT GAT AAT AAT AAT ATT AAT AAT AAT AGA- AGT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * ** *
82978105 AAA AAT AA- AAT AGT AAT AAC AGT AA- AA- AAT AGC AAT AAT AAG AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
82978150 AGT AAT AAC AGT AAT GAT AAC AAT AAT -AT AAAT AAT AAT -AT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT A-AT
* * *
82978195 GAAA AAT AAT AAT AGT AA- AAA AAT AAT A
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT A
82978223 GAAGTAGTAA
Statistics
Matches: 143, Mismatches: 49, Indels: 26
0.66 0.22 0.12
Matches are distributed among these distances:
2 18 0.13
3 118 0.83
4 6 0.04
5 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:82984587 original size:46 final size:47
Alignment explanation
Indices: 82984533--82984706 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 47
82984523 GTTGAGCATT
82984533 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-TGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGTC
* * * *
82984579 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACT--G--TC
* *
82984626 CGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACT-CC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGTC
* *
82984672 CGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
82984707 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 18
0.77 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 29 0.27
48 1 0.01
50 3 0.03
51 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTGTC
Found at i:82984692 original size:93 final size:93
Alignment explanation
Indices: 82984528--82984699 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
82984518 GGATGGTTGA
* * *
82984528 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
82984593 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
82984621 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACT-CCCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAA-TGCCCGAACTCGTTGAG
82984685 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
82984700 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
93 73 0.99
94 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:82991307 original size:12 final size:12
Alignment explanation
Indices: 82991290--82991355 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
82991280 TTTTTATTTA
*
82991290 TATATTATTCAT
1 TATATTATACAT
**
82991302 TATATTAT-TTT
1 TATATTATACAT
82991313 TATTATTATACAT
1 TA-TATTATACAT
* *
82991326 TTTATTTATAAAT
1 TATA-TTATACAT
*
82991339 TTTATTATACAT
1 TATATTATACAT
82991351 TATAT
1 TATAT
82991356 GTTTTACTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
11 3 0.07
12 27 0.63
13 13 0.30
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATTATACAT
Found at i:82991334 original size:25 final size:25
Alignment explanation
Indices: 82991276--82991351 Score: 66
Period size: 25 Copynumber: 3.0 Consensus size: 25
82991266 ATAGTGTGAA
* *
82991276 TTATTTTTTATTTATATATTATTCATT
1 TTATTTATT-TTTAT-TATTATACATT
*
82991303 ATA-TTATTTTTATTATTATACATT
1 TTATTTATTTTTATTATTATACATT
**
82991327 TTATTTATAAATT-TTATTATACATT
1 TTATTTAT-TTTTATTATTATACATT
82991352 ATATGTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 12 0.29
25 21 0.51
26 6 0.15
27 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (25 bp):
TTATTTATTTTTATTATTATACATT
Found at i:82991441 original size:35 final size:35
Alignment explanation
Indices: 82991402--82991468 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
82991392 TTTATTTTAT
*
82991402 TATAAAT-TATGTATTATTTT-ATTATTCATTAACTG
1 TATAAATAT-TGTAATATTTTAATTATT-ATTAACTG
*
82991437 TATAAATATTTTAATATTTTAATTATTATTAA
1 TATAAATATTGTAATATTTTAATTATTATTAA
82991469 ATAATAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
35 21 0.75
36 7 0.25
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
TATAAATATTGTAATATTTTAATTATTATTAACTG
Found at i:82991531 original size:21 final size:21
Alignment explanation
Indices: 82991507--82991546 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
82991497 TATATGATAG
82991507 TTATCATATTA-TTATATTTCA
1 TTAT-ATATTATTTATATTTCA
*
82991528 TTATATTTTATTTATATTT
1 TTATATATTATTTATATTT
82991547 TTTACTACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (21 bp):
TTATATATTATTTATATTTCA
Found at i:82991575 original size:10 final size:10
Alignment explanation
Indices: 82991507--82991579 Score: 53
Period size: 10 Copynumber: 7.2 Consensus size: 10
82991497 TATATGATAG
82991507 TTATCATATTA
1 TTAT-ATATTA
82991518 TTATAT-TTCA
1 TTATATATT-A
*
82991528 TTATATTTTA
1 TTATATATTA
82991538 TT-TATATT-
1 TTATATATTA
* *
82991546 TTTTACTACATA
1 TTATA-TA-TTA
*
82991558 TCATATATTA
1 TTATATATTA
82991568 TTATATATTA
1 TTATATATTA
82991578 TT
1 TT
82991580 CCCTATATTA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
8 2 0.04
9 9 0.18
10 27 0.54
11 9 0.18
12 3 0.06
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (10 bp):
TTATATATTA
Found at i:82991611 original size:7 final size:7
Alignment explanation
Indices: 82991597--82991632 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
82991587 TTATCTTCCT
82991597 TTTATTA
1 TTTATTA
*
82991604 TATATTA
1 TTTATTA
82991611 TTTCATTA
1 TTT-ATTA
82991619 TTTATTA
1 TTTATTA
82991626 TTTATTA
1 TTTATTA
82991633 GTATAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (7 bp):
TTTATTA
Found at i:82991624 original size:15 final size:14
Alignment explanation
Indices: 82991597--82991637 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
82991587 TTATCTTCCT
82991597 TTTATTATATATTA
1 TTTATTATATATTA
*
82991611 TTTCATTATTTATTA
1 TTT-ATTATATATTA
82991626 TTTATTAGTATA
1 TTTATTA-TATA
82991638 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (14 bp):
TTTATTATATATTA
Found at i:82994219 original size:12 final size:12
Alignment explanation
Indices: 82994202--82994231 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
82994192 CCTGTAAAAT
82994202 AGTAAAAATAAC
1 AGTAAAAATAAC
82994214 AGTAAAAATAAC
1 AGTAAAAATAAC
82994226 AGTAAA
1 AGTAAA
82994232 GGGGAAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (12 bp):
AGTAAAAATAAC
Found at i:82995146 original size:20 final size:20
Alignment explanation
Indices: 82995108--82995155 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
82995098 TAAATTCTAA
**
82995108 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
82995128 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
82995148 AAA-ATAAA
1 AAAGATAAA
82995156 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:82996787 original size:15 final size:15
Alignment explanation
Indices: 82996767--82996814 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
82996757 TTAATATTTG
*
82996767 AAAATAATAAATAAT
1 AAAATAATAAATAAA
82996782 AAAATAATAAGATAAA
1 AAAATAATAA-ATAAA
82996798 ATAAATAA-AAATAAA
1 A-AAATAATAAATAAA
82996813 AA
1 AA
82996815 TTGGGTTGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
16 7 0.23
17 6 0.20
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAATAAATAAA
Found at i:82999587 original size:12 final size:12
Alignment explanation
Indices: 82999570--82999602 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
82999560 TTCCTTATAA
82999570 AATAGTAAAAAT
1 AATAGTAAAAAT
82999582 AATAGTAAAAAT
1 AATAGTAAAAAT
*
82999594 AACAGTAAA
1 AATAGTAAA
82999603 GGGAAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.67, C:0.03, G:0.09, T:0.21
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:83000522 original size:20 final size:20
Alignment explanation
Indices: 83000484--83000531 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
83000474 TAAATTCTAA
**
83000484 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
83000504 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
83000524 AAA-ATAAA
1 AAAGATAAA
83000532 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:83000542 original size:19 final size:18
Alignment explanation
Indices: 83000518--83000561 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
83000508 ATAAATAGAG
83000518 ATAATTAAAATAAAATCCTA
1 ATAATTAAAAT--AATCCTA
*
83000538 A-AATTTAAATAATCCTA
1 ATAATTAAAATAATCCTA
83000555 ATAATTA
1 ATAATTA
83000562 TCCTAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 8 0.38
18 4 0.19
19 8 0.38
20 1 0.05
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATTAAAATAATCCTA
Found at i:83000577 original size:15 final size:15
Alignment explanation
Indices: 83000557--83000589 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
83000547 TAATCCTAAT
83000557 AATTATCCTAATATA
1 AATTATCCTAATATA
83000572 AATTATCCTAATATA
1 AATTATCCTAATATA
83000587 AAT
1 AAT
83000590 AAAATGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (15 bp):
AATTATCCTAATATA
Found at i:83003126 original size:26 final size:26
Alignment explanation
Indices: 83003089--83003194 Score: 185
Period size: 26 Copynumber: 4.1 Consensus size: 26
83003079 GTACAAATTA
83003089 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
* *
83003115 ATAATGGATTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
