Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 145 of 172
Found at i:41872074 original size:102 final size:102
Alignment explanation
Indices: 41871743--41872083 Score: 396
Period size: 102 Copynumber: 3.4 Consensus size: 102
41871733 TTTTTATCAT
* * * *
41871743 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC--AG-TT-TTACAGTTCACGTA
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTTCTT--GGTACACATA
* * *
41871804 GTAGCCTTCACATAGTACTACACACGTGATCAATT-TTTA
64 GTAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTA
* *
41871843 -CGGCT-TACGTAGTAGCC-TCACACAGTACTACACACGTGATCAAAGCTTCTTGGTACACATAG
1 TC-GATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTTCTTGGTACACATAG
* * *
41871905 TAGCC-TCACTTAGTACTACACATGTAATC-GTAGTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATTA-TTTA
* * * * * *
41871942 CCAAGACACGTAGTAGCATTCACACAGTACTACACGCGTGCTCAAAGCTTCTTGGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTTCTTGGTACACATAGT
*
41872007 AGCCTTCACTTAGTACTACACATGTGACCATTACTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
41872044 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
41872084 TTCATCGATA
Statistics
Matches: 201, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
97 1 0.00
98 23 0.11
99 35 0.17
100 28 0.14
101 50 0.25
102 62 0.31
103 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTTCTTGGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
Found at i:41876047 original size:19 final size:20
Alignment explanation
Indices: 41876009--41876047 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
41875999 TTTTTGTATT
* *
41876009 CATTTCATTCATCTGTATTA
1 CATTTCATTCATATGCATTA
41876029 CATTTCA-TCATATGCATTA
1 CATTTCATTCATATGCATTA
41876048 AATTCTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.28, C:0.21, G:0.05, T:0.46
Consensus pattern (20 bp):
CATTTCATTCATATGCATTA
Found at i:41882277 original size:16 final size:16
Alignment explanation
Indices: 41882253--41882286 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
41882243 TGCCTCTTTC
*
41882253 ACCTTTTCATGTCATG
1 ACCTCTTCATGTCATG
41882269 ACCTCTTCATGTCATG
1 ACCTCTTCATGTCATG
41882285 AC
1 AC
41882287 TTTTCTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (16 bp):
ACCTCTTCATGTCATG
Found at i:41884203 original size:81 final size:81
Alignment explanation
Indices: 41884052--41884204 Score: 184
Period size: 81 Copynumber: 1.9 Consensus size: 81
41884042 CGTCGTGACG
* * *
41884052 AATCTTATCTCCCTGAAGTTGCAGTGGAAAAGATTAAAGTCACAAAATTTATCTCCTTGAAGTTG
1 AATCTTACCTCCCTGAAGTTGCAGTGGAAAAGATTAAAGTCACAAAATTTATCTCCCTGAAATTG
41884117 CAGTGGAGTAGATACA
66 CAGTGGAGTAGATACA
* * * * * *
41884133 AATCTTACCTCTCTTAAGTTGCAGTGGAATAGATTGAAGAT-GC-AAATATTATTTCCCTGAAAT
1 AATCTTACCTCCCTGAAGTTGCAGTGGAAAAGATTAAAG-TCACAAAAT-TTATCTCCCTGAAAT
*
41884196 TGTAGTGGA
64 TGCAGTGGA
41884205 ACAGATTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
80 4 0.07
81 55 0.92
82 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (81 bp):
AATCTTACCTCCCTGAAGTTGCAGTGGAAAAGATTAAAGTCACAAAATTTATCTCCCTGAAATTG
CAGTGGAGTAGATACA
Found at i:41884327 original size:44 final size:44
Alignment explanation
Indices: 41884129--41884524 Score: 231
Period size: 44 Copynumber: 8.9 Consensus size: 44
41884119 GTGGAGTAGA
* * * * ** *
41884129 TACAAATCTTACCTCTCTTAAGTTGCAGTGGAATAGATTGAAGA
1 TACAAATCTAATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
* * * * * * *
41884173 TGCAAATATTATTTCCCTGAAA-TTGTAGTGGAACAGATTAAAGC
1 TACAAATCTAATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGC
* * * ** * *
41884217 GACAAATATGATCTCTTTGAAGTTGCAGTGGAGTAGATTGAAG-
1 TACAAATCTAATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
* ** * * * * *
41884260 AATTAATCTTATTTCTCTAAAGTTGCAGTAGAGCATATTGAAGC
1 TACAAATCTAATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
* *
41884304 TACAAATCTAATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGT
1 TACAAATCTAATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
* * * * *
41884348 TACGAATCTTATCTTCCTGAAGTTGCAGTGGAGC-GAATTAAAGC
1 TACAAATCTAATCTCCCTAAAGTTGCAGTGGAGCAG-ATTGAAGC
* * * * *
41884392 TACAAATCTCATTTCCCTGAAGTTCCAGTGGAACAGATTGAAGC
1 TACAAATCTAATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
* * * *
41884436 TACAAGTTACAAATCGTATTCCCTGAAGTTGCAGTGGAGTAGATTGAAGC
1 TACAA-AT-CTAATC----TCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
** * * * * *
41884486 TATTAATCTTATATCCCTGAAGTTGTAGCGGAGCAGATT
1 TACAAATCTAATCTCCCTAAAGTTGCAGTGGAGCAGATT
41884525 AAAGTAGCAA
Statistics
Matches: 269, Mismatches: 72, Indels: 22
0.74 0.20 0.06
Matches are distributed among these distances:
43 35 0.13
44 192 0.71
45 4 0.01
46 3 0.01
48 3 0.01
49 1 0.00
50 31 0.12
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (44 bp):
TACAAATCTAATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC
Found at i:41884397 original size:88 final size:86
Alignment explanation
Indices: 41884129--41884530 Score: 284
Period size: 88 Copynumber: 4.5 Consensus size: 86
41884119 GTGGAGTAGA
* * * * * * *
41884129 TACAAATCTTACCTCTCTTAAGTTGCAGTGGAATAGATTGAAGATGCAAATATTATTTCCCTGAA
1 TACAAATCTAATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-TACAAATCTTATTT-CCTGAA
* * *
41884194 ATTGTAGTGGAACAGATTAAAGC
64 GTTGCAGTGGAGCAGATTAAAGC
* * * ** ** * ** *
41884217 GACAAATATGATCTCTTTGAAGTTGCAGTGGAGTAGATTGAAGAATTAATCTTATTTCTCTAAAG
1 TACAAATCTAATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTACAAATCTTATTTC-CTGAAG
* * *
41884282 TTGCAGTAGAGCATATTGAAGC
65 TTGCAGTGGAGCAGATTAAAGC
* * * *
41884304 TACAAATCTAATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGTTACGAATCTTATCTTCCTGAA
1 TACAAATCTAATCTCCCTGAAGTTGCAGTGGAACAGATTGAAG-TACAAATCTTAT-TTCCTGAA
41884369 GTTGCAGTGGAGC-GAATTAAAGC
64 GTTGCAGTGGAGCAG-ATTAAAGC
* * * * *
41884392 TACAAATCTCATTTCCCTGAAGTTCCAGTGGAACAGATTGAAGCTACAAGTTACAAATCGTATTC
1 TACAAATCTAATCTCCCTGAAGTTGCAGTGGAACAGATT---G----AAG-TACAAATCTTATTT
* *
41884457 CCTGAAGTTGCAGTGGAGTAGATTGAAGC
58 CCTGAAGTTGCAGTGGAGCAGATTAAAGC
** * * * * * *
41884486 TATTAATCTTATATCCCTGAAGTTGTAGCGGAGCAGATTAAAGTA
1 TACAAATCTAATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTA
41884531 GCAATTCCTA
Statistics
Matches: 249, Mismatches: 53, Indels: 26
0.76 0.16 0.08
Matches are distributed among these distances:
86 3 0.01
87 68 0.27
88 102 0.41
89 3 0.01
91 1 0.00
94 57 0.23
95 15 0.06
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (86 bp):
TACAAATCTAATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGTACAAATCTTATTTCCTGAAGT
TGCAGTGGAGCAGATTAAAGC
Found at i:41884524 original size:94 final size:95
Alignment explanation
Indices: 41884344--41884524 Score: 222
Period size: 94 Copynumber: 1.9 Consensus size: 95
41884334 GAGCAGATTG
* * * * *
41884344 AAGTTACGAATCTTATCTTCCTGAAGTTGCAGTGGAGCGAATTAAAGCTACAAATCTCATTTCCC
1 AAGTTACAAATCGTATCTCCCTGAAGTTGCAGTGGAGAGAATTAAAGCTACAAATCTCATATCCC
*
41884409 TGAAGTTCCAGTGGAACAGATTGAAGCTAC
66 TGAAGTTCCAGCGGAACAGATTGAAGCTAC
* ** *
41884439 AAGTTACAAATCGTAT-TCCCTGAAGTTGCAGTGGAGTAG-ATTGAAGCTATTAATCTTATATCC
1 AAGTTACAAATCGTATCTCCCTGAAGTTGCAGTGGAG-AGAATTAAAGCTACAAATCTCATATCC
** *
41884502 CTGAAGTTGTAGCGGAGCAGATT
65 CTGAAGTTCCAGCGGAACAGATT
41884525 AAAGTAGCAA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
94 57 0.79
95 15 0.21
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (95 bp):
AAGTTACAAATCGTATCTCCCTGAAGTTGCAGTGGAGAGAATTAAAGCTACAAATCTCATATCCC
TGAAGTTCCAGCGGAACAGATTGAAGCTAC
Found at i:41886047 original size:4 final size:4
Alignment explanation
Indices: 41886038--41886075 Score: 58
Period size: 4 Copynumber: 9.5 Consensus size: 4
41886028 TTACAAGCTG
* *
41886038 TTTA TTTA TTTA TTTA TCTA TTCA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
41886076 ACCTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:41886198 original size:24 final size:24
Alignment explanation
Indices: 41886148--41886199 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
41886138 GTCATTATTT
* *
41886148 TATTATTATTTTTTGTTCTTGTTA
1 TATTATTATTTCTTGTTATTGTTA
*
41886172 TATTATTATTTCTT-TTATTTTTGA
1 TATTATTATTTCTTGTTATTGTT-A
41886196 TATT
1 TATT
41886200 TTCATGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.71
Consensus pattern (24 bp):
TATTATTATTTCTTGTTATTGTTA
Found at i:41887952 original size:14 final size:13
Alignment explanation
Indices: 41887925--41887954 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
41887915 AGTCTATTTA
41887925 TAAAATTTAAATT
1 TAAAATTTAAATT
41887938 TAAAATTTGAAATT
1 TAAAATTT-AAATT
41887952 TAA
1 TAA
41887955 GTATACAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TAAAATTTAAATT
Found at i:41892089 original size:14 final size:14
Alignment explanation
Indices: 41892070--41892104 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
41892060 CTATTAAATT
41892070 AAATAAATATTTTA
1 AAATAAATATTTTA
*
41892084 AAATAACTATTTTA
1 AAATAAATATTTTA
41892098 AAA-AAAT
1 AAATAAAT
41892105 TTGATAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATATTTTA
Found at i:41897029 original size:23 final size:23
Alignment explanation
Indices: 41896999--41897046 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
41896989 AACAATAAGT
41896999 ATGATTTATCATCGTTGAAGCAA
1 ATGATTTATCATCGTTGAAGCAA
41897022 ATGATTTATCATCGTTGAAGCAA
1 ATGATTTATCATCGTTGAAGCAA
41897045 AT
1 AT
41897047 TATCTCTACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.35
Consensus pattern (23 bp):
ATGATTTATCATCGTTGAAGCAA
Found at i:41899522 original size:59 final size:58
Alignment explanation
Indices: 41899399--41899534 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 58
41899389 AAGATTAGGG
* *
41899399 GCTAACTTGGATAAAAAAATTCAGACCCTAACGTGGGAACAATTGCCAAGTTTAAGGA
1 GCTAACTTGGATAAAAAAATCCAGACCCTAACGTGGGAACAACTGCCAAGTTTAAGGA
*
41899457 GC-AACTTGGATAAAATAAAGTCCA-AGCCCTAATGTGGGAACAACTGCCAAGTTT-A-GA
1 GCTAACTTGGATAAAA-AAA-TCCAGA-CCCTAACGTGGGAACAACTGCCAAGTTTAAGGA
* *
41899514 GACTAACTTAGAAAAAAAAAT
1 G-CTAACTTGGATAAAAAAAT
41899535 TCAAACTGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
57 17 0.25
58 11 0.16
59 40 0.59
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (58 bp):
GCTAACTTGGATAAAAAAATCCAGACCCTAACGTGGGAACAACTGCCAAGTTTAAGGA
Found at i:41900408 original size:16 final size:16
Alignment explanation
Indices: 41900384--41900437 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
41900374 TTTGGTTCGC
*
41900384 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
41900400 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
41900416 TGTAATGGAATAGATG
1 TGTAATGGATTAGAGG
41900432 TGTAAT
1 TGTAAT
41900438 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.35
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:41900482 original size:45 final size:44
Alignment explanation
Indices: 41900416--41900506 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
41900406 GGATTAGAGG
* *
41900416 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
41900461 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
41900505 TG
1 TG
41900507 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:41900797 original size:120 final size:120
Alignment explanation
Indices: 41900653--41900875 Score: 428
Period size: 120 Copynumber: 1.9 Consensus size: 120
41900643 ATCACATTTA
41900653 AACATAATTATTATTAAATATATTATAATTAAAAGATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAAGATATAATTTAATAAAATTCTTAATAATCAA
41900718 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
* *
41900773 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAAGATATAATTTAATAAAATTCTTAATAATCAA
41900838 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
41900876 TGTTATTGCT
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 101 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTATAATTAAAAGATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:41900818 original size:14 final size:15
Alignment explanation
Indices: 41900769--41900820 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
41900759 ATAAAATATA
41900769 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
41900784 TATTAAATATATTAT
1 AATTAAATATATTAT
41900799 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
41900812 AATTTAATA
1 AATTAAATA
41900821 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:41904274 original size:32 final size:32
Alignment explanation
Indices: 41904238--41904343 Score: 108
Period size: 37 Copynumber: 3.2 Consensus size: 32
41904228 TAATATTTTT
*
41904238 AATATAATTATTTTTATATTATATTATATTAAA
1 AATATAATTATTTTTATATTAAATTATATT-AA
*
41904271 ATATGATTAAGTTATTTTTTTATTAAATTATATTTTAA
1 A-AT-A-TAA-TTATTTTTATATTAAATTATA--TTAA
*
41904309 AAT-TAAATA-TTTTATATTAAATTATATTAA
