Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 69 of 311
Found at i:21244499 original size:149 final size:145
Alignment explanation
Indices: 21244309--21245022 Score: 804
Period size: 149 Copynumber: 5.1 Consensus size: 145
21244299 AAATATACAC
* *
21244309 TAATAATAATAATAATAATAATAATAACAACAAAAAGCAAGCATAATATAATAAAAATATTAAAA
1 TAATAATAAT-ATAATAATAAT-ATAATAACAAAAAGCAAGTATAATATAATAAAAATATTAAAA
*
21244374 TAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAAAATAT
64 TAAAGTAATTA-AAAATAATACTATATATAAAAATATATACATATACATATATAATAAAAAATAT
21244439 ACACTAATAATAATAATAA
128 ACACTAAT-ATAATAATAA
*
21244458 TAATAATAAATATAATAATAATATCAATAACAAAAAGCAAGCATAATATAATAAAAATATTAAAA
1 TAATAAT-AATATAATAATAATAT-AATAACAAAAAGCAAGTATAATATAATAAAAATATTAAAA
* **
21244523 TAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACACGTATAATAAAAAATAT
64 TAAAGTAATTA-AAAATAATACTATATATAAAAATATATACATATACATATATAATAAAAAATAT
21244588 ACACT-AT-TAATAATAA
128 ACACTAATATAATAATAA
21244604 TAATAATAAATATAATAATAATATTAATAACAAAAAGCGAA-TATAATATAATAAAAATATTAAA
1 TAATAAT-AATATAATAATAATA-TAATAACAAAAAGC-AAGTATAATATAATAAAAATATTAAA
* *
21244668 A-AAAGTAATTAAAAATAATGCTATATATAAAGATATAT--ATATACATATAT-A-AAAAAATAT
63 ATAAAGTAATTAAAAATAATACTATATATAAAAATATATACATATACATATATAATAAAAAATAT
21244728 ACACTAATAT-ATAATAA
128 ACACTAATATAATAATAA
*
21244745 TAATAAT-A-ATAATAATATTGA-AAT-AC-AAAA--AAGTA-AATATAATAAAAATATTAAAAA
1 TAATAATAATATAATAATAAT-ATAATAACAAAAAGCAAGTATAATATAATAAAAATATT-AAAA
* * *
21244802 TAAA-TAATAAAAAATAATAC----TAT----ATATATACGTATACATATACAAT-AAAAATATA
64 TAAAGTAATTAAAAATAATACTATATATAAAAATATATACATATACATATATAATAAAAAATATA
*
21244857 CACTAATAT-ATGATAA
129 CACTAATATAATAATAA
*
21244873 TAATAAT-A-ATAAT-AT--TGA-AAT-CCAAAAAGC-A-TATAATATAATAAAAATATTAAAAT
1 TAATAATAATATAATAATAAT-ATAATAACAAAAAGCAAGTATAATATAATAAAAATATTAAAAT
* * * *
21244929 AAGGTAA-T-AAAATAATACTATATATAAATATGTATATATATACATACATATATAAGAAAAATA
65 AAAGTAATTAAAAATAATACTATATATAAA-A---ATATATACATATACATATATAA-TAAAA-A
21244992 ATATACACTAATATTAATAATAA
124 ATATACACTAATA-TAATAATAA
21245015 TAATAATA
1 TAATAATA
21245023 TGAAAAAAAG
Statistics
Matches: 504, Mismatches: 24, Indels: 80
0.83 0.04 0.13
Matches are distributed among these distances:
125 23 0.05
126 13 0.03
127 33 0.07
128 38 0.08
129 6 0.01
132 19 0.04
133 20 0.04
134 3 0.01
135 4 0.01
136 2 0.00
137 21 0.04
138 10 0.02
139 5 0.01
140 28 0.06
141 18 0.04
142 24 0.05
144 24 0.05
145 10 0.02
146 68 0.13
147 3 0.01
148 4 0.01
149 125 0.25
150 3 0.01
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (145 bp):
TAATAATAATATAATAATAATATAATAACAAAAAGCAAGTATAATATAATAAAAATATTAAAATA
AAGTAATTAAAAATAATACTATATATAAAAATATATACATATACATATATAATAAAAAATATACA
CTAATATAATAATAA
Found at i:21244603 original size:3 final size:3
Alignment explanation
Indices: 21244595--21244633 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
21244585 TATACACTAT
*
