Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold162
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: 1959167
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.30
Warning! 205334 characters in sequence are not A, C, G, or T
File 4 of 12
Found at i:551579 original size:13 final size:13
Alignment explanation
Indices: 551561--551586 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
551551 AAAGGGCAAA
551561 TACATCATAATGT
1 TACATCATAATGT
551574 TACATCATAATGT
1 TACATCATAATGT
551587 ACTGCAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TACATCATAATGT
Found at i:553086 original size:51 final size:50
Alignment explanation
Indices: 553009--553109 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 50
552999 AGAAGACGGA
*
553009 AAAACTAAAAGAAATGAGTGGCATTATTGTTCTCAGGCACCATTCTGATT
1 AAAACTAAAAGAAATGAGTGGCATTATTGTTCTCAGGCACCATTCCGATT
*
553059 AAAACTAAAAGAATTTGAGTGGCATTATTGTTCTCAGGCACCATTCCGATT
1 AAAACTAAAAGAA-ATGAGTGGCATTATTGTTCTCAGGCACCATTCCGATT
553110 CTTAGGCCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 13 0.27
51 35 0.73
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (50 bp):
AAAACTAAAAGAAATGAGTGGCATTATTGTTCTCAGGCACCATTCCGATT
Found at i:555664 original size:119 final size:120
Alignment explanation
Indices: 555515--555821 Score: 306
Period size: 119 Copynumber: 2.5 Consensus size: 120
555505 TTTTAGTTTG
* * * * * *
555515 AAAACAGAATAAGTAAATGTTAATGTGTTAAGGTAAAATTGTAAACTTAATTAAATATTATTTTT
1 AAAACATAATAA-TTAATTTTAATTTGTTAAGGTAAATTTTTAAACTTAATT-AATATTATTTTT
* * *
555580 -A-TTAGT-AAAAATTATAATAAAAAACCGTTTTATTTTA-AAATTGTTTATTTTTA-TA
64 AATTTAGTAAAAAATAATAATAAAAAACC-TTGTATTTTATAAATT-TTT-TTATTATTA
* *
555635 AAAACATAATAATTAATTTTAATTTGTTAAGGTAATTTTTTAAACTTAATTCAGTATTATTTTTA
1 AAAACATAATAATTAATTTTAATTTGTTAAGGTAAATTTTTAAACTTAATT-AATATTATTTTTA
* *
555700 ATTTTATTAAAAAATAATAATAATAAACCTTGTATTTTATTTAAATTTTTTTATTATTA
65 A-TTTAGTAAAAAATAATAATAAAAAACCTTGTATTTTA--TAAATTTTTTTATTATTA
** *
555759 AAAA-ATAATTAA-T-ATTTTAATTTGTTAATATAAATTTCTTTAAAGTTAATTAATATTATTTT
1 AAAACATAA-TAATTAATTTTAATTTGTTAAGGTAAA-TT-TTTAAACTTAATTAATATTATTTT
555821 T
63 T
555822 CTTAAAAATA
Statistics
Matches: 157, Mismatches: 19, Indels: 19
0.81 0.10 0.10
Matches are distributed among these distances:
119 44 0.28
120 12 0.08
122 31 0.20
123 41 0.26
124 24 0.15
125 5 0.03
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (120 bp):
AAAACATAATAATTAATTTTAATTTGTTAAGGTAAATTTTTAAACTTAATTAATATTATTTTTAA
TTTAGTAAAAAATAATAATAAAAAACCTTGTATTTTATAAATTTTTTTATTATTA
Found at i:555795 original size:123 final size:119
Alignment explanation
Indices: 555556--555836 Score: 294
Period size: 123 Copynumber: 2.3 Consensus size: 119
555546 GGTAAAATTG
* *
555556 TAAACTTAATTAAATATTATTTTTATTAGTAAAAATTATAATAAAAAACCGTTTTATTTTAAAAT
1 TAAACTTAATT-AATATTATTTTTATTAGTAAAAATAATAATAAAAAACCGTTGTATTTTAAAAT
* *
555621 TGTTTATTTTTATAAAAACATAATAATTAATTTTAATTTGTTAAGGTAATTT-TT
65 TGTTTATTATTATAAAAACATAATAATTAATTTTAATTTGTTAAGATAATTTCTT
* * *
555675 TAAACTTAATTCAGTATTATTTTTAATTTTATTAAAAAATAATAATAATAAACC-TTGTATTTTA
1 TAAACTTAATT-AATATTATTTTT-A--TTAGT-AAAAATAATAATAAAAAACCGTTGTATTTTA
*
555739 TTTAAATT-TTT-TTATTATTAAAAA-ATAATTAA-T-ATTTTAATTTGTTAATATAAATTTCTT
61 ---AAATTGTTTATTATTA-TAAAAACATAA-TAATTAATTTTAATTTGTTAAGAT-AATTTCTT
* *
555799 TAAAGTTAATTAATATTATTTTT-CT--TAAAAATAATAAT
1 TAAACTTAATTAATATTATTTTTATTAGTAAAAATAATAAT
555837 TAATACATTA
Statistics
Matches: 139, Mismatches: 12, Indels: 25
0.79 0.07 0.14
Matches are distributed among these distances:
116 12 0.09
117 1 0.01
119 23 0.17
120 1 0.01
122 29 0.21
123 44 0.32
124 24 0.17
125 5 0.04
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (119 bp):
TAAACTTAATTAATATTATTTTTATTAGTAAAAATAATAATAAAAAACCGTTGTATTTTAAAATT
GTTTATTATTATAAAAACATAATAATTAATTTTAATTTGTTAAGATAATTTCTT
Found at i:555826 original size:25 final size:26
Alignment explanation
Indices: 555792--555872 Score: 67
Period size: 28 Copynumber: 3.0 Consensus size: 26
555782 GTTAATATAA
*
555792 ATTTCTTTAAAGTTAATTAATATTATT
1 ATTTC-TTAAAATTAATTAATATTATT
555819 -TTTCTTAAAAATAATAATTAATACATTATT
1 ATTTCTT-AAAAT--TAATTAAT--ATTATT
* *
555849 ATTTTTTAAATTTAATTAAT-TTAT
1 ATTTCTTAAAATTAATTAATATTAT
555873 AAAAAACTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
25 6 0.13
26 8 0.18
28 16 0.36
30 10 0.22
31 5 0.11
ACGTcount: A:0.41, C:0.04, G:0.01, T:0.54
Consensus pattern (26 bp):
ATTTCTTAAAATTAATTAATATTATT
Found at i:555869 original size:32 final size:29
Alignment explanation
Indices: 555804--555869 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
555794 TTCTTTAAAG
555804 TTAATTAATATTATTTTTCTTAAAAATAA
1 TTAATTAATATTATTTTTCTTAAAAATAA
* **
555833 -TAATTAATACATTATTATTTTTTAAATTTAA
1 TTAATTAAT--ATTATT-TTTCTTAAAAATAA
555864 TTAATT
1 TTAATT
555870 TATAAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 8 0.27
30 6 0.20
31 11 0.37
32 5 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (29 bp):
TTAATTAATATTATTTTTCTTAAAAATAA
Found at i:556279 original size:11 final size:11
Alignment explanation
Indices: 556263--556299 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
556253 TTATTACTTT
556263 TTATTTATAAA
1 TTATTTATAAA
* *
556274 TTATTTTTAAT
1 TTATTTATAAA
556285 TTATTTATAAA
1 TTATTTATAAA
556296 TTAT
1 TTAT
556300 AAAAATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:559927 original size:91 final size:92
Alignment explanation
Indices: 559831--560004 Score: 210
Period size: 93 Copynumber: 1.9 Consensus size: 92
559821 ACTGTGATAT
*
559831 TTATAATCAA-TCAACTTTTCAGCTTTTGCATA-AAAA-AAATCTGATTCTCAAATATAATTTAT
1 TTATAATCAACT-AACTTTTC-GCTTTTGCATACAAAAGAAATCTGATTCTCAAATACAATTTAT
* *
559893 ATATTAGTCTAATCTTTGCAGTGTCATAC
64 ACATTAGTCTAATCCTTGCAGTGTCATAC
** *** **
559922 TTATAATCAACTAACTTTTCTTTTTTTTTTACCAAAAGAAATCTGATTCTCATGTACAATTTATA
1 TTATAATCAACTAACTTTTCGCTTTTGCATA-CAAAAGAAATCTGATTCTCAAATACAATTTATA
559987 CATTAGTCTAATCCTTGC
65 CATTAGTCTAATCCTTGC
560005 GGTCTTTCTT
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
90 6 0.09
91 18 0.26
92 5 0.07
93 40 0.58
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.43
Consensus pattern (92 bp):
TTATAATCAACTAACTTTTCGCTTTTGCATACAAAAGAAATCTGATTCTCAAATACAATTTATAC
ATTAGTCTAATCCTTGCAGTGTCATAC
Found at i:560138 original size:69 final size:70
Alignment explanation
Indices: 559955--560217 Score: 341
Period size: 71 Copynumber: 3.7 Consensus size: 70
559945 TTTTTTTACC
** * * * * *
559955 AAAAGAAATCTGATTCTCATGTACAATTTATACATTAGTCTAATCCTTGCGGTCTTTCTTTTTTC
1 AAAAG-AATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGT-TTTTTTTTTTC
560020 CTATAAA
64 CTATAAA
*
560027 AAAAGAATCTGATTCTCACATATAATTCATGCATTAGTCTAATCCTTGCAGTTTTTATTTTTTCC
1 AAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTTTTT-TTTTTTCC
560092 TAT-AA
65 TATAAA
* * * * * * *
560097 AAAA-AATATGATTCTTAGATATAATTCATGCACTAGCCTAATTCTTGCAGTTTTTCTTTTTCCT
1 AAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTTTTTTTTTTTCCT
560161 ATAAA
66 ATAAA
*
560166 AAAATAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGT
1 AAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGT
560218 CTAACATTTA
Statistics
Matches: 168, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
68 10 0.06
69 51 0.30
70 50 0.30
71 52 0.31
72 5 0.03
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (70 bp):
AAAAGAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTTTTTTTTTTTCCT
ATAAA
Found at i:560260 original size:92 final size:92
Alignment explanation
Indices: 560144--560859 Score: 828
Period size: 92 Copynumber: 8.0 Consensus size: 92
560134 CTAATTCTTG
* * * * *
560144 CAGTTTTTC-TTTTTCCTATAAAAAAATAATCTGATTCTCAAATATAATTCATGCATTAGTCTAA
1 CAGTCTTTCTTTTTTTCTAT-AAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA
560208 TCCTTGCAGTCTAACATTTACAATCAAT
65 TCCTTGCAGTCTAACATTTACAATCAAT
*
560236 CAGTCTTTCTTTTTTTCTAT-AAAAA-AATCCGATTCTCAGATATAATTCATGTATTAGTCTAAT
1 CAGTCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT
* * *
560299 CCTTACAGTCTGATATTTACAATCAAT
66 CCTTGCAGTCTAACATTTACAATCAAT
*
560326 CAGTCTTTC-TTTTTTCTATAAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAA
1 CAGTCTTTCTTTTTTTCTAT-AAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA
560390 TCCTTGCAGTCTAACATTTACAATCAAT
65 TCCTTGCAGTCTAACATTTACAATCAAT
* * * *
560418 CAGACTTCCTTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATACATTAGTCTAAT
1 CAGTCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT
*
560483 CCTTGCAGTCTAATATTTACAAT---T
66 CCTTGCAGTCTAACATTTACAATCAAT
** * * * *
560507 -AGTC-AAC-TTTTTTCCATAAAAAAGAAGCCGATTCTCATATATAATTCATGCATTAGTTTAAT
1 CAGTCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT
* * *
560569 CCTTACAGTCTGATATTTACAATCAAT
66 CCTTGCAGTCTAACATTTACAATCAAT
* * *
560596 CA-----ACTTTTTTTCTAT-AAAAAGCATCCGATTCTCACATATAATTCATGCATTAGTCTAAT
1 CAGTCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT
* * *
560655 CCTTGCAGTATGACATTTACAATCAGT
66 CCTTGCAGTCTAACATTTACAATCAAT
* * * * *
560682 CA-AC-TT-TTTTTTTCTATAAAAAAGCATACGATTCTTAGATATAATTCAGGCATTAGTCTAAT
1 CAGTCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT
* * * * *
560744 ACTTGTAATCTAACACTTACAATCAGT
66 CCTTGCAGTCTAACATTTACAATCAAT
* * * *
560771 CA-ACTTT-TTTTTTTCTATAAAAAAAAAT-TGATTCTTAGATATAATTCATGCATTAGTCTAAT
1 CAGTCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT
* * * *
560833 CCTTGTAGTTTGATATTTACAATCAAT
66 CCTTGCAGTCTAACATTTACAATCAAT
560860 TTTCAGATAT
Statistics
Matches: 548, Mismatches: 61, Indels: 33
0.85 0.10 0.05
Matches are distributed among these distances:
86 137 0.25
87 10 0.02
88 14 0.03
89 129 0.24
90 90 0.16
91 10 0.02
92 139 0.25
93 19 0.03
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (92 bp):
CAGTCTTTCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT
CCTTGCAGTCTAACATTTACAATCAAT
Found at i:560561 original size:86 final size:86
Alignment explanation
Indices: 560153--560857 Score: 689
Period size: 86 Copynumber: 7.9 Consensus size: 86
560143 GCAGTTTTTC
* * *
560153 TTTTTCCTATAAAAAAATAATCTGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGT
1 TTTTTCC-AT-AAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGT
**
560218 CTAACATTTACAATCAATCAGTCTTTCT
64 CTAACATTT---A-CAATCAGTC-AACT
* * *
560246 TTTTTTC-TATAAAAA-AATCCGATTCTCAGATATAATTCATGTATTAGTCTAATCCTTACAGTC
1 TTTTTCCATA-AAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
* * **
560309 TGATATTTACAATCAATCAGTCTTTCT
65 TAACATTT---A-CAATCAGTC-AACT
* *
560336 TTTTTCTATAAAAAAAGAATCCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTC
1 TTTTTCCAT-AAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
*
560401 TAACATTTACAATCAATCAGACTTCCTT
65 TAACATTTACAATCAGTCA-A----C-T
* * *
560429 TTTTTCTATAAAAAAGAATCTGATTCTCAGATATAATTCATACATTAGTCTAATCCTTGCAGTCT
1 TTTTTCCATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCT
* *
560494 AATATTTACAATTAGTCAACT
66 AACATTTACAATCAGTCAACT
* * * *
560515 TTTTTCCATAAAAAAGAAGCCGATTCTCATATATAATTCATGCATTAGTTTAATCCTTACAGTCT
1 TTTTTCCATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCT
* * *
560580 GATATTTACAATCAATCAACT
66 AACATTTACAATCAGTCAACT
* * * *
560601 TTTTTTC-TATAAAAAGCATCCGATTCTCACATATAATTCATGCATTAGTCTAATCCTTGCAGTA
1 TTTTTCCATA-AAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTC
*
560665 TGACATTTACAATCAGTCAACTTTT
65 TAACATTTACAATCAGTCAAC---T
* * * * * * * *
560690 TTTTTCTATAAAAAAGCATACGATTCTTAGATATAATTCAGGCATTAGTCTAATACTTGTAATCT
1 TTTTTCCATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCT
*
560755 AACACTTACAATCAGTCAACTTTTT
66 AACATTTACAATCAGTCAAC----T
* * * * * *
560780 TTTTTCTATAAAAAAAAAT-TGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTGTAGTTT
1 TTTTTCCATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCT
* *
560844 GATATTTACAATCA
66 AACATTTACAATCA
560858 ATTTTCAGAT
Statistics
Matches: 532, Mismatches: 64, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
85 2 0.00
86 150 0.28
87 1 0.00
88 8 0.02
89 123 0.23
90 98 0.18
91 13 0.02
92 121 0.23
93 16 0.03
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.40
Consensus pattern (86 bp):
TTTTTCCATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAGTCT
AACATTTACAATCAGTCAACT
Found at i:560908 original size:57 final size:57
Alignment explanation
Indices: 560807--560916 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 57
560797 ATTGATTCTT
** * *
560807 AGATATAATTCATGCATTAGTCTAATCCTTGTAGTTTGATATTTACAATCAATTTTC
1 AGATATAATTCATGCATTAGTCTAATCCTTACAGTCTGACATTTACAATCAATTTTC
560864 AGATATAATTCATGCATTAGTCTAATCCTTACAGTCTGACATTTACAATCAAT
1 AGATATAATTCATGCATTAGTCTAATCCTTACAGTCTGACATTTACAATCAAT
560917 CAGCTTTTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (57 bp):
AGATATAATTCATGCATTAGTCTAATCCTTACAGTCTGACATTTACAATCAATTTTC
Found at i:561001 original size:149 final size:146
Alignment explanation
Indices: 560718--561008 Score: 375
Period size: 149 Copynumber: 2.0 Consensus size: 146
560708 TACGATTCTT
** *
560718 AGATATAATTCAGGCATTAGTCTAATACTTGTAATCTAACACTTACAATCAGTCAACTTTTTTTT
1 AGATATAATTCAGGCATTAGTCTAATACTTACAATCTAACACTTACAATCAATCAACTTTTTTTT
* * ** * * *
560783 TTCTATAAAAAAAAATTGATTCTTAGATATAATTCATGCATTAGTCTAATCCTTGTAGTTTGATA
66 TTCAATAAAAAAAAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACA
560848 TTTACAATCAATTTTC
131 TTTACAATCAATTTTC
* * * * * *
560864 AGATATAATTCATGCATTAGTCTAATCCTTACAGTCTGACATTTACAATCAATCAGCTTTTCTTA
1 AGATATAATTCAGGCATTAGTCTAATACTTACAATCTAACACTTACAATCAATCAACTTTT-TT-
* * *
560929 TTTTCCAATAAAAAAGAATTTATTCTCAGATATAATTCATGCATTAGTCTAATCTTTACAGTCTA
64 TTTT-CAATAAAAAAAAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTA
*
560994 ACGTTTACAATCAAT
128 ACATTTACAATCAAT
561009 CAACTTTTCT
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
146 52 0.43
147 2 0.02
148 4 0.03
149 64 0.52
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (146 bp):
AGATATAATTCAGGCATTAGTCTAATACTTACAATCTAACACTTACAATCAATCAACTTTTTTTT
TTCAATAAAAAAAAATTGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACA
TTTACAATCAATTTTC
Found at i:561052 original size:92 final size:92
Alignment explanation
Indices: 560853--561056 Score: 302
Period size: 92 Copynumber: 2.2 Consensus size: 92
560843 TGATATTTAC
* *
560853 AATCAATTTTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTGACATTTACAATCAATC
1 AATCGATTTTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATCAATC
*
560918 AGCTTTTCTTATTTTCCAATAAAAAAG
66 AACTTTTCTTATTTTCCAATAAAAAAG
** * * *
560945 AATTTATTCTCAGATATAATTCATGCATTAGTCTAATCTTTACAGTCTAACGTTTACAATCAATC
1 AATCGATTTTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATCAATC
*
561010 AACTTTTCTTTTTTTCC-ATAAAAAAG
66 AACTTTTCTTATTTTCCAATAAAAAAG
*
561036 AATACGATTTTAAGATATAAT
1 AAT-CGATTTTCAGATATAAT
561057 CACATTTATT
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
91 12 0.12
92 87 0.88
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (92 bp):
AATCGATTTTCAGATATAATTCATGCATTAGTCTAATCCTTACAGTCTAACATTTACAATCAATC
AACTTTTCTTATTTTCCAATAAAAAAG
Found at i:561906 original size:117 final size:118
Alignment explanation
Indices: 561645--562002 Score: 407
Period size: 117 Copynumber: 2.9 Consensus size: 118
561635 TATTATTTTT
* *
561645 AATAAAAAATAATATTTAATTAACTTTAAAGAAATTTATATTAACAAATTAAAATATTAATTATT
1 AATAAAAAATAATATTTAATTAAGTTTAAA-AAA-TTACATTAACAAATTAAAATATTAATTATT
* * **
561710 -T-TTTAATAATAAAAAAATTTAAATAAAAATAAAAAAGAATTTATTATTATTATTTTTTAATAA
64 ATGTTT--TTATAAAAAAA-TT---T-AAAATAAAAAAG--TTTTTTATTA-TAACTTTTAATAA
* * *
561773 TATTAAAAATAATATTTAATTAAGTTTAAAAAATTGCATTAACAAATTAAAAT-TTAATTATTAT
1 AATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTAT
*
561837 GTTTTTATAAAAAAATTTAAAATAAAAACGTTTTTTATTATAACTTTTAATAA
66 GTTTTTATAAAAAAATTTAAAATAAAAAAGTTTTTTATTATAACTTTTAATAA
**
561890 AATAAAAAATAATATTTAATTAAGTTTAAAATTTTACATTAACAAATTAAAATATTAATTATTAT
1 AATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTAT
* * *
561955 GTTTTTAAAAATAAAAAATTTTAAATTAAAAAAAGTTTTTTCTTATAA
66 GTTTTT----ATAAAAAAATTTAAAAT-AAAAAAGTTTTTTATTATAA
562003 TAATATTTTT
Statistics
Matches: 203, Mismatches: 19, Indels: 21
0.84 0.08 0.09
Matches are distributed among these distances:
117 59 0.29
118 26 0.13
120 11 0.05
121 1 0.00
122 15 0.07
123 18 0.09
124 2 0.01
125 19 0.09
126 19 0.09
127 6 0.03
128 27 0.13
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (118 bp):
AATAAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTAT
GTTTTTATAAAAAAATTTAAAATAAAAAAGTTTTTTATTATAACTTTTAATAA
Found at i:562313 original size:22 final size:22
Alignment explanation
Indices: 562239--562315 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
562229 GAATAGAGTG
*
562239 TTTTTT-ATTTGAATAATGATAATT
1 TTTTTTAATTTG-TTAATG-TAA-T
** **
562263 TTTTTTAATTCCTTAAATGTTGT
1 TTTTTTAATTTGTT-AATGTAAT
*
562286 TGTTTTAATTTGTTAATGTAAT
1 TTTTTTAATTTGTTAATGTAAT
562308 TTTTTTAA
1 TTTTTTAA
562316 ATTTAATTAA
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
22 13 0.32
23 12 0.30
24 8 0.20
25 7 0.17
ACGTcount: A:0.27, C:0.03, G:0.09, T:0.61
Consensus pattern (22 bp):
TTTTTTAATTTGTTAATGTAAT
Found at i:562453 original size:111 final size:113
Alignment explanation
Indices: 562288--562566 Score: 359
Period size: 111 Copynumber: 2.4 Consensus size: 113
562278 AATGTTGTTG
* * *
562288 TTTTAATTTGTTAATGTAATTTTTTTAAATTTAATTAAGTATCATTTTTTATTTTATTAAAAAAT
1 TTTTAATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATT-AAAAAT
* *
562353 AATAATAATAAATACTTTTT-A-T-TTTTATAA-AAATATATAATTAATA
65 AATAATAATAAACACTTTTTAATTATTTTATAATAAA-AAATAATTAATA
*
562399 TTTTAATTTGCTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAATA
1 TTTTAATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAATA
* *
562464 ATAATAATAAACCCTTTTTAATTTAATTTTTTAATTTAAAAAATAATTAATA
66 ATAATAATAAACACTTTTTAA-TT-ATTTTATAA--TAAAAAATAATTAATA
* * *
562516 TTTTAATTTATTAATGTAAATTTTTTTTAAAATTAATTAAACATTATTTTT
1 TTTTAATTTGTTAATGT-AA-TTTTTTTAAATTTAATTAAATATTATTTTT
562567 TATTAAATAA
Statistics
Matches: 146, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
110 24 0.16
111 55 0.38
113 1 0.01
115 7 0.05
117 26 0.18
118 5 0.03
119 28 0.19
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (113 bp):
TTTTAATTTGTTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAATA
ATAATAATAAACACTTTTTAATTATTTTATAATAAAAAATAATTAATA
Found at i:562496 original size:13 final size:13
Alignment explanation
Indices: 562478--562502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
562468 TAATAAACCC
562478 TTTTTAATTTAAT
1 TTTTTAATTTAAT
562491 TTTTTAATTTAA
1 TTTTTAATTTAA
562503 AAAATAATTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTTAATTTAAT
Found at i:562611 original size:117 final size:114
Alignment explanation
Indices: 562389--562619 Score: 270
Period size: 117 Copynumber: 2.0 Consensus size: 114
562379 ATAAAAATAT
* * *
562389 ATAATTAATATTTTAATTTGCTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTT
1 ATAATTAATATTTTAATTTACTAATGTAATTTTTTTAAAATTAATTAAACATTA--TTT-ATTTT
* * *
562454 ATTAAAAATAATAATAATAAACCCTTTTTAATTTAATTTTTTAATTTAAAAA
63 ATTAAAAATAATAATAATAAACCATTTTTAATTAAATTTTTAAATTTAAAAA
*
562506 ATAATTAATATTTTAATTTATTAATGTAAATTTTTTTTAAAATTAATTAAACATTA-TT-TTTTA
1 ATAATTAATATTTTAATTTACTAATGT-AA-TTTTTTTAAAATTAATTAAACATTATTTATTTTA
* **
562569 TTAAATAATAATAATTAATATATTATTATTT-ATTAAATTTTTTAAATTTAA
64 TTAAA-AATAATAA-TAATAAACCATT-TTTAATTAAA-TTTTTAAATTTAA
562620 TTAATTTATA
Statistics
Matches: 98, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
114 10 0.10
115 8 0.08
116 15 0.15
117 40 0.41
118 2 0.02
119 23 0.23
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.53
Consensus pattern (114 bp):
ATAATTAATATTTTAATTTACTAATGTAATTTTTTTAAAATTAATTAAACATTATTTATTTTATT
AAAAATAATAATAATAAACCATTTTTAATTAAATTTTTAAATTTAAAAA
Found at i:562621 original size:68 final size:71
Alignment explanation
Indices: 562489--562623 Score: 172
Period size: 68 Copynumber: 1.9 Consensus size: 71
562479 TTTTAATTTA
* *
562489 ATTTTTTAATTTAAAAAATAATTAATATTTTAATTTATTAATGTAAATTTTTTTTAAAATTAATT
1 ATTTTTTAATTAAAAAAATAATTAATATATTAATTTATTAATGTAAA-TTTTTTTAAAATTAATT
562554 AAACATT
65 AAACATT
* *
562561 ATTTTTT-ATTAAATAATAATAATTAATATATT-A-TTATTTAT-TAAA-TTTTTTAAATTTAAT
1 ATTTTTTAATTAAA-AA-AATAATTAATATATTAATTTATTAATGTAAATTTTTTTAAAATTAAT
562621 TAA
64 TAA
562624 TTTATAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
68 17 0.30
70 4 0.07
71 12 0.21
72 10 0.18
73 14 0.25
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (71 bp):
ATTTTTTAATTAAAAAAATAATTAATATATTAATTTATTAATGTAAATTTTTTTAAAATTAATTA
AACATT
Found at i:562942 original size:17 final size:16
Alignment explanation
Indices: 562920--562967 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
562910 TATATCAGAA
562920 TTTTAATGAAATATGAT
1 TTTTAA-GAAATATGAT
*
562937 TTTTAA-AAATGTGAT
1 TTTTAAGAAATATGAT
*
562952 TGTT-AGAAATATGAT
1 TTTTAAGAAATATGAT
562967 T
1 T
562968 CTTCATAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 20 0.74
17 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.46
Consensus pattern (16 bp):
TTTTAAGAAATATGAT
Found at i:563286 original size:29 final size:27
Alignment explanation
Indices: 563234--563287 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
563224 TTTATTTTTC
* *
563234 AAATAATAATTAATTTATTTTAAATAA
1 AAATAATAAGTAATTTATTCTAAATAA
563261 AAATAATATAGTACATTTATTCTAAAT
1 AAATAATA-AGTA-ATTTATTCTAAAT
563288 TTAATATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 8 0.35
28 3 0.13
29 12 0.52
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.43
Consensus pattern (27 bp):
AAATAATAAGTAATTTATTCTAAATAA
Found at i:565143 original size:22 final size:21
Alignment explanation
Indices: 565105--565145 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
565095 TTACACATAA
* *
565105 TTTTTAAATATATTTAAAAGT
1 TTTTTAAAAATAATTAAAAGT
565126 TTTTTAAAAAATAATTAAAA
1 TTTTT-AAAAATAATTAAAA
565146 ATAAGTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTTTAAAAATAATTAAAAGT
Found at i:569165 original size:13 final size:13
Alignment explanation
Indices: 569147--569203 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
569137 CATAAAGTAT
569147 TGTATCGATACAA
1 TGTATCGATACAA
569160 TGTATCGATACATAA
1 TGTATCGATAC--AA
569175 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
569192 TGTATCGATACA
1 TGTATCGATACA
569204 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:569184 original size:19 final size:18
Alignment explanation
Indices: 569125--569222 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
569115 ATTTCAACGA
569125 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
569144 TATTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
569160 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
569176 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
569192 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
569208 TTTTGTATCGATACA
1 -TTTGTATCGATACA
569223 ATATAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:569187 original size:32 final size:32
Alignment explanation
Indices: 569127--569224 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
569117 TTCAACGATT
569127 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
*
569160 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
569192 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
569224 T
1 T
569225 ATAAGCTACT
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:569283 original size:13 final size:13
Alignment explanation
Indices: 569265--569289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
569255 ATTACTCAAA
569265 TGTATCGATACAT
1 TGTATCGATACAT
569278 TGTATCGATACA
1 TGTATCGATACA
569290 GTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:576347 original size:16 final size:16
Alignment explanation
Indices: 576328--576372 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
576318 GTCAAAAGTA
576328 AACACAAAAAAAAAAC
1 AACACAAAAAAAAAAC
*
576344 AACACACAAAAAAAAAG
1 AACACA-AAAAAAAAAC
576361 AACA-AAAAAAAA
1 AACACAAAAAAAA
576373 GGTGCAAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.26
16 7 0.26
17 13 0.48
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (16 bp):
AACACAAAAAAAAAAC
Found at i:576380 original size:14 final size:13
Alignment explanation
Indices: 576349--576373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
576339 AAAACAACAC
576349 ACAAAAAAAAAGA
1 ACAAAAAAAAAGA
576362 ACAAAAAAAAAG
1 ACAAAAAAAAAG
576374 GTGCAAAGGC
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:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (13 bp):
ACAAAAAAAAAGA
Found at i:577933 original size:62 final size:63
Alignment explanation
Indices: 577751--578069 Score: 294
Period size: 62 Copynumber: 5.0 Consensus size: 63
577741 CCTTTTTTCC
* * * ** *
577751 TTTAAAGTCCACAACTTCGTGGCAC-C-TTGTTCCTTTTAAGTCCACAACTCTGTGGCATCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTCAAAGTCCACAACTCCGTGGCA-C----
577814 TCCT
61 -CCT
* ** * * * *
577818 TTTAAAGTCCACAACTCTATGGCACT-TTTTTGT--TT-TAAGTCCATAACTTCGTGGTACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-TCCTTCAAAGTCCACAACTCCGTGGCACCCT
577878 TTT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCTTCAAAGTCCACAACTCCGTGGCACCTTTT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTCAAAGTCCACAACTCCGTGGCACC----
577942 TCTT
62 -C-T
* *
577946 TTTAAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTCTAAGTCCACAACTTCGTGGCACCCT
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTCAAAGTCCACAACTCCGTGGCACCCT
* * *
578008 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGTCCACAACCCCGTGGCACC
1 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCC-TTCAAAGTCCACAACTCCGTGGCACC
578070 TTGTTCCTTT
Statistics
Matches: 214, Mismatches: 22, Indels: 35
0.79 0.08 0.13
Matches are distributed among these distances:
59 20 0.09
60 11 0.05
61 2 0.01
62 47 0.22
63 7 0.03
64 22 0.10
65 1 0.00
66 17 0.08
67 25 0.12
68 38 0.18
69 24 0.11
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (63 bp):
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTTCCTTCAAAGTCCACAACTCCGTGGCACCCT
Found at i:578028 original size:28 final size:28
Alignment explanation
Indices: 577945--578038 Score: 89
Period size: 28 Copynumber: 3.1 Consensus size: 28
577935 ACCTTTTTCT
*
577945 TTTTAAAGCCCACAACTCCGTGGCACTCTTT
1 TTTTAAAGCCCACAACTCCGTGGCAC-C--C
* * *
577976 TTCCTTCTAAGTCCACAACTTCGTGGCACCC
1 TT--TT-AAAGCCCACAACTCCGTGGCACCC
*
578007 TTTTAAAGCCCACAACTCCGTGGCACTC
1 TTTTAAAGCCCACAACTCCGTGGCACCC
578035 TTTT
1 TTTT
578039 TCCCTTTTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
28 24 0.46
29 2 0.04
31 4 0.08
33 3 0.06
34 19 0.37
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (28 bp):
TTTTAAAGCCCACAACTCCGTGGCACCC
Found at i:578056 original size:36 final size:34
Alignment explanation
Indices: 577647--578205 Score: 494
Period size: 34 Copynumber: 17.0 Consensus size: 34
577637 ATTCTTCAAA
* *
577647 TCCTTTCTCAAAGTCCACGACTTCGTGGCACCTTTT
1 TCCTTT-T-AAAGTCCACAACTCCGTGGCACCTTTT
577683 T-CTTTTCAAAGTCCACAACTCCGTGGCA-C----
1 TCCTTTT-AAAGTCCACAACTCCGTGGCACCTTTT
* * *
577712 TCTTTTTAAAGCCCACAACTTCGTGGCACCCTTTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCA-CC-TTTT
* *
577748 TCC-TTTAAAGTCCACAACTTCGTGGCACCTTGT