1 AATATAATTATTTTTATATTAAATTATATTAA
41904339 AATAT
1 AATAT
41904344 TTCAAATATT
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
30 7 0.11
31 1 0.02
32 16 0.26
33 3 0.05
34 5 0.08
35 1 0.02
36 3 0.05
37 21 0.34
38 3 0.05
39 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (32 bp):
AATATAATTATTTTTATATTAAATTATATTAA
Found at i:41904329 original size:14 final size:15
Alignment explanation
Indices: 41904300--41904341 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
41904290 TTATTAAATT
41904300 ATATTTTAAAATTAA
1 ATATTTTAAAATTAA
*
41904315 ATATTTT-ATATTAA
1 ATATTTTAAAATTAA
*
41904329 ATTATATTAAAAT
1 A-TATTTTAAAAT
41904342 ATTTCAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 7 0.32
15 12 0.55
16 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATTTTAAAATTAA
Found at i:41908169 original size:46 final size:45
Alignment explanation
Indices: 41908102--41908370 Score: 295
Period size: 46 Copynumber: 6.3 Consensus size: 45
41908092 TTTGAGTACT
* * *
41908102 TCTGATCAAGAGATAAAGTGATAAGTGGTAACTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
41908148 TCTGATCAAGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
41908184 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
41908230 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
41908266 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
41908312 TCTGATCAAGTGAGAAAGTGATAAGCGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
41908358 TCTGATCAAGTGA
1 TCTGATCAAGTGA
41908371 TCAGGGACAA
Statistics
Matches: 191, Mismatches: 12, Indels: 40
0.79 0.05 0.16
Matches are distributed among these distances:
36 58 0.30
37 2 0.01
38 1 0.01
39 1 0.01
40 4 0.02
41 1 0.01
42 6 0.03
43 2 0.01
44 1 0.01
45 2 0.01
46 113 0.59
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:41908179 original size:36 final size:36
Alignment explanation
Indices: 41908138--41908292 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
41908128 GGTAACTTTA
41908138 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
41908174 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
41908219 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
41908256 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
41908292 G
1 G
41908293 TTAGCCTTAG
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 65 0.63
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 30 0.29
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:41908239 original size:82 final size:82
Alignment explanation
Indices: 41908102--41908336 Score: 407
Period size: 82 Copynumber: 2.9 Consensus size: 82
41908092 TTTGAGTACT
* *
41908102 TCTGATCAAGAGATAAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
41908167 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
41908184 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
*
41908249 GATAAGTGCTATACTTA
66 GATAAGTGCTACACTTA
* * * *
41908266 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
41908331 GATAAG
66 GATAAG
41908337 CGGTAGCCTT
Statistics
Matches: 146, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 146 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:41909940 original size:19 final size:19
Alignment explanation
Indices: 41909918--41909972 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
41909908 AAGTACGGAA
41909918 AAAATTCAAAATAATTT-TT
1 AAAATTCAAAAT-ATTTATT
41909937 AAAATTCAAAATATTTATT
1 AAAATTCAAAATATTTATT
*
41909956 AAAATTCTAAA-ATTTAT
1 AAAATTCAAAATATTTAT
41909973 ATTTTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
18 10 0.29
19 24 0.71
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTCAAAATATTTATT
Found at i:41913617 original size:28 final size:25
Alignment explanation
Indices: 41913576--41913627 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
41913566 GTCAATAAAT
41913576 AATTTAAAAATTATAAAAAAGTTCAA
1 AATTTAAAAATTAT-AAAAAGTTCAA
41913602 AATTTATAATAATTATAAAAAGTTCA
1 AATTTA-AA-AATTATAAAAAGTTCA
41913628 TAAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 12 0.50
28 6 0.25
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (25 bp):
AATTTAAAAATTATAAAAAGTTCAA
Found at i:41916149 original size:3 final size:3
Alignment explanation
Indices: 41916141--41916165 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
41916131 TGTTGAGAAT
41916141 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
41916166 AAGCTATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:41917663 original size:125 final size:125
Alignment explanation
Indices: 41917474--41918006 Score: 716
Period size: 125 Copynumber: 4.3 Consensus size: 125
41917464 ATTTTTGCAG
* * * *
41917474 TCGCGCCCACGAGTACGCGCTTTTGCTATAGTAGGTCCTAGAA-AAATAATTACGAGTTGACGTT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAAGAAATAATTTCGAGTTGACGTT
* **
41917538 TCTGAGCAAATAGTAAAAAAAACGCTT-TAAGCAAGATGCTATATGCGAAGAATTTGTGAAA
66 TCTGAGCAAATAGT-AAAAAAACGCTTCT-AGCAGGATGCTATATGAAAAGAATTTGTGAAA
* * * *
41917599 TCGCGCCCTCCTGGACGCACTTTTGCTAC-GTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAAGAAATAATTTCGAGTTGACGTT
* * * * *
41917663 TCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAA
66 TCTGAGCAAATAGTAAAAAAACGCTTCTAGCAGGATGCTATATGAAAAGAATTTGTGAAA
* *
41917723 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATTATTTCGAGTTGACGTT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAAGAAATAATTTCGAGTTGACGTT
* * * *
41917787 TCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTCTAAAA
66 TCTGAGCAAATAGTA-AAAAAACGCTTCTAGCAGGATGCTATATGAAAAGAATTTGTGAAA
* * * * *
41917848 TCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTTGAGTTAACGTT
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAAGAAATAATTTCGAGTTGACGTT
* * *
41917913 TCTGAGCAAATAGTATAAAATCGCTTCTA-CTAGGATGCTTTATGAAAAGAATTTGTGAAA
66 TCTGAGCAAATAGTAAAAAAACGCTTCTAGC-AGGATGCTATATGAAAAGAATTTGTGAAA
*
41917973 TCGCGCCCACGTGAACGCGCTTTTGCTACAGTAG
1 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
41918007 CATGTTTGAG
Statistics
Matches: 357, Mismatches: 45, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
124 115 0.32
125 206 0.58
126 36 0.10
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (125 bp):
TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAGAAGAAATAATTTCGAGTTGACGTT
TCTGAGCAAATAGTAAAAAAACGCTTCTAGCAGGATGCTATATGAAAAGAATTTGTGAAA
Found at i:41917996 original size:250 final size:249
Alignment explanation
Indices: 41917474--41918006 Score: 852
Period size: 249 Copynumber: 2.1 Consensus size: 249
41917464 ATTTTTGCAG
* * *
41917474 TCGCGCCCACGAGTACGCGCTTTTGCTATAGTAGGTCCTAGAAAAATAATTACGAGTTGACGTTT
1 TCGCGCCCACGTGAACGCGCTTTTGCTACAGTAGGTCCTAGAAAAATAATTACGAGTTGACGTTT
* ** * *
41917539 CTGAGCAAATAGTAAAAAAAACGCTTTAAGCAAGATGCTATATGCGAAGAATTTGTGAAATCGCG
66 CTGAGCAAATAGTAAAAAAAACGCTTCAAGCAAGATGCTATATGAAAAGAATTTCTAAAATCGCG
*
41917604 CCCTCCTGGACGCACTTTTGCTACGTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAG
131 CCCTCCTGGACGCACTTTTGCTACGTTGGTCCTAGAAGAAATAATTTCGAGTTAACGTTTCTGAG
*
41917669 CAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAA
196 CAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAAAAGAATTTGTGAAA
* * *
41917723 TCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCT-GAAAAAATTATTTCGAGTTGACGTT
1 TCGCGCCCACGTGAACGCGCTTTTGCTACAGTAGGTCCTAG-AAAAATAATTACGAGTTGACGTT
* * *
41917787 TCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGAAAAGAATTTCTAAAATCGC
65 TCTGAGCAAATAGTAAAAAAAACGCTTCAAGCAAGATGCTATATGAAAAGAATTTCTAAAATCGC
* * * *
41917852 GCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAATTTTGAGTTAACGTTTCTG
130 GCCCTCCTGGACGCACTTTTGCTAC-GTTGGTCCTAGAAGAAATAATTTCGAGTTAACGTTTCTG
*
41917917 AGCAAATAGTATAAAATCGCTTCTACTAGGATGCTTTATGAAAAGAATTTGTGAAA
194 AGCAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAAAAGAATTTGTGAAA
41917973 TCGCGCCCACGTGAACGCGCTTTTGCTACAGTAG
1 TCGCGCCCACGTGAACGCGCTTTTGCTACAGTAG
41918007 CATGTTTGAG
Statistics
Matches: 261, Mismatches: 21, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
248 1 0.00
249 137 0.52
250 123 0.47
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (249 bp):
TCGCGCCCACGTGAACGCGCTTTTGCTACAGTAGGTCCTAGAAAAATAATTACGAGTTGACGTTT
CTGAGCAAATAGTAAAAAAAACGCTTCAAGCAAGATGCTATATGAAAAGAATTTCTAAAATCGCG
CCCTCCTGGACGCACTTTTGCTACGTTGGTCCTAGAAGAAATAATTTCGAGTTAACGTTTCTGAG
CAAATAGTATAAAATCGCTTCTACCAGGATGCTTTATGAAAAGAATTTGTGAAA
Found at i:41921211 original size:22 final size:22
Alignment explanation
Indices: 41921186--41921481 Score: 91
Period size: 22 Copynumber: 13.6 Consensus size: 22
41921176 AATTTAAGAT
41921186 TTTAGGGTTTAGGAGTTTTAAG
1 TTTAGGGTTTAGGAGTTTTAAG
* *
41921208 TTTAAGGTTTAAGG-TTTTTAAG
1 TTTAGGGTTT-AGGAGTTTTAAG
*
41921230 TTTAGGGTTTATGG-TTTTTAAAG
1 TTTAGGGTTTA-GGAGTTTT-AAG
* *
41921253 -TTAAGGTTTA-TAGTTTTTTAAG
1 TTTAGGGTTTAGGAG--TTTTAAG
* * **
41921275 TTTATGGTTTCTGGTTTTTTAAG
1 TTTAGGGTTT-AGGAGTTTTAAG
* * **
41921298 TTAAGGG-CTAGGTTTTTTAAG
1 TTTAGGGTTTAGGAGTTTTAAG
* **
41921319 GTTAGGGTTTAGGTTTTTTTAAG
1 TTTAGGGTTTAGG-AGTTTTAAG
** *
41921342 TTTAAAGTTTAGG-GTTTTTAGG
1 TTTAGGGTTTAGGAG-TTTTAAG
* * *
41921364 TTTAAGGTTT-GTATTTTTAAG
1 TTTAGGGTTTAGGAGTTTTAAG
* * *
41921385 TTAAGGG-TTA-GA--ATTAGGG
1 TTTAGGGTTTAGGAGTTTTA-AG
* * *
41921404 TTAAGGTTTTA-AAG--TTAAG
1 TTTAGGGTTTAGGAGTTTTAAG
*
41921423 TCTTTAAGGTTTAGG-GTTTTTAAG
1 --TTTAGGGTTTAGGAG-TTTTAAG
* * *
41921447 TTTAGGGTTTATGAGGTTTAGG
1 TTTAGGGTTTAGGAGTTTTAAG
41921469 TTTAGGGTTTAGG
1 TTTAGGGTTTAGG
41921482 TTTAGGGTTT
Statistics
Matches: 206, Mismatches: 44, Indels: 48
0.69 0.15 0.16
Matches are distributed among these distances:
18 3 0.01
19 8 0.04
20 10 0.05
21 38 0.18
22 92 0.45
23 50 0.24
24 5 0.02
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (22 bp):
TTTAGGGTTTAGGAGTTTTAAG
Found at i:41921234 original size:44 final size:44
Alignment explanation
Indices: 41921186--41921930 Score: 340
Period size: 44 Copynumber: 17.4 Consensus size: 44
41921176 AATTTAAGAT
* *
41921186 TTTAGGGTTTAGGAGTTTTAAGTTTAAGGTTTAAGGTTTTTAAG
1 TTTAGGGTTTAGGATTTTTAAGTTTAAGGTTTAGGGTTTTTAAG
* *
41921230 TTTAGGGTTTATGG-TTTTTAAAG-TTAAGGTTTATAGTTTTTTAAG
1 TTTAGGGTTTA-GGATTTTT-AAGTTTAAGGTTTA-GGGTTTTTAAG
* * * ** *
41921275 TTTATGGTTTCTGGTTTTTTAAG-TTAAGGGCTAGGTTTTTTAAG
1 TTTAGGGTTT-AGGATTTTTAAGTTTAAGGTTTAGGGTTTTTAAG
* * * *
41921319 GTTAGGGTTTAGGTTTTTTTAAGTTTAAAGTTTAGGGTTTTTAGG
1 TTTAGGGTTTAGG-ATTTTTAAGTTTAAGGTTTAGGGTTTTTAAG
* * * ** *
41921364 TTTAAGGTTT-GTATTTTTAAG-TTAAGGGTTA--G-AATTAGGG
1 TTTAGGGTTTAGGATTTTTAAGTTTAAGGTTTAGGGTTTTTA-AG
* * **
41921404 TTAAGGTTTTA--A-AGTTAAGTCTTTAAGGTTTAGGGTTTTTAAG
1 TTTAGGGTTTAGGATTTTTAAG--TTTAAGGTTTAGGGTTTTTAAG
* ** * * *
41921447 TTTAGGGTTTATGAGGTTTAGGTTTAGGGTTTA-GG--TTTAGGG
1 TTTAGGGTTTAGGATTTTTAAGTTTAAGGTTTAGGGTTTTTA-AG
** * * *
41921489 TTTAAAGTTTTTAGG--TTTAAAGTTTAGGGTTT----TTAAGTTAATG
1 TTT--AGGGTTTAGGATTTTTAAGTTTAAGGTTTAGGGTT--TTTAA-G
* *
41921532 GTTAGGGTTTAGGATTTTTAGGTTTAAGGTTTAGGGTTTTTAAG
1 TTTAGGGTTTAGGATTTTTAAGTTTAAGGTTTAGGGTTTTTAAG
** * * * * *
41921576 TTTAAAGTTTAAGATGTTTAGGTTTAGGGTTT-GGTTTTTTAAG
1 TTTAGGGTTTAGGATTTTTAAGTTTAAGGTTTAGGGTTTTTAAG
* * * * *
41921619 TTAAGGG-TTAGCATTTTTAA-TTTAAGGGTTAGTG-TTTCAAG
1 TTTAGGGTTTAGGATTTTTAAGTTTAAGGTTTAGGGTTTTTAAG
* * **
41921660 TTAAGGG-TTAGGA---TTAAGGTT-AGTGTTTTAAAG---TTAAGG
1 TTTAGGGTTTAGGATTTTTAAGTTTAAG-G-TTTAGGGTTTTTAA-G
* *
41921699 TTTTAGGGTTTTAGG-GTTTTAAGTTT-AGAGTTTATGGTTTTTAA-
1 -TTTAGGG-TTTAGGATTTTTAAGTTTAAG-GTTTAGGGTTTTTAAG
* * *
41921743 TTTAAGGG-TTAGG-GTTTTAGGGTT-AGTGTTT-GGTGTTTTTAAG
1 TTT-AGGGTTTAGGATTTTTAAGTTTAAG-GTTTAGG-GTTTTTAAG
*
41921786 TTTAGTGTTTATGG-TTTTTAAGTTTAAGGTTT-GGTGTTTTTAAG
1 TTTAGGGTTTA-GGATTTTTAAGTTTAAGGTTTAGG-GTTTTTAAG
* *
41921830 TTTAGGGTTTATGG-TTTTTAGGTTTAAAGTTTAGGGTTTTTAAG
1 TTTAGGGTTTA-GGATTTTTAAGTTTAAGGTTTAGGGTTTTTAAG
* *
41921874 TTAAGGG-TTAGTATTTTTAA-TTTAATGG-TTAGGGTTTTTAAG
1 TTTAGGGTTTAGGATTTTTAAGTTTAA-GGTTTAGGGTTTTTAAG
* *
41921916 TTAAAGG-TTAGGATT
1 TTTAGGGTTTAGGATT
41921931 AGGGTTAGGG
Statistics
Matches: 545, Mismatches: 101, Indels: 112
0.72 0.13 0.15
Matches are distributed among these distances:
38 14 0.03
39 8 0.01
40 20 0.04
41 48 0.09
42 105 0.19
43 81 0.15
44 184 0.34
45 70 0.13
46 13 0.02
47 2 0.00
ACGTcount: A:0.23, C:0.01, G:0.27, T:0.49
Consensus pattern (44 bp):
TTTAGGGTTTAGGATTTTTAAGTTTAAGGTTTAGGGTTTTTAAG
Found at i:41921277 original size:67 final size:67
Alignment explanation
Indices: 41921201--41921390 Score: 192
Period size: 67 Copynumber: 2.9 Consensus size: 67
41921191 GGTTTAGGAG
41921201 TTTTAAGTTTAAGGTTTAAGGTTTTTAAGTTTAGGGTTTATGGTTTTTAAAGTTAAGGTTTATAG
1 TTTTAAGTTTAAGGTTTAAGGTTTTTAAGTTTAGGGTTTATGGTTTTTAAAGTTAAGGTTTA-AG
41921266 -TT
65 TTT
* ** * * * * *