83003141 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
*
83003167 ATAATGGTTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
83003193 AT
1 AT
83003195 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:83004861 original size:27 final size:27
Alignment explanation
Indices: 83004822--83004907 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
83004812 GGAAGCGTCT
* *
83004822 TGGTGGCTATGCCACAATTATCTGATA
1 TGGTGGCTCTGCCACAATTATCTGATC
*
83004849 TGGTGGCTCTGCCAC-ATATATCTGTTC
1 TGGTGGCTCTGCCACAAT-TATCTGATC
83004876 TGGTGGCTCTGCCACAA-TATCTGTATC
1 TGGTGGCTCTGCCACAATTATCTG-ATC
83004903 TGGTG
1 TGGTG
83004908 ACTTCGTCAC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.15
27 43 0.83
28 1 0.02
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.35
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATTATCTGATC
Found at i:83004918 original size:27 final size:26
Alignment explanation
Indices: 83004822--83004925 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 26
83004812 GGAAGCGTCT
* * * *
83004822 TGGTGGCTATGCCACAATTATCTGATA
1 TGGTGACTCTGCCACAA-TATCTGTTC
*
83004849 TGGTGGCTCTGCCACATATATCTGTTC
1 TGGTGACTCTGCCACA-ATATCTGTTC
*
83004876 TGGTGGCTCTGCCACAATATCTGTATC
1 TGGTGACTCTGCCACAATATCTGT-TC
*
83004903 TGGTGACT-TCGTCACAATATCTG
1 TGGTGACTCT-GCCACAATATCTG
83004926 GCAGCCTCGC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
26 9 0.13
27 59 0.86
28 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
TGGTGACTCTGCCACAATATCTGTTC
Found at i:83010543 original size:14 final size:14
Alignment explanation
Indices: 83010524--83010553 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
83010514 TTACACAAGG
83010524 AAATAAATAAATAA
1 AAATAAATAAATAA
83010538 AAATAAATAAATAA
1 AAATAAATAAATAA
83010552 AA
1 AA
83010554 CATGGCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:83010613 original size:15 final size:15
Alignment explanation
Indices: 83010595--83010626 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
83010585 GAACGATAAT
83010595 AATAATAATAATATA
1 AATAATAATAATATA
*
83010610 AATAATAATAGTATA
1 AATAATAATAATATA
83010625 AA
1 AA
83010627 ACGATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAATAATAATATA
Found at i:83011653 original size:27 final size:26
Alignment explanation
Indices: 83011615--83011743 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 26
83011605 GCGAGGCTAC
*
83011615 CAGATATTGTGGC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
83011641 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
* * *
83011668 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAT
83011695 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
83011722 CAGATAATTGTGGCATAGCCAC
1 CAGAT-ATTGTGGCAGAGCCAC
83011744 TAGGACGCTT
Statistics
Matches: 90, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
26 7 0.08
27 80 0.89
28 3 0.03
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:83011707 original size:54 final size:54
Alignment explanation
Indices: 83011633--83011743 Score: 197
Period size: 54 Copynumber: 2.1 Consensus size: 54
83011623 GTGGCGAAGT
83011633 CACCAGATACAGATATTGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGC
1 CACCAGATACAGATATTGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGC
*
83011687 CACCAGA-ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATACAGATAT-TGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGC
83011741 CAC
1 CAC
83011744 TAGGACGCTT
Statistics
Matches: 55, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
53 8 0.15
54 47 0.85
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATACAGATATTGTGGCAGAGCCACCAGATCAGATAATCGTGGCATAGC
Found at i:83013372 original size:26 final size:26
Alignment explanation
Indices: 83013341--83013448 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
83013331 TGAAATGCCC
*
83013341 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
83013367 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
83013393 ATCATGTAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
83013419 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83013445 ATCA
1 ATCA
83013449 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:83013939 original size:27 final size:27
Alignment explanation
Indices: 83013888--83013940 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
83013878 AATATGTATT
* *
83013888 AAAATATATACGTAATAATAGAAATAA
1 AAAATATATACGTAACAATAAAAATAA
* *
83013915 AAAATATATACGTAGCATTAAAAATA
1 AAAATATATACGTAACAATAAAAATA
83013941 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.08, T:0.26
Consensus pattern (27 bp):
AAAATATATACGTAACAATAAAAATAA
Found at i:83014302 original size:13 final size:13
Alignment explanation
Indices: 83014286--83014310 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83014276 ATATATACGT
83014286 AAAAATATAATAA
1 AAAAATATAATAA
83014299 AAAAATATAATA
1 AAAAATATAATA
83014311 TATATAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAATATAATAA
Found at i:83014687 original size:19 final size:19
Alignment explanation
Indices: 83014643--83014721 Score: 108
Period size: 19 Copynumber: 4.2 Consensus size: 19
83014633 AATCTTTAAG
*
83014643 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
83014662 G--ATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
83014679 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
83014698 GATATGCAATCTTGAAGATAT
1 GATATACAATCTT--AGATAT
83014719 GAT
1 GAT
83014722 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
21 9 0.17
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:83014689 original size:36 final size:38
Alignment explanation
Indices: 83014643--83014721 Score: 117
Period size: 36 Copynumber: 2.1 Consensus size: 38
83014633 AATCTTTAAG
*
83014643 GATATGCAATCTTAGATATGATA-CAATCTT-AGATAT
1 GATATACAATCTTAGATATGATAGCAATCTTAAGATAT
83014679 GATATACAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATACAATCTTAGATATGATA-GCAATCTT-AAGATAT
83014719 GAT
1 GAT
83014722 CTTGTAATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
36 22 0.58
38 7 0.18
40 9 0.24
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.35
Consensus pattern (38 bp):
GATATACAATCTTAGATATGATAGCAATCTTAAGATAT
Found at i:83014733 original size:22 final size:21
Alignment explanation
Indices: 83014643--83014738 Score: 100
Period size: 19 Copynumber: 4.9 Consensus size: 21
83014633 AATCTTTAAG
83014643 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
83014662 GATA--CAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
*
83014679 GATATACAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
83014698 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
* *
83014719 GATCTTGTAATCTTGAAGAT
1 GAT-ATGCAATCTTGAAGAT
83014739 TTAATTTGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.25
19 29 0.42
21 9 0.13
22 14 0.20
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:83015821 original size:44 final size:44
Alignment explanation
Indices: 83015755--83015842 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
83015745 GAAATTTTCG
*
83015755 AAAGACGAGCTTAGTTTCGAAGGTTTTAAAATGTTGCGTCCTAA
1 AAAGACGAGCTTAGTTTCGAAGGTTTTAAAATGTTGCATCCTAA
*
83015799 AAAGACGAGCTTAGTTTTGAAGGTTTTAAAATGTTGCATCCTAA
1 AAAGACGAGCTTAGTTTCGAAGGTTTTAAAATGTTGCATCCTAA
83015843 CTTACTGGAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (44 bp):
AAAGACGAGCTTAGTTTCGAAGGTTTTAAAATGTTGCATCCTAA
Found at i:83016274 original size:23 final size:22
Alignment explanation
Indices: 83016229--83016285 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
83016219 TAAATAGAGG
* *
83016229 TATAATACCTAAAATATAAATA
1 TATAATACATAAAAAATAAATA
*
83016251 TATAATTACATAAAAAATATATA
1 TATAA-TACATAAAAAATAAATA
*
83016274 TA-AATAGATAAA
1 TATAATACATAAA
83016286 TAAAAAACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 7 0.23
22 7 0.23
23 16 0.53
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (22 bp):
TATAATACATAAAAAATAAATA
Found at i:83017939 original size:4 final size:4
Alignment explanation
Indices: 83017925--83017985 Score: 77
Period size: 4 Copynumber: 15.2 Consensus size: 4
83017915 CTCGCAGAAA
* * * * *
83017925 ACAT GCAT ACAT ACAT ACAT ACCT ACCT ACCT ACCT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
83017973 ACAT ACAT ACAT A
1 ACAT ACAT ACAT A
83017986 TACATAAAGG
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 53 1.00
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:83020832 original size:27 final size:27
Alignment explanation
Indices: 83020802--83020870 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
83020792 CCTTAATCGA
*
83020802 TAAAATGACTATTTTGCCCTTATGA-GG
1 TAAAATGACTGTTTTGCCCTT-TGATGG
* *
83020829 TAAAATGATTGTTTTGCCCTTTTATGG
1 TAAAATGACTGTTTTGCCCTTTGATGG
83020856 TAAAATGACTGTTTT
1 TAAAATGACTGTTTT
83020871 ACCCCTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.05
27 35 0.95
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTTGATGG
Found at i:83024351 original size:27 final size:27
