Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 93 of 226
Found at i:29151190 original size:40 final size:40
Alignment explanation
Indices: 29151144--29151220 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
29151134 GTGTGCCAGT
* *
29151144 TTACTTCGATTTAACCGATGAGACACTGGGTGTCAAATTA
1 TTACTTCGAATTAACCGATGAGACACTGGGTGCCAAATTA
* *
29151184 TTACTTCGAATTATCCGATGAGGCACTGGGTGCCAAA
1 TTACTTCGAATTAACCGATGAGACACTGGGTGCCAAA
29151221 CTGGTGTGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (40 bp):
TTACTTCGAATTAACCGATGAGACACTGGGTGCCAAATTA
Found at i:29153167 original size:33 final size:32
Alignment explanation
Indices: 29153130--29153245 Score: 112
Period size: 33 Copynumber: 3.6 Consensus size: 32
29153120 AGATCAATTT
29153130 ATATTTTATGTATTATTATGTTAAATTATTTAA
1 ATATTTTATGTATTATTAT-TTAAATTATTTAA
* **
29153163 ATATTTCATGTAACATTATATTAAATTATTTAA
1 ATATTTTATGTATTATTAT-TTAAATTATTTAA
* * *
29153196 ATATGATT-TGTTATTA-TATTTAAGGTT-TTAAA
1 ATAT-TTTATG-TATTATTATTTAA-ATTATTTAA
29153228 ATATTTTATGTATTATTA
1 ATATTTTATGTATTATTA
29153246 ATTTTATAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
31 7 0.10
32 16 0.24
33 40 0.60
34 4 0.06
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (32 bp):
ATATTTTATGTATTATTATTTAAATTATTTAA
Found at i:29158896 original size:5 final size:5
Alignment explanation
Indices: 29158886--29158912 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
29158876 GGTAGTTGAT
29158886 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
29158913 TTTGATCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:29160800 original size:20 final size:21
Alignment explanation
Indices: 29160768--29160806 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
29160758 TCAATTTTTT
29160768 AAAAAAACTTATA-TAAAATC
1 AAAAAAACTTATATTAAAATC
29160788 AAAAAAA-TATATATTAAAA
1 AAAAAAACT-TATATTAAAA
29160807 ATTATGATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAAAAACTTATATTAAAATC
Found at i:29162191 original size:122 final size:122
Alignment explanation
Indices: 29162053--29162285 Score: 421
Period size: 122 Copynumber: 1.9 Consensus size: 122
29162043 ATTAAAAATT
* *
29162053 TATAGTAATTAAAATTAAAATTTTAACGGTTGCCTCTTTGTGTGATGAGAGTGTAGCAACAATAG
1 TATAGTAATTAAAATTAAAATTTTAACGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAG
29162118 AGTATTCTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAG
66 AGTATTCTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAG
* *
29162175 TATAGTAATTAAAATTAAAATTTTAATGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAT
1 TATAGTAATTAAAATTAAAATTTTAACGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAG
*
29162240 AGTATTCTTTAGTGATTTAGTGTCACAACAATATGAACACAAAATT
66 AGTATTCTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATT
29162286 GCTTTGCAAG
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 106 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (122 bp):
TATAGTAATTAAAATTAAAATTTTAACGGTTGCCTCTTTGTGAGATGAGAATGTAGCAACAATAG
AGTATTCTTTAGTGATTTAGTGTCACAACAATATGAAAACAAAATTTAGTGATTTAG
Found at i:29165477 original size:46 final size:46
Alignment explanation
Indices: 29165416--29165509 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
29165406 TTTTAGACAT
29165416 CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
1 CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
29165462 CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
1 CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
29165508 CA
1 CA
29165510 TTTATATGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.23
Consensus pattern (46 bp):
CACCAATACATATCATAAATGAATTCATTGCAGCGGACACTTAGAC
Found at i:29167786 original size:51 final size:51
Alignment explanation
Indices: 29167710--29167816 Score: 214
Period size: 51 Copynumber: 2.1 Consensus size: 51
29167700 GCTATTAAGC
29167710 TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
1 TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
29167761 TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
1 TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
29167812 TGTTG
1 TGTTG
29167817 AGAGATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (51 bp):
TGTTGTAATGGACTTTTCCATACATCTGATCCTATCCACTGGCGGATAGAT
Found at i:29170363 original size:50 final size:50
Alignment explanation
Indices: 29170309--29170414 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
29170299 TATTGAGGTT
* * * *
29170309 ATGAGATGTCCCTCGTAAGACCATGTTTAGGACATGACATTGGCACCGAG
1 ATGAGAGGTCCCCCGTAAGACCATGTATAGGACATGACATGGGCACCGAG
* * * *
29170359 ATGAGAGGTCCCCCGTAAGACCATGTATGGGACATGGCATGGGCATCGAT
1 ATGAGAGGTCCCCCGTAAGACCATGTATAGGACATGACATGGGCACCGAG
29170409 ATGAGA
1 ATGAGA
29170415 ACTCCCATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATGTATAGGACATGACATGGGCACCGAG
Found at i:29170432 original size:50 final size:50
Alignment explanation
Indices: 29170317--29170432 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 50
29170307 TTATGAGATG
* * * **
29170317 TCCCTCGTAAGACCATGTTTAGGACATGACATTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTATAGGACATGACATGGGCACCGAGATGAGAAC
* * * * *
29170367 TCCCCCGTAAGACCATGTATGGGACATGGCATGGGCATCGATATGAGAAC
1 TCCCACGTAAGACCATGTATAGGACATGACATGGGCACCGAGATGAGAAC
* *
29170417 TCCCATGTAACACCAT
1 TCCCACGTAAGACCAT
29170433 ATCTGGGATA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTATAGGACATGACATGGGCACCGAGATGAGAAC
Found at i:29180046 original size:50 final size:50
Alignment explanation
Indices: 29179922--29180214 Score: 304
Period size: 50 Copynumber: 5.9 Consensus size: 50
29179912 AATATAACAG
* * * ** * * * *
29179922 GCCAAAGCTATGTCCTAGACATAGTCTTACATGGGATGTTTCTTGTA-CT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* * * ** *
29179971 GCCAATGCCAT-ACCTCAGATATGGTCTTACATGGGAGTTCTCATATAGGT
1 GCCAACGCCATGTCCT-AGACATGGTCTTACATGGGACCTCTCATCTAGGT
* ** *
29180021 GACC-ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTTGGT
1 G-CCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* * *
29180071 GCCAACGCCATGTCCCAGACATTGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
* * * *
29180121 GCCAACGCCATGTCCCAGACATGATCTTACATGAGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
*
29180171 ACCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
29180215 AATCTCAATG
Statistics
Matches: 207, Mismatches: 32, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
48 3 0.01
49 35 0.17
50 164 0.79
51 5 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
GCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTAGGT
Found at i:29183909 original size:19 final size:19
Alignment explanation
Indices: 29183886--29183929 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
29183876 TCTAATTTGA
*
29183886 AAAAAAATAGAAAATTTTAG
1 AAAAATATA-AAAATTTTAG
* *
29183906 AAAAATCTAAAAATTTTGG
1 AAAAATATAAAAATTTTAG
29183925 AAAAA
1 AAAAA
29183930 GGATCACACG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.25
Consensus pattern (19 bp):
AAAAATATAAAAATTTTAG
Found at i:29185251 original size:32 final size:32
Alignment explanation
Indices: 29185183--29185292 Score: 114
Period size: 32 Copynumber: 3.5 Consensus size: 32
29185173 GAATGGCAAC
* * * *
29185183 AAGCCATAAGTA-CAGTAATATGTTTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
* * *
29185214 AAGCCATCAGTAGTAGTGATATGATCGACATA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
* * * *
29185246 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCGACACA
29185278 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
29185293 TCGCAGCAAA
Statistics
Matches: 61, Mismatches: 17, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
31 11 0.18
32 50 0.82
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCGACACA
Found at i:29185356 original size:26 final size:26
Alignment explanation
Indices: 29185292--29185362 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
29185282 CATCAGTAGC
* *
29185292 ATCGCAGCAAAGCTACCAGCAACAGT
1 ATCGCAGCAAAGTTGCCAGCAACAGT
*
29185318 ATCGCAGCAAAGTTGCTAGCAACAGT
1 ATCGCAGCAAAGTTGCCAGCAACAGT
*
29185344 ATTGCAGCAAAGTTGCCAG
1 ATCGCAGCAAAGTTGCCAG
29185363 TATAGTATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.17
Consensus pattern (26 bp):
ATCGCAGCAAAGTTGCCAGCAACAGT
Found at i:29185518 original size:24 final size:23
Alignment explanation
Indices: 29185485--29185566 Score: 74
Period size: 24 Copynumber: 3.5 Consensus size: 23
29185475 CCATGCTCAG
*
29185485 AATCAATCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
* * *
29185509 ACTCAGTCATACCAAACATAGACA
1 AATCAGTCAT-TCAAACACAGACA
* *
29185533 AATCAGTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAGACA
* *
29185556 ATTCAATCATT
1 AATCAGTCATT
29185567 TGACGTCGAG
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
23 18 0.39
24 24 0.52
25 4 0.09
ACGTcount: A:0.45, C:0.26, G:0.06, T:0.23
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:29185835 original size:27 final size:27
Alignment explanation
Indices: 29185580--29185821 Score: 315
Period size: 27 Copynumber: 9.0 Consensus size: 27
29185570 CGTCGAGCGT
* *
29185580 ATTACGATCATTTTACTCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
29185607 ATTACGGTCATTTTACCCTATAGGTGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
29185634 ATTACGGCCATTTTACCCTACA-GGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
29185660 ATTACGGTTATTTTAGCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
29185687 ATTATGGTCATTTTACCCTACAGGGGGT
1 ATTACGGTCATTTTACCCTACA-GGGGC
*
29185715 ATTAAGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
29185742 ATTACGGTTATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
29185769 ATTACGGTCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
29185796 ATTACGGTTATTTTACCCTACAGGGG
1 ATTACGGTCATTTTACCCTACAGGGG
29185822 TGTTACAATC
Statistics
Matches: 184, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 21 0.11
27 138 0.75
28 25 0.14
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGC
Found at i:29200905 original size:19 final size:20
Alignment explanation
Indices: 29200858--29200907 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 20
29200848 CCACAAATCG
29200858 TAGTGGCATTTTAATGTTTTC
1 TAGT-GCATTTTAATGTTTTC
29200879 TAGT-CATTTTAATGTTTT-
1 TAGTGCATTTTAATGTTTTC
*
29200897 TATTGCATTTT
1 TAGTGCATTTT
29200908 CGTATTTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 3 0.11
19 20 0.74
21 4 0.15
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (20 bp):
TAGTGCATTTTAATGTTTTC
Found at i:29203751 original size:14 final size:15
Alignment explanation
Indices: 29203732--29203782 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
29203722 CCAAGCATGC
29203732 TTTAGT-ACTTTATT
1 TTTAGTCACTTTATT
29203746 TTTAGTCACATTT-TT
1 TTTAGTCAC-TTTATT
*
29203761 TCTT-GTCATTTTATT
1 T-TTAGTCACTTTATT
29203776 TTTAGTC
1 TTTAGTC
29203783 TGATTATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
14 11 0.35
15 15 0.48
16 5 0.16
ACGTcount: A:0.18, C:0.12, G:0.08, T:0.63
Consensus pattern (15 bp):
TTTAGTCACTTTATT
Found at i:29207792 original size:7 final size:7
Alignment explanation
Indices: 29207780--29207805 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
29207770 AAATTTAAAC
29207780 ATTTTTT
1 ATTTTTT
29207787 ATTTTTT
1 ATTTTTT
29207794 ATTTTTT
1 ATTTTTT
29207801 ATTTT
1 ATTTT
29207806 GGGACTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
ATTTTTT
Found at i:29211918 original size:13 final size:13
Alignment explanation
Indices: 29211900--29211924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29211890 CACTATAATA
29211900 TTATTTTTGTGTG
1 TTATTTTTGTGTG
29211913 TTATTTTTGTGT
1 TTATTTTTGTGT
29211925 TTCAGAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.20, T:0.72
Consensus pattern (13 bp):
TTATTTTTGTGTG
Found at i:29212174 original size:52 final size:52
Alignment explanation
Indices: 29212096--29212199 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
29212086 AATATGGAGG
*
29212096 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCGTGTGTCTTTC
1 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATGTGTCTTTC
29212148 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATGTGTCTTTC
1 GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATGTGTCTTTC
29212200 TTTTGTTTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.20, C:0.08, G:0.16, T:0.56
Consensus pattern (52 bp):
GGTGTACATAGAATTTTATTTTATTTTTTGTTATTAATTGCATGTGTCTTTC
Found at i:29218057 original size:79 final size:79
Alignment explanation
Indices: 29217960--29218177 Score: 267
Period size: 80 Copynumber: 2.8 Consensus size: 79
29217950 TACTGTTAAC
* * * * * *
