Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 110 of 335
Found at i:34050956 original size:174 final size:176
Alignment explanation
Indices: 34050745--34051256 Score: 739
Period size: 174 Copynumber: 2.9 Consensus size: 176
34050735 CTTCAGTCTG
* *
34050745 CTCCAATGCCATTTTAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAG
1 CTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGAAG
* * ** * *
34050810 ATACGAACTGTGTCTTCGAGCCGCTCTTACGCCATTTCAAGGAGAAGAGATTTGCAGCCTCGATC
66 ATACGAACTGTGGCTTCGAGCAGCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATC
*
34050875 TACTCCGCTGAAACTTCAAGGAGAT-C-TACTGTGGCTTCGAGCCA
131 TACTCCGCTGAAACTTCAAGGAGATACGAACTGTGGCTTCGAGCCA
* * *
34050919 CTCCCATGCCATTTCAGGGAGAAGAGATTTGTAGCCTCAATCTACTCCGCTGAAACTTTAA-AGA
1 CTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGA-A
* * * * *
34050983 GGTATGAACTGTGGCTTCGAGCAGCTCCCACGCCATTTGAGGGGGAAGAGATTTGTAGCCTCGAT
65 GATACGAACTGTGGCTTCGAGCAGCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGAT
* *
34051048 CTACTCCGCTGAAACTTTAAGGAGATACGAACTGTGGCTTCGAGCCG
130 CTACTCCGCTGAAACTTCAAGGAGATACGAACTGTGGCTTCGAGCCA
*
34051095 CTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGGAG
1 CTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGAAG
* *
34051160 AT-CTG--CTGTGGCTTCGAGCAGCTCCAACGCCATTTTAGGGAGAAGTGATTTGTAGCCTCGAT
66 ATAC-GAACTGTGGCTTCGAGCAGCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGAT
* * *
34051222 CTACTCCACTGAAATTTCAAAGAGATACGAACTGT
130 CTACTCCGCTGAAACTTCAAGGAGATACGAACTGT
34051257 TGATTTCAAC
Statistics
Matches: 301, Mismatches: 32, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
173 1 0.00
174 221 0.73
175 1 0.00
176 78 0.26
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (176 bp):
CTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGAAG
ATACGAACTGTGGCTTCGAGCAGCTCCAACGCCATTTCAGGGAGAAGAGATTTGTAGCCTCGATC
TACTCCGCTGAAACTTCAAGGAGATACGAACTGTGGCTTCGAGCCA
Found at i:34051217 original size:262 final size:262
Alignment explanation
Indices: 34050752--34051256 Score: 798
Period size: 262 Copynumber: 1.9 Consensus size: 262
34050742 CTGCTCCAAT
*
34050752 GCCATTTTAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAA
1 GCCATTTGAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAA
* **
34050817 CTGTGTCTTCGAGCCGCTCTTACGCCATTTCAAGGAGAAGAGATTTGCAGCCTCGATCTACTCCG
66 CTGTGGCTTCGAGCCGCTCCAACGCCATTTCAAGGAGAAGAGATTTGCAGCCTCGATCTACTCCG
* *
34050882 CTGAAACTTCAAGGAGATCTACTGTGGCTTCGAGCCACTCCCATGCCATTTCAGGGAGAAGAGAT
131 CTGAAACTTCAAGGAGATCTACTGTGGCTTCGAGCCACTCCAACGCCATTTCAGGGAGAAGAGAT
* * *
34050947 TTGTAGCCTCAATCTACTCCGCTGAAACTTT-AAAGAGGTATGAACTGTGGCTTCGAGCAGCTCC
196 TTGTAGCCTCAATCTACTCCACTGAAA-TTTCAAAGAGATACGAACTGTGGCTTCGAGCAGCTCC
34051011 CAC
260 CAC
* *
34051014 GCCATTTGAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTTAAGGAGATACGAA
1 GCCATTTGAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAA
* * * *
34051079 CTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCG
66 CTGTGGCTTCGAGCCGCTCCAACGCCATTTCAAGGAGAAGAGATTTGCAGCCTCGATCTACTCCG
* * * *
34051144 CTGAAACTTTAAGGAGATCTGCTGTGGCTTCGAG-CAGCTCCAACGCCATTTTAGGGAGAAGTGA
131 CTGAAACTTCAAGGAGATCTACTGTGGCTTCGAGCCA-CTCCAACGCCATTTCAGGGAGAAGAGA
*
34051208 TTTGTAGCCTCGATCTACTCCACTGAAATTTCAAAGAGATACGAACTGT
195 TTTGTAGCCTCAATCTACTCCACTGAAATTTCAAAGAGATACGAACTGT
34051257 TGATTTCAAC
Statistics
Matches: 221, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
261 5 0.02
262 216 0.98
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (262 bp):
GCCATTTGAGGGGGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGAAGATACGAA
CTGTGGCTTCGAGCCGCTCCAACGCCATTTCAAGGAGAAGAGATTTGCAGCCTCGATCTACTCCG
CTGAAACTTCAAGGAGATCTACTGTGGCTTCGAGCCACTCCAACGCCATTTCAGGGAGAAGAGAT
TTGTAGCCTCAATCTACTCCACTGAAATTTCAAAGAGATACGAACTGTGGCTTCGAGCAGCTCCC
AC
Found at i:34051510 original size:131 final size:131
Alignment explanation
Indices: 34051261--34051622 Score: 496
Period size: 131 Copynumber: 2.8 Consensus size: 131
34051251 AACTGTTGAT
* * * * *
34051261 TTCAACCTGCTCCACTACTACTTAGGGAGATAGGATGGTGGCTTAAATCTT-CTCCA--ATTGCT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAAT-TTGCTCCACTACTGGT
* *
34051323 TAGGGAGACAAGATTCACCGTCTTTGATCTGCTCCACTGCAACTTCAGAGAAACAAGCTCTACAA
65 TAGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGAGAAACAAGATCTACAA
34051388 TC
130 TC
* *
34051390 TTCAGCCTACTCCACTACTGCTTAAGGAGATAGGATGGTGGCTTAAATTTGTTCCACTACTGGTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
* * * * * **
34051455 CGGGAGACAAGATTCACCGTCTTCGATCTGTTTCACTGCAACTTCAGGGAGACAAGATCTGTAAT
66 AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGAGAAACAAGATCTACAAT
34051520 C
131 C
* * *
34051521 TTCAGCCTACTCCACTACTGCTTAGGGAGATAAGATGGTGACTTAAATCTGCTCCACTACTGGTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
** *
34051586 AGGGAGACAAGATTTGCCGTCTTCTATCTGCTCCACT
66 AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACT
34051623 ACTGCTTAGG
Statistics
Matches: 203, Mismatches: 27, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
128 2 0.01
129 48 0.24
131 153 0.75
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (131 bp):
TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATTTGCTCCACTACTGGTT
AGGGAGACAAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGAGAAACAAGATCTACAAT
C
Found at i:34051624 original size:44 final size:43
Alignment explanation
Indices: 34051442--34051642 Score: 145
Period size: 44 Copynumber: 4.6 Consensus size: 43
34051432 TTAAATTTGT
* * ** *
34051442 TCCACTACTGGTTCGGGAGACAAGATTCACCGTCTTCGATCTGT
1 TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTC-ATCTGC
* * ** * *** * *
34051486 TTCACTGCAACTTCAGGGAGACAAGATCTGTAATCTTCAGCCTAC
1 TCCACTACTGCTT-AGGGAGACAAGATTTGCCGTCTTCA-TCTGC
* * * **
34051531 TCCACTACTGCTTAGGGAGATAAGATGGTGAC-T-TAAATCTGC
1 TCCACTACTGCTTAGGGAGACAAGAT-TTGCCGTCTTCATCTGC
*
34051573 TCCACTACTGGTTAGGGAGACAAGATTTGCCGTCTTCTATCTGC
1 TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTC-ATCTGC
*
34051617 TCCACTACTGCTTAGGGAGATAAGAT
1 TCCACTACTGCTTAGGGAGACAAGAT
34051643 CTGTGATTTC
Statistics
Matches: 116, Mismatches: 35, Indels: 12
0.71 0.21 0.07
Matches are distributed among these distances:
41 3 0.03
42 28 0.24
43 3 0.03
44 52 0.45
45 30 0.26
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (43 bp):
TCCACTACTGCTTAGGGAGACAAGATTTGCCGTCTTCATCTGC
Found at i:34051815 original size:87 final size:87
Alignment explanation
Indices: 34051602--34051826 Score: 290
Period size: 88 Copynumber: 2.6 Consensus size: 87
34051592 ACAAGATTTG
* *
34051602 CCGTCTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGATTTCCAACCTGTTACCCT
1 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT-CAACCTGTTACCCT
* *
34051667 ACTTCTTAAGGGGTTAAGGCTTA
65 ACTGCTTAAGGGGTTAAAGCTTA
* * * * *
34051690 CCGTCTTCGATGTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAGCTTGTTAGCCT
1 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT-TTCAACCTGTTACCCT
*
34051755 ACTGCTT-GGGGGTTAAAGCTTA
65 ACTGCTTAAGGGGTTAAAGCTTA
* * * * *
34051777 CTGTTTTCGATCTACTCCACTACTACTTAGGGAAATAAGATCTGTAATTT
1 CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTT
34051827 TCAATCTACT
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
86 2 0.02
87 54 0.45
88 61 0.51
89 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (87 bp):
CCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTCAACCTGTTACCCTA
CTGCTTAAGGGGTTAAAGCTTA
Found at i:34052077 original size:64 final size:64
Alignment explanation
Indices: 34051976--34052103 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
34051966 TCATGTACCT
*
34051976 ATGCTTATGCCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
34052040 ATGCTTATGTCAAATAATTAGGTTGCTATGATCGAAATGAATCAGATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
34052104 TTATGAATGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:34052860 original size:52 final size:54
Alignment explanation
Indices: 34052772--34052872 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 54
34052762 GTATAGTTCG
* * *
34052772 AAATGAATAAATTATTCACAGATTGCAAATGCAATAAGAAGG-AATTTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTTAACTCA
*
34052825 AAATGAATAAGTTAATCAAAGATAGC-AATGCAATAAGAAGGAAATTTA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTTA
34052873 TTGGGACATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 15 0.35
53 28 0.65
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.25
Consensus pattern (54 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAGGAAATTTAACTCA
Found at i:34060994 original size:42 final size:42
Alignment explanation
Indices: 34060946--34061106 Score: 180
Period size: 42 Copynumber: 3.7 Consensus size: 42
34060936 TCATTTTCTC
** * *
34060946 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
* *
34060988 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATT
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
*
34061030 GATGCCATGGCCCAGCTATGGTCTTACACGTAATCACATATCACAT-AT
1 GATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATAAT
34061078 CGATGCCATAGCCCAGCTATGGTCTTACA
1 -GATGCCATAGCCCAGCTATGGTCTTACA
34061107 TGAATCACAT
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
42 64 0.63
45 2 0.02
48 3 0.03
49 32 0.32
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATAAT
Found at i:34061092 original size:49 final size:49
Alignment explanation
Indices: 34061014--34061197 Score: 173
Period size: 49 Copynumber: 3.8 Consensus size: 49
34061004 TATGGTCTTA
* * * *
34061014 CACATATTCATATATTGATGCCATGGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* *
34061064 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACATG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * * *
34061112 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAAT
* * * *
34061159 CATATAT--CATACCGATGCCATATCCTAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTA
34061198 TACGGAAATC
Statistics
Matches: 115, Mismatches: 15, Indels: 11
0.82 0.11 0.08
Matches are distributed among these distances:
45 2 0.02
46 25 0.22
47 34 0.30
48 13 0.11
49 35 0.30
50 6 0.05
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:34061181 original size:47 final size:48
Alignment explanation
Indices: 34061030--34061200 Score: 154
Period size: 47 Copynumber: 3.6 Consensus size: 48
34061020 TTCATATATT
** * * * * *
34061030 GATGCCATGGCCCAGCTATGGTCTTACACGT-AATCACATATCACATATC
1 GATGCCATATCCCAGATATGGTCTTATACATGAAGCACATAT--CATACC
* * * *
34061079 GATGCCATAGCCCAGCTATGGTC-T-TACATGAATCACATATC-TCACT
1 GATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCAT-ACC
* *
34061125 GATGCCATATCCCAGATATGGTCTTATACA-GTAGCATATATCATACC
1 GATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCATACC
*
34061172 GATGCCATATCCTAGATATGGTCTTATAC
1 GATGCCATATCCCAGATATGGTCTTATAC
34061201 GGAAATCACT
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
45 1 0.01
46 23 0.22
47 43 0.41
48 16 0.15
49 22 0.21
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (48 bp):
GATGCCATATCCCAGATATGGTCTTATACATGAAGCACATATCATACC
Found at i:34061209 original size:95 final size:94
Alignment explanation
Indices: 34060988--34061197 Score: 209
Period size: 95 Copynumber: 2.3 Consensus size: 94
34060978 TTCACATAAT
* * * * * *
34060988 GATGCCATAGCCCAGCTATGGTCTTACA-CATAT-TCATA--T-ATTGATGCCATGGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACAGGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
34061048 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATAT-ACATACC
* * *
34061079 GATGCCATAGCCCAGCTATGGTCTTACATGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACAGGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* *
34061144 GGTCTTATACAGT-AGCATATAT-CATACC
66 GGTCTTACAC-GTAAGCACATATACATACC
* *
34061172 GATGCCATATCCTAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
34061198 TACGGAAATC
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
91 30 0.30
92 5 0.05
93 28 0.28
94 1 0.01
95 34 0.34
96 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACAGGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAAGCACATATACATACC
Found at i:34061254 original size:31 final size:31
Alignment explanation
Indices: 34061219--34061367 Score: 244
Period size: 31 Copynumber: 4.8 Consensus size: 31
34061209 CTTGTCACTT
*
34061219 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
34061250 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
34061281 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
34061312 GTAGTAGAAGCTACCACTTTTCACTGCTCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
34061343 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
34061368 TGTTATTTTT
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 110 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:34061454 original size:50 final size:50
Alignment explanation
Indices: 34061343--34061519 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
34061333 CACTGCTCAG
* * * *
34061343 GTAGCCGAAGCTACCACTTTTCACTTGTTATTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
34061394 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
34061444 GTAGCTGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
34061494 GTAGCCAAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
34061520 GTTGCCATGG
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 89 0.79
51 24 0.21
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:34064167 original size:30 final size:30
Alignment explanation
Indices: 34064133--34064193 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
34064123 CTTCATTTCG
34064133 TCACAAAACGGATGATGCTACACATGTGGC
1 TCACAAAACGGATGATGCTACACATGTGGC
34064163 TCACAAAACGGATGATGCTACACATGTGGC
1 TCACAAAACGGATGATGCTACACATGTGGC
34064193 T
1 T
34064194 GACTTATTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (30 bp):
TCACAAAACGGATGATGCTACACATGTGGC
Found at i:34064453 original size:40 final size:40
Alignment explanation
Indices: 34064399--34064607 Score: 177
Period size: 41 Copynumber: 5.1 Consensus size: 40
34064389 GCAAAAATTG
* * *
34064399 TAAAACACAGAGCAATAGGGGCATTTTACCAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCATTTTTCCTAAAACGCCGC
* * * ** *
34064440 TAAAAACGGAGCAATACCGGCGTTTTTTGTTAAAACTCCGC
1 TAAAAACAGAGCAATAGCGGC-ATTTTTCCTAAAACGCCGC
* **
34064481 TAAAAACAGAGAAATAGCGGCATTTTTTGTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCATTTTTCCTAAAACGCCGC
* ** **
34064521 TAAAAACTAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
1 TAAAAAC-AGAGCAATAGCGGCATTTTTCCTAAAACGCCGC
* * * *
34064562 TAAAAACCAGAGTATTAGCGGCGCTTTTT-GTAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGC-ATTTTTCCTAAAACGCCGC
34064603 TAAAA
1 TAAAA
34064608 GTCATATAAC
Statistics
Matches: 140, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
40 35 0.25
41 100 0.71
42 5 0.04
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCATTTTTCCTAAAACGCCGC
Found at i:34064475 original size:41 final size:40
Alignment explanation
Indices: 34064430--34064607 Score: 230
Period size: 41 Copynumber: 4.4 Consensus size: 40
34064420 CATTTTACCA
* *
34064430 AAAACGCCGCTAAAAACGGAGCAATACCGGCGTTTTTTGTT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTG-T
* * *
34064471 AAAACTCCGCTAAAAACAGAGAAATAGCGGCATTTTTTGT
1 AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTGT
* * *
34064511 AAAACGCCGCTAAAAACTAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAAC-AGAGCAATAGCGGCGTTTTTTGT
* * *
34064552 AAAACGCCGCTAAAAACCAGAGTATTAGCGGCGCTTTTTGT
1 AAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGTTTTTTGT
34064593 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
34064608 GTCATATAAC
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 17 0.14
41 104 0.85
42 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACAGAGCAATAGCGGCGTTTTTTGT
Found at i:34065123 original size:21 final size:21
Alignment explanation
Indices: 34065077--34065128 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
34065067 TTAATTAGCA
* *
34065077 TTATAGTTTAGGGTTTATGGT
1 TTATGGTTAAGGGTTTATGGT
*
34065098 ATATGGTTAAGGGTTTAAT-GT
1 TTATGGTTAAGGGTTT-ATGGT
34065119 TTATGAGTTA
1 TTATG-GTTA
34065129 CTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 19 0.76
22 6 0.24
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTATGGT
Found at i:34065187 original size:21 final size:21
Alignment explanation
Indices: 34065163--34065223 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
34065153 GTTTAAGTGT
34065163 GGTTTAAGGGTT-GGGGTTTAA
1 GGTTTAAGGGTTAGGGG-TTAA
*
34065184 GGTTT-AGGTGTTAGGGGTTAG
1 GGTTTAAGG-GTTAGGGGTTAA
* *
34065205 GGGTTAAGGGTTAAGGGTT
1 GGTTTAAGGGTTAGGGGTT
34065224 TCTGATTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 24 0.71
22 7 0.21
ACGTcount: A:0.18, C:0.00, G:0.46, T:0.36
Consensus pattern (21 bp):
GGTTTAAGGGTTAGGGGTTAA
Found at i:34065188 original size:32 final size:32
Alignment explanation
Indices: 34065133--34065219 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 32
34065123 GAGTTACTAT
* *
34065133 TTTAAGGTTTAGGGATTATGGTTTAAGTGTGG
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
* *
34065165 TTTAAGGGTTGGGGTTTAAGGTTT-AG-GT-G
1 TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
* * *
34065194 -TTAGGGGTTAGGGGTTAAGGGTTAAG
1 TTTAAGGGTTAGGGATTAAGGTTTAAG
34065220 GGTTTCTGAT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
28 19 0.41
29 3 0.07
30 2 0.04
31 2 0.04
32 20 0.43
ACGTcount: A:0.21, C:0.00, G:0.40, T:0.39
Consensus pattern (32 bp):
TTTAAGGGTTAGGGATTAAGGTTTAAGTGTGG
Found at i:34065217 original size:14 final size:14
Alignment explanation
Indices: 34065166--34065223 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
34065156 TAAGTGTGGT
34065166 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
* *
34065179 TTTAAGGTTTAGGTG
1 -TTAAGGGTTAGGGG
*
34065194 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
34065208 TTAAGGGTTAAGGG
1 TTAAGGGTTAGGGG
34065222 TT
1 TT
34065224 TCTGATTTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 33 0.92
15 3 0.08
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:34065235 original size:14 final size:14
Alignment explanation
Indices: 34065218--34065282 Score: 67
Period size: 14 Copynumber: 4.6 Consensus size: 14
34065208 TTAAGGGTTA
*
34065218 AGGGTTTCTGATTT
1 AGGGTTTATGATTT
*
34065232 AGGGTTTATGTTTT
1 AGGGTTTATGATTT
* *
34065246 AGGATTTATGGTTT
1 AGGGTTTATGATTT
* *
34065260 AGGGATTAAGAATTT
1 AGGGTTTATG-ATTT
34065275 AGGGTTTA
1 AGGGTTTA
34065283 AATTAATTAG
Statistics
Matches: 41, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
14 31 0.76
15 10 0.24
ACGTcount: A:0.23, C:0.02, G:0.29, T:0.46
Consensus pattern (14 bp):
AGGGTTTATGATTT
Found at i:34065239 original size:7 final size:7
Alignment explanation
Indices: 34065163--34065282 Score: 55
Period size: 7 Copynumber: 16.9 Consensus size: 7
34065153 GTTTAAGTGT
34065163 GGTTTAAG
1 GGTTT-AG
*
34065171 GG-TTGG
1 GGTTTAG
*
34065177 GGTTTAA
1 GGTTTAG
34065184 GGTTTA-
1 GGTTTAG
34065190 GGTGTTAG
1 GGT-TTAG
*
34065198 GGGTTAGG
1 GGTTTA-G
*
34065206 GGTTAAG
1 GGTTTAG
*
34065213 GGTTAAG
1 GGTTTAG
**
34065220 GGTTTCT
1 GGTTTAG
*
34065227 GATTTAG
1 GGTTTAG
*
34065234 GGTTTAT
1 GGTTTAG
*
34065241 GTTTTAG
1 GGTTTAG
* *
34065248 GATTTAT
1 GGTTTAG
34065255 GGTTTAG
1 GGTTTAG
*
34065262 GGATTAAG
1 GG-TTTAG
**
34065270 AATTTAG
1 GGTTTAG
34065277 GGTTTA
1 GGTTTA