41921268 TTTTAAGTTTATGGTTTCTGGTTTTTTAAGTTAAGGG-CTA-GGTTTTTTAAGGTTAGGGTTTAG
1 TTTTAAGTTTAAGGTTTAAGG-TTTTTAAGTTTAGGGTTTATGG-TTTTTAAAGTTAAGGTTTAA
41921331 GTTT
64 GTTT
* * * * * *
41921335 TTTTAAGTTTAAAGTTTAGGGTTTTTAGGTTTAAGGTTTGT-ATTTTT-AAGTTAAGG
1 TTTTAAGTTTAAGGTTTAAGGTTTTTAAGTTTAGGGTTTATGGTTTTTAAAGTTAAGG
41921391 GTTAGAATTA
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
65 7 0.07
66 20 0.20
67 57 0.58
68 14 0.14
ACGTcount: A:0.23, C:0.01, G:0.24, T:0.52
Consensus pattern (67 bp):
TTTTAAGTTTAAGGTTTAAGGTTTTTAAGTTTAGGGTTTATGGTTTTTAAAGTTAAGGTTTAAGT
TT
Found at i:41921440 original size:7 final size:7
Alignment explanation
Indices: 41921425--41921492 Score: 61
Period size: 7 Copynumber: 9.6 Consensus size: 7
41921415 AAGTTAAGTC
*
41921425 TTTAAGG
1 TTTAGGG
41921432 TTTAGGG
1 TTTAGGG
*
41921439 TTTTTAAG-
1 --TTTAGGG
41921447 TTTAGGG
1 TTTAGGG
41921454 TTTATGAGG
1 TTTA-G-GG
41921463 TTTA-GG
1 TTTAGGG
41921469 TTTAGGG
1 TTTAGGG
41921476 TTTA-GG
1 TTTAGGG
41921482 TTTAGGG
1 TTTAGGG
41921489 TTTA
1 TTTA
41921493 AAGTTTTTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
6 17 0.33
7 22 0.43
8 1 0.02
9 11 0.22
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:41921446 original size:16 final size:16
Alignment explanation
Indices: 41921425--41921468 Score: 63
Period size: 15 Copynumber: 2.8 Consensus size: 16
41921415 AAGTTAAGTC
41921425 TTTAAGGTTTAGGGTT
1 TTTAAGGTTTAGGGTT
41921441 TTTAA-GTTTAGGGTT
1 TTTAAGGTTTAGGGTT
* *
41921456 TATGAGGTTTAGG
1 TTTAAGGTTTAGG
41921469 TTTAGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 13 0.52
16 12 0.48
ACGTcount: A:0.20, C:0.00, G:0.32, T:0.48
Consensus pattern (16 bp):
TTTAAGGTTTAGGGTT
Found at i:41921451 original size:15 final size:15
Alignment explanation
Indices: 41921425--41921527 Score: 59
Period size: 15 Copynumber: 6.5 Consensus size: 15
41921415 AAGTTAAGTC
41921425 TTTAAGGTTTAGGGTT
1 TTTAA-GTTTAGGGTT
41921441 TTTAAGTTTAGGGTT
1 TTTAAGTTTAGGGTT
* * *
41921456 TATGAGGTTTAGGTTT
1 T-TTAAGTTTAGGGTT
*
41921472 AGGGTTTAGGTTTAGGG-T
1 ----TTTAAGTTTAGGGTT
*
41921490 TTAAAGTTTTTA-GG-T
1 TTTAAG--TTTAGGGTT
*
41921505 TTAAAGTTTAGGGTT
1 TTTAAGTTTAGGGTT
41921520 TTTAAGTT
1 TTTAAGTT
41921528 AATGGTTAGG
Statistics
Matches: 70, Mismatches: 8, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
13 4 0.06
14 6 0.09
15 28 0.40
16 20 0.29
18 1 0.01
19 10 0.14
20 1 0.01
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (15 bp):
TTTAAGTTTAGGGTT
Found at i:41921479 original size:13 final size:13
Alignment explanation
Indices: 41921446--41921492 Score: 67
Period size: 13 Copynumber: 3.4 Consensus size: 13
41921436 GGGTTTTTAA
41921446 GTTTAGGGTTTATGAG
1 GTTTA-GGTTTA-G-G
41921462 GTTTAGGTTTAGG
1 GTTTAGGTTTAGG
41921475 GTTTAGGTTTAGG
1 GTTTAGGTTTAGG
41921488 GTTTA
1 GTTTA
41921493 AAGTTTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.61
14 1 0.03
15 6 0.19
16 5 0.16
ACGTcount: A:0.17, C:0.00, G:0.36, T:0.47
Consensus pattern (13 bp):
GTTTAGGTTTAGG
Found at i:41921516 original size:13 final size:14
Alignment explanation
Indices: 41921468--41921520 Score: 65
Period size: 13 Copynumber: 3.8 Consensus size: 14
41921458 TGAGGTTTAG
*
41921468 GTTTAGGGTTT-AG
1 GTTTAGGGTTTAAA
41921481 GTTTAGGGTTTAAA
1 GTTTAGGGTTTAAA
41921495 GTTTTTA-GGTTTAAA
1 G--TTTAGGGTTTAAA
41921510 GTTTAGGGTTT
1 GTTTAGGGTTT
41921521 TTAAGTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
13 15 0.43
14 7 0.20
15 9 0.26
16 4 0.11
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
GTTTAGGGTTTAAA
Found at i:41921529 original size:21 final size:22
Alignment explanation
Indices: 41921495--41921541 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
41921485 AGGGTTTAAA
* *
41921495 GTTTTTAGGTTTAAAGTTTAGG
1 GTTTTTAAGTTTAAAGGTTAGG
*
41921517 GTTTTTAAG-TTAATGGTTAGG
1 GTTTTTAAGTTTAAAGGTTAGG
41921538 GTTT
1 GTTT
41921542 AGGATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (22 bp):
GTTTTTAAGTTTAAAGGTTAGG
Found at i:41921537 original size:50 final size:50
Alignment explanation
Indices: 41921483--41921577 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
41921473 GGGTTTAGGT
41921483 TTAGGGTTTAA-AGTTTTTAGGTTTAAAGTTTAGGGTTTTTAAGTTAATGG
1 TTAGGGTTTAAGA-TTTTTAGGTTTAAAGTTTAGGGTTTTTAAGTTAATGG
* *
41921533 TTAGGGTTTAGGATTTTTAGGTTTAAGGTTTAGGGTTTTTAAGTT
1 TTAGGGTTTAAGATTTTTAGGTTTAAAGTTTAGGGTTTTTAAGTT
41921578 TAAAGTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 41 0.98
51 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.49
Consensus pattern (50 bp):
TTAGGGTTTAAGATTTTTAGGTTTAAAGTTTAGGGTTTTTAAGTTAATGG
Found at i:41921541 original size:35 final size:34
Alignment explanation
Indices: 41921433--41921542 Score: 81
Period size: 35 Copynumber: 3.3 Consensus size: 34
41921423 TCTTTAAGGT
* * *
41921433 TTAGGGTTTTTAAGTTTAGGGTTTATGAGGTT-TAGG
1 TTAGGG-TTTAAAGTTTAGGGTTT-TAAAGTTAT-GG
*
41921469 TTTAGGGTTT-AGGTTTAGGG-TTTAAAGTT-T--
1 -TTAGGGTTTAAAGTTTAGGGTTTTAAAGTTATGG
*
41921499 TTA-GGTTTAAAGTTTAGGGTTTTTAAGTTAATGG
1 TTAGGGTTTAAAGTTTAGGGTTTTAAAGTT-ATGG
41921533 TTAGGGTTTA
1 TTAGGGTTTA
41921543 GGATTTTTAG
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
28 5 0.08
29 12 0.20
30 8 0.13
32 1 0.02
33 6 0.10
34 5 0.08
35 15 0.25
36 3 0.05
37 6 0.10
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (34 bp):
TTAGGGTTTAAAGTTTAGGGTTTTAAAGTTATGG
Found at i:41921542 original size:28 final size:29
Alignment explanation
Indices: 41921441--41921570 Score: 99
Period size: 28 Copynumber: 4.6 Consensus size: 29
41921431 GTTTAGGGTT
* ** *
41921441 TTTAA-GTTTAGGGTTTATGAGGTTTAGG
1 TTTAAGGTTTAGGGTTTAGGATTTTTAAG
* * *
41921469 TTTAGGGTTTA-GGTTTAGG-GTTTAAAG
1 TTTAAGGTTTAGGGTTTAGGATTTTTAAG
* ** *
41921496 TTTTTAGGTTTAAAGTTTAGGGTTTTTAAG
1 -TTTAAGGTTTAGGGTTTAGGATTTTTAAG
*
41921526 -TTAATGG-TTAGGGTTTAGGATTTTTAGG
1 TTTAA-GGTTTAGGGTTTAGGATTTTTAAG
41921554 TTTAAGGTTTAGGGTTT
1 TTTAAGGTTTAGGGTTT
41921571 TTAAGTTTAA
Statistics
Matches: 80, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
27 5 0.06
28 42 0.52
29 27 0.34
30 6 0.08
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (29 bp):
TTTAAGGTTTAGGGTTTAGGATTTTTAAG
Found at i:41921562 original size:22 final size:22
Alignment explanation
Indices: 41921441--41921650 Score: 103
Period size: 22 Copynumber: 9.5 Consensus size: 22
41921431 GTTTAGGGTT
* *
41921441 TTTAA-GTTTAGGGTTTATGAGG
1 TTTAAGGTTTAGGATTT-TTAGG
*
41921463 TTT-AGGTTTAGG--GTTTAGG
1 TTTAAGGTTTAGGATTTTTAGG
* *
41921482 TTTAGGGTTTA-AAGTTTTTAGG
1 TTTAAGGTTTAGGA-TTTTTAGG
* *
41921504 TTTAAAGTTTAGGGTTTTTAAGTTAATG
1 TTTAAGGTTTAGGATTTTT-AG-----G
* *
41921532 GTTAGGGTTTAGGATTTTTAGG
1 TTTAAGGTTTAGGATTTTTAGG
* *
41921554 TTTAAGGTTTAGGGTTTTTAAG
1 TTTAAGGTTTAGGATTTTTAGG
* * *
41921576 TTTAAAGTTTAAGATGTTTAGG
1 TTTAAGGTTTAGGATTTTTAGG
* * *
41921598 TTTAGGGTTT-GGTTTTTTAAG
1 TTTAAGGTTTAGGATTTTTAGG
* * *
41921619 -TTAAGGGTTAGCATTTTTA-A
1 TTTAAGGTTTAGGATTTTTAGG
*
41921639 TTTAAGGGTTAG
1 TTTAAGGTTTAG
41921651 TGTTTCAAGT
Statistics
Matches: 141, Mismatches: 33, Indels: 29
0.69 0.16 0.14
Matches are distributed among these distances:
19 7 0.05
20 14 0.10
21 26 0.18
22 74 0.52
23 2 0.01
27 2 0.01
28 16 0.11
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (22 bp):
TTTAAGGTTTAGGATTTTTAGG
Found at i:41921603 original size:50 final size:48
Alignment explanation
Indices: 41921483--41921600 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 48
41921473 GGGTTTAGGT
* *
41921483 TTAGGGTTTAAAGTTTTTAGGTTTAAAGTTTAGGGTTTTTAAGTTAATGG
1 TTAGGGTTT--AGGTTTTAGGTTTAAAGTTTAGGGTTTTTAAGTTAAAGG
* *
41921533 TTAGGGTTTAGGATTTTTAGGTTTAAGGTTTAGGGTTTTTAAGTTTAAAGT
1 TTAGGGTTTAGG--TTTTAGGTTTAAAGTTTAGGGTTTTTAAG-TTAAAGG
*
41921584 TTAAGATGTTTAGGTTT
1 TT-AG-GGTTTAGGTTT
41921601 AGGGTTTGGT
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
48 2 0.03
50 37 0.64
51 10 0.17
52 2 0.03
53 7 0.12
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (48 bp):
TTAGGGTTTAGGTTTTAGGTTTAAAGTTTAGGGTTTTTAAGTTAAAGG
Found at i:41921638 original size:21 final size:19
Alignment explanation
Indices: 41921611--41921670 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 19
41921601 AGGGTTTGGT
41921611 TTTTTAAGTTAAGGGTTAG
1 TTTTTAAGTTAAGGGTTAG
*
41921630 CATTTTTAATTTAAGGGTTAG
1 --TTTTTAAGTTAAGGGTTAG
*
41921651 TGTTTCAAGTTAAGGGTTAG
1 T-TTTTAAGTTAAGGGTTAG
41921671 GATTAAGGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.03
20 16 0.46
21 18 0.51
ACGTcount: A:0.27, C:0.03, G:0.25, T:0.45
Consensus pattern (19 bp):
TTTTTAAGTTAAGGGTTAG
Found at i:41921839 original size:15 final size:15
Alignment explanation
Indices: 41921808--41921882 Score: 50
Period size: 15 Copynumber: 5.0 Consensus size: 15
41921798 GGTTTTTAAG
41921808 TTTAAGGTTT-GGTGTT
1 TTTAA-GTTTAGG-GTT
41921824 TTTAAGTTTAGGGTT
1 TTTAAGTTTAGGGTT
* *
41921839 TAT-GGTTTTTA-GG-T
1 TTTAAG--TTTAGGGTT
*
41921853 TTAAAGTTTAGGGTT
1 TTTAAGTTTAGGGTT
*
41921868 TTTAAGTTAAGGGTT
1 TTTAAGTTTAGGGTT
41921883 AGTATTTTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 13
0.70 0.11 0.20
Matches are distributed among these distances:
13 4 0.09
14 5 0.11
15 26 0.57
16 11 0.24
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TTTAAGTTTAGGGTT
Found at i:41921839 original size:29 final size:29
Alignment explanation
Indices: 41921807--41921868 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
41921797 TGGTTTTTAA
* *
41921807 GTTTAAGGTTTGGT-GTTTTTAAGTTTAGG
1 GTTTAAGGTTT-GTAGGTTTAAAGTTTAGG
* *
41921836 GTTTATGGTTTTTAGGTTTAAAGTTTAGG
1 GTTTAAGGTTTGTAGGTTTAAAGTTTAGG
41921865 GTTT
1 GTTT
41921869 TTAAGTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (29 bp):
GTTTAAGGTTTGTAGGTTTAAAGTTTAGG
Found at i:41921877 original size:21 final size:22
Alignment explanation
Indices: 41921708--41921924 Score: 186
Period size: 22 Copynumber: 10.1 Consensus size: 22
41921698 GTTTTAGGGT
41921708 TTTAGGG-TTTTAAGTTT-AGAG
1 TTTAGGGTTTTTAAGTTTAAG-G
*
41921729 TTTATGGTTTTTAA-TTTAAGG
1 TTTAGGGTTTTTAAGTTTAAGG
* * *
41921750 GTTAGGG-TTTTAGGGTT-AGTG
1 TTTAGGGTTTTTAAGTTTAAG-G
41921771 TTT-GGTGTTTTTAAGTTT-AGTG
1 TTTAGG-GTTTTTAAGTTTAAG-G
*
41921793 TTTATGGTTTTTAAGTTTAAGG
1 TTTAGGGTTTTTAAGTTTAAGG
*
41921815 TTT-GGTGTTTTTAAGTTTAGGG
1 TTTAGG-GTTTTTAAGTTTAAGG
* * *
41921837 TTTATGGTTTTTAGGTTTAAAG
1 TTTAGGGTTTTTAAGTTTAAGG
41921859 TTTAGGGTTTTTAAG-TTAAGG
1 TTTAGGGTTTTTAAGTTTAAGG
* **
41921880 GTTAGTATTTTTAA-TTTAATGG
1 TTTAGGGTTTTTAAGTTTAA-GG
*
41921902 -TTAGGGTTTTTAAGTTAAAGG
1 TTTAGGGTTTTTAAGTTTAAGG
41921923 TT
1 TT
41921925 AGGATTAGGG
Statistics
Matches: 158, Mismatches: 24, Indels: 27
0.76 0.11 0.13
Matches are distributed among these distances:
20 9 0.06
21 55 0.35
22 90 0.57
23 4 0.03
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (22 bp):
TTTAGGGTTTTTAAGTTTAAGG
Found at i:41921925 original size:21 final size:21
Alignment explanation
Indices: 41921709--41921927 Score: 133
Period size: 21 Copynumber: 10.2 Consensus size: 21
41921699 TTTTAGGGTT
* *
41921709 TTAGGG-TTTTAAGTTTAGAGT
1 TTAGGGTTTTTAAG-TTAAAGG
* * *
41921730 TTATGGTTTTTAATTTAAGGG
1 TTAGGGTTTTTAAGTTAAAGG
*
41921751 TTAGGG-TTTTAGGGTT--AGTG
1 TTAGGGTTTTTA-AGTTAAAG-G
* *
41921771 TTTGGTGTTTTTAAGTT-TAGTG
1 TTAGG-GTTTTTAAGTTAAAG-G
* *
41921793 TTTATGGTTTTTAAGTTTAAGG
1 -TTAGGGTTTTTAAGTTAAAGG
* * *
41921815 TTTGGTGTTTTTAAGTTTAGGG
1 TTAGG-GTTTTTAAGTTAAAGG
* * *
41921837 TTTATGGTTTTTAGGTTTAAAGT
1 -TTAGGGTTTTTAAG-TTAAAGG
*
41921860 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAAGG
** * *
41921881 TTAGTATTTTTAATTTAATGG
1 TTAGGGTTTTTAAGTTAAAGG
41921902 TTAGGGTTTTTAAGTTAAAGG
1 TTAGGGTTTTTAAGTTAAAGG
41921923 TTAGG
1 TTAGG
41921928 ATTAGGGTTA
Statistics
Matches: 152, Mismatches: 35, Indels: 22
0.73 0.17 0.11
Matches are distributed among these distances:
19 1 0.01
20 10 0.07
21 67 0.44
22 62 0.41
23 12 0.08
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.51
Consensus pattern (21 bp):
TTAGGGTTTTTAAGTTAAAGG
Found at i:41922066 original size:15 final size:15
Alignment explanation
Indices: 41922025--41922073 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
41922015 TAAGGGTTAG
*
41922025 GGTTTTAAAG-TTAA
1 GGTTTTTAAGTTTAA
**
41922039 GGTTTTTGGGTTTAA
1 GGTTTTTAAGTTTAA
*
41922054 GGTTTTTAAGTTTAG
1 GGTTTTTAAGTTTAA
41922069 GGTTT
1 GGTTT
41922074 AATGTTTTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.20, C:0.00, G:0.29, T:0.51
Consensus pattern (15 bp):
GGTTTTTAAGTTTAA
Found at i:41922071 original size:22 final size:22
Alignment explanation
Indices: 41922046--41922961 Score: 222
Period size: 22 Copynumber: 42.7 Consensus size: 22
41922036 TAAGGTTTTT
41922046 GGGTTTAAGGTTTTTAAGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
*
41922068 GGGTTTAATGTTTTTAAGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
* *
41922090 AGGTTTATGGTTTTTAAGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
*
41922112 GGGTTTATA-GTTTTTAGGTTTA
1 GGGTTTA-AGGTTTTTAAGTTTA
** * * * *
41922134 GCATTT-GGGGTTTTAAATTAA
1 GGGTTTAAGGTTTTTAAGTTTA
41922155 GGG-TT-AGTGTTTTTAAGTTTA
1 GGGTTTAAG-GTTTTTAAGTTTA
* * *
41922176 AGGTCT-GGGTTTTTAAGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
*
41922197 GGGTTTATGG-TTTTAAGGTTTA
1 GGGTTTAAGGTTTTTAA-GTTTA
* *
41922219 GGG-TTAGGGTTTTTAAGTTAA
1 GGGTTTAAGGTTTTTAAGTTTA
** * *
41922240 GGG-TT-A-G-AATTAGGGTTA
1 GGGTTTAAGGTTTTTAAGTTTA
* *
41922258 GGGTTTTAAAG--TTAAAGTTTTA
1 GGG-TTTAAGGTTTTTAAG-TTTA
*
41922280 GGGTTTAAGATTTTTTAAGTTTA
1 GGGTTTAAG-GTTTTTAAGTTTA
** * *
41922303 AAGTTTAGGGTTTTTAGGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
* ** * *
41922325 TGGTTTTTTGG--TTTAGGGTTTG
1 -GGGTTTAAGGTTTTTA-AGTTTA
**
41922347 GGGTTTGTGGTTTTTAAGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
* *
41922369 GGGTTTATGGTTTTTAGGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
** **
41922391 GGG-TTAAAATTTTTAAGTGAA
1 GGGTTTAAGGTTTTTAAGTTTA
** **
41922412 GGG-TT-A-G-AATTAAGGCTA
1 GGGTTTAAGGTTTTTAAGTTTA
* *
41922430 GTGTTTTAAAG---TTAAGGTTTTA
1 G-GGTTTAAGGTTTTTAA-G-TTTA
**
41922452 GGGTTTGGGGTTTTTTAA-TTTA
1 GGGTTTAAGG-TTTTTAAGTTTA
* *
41922474 GGGTTTAAGGATTTTAGGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
*
41922496 GGGTTTAGAGTTTAAGATTTTTAAGTTAA
1 GGGTTTA-AG-----G-TTTTTAAGTTTA
* * *
41922525 TGG-TTAGGGTTTTTTAGGTTTA
1 GGGTTTAAGG-TTTTTAAGTTTA
*
41922547 GGGTTT-AGAGTTTTTAGGTTTA
1 GGGTTTAAG-GTTTTTAAGTTTA
* ** *
41922569 AGGTTTGGGGTTTTTAATTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
* *
41922591 AGGTTT-AGGTTTTTAGGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
* *
41922612 GTGTTT--GGTTTTTTAAGTTAA
1 GGGTTTAAGG-TTTTTAAGTTTA
**
41922633 GGG-TTATCGTTTTTAA-TTTAA
1 GGGTTTAAGGTTTTTAAGTTT-A
*
41922654 GGG-TT-A-GTGTTTTAAGTTAA
1 GGGTTTAAGGT-TTTTAAGTTTA
* ** ** *
41922674 GTG-TT-A-G-AATTGGGATTA
1 GGGTTTAAGGTTTTTAAGTTTA
*
41922692 GGGTTTTAAAG---TTAAGGTTTTA
1 GGG-TTTAAGGTTTTTAA-G-TTTA
* * *
41922714 GGTTTTAGGGTTTTTAAGTGTA
1 GGGTTTAAGGTTTTTAAGTTTA
* *
41922736 GGGTTT-A-CTATTTTAGGTTTA
1 GGGTTTAAGGT-TTTTAAGTTTA
** *
41922757 GGGTTTGTGG--TTTAAGTTAA
1 GGGTTTAAGGTTTTTAAGTTTA
*
41922777 GGG-TT-A-GTGTTTTAGGTTTA
1 GGGTTTAAGGT-TTTTAAGTTTA
* *
41922797 TGGTTTAAGGTTTTTAGGTTTA
1 GGGTTTAAGGTTTTTAAGTTTA
** * ***
41922819 GGGTTTGTGGTTTGGTGTTTTTA
1 GGGTTTAAGGTTT-TTAAGTTTA
*
41922842 -GGTTT-AGGATTTTTAGGTTTA
1 GGGTTTAAGG-TTTTTAAGTTTA
* ** *
41922863 AGGTTTGGGGTTTTTAAGTTAA
1 GGGTTTAAGGTTTTTAAGTTTA
41922885 GGG-TT-AGCGTTTTTAA-TTTAA
1 GGGTTTAAG-GTTTTTAAGTTT-A
*
41922906 GGG-TT-AGCG-TTTTAAGTTAA
1 GGGTTTAAG-GTTTTTAAGTTTA
41922926 GGG-TT-AGGATTTTT-AGTTTAA
1 GGGTTTAAGG-TTTTTAAGTTT-A
*
41922947 GGGTTTATGGTTTTT
1 GGGTTTAAGGTTTTT
41922962 CAATTAAATT
Statistics
Matches: 662, Mismatches: 156, Indels: 152
0.68 0.16 0.16
Matches are distributed among these distances:
17 1 0.00
18 23 0.03
19 7 0.01
20 78 0.12
21 213 0.32
22 274 0.41
23 37 0.06
24 9 0.01
25 4 0.01
27 1 0.00
28 4 0.01
29 11 0.02
ACGTcount: A:0.21, C:0.01, G:0.29, T:0.49
Consensus pattern (22 bp):
GGGTTTAAGGTTTTTAAGTTTA
Found at i:41922168 original size:21 final size:21
Alignment explanation
Indices: 41922054--41922246 Score: 131
Period size: 21 Copynumber: 9.0 Consensus size: 21
41922044 TTGGGTTTAA
* *
41922054 GGTTTTTAAGTTTAGGGTTTAA
1 GGTTTTTAAGTTAAGGG-TTAG
* * *
41922076 TGTTTTTAAGTTTAAGGTTTAT
1 GGTTTTTAAG-TTAAGGGTTAG
* *
41922098 GGTTTTTAAGTTTAGGGTTTAT
1 GGTTTTTAAGTTAAGGG-TTAG
* * * ** *
41922120 AGTTTTTAGGTTTAGCATTTG
1 GGTTTTTAAGTTAAGGGTTAG
* *
41922141 GGGTTTTAAATTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
*
41922162 TGTTTTTAAGTTTAA-GGTCT-G
1 GGTTTTTAAG-TTAAGGGT-TAG
* *
41922183 GGTTTTTAAGTTTAGGGTTTAT
1 GGTTTTTAAGTTAAGGG-TTAG
*
41922205 GG-TTTTAAGGTTTAGGGTTAG
1 GGTTTTTAA-GTTAAGGGTTAG
41922226 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
41922247 AATTAGGGTT
Statistics
Matches: 133, Mismatches: 29, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
20 3 0.02
21 65 0.49
22 60 0.45
23 5 0.04
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGGTTAG
Found at i:41922175 original size:42 final size:41
Alignment explanation
Indices: 41922054--41922246 Score: 174
Period size: 43 Copynumber: 4.5 Consensus size: 41
41922044 TTGGGTTTAA
* * *
41922054 GGTTTTTAAGTTTAGGGTTTAATGTTTTTAAGTTTAAGGTTTAT
1 GGTTTTTAAGTTAAGGG-TTAGTGTTTTTAAGTTT-AGGTTT-G
* * *
41922098 GGTTTTTAAGTTTAGGGTTTA-TAGTTTTTAGGTTTAGCATTTG
1 GGTTTTTAAGTTAAGGG-TTAGT-GTTTTTAAGTTTAG-GTTTG
* * *
41922141 GGGTTTTAAATTAAGGGTTAGTGTTTTTAAGTTTAAGGTCTG
1 GGTTTTTAAGTTAAGGGTTAGTGTTTTTAAGTTT-AGGTTTG
* * *
41922183 GGTTTTTAAGTTTAGGGTTTA-TGGTTTTAAGGTTTAGGGTTAG
1 GGTTTTTAAGTTAAGGG-TTAGTGTTTTTAA-GTTTA-GGTTTG
41922226 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGGTTAG
41922247 AATTAGGGTT
Statistics
Matches: 125, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
42 43 0.34
43 47 0.38
44 35 0.28
ACGTcount: A:0.21, C:0.01, G:0.28, T:0.50
Consensus pattern (41 bp):
GGTTTTTAAGTTAAGGGTTAGTGTTTTTAAGTTTAGGTTTG
Found at i:41922361 original size:172 final size:171
Alignment explanation
Indices: 41922183--41922501 Score: 476
Period size: 172 Copynumber: 1.9 Consensus size: 171
41922173 TTAAGGTCTG
*** *
41922183 GGTTTTTAAGTTTAGGGTTTATGGTTTTAAGGTTTAGGGTTAGGGTTTTTAAGTTAAGGGTTAGA
1 GGTTTTTAAGTTTAGGGTTTATGGTTTTAAGGTTTAGGGTTAAAATTTTTAAGTGAAGGGTTAGA
* * *
41922248 ATTAGGGTTAGGGTTTTAAAGTTAAAGTTTTAGGGTTTAAGATTTTTTAAGTTTAAAGTTTAGGG
66 ATTAAGGCTAGGGTTTTAAAGTTAAAGTTTTAGGGTTTAAGATTTTTTAA-TTTAAAGTTTAAGG
* *
41922313 TTTTTAGGTTTATGGTTTTTTGGTTTAGGGTTTGGGGTTTGT
130 ATTTTAGGTTTAGGGTTTTTTGGTTTAGGGTTTGGGGTTTGT
*
41922355 GGTTTTTAAGTTTAGGGTTTATGGTTTTTAGGTTTAGGGTTAAAATTTTTAAGTGAAGGGTTAGA
1 GGTTTTTAAGTTTAGGGTTTATGGTTTTAAGGTTTAGGGTTAAAATTTTTAAGTGAAGGGTTAGA
* * ** * **
41922420 ATTAAGGCTAGTGTTTTAAAGTTAAGGTTTTAGGGTTTGGGGTTTTTTAATTTAGGGTTTAAGGA
66 ATTAAGGCTAGGGTTTTAAAGTTAAAGTTTTAGGGTTTAAGATTTTTTAATTTAAAGTTTAAGGA
41922485 TTTTAGGTTTAGGGTTT
131 TTTTAGGTTTAGGGTTT
41922502 AGAGTTTAAG
Statistics
Matches: 130, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
171 27 0.21
172 103 0.79
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (171 bp):
GGTTTTTAAGTTTAGGGTTTATGGTTTTAAGGTTTAGGGTTAAAATTTTTAAGTGAAGGGTTAGA
ATTAAGGCTAGGGTTTTAAAGTTAAAGTTTTAGGGTTTAAGATTTTTTAATTTAAAGTTTAAGGA
TTTTAGGTTTAGGGTTTTTTGGTTTAGGGTTTGGGGTTTGT
Found at i:41922380 original size:29 final size:29
Alignment explanation
Indices: 41922303--41922381 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
41922293 TTTAAGTTTA
*
41922303 AAGTTTAGGGTTTTTAGGTTTATGGTTTTT
1 AAGTTTAGGGTTTAT-GGTTTATGGTTTTT
** ** *
41922333 TGGTTTAGGGTTTGGGGTTTGTGGTTTTT
1 AAGTTTAGGGTTTATGGTTTATGGTTTTT
41922362 AAGTTTAGGGTTTATGGTTT
1 AAGTTTAGGGTTTATGGTTT
41922382 TTAGGTTTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 29 0.73
30 11 0.28
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (29 bp):
AAGTTTAGGGTTTATGGTTTATGGTTTTT
Found at i:41922390 original size:15 final size:15
Alignment explanation
Indices: 41922305--41922374 Score: 72
Period size: 15 Copynumber: 4.7 Consensus size: 15
41922295 TAAGTTTAAA
41922305 GTTTAGGGTTTTTAG
1 GTTTAGGGTTTTTAG
* *
41922320 GTTTATGGTTTTTTG
1 GTTTAGGGTTTTTAG
**
41922335 GTTTAGGG-TTTGGG
1 GTTTAGGGTTTTTAG
*
41922349 GTTT-GTGGTTTTTAA
1 GTTTAG-GGTTTTTAG
41922364 GTTTAGGGTTT
1 GTTTAGGGTTT
41922375 ATGGTTTTTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.02
14 10 0.23
15 32 0.73
16 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.34, T:0.56
Consensus pattern (15 bp):
GTTTAGGGTTTTTAG
Found at i:41922517 original size:51 final size:51
Alignment explanation
Indices: 41922463--41922559 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
41922453 GGTTTGGGGT
*
41922463 TTTTTAA-TTTAGGGTTTAAGG-ATTTTAGGTTTAGGGTTTAGAGTTTAAGA
1 TTTTTAAGTTAAGGG-TTAAGGTATTTTAGGTTTAGGGTTTAGAGTTTAAGA
* * *
41922513 TTTTTAAGTTAATGGTTAGGGTTTTTTAGGTTTAGGGTTTAGAGTTT
1 TTTTTAAGTTAAGGGTTAAGGTATTTTAGGTTTAGGGTTTAGAGTTT
41922560 TTAGGTTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 12 0.29
51 29 0.71
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.51
Consensus pattern (51 bp):
TTTTTAAGTTAAGGGTTAAGGTATTTTAGGTTTAGGGTTTAGAGTTTAAGA
Found at i:41922529 original size:29 final size:29
Alignment explanation
Indices: 41922470--41922529 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
41922460 GGTTTTTTAA
* * *
41922470 TTTAGGGTTTAAGGATTTTAGGTTTAGGG
1 TTTAGAGTTTAAGGATTTTAAGTTAAGGG
*
41922499 TTTAGAGTTTAA-GATTTTTAAGTTAATGG
1 TTTAGAGTTTAAGGA-TTTTAAGTTAAGGG
41922528 TT
1 TT
41922530 AGGGTTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 2 0.08
29 24 0.92
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (29 bp):
TTTAGAGTTTAAGGATTTTAAGTTAAGGG
Found at i:41922668 original size:20 final size:22
Alignment explanation
Indices: 41922621--41922680 Score: 81
Period size: 21 Copynumber: 2.9 Consensus size: 22
41922611 AGTGTTTGGT
41922621 TTTTTAAGTTAAGGGTTA-TCG
1 TTTTTAAGTTAAGGGTTAGTCG
*
41922642 TTTTTAATTTAAGGGTTAGT-G
1 TTTTTAAGTTAAGGGTTAGTCG
*
41922663 -TTTTAAGTTAAGTGTTAG
1 TTTTTAAGTTAAGGGTTAG
41922681 AATTGGGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 16 0.46
21 18 0.51
22 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (22 bp):
TTTTTAAGTTAAGGGTTAGTCG
Found at i:41922920 original size:20 final size:21
Alignment explanation
Indices: 41922872--41922951 Score: 112
Period size: 21 Copynumber: 3.9 Consensus size: 21
41922862 AAGGTTTGGG
41922872 GTTTTTAAGTTAAGGGTTAGC
1 GTTTTTAAGTTAAGGGTTAGC
*
41922893 GTTTTTAATTTAAGGGTTAGC
1 GTTTTTAAGTTAAGGGTTAGC
41922914 G-TTTTAAGTTAAGGGTTAG-
1 GTTTTTAAGTTAAGGGTTAGC
41922933 GATTTTT-AGTTTAAGGGTT
1 G-TTTTTAAG-TTAAGGGTT
41922952 TATGGTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
19 1 0.02
20 19 0.35
21 34 0.63
ACGTcount: A:0.24, C:0.03, G:0.28, T:0.46
Consensus pattern (21 bp):
GTTTTTAAGTTAAGGGTTAGC
Found at i:41922926 original size:41 final size:41
Alignment explanation
Indices: 41922845--41922951 Score: 135
Period size: 41 Copynumber: 2.6 Consensus size: 41
41922835 GTTTTTAGGT
* * * *
41922845 TTAGGATTTTTAGGTTTAAGGTTTGGGGTTTTTAAGTTAAGGG
1 TTAGGATTTTTA-ATTTAAGGGTTAGCG-TTTTAAGTTAAGGG
41922888 TTAGCG-TTTTTAATTTAAGGGTTAGCGTTTTAAGTTAAGGG
1 TTAG-GATTTTTAATTTAAGGGTTAGCGTTTTAAGTTAAGGG
*
41922929 TTAGGATTTTTAGTTTAAGGGTT
1 TTAGGATTTTTAATTTAAGGGTT
41922952 TATGGTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
40 1 0.02
41 34 0.60
42 11 0.19
43 10 0.18
44 1 0.02
ACGTcount: A:0.22, C:0.02, G:0.29, T:0.47
Consensus pattern (41 bp):
TTAGGATTTTTAATTTAAGGGTTAGCGTTTTAAGTTAAGGG
Found at i:41922960 original size:21 final size:21
Alignment explanation
Indices: 41922842--41922961 Score: 99
Period size: 21 Copynumber: 5.6 Consensus size: 21
41922832 GGTGTTTTTA
41922842 GGTTTAGGATTTTTAGGTTTAA-
1 GGTTTAGG-TTTTTA-GTTTAAG
*
41922864 GGTTTGGGGTTTTTAAG-TTAAG
1 GGTTT-AGGTTTTT-AGTTTAAG
*
41922886 GG-TTAGCGTTTTTAATTTAAG
1 GGTTTAG-GTTTTTAGTTTAAG
*
41922907 GG-TTAGCGTTTTAAG-TTAAG
1 GGTTTAG-GTTTTTAGTTTAAG
41922927 GG-TTAGGATTTTTAGTTTAAG
1 GGTTTAGG-TTTTTAGTTTAAG
41922948 GGTTTATGGTTTTT
1 GGTTTA-GGTTTTT
41922962 CAATTAAATT
Statistics
Matches: 83, Mismatches: 6, Indels: 18
0.78 0.06 0.17
Matches are distributed among these distances:
19 1 0.01
20 19 0.23
21 37 0.45
22 21 0.25
23 5 0.06
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (21 bp):
GGTTTAGGTTTTTAGTTTAAG
Found at i:41928140 original size:3 final size:3
Alignment explanation
Indices: 41928115--41928196 Score: 57
Period size: 3 Copynumber: 27.3 Consensus size: 3
41928105 ATTTTTGAAC
*
41928115 TAT T-T TAT TATT TATT TATT TAT TAT TA- TAT TA- TAT CAT TAT GTAT
1 TAT TAT TAT TA-T TA-T TA-T TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
41928161 TAT TA- TAT TATT TAT TAT TAT TGT CAT TAT T-T TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
41928197 TGTACATACG
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
2 10 0.15
3 38 0.58
4 17 0.26
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:41928141 original size:23 final size:23
Alignment explanation
Indices: 41928115--41928176 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
41928105 ATTTTTGAAC
*
41928115 TATTTTATTATTTATTTATTTAT
1 TATTATATTATTTATTTATTTAT
* *
41928138 TATTATATTATATCA-TTATGTAT
1 TATTATATTAT-TTATTTATTTAT
41928161 TATTATATTATTTATT
1 TATTATATTATTTATT
41928177 ATTATTGTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 29 0.88
24 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (23 bp):