29217960 AATA-AAAATCGAATAAATTATGTTGAACGGTGGGAATAGAATTCTGAAACATAATTGTTCGATT
1 AATAGAAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTTCAATT
29218024 GATTTATCATTGGA
66 GATTTATCATTGGA
* * *
29218038 AATAGAAAATCAAACAAATTCTGTTGAACGGTAGGAATAAAATCCTGAAACATAATTTTTTTAAT
1 AATAGAAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAA-TTGTTCAAT
* **
29218103 TGATTTCTGTTTGGA
65 TGATTTATCATTGGA
* * * * *
29218118 AACAGAAAATCAAACAAATTTTGTTGGACGGTAGGAATAAAATCCTGAAATAGAATTGTT
1 AATAGAAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTT
29218178 TAGTTAATTT
Statistics
Matches: 120, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
78 4 0.03
79 48 0.40
80 68 0.57
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.32
Consensus pattern (79 bp):
AATAGAAAATCAAACAAATTATGTTGAACGGTAGGAATAAAATCCTGAAACATAATTGTTCAATT
GATTTATCATTGGA
Found at i:29224984 original size:354 final size:353
Alignment explanation
Indices: 29224192--29225602 Score: 1526
Period size: 354 Copynumber: 4.0 Consensus size: 353
29224182 ATCAAGTCAC
* ** * * * * *
29224192 TCATCACAAAGACGAACAACATGTGGCTACTTTTACTTTTCATCAATCATGTAATGCCAATGAGA
1 TCATCACAAAGACGAACGACCCGTGGCAACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
** * * ** * * * * *
29224257 GGATATCATTTACCCATGTCTCAGGCTATGAAATACGTTGTTTTAAATGATGTTACATACTACAG
66 GGATATCATTTACCCATGTCT-AGGGAATGAATTCCACTATTGTGAATGACGTTACATATTACAG
* * * * * *
29224322 AATTCGTATACCCAA-CGCATCAACTTTCAATTCCTTTTCCATTTGAACTCAGGCTTTTACTTAC
130 AAGTCGTATACCCAATC-CACCAACCTTCAATTCCTTATCTATTTGAACTCAGGCATTTACTTAC
* * * * *
29224386 ATCAA-AGTATACAAGTCACGCATACATAGTCTACCATCCACTCAGAATTAAGGTATG-TACACT
194 ATCAATA-TATACAAGTCACGCATACATAGCCTATCATCCACTCAGGATTAAGGTATGCCAAACT
* * * * *
29224449 TTTAATCTCACAAGTGAATAAATCCATAAGA-GCATTTAGGATCTCTTCTTCTTAGGTCTAGTCT
258 TTGAATGTCACAAGTGAATAAATCCATAA-ATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTCT
* * *
29224513 CATGTACTATCAGTCCAGCTAGTCAAATTCAT
322 AATGTACTATCAGTCTAGCTAGTCACATTCAT
* * ** * * * *
29224545 TCATCACAAAGACAAAC-ACCCCGTGGCCACGCATACTTTTTATCAAACATGTAATTCGAATAAA
1 TCATCACAAAGACGAACGA-CCCGTGGCAACGTTTACTTTTTATCAACCATGTAATGCCAATGAA
* * * **
29224609 AGGATATCATTTACCCATGTCTTAGGGATTGAATTCTATTATTGTGAATGACGTTACATATTGTA
65 AGGATATCATTTACCCATGTC-TAGGGAATGAATTCCACTATTGTGAATGACGTTACATATTACA
* * * * * *
29224674 GAAGTCGTATACCCAATCCTCCAGCTTTCAATTCCTTATTTGTTTAAACTCAGGCATTTACTTAC
129 GAAGTCGTATACCCAATCCACCAACCTTCAATTCCTTATCTATTTGAACTCAGGCATTTACTTAC
* * ** *
29224739 ATCAATATATACGAGTCATGCATACATAGCCCGTCATCCACTCAGTATTAAGGTATGCCAAACTT
194 ATCAATATATACAAGTCACGCATACATAGCCTATCATCCACTCAGGATTAAGGTATGCCAAACTT
* * * *
29224804 TGAATGTCACAAGTGTATAAATCCATAAACGGATTTAGGATATCTTCTTCTTAGGTCCAGTCTAA
259 TGAATGTCACAAGTGAATAAATCCATAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTCTAA
* * *
29224869 TTTACTATCAGTCTAGCCACTCACATTCAT
324 TGTACTATCAGTCTAGCTAGTCACATTCAT
** *
29224899 TCATCACAAAGACGAACGACCTATGGCAATGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
1 TCATCACAAAGACGAACGACCCGTGGCAACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
* * * * * * *
29224964 GGATATCGTTTACTCATGTCTCGAGCAATGAATTCCACTATTGTGAATGGCATTACATATTGCAG
66 GGATATCATTTACCCATGTCTAG-GGAATGAATTCCACTATTGTGAATGACGTTACATATTACAG
* * * * * *
29225029 AAGTCGTATACCCAATGCACTAGCCTTCAATTCCTTATCTATTTGAACTGAGGCTTTTATTTACA
130 AAGTCGTATACCCAATCCACCAACCTTCAATTCCTTATCTATTTGAACTCAGGCATTTACTTACA
** * * * * *
29225094 TCAATATATATGAGTCATGCATACGTAGCTTATGATCCACTCAGGATTAAGGTATGCCATACTTT
195 TCAATATATACAAGTCACGCATACATAGCCTATCATCCACTCAGGATTAAGGTATGCCAAACTTT
* * * * *
29225159 AAATGTCACAAGTGAATAAATCTAAAAATGGATTCAGGATCTCTGCTTCTTAGGTCCAGTTTAAT
260 GAATGTCACAAGTGAATAAATCCATAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTCTAAT
* * *
29225224 GAACCATCAGTCTAGTTAGTCACATTCAT
325 GTACTATCAGTCTAGCTAGTCACATTCAT
* * * * *
29225253 TCATCATAAAAATGAACGACCCGTGGCCACATTTACTTTTTATCAACCATGTAATGCCAATGAAA
1 TCATCACAAAGACGAACGACCCGTGGCAACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
* *
29225318 GGATATCATTTACCCATGTCTCGGGTAATAAATTCCACTATTGTGAATGAC-TCTACATATTACA
66 GGATATCATTTACCCATGTCTAGGG-AATGAATTCCACTATTGTGAATGACGT-TACATATTACA
* * *
29225382 GAAGTTGTATACCCAATGCACCAACCTTCAATTCCTTATCTATTTGAACTCA-GTATTTTACTTA
129 GAAGTCGTATACCCAATCCACCAACCTTCAATTCCTTATCTATTTGAACTCAGGCA-TTTACTTA
* * * * * * * *
29225446 CTTCAGTGTATACAAGTCACACATACATAGTC-AGTCATCTACTTAGGATTAAGGTATGCCAAAA
193 CATCAATATATACAAGTCACGCATACATAGCCTA-TCATCCACTCAGGATTAAGGTATGCCAAAC
* * * *
29225510 TTTGAATGTCACAAGTGAATAAACCCATAAATGGATTCAGGATCTCTTTTTCTTGGGTCCAATCT
257 TTTGAATGTCACAAGTGAATAAATCCATAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTCT
* * *
29225575 GATCTACTATCAGTCCAG-TCAGTCACAT
322 AATGTACTATCAGTCTAGCT-AGTCACAT
29225603 CTAAGTCTCT
Statistics
Matches: 883, Mismatches: 162, Indels: 25
0.83 0.15 0.02
Matches are distributed among these distances:
352 1 0.00
353 207 0.23
354 674 0.76
355 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (353 bp):
TCATCACAAAGACGAACGACCCGTGGCAACGTTTACTTTTTATCAACCATGTAATGCCAATGAAA
GGATATCATTTACCCATGTCTAGGGAATGAATTCCACTATTGTGAATGACGTTACATATTACAGA
AGTCGTATACCCAATCCACCAACCTTCAATTCCTTATCTATTTGAACTCAGGCATTTACTTACAT
CAATATATACAAGTCACGCATACATAGCCTATCATCCACTCAGGATTAAGGTATGCCAAACTTTG
AATGTCACAAGTGAATAAATCCATAAATGGATTCAGGATCTCTTCTTCTTAGGTCCAGTCTAATG
TACTATCAGTCTAGCTAGTCACATTCAT
Found at i:29225585 original size:708 final size:707
Alignment explanation
Indices: 29224192--29225589 Score: 1700
Period size: 708 Copynumber: 2.0 Consensus size: 707
29224182 ATCAAGTCAC
* * * *
29224192 TCATCACAAAGACGAACAACATGTGGCTACTTTTACTTTTCATCAATCATGTAATGCCAATGAGA
1 TCATCACAAAGACGAACAACATATGGCTAATTTTACTTTTCATCAACCATGTAATGCCAATGAAA
* ** * * **
29224257 GGATATCATTTACCCATGTCTCAGGCTATGAAATACGTTGTTTTAAATGATGTTACATACTACAG
66 GGATATCATTTACCCATGTCTCAGGCAATGAAATACACTATTGTAAATGACATTACATACTACAG
* * *
29224322 AATTCGTATACCCAACGCATCAACTTTCAATTCCTTTTCCATTTGAACTCAGGCTTTTACTTACA
131 AAGTCGTATACCCAACGCATCAACCTTCAATTCCTTATCCATTTGAACTCAGGCTTTTACTTACA
* *
29224387 TCAAAGTATACAAGTCACGCATACATAGTCTACCATCCACTCAGAATTAAGGTATGTACACTTTT
196 TCAAAGTATACAAGTCACGCATACATAGTCTACCATCCACTCAGAATTAAGGTATGCACACTTTA
* * * * *
29224452 AATCTCACAAGTGAATAAATCCATAAGAGCATTTAGGATCTCTTCTTCTTAGGTCTAGTCTCATG
261 AATCTCACAAGTGAATAAATCCATAAAAGCATTCAGGATCTCTGCTTCTTAGGTCCAGTCTAATG
* * * *
29224517 TACTATCAGTCCAGCTAGTCAAATTCATTCATCACAAAGACAAACACCCCGTGGCCACGCATACT
326 AACCATCAGTCCAGCTAGTCAAATTCATTCATCACAAAAACAAACACCCCGTGGCCACACATACT
* * * * *
29224582 TTTTATCAAACATGTAATTCGAATAAAAGGATATCATTTACCCATGTCTTAGGGATTGAATTCTA
391 TTTTATCAAACATGTAATGCCAATAAAAGGATATCATTTACCCATGTCTTAGGGAATAAATTCCA
* ** * * *
29224647 TTATTGTGAATGACGTTACATATTGTAGAAGTCGTATACCCAATCCTCCAGCTTTCAATTCCTTA
456 CTATTGTGAATGACGTTACATATTACAGAAGTCGTATACCCAATCCACCAACCTTCAATTCCTTA
* * * ** *
29224712 TTTGTTTAAACTCAGGCATTTACTTACATCAATATATACGAGTCATGCATACATAGCCCGTCATC
521 TCTATTTAAACTCAGGCATTTACTTACATCAATATATACAAGTCACACATACATAGCCAGTCATC
* * * * *
29224777 CACTCAGTATTAAGGTATGCCAAACTTTGAATGTCACAAGTGTATAAATCCATAAACGGATTTAG
586 CACTCAGGATTAAGGTATGCCAAAATTTGAATGTCACAAGTGAATAAACCCATAAACGGATTCAG
* *
29224842 GATATCTTCTTCTTAGGTCCAGTCTAATTTACTATCAGTCTAGCCACTCACATTCAT
651 GATATCTTCTTCTTAGGTCCAATCTAATCTACTATCAGTCTAGCCACTCACATTCAT
* * *
29224899 TCATCACAAAGACGAACGACCTATGGC-AATGTTTACTTTTTATCAACCATGTAATGCCAATGAA
1 TCATCACAAAGACGAACAACATATGGCTAAT-TTTACTTTTCATCAACCATGTAATGCCAATGAA
* * * * * * * *
29224963 AGGATATCGTTTACTCATGTCTC-GAGCAATGAATTCCACTATTGTGAATGGCATTACATATTGC
65 AGGATATCATTTACCCATGTCTCAG-GCAATGAAATACACTATTGTAAATGACATTACATACTAC
* * * * *
29225027 AGAAGTCGTATACCCAATGCA-CTAGCCTTCAATTCCTTATCTATTTGAACTGAGGCTTTTATTT
129 AGAAGTCGTATACCCAACGCATC-AACCTTCAATTCCTTATCCATTTGAACTCAGGCTTTTACTT
** * * ** * *
29225091 ACATCAATA-TATATGAGTCATGCATACGTAG-CTTATGATCCACTCAGGATTAAGGTATGCCAT
193 ACATCAA-AGTATACAAGTCACGCATACATAGTC-TACCATCCACTCAGAATTAAGGTATG-CAC
* * *
29225154 ACTTTAAATGTCACAAGTGAATAAATCTA-AAAATGGATTCAGGATCTCTGCTTCTTAGGTCCAG
255 ACTTTAAATCTCACAAGTGAATAAATCCATAAAA-GCATTCAGGATCTCTGCTTCTTAGGTCCAG
* * * * * **
29225218 TTTAATGAACCATCAGTCTAGTTAGTCACATTCATTCATCATAAAAATGAACGA-CCCGTGGCCA
319 TCTAATGAACCATCAGTCCAGCTAGTCAAATTCATTCATCACAAAAACAAAC-ACCCCGTGGCCA
** * * *
29225282 CATTTACTTTTTATCAACCATGTAATGCCAATGAAAGGATATCATTTACCCATGTC-TCGGGTAA
383 CACATACTTTTTATCAAACATGTAATGCCAATAAAAGGATATCATTTACCCATGTCTTAGGG-AA
* *
29225346 TAAATTCCACTATTGTGAATGAC-TCTACATATTACAGAAGTTGTATACCCAATGCACCAACCTT
447 TAAATTCCACTATTGTGAATGACGT-TACATATTACAGAAGTCGTATACCCAATCCACCAACCTT
* * * * *
29225410 CAATTCCTTATCTATTTGAACTCA-GTATTTTACTTACTTCAGTGTATACAAGTCACACATACAT
511 CAATTCCTTATCTATTTAAACTCAGGCA-TTTACTTACATCAATATATACAAGTCACACATACAT
* * *
29225474 AGTCAGTCATCTACTTAGGATTAAGGTATGCCAAAATTTGAATGTCACAAGTGAATAAACCCATA
575 AGCCAGTCATCCACTCAGGATTAAGGTATGCCAAAATTTGAATGTCACAAGTGAATAAACCCATA
* * * * *
29225539 AATGGATTCAGGATCTCTTTTTCTTGGGTCCAATCTGATCTACTATCAGTC
640 AACGGATTCAGGATATCTTCTTCTTAGGTCCAATCTAATCTACTATCAGTC
29225590 CAGTCAGTCA
Statistics
Matches: 577, Mismatches: 103, Indels: 21
0.82 0.15 0.03
Matches are distributed among these distances:
706 5 0.01
707 213 0.37
708 358 0.62
709 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.33
Consensus pattern (707 bp):
TCATCACAAAGACGAACAACATATGGCTAATTTTACTTTTCATCAACCATGTAATGCCAATGAAA
GGATATCATTTACCCATGTCTCAGGCAATGAAATACACTATTGTAAATGACATTACATACTACAG
AAGTCGTATACCCAACGCATCAACCTTCAATTCCTTATCCATTTGAACTCAGGCTTTTACTTACA
TCAAAGTATACAAGTCACGCATACATAGTCTACCATCCACTCAGAATTAAGGTATGCACACTTTA
AATCTCACAAGTGAATAAATCCATAAAAGCATTCAGGATCTCTGCTTCTTAGGTCCAGTCTAATG
AACCATCAGTCCAGCTAGTCAAATTCATTCATCACAAAAACAAACACCCCGTGGCCACACATACT
TTTTATCAAACATGTAATGCCAATAAAAGGATATCATTTACCCATGTCTTAGGGAATAAATTCCA
CTATTGTGAATGACGTTACATATTACAGAAGTCGTATACCCAATCCACCAACCTTCAATTCCTTA
TCTATTTAAACTCAGGCATTTACTTACATCAATATATACAAGTCACACATACATAGCCAGTCATC
CACTCAGGATTAAGGTATGCCAAAATTTGAATGTCACAAGTGAATAAACCCATAAACGGATTCAG
GATATCTTCTTCTTAGGTCCAATCTAATCTACTATCAGTCTAGCCACTCACATTCAT
Found at i:29226832 original size:15 final size:15
Alignment explanation
Indices: 29226812--29226840 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
29226802 TGTGGCAAAG
29226812 TTTGATATGTCATAA
1 TTTGATATGTCATAA
29226827 TTTGATATGTCATA
1 TTTGATATGTCATA
29226841 GTTTTTCGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
TTTGATATGTCATAA
Found at i:29227164 original size:19 final size:21
Alignment explanation
Indices: 29227140--29227185 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
29227130 ACGTATTGCC
29227140 TGTGTT-ACAACACA-CA-CCT
1 TGTGTTGAC-ACACAGCAGCCT
29227159 TGTGTTGACACACAGCAGCCT
1 TGTGTTGACACACAGCAGCCT
29227180 TGTGTT
1 TGTGTT
29227186 CATCCATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 11 0.46
20 4 0.17
21 9 0.38
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (21 bp):
TGTGTTGACACACAGCAGCCT
Found at i:29244560 original size:9 final size:9
Alignment explanation
Indices: 29244546--29244576 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
29244536 GTTAAACGAA
29244546 TCGAGTTAT
1 TCGAGTTAT
*
29244555 TCGAGTTAA
1 TCGAGTTAT
29244564 TCGAGTTAT
1 TCGAGTTAT
29244573 TCGA
1 TCGA
29244577 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:29244646 original size:9 final size:9
Alignment explanation
Indices: 29244629--29244665 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
29244619 TGAGTTTTCG
29244629 AATTCGAAT
1 AATTCGAAT
*
29244638 AACTCGAAT
1 AATTCGAAT
*
29244647 AATTTGAAT
1 AATTCGAAT
29244656 AATTCGAAT
1 AATTCGAAT
29244665 A
1 A
29244666 TCAAACTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:29262135 original size:110 final size:109
Alignment explanation
Indices: 29261930--29262324 Score: 576
Period size: 110 Copynumber: 3.6 Consensus size: 109
29261920 GTTAATCGAG
* * * * * * *
29261930 AAATCGAAACCCAACACATTAGGGCACG-TTTCTCAGATTTCTAAACGTAAAACATTACCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTACCTTATT
* * * *
29261994 TTGAAATTTTTTTAAAGGATATTTAGCCATTTGGTTGAATGAGAA
66 TT-AAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
29262039 AAATCGACACCTAGCACCTTAGGGCATGTTTTCTCAAATTTTCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAA-TTTCCAAACGCAAAACATTACCTTAT
29262104 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
65 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
29262149 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTT-CCAAACGCAAAACATTACCTTAT
* *
29262214 TTTAAAATTTTTAAATGGATATTAAGTCATTTGGTTGAACGAGAA
65 TTTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* * *
29262259 AAATCGACACCCAGCACCTTAGGGCATATTTTCTCGAATTTCCAAACGCAAAATATTACCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTACCTTATT
29262324 T
66 T
29262325 AGGAAAAAAG
Statistics
Matches: 263, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
109 49 0.19
110 188 0.71
111 26 0.10
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCAAATTTCCAAACGCAAAACATTACCTTATT
TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:29264013 original size:14 final size:14
Alignment explanation
Indices: 29263994--29264037 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
29263984 AAATAGTTAG
29263994 AAGAGAAAAAAATA
1 AAGAGAAAAAAATA
29264008 AAGAGAAAAAAA-A
1 AAGAGAAAAAAATA
*
29264021 AAGAAAAAGAAAATA
1 AAGAGAAA-AAAATA
29264036 AA
1 AA
29264038 TATACCGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.30
14 16 0.59
15 3 0.11
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.05
Consensus pattern (14 bp):
AAGAGAAAAAAATA
Found at i:29264021 original size:17 final size:17
Alignment explanation
Indices: 29263999--29264033 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
29263989 GTTAGAAGAG
* *
29263999 AAAAAAATAAAGAGAAA
1 AAAAAAAGAAAAAGAAA
29264016 AAAAAAAGAAAAAGAAA
1 AAAAAAAGAAAAAGAAA
29264033 A
1 A
29264034 TAAATATACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAA
Found at i:29267038 original size:53 final size:52
Alignment explanation
Indices: 29266908--29267058 Score: 197
Period size: 47 Copynumber: 3.0 Consensus size: 52
29266898 AAATACTTCA
* * *
29266908 CCTAAAGAAGAAGAAAG-GACCAAGGTGAAAACCCGCAAAGGGCGCTTTGAGT
1 CCTAAAAAAAAAGAAAGAG-CCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGT
*
29266960 CCT---AAAAAA-AAAGA-CCAAGGTGAAAACCTGCAAAGGGCGCCTTGAGT
1 CCTAAAAAAAAAGAAAGAGCCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGT
*
29267007 CCTAAAAAAAAAGAAAGAGGCCAAGGTGAAAACCCGCAAATGGCGCCTTGAG
1 CCTAAAAAAAAAGAAAGA-GCCAAGGTGAAAACCCGCAAAGGGCGCCTTGAG
29267059 ACCAAAGGGG
Statistics
Matches: 86, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
47 34 0.40
48 4 0.05
49 4 0.05
50 6 0.07
51 5 0.06
52 3 0.03
53 30 0.35
ACGTcount: A:0.42, C:0.21, G:0.26, T:0.11
Consensus pattern (52 bp):
CCTAAAAAAAAAGAAAGAGCCAAGGTGAAAACCCGCAAAGGGCGCCTTGAGT
Found at i:29269070 original size:43 final size:42
Alignment explanation
Indices: 29269022--29269148 Score: 165
Period size: 46 Copynumber: 3.0 Consensus size: 42
29269012 AGGGTAAATC
*
29269022 CAACAATCCAAGATTACCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAGATTA-CTTCTCCTCTTTTTAAATTCTTTTTT
29269065 CAACAACCCAAGATTATTATCTTCTCCTCTTTTTAAATTCTTTTTT
1 CAACAACCCAAG---ATTA-CTTCTCCTCTTTTTAAATTCTTTTTT
29269111 CAACAACCCAAGATTA----TCCTCTTTTTAAATT-TTTTTT
1 CAACAACCCAAGATTACTTCTCCTCTTTTTAAATTCTTTTTT
29269148 C
1 C
29269149 TAAGATAAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
37 7 0.09
38 15 0.19
43 15 0.19
46 42 0.53
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.46
Consensus pattern (42 bp):
CAACAACCCAAGATTACTTCTCCTCTTTTTAAATTCTTTTTT
Found at i:29269099 original size:46 final size:46
Alignment explanation
Indices: 29269034--29269127 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
29269024 ACAATCCAAG
29269034 ATTACCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCCAAGATT
1 ATTACCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCCAAGATT
*
29269080 ATTATCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCCAAGATT
1 ATTACCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCCAAGATT
29269126 AT
1 AT
29269128 CCTCTTTTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (46 bp):
ATTACCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCCAAGATT
Found at i:29281401 original size:20 final size:20
Alignment explanation
Indices: 29281376--29281418 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
29281366 GGGAAGGAGT
* *
29281376 TAACATGTACCCATGATACA
1 TAACATCTACCAATGATACA
*
29281396 TAACATCTATCAATGATACA
1 TAACATCTACCAATGATACA
29281416 TAA
1 TAA
29281419 GTATTAGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (20 bp):
TAACATCTACCAATGATACA
Found at i:29289476 original size:15 final size:15
Alignment explanation
Indices: 29289452--29289482 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
29289442 GTAAGATGAA
29289452 ATTTTAAATTTTGTT
1 ATTTTAAATTTTGTT
*
29289467 ATTTTTAATTTTGTT
1 ATTTTAAATTTTGTT
29289482 A
1 A
29289483 AATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
ATTTTAAATTTTGTT
Found at i:29289488 original size:15 final size:15
Alignment explanation
Indices: 29289458--29289491 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
29289448 TGAAATTTTA
**
29289458 AATTTTGTTATTTTT
1 AATTTTGTTAAATTT
29289473 AATTTTGTTAAATTT
1 AATTTTGTTAAATTT
29289488 AATT
1 AATT
29289492 AATTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
AATTTTGTTAAATTT
Found at i:29291423 original size:16 final size:17
Alignment explanation
Indices: 29291392--29291425 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
29291382 CCCCGATGAG
29291392 ACGATTGATGTATTTTTT
1 ACGATTGA-GTATTTTTT
29291410 ACGATTGA-TATTTTTT
1 ACGATTGAGTATTTTTT
29291426 TTCTAAATAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56
Consensus pattern (17 bp):
ACGATTGAGTATTTTTT
Found at i:29291427 original size:18 final size:18
Alignment explanation
Indices: 29291392--29291426 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29291382 CCCCGATGAG
*
29291392 ACGATTGATGTATTTTTT
1 ACGATTGATATATTTTTT
29291410 ACGATTGATAT-TTTTTT
1 ACGATTGATATATTTTTT
29291427 TCTAAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (18 bp):
ACGATTGATATATTTTTT
Found at i:29297714 original size:14 final size:15
Alignment explanation
Indices: 29297675--29297716 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
29297665 TTTTAACATA
*
29297675 ATTATTATTAAATAT
1 ATTATAATTAAATAT
29297690 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
29297704 A-TATAATTTAATA
1 ATTATAATTAAATA
29297717 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:29297825 original size:16 final size:16
Alignment explanation
Indices: 29297781--29297827 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
29297771 TACTATAAAA
*
29297781 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
29297797 TATTATT-AAATATAT
1 TATAATTAAAATATAT
29297812 TATAATTAAAATATAT
1 TATAATTAAAATATAT
29297828 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:29297947 original size:18 final size:17
Alignment explanation
Indices: 29297926--29297960 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29297916 TTATTATTAA
*
29297926 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29297944 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29297961 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29298025 original size:22 final size:24
Alignment explanation
Indices: 29297980--29298026 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
29297970 TCAATATTCT
29297980 TATATGAACTTACTAAAATCATAA
1 TATATGAACTTACTAAAATCATAA
29298004 TATATGATAC-TA-TAAAAT-ATAA
1 TATATGA-ACTTACTAAAATCATAA
29298026 T
1 T
29298027 TTGAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 6 0.27
24 9 0.41
25 2 0.09
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (24 bp):
TATATGAACTTACTAAAATCATAA
Found at i:29298090 original size:120 final size:120
Alignment explanation
Indices: 29297666--29298081 Score: 735
Period size: 120 Copynumber: 3.5 Consensus size: 120
29297656 TTAATCATAT
29297666 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
29297731 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
29297786 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* * *
29297851 TAATATTCTTAAATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
*
29297906 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
29297971 CAATATTCTTATATGAACTTACTAAAATCATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
* * *
29298026 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
29298082 TAAAATAATT
Statistics
Matches: 284, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
120 282 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
Found at i:29298132 original size:47 final size:45
Alignment explanation
Indices: 29298063--29298485 Score: 251
Period size: 47 Copynumber: 9.3 Consensus size: 45
29298053 TTAATTAAAA
*
29298063 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATT-TAA-TAATAAATTTTCT
* * *
29298110 TATATGAATTTGTATAATTTAAAATAA-TT-ATTATCAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTTAATAAT-AAAT-T-TTCT
* * *
29298155 TA-AT-AATAATATATAATTTCATAAA-ATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAAT-TTAATAATAAATTTTCT
* *
29298201 TATATGAATTTATATAATTTAAAATAA-TTAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTTAATAATAAAT-T-TTCT
* * *
29298246 TA-AT-AATGATATATAATTTCATAAA-ATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAAT-TTAATAATAAATTTTCT
* *
29298292 TATATGAATTTATATAATTTAAAATAA-TTAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTTAATAATAAAT-T-TTCT
* *
29298337 TA-AT-AATGATATATAATTTCATAAA-AATCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAAT-TTAATAATAAATTTTCT
* *
29298383 TATATGAATTTATATAATTTAAAATAA-TTAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTTAATAATAAAT-T-TTCT
* * *
29298428 TA-AT-AATGATATATAATTTCATAAA-ATTCTTAATAATAAATGTTCT
1 TATATGAAT-TTATATAATTT-A-AAATAAT-TTAATAATAAATTTTCT
29298474 TATATGAATTTA
1 TATATGAATTTA
29298486 CTAAAATCAT
Statistics
Matches: 292, Mismatches: 38, Indels: 92
0.69 0.09 0.22
Matches are distributed among these distances:
43 15 0.05
44 82 0.28
45 39 0.13
46 39 0.13
47 97 0.33
48 20 0.07
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (45 bp):
TATATGAATTTATATAATTTAAAATAATTTAATAATAAATTTTCT
Found at i:29298192 original size:91 final size:91
Alignment explanation
Indices: 29298097--29298485 Score: 715
Period size: 91 Copynumber: 4.3 Consensus size: 91
29298087 TAATTATAAC
* * *
29298097 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATCAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
29298162 AATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
29298188 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
29298253 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
29298279 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
29298344 GATATATAATTTCATAAAAATCTTGA
66 GATATATAATTTCATAAAATTCTTGA
29298370 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
29298435 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
*
29298461 TAATAAATGTTCTTATATGAATTTA
1 TAATAAATTTTCTTATATGAATTTA
29298486 CTAAAATCAT
Statistics
Matches: 290, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 290 1.00
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:29300184 original size:24 final size:26
Alignment explanation
Indices: 29300132--29300181 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
29300122 ATATATGAAT
29300132 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
29300159 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
29300182 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:29308769 original size:21 final size:20
Alignment explanation
Indices: 29308745--29308785 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
29308735 TAAAAATATT
29308745 ATGAAAAAATATTGGTTCAAA
1 ATGAAAAAATATT-GTTCAAA
**
29308766 ATGAATCAATATTGTTCAAA
1 ATGAAAAAATATTGTTCAAA
29308786 CATTACACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.32
Consensus pattern (20 bp):
ATGAAAAAATATTGTTCAAA
Found at i:29309432 original size:187 final size:187
Alignment explanation
Indices: 29309117--29309491 Score: 660
Period size: 187 Copynumber: 2.0 Consensus size: 187
29309107 GCAAAAATCC
* * * *
29309117 AAAATTTATGGGCCAAGTTCTTTGATAAATTCCATCCAGAATTAGACCAAAAACACATATACAAA
1 AAAATTTATGGCCCAAGTTATTTGATAAATTCCATCCAGAATCAGACCAAAAACACATACACAAA
* *
29309182 ATAATCTATTTCTTTTCAAATTTGTGTATTTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
66 ACAATCTATTTCTTTTCAAATTTGTGTATCTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
29309247 AGATCCATACATGAGAATCCTATTGTTAGTTCAAAATTTTAGAACGAAATGGTGGGA
131 AGATCCATACATGAGAATCCTATTGTTAGTTCAAAATTTTAGAACGAAATGGTGGGA
*
29309304 AAAATTTATGGCCCAAGTTATTTGATAAATTCCATCTAGAATCAGACCAAAAACACATACACAAA
1 AAAATTTATGGCCCAAGTTATTTGATAAATTCCATCCAGAATCAGACCAAAAACACATACACAAA
29309369 ACAATCTATTTCTTTTCAAATTTGTGTATCTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
66 ACAATCTATTTCTTTTCAAATTTGTGTATCTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
* * *
29309434 AGATTCATACATGAGAATCTTATTGTTAGTTCAAAATTTTAGAAGGAAATGGTGGGA
131 AGATCCATACATGAGAATCCTATTGTTAGTTCAAAATTTTAGAACGAAATGGTGGGA
29309491 A
1 A
29309492 TCCTATTGTA
Statistics