34065283 AATTAATTAG
Statistics
Matches: 81, Mismatches: 26, Indels: 11
0.69 0.22 0.09
Matches are distributed among these distances:
6 6 0.07
7 62 0.77
8 13 0.16
ACGTcount: A:0.21, C:0.01, G:0.37, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:34065838 original size:41 final size:40
Alignment explanation
Indices: 34065788--34065872 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
34065778 AAAAAAAATT
*
34065788 AAAATTGAGCAATAGTAGCGTTTTTAG-GTAAAACGCCGCA
1 AAAATTGAGCAATAGTAGCATTTTTAGTG-AAAACGCCGCA
* * *
34065828 AAAAGTTGAGCTATAGTGGCATTTTTAGTGGAAACGCCGCA
1 AAAA-TTGAGCAATAGTAGCATTTTTAGTGAAAACGCCGCA
34065869 AAAA
1 AAAA
34065873 ATCTAAGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
40 4 0.10
41 34 0.87
42 1 0.03
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (40 bp):
AAAATTGAGCAATAGTAGCATTTTTAGTGAAAACGCCGCA
Found at i:34066481 original size:16 final size:16
Alignment explanation
Indices: 34066460--34066495 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
34066450 ATAGCTCTAG
34066460 TTAACGATGGGATTAA
1 TTAACGATGGGATTAA
34066476 TTAACGATGGGATTAA
1 TTAACGATGGGATTAA
34066492 TTAA
1 TTAA
34066496 AGTTGCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (16 bp):
TTAACGATGGGATTAA
Found at i:34071324 original size:32 final size:32
Alignment explanation
Indices: 34071288--34071358 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
34071278 TTGTTCGATT
*
34071288 TTGAAATTATTATGTTTTAAATTTGTTAGACA
1 TTGAAATTATTATGTTTTAAACTTGTTAGACA
* * * *
34071320 TTGAATTTATTATGTTTTAAGCTTGTTGGATA
1 TTGAAATTATTATGTTTTAAACTTGTTAGACA
34071352 TTGAAAT
1 TTGAAAT
34071359 GATTGACAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (32 bp):
TTGAAATTATTATGTTTTAAACTTGTTAGACA
Found at i:34072631 original size:2 final size:2
Alignment explanation
Indices: 34072624--34072649 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
34072614 AAATTCTCAA
34072624 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
34072650 TTGTTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34072765 original size:14 final size:14
Alignment explanation
Indices: 34072746--34072783 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
34072736 CCAGAAAAGT
34072746 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
34072760 AAATTAATTTTCAA
1 AAATTATTTTTCAA
*
34072774 AAAATATTTT
1 AAATTATTTT
34072784 CCTGACAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:34074217 original size:19 final size:19
Alignment explanation
Indices: 34074181--34074228 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
34074171 TTAATAAAAT
*
34074181 ATTTAATATTACAATTTAA
1 ATTTAATAATACAATTTAA
*
34074200 TTTTAATAATA-AATTTTAA
1 ATTTAATAATACAA-TTTAA
*
34074219 AATTAATAAT
1 ATTTAATAAT
34074229 TTTATAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTTAATAATACAATTTAA
Found at i:34074993 original size:13 final size:14
Alignment explanation
Indices: 34074962--34074995 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
34074952 GTTCTTTTCA
34074962 CAAAAAATAACTTT
1 CAAAAAATAACTTT
*
34074976 TAAAAAATAA-TTT
1 CAAAAAATAACTTT
34074989 CAAAAAA
1 CAAAAAA
34074996 ATATTACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (14 bp):
CAAAAAATAACTTT
Found at i:34074996 original size:14 final size:15
Alignment explanation
Indices: 34074957--34074998 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
34074947 ACCATGTTCT
34074957 TTTCACAAAAAATAAC
1 TTTCA-AAAAAATAAC
*
34074973 TTT-TAAAAAATAA-
1 TTTCAAAAAAATAAC
34074986 TTTCAAAAAAATA
1 TTTCAAAAAAATA
34074999 TTACTAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.13
14 17 0.74
16 3 0.13
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (15 bp):
TTTCAAAAAAATAAC
Found at i:34078928 original size:39 final size:39
Alignment explanation
Indices: 34078866--34079005 Score: 235
Period size: 39 Copynumber: 3.6 Consensus size: 39
34078856 CACAATTGCT
34078866 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
1 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
* * * *
34078905 TTTGGGATTTAGCCCGGATATAACACCAACAAGAATGCC
1 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
*
34078944 TTCGGGACATAGCCCGGATATAACACCAGCACGAATGCC
1 TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
34078983 TTCGGGACTTAGCCCGGATATAA
1 TTCGGGACTTAGCCCGGATATAA
34079006 ATATCAAACA
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 91 1.00
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (39 bp):
TTCGGGACTTAGCCCGGATATAACACCAGCACGAATGCC
Found at i:34080870 original size:38 final size:38
Alignment explanation
Indices: 34080816--34080908 Score: 168
Period size: 38 Copynumber: 2.4 Consensus size: 38
34080806 TAGTGTATAT
*
34080816 ATGTGTATATTTGGCCACATGAATGAGTACATAGGTTG
1 ATGTGTATATTCGGCCACATGAATGAGTACATAGGTTG
34080854 ATGTGTATATTCGGCCACATGAATGAGTACATAGGTTG
1 ATGTGTATATTCGGCCACATGAATGAGTACATAGGTTG
*
34080892 ATGTGTATGTTCGGCCA
1 ATGTGTATATTCGGCCA
34080909 TAGGTAAGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (38 bp):
ATGTGTATATTCGGCCACATGAATGAGTACATAGGTTG
Found at i:34081550 original size:40 final size:40
Alignment explanation
Indices: 34081495--34081752 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
34081485 TGGATGATAA
* * *
34081495 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
34081535 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34081575 CCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34081615 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
34081655 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
34081695 CCGGGCTATGTCCTGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
34081735 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
34081753 TACTTGGCTT
Statistics
Matches: 198, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 15 0.08
40 183 0.92
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:34089174 original size:38 final size:38
Alignment explanation
Indices: 34089120--34089212 Score: 168
Period size: 38 Copynumber: 2.4 Consensus size: 38
34089110 TAGTGTATAT
* *
34089120 ATGTGTATATTGGGCCACATGAATGAGTACATAGGTTG
1 ATGTGTATGTTCGGCCACATGAATGAGTACATAGGTTG
34089158 ATGTGTATGTTCGGCCACATGAATGAGTACATAGGTTG
1 ATGTGTATGTTCGGCCACATGAATGAGTACATAGGTTG
34089196 ATGTGTATGTTCGGCCA
1 ATGTGTATGTTCGGCCA
34089213 TAGGTAAGCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (38 bp):
ATGTGTATGTTCGGCCACATGAATGAGTACATAGGTTG
Found at i:34089857 original size:40 final size:40
Alignment explanation
Indices: 34089801--34090056 Score: 347
Period size: 40 Copynumber: 6.4 Consensus size: 40
34089791 GATGATAACT
* * * *
34089801 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCC
* *
34089841 AGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
34089881 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
34089921 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
34089961 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * *
34090001 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
34090041 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
34090057 TACTTGGTTT
Statistics
Matches: 195, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 16 0.08
40 179 0.92
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:34091930 original size:2 final size:2
Alignment explanation
Indices: 34091923--34091954 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34091913 TTAACCACCG
34091923 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34091955 ATTAGCAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34092910 original size:2 final size:2
Alignment explanation
Indices: 34092905--34092949 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
34092895 TATATATATA
*
34092905 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
34092947 TG T
1 TG T
34092950 TCTATTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:34101771 original size:22 final size:23
Alignment explanation
Indices: 34101723--34101774 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
34101713 ATGATAATCT
*
34101723 TTAATATATAATTATATCTATTA
1 TTAATTTATAATTATATCTATTA
34101746 -TAATTTATATATTA-ATCT-TTA
1 TTAATTTATA-ATTATATCTATTA
34101767 TTAATTTA
1 TTAATTTA
34101775 GCTTAGAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 19 0.73
23 4 0.15
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAATTTATAATTATATCTATTA
Found at i:34107705 original size:2 final size:2
Alignment explanation
Indices: 34107698--34107729 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
34107688 AGTATGTACG
34107698 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34107730 AATAGTAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:34108228 original size:3 final size:3
Alignment explanation
Indices: 34108141--34108219 Score: 106
Period size: 3 Copynumber: 25.7 Consensus size: 3
34108131 AAGTACCTAT
*
34108141 TAA TAA TAT TATA TAA -ATA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA TAA TAA TAA TAA TAA
*
34108188 TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
34108220 GCAATAATAG
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
2 1 0.01
3 61 0.90
4 6 0.09
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:34108461 original size:3 final size:3
Alignment explanation
Indices: 34108455--34108705 Score: 157
Period size: 3 Copynumber: 82.7 Consensus size: 3
34108445 TACATAACAG
*
34108455 TAA TAA TAA TAA GTAA CAA TAA TAA TAA TAA T-A TAGA -AA TTCAA -AA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TA-A TAA -T-AA TAA
* *
34108501 -AA GTAA -ACA TAA T-A TAA TGA TAT TAA -AA TAA -AA T-A TACA CTAA
1 TAA -TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA
* * *
