Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 135 of 295
Found at i:46099138 original size:19 final size:20
Alignment explanation
Indices: 46099105--46099144 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
46099095 ATATATATAT
46099105 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
46099124 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
46099144 A
1 A
46099145 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:46099421 original size:13 final size:14
Alignment explanation
Indices: 46099400--46099428 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
46099390 TTTCTTTTTC
46099400 TTTATTTTTTTATT
1 TTTATTTTTTTATT
46099414 TTTA-TTTTTTATT
1 TTTATTTTTTTATT
46099427 TT
1 TT
46099429 GGGTTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTATTTTTTTATT
Found at i:46107560 original size:23 final size:23
Alignment explanation
Indices: 46107534--46107582 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
46107524 TTCTATTTGT
* *
46107534 GAAAAGGAAAGATGGAACTATGA
1 GAAAAAGAAAGACGGAACTATGA
46107557 GAAAAAGAAAGACGGAACTATGA
1 GAAAAAGAAAGACGGAACTATGA
46107580 GAA
1 GAA
46107583 TGTGCATCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.29, T:0.10
Consensus pattern (23 bp):
GAAAAAGAAAGACGGAACTATGA
Found at i:46118806 original size:47 final size:45
Alignment explanation
Indices: 46118694--46118815 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 45
46118684 TCATTTGTGT
46118694 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGG-CACATTACGA
* * *
46118740 GAACTAGTGTAAGATCATGTCTGGGACATGGCATC-G-ACATTGAGACGG
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCACATT---ACGA
*
46118788 GTGCTAGTGTAAGACATGTCTAGGACAT
1 GAGCTAGTGTAAGACATGTCTAGGACAT
46118816 ATATCAGCCT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
45 5 0.08
46 13 0.20
47 27 0.42
48 20 0.31
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCACATTACGA
Found at i:46118954 original size:140 final size:140
Alignment explanation
Indices: 46118699--46118955 Score: 320
Period size: 140 Copynumber: 1.8 Consensus size: 140
46118689 TGTGTGAGCT
* *
46118699 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGAACTAGTGTAAGATCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGACGAGAACTAGTGTAAGACCATGTCTGG
* * *
46118764 GACATGGCATCGACATTGAGACGGGTGCTAGTGTAAGACATGTCTAGGACATATATCAGCCTCGG
66 GACATGGCATCGACATTGAGACAGGAGCCAGTGTAAGACATGTCTAGGACATATATCAGCCTCGG
46118829 GACGTAAGTC
131 GACGTAAGTC
* * * * * * *
46118839 AGTGTAAGACATGTCTGGGACATGCGTCGGCTACGTGATGA-TAGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGACGAGAACT-AGTGTAAGACCATGTCTG
* * * * * *
46118903 GGGCATGGCTTCGAC-TTGAGATATGAGCCAGTGTAAGACCGTGTCTGGGACAT
65 GGACATGGCATCGACATTGAGACAGGAGCCAGTGTAAGA-CATGTCTAGGACAT
46118956 GGCATCGGCT
Statistics
Matches: 97, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
139 20 0.21
140 77 0.79
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCACATGACGAGAACTAGTGTAAGACCATGTCTGG
GACATGGCATCGACATTGAGACAGGAGCCAGTGTAAGACATGTCTAGGACATATATCAGCCTCGG
GACGTAAGTC
Found at i:46126293 original size:27 final size:24
Alignment explanation
Indices: 46126241--46126293 Score: 61
Period size: 27 Copynumber: 2.1 Consensus size: 24
46126231 TTAAAAATTC
**
46126241 AAATTTATTTTTTAAAATTATTTA
1 AAATTTATTTTTTAAAATTACATA
46126265 AAATTTATTTTTTGATAAAATTACATA
1 AAATTTA-TTTTT--TAAAATTACATA
46126292 AA
1 AA
46126294 TATATAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 5 0.21
27 12 0.50
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATTTATTTTTTAAAATTACATA
Found at i:46140257 original size:21 final size:22
Alignment explanation
Indices: 46140215--46140257 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
46140205 TGTATATATG
* * *
46140215 TATATATAATATAATATTAAAA
1 TATATATAATACAACATAAAAA
46140237 TATA-ATAATACAACATAAAAA
1 TATATATAATACAACATAAAAA
46140258 ACATGACACA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
TATATATAATACAACATAAAAA
Found at i:46140461 original size:3 final size:3
Alignment explanation
Indices: 46140446--46140475 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
46140436 AAGCATAAAC
*
46140446 TAA TAA AAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
46140476 CATTGGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:46140590 original size:23 final size:23
Alignment explanation
Indices: 46140564--46140618 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
46140554 TATATACATG
46140564 TATAC-AAGTACATAATAAAAATA
1 TATACTAA-TACATAATAAAAATA
*
46140587 TATACTAATACATAATAATAATA
1 TATACTAATACATAATAAAAATA
*
46140610 -ATAGTAATA
1 TATACTAATA
46140619 GTAATAATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 8 0.28
23 19 0.66
24 2 0.07
ACGTcount: A:0.58, C:0.07, G:0.04, T:0.31
Consensus pattern (23 bp):
TATACTAATACATAATAAAAATA
Found at i:46140606 original size:3 final size:3
Alignment explanation
Indices: 46140575--46140645 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
46140565 ATACAAGTAC
* * * *
46140575 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA GTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
46140622 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
46140646 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:46141256 original size:16 final size:16
Alignment explanation
Indices: 46141235--46141272 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
46141225 GGTAAAAAAA
* *
46141235 TTTTATTTTTTTTATT
1 TTTTATTTCTTGTATT
46141251 TTTTATTTCTTGTATT
1 TTTTATTTCTTGTATT
46141267 TTTTAT
1 TTTTAT
46141273 ATTATACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.82
Consensus pattern (16 bp):
TTTTATTTCTTGTATT
Found at i:46157527 original size:10 final size:10
Alignment explanation
Indices: 46157509--46157566 Score: 71
Period size: 10 Copynumber: 5.7 Consensus size: 10
46157499 AGTTAAATCA
46157509 AGCTCAAACG
1 AGCTCAAACG
*
46157519 AGCTGAAACG
1 AGCTCAAACG
* *
46157529 AGCTAAAATCA
1 AGCTCAAA-CG
46157540 AGCTCAAACG
1 AGCTCAAACG
*
46157550 AGCTGAAACG
1 AGCTCAAACG
46157560 AGCTCAA
1 AGCTCAA
46157567 GTAAGCTGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
10 32 0.80
11 8 0.20
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (10 bp):
AGCTCAAACG
Found at i:46157541 original size:31 final size:31
Alignment explanation
Indices: 46157503--46157563 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
46157493 AAACAAAGTT
46157503 AAATCAAGCTCAAACGAGCTGAAACGAGCTA
1 AAATCAAGCTCAAACGAGCTGAAACGAGCTA
46157534 AAATCAAGCTCAAACGAGCTGAAACGAGCT
1 AAATCAAGCTCAAACGAGCTGAAACGAGCT
46157564 CAAGTAAGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.23, G:0.20, T:0.13
Consensus pattern (31 bp):
AAATCAAGCTCAAACGAGCTGAAACGAGCTA
Found at i:46165448 original size:26 final size:25
Alignment explanation
Indices: 46165417--46165476 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
46165407 TGCAAGTTGA
*
46165417 ATAATTTTTTTTTA-AAACTTATAAT
1 ATAATTTTTTATTATAAACTTAT-AT
*
46165442 ATAAATTTTTTATTATAACCTTATAT
1 AT-AATTTTTTATTATAAACTTATAT
46165468 ATAATTTTT
1 ATAATTTTT
46165477 ATAACTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 9 0.29
26 15 0.48
27 7 0.23
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (25 bp):
ATAATTTTTTATTATAAACTTATAT
Found at i:46166575 original size:20 final size:19
Alignment explanation
Indices: 46166550--46166600 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
46166540 GAATTTTAAA
* *
46166550 AATTTATATATATAATTGAT
1 AATTTATATAT-TAAATAAT
*
46166570 AATTTAAATATTAAATAAT
1 AATTTATATATTAAATAAT
46166589 -ATTTATATATTA
1 AATTTATATATTA
46166601 CGTTTTCCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 11 0.41
19 6 0.22
20 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
AATTTATATATTAAATAAT
Found at i:46171054 original size:19 final size:20
Alignment explanation
Indices: 46171030--46171068 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
46171020 GGGTACTGTT
46171030 TTCTCA-TAGCTTCCTCGGG
1 TTCTCACTAGCTTCCTCGGG
*
46171049 TTCTCACGTAGCTTCTTCGG
1 TTCTCAC-TAGCTTCCTCGG
46171069 CACTCTGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.31, G:0.21, T:0.38
Consensus pattern (20 bp):
TTCTCACTAGCTTCCTCGGG
Found at i:46178113 original size:32 final size:32
Alignment explanation
Indices: 46178073--46178136 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
46178063 TAGTCCCCGG
*
46178073 GCTAGCTAAATTAATTTACTATGATCTCAAAA
1 GCTAGCTAAATTAAGTTACTATGATCTCAAAA
46178105 GCTAGCTAAATTAAGTTACTATGATCTCAAAA
1 GCTAGCTAAATTAAGTTACTATGATCTCAAAA
46178137 ACATAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.33
Consensus pattern (32 bp):
GCTAGCTAAATTAAGTTACTATGATCTCAAAA
Found at i:46189994 original size:47 final size:47
Alignment explanation
Indices: 46189936--46190323 Score: 681
Period size: 47 Copynumber: 8.3 Consensus size: 47
46189926 ATTCAGCCAA
*
46189936 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
46189983 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
46190030 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
46190077 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
46190126 GAAAGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
46190171 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
*
46190218 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
* *
46190265 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATAT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
46190312 GAAAGTGTATAT
1 GAAAGTGTATAT
46190324 TAATAGCCGA
Statistics
Matches: 330, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
45 44 0.13
47 240 0.73
49 46 0.14
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:46190041 original size:94 final size:94
Alignment explanation
Indices: 46189936--46190461 Score: 767