1 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
577781 TCCTTTT-AAGTCCACAACTCTGTGGCATCTTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
**
577814 TCCTTTTAAAGTCCACAACTCTATGGCA-CTTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
** * * *
577847 TTGTTTT-AAGTCCATAACTTCGTGGTA-C----
1 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*
577875 -CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCAC-C-TTTT
*
577909 TCC-TTCAAAGTCCACAACTCCGTGGCACCTTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
577942 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
577977 TCCTTCT-AAGTCCACAACTTCGTGGCA-C----
1 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
*
578005 -CCTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
578039 TCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGT
1 T-CCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
578074 TCCTTTT-AAGTCCACGACTCTGTGGCACC---T
1 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* *
578104 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCAC-CTTTT
* *
578139 TCCCTTTTAAAGTCCACAACTTCGTGGCACCTTGT
1 T-CCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
* * *
578174 TCCTTTT-AAGTCTACAACTTCGTGGCATCTTT
1 TCCTTTTAAAGTCCACAACTCCGTGGCACCTTT
578206 CACTATTCTT
Statistics
Matches: 432, Mismatches: 55, Indels: 75
0.77 0.10 0.13
Matches are distributed among these distances:
27 25 0.06
28 18 0.04
29 21 0.05
30 12 0.03
31 19 0.04
32 18 0.04
33 93 0.22
34 101 0.23
35 71 0.16
36 54 0.12
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.35
Consensus pattern (34 bp):
TCCTTTTAAAGTCCACAACTCCGTGGCACCTTTT
Found at i:578199 original size:100 final size:99
Alignment explanation
Indices: 577647--578200 Score: 588
Period size: 100 Copynumber: 5.6 Consensus size: 99
577637 ATTCTTCAAA
* * *
577647 TCCTTTCTCAAAGTCCACGACTTCGTGGCACCTT-TTTCTTTTCAAAGTCCACAACTCCGTGGCA
1 TCCTTT-T-AAAGTCCACAACTTCGTGGCACCTTGTTCCTTTT--AAGTCCACAACTTCGTGGCA
* *
577711 -C-TCTTTTTAAAGCCCACAACTTCGTGGCACCCTTTTT
62 CCTTCTTTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
577748 TCC-TTTAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAAC-TCTGTGGCATCT
1 TCCTTTTAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTC-GTGGCA-C-
* * * **
577811 TTTTCCTTTTAAAGTCCACAACTCTATGGCACT-TTTT
63 -CTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* * * * *
577848 T-GTTTT-AAGTCCATAACTTCGTGGTA-C-----CCTTTTAAGCCCACAACTCCGTGGCACTCT
1 TCCTTTTAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCAC-CT
* *
577905 TTTTTCCTTCAAAGTCCACAACTCCGTGGCAC-CTTTT
65 TCTTT--TT-AAAGCCCACAACTCCGTGGCACTCTTTT
* * * * *
577942 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTTCGTGGCACC-
1 TCCTTTTAAAGTCCACAACTTCGTGGCAC-CTTGTTCCTTTTAAGTCCACAACTTCGTGGCACCT
578006 -C-TTTTAAAGCCCACAACTCCGTGGCACTCTTTT
65 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
** *
578039 TCCCTTTTAAAGTCCACAACCCCGTGGCACCTTGTTCCTTTTAAGTCCACGAC-TCTGTGGCACC
1 T-CCTTTTAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTC-GTGGCACC
578103 TTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
64 TTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
578139 TCCCTTTTAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCTACAACTTCGTGGCA
1 T-CCTTTTAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCA
578201 TCTTTCACTA
Statistics
Matches: 384, Mismatches: 40, Indels: 59
0.80 0.08 0.12
Matches are distributed among these distances:
91 5 0.01
92 1 0.00
93 24 0.06
94 26 0.07
95 4 0.01
96 40 0.10
97 53 0.14
98 51 0.13
99 29 0.08
100 97 0.25
101 5 0.01
102 25 0.07
103 24 0.06
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (99 bp):
TCCTTTTAAAGTCCACAACTTCGTGGCACCTTGTTCCTTTTAAGTCCACAACTTCGTGGCACCTT
CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
Found at i:578257 original size:32 final size:32
Alignment explanation
Indices: 578216--578401 Score: 223
Period size: 32 Copynumber: 5.8 Consensus size: 32
578206 CACTATTCTT
578216 CAAAGCCCACACAAGTTGGTGGCAACCCTTTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTTC
*
578248 CAAAGCCCACACAAGTCGGTGGCAACCC-TTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCTTTC
* *
578279 TCAAAGCACACACAAGTTGGTGGCAACCTTTTTC
1 -CAAAGCCCACACAAGTTGGTGGCAACC-CTTTC
* * *
578313 TAAAGCCCACACAAGTTGGTAGCAATCCC-CTC
1 CAAAGCCCACACAAGTTGGTGGCAA-CCCTTTC
* * * *
578345 TAAAGCCCACATAAGTCGGTGGCAACCTTCTTC
1 CAAAGCCCACACAAGTTGGTGGCAACCCT-TTC
*
578378 AAAAGCCCACACAAGTTGGTGGCA
1 CAAAGCCCACACAAGTTGGTGGCA
578402 TCTTTTTTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
31 5 0.04
32 76 0.58
33 45 0.34
34 5 0.04
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (32 bp):
CAAAGCCCACACAAGTTGGTGGCAACCCTTTC
Found at i:578324 original size:97 final size:98
Alignment explanation
Indices: 578217--578401 Score: 286
Period size: 97 Copynumber: 1.9 Consensus size: 98
578207 ACTATTCTTC
* *
578217 AAAGCCCACACAAGTTGGTGGCAA-CCCTTTCCAAAGCCCACACAAGTCGGTGGCAACCCTTC-T
1 AAAGCCCACACAAGTTGGTAGCAATCCC-CTCCAAAGCCCACACAAGTCGGTGGCAA-CCTTCTT
578280 C-AAAGCACACACAAGTTGGTGGCAACCTTTTTCT
64 CAAAAGCACACACAAGTTGGTGGCAACCTTTTTCT
* *
578314 AAAGCCCACACAAGTTGGTAGCAATCCCCTCTAAAGCCCACATAAGTCGGTGGCAACCTTCTTCA
1 AAAGCCCACACAAGTTGGTAGCAATCCCCTCCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCA
*
578379 AAAGCCCACACAAGTTGGTGGCA
66 AAAGCACACACAAGTTGGTGGCA
578402 TCTTTTTTTA
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
96 5 0.06
97 50 0.62
98 25 0.31
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.19
Consensus pattern (98 bp):
AAAGCCCACACAAGTTGGTAGCAATCCCCTCCAAAGCCCACACAAGTCGGTGGCAACCTTCTTCA
AAAGCACACACAAGTTGGTGGCAACCTTTTTCT
Found at i:578350 original size:65 final size:65
Alignment explanation
Indices: 578215--578397 Score: 253
Period size: 65 Copynumber: 2.8 Consensus size: 65
578205 TCACTATTCT
* * * * *
578215 TCAAAGCCCACACAAGTTGGTGGCAACC-CTTTCCAAAGCCCACACAAGTCGGTGGCAACCCTTC
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCAAAAGCCCACACAAGTTGGTAGCAACCCCTC
* *
578279 TCAAAGCACACACAAGTTGGTGGCAACCTTTTTCTAAAGCCCACACAAGTTGGTAGCAATCCCCT
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCAAAAGCCCACACAAGTTGGTAGCAA-CCCCT
578344 C
65 C
* * *
578345 T-AAAGCCCACATAAGTCGGTGGCAACCTTCTTCAAAAGCCCACACAAGTTGGT
1 TCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCAAAAGCCCACACAAGTTGGT
578398 GGCATCTTTT
Statistics
Matches: 106, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 27 0.25
65 73 0.69
66 6 0.06
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.20
Consensus pattern (65 bp):
TCAAAGCCCACACAAGTTGGTGGCAACCTTTTTCAAAAGCCCACACAAGTTGGTAGCAACCCCTC
Found at i:578671 original size:52 final size:49
Alignment explanation
Indices: 578408--579136 Score: 715
Period size: 49 Copynumber: 15.1 Consensus size: 49
578398 GGCATCTTTT
* *
578408 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* ** * *
578457 TTTAAGTCCAATGTAACTGGCCTTGAATTAGCACATTGGCACC--C-T-
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
578502 TCTAAGTCCAATATAGCTGGCCTTAAATCAGCATATTGGCACCTTCTTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
578551 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
578594 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATC
* * * * *
578646 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTTTTCA-C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CC------TTCATC
* *
578701 TTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATC
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
578751 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
578794 TTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCACCATCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * *
578843 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAAC-TC--C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
578889 ---AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
578935 TTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
578979 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATC
* * *
579031 TTTAAGTCCAATAACGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-TCATC
* * *
579083 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACATTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
579132 TTTAA
1 TTTAA
579137 CATTCCTAAG
Statistics
Matches: 575, Mismatches: 61, Indels: 88
0.79 0.08 0.12
Matches are distributed among these distances:
43 151 0.26
44 3 0.01
45 38 0.07
46 4 0.01
47 2 0.00
48 3 0.01
49 165 0.29
50 39 0.07
51 1 0.00
52 122 0.21
53 3 0.01
55 3 0.01
56 37 0.06
57 4 0.01
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:578859 original size:92 final size:92
Alignment explanation
Indices: 578702--579136 Score: 568
Period size: 92 Copynumber: 4.6 Consensus size: 92
578692 TTTTTTCACT
* * *
578702 TTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGTAG
578767 CTGGCCTTGAATCAGCACATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
*
578794 TTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGTAG
*
578859 CTGGCCTTGAATCAGCACATTGGCAAC
66 CTGGCCTTGAATCAGCACATTGGCACC
** * * *
578886 TCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATC-TTTAAGTCCAATGTA
578951 GCTGGCCTTGAATCAGCACATTGGCACC
65 GCTGGCCTTGAATCAGCACATTGGCACC
* *
578979 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCTTTAAGTCCAAT-
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC---ATCATCTTTAAGTCCAATG
* * *
579043 AACGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATC
63 TA-GCTGGCCTTGAATCAGCACATT---G-----G-CACC
* *
579083 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CATTCATCTTTAA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCA-TCATCTTTAA
579137 CATTCCTAAG
Statistics
Matches: 303, Mismatches: 25, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
92 132 0.44
93 80 0.26
95 32 0.11
96 5 0.02
98 1 0.00
101 10 0.03
103 2 0.01
104 41 0.14
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCATCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:579016 original size:185 final size:185
Alignment explanation
Indices: 578705--579070 Score: 592
Period size: 185 Copynumber: 2.0 Consensus size: 185
578695 TTTCACTTTT
* * *
578705 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTG
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCCTCATCTTTAAGCCCAATGTAGCTG
578770 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCA
66 GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCA
*
578835 CC-ATCATCTTTAAGTCCAATGTA-GCTGGCCTTGAATCAGCACATTGGCAACTCC
131 CCTATCATCTTTAAGTCCAAT-AACGCTGGCCTTGAATCAGCACATTGGCAACTCC
* *
578889 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCCTCATCTTTTAAGCCCAATGTCGCT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCCTCATC-TTTAAGCCCAATGTAGCT
*
578954 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
65 GGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGC
* * *
579019 GCCTTTGTCATCTTTAAGTCCAATAACGCTGGCCTTGAATCAGCATATTGGC
130 ACC--TATCATCTTTAAGTCCAATAACGCTGGCCTTGAATCAGCACATTGGC
579071 GTCTTTGTCA
Statistics
Matches: 167, Mismatches: 10, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
184 43 0.26
185 82 0.49
187 1 0.01
188 41 0.25
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (185 bp):
AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCCTCATCTTTAAGCCCAATGTAGCTG
GCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCATTGAATCAGCATATTGGCA
CCTATCATCTTTAAGTCCAATAACGCTGGCCTTGAATCAGCACATTGGCAACTCC
Found at i:580017 original size:13 final size:13
Alignment explanation
Indices: 579999--580023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
579989 CATAAAGTAT
579999 TGTATCGATACAA
1 TGTATCGATACAA
580012 TGTATCGATACA
1 TGTATCGATACA
580024 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:580042 original size:32 final size:32
Alignment explanation
Indices: 579979--580076 Score: 151
Period size: 32 Copynumber: 3.0 Consensus size: 32
579969 TTCAACGATT
579979 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
* **
580012 TGTATCGATACATAAGTGTTGTATAAATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
580044 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
580076 T
1 T
580077 ATAAGCTACT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 46 0.78
33 13 0.22
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:580068 original size:19 final size:18
Alignment explanation
Indices: 579977--580074 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
579967 ATTTCAACGA
579977 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
579996 TATTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
580012 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
**
580028 TGTTGTATAAATAC--AA-
1 T-TTGTATCGATACATAAG
580044 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
580060 TTTTGTATCGATACA
1 -TTTGTATCGATACA
580075 ATATAAGCTA
Statistics
Matches: 62, Mismatches: 4, Indels: 26
0.67 0.04 0.28
Matches are distributed among these distances:
13 20 0.32
15 4 0.06
17 4 0.06
19 22 0.35
20 12 0.19
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:580135 original size:13 final size:13
Alignment explanation
Indices: 580117--580141 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
580107 ATTACTCAAA
580117 TGTATCGATACAT
1 TGTATCGATACAT
580130 TGTATCGATACA
1 TGTATCGATACA
580142 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:586437 original size:15 final size:15
Alignment explanation
Indices: 586419--586462 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
586409 TATATTTTTA
586419 AAAAATATAATAACT
1 AAAAATATAATAACT
*
586434 AAAAAT-TAATAAAT
1 AAAAATATAATAACT
* *