34108544 TAT TTA TAAA TAA TAA TAG TAA -ATA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * *
34108590 TAA TAA TAA TAA TAA TAA CAA TAA TAA TAA TGA TAA TAA TAA TAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
34108638 TAA GT-A TAG T-A TAAA TAA TATG TACA TAA CAG TAA TAA TAA TAA GTAA
1 TAA -TAA TAA TAA T-AA TAA TA-A TA-A TAA TAA TAA TAA TAA TAA -TAA
*
34108686 CAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TA
34108706 TAGAAATTCA
Statistics
Matches: 194, Mismatches: 29, Indels: 50
0.71 0.11 0.18
Matches are distributed among these distances:
2 19 0.10
3 149 0.77
4 22 0.11
5 4 0.02
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:34108763 original size:16 final size:16
Alignment explanation
Indices: 34108730--34108762 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34108720 AACTAAACAT
*
34108730 AATATAATAATATTAA
1 AATAAAATAATATTAA
34108746 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
34108761 AA
1 AA
34108763 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:34111121 original size:24 final size:24
Alignment explanation
Indices: 34111071--34111134 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
34111061 AAGGCTATGC
***
34111071 GGCACTATGTGTGCGAGATTTCAT
1 GGCACTATGTGTGCGAGAAAACAT
* *
34111095 GGCACTATGTGTTCGAGAAAACGT
1 GGCACTATGTGTGCGAGAAAACAT
*
34111119 GGCACTAGGTGTGCGA
1 GGCACTATGTGTGCGA
34111135 ATAAGTAAGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.23, C:0.17, G:0.33, T:0.27
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACAT
Found at i:34116097 original size:27 final size:26
Alignment explanation
Indices: 34116060--34116174 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 26
34116050 AGCATGGCTG
* *
34116060 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
34116086 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
34116114 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
34116141 CCA-AATCAGATATTTGTGGCATAGCCA
1 CCAGAA-CAGATA-ATGTGGCAGAGCCA
*
34116168 CTAGAAC
1 CCAGAAC
34116175 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
26 7 0.09
27 53 0.67
28 19 0.24
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:34116119 original size:54 final size:54
Alignment explanation
Indices: 34116060--34116174 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
34116050 AGCATGGCTG
* *
34116060 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCA
* * * *
34116114 CCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
*
34116168 CTAGAAC
1 CCAGAAC
34116175 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCA
Found at i:34116303 original size:27 final size:26
Alignment explanation
Indices: 34116277--34116350 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
34116267 AAATTAACCT
*
34116277 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACC
* *
34116303 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTGC--ACC
* *
34116331 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
34116351 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACC
Found at i:34120146 original size:40 final size:40
Alignment explanation
Indices: 34120060--34120156 Score: 122
Period size: 40 Copynumber: 2.4 Consensus size: 40
34120050 CGATTGTACA
* ** * *
34120060 AATGCCTTCGGGTCTTAGCTCGGATAGAATGACTCGCACG
1 AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACC
* *
34120100 AATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACC
1 AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACC
*
34120140 ATTGCCTTCGGGTCTTA
1 AATGCCTTCGGGTCTTA
34120157 ACCTGGTTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.21, C:0.28, G:0.25, T:0.27
Consensus pattern (40 bp):
AATGCCTTCGGGTCTTAGCCCGGATAGAACCACTAGCACC
Found at i:34121258 original size:26 final size:26
Alignment explanation
Indices: 34121222--34121331 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
34121212 CATGAAATTC
34121222 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
34121248 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
34121274 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
34121300 TTACCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
34121326 TTATCA
1 TTATCA
34121332 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
26 77 0.97
27 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:34122066 original size:35 final size:36
Alignment explanation
Indices: 34122022--34122102 Score: 146
Period size: 35 Copynumber: 2.3 Consensus size: 36
34122012 AATCATATCT
*
34122022 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
34122057 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
34122093 TCTAAGATTG
1 TCTAAGATTG
34122103 CATATCATTG
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 29 0.66
36 15 0.34
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (36 bp):
TCTAAGATTGTATCATATCTAAGATTGCATATCACA
Found at i:34122095 original size:19 final size:19
Alignment explanation
Indices: 34122022--34122110 Score: 134
Period size: 17 Copynumber: 4.9 Consensus size: 19
34122012 AATCATATCT
34122022 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
34122039 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
34122057 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
34122074 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
34122093 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
34122111 TGAAGATTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
17 26 0.40
18 16 0.25
19 23 0.35
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34122117 original size:36 final size:35
Alignment explanation
Indices: 34122022--34122118 Score: 126
Period size: 35 Copynumber: 2.7 Consensus size: 35
34122012 AATCATATCT
* *
34122022 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCGAAGATTGCAATCACA
*
34122057 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCGAAGATTGCA-ATCACA
34122093 TCTAAGATTGCATATCAT-T-GAAGATT
1 TCTAAGATTG--TATCATATCGAAGATT
34122119 ATATTTCCAT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
35 29 0.51
36 21 0.37
37 1 0.02
38 6 0.11
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCGAAGATTGCAATCACA
Found at i:34122118 original size:17 final size:18
Alignment explanation
Indices: 34122038--34122107 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
34122028 ATTGTATCAT
*
34122038 ATCTAAGATTGCA-ATCAT
1 ATCTAAGATTGCATAT-AC
*
34122056 ATCTAAGATTG--TATCAT
1 ATCTAAGATTGCATAT-AC
34122073 ATCTAAGATTGCATATCAC
1 ATCTAAGATTGCATAT-AC
34122092 ATCTAAGATTGCATAT
1 ATCTAAGATTGCATAT
34122108 CATTGAAGAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
17 16 0.33
18 11 0.23
19 21 0.44
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (18 bp):
ATCTAAGATTGCATATAC
Found at i:34124352 original size:40 final size:40
Alignment explanation
Indices: 34124297--34124372 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
34124287 CGGTACCTTG
* *
34124297 TGGTGTGTAGGGTTGGATGGGTTGGTTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATACT
* *
34124337 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCCA
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA
34124373 CATGGTGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.13, C:0.14, G:0.37, T:0.36
Consensus pattern (40 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATACT
Found at i:34124389 original size:38 final size:39
Alignment explanation
Indices: 34124297--34124390 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
34124287 CGGTACCTTG
* * *
34124297 TGGTGTGTAGGGTTGGATGGGTTGGTTATATCCCCATACT
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCA-ACA
* *
34124337 TGGTGTGTAGGGTTGGGTGGGTCGATTCTATCCCC-ACA
1 TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCAACA
34124375 TGGTGTGTTA-GGTTGG
1 TGGTGTG-TAGGGTTGG
34124391 TCGGAGATGG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 15 0.31
39 2 0.04
40 31 0.65
ACGTcount: A:0.13, C:0.13, G:0.38, T:0.36
Consensus pattern (39 bp):
TGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCAACA
Found at i:34128388 original size:15 final size:14
Alignment explanation
Indices: 34128365--34128400 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
34128355 AAATAATCCA
*
34128365 AATAAAAATGAATT
1 AATAAAAATGAATG
34128379 AATAAGAAATGAATG
1 AATAA-AAATGAATG
34128394 AATAAAA
1 AATAAAA
34128401 GAAGAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (14 bp):
AATAAAAATGAATG
Found at i:34129777 original size:24 final size:24
Alignment explanation
Indices: 34129675--34129764 Score: 135
Period size: 24 Copynumber: 3.8 Consensus size: 24
34129665 TGACTTTGGA
*
34129675 ACTATGTGTGCGAATTTGAATGAC
1 ACTATGTGTGCGAATTTGTATGAC
* *
34129699 ACTATGTGTGCGAATTTGTACGGC
1 ACTATGTGTGCGAATTTGTATGAC
*
34129723 ACTATGTGTGCGGATTTGTATGAC
1 ACTATGTGTGCGAATTTGTATGAC
*
34129747 ACTATGTGTGCGGATTTG
1 ACTATGTGTGCGAATTTG
34129765 GATGTCAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (24 bp):
ACTATGTGTGCGAATTTGTATGAC
Found at i:34129777 original size:48 final size:48
Alignment explanation
Indices: 34129677--34129786 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 48
34129667 ACTTTGGAAC
* *
34129677 TATGTGTGCGAATTTGAATGACACTATGTGTGCGAATTTGTACGGCAC
1 TATGTGTGCGAATTTGAATGACACTATGTGTGCGAATTTGGACGGCAA
* * * * *
34129725 TATGTGTGCGGATTTGTATGACACTATGTGTGCGGATTTGGATGTCAA
1 TATGTGTGCGAATTTGAATGACACTATGTGTGCGAATTTGGACGGCAA
* *
34129773 TATGTATGTGAATT
1 TATGTGTGCGAATT
34129787 ACTAAGGCAC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.24, C:0.11, G:0.28, T:0.37
Consensus pattern (48 bp):
TATGTGTGCGAATTTGAATGACACTATGTGTGCGAATTTGGACGGCAA
Found at i:34132603 original size:42 final size:42
Alignment explanation
Indices: 34132542--34132702 Score: 171