Period size: 94 Copynumber: 5.7 Consensus size: 94
46189926 ATTCAGCCAA
* *
46189936 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
46190001 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
46190030 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGT
*
46190095 GATAAGGCCTAATGGCCGATGTGATGAATGT
64 GATAAGGCCTAATAGCCGATGTGATGAATGT
*
46190126 GAAAGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
46190189 TAAGGCCTAATAGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
* *
46190218 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
46190283 TAAGGCCTAATAGCCGATGTGATGAATAT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
46190312 GAAAGTG----TA--T-AT------TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
46190364 TAAGGCCTAATGGCCGATGTGATGAATGT
66 TAAGGCCTAATAGCCGATGTGATGAATGT
* * * * * * * * * *
46190393 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
46190458 TAAG
66 TAAG
46190462 TCCCGAAGGG
Statistics
Matches: 395, Mismatches: 20, Indels: 34
0.88 0.04 0.08
Matches are distributed among these distances:
81 73 0.18
85 2 0.01
87 3 0.01
88 2 0.01
90 1 0.00
92 45 0.11
94 224 0.57
96 45 0.11
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATAGCCGATGTGATGAATGT
Found at i:46190190 original size:141 final size:139
Alignment explanation
Indices: 46189936--46190403 Score: 764
Period size: 141 Copynumber: 3.4 Consensus size: 139
46189926 ATTCAGCCAA
46189936 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-GTGTGA
46190001 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
65 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGATAAGGCCTAATAGCCGAT
46190066 GTGATGAATGT
129 GTGATGAATGT
46190077 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-TGTG
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAGTGTG
46190141 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGA
64 ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGATAAGGCCTAATAGCCGA
46190206 TGTGATGAATGT
128 TGTGATGAATGT
* *
46190218 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-GTGTGA
*
46190283 TAAGGCCTAATAGCCGATGTGATGAATATGAAAGTG--TA---T-AT------TAATAGCCGATG
65 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATTGTGATAAGGCCTAATAGCCGATG
46190336 TGATGAATGT
130 TGATGAATGT
46190346 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
46190404 TATGTGACAG
Statistics
Matches: 317, Mismatches: 6, Indels: 21
0.92 0.02 0.06
Matches are distributed among these distances:
128 78 0.25
134 2 0.01
135 1 0.00
139 51 0.16
141 134 0.42
143 51 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (139 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAGTGTGAT
AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATTGTGATAAGGCCTAATAGCCGATGT
GATGAATGT
Found at i:46190329 original size:34 final size:34
Alignment explanation
Indices: 46190290--46190357 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
46190280 TGATAAGGCC
46190290 TAATAGCCGATGTGATGAATATGAAAGTGTATAT
1 TAATAGCCGATGTGATGAATATGAAAGTGTATAT
*
46190324 TAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 TAATAGCCGATGTGATGAATATGAAAGTGTATAT
46190358 ATGTGATAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.25, T:0.32
Consensus pattern (34 bp):
TAATAGCCGATGTGATGAATATGAAAGTGTATAT
Found at i:46190335 original size:81 final size:81
Alignment explanation
Indices: 46190243--46190404 Score: 297
Period size: 81 Copynumber: 2.0 Consensus size: 81
46190233 TGATAAGGCC
*
46190243 TAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
46190308 ATATGAAAGTGTATAT
66 ATATGAAAGTGTATAT
*
46190324 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
46190389 ATGTGAAAGTGTATAT
66 ATATGAAAGTGTATAT
46190405 ATGTGACAGG
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (81 bp):
TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
ATATGAAAGTGTATAT
Found at i:46190382 original size:47 final size:47
Alignment explanation
Indices: 46190324--46190461 Score: 186
Period size: 47 Copynumber: 2.9 Consensus size: 47
46190314 AAGTGTATAT
*
46190324 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
46190371 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * * *
46190418 GAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46190462 TCCCGAAGGG
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 79 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:46190636 original size:37 final size:37
Alignment explanation
Indices: 46190580--46190658 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
46190570 CCGAGCTCTA
* * *
46190580 AAGAGCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
46190617 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46190654 AAGAC
1 AAGAC
46190659 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46197645 original size:28 final size:28
Alignment explanation
Indices: 46197608--46197717 Score: 166
Period size: 28 Copynumber: 3.9 Consensus size: 28
46197598 GCAATCAAAT
*
46197608 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
46197636 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
46197664 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
46197692 ATGACACTTAGTGTGCAAAATATTGA
1 ATGGCACTTAGTGTACGAAATATTGA
46197718 ATGATTCAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 76 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:46199839 original size:43 final size:43
Alignment explanation
Indices: 46199792--46199946 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
46199782 TGTGTTCTCA
* *
46199792 TGTAAGACCACGTCTGGGACGTTGGCATCGATATGTGATTACG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTACG
* * *
46199835 TGTAAGACCATGTGTGGGACATCGGCATCG-TATTTGATT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTACG
* * *
46199876 TGTAAGATCC-TGTCTGGGATAGTGGCATCGATATGTGATTACA
1 TGTAAGA-CCATGTCTGGGACATTGGCATCGATATGTGATTACG
*
46199919 TGTAGGACCATGTCTAGGG-CATTGGCAT
1 TGTAAGACCATGTCT-GGGACATTGGCAT
46199947 TGTACGATAT
Statistics
Matches: 93, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 25 0.27
42 20 0.22
43 45 0.48
44 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGATATGTGATTACG
Found at i:46200124 original size:16 final size:16
Alignment explanation
Indices: 46200100--46200130 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
46200090 TGACTATTTG
*
46200100 ATATGTGATACAAATT
1 ATATATGATACAAATT
46200116 ATATATGATACAAAT
1 ATATATGATACAAAT
46200131 GAAAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.35
Consensus pattern (16 bp):
ATATATGATACAAATT
Found at i:46211815 original size:39 final size:39
Alignment explanation
Indices: 46211771--46211938 Score: 237
Period size: 39 Copynumber: 4.3 Consensus size: 39
46211761 GTATGAGATT
* *
46211771 AAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGG
1 AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
* *
46211810 AAAAATATCCGGACATGAGATCTGCAGGCTATACGCTAG
1 AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
*
46211849 AAATATATCCGGACATGAGATCCGCAGGCTATATGCTAG
1 AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
* * * ** *
46211888 AAATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTGG
1 AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
46211927 AAAAATATCCGG
1 AAAAATATCCGG
46211939 GTTAAAGACC
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 116 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (39 bp):
AAAAATATCCGGACATGAGATCCGCAGGCTATATGCTAG
Found at i:46211952 original size:78 final size:78
Alignment explanation
Indices: 46211771--46211964 Score: 203
Period size: 78 Copynumber: 2.5 Consensus size: 78
46211761 GTATGAGATT
* ** * *
46211771 AAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCTGCA
1 AAAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
*
46211836 GGCTATACGCTAG
66 GGCTACACGCTAG
* * * * * *
46211849 AAATATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGCA
1 AAAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
** *
46211914 GGCTACGTGCTGG
66 GGCTACACGCTAG
** *
46211927 AAAAATATCCGG-GTTAAAGACCCGCAGGCT-TACGCTAG
1 AAAAATATCCGGACAT-AAGACCCGCAGGCTATATGCTAG
46211965 TAATGTATTC
Statistics
Matches: 98, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
77 8 0.08
78 90 0.92
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (78 bp):
AAAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCA
GGCTACACGCTAG
Found at i:46213187 original size:21 final size:17
Alignment explanation
Indices: 46213144--46213179 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
46213134 TTGTGTTGGC
46213144 ATTTTTTTTTCATTCAT
1 ATTTTTTTTTCATTCAT
46213161 ATTTTTTTTTCATTCAT
1 ATTTTTTTTTCATTCAT
46213178 AT
1 AT
46213180 AGTATTTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTTTTCATTCAT
Found at i:46214750 original size:24 final size:26
Alignment explanation
Indices: 46214728--46214779 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
46214718 CCTAATATCC
46214728 CCTAAA-AAGTTCCTGATTTTATCACA
1 CCTAAATAA-TTCCTGATTTTATCACA
**
46214754 GTTAAATAATTCCTGATTTTATCACA
1 CCTAAATAATTCCTGATTTTATCACA
46214780 GTTAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 21 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (26 bp):
CCTAAATAATTCCTGATTTTATCACA
Found at i:46214766 original size:26 final size:26
Alignment explanation
Indices: 46214737--46214787 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
46214727 CCCTAAAAAG
46214737 TTCCTGATTTTATCACAGTTAAATAA
1 TTCCTGATTTTATCACAGTTAAATAA
46214763 TTCCTGATTTTATCACAGTTAAATA
1 TTCCTGATTTTATCACAGTTAAATA
46214788 TTTAAAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.08, T:0.43
Consensus pattern (26 bp):
TTCCTGATTTTATCACAGTTAAATAA
Found at i:46216463 original size:13 final size:13
Alignment explanation
Indices: 46216445--46216469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46216435 TATTAGGTTA