586448 AAAAAAATTATAACT
1 AAAAATATAATAACT
586463 TTATAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAAATATAATAACT
Found at i:586438 original size:16 final size:16
Alignment explanation
Indices: 586417--586462 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
586407 CATATATTTT
586417 TAAAAAATATAATAAC
1 TAAAAAATATAATAAC
*
586433 T-AAAAAT-TAATAAA
1 TAAAAAATATAATAAC
*
586447 TAAAAAA-ATTATAAC
1 TAAAAAATATAATAAC
586462 T
1 T
586463 TTATAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
14 7 0.28
15 17 0.68
16 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAAAATATAATAAC
Found at i:591172 original size:20 final size:21
Alignment explanation
Indices: 591133--591172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
591123 AAATTTTTAA
* *
591133 AAAGATTGATCTTTTTTACAT
1 AAAGATTGATCATGTTTACAT
591154 AAAGATTGAT-ATGTTTACA
1 AAAGATTGATCATGTTTACA
591173 AAGGGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.42
Consensus pattern (21 bp):
AAAGATTGATCATGTTTACAT
Found at i:596010 original size:10 final size:10
Alignment explanation
Indices: 595965--596037 Score: 53
Period size: 10 Copynumber: 7.1 Consensus size: 10
595955 TTATATAATT
595965 TATATTTATA
1 TATATTTATA
*
595975 TAAATTTAT-
1 TATATTTATA
*
595984 TAAAATTATATAAA
1 T-ATATT-TAT--A
595998 TATATTTATA
1 TATATTTATA
596008 TATATTTATA
1 TATATTTATA
*
596018 T-TATTTTTA
1 TATATTTATA
596027 TA-ATATTATA
1 TATAT-TTATA
596037 T
1 T
596038 TTTAATTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
9 11 0.21
10 30 0.58
11 3 0.06
12 3 0.06
13 4 0.08
14 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATATTTATA
Found at i:596022 original size:19 final size:19
Alignment explanation
Indices: 596000--596038 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
595990 TATATAAATA
596000 TATTTATAT-ATATTTATAT
1 TATTTATATAATA-TTATAT
*
596019 TATTTTTATAATATTATAT
1 TATTTATATAATATTATAT
596038 T
1 T
596039 TTAATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTATATAATATTATAT
Found at i:596029 original size:33 final size:35
Alignment explanation
Indices: 595954--596039 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 35
595944 TAAAATTGAT
595954 ATTATATAAT-TTATATTTATATAAATTTATTAAA
1 ATTATATAATATTATATTTATATAAATTTATTAAA
* *
595988 ATTATATAA-A-TATATTTATATATATTTA-TATTA
1 ATTATATAATATTATATTTATATAAATTTATTA-AA
* *
596021 TTTTTATAATATTATATTT
1 ATTATATAATATTATATTT
596040 TAATTATTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
32 2 0.05
33 25 0.57
34 10 0.23
35 7 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (35 bp):
ATTATATAATATTATATTTATATAAATTTATTAAA
Found at i:597193 original size:22 final size:22
Alignment explanation
Indices: 597149--597193 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
597139 TATTTTTATT
*
597149 TAAATTTAATTATAAAATGATA
1 TAAATTTAATTATAAAATAATA
*
597171 TAAATATTAA-TATAAATTAATA
1 TAAAT-TTAATTATAAAATAATA
597193 T
1 T
597194 TTTAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATTTAATTATAAAATAATA
Found at i:598784 original size:10 final size:10
Alignment explanation
Indices: 598754--598786 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
598744 CGTTGTAGAT
598754 AATATATATA
1 AATATATATA
*
598764 TATATATATA
1 AATATATATA
598774 AATATATATA
1 AATATATATA
598784 AAT
1 AAT
598787 TCAACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AATATATATA
Found at i:599434 original size:2 final size:2
Alignment explanation
Indices: 599427--599468 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
599417 TACACATTAA
599427 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
599469 TGAGACTGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:600957 original size:3 final size:3
Alignment explanation
Indices: 600949--601003 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
600939 ACTTTTGTGG
* *
600949 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA AGA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA
*
600995 ATA AAA ATA
1 ATA ATA ATA
601004 GAAATTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 43 0.96
4 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
ATA
Found at i:602303 original size:29 final size:28
Alignment explanation
Indices: 602271--602326 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
602261 ATTATTATTT
* *
602271 AATTTATATTAATTATTTTTAAAATTTTC
1 AATTTAT-TTAATGACTTTTAAAATTTTC
*
602300 AATTTATTTTATGACTTTTAAAATTTT
1 AATTTATTTAATGACTTTTAAAATTTT
602327 TTCTGTTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (28 bp):
AATTTATTTAATGACTTTTAAAATTTTC
Found at i:602521 original size:154 final size:151
Alignment explanation
Indices: 602128--602634 Score: 455
Period size: 154 Copynumber: 3.3 Consensus size: 151
602118 AATCATCATA
* * *
602128 AAATTAGTTTTAAAAAATTTAATTTATTTTATGAGCTTT-AGATTTTTTT-TGTTACTAAGATAT
1 AAATTA-TTTTAAAAAATTTAATTTATTTTATGAGTTTTGA-ATTTTTTTCTGTT-CCAAAATAT
* ** ** * * * *
602191 -GAAGTTTTTTACT-C-TATAAATTACTCTGTAAGGATTTCTCTGAGTTTATAAA-TTTTAAAAT
63 AG-AGTTTTCTACTCCGTA-AAATTTTTCAATTA--ATTTTTCTCAGTTCA-AAATTTTTAAAAT
*
602252 TC-TTCAAATATTATT-ATTTAATTTATATT
123 TCATT-AAATATT-TTCATTTAATTTATGTT
* * * * * *
602281 -AATTATTTTTAAAATTTTCAATTTATTTTATGACTTTTAAAATTTTTTCTGTTCTAAAATATAG
1 AAATTATTTTAAAAAATTT-AATTTATTTTATGAGTTTTGAATTTTTTTCTGTTCCAAAATATAG
* *
602345 AGTTTTCTACTCCGTGAAATTTTATTCAATT-ATTTTTTTCAGTTC-AAATCTTTTAAAATTCAT
65 AGTTTTCTACTCCGT-AAAATTT-TTCAATTAATTTTTCTCAGTTCAAAAT-TTTTAAAATTCAT
*
602408 TAAATATTTTCATTAAATTTATGTT
127 TAAATATTTTCATTTAATTTATGTT
* * *
602433 AAATCTATTTTAAAAAAATTAATTTATTTTATGAGTTTTGGATTTTTTTTTGTTTCCAAAACT-T
1 AAAT-TATTTTAAAAAATTTAATTTATTTTATGAGTTTTGAATTTTTTTCTG-TTCCAAAA-TAT
* * * *
602497 AGAGTTTTTTACTCTGTAAAATTTTTCGATTGAATTTTTCTGAGTTCAAAATTTTTAAAATTCAT
63 AGAGTTTTCTACTCCGTAAAATTTTTCAATT-AATTTTTCTCAGTTCAAAATTTTTAAAATTCAT
*
602562 CAAATATTTTCATTTAATTTATAG-T
127 TAAATATTTTCATTTAATTTAT-GTT
* *
602587 AAATTAGTTTTAGAAAATTTAATTTATTTTATAAGTTTTGAATTTTTT
1 AAATTA-TTTTAAAAAATTTAATTTATTTTATGAGTTTTGAATTTTTT
602635 GTATTTATCA
Statistics
Matches: 293, Mismatches: 40, Indels: 41
0.78 0.11 0.11
Matches are distributed among these distances:
150 3 0.01
151 13 0.04
152 93 0.32
153 47 0.16
154 127 0.43
155 10 0.03
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.52
Consensus pattern (151 bp):
AAATTATTTTAAAAAATTTAATTTATTTTATGAGTTTTGAATTTTTTTCTGTTCCAAAATATAGA
GTTTTCTACTCCGTAAAATTTTTCAATTAATTTTTCTCAGTTCAAAATTTTTAAAATTCATTAAA
TATTTTCATTTAATTTATGTT
Found at i:604635 original size:29 final size:29
Alignment explanation
Indices: 604442--604637 Score: 164
Period size: 29 Copynumber: 6.8 Consensus size: 29
604432 TGAGGTAAAT
* *
604442 ATGTAATTTTTGAAAAGGTTAAGGGTTAAA
1 ATGTAA-TTTTGAAAAGTTTAAGGGTCAAA
* *
604472 ATATACTTTTGAAAAGTTT-AGGGTTCAAA
1 ATGTAATTTTGAAAAGTTTAAGGG-TCAAA
* * *
604501 ATGTAATTTTGAAGAGTTCAAGGCTCAAA
1 ATGTAATTTTGAAAAGTTTAAGGGTCAAA
* * *
604530 GTGTAA-TTTGAAAAGCTTAAGGATCAAA
1 ATGTAATTTTGAAAAGTTTAAGGGTCAAA
* * * *
604558 ACGTAATTTTGAAAAGCTT-AGAGATTAAA
1 ATGTAATTTTGAAAAGTTTAAG-GGTCAAA
*** * * *
604587 GCATAATTTTAAAAATTTTAAGGGTCAAT
1 ATGTAATTTTGAAAAGTTTAAGGGTCAAA
604616 ATGTAATTTTGAAAAGTTTAAG
1 ATGTAATTTTGAAAAGTTTAAG
604638 AACTTAGTAG
Statistics
Matches: 131, Mismatches: 30, Indels: 11
0.76 0.17 0.06
Matches are distributed among these distances:
28 28 0.21
29 94 0.72
30 9 0.07
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.35
Consensus pattern (29 bp):
ATGTAATTTTGAAAAGTTTAAGGGTCAAA
Found at i:606113 original size:2 final size:2
Alignment explanation
Indices: 606108--606140 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
606098 ACACACTTAT
606108 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
606141 TCATGATTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:609054 original size:19 final size:20
Alignment explanation
Indices: 609030--609081 Score: 79
Period size: 21 Copynumber: 2.6 Consensus size: 20
609020 TAGCCAAACT
*
609030 TGTATCGATACAC-AAAGTA
1 TGTATCGATACACAAAAATA
609049 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC-AAAAATA
609070 TGTATCGATACA
1 TGTATCGATACA
609082 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
21 17 0.57
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACAAAAATA
Found at i:610266 original size:159 final size:159
Alignment explanation
Indices: 609977--610296 Score: 640
Period size: 159 Copynumber: 2.0 Consensus size: 159
609967 CTCGAATGCC
609977 ATAGGACTCGAGGGACACTCAACCATGAGGCCTCCATACTTTAACGGTGACAACTTCTCATATTG
1 ATAGGACTCGAGGGACACTCAACCATGAGGCCTCCATACTTTAACGGTGACAACTTCTCATATTG
610042 GAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGATTATGAGGTATGGAAGATTATTATCAATG
66 GAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGATTATGAGGTATGGAAGATTATTATCAATG
610107 GACCTCGTATTCCATTGATCGAAGGCACT
131 GACCTCGTATTCCATTGATCGAAGGCACT
610136 ATAGGACTCGAGGGACACTCAACCATGAGGCCTCCATACTTTAACGGTGACAACTTCTCATATTG
1 ATAGGACTCGAGGGACACTCAACCATGAGGCCTCCATACTTTAACGGTGACAACTTCTCATATTG
610201 GAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGATTATGAGGTATGGAAGATTATTATCAATG
66 GAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGATTATGAGGTATGGAAGATTATTATCAATG
610266 GACCTCGTATTCCATTGATCGAAGGCACT
131 GACCTCGTATTCCATTGATCGAAGGCACT
610295 AT
1 AT
610297 GGTTTCGAAG
Statistics
Matches: 161, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
159 161 1.00
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (159 bp):
ATAGGACTCGAGGGACACTCAACCATGAGGCCTCCATACTTTAACGGTGACAACTTCTCATATTG
GAAGACAAGGATGAGGTTGTTCATCCAAGCCAACGATTATGAGGTATGGAAGATTATTATCAATG
GACCTCGTATTCCATTGATCGAAGGCACT
Found at i:613305 original size:15 final size:15
Alignment explanation
Indices: 613285--613315 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
613275 TAAAAATATC
*
613285 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
613300 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
613315 C
1 C
613316 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:615417 original size:13 final size:13
Alignment explanation
Indices: 615399--615436 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
615389 CATTTTTCTT
615399 TGTATCGATACAA
1 TGTATCGATACAA
*
615412 TGTATCGATACAC
1 TGTATCGATACAA
615425 TGTATCGATACA
1 TGTATCGATACA
615437 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:618001 original size:13 final size:13
Alignment explanation
Indices: 617983--618008 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
617973 TACACAAAGT
617983 ATGTATCGATACA
1 ATGTATCGATACA
617996 ATGTATCGATACA
1 ATGTATCGATACA
618009 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:618006 original size:32 final size:33
Alignment explanation
Indices: 617965--618029 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 33
617955 TAGCCAAACT
*
617965 TGTATCGATACAC-AAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
617997 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
618030 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 13 0.43
34 17 0.57
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:620447 original size:25 final size:25
Alignment explanation
Indices: 620413--620475 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
620403 TCTCATGGAT
*
620413 TTGTATCGATACACAAGTTTGGGTA
1 TTGTATCGATACACAAGCTTGGGTA
620438 TTGTATCGATACACAAGCTTGGGTA
1 TTGTATCGATACACAAGCTTGGGTA
*
620463 TTGTATCAATACA
1 TTGTATCGATACA
620476 TTCTGTTGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (25 bp):
TTGTATCGATACACAAGCTTGGGTA
Found at i:621333 original size:66 final size:66
Alignment explanation
Indices: 621185--621369 Score: 181
Period size: 66 Copynumber: 2.7 Consensus size: 66
621175 GTTCTTTGTG
* * * *
621185 GACTAAGGTAGATTAACATGGTGCCACAAGCGTGTGTGGGCTTAAGGGAGGTAAACGTTTTGCTC
1 GACTAAGGTAGA-TAA-ATGGTGCCACAAGCTTGTGTGGGCTTTA---AGGTAAACATCTTGCTC
621250 TTTGAA
61 TTTGAA
* * * * *
621256 AACTAAGGTAGATAAATGGTACCACAAGCTTGTGTAGGCTTTAAGGTAAGCATCTTGCTTTTTGA
1 GACTAAGGTAGATAAATGGTGCCACAAGCTTGTGTGGGCTTTAAGGTAAACATCTTGCTCTTTGA
*
621321 C
66 A
* ** * * *
621322 GACTAATGTAGATAGCTAGTGCCATAAGTTTGTGTGGGCTTTAAGGTA
1 GACTAAGGTAGATAAATGGTGCCACAAGCTTGTGTGGGCTTTAAGGTA
621370 GGTAGGCATC
Statistics
Matches: 95, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
66 57 0.60
69 24 0.25
70 3 0.03
71 11 0.12
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (66 bp):
GACTAAGGTAGATAAATGGTGCCACAAGCTTGTGTGGGCTTTAAGGTAAACATCTTGCTCTTTGA
A
Found at i:621449 original size:136 final size:133
Alignment explanation
Indices: 621301--621647 Score: 367
Period size: 132 Copynumber: 2.6 Consensus size: 133
621291 AGGCTTTAAG
* *
621301 GTAAGCATCTTGCTTTTTGACGACTAATGTAGATAGCTAGTGCCATAAGTTTGTGTGGGCTTTAA
1 GTAAGCATCTTGCTTTTTGAGGACTAA-GTAGATA--TAGTGCCATAAGCTTGTGTGGGCTTTAA
* * * ** * * *
621366 GGTAGGTAGGCATCTATCTTTTCATGGATTGAGGTGGATAGGTGCTACCGGCTTATGTGGGCTTT
63 GGTAGGTAAGCATCTAGCTTTTCATAGATAAAGGTGGATAGGTGCCACCAGCTTATGTGAGCTTT
621431 GAGTGA
128 GAGTGA
* * * * *
621437 GTAGGCGTCTTGCTTTTTAAGGACTAAGATAGAT-TA-TGCCACCAA-CTTGTGTGGGCTTTGAG
1 GTAAGCATCTTGCTTTTTGAGGACTAAG-TAGATATAGTGCCA-TAAGCTTGTGTGGGCTTTAAG
* * * *
621499 GTAAGTAAGCGTCTAGCTTTTCATAGATAAAGGTGGATAGGTGCCACCAGTTTGTGTGAGCTTTG
64 GTAGGTAAGCATCTAGCTTTTCATAGATAAAGGTGGATAGGTGCCACCAGCTTATGTGAGCTTTG
621564 AGTGA
129 AGTGA
* ** * **
621569 GTAAGCATCATGCTCCTTGAGGACTAAGGTAGATAAATGATGCCATAAGCTTGTGTAAGCTTTAA
1 GTAAGCATCTTGCTTTTTGAGGACTAA-GTAGATATA-G-TGCCATAAGCTTGTGTGGGCTTTAA
*
621634 AGTAGGTAAGCATC
63 GGTAGGTAAGCATC
621648 CTGTTTCTTG
Statistics
Matches: 170, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
132 104 0.61
133 6 0.04
135 3 0.02
136 57 0.34