Period size: 42 Copynumber: 3.7 Consensus size: 42
34132532 TCGTTTTCTT
** *
34132542 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATATT
1 GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATATC
* * *
34132584 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATC
1 GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATATC
* * *
34132626 GATGCCATAGCACAGCTATAGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAACTATGGTCTTACAC---AT--C-T-TCACATATC
34132675 GATGCCATAGCCCAACT-TGGTCTTACAC
1 GATGCCATAGCCCAACTATGGTCTTACAC
34132703 GAATCACATA
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 63 0.64
45 2 0.02
48 11 0.11
49 23 0.23
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATGGTCTTACACATCTTCACATATC
Found at i:34132683 original size:49 final size:47
Alignment explanation
Indices: 34132610--34132714 Score: 147
Period size: 49 Copynumber: 2.2 Consensus size: 47
34132600 TATGGTCTTA
* *
34132610 CACATATTCATATATCGATGCCATAGCACAGCTATAGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCACAACT-TAGTCTTACACG-AAT
* *
34132660 CACATATCACATATCGATGCCATAGCCCAACTTGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCACAACTTAGTCTTACACGAAT
34132707 CACATATC
1 CACATATC
34132715 TCACTGATGC
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
47 11 0.22
48 11 0.22
49 23 0.45
50 6 0.12
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (47 bp):
CACATATCACATATCGATGCCATAGCACAACTTAGTCTTACACGAAT
Found at i:34139833 original size:42 final size:42
Alignment explanation
Indices: 34139765--34139927 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 42
34139755 CTTCGTTTTC
** *
34139765 TCGATGCCATAGTTCAACTATAGTCTTACAGATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATAGTCTTACAGATCTTCACAT-A
* * * *
34139808 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATAGTCTTACAGATCTTCACATA
**
34139849 TCGATGCCATAGCATAGCTATAGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATAGTCTTACA-G--AT--C-T-TCACATA
*
34139898 TCGATGCCATAGCCCAGCTATGGTCTTACA
1 TCGATGCCATAGCCCAGCTATAGTCTTACA
34139928 AGAATCACAT
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 57 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 33 0.34
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATAGTCTTACAGATCTTCACATA
Found at i:34139901 original size:49 final size:48
Alignment explanation
Indices: 34139835--34139954 Score: 154
Period size: 49 Copynumber: 2.5 Consensus size: 48
34139825 TATGGTCTTA
* * *
34139835 CACATATTCATATATCGATGCCATAGCATAGCTATAGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCACAGCTATAGTCTTACAAG-AAT
* *
34139885 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAAGAAT
1 CACATATCACATATCGATGCCATAGCACAGCTATAGTCTTACAAGAAT
*
34139933 CACATATCTCAT-T-GATGCCATA
1 CACATATCACATATCGATGCCATA
34139955 TCCCAGATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
46 9 0.14
47 1 0.02
48 14 0.22
49 34 0.53
50 6 0.09
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCACAGCTATAGTCTTACAAGAAT
Found at i:34140002 original size:47 final size:47
Alignment explanation
Indices: 34139885--34140021 Score: 159
Period size: 47 Copynumber: 2.9 Consensus size: 47
34139875 TACACGTAAT
* * * * *
34139885 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACA-AGAAT
1 CACATATCAC--ACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
* ** *
34139933 CACATATCTCATTGATGCCATATCCCAGATATGGTCTTATACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
*
34139980 CATATATCACACCGATGCCATATCCCAGATATGGTCTTATAC
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTATAC
34140022 GAAAATCACT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.35
47 41 0.53
48 9 0.12
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (47 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTATACAGAAG
Found at i:34140075 original size:31 final size:31
Alignment explanation
Indices: 34140040--34140188 Score: 181
Period size: 31 Copynumber: 4.8 Consensus size: 31
34140030 CTTGTCACTT
* * *
34140040 GTAGCCGAAGCTACCACTATTCACTAAACAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
34140071 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
34140102 GTAGCCGGAGCTACGACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
34140133 GTAGCAGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
34140164 GTAGCCAAAACTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
34140189 TGTCATTTGT
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 101 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:34140270 original size:50 final size:51
Alignment explanation
Indices: 34140164--34140292 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
34140154 CACTGATTAG
* * * * *
34140164 GTAGCCAAAACTATCACTTTTCACTTGTCATTTGTCCTTGGTCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
*
34140215 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
34140265 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
34140293 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 47 0.66
51 24 0.34
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGT
Found at i:34149022 original size:44 final size:44
Alignment explanation
Indices: 34148956--34149080 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 44
34148946 ATTACATGTA
* **
34148956 TCGCATCCATTATGAATTCGGACCAACTCAATGAGTTCGGATGC
1 TCGCATCCATAATGAACCCGGACCAACTCAATGAGTTCGGATGC
*
34149000 TCGCATCCATAATGAACCCGGACCAACTCAACGAGTTCGGATGC
1 TCGCATCCATAATGAACCCGGACCAACTCAATGAGTTCGGATGC
** ** *
34149044 -CTTATATATATCATGAACCCAGACCAACTCAATGAGT
1 TCGCATCCATA--ATGAACCCGGACCAACTCAATGAGT
34149081 ATGGATTTCT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
43 6 0.09
44 40 0.58
45 23 0.33
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
TCGCATCCATAATGAACCCGGACCAACTCAATGAGTTCGGATGC
Found at i:34149467 original size:18 final size:17
Alignment explanation
Indices: 34149444--34149477 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34149434 TAACTTGTTT
*
34149444 ATCAATCACATTATTCAA
1 ATCAATC-CATAATTCAA
34149462 ATCAATCCATAATTCA
1 ATCAATCCATAATTCA
34149478 TGCTTTGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (17 bp):
ATCAATCCATAATTCAA
Found at i:34151405 original size:31 final size:31
Alignment explanation
Indices: 34151363--34151476 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
34151353 CCTTTTCGTA
34151363 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
34151400 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
34151432 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
34151463 TTTCATGTTTCATA
1 TTTCATATTTCATA
34151477 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:34151405 original size:38 final size:38
Alignment explanation
Indices: 34151339--34151502 Score: 234
Period size: 38 Copynumber: 4.5 Consensus size: 38
34151329 CTCAATCATG
* * *
34151339 TACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAA
1 TACTGGGCCGAAG-CCTTTTCATGTTTCATATTTCATAA
34151378 TACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAA
1 TACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAA
*
34151416 TACTGGGCCGAAG-C----C-T-TTTCATATTTCATAT
1 TACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAA
34151447 TACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAA
1 TACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAA
34151485 TACTGGGCCGAAGCCTTT
1 TACTGGGCCGAAGCCTTT
34151503 ACTGTAAACG
Statistics
Matches: 113, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 27 0.24
32 2 0.02
33 1 0.01
36 1 0.01
37 2 0.02
38 68 0.60
39 12 0.11
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
TACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAA
Found at i:34151474 original size:69 final size:69
Alignment explanation
Indices: 34151363--34151502 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
34151353 CCTTTTCGTA
34151363 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
34151428 GCCT
66 GCCT
*
34151432 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
34151497 GCCT
66 GCCT
34151501 TT
1 TT
34151503 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:34151740 original size:24 final size:24
Alignment explanation
Indices: 34151694--34151788 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
34151684 GCTTTATCAT
*
34151694 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
34151719 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
34151743 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
34151766 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34151789 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:34151773 original size:47 final size:49
Alignment explanation
Indices: 34151694--34151787 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
34151684 GCTTTATCAT
*
34151694 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
34151743 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
34151788 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:34151864 original size:20 final size:20
Alignment explanation
Indices: 34151839--34151898 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
34151829 TATGATTACC
34151839 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
34151859 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
34151879 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
34151899 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:34151973 original size:25 final size:25
Alignment explanation
Indices: 34151941--34151988 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34151931 ATACATAAAC
* * *
34151941 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
34151966 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