46216445 TATATTATTTTTG
1 TATATTATTTTTG
46216458 TATATTATTTTT
1 TATATTATTTTT
46216470 ATTTTTATTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TATATTATTTTTG
Found at i:46224854 original size:30 final size:30
Alignment explanation
Indices: 46224820--46224880 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
46224810 TTCGCGAGCC
*
46224820 TAAGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAAGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
46224850 TAAGGGAAAAATTGTAATTTTTCAAAAGTT
1 TAAGGGAAAAAGTGTAAATATGCAAAAGTT
46224880 T
1 T
46224881 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.31
Consensus pattern (30 bp):
TAAGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:46225695 original size:64 final size:64
Alignment explanation
Indices: 46225615--46225798 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
46225605 AGACATTATG
*
46225615 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAA
* * * * * *
46225679 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGGGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGGGAT
46225744 AA
63 AA
* * * * *
46225746 AT-TGGCTAGGTCACATGGTTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG-ACAAGAGAGC
46225799 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 7 0.07
66 17 0.17
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAA
Found at i:46230528 original size:54 final size:53
Alignment explanation
Indices: 46230454--46230612 Score: 194
Period size: 54 Copynumber: 2.9 Consensus size: 53
46230444 AAAAAGAAAA
*
46230454 AAAAGGGCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGACCTAATAAAAAATAT
1 AAAA-GGCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGA-CTAATAAAAAAGAT
* * *
46230509 AAAAGGCCAAAGTGAAAACTCGCAAAGAGCACTTTGAGATCTAATAAAAAAGAT
1 AAAAGGCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGA-CTAATAAAAAAGAT
* * * *
46230563 -AAAGAGCCAAATTAAAAACCCACAAAGGGCGCTTTAAGACTCAATAAAAA
1 AAAAG-GCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGACT-AATAAAAA
46230613 TGAAAAAAAA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
53 6 0.07
54 80 0.89
55 4 0.04
ACGTcount: A:0.50, C:0.17, G:0.18, T:0.16
Consensus pattern (53 bp):
AAAAGGCCAAAGTGAAAACTCGCAAAGGGCGCTTTAAGACTAATAAAAAAGAT
Found at i:46232140 original size:43 final size:45
Alignment explanation
Indices: 46232057--46232174 Score: 109
Period size: 43 Copynumber: 2.7 Consensus size: 45
46232047 AGCCACTTGC
** *
46232057 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGACTGAACATTGAAGAT
* * *
46232100 CTTATCTTTCTGAGGTAGTAAG-GAAGTAGACTGAACATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAG-AGCAGACTGAACATTGAAGAT
* * *
46232145 CTTATCTCCCTGAAGTTGC-AGCAGAGCAGA
1 CTTATCTCTCTGAGGTAGCAAG-AGAGCAGA
46232175 TCGACGATGG
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
42 1 0.02
43 32 0.55
44 4 0.07
45 20 0.34
46 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGACTGAACATTGAAGAT
Found at i:46232258 original size:177 final size:176
Alignment explanation
Indices: 46231792--46232587 Score: 909
Period size: 176 Copynumber: 4.5 Consensus size: 176
46231782 AGCCCCAAGC
* * * * *
46231792 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACCAAAGATGACAAATCTTATCTCCATGTATC-AGC
1 CTTATCTCCCT-AAGCTGCAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGA-C
* * ** *
46231856 AATGGAGAAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAGAGTGGGTTGAATATTG
64 AATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG
* * *
46231921 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTAAAGAT
129 AGTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
* * * ** * *
46231969 CTTATCTCCCTAAACAGTAGCAGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAA
1 CTTATCTCCCTAAGCTGCAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGACAA
* *
46232034 TGGAGCAGGTTTTAGCCACTTGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAG
66 TGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAG
* * *
46232099 TCTTATCTTTCTGAGGTAGTAAGGAAGTAGACTGAACATTGAAGAT
131 TCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
* ** * * * * *
46232145 CTTATCTCCCTGAAGTTGCAGCAGAGCAGATCGACGATGGCGAATCTTATCTTCATGTGTCGAAA
1 CTTATCTCCCT-AAGCTGCAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGACA
* * * *
46232210 ATGGAGCAGATTTAAGCCACTAGCCTCATCTCTTTAAGGTAGCAAGAGAGCAGGTTGAAGATTGA
65 ATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGA
* * * * * *
46232275 GTTTTATCTTTCTGAGGCAGAAAGAAAGTAGACTGAATATTGAAGAT
130 GTCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
* * ** * *
46232322 CTTATCTCCCTAAACAGTGGTGGAGCAGATCAAAAATGGCGAATCTTATCTACATGTATC-ACCA
1 CTTATCTCCCTAAGCTGCAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGA-CA
* **
46232386 ATGGAGCAGATTTTAGCCATTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGT
65 ATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-
* *
46232451 AGTCTTAT-TTTCCTGAGGTAGCAAGGAAGCAAACTGAAGATTGAAAAT
129 AGTCTTATCTTT-CTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
* * * * * * * * *
46232499 C-TATCTCCCTAAGCAGTAGTGGAGCAGATCGAATATGGTGAATATTATATTCATGTATCGGCAA
1 CTTATCTCCCTAAGCTGCAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGACAA
* * *
46232563 TGGATCAGATGTTA-ACACTAGCCTT
66 TGGAGCAGATTTTAGCCACTAGCCTT
46232588 TTTGAGATAG
Statistics
Matches: 527, Mismatches: 86, Indels: 14
0.84 0.14 0.02
Matches are distributed among these distances:
175 10 0.02
176 315 0.60
177 202 0.38
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (176 bp):
CTTATCTCCCTAAGCTGCAGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATGTATCGACAA
TGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAG
TCTTATCTTTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
Found at i:46232350 original size:353 final size:354
Alignment explanation
Indices: 46231792--46232586 Score: 1012
Period size: 353 Copynumber: 2.3 Consensus size: 354
46231782 AGCCCCAAGC
* * * * * *
46231792 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACCAAAGATGACAAATCTTATCTCCATGTATC-AGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCATGTATCGA-C
* * * * * ** *
46231856 AATGGAGAAGATTTTAGCCACAAGCCTTATCTCTCTGAGGTAGCAAGAGAGTGGGTTGAATATTG
65 AATGGAGCAGATTTAAGCCACTAGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTG
* * *
46231921 AGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAACAG
130 AGTCTTATCTTCCTAAGGCAGAAAGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAACAG
* * ** *
46231986 TAGCAGAGCAGATCAAAGATGGCAAATCTTATCTCCATGTATCGGCAATGGAGCAGGTTTTAGCC
195 TAGCAGAGCAGATCAAAAATGGCAAATCTTATCTACATGTATCACCAATGGAGCAGATTTTAGCC
46232051 ACTT-GCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTT-CTGA
260 A-TTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTAT-TTTCCTGA
* * * *
46232113 GGTAGTAAGGAAGTAGACTGAACATTGAAGAT
323 GGTAGCAAGGAAGCAAACTGAACATTGAAAAT
** * * *
46232145 CTTATCTCCCTGAAGTTGCAGCAGAGCAGATCGACGATGGCGAATCTTATCTTCATGTGTCGAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCATGTATCGACA
*
46232210 ATGGAGCAGATTTAAGCCACTAGCCTCATCTCTTTAAGGTAGCAAGAGAGCAGGTTGAAGATTGA
66 ATGGAGCAGATTTAAGCCACTAGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGA
* * * * * *
46232275 GTTTTATCTTTCTGAGGCAGAAAGAAAGTAGACTGAATATTGAAGATCTTATCTCCCTAAACAGT
131 GTCTTATCTTCCTAAGGCAGAAAGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAACAGT
* ** *
46232340 GGTGGAGCAGATCAAAAATGGCGAATCTTATCTACATGTATCACCAATGGAGCAGATTTTAGCCA
196 AGCAGAGCAGATCAAAAATGGCAAATCTTATCTACATGTATCACCAATGGAGCAGATTTTAGCCA
**
46232405 TTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATTTTCCTGAGGT
261 TTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATTTTCCTGAGGT
*
46232470 AGCAAGGAAGCAAACTGAAGATTGAAAAT
326 AGCAAGGAAGCAAACTGAACATTGAAAAT
** * * * * * *
46232499 C-TATCTCCCT-AAGCAGTAGTGGAGCAGATCGAATATGGTGAATATTATATTCATGTATCGGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCATGTATCGACA
*
46232562 ATGGATCAGATGTTAA--CACTAGCCT
66 ATGGAGCAGAT-TTAAGCCACTAGCCT
46232587 TTTTGAGATA
Statistics
Matches: 378, Mismatches: 59, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
351 9 0.02
352 52 0.14
353 276 0.73
354 41 0.11
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (354 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGATGGCGAATCTTATCTTCATGTATCGACA
ATGGAGCAGATTTAAGCCACTAGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGA
GTCTTATCTTCCTAAGGCAGAAAGAAAGCAGACTGAAGATTAAAGATCTTATCTCCCTAAACAGT
AGCAGAGCAGATCAAAAATGGCAAATCTTATCTACATGTATCACCAATGGAGCAGATTTTAGCCA
TTAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATTTTCCTGAGGT
AGCAAGGAAGCAAACTGAACATTGAAAAT
Found at i:46235156 original size:6 final size:6
Alignment explanation
Indices: 46235145--46235183 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
46235135 TTGTTGTATA
* *
46235145 TTATTT TTATTT TTATTT TTATTT TT-TTT GTATTG TTAT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTAT
46235184 ATCAATTGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTATTT
Found at i:46235178 original size:17 final size:18
Alignment explanation
Indices: 46235145--46235183 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
46235135 TTGTTGTATA
* *
46235145 TTATTTTTATTTTTATTT
1 TTATTTTTATTTGTATTG
46235163 TTATTTTT-TTTGTATTG
1 TTATTTTTATTTGTATTG
46235180 TTAT
1 TTAT
46235184 ATCAATTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (18 bp):
TTATTTTTATTTGTATTG
Found at i:46250484 original size:22 final size:22
Alignment explanation
Indices: 46250431--46250507 Score: 65
Period size: 22 Copynumber: 3.6 Consensus size: 22
46250421 TTTATGTTCT
46250431 TATTTTTATTTTATTTTAAAAC
1 TATTTTTATTTTATTTTAAAAC
*
46250453 TAGTTTTTATTTT-TCTTT-AAGC
1 TA-TTTTTATTTTAT-TTTAAAAC
**
46250475 GTATTTTTATTAGATTTT-AAA-
1 -TATTTTTATTTTATTTTAAAAC