TATTATATTATTTATTTATTTAT
Found at i:41928177 original size:15 final size:15
Alignment explanation
Indices: 41928115--41928181 Score: 75
Period size: 15 Copynumber: 4.4 Consensus size: 15
41928105 ATTTTTGAAC
*
41928115 TATTTTATTATTTATT
1 TATTATATTATTTA-T
41928131 TATT-TATTATTATAT
1 TATTATATTATT-TAT
*
41928146 TA-TATCATTATGTAT
1 TATTAT-ATTATTTAT
41928161 TATTATATTATTTAT
1 TATTATATTATTTAT
41928176 TATTAT
1 TATTAT
41928182 TGTCATTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.02
15 30 0.67
16 14 0.31
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (15 bp):
TATTATATTATTTAT
Found at i:41931912 original size:12 final size:12
Alignment explanation
Indices: 41931895--41931919 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41931885 TGCTTCAAAA
41931895 AAGGTCTTAAGT
1 AAGGTCTTAAGT
41931907 AAGGTCTTAAGT
1 AAGGTCTTAAGT
41931919 A
1 A
41931920 TTAAAGGGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (12 bp):
AAGGTCTTAAGT
Found at i:41932023 original size:20 final size:20
Alignment explanation
Indices: 41931998--41932037 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
41931988 TTCATCTCAT
*
41931998 GCATCGTATCATATGCATTA
1 GCATCGCATCATATGCATTA
*
41932018 GCATCGCATTATATGCATTA
1 GCATCGCATCATATGCATTA
41932038 AAGACCTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
GCATCGCATCATATGCATTA
Found at i:41940415 original size:50 final size:50
Alignment explanation
Indices: 41940022--41940415 Score: 281
Period size: 50 Copynumber: 7.9 Consensus size: 50
41940012 AAAAGTAAAA
* *** * * *
41940022 AGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGCGGAAC
1 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGCGAAAC
* * * *** *
41940072 AGATTGAAGCTACGACGGTGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAGCGAAAC
* *** * * *
41940122 AGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGCAGTGCAGCGGAAC
1 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGCGAAAC
* * * *** *
41940172 AGATTGAAGCAACGACGGCGGATATGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAGCGAAAC
* * *** * * *
41940222 AGATTGAAGCCACAACGGTGGATCTTACTT-CCTTAGCAGTGCAGCGGAAC
1 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGA-CATTGCAGCGAAAC
* * *** *
41940272 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATATTGCAATTAAAA
1 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAGCGAAAC
* *** * * *
41940322 AGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAGCGAAAC
1 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAGCGAAAC
* *
41940372 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAG
1 AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAG
41940416 TTGAACAAAT
Statistics
Matches: 246, Mismatches: 93, Indels: 10
0.70 0.27 0.03
Matches are distributed among these distances:
49 8 0.03
50 226 0.92
51 12 0.05
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCCACGACGGCGGATCTGGTTTCCCTGACATTGCAGCGAAAC
Found at i:41940430 original size:100 final size:100
Alignment explanation
Indices: 41940017--41940414 Score: 724
Period size: 100 Copynumber: 4.0 Consensus size: 100
41940007 GGTTGAAAAG
41940017 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
*
41940082 TACGACGGTGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
41940117 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
* *
41940182 AACGACGGCGGATATGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
*
41940217 TAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
41940282 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
* *
41940317 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAACAGTGCAGCGAAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
* *
41940382 TACGACGGCGGATCTGGTTTCCCCGACATTGCA
66 TACGACGGCGGATCTGGTTTCCCTGATATTGCA
41940415 GTTGAACAAA
Statistics
Matches: 287, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 287 1.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.24
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATTGCAAT
Found at i:41942534 original size:37 final size:37
Alignment explanation
Indices: 41942493--41942678 Score: 309
Period size: 37 Copynumber: 5.0 Consensus size: 37
41942483 GCTGAAGCTA
* *
41942493 CCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
41942530 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
* *
41942567 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
41942604 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
*
41942641 CCACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
41942678 C
1 C
41942679 TAAAACTACC
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 142 1.00
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (37 bp):
CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
Found at i:41945087 original size:23 final size:23
Alignment explanation
Indices: 41945061--41945122 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
41945051 ATTTTTGAAC
*
41945061 TATTTTATTATTTATTTATTTAT
1 TATTATATTATTTATTTATTTAT
* *
41945084 TATTATATTATATCA-TTATGTAT
1 TATTATATTAT-TTATTTATTTAT
*
41945107 TGTTATATTATTTATT
1 TATTATATTATTTATT
41945123 ATTATTGTCA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
22 2 0.06
23 28 0.88
24 2 0.06
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (23 bp):
TATTATATTATTTATTTATTTAT
Found at i:41945092 original size:8 final size:8
Alignment explanation
Indices: 41945061--41945127 Score: 54
Period size: 8 Copynumber: 8.8 Consensus size: 8
41945051 ATTTTTGAAC
*
41945061 TATTTTAT
1 TATTATAT
41945069 TATT-TATT
1 TATTATA-T
41945077 TATT-TAT
1 TATTATAT
41945084 TATTATAT
1 TATTATAT
41945092 TA-TATCAT
1 TATTAT-AT
*
41945100 TA-TGTAT
1 TATTATAT
*
41945107 TGTTATAT
1 TATTATAT
41945115 TATT-TAT
1 TATTATAT
41945122 TATTAT
1 TATTAT
41945128 TGTCATTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
7 20 0.40
8 30 0.60
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (8 bp):
TATTATAT
Found at i:41945127 original size:15 final size:15
Alignment explanation
Indices: 41945061--41945127 Score: 66
Period size: 15 Copynumber: 4.4 Consensus size: 15
41945051 ATTTTTGAAC
*
41945061 TATTTTATTATTTATT
1 TATTATATTATTTA-T
41945077 TATT-TATTATTATAT
1 TATTATATTATT-TAT
*
41945092 TA-TATCATTATGTAT
1 TATTAT-ATTATTTAT
*
41945107 TGTTATATTATTTAT
1 TATTATATTATTTAT
41945122 TATTAT
1 TATTAT
41945128 TGTCATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
14 1 0.02
15 28 0.65
16 14 0.33
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (15 bp):
TATTATATTATTTAT
Found at i:41958733 original size:18 final size:18
Alignment explanation
Indices: 41958690--41958735 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
41958680 GTCATCTCTC
41958690 TTTATGTTT-CTCCTTTTA
1 TTTAT-TTTCCTCCTTTTA
*
41958708 TTTGTTTTCCTCC-TTTA
1 TTTATTTTCCTCCTTTTA
41958725 TTCTATTTTCC
1 TT-TATTTTCC
41958736 AACACAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.09, C:0.22, G:0.04, T:0.65
Consensus pattern (18 bp):
TTTATTTTCCTCCTTTTA
Found at i:41959417 original size:24 final size:24
Alignment explanation
Indices: 41959401--41959452 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
41959391 AATCAAAGTC
41959401 AAATATATTATGTTAATAAATACT
1 AAATATATTATGTTAATAAATACT
* *
41959425 AAATATATTATACTT-ACAAATACT
1 AAATATATTAT-GTTAATAAATACT
41959449 AAAT
1 AAAT
41959453 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 23 0.92
25 2 0.08
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATATTATGTTAATAAATACT
Found at i:41960131 original size:36 final size:35
Alignment explanation
Indices: 41960053--41960138 Score: 97
Period size: 35 Copynumber: 2.4 Consensus size: 35
41960043 CGGCACAAGT
* *
41960053 GTATATA-TATTATAAATATTTAAATTTAAAATATA
1 GTATATATTATTAT-AATATTAAAACTTAAAATATA
41960088 -TATTATATTATTATAATATTAAAACTTAAAAGT-TAA
1 GTA-TATATTATTATAATATTAAAACTTAAAA-TAT-A
41960124 GTATATATTATTATA
1 GTATATATTATTATA
41960139 TTATAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
34 2 0.05
35 20 0.45
36 20 0.45
37 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (35 bp):
GTATATATTATTATAATATTAAAACTTAAAATATA
Found at i:41960201 original size:4 final size:4
Alignment explanation
Indices: 41960149--41960223 Score: 57
Period size: 4 Copynumber: 18.5 Consensus size: 4
41960139 TTATAATAAT
* * *
41960149 AAAG AAA- AAGAG AAAG --AG AAAG AAACG AAACG AAAC AGAG AAGG AAAG
1 AAAG AAAG AA-AG AAAG AAAG AAAG AAA-G AAA-G AAAG AAAG AAAG AAAG
*
41960197 AAAG AAAAG AAAA AAAG AAAG AAAG AA
1 AAAG -AAAG AAAG AAAG AAAG AAAG AA
41960224 GGAGAAAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
2 2 0.04
3 2 0.04
4 38 0.67
5 15 0.26
ACGTcount: A:0.72, C:0.04, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:41960207 original size:17 final size:16
Alignment explanation
Indices: 41960149--41960226 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 16
41960139 TTATAATAAT
41960149 AAAGAAA-AAGAGAAAG
1 AAAGAAAGAAG-GAAAG
*
41960165 --AGAAAGAAACGAAACG
1 AAAGAAAG-AAGGAAA-G
* *
41960181 AAACAGAGAAGGAAAG
1 AAAGAAAGAAGGAAAG
**
41960197 AAAGAAAAGAAAAAAAG
1 AAAG-AAAGAAGGAAAG
41960214 AAAGAAAGAAGGA
1 AAAGAAAGAAGGA
41960227 GAAAAATTAG
Statistics
Matches: 46, Mismatches: 10, Indels: 12
0.68 0.15 0.18
Matches are distributed among these distances:
14 5 0.11
15 4 0.09
16 14 0.30
17 19 0.41
18 4 0.09
ACGTcount: A:0.71, C:0.04, G:0.26, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAGGAAAG
Found at i:41960216 original size:21 final size:21
Alignment explanation
Indices: 41960149--41960232 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 21
41960139 TTATAATAAT
* *
41960149 AAAGAAAAAGAGAAAGAGAAAG
1 AAAG-AAAAGAAAAAAAGAAAG
*
41960171 AAACGAAACGAAACAGAGAAGGAAAG
1 AAA-GAAAAGAAA-A-A-AA-GAAAG
41960197 AAAGAAAAGAAAAAAAGAAAG
1 AAAGAAAAGAAAAAAAGAAAG
*
41960218 AAAGAAGGAGAAAAA
1 AAAGAA-AAGAAAAA
41960233 TTAGGGTTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
21 11 0.22
22 18 0.35
23 3 0.06
24 2 0.04
25 9 0.18
26 8 0.16
ACGTcount: A:0.71, C:0.04, G:0.25, T:0.00
Consensus pattern (21 bp):
AAAGAAAAGAAAAAAAGAAAG
Found at i:41960527 original size:18 final size:19
Alignment explanation
Indices: 41960498--41960533 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
41960488 TGTGAAAATT
*
41960498 TGAAATTTAGGGATTTAAG
1 TGAAATTTAGGGAGTTAAG
41960517 TGAAA-TTAGGGAGTTAA
1 TGAAATTTAGGGAGTTAA
41960534 ATATAGTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (19 bp):
TGAAATTTAGGGAGTTAAG
Found at i:41961083 original size:41 final size:40
Alignment explanation
Indices: 41961038--41961171 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
41961028 ACTTTGACTT
* *
41961038 GATGAGACACTGGGTGTCAATTTATTGCTTCGGATTAATTC
1 GATGAGACACTAGGTGTCAATTTATT-CTTCGGATTAATCC
* * * * *
41961079 GATGAGGCATTGGGTGCCAATTTA--CTTCGGTTTAA-CC
1 GATGAGACACTAGGTGTCAATTTATTCTTCGGATTAATCC
*
41961116 GATGAGACACTAGGTGTCAATTTATTACTTCGAATT-ATCC
1 GATGAGACACTAGGTGTCAATTTATT-CTTCGGATTAATCC
*
41961156 GATGAGGCACTAGGTG
1 GATGAGACACTAGGTG
41961172 CCAAACTGGT
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
37 21 0.27
38 10 0.13
39 1 0.01
40 24 0.31
41 21 0.27
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (40 bp):
GATGAGACACTAGGTGTCAATTTATTCTTCGGATTAATCC
Found at i:41963811 original size:24 final size:24
Alignment explanation
Indices: 41963769--41963820 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
41963759 AATCAAAGTC
** *
41963769 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
41963793 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
41963817 AAAT
1 AAAT
41963821 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:41964750 original size:24 final size:24
Alignment explanation
Indices: 41964708--41964759 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
41964698 AATCAAAGTC
** *
41964708 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
41964732 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
41964756 AAAT
1 AAAT
41964760 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:41966924 original size:20 final size:20
Alignment explanation
Indices: 41966883--41966934 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
41966873 TACTTATAGC
*
41966883 ATAAATTATATATAAAATAA
1 ATAAATTCTATATAAAATAA
*
41966903 ATAAATTCTATATATACA-AA
1 ATAAATTCTATATA-AAATAA
41966923 ATAATATTCTAT
1 ATAA-ATTCTAT
41966935 GAAATATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAATTCTATATAAAATAA
Found at i:41969022 original size:43 final size:44
Alignment explanation
Indices: 41968972--41969059 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
41968962 CAAATCAATG
* *
41968972 ACATACAAAATAACAACATATAGAAGCAAAT-AAAATCAAAAAT