Alignment explanation
Indices: 83024321--83024416 Score: 93
Period size: 27 Copynumber: 3.6 Consensus size: 27
83024311 CCTTAATCGA
* ** * *
83024321 TAAAATGATTATTTTTTCCTTTTGAGG
1 TAAAATGATTGTTTTGCCCTTATAAGG
* *
83024348 TAAAATAACTGTTTTGCCCTTATAAGG
1 TAAAATGATTGTTTTGCCCTTATAAGG
* *
83024375 TAAAATGATTGTTTTGCCCTTTTATGG
1 TAAAATGATTGTTTTGCCCTTATAAGG
* *
83024402 TAAGATGACTGTTTT
1 TAAAATGATTGTTTT
83024417 ACTCCTATGT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (27 bp):
TAAAATGATTGTTTTGCCCTTATAAGG
Found at i:83026309 original size:11 final size:11
Alignment explanation
Indices: 83026295--83026320 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
83026285 TTAGCTCATC
83026295 ATTAATTAGAA
1 ATTAATTAGAA
83026306 ATTAATTAGAA
1 ATTAATTAGAA
83026317 ATTA
1 ATTA
83026321 TTTATGTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
ATTAATTAGAA
Found at i:83030755 original size:4 final size:4
Alignment explanation
Indices: 83030746--83030788 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
83030736 TTCTCGCAGA
83030746 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
83030789 GAGGTCATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:83048861 original size:17 final size:17
Alignment explanation
Indices: 83048839--83048873 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
83048829 GGATGGATGG
83048839 AAGAAACCACAAATTTT
1 AAGAAACCACAAATTTT
83048856 AAGAAACCACAAATTTT
1 AAGAAACCACAAATTTT
83048873 A
1 A
83048874 TCTTCTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (17 bp):
AAGAAACCACAAATTTT
Found at i:83050657 original size:13 final size:13
Alignment explanation
Indices: 83050631--83050674 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
83050621 TTACTGTAAA
* *
83050631 CATTTCACACAAC
1 CATTTCATATAAC
*
83050644 CATTTTATATAAC
1 CATTTCATATAAC
*
83050657 CAATTCATATAAC
1 CATTTCATATAAC
83050670 CATTT
1 CATTT
83050675 GCCATCTGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (13 bp):
CATTTCATATAAC
Found at i:83050832 original size:46 final size:46
Alignment explanation
Indices: 83050757--83051031 Score: 336
Period size: 46 Copynumber: 6.0 Consensus size: 46
83050747 TTATCTTCGA
* * * * *
83050757 CATGATGCCATAGTATCTTTCAACTATGGTTTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-ATTTCATGT
* * * **
83050803 CATGTTGCCATGGTATCTTTTAACCATGGTTTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
*
83050850 CATGTTGCCATGGTATCTTTCAACCATGGTCTTAGTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
83050896 CAAGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
83050942 TATGTTGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
83050988 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
83051032 TTTAGAGAGC
Statistics
Matches: 204, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 167 0.82
47 37 0.18
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:83053445 original size:18 final size:19
Alignment explanation
Indices: 83053410--83053445 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
83053400 ACACCTTCAA
83053410 TTTTCCCTTTTCTTCTTTG
1 TTTTCCCTTTTCTTCTTTG
*
83053429 TTTTCTCTTTT-TTCTTT
1 TTTTCCCTTTTCTTCTTT
83053446 CTTTCCTTCC
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:0.00, C:0.22, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTCCCTTTTCTTCTTTG
Found at i:83053709 original size:25 final size:21
Alignment explanation
Indices: 83053653--83053699 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
83053643 TATAATATAA
*
83053653 TTATTTAATGAATAAATATCTT
1 TTATATAAT-AATAAATATCTT
*
83053675 TTATAAAATAATAAATATCTAT
1 TTATATAATAATAAATATCT-T
83053697 TTA
1 TTA
83053700 ATATCTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (21 bp):
TTATATAATAATAAATATCTT
Found at i:83053874 original size:19 final size:21
Alignment explanation
Indices: 83053828--83053874 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
83053818 TATAATAAAT
* *
83053828 TAATTTAATATCATTTATTAC
1 TAATTAAATATCATATATTAC
83053849 TAA-TAAATAT-ATATATTA-
1 TAATTAAATATCATATATTAC
83053867 TAATTAAA
1 TAATTAAA
83053875 ATCTAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 6 0.26
21 3 0.13
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATTAAATATCATATATTAC
Found at i:83057182 original size:30 final size:30
Alignment explanation
Indices: 83057143--83057228 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
83057133 AAAACCCTAG
83057143 CCACCTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
83057173 CCACTTTGCCTCCCACTTGCACCTACTCCA
1 CCACCTTGCCTCCCACTTGCACCTACTCCA
*
83057203 CCACCTTGTCTCCCACTTGCACCTAC
1 CCACCTTGCCTCCCACTTGCACCTAC
83057229 ACCATCAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.16, C:0.51, G:0.07, T:0.26
Consensus pattern (30 bp):
CCACCTTGCCTCCCACTTGCACCTACTCCA
Found at i:83057744 original size:8 final size:8
Alignment explanation
Indices: 83057731--83057756 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
83057721 GAGAGCTTTG
83057731 TTTTATTT
1 TTTTATTT
83057739 TTTTATTT
1 TTTTATTT
83057747 TTTTATTT
1 TTTTATTT
83057755 TT
1 TT
83057757 ACTATTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTATTT
Found at i:83057762 original size:9 final size:9
Alignment explanation
Indices: 83057750--83057825 Score: 59
Period size: 9 Copynumber: 8.2 Consensus size: 9
83057740 TTTATTTTTT
83057750 TATT-TTTA
1 TATTATTTA
83057758 CTATTATTTA
1 -TATTATTTA
83057768 TATTA-TTA
1 TATTATTTA
*
83057776 TTATTATTTC
1 -TATTATTTA
*
83057786 TCATGTATATA
1 T-AT-TATTTA
83057797 TTATTATTTA
1 -TATTATTTA
83057807 TATTA-TTA
1 TATTATTTA
*
83057815 TATTATATA
1 TATTATTTA
83057824 TA
1 TA
83057826 CACTCTCCAT
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 11 0.20
9 24 0.44
10 13 0.24
11 6 0.11
12 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
TATTATTTA
Found at i:83057783 original size:12 final size:13
Alignment explanation
Indices: 83057759--83057815 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 13
83057749 TTATTTTTAC
83057759 TATTATT-TATAT
1 TATTATTATATAT
83057771 TATTATTAT-TAT
1 TATTATTATATAT
83057783 T-TCTCATGTATATAT
1 TAT-T-AT-TATATAT
83057798 TATTATT-TATAT
1 TATTATTATATAT
83057810 TATTAT
1 TATTAT
83057816 ATTATATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
11 1 0.03
12 23 0.59
13 4 0.10
14 5 0.13
15 5 0.13
16 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTATTATATAT
Found at i:83057798 original size:21 final size:18
Alignment explanation
Indices: 83057741--83057825 Score: 84
Period size: 18 Copynumber: 4.7 Consensus size: 18
83057731 TTTTATTTTT
* *
83057741 TTATT-TTTTTATTTTTA
1 TTATTATTTATATTATTA
*
83057758 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
83057776 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
83057797 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
83057815 -TATTATATATA
1 TTATTATTTATA
83057826 CACTCTCCAT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
17 14 0.25
18 21 0.37
19 5 0.09
20 5 0.09
21 12 0.21
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:83057821 original size:27 final size:26
Alignment explanation
Indices: 83057749--83057824 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
83057739 TTTTATTTTT
* *
83057749 TTATTTTTACTATTATTTATATTATTA
1 TTATTTATATTATTATTTATA-TATTA
* * *
83057776 TTA-TTAT-TTCTCATGTATATATTA
1 TTATTTATATTATTATTTATATATTA
83057800 TTATTTATATTATTATATTATATAT
1 TTATTTATATTATTAT-TTATATAT
83057825 ACACTCTCCA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
24 8 0.21
25 12 0.32
26 8 0.21
27 10 0.26
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (26 bp):
TTATTTATATTATTATTTATATATTA
Found at i:83057901 original size:3 final size:3
Alignment explanation
Indices: 83057895--83057948 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
83057885 TTCTGACTAC
*
83057895 TAT TAT TAT ATAT ATAT GTAT TAT TGT T-T GTAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
83057943 TAT TAT
1 TAT TAT
83057949 CACCCCTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 34 0.74
4 11 0.24
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:83070042 original size:42 final size:42
Alignment explanation
Indices: 83069907--83070393 Score: 201
Period size: 44 Copynumber: 11.3 Consensus size: 42
83069897 GGCCTTAAAC
* * *
83069907 CCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATTT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTGAAGATCTTATCT
* * * *
83069949 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CGAAGAGTCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTGAAGA-TCTT-ATCT
*
83069993 CCCTAAGCAGTAGGGTAACAGACCAAATTGTAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTGAAGATCTTATCT
* * * * *
83070035 CCCTAAGCAGTAGTGG-AGCAGATCGAAGA-CGAAGGGTCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTGAA-GATCTT-ATCT
* *
83070079 CCCTAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTGAAGATCTTATCT
* * * ** ** *
83070121 CCCTACGCAGTAGTGG-AGCAGATCAAAGACGAAGGGCCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGACCAAA-TTGAA-GATCTT-ATCT