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (133 bp):
GTAAGCATCTTGCTTTTTGAGGACTAAGTAGATATAGTGCCATAAGCTTGTGTGGGCTTTAAGGT
AGGTAAGCATCTAGCTTTTCATAGATAAAGGTGGATAGGTGCCACCAGCTTATGTGAGCTTTGAG
TGA
Found at i:621554 original size:67 final size:65
Alignment explanation
Indices: 621351--621574 Score: 184
Period size: 66 Copynumber: 3.4 Consensus size: 65
621341 TGCCATAAGT
* * * * * * * * *
621351 TTGTGTGGGCTTTAAGGTAGGTAGGCATCTATCTTTTCATGGATTGAGGTGGATAGGTGCTACCG
1 TTGTGTGGGCTTTGA-GTAAGTAAGCGTCTAGCTTTTCATAGA-TAAGGTGGATAGGTGCCACCA
621416 GC
64 GC
* * * * * * *
621418 TTATGTGGGCTTTGAGTGAGTAGGCGTCTTGCTTTTTA-AGGACTAAGATAGATTA--TGCCACC
1 TTGTGTGGGCTTTGAGTAAGTAAGCGTCTAGCTTTTCATA-GA-TAAGGTGGA-TAGGTGCCACC
*
621480 AAC
63 AGC
621483 TTGTGTGGGCTTTGAGGTAAGTAAGCGTCTAGCTTTTCATAGATAAAGGTGGATAGGTGCCACCA
1 TTGTGTGGGCTTTGA-GTAAGTAAGCGTCTAGCTTTTCATAGAT-AAGGTGGATAGGTGCCACCA
*
621548 GT
64 GC
* *
621550 TTGTGTGAGCTTTGAGTGAGTAAGC
1 TTGTGTGGGCTTTGAGTAAGTAAGC
621575 ATCATGCTCC
Statistics
Matches: 123, Mismatches: 27, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
65 24 0.20
66 61 0.50
67 38 0.31
ACGTcount: A:0.22, C:0.13, G:0.31, T:0.33
Consensus pattern (65 bp):
TTGTGTGGGCTTTGAGTAAGTAAGCGTCTAGCTTTTCATAGATAAGGTGGATAGGTGCCACCAGC
Found at i:621911 original size:71 final size:72
Alignment explanation
Indices: 621809--621960 Score: 198
Period size: 71 Copynumber: 2.1 Consensus size: 72
621799 ATGGTGCCAC
* * * *
621809 AAGCTTATGTGGGTTTTAAGTAAGTTAGAAAAGGCATCTAGCTATTCGTGGACTAAGACAGATAG
1 AAGCTTGTGTGGGTTTTAAATAAGTTAGAAAAAGCATCTAGCTATTCATGGACTAAGACAGATAG
621874 GTACCAT
66 GTACCAT
* * * * *
621881 CAGCTTGTGTGGG-TTTAAATAGGTTAGAAAAAGCATTTAGCTTTTCATGGACTAAGGCAGATAG
1 AAGCTTGTGTGGGTTTTAAATAAGTTAGAAAAAGCATCTAGCTATTCATGGACTAAGACAGATAG
**
621945 GTGTCAT
66 GTACCAT
621952 AAGCTTGTG
1 AAGCTTGTG
621961 AACTTGGAGT
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
71 57 0.84
72 11 0.16
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (72 bp):
AAGCTTGTGTGGGTTTTAAATAAGTTAGAAAAAGCATCTAGCTATTCATGGACTAAGACAGATAG
GTACCAT
Found at i:622453 original size:70 final size:69
Alignment explanation
Indices: 622347--623373 Score: 444
Period size: 70 Copynumber: 14.7 Consensus size: 69
622337 CAATTTTCAT
* * * *
622347 GGACTAAGGTA-A-ATA-GGTGCCACCAGCTTCTGTAGGCTTTAAGGTAGGTAAGCATCTTGCTT
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTAA-GTAGGTAAGCATCCTGCTT
622409 TTTGA
65 TTTGA
* * * * * * * *
622414 GGACTAAGGTAGATAAATGGTGCCATAAGCTTGTGTAGGCTTTTAGGTAGGTAAACATCTTACTC
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGC-TTTAAGTAGGTAAGCATCCTGCTT
*
622479 CTTGA
65 TTTGA
* * * * * * *
622484 GGAATAAAGTAGATAGATGGTGTCATAAGCTTGTCT-GAGCTTTAAGTATGTCAAAAAAGGCATC
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAG-GCTTTAAGTAGGT-----AA-GCATC
* *
622548 CAGC-TTTTCA
59 CTGCTTTTTGA
* * * * *
622558 TGGACTAAGGTGGATAGGTGGTGCCATAAACTTATGTAGGCTTT-GGCTAGGTAAGCATCCTGCT
1 -GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTAAG-TAGGTAAGCATCCTGCT
**
622622 CCTTGA
64 TTTTGA
* * *** **
622628 GGACTAA-G--G-TAGA---T---A-AAGCTTGTATAGGCTTTAAGTAGGTAAGTGCCCTATTTT
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTAAGTAGGTAAGCATCCTGCTTT
*
622682 TTAA
66 TTGA
* * * * * *** * *
622686 GGACTAAGGTAGATAAATAGTGCCACAAGCTTTTGTGGGCTTTAAAATAGGTAAATGTCTTGCTG
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTT-AAGTAGGTAAGCATCCTGCTT
622751 TTTGA
65 TTTGA
** * * * *
622756 GGACTAAGGTAGATAGATAATGCCATAAACTTCTGT-GAGCTTTAAGTAGGTCAGAAAAGACATT
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAG-GCTTTAAGTAGGT-----AAG-CATC
*
622820 CAGCTTTTCAT-A
59 CTGCTTTT--TGA
* * * * * ** *
622832 -GACTAAGGTGGATAGGTGGTGCCACAAGCTTATGTGGGCTTTGAGGTGGGTAAGTGTCCTACTT
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTT-AAGTAGGTAAGCATCCTGCTT
622896 TTTGA
65 TTTGA
* * * * * * * * * *
622901 GGACTAAGGAAAATAGATAGTTCCAAAAGCTTATATGGGCTTTAGGTAGGTAAGCATCCTACTTC
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTAAGTAGGTAAGCATCCTGCTTT
*
622966 TTAA
66 TTGA
* * * * * **
622970 GGACTAAGGTAGATATATAGCGCCACAAGCTTGTGTAGGCTTTAAATAGGTCAAAAAAGGTGTCC
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTAAGTAGGT-----AA-GCATCC
* * *
623035 AGCTCTTTGT
60 TGCTTTTTGA
* * * **
623045 GGACTAA-GTAGAT--A-GGTGCCACCAA-CTTGTGTCA-GTTTTAAAGTAGGTAAGCGTCCTAT
1 GGACTAAGGTAGATAGATGGTGCCA-CAAGCTTATGT-AGGCTTT-AAGTAGGTAAGCATCCTGC
*
623104 TTTTTAA
63 TTTTTGA
* * * * **
623111 GGACTAAGGTAGATAAATGGTGCCATAAGCTTATGTGGGCTTTAAGT-GAGTAACCATATTG-TT
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTAAGTAG-GTAAGCATCCTGCTT
623174 TCTTGA
65 T-TTGA
* * * *
623180 AGATTAGGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTGAAGTAGGTAAGAAAAAATGTC
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTT-AAGTAGGTAAG----CA--TC
* * * *
623245 CAGCTCTTCGT
59 CTGCTTTTTGA
* * * *
623256 GGA-T--TG-AGATAGATAGGTGCCACTAGCTTATGTGGGCTTTAAAGTAGGTTAGCATCCTGCT
1 GGACTAAGGTAGATAGAT-GGTGCCACAAGCTTATGTAGGCTTT-AAGTAGGTAAGCATCCTGCT
*
623317 CTTTGA
64 TTTTGA
* * * *
623323 GAACTATGGTATATAGATGGTGCCACAAGCTTATGTGGGCTTTAAGTAGGT
1 GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTAAGTAGGT
623374 CAAAATAGGC
Statistics
Matches: 718, Mismatches: 170, Indels: 142
0.70 0.17 0.14
Matches are distributed among these distances:
58 36 0.05
59 3 0.00
61 1 0.00
62 4 0.01
65 4 0.01
66 17 0.02
67 31 0.04
68 9 0.01
69 174 0.24
70 222 0.31
71 31 0.04
72 20 0.03
73 34 0.05
74 17 0.02
75 97 0.14
76 15 0.02
77 3 0.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (69 bp):
GGACTAAGGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTAAGTAGGTAAGCATCCTGCTTT
TTGA
Found at i:622455 original size:141 final size:140
Alignment explanation
Indices: 622086--622468 Score: 334
Period size: 141 Copynumber: 2.7 Consensus size: 140
622076 AGACAGATAG
* * * * * * * *
622086 GCCACTAGCTTGTGTGGGCTTTGAGGTAGGTAAGCATTTTGCTCTCT-ATGG-CTAAGATAAATA
1 GCCACCAGCTTCTGTAGGCTTTAAGGTAGGTAAGCATCTTGCT-TTTGA-GGACTAAGGTAGATA
* * ** *
622149 AATGGTGCCACAAGCTTGTGTAGTCTTTAAGTAGGTTAAAAAAAGCATCCAGCTCTTTATGAACT
64 AATGGTGCCATAAGCTTGTGTAGGCTTTAAGTAGG-TAAAAAAAAAATCCAGATCTTTATGAACT
*
622214 AAGGCAGATAGGT
128 AAGGCAAATAGGT
** * * * * * * *
622227 GCCACCAATTTCTGTAGGCTTTGAATG-A-GTAAAG-GTCCTAC-TTTGAAGATTAAGGCAGATA
1 GCCACCAGCTTCTGTAGGCTTT-AAGGTAGGT-AAGCATCTTGCTTTTGAGGACTAAGGTAGATA
* * * * * *
622288 GA-GGATGCCATAAGCTTATATGGGCTTTGAAGTAGGTAAAAAAAAAATTCA-AT-TTTCATGGA
64 AATGG-TGCCATAAGCTTGTGTAGGCTTT-AAGTAGGTAAAAAAAAAATCCAGATCTTT-ATGAA
*
622350 CTAAGGTAAATAGGT
126 CTAAGGCAAATAGGT
622365 GCCACCAGCTTCTGTAGGCTTTAAGGTAGGTAAGCATCTTGCTTTTTGAGGACTAAGGTAGATAA
1 GCCACCAGCTTCTGTAGGCTTTAAGGTAGGTAAGCATCTTGC-TTTTGAGGACTAAGGTAGATAA
*
622430 ATGGTGCCATAAGCTTGTGTAGGCTTTTAGGTAGGTAAA
65 ATGGTGCCATAAGCTTGTGTAGGC-TTTAAGTAGGTAAA
622469 CATCTTACTC
Statistics
Matches: 184, Mismatches: 44, Indels: 28
0.72 0.17 0.11
Matches are distributed among these distances:
137 6 0.03
138 47 0.26
139 46 0.25
140 12 0.07
141 66 0.36
142 7 0.04
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (140 bp):
GCCACCAGCTTCTGTAGGCTTTAAGGTAGGTAAGCATCTTGCTTTTGAGGACTAAGGTAGATAAA
TGGTGCCATAAGCTTGTGTAGGCTTTAAGTAGGTAAAAAAAAAATCCAGATCTTTATGAACTAAG
GCAAATAGGT
Found at i:622950 original size:145 final size:145
Alignment explanation
Indices: 622687--622951 Score: 325
Period size: 145 Copynumber: 1.8 Consensus size: 145
622677 ATTTTTTAAG
* * *
622687 GACTAAGGTAGATAAATAGTGCCACAAGCTTTTGTGGGCTTTAAAATAGGTAAATGTCTTGCTGT
1 GACTAAGGTAGATAAATAGTGCCACAAGCTTATGTGGGCTTTAAAATAGGTAAATGTCCTACTGT
* * * *
622752 TTGAGGACTAAGGTAGATAGATAATGCCATAAACTTCTGTGAGCTTTAAGTAGGTCAGAAAAGAC
66 TTGAGGACTAAGGAAAATAGATAATGCCATAAACTTATATGAGCTTTAAGTAGGTCAGAAAAGAC
622817 ATTCAGCTTTTCATA
131 ATTCAGCTTTTCATA
* ** * * ** * * *
622832 GACTAAGGTGGATAGGTGGTGCCACAAGCTTATGTGGGCTTTGAGGTGGGTAAGTGTCCTACTTT
1 GACTAAGGTAGATAAATAGTGCCACAAGCTTATGTGGGCTTTAAAATAGGTAAATGTCCTACTGT
* * * *
622897 TTGAGGACTAAGGAAAATAGATAGTTCCA-AAAGCTTATATGGGCTTTAGGTAGGT
66 TTGAGGACTAAGGAAAATAGATAATGCCATAAA-CTTATATGAGCTTTAAGTAGGT
622952 AAGCATCCTA
Statistics
Matches: 98, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
144 3 0.03
145 95 0.97
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (145 bp):
GACTAAGGTAGATAAATAGTGCCACAAGCTTATGTGGGCTTTAAAATAGGTAAATGTCCTACTGT
TTGAGGACTAAGGAAAATAGATAATGCCATAAACTTATATGAGCTTTAAGTAGGTCAGAAAAGAC
ATTCAGCTTTTCATA
Found at i:623011 original size:69 final size:69
Alignment explanation
Indices: 622852--623013 Score: 189
Period size: 69 Copynumber: 2.3 Consensus size: 69
622842 GATAGGTGGT
* ** * *
622852 GCCACAAGCTTATGTGGGCTTTGAGGTGGGTAAGTGTCCTACTTTTTGAGGACTAAGGAAAATAG
1 GCCACAAGCTTATGTGGGCTTT-AGGTAGGTAAGCATCCTACTTCTTAAGGACTAAGGAAAATAG
*
622917 ATAGT
65 ATAGC
* * * * * *
622922 TCCAAAAGCTTATATGGGCTTTAGGTAGGTAAGCATCCTACTTCTTAAGGACTAAGGTAGATATA
1 GCCACAAGCTTATGTGGGCTTTAGGTAGGTAAGCATCCTACTTCTTAAGGACTAAGGAAAATAGA
622987 TAGC
66 TAGC
* *
622991 GCCACAAGCTTGTGTAGGCTTTA
1 GCCACAAGCTTATGTGGGCTTTA
623014 AATAGGTCAA
Statistics
Matches: 75, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
69 56 0.75
70 19 0.25
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (69 bp):
GCCACAAGCTTATGTGGGCTTTAGGTAGGTAAGCATCCTACTTCTTAAGGACTAAGGAAAATAGA
TAGC
Found at i:623193 original size:210 final size:212
Alignment explanation
Indices: 622655--623373 Score: 566
Period size: 210 Copynumber: 3.4 Consensus size: 212
622645 GCTTGTATAG
* * * * * * * * *
622655 GCTTT-AAGTAGGTAAGTGCCCTATTTTTTAAGGACTAAGGTAGATAAATAGTGCCACAAGCTTT
1 GCTTTAAAGTAGGTAAGCGTCCTACTTTTTGAGGACTAAGGTAAATAGATGGTGCCAAAAGCTTA
* * * * **
622719 TGTGGGCTTTAAAATAGGTAA--ATGTCTTGCTGT-TTGAGGACTAAGGTAGATAGATAATGCCA
66 TGTGGGCTTT-AAGTAGGTAACCAT-AC-TACT-TCTTAAGGACTAAGGTAGATAGATAGCGCCA
* * * * * * * * * *
622781 TAAACTTCTGT-GAGCTTT-AAGTAGGTCAGAAAAGACAT-T-CAGCTTTTCATAGACTAAGGTG
127 CAAGCTTATGTAG-GCTTTGAAATAGGTAAGAAAA-A-ATGTCCAGCTCTTCGTGGACTAAGATA
**
622842 GATAGGTGGTGCCA-CAAGCTTATGTGG
189 GATA---GGTGCCACCAA-CTTATGTCA
* * * * * * *
622869 GCTTTGAGGTGGGTAAGTGTCCTACTTTTTGAGGACTAAGGAAAATAGATAGTTCCAAAAGCTTA
1 GCTTTAAAGTAGGTAAGCGTCCTACTTTTTGAGGACTAAGGTAAATAGATGGTGCCAAAAGCTTA
* * * * *
622934 TATGGGCTTTAGGTAGGTAAGCATCCTACTTCTTAAGGACTAAGGTAGATATATAGCGCCACAAG
66 TGTGGGCTTTAAGTAGGTAACCATACTACTTCTTAAGGACTAAGGTAGATAGATAGCGCCACAAG
* ** *
622999 CTTGTGTAGGCTTT-AAATAGGTCAA-AAAAGGTGTCCAGCTCTTTGTGGACTAAG-TAGATAGG
131 CTTATGTAGGCTTTGAAATAGGT-AAGAAAAAATGTCCAGCTCTTCGTGGACTAAGATAGATAGG
*
623061 TGCCACCAACTTGTGTCA
195 TGCCACCAACTTATGTCA
* * * * * *
623079 GTTTTAAAGTAGGTAAGCGTCCTATTTTTTAAGGACTAAGGTAGATAAATGGTGCCATAAGCTTA
1 GCTTTAAAGTAGGTAAGCGTCCTACTTTTTGAGGACTAAGGTAAATAGATGGTGCCAAAAGCTTA
* ** * * * *
623144 TGTGGGCTTTAAGT-GAGTAACCATATTGTTTCTTGAA-GATTAGGGTAGATAGATGGTGCCACA
66 TGTGGGCTTTAAGTAG-GTAACCATACTACTTCTT-AAGGACTAAGGTAGATAGATAGCGCCACA
* * *
623207 AGCTTATGTAGGCTTTGAAGTAGGTAAGAAAAAATGTCCAGCTCTTCGTGGATTGAGATAGATAG
129 AGCTTATGTAGGCTTTGAAATAGGTAAGAAAAAATGTCCAGCTCTTCGTGGACTAAGATAGATAG
* * **
623272 GTGCCACTAGCTTATGTGG
194 GTGCCACCAACTTATGTCA
* * * * * * * *
623291 GCTTTAAAGTAGGTTAGCATCCTGCTCTTTGAGAACTATGGTATATAGATGGTGCCACAAGCTTA
1 GCTTTAAAGTAGGTAAGCGTCCTACTTTTTGAGGACTAAGGTAAATAGATGGTGCCAAAAGCTTA
623356 TGTGGGCTTTAAGTAGGT
66 TGTGGGCTTTAAGTAGGT
623374 CAAAATAGGC
Statistics
Matches: 406, Mismatches: 84, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
209 1 0.00
210 128 0.32
211 36 0.09
212 91 0.22
213 8 0.02
214 80 0.20
215 60 0.15
216 2 0.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (212 bp):
GCTTTAAAGTAGGTAAGCGTCCTACTTTTTGAGGACTAAGGTAAATAGATGGTGCCAAAAGCTTA
TGTGGGCTTTAAGTAGGTAACCATACTACTTCTTAAGGACTAAGGTAGATAGATAGCGCCACAAG
CTTATGTAGGCTTTGAAATAGGTAAGAAAAAATGTCCAGCTCTTCGTGGACTAAGATAGATAGGT
GCCACCAACTTATGTCA
Found at i:623355 original size:212 final size:210
Alignment explanation
Indices: 622977--623369 Score: 509
Period size: 212 Copynumber: 1.9 Consensus size: 210
622967 TAAGGACTAA
* * **
622977 GGTAGATATATAGCGCCACAAGCTTGTGTAGGCTTTAAATAGGTCAAAAAAGGTGTCCAGCTCTT
1 GGTAGATAGATAGCGCCACAAGCTTATGTAGGCTTTAAATAGGTCAAAAAAAATGTCCAGCTCTT
* * * * * *
623042 TGTGGACTAAGTAGATAGGTGCCACCAACTTGTGTCAGTTTTAAAGTAGGTAAGCGTCCTATTTT
66 CGTGGACTAAGTAGATAGGTGCCACCAACTTATGTCAGCTTTAAAGTAGGTAAGCATCCTACTCT
* *
623107 TTAAGGACTAAGGTAGATAAATGGTGCCATAAGCTTATGTGGGCTTTAAGTGAGTAACCATATTG
131 TTAAGAACTAAGGTAGATAAATGGTGCCACAAGCTTATGTGGGCTTTAAGTGAGTAACCATATTG
623172 TTTCTTGAAGATTAG
196 TTTCTTGAAGATTAG
* * *
623187 GGTAGATAGATGGTGCCACAAGCTTATGTAGGCTTTGAAGTAGGT-AAGAAAAAATGTCCAGCTC
1 GGTAGATAGATAGCGCCACAAGCTTATGTAGGCTTT-AAATAGGTCAA-AAAAAATGTCCAGCTC
* * * * ** * *
623251 TTCGTGGATTGAGATAGATAGGTGCCACTAGCTTATGTGGGCTTTAAAGTAGGTTAGCATCCTGC
64 TTCGTGGACTAAG-TAGATAGGTGCCACCAACTTATGTCAGCTTTAAAGTAGGTAAGCATCCTAC
* * * *
623316 TCTTTGAGAACTATGGTATATAGATGGTGCCACAAGCTTATGTGGGCTTTAAGT
128 TCTTTAAGAACTAAGGTAGATAAATGGTGCCACAAGCTTATGTGGGCTTTAAGT
623370 AGGTCAAAAT
Statistics
Matches: 153, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
210 34 0.22
211 31 0.20
212 88 0.58
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.31
Consensus pattern (210 bp):
GGTAGATAGATAGCGCCACAAGCTTATGTAGGCTTTAAATAGGTCAAAAAAAATGTCCAGCTCTT
CGTGGACTAAGTAGATAGGTGCCACCAACTTATGTCAGCTTTAAAGTAGGTAAGCATCCTACTCT
TTAAGAACTAAGGTAGATAAATGGTGCCACAAGCTTATGTGGGCTTTAAGTGAGTAACCATATTG
TTTCTTGAAGATTAG
Found at i:623609 original size:161 final size:161
Alignment explanation
Indices: 623344--623656 Score: 545
Period size: 161 Copynumber: 1.9 Consensus size: 161
623334 TATAGATGGT
* *
623344 GCCACAAGCTTATGTGGGCTTTAAGTAGGTCAAAATAGGCATCCAACTCTTCAAGACTAAGGTAG