Matches: 178, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
187 178 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (187 bp):
AAAATTTATGGCCCAAGTTATTTGATAAATTCCATCCAGAATCAGACCAAAAACACATACACAAA
ACAATCTATTTCTTTTCAAATTTGTGTATCTCTTGGATTGTTTCCTAGAATTATGCTTATGAACA
AGATCCATACATGAGAATCCTATTGTTAGTTCAAAATTTTAGAACGAAATGGTGGGA
Found at i:29310302 original size:22 final size:22
Alignment explanation
Indices: 29310274--29310350 Score: 66
Period size: 22 Copynumber: 3.4 Consensus size: 22
29310264 CCAAAAAATT
29310274 ATCTCCTAAATTTTAGCATCTA
1 ATCTCCTAAATTTTAGCATCTA
** * * *
29310296 ATCTCCT-AATTAAACCAAAACATT
1 ATCTCCTAAATTTTAGC--ATC-TA
*
29310320 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAATTTTAGCATCTA
29310342 ATCTCCTAA
1 ATCTCCTAA
29310351 TTAAAAGAAA
Statistics
Matches: 40, Mismatches: 11, Indels: 8
0.68 0.19 0.14
Matches are distributed among these distances:
21 6 0.15
22 17 0.43
23 4 0.10
24 8 0.20
25 5 0.12
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAATTTTAGCATCTA
Found at i:29310311 original size:46 final size:46
Alignment explanation
Indices: 29310261--29310355 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
29310251 ACAAAGATAG
*
29310261 AAACCAAAAAATTATCTCCTAAATTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
*
29310307 AAACCAAAACATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
29310353 AAA
1 AAA
29310356 AGAAAAGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (46 bp):
AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:29314301 original size:46 final size:46
Alignment explanation
Indices: 29314250--29314344 Score: 163
Period size: 46 Copynumber: 2.1 Consensus size: 46
29314240 ACAAAGATAG
*
29314250 AAACCAAAAAATTATCTCCTAAATTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
* *
29314296 AAACCAAAACATTTTCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
29314342 AAA
1 AAA
29314345 AGAAAAGAGA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAAAATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:29319397 original size:23 final size:21
Alignment explanation
Indices: 29319371--29319412 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
29319361 AATGCAATAT
29319371 TAAAAATGCTAACTAAAATGTCA
1 TAAAAATGC-AAC-AAAATGTCA
29319394 TAAAAATGCAACAAAATGT
1 TAAAAATGCAACAAAATGT
29319413 TACGTAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (21 bp):
TAAAAATGCAACAAAATGTCA
Found at i:29322385 original size:32 final size:32
Alignment explanation
Indices: 29322348--29322410 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
29322338 TATAATAAAG
*
29322348 TAGTTAGACTAATGTCGTTATAAAAGTTGAGA
1 TAGTTAAACTAATGTCGTTATAAAAGTTGAGA
29322380 TAGTTAAACTAATGTCGTTATAAAAGTTGAG
1 TAGTTAAACTAATGTCGTTATAAAAGTTGAG
29322411 GTACCAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (32 bp):
TAGTTAAACTAATGTCGTTATAAAAGTTGAGA
Found at i:29323329 original size:123 final size:122
Alignment explanation
Indices: 29323009--29323382 Score: 559
Period size: 122 Copynumber: 3.0 Consensus size: 122
29322999 TTAGGATTTT
* * * *
29323009 TAGGTCTTGGAAAAAATAATTTTGAGTTGACGTTTCTAATCAAATATTATAAAATCGCTTCTAGC
1 TAGGTCAT-GAAAAAATAATTTT--TTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGC
* * * *
29323074 AGGATGCTATTTAAGAAGAATTTGTGAAATCGCACCCTCGTGGACGCGATTTTGCTACAG
63 AGGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
29323134 TAGGTCATGGAAAAATAATTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGG
1 TAGGTCATGAAAAAATAATTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGG
* * *
29323199 ATGCTATTTGAGAAGAATTTGTAAAATCGTGCCCTCGTAGAGGCGCTTTTGCTACAG
66 ATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
29323256 TCGGTCATGAAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAG
1 TAGGTCATGAAA-AAATAATTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAG
* *
29323321 GATTCTATTTGAGAAGAATTTGTGAAAATCACGCCCTCGTGGACGCGCTTTTGCTACAG
65 GATGCTATTTGAGAAGAATTTGT-AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
29323380 TAG
1 TAG
29323383 CATGTTTGGG
Statistics
Matches: 226, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
122 100 0.44
123 73 0.32
124 46 0.20
125 7 0.03
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (122 bp):
TAGGTCATGAAAAAATAATTTTTTTGACGTTTCTAAGCAAATAGTATAAAATCGCTTCTAGCAGG
ATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:29326596 original size:116 final size:116
Alignment explanation
Indices: 29326392--29326635 Score: 391
Period size: 116 Copynumber: 2.1 Consensus size: 116
29326382 TAAGTTTGTG
*
29326392 AAATTATTAATTGATAAATTGTATTAATGGTTAGTAAAAATTATCAAATTATATAAAATTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
* * ** * *
29326457 TTTTTAGTACCAGTCAAAACATTTTTCTAAATCTAACATTATGTGAATGTA
66 TTGTCAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
* *
29326508 AAATTAGTAATTGATAAATTGTATTAATGATTAGT-AAAATTATCAAATTATATAAATTTATTAA
1 AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
29326572 TTGTCAGTACCAGGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
66 TTGTCAGTACCA-GAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
29326624 AAATTATTAATT
1 AAATTATTAATT
29326636 TAGTTTAGGG
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
115 38 0.32
116 79 0.68
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (116 bp):
AAATTATTAATTGATAAATTGTATTAATGATTAGTAAAAATTATCAAATTATATAAAATTATTAA
TTGTCAGTACCAGAAAAAACATTTTTCCAAATCTAACATTATGTGAAAGTA
Found at i:29326661 original size:23 final size:22
Alignment explanation
Indices: 29326629--29327183 Score: 421
Period size: 23 Copynumber: 24.1 Consensus size: 22
29326619 AAGTAAAATT
*
29326629 ATTAATTTAGTTTAGGGTTTTTA
1 ATTAA-TTAGGTTAGGGTTTTTA
29326652 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
29326675 ATTTAATTAGATTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
29326698 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* **
29326721 AGT--TTAGGGTTTAAAGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
29326743 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
29326766 ATTTAATTAGGTTAGTGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
29326789 AGTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
29326812 ATTTAATTAAGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* * ** *
29326835 AGTTTAGGGTTTTTAAGTTTAGGGTTTTA
1 A--TTA-----ATTAGGTTAGGGTTTTTA
*
29326864 ATTAAATTAGGTTAAGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
29326887 AGT--TTAGGGTTTAGGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
*
29326909 ATTAAATTAGGTTAGTGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
29326932 ATTTAATTAGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*
29326955 ATTTAATTAGGTTAAGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
***
29326978 AGTTAAGGGGGTTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
* *
29327001 AGT--TTAGGGTTTAAGGTTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
29327023 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
* *
29327046 AGT--TTAGGGTTTAGGGGTTTTA
1 ATTAATTA-GG-TTAGGGTTTTTA
29327068 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
*
29327091 AGT--TTAGAGTTTAGGGTTTTTA
1 ATTAATTAG-G-TTAGGGTTTTTA
* *
29327113 AGTTAA-TAGGTTAGTGCTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
*** *
29327135 AGTTAAGGGGGCTAGGGTTTTTA
1 A-TTAATTAGGTTAGGGTTTTTA
29327158 ATTAAATTAGGTTAGGGTTTTTA
1 ATT-AATTAGGTTAGGGTTTTTA
29327181 ATT
1 ATT
29327184 TAAGGGTATT
Statistics
Matches: 431, Mismatches: 64, Indels: 74
0.76 0.11 0.13
Matches are distributed among these distances:
20 10 0.02
21 9 0.02
22 83 0.19
23 278 0.65
24 21 0.05
25 12 0.03
27 2 0.00
28 1 0.00
29 15 0.03
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (22 bp):
ATTAATTAGGTTAGGGTTTTTA
Found at i:29326739 original size:22 final size:23
Alignment explanation
Indices: 29326691--29326747 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
29326681 TTAGATTAGG
* **
29326691 GTTTTTAAGTTAAGGGGGTTAGG
1 GTTTTTAAGTTTAGGGGGTTAAA
*
29326714 GTTTTTAAGTTTA-GGGTTTAAA
1 GTTTTTAAGTTTAGGGGGTTAAA
29326736 GTTTTTAA-TTTA
1 GTTTTTAAGTTTA
29326748 ATTAGGTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 4 0.13
22 14 0.47
23 12 0.40
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (23 bp):
GTTTTTAAGTTTAGGGGGTTAAA
Found at i:29326764 original size:114 final size:113
Alignment explanation
Indices: 29326663--29327049 Score: 415
Period size: 114 Copynumber: 3.3 Consensus size: 113
29326653 TTAAATTAGG
* * * *
29326663 TTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAG
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTTTAG
*
29326728 GGTTTAAAGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTTAATTAGG-
66 GGTTTAAAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTT-A--GGGT
* * * *
29326777 TTAGTGTTTTTAAGTT-AATTAGGTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAAGTTTA
1 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTTTA
* * *
29326841 GGGTTTTTAAGTTTAGGGTTTTAATTAAATTAGGTTAAGGTTTTTAAGTTTAGGGT
65 GGG--TTTAA----A-GTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGGGT
* * *
29326897 TTAGGGTTTTTAATTAAATTAGGTTAGTGTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTTAA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTTT-A
* * * ***
29326961 TTAGG-TTAAGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGGGT
65 --GGGTTTAAAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGGGT
*
29327011 TTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTT
29327050 TAGGGTTTAG
Statistics
Matches: 233, Mismatches: 26, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
114 126 0.54
115 2 0.01
116 5 0.02
119 11 0.05
120 55 0.24
121 29 0.12
122 5 0.02
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (113 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAATGAGGTTAGGGTTTTTAAGTTTAG
GGTTTAAAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGGGT
Found at i:29326793 original size:91 final size:89
Alignment explanation
Indices: 29326638--29327190 Score: 419
Period size: 91 Copynumber: 6.0 Consensus size: 89
29326628 TATTAATTTA
* *
29326638 GTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAAGTTA
1 GTTTAGGGTTTTTAATT-TATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
29326703 AGGGGGTTAGGGTTTTTAAGTTTAGG
65 A-GGGGTTAGGGTTTTTAAGTTTAGG
** *
29326729 GTTTAAAGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGTGTTTTTAAGTTA
1 GTTTAGGGTTTTTAATTT-ATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
** *
29326794 ATTAGGTTAGGGTTTTTAA-TTTA-A
65 A-GGGGTTAGGGTTTTTAAGTTTAGG
* * ** * * *
29326818 TTAAGTTAGGGTTTTTAAGTTTAGGGTTTTTAAGTTTA--GGGTTTTAATTAAATTAGGTTAAGG
1 GT---TTAGGGTTTTTAA-TTTA------TT-AGGTTAGGGTTTTTAATTTA-ATTAGGTTAGGG
* * *
29326881 TTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTA-G
54 TTTTTAAGTTAAGGGGTTAGGGTTTTTAAGT---TTAGG
* *
29326919 G-TTAGTGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAAGGTTTTTAAGTTA
1 GTTTAGGGTTTTTAATTT-ATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTA
29326983 AGGGGGTTAGGGTTTTTAAGTTTAGG
65 A-GGGGTTAGGGTTTTTAAGTTTAGG
* * * *
29327009 GTTTAAGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTT-A--GGGTTTAGGGGTTTTAA-T
1 GTTTAGGGTTTTTAATT-TATTAGGTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGT
** *
29327070 TAAATTAGGTTAGGGTTTTTAAGTTTAGA
63 T-AA-GGGGTTAGGGTTTTTAAGTTTAGG
* * * * * *** *
29327099 GTTTAGGGTTTTTAAGTTAATAGGTTAGTGCTTTTAAGTTAAGGGGGCTAGGGTTTTTAA-TTAA
1 GTTTAGGGTTTTTAATTTATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTT-A
**
29327163 ATTAGGTTAGGGTTTTTAA-TTTAAGG
65 A-GGGGTTAGGGTTTTTAAGTTT-AGG
29327189 GT
1 GT
29327191 ATTAATGGTT
Statistics
Matches: 377, Mismatches: 54, Indels: 63
0.76 0.11 0.13
Matches are distributed among these distances:
88 2 0.01
89 28 0.07
90 98 0.26
91 136 0.36
92 40 0.11
93 3 0.01
96 3 0.01
97 35 0.09
98 24 0.06
99 5 0.01
101 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.48
Consensus pattern (89 bp):
GTTTAGGGTTTTTAATTTATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
GGGGTTAGGGTTTTTAAGTTTAGG
Found at i:29326864 original size:14 final size:15
Alignment explanation
Indices: 29326818--29326862 Score: 83
Period size: 15 Copynumber: 3.1 Consensus size: 15
29326808 TTTAATTTAA
29326818 TTAAG-TTAGGGTTT
1 TTAAGTTTAGGGTTT
29326832 TTAAGTTTAGGGTTT
1 TTAAGTTTAGGGTTT
29326847 TTAAGTTTAGGGTTT
1 TTAAGTTTAGGGTTT
29326862 T
1 T
29326863 AATTAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (15 bp):
TTAAGTTTAGGGTTT
Found at i:29326909 original size:166 final size:159
Alignment explanation
Indices: 29326707--29327158 Score: 613
Period size: 166 Copynumber: 2.8 Consensus size: 159