* * * * ** * *
83070165 CCCGAAGCAGTAGGGTAACAGGCTGAATTTCCAGATCTTAACC
1 CCCTAAGCAGTAGGGTAACAGAC-CAAATTGAAGATCTTATCT
* * * * * *
83070208 CCCTATA-CAATAGGGAAACAGATCGAAGA-CGAAGGGTCTTAAAC-
1 CCCTA-AGCAGTAGGGTAACAGA-CCAA-ATTGAA-GATCTT-ATCT
* *
83070252 CCCTAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGACCAAATTGAAGATCTTATCT
* * * * *
83070294 CCCTAAGCAGTAGTGG-AGCAAATCGAAGA-CGAAGAGTCTTAAAC-
1 CCCTAAGCAGTAG-GGTAACAGA-CCAA-ATTGAAGA-TCTT-ATCT
* ** * *
83070338 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCC
1 CCCTAAGCAGTAGGGTAACAGACCAAATTGA-AGATCTTATCT
83070381 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
83070394 TGGAGCAGAT
Statistics
Matches: 325, Mismatches: 80, Indels: 79
0.67 0.17 0.16
Matches are distributed among these distances:
41 6 0.02
42 95 0.29
43 98 0.30
44 114 0.35
45 12 0.04
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGACCAAATTGAAGATCTTATCT
Found at i:83070242 original size:87 final size:87
Alignment explanation
Indices: 83069843--83071054 Score: 1216
Period size: 87 Copynumber: 14.0 Consensus size: 87
83069833 CTAGAATCAG
* * * ** *
83069843 TGAATTTACAGATCTTATA-TCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAAC
1 TGAATTTACAGATCTTA-ACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAAC
*
83069907 CCCTAAGCAGTAGGGTAACAGAC
65 CCCTAAGCAGTAGGGTAACAGGC
* * *** * * *
83069930 CGAA-TTGCAGATCTTATTTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGAGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
*
83069993 CCCTAAGCAGTAGGGTAACAGAC
65 CCCTAAGCAGTAGGGTAACAGGC
** * * * *
83070016 CAAATTGT--AGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAA
1 TGAATT-TACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAA
* *
83070078 CCCCTAAGTAGTAGGGTAACAGAC
64 CCCCTAAGCAGTAGGGTAACAGGC
* * * * * * * *
83070102 -CAAATTGCAGATCTTATCTCCCTACGCAGTAGTGG-AGCAGATCAAAGACGAAGGGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
*
83070165 CCCGAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * *
83070188 TGAATTTCCAGATCTTAACCCCCTATA-CAATAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTA-AGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAAC
* *
83070252 CCCTAAGTAGTAGGGTAACAGAC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * * * * * * *
83070275 -CAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AGCAAATCGAAGACGAAGAGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
83070338 CCCTAAGCAGTAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * * *
83070361 TGAATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGGCG-ATGGCCTTAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
*
83070424 CCCTAAGCAGTAGGGTAGCAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * *
83070447 TAAATTTACAGATCTTAACCTCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
*
83070512 CCTAAGCAGTAGGGTAACAGGT
66 CCTAAGCAGTAGGGTAACAGGC
* * * * *
83070534 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGGACCTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
* *
83070599 CCTAAGCAGTAAGATAACAGGC
66 CCTAAGCAGTAGGGTAACAGGC
* * *
83070621 TGAATTTACAGATCTTAACCCCCTAAGTAGTAGGAAAACAGATCGAAGGC-AATGGGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAA-GGGCCTTAAAC
* *
83070685 CTCTAAGCAATAGGGTAACAGGC
65 CCCTAAGCAGTAGGGTAACAGGC
* * * *
83070708 TGAATTTACAAATCTTAACCCCCTAAGCAGTAGAGAAACAGATCAAAGACGATA-AGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAAC
*
83070772 CCCTAAGCAGTAGGGTAACAGGT
65 CCCTAAGCAGTAGGGTAACAGGC
* * * ** *
83070795 TAAATTTACAGA---T-----CCTAAACAGTAGAGAAACAGATCGAAGGTGACA-AGCCTTAAAA
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTT-AAA
**
83070851 CCTTTAAGCAGTAGGGTAACAGGC
64 CCCCTAAGCAGTAGGGTAACAGGC
* ** *
83070875 TGAAGATTTACAGATCTTAAACCCCCTAAGCAGTAGGGAAACAGATAGAAGGTGACA-AGCCTT-
1 TG-A-ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTA
** * *
83070938 AACCCCTAAATAGTAGGATAATAGGC
62 AACCCCTAAGCAGTAGGGTAACAGGC
* * * *
83070964 TAAATTTACAGATCTTAACACCCTAAGCAGTAGGGAAACAGATCGAAGCCGATGGGCCTTAAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
* * *
83071029 CCTAAGCAGTAAGGTACCAAGC
66 CCTAAGCAGTAGGGTAACAGGC
83071051 TGAA
1 TGAA
83071055 AATTAAAACT
Statistics
Matches: 960, Mismatches: 134, Indels: 62
0.83 0.12 0.05
Matches are distributed among these distances:
79 34 0.04
80 25 0.03
81 1 0.00
82 9 0.01
84 2 0.00
85 7 0.01
86 400 0.42
87 421 0.44
88 3 0.00
89 22 0.02
91 36 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (87 bp):
TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
CCTAAGCAGTAGGGTAACAGGC
Found at i:83070286 original size:173 final size:173
Alignment explanation
Indices: 83069843--83071054 Score: 1194
Period size: 173 Copynumber: 7.0 Consensus size: 173
83069833 CTAGAATCAG
* * * ** *
83069843 TGAATTTACAGATCTTATA-TCCCTAAGCAGTAGGGAAACAAATCGAGGTTGATGGGCCTTAAAC
1 TGAATTTACAGATCTTA-ACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAAC
* *
83069907 CCCTAAGCAGTAGGGTAACAGACCGAATTGCAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGAT
65 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* * *
83069972 CGAAGACGAAGAGTCTTAAACCCCTAAGCAGTAGGGTAACAGAC
130 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
** * * * *
83070016 CAAATTGT--AGATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGGGTCTTAAA
1 TGAATT-TACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAA
* *
83070078 CCCCTAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTACGCAGTAGTGGAGCAGA
64 CCCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *
83070143 TCAAAGACGAAGGGCCTTAAACCCCGAAGCAGTAGGGTAACAGGC
129 TCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * *
83070188 TGAATTTCCAGATCTTAACCCCCTATA-CAATAGGGAAACAGATCGAAGACGAAGGGTCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTA-AGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAAC
* *
83070252 CCCTAAGTAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAAT
65 CCCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
* *
83070317 CGAAGACGAAGAGTCTTAAACCCCTAAGCAGTAGGGTAACAGGC
130 CGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
83070361 TGAATTTACAGATCTTATCCCCCTAAGCAGTAGTGG-AGCAGATCGAAGGCG-ATGGCCTTAACC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAG-GGAAACAGATCGAAGACGAAGGGCCTTAAAC
* * * * * *
83070424 CCCTAAGCAGTAGGGTAGCAGGCTAAATTTACAGATCTTAAC-CTCCTAAGCAGTAG-GGAAACA
65 CCCTAAGCAGTAGGGTAACAGACCAAA-TTGCAGATCTTATCTC-CCTAAGCAGTAGTGG-AGCA
* * *
83070487 GATCGAAGATGATGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGT
127 GATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * * *
83070534 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAAATCGAAGGCGATGGACCTTAACCC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
* * * * * * * * * * *
83070599 CCTAAGCAGTAAGATAACAGGCTGAATTTACAGATCTTAACCCCCTAAGTAGTAG-GAAAACAGA
66 CCTAAGCAGTAGGGTAACAGAC-CAAATTGCAGATCTTATCTCCCTAAGCAGTAGTG-GAGCAGA
* * *
83070663 TCGAAGGC-AATGGGCCTTAAACCTCTAAGCAATAGGGTAACAGGC
129 TCGAAGACGAA-GGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
* * * *
83070708 TGAATTTACAAATCTTAACCCCCTAAGCAGTAGAGAAACAGATCAAAGACGATA-AGCCTTAAAC
1 TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTAAAC
*** * * * * *
83070772 CCCTAAGCAGTAGGGTAACAGGTTAAATTTACAG-----A--T-CCTAAACAGTAGAGAAACAGA
65 CCCTAAGCAGTAGGGTAACAGACCAAA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** * **
83070829 TCGAAGGTGACA-AGCCTTAAAACCTTTAAGCAGTAGGGTAACAGGC
129 TCGAAGACGA-AGGGCCTT-AAACCCCTAAGCAGTAGGGTAACAGGC
* ** *
83070875 TGAAGATTTACAGATCTTAAACCCCCTAAGCAGTAGGGAAACAGATAGAAGGTGACA-AGCCTT-
1 TG-A-ATTTACAGATCTT-AACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGA-AGGGCCTTA
** * * * * * * * *
83070938 AACCCCTAAATAGTAGGATAATAGGCTAAATTTACAGATCTTAACACCCTAAGCAGTAG-GGAAA
62 AACCCCTAAGCAGTAGGGTAACAGACCAAA-TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-AG
* * * * *
83071002 CAGATCGAAGCCGATGGGCCTTAAACCCCTAAGCAGTAAGGTACCAAGC
125 CAGATCGAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
83071051 TGAA
1 TGAA
83071055 AATTAAAACT
Statistics
Matches: 886, Mismatches: 116, Indels: 73
0.82 0.11 0.07
Matches are distributed among these distances:
166 29 0.03
167 29 0.03
168 2 0.00
169 45 0.05
170 38 0.04
171 1 0.00
172 187 0.21
173 312 0.35
174 184 0.21
175 4 0.00
176 25 0.03
177 30 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (173 bp):
TGAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGCCTTAAACC
CCTAAGCAGTAGGGTAACAGACCAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
GAAGACGAAGGGCCTTAAACCCCTAAGCAGTAGGGTAACAGGC
Found at i:83070391 original size:43 final size:43
Alignment explanation
Indices: 83070158--83071004 Score: 304
Period size: 43 Copynumber: 19.7 Consensus size: 43
83070148 GACGAAGGGC
* * * *
83070158 CTTAAACCCCGAAGCAGTAGGGTAACAGGCTGAATTTCCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* * * *
83070201 CTTAACCCCCTATA-CAATAGGGAAACA-GATCGAA--GACGAAGGGT