1 GCCACAAGCTTATGTGGGCTTTAAGTAGGTCAAAATAGGCATCCAACTCTTCAAGACTAACGCAG
* *
623409 ATAGGTGATACCAGCTTGTGTAGGCTTTGGGTGAGTAAACGTCTTGCTCCTTGAGGACTAAGATA
66 ATAGGTGACACCAGCTTGTGTAGGCTTTGGGTGAGTAAACGTCCTGCTCCTTGAGGACTAAGATA
*
623474 GATAGGTGGTGCCATATGTGGGCTTATGTGG
131 GATAGGTGGTGCCATATATGGGCTTATGTGG
* *
623505 GCCACAAGCTTATGTGGGCTTTAAGTAGGTTAAAATAGGCATCCAACTCTTCAGGACTAACGCAG
1 GCCACAAGCTTATGTGGGCTTTAAGTAGGTCAAAATAGGCATCCAACTCTTCAAGACTAACGCAG
* *
623570 ATAGGTGCCACCAGCTTGTGTAGGCTTTGGGTGAGTAAACGTCCTGCTTCTTGAGGACTAAGATA
66 ATAGGTGACACCAGCTTGTGTAGGCTTTGGGTGAGTAAACGTCCTGCTCCTTGAGGACTAAGATA
623635 GATAGGTGGTGCCATATATGGG
131 GATAGGTGGTGCCATATATGGG
623657 TTTTGGAATA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
161 143 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (161 bp):
GCCACAAGCTTATGTGGGCTTTAAGTAGGTCAAAATAGGCATCCAACTCTTCAAGACTAACGCAG
ATAGGTGACACCAGCTTGTGTAGGCTTTGGGTGAGTAAACGTCCTGCTCCTTGAGGACTAAGATA
GATAGGTGGTGCCATATATGGGCTTATGTGG
Found at i:628816 original size:21 final size:21
Alignment explanation
Indices: 628783--628823 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
628773 CTAAGTAAAA
628783 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
628804 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
628824 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:628888 original size:20 final size:19
Alignment explanation
Indices: 628863--628933 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
628853 ACCCTGAAAA
628863 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
628883 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
628902 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
628923 GTATCGATACA
1 GTATCGATACA
628934 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:628986 original size:53 final size:53
Alignment explanation
Indices: 628903--629039 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
628893 AAATTGCATA
628903 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
628957 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
629010 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
629040 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:629165 original size:13 final size:13
Alignment explanation
Indices: 629147--629172 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
629137 ACATATTTGT
629147 GTGTATCGATACA
1 GTGTATCGATACA
629160 GTGTATCGATACA
1 GTGTATCGATACA
629173 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:633413 original size:22 final size:21
Alignment explanation
Indices: 633362--633414 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
633352 TTCAACTAAA
* *
633362 AAAAAAAGAGAAAGAAAAGAG
1 AAAAAAATAGAAACAAAAGAG
*
633383 AGAAGAAATAGAAACAAAGAGAG
1 A-AAAAAATAGAAACAAA-AGAG
633406 AAAAAAATA
1 AAAAAAATA
633415 AGGCTAACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 1 0.04
22 20 0.77
23 5 0.19
ACGTcount: A:0.74, C:0.02, G:0.21, T:0.04
Consensus pattern (21 bp):
AAAAAAATAGAAACAAAAGAG
Found at i:634592 original size:11 final size:10
Alignment explanation
Indices: 634567--634592 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
634557 CTACTAGATG
634567 ATTTTTGAAA
1 ATTTTTGAAA
634577 ATTTTTGAAA
1 ATTTTTGAAA
634587 ATTTTT
1 ATTTTT
634593 CATAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (10 bp):
ATTTTTGAAA
Found at i:634721 original size:140 final size:141
Alignment explanation
Indices: 634533--634795 Score: 449
Period size: 140 Copynumber: 1.9 Consensus size: 141
634523 CAGCGAATTG
*
634533 CATTCTGGTCAGGTCATTTTGTACCTACTAGATGATTTTTGAAAATTTTTGAAAATTTTTCATAA
1 CATTCTGGTCAGGTCATTTTGTACCTACTAGAAGATTTTTGAAAATTTTTGAAAATTTTTCATAA
* * *
634598 AAACTTTATGAACTTACCTTTCTGGAAAATGTATAGTTTGTAATTTTTCAATA-CAAATTACTTT
66 AAACTTCATGAAATTACCTTTCT-GAAAATGTATAATTTGTAATTTTTCAATACCAAATTACTTT
634662 TTATGAAATTAC
130 TTATGAAATTAC
*
634674 CATTTTGGTCAGGTCATTTTG-ACCTACTAGAAGATTTTTGAAAATTTTTGAAAATTTTTCATAA
1 CATTCTGGTCAGGTCATTTTGTACCTACTAGAAGATTTTTGAAAATTTTTGAAAATTTTTCATAA
*
634738 AAACTTCATGAAATTATCTTTCTGAAAATGTATAATTTGTAATTTTTCAATACCAAAT
66 AAACTTCATGAAATTACCTTTCTGAAAATGTATAATTTGTAATTTTTCAATACCAAAT
634796 GAATTCAGGG
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
139 28 0.24
140 67 0.58
141 20 0.17
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (141 bp):
CATTCTGGTCAGGTCATTTTGTACCTACTAGAAGATTTTTGAAAATTTTTGAAAATTTTTCATAA
AAACTTCATGAAATTACCTTTCTGAAAATGTATAATTTGTAATTTTTCAATACCAAATTACTTTT
TATGAAATTAC
Found at i:634732 original size:11 final size:10
Alignment explanation
Indices: 634707--634732 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
634697 CTACTAGAAG
634707 ATTTTTGAAA
1 ATTTTTGAAA
634717 ATTTTTGAAA
1 ATTTTTGAAA
634727 ATTTTT
1 ATTTTT
634733 CATAAAAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (10 bp):
ATTTTTGAAA
Found at i:635392 original size:97 final size:96
Alignment explanation
Indices: 635229--635467 Score: 318
Period size: 97 Copynumber: 2.5 Consensus size: 96
635219 AATTTTATTT
* * *
635229 ATCAGGGAAACTTCAACCCTATTCCCCCGAGGGGATACTCCAATCCCGCTTTTAAACACATCAAA
1 ATCAGGGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAA-CCCACTTTTAAACACATCAAA
*
635294 GTTTAAATCTTATTCTCACTTAAATTGTCACC
65 GTTTAAATCTTATTCTCACTGAAATTGTCACC
* * * * *
635326 ATCAGGGACACTTCAACCCTATTCCTCCGAAGAGATACTCCAACCCTATTTTTAAACGCATTAAA
1 ATCAGGGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAACCC-ACTTTTAAACACATCAAA
* * *
635391 GTTTAAATTTTATTGTCACTGAAATTGTCATC
65 GTTTAAATCTTATTCTCACTGAAATTGTCACC
* *
635423 ATC-GAGGACACTCCAACCCTATTCCTCCGAGGGGATACTCTAACC
1 ATCAG-GGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAACC
635468 TCGTTTTTCA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
96 4 0.03
97 120 0.97
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.29
Consensus pattern (96 bp):
ATCAGGGACACTTCAACCCTATTCCTCCGAGGGGATACTCCAACCCACTTTTAAACACATCAAAG
TTTAAATCTTATTCTCACTGAAATTGTCACC
Found at i:636977 original size:90 final size:89
Alignment explanation
Indices: 636883--637080 Score: 190
Period size: 90 Copynumber: 2.2 Consensus size: 89
636873 ATGAGGTTGG
* * * *
636883 AGTATTCCCTCGAAAGAGAAGAGATGGAGTTTCTCCCAAGGATGAAATTGTAT-AAGGGAAAA-T
1 AGTATTCCCTCGAAAGAGAAGAGATGAAGTTT-TCCCAAAGATAAAATTATATGAA-GGAAAACT
636946 TAAAATATTT-TTAAAGATTG-GGATAAA
64 T-AAAT-TTTGTTAAAGATTGAGG-TAAA
* * * *
636973 AGTA-TCCTCTCAAAATAGAGGGGATGAAGTTTTCCCAAAGATAAAATTATATGAAGGAAAAGCT
1 AGTATTCC-CTCGAAAGAGAAGAGATGAAGTTTTCCCAAAGATAAAATTATATGAAGGAAAA-CT
* *
637037 TAAGTTTTGTTAAAGATTGAGGTTAA
64 TAAATTTTGTTAAAGATTGAGGTAAA
* *
637063 ATTATCCCCTCGAAAGAG
1 AGTATTCCCTCGAAAGAG
637081 TGGGGATCGA
Statistics
Matches: 87, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
89 29 0.33
90 52 0.60
91 6 0.07
ACGTcount: A:0.40, C:0.11, G:0.21, T:0.28
Consensus pattern (89 bp):
AGTATTCCCTCGAAAGAGAAGAGATGAAGTTTTCCCAAAGATAAAATTATATGAAGGAAAACTTA
AATTTTGTTAAAGATTGAGGTAAA
Found at i:637094 original size:90 final size:83
Alignment explanation
Indices: 636953--637160 Score: 195
Period size: 90 Copynumber: 2.4 Consensus size: 83
636943 AATTAAAATA
* * * *
636953 TTTTTAAAGATTG-GGATAAAAGTATCCTCTCAAAATAGAGGGGATGAAGTTTTCCCAAAGATAA
1 TTTTTAAAGATTGAGG-TTAAAGTATCCCCTCAAAAGAGAGGGGATGAAG-TTT-CC--ACA-AA
*
637017 AATTATATGAAGGAAAAGCTTAAGT
60 AATTATATGAA-AAAAAGCTTAAGT
* * * *
637042 TTTGTTAAAGATTGAGGTTAAATTATCCCCTCGAAAGAGTGGGGATCG-AGTTTCCACAAAACTT
1 TTT-TTAAAGATTGAGGTTAAAGTATCCCCTCAAAAGAGAGGGGAT-GAAGTTTCCACAAAAATT
* *
637106 ATATGAAAAAAAGTTTGAGT
64 ATATGAAAAAAAGCTTAAGT
* * *
637126 TTTTTAAAGATTGAAGTTAAAGGATCCCCTTAAAA
1 TTTTTAAAGATTGAGGTTAAAGTATCCCCTCAAAA
637161 TAGTGAGGGT
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
83 27 0.27
84 13 0.13
85 12 0.12
86 2 0.02
88 2 0.02
89 6 0.06
90 35 0.35
91 3 0.03
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (83 bp):
TTTTTAAAGATTGAGGTTAAAGTATCCCCTCAAAAGAGAGGGGATGAAGTTTCCACAAAAATTAT
ATGAAAAAAAGCTTAAGT
Found at i:637176 original size:83 final size:84
Alignment explanation
Indices: 637015--637179 Score: 201
Period size: 83 Copynumber: 2.0 Consensus size: 84
637005 TCCCAAAGAT
* * ** *
637015 AAAATTATATGAAGGAAAAGCTTAAGTTTTGTTAAAGATTGAGGTTAAATTATCCCCTCGAAAGA
1 AAAATTATATGAAGAAAAAGCTTAAGTTTTGTTAAAGATTGAAGTTAAAGGATCCCCTCAAAAGA
*
637080 GTGGGGATCGAGTTTCCAC
66 GTGGGGATAGAGTTTCCAC
* * * *
637099 AAAACTTATATGAA-AAAAAGTTTGAGTTTT-TTAAAGATTGAAGTTAAAGGATCCCCTTAAAAT
1 AAAA-TTATATGAAGAAAAAGCTTAAGTTTTGTTAAAGATTGAAGTTAAAGGATCCCCTCAAAAG
637162 AGTGAGGG-TAGAGTTTCC
65 AGTG-GGGATAGAGTTTCC
637180 TATAAGGATG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
83 40 0.58
84 20 0.29
85 9 0.13
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (84 bp):
AAAATTATATGAAGAAAAAGCTTAAGTTTTGTTAAAGATTGAAGTTAAAGGATCCCCTCAAAAGA
GTGGGGATAGAGTTTCCAC
Found at i:639667 original size:51 final size:51
Alignment explanation
Indices: 639583--639838 Score: 184
Period size: 51 Copynumber: 4.9 Consensus size: 51
639573 GAAATAACAA
* *
639583 GGTTGGAGTATCCCCTGATTATG-GAAAATCAATATTTTAGAAATAAGGCCGG
1 GGTTGAAGTATCCCC-GATTGTGAG-AAATCAATATTTTAGAAATAAGGCCGG
* * *
639635 GGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTT-GAAAATAAAGTCGG
1 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAG-AAATAAGGCCGG
* * ** * * * * *
639686 GGTTGGAGTATCCCC--TCGAAAAAAAATGGGGTTAGAGTATCCCTGATGAAATAA---TGG
1 GGTTGAAGTATCCCCGATTG-TGAGAAA-----TCA-A-TAT--TTTA-GAAATAAGGCCGG
639743 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGG
1 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGG
* * *
639794 GGTTGAAGTATCCCTGATTGCGAGAAATCAATATTTTGGAAATAA
1 GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAA
639839 AATCGAAGTT
Statistics
Matches: 158, Mismatches: 27, Indels: 39
0.71 0.12 0.17
Matches are distributed among these distances:
48 7 0.04
49 4 0.03
50 5 0.03
51 89 0.56
52 15 0.09
53 2 0.01
55 2 0.01
56 1 0.01
57 19 0.12
58 4 0.03
59 3 0.02
60 6 0.04
61 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (51 bp):
GGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGG
Found at i:639717 original size:29 final size:29
Alignment explanation
Indices: 639684--639757 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
639674 AAATAAAGTC
639684 GGGGTTGGAGTATCCCCTCGA-AAAAAAAT
1 GGGGTTGGAGTATCCCCT-GATAAAAAAAT
* * *
639713 GGGGTTAGAGTAT-CCCTGATGAAATAAT
1 GGGGTTGGAGTATCCCCTGATAAAAAAAT
*
639741 GGGGTTGAAGTATCCCC
1 GGGGTTGGAGTATCCCC
639758 GATTGTGAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 2 0.05
28 21 0.55
29 15 0.39
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCTGATAAAAAAAT
Found at i:639855 original size:51 final size:51
Alignment explanation
Indices: 639744--639963 Score: 192
Period size: 51 Copynumber: 4.3 Consensus size: 51
639734 AAATAATGGG
* *** **
639744 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGG
1 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAATCGAA
* *
639795 GTTGAAGTATCCCTGATTGCGAGAAATCAATATTTTGGAAATAAAATCGAA
1 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAATCGAA
* * * *** *
639846 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGAA
1 GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAATCGAA
** * ** * * * *
639897 GTT-AGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAA-CCAG
1 GTTGA-AGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAATCGAA
639947 GATTGAAGTATCCCCGA
1 G-TTGAAGTATCCCCGA
639964 GATGAAAAAT
Statistics
Matches: 141, Mismatches: 25, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
50 3 0.02
51 137 0.97
52 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.29
Consensus pattern (51 bp):
GTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAATCGAA
Found at i:642318 original size:13 final size:13
Alignment explanation
Indices: 642300--642326 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
642290 GTAAACCCAA
642300 AATGTATCGATAC
1 AATGTATCGATAC
642313 AATGTATCGATAC
1 AATGTATCGATAC
642326 A
1 A
642327 TTGAACAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:643672 original size:20 final size:20
Alignment explanation
Indices: 643647--643703 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
643637 AAATATTCCT
* *
643647 TTATGTATTGATACATAACA
1 TTATGTATCGATACACAACA
643667 TTATGTATCGATACACAACA
1 TTATGTATCGATACACAACA
643687 TTATGTATCGATACACA
1 TTATGTATCGATACACA
643704 GGGTCATAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.35
Consensus pattern (20 bp):
TTATGTATCGATACACAACA
Found at i:645181 original size:21 final size:20
Alignment explanation
Indices: 645143--645187 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
645133 ATTTGCGGCA
645143 TTTTTCATTCTTGAATTTGTT
1 TTTTTCATTCTTGAATTT-TT
* **
645164 TTTTTTATTCTTTTATTTTT
1 TTTTTCATTCTTGAATTTTT
645184 TTTT
1 TTTT
645188 ATTTTATGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (20 bp):
TTTTTCATTCTTGAATTTTT
Found at i:647567 original size:27 final size:27
Alignment explanation
Indices: 647512--647567 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
647502 GAGAGCAACT
*
647512 TTTACCTCCTAGGATTGATTAGTTCTA
1 TTTACCTCCTAGGATTGATGAGTTCTA
* * * *
647539 TTTACTTCCTAGGCTTGATGGGTTGTA
1 TTTACCTCCTAGGATTGATGAGTTCTA
647566 TT
1 TT
647568 AGCAGCCAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.20, T:0.46
Consensus pattern (27 bp):
TTTACCTCCTAGGATTGATGAGTTCTA
Found at i:650430 original size:6 final size:6
Alignment explanation
Indices: 650419--650448 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
650409 AGCTTATTTC
650419 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
1 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
650449 GAGCATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