34151989 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:34157046 original size:19 final size:18
Alignment explanation
Indices: 34156997--34157046 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
34156987 TTGGAGATAA
*
34156997 AATAAAATAA-AGAAAGG
1 AATAAAATAAGAAAAAGG
*
34157014 AATTAAAA-AGGAAAATAGG
1 AA-TAAAATAAGAAAA-AGG
34157033 AATAAAATAAGAAA
1 AATAAAATAAGAAA
34157047 GGAAGAAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.12
18 13 0.50
19 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (18 bp):
AATAAAATAAGAAAAAGG
Found at i:34158394 original size:29 final size:29
Alignment explanation
Indices: 34158359--34158428 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
34158349 TGAGATTGGT
* **
34158359 ACTAAGTGTGCGAGTTTGAATTGCATGGC
1 ACTAAGTGTGCGAGTTTAAATCACATGGC
*
34158388 ACTAAGTGTGCGAGTTTAAATCACCTGGC
1 ACTAAGTGTGCGAGTTTAAATCACATGGC
34158417 ACTAAGTGTGCG
1 ACTAAGTGTGCG
34158429 TGACCGATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (29 bp):
ACTAAGTGTGCGAGTTTAAATCACATGGC
Found at i:34162536 original size:29 final size:28
Alignment explanation
Indices: 34162502--34162604 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
34162492 TAATCGATCA
*
34162502 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
* *
34162531 CGCACACATAGTGCCATATAATTTGAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
34162560 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
34162589 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34162605 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 59 0.91
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:34163260 original size:2 final size:2
Alignment explanation
Indices: 34163248--34163283 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
34163238 TGATGGCCGA
*
34163248 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34163284 CAACTATACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34170681 original size:29 final size:28
Alignment explanation
Indices: 34170647--34170749 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
34170637 TAATCGATCA
*
34170647 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
* *
34170676 CGCACACATAGTGCCATATAATTTGAGCT
1 CGCACACTTAGTGCCAT-TAATTTAAGCT
34170705 CGCACACTTAGTGCCA-TACATTTCAAGCT
1 CGCACACTTAGTGCCATTA-ATTT-AAGCT
*
34170734 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34170750 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.03
28 4 0.06
29 59 0.91
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATTAATTTAAGCT
Found at i:34171405 original size:2 final size:2
Alignment explanation
Indices: 34171393--34171422 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
34171383 TGATGGCCGA
*
34171393 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34171423 CAACTATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34174326 original size:29 final size:29
Alignment explanation
Indices: 34174265--34174366 Score: 91
Period size: 29 Copynumber: 3.5 Consensus size: 29
34174255 GTGACGAGAT
* * * *
34174265 TGGCACTGAGTGTGCGAGCTTGAAATGTT
1 TGGCACTAAGTGTGCAAGCTTGAAATATC
* *
34174294 TGGCACTAAGTGTGCAAGCTTGGACTATC
1 TGGCACTAAGTGTGCAAGCTTGAAATATC
* **
34174323 TGGCACTATGTGTGTGAGCTT-AAATCA-C
1 TGGCACTAAGTGTGCAAGCTTGAAAT-ATC
34174351 ATGGCACTAAGTGTGC
1 -TGGCACTAAGTGTGC
34174367 GTGAACGATT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
28 3 0.05
29 55 0.95
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCAAGCTTGAAATATC
Found at i:34180040 original size:19 final size:18
Alignment explanation
Indices: 34179991--34180040 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
34179981 ATTGGGATAA
*
34179991 AATAAAATAA-AGAAAGG
1 AATAAAATAAGAAAAAGG
*
34180008 AATTAAAA-AGGAAAATAGG
1 AA-TAAAATAAGAAAA-AGG
34180027 AATAAAATAAGAAA
1 AATAAAATAAGAAA
34180041 GGAAGAAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 3 0.12
18 13 0.50
19 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (18 bp):
AATAAAATAAGAAAAAGG
Found at i:34181412 original size:29 final size:29
Alignment explanation
Indices: 34181341--34181414 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 29
34181331 GTGGTGAGAT
* * **
34181341 TGGCACTAAGTGTACGAGTTTGAATTGCA
1 TGGCACTAAGTGTGCGAGTTTAAATCACA
*
34181370 TGGCACTAAGTGTGCGAGTTTAAATCACC
1 TGGCACTAAGTGTGCGAGTTTAAATCACA
34181399 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
34181415 TGACCGATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTTAAATCACA
Found at i:34186439 original size:29 final size:29
Alignment explanation
Indices: 34186402--34186475 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
34186392 TAATCAACCG
* *
34186402 CGCACACTTAGTGCCATGTATTTTAAACT
1 CGCACACTTAGTGCCATGCATTTCAAACT
* *
34186431 CGTACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAACT
34186460 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
34186476 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:34195527 original size:55 final size:55
Alignment explanation
Indices: 34195390--34195511 Score: 145
Period size: 55 Copynumber: 2.2 Consensus size: 55
34195380 GTTAATTTAA
* * ** * *
34195390 CAGGTTCGACCACGGGTGTTCCACACAGGCGTGTCGCACGCCCGTGTTGTTTTGG
1 CAGGCTCGACCACAGGCCTTCCACACGGGCGTGTCGCACGCCCGTGTTGTTCTGG
* ** * *
34195445 CAGGCTCGCCCACAGTTCTTCCACACGGGCGTGTTGCACGCTCGTGTTGTTCTGG
1 CAGGCTCGACCACAGGCCTTCCACACGGGCGTGTCGCACGCCCGTGTTGTTCTGG
34195500 CAGGCTCGACCA
1 CAGGCTCGACCA
34195512 TGGCCATATC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.13, C:0.32, G:0.30, T:0.25
Consensus pattern (55 bp):
CAGGCTCGACCACAGGCCTTCCACACGGGCGTGTCGCACGCCCGTGTTGTTCTGG
Found at i:34197544 original size:40 final size:40
Alignment explanation
Indices: 34197462--34197679 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
34197452 AAACCAAGTA
* * *
34197462 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
34197501 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC-AATCG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT-G
*
34197541 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
34197581 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34197621 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34197661 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
34197680 TTATCATCCG
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
39 18 0.11
40 142 0.87
41 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34205479 original size:40 final size:40
Alignment explanation
Indices: 34205416--34205626 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
34205406 AAACCAAGTA
* * *
34205416 CCTTCAGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
34205455 CCTTCGGGACTTAACCCGGTTATAGTAACTCGCAC-AATCG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT-G
*
34205495 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
34205535 CCTTCAGGACTTAGCCCGGATATATTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
34205575 CCTTCGGGACTTAGCCC-GAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
34205615 CCTTCGGGACTT
1 CCTTCGGGACTT
34205627 TTCCCGGTTA
Statistics
Matches: 151, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 18 0.12
40 130 0.86
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:34210920 original size:24 final size:24
Alignment explanation
Indices: 34210886--34210936 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
34210876 ATTAAGCGGA
*
34210886 GTTGATCGAACGCCTAGAAATAGG
1 GTTGATCGAACACCTAGAAATAGG
*
34210910 GTTGATTGAACACCTAGAAATAGG
1 GTTGATCGAACACCTAGAAATAGG
34210934 GTT
1 GTT
34210937 ACGAGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.25
Consensus pattern (24 bp):
GTTGATCGAACACCTAGAAATAGG
Found at i:34216205 original size:40 final size:40
Alignment explanation
Indices: 34216160--34216347 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
34216150 ATATCCCCAA
* * * * *
34216160 GCACAATTGCCTTCGGGTCTTAACCTGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
34216200 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
34216240 ACACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
** * *
34216280 GCATGAATGCCTTCGAGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
34216320 GCATAATTGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
34216348 GTATCATTCA
Statistics
Matches: 132, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 131 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:34224295 original size:40 final size:40
Alignment explanation
Indices: 34224244--34224428 Score: 282
Period size: 40 Copynumber: 4.6 Consensus size: 40
34224234 ATATACCCAA
* * *
34224244 GCACAATTGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
34224284 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
34224324 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
34224364 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
34224404 GCATAATTGCCTTCGGGACTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCC
34224429 GGGTATCATT
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 134 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:34227919 original size:14 final size:13
Alignment explanation
Indices: 34227899--34227930 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
34227889 AATATTTGAC
34227899 TTGTTCTTAATTA
1 TTGTTCTTAATTA
34227912 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
34227926 TTGTT
1 TTGTT
34227931 TTGATATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:34233521 original size:22 final size:23
Alignment explanation
Indices: 34233499--34233550 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
34233489 ATGTTTTTAC
34233499 TTTTATTCTACTTTAAGACTACT
1 TTTTATTCTACTTTAAGACTACT
* *