1 CTTAACCCCCTA-AGCAGTAGGGTAACAGGAT-GAATTTAC--A-GAT
* * ** * *
83070245 CTTAAACCCCTAAGTAGTAGGGTAACA-GACCAAATTGCAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* * * * *
83070287 CTTATCTCCCTAAGCAGTAGTGG-AGCA-AATCGAA--GACGAAGAGT
1 CTTAACCCCCTAAGCAGTAG-GGTAACAGGAT-GAATTTAC--AGA-T
* *
83070331 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* * **
83070374 CTTATCCCCCTAAGCAGTAGTGG-AGCA-GATCGAA--GGC-GAT
1 CTTAACCCCCTAAGCAGTAG-GGTAACAGGAT-GAATTTACAGAT
* * *
83070414 GGCCTTAACCCCCTAAGCAGTAGGGTAGCAGGCTAAATTTACAGAT
1 ---CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* * * * ** **
83070460 CTTAACCTCCTAAGCAGTAGGGAAACA-GATCGAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGAT-GAA-TTTACAGAT
* *
83070504 CTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* * *** ** *
83070547 CTTAACCCCCTAAGCAGTAGGGAAACA-AATCGAAGGCGATGGAC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGAT-GAA-TTTACAGAT
* * *
83070591 CTTAACCCCCTAAGCAGTAAGATAACAGGCTGAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* ** *** **
83070634 CTTAACCCCCTAAGTAGTAGGAAAACA-GATCGAAGGCA-ATGGGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGAT-GAATTTACA--GAT
* * * * *
83070678 CTTAAACCTCTAAGCAATAGGGTAACAGGCTGAATTTACAAAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* * * **
83070721 CTTAACCCCCTAAGCAGTAGAGAAACA-GATCAA-AGAC-GAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* * *
83070761 AAGCCTTAAACCCCTAAGCAGTAGGGTAACAGGTTAAATTTACAGA-
1 ----CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* * * * * *
83070807 --T-----CCTAAACAGTAGAGAAACA-GATCGAAGGTGACA-AGC
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGAT-GAA-TTTACAGA-T
* ** *
83070844 CTTAAAACCTTTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGAT
1 CTT-AACCCCCTAAGCAGTAGGGTAACAGGATG-A-ATTTACAGAT
* * * *
83070890 CTTAAACCCCCTAAGCAGTAGGGAAACA-GATAGAAGGTGACA-AGC
1 CTT-AACCCCCTAAGCAGTAGGGTAACAGGAT-GAA-TTTACAGA-T
** * * * *
83070935 CTTAA-CCCCTAAATAGTAGGATAATAGGCTAAATTTACAGAT
1 CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
* *
83070977 CTTAACACCCTAAGCAGTAGGGAAACAG
1 CTTAACCCCCTAAGCAGTAGGGTAACAG
83071005 ATCGAAGCCG
Statistics
Matches: 571, Mismatches: 166, Indels: 134
0.66 0.19 0.15
Matches are distributed among these distances:
34 2 0.00
35 19 0.03
36 4 0.01
39 1 0.00
40 6 0.01
41 5 0.01
42 47 0.08
43 233 0.41
44 173 0.30
45 38 0.07
46 39 0.07
47 4 0.01
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (43 bp):
CTTAACCCCCTAAGCAGTAGGGTAACAGGATGAATTTACAGAT
Found at i:83071606 original size:30 final size:30
Alignment explanation
Indices: 83071572--83071716 Score: 272
Period size: 30 Copynumber: 4.8 Consensus size: 30
83071562 AAACCCTAGA
83071572 CACCTTGCCTCCCACTTGCACCTACTCCAC
1 CACCTTGCCTCCCACTTGCACCTACTCCAC
83071602 CACCTTGCCTCCCACTTGCACCTACTCCAC
1 CACCTTGCCTCCCACTTGCACCTACTCCAC
*
83071632 CACCTTGTCTCCCACTTGCACCTACTCCAC
1 CACCTTGCCTCCCACTTGCACCTACTCCAC
83071662 CACCTTGCCTCCCACTTGCACCTACTCCAC
1 CACCTTGCCTCCCACTTGCACCTACTCCAC
*
83071692 CACCTTGTCTCCCACTTGCACCTAC
1 CACCTTGCCTCCCACTTGCACCTAC
83071717 ACCATCAAAT
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 112 1.00
ACGTcount: A:0.17, C:0.52, G:0.07, T:0.25
Consensus pattern (30 bp):
CACCTTGCCTCCCACTTGCACCTACTCCAC
Found at i:83071713 original size:18 final size:18
Alignment explanation
Indices: 83071572--83071714 Score: 73
Period size: 15 Copynumber: 9.3 Consensus size: 18
83071562 AAACCCTAGA
*
83071572 CACCTTGCCTCCCACTTG
1 CACCTTGACTCCCACTTG
83071590 CACC-T-ACT-CCAC---
1 CACCTTGACTCCCACTTG
*
83071602 CACCTTGCCTCCCACTTG
1 CACCTTGACTCCCACTTG
83071620 CACC-T-ACT-CCAC---
1 CACCTTGACTCCCACTTG
*
83071632 CACCTTGTCTCCCACTTG
1 CACCTTGACTCCCACTTG
83071650 CACC-T-ACT-CCAC---
1 CACCTTGACTCCCACTTG
*
83071662 CACCTTGCCTCCCACTTG
1 CACCTTGACTCCCACTTG
83071680 CACC-T-ACT-CCAC---
1 CACCTTGACTCCCACTTG
*
83071692 CACCTTGTCTCCCACTTG
1 CACCTTGACTCCCACTTG
83071710 CACCT
1 CACCT
83071715 ACACCATCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 48
0.62 0.05 0.32
Matches are distributed among these distances:
12 16 0.17
13 4 0.04
14 8 0.09
15 32 0.34
16 8 0.09
17 4 0.04
18 21 0.23
ACGTcount: A:0.16, C:0.52, G:0.07, T:0.25
Consensus pattern (18 bp):
CACCTTGACTCCCACTTG
Found at i:83072239 original size:3 final size:3
Alignment explanation
Indices: 83072228--83072362 Score: 50
Period size: 3 Copynumber: 44.0 Consensus size: 3
83072218 TTTTATTTTT
* * * *
83072228 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA CTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * *
83072272 TTG TTA CTT- CTA TTA TT- TT- TTA TT- TCTGA CTA CTA TTA TTA TATA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA T-T-A TTA TTA TTA TTA T-TA
*
83072317 TCTA TATA TATA TGTA TTA TTG TT- TGTA TTA TTA TTA TTA TTA TTA
1 T-TA T-TA T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
83072363 CGCCTATTGG
Statistics
Matches: 102, Mismatches: 18, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
2 10 0.10
3 71 0.70
4 21 0.21
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:83072251 original size:15 final size:15
Alignment explanation
Indices: 83072220--83072291 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
83072210 GAGCTTTGTT
*
83072220 TTATT-TTTTTA-TT
1 TTATTATTTTTACTA
83072233 TTATTATTTTTACTA
1 TTATTATTTTTACTA
83072248 TTATTTATATTATTACTA
1 TTA-TTAT-TT-TTACTA
* *
83072266 TCATTATTGTTACT-
1 TTATTATTTTTACTA
83072280 TCTATTATTTTT
1 T-TATTATTTTT
83072292 TATTTCTGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
13 5 0.10
14 7 0.15
15 17 0.35
16 5 0.10
17 6 0.12
18 8 0.17
ACGTcount: A:0.24, C:0.07, G:0.01, T:0.68
Consensus pattern (15 bp):
TTATTATTTTTACTA
Found at i:83072559 original size:3 final size:3
Alignment explanation
Indices: 83072551--83072584 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
83072541 ATTTCTATAT
83072551 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
83072585 ATAGTAGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:83075926 original size:24 final size:24
Alignment explanation
Indices: 83075894--83075940 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
83075884 GACTTTAATG
* *
83075894 TTTACTTTGGTACCTCAGTTTTTT
1 TTTAATTTGATACCTCAGTTTTTT
* *
83075918 TTTAATTTGATACTTTAGTTTTT
1 TTTAATTTGATACCTCAGTTTTT
83075941 CTTTGGCCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.62
Consensus pattern (24 bp):
TTTAATTTGATACCTCAGTTTTTT
Found at i:83088150 original size:112 final size:112
Alignment explanation
Indices: 83087953--83088178 Score: 452
Period size: 112 Copynumber: 2.0 Consensus size: 112
83087943 GAGTTGGTGT
83087953 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
1 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
83088018 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
66 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
83088065 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
1 GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
83088130 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
66 ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
83088177 GT
1 GT
83088179 TATGATAAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
112 114 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.40
Consensus pattern (112 bp):
GTAGCGGATGGGGTAAGATCTGTAACTGCATTTGTATCTGAATTTGTGTCTACATCTGTATCTAA
ACCTGTGTTTGCATTTATATCTGAACATGTATATGTATCCATATTTG
Found at i:83088355 original size:59 final size:59
Alignment explanation
Indices: 83088263--83088383 Score: 242
Period size: 59 Copynumber: 2.1 Consensus size: 59
83088253 GTGTTTCCAA
83088263 TTTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGT
1 TTTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGT
83088322 TTTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGT
1 TTTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGT
83088381 TTT
1 TTT
83088384 AGGTGAACTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.17, C:0.13, G:0.20, T:0.50
Consensus pattern (59 bp):
TTTGTTGCTTGGGATGTGTTATACATTGGGCTTTTAGCTCACTCATTTATTTAATTCGT
Found at i:83099015 original size:336 final size:337
Alignment explanation
Indices: 83098395--83099071 Score: 1239
Period size: 336 Copynumber: 2.0 Consensus size: 337
83098385 CCGGAAAAAA
* *
83098395 AACTAGTCAGTTAATAATAAATCAAGACCAGCGATAGGAGTTAATGAGGCCCATCGAAACATGAA
1 AACTAGTCAGTTAATAATAAACCAAGACCAGCGATAGGAGTTAATGAGGCCCATCAAAACATGAA
83098460 AGCAGGAAAAAGTAAGAAACATCCCTAAAGAATTACCATAGTTTGCTCATTATGAGTTCAACAGA
66 AGCAGGAAAAAGTAAGAAACATCCCTAAAGAATTACCATAGTTTGCTCATTATGAGTTCAACAGA
83098525 CCAGTTAAGAGTTGAGATCATTTCATTTACATAGTAAAAGAGAAGGTCCACTAATAAACCGAAAG
131 CCAGTTAAGAGTTGAGATCATTTCATTTACATAGTAAAAGAGAAGGTCCACTAATAAACCGAAAG
*
83098590 TAGTTTTCCTGTTGATTGTGGATTTACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
196 TAGTTTTCCTGTTGATTGTGGATATACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
*
83098655 TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTGTAC
261 TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTATAC
* *
83098720 CAAGGTATAAAT
326 CAAGATACAAAT
* **
83098732 AACTAG-CAGTTAATAATAAACCAAGACCAGCGATATGAGTTAATGAGGCCCATCAAAATGTGAA
1 AACTAGTCAGTTAATAATAAACCAAGACCAGCGATAGGAGTTAATGAGGCCCATCAAAACATGAA
*
83098796 AGCAGGAAAAAGTAAGAAACATCCCTAAAGTATTACCATAGTTTGCTCATTATGAGTTCAACAGA
66 AGCAGGAAAAAGTAAGAAACATCCCTAAAGAATTACCATAGTTTGCTCATTATGAGTTCAACAGA
* *
83098861 CCAGTTAAGAGTTGAGATCATTTCATTTACATGGTAAAAGAGAAGGTCCACTAATAAACCGAACG
131 CCAGTTAAGAGTTGAGATCATTTCATTTACATAGTAAAAGAGAAGGTCCACTAATAAACCGAAAG
83098926 TAGTTTTCCTGTTGATTGTGGATATACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
196 TAGTTTTCCTGTTGATTGTGGATATACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
83098991 TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTATAC
261 TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTATAC
83099056 CAAGATACAAAT
326 CAAGATACAAAT
83099068 AACT
1 AACT
83099072 GATAGAAAAA
Statistics
Matches: 328, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
336 322 0.98
337 6 0.02
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (337 bp):
AACTAGTCAGTTAATAATAAACCAAGACCAGCGATAGGAGTTAATGAGGCCCATCAAAACATGAA
AGCAGGAAAAAGTAAGAAACATCCCTAAAGAATTACCATAGTTTGCTCATTATGAGTTCAACAGA
CCAGTTAAGAGTTGAGATCATTTCATTTACATAGTAAAAGAGAAGGTCCACTAATAAACCGAAAG
TAGTTTTCCTGTTGATTGTGGATATACTTTACTTTTTTGCTAATATGACTTAGACATAAATATGA
TCTATACATACACACACATAAGCACCAAAGAATGACTGAATTCACCTTATCATGCAACTGTATAC
CAAGATACAAAT
Found at i:83102069 original size:15 final size:15
Alignment explanation
Indices: 83102034--83102074 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
83102024 TGATTATTTG
83102034 AGTTTATTAA-AAAT
1 AGTTTATTAATAAAT
* *
83102048 AGATTATTAATCAAT
1 AGTTTATTAATAAAT
83102063 AGTTTATTAATA
1 AGTTTATTAATA
83102075 TTAGAATAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.44
Consensus pattern (15 bp):
AGTTTATTAATAAAT
Found at i:83112287 original size:21 final size:22
Alignment explanation
Indices: 83112237--83112288 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
83112227 GAGAAAATGA
* *
83112237 AATGAATAAGTGATATGTTATGG
1 AATG-ATAAATGATATGTGATGG
*
83112260 AAT-ATAAATGA-ATGTGATGT
1 AATGATAAATGATATGTGATGG
83112280 AATGATAAA
1 AATGATAAA
83112289 AAACATAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 10 0.40
21 12 0.48
23 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (22 bp):
AATGATAAATGATATGTGATGG
Found at i:83114639 original size:37 final size:37
Alignment explanation
Indices: 83114598--83114746 Score: 158
Period size: 37 Copynumber: 4.1 Consensus size: 37
83114588 GGAGGATGTA
* ** *
83114598 TAGCTCGTATGAGCATTTGATGTGTTTTCGGTTGCAT
1 TAGCTCTTATGAGCATTTGGCGTGTTTTCGGTTGGAT
**
83114635 TAGCTCTTATGAGCATTTGGCGTGTTACCGGTTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTTTCGGTTGGAT
* * *
83114672 TAGCTCTT-TAGACCACTTGGCATGTTTTCGGTTGGAT
1 TAGCTCTTAT-GAGCATTTGGCGTGTTTTCGGTTGGAT
** * *
83114709 TAGCTCTTATGAGTGTTTGGCATG-TTTCGGGTGGAT
1 TAGCTCTTATGAGCATTTGGCGTGTTTTCGGTTGGAT
83114745 TA
1 TA
83114747 CTTTTGTACC
Statistics
Matches: 94, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
36 14 0.15
37 79 0.84
38 1 0.01
ACGTcount: A:0.16, C:0.15, G:0.28, T:0.41
Consensus pattern (37 bp):
TAGCTCTTATGAGCATTTGGCGTGTTTTCGGTTGGAT
Found at i:83118992 original size:16 final size:18
Alignment explanation
Indices: 83118965--83118998 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
83118955 TAGAATTGGG
83118965 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
83118982 TTGAG-AAATTAATTTAA
1 TTGAGAAAATTAATTTAA
83118999 GATATTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:83120647 original size:17 final size:19
Alignment explanation
Indices: 83120627--83120664 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
83120617 CAGGGGAAGG
83120627 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
83120644 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
83120663 AA
1 AA
83120665 TTGAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:83122397 original size:23 final size:24
Alignment explanation
Indices: 83122359--83122406 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
83122349 TTATAAAAAT
83122359 ATAAAAATATTAATTT-AAATTAA
1 ATAAAAATATTAATTTAAAATTAA
83122382 ATAAAAA-ATTACATTTCAAAATTAA
1 ATAAAAATATTA-ATTT-AAAATTAA
83122407 TGTTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
25 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.35
Consensus pattern (24 bp):
ATAAAAATATTAATTTAAAATTAA
Found at i:83124287 original size:71 final size:71
Alignment explanation
Indices: 83124212--83124349 Score: 276
Period size: 71 Copynumber: 1.9 Consensus size: 71
83124202 TTGTATGTTC
83124212 AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAATTTTTTATGATTATATTTTAATAAA
1 AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAATTTTTTATGATTATATTTTAATAAA
83124277 TTGATA
66 TTGATA
83124283 AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAATTTTTTATGATTATATTTTAATAAA
1 AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAATTTTTTATGATTATATTTTAATAAA
83124348 TT
66 TT
83124350 TCTTTCTCAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.50
Consensus pattern (71 bp):
AATGTTTAAATATTTAATTACAATATTAACTTTGAGATAATTTTTTATGATTATATTTTAATAAA
TTGATA
Found at i:83132463 original size:25 final size:25
Alignment explanation
Indices: 83132424--83132471 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
83132414 CCTCCCCGGG
83132424 TTTTCTTTTTCTTCTTTTTCAAAGT
1 TTTTCTTTTTCTTCTTTTTCAAAGT
83132449 TTTTCTTTATT-TTCTTTTTCAAA
1 TTTTCTTT-TTCTTCTTTTTCAAA
83132472 ACGGGTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTTCTTCTTTTTCAAAGT
Found at i:83136313 original size:21 final size:21
Alignment explanation
Indices: 83136287--83136334 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
83136277 ATTTAGGGAG
83136287 CTCACACGGGCGCGTGACACC
1 CTCACACGGGCGCGTGACACC
* *
83136308 CTCACACGGGCGTGTGAGACC
1 CTCACACGGGCGCGTGACACC
83136329 CTCACA
1 CTCACA
83136335 TGGCCGTGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.40, G:0.27, T:0.12
Consensus pattern (21 bp):
CTCACACGGGCGCGTGACACC
Found at i:83136342 original size:21 final size:21
Alignment explanation
Indices: 83136287--83136344 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
83136277 ATTTAGGGAG
* *
83136287 CTCACACGGGCGCGTGACACC
1 CTCACACGGCCGTGTGACACC
* *
83136308 CTCACACGGGCGTGTGAGACC
1 CTCACACGGCCGTGTGACACC
*
83136329 CTCACATGGCCGTGTG
1 CTCACACGGCCGTGTG
83136345 TACCATGTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.17, C:0.36, G:0.31, T:0.16
Consensus pattern (21 bp):
CTCACACGGCCGTGTGACACC
Found at i:83151438 original size:17 final size:16
Alignment explanation
Indices: 83151412--83151459 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
83151402 TTAGAATTGG
*
83151412 ATTGAGAAAATTATTT
1 ATTGAAAAAATTATTT
83151428 AATTGAAAAAATTAATTT
1 -ATTGAAAAAATT-ATTT
*
83151446 ATTAAAAATAATTA
1 ATTGAAAA-AATTA
83151460 ATAAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
ATTGAAAAAATTATTT
Found at i:83151458 original size:18 final size:18
Alignment explanation
Indices: 83151418--83151461 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
83151408 TTGGATTGAG
*
83151418 AAAATT-ATTTAATTGAA
1 AAAATTAATTTAATTAAA
83151435 AAAATTAATTT-ATTAAA
1 AAAATTAATTTAATTAAA
83151452 AATAATTAAT
1 AA-AATTAAT
83151462 AAATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAATTAATTTAATTAAA
Found at i:83156670 original size:3 final size:3
Alignment explanation
Indices: 83156626--83156656 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
83156616 TATATTAAAC
*
83156626 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
83156657 TAATAGCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:83156909 original size:23 final size:22
Alignment explanation
Indices: 83156858--83156909 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 22
83156848 AATGTATGGT
83156858 ATGTATAATTACATGTGTAATA
1 ATGTATAATTACATGTGTAATA
* *
83156880 TTAGTATACA-TACATTTGTAATA
1 AT-GTATA-ATTACATGTGTAATA
83156903 CATGTAT
1 -ATGTAT
83156910 GTTTACTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 1 0.04
23 21 0.88
24 2 0.08
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (22 bp):
ATGTATAATTACATGTGTAATA
Found at i:83158440 original size:18 final size:19
Alignment explanation
Indices: 83158419--83158459 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
83158409 AATGAAATGA
83158419 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
83158437 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
83158456 GAAA
1 GAAA
83158460 CATGAACCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:83163666 original size:13 final size:13
Alignment explanation
Indices: 83163648--83163672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83163638 GGGCCTACAT
83163648 GGGTAAACCACAC
1 GGGTAAACCACAC
83163661 GGGTAAACCACA
1 GGGTAAACCACA
83163673 TGGGCGTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.24, T:0.08