ATGTTT
Found at i:652464 original size:34 final size:34
Alignment explanation
Indices: 652409--652625 Score: 249
Period size: 34 Copynumber: 6.4 Consensus size: 34
652399 TAGTAGTTCC
*
652409 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * *
652442 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * *
652476 TGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* ** *
652510 TGTTGATTAAATGAGAAATTTGGTAGCTTATCAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * *
652544 TATTGATTAAATGGGTGATTTGGTGGCTTACTAT
1 TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
* * **
652578 TGTTGACTAAAT-GGTAGATTTGGTAGGTTGTCAT
1 TGTTGATTAAATGGGT-GATTTGGTAGCTTACCAT
652612 TGTTGATTAAATGG
1 TGTTGATTAAATGG
652626 TGGTTTTTAC
Statistics
Matches: 153, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
33 15 0.10
34 137 0.90
35 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.42
Consensus pattern (34 bp):
TGTTGATTAAATGGGTGATTTGGTAGCTTACCAT
Found at i:652601 original size:102 final size:101
Alignment explanation
Indices: 652409--652625 Score: 310
Period size: 102 Copynumber: 2.1 Consensus size: 101
652399 TAGTAGTTCC
** * * * *
652409 TGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
652474 ATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
66 ATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
*
652510 TGTTGATTAAATGAGAAATTTGGTAGCTTATCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
1 TGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTAC
* * **
652575 TATTGTTGACTAAAT-GGTAGATTTGGTAGGTTGTCAT
65 CATTGTTGACTAAATAGG-AGATTTGGTAGCTTACCAT
652612 TGTTGATTAAATGG
1 TGTTGATTAAATGG
652626 TGGTTTTTAC
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
101 16 0.16
102 87 0.84
ACGTcount: A:0.25, C:0.06, G:0.26, T:0.42
Consensus pattern (101 bp):
TGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTACC
ATTGTTGACTAAATAGGAGATTTGGTAGCTTACCAT
Found at i:657089 original size:34 final size:34
Alignment explanation
Indices: 657032--657251 Score: 264
Period size: 34 Copynumber: 6.5 Consensus size: 34
657022 AAGTAGGAGA
*
657032 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * *
657065 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCT
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
657099 ATTGTTGACTAAATAGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* ** *
657133 ATTGTTGATTAAATGAGAAATTTGGTAGCTTATC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
657167 ATTATTGATTAAATCGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAAT-GGGTGATTTGGTAGCTTACC
* *
657202 ATTGTTGACTAAAT-GGTAGATTTGGTAGGTTACC
1 ATTGTTGATTAAATGGGT-GATTTGGTAGCTTACC
657236 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
657252 TGGTTTTTAC
Statistics
Matches: 157, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
33 17 0.11
34 112 0.71
35 28 0.18
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:657209 original size:103 final size:101
Alignment explanation
Indices: 657032--657251 Score: 325
Period size: 103 Copynumber: 2.2 Consensus size: 101
657022 AAGTAGGAGA
** * * * *
657032 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
*
657097 CTATTGTTGACTAAATAGG-AGATTTGGTAGCTTACC
66 CCATTGTTGACTAAAT-GGTAGATTTGGTAGCTTACC
*
657133 ATTGTTGATTAAATGAGAAATTTGGTAGCTTATCATTATTGATTAAATCGGGTGATTTGGTGGCT
1 ATTGTTGATTAAATG-GAAATTTGGTAGCTTACCATTATTGATTAAAT-GGGTGATTTGGTGGCT
*
657198 TACCATTGTTGACTAAATGGTAGATTTGGTAGGTTACC
64 TACCATTGTTGACTAAATGGTAGATTTGGTAGCTTACC
657236 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
657252 TGGTTTTTAC
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
101 15 0.14
102 30 0.28
103 62 0.58
ACGTcount: A:0.26, C:0.07, G:0.25, T:0.41
Consensus pattern (101 bp):
ATTGTTGATTAAATGGAAATTTGGTAGCTTACCATTATTGATTAAATGGGTGATTTGGTGGCTTA
CCATTGTTGACTAAATGGTAGATTTGGTAGCTTACC
Found at i:657215 original size:69 final size:66
Alignment explanation
Indices: 657032--657253 Score: 268
Period size: 69 Copynumber: 3.3 Consensus size: 66
657022 AAGTAGGAGA
* *
657032 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGT-GGTT-
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAAT-GGAGATTTGGTAGGTTA
657095 TGC
65 T-C
* * * *
657098 TATTGTTGACTAAATAGGAGATTTGGTAGCTTACCATTGTTGATTAAATGAGAAATTTGGTAGCT
1 -ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATG-GAGATTTGGTAGGT
657163 TATC
63 TATC
* * *
657167 ATTATTGATTAAATCGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGTAGATTTGGTAGGT
1 ATTGTTGATTAAAT--GGTGATTTGGTAGCTTACCATTGTTGATTAAATGG-AGATTTGGTAGGT
*
657232 TACC
63 TATC
657236 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
657254 GTTTTTACCA
Statistics
Matches: 133, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
67 18 0.14
68 52 0.39
69 62 0.47
70 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (66 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGAGATTTGGTAGGTTAT
C
Found at i:658188 original size:2 final size:2
Alignment explanation
Indices: 658181--658212 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
658171 TATAACCAAT
658181 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
658213 AAGCCTAGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:659363 original size:21 final size:20
Alignment explanation
Indices: 659339--659380 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
659329 TATTTTTAAT
659339 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAA-ATA
*
659360 TAAATATTTATATAAAAATA
1 TAAATATTAATATAAAAATA
659380 T
1 T
659381 TTTTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 12 0.63
22 3 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (20 bp):
TAAATATTAATATAAAAATA
Found at i:659896 original size:14 final size:14
Alignment explanation
Indices: 659879--659909 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
659869 AATTAGGTTG
659879 TTTAAAAAATATTT
1 TTTAAAAAATATTT
*
659893 TTTAAAATATATTT
1 TTTAAAAAATATTT
659907 TTT
1 TTT
659910 TACGTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTAAAAAATATTT
Found at i:660075 original size:69 final size:65
Alignment explanation
Indices: 660000--660125 Score: 173
Period size: 69 Copynumber: 1.9 Consensus size: 65
659990 ATTTATGTTG
**
660000 AAATCAACGTATTAATTATTAAATTTTAATAAAATA-AAAATTAATTAAATTTGAAAAAAATGTA
1 AAATCAAAATATTAATTATT-AATTTTAATAAAATAGAAAATT--TTAAA-TT-AAAAAAATGTA
660064 TTAAA
61 TTAAA
*
660069 AAATCAAAATATTAATTATTATTTTTAATAAAATAGAAAATTTTAAATTAAAAAAAT
1 AAATCAAAATATTAATTATTAATTTTAATAAAATAGAAAATTTTAAATTAAAAAAAT
660126 TAAAAGTAAG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
65 8 0.15
66 2 0.04
67 5 0.09
68 14 0.26
69 24 0.45
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.37
Consensus pattern (65 bp):
AAATCAAAATATTAATTATTAATTTTAATAAAATAGAAAATTTTAAATTAAAAAAATGTATTAAA
Found at i:661227 original size:88 final size:90
Alignment explanation
Indices: 660994--661945 Score: 999
Period size: 91 Copynumber: 10.6 Consensus size: 90
660984 ACTCAGAACC
* * * *
660994 CGAAAGATATGACAGATGTATGAGGTATCAGATTCCTTCTAACACAATA-AAAATATTTGACTAA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
*
661058 TACCTAATAAAATTAATCTTGAAACT
66 TGCCTAATAAAATT-ATCTTGAAACT
* * * * * *
661084 CGAAAGATGTGACAGATGCATGAGGTATCAAATTCTTTTTAACATGAAAGAAAATATTTGACTAA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
* * * *
661149 TGCTTAAT-AAATT-TTTTGGAACC
66 TGCCTAATAAAATTATCTTGAAACT
* * * * * * * *
661172 CAAAAAATGTGACAGATGTATGGGGTATTAGATTCCTTGTGACACGATAAAAAATATTTAAC-AA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
661236 TGCCTAATAAAATTAGTCTT-AGAACT
66 TGCCTAATAAAATTA-TCTTGA-AACT
* * * * * *
661262 CGAAAGATGTGACAGATGCATGAGGTATCAGATTTCTTCCAACATGACAGAAAATATTTGACTAG
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
**
661327 TATCTAAT-AAATT-TCTTGAAACT
66 TGCCTAATAAAATTATCTTGAAACT
* * * * * **
661350 CGAAAGATGTGATAAATGCACGGGGTATCGGATTTCTTCTAACATAATAGAAAATATTTGACTAA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
*
661415 TGCCTAAAAAAATTAGTCTTGAAACT
66 TGCCTAATAAAATTA-TCTTGAAACT
* * * * * ** * * *
661441 CGAAAGATGTGATAGATGCAAGAGGTATTAGATTCTTTCTGGCATGATAGAAAATATTTAAATAA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
* * * *
661506 TGCATAAT-GAATT-TCTTGGAACC
66 TGCCTAATAAAATTATCTTGAAACT
* * * * * * * *
661529 CGAAAGATGTGACAAATGCATAGGGTATCATATTCTTTCTGACACGATGGAAAATATTTAACTGA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
661594 TGCCTAATAAAATTAGTCTTGAAACT
66 TGCCTAATAAAATTA-TCTTGAAACT
* * * ** * * *
661620 CGAAATATGTGATAGATGCATGGGGTATCATATTCCTTCTGGCATGCTAGAAAATATTTGACTCA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
*
661685 TGCCTAATAAAATT-T-TTGGAACT
66 TGCCTAATAAAATTATCTTGAAACT
* * *
661708 CGAAAGATATGACAGATGCATAGGGTATCAGATTCTTTCTAACACGATAGAAAATATTTGACTAA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
* *
661773 TACTTAATAAAATTAGTCTTGAAACT
66 TGCCTAATAAAATTA-TCTTGAAACT
* * * *
661799 CGAAAGATGTGACAGATGCATAGGGTATCAGGTTCCTTCTAACACGACAGAAAATATTAGACTAA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
661864 TGCCTAATAAAATTAATCTTGAAACT
66 TGCCTAATAAAATT-ATCTTGAAACT
* * * * **
661890 CGAAAGATATGACAGATGCATGAGGTATTAGATTCCTTCTTACATAATAGAAAATA
1 CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATA
661946 CCCTATGGAT
Statistics
Matches: 712, Mismatches: 133, Indels: 33
0.81 0.15 0.04
Matches are distributed among these distances:
87 9 0.01
88 271 0.38
89 11 0.02
90 111 0.16
91 309 0.43
92 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (90 bp):
CGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACGATAGAAAATATTTGACTAA
TGCCTAATAAAATTATCTTGAAACT
Found at i:661495 original size:179 final size:178
Alignment explanation
Indices: 660989--661945 Score: 1043
Period size: 179 Copynumber: 5.3 Consensus size: 178
660979 TATCAACTCA
* * * *
660989 GAACCCGAAAGATATGACAGATGTATGAGGTATCAGATTCCTTCTAACACAATA-AAAATATTTG
1 GAACTCGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACAATAGAAAATATTTG
* * *
661053 ACTAATACCTAATAAAATTAATCTTGAAACTCGAAAGATGTGACAGATGCATGAGGTATCAAATT
66 ACTAATGCCTAATAAAATTAGTCTTGAAACTCGAAAGATGTGACAGATGCATGAGGTATCAGATT
* * *
661118 CTTTTTAACATGAAAGAAAATATTTGACTA-ATGCTTAATAAATTTTTTG
131 CTTTCTAACATGACAGAAAATATTTGACTATAT-C-TAATAAATTTCTTG
* * * * * * * * * *
661167 GAACCCAAAAAATGTGACAGATGTATGGGGTATTAGATTCCTTGTGACACGATAAAAAATATTTA
1 GAACTCGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACAATAGAAAATATTTG
661232 AC-AATGCCTAATAAAATTAGTCTT-AGAACTCGAAAGATGTGACAGATGCATGAGGTATCAGAT
66 ACTAATGCCTAATAAAATTAGTCTTGA-AACTCGAAAGATGTGACAGATGCATGAGGTATCAGAT
*
661295 T-TCTTCCAACATGACAGAAAATATTTGACTAGTATCTAATAAATTTCTTG
130 TCT-TTCTAACATGACAGAAAATATTTGACTA-TATCTAATAAATTTCTTG
* * * * * * *
661345 AAACTCGAAAGATGTGATAAATGCACGGGGTATCGGATTTCTTCTAACATAATAGAAAATATTTG
1 GAACTCGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACAATAGAAAATATTTG
* * * *
661410 ACTAATGCCTAAAAAAATTAGTCTTGAAACTCGAAAGATGTGATAGATGCAAGAGGTATTAGATT
66 ACTAATGCCTAATAAAATTAGTCTTGAAACTCGAAAGATGTGACAGATGCATGAGGTATCAGATT
** * * * *
661475 CTTTCTGGCATGATAGAAAATATTTAAATA-ATGCATAATGAATTTCTTG
131 CTTTCTAACATGACAGAAAATATTTGACTATAT-C-TAATAAATTTCTTG
* * * * * * * * *
661524 GAACCCGAAAGATGTGACAAATGCATAGGGTATCATATTCTTTCTGACACGATGGAAAATATTTA
1 GAACTCGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACAATAGAAAATATTTG
* * * * *
661589 ACTGATGCCTAATAAAATTAGTCTTGAAACTCGAAATATGTGATAGATGCATGGGGTATCATATT
66 ACTAATGCCTAATAAAATTAGTCTTGAAACTCGAAAGATGTGACAGATGCATGAGGTATCAGATT
* ** **
661654 CCTTCTGGCATG-CTAGAAAATATTTGACTCATGCCTAATAAAATTT-TTG
131 CTTTCTAACATGAC-AGAAAATATTTGACT-ATATCTAAT-AAATTTCTTG
* * * *
661703 GAACTCGAAAGATATGACAGATGCATAGGGTATCAGATTCTTTCTAACACGATAGAAAATATTTG
1 GAACTCGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACAATAGAAAATATTTG
* * *
661768 ACTAATACTTAATAAAATTAGTCTTGAAACTCGAAAGATGTGACAGATGCAT-AGGGTATCAGGT
66 ACTAATGCCTAATAAAATTAGTCTTGAAACTCGAAAGATGTGACAGATGCATGA-GGTATCAGAT
* * *
661832 TCCTTCTAACACGACAGAAAATATTAGACTA-ATGCCTAATAAAATTAATCTTG
130 TCTTTCTAACATGACAGAAAATATTTGACTATAT--CTAAT-AAATT--TCTTG
* * * * * *
661885 AAACTCGAAAGATATGACAGATGCATGAGGTATTAGATTCCTTCTTACATAATAGAAAATA
1 GAACTCGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACAATAGAAAATA
661946 CCCTATGGAT
Statistics
Matches: 657, Mismatches: 101, Indels: 38
0.83 0.13 0.05
Matches are distributed among these distances:
177 4 0.01
178 193 0.29
179 391 0.60
180 12 0.02
181 1 0.00
182 56 0.09
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (178 bp):
GAACTCGAAAGATGTGACAGATGCATGGGGTATCAGATTCCTTCTAACACAATAGAAAATATTTG
ACTAATGCCTAATAAAATTAGTCTTGAAACTCGAAAGATGTGACAGATGCATGAGGTATCAGATT
CTTTCTAACATGACAGAAAATATTTGACTATATCTAATAAATTTCTTG
Found at i:666031 original size:80 final size:79
Alignment explanation
Indices: 665901--666100 Score: 204
Period size: 80 Copynumber: 2.5 Consensus size: 79
665891 AATAACGGGG
* * * * * * ** * *
665901 TTGGAGTGTTCCCTTGAAAATAACGAGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAG
*
665965 AAAAAAAAAATCAGGA
65 -AAAAAAAAACCAGGA
* * *
665981 TTTGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
* * * *
666046 GAATAAAACCGGGG
66 AAAAAAAACCAGGA
*
666060 TTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCC
666101 GATGAAATAA
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
79 49 0.49
80 50 0.51
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGAAAGTAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGA
AAAAAAAACCAGGA
Found at i:666095 original size:28 final size:28
Alignment explanation
Indices: 666055--666126 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
666045 GGAATAAAAC