21244595 TAA TAA TAA TAA TAA TAA -ATA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
21244634 CAAAAAGCGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.03
3 30 0.94
4 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:21244727 original size:22 final size:22
Alignment explanation
Indices: 21244690--21244741 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
21244680 AAATAATGCT
* * *
21244690 ATATATAAAGATATATATA-TA
1 ATATATAAAAAAATATACACTA
21244711 CATATATAAAAAAATATACACTA
1 -ATATATAAAAAAATATACACTA
21244734 ATATATAA
1 ATATATAA
21244742 TAATAATAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (22 bp):
ATATATAAAAAAATATACACTA
Found at i:21244746 original size:3 final size:3
Alignment explanation
Indices: 21244732--21244761 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
21244722 AAATATACAC
21244732 TAA TATA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TA
21244762 TTGAAATACA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:21244899 original size:125 final size:130
Alignment explanation
Indices: 21244452--21244974 Score: 488
Period size: 125 Copynumber: 3.9 Consensus size: 130
21244442 CTAATAATAA
* *
21244452 TAATA-ATAATAATAA-ATATAATAATAATA-T-CAATAACAAAAAGCAAGCATAATATAATAAA
1 TAATATATAATAATAATA-ATAATAATAATATTGAAAT-ACAAAAAG--A-TATAATATAATAAA
* * *
21244513 AATATT-AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACACGTATA
61 AATATTAAAAAT-AAGTAA-TA-AAAATAATACTATATATATAAGTATAT--ATAT--AC--AT-
21244577 ATAAAAAATATACAC
116 ATAAAAAATATACAC
*
21244592 TATTAATAATAATAATAATAAATATAATAATAATATT--AATAACAAAAAGCGAATATAATATAA
1 TAAT-AT-ATAATAATAAT--A-ATAATAATAATATTGAAAT-ACAAAAA--G-ATATAATATAA
*
21244655 TAAAAATATTAAAAA-AAGTAATTAAAAATAATGCTATATATA-AAGATATATATATACATATAT
57 TAAAAATATTAAAAATAAGTAA-TAAAAATAATACTATATATATAAG-TATATATATAC--ATAT
21244718 AAAAAAATATACAC
118 -AAAAAATATACAC
21244732 TAATATATAATAATAATAATAATAATAATATTGAAATACAAAAA-AGTA-AATATAATAAAAATA
1 TAATATATAATAATAATAATAATAATAATATTGAAATACAAAAAGA-TATAATATAATAAAAATA
* * *
21244795 TTAAAAATAAATAATAAAAAATAATACTATATATATACGTATACATATACA-AT-AAAAATATAC
65 TTAAAAATAAGTAAT-AAAAATAATACTATATATATAAGTATATATATACATATAAAAAATATAC
21244858 AC
129 AC
* *
21244860 T-A-ATAT-ATGATAATAATAATAATAATATTGAAATCCAAAAAGCATATAATATAATAAAAATA
1 TAATATATAATAATAATAATAATAATAATATTGAAATACAAAAAG-ATATAATATAATAAAAATA
*
21244922 TT-AAAATAAGGTAAT-AAAATAATACTATATATAAATATGTATATATATACATA
65 TTAAAAATAA-GTAATAAAAATAATACTATATAT--ATAAGTATATATATACATA
21244975 CATATATAAG
Statistics
Matches: 342, Mismatches: 16, Indels: 62
0.81 0.04 0.15
Matches are distributed among these distances:
125 50 0.15
126 13 0.04
127 38 0.11
128 14 0.04
130 2 0.01
131 1 0.00
132 24 0.07
133 35 0.10
134 2 0.01
135 14 0.04
136 8 0.02
137 3 0.01
138 11 0.03
139 4 0.01
140 24 0.07
141 1 0.00
142 4 0.01
143 12 0.04
144 21 0.06
145 9 0.03
146 44 0.13
147 7 0.02
148 1 0.00
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (130 bp):