1 ACATACAAAATAACAACACATAGAAGCAAATAAAAATAAAAAAT
* *
41969015 ACATACAAAATAACAATACATATAAGCAAATAAAAATAAAAAAT
1 ACATACAAAATAACAACACATAGAAGCAAATAAAAATAAAAAAT
41969059 A
1 A
41969060 AAAAAAAGGG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 28 0.70
44 12 0.30
ACGTcount: A:0.67, C:0.12, G:0.03, T:0.17
Consensus pattern (44 bp):
ACATACAAAATAACAACACATAGAAGCAAATAAAAATAAAAAAT
Found at i:41969766 original size:21 final size:21
Alignment explanation
Indices: 41969740--41969786 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
41969730 TTTTGCTCTG
* *
41969740 CTCTGCTTCTCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
41969761 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
41969782 CTCTG
1 CTCTG
41969787 TTTTAAGTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.45, G:0.19, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:41975270 original size:9 final size:9
Alignment explanation
Indices: 41975256--41975482 Score: 186
Period size: 9 Copynumber: 26.0 Consensus size: 9
41975246 ATATAAATGT
41975256 GTTATGTAA
1 GTTATGTAA
*
41975265 GTTATGATAT
1 GTTATG-TAA
* *
41975275 GATA-GGAA
1 GTTATGTAA
41975283 GGTTATGT-A
1 -GTTATGTAA
41975292 -TTATGTAA
1 GTTATGTAA
41975300 GTTATGTAA
1 GTTATGTAA
*
41975309 GTTGTGT-A
1 GTTATGTAA
*
41975317 -TTATGTGA
1 GTTATGTAA
41975325 GTTATGTAA
1 GTTATGTAA
*
41975334 GTTATGCAA
1 GTTATGTAA
*
41975343 GTTATTTAA
1 GTTATGTAA
*
41975352 TTTATGTAA
1 GTTATGTAA
41975361 GTTATGTAA
1 GTTATGTAA
*
41975370 GTTATGTAG
1 GTTATGTAA
*
41975379 GCTATGT-A
1 GTTATGTAA
*
41975387 -TTATCTAA
1 GTTATGTAA
* *
41975395 ATAATGTAA
1 GTTATGTAA
*
41975404 GTTA-GGAA
1 GTTATGTAA
41975412 GGTTATGT--
1 -GTTATGTAA
41975420 GTTATGTAA
1 GTTATGTAA
* *
41975429 ATTATTTAA
1 GTTATGTAA
*
41975438 GTTATGCAA
1 GTTATGTAA
*
41975447 GTTATTTAA
1 GTTATGTAA
*
41975456 TTTATGTAA
1 GTTATGTAA
41975465 GTTATGTAA
1 GTTATGTAA
41975474 GTTATGTAA
1 GTTATGTAA
41975483 TTAGAAATTT
Statistics
Matches: 169, Mismatches: 36, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
7 22 0.13
8 8 0.05
9 132 0.78
10 7 0.04
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (9 bp):
GTTATGTAA
Found at i:41975406 original size:61 final size:61
Alignment explanation
Indices: 41975292--41975407 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
41975282 AGGTTATGTA
* * * * *
41975292 TTATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGCAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGCAAGTTATTTAAT
*
41975353 TTATGTAAGTTATGTAAGTTATGTAGGCTATGT-A-TTATCTAAATAATGTAAGTTA
1 TTATGTAAGTTATGTAAGTTATGTA--CTATGTGAGTTATCTAAATAATGCAAGTTA
41975408 GGAAGGTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 41 0.87
62 1 0.02
63 5 0.11
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.46
Consensus pattern (61 bp):
TTATGTAAGTTATGTAAGTTATGTACTATGTGAGTTATCTAAATAATGCAAGTTATTTAAT
Found at i:41975425 original size:104 final size:104
Alignment explanation
Indices: 41975294--41975481 Score: 306
Period size: 104 Copynumber: 1.8 Consensus size: 104
41975284 GTTATGTATT
* * * *
41975294 ATGTAAGTTATGTAAGTTGTGTATTATGTGAGTTATGTAAGTTATGCAAGTTATTTAATTTATGT
1 ATGTAAGTTATGGAAGTTATGTATTATGTAAATTATGTAAGTTATGCAAGTTATTTAATTTATGT
41975359 AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
66 AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
* *
41975398 ATGTAAGTTA-GGAAGGTTATGTGTTATGTAAATTATTTAAGTTATGCAAGTTATTTAATTTATG
1 ATGTAAGTTATGGAA-GTTATGTATTATGTAAATTATGTAAGTTATGCAAGTTATTTAATTTATG
41975462 TAAGTTATGTAAGTTATGTA
65 TAAGTTATGTAAGTTATGTA
41975482 ATTAGAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
103 3 0.04
104 74 0.96
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.45
Consensus pattern (104 bp):
ATGTAAGTTATGGAAGTTATGTATTATGTAAATTATGTAAGTTATGCAAGTTATTTAATTTATGT
AAGTTATGTAAGTTATGTAGGCTATGTATTATCTAAATA
Found at i:41975536 original size:57 final size:57
Alignment explanation
Indices: 41975466--41976246 Score: 691
Period size: 57 Copynumber: 13.9 Consensus size: 57
41975456 TTTATGTAAG
* * *
41975466 TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* * * * *
41975523 TTGTATAAGTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTAT-GTAATA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* *
41975579 TTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* *
41975636 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTAT-GTAAT-
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* ** * ** * * *
41975691 TCGA-A-ATTTTATCTTAACATTATATAA-GTTAT-GTAATATTATATAAGTTAT-GT-A-A
1 T-TATATAAGTTAT-GT-A-ATTCGA-AATTTTATCTTAATATTATATAAGTTATCTTAATA
* * * * * * * *
41975746 TTAGA-AATTTTACCT-TAATTGGTATAA-GTTAT-GTAAT-TCGATAT--TTTATCTTAACA
1 TTATATAA-GTTA--TGTAATTCG-A-AATTTTATCTTAATAT-TATATAAGTTATCTTAATA
* * *
41975802 TTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTAT-GTAATA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* * *
41975858 TTATATAAGATATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* * * *
41975915 TTATACAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* * *
41975972 TTATATAAGTTATGTGATTCGAAATTTTATCTTAATATTGTATAAGTTAT-GT-A-A
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* * * * ** ** *
41976026 TTAGA-AA-TT-T-TACCTT--AATATTGTATAAGC-TATGTAATTCGATATTTTATCTTAACA
1 TTATATAAGTTATGTA-ATTCGAA-ATT-T-T-ATCTTA-AT-ATTATATAAGTTATCTTAATA
* *
41976083 TTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
* * *
41976140 TTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
*
41976197 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTAT
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTAT
41976247 GTAATTCGAA
Statistics
Matches: 592, Mismatches: 91, Indels: 82
0.77 0.12 0.11
Matches are distributed among these distances:
49 2 0.00
50 4 0.01
51 4 0.01
52 5 0.01
53 10 0.02
54 32 0.05
55 42 0.07
56 139 0.23
57 330 0.56
58 8 0.01
59 5 0.01
60 4 0.01
61 5 0.01
62 2 0.00
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.46
Consensus pattern (57 bp):
TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTTATCTTAATA
Found at i:41975680 original size:37 final size:37
Alignment explanation
Indices: 41975627--41975727 Score: 184
Period size: 37 Copynumber: 2.7 Consensus size: 37
41975617 TATATAAGTA
41975627 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
*
41975664 ATCTTAATATTGTATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
*
41975701 ATCTTAACATTATATAAGTTATGTAAT
1 ATCTTAATATTATATAAGTTATGTAAT
41975728 ATTATATAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.48
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
Found at i:41975810 original size:129 final size:129
Alignment explanation
Indices: 41975639--41975893 Score: 456
Period size: 129 Copynumber: 2.0 Consensus size: 129
41975629 CTTAATATTA
* *
41975639 TATAAGTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGAAATTTTATC
1 TATAAGTTATGTAATTCGAAATTTTATCTTAACATTATATAAGTTATGTAATTCGAAATTTTATC
*
41975704 TTAACATTATATAAGTTATGTAATATTATATAAGTTATGTAATTAGAAATTTTACCTTAATTGG
66 TTAACATTATATAAGTTATGTAATATTATATAAGATATGTAATTAGAAATTTTACCTTAATTGG
* *
41975768 TATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTCGATATTTTATC
1 TATAAGTTATGTAATTCGAAATTTTATCTTAACATTATATAAGTTATGTAATTCGAAATTTTATC
*
41975833 TTAACATTATATAAGTTATGTAATATTATATAAGATATGTAATTAGAAATTTTATCTTAAT
66 TTAACATTATATAAGTTATGTAATATTATATAAGATATGTAATTAGAAATTTTACCTTAAT
41975894 ATTATATAAG
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.47
Consensus pattern (129 bp):
TATAAGTTATGTAATTCGAAATTTTATCTTAACATTATATAAGTTATGTAATTCGAAATTTTATC
TTAACATTATATAAGTTATGTAATATTATATAAGATATGTAATTAGAAATTTTACCTTAATTGG
Found at i:41975818 original size:37 final size:37
Alignment explanation
Indices: 41975728--41975856 Score: 199
Period size: 37 Copynumber: 3.5 Consensus size: 37
41975718 GTTATGTAAT
* * *
41975728 ATTATATAAGTTATGTAATTAGAAATTTTACCTT-A-
1 ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
*
41975763 ATTGGTATAAGTTATGTAATTCGATATTTTATCTTAAC
1 ATT-ATATAAGTTATGTAATTCGATATTTTATCTTAAC
41975801 ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
1 ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
41975838 ATTATATAAGTTATGTAAT
1 ATTATATAAGTTATGTAAT
41975857 ATTATATAAG
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
35 3 0.03
36 27 0.31
37 53 0.62
38 3 0.03
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.47
Consensus pattern (37 bp):
ATTATATAAGTTATGTAATTCGATATTTTATCTTAAC
Found at i:41975844 original size:336 final size:337
Alignment explanation
Indices: 41975466--41976251 Score: 1054
Period size: 336 Copynumber: 2.3 Consensus size: 337
41975456 TTTATGTAAG
* * *
41975466 TTATGTAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTGTATAA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAA
* * *
41975531 GTTATGTAATTCGAAATCTTACCTTAATATTGTATAAGTTATGTAATATTATATAAGTTATGTAA
66 GTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATATTATACAAGTTATGTAA
* *
41975596 TTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAAT
131 TTAGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAAT
* * *
41975661 TTTATCTTAATATTGTATAAGTTATGTAATTCGAAATTTTATCTTAACATTATATAAGTTATGTA
196 TTTATCTTAATATTGTATAAGTTATGTAATTAGAAATTTTACCTTAACATTATATAAGCTATGTA
* * *
41975726 ATAT-TATATAAGTTAT-GT-A-ATTAGA-AATTTTACCT-TAATTGGTATAA-GTTAT-GTAAT
261 AT-TCGATAT--GTTATCGTAACATTAGATAA-GTTA--TGTAATTAG-A-AATGTTATCGTAAT
* *
41975783 -TCGATAT-TTTATCTTAACA
318 AT-GATATAGTAATCTTAACA
* * * *
41975802 TTATATAAGTTATGTAATTCGATATTTTATCTTAACATTATATAAGTTAT-GTAATATTATATAA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAA
* * * * *
41975866 GATATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATACAAGTTATGTA
66 GTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTAT-GTAATATTATACAAGTTATGTA
* *
41975931 ATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGTGATTCGAAA
130 ATTAGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAA
* *
41975996 TTTTATCTTAATATTGTATAAGTTATGTAATTAGAAATTTTACCTTAATATTGTATAAGCTATGT
195 TTTTATCTTAATATTGTATAAGTTATGTAATTAGAAATTTTACCTTAACATTATATAAGCTATGT
* * * * * *
41976061 AATTCGATATTTTATCTTAACATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATAT
260 AATTCGATATGTTATCGTAACATTAGATAAGTTATGTAATTAGAAATGTTATCGTAATATGATAT
*
41976126 AAGTAATCTTAATA
325 -AGTAATCTTAACA
* *
41976140 TTATATAAGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAA
1 TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAA
41976205 GTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAAT
66 GTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAAT
41976252 TCGAAATTTT
Statistics
Matches: 390, Mismatches: 47, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
334 6 0.02
335 56 0.14
336 208 0.53
337 9 0.02
338 60 0.15
339 51 0.13
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.46
Consensus pattern (337 bp):
TTATATAAGTTATGTAATTCGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATAA
GTTATGTAATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATATTATACAAGTTATGTAA
TTAGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGTAATTCGAAAT
TTTATCTTAATATTGTATAAGTTATGTAATTAGAAATTTTACCTTAACATTATATAAGCTATGTA
ATTCGATATGTTATCGTAACATTAGATAAGTTATGTAATTAGAAATGTTATCGTAATATGATATA
GTAATCTTAACA
Found at i:41975862 original size:19 final size:19
Alignment explanation
Indices: 41975838--41975932 Score: 79
Period size: 20 Copynumber: 5.0 Consensus size: 19
41975828 TTATCTTAAC
41975838 ATTATATAAGTTATGTAAT
1 ATTATATAAGTTATGTAAT
*
41975857 ATTATATAAGATATGT-A-
1 ATTATATAAGTTATGTAAT
* * *
41975874 ATTAGA-AATTTTATCTTAAT
1 ATTATATAA-GTTAT-GTAAT
* *
41975894 ATTATATAAGTAATCTTAAT
1 ATTATATAAGTTAT-GTAAT
*
41975914 ATTATACAAGTTATGTAAT
1 ATTATATAAGTTATGTAAT
41975933 TCGAAATTTG
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
16 2 0.03
17 8 0.13
18 2 0.03
19 20 0.33
20 26 0.43
21 2 0.03
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (19 bp):
ATTATATAAGTTATGTAAT
Found at i:41975909 original size:20 final size:20
Alignment explanation
Indices: 41975886--41975981 Score: 83
Period size: 20 Copynumber: 5.0 Consensus size: 20
41975876 TAGAAATTTT
41975886 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTA
* *
41975906 ATCTTAATATTATACAAGTT
1 ATCTTAATATTATATAAGTA
* * ** *
41975926 AT-GTAAT-TCGA-A-ATTTG
1 ATCTTAATAT-TATATAAGTA
*
41975943 ATCTTAATATTATAAAAGTA
1 ATCTTAATATTATATAAGTA
41975963 ATCTTAATATTATATAAGT
1 ATCTTAATATTATATAAGT
41975982 TATGTGATTC
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
17 4 0.07
18 7 0.12
19 7 0.12
20 40 0.69
ACGTcount: A:0.43, C:0.06, G:0.07, T:0.44
Consensus pattern (20 bp):
ATCTTAATATTATATAAGTA
Found at i:41976016 original size:37 final size:37