Consensus pattern (13 bp):
GGGTAAACCACAC
Found at i:83171371 original size:18 final size:19
Alignment explanation
Indices: 83171333--83171373 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
83171323 TTGGTTCATG
83171333 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
83171352 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
83171370 TTTC
1 TTTC
83171374 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:83172861 original size:11 final size:12
Alignment explanation
Indices: 83172842--83172875 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
83172832 TATATATATA
83172842 TATATAATAACT
1 TATATAATAACT
83172854 TA-ATAATATACT
1 TATATAATA-ACT
83172866 TATATAATAA
1 TATATAATAA
83172876 GTAAACATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATAACT
Found at i:83177083 original size:26 final size:26
Alignment explanation
Indices: 83177053--83177108 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
83177043 TGAAATGCCC
* * *
83177053 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAAAATTTACCTAACCAATT
83177079 ATCATGAAAAATTTACCTAACCAATT
1 ATCATGAAAAATTTACCTAACCAATT
83177105 ATCA
1 ATCA
83177109 ATTTGTACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAAAATTTACCTAACCAATT
Found at i:83184146 original size:26 final size:26
Alignment explanation
Indices: 83184116--83184197 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
83184106 TGAAATGCCC
83184116 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83184142 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83184168 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
83184194 ATCA
1 ATCA
83184198 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:83188029 original size:12 final size:12
Alignment explanation
Indices: 83188007--83188041 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
83187997 TTAGGCCCCT
*
83188007 CCACAGCCTCTA
1 CCACGGCCTCTA
*
83188019 TCACGGCCTCTA
1 CCACGGCCTCTA
83188031 CCACGGCCTCT
1 CCACGGCCTCT
83188042 TATACCCCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.17, C:0.49, G:0.14, T:0.20
Consensus pattern (12 bp):
CCACGGCCTCTA
Found at i:83189651 original size:18 final size:17
Alignment explanation
Indices: 83189628--83189669 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
83189618 GGCCTAAAAT
83189628 CCCACACA-CTCGTGTGAA
1 CCCACACACCT-GTGTG-A
*
83189646 CCCACACGCCTGTGTGA
1 CCCACACACCTGTGTGA
83189663 CCCACAC
1 CCCACAC
83189670 GGTCTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 12 0.55
19 2 0.09
ACGTcount: A:0.24, C:0.45, G:0.17, T:0.14
Consensus pattern (17 bp):
CCCACACACCTGTGTGA
Found at i:83195286 original size:86 final size:86
Alignment explanation
Indices: 83195141--83195312 Score: 344
Period size: 86 Copynumber: 2.0 Consensus size: 86
83195131 AACATTAGGA
83195141 TTAGTGGGATTGAACTAGATTAAATTTACTTAAACCAAATGAATTAAATTTTAATAAAGTATATA
1 TTAGTGGGATTGAACTAGATTAAATTTACTTAAACCAAATGAATTAAATTTTAATAAAGTATATA
83195206 AGTTAAATAAGTGGAGAGAAT
66 AGTTAAATAAGTGGAGAGAAT
83195227 TTAGTGGGATTGAACTAGATTAAATTTACTTAAACCAAATGAATTAAATTTTAATAAAGTATATA
1 TTAGTGGGATTGAACTAGATTAAATTTACTTAAACCAAATGAATTAAATTTTAATAAAGTATATA
83195292 AGTTAAATAAGTGGAGAGAAT
66 AGTTAAATAAGTGGAGAGAAT
83195313 AGTGTCATCT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 86 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.34
Consensus pattern (86 bp):
TTAGTGGGATTGAACTAGATTAAATTTACTTAAACCAAATGAATTAAATTTTAATAAAGTATATA
AGTTAAATAAGTGGAGAGAAT
Found at i:83207477 original size:326 final size:326
Alignment explanation
Indices: 83206884--83207544 Score: 873
Period size: 326 Copynumber: 2.0 Consensus size: 326
83206874 CTTTCTCTCC
* * * * *
83206884 CTATAAATATATGACACTTGTAAGGCTAAAAATACACAATTTTGAGATATTGTTAATTTGCCCGA
1 CTATAAATAAATAACACTTGCAAGGCTAAAAATACACAATTTTGAAATATTGTTAATTTGCCCAA
* *
83206949 AAATAGTGAGAATTTATTTTCTAAATATAAATTCTATTTTTAAGGAACAACAATGCTACCGATTT
66 AAATAGTAAGAATTTATTTTCTAAATATAAATTCTATTTTTAAGGAACAACAATGCTACCAATTT
* * * * *
83207014 CTATTGAAAAACAATTACTTTCCTACTAAAAGTAAGAAATTGTTTCTAGTTCTATGTTTCATTTG
131 CCATTGAAAAACAAGTAATTTCCTAATAAAAGTAAGAAATTGTTTCTAGTTCTATATTTCATTTG
* * * **
83207079 TGATTGTTTGAGCCCACACTTGGAGTGATGTGTCGTTCGAGAATAACAGAGAAGGTCATTCGCTA
196 TGATTGTTCGAGCCCACACTCGAAGTGATGTGTCGTTCGAGAATAACAGAGAAGGTCATTCAATA
* **
83207144 GAAAGCCGTGAATGTCTAGGAT-T-CATCT-CACTCAAAGCATAGGTACTTTTTGAGAAAACTTT
261 GAAAGCCGAGAACATCTAGGATCTGCAT-TGCA--CAAAGCATAGGTACTTTTTGAGAAAACTTT
*
83207206 ATTG
323 ATTA
* *
83207210 CTATAAATAAATAACACTTGCAGGGCTAAAAATACACAATTTTGAAATATTGTTATTTTGCCCAA
1 CTATAAATAAATAACACTTGCAAGGCTAAAAATACACAATTTTGAAATATTGTTAATTTGCCCAA
* * * *
83207275 AAATAGTAAGAATTTATTTTCTAAGTATAAATTCTATTTTTAAGGAACAACAATGTTGCTAATTT
66 AAATAGTAAGAATTTATTTTCTAAATATAAATTCTATTTTTAAGGAACAACAATGCTACCAATTT
* * * *
83207340 CCATTGAAAGAA-AAGTAATTTCCTAATGAAAGTAAGAAATTGTTTCTGGTTCTGTATTTGATTT
131 CCATTGAAA-AACAAGTAATTTCCTAATAAAAGTAAGAAATTGTTTCTAGTTCTATATTTCATTT
* * * **
83207404 GTGATTGTTCGAGCCC-CTACTCGAAGTGATTTGTTGTTCGAGAATAGCAGAGAAGGTTGTTCAA
195 GTGATTGTTCGAGCCCAC-ACTCGAAGTGATGTGTCGTTCGAGAATAACAGAGAAGGTCATTCAA
* * * *
83207468 TCGAAAGCCGAGAACATTTAGGATCTGCCTTGCACAAAGCATAGGTACTTTTTGAGAAAAGTTTA
259 TAGAAAGCCGAGAACATCTAGGATCTGCATTGCACAAAGCATAGGTACTTTTTGAGAAAACTTTA
83207533 TTA
324 TTA
*
83207536 TTATAAATA
1 CTATAAATA
83207545 TCACAAACAG
Statistics
Matches: 289, Mismatches: 41, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
325 1 0.00
326 280 0.97
327 4 0.01
328 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (326 bp):
CTATAAATAAATAACACTTGCAAGGCTAAAAATACACAATTTTGAAATATTGTTAATTTGCCCAA
AAATAGTAAGAATTTATTTTCTAAATATAAATTCTATTTTTAAGGAACAACAATGCTACCAATTT
CCATTGAAAAACAAGTAATTTCCTAATAAAAGTAAGAAATTGTTTCTAGTTCTATATTTCATTTG
TGATTGTTCGAGCCCACACTCGAAGTGATGTGTCGTTCGAGAATAACAGAGAAGGTCATTCAATA
GAAAGCCGAGAACATCTAGGATCTGCATTGCACAAAGCATAGGTACTTTTTGAGAAAACTTTATT
A
Found at i:83208786 original size:23 final size:23
Alignment explanation
Indices: 83208752--83208799 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
83208742 CCTCGAGTTT
* *
83208752 TCTTTTAGAAGAGTTTTTAACAA
1 TCTTTTAAAAGAGCTTTTAACAA
*
83208775 TCTTTTAAAAGAGCTTTTAGCAA
1 TCTTTTAAAAGAGCTTTTAACAA
83208798 TC
1 TC
83208800 ATTCAGATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (23 bp):
TCTTTTAAAAGAGCTTTTAACAA
Found at i:83215616 original size:105 final size:105
Alignment explanation
Indices: 83215432--83215645 Score: 311
Period size: 105 Copynumber: 2.0 Consensus size: 105
83215422 GAACTTTTCT
** * * *
83215432 TTTATCCAAGTTAGTCCTTGGACTTGGCAATAAACTAAGAAATTATTTATCCAATCAAAATAGTC
1 TTTATCCAAGTTAGTCCTTAAACTTGACAATAAACTAAAAAATTATTTATCCAATCAAAATAATC
* * * * * *
83215497 GAAATGATAGCATTTTAAAAATGGATCAAATGAAAATAAA
66 AAAATGATAACATTTTAAAAATGAAACAAAAGAAAACAAA
*
83215537 TTTATCCAAGTTAGTCTTTAAACTTGACAATAAACTAAAAAATTATTTATCCAATCAAAATAATC
1 TTTATCCAAGTTAGTCCTTAAACTTGACAATAAACTAAAAAATTATTTATCCAATCAAAATAATC
*
83215602 AAAATGCTAACATTTTAAAAATGAAACAAAAGAAAACAAA
66 AAAATGATAACATTTTAAAAATGAAACAAAAGAAAACAAA
83215642 TTTA
1 TTTA
83215646 AAATATTATC
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (105 bp):
TTTATCCAAGTTAGTCCTTAAACTTGACAATAAACTAAAAAATTATTTATCCAATCAAAATAATC
AAAATGATAACATTTTAAAAATGAAACAAAAGAAAACAAA
Found at i:83219227 original size:12 final size:13
Alignment explanation
Indices: 83219204--83219232 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
83219194 TGGGCCTCCC
83219204 ATATTAATTTTTT
1 ATATTAATTTTTT
83219217 ATATT-ATTTTTT
1 ATATTAATTTTTT
83219229 ATAT
1 ATAT
83219233 ATATAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:83222480 original size:24 final size:25
Alignment explanation
Indices: 83222447--83222502 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
83222437 TCTCATTTAA
*
83222447 TTAACAAATATA-TATTTTA-AAAAT
1 TTAA-AAATATATTATTTAATAAAAT
83222471 TATAAAAATATATTATTTAATAAAAT
1 T-TAAAAATATATTATTTAATAAAAT
83222497 TTAAAA
1 TTAAAA
83222503 GTAAACACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 8 0.29
25 14 0.50
26 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
TTAAAAATATATTATTTAATAAAAT
Found at i:83223055 original size:7 final size:7
Alignment explanation
Indices: 83223012--83223061 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
83223002 TTCCAAACTT
83223012 ATTTT-A
1 ATTTTCA
*
83223018 ATCTTCAA
1 ATTTTC-A
83223026 ATTTTC-
1 ATTTTCA
83223032 ATTTTCA
1 ATTTTCA
*
83223039 TTTTTCA
1 ATTTTCA
*
83223046 ATTTTGA
1 ATTTTCA
83223053 ATTTTCA
1 ATTTTCA
83223060 AT
1 AT
83223062 CCTCAATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
6 10 0.29
7 19 0.54
8 6 0.17
ACGTcount: A:0.28, C:0.12, G:0.02, T:0.58
Consensus pattern (7 bp):
ATTTTCA
Found at i:83224723 original size:22 final size:23
Alignment explanation
Indices: 83224635--83224761 Score: 125
Period size: 23 Copynumber: 5.4 Consensus size: 23
83224625 GAGCCATGAT
*
83224635 CAGTAAGCTCCTCTTGAGCTGAAGAA
1 CAGTAAGCTCAT-TTGAGCTG-A-AA
* *
83224661 TAGTAAGCTC-TATTGAGCTAAAA
1 CAGTAAGCTCAT-TTGAGCTGAAA
* *
83224684 CGGTAAGCTC-TATCGAGCTG-AA