TAATATATAATAATAATAATAATAATAATATTGAAATACAAAAAGATATAATATAATAAAAATAT
TAAAAATAAGTAATAAAAATAATACTATATATATAAGTATATATATACATATAAAAAATATACAC
Found at i:21245010 original size:127 final size:126
Alignment explanation
Indices: 21244602--21245016 Score: 395
Period size: 125 Copynumber: 3.2 Consensus size: 126
21244592 TATTAATAAT
21244602 AATA-ATAATAA-ATATAATAATAATATT--AATAACAAAAAGCGAATATAATATAATAAAAATA
1 AATATATAATAATA-ATAATAATAATATTGAAAT-ACAAAAAGC--ATATAATATAATAAAAATA
* * * *
21244663 TTAAAAAAAGTAATTAAAAATAATGCTATATATAAAGATA-TATATATACATATATAAAAAAATA
62 TTAAAATAAGTAA-TAAAAATAATACTATATAT-AA-ATAGTATATAT--ATACAT--AAATATA
*
21244727 TACACTAA
120 TA-ACAAA
*
21244735 TATATAATAATAATAATAATAATAATATTGAAATACAAAAA--AGTA-AATATAATAAAAATATT
1 AATAT-ATAATAATAATAATAATAATATTGAAATACAAAAAGCA-TATAATATAATAAAAATATT
* * *
21244797 AAAAATAAATAATAAAAAATAATACTATATAT--ATACGTATACATATACAATAAAAATAT-ACA
64 -AAAATAAGTAAT-AAAAATAATACTATATATAAATA-GTATATATATAC-ATAAATATATAACA
**
21244859 CT
125 AA
* *
21244861 AATATATGATAATAATAATAATAATATTGAAATCCAAAAAGCATATAATATAATAAAAATATTAA
1 AATATATAATAATAATAATAATAATATTGAAATACAAAAAGCATATAATATAATAAAAATATTAA
* *
21244926 AATAAGGTAAT-AAAATAATACTATATATAAATATGTATATATATACATACATATATAAGAAA
66 AATAA-GTAATAAAAATAATACTATATATAAATA-GTATATATATACATAAATATATAACAAA
*
21244988 AATAATATACACTAATATTAATAATAATA
1 AAT-ATATA-A-TAATAATAATAATAATA
21245017 ATAATATGAA
Statistics
Matches: 239, Mismatches: 22, Indels: 45
0.78 0.07 0.15
Matches are distributed among these distances:
125 50 0.21
126 23 0.10
127 41 0.17
128 12 0.05
129 7 0.03
130 18 0.08
131 6 0.03
132 19 0.08
133 31 0.13
135 21 0.09
136 8 0.03
137 3 0.01
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.31
Consensus pattern (126 bp):
AATATATAATAATAATAATAATAATATTGAAATACAAAAAGCATATAATATAATAAAAATATTAA
AATAAGTAATAAAAATAATACTATATATAAATAGTATATATATACATAAATATATAACAAA
Found at i:21245012 original size:3 final size:3
Alignment explanation
Indices: 21245000--21245060 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
21244990 TAATATACAC
* * *
21245000 TAA TAT TAA TAA TAA TAA TAA T-A TGAA -AA AAA GAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
*
21245044 TAA TAA TAA TAA CAA TA
1 TAA TAA TAA TAA TAA TA
21245061 GTGTTTAGAC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 44 0.90
4 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:21245041 original size:127 final size:126
Alignment explanation
Indices: 21244646--21245060 Score: 375
Period size: 127 Copynumber: 3.2 Consensus size: 126
21244636 AAAAGCGAAT
* *
21244646 ATAATATAATAAAAATATTAAAAAAAGTAATTAAAAATAATGCTATATATAA-AG-ATATATAT-
1 ATAATATAATAAAAATATTAAAATAAGTAA-TAAAAATAATACTATATATAATAGTATATATATA
*
21244708 -ATACATATATAAAAAAATATACACTAATATATAATAATAATAATAATAATAATATTGAAATACA
65 CATACATATATAAAAAAA-ATA-A-T-ATACATAATAATAATAATAATAATAATA-TGAAA-A-A
*
21244772 AAAA
123 AAGA
* *