46250496 -ATTTTTATTTTA
1 TATTTTTATTTTA
46250508 CAATTATCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 11
0.73 0.10 0.18
Matches are distributed among these distances:
19 10 0.22
22 19 0.42
23 16 0.36
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (22 bp):
TATTTTTATTTTATTTTAAAAC
Found at i:46258966 original size:23 final size:23
Alignment explanation
Indices: 46258940--46259000 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
46258930 TGGCTTCGTT
*
46258940 CACAACCTACATAGTGGTTTATC
1 CACAACCTACATAGCGGTTTATC
*
46258963 CACAACCTACATGGCGGTTTATC
1 CACAACCTACATAGCGGTTTATC
46258986 CACAACCTACATAGC
1 CACAACCTACATAGC
46259001 AGCTTGTCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (23 bp):
CACAACCTACATAGCGGTTTATC
Found at i:46261985 original size:26 final size:26
Alignment explanation
Indices: 46261953--46262003 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
46261943 GTCTTTCTAT
46261953 TATGCTTAAATTTG-AAATATAGTTTC
1 TATGCTTAAATTTGAAAAT-TAGTTTC
*
46261979 TATGCTTTAATTTGAAAATTAGTTT
1 TATGCTTAAATTTGAAAATTAGTTT
46262004 GGTCTCTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.49
Consensus pattern (26 bp):
TATGCTTAAATTTGAAAATTAGTTTC
Found at i:46262629 original size:3 final size:3
Alignment explanation
Indices: 46262607--46262668 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
46262597 TCTGGGCAGT
* * ** *
46262607 AGA AGA AAA AG- AGA AAA AGA AGA CTA AG- AGA AGA A-A TGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
46262652 AGA AGA A-A AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA
46262669 GAACATGGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
2 7 0.16
3 38 0.84
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:46262629 original size:17 final size:17
Alignment explanation
Indices: 46262607--46262666 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
46262597 TCTGGGCAGT
46262607 AGAAGAAAAAGAGAAAA
1 AGAAGAAAAAGAGAAAA
**
46262624 AGAAGACTAAGAGAAGAA
1 AGAAGAAAAAGAGAA-AA
*
46262642 ATGAAGAAGAAGA-AGAAA
1 A-GAAGAAAAAGAGA-AAA
46262660 AGAAGAA
1 AGAAGAA
46262667 GAGAACATGG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 19 0.53
18 7 0.19
19 10 0.28
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.03
Consensus pattern (17 bp):
AGAAGAAAAAGAGAAAA
Found at i:46268926 original size:18 final size:18
Alignment explanation
Indices: 46268905--46268940 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46268895 AATTTTCATC
*
46268905 TTTTT-TTATTTATTAAA
1 TTTTTATTATTTATCAAA
46268922 TTTTTATTATTTATCAAA
1 TTTTTATTATTTATCAAA
46268940 T
1 T
46268941 CACCTCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATTATTTATCAAA
Found at i:46277104 original size:11 final size:11
Alignment explanation
Indices: 46277090--46277134 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
46277080 TTTCGATTTC
46277090 TTTTTATAATT
1 TTTTTATAATT
*
46277101 TTTTTACAATT
1 TTTTTATAATT
46277112 TTTTT-T-A-T
1 TTTTTATAATT
46277120 TTTTTATAATAT
1 TTTTTATAAT-T
46277132 TTT
1 TTT
46277135 GAAGGTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
8 6 0.21
9 2 0.07
10 1 0.04
11 15 0.54
12 4 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:46290708 original size:49 final size:49
Alignment explanation
Indices: 46290652--46290845 Score: 244
Period size: 49 Copynumber: 3.9 Consensus size: 49
46290642 TAGACAAGGC
* *
46290652 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * * * * *
46290701 TATCTGGTACACGTAGTAGCCTGTACTTAGCACTATACACGTGGCCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * ** *
46290751 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACTTGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
46290800 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
46290846 TCACAATAGA
Statistics
Matches: 119, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
49 80 0.67
50 39 0.33
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:46291112 original size:27 final size:27
Alignment explanation
Indices: 46291072--46291125 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
46291062 AGGTACAACC
* *
46291072 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
46291099 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
46291126 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:46293485 original size:10 final size:10
Alignment explanation
Indices: 46293462--46293496 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
46293452 AATAGACATT
46293462 AAAATAAATA
1 AAAATAAATA
*
46293472 AAAACAAAATA
1 AAAA-TAAATA
46293483 AAAATAAATA
1 AAAATAAATA
46293493 AAAA
1 AAAA
46293497 GTATACAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAATAAATA
Found at i:46294507 original size:152 final size:151
Alignment explanation
Indices: 46294095--46294508 Score: 494
Period size: 152 Copynumber: 2.7 Consensus size: 151
46294085 AAAGCATTGT
* *
46294095 TTTGAAATAGTTTAAAAAAATCAGAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATGACTT
1 TTTGAAATAG-TTAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATAAC-T
* * * **
46294160 AAAAAAATATATTTTTATTTTTCAAAATCTAAACT-T-TTTACCTTT-TTTTAAAAAAAATATTA
64 AAAAAAACATATTTTTATTTTT-AAAATCTAAACTCTCTTT--TTTTATTTTAAAAAAAACACAA
* * *
46294222 TTTTTATTAAAGATTGAAGTTTTTCC
126 TTTTTATTAAAGATTAAAGCTTTTAC
* * * * *
46294248 TTTGAAATAGTTAAAAAAATCAAAATTTTGTGTTAAAATTTTAAACTTTTCTTTAAAATTACTAA
1 TTTGAAATAGTTAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATAACTAA
* * * *
46294313 AAAAACAAAATATTATTTTTTAAAATCTAAACTCTCCTTTTTTATTATTAAAAAAAACACAATTT
66 AAAAACATATTTTTA-TTTTTAAAATCTAAACTCTCTTTTTTTATT-TTAAAAAAAACACAATTT
* *
46294378 TTCTTAAGGATTAAAGCTTTTAC
129 TTATTAAAGATTAAAGCTTTTAC
* * *
46294401 TTTGTACTAGTTAAAAAAATCAAAACTTTATTTTAAAA-TTTAAACTTTCCTTTAAAATAACTGA
1 TTTGAAATAGTTAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATAACTAA
* *
46294465 AAAAACATATTTTTATTAGTTAAAATATAAACTCTCTTTTTTTA
66 AAAAACATATTTTTATT-TTTAAAATCTAAACTCTCTTTTTTTA
46294509 AAAAAAAAAT
Statistics
Matches: 221, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
151 31 0.14
152 112 0.51
153 78 0.35
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (151 bp):
TTTGAAATAGTTAAAAAAATCAAAACTTTATTTTAAAATTTTAAACTTTCCTTTAAAATAACTAA
AAAAACATATTTTTATTTTTAAAATCTAAACTCTCTTTTTTTATTTTAAAAAAAACACAATTTTT
ATTAAAGATTAAAGCTTTTAC
Found at i:46303144 original size:40 final size:40
Alignment explanation
Indices: 46303053--46303354 Score: 344
Period size: 40 Copynumber: 7.6 Consensus size: 40
46303043 TCCTCGTTCA
* * * * *
46303053 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46303092 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46303132 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46303172 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
46303212 AATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
46303252 AAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
46303291 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
46303331 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46303355 CAGCATTCAA
Statistics
Matches: 233, Mismatches: 23, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
38 2 0.01
39 65 0.28
40 158 0.68
41 8 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46303338 original size:159 final size:159
Alignment explanation
Indices: 46303053--46303354 Score: 369
Period size: 159 Copynumber: 1.9 Consensus size: 159
46303043 TCCTCGTTCA
* ** * *
46303053 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGAATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGACT
* * * *
46303118 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGG
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTAGCACGAAAGCCTTCGG
46303183 GACTTAACCCGGATTTAATAACTCGCACG
131 GACTTAACCCGGATTTAATAACTCGCACG
* * *
46303212 AATGCCTTCGGGACTTAACCCGAATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGGAA
1 AATGCCTTCGGGACATAACCCGAATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG-A
* * ** * *
46303276 CTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AAAGCCT
64 CTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACGAAAGCCT
*
46303338 TCGGGACTTAGCCCGGA
127 TCGGGACTTAACCCGGA
46303355 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
158 3 0.03
159 98 0.82
160 19 0.16
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (159 bp):
AATGCCTTCGGGACATAACCCGAATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGACT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTAGCACGAAAGCCTTCGG
GACTTAACCCGGATTTAATAACTCGCACG
Found at i:46303341 original size:119 final size:119
Alignment explanation
Indices: 46303051--46303352 Score: 333
Period size: 119 Copynumber: 2.5 Consensus size: 119
46303041 GCTCCTCGTT
* * * * * *
46303051 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAATAACT-AGCACAATGCCTTCGGGACTTAACCCGA
* * *
46303115 ATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 ATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGACTTAATAACTCGCA
* * *
46303170 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGGACTTAACCCGGATATAATAACTAGCAC-AATGCCTTCGGGACTTAACCCGA
* * * *
46303235 ATTTAGTATCTCGCACAAAGGCCTTCGGG-CTTAACCCGGAACTT-GTATCTCGCA
65 ATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGG-ACTTAATAACTCGCA
** * * * *
46303289 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACAATGCCTTCGGGACTTAACCCG
46303353 GACAGCATTC
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
118 3 0.02
119 97 0.63
120 55 0.35
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.25
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAATAACTAGCACAATGCCTTCGGGACTTAACCCGAA
TTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGACTTAATAACTCGCA
Found at i:46303363 original size:41 final size:41
Alignment explanation