Alignment explanation
Indices: 41975963--41976358 Score: 354
Period size: 37 Copynumber: 10.6 Consensus size: 37
41975953 TATAAAAGTA
*
41975963 ATCTTAATATTATATAAGTTATGTGATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* *
41976000 ATCTTAATATTGTATAAGTTATGTAATTAGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* * * *
41976037 ACCTTAATATTGTATAAGCTATGTAATTCGATATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* *
41976074 ATCTTAACATTATATAAGTTATGTAATTAGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* * * **
41976111 ATCTTAATATTATATAAGTAATCTTAATAT-TATATAAGTT
1 ATCTTAATATTATATAAGTTAT-GTAAT-TCGA-A-ATTTT
* ** * * ** ** *
41976151 AT-GT-A-ATTCGA-AATTTGATCTTAATATTATAAAAGTA
1 ATCTTAATATTATATAAGTT-AT-GT-A-ATTCGAAATTTT
41976188 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
*
41976225 ATCTTAATATTGTATAAGTTATGTAATTCGAAATTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* * **
41976262 ACCTTAATATTGTATAAGTTATGTAATTCGATTTTTT
1 ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
* * **
41976299 ATCTTAACATTATATAAGTTATGTAATAT-TATATAAGTT
1 ATCTTAATATTATATAAGTTATGTAAT-TCGA-A-ATTTT
41976338 ATCTTAATATTATATAAGTTA
1 ATCTTAATATTATATAAGTTA
41976359 AGAAATTGTA
Statistics
Matches: 296, Mismatches: 48, Indels: 28
0.80 0.13 0.08
Matches are distributed among these distances:
36 3 0.01
37 235 0.79
38 12 0.04
39 31 0.10
40 11 0.04
41 4 0.01
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (37 bp):
ATCTTAATATTATATAAGTTATGTAATTCGAAATTTT
Found at i:41976113 original size:225 final size:225
Alignment explanation
Indices: 41975857--41976356 Score: 894
Period size: 225 Copynumber: 2.2 Consensus size: 225
41975847 GTTATGTAAT
*
41975857 ATTATATAAGATATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATACA
1 ATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATACA
41975922 AGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGT
66 AGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGT
*
41975987 GATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTAGAAATTTTACCTTAATATTGTAT
131 AATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTAGAAATTTTACCTTAATATTGTAT
41976052 AAGCTATGTAATTCGATATTTTATCTTAAC
196 AAGCTATGTAATTCGATATTTTATCTTAAC
*
41976082 ATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATATA
1 ATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATACA
41976147 AGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGT
66 AGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGT
*
41976212 AATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTCGAAATTTTACCTTAATATTGTAT
131 AATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTAGAAATTTTACCTTAATATTGTAT
* *
41976277 AAGTTATGTAATTCGATTTTTTATCTTAAC
196 AAGCTATGTAATTCGATATTTTATCTTAAC
* *
41976307 ATTATATAAGTTATGTAATATTATATAA-GTTATCTTAATATTATATAAGT
1 ATTATATAAGTTATGT-A-ATTAGA-AATTTTATCTTAATATTATATAAGT
41976357 TAAGAAATTG
Statistics
Matches: 264, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
225 235 0.89
226 1 0.00
227 26 0.10
228 2 0.01
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (225 bp):
ATTATATAAGTTATGTAATTAGAAATTTTATCTTAATATTATATAAGTAATCTTAATATTATACA
AGTTATGTAATTCGAAATTTGATCTTAATATTATAAAAGTAATCTTAATATTATATAAGTTATGT
AATTCGAAATTTTATCTTAATATTGTATAAGTTATGTAATTAGAAATTTTACCTTAATATTGTAT
AAGCTATGTAATTCGATATTTTATCTTAAC
Found at i:41976134 original size:20 final size:20
Alignment explanation
Indices: 41976111--41976206 Score: 92
Period size: 20 Copynumber: 5.0 Consensus size: 20
41976101 TAGAAATTTT
41976111 ATCTTAATATTATATAAGTA
1 ATCTTAATATTATATAAGTA
*
41976131 ATCTTAATATTATATAAGTT
1 ATCTTAATATTATATAAGTA
* * ** *
41976151 AT-GTAAT-TCGA-A-ATTTG
1 ATCTTAATAT-TATATAAGTA
*
41976168 ATCTTAATATTATAAAAGTA
1 ATCTTAATATTATATAAGTA
41976188 ATCTTAATATTATATAAGT
1 ATCTTAATATTATATAAGT
41976207 TATGTAATTC
Statistics
Matches: 59, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
17 4 0.07
18 7 0.12
19 7 0.12
20 41 0.69
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (20 bp):
ATCTTAATATTATATAAGTA
Found at i:41976331 original size:19 final size:20
Alignment explanation
Indices: 41976297--41976358 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
41976287 ATTCGATTTT
* *
41976297 TTATCTTAACATTATATAAG
1 TTATCGTAATATTATATAAG
41976317 TTAT-GTAATATTATATAAG
1 TTATCGTAATATTATATAAG
*
41976336 TTATCTTAATATTATATAAG
1 TTATCGTAATATTATATAAG
41976356 TTA
1 TTA
41976359 AGAAATTGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.48
Consensus pattern (20 bp):
TTATCGTAATATTATATAAG
Found at i:41978542 original size:19 final size:19
Alignment explanation
Indices: 41978518--41978559 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
41978508 GGACTACTTT
*
41978518 GGGGAACTATTAGGGATTA
1 GGGGAAATATTAGGGATTA
* *
41978537 GGGGAAATTTTAGGGATTT
1 GGGGAAATATTAGGGATTA
41978556 GGGG
1 GGGG
41978560 GAGATGAGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.43, T:0.29
Consensus pattern (19 bp):
GGGGAAATATTAGGGATTA
Found at i:41980940 original size:114 final size:111
Alignment explanation
Indices: 41980639--41980968 Score: 331
Period size: 114 Copynumber: 2.9 Consensus size: 111
41980629 TAACGGGGAT
* *
41980639 CATTAGCGGCGCTTTTCACAAAACGCCGCTAAAGGCCCAAAAACAAAGAAAACGGCGTCGTTGGC
1 CATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGGCCCAAAAA-ATAGAAAACGGCGTCGTTGGC
* * * *
41980704 GTTAGGTTTTTTTGCGGCGCTTTTCAGAAAACGTCGCTAAAGAAAGGAG
65 ATTAGG-TTTTTTGCGGCGCTTTTCATAAATCGTCGCT-AAGAAACGAG
* ** ** * * * *
41980753 CATTACCGGCGCTTTTCAAAAAGTGCCGC-AACAGGAACAAAAACTTGGAAACGACGTCGTTGGC
1 CATTAGCGGCGCTTTTCAAAAAACGCCGCTAA-AGGCCCAAAAAATAGAAAACGGCGTCGTTGGC
* ***
41980817 ATTAGGTTTTTTGCGGCGCTTTTTATAAATCGTCGCTAAGTCCCCCGAG
65 ATTAGGTTTTTTGCGGCGCTTTTCATAAATCGTCGCTAAG--AAACGAG
* * *
41980866 CATTAGCGGCG-TTTTTATAAAAACGCCGCTAATGGCCCAAAAAATCAGTAAACGGCGTCGTTGG
1 CATTAGCGGCGCTTTTCA-AAAAACGCCGCTAAAGGCCCAAAAAAT-AGAAAACGGCGTCGTTGG
* * * * *
41980930 CCTTATGTTTTTTGCGACGCTTTTCGTAAATCGCCGCTA
64 CATTAGGTTTTTTGCGGCGCTTTTCATAAATCGTCGCTA
41980969 TTGCTTATTA
Statistics
Matches: 174, Mismatches: 36, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
111 3 0.02
112 33 0.19
113 54 0.31
114 84 0.48
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (111 bp):
CATTAGCGGCGCTTTTCAAAAAACGCCGCTAAAGGCCCAAAAAATAGAAAACGGCGTCGTTGGCA
TTAGGTTTTTTGCGGCGCTTTTCATAAATCGTCGCTAAGAAACGAG
Found at i:41980992 original size:38 final size:40
Alignment explanation
Indices: 41980950--41981030 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
41980940 TTTGCGACGC
* *
41980950 TTTTCGTAAAT-CGCCGCTATTGCTT-ATTATTAGCGGTG
1 TTTTCGTAAATGCGCCGCTAATGCTTGATTATTAGCGGCG
* *
41980988 TTTTCGTAAATGCGCCGCTAATGTTTGATTTTTAGCGGCG
1 TTTTCGTAAATGCGCCGCTAATGCTTGATTATTAGCGGCG
41981028 TTT
1 TTT
41981031 GTTGTCCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 11 0.30
39 12 0.32
40 14 0.38
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.43
Consensus pattern (40 bp):
TTTTCGTAAATGCGCCGCTAATGCTTGATTATTAGCGGCG
Found at i:41981216 original size:27 final size:27
Alignment explanation
Indices: 41981165--41981218 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
41981155 GATTATAGAA
*
41981165 GAAATATAAAAGTATGTATACATATAT
1 GAAATATAAAAGTATGTATAAATATAT
41981192 GAAA-ATAAAA-TATGTACGTAAATATAT
1 GAAATATAAAAGTATGTA--TAAATATAT
41981219 AGATGTGCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 12 0.50
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.31
Consensus pattern (27 bp):
GAAATATAAAAGTATGTATAAATATAT
Found at i:41995788 original size:50 final size:51
Alignment explanation
Indices: 41995697--41995796 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 51
41995687 CTAAGGATAG
* * * *
41995697 AAGCATAATGTCGCAACTTCAACCGAGGTGAGTCGTGACCTTGAAGACAAA
1 AAGCATAATGTCACAACTTCAACAGAGGTGAGTCATCACCTTGAAGACAAA
* *
41995748 AAGC-TAATGTCACAACTTCAACAGGGGT-ATGTCATCACCTTGAGGACAA
1 AAGCATAATGTCACAACTTCAACAGAGGTGA-GTCATCACCTTGAAGACAA
41995797 GGGAATTCGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.02
50 37 0.88
51 4 0.10
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (51 bp):
AAGCATAATGTCACAACTTCAACAGAGGTGAGTCATCACCTTGAAGACAAA
Found at i:42002622 original size:30 final size:31
Alignment explanation
Indices: 42002574--42002634 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
42002564 TCTTTAAATT
*
42002574 TTTTTTATAAATTCTTATTA-AGTCCCTCAAA
1 TTTTTTAGAAATTCTTATTAGA-TCCCTCAAA
*
42002605 TTTTTTAGAACTT-TTATTAGATCCCTCAAA
1 TTTTTTAGAAATTCTTATTAGATCCCTCAAA
42002635 AATATTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.31, C:0.16, G:0.05, T:0.48
Consensus pattern (31 bp):
TTTTTTAGAAATTCTTATTAGATCCCTCAAA
Found at i:42002661 original size:30 final size:32
Alignment explanation
Indices: 42002616--42002680 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
42002606 TTTTTAGAAC
* *
42002616 TTTTATTAGATCCCTC-AAAAATATTGGAAAT
1 TTTTATTAGAACCCTCTAAAAATATTGAAAAT
*
42002647 TTTTATTA-AACCCTCTAAAAATTTTGAAAAT
1 TTTTATTAGAACCCTCTAAAAATATTGAAAAT
42002678 TTT
1 TTT
42002681 AGTTCAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 6 0.20
31 24 0.80
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (32 bp):
TTTTATTAGAACCCTCTAAAAATATTGAAAAT
Found at i:42002681 original size:30 final size:31
Alignment explanation
Indices: 42002616--42002681 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
42002606 TTTTTAGAAC
* *
42002616 TTTTATTAGATCCCTCAAAAATATTGGAAAT
1 TTTTATTAGAACCCTCAAAAATATTGGAAAA
*
42002647 TTTTATTA-AACCCTCTAAAAAT-TTTGAAAA
1 TTTTATTAGAACCCTC-AAAAATATTGGAAAA
42002677 TTTTA
1 TTTTA
42002682 GTTCAACCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 17 0.55
31 14 0.45
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (31 bp):
TTTTATTAGAACCCTCAAAAATATTGGAAAA
Found at i:42003523 original size:2 final size:2
Alignment explanation
Indices: 42003516--42003542 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42003506 ATATCAAAAG
42003516 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
42003543 AAACAAAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42006580 original size:20 final size:21
Alignment explanation
Indices: 42006548--42006586 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
42006538 ATTTTCATGT
42006548 GTAAAAAGTAAAAT-ATAATG
1 GTAAAAAGTAAAATCATAATG
42006568 GTAAAAA-TGAAAATCATAA
1 GTAAAAAGT-AAAATCATAA
42006587 AATATTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 12 0.71
21 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.23
Consensus pattern (21 bp):
GTAAAAAGTAAAATCATAATG
Found at i:42012436 original size:12 final size:12
Alignment explanation
Indices: 42012421--42012453 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
42012411 GAAACCGGAG
42012421 GAGAAGAAAGAA
1 GAGAAGAAAGAA
*
42012433 GAGAAGAAGGAA
1 GAGAAGAAAGAA
42012445 GAGAA-AAAG
1 GAGAAGAAAG
42012454 CCACCCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
GAGAAGAAAGAA
Found at i:42013367 original size:33 final size:33
Alignment explanation
Indices: 42013319--42013397 Score: 131
Period size: 33 Copynumber: 2.4 Consensus size: 33
42013309 CAGGGGTACA
*
42013319 TGAATCAAGGCTATATGTCTCACCCTGGCTATG
1 TGAATCAAGGGTATATGTCTCACCCTGGCTATG
* *
42013352 TGAATGAAGGGTATATGTCTCACCCTGGGTATG
1 TGAATCAAGGGTATATGTCTCACCCTGGCTATG
42013385 TGAATCAAGGGTA
1 TGAATCAAGGGTA
42013398 CATGGTGGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (33 bp):
TGAATCAAGGGTATATGTCTCACCCTGGCTATG
Found at i:42016242 original size:41 final size:42
Alignment explanation
Indices: 42016139--42016587 Score: 243
Period size: 41 Copynumber: 10.4 Consensus size: 42
42016129 AAATATTAGA
* * *
42016139 GATCTTATCTCCCTG-AGATTACAGCGGAGTAGATCGAAGACAC
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGAT-GAAGACAG
* * * * *
42016182 TATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAA-AAAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATGAAGACAG
* * * * *
42016223 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-GAAGACAG
* *
42016265 G-TCTTATCTCTCT-AAGGTTACAGTGGAGCAGACCGAAGAATTTCA-
1 GATCTTATCTCCCTGAA-GTTACAGTGGAGCAGA-TGAAG-A---CAG
* * *
42016310 GATCTTATCTCCCTGAGGTTACAGTGGAACAGATTGAAGCCAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TGAAGACAG
* * * *
42016353 AGATCTTATCTCCCTG-AGATTATAGCGGAGTAGATCGAAGACAC
1 -GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGAT-GAAGACAG
* * * * * * * *
42016397 TATCCTATCTCCCTAAAGTTACAGTGGAACGGATTAAAATAAAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-T-GAAGACAG
* * * * *
42016441 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-GAAGACAG
* * * * *
42016483 G-TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAATAATTTCA-