21244776 AGTAAATATAATAAAAATATTAAAAATAAATAATAAAAAATAATACTATATAT-ATACGTATACA
1 A-T-AATATAATAAAAATATT-AAAATAAGTAAT-AAAAATAATACTATATATAATA-GTATATA
* * * ** * * **
21244840 TATACAATAAAAATAT-ACACTAAT-ATAT-GATAATAATAATAATAATATTGAA-AT-CCAAAA
61 TATAC-ATACATATATAAAAAAAATAATATACATAATAATAATAATAATAAT-AATATGAAAAAA
21244900 AGCA
124 AG-A
21244904 TATAATATAATAAAAATATTAAAATAAGGTAAT-AAAATAATACTATATATAAATATGTATATAT
1 -ATAATATAATAAAAATATTAAAATAA-GTAATAAAAATAATACTATATAT-AATA-GTATATAT
* *
21244968 ATACATACATATATAAGAAAAATAATATACACTAATATTAATAATAATAATAATATGAAAAAAAG
62 ATACATACATATATAAAAAAAATAATATACA-TAATAATAATAATAATAATAATATGAAAAAAAG
21245033 A
126 A
* *
21245034 ATAATAATAATAATAATAATAACAATA
1 ATAAT-ATAATAAAAATATTAA-AATA
21245061 GTGTTTAGAC
Statistics
Matches: 232, Mismatches: 29, Indels: 47
0.75 0.09 0.15
Matches are distributed among these distances:
125 17 0.07
126 15 0.06
127 43 0.19
128 7 0.03
129 10 0.04
130 36 0.16
131 31 0.13
132 23 0.10
133 28 0.12
134 2 0.01
135 7 0.03
136 2 0.01
137 3 0.01
138 8 0.03
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (126 bp):
ATAATATAATAAAAATATTAAAATAAGTAATAAAAATAATACTATATATAATAGTATATATATAC
ATACATATATAAAAAAAATAATATACATAATAATAATAATAATAATAATATGAAAAAAAGA
Found at i:21247730 original size:87 final size:87
Alignment explanation
Indices: 21247576--21247823 Score: 313
Period size: 87 Copynumber: 2.8 Consensus size: 87
21247566 ATTTTGATGA
* * * *
21247576 AAAATAGAAATTAAAAATACCTCAGCGTATCCTGAGACTCAACTCACCTCTCGCAATATGAGCTG
1 AAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
** *
21247641 ATTTTTTTTTAAAATAAATT-G
66 ATTTTTTTCGAAAAGAAATTAG
*
21247662 AAGAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AA-AACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
** **
21247727 GA-TTTTGACGAACGGAAATTAG
65 GATTTTTTTCGAAAAGAAATTAG
* *
21247749 AAAACAAAAATTAAAAATACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTAAAAATACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAG
21247813 TTGATTTTTTT
63 TTGATTTTTTT
21247824 GATGAACAGA
Statistics
Matches: 139, Mismatches: 17, Indels: 9
0.84 0.10 0.05
Matches are distributed among these distances:
86 35 0.25
87 62 0.45
88 36 0.26
89 6 0.04
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.28
Consensus pattern (87 bp):
AAAACAGAAATTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTCGAAAAGAAATTAG
Found at i:21247875 original size:163 final size:162
Alignment explanation
Indices: 21247659--21248003 Score: 477
Period size: 163 Copynumber: 2.1 Consensus size: 162
21247649 TTAAAATAAA
* * *
21247659 TTGAAGAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAGAACAGAAATTAAAACTACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
* * * *
21247724 GTTGA-TTTTGACGAACGGAAATTAGA-AAACAAAAATTAAAAATACCTCAGCATGTGAGCC-GA
66 GTTGATTTTTGA-AAAC-AAAAATA-ACAAACAAAAATTAAAAATACCTCAGCATGT-AACCTGA
21247786 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