Indices: 46303286--46303363 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
46303276 CTTGTATCTC
* * *
46303286 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
46303327 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
46303364 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:46310241 original size:39 final size:40
Alignment explanation
Indices: 46310198--46310404 Score: 289
Period size: 39 Copynumber: 5.3 Consensus size: 40
46310188 TCCTCGTTCA
* * * *
46310198 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
46310237 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
46310277 AATGCCTTCGGGACTTAACCCGGATTTA-TAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
46310316 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* * *
46310355 AAGGCCTTCGGGACTTAACCCGGA-TT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
46310393 AATGCGCTTCGG
1 AATGC-CTTCGG
46310405 ATCTTCAGTC
Statistics
Matches: 156, Mismatches: 8, Indels: 8
0.91 0.05 0.05
Matches are distributed among these distances:
37 11 0.07
38 6 0.04
39 102 0.65
40 37 0.24
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:46310285 original size:79 final size:78
Alignment explanation
Indices: 46310198--46310380 Score: 278
Period size: 79 Copynumber: 2.3 Consensus size: 78
46310188 TCCTCGTTCA
* * *
46310198 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTA-TAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
46310262 TTAATAACTCGCAC
65 TTAATAACTCGCAC
*
46310276 GAATGCCTTCGGGACTTAACCCGGATTTATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 -AATGCCTTCGGGACTTAACCCGGATTTATAACTCACACGAATGCCTTCGGGACTTAACCCGGAT
* *
46310341 TTAGTATCTCGCAC
65 TTAATAACTCGCAC
*
46310355 AAGGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATT
46310381 GTATCTCGCA
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
78 34 0.35
79 62 0.65
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (78 bp):
AATGCCTTCGGGACTTAACCCGGATTTATAACTCACACGAATGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCAC
Found at i:46316469 original size:14 final size:14
Alignment explanation
Indices: 46316452--46316481 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
46316442 AATTATTAAA
*
46316452 TATAATTAATTTTT
1 TATAATTAATTCTT
46316466 TATAATTAATTCTT
1 TATAATTAATTCTT
46316480 TA
1 TA
46316482 GTCCTGGGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (14 bp):
TATAATTAATTCTT
Found at i:46317688 original size:20 final size:21
Alignment explanation
Indices: 46317654--46317703 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
46317644 TGTATCTCTT
* *
46317654 TTTCTTTTTCTTTTTCCCTTC
1 TTTCTCTTTCATTTTCCCTTC
**
46317675 TTT-TCTTTCATTTTTTCTTC
1 TTTCTCTTTCATTTTCCCTTC
46317695 TTTCTCTTT
1 TTTCTCTTT
46317704 TTCTTTTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTCTCTTTCATTTTCCCTTC
Found at i:46317697 original size:15 final size:15
Alignment explanation
Indices: 46317650--46317708 Score: 61
Period size: 14 Copynumber: 4.1 Consensus size: 15
46317640 CTCTTGTATC
*
46317650 TCTTTTTCTTTTTCT
1 TCTTTCTCTTTTTCT
* *
46317665 T-TTTCCCTTCTT-T
1 TCTTTCTCTTTTTCT
46317678 TCTTTCAT-TTTTTCT
1 TCTTTC-TCTTTTTCT
46317693 TCTTTCTCTTTTTCT
1 TCTTTCTCTTTTTCT
46317708 T
1 T
46317709 TTACGTACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
13 2 0.06
14 17 0.49
15 16 0.46
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (15 bp):
TCTTTCTCTTTTTCT
Found at i:46317740 original size:13 final size:13
Alignment explanation
Indices: 46317722--46317758 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
46317712 CGTACCTCTG
46317722 TCTTCATCTTTCT
1 TCTTCATCTTTCT
46317735 TCTTCA-C--TCT
1 TCTTCATCTTTCT
46317745 TCTTCATCTTTCT
1 TCTTCATCTTTCT
46317758 T
1 T
46317759 GGTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
12 1 0.05
13 10 0.48
ACGTcount: A:0.08, C:0.32, G:0.00, T:0.59
Consensus pattern (13 bp):
TCTTCATCTTTCT
Found at i:46326297 original size:6 final size:6
Alignment explanation
Indices: 46326286--46326321 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
46326276 ATCTATTTGG
46326286 TTTTTA TTTTTA TTTTTA TTATTTA TATTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TT-TTTA T-TTTTA TTTT
46326322 GGAACAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 17 0.61
7 10 0.36
8 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:46336040 original size:27 final size:27
Alignment explanation
Indices: 46335980--46336040 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
46335970 GAACACAGTG
* *
46335980 AACGACAGTGAATGGTGAATGACAACG
1 AACGACAGTGAATGGTGAACGACAACA
* *
46336007 AATGACAGTGAATGGTGAACGACAGCA
1 AACGACAGTGAATGGTGAACGACAACA
46336034 AACGACA
1 AACGACA
46336041 ATGATATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.16, G:0.28, T:0.13
Consensus pattern (27 bp):
AACGACAGTGAATGGTGAACGACAACA
Found at i:46336147 original size:17 final size:17
Alignment explanation
Indices: 46336105--46336166 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
46336095 ATGGGTAAGG
46336105 AAAA-AAAAAGAAAAAA
1 AAAAGAAAAAGAAAAAA
** *
46336121 GGGAAG-AAAAGAAAGAA
1 -AAAAGAAAAAGAAAAAA
*
46336138 AAATGAAAAAGAAAAAA
1 AAAAGAAAAAGAAAAAA
46336155 AAAAGAAAAAGA
1 AAAAGAAAAAGA
46336167 GGTACAAGAG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
16 2 0.06
17 33 0.94
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAA
Found at i:46336151 original size:6 final size:6
Alignment explanation
Indices: 46336132--46336166 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
46336122 GGAAGAAAAG
46336132 AAAGAA AAATGAA AAAGAA AAA-AA AAAGAA AAAGA
1 AAAGAA AAA-GAA AAAGAA AAAGAA AAAGAA AAAGA
46336167 GGTACAAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (6 bp):
AAAGAA
Found at i:46338211 original size:14 final size:14
Alignment explanation
Indices: 46338189--46338219 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46338179 TTTCGGATGA
*
46338189 ATGGGTGCAATAAT
1 ATGGCTGCAATAAT
46338203 ATGGCTGCAATAAT
1 ATGGCTGCAATAAT
46338217 ATG
1 ATG
46338220 TAGCCACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (14 bp):
ATGGCTGCAATAAT
Found at i:46338927 original size:21 final size:19
Alignment explanation
Indices: 46338879--46338938 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
46338869 CTATCTGAAC
*
46338879 TAAACTTTAGTAAATATAT
1 TAAACTTTAATAAATATAT
*
46338898 TAAAGTTTAATAAATATAT
1 TAAACTTTAATAAATATAT
46338917 GTAAAACTTTAATAAATATAT
1 -T-AAACTTTAATAAATATAT
46338938 T
1 T
46338939 TCATGTGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.47
20 2 0.06
21 17 0.47
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAACTTTAATAAATATAT
Found at i:46342476 original size:20 final size:20
Alignment explanation
Indices: 46342434--46342481 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
46342424 AACCGATAAA
*
46342434 ATCAATACCAAGATAAAATT
1 ATCAATACCAAGATAAAAGT
*
46342454 ATCGATACCAA-ATAAAAGGT
1 ATCAATACCAAGATAAAA-GT
46342474 ATCAATAC
1 ATCAATAC
46342482 TTAATGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.52, C:0.17, G:0.08, T:0.23
Consensus pattern (20 bp):
ATCAATACCAAGATAAAAGT
Found at i:46343080 original size:33 final size:33
Alignment explanation
Indices: 46343036--46343100 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
46343026 TGTAATTTTC
46343036 ATTTCAATGTTTTCAACTATCTTATATTCTCTA
1 ATTTCAATGTTTTCAACTATCTTATATTCTCTA
* * * *
46343069 ATTTCAGTGTTTTCAATTATTTTATTTTCTCT
1 ATTTCAATGTTTTCAACTATCTTATATTCTCT
46343101 CCATTCAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (33 bp):
ATTTCAATGTTTTCAACTATCTTATATTCTCTA
Found at i:46345265 original size:15 final size:15
Alignment explanation
Indices: 46345241--46345279 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
46345231 TATAATTTAT
46345241 TAAATAAAAATATTC
1 TAAATAAAAATATTC
* *
46345256 TAAATTAAAATATTT
1 TAAATAAAAATATTC
*
46345271 TTAATAAAA
1 TAAATAAAA
46345280 TACTTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAATAAAAATATTC
Found at i:46345459 original size:31 final size:32
Alignment explanation
Indices: 46345424--46345485 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
46345414 TCATAAACTT
* *
46345424 ATAAATTGATTACTTGAA-TTAATAACTCATG
1 ATAAATTAATTAATTGAATTTAATAACTCATG
* *
46345455 ATAAATTAATTAATTTAATTTGATAACTCAT
1 ATAAATTAATTAATTGAATTTAATAACTCAT
46345486 ATTGATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 15 0.58
32 11 0.42
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATG
Found at i:46346831 original size:22 final size:23
Alignment explanation
Indices: 46346787--46346831 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
46346777 GTTGTGCAAA
*
46346787 ACGCCCCGTTTCAATAAAACAAT
1 ACGCACCGTTTCAATAAAACAAT
*
46346810 ACGCACCGTTTCACT-AAACAAT
1 ACGCACCGTTTCAATAAAACAAT
46346832 CCAAACAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.38, C:0.31, G:0.09, T:0.22
Consensus pattern (23 bp):
ACGCACCGTTTCAATAAAACAAT
Found at i:46353980 original size:13 final size:13
Alignment explanation
Indices: 46353962--46353987 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46353952 TTTCAAGTTT
46353962 TTTTTAATTAATA
1 TTTTTAATTAATA
46353975 TTTTTAATTAATA
1 TTTTTAATTAATA
46353988 AATCTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTTAATTAATA
Found at i:46354005 original size:17 final size:16
Alignment explanation
Indices: 46353963--46354007 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 16
46353953 TTCAAGTTTT
46353963 TTTTAATTAAT--AT-
1 TTTTAATTAATAAATC
46353976 TTTTAATTAATAAATC
1 TTTTAATTAATAAATC
*
46353992 TTTTATTTATATAAAT
1 TTTTAATTA-ATAAAT
46354008 AAAATTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 11 0.41
15 2 0.07
16 8 0.30
17 6 0.22
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTAATTAATAAATC
Found at i:46354076 original size:98 final size:97