29326697 AAGTTAAGGG
** *
29326707 GGTTAGGGTTTTTAAGTTTAGGGTTTAAAGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAA
1 GGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAA
* * **
29326772 TTAGGTTAGTGTTTTTAAGTTAATTAGGTTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAAG
66 TTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGAAGTTAGGGTTTTTAAG
29326837 TTTAGGGTTTTTAAGTTTAGGGTTTTAATTAAATTA
131 TTTAGGG--TTT-A----AGGGTTTTAATTAAATTA
* *
29326873 GGTTAAGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGTGTTTTTAATTTAA
1 GGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAA
* * **
29326938 TTAGGTTAGGGTTTTTAATTTAATTAGGTTAAGGTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAG
66 TTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGAAGTTAGGGTTTTTAAG
*
29327003 TTTAGGGTTTAAGGTTTTTAATTAAATTA
131 TTTAGGGTTTAAGGGTTTTAATTAAATTA
*
29327032 GGTTAGGGTTTTTAAGTTTAGGGTTTAGGGGTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTT-
1 GGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTTA
* * * * ** *
29327096 A-GAGTTTAGGGTTTTTAAGTTAA-TAGGTTAGTGCTTTTAAGTTAAGGGGGCTAGGGTTTTTAA
65 ATTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGAAGTTAGGGTTTTTAA
29327159 TTAAATTAGG
Statistics
Matches: 261, Mismatches: 24, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
157 36 0.14
158 19 0.07
159 75 0.29
160 3 0.01
163 1 0.00
164 3 0.01
166 124 0.48
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (159 bp):
GGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAA
TTAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGAAGTTAGGGTTTTTAAG
TTTAGGGTTTAAGGGTTTTAATTAAATTA
Found at i:29327023 original size:45 final size:45
Alignment explanation
Indices: 29326925--29327200 Score: 278
Period size: 45 Copynumber: 6.1 Consensus size: 45
29326915 TTAGGTTAGT
* *
29326925 GTTTTTAATTTAATTAGGTTAGGGTTTTTAA-TTTAATTAGG-TTAAG
1 GTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTT-A--GGGTTTAAG
***
29326971 GTTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGGGTTTAAG
1 GTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAG
*
29327016 GTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGG
1 GTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAG
* * *
29327061 GGTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTAGAGTTTAGG
1 GTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAG
* * * ** *
29327106 GTTTTTAAGTTAA-TAGGTTAGTGCTTTTAAGTTAAGGGGGCTAGG
1 GTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTA-GGGTTTAAG
29327151 GTTTTTAA-TTAAATTAGGTTAGGGTTTTTAA-TTTAAGGGTATTAATG
1 GTTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTT-AGGGT-TTAA-G
29327198 GTT
1 GTT
29327201 AGTAGAATTC
Statistics
Matches: 196, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
44 25 0.13
45 116 0.59
46 48 0.24
47 7 0.04
ACGTcount: A:0.26, C:0.01, G:0.26, T:0.47
Consensus pattern (45 bp):
GTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAAG
Found at i:29327259 original size:25 final size:25
Alignment explanation
Indices: 29327229--29327276 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
29327219 TATCAAAAAT
29327229 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
*
29327254 TTCTATTTTATTATATCAAATAA
1 TTCTATTTTATTACATCAAATAA
29327277 TATCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:29327730 original size:18 final size:18
Alignment explanation
Indices: 29327707--29327744 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
29327697 CTCGAAAAAT
*
29327707 GATACATATAAGGGTTAG
1 GATACATATAAGGGCTAG
29327725 GATACATATAAGGGCTAG
1 GATACATATAAGGGCTAG
29327743 GA
1 GA
29327745 AACGCACCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.08, G:0.29, T:0.24
Consensus pattern (18 bp):
GATACATATAAGGGCTAG
Found at i:29328405 original size:7 final size:7
Alignment explanation
Indices: 29328395--29328419 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29328385 TTATATACAT
29328395 AATACTA
1 AATACTA
29328402 AATACTA
1 AATACTA
29328409 AATACTA
1 AATACTA
29328416 AATA
1 AATA
29328420 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:29328627 original size:20 final size:20
Alignment explanation
Indices: 29328590--29328627 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
29328580 TTTATTTTTA
*
29328590 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
29328610 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
29328628 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:29329544 original size:12 final size:12
Alignment explanation
Indices: 29329520--29329562 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
29329510 ATTTTTACGG
29329520 TTTAAAAAA-AT
1 TTTAAAAAATAT
29329531 TTTAAAAAATAT
1 TTTAAAAAATAT
* *
29329543 TTTTAAAATTA-
1 TTTAAAAAATAT
29329554 TTTAAAAAA
1 TTTAAAAAA
29329563 AGAGAGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:29329585 original size:11 final size:11
Alignment explanation
Indices: 29329569--29329599 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
29329559 AAAAAGAGAG
29329569 TTAAGAGAAAC
1 TTAAGAGAAAC
*
29329580 TTAAGAGGAAC
1 TTAAGAGAAAC
29329591 TTAAGAGAA
1 TTAAGAGAA
29329600 TTTTTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:29329646 original size:14 final size:11
Alignment explanation
Indices: 29329607--29329642 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
29329597 GAATTTTTTA
29329607 AGGAAATTGAG
1 AGGAAATTGAG
29329618 AGGAAATTGAG
1 AGGAAATTGAG
29329629 AGGAAATTTGAG
1 AGGAAA-TTGAG
29329641 AG
1 AG
29329643 AGGATTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 17 0.71
12 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:29336504 original size:5 final size:5
Alignment explanation
Indices: 29336490--29336526 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
29336480 TATTGCAAAT
*
29336490 AATTA AA-TA AAATA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA AAT
29336527 AGATAAAGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATTA
Found at i:29337063 original size:9 final size:9
Alignment explanation
Indices: 29337036--29337118 Score: 71
Period size: 10 Copynumber: 8.8 Consensus size: 9
29337026 TACATAATTT
29337036 AAAATATTA
1 AAAATATTA
29337045 CAAAATTATTA
1 -AAAA-TATTA
29337056 AAAATATTCA
1 AAAATATT-A
29337066 AAAATA-TA
1 AAAATATTA
*
29337074 AAAAAATTA
1 AAAATATTA
29337083 TTAAAATCATTA
1 --AAAAT-ATTA
*
29337095 AAAAT-GTA
1 AAAATATTA
*
29337103 AAATTATTA
1 AAAATATTA
29337112 AAAATAT
1 AAAATAT
29337119 ATTAAAATGT
Statistics
Matches: 60, Mismatches: 6, Indels: 15
0.74 0.07 0.19
Matches are distributed among these distances:
8 12 0.20
9 15 0.25
10 20 0.33
11 9 0.15
12 4 0.07
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATATTA
Found at i:29337070 original size:30 final size:28
Alignment explanation
Indices: 29337036--29337118 Score: 91
Period size: 30 Copynumber: 2.9 Consensus size: 28
29337026 TACATAATTT
29337036 AAAATATTACAAAATTATTAAAAATATTCA
1 AAAATATTA-AAAATTATTAAAAATATT-A
*
29337066 AAAATATAAAAAAATTATT-AAAATCATTA
1 AAAATAT-TAAAAATTATTAAAAAT-ATTA
*
29337095 AAAAT-GT-AAAATTATTAAAAATAT
1 AAAATATTAAAAATTATTAAAAATAT
29337119 ATTAAAATGT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
26 11 0.23
27 5 0.11
29 11 0.23
30 19 0.40
31 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAATATTAAAAATTATTAAAAATATTA
Found at i:29337106 original size:17 final size:17
Alignment explanation
Indices: 29337084--29337116 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29337074 AAAAAATTAT
29337084 TAAAATCATTAAAAATG
1 TAAAATCATTAAAAATG
*
29337101 TAAAATTATTAAAAAT
1 TAAAATCATTAAAAAT
29337117 ATATTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAATCATTAAAAATG
Found at i:29337126 original size:10 final size:10
Alignment explanation
Indices: 29337046--29337126 Score: 50
Period size: 9 Copynumber: 8.5 Consensus size: 10
29337036 AAAATATTAC
29337046 AAAAT-TATT
1 AAAATATATT
29337055 AAAA-ATATT
1 AAAATATATT
*
29337064 CAAAA-ATATA
1 -AAAATATATT
*
29337074 AAAAAATTATT
1 AAAATA-TATT
*
29337085 AAAAT-CATT
1 AAAATATATT
*
29337094 AAAA-AT-GT
1 AAAATATATT
29337102 AAAAT-TATT
1 AAAATATATT
29337111 AAAAATATATT
1 -AAAATATATT
29337122 AAAAT
1 AAAAT
29337127 GTGAAAAAGA
Statistics
Matches: 56, Mismatches: 7, Indels: 17
0.70 0.09 0.21
Matches are distributed among these distances:
8 6 0.11
9 20 0.36
10 19 0.34
11 11 0.20
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAATATATT
Found at i:29337839 original size:30 final size:32
Alignment explanation
Indices: 29337804--29337874 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
29337794 GTCAAATAAT
*
29337804 ATTAAAA-TAATT-TAGACTAATCAGAGTTTG
1 ATTAAAACAAATTCTAGACTAATCAGAGTTTG
29337834 ATTAAAACAAATTCTAGACTAATCAGAGTTTG
1 ATTAAAACAAATTCTAGACTAATCAGAGTTTG
*
29337866 ATTGAAACA
1 ATTAAAACA
29337875 GATAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.19
31 4 0.11
32 26 0.70
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (32 bp):
ATTAAAACAAATTCTAGACTAATCAGAGTTTG
Found at i:29339953 original size:21 final size:21
Alignment explanation
Indices: 29339927--29339966 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
29339917 GAGTACATGG
29339927 ATAAA-TTTTAGATAACTTTGT
1 ATAAATTTTTA-ATAACTTTGT
29339948 ATAAATTTTTAATAACTTT
1 ATAAATTTTTAATAACTTT
29339967 TTAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAAATTTTTAATAACTTTGT
Found at i:29339967 original size:11 final size:11
Alignment explanation
Indices: 29339932--29339973 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
29339922 CATGGATAAA
29339932 TTTTAGATAACT
1 TTTTA-ATAACT
* *
29339944 TTGT-ATAAAT
1 TTTTAATAACT
29339954 TTTTAATAACT
1 TTTTAATAACT
29339965 TTTTAATAA
1 TTTTAATAA
29339974 TTTCATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 8 0.32
11 14 0.56
12 3 0.12
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (11 bp):
TTTTAATAACT
Found at i:29339975 original size:21 final size:21
Alignment explanation
Indices: 29339927--29339976 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
29339917 GAGTACATGG
*
29339927 ATAAATTTTAGATAACTTTGT
1 ATAATTTTTAGATAACTTTGT
*
29339948 ATAAATTTTTA-ATAACTTTTT
1 AT-AATTTTTAGATAACTTTGT
29339969 AATAATTT
1 -ATAATTT
29339977 CATAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
ATAATTTTTAGATAACTTTGT
Found at i:29341876 original size:24 final size:23
Alignment explanation
Indices: 29341849--29341900 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
29341839 GGAGTTTGCA
*
29341849 GATAAAAGCTGCCGGTAATTTGTG
1 GATAAAA-CTGCCAGTAATTTGTG
29341873 GAT-AAACTGCCAGTAATTTGTG
1 GATAAAACTGCCAGTAATTTGTG
29341895 GATAAA
1 GATAAA
29341901 CCACCAGTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 18 0.69
23 5 0.19
24 3 0.12
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (23 bp):
GATAAAACTGCCAGTAATTTGTG
Found at i:29341888 original size:22 final size:22
Alignment explanation
Indices: 29341857--29341901 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
29341847 CAGATAAAAG
*
29341857 CTGCCGGTAATTTGTGGATAAA
1 CTGCCAGTAATTTGTGGATAAA
29341879 CTGCCAGTAATTTGTGGATAAA
1 CTGCCAGTAATTTGTGGATAAA
29341901 C
1 C
29341902 CACCAGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (22 bp):
CTGCCAGTAATTTGTGGATAAA
Found at i:29341907 original size:22 final size:22
Alignment explanation
Indices: 29341863--29341908 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
29341853 AAAGCTGCCG
**
29341863 GTAATTTGTGGATAAACTGCCA
1 GTAATTTGTGGATAAACCACCA
29341885 GTAATTTGTGGATAAACCACCA
1 GTAATTTGTGGATAAACCACCA
29341907 GT
1 GT
29341909 GTTTGTAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (22 bp):
GTAATTTGTGGATAAACCACCA
Found at i:29351147 original size:9 final size:9
Alignment explanation
Indices: 29351128--29351157 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
29351118 TTTCGACAAG
29351128 AAAAATAAA
1 AAAAATAAA
29351137 AAAAGATAAA
1 AAAA-ATAAA
29351147 AAAAATAAA
1 AAAAATAAA
29351156 AA
1 AA
29351158 TTAAACTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (9 bp):
AAAAATAAA
Found at i:29358433 original size:15 final size:16
Alignment explanation
Indices: 29358407--29358436 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
29358397 ATAAAATTTA
29358407 TTTTACTTTACTTAAG
1 TTTTACTTTACTTAAG
29358423 TTTTA-TTTACTTAA
1 TTTTACTTTACTTAA
29358437 TTACTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTTACTTTACTTAAG
Found at i:29365163 original size:20 final size:20
Alignment explanation
Indices: 29365138--29365180 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
29365128 TTGGTTGTAA
29365138 AAATAGTAAAAGTTCAAGTT
1 AAATAGTAAAAGTTCAAGTT
*