127 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
* * *
21247822 TTGATGAACAGAAATTAAAACTACTTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAGAACAGAAATTAAAACTACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
* *
21247887 GTTGATTTTTTGAAAACAAAAATAACAAACAGAAATTGAAAATACCTCAGCATGTAACCTGAGGC
66 GTTGA-TTTTTGAAAACAAAAATAACAAACAAAAATTAAAAATACCTCAGCATGTAACCTGAGGC
*
21247952 TCAACTCACTTCTCGCAATATGAGTTGA--TTT
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTT
21247983 TTGAA-AGACAGAAATTAAAAC
1 TTGAAGA-ACAGAAATTAAAAC
21248004 ATCCGAGTAC
Statistics
Matches: 163, Mismatches: 14, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
160 1 0.01
161 21 0.13
162 4 0.02
163 128 0.79
164 3 0.02
165 6 0.04
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (162 bp):
TTGAAGAACAGAAATTAAAACTACCTCAACGTGTCCTAAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAACAAAAATAACAAACAAAAATTAAAAATACCTCAGCATGTAACCTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTT
Found at i:21247920 original size:249 final size:249
Alignment explanation
Indices: 21247450--21247997 Score: 681
Period size: 249 Copynumber: 2.2 Consensus size: 249
21247440 GACCCTGGGT
* * * * * * *
21247450 TCAACTCACCTCTCGCGATATAAGTTGATTTTTTGAAAAACAGACATAATAAAACAGAATTTGAA
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAAACAGAAATAAGAAAACAAAAATTAAA
*
21247515 AATAACTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTATTTTGATGAAAAA
64 AATAACTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTATTTTGATGAAAAA
* * *
21247580 TAGAAATTAAAAATACCTCAGCGTATCCTGAGACTCAACTCACCTCTCGCAATATGAGCTGATTT
129 CAGAAATTAAAAATACCTCAACGTATCCTAAGACTCAACTCACCTCTCGCAATATGAGCTGA-TT
* * * * *
21247645 TTTTTTAAAATAAATTGAAGAACAGAAATT-AAAATTACCTCAGCGTGT-CCTGAGGC
193 TTTTTGAAAAAAAAATGAAAAACAGAAATTGAAAA-TACCTCAGCATGTACCTGAGGC
** * *
21247701 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACGGAAATTAGAAAACAAAAATTAAAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATAAGAAAACAAAAATTAAAAA
* * ** **
21247766 TACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGATGAAC
66 TAACTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-ATTTTGATGAAAAAC
* * * * * *
21247831 AGAAATTAAAACTACTTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
130 AGAAATTAAAAATACCTCAACGTATCCTAAGACTCAACTCACCTCTCGCAATATGAGCTGATTTT
21247895 TTTGAAAACAAAAAT-AACAAACAGAAATTGAAAATACCTCAGCATGTAACCTGAGGC
195 TTTGAAAA-AAAAATGAA-AAACAGAAATTGAAAATACCTCAGCATGT-ACCTGAGGC
* *
21247952 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAGACAGAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTGAAAAACAGAAAT
21247998 TAAAACATCC
Statistics
Matches: 253, Mismatches: 37, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
248 12 0.05
249 100 0.40
250 67 0.26
251 61 0.24
252 13 0.05
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (249 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAACAGAAATAAGAAAACAAAAATTAAAAA
TAACTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTATTTTGATGAAAAACA
GAAATTAAAAATACCTCAACGTATCCTAAGACTCAACTCACCTCTCGCAATATGAGCTGATTTTT
TTGAAAAAAAAATGAAAAACAGAAATTGAAAATACCTCAGCATGTACCTGAGGC
Found at i:21256267 original size:22 final size:22
Alignment explanation
Indices: 21256239--21256283 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
21256229 AATGGATGAA
21256239 TGAATAAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
21256261 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
21256283 T
1 T
21256284 AGTCATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:21259098 original size:15 final size:16
Alignment explanation
Indices: 21259078--21259112 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21259068 CGTTTTATTT
*
21259078 AAAAACT-AAACTATA
1 AAAAACTAAAACAATA
21259093 AAAAACTAAAACAATA
1 AAAAACTAAAACAATA
21259109 AAAA
1 AAAA
21259113 CTTAGAGCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAAACTAAAACAATA
Found at i:21259934 original size:18 final size:17
Alignment explanation
Indices: 21259907--21259953 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
21259897 TTAGCATAAA
*
21259907 AATAACAATAATATTCAC
1 AATAAAAATAATATTC-C
* *
21259925 AATAAAAATAATGTTCT
1 AATAAAAATAATATTCC
21259942 AAT-AAAATAATA
1 AATAAAAATAATA
21259954 AAAGAAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 8 0.32
17 3 0.12
18 14 0.56
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (17 bp):
AATAAAAATAATATTCC
Found at i:21260152 original size:13 final size:13
Alignment explanation
Indices: 21260134--21260160 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21260124 ATTATGTGAA
21260134 ACAAAATAATGAT
1 ACAAAATAATGAT
21260147 ACAAAATAATGAT
1 ACAAAATAATGAT
21260160 A
1 A
21260161 ATAATAATTC
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:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (13 bp):
ACAAAATAATGAT
Found at i:21260378 original size:3 final size:3
Alignment explanation
Indices: 21260363--21260484 Score: 63
Period size: 3 Copynumber: 41.0 Consensus size: 3
21260353 ACAATAAAGG
* * * *
21260363 ATA ATA GTA ATA ATA ATA ATA ATA ATGA A-A ATA AGA GTA ATA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
* * * * ** * *
21260408 ATA GTA CATTA A-A AT- ACA ATA GTA A-A GTA ATA GGA ATA GTG ATA
1 ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
21260452 ATA ATA ATA ATA ATA ACA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21260485 TTGAAATACA
Statistics
Matches: 84, Mismatches: 28, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
2 6 0.07
3 73 0.87
4 3 0.04
5 2 0.02
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:21260597 original size:143 final size:142
Alignment explanation
Indices: 21260450--21261493 Score: 798
Period size: 143 Copynumber: 7.2 Consensus size: 142
21260440 GGAATAGTGA
* * * *
21260450 TAATAATAATAATAATAACAATAATAGTAATAATATTGAAATACAAAAAGCAAATGTAGT-ATAA