Alignment explanation
Indices: 46353971--46354173 Score: 293
Period size: 98 Copynumber: 2.1 Consensus size: 97
46353961 TTTTTTAATT
* * *
46353971 AATATTTTTAATTAATAAATCTTTTATTTATATAAATAAAATTAATTA-TATGTAATTATATAAT
1 AATATTTTTAATTAATAAATCCTTTATTTATATAAA-AAAATTAATAATTATATAATTATATAAT
46354035 -AAAATATCTATTTTAAATATATCATTATGTTAAA
65 AAAAATAT-T-TTTTAAATATATCATTATGTTAAA
**
46354069 AATATTTTTAATTAATAGCTCCTTTATTTATATAAAAAAATTAATAATTATATAATTATATAATA
1 AATATTTTTAATTAATAAATCCTTTATTTATATAAAAAAATTAATAATTATATAATTATATAATA
* *
46354134 AAAATATTTTTTATATTTATCATTATGTTAAA
66 AAAATATTTTTTAAATATATCATTATGTTAAA
*
46354166 TATATTTT
1 AATATTTT
46354174 ATTTTTTAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
97 39 0.41
98 49 0.52
99 7 0.07
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (97 bp):
AATATTTTTAATTAATAAATCCTTTATTTATATAAAAAAATTAATAATTATATAATTATATAATA
AAAATATTTTTTAAATATATCATTATGTTAAA
Found at i:46363109 original size:99 final size:99
Alignment explanation
Indices: 46362932--46363112 Score: 224
Period size: 99 Copynumber: 1.8 Consensus size: 99
46362922 TTTTTAATTT
* * * **
46362932 ATTATATATTTATATATTTATTTATATAAATAAAGGAGTTATTAATTAAAAATATTTTTAACATA
1 ATTACATATTTATATATTTATTTATATAAATAAAAGAGTTATTAATTAAAAAGATAATTAACATA
* * *
46362997 ATGACATATATAAAATATATATTTTTATTAAATA
66 ATAAAATAAATAAAATATATATTTTTATTAAATA
* *
46363031 ATTACATATTTAT-TATTTTATTTATATAGATAAAAGAGTTATTAGTTAAAAAGATGAATTAA-A
1 ATTACATATTTATATA-TTTATTTATATAAATAAAAGAGTTATTAATTAAAAAGAT-AATTAACA
46363094 -AATAAAATAAAATAAAATA
64 TAATAAAAT-AAATAAAATA
46363113 AAAACTTGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
98 8 0.12
99 57 0.83
100 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.43
Consensus pattern (99 bp):
ATTACATATTTATATATTTATTTATATAAATAAAAGAGTTATTAATTAAAAAGATAATTAACATA
ATAAAATAAATAAAATATATATTTTTATTAAATA
Found at i:46363899 original size:12 final size:14
Alignment explanation
Indices: 46363874--46363913 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
46363864 TAGTAAGGAC
46363874 TCTC-TTTTTCTCT
1 TCTCATTTTTCTCT
46363887 T-TCATTTTT-TCT
1 TCTCATTTTTCTCT
*
46363899 TCTCGTTTTTCTCT
1 TCTCATTTTTCTCT
46363913 T
1 T
46363914 AAGTAAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
12 6 0.26
13 13 0.57
14 4 0.17
ACGTcount: A:0.03, C:0.25, G:0.03, T:0.70
Consensus pattern (14 bp):
TCTCATTTTTCTCT
Found at i:46371565 original size:46 final size:44
Alignment explanation
Indices: 46371515--46371684 Score: 198
Period size: 46 Copynumber: 3.7 Consensus size: 44
46371505 AGCATTCGAA
46371515 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-GTCCGAG
*** *
46371561 CTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGAA-TCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAGTCCGAG
* *
46371608 CTCGTTGAGTTGAGTCCGAGTTCACTTATGCATGCGAACGCCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-GTCCGAG
*
46371654 CTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
46371685 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 61 0.58
47 33 0.31
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (44 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAGTCCGAG
Found at i:46377424 original size:158 final size:156
Alignment explanation
Indices: 46376964--46377423 Score: 548
Period size: 158 Copynumber: 2.9 Consensus size: 156
46376954 AACAAAAGAT
* * * * *
46376964 CATGCATTCAACCTAACACAACGGGAACATAGGTATATCGTAAACAC-TTTTTAATTTTCAATTC
1 CATGCATTCAACCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTTAA-TGTCAATTA
* * * *
46377028 CAAAATATTAAAATCTAATTTGGGTTTTGATTTTTTTTTGTCTTAGTCTGGTACGAGTACGAGAA
65 AAAAATATTTAAATCTAATTTGGGTTTT--TATTTTTTTGTCTTAGTATGGTACGAGTA-GAGAA
* * *
46377093 CTAGAAGCCCAAAAAATAACAACATAACAC
127 CTAGAAGCCAAAAAAAGAACAACAGAACAC
* * **
46377123 CATGCATTCAACCTAATACAACTGGATCACAGGTATATCGTATACACTACTTTAATGTCAATTAA
1 CATGCATTCAACCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTTAATGTCAATTAA
* * * *
46377188 AAAATATTTTAATCTAATTTAGGGTTCTAATTTTTTTGGTCTTAG-ATGGTACGAGTACATGAAC
66 AAAATATTTAAATCTAATTT-GGGTTTTTATTTTTTT-GTCTTAGTATGGTACGAGTAGA-GAAC
46377252 TAGAAGCCAAAAAAAGAACAACAGAACAC
128 TAGAAGCCAAAAAAAGAACAACAGAACAC
* * * **
46377281 CATGCATTCAGCCTAACACAACTAGATCACAGATATATCGTAAACACTTTTTTAATGTCAATTTT
1 CATGCATTCAACCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTTAATGTCAATTAA
* * * *
46377346 AAATTATTTAAATCTAATTTGGGGTTTTTATTTTTAT-TCTCAGTTTGGTACGAGTATGAGAACT
66 AAAATATTTAAATCTAATTT-GGGTTTTTATTTTTTTGTCTTAGTATGGTACGAGTA-GAGAACT
*
46377410 AGAAACCAAAAAAA
129 AGAAGCCAAAAAAA
46377424 AAATGGCATA
Statistics
Matches: 256, Mismatches: 39, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
156 5 0.02
157 30 0.12
158 136 0.53
159 74 0.29
160 11 0.04
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (156 bp):
CATGCATTCAACCTAACACAACTGGATCACAGGTATATCGTAAACACTTTTTTAATGTCAATTAA
AAAATATTTAAATCTAATTTGGGTTTTTATTTTTTTGTCTTAGTATGGTACGAGTAGAGAACTAG
AAGCCAAAAAAAGAACAACAGAACAC
Found at i:46377638 original size:81 final size:82
Alignment explanation
Indices: 46377499--46377700 Score: 361
Period size: 81 Copynumber: 2.5 Consensus size: 82
46377489 TTGAGATGGT
* *
46377499 TAACATATTTTGTTTGTTTTTTGAAATGATTTGTTGAAATGGTTGGTTAACATTTTACTGCTATA
1 TAACATATTTTGTTTGTTTTTTCAAATGATTTGTTGAAATGGTTGGTTAACATATTACTGCTATA
46377564 GGATCATTTTGTTAGCA
66 GGATCATTTTGTTAGCA
*
46377581 TAACATATTTTGTTT-TTTTTTTAAATGATTTGTTGAAATGGTTGGTTAACATATTACTGCTATA
1 TAACATATTTTGTTTGTTTTTTCAAATGATTTGTTGAAATGGTTGGTTAACATATTACTGCTATA
*
46377645 GGATCATTTTGTTAGTA
66 GGATCATTTTGTTAGCA
46377662 TAACATATTTTGTTTGTTTTTTCAAATGATTTGTTGAAA
1 TAACATATTTTGTTTGTTTTTTCAAATGATTTGTTGAAA
46377701 GATGTATACC
Statistics
Matches: 115, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
81 78 0.68
82 37 0.32
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.50
Consensus pattern (82 bp):
TAACATATTTTGTTTGTTTTTTCAAATGATTTGTTGAAATGGTTGGTTAACATATTACTGCTATA
GGATCATTTTGTTAGCA
Found at i:46389277 original size:16 final size:16
Alignment explanation
Indices: 46389258--46389300 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
46389248 TATATATAAA
46389258 TTAAAATATAAATTTT
1 TTAAAATATAAATTTT
46389274 TTAATATATATAAATTTT
1 TTAA-A-ATATAAATTTT
*
46389292 TTAATATAT
1 TTAAAATAT
46389301 GTAAAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 1 0.04
18 15 0.62
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTAAAATATAAATTTT
Found at i:46389284 original size:18 final size:18
Alignment explanation
Indices: 46389263--46389305 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
46389253 ATAAATTAAA
46389263 ATATAAATTTTTTAATAT
1 ATATAAATTTTTTAATAT
46389281 ATATAAATTTTTTAATAT
1 ATATAAATTTTTTAATAT
*
46389299 ATGTAAA
1 ATATAAA
46389306 AACAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATATAAATTTTTTAATAT
Found at i:46390639 original size:17 final size:17
Alignment explanation
Indices: 46390617--46390649 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
46390607 ATGCCAAATA
46390617 GTTGTTTGCTGCAATTT
1 GTTGTTTGCTGCAATTT
46390634 GTTGTTTGCTGCAATT
1 GTTGTTTGCTGCAATT
46390650 AATTAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.52
Consensus pattern (17 bp):
GTTGTTTGCTGCAATTT
Found at i:46391856 original size:19 final size:20
Alignment explanation
Indices: 46391832--46391869 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46391822 GGTACCACCA
46391832 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
46391851 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
46391870 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:46392220 original size:93 final size:93
Alignment explanation
Indices: 46392099--46392268 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
46392089 GCCCCTAAGT
* *
46392099 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAATGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCAGACTCAACTCAA
46392164 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * * *
46392192 GAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCATAAGTGAACTCGGACTTAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
46392257 CGAGTTTGGATG
66 CGAGTTCGGATG
46392269 TTCAACCATC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:46392259 original size:46 final size:46
Alignment explanation
Indices: 46392094--46392262 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 46
46392084 AACCTGCCCC
* * * *
46392094 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
* * * *
46392140 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
* *
46392188 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
*
46392233 TAAGTGAACTCGGACTTAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
46392263 TGGATGTTCA
Statistics
Matches: 100, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 3 0.03
46 53 0.53
47 27 0.27
48 3 0.03
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:46392723 original size:30 final size:30
Alignment explanation
Indices: 46392689--46392748 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
46392679 ATTTAATACG
46392689 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** * *
46392719 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
46392749 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:46394638 original size:25 final size:27
Alignment explanation
Indices: 46394595--46394648 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
46394585 AATATAAATT
46394595 TTATTTTTTACTAAAAAATTTATATAA
1 TTATTTTTTACTAAAAAATTTATATAA
*
46394622 TTATTTTTTA-T-ACAAATTTATATAA
1 TTATTTTTTACTAAAAAATTTATATAA
46394647 TT
1 TT
46394649 TCTCTTAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 15 0.58
26 1 0.04
27 10 0.38
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATTTTTTACTAAAAAATTTATATAA
Found at i:46394998 original size:13 final size:13
Alignment explanation