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TGAA-GA---CAG
* *
42016528 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TGAAGACAG
42016571 AGATCTTATCTCCCTGA
1 -GATCTTATCTCCCTGA
42016588 GATTATAGCG
Statistics
Matches: 307, Mismatches: 73, Indels: 51
0.71 0.17 0.12
Matches are distributed among these distances:
40 2 0.01
41 89 0.29
42 13 0.04
43 52 0.17
44 82 0.27
45 2 0.01
46 66 0.21
47 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATGAAGACAG
Found at i:42016319 original size:46 final size:44
Alignment explanation
Indices: 42016138--42016606 Score: 263
Period size: 44 Copynumber: 10.8 Consensus size: 44
42016128 GAAATATTAG
* * *
42016138 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAG-A-C
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * *
42016180 ACTATCCTATCTCCCTAAAGTTACAGTGGAGCAGAT-TAA-AA--
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * *
42016221 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * *
42016263 AGGTCTTATCTCTCTAAGGTTACAGTGGAGCAGACCGAAGAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TC
* * * *
42016309 AGATCTTATCTCCCTGAGGTTACAGTGGAACAGATTGAAGCCA-G
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-AATC
* * * *
42016353 AGATCTTATCTCCCTGAGATTATAGCGGAGTAGATCGAAG-A-C
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * * * * *
42016395 ACTATCCTATCTCCCTAAAGTTACAGTGGAACGGAT-TAA-AATAA
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAAT-C
* * * * *
42016439 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GCATC
1 A-GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
* * * * *
42016481 AGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAATAATTTC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAA--TC
* * *
42016527 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA-G
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAG-AATC
* * * *
42016571 AGATCTTATCTCCCTGAGATTATAGCGAAGCAGATC
1 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATC
42016607 TCATCAAGTC
Statistics
Matches: 323, Mismatches: 80, Indels: 46
0.72 0.18 0.10
Matches are distributed among these distances:
40 1 0.00
41 89 0.28
42 11 0.03
43 53 0.16
44 95 0.29
46 72 0.22
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATCGAAGAATC
Found at i:42016519 original size:218 final size:215
Alignment explanation
Indices: 42016136--42016606 Score: 834
Period size: 218 Copynumber: 2.2 Consensus size: 215
42016126 GTGAAATATT
*
42016136 AGAGATCTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTAAAGT
1 AGAGATCTTATCTCCCTGAGATTATAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTAAAGT
*
42016201 TACAGTGGAGCAGATTAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 TACAGTGGAACAGATTAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
42016266 TCTTATCTCTCTAAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
131 TCTTATCTCTCTAAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
42016331 CAGTGGAACAGATTGAAGCC
196 CAGTGGAACAGATTGAAGCC
42016351 AGAGATCTTATCTCCCTGAGATTATAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTAAAGT
1 AGAGATCTTATCTCCCTGAGATTATAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTAAAGT
*
42016416 TACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
66 TACAGTGGAACAGATT--AA-AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
* * *
42016481 AGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAATAATTTCAGATCTTATCTCCCTGAGG
128 AGGTCTTATCTCTCTAAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGG
*
42016546 TTACAGTGGAGCAGATTGAAGCC
193 TTACAGTGGAACAGATTGAAGCC
* *
42016569 AGAGATCTTATCTCCCTGAGATTATAGCGAAGCAGATC
1 AGAGATCTTATCTCCCTGAGATTATAGCGGAGTAGATC
42016607 TCATCAAGTC
Statistics
Matches: 244, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
215 78 0.32
217 2 0.01
218 164 0.67
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (215 bp):
AGAGATCTTATCTCCCTGAGATTATAGCGGAGTAGATCGAAGACACTATCCTATCTCCCTAAAGT
TACAGTGGAACAGATTAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
TCTTATCTCTCTAAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAACAGATTGAAGCC
Found at i:42016763 original size:40 final size:41
Alignment explanation
Indices: 42016599--42016772 Score: 149
Period size: 44 Copynumber: 4.1 Consensus size: 41
42016589 ATTATAGCGA
*
42016599 AGCAGATC-TCATCAAGTCTTATCTCCCTAAGCAGTAGTGG
1 AGCAGATCGACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
* * *
42016639 AGCAGA-CAGAAGAAATCAAGTCCTATCTTCCTAAGCAGTAGTGG
1 AGCAGATC----GACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
* * * * * *
42016683 AGTAGGTTGAACCTTGC-AGATTTTATCTCCCTGAGCAGTAGTGG
1 AGCAGATCG-A-CAT-CAAG-TCTTATCTCCCTAAGCAGTAGTGG
*
42016727 AGCAGATCG-CATCAAGTCTTATCTCCCTAAGTAGTAGTGG
1 AGCAGATCGACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
42016767 AGCAGA
1 AGCAGA
42016773 CAGAACCAAT
Statistics
Matches: 103, Mismatches: 20, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
39 1 0.01
40 34 0.33
41 5 0.05
42 1 0.01
43 3 0.03
44 59 0.57
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (41 bp):
AGCAGATCGACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
Found at i:42016779 original size:84 final size:85
Alignment explanation
Indices: 42016617--42016779 Score: 195
Period size: 84 Copynumber: 1.9 Consensus size: 85
42016607 TCATCAAGTC
*
42016617 TTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATCAAGTCCTATCTTCCTAAGCAGTAGTG
1 TTATCTCCCTAAGCAGTAGTGGAGCAGAC---AGAAATCAAGTCCTATCTCCCTAAGCAGTAGTG
* ***
42016682 GAGTAGGTTGAACCTTGCAGATT
63 GAGCAGACAGAACCTTGCAGATT
* * * *
42016705 TTATCTCCCTGAGCAGTAGTGGAGCAGATC-G-CATCAAGTCTTATCTCCCTAAGTAGTAGTGGA
1 TTATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAATCAAGTCCTATCTCCCTAAGCAGTAGTGGA
42016768 GCAGACAGAACC
65 GCAGACAGAACC
42016780 AATCCTATCT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
84 36 0.55
85 1 0.02
88 27 0.42
89 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (85 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAATCAAGTCCTATCTCCCTAAGCAGTAGTGGAG
CAGACAGAACCTTGCAGATT
Found at i:42019268 original size:214 final size:215
Alignment explanation
Indices: 42018889--42019404 Score: 867
Period size: 214 Copynumber: 2.4 Consensus size: 215
42018879 TCTAATTGAT
* * *
42018889 GCAATATTTAGCGTTTGAAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
* *
42018954 AACCAAATGGCTTAATATCCTTTTTAAAAATATCAAAATATGGCAATGTTTTGCGTTTGGAGGTT
66 AACCAAATGGCTTAATATCCTTTTTAAAAATATCAAAATATGGCAATGTGTTGCGTTTGGAGATT
*
42019019 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCAGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
*
42019084 TTTC-AATTTATAAAATGAG
196 TTTCAAAGTTATAAAATGAG
42019103 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
*
42019168 AACCAAATGGCTTAATATCCTTTTTAAAAATCTCAAAATATGGCAATGTGTTGCGTTTGGAGATT
66 AACCAAATGGCTTAATATCCTTTTTAAAAATATCAAAATATGGCAATGTGTTGCGTTTGGAGATT
*
42019233 CGAGATAACATGCCTTAAGGTGCAGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCAGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
42019298 TTTCAAAAGTTATAAAATGAG
196 TTTC-AAAGTTATAAAATGAG
* *
42019319 GCAACGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGTTGGGTT-CTGATTTCTCGTT
1 GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGC-GATTTCTCGTT
* *
42019383 TAACCAAATTG-TTAAATATCCT
65 CAACCAAATGGCTT-AATATCCT
42019405 CTTGAATTTT
Statistics
Matches: 285, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
214 191 0.67
215 3 0.01
216 91 0.32
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.34
Consensus pattern (215 bp):
GCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
AACCAAATGGCTTAATATCCTTTTTAAAAATATCAAAATATGGCAATGTGTTGCGTTTGGAGATT
CGAGATAACATGCCCTAAGGTGCAGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
TTTCAAAGTTATAAAATGAG
Found at i:42026277 original size:44 final size:44
Alignment explanation
Indices: 42026199--42026282 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
42026189 GAAGAATTTC
* * ** *
42026199 AGATTTTATCTCCCTGAGGTTACAGTGGAACAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGCAGAACAGATCGAAGCCAG
* *
42026243 AGATCTTATGTCCCTGAGATTACAGCAGAGCAGATCGAAG
1 AGATCTTATCTCCCTGAGATTACAGCAGAACAGATCGAAG
42026283 ACACTATCCT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGCAGAACAGATCGAAGCCAG
Found at i:42026365 original size:87 final size:87
Alignment explanation
Indices: 42026205--42026366 Score: 191
Period size: 87 Copynumber: 1.9 Consensus size: 87
42026195 TTTCAGATTT
* * * * * * * *
42026205 TATCTCCCTGAGGTTACAGTGGAACAGATTGAAGCCAGAGATCTTATGTCCCTGAGATTACAGCA
1 TATCTCCCTGAAGTTACAGTGGAACAGATTAAAACAAAAAATCTTATCTCCCTGAGATTACAACA
42026270 GAGCAGATCGAAGACACTATCC
66 GAGCAGATCGAAGACACTATCC
* * * *
42026292 TATCTCCCTGAAGTTACAGTGGAACGGATTAAAATAAAAAATCTTATCTCTCTGA-AGTTACAAT
1 TATCTCCCTGAAGTTACAGTGGAACAGATTAAAACAAAAAATCTTATCTCCCTGAGA-TTACAAC
*
42026356 AGAGTAGATCG
65 AGAGCAGATCG
42026367 CATCAGGTCT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
86 1 0.02
87 60 0.98
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (87 bp):
TATCTCCCTGAAGTTACAGTGGAACAGATTAAAACAAAAAATCTTATCTCCCTGAGATTACAACA
GAGCAGATCGAAGACACTATCC
Found at i:42026411 original size:218 final size:215
Alignment explanation
Indices: 42026026--42026497 Score: 775
Period size: 218 Copynumber: 2.2 Consensus size: 215
42026016 GGTGAATATT
*
42026026 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATTCTATCTCCCTGAAGT
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
* ** *
42026091 TACAGTGAAGTGGATTAAAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 TACAGTGAAGCGGATTAAAAAAAATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGG
*
42026156 TCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATTTTATCTCCCTGAGGTTA
131 TCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATATTATCTCCCTGAGGTTA
42026221 CAGTGGAACAGATTGAAGCC
196 CAGTGGAACAGATTGAAGCC
* *
42026241 AGAGATCTTATGTCCCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
42026306 TACAGTGGAA-CGGATTAAAATAAAAAATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCAT
66 TACAGT-GAAGCGGATT--AA-AAAAAATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCAT
* * *
42026370 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATATTATCTTCCTGCG
127 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATATTATCTCCCTGAG
*
42026435 GTTACAGTGGAGCAGATTGAAGCC
192 GTTACAGTGGAACAGATTGAAGCC
* *
42026459 AGAGATCTTATCTCCCTGAGATTGCAGTGGAGCAGATCG
1 AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCG
42026498 CATCACGTCC
Statistics
Matches: 237, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
215 73 0.31
216 3 0.01
217 2 0.01
218 159 0.67
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (215 bp):
AGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGT
TACAGTGAAGCGGATTAAAAAAAATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGG
TCTTATCTCTCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGATATTATCTCCCTGAGGTTA
CAGTGGAACAGATTGAAGCC
Found at i:42026653 original size:40 final size:41
Alignment explanation
Indices: 42026464--42026662 Score: 136
Period size: 44 Copynumber: 4.7 Consensus size: 41
42026454 AAGCCAGAGA
* * * *
42026464 TCTTATCTCCCTGAGATTGCAGTGGAGCAGATCG-CATCACG
1 TCTTATCTCCCTAAG-TAGTAGTGGAGCAGATCGACATCAAG
* * * * *
42026505 TCCTATCTCCCTAAGCAGCAGTAGAGCAGACAGA-AGAAATCAAG
1 TCTTATCTCCCTAAGTAGTAGT-G-G-AG-CAGATCGACATCAAG
* * * * * *
42026549 TCCTATCTTCCTAAGTAGTAGTGGAGTAGGTTGAACCTTGC-AG
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCG-A-CAT-CAAG
* *
42026592 ATTTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-CATCAAG
1 -TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGACATCAAG
42026633 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
1 TCTTATCTCCCTAAGTAGTAGTGGAGCAGA
42026663 CAGAACCAAT
Statistics
Matches: 122, Mismatches: 25, Indels: 23
0.72 0.15 0.14
Matches are distributed among these distances:
40 36 0.30
41 21 0.17
42 3 0.02
43 7 0.06
44 55 0.45
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (41 bp):
TCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGACATCAAG
Found at i:42028659 original size:38 final size:36
Alignment explanation
Indices: 42028600--42028670 Score: 106
Period size: 38 Copynumber: 1.9 Consensus size: 36
42028590 CCTATTTTCC
42028600 TTTTATGTTTGTTTATGTATTTATTTATATGCTCAT
1 TTTTATGTTTGTTTATGTATTTATTTATATGCTCAT
* *
42028636 TTTTATGCTTTAGTTTATTTATTTATTTATTTGCT
1 TTTTATG-TTT-GTTTATGTATTTATTTATATGCT
42028671 ATGGTATATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 7 0.23
37 3 0.10
38 21 0.68
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.66
Consensus pattern (36 bp):
TTTTATGTTTGTTTATGTATTTATTTATATGCTCAT
Done.