1 CAGTAAGCTCAT-TTGAGCTGAAA
*
83224706 CAGGAAGCTCATTTGAGCTGAAA
1 CAGTAAGCTCATTTGAGCTGAAA
*
83224729 CAGTAAGCTCATTTGAGTTGAAA
1 CAGTAAGCTCATTTGAGCTGAAA
83224752 CAGTAAGCTC
1 CAGTAAGCTC
83224762 CTACAAGCTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
22 17 0.20
23 52 0.60
24 1 0.01
25 8 0.09
26 9 0.10
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (23 bp):
CAGTAAGCTCATTTGAGCTGAAA
Found at i:83224745 original size:68 final size:73
Alignment explanation
Indices: 83224615--83224761 Score: 171
Period size: 68 Copynumber: 2.1 Consensus size: 73
83224605 ATTATCATTC
* * * * *
83224615 AAGCTCTTTCGAGCCATGATCAGTAAGCTCCTCTTGAGCTGAAGAATAGTAAGCTCTATTGAGCT
1 AAGCTCTATCGAGCCATGAACAGGAAGCTCATCTTGAGCTGAAGAACAGTAAGCTCTATTGAGCT
*
83224680 AAAACGGT
66 AAAACAGT
*
83224688 AAGCTCTATCGAG-C-TGAACAGGAAGCTCAT-TTGAGCTG-A-AACAGTAAGCTC-ATTTGAGT
1 AAGCTCTATCGAGCCATGAACAGGAAGCTCATCTTGAGCTGAAGAACAGTAAGCTCTA-TTGAGC
*
83224747 TGAAACAGT
65 TAAAACAGT
83224756 AAGCTC
1 AAGCTC
83224762 CTACAAGCTA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
67 1 0.02
68 29 0.45
69 1 0.02
70 8 0.12
71 13 0.20
72 1 0.02
73 12 0.18
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (73 bp):
AAGCTCTATCGAGCCATGAACAGGAAGCTCATCTTGAGCTGAAGAACAGTAAGCTCTATTGAGCT
AAAACAGT
Found at i:83225134 original size:16 final size:15
Alignment explanation
Indices: 83225109--83225143 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
83225099 CTATATTTTA
83225109 TCAAATTCAATACAT
1 TCAAATTCAATACAT
*
83225124 TCAACATTCAATATAT
1 TCAA-ATTCAATACAT
83225140 TCAA
1 TCAA
83225144 TTTAATCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
TCAAATTCAATACAT
Found at i:83226181 original size:25 final size:24
Alignment explanation
Indices: 83226125--83226189 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
83226115 GCAAGAAAAT
*
83226125 TTATTAAATTATT-T-TCATTTAA
1 TTATTAAATTATTATGTTATTTAA
*
83226147 ATAGTT-AATTATTATGTTATTTAGA
1 TTA-TTAAATTATTATGTTATTTA-A
*
83226172 TTATTAAATTTTTATGTT
1 TTATTAAATTATTATGTT
83226190 TATATACTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
22 9 0.26
23 3 0.09
24 8 0.24
25 14 0.41
ACGTcount: A:0.34, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
TTATTAAATTATTATGTTATTTAA
Found at i:83231314 original size:22 final size:24
Alignment explanation
Indices: 83231288--83231335 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
83231278 TCAAAACTTC
*
83231288 AAATA-TATTTTATTAT-TAAATT
1 AAATATTATTTTATTATAAAAATT
*
83231310 AAATATTATTTTTTTATAAAAATT
1 AAATATTATTTTATTATAAAAATT
83231334 AA
1 AA
83231336 TTGTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 10 0.45
24 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
AAATATTATTTTATTATAAAAATT
Found at i:83232250 original size:24 final size:25
Alignment explanation
Indices: 83232217--83232272 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
83232207 TCTCATTTAA
*
83232217 TTAATAAATATA-TATTTTA-AAAAT
1 TTAA-AAATATATTATTTAATAAAAT
83232241 TATAAAAATATATTATTTAATAAAAT
1 T-TAAAAATATATTATTTAATAAAAT
83232267 TTAAAA
1 TTAAAA
83232273 GCAAACACGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 8 0.29
25 14 0.50
26 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TTAAAAATATATTATTTAATAAAAT
Found at i:83232812 original size:21 final size:21
Alignment explanation
Indices: 83232787--83232855 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
83232777 TTCAATCTTA
83232787 TTTCAATCTTCAAATTTTAAT
1 TTTCAATCTTCAAATTTTAAT
* * *
83232808 TTTCAATTTTC-AATTTCGAAA
1 TTTCAATCTTCAAATTT-TAAT
*
83232829 TTTCAATCCTCAATTATTTTTAAT
1 TTTCAATCTTCAA--A-TTTTAAT
83232853 TTT
1 TTT
83232856 TTTTGAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
20 5 0.14
21 21 0.58
22 1 0.03
24 6 0.17
25 3 0.08
ACGTcount: A:0.30, C:0.14, G:0.01, T:0.54
Consensus pattern (21 bp):
TTTCAATCTTCAAATTTTAAT
Found at i:83232832 original size:14 final size:13
Alignment explanation
Indices: 83232786--83232835 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
83232776 TTTCAATCTT
83232786 ATTTCAATCTTCAA
1 ATTTCAAT-TTCAA
*
83232800 ATTTTAATTTTCAA
1 ATTTCAA-TTTCAA
*
83232814 TTTTCAATTTCGAA
1 ATTTCAATTTC-AA
83232828 ATTTCAAT
1 ATTTCAAT
83232836 CCTCAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 4 0.13
14 25 0.83
15 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.02, T:0.50
Consensus pattern (13 bp):
ATTTCAATTTCAA
Found at i:83237620 original size:29 final size:28
Alignment explanation
Indices: 83237583--83237639 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
83237573 AAAAAAGTTA
83237583 AAATCGAAGAGTTTCATCGTCTTTTTTTT
1 AAATCGAAGAGTTTCATCGT-TTTTTTTT
* * *
83237612 AAATTGAAGGGTTTTATCGTTTTTTTTT
1 AAATCGAAGAGTTTCATCGTTTTTTTTT
83237640 CTTTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.53
Consensus pattern (28 bp):
AAATCGAAGAGTTTCATCGTTTTTTTTT
Found at i:83239962 original size:37 final size:37
Alignment explanation
Indices: 83239903--83240048 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
83239893 AGCTCAGACG
* *
83239903 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
83239940 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
83239977 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
83240014 TAATCTCCACACGTAGTCATCGGGCCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
83240049 ATATATTTCC
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:83240249 original size:48 final size:48
Alignment explanation
Indices: 83240195--83240329 Score: 234
Period size: 48 Copynumber: 2.8 Consensus size: 48
83240185 GCACATCGCC
*
83240195 TACATATTTCACACTAGCTATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
83240243 TACATATTTCACACTAGCCATTCGGCTTTACCACATATGCATGTCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
83240291 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATA
83240330 TGCATGTTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 82 1.00
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:83240371 original size:22 final size:22
Alignment explanation
Indices: 83240345--83240467 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
83240335 GTTTATATTC
83240345 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
83240367 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
83240391 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
83240414 ATCACATACAT-G-CATGTTC-ACATT
1 ATCACAT---TGGCCA--TTCGGCCTT
83240438 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
83240461 ATCACAT
1 ATCACAT
83240468 ATATGCACAT
Statistics
Matches: 75, Mismatches: 8, Indels: 36
0.63 0.07 0.30
Matches are distributed among these distances:
22 23 0.31
23 18 0.24
24 18 0.24
25 16 0.21
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:83240378 original size:47 final size:47
Alignment explanation
Indices: 83240299--83240492 Score: 298
Period size: 47 Copynumber: 4.1 Consensus size: 47
83240289 CATACATATT
* * * * *
83240299 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTTATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
83240346 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
83240393 TCACATTGGCCATTCGGCCTTATCACATACATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
83240440 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
83240487 TCACAT
1 TCACAT
83240493 AAAATTCTAA
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:83240420 original size:94 final size:94
Alignment explanation
Indices: 83240259--83240492 Score: 303
Period size: 94 Copynumber: 2.5 Consensus size: 94
83240249 TTTCACACTA
* * *
83240259 GCCATTCGGCTTTA-C-CACATATGCATGTCTCATACATAT-TTCACATTAGCCATTCGGCTTTA
1 GCCATTCGGCCTTATCACACATATGCATG-CTC--ACAT-TCATCACATTAGCCATTCGGCCTTA
* * *
83240321 CCACATATATGCATGTTTATATTCATCACATTG
62 CCACATACATGCATGTTCACATTCATCACATTG
* *
83240354 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTATCAC
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTAGCCATTCGGCCTTACCAC
83240419 ATACATGCATGTTCACATTCATCACATTG
66 ATACATGCATGTTCACATTCATCACATTG
* ***
83240448 GCCATTCGGCCTTATCACATATATGCACATTCACATTCATCACAT
1 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACAT
83240493 AAAATTCTAA
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
93 1 0.01
94 94 0.76
95 13 0.10
96 4 0.03
97 12 0.10
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTAGCCATTCGGCCTTACCAC
ATACATGCATGTTCACATTCATCACATTG
Found at i:83240489 original size:25 final size:25
Alignment explanation
Indices: 83240414--83240493 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
83240404 ATTCGGCCTT
* **
83240414 ATCACATACATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
83240439 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
83240461 ATCACATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
83240486 ATCACATA
1 ATCACATA
83240494 AAATTCTAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 10 0.24
23 6 0.15
24 5 0.12
25 20 0.49
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Done.