Indices: 46394980--46395005 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46394970 AATTCAAATT
46394980 TATTATTAGGATA
1 TATTATTAGGATA
46394993 TATTATTAGGATA
1 TATTATTAGGATA
46395006 GGATAATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TATTATTAGGATA
Found at i:46397205 original size:32 final size:32
Alignment explanation
Indices: 46397131--46397206 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 32
46397121 GATATTGAAA
* *
46397131 TTTT-AGTTTGTTGGATTTTGAAATTATTATG
1 TTTTAAGTTTGTTAGATATTGAAATTATTATG
*
46397162 TCTTGAA-TTTGTTAGATATT-AAATTTATTATG
1 T-TTTAAGTTTGTTAGATATTGAAA-TTATTATG
46397194 TTTTAAGTTTGTT
1 TTTTAAGTTTGTT
46397207 GAATTTATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
31 8 0.22
32 28 0.76
33 1 0.03
ACGTcount: A:0.25, C:0.01, G:0.16, T:0.58
Consensus pattern (32 bp):
TTTTAAGTTTGTTAGATATTGAAATTATTATG
Found at i:46397246 original size:21 final size:21
Alignment explanation
Indices: 46397171--46397236 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
46397161 GTCTTGAATT
*
46397171 TGTTAGATATTAAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
46397192 TGTTTTAAGTTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
46397217 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
46397237 TGGTTGGATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
21 14 0.39
22 2 0.06
23 4 0.11
24 2 0.06
25 14 0.39
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:46398546 original size:28 final size:25
Alignment explanation
Indices: 46398480--46398547 Score: 64
Period size: 28 Copynumber: 2.5 Consensus size: 25
46398470 AAATCATTGC
* *
46398480 AATATATGTAAAAAAATTGAAGTATA
1 AATATAT-TAAAAAAATTAAAATATA
*
46398506 AATTTATTAAAAAATAATTTAAAATATA
1 AATATATT-AAAAA-AA-TTAAAATATA
46398534 AATATATATAAAAA
1 AATATAT-TAAAAA
46398548 CAGCTTTTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.03
26 11 0.32
27 2 0.06
28 19 0.56
29 1 0.03
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (25 bp):
AATATATTAAAAAAATTAAAATATA
Found at i:46398647 original size:19 final size:20
Alignment explanation
Indices: 46398623--46398666 Score: 81
Period size: 19 Copynumber: 2.2 Consensus size: 20
46398613 TCCAAACACT
46398623 AGAAAAGTAAATCA-TTTCC
1 AGAAAAGTAAATCATTTTCC
46398642 AGAAAAGTAAATCATTTTCC
1 AGAAAAGTAAATCATTTTCC
46398662 AGAAA
1 AGAAA
46398667 TTATTTTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.50, C:0.14, G:0.11, T:0.25
Consensus pattern (20 bp):
AGAAAAGTAAATCATTTTCC
Found at i:46398748 original size:65 final size:65
Alignment explanation
Indices: 46398644--46398840 Score: 340
Period size: 65 Copynumber: 3.0 Consensus size: 65
46398634 TCATTTCCAG
*
46398644 AAAAGTAAATCATTTTCCAGAAATTATTTTCTGGAAAATATTTTACTAGCAAATAAACGGACCCT
1 AAAAGTAAATCATTTTCCAGAAATTATTTTCTGGAAAATATTTTACTAGCAAACAAACGGACCCT
46398709 AAAAGTAAATCATTTTCCAGAAATTATTTTCTGGAAAATATTTTACTAGCAAACAAACGGACCCT
1 AAAAGTAAATCATTTTCCAGAAATTATTTTCTGGAAAATATTTTACTAGCAAACAAACGGACCCT
* * * * *
46398774 AAAAGTAAATCATTTTCCAGAAATTATTTTCCGGAAAACATTTTACTGGCAAACAAACAGAGCCT
1 AAAAGTAAATCATTTTCCAGAAATTATTTTCTGGAAAATATTTTACTAGCAAACAAACGGACCCT
46398839 AA
1 AA
46398841 GTAATAAGTT
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 126 1.00
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (65 bp):
AAAAGTAAATCATTTTCCAGAAATTATTTTCTGGAAAATATTTTACTAGCAAACAAACGGACCCT
Found at i:46399756 original size:22 final size:22
Alignment explanation
Indices: 46399731--46399790 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
46399721 GCAACGATTT
*
46399731 TTTATATTAAAAT-TTTTTTTA
1 TTTATATTAAAATATTATTTTA
*
46399752 CTTTA-AATAAAATATTATTTTA
1 -TTTATATTAAAATATTATTTTA
*
46399774 TTTTTATTAAAAATATT
1 TTTATATT-AAAATATT
46399791 TAAATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
21 10 0.32
22 13 0.42
23 8 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTATATTAAAATATTATTTTA
Found at i:46400647 original size:106 final size:106
Alignment explanation
Indices: 46400495--46400767 Score: 370
Period size: 100 Copynumber: 2.7 Consensus size: 106
46400485 ATTAGGTTAC
** * *
46400495 AAATTGTTAGCATTTAG-TATAGGGTTTTGTGATTTTTTAGTAATGTAAATTTTTAAAAAAAATA
1 AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGTAATGT-AATTTTTATAAAAAATA
* * *
46400559 ATTTTATAGTTATTTTGTTAGTAATTTATGATTAGATTATAT
65 ATTTTATAGTTATTTCGATAGTAATTCATGATTAGATTATAT
46400601 AAATTGTTAGTGTTTAGTTAT-GTGTTTTGTGATTTTTTAGTAATGT-ATTTTT-TAAAAAA-AA
1 AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGTAATGTAATTTTTATAAAAAATAA
*
46400662 --TTATAGTTATTTCGATAGTAATTCATGATTAGGTTATAT
66 TTTTATAGTTATTTCGATAGTAATTCATGATTAGATTATAT
**
46400701 AAATTGTTAGTGTTTAGTT-TAGTGTTTTGTGA-TTTTT--TAATGTAATTTTTATAAAATGTAA
1 AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGTAATGTAATTTTTATAAAAAATAA
46400762 TTTTAT
66 TTTTAT
46400768 TTGATTTTTA
Statistics
Matches: 150, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
97 6 0.04
98 6 0.04
99 11 0.07
100 67 0.45
102 6 0.04
103 6 0.04
104 6 0.04
106 39 0.26
107 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (106 bp):
AAATTGTTAGTGTTTAGTTATAGTGTTTTGTGATTTTTTAGTAATGTAATTTTTATAAAAAATAA
TTTTATAGTTATTTCGATAGTAATTCATGATTAGATTATAT
Found at i:46401185 original size:20 final size:20
Alignment explanation
Indices: 46401160--46401199 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
46401150 TATTAATGAG
46401160 ATAGTAATGAAATTTTTATT
1 ATAGTAATGAAATTTTTATT
46401180 ATAGTAATGAAATTTTTATT
1 ATAGTAATGAAATTTTTATT
46401200 TGATACTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (20 bp):
ATAGTAATGAAATTTTTATT
Found at i:46402850 original size:33 final size:33
Alignment explanation
Indices: 46402813--46402883 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
46402803 ATCCTAACTT
* **
46402813 GTATCCACCTCAGTACTCTGCTCCTTC-CGGCCC
1 GTATCCACCGCAGTACTCCACT-CTTCTCGGCCC
*
46402846 GTATCCACCGCCGTACTCCACTCTTCTCGGCCC
1 GTATCCACCGCAGTACTCCACTCTTCTCGGCCC
46402879 GTATC
1 GTATC
46402884 AACTACTGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 4 0.12
33 29 0.88
ACGTcount: A:0.13, C:0.45, G:0.15, T:0.27
Consensus pattern (33 bp):
GTATCCACCGCAGTACTCCACTCTTCTCGGCCC
Found at i:46403214 original size:77 final size:76
Alignment explanation
Indices: 46403094--46403330 Score: 291
Period size: 77 Copynumber: 3.1 Consensus size: 76
46403084 TAATATAAAC
* * * * *
46403094 AACTTCATATTTATGTAATGAATTTTTTTTCCATTTTATTTATCAATTTTATATATATTTTTTGC
1 AACTTTATATTTATGTAATG-ACTTTTTTTCCATTTTATTTATCAATTTTATGT-TTTTTTTTAC
*
46403159 AATTTAAATAGTC
64 AATTTAAATAGTA
* * *
46403172 AATTTTGTATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGGGTTTTTTTTACA
1 AACTTTATATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTAT-GTTTTTTTTTACA
46403237 ATTTAAATAGTA
65 ATTTAAATAGTA
* * *
46403249 AACTTTATA-TTATGTAATGAC--TTTTTCACATTTCAGTTATCAATTTTATGTTTTTTTTTTCA
1 AACTTTATATTTATGTAATGACTTTTTTTC-CATTTTATTTATCAATTTTATGTTTTTTTTTACA
*
46403311 ATTTAAATAAATA
65 ATTTAAAT-AGTA
46403324 AACTTTA
1 AACTTTA
46403331 GACTAATTTT
Statistics
Matches: 140, Mismatches: 16, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
74 25 0.18
75 29 0.21
76 12 0.09
77 57 0.41
78 17 0.12
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.55
Consensus pattern (76 bp):
AACTTTATATTTATGTAATGACTTTTTTTCCATTTTATTTATCAATTTTATGTTTTTTTTTACAA
TTTAAATAGTA
Found at i:46406216 original size:17 final size:17
Alignment explanation
Indices: 46406194--46406237 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
46406184 CATTCAGAAG
46406194 CTAACAAAATTAATAAC
1 CTAACAAAATTAATAAC
46406211 CTAACAAAATTAATAAC
1 CTAACAAAATTAATAAC
* *
46406228 ATAATAAAAT
1 CTAACAAAAT
46406238 AACTTTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.61, C:0.14, G:0.00, T:0.25
Consensus pattern (17 bp):
CTAACAAAATTAATAAC
Found at i:46407676 original size:21 final size:20
Alignment explanation
Indices: 46407651--46407691 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
46407641 CACTTTTAAA
46407651 TTTAATAAAAATAAATTATTT
1 TTTAAT-AAAATAAATTATTT
* *
46407672 TTTAATCAAATAATTTATTT
1 TTTAATAAAATAAATTATTT
46407692 AATATTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAATAAAATAAATTATTT
Found at i:46408110 original size:29 final size:29
Alignment explanation
Indices: 46408064--46408145 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
46408054 CCATATATGC
* *
46408064 TTCATGATTTTATAATTTAGTCCTTATTCTT
1 TTCAT-ATTTTAAAATTTAGTCCTT-TACTT
46408095 TT-AT-TTTTAGAAATTTAGTCCCTTTACTT
1 TTCATATTTTA-AAATTTAGT-CCTTTACTT
*
46408124 TTCATATTTTAAAATTAAGTCC
1 TTCATATTTTAAAATTTAGTCC
46408146 AATTGTTAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
28 5 0.11
29 16 0.36
30 16 0.36
31 7 0.16
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.54
Consensus pattern (29 bp):
TTCATATTTTAAAATTTAGTCCTTTACTT
Found at i:46408145 original size:30 final size:31
Alignment explanation
Indices: 46408064--46408145 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
46408054 CCATATATGC
* *
46408064 TTCATGATTTTATAATTTAGT-CCTTATTCTT
1 TTCAT-ATTTTAAAATTTAGTCCCTTATACTT
46408095 TT-AT-TTTTAGAAATTTAGTCCCTT-TACTT
1 TTCATATTTTA-AAATTTAGTCCCTTATACTT
*
46408124 TTCATATTTTAAAATTAAGTCC
1 TTCATATTTTAAAATTTAGTCC
46408146 AATTGTTAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
28 5 0.11
29 14 0.32
30 18 0.41
31 7 0.16
ACGTcount: A:0.27, C:0.13, G:0.06, T:0.54
Consensus pattern (31 bp):
TTCATATTTTAAAATTTAGTCCCTTATACTT
Found at i:46408433 original size:28 final size:29
Alignment explanation
Indices: 46408384--46408449 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
46408374 ACCTCCTAAA
*
46408384 AAAATAA-AAAAAGATATATTTAATTTTT
1 AAAATAATAAAAAGATATATTTAACTTTT
**
46408412 AAAATAATAAAATTATAT-TTTAACTTTT
1 AAAATAATAAAAAGATATATTTAACTTTT
* *
46408440 CAAATTATAA
1 AAAATAATAA