29365158 AAATAGTAAAAGTTTAAGTT
1 AAATAGTAAAAGTTCAAGTT
29365178 AAA
1 AAA
29365181 GCCAAATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.30
Consensus pattern (20 bp):
AAATAGTAAAAGTTCAAGTT
Found at i:29379787 original size:39 final size:39
Alignment explanation
Indices: 29379679--29379794 Score: 160
Period size: 39 Copynumber: 3.0 Consensus size: 39
29379669 AATTTAGTTT
* * *
29379679 GAGTCTTCAATTATGTCATAATTTGAAAATCATTAATAT
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* *
29379718 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* * *
29379757 GAGTCTTTAATTATGTCATAGTTTGGACATCTTTAATA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATA
29379795 CATGTTTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (39 bp):
GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
Found at i:29386803 original size:19 final size:20
Alignment explanation
Indices: 29386771--29386811 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
29386761 CTGAATTTTA
29386771 TTTTATTTGGTTTTATTTATT
1 TTTTATTT-GTTTTATTTATT
*
29386792 TTTTATTT-TTTTGTTTATT
1 TTTTATTTGTTTTATTTATT
29386811 T
1 T
29386812 AATCTGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTATTTGTTTTATTTATT
Found at i:29389095 original size:39 final size:39
Alignment explanation
Indices: 29388981--29389096 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
29388971 AATTTAGCTT
* *
29388981 GAGTCTTTAATTATGTCATAATTTGAACATCATTAACAT
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* *
29389020 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* * *
29389059 GAGTCTTTAATTATGTCATAGTTTGGACATCTTTAATA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATA
29389097 CATGTTTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (39 bp):
GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
Found at i:29394887 original size:28 final size:28
Alignment explanation
Indices: 29394855--29394926 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
29394845 TTTAATAAGT
* *
29394855 TCGCACACTTATTGCTTTTCAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
29394883 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
29394911 TCGTACACTTAGTGCT
1 TCGCACACTTAGTGCT
29394927 AATCTCTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:29400407 original size:20 final size:20
Alignment explanation
Indices: 29400379--29400416 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
29400369 AAATGGGTCC
29400379 AAAACCATAATTTTTTTAAA
1 AAAACCATAATTTTTTTAAA
* *
29400399 AAAATCATATTTTTTTTA
1 AAAACCATAATTTTTTTA
29400417 TCAAATTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAACCATAATTTTTTTAAA
Found at i:29402164 original size:39 final size:37
Alignment explanation
Indices: 29402102--29402174 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
29402092 GTTATACATA
* *
29402102 AATTTTGATTCAATATGCAATTTAATATATAAATTTT
1 AATTTTGATTCAATATGCAATTTAAAAAATAAATTTT
*
29402139 AATTTTGATTCAATTATGTATATTTAAAAAATAAAT
1 AATTTTGATTCAA-TATGCA-ATTTAAAAAATAAAT
29402175 ATATCAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 13 0.42
38 5 0.16
39 13 0.42
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (37 bp):
AATTTTGATTCAATATGCAATTTAAAAAATAAATTTT
Found at i:29403062 original size:19 final size:19
Alignment explanation
Indices: 29403038--29403090 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
29403028 GTTCGATAAA
29403038 TTATATTTTTTAAATTAAT
1 TTATATTTTTTAAATTAAT
* ** *
29403057 TTATATTTTTAAAAAGATT
1 TTATATTTTTTAAATTAAT
29403076 TTA-ATTTTTTAAATT
1 TTATATTTTTTAAATT
29403091 TATGTCTGCC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATTTTTTAAATTAAT
Found at i:29404256 original size:37 final size:38
Alignment explanation
Indices: 29404161--29404258 Score: 90
Period size: 40 Copynumber: 2.6 Consensus size: 38
29404151 ACACACCAGT
* **
29404161 TTGGCACCCAATGCCTCATCAGATAATTCGAAGTAATAAA
1 TTGGCACCCAATGCCTCATCGGATAACCCGAAG--ATAAA
* * * * * *
29404201 TTGACAACTAGTGTCTCATCGGCTAACCCGAAG-TAAA
1 TTGGCACCCAATGCCTCATCGGATAACCCGAAGATAAA
29404238 TTGGCACCCAATGCCTCATCG
1 TTGGCACCCAATGCCTCATCG
29404259 AATTAATCTA
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
37 20 0.45
40 24 0.55
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (38 bp):
TTGGCACCCAATGCCTCATCGGATAACCCGAAGATAAA
Found at i:29405319 original size:15 final size:15
Alignment explanation
Indices: 29405269--29405319 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
29405259 TTTGTTTTAT
*
29405269 TATTATTATAATATA
1 TATTAATATAATATA
29405284 TATTAAGTA-AACT-TA
1 TATTAA-TATAA-TATA
*
29405299 TTTTAATATAATATA
1 TATTAATATAATATA
29405314 TATTAA
1 TATTAA
29405320 ATTCTCCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TATTAATATAATATA
Found at i:29422173 original size:30 final size:30
Alignment explanation
Indices: 29422137--29422236 Score: 155
Period size: 33 Copynumber: 3.2 Consensus size: 30
29422127 GGTACCTCTC
29422137 TTTTTTTTGTAATGATGTTAAGATAAACTGA
1 TTTTTTTT-TAATGATGTTAAGATAAACTGA
29422168 TTTTTTTTTAATGATGTTAAGATAAACTGCAA
1 TTTTTTTTTAATGATGTTAAGATAAACTG--A
*
29422200 TTTTTGTTTTAGTGATGTTAAGATAAACTGA
1 TTTTT-TTTTAATGATGTTAAGATAAACTGA
29422231 TTTTTT
1 TTTTTT
29422237 AAACCCATTT
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
30 22 0.34
31 14 0.22
32 6 0.09
33 23 0.35
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (30 bp):
TTTTTTTTTAATGATGTTAAGATAAACTGA
Found at i:29422174 original size:33 final size:31
Alignment explanation
Indices: 29422137--29422236 Score: 148
Period size: 30 Copynumber: 3.2 Consensus size: 31
29422127 GGTACCTCTC
*
29422137 TTTTTTTTGTAATGATGTTAAGATAAACTGA
1 TTTTTTTTTTAATGATGTTAAGATAAACTGA
29422168 -TTTTTTTTTAATGATGTTAAGATAAACTGCAA
1 TTTTTTTTTTAATGATGTTAAGATAAACTG--A
* *
29422200 TTTTTGTTTTAGTGATGTTAAGATAAACTGA
1 TTTTTTTTTTAATGATGTTAAGATAAACTGA
29422231 TTTTTT
1 TTTTTT
29422237 AAACCCATTT
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
30 28 0.45
31 6 0.10
32 1 0.02
33 27 0.44
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (31 bp):
TTTTTTTTTTAATGATGTTAAGATAAACTGA
Found at i:29425961 original size:69 final size:69
Alignment explanation
Indices: 29425779--29426110 Score: 224
Period size: 69 Copynumber: 4.8 Consensus size: 69
29425769 GAGTTTTCAA
* * ** * *
29425779 CTCTCGCAAACTAG-GTTGGAGGCTGCGA-TTTTTATCTTGTTAGCCCTAGTATGACAGTTGGGA
1 CTCTCGCTAAC-AGTGTTGGAGGCTGCGACTTTTTA-CCTGCAAGCCCTAATATGACAGCTGGGA
29425842 GCTTT-
64 GCTTTG
* * * * * * * * * *
29425847 CTTCTCGCTAACTA-TGTTAGATGTTGCG-GTTTTTCACTTGTAAGCCCTAGTATTATAGTTGGG
1 C-TCTCGCTAAC-AGTGTTGGAGGCTGCGACTTTTT-ACCTGCAAGCCCTAATATGACAGCTGGG
29425910 AGCTTTG
63 AGCTTTG
* * * * *
29425917 TTCTCACTAACAGTGTTGGAGGCTGTGACTTTTTACCTGCAAGCCTTAATATGACAGCTAGGAGC
1 CTCTCGCTAACAGTGTTGGAGGCTGCGACTTTTTACCTGCAAGCCCTAATATGACAGCTGGGAGC
29425982 TTTG
66 TTTG
* * * * * * * * * * *
29425986 CTCTTGCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTACGAGCCTTAATATTACAGCTGGGAGT
1 CTCTCGCTAACAGTGTTGGAGGCTGCGACTTTTTACCTGCAAGCCCTAATATGACAGCTGGGAGC
29426051 TTTG
66 TTTG
* * * * ** * *
29426055 CTCTCGCTAACTGTGTTGGACGCTGCAACTCTTCCCCTGAAAGCCTTAATATGACA
1 CTCTCGCTAACAGTGTTGGAGGCTGCGACTTTTTACCTGCAAGCCCTAATATGACA
29426111 TAAATGTTGT
Statistics
Matches: 211, Mismatches: 46, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
68 2 0.01
69 203 0.96
70 6 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (69 bp):
CTCTCGCTAACAGTGTTGGAGGCTGCGACTTTTTACCTGCAAGCCCTAATATGACAGCTGGGAGC
TTTG
Found at i:29432668 original size:17 final size:17
Alignment explanation
Indices: 29432646--29432683 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
29432636 GATTGAAACC
29432646 TAAAACCCCAT-TTAATT
1 TAAAA-CCCATATTAATT
*
29432663 TAAAACCCTTATTAATT
1 TAAAACCCATATTAATT
29432680 TAAA
1 TAAA
29432684 TAATTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAACCCATATTAATT
Found at i:29432771 original size:89 final size:89
Alignment explanation
Indices: 29432609--29432778 Score: 250
Period size: 89 Copynumber: 1.9 Consensus size: 89
29432599 TACAAAGCCT
* * *
29432609 TAACAATCGACGAGGTTAATTGGGAATGATTGAAACCTAAAACCCCATTTAATTTAAAACCCTTA
1 TAACAATCGACGAGGTTAATTCGGAATGATTGAAACCCAAAACCCCATTTAATTTAAAACCCGTA
*
29432674 TTAATTTAAATAATTATAAAATCC
66 ATAATTTAAATAATTATAAAATCC
* * * *
29432698 TAACAATCGAGGAGGTTAGTTCGGATTGATTGAAACCCAAAACCCCATTTAATTTGAAACCCGTA
1 TAACAATCGACGAGGTTAATTCGGAATGATTGAAACCCAAAACCCCATTTAATTTAAAACCCGTA
* *
29432763 ATAGTTTAAATGATTA
66 ATAATTTAAATAATTA
29432779 AGACCCAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.31
Consensus pattern (89 bp):
TAACAATCGACGAGGTTAATTCGGAATGATTGAAACCCAAAACCCCATTTAATTTAAAACCCGTA
ATAATTTAAATAATTATAAAATCC
Found at i:29434417 original size:21 final size:21
Alignment explanation
Indices: 29434391--29434438 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
29434381 GACTGCTAAC
29434391 TTTATTGAGTACATAATAATA
1 TTTATTGAGTACATAATAATA
* * *
29434412 TTTATTGATTATATAATAGTA
1 TTTATTGAGTACATAATAATA
29434433 TTTATT
1 TTTATT
29434439 TTAGATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (21 bp):
TTTATTGAGTACATAATAATA
Found at i:29434451 original size:24 final size:21
Alignment explanation
Indices: 29434391--29434452 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
29434381 GACTGCTAAC
* *
29434391 TTTATTGAGTACATAATAATA
1 TTTATTGATTAAATAATAATA
* *
29434412 TTTATTGATTATATAATAGTA
1 TTTATTGATTAAATAATAATA
29434433 TTTATTTTAGATTAAATAAT
1 TTTA--TT-GATTAAATAAT
29434453 TTAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.65
23 2 0.06
24 10 0.29
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (21 bp):
TTTATTGATTAAATAATAATA
Found at i:29437740 original size:50 final size:50
Alignment explanation
Indices: 29437665--29437759 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
29437655 CTCTAGTCTA
* * * * *
29437665 TGTGACTCTAAATCCAATAGAGTGAGTTATACGGCCTAGACACACACCCG
1 TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCCTAGACACACACCCG
* *
29437715 TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCTTGGACACAC
1 TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCCTAGACACAC
29437760 GCCTGTATCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (50 bp):
TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCCTAGACACACACCCG
Found at i:29437820 original size:63 final size:63
Alignment explanation
Indices: 29437715--29437860 Score: 193
Period size: 63 Copynumber: 2.3 Consensus size: 63
29437705 CACACACCCG
* * * * * * * **
29437715 TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCTTGGACACACGCCTGTATCTTTGGCCCA
1 TGTGACCCTAAAGCCAAAACAATGAGTTACACGACCTAGACACACACATATATCCCTGGCCCA
* *
29437778 TGTGACCTTAAAGCCAAAACAATGAGTTACACGACCTAGACACACACATATGTCCCTGGCCCA
1 TGTGACCCTAAAGCCAAAACAATGAGTTACACGACCTAGACACACACATATATCCCTGGCCCA
29437841 TGTGACCCTAAAGCCAAAAC
1 TGTGACCCTAAAGCCAAAAC
29437861 CATACGATCA
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 71 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.20
Consensus pattern (63 bp):
TGTGACCCTAAAGCCAAAACAATGAGTTACACGACCTAGACACACACATATATCCCTGGCCCA
Found at i:29442490 original size:17 final size:17
Alignment explanation
Indices: 29442468--29442604 Score: 61
Period size: 17 Copynumber: 7.9 Consensus size: 17
29442458 ACTTAATCAC
29442468 TTTAATATTAAATTTAA
1 TTTAATATTAAATTTAA
**
29442485 TTTAATATTTATCTTGTAGA
1 TTTAATA-TTAAATT-TA-A
* * *
29442505 -TAAATATTAAACTAAA
1 TTTAATATTAAATTTAA
*
29442521 TTTAATATTAAGATAATCAA
1 TTTAATATTAA-AT--TTAA
29442541 TTTAATATTAAA-TTAA
1 TTTAATATTAAATTTAA
**
29442557 --T-ATAGTTGTA-TTAA
1 TTTAATA-TTAAATTTAA
* *
29442571 TATAAATATTAAATTAAA
1 T-TTAATATTAAATTTAA
*
29442589 TTAAATATTAAATTTA
1 TTTAATATTAAATTTA
29442605 TTAAAATAAT
Statistics
Matches: 89, Mismatches: 18, Indels: 26
0.67 0.14 0.20
Matches are distributed among these distances:
13 3 0.03
14 8 0.09
16 4 0.04
17 34 0.38
18 17 0.19
19 8 0.09
20 15 0.17
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:29442588 original size:12 final size:12
Alignment explanation
Indices: 29442505--29442602 Score: 60
Period size: 12 Copynumber: 8.1 Consensus size: 12
29442495 ATCTTGTAGA
*
29442505 TAAATATTAAAC
1 TAAATATTAAAT
29442517 TAAAT-TTAATAT
1 TAAATATTAA-AT
* *
29442529 TAAGATAATCAAT
1 TAA-ATATTAAAT
*
29442542 TTAATATTAAAT
1 TAAATATTAAAT
**
29442554 TAATATAGTTGTAT
1 TAA-ATA-TTAAAT
29442568 T-AATA-TAAAT
1 TAAATATTAAAT
*
29442578 ATTAA-ATTAAAT
1 -TAAATATTAAAT
29442590 TAAATATTAAAT
1 TAAATATTAAAT
29442602 T
1 T
29442603 TATTAAAATA
Statistics
Matches: 65, Mismatches: 12, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
10 3 0.05
11 9 0.14
12 36 0.55
13 10 0.15
14 7 0.11