** *
666055 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
666083 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
666111 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
666127 TCGACTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:666230 original size:51 final size:51
Alignment explanation
Indices: 666114--666508 Score: 203
Period size: 51 Copynumber: 7.6 Consensus size: 51
666104 GAAATAACGA
* * * * * * * * *
666114 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGT-GTTTTGAAAATAAAACCGG
* * *
666166 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAA-CGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAATTAGTGTTTTGAAAATAAAACCGG
* *
666217 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGG-AAAATTAGTGTTTTGA-AAATAAAACCGG
* * * * * **
666269 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAACCGG
* * * * * *
666320 GGTTGGAGTATCCCC--TCA--G-AAATAACGGGGTTGGAGTATCCTCAATGATTAA-CGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTA-GTGTTTTGA--A-----AAT-A-AAACCGG
* * * * * *
666375 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGGA-AAATTAGTG--TTTTGAAAATAAAACCGG
* * * * *
666429 AGTTGGAGTATCCTCGATTATAGAAAATTAGTGTTTTAAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAACCGG
* * * *
666480 AGTTGGAATATCCCCGATTGTGGAGAATT
1 GGTTGGAGTATCCCCGATTATGGAAAATT
666509 GAGAAACTCA
Statistics
Matches: 260, Mismatches: 59, Indels: 49
0.71 0.16 0.13
Matches are distributed among these distances:
46 5 0.02
47 3 0.01
49 3 0.01
50 3 0.01
51 114 0.44
52 53 0.20
53 20 0.08
54 25 0.10
55 22 0.08
56 1 0.00
57 1 0.00
60 3 0.01
61 4 0.02
62 3 0.01
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGGAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:666274 original size:103 final size:102
Alignment explanation
Indices: 666109--666334 Score: 256
Period size: 103 Copynumber: 2.2 Consensus size: 102
666099 CCGATGAAAT
* * * * * *
666109 AACGAGGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGAAGTTGGAG
1 AACGGGGTTGGAGTATCCCCGACTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGAAGTTGGAG
* *** *
666174 TATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAA
66 TATCCCCGATT-AAGAAAAATCAATATTTTGAAAATAA
* * **
666212 AACGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGT-GTTTTAGCAATAAAACCGGGGTTGGA
1 AACGGGGTTGGAGTATCCCCGACTGT-GAAAAATTAGTAGTTTTAGAAATAAAACCGAAGTTGGA
* *
666276 GTATCCCCGATTATGAAAAATCAATATTTTGGAAATAA
65 GTATCCCCGATTAAGAAAAATCAATATTTTGAAAATAA
*
666314 AGTCGGGGTTGGAGTATCCCC
1 A-ACGGGGTTGGAGTATCCCC
666335 TCAGAAATAA
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
102 20 0.19
103 73 0.71
104 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (102 bp):
AACGGGGTTGGAGTATCCCCGACTGTGAAAAATTAGTAGTTTTAGAAATAAAACCGAAGTTGGAG
TATCCCCGATTAAGAAAAATCAATATTTTGAAAATAA
Found at i:666351 original size:28 final size:28
Alignment explanation
Indices: 666317--666389 Score: 98
Period size: 27 Copynumber: 2.6 Consensus size: 28
666307 GAAATAAAGT
666317 CGGGGTTGGAGTATCCCCTC-AGAAATAA
1 CGGGGTTGGAGTATCCCCTCAAG-AATAA
*
666345 CGGGGTTGGAGTAT--CCTCAATGATTAA
1 CGGGGTTGGAGTATCCCCTCAA-GAATAA
666372 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
666390 GATTGTGAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
26 4 0.10
27 19 0.47
28 15 0.38
29 2 0.05
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAAGAATAA
Found at i:666473 original size:262 final size:263
Alignment explanation
Indices: 666004--666503 Score: 781
Period size: 262 Copynumber: 1.9 Consensus size: 263
665994 TCGAAAGTAA
* *
666004 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTAT
* * * *
666069 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGACTG
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCCCGACTG
*
666134 TGAAAAATTGGTATTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTATTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
* * *
666199 GTTTTGAAAATAAAA-CGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
196 GTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
666263 AAC
261 AAC
* **
666266 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTAT
* * * *
666331 CCCCTCAGAAATAACGGGGTTGGAGTATCCTCAATG-ATTAACGGGGTTGGAGTATCCCCGATTG
66 CCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCCCGACTG
* * *
666395 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGAAGTTGGAGTATCCTCGATTATA-GAAAATTA
131 TGAA-AAATTGGT-ATTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTA
666459 GTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
194 GTGTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
666504 GAATTGAGAA
Statistics
Matches: 215, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
261 28 0.13
262 123 0.57
263 64 0.30
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (263 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAACCGGGGTTGGAGTAT
CCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCCCGACTG
TGAAAAATTGGTATTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
GTTTTAAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:668957 original size:19 final size:18
Alignment explanation
Indices: 668933--668993 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
668923 CAGTAGCTAA
668933 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
668952 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
668967 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
668984 TTATGTATCG
1 TTATGTATCG
668994 TTGACCGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:668973 original size:13 final size:13
Alignment explanation
Indices: 668955--668979 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
668945 ACAATACTTA
668955 TGTATCGATACAT
1 TGTATCGATACAT
668968 TGTATCGATACA
1 TGTATCGATACA
668980 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:670050 original size:61 final size:61
Alignment explanation
Indices: 669747--670393 Score: 886
Period size: 61 Copynumber: 10.9 Consensus size: 61
669737 ATAAAGTGTA
* *
669747 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
* * * *
669807 TCCCGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGA-GAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
** *
669866 TCCCACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAA--AG--GG-G
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
* * * *
669921 TCCTGCTCTTTGGGGA-TGGAAAGGTGCCACCAACTTGTGTGGGGTTTGAAA-GAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
* *
669981 TCCCGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
670042 TCCTGCTCTTTGAGGACTAGGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
670103 TCCTGCTCTTTGAGGACTGGGAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
*
670164 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAA--AG--GG-G
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
* * * *
670219 TCCTGCTCTTTGGGGAC-GGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
* * *
670280 TCCCGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
*
670341 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
670394 TGTCCTACTC
Statistics
Matches: 529, Mismatches: 39, Indels: 37
0.87 0.06 0.06
Matches are distributed among these distances:
54 10 0.02
55 77 0.15
56 10 0.02
57 1 0.00
58 4 0.01
59 57 0.11
60 93 0.18
61 267 0.50
62 10 0.02
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
Found at i:670294 original size:177 final size:173
Alignment explanation
Indices: 669747--670414 Score: 847
Period size: 177 Copynumber: 3.8 Consensus size: 173
669737 ATAAAGTGTA
*
669747 TCCTGCTCTTTGGGGACT--GAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGGGAAA--TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
* *
669810 CGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGCGTCCCACT
64 CGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT---A-AAAAGGGGTCCTACT
669873 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGG---GG
124 CTTTGAGGACTGG-AAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGG
* * *
669921 TCCTGCTCTTTGGGGA-T-GGAAAGGTGCCACCAACTTGTGTGGGGTTTGAAAGAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGGGAAA--TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCC
* * *
669984 CGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCT
64 CGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA--AG--GG-GTCCTACT
670049 CTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
124 CTTTGAGGACT-GGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGA-AA-G-G
* *
670103 TCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCC
* *
670168 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGGGTCCTGCTCTTTGG
65 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGGGTCCTACTCTTTGA
670232 GGAC-GGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGTG
130 GGACTGGAAA--TGCCACCAACTTGTGTGGGCTTTAAAAGG--AAAG-G
* * * * *
670280 TCCCGCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCC
*
670345 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGTGTCCTACTCTTTGA
65 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGGGTCCTACTCTTTGA
670409 GGACTG
130 GGACTG
670415 AAAAACGGAA
Statistics
Matches: 449, Mismatches: 22, Indels: 42
0.88 0.04 0.08
Matches are distributed among these distances:
171 3 0.01
172 1 0.00
173 3 0.01
174 74 0.16
175 29 0.06
176 51 0.11
177 177 0.39
178 5 0.01
179 1 0.00
180 2 0.00
181 1 0.00
182 44 0.10
183 53 0.12
184 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (173 bp):
TCCTGCTCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCG
CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGGGGTCCTACTCTTTGAG
GACTGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGG
Found at i:670313 original size:238 final size:236
Alignment explanation
Indices: 669747--670393 Score: 945
Period size: 238 Copynumber: 2.7 Consensus size: 236
669737 ATAAAGTGTA
*
669747 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCGTCCC
1 TCCTGCTCTTTGGGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCC
** * * **
669811 GCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAGA-GAAAAGGCGTCCCACTC
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTC
* *
669874 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAA--AGGGGTCCTGCTCTTTGGGG
131 TTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGGGGTCCTGCTCTTTGAGG
*
669936 ATGGAAAGGTGCCACCAACTTGTGTGGGGTTTGAAAGAAAAGGCG
196 ATGGAAAGGTGCCACCAACTTGTGTGGGCTTT---A-AAAAGGCG
* * * *
669981 TCCCGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 TCCTGCTCTTTGGGGAC-GGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
*
670045 TGCTCTTTGAGGACTAGG-AAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGC
65 CGCTCTTTGAGGACT-GGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGC
670109 TCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTT
129 TCTTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAG--GG-GTCCTGCTCTT
* *
670174 TGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAGGGG
191 TGAGGA-TGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCG
* *
670219 TCCTGCTCTTTGGGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGTGTCCC
1 TCCTGCTCTTTGGGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCC
*
670284 GCTCTTTGAGGACTGGAAAATGTCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTC
66 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTC
*
670349 TTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
131 TTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGG
670394 TGTCCTACTC
Statistics
Matches: 373, Mismatches: 26, Indels: 24
0.88 0.06 0.06
Matches are distributed among these distances:
234 42 0.11
235 29 0.08
236 27 0.07
237 60 0.16
238 167 0.45
240 2 0.01
242 2 0.01
243 39 0.10
244 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.25
Consensus pattern (236 bp):
TCCTGCTCTTTGGGGACGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCC
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTC
TTTGAGGACTGGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAGGGGTCCTGCTCTTTGAGG
ATGGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGGCG
Found at i:671420 original size:12 final size:13
Alignment explanation
Indices: 671403--671448 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
671393 TCTCTTTTTC
671403 TTTGTTTTG-TTT
1 TTTGTTTTGCTTT
*
671415 TTTGTTTTGTTTT
1 TTTGTTTTGCTTT
*
671428 TTTTTTTTGCTTT
1 TTTGTTTTGCTTT
671441 TTT-TTTTG
1 TTTGTTTTG
671449 AAGAGAAGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
12 14 0.45
13 17 0.55
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (13 bp):
TTTGTTTTGCTTT
Found at i:671434 original size:17 final size:18
Alignment explanation
Indices: 671403--671447 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
671393 TCTCTTTTTC
*
671403 TTTGTTTTGTTTTTTG-T
1 TTTGTTTTTTTTTTTGCT
671420 TTTGTTTTTTTTTTTTGCT
1 TTTG-TTTTTTTTTTTGCT
671439 TTT-TTTTTT
1 TTTGTTTTTT
671448 GAAGAGAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 11 0.44
19 4 0.16
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (18 bp):
TTTGTTTTTTTTTTTGCT
Found at i:671442 original size:14 final size:13
Alignment explanation
Indices: 671397--671447 Score: 59
Period size: 14 Copynumber: 3.8 Consensus size: 13
671387 CTTTTCTCTC
671397 TTTTTCTTTGTTTTG
1 TTTTT-TTT-TTTTG
*
671412 -TTTTTTGTTTTG
1 TTTTTTTTTTTTG
671424 TTTTTTTTTTTTG
1 TTTTTTTTTTTTG
671437 CTTTTTTTTTT
1 -TTTTTTTTTT
671448 GAAGAGAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 5 0.16
13 13 0.41
14 14 0.44
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTTTTG
Done.