34233522 TTTTATTTTTCTTTAAG-CTTA-T
1 TTTTATTCTACTTTAAGAC-TACT
34233544 TTTTATT
1 TTTTATT
34233551 AGGTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 9 0.35
23 17 0.65
ACGTcount: A:0.21, C:0.12, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTATTCTACTTTAAGACTACT
Found at i:34240147 original size:11 final size:11
Alignment explanation
Indices: 34240131--34240161 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
34240121 CGTTTGTCCC
34240131 TTTTTGGCTTG
1 TTTTTGGCTTG
34240142 TTTTTGGCTTG
1 TTTTTGGCTTG
34240153 TTTTTGGCT
1 TTTTTGGCT
34240162 CCTTTTGACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.26, T:0.65
Consensus pattern (11 bp):
TTTTTGGCTTG
Found at i:34241271 original size:22 final size:22
Alignment explanation
Indices: 34241246--34241291 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
34241236 ATAATAAAAG
34241246 TGAGCATGAAAAGATGAATAGA
1 TGAGCATGAAAAGATGAATAGA
*
34241268 TGAGCATGAAAGGATGAATAGA
1 TGAGCATGAAAAGATGAATAGA
34241290 TG
1 TG
34241292 CTCAAAAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.04, G:0.30, T:0.20
Consensus pattern (22 bp):
TGAGCATGAAAAGATGAATAGA
Found at i:34244767 original size:77 final size:78
Alignment explanation
Indices: 34244668--34244833 Score: 255
Period size: 77 Copynumber: 2.1 Consensus size: 78
34244658 ATGCAAGACA
* *
34244668 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGTTGGAAATGTATCCGGGCTAAAGTCC
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGTCC
34244733 CGCAGGCTTCGTG
66 CGCAGGCTTCGTG
* *
34244746 CTGGAAATGT-TCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGTTAAAGTCC
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGTCC
* *
34244810 TGCAGGCTTTGTG
66 CGCAGGCTTCGTG
34244823 CT-GAATATATA
1 CTGGAA-ATATA
34244834 ATTTTGGGTT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
76 3 0.04
77 67 0.85
78 9 0.11
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (78 bp):
CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATATATCCGGGCTAAAGTCC
CGCAGGCTTCGTG
Found at i:34244769 original size:38 final size:39
Alignment explanation
Indices: 34244668--34244833 Score: 255
Period size: 39 Copynumber: 4.3 Consensus size: 39
34244658 ATGCAAGACA
34244668 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34244707 TTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34244746 CTGGAAATGT-TCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
34244784 CTGGAAATATATCCGGGTTAAAGTCCTGCAGGCTTTGTG
1 CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34244823 CT-GAATATATA
1 CTGGAA-ATATA
34244834 ATTTTGGGTT
Statistics
Matches: 118, Mismatches: 7, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
38 40 0.34
39 78 0.66
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
CTGGAAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:34250834 original size:39 final size:39
Alignment explanation
Indices: 34250791--34250988 Score: 315
Period size: 39 Copynumber: 5.1 Consensus size: 39
34250781 ATGCAAGACA
* *
34250791 CTGGAAATATATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34250830 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
34250869 CTAGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
34250908 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
34250947 CTGGAAATATATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
34250986 CTG
1 CTG
34250989 ATATATAATT
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 146 1.00
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:34253172 original size:6 final size:6
Alignment explanation
Indices: 34253161--34253186 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
34253151 GAAGTGTGAG
34253161 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
34253187 TAAATCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:34254710 original size:27 final size:27
Alignment explanation
Indices: 34254675--34254728 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
34254665 ATGAATTTAG
*
34254675 AAAGCATCTTTTCAAGGTTTGGTTTTT
1 AAAGCATCTCTTCAAGGTTTGGTTTTT
34254702 AAAGCATCTCTTCAAGGTTTGGTTTTT
1 AAAGCATCTCTTCAAGGTTTGGTTTTT
34254729 TTTCCTGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (27 bp):
AAAGCATCTCTTCAAGGTTTGGTTTTT
Found at i:34255985 original size:12 final size:13
Alignment explanation
Indices: 34255963--34255991 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
34255953 CAAGAGAGAG
34255963 AAAAAAGTAAAAT
1 AAAAAAGTAAAAT
34255976 AAAAAA-TAAAAT
1 AAAAAAGTAAAAT
34255988 AAAA
1 AAAA
34255992 TAACATTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAAAAGTAAAAT
Found at i:34265693 original size:27 final size:27
Alignment explanation
Indices: 34265645--34265696 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
34265635 GCGAAGCTGC
*
34265645 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGATA
* * *
34265672 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACAAAGCCACCAGA
34265697 ACAAAAATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACAAAGCCACCAGATA
Found at i:34266491 original size:27 final size:27
Alignment explanation
Indices: 34266436--34266635 Score: 204
Period size: 27 Copynumber: 7.4 Consensus size: 27
34266426 GGGGTAAAAT
* * * * *
34266436 GGTAATTTTACCCCACAAAGCTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34266463 GGTAATTCTACCCTA-AATGCGTATTTC
1 GGTAATTCTACCCTACAA-GGGTATTTC
*
34266490 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
34266517 GATAATTATATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34266544 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * * *
34266571 AATAATTTTAACCTACAAGGTTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34266598 GGTAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
34266625 GGTAATTCTAC
1 GGTAATTCTAC
34266636 AACTTACCCA
Statistics
Matches: 142, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 2 0.01
27 138 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34269996 original size:14 final size:14
Alignment explanation
Indices: 34269977--34270004 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34269967 TTAAATCTAC
34269977 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
34269991 TAAAAAAATAAAAA
1 TAAAAAAATAAAAA
34270005 GTAGTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (14 bp):
TAAAAAAATAAAAA
Found at i:34286244 original size:23 final size:23
Alignment explanation
Indices: 34286208--34286251 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34286198 AAATAAATTT
* *
34286208 AGAAAATAACAAAAGAAATAAGA
1 AGAAAAAAACAAAAAAAATAAGA
*
34286231 AGAAAAAAATAAAAAAAATAA
1 AGAAAAAAACAAAAAAAATAA
34286252 AGGATACCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (23 bp):
AGAAAAAAACAAAAAAAATAAGA
Found at i:34290479 original size:28 final size:27
Alignment explanation
Indices: 34290420--34290480 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
34290410 TTTAATCCTT
* *
34290420 TTAAATA-TTTTTGCATAATTTATTTA
1 TTAAATACCTTTTACATAATTTATTTA
* *
34290446 TTAAATACCTTTTACATTATTTATTTT
1 TTAAATACCTTTTACATAATTTATTTA
34290473 TATAAATA
1 T-TAAATA
34290481 TTAGTTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 7 0.24
27 16 0.55
28 6 0.21
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.56
Consensus pattern (27 bp):
TTAAATACCTTTTACATAATTTATTTA
Found at i:34290558 original size:12 final size:12
Alignment explanation
Indices: 34290543--34290579 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
34290533 ATTATTTTTA
34290543 TTATTATACATT
1 TTATTATACATT
*
34290555 TTATTTATAAATT
1 TTA-TTATACATT
34290568 TTATTATACATT
1 TTATTATACATT
34290580 ATATGTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (12 bp):
TTATTATACATT
Found at i:34290563 original size:30 final size:30
Alignment explanation
Indices: 34290500--34290555 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
34290490 TAAAATAATA
*
34290500 TATATTATTTTTTATTTATATATATTTCAT
1 TATATTATTTTTTATTTATATACATTTCAT
34290530 TATATTA-TTTTTA-TTATTATACATTT
1 TATATTATTTTTTATTTA-TATACATTT
34290556 TATTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 3 0.12
29 14 0.58
30 7 0.29
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (30 bp):
TATATTATTTTTTATTTATATACATTTCAT
Found at i:34290793 original size:10 final size:10
Alignment explanation
Indices: 34290683--34290797 Score: 57
Period size: 10 Copynumber: 11.7 Consensus size: 10
34290673 TTTAATTTTT
*
34290683 TATTATTAAA
1 TATTATTATA
* *
34290693 TAATAGTATA
1 TATTATTATA
*
34290703 TA-TATTATC
1 TATTATTATA
34290712 T-TTATT-TA
1 TATTATTATA
34290720 TATGATAGTTATCA
1 TAT--TA-TTAT-A
34290734 TATTATTATA
1 TATTATTATA
34290744 T-TTCATTATA
1 TATT-ATTATA
*
34290754 TTTTATT-TA
1 TATTATTATA
34290763 T-TT-TTAT-
1 TATTATTATA
* *
34290770 TACATATCATA
1 TA-TTATTATA
34290781 TATTATTATA
1 TATTATTATA
34290791 TATTATT
1 TATTATT
34290798 CCCTATATTA
Statistics
Matches: 81, Mismatches: 10, Indels: 28
0.68 0.08 0.24
Matches are distributed among these distances:
7 3 0.04
8 5 0.06
9 17 0.21
10 37 0.46
11 10 0.12
12 4 0.05
13 1 0.01
14 4 0.05
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (10 bp):
TATTATTATA
Found at i:34293005 original size:19 final size:19
Alignment explanation
Indices: 34292981--34293059 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
34292971 AATCTTTAAG
34292981 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34293000 GATATGCAATCTTAGATGT
1 GATATGCAATCTTAGATAT
34293019 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34293036 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
34293057 GAT
1 GAT
34293060 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:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34293011 original size:36 final size:36