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:29442612 original size:17 final size:17
Alignment explanation
Indices: 29442505--29442602 Score: 71
Period size: 17 Copynumber: 5.8 Consensus size: 17
29442495 ATCTTGTAGA
*
29442505 TAAATATTAAACTAAAT
1 TAAATATTAAATTAAAT
*
29442522 TTAATATTAAGA-T-AA-
1 TAAATATTAA-ATTAAAT
*
29442537 TCAAT-TTAATATTAAAT
1 TAAATATTAA-ATTAAAT
**
29442554 TAATATAGTTGTATT-AAT
1 TAA-ATA-TTAAATTAAAT
29442572 ATAAATATTAAATTAAAT
1 -TAAATATTAAATTAAAT
29442590 TAAATATTAAATT
1 TAAATATTAAATT
29442603 TATTAAAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
14 5 0.08
15 5 0.08
16 4 0.06
17 30 0.47
18 12 0.19
19 6 0.09
20 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:29448283 original size:265 final size:264
Alignment explanation
Indices: 29447782--29449852 Score: 2469
Period size: 265 Copynumber: 7.9 Consensus size: 264
29447772 TGCCTTTAGG
* * * *
29447782 TTGATCATTACAAATCTTATTCTAACCTTATTTTGCTAGTTGTTGTTTCTCCTTAAGGGTAATGA
1 TTGATCATTACAAATCTTATTCTAATCTTTTTTTGC-AGTTGTTGTTGCTCCATAAGGGTAATGA
* * * * *
29447847 TTCCTCATACTTTATGCGGTGTGCTTACGTATTTG-CCTTAATATAATACTGAAGGAACCTCTCT
65 TTCCTCATACTTTATGCAGTGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCCT
** * * * *
29447911 TTACTTTTCACACGTTCAATCGAAATTTGAGGGAATAAGAACATAATTACACATGTGAAATTTAG
130 TTGTTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTAAG
* * * *
29447976 TATTGATAACTTATTGAGACCAAATGTTGTGCAAGCATGATTTATAGCCCAAGACATACGTGGCT
195 TATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCT
29448041 TCACA
260 TCACA
29448046 TTGATCATTACAAATCTTATTCTAATCTTTTTTTGTCAGTTGTTGTTGCTCCATAAGGGTAATGA
1 TTGATCATTACAAATCTTATTCTAATCTTTTTTTG-CAGTTGTTGTTGCTCCATAAGGGTAATGA
* * * *
29448111 TGCCTCATACTTTATGCAGCGTGTTTACGTATTTGCCCTTAATATAATACTGAGGGAAGCTCCCT
65 TTCCTCATACTTTATGCAGTGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCCT
* * ** * *
29448176 TTGTTTTTCACACGTTCAACCAAAATTTGAGCGAACTAGAAAATAATTCCACAGGTGAAATTAAG
130 TTGTTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTAAG
* * * * ** **
29448241 TATTGATAACTTCTTAAGGTCAAATGTTGTACAAGTATGATTTATAGTCTGAGATTTACGTGCCT
195 TATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCT
*
29448306 TCACG
260 TCACA
* * * * * ** *
29448311 TTCATCATTAAAAATCTTATTCTAAT-TTTTTTTACCAATTTTTGTT-CTTTTATAAGGGTGATG
1 TTGATCATTACAAATCTTATTCTAATCTTTTTTT-GCAGTTGTTGTTGC-TCCATAAGGGTAATG
* * ** * *
29448374 GTTCCTCATACTTTATGCGGTGTGTTCCCGTATTTGCCCTTAACATAATACTAAGGGGACCT-CC
64 ATTCCTCATACTTTATGCAGTGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCC
* * * * * *
29448438 TATTGATTTTCACATGTTCAACCAAAATTT-AGAGGAAGAAGAACATAGTTACACATGTGAAAGT
129 T-TTGTTTTTCACACGTTCAACCGAAATTTGAG-GGAAGAAGAACATAATTACACAGGTGAAATT
* * *
29448502 AAGTATTGATAACTTTTTGAGGCCAAATGTTGTGCAAACATGATTTATAGTTCAAGACATACGTG
192 AAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTG
* *
29448567 TCTTCACG
257 CCTTCACA
*
29448575 TTGATCATTACAAATCCTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCATAAGGGTAATGA
1 TTGATCATTACAAATCTTATTCTAATCTTTTTTTG-CAGTTGTTGTTGCTCCATAAGGGTAATGA
** * * * * * *
29448640 TTATTTATACTTTATGCGGTGTGTTTATGTATTTGCTCTTAACATAATTCTGAAGGAACCTCCCT
65 TTCCTCATACTTTATGCAGTGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCCT
* * * *
29448705 TTATTTTTCACATGTTCAACCGAAATTTGAGGGAAGAAGAACGTAATTACACAAGTGAAATTAAG
130 TTGTTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTAAG
* * * *
29448770 TATTGATAACTTCTTGAGGCTAAATATTGTGCAAGCATGATGTATAGTCCAAGACATACGTGTCT
195 TATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCT
29448835 TCACA
260 TCACA
* * * * *
29448840 TTCATGATTACAAATTTTATTCTAAT-TTTTTTTGGCA---ATTGTTGCTCCATAAGGGCAATGA
1 TTGATCATTACAAATCTTATTCTAATCTTTTTTT-GCAGTTGTTGTTGCTCCATAAGGGTAATGA
* * * *
29448901 TTCCTCATACTTTATG-AGATATATTTACATATTT-CCCTTAACATAATACTGAGGGAACCTCCA
65 TTCCTCATACTTTATGCAG-TGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCC
* * * *
29448964 TTTGTTTTTTACACATTCAACTGGAAA-TTGAGGGAAAAAGAACATAATTACACAGGTGAAATTA
129 TTTGTTTTTCACACGTTCAAC-CGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTA
*
29449028 AGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATTCGTGC
193 AGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGC
* **
29449093 TTTCATG
258 CTTCACA
* * * * * **
29449100 TTGATCATTACAAATCTTGTTCTAATCTTGTTTTACTAGTTTTTGTTGCTCTATAAAAGTAATGA
1 TTGATCATTACAAATCTTATTCTAATCTTTTTTTGC-AGTTGTTGTTGCTCCATAAGGGTAATGA
* * * * *
29449165 TTCGTCATACTTTATGCAATGTGTTTACATATTCGCCCTTAACATAATATTGAGGGAACCTCCCT
65 TTCCTCATACTTTATGCAGTGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCCT
*
29449230 TTGCTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTAAG
130 TTGTTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTAAG
* * * *
29449295 TATTGATAACTTCTTGAGGCCAAATGTTATGCAAGCATGATTTATAATGCAAGACATATGTGCCT
195 TATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCT
*
29449360 TCATGA
260 TCA-CA
* * * * *
29449366 -TGATCATTACAAATCTTGTTTTAATCTTTTTTTGTTAGTTGTTGTTGC-CTTAGAAGGGTAATG
1 TTGATCATTACAAATCTTATTCTAATCTTTTTTTG-CAGTTGTTGTTGCTC-CATAAGGGTAATG
* * * * * *
29449429 ATTTCTTATACTTTATGCAGTGTGTTTTCGTATTTGCCCTTAACATAATACTGAAGGAACCTACT
64 ATTCCTCATACTTTATGCAGTGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCC
* * * * * * *
29449494 TTTGCTTTTCACACGTTCAACTGAAATTTGAGTGAAGGAGAATATAAATCCACAGGTGAAATTAA
129 TTTGTTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTAA
** * *
29449559 GTATTGATAACTTCTTGAGGCCAAATGTTGTATAAGC-------ATAGTCCGAA-ACACACATGC
194 GTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCC-AAGACATACGTGC
29449616 CTTCACA
258 CTTCACA
*
29449623 TTGATCATCACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCCATAAGGGTAATGA
1 TTGATCATTACAAATCTTATTCTAATCTTTTTTTGC-AGTTGTTGTTGCTCCATAAGGGTAATGA
* * * * * * *
29449688 TTCCTTATACTTTATGC-GATGTTTTTATGTATTTACCCTTAATATAATACTGAGGGAAGCTCCA
65 TTCCTCATACTTTATGCAG-TGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCC
* **
29449752 TTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAATGTAATTACACAGGTGAAATTAA
129 TTTGTTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTAA
* * *
29449817 GTATTGATAAGTTCTTGAGGCTAAATGTTATGCAAG
194 GTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAG
29449853 GGAGATTCTA
Statistics
Matches: 1539, Mismatches: 238, Indels: 66
0.84 0.13 0.04
Matches are distributed among these distances:
257 2 0.00
258 212 0.14
259 3 0.00
260 164 0.11
261 57 0.04
263 6 0.00
264 363 0.24
265 726 0.47
266 6 0.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (264 bp):
TTGATCATTACAAATCTTATTCTAATCTTTTTTTGCAGTTGTTGTTGCTCCATAAGGGTAATGAT
TCCTCATACTTTATGCAGTGTGTTTACGTATTTGCCCTTAACATAATACTGAGGGAACCTCCCTT
TGTTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAGGTGAAATTAAGT
ATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGACATACGTGCCTT
CACA
Found at i:29448769 original size:529 final size:525
Alignment explanation
Indices: 29447771--29449852 Score: 2474
Period size: 529 Copynumber: 4.0 Consensus size: 525
29447761 TGTTGTGCAT
* * * * * * * *
29447771 GTGCCTTTAGGTTGATCATTACAAATCTTATTCTAACCTTATTTTGCTAGTTGTTGTTTCTCCT-
1 GTGCCTTCACGTTCATCATTACAAATCTTATTCTAA-TTTTTTTTGCCAATTGTTG-TTCT-TTA
* *
29447835 TAAGGGTAATGATTCCTCATACTTTATGCGGTGTGCTTACGTATTTG-CCTTAATATAATACTGA
63 TAAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGA
* *
29447899 AGGAACCTCTCT-TT-ACTTTTCACACGTTCAATCGAAATTTGAGGGAATAAGAACATAATTACA
128 AGGAACCTC-CTATTGA-TTTTCACACGTTCAACCGAAATTTGA-GGAAGAAGAACATAATTACA
* * * * * *
29447962 CATGTGAAATTTAGTATTGATAACTTATTGAGACCAAATGTTGTGCAAGCATGATTTATAGCCCA
190 CAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAACATGATTTATAGTCCA
*
29448027 AGACATACGTGGCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGTCAGTTGTTGT
255 AGACATACGT-GCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGT
* ** *
29448092 TGCTCCATAAGGGTAATGATGCCTCATACTTTATGCAGCGTGTTTACGTATTTGCCCTTAATATA
319 TGCTCCATAAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATA
* * ** *
29448157 ATACTGAGGGAAGCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGCGAACTAGAAAATAA
384 ATACTGAGGGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAA
* * * *
29448222 TTCCACAGGTGAAATTAAGTATTGATAACTTCTTAAGG-TCAAATGTTGTACAAGTATGATTTAT
449 TTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCT-AAATGTTGTGCAAGCATGATTTAT
* **
29448286 AGTCTGAGATTTAC
513 AGTC-AAGACATAC
* * *
29448300 GTGCCTTCACGTTCATCATTAAAAATCTTATTCTAATTTTTTTTACCAATTTTTGTTCTTTTATA
1 GTGCCTTCACGTTCATCATTACAAATCTTATTCTAATTTTTTTTGCCAATTGTTGTTC-TTTATA
* * **
29448365 AGGGTGATGGTTCCTCATACTTTATGCGGTGTGTTCCCGTATTTGCCCTTAACATAATACT-AAG
65 AGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAA-
* * * * *
29448429 GGGACCTCCTATTGATTTTCACATGTTCAACCAAAATTTAGAGGAAGAAGAACATAGTTACACAT
129 GGAACCTCCTATTGATTTTCACACGTTCAACCGAAATTT-GAGGAAGAAGAACATAATTACACAG
* * *
29448494 GTGAAAGTAAGTATTGATAACTTTTTGAGGCCAAATGTTGTGCAAACATGATTTATAGTTCAAGA
193 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAACATGATTTATAGTCCAAGA
* *
29448559 CATACGTGTCTTCACGTTGATCATTACAAATCCTATTCTAATCTTTTTTTGCCAGTTGTTGTTGC
258 CATACGTG-CTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGC
** * ** * * *
29448624 TCCATAAGGGTAATGATTATTTATACTTTATGCGGTGTGTTTATGTATTTGCTCTTAACATAATT
322 TCCATAAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATAATA
* * * * *
29448689 CTGAAGGAACCTCCCTTTATTTTTCACATGTTCAACCGAAATTTGAGGGAAGAAGAACGTAATTA
387 CTGAGGGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTA
* * *
29448754 CACAAGTGAAATTAAGTATTGATAACTTCTTGAGGCTAAATATTGTGCAAGCATGATGTATAGTC
452 CACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGT-
29448819 CAAGACATAC
516 CAAGACATAC
* * * * * **
29448829 GTGTCTTCACATTCATGATTACAAATTTTATTCTAATTTTTTTTGGCAATTGTTG--CTCCATAA
1 GTGCCTTCACGTTCATCATTACAAATCTTATTCTAATTTTTTTTGCCAATTGTTGTTCTTTATAA
* * * * * * *
29448892 GGGCAATGATTCCTCATACTTTATGAGATATATTTACATATTT-CCCTTAACATAATACTGAGGG
66 GGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAAGG
* * * * *
29448956 AACCTCC-ATTTGTTTTTTACACATTCAACTGGAAA-TTGAGGGAAAAAGAACATAATTACACAG
131 AACCTCCTA-TTGATTTTCACACGTTCAAC-CGAAATTTGA-GGAAGAAGAACATAATTACACAG
*
29449019 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGA
193 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAACATGATTTATAGTCCAAGA
* ** * * * * *
29449084 CATTCGTGCTTTCATGTTGATCATTACAAATCTTGTTCTAATCTTGTTTTACTAGTTTTTGTTGC
258 CATACGTGC-TTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGC
* ** * * *
29449149 TCTATAAAAGTAATGATTCGTCATACTTTATGCAATGTGTTTACATATTCGCCCTTAACATAATA
322 TCCATAAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATAATA
* * *
29449214 TTGAGGGAACCTCCCTTTGCTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTA
387 CTGAGGGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTA
* * *
29449279 CACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAGCATGATTTATAATG
452 CACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGT-
*
29449344 CAAGACATAT
516 CAAGACATAC
* * * * * ** * * *
29449354 GTGCCTTCATGATGATCATTACAAATCTTGTTTTAATCTTTTTTTGTTAGTTGTTGTTGCCTTAG
1 GTGCCTTCACGTTCATCATTACAAATCTTATTCTAAT-TTTTTTTGCCAATTGTTGTT-CTTTAT
* * * *
29449419 AAGGGTAATGATTTCTTATACTTTATGCAGTGTGTTTTCGTATTTGCCCTTAACATAATACTGAA
64 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAA
* * * * * * * *
29449484 GGAACCTACTTTTGCTTTTCACACGTTCAACTGAAATTTGAGTGAAGGAGAATATAAATCCACAG
129 GGAACCTCCTATTGATTTTCACACGTTCAACCGAAATTTGAG-GAAGAAGAACATAATTACACAG
* *
29449549 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGT--ATA-A-G---CATAGTCCGAA-
193 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAACATGATTTATAGTCC-AAG
* * * *
29449606 ACACACATGCCTTCACATTGATCATCACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTG
257 ACATACGTG-CTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTG
* * * * * *
29449671 CTCCATAAGGGTAATGATTCCTTATACTTTATGCGATGTTTTTATGTATTTACCCTTAATATAAT
321 CTCCATAAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATAAT
* * **
29449736 ACTGAGGGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAATGTAATT
386 ACTGAGGGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATT
* *
29449801 ACACAGGTGAAATTAAGTATTGATAAGTTCTTGAGGCTAAATGTTATGCAAG
451 ACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAG
29449853 GGAGATTCTA
Statistics
Matches: 1323, Mismatches: 205, Indels: 56
0.84 0.13 0.04
Matches are distributed among these distances:
523 221 0.17
524 7 0.01
525 384 0.29
526 58 0.04
527 6 0.00
528 62 0.05
529 475 0.36
530 110 0.08
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (525 bp):
GTGCCTTCACGTTCATCATTACAAATCTTATTCTAATTTTTTTTGCCAATTGTTGTTCTTTATAA
GGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAAGG
AACCTCCTATTGATTTTCACACGTTCAACCGAAATTTGAGGAAGAAGAACATAATTACACAGGTG
AAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAACATGATTTATAGTCCAAGACAT
ACGTGCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCA
TAAGGGTAATGATTCCTCATACTTTATGCAATGTGTTTACGTATTTGCCCTTAACATAATACTGA
GGGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTACACA
GGTGAAATTAAGTATTGATAACTTCTTGAGGCTAAATGTTGTGCAAGCATGATTTATAGTCAAGA
CATAC
Found at i:29449314 original size:790 final size:790
Alignment explanation
Indices: 29447771--29449852 Score: 2674
Period size: 790 Copynumber: 2.6 Consensus size: 790
29447761 TGTTGTGCAT
* * * * * *
29447771 GTGCCTTTAGGTTGATCATTACAAATCTTATTCTAACCTTATTTTGCTAGTTGTTGTTTCTCCTT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCCAT
* * * * *
29447836 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGCTTACGTATTTGCCTTAATATAATACTGAAG
66 AAGGGTAATGATT-TTTATACTTTATGCGGTGTGTTTATGTATTTGCCTTAACATAATACTGAAG
* * * *
29447901 GAACCTCTCTTTACTTTTCACACGTTCAATCGAAATTTGAGGGAATAAGAACATAATTACACATG
130 GAACCTCCCTTTACTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAAG
* * * * *
29447966 TGAAATTTAGTATTGATAACTTATTGAGACCAAATGTTGTGCAAGCATGATTTATAGCCCAAGAC
195 TGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATGTATAGTCCAAGAC
* *
29448031 ATACGTGGCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGTCAGTTGTTGTTGCT
260 ATACGTGCCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGGCA--TGTTGTTGCT
* * * *
29448096 CCATAAGGGTAATGATGCCTCATACTTTATGCAG-CGTGTTTACGTATTTGCCCTTAATATAATA
323 CCATAAGGGTAATGATTCCTCATACTTTATG-AGATGTATTTACGTATTTACCCTTAATATAATA
* * ** *
29448160 CTGAGGGAAGCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGCGAACTAGAAAATAATTC
387 CTGAGGGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAAAAGAAAATAATTA
* * * *
29448225 CACAGGTGAAATTAAGTATTGATAACTTCTTAAGGTCAAATGTTGTACAAGTATGATTTATAGTC
452 CACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTC
** * *
29448290 TGAGATTTACGTGCCTTCACGTTCATCATTAAAAATCTTATTCTAATTTTTTTTACCAATTTTTG
517 CAAGAATTACGTGCCTTCACGTTCATCATTAAAAATCTTATTCTAATTTGTTTTACCAATTTTTG
* ** * * ** * * *
29448355 TTCTTTTATAAGGGTGATGGTTCCTCATACTTTATGCGGTGTGTTCCCGTATTTGCCCTTAACAT
582 TTCTTCTATAAAAGTAATGATTCCTCATACTTTATGCAATGTGTTCACATATTCGCCCTTAACAT
* *
29448420 AATACTAAGGGGACCTCCTATTGATTTTCACATGTTCAACCAAAATTTAGAGGAAGAAGAACATA
647 AATACTAAGGGAACCTCCTATTGATTTTCACACGTTCAACCAAAATTTAGAGGAAGAAGAACATA
* * * *
29448485 GTTACACATGTGAAAGTAAGTATTGATAACTTTTTGAGGCCAAATGTTGTGCAAACATGATTTAT
712 ATTACACAGGTGAAAGTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAACATGATTTAT
* *
29448550 AGTTCAAGACATAC
777 AATGCAAGACATAC
* * *
29448564 GTGTCTTCACGTTGATCATTACAAATCCTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCCAT
*
29448629 AAGGGTAATGATTATTTATACTTTATGCGGTGTGTTTATGTATTTGCTCTTAACATAATTCTGAA
66 AAGGGTAATGATT-TTTATACTTTATGCGGTGTGTTTATGTATTTGC-CTTAACATAATACTGAA
* * *
29448694 GGAACCTCCCTTTATTTTTCACATGTTCAACCGAAATTTGAGGGAAGAAGAACGTAATTACACAA
129 GGAACCTCCCTTTACTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAA
* *
29448759 GTGAAATTAAGTATTGATAACTTCTTGAGGCTAAATATTGTGCAAGCATGATGTATAGTCCAAGA
194 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATGTATAGTCCAAGA
* * * * *
29448824 CATACGTGTCTTCACATTCATGATTACAAATTTTATTCTAAT-TTTTTTTGGCA-ATTGTTGCTC
259 CATACGTGCCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGGCATGTTGTTGCTC
* * * *
29448887 CATAAGGGCAATGATTCCTCATACTTTATGAGATATATTTACATATTT-CCCTTAACATAATACT
324 CATAAGGGTAATGATTCCTCATACTTTATGAGATGTATTTACGTATTTACCCTTAATATAATACT
* * * ** *
29448951 GAGGGAACCTCCATTTGTTTTTTACACATTCAACTGGAAA-TTGAGGGAAAAAGAACATAATTAC
389 GAGGGAAGCTCCATTTGTTTTTCACACGTTCAAC-CAAAATTTGAGGGAAAAAGAAAATAATTAC
29449015 ACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCC
453 ACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCC
* * * * * * *
29449080 AAGACATT-CGTGCTTTCATGTTGATCATTACAAATCTTGTTCTAATCTTGTTTTACTAGTTTTT
518 AAGA-ATTACGTGCCTTCACGTTCATCATTAAAAATCTTATTCTAAT-TTGTTTTACCAATTTTT
* *
29449144 GTTGC-TCTATAAAAGTAATGATTCGTCATACTTTATGCAATGTGTTTACATATTCGCCCTTAAC
581 GTT-CTTCTATAAAAGTAATGATTCCTCATACTTTATGCAATGTGTTCACATATTCGCCCTTAAC
* * * *
29449208 ATAATATTGAGGGAACCTCCCT-TTGCTTTTCACACGTTCAACCGAAATTT-GAGGGAAGAAGAA
645 ATAATACTAAGGGAACCT-CCTATTGATTTTCACACGTTCAACCAAAATTTAGA-GGAAGAAGAA
* *
29449271 CATAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAGCATGAT
708 CATAATTACACAGGTGAAAGTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAACATGAT
*
29449336 TTATAATGCAAGACATAT
773 TTATAATGCAAGACATAC
* * * * * *
29449354 GTGCCTTCATGATGATCATTACAAATCTTGTTTTAATCTTTTTTTGTTAGTTGTTGTTGC-CTTA
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTC-CA
* *
29449418 GAAGGGTAATGATTTCTTATACTTTATGCAGTGTGTTT-TCGTATTTGCCCTTAACATAATACTG
65 TAAGGGTAATGATTT-TTATACTTTATGCGGTGTGTTTAT-GTATTTG-CCTTAACATAATACTG
* * * * * * * * *
29449482 AAGGAACCTACTTTTGCTTTTCACACGTTCAACTGAAATTTGAGTGAAGGAGAATATAAATCCAC
127 AAGGAACCTCCCTTTACTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACAC
* * *
29449547 AGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGT------AT-AAGCATAGTCCGA
192 AAGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATGTATAGTCC-A
* * *
29449605 A-ACACACATGCCTTCACATTGATCATCACAAATCTTATTCTAATCTTTTTTT-GCTAGTTGTTG
256 AGACATACGTGCCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGGC-A--TGTTG
* * * *
29449668 TTGCTCCATAAGGGTAATGATTCCTTATACTTTATGCGATGTTTTTATGTATTTACCCTTAATAT
318 TTGCTCCATAAGGGTAATGATTCCTCATACTTTATGAGATGTATTTACGTATTTACCCTTAATAT
* **
29449733 AATACTGAGGGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAATGTA
383 AATACTGAGGGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAAAAGAAAATA
* * *
29449798 ATTACACAGGTGAAATTAAGTATTGATAAGTTCTTGAGGCTAAATGTTATGCAAG
448 ATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAG
29449853 GGAGATTCTA
Statistics
Matches: 1117, Mismatches: 152, Indels: 45
0.85 0.12 0.03
Matches are distributed among these distances:
783 47 0.04
784 12 0.01
787 53 0.05
788 114 0.10
789 167 0.15
790 442 0.40
791 5 0.00
793 108 0.10
794 169 0.15
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (790 bp):
GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCCAT
AAGGGTAATGATTTTTATACTTTATGCGGTGTGTTTATGTATTTGCCTTAACATAATACTGAAGG
AACCTCCCTTTACTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAAGT
GAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATGTATAGTCCAAGACA
TACGTGCCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTTGGCATGTTGTTGCTCCA
TAAGGGTAATGATTCCTCATACTTTATGAGATGTATTTACGTATTTACCCTTAATATAATACTGA
GGGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAAAAGAAAATAATTACACA
GGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAG
AATTACGTGCCTTCACGTTCATCATTAAAAATCTTATTCTAATTTGTTTTACCAATTTTTGTTCT
TCTATAAAAGTAATGATTCCTCATACTTTATGCAATGTGTTCACATATTCGCCCTTAACATAATA
CTAAGGGAACCTCCTATTGATTTTCACACGTTCAACCAAAATTTAGAGGAAGAAGAACATAATTA
CACAGGTGAAAGTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAACATGATTTATAATG
CAAGACATAC
Found at i:29454030 original size:17 final size:17
Alignment explanation
Indices: 29454010--29454042 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29454000 TAGAATTAGG
29454010 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
29454027 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
29454043 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:29454049 original size:9 final size:9
Alignment explanation
Indices: 29454033--29454109 Score: 86
Period size: 9 Copynumber: 8.7 Consensus size: 9
29454023 TTAATTGAGA
29454033 AATTAATTT
1 AATTAATTT
*
29454042 AGTTAATTT
1 AATTAATTT
*
29454051 AATTAATTA
1 AATTAATTT
*
29454060 AATTAATTA
1 AATTAATTT
29454069 AATTAATTT
1 AATTAATTT
*
29454078 AGTTAATTT
1 AATTAATTT
*
29454087 TATTAA-TT
1 AATTAATTT
29454095 AATTTAATTT
1 AA-TTAATTT
29454105 -ATTAA
1 AATTAA
29454110 ATAAATAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
8 7 0.12
9 49 0.84
10 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:29454108 original size:13 final size:13
Alignment explanation
Indices: 29454044--29454109 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
29454034 ATTAATTTAG
29454044 TTAATTTAATTAAT
1 TTAATTT-ATTAAT
* * *
29454058 TAAATTAATTAAA
1 TTAATTTATTAAT
29454071 TTAATTTAGTTAAT
1 TTAATTTA-TTAAT
* *
29454085 TTTATTAATTAAT
1 TTAATTTATTAAT
29454098 TTAATTTATTAA
1 TTAATTTATTAA
29454110 ATAAATAATA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
13 26 0.63
14 15 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TTAATTTATTAAT
Found at i:29457469 original size:21 final size:24
Alignment explanation
Indices: 29457425--29457473 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 24
29457415 TTAAAGCAAC
29457425 TTTAAATAATATAATTCATTTTAAT
1 TTTAAATAATATAATT-ATTTTAAT
29457450 TTTAAA-AAT-TAATT-TTTTAAT
1 TTTAAATAATATAATTATTTTAAT
29457471 TTT
1 TTT
29457474 CTAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.42
23 5 0.21
24 3 0.12
25 6 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTAAATAATATAATTATTTTAAT
Found at i:29461536 original size:16 final size:16
Alignment explanation
Indices: 29461517--29461549 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
29461507 GCCGTGTAAC
29461517 TCTCTAACTTAGGTTA
1 TCTCTAACTTAGGTTA
29461533 TCTCTAACTTAGGTTA
1 TCTCTAACTTAGGTTA
29461549 T
1 T
29461550 ATGGCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TCTCTAACTTAGGTTA
Found at i:29462988 original size:26 final size:25
Alignment explanation
Indices: 29462917--29462999 Score: 71
Period size: 26 Copynumber: 3.3 Consensus size: 25
29462907 CTGTATAACG
* *
29462917 GGAAGTTCATAAAAGCC-TAAATCA
1 GGAAGCTCATAAAAGCCTTTAATCA
* * * *
29462941 GGAAGTTCACAAAGAACTTTTAATCA
1 GGAAGCTCATAAA-AGCCTTTAATCA
*
29462967 GGAAGCTCATGAAAAGCCTTTAATTA
1 GGAAGCTCAT-AAAAGCCTTTAATCA
29462993 GG-AGCTC
1 GGAAGCTC
29463000 CGGATAGCCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
24 12 0.26
25 7 0.15
26 25 0.53
27 3 0.06
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (25 bp):
GGAAGCTCATAAAAGCCTTTAATCA
Found at i:29465719 original size:29 final size:29
Alignment explanation
Indices: 29465680--29465740 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
29465670 CAAGTTTATT
* * *
29465680 AAAATTAAAAACATTA-AATTTAAATTTA
1 AAAAATAAAAAAATTATAATTTAAATATA
*
29465708 AAAAATAAAAAAATTATTATTTAAATATA
1 AAAAATAAAAAAATTATAATTTAAATATA
29465737 AAAA
1 AAAA
29465741 TAGCTTTAAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (29 bp):
AAAAATAAAAAAATTATAATTTAAATATA
Found at i:29466638 original size:28 final size:29
Alignment explanation
Indices: 29466606--29466663 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 29
29466596 CCAAAAATTT
29466606 ATTTTAAAAATA-AAAAAATAAAAAAATG
1 ATTTTAAAAATATAAAAAATAAAAAAATG
*
29466634 ATTTTAAAAATATTTTAAAAATAAAAAAAT
1 ATTTTAAAAATA--TAAAAAATAAAAAAAT
29466664 AAAAAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 12 0.46
31 14 0.54
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (29 bp):
ATTTTAAAAATATAAAAAATAAAAAAATG
Found at i:29466644 original size:12 final size:11
Alignment explanation
Indices: 29466627--29466656 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
29466617 AAAAAAATAA
29466627 AAAAATGATTTT
1 AAAAAT-ATTTT
29466639 AAAAATATTTT
1 AAAAATATTTT
29466650 AAAAATA
1 AAAAATA
29466657 AAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:29469460 original size:13 final size:13
Alignment explanation
Indices: 29469442--29469471 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29469432 AAACTAGATT
*
29469442 TTAACTAAGAAGA
1 TTAACTAAGAAAA
29469455 TTAACTAAGAAAA
1 TTAACTAAGAAAA
29469468 TTAA
1 TTAA
29469472 AAGGTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.10, T:0.27
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:29470964 original size:22 final size:21
Alignment explanation
Indices: 29470931--29470973 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
29470921 AATTTGTAAA
*
29470931 AAAATTATTATAAAAATAATT
1 AAAATTAATATAAAAATAATT
**
29470952 AAAATTAAATATATTAATAATT
1 AAAATT-AATATAAAAATAATT
29470974 TAAGTACAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTAATATAAAAATAATT
Found at i:29471005 original size:27 final size:28
Alignment explanation
Indices: 29470953--29471005 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
29470943 AAAATAATTA
*
29470953 AAATTAAATATATTAATAATTTAAGTAC
1 AAATTAAATATATTAATAATTAAAGTAC
* *
29470981 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAAATATATTAATAATTAAAGT
29471006 GTGAATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (28 bp):
AAATTAAATATATTAATAATTAAAGTAC
Done.