46408450 TGTAATTTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 24 0.75
29 8 0.25
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (29 bp):
AAAATAATAAAAAGATATATTTAACTTTT
Found at i:46414103 original size:25 final size:24
Alignment explanation
Indices: 46414074--46414125 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
46414064 TTGAATATTA
*
46414074 TTTAA-TATTTTTTCATTTACTAAAT
1 TTTAATTAATTTTT-ATTTA-TAAAT
*
46414099 TTTAATTAATTTTTATTTATAATT
1 TTTAATTAATTTTTATTTATAAAT
46414123 TTT
1 TTT
46414126 TATAGCAGCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTAATTAATTTTTATTTATAAAT
Found at i:46418167 original size:33 final size:34
Alignment explanation
Indices: 46418130--46418213 Score: 102
Period size: 33 Copynumber: 2.5 Consensus size: 34
46418120 AAATAGTAAT
* *
46418130 AAAATAACAATAAAATAAG-AGTTATATAATATC
1 AAAATAACAATAAAATAAGTAGTAATATAATAAC
*
46418163 AAAATAA-AAAAATAAT-AGTAGTAATATAATAAC
1 AAAATAACAATAA-AATAAGTAGTAATATAATAAC
*
46418196 AACATAACAATAAAATAA
1 AAAATAACAATAAAATAA
46418214 CAATGGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
32 6 0.14
33 31 0.74
34 5 0.12
ACGTcount: A:0.65, C:0.06, G:0.05, T:0.24
Consensus pattern (34 bp):
AAAATAACAATAAAATAAGTAGTAATATAATAAC
Found at i:46419929 original size:5 final size:5
Alignment explanation
Indices: 46419919--46419952 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
46419909 TACATTGTGA
*
46419919 AAAAT AAAAT AAAAT AACAT AAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
46419953 GAACACACAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:46419957 original size:20 final size:20
Alignment explanation
Indices: 46419919--46419957 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
46419909 TACATTGTGA
*
46419919 AAAATAAAATAAAATAACAT
1 AAAATAAAATAAAAGAACAT
46419939 AAAATAAAA-ATAAAGAACA
1 AAAATAAAATA-AAAGAACA
46419958 CACAGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAATAAAATAAAAGAACAT
Found at i:46425209 original size:51 final size:49
Alignment explanation
Indices: 46425087--46425232 Score: 184
Period size: 51 Copynumber: 2.9 Consensus size: 49
46425077 TAGCCAAAGC
* * *
46425087 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
46425136 TATCCAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAT
* * *
46425187 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACC
46425233 TCACAATAGA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 38 0.47
50 2 0.02
51 41 0.51
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:46429159 original size:29 final size:30
Alignment explanation
Indices: 46429089--46429159 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
46429079 ATGGTTATGC
46429089 CATTTCTTTAAATTCACGGAATTTAATTTCA
1 CATTTCTTTAAATTCAC-GAATTTAATTTCA
* *
46429120 C-TAATCTTTAAATTCA-G-ATTTCATTATCA
1 CAT-TTCTTTAAATTCACGAATTTAATT-TCA
46429149 CATTTCTTTAA
1 CATTTCTTTAA
46429160 GTTATATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
28 7 0.21
29 12 0.35
30 2 0.06
31 13 0.38
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.46
Consensus pattern (30 bp):
CATTTCTTTAAATTCACGAATTTAATTTCA
Found at i:46430722 original size:32 final size:32
Alignment explanation
Indices: 46430654--46430734 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
46430644 TGAAATTAGT
* *
46430654 TTGTTGGATTTTGAAATTATTATGTCTTCAAT
1 TTGTTGGATATTGAAATTATTATGTCTTCAAC
* * *
46430686 TTGTTAGATATTGAATTTATTATGT-TTTAAGC
1 TTGTTGGATATTGAAATTATTATGTCTTCAA-C
*
46430718 TTGTTGGATATTAAAAT
1 TTGTTGGATATTGAAAT
46430735 GATTGACAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 4 0.10
32 36 0.90
ACGTcount: A:0.28, C:0.04, G:0.16, T:0.52
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGTCTTCAAC
Found at i:46433315 original size:18 final size:19
Alignment explanation
Indices: 46433292--46433330 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
46433282 CTTGGCCCAT
* *
46433292 TACAGTATCA-ATATTCAG
1 TACAGTAACAGATATACAG
46433310 TACAGTAACAGATATACAG
1 TACAGTAACAGATATACAG
46433329 TA
1 TA
46433331 TCAAATCCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (19 bp):
TACAGTAACAGATATACAG
Found at i:46433803 original size:17 final size:18
Alignment explanation
Indices: 46433772--46433807 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
46433762 CATGTTGTTT
46433772 GCCCGTGTGGGCCCACAC
1 GCCCGTGTGGGCCCACAC
46433790 GCCCGTGT-GGCCCACAC
1 GCCCGTGTGGGCCCACAC
46433807 G
1 G
46433808 ACCCAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.11, C:0.44, G:0.33, T:0.11
Consensus pattern (18 bp):
GCCCGTGTGGGCCCACAC
Found at i:46437286 original size:17 final size:15
Alignment explanation
Indices: 46437264--46437297 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
46437254 CTATCTCTCA
46437264 TTTATCTATCTATTTTT
1 TTTATCTAT-T-TTTTT
46437281 TTTATCTATTTTTTT
1 TTTATCTATTTTTTT
46437296 TT
1 TT
46437298 CTTTAGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 1 0.06
17 9 0.53
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTATCTATTTTTTT
Found at i:46437288 original size:13 final size:13
Alignment explanation
Indices: 46437270--46437296 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
46437260 CTCATTTATC
46437270 TATCTATTTTTTT
1 TATCTATTTTTTT
46437283 TATCTATTTTTTT
1 TATCTATTTTTTT
46437296 T
1 T
46437297 TCTTTAGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (13 bp):
TATCTATTTTTTT
Found at i:46438110 original size:16 final size:16
Alignment explanation
Indices: 46438072--46438112 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
46438062 TGGCGGCACC
* *
46438072 ATTATTTTTTTAATAA
1 ATTATTATTTTAAAAA
46438088 ATT-TTATTTTAAAAA
1 ATTATTATTTTAAAAA
46438103 ATTATTATTT
1 ATTATTATTT
46438113 AATTAGTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTATTTTAAAAA
Found at i:46438166 original size:11 final size:11
Alignment explanation
Indices: 46438150--46438174 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
46438140 CATCACTTTT
46438150 ATATGGTCAAA
1 ATATGGTCAAA
46438161 ATATGGTCAAA
1 ATATGGTCAAA
46438172 ATA
1 ATA
46438175 CAGGTCAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (11 bp):
ATATGGTCAAA
Found at i:46438922 original size:105 final size:102
Alignment explanation
Indices: 46438776--46439096 Score: 299
Period size: 112 Copynumber: 3.0 Consensus size: 102
46438766 ACTTTTTTGT
* * *
46438776 ATTTTTTAAAATTATTTTTAAGTCATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTA
1 ATTTTTTAAAATTATTTTAAAATCATTTTGTTAGTAATTTATGATTAGGTTATAAATTG--T-T-
* * * *
46438841 TGTGTTTAGTTTTATGTTTATTGTGATTTTTTATGAATATA
62 TGTGTTTAGTTTAATGTTTATTGTGACTTGTTATAAATATA
* *
46438882 ATTTTTT-AAATTATTTTAAAATTATTTTGTTAGTAATTTATGATTATGTTATAAATTGTTTGTG
1 ATTTTTTAAAATTATTTTAAAATCATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
*
46438946 TTTAGTTTAATGTTTATTGTGACTTGTTATAAATGTA
66 TTTAGTTTAATGTTTATTGTGACTTGTTATAAATATA
* * * * * *
46438983 ATTTTTTTTGTGTTTTTTAAATTAGTTTAAAGTTATTTTGTTAGTAATTTATAATTAGATTATAA
1 A---------T-TTTTTAAAATTATTTTAAAATCATTTTGTTAGTAATTTATGATTAGGTTATAA
* * * * *
46439048 ATTATTT-T-TTTAGTTTAATGTGTACTGTTATTTGTTAT-AATATA
56 ATTGTTTGTGTTTAGTTTAATGTTTATTGTGACTTGTTATAAATATA
46439092 ATTTT
1 ATTTT
46439097 ATTTGTTATT
Statistics
Matches: 183, Mismatches: 21, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
99 3 0.02
100 1 0.01
101 37 0.20
102 1 0.01
103 1 0.01
105 46 0.25
106 7 0.04
109 6 0.03
110 27 0.15
111 6 0.03
112 48 0.26
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.58
Consensus pattern (102 bp):
ATTTTTTAAAATTATTTTAAAATCATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTTGTG
TTTAGTTTAATGTTTATTGTGACTTGTTATAAATATA
Found at i:46438948 original size:216 final size:218
Alignment explanation
Indices: 46438556--46439064 Score: 614
Period size: 216 Copynumber: 2.3 Consensus size: 218
46438546 TATGAATGTA
*
46438556 ATTTTTTATAATTATTTTAAAGTTATTTTGTTAGTAATTTATAATTAGGTTATAAATTGTTTGTG
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATAATTAGGTTATAAATTGTTTGTG
* ** *
46438621 TTTAGTTTAGTGTTTTGTGAATTTTTATCAATGTAAATTTTTTGCTTTTTAAAAATTATTTTATA
66 TTTAGTTTAGTGTTTTGTGAATTTTTAT-AATG-AAATATAAT-CTTTTT-AAAATTATTTTAAA
* *
46438686 GTTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTTAATTTAGTGTTT-TTGTG
127 ATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTTAATTTAATGTTTATTGTG
* *
46438750 A-TTTTTTTACGAATGT-A-CTTTTTTGT
192 ACTTGTTATA--AATGTAATCTTTTTTGT
* * **
46438776 ATTTTTTAAAATTATTTTTAAGTCATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTTGTA
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATAATTAGGTTATAAATTG--T-T-
46438841 TGTGTTTAGTTTTA-TGTTTATTGTG-ATTTTT-T-ATG-AATATAAT-TTTTT-AAATTATTTT
62 TGTGTTTAG-TTTAGTG-TT-TTGTGAATTTTTATAATGAAATATAATCTTTTTAAAATTATTTT
* * *
46438899 AAAATTATTTTGTTAGTAATTTATGATTATGTTATAAATTGTTTGTGTTTAGTTTAATGTTTATT
124 AAAATTATTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTTAATTTAATGTTTATT
*
46438964 GTGACTTGTTATAAATGTAATTTTTTTTGT
189 GTGACTTGTTATAAATGTAATCTTTTTTGT
* * * *
46438994 GTTTTTT-AAATTAGTTTAAAGTTATTTTGTTAGTAATTTATAATTAGATTATAAATTATTT-T-
1 ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATAATTAGGTTATAAATTGTTTGTG
46439056 TTTAGTTTA
66 TTTAGTTTA
46439065 ATGTGTACTG
Statistics
Matches: 253, Mismatches: 25, Indels: 32
0.82 0.08 0.10
Matches are distributed among these distances:
210 4 0.02
211 5 0.02
212 1 0.00
213 1 0.00
214 1 0.00
215 1 0.00
216 71 0.28
217 51 0.20
218 25 0.10
220 59 0.23
222 4 0.02
223 1 0.00
224 12 0.05
225 12 0.05
226 5 0.02
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.58
Consensus pattern (218 bp):
ATTTTTTAAAATTATTTTAAAGTTATTTTGTTAGTAATTTATAATTAGGTTATAAATTGTTTGTG
TTTAGTTTAGTGTTTTGTGAATTTTTATAATGAAATATAATCTTTTTAAAATTATTTTAAAATTA
TTTTGTTAGTAATTTATGATTAGGTTATAAATTATTTGTGTTTAATTTAATGTTTATTGTGACTT
GTTATAAATGTAATCTTTTTTGT
Done.