Alignment explanation
Indices: 34292971--34293057 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 36
34292961 ATGGAAATAT
34292971 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
34293007 AATC-TTAGATGTGATA--CAATCTTAGATATGATATGC
1 AATCTTTA-A-G-GATATGCAATCTTAGATATGATATGC
*
34293043 AATCTTGAA-GATATG
1 AATCTTTAAGGATATG
34293058 ATCTTGTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
33 4 0.09
35 3 0.07
36 30 0.68
37 3 0.07
38 4 0.09
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGGATATGCAATCTTAGATATGATATGC
Found at i:34295810 original size:23 final size:21
Alignment explanation
Indices: 34295770--34295812 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
34295760 TAGGTTTGTT
*
34295770 GGTTGTTCTCAGTTACTTTTA
1 GGTTGTTCTCAGTCACTTTTA
34295791 GGTTGGTTCTACAGTCACTTTT
1 GGTT-GTTCT-CAGTCACTTTT
34295813 GATTGATAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.14, C:0.16, G:0.21, T:0.49
Consensus pattern (21 bp):
GGTTGTTCTCAGTCACTTTTA
Found at i:34299733 original size:1 final size:1
Alignment explanation
Indices: 34299727--34299769 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
34299717 CTTCTAGTTC
* * * *
34299727 AAAAAAAAAAAAAAATAAAAAGAAAAAAAATAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
34299770 TGAGAGGCCA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.91, C:0.00, G:0.05, T:0.05
Consensus pattern (1 bp):
A
Found at i:34299752 original size:15 final size:15
Alignment explanation
Indices: 34299728--34299769 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
34299718 TTCTAGTTCA
*
34299728 AAAAAAAAAAAAAAT
1 AAAAAGAAAAAAAAT
34299743 AAAAAGAAAAAAAAT
1 AAAAAGAAAAAAAAT
34299758 AAAAAGAAAAAA
1 AAAAAGAAAAAA
34299770 TGAGAGGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.90, C:0.00, G:0.05, T:0.05
Consensus pattern (15 bp):
AAAAAGAAAAAAAAT
Found at i:34300802 original size:42 final size:43
Alignment explanation
Indices: 34300681--34300858 Score: 121
Period size: 45 Copynumber: 4.0 Consensus size: 43
34300671 GAAACAAGAT
* * * **
34300681 TTGGCATCCCTGTGTTTATAGAGAAACAGATCAAAGATAGCAGA
1 TTGGCATCCCTGTGTTTACA-AGGAACAAATTGAAGATAGCAGA
* * * **
34300725 TCTGTCA-CTCCTGTGCTTAC-AGCAAAACAAATTGAAGATTTCAGCA
1 T-TGGCATC-CCTGTGTTTACAAG--GAACAAATTGAAGATAGCAG-A
* * *
34300771 -TGGCATCCC-GTGTTTATAGGGAACAAGTTGAAGATAGCAGA
1 TTGGCATCCCTGTGTTTACAAGGAACAAATTGAAGATAGCAGA
*
34300812 TTTGGCATCCCTGTGTTTACAAGGAACAAATCGAAGACATAGCAGA
1 -TTGGCATCCCTGTGTTTACAAGGAACAAATTGAAG--ATAGCAGA
34300858 T
1 T
34300859 CTGATTTTTG
Statistics
Matches: 102, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
41 1 0.01
42 16 0.16
43 17 0.17
44 29 0.28
45 30 0.29
46 9 0.09
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.26
Consensus pattern (43 bp):
TTGGCATCCCTGTGTTTACAAGGAACAAATTGAAGATAGCAGA
Found at i:34301048 original size:87 final size:87
Alignment explanation
Indices: 34300957--34301431 Score: 239
Period size: 87 Copynumber: 5.4 Consensus size: 87
34300947 CTAACCTTCA
34300957 GATGTTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAA
1 GATGTTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAA
*
34301022 GACATAGCAGATTTGACTTTTG
66 GACATAGCAGATTTGACTTTCG
* ** ** * *** *
34301044 GATGTTCTCACACCAAAGCAGATCCAAGATAACAAATCTGGCA-TC-TCCATTT-CGACGG---A
1 GATGTT-T-ATACTGAAGCAGATCC-A-A-AA-TGATTTGGCATTCTTGTGTTTAC-AAGGAACA
* * * * * * * *
34301103 GAGC-AGGTACATAGCAGGTCTAACCTTCA
59 AATCGAAG-ACATAGCAGATTTGACTTTCG
* *
34301132 AATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAA
1 GATGTTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAA
34301197 GACATAGCAGATTTGACTTTCG
66 GACATAGCAGATTTGACTTTCG
* ** ** * * *
34301219 GATGTTCTTACACCAAAGCAGATCCAAGATAATAGATCCGACATTTCCAT-T-TCTAC--GGAGA
1 GATG-T-TTATACTGAAGCAGATCC-A-A-AAT-GATTTGGCA-TT-CTTGTGTTTACAAGGA-A
* * * * *
34301280 GC--A--G-ATACATAGCAGATCTAACCTTCA
57 -CAAATCGAAGACATAGCAGATTTGACTTTCG
* * * *
34301307 GATGATTT-TACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTCACAAGGACCAAATCGA
1 GATG-TTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGA
* *
34301371 AGACATAGCAGATTTGGCTTTCAC
65 AGACATAGCAGATTTGACTTTC-G
** * * *
34301395 G-TGTTTACGCTGAAGTAGATCTAAGATGATTTGGCAT
1 GATGTTTATACTGAAGCAGATCCAAAATGATTTGGCAT
34301432 ATCTGTATTG
Statistics
Matches: 275, Mismatches: 77, Indels: 72
0.65 0.18 0.17
Matches are distributed among these distances:
80 2 0.01
81 2 0.01
82 17 0.06
83 5 0.02
84 13 0.05
85 3 0.01
86 29 0.11
87 78 0.28
88 51 0.19
89 29 0.11
90 3 0.01
91 13 0.05
92 7 0.03
93 18 0.07
94 3 0.01
95 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (87 bp):
GATGTTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAA
GACATAGCAGATTTGACTTTCG
Found at i:34301101 original size:175 final size:174
Alignment explanation
Indices: 34300810--34301391 Score: 914
Period size: 175 Copynumber: 3.3 Consensus size: 174
34300800 GAAGATAGCA
* * *
34300810 GATTTGGCATCCCTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATCTGATTTTTGGATGTT
1 GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTT
* * * *
34300875 CTCATACCAAAGCAGATCTAAAATAACAGATCTGGCATCTCTATTTCGACGGAGAGCATGTACAT
66 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCA-GTACAT
*
34300940 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAAAT
130 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
*
34300985 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTT
1 GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTT
*
34301050 CTCACACCAAAGCAGATCCAAGATAACAAATCTGGCATCTCCATTTCGACGGAGAGCAGGTACAT
66 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCA-GTACAT
*
34301115 AGCAGGTCTAACCTTCAAATGTTTATACTGAAGCAGATCCAAGAT
130 AGCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
* *
34301160 GATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTCGGATGTT
1 GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTT
* * * * * *
34301225 CTTACACCAAAGCAGATCCAAGATAATAGATCCGACATTTCCATTTCTACGGAGAGCAGATACAT
66 CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAG-TACAT
*
34301290 AGCAGATCTAACCTTCAGATGATTT-TACTGAAGCAGATCCAAGAT
130 AGCAGGTCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAGAT
* * *
34301335 GATTTGGCATCCTTGTGTTCACAAGGACCAAATCGAAGACATAGCAGATTTGGCTTT
1 GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTT
34301392 CACGTGTTTA
Statistics
Matches: 379, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
174 1 0.00
175 375 0.99
176 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (174 bp):
GATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCAGATTTGACTTTTGGATGTT
CTCACACCAAAGCAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAGCAGTACATA
GCAGGTCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT
Found at i:34306043 original size:30 final size:30
Alignment explanation
Indices: 34305988--34306077 Score: 141
Period size: 30 Copynumber: 3.1 Consensus size: 30
34305978 CCTTTTCATA
*
34305988 TTTCATATTTCATAATACT---CGAAGCCT
1 TTTCATATTTCATATTACTGGCCGAAGCCT
34306015 TTTCATATTTCATATTACTGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGCCGAAGCCT
34306045 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACT-GGCCGAAGCCT
34306076 TT
1 TT
34306078 ACTGTAAACG
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
27 18 0.31
30 27 0.47
31 13 0.22
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (30 bp):
TTTCATATTTCATATTACTGGCCGAAGCCT
Found at i:34306348 original size:23 final size:24
Alignment explanation
Indices: 34306269--34306434 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
34306259 GCTTTATCAT
* *
34306269 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
34306294 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
34306318 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
34306341 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
34306365 ATAACT-GGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
34306388 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
34306412 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34306435 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 46 0.35
24 75 0.56
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:34306348 original size:47 final size:48
Alignment explanation
Indices: 34306269--34306434 Score: 248
Period size: 47 Copynumber: 3.5 Consensus size: 48
34306259 GCTTTATCAT
* * **
34306269 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTG
34306318 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
*
34306365 ATAACT-GGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
34306412 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
34306435 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
46 16 0.15
47 57 0.52
48 25 0.23
49 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTG
Found at i:34306509 original size:20 final size:20
Alignment explanation
Indices: 34306484--34306543 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
34306474 TATGATTACC
34306484 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
34306504 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
34306524 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
34306544 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:34306514 original size:11 final size:11
Alignment explanation
Indices: 34306484--34306538 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
34306474 TATGATTACC
34306484 TCATGTGCATA
1 TCATGTGCATA
*
34306495 TCA--TACATA
1 TCATGTGCATA
34306504 TCATGTGCATA
1 TCATGTGCATA
* *
34306515 TCA--TACATT
1 TCATGTGCATA
34306524 TCATGTGCATA
1 TCATGTGCATA
34306535 TCAT
1 TCAT
34306539 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Done.