1 TAATAATAATAATAATAATAATAATAATAATAATATT-AAATACAAAAAGCAAATATAATAATAA
*
21260514 TAAAAATAAAGTAATTAAAAAAATAATAGTATGTATAAATATA-AGTATATACATATATAAAAAA
65 TAAAAATAAAGTAATT-AAAAAATAATACTATGTATAAATATATA-TATATACATATATAAAAAA
21260578 AATATACACTAATAT
128 AATATACACTAATAT
* * * *
21260593 TAATAATAATAATAATAATAATAATAACAACAACA--AAA-AGC---AAGCATAATATAATAAAA
1 TAATAATAATAATAATAATAATAATAATAATAATATTAAATA-CAAAAAGCA-AATATAATAATA
* *
21260652 ATATTAAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAAT
64 ATA--AAAATAAAGTAATTAAAAAATAATACTATGTAT--AAATATATATATATACATATATAA-
* *
21260717 AAAAAATATACACTATTAA
124 AAAAAATATACACTAATAT
** ** *
21260736 TAATAATAATAATAA-ATATAATAATAAT-ATCAATAACAAA-A-AGCAAGCATAATATAATAAA
1 TAATAATAATAATAATA-ATAATAATAATAAT-AATATTAAATACAAAAAGCA-AATATAATAAT
* * **
21260797 AATATTAAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACACGTATAA
63 AATA--AAAATAAAGTAATTAAAAAATAATACTATGTAT--AAATATATATATATACATATATAA
21260862 TAAAAAATATACAC---TAT
124 -AAAAAATATACACTAATAT
** ** *
21260879 TAATAATAATAATAA-ATATAATAATAAT-ATCAATAACAAA-A-AGCAAGCATAATATAATAAA
1 TAATAATAATAATAATA-ATAATAATAATAAT-AATATTAAATACAAAAAGCA-AATATAATAAT
* * **
21260940 AATATTAAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACACGTATAA
63 AATA--AAAATAAAGTAATTAAAAAATAATACTATGTAT--AAATATATATATATACATATATAA
*
21261005 TAAAAAATATACACTATTAT
124 -AAAAAATATACACTAATAT
* ** * * * * *
21261025 TAATAATAATAATAA-ATATAATAATAATATTAATAACAAAAAGCGAATA--TAATATAATAAAA
1 TAATAATAATAATAATA-ATAATAATAATAATAATATTAAATA-CAAAAAGCAAATATAATAATA
* * * *
21261087 ATATTAAAATAAAGTAATT-AAAAATAATGCTATATATAAAGATATATATATACATATAT-ATAA
64 ATA--AAAATAAAGTAATTAAAAAATAATACTATGTATAAATATATATATATACATATATAAAAA
21261150 AAATATACACTAATATAT
127 AAATATACACT-A-ATAT
*
21261168 AATAATAATAATAATAATAATAATAATGATAATAATAATATTGAAATACAAAAAAGTAAATATAA
1 --TAATAATAATAATAATAATAAT-A--ATAATAATAATATT-AAATAC-AAAAAGCAAATATAA
* *
21261233 TAAAATATTAAAAATAAA-TAA-TAAAAAATAATACTATATATAAATATATATACGTATACATAT
59 T--AATAATAAAAATAAAGTAATTAAAAAATAATACTATGTATAAATATATATA--TATACATAT
* *
21261296 ACAATAAAAATATACAC------
120 ATAAAAAAAATATACACTAATAT
* * * *
21261313 TAAT-AT-ATGATAATAATAATAATAATAAT-AT-TGAAATCCAAAAAGCATATAATATAATAAA
1 TAATAATAATAATAATAATAATAATAATAATAATATTAAATACAAAAAGC--A-AATATAATAAT
* * *
21261374 AATATTAAAAT-AAGGAA--ATAAAATAATACTATATATAAATATGTATATATATACATACATAT
63 AATA--AAAATAAAGTAATTAAAAAATAATACTATGTAT-AA-A--TATATATAT--ATACATAT
21261436 ATAATAAAAATAATATACACTAATAT
120 AT-A-AAAAA-AATATACACTAATAT
21261462 TAATAATAATAATAATAATAATAATAATAATA
1 TAATAATAATAATAATAATAATAATAATAATA
21261494 TGAAAAAAAG
Statistics
Matches: 779, Mismatches: 57, Indels: 121
0.81 0.06 0.13
Matches are distributed among these distances:
134 6 0.01
135 10 0.01
136 22 0.03
137 24 0.03
138 16 0.02
139 6 0.01
140 39 0.05
141 41 0.05
142 31 0.04
143 252 0.32
145 39 0.05
146 167 0.21
147 2 0.00
148 12 0.02
149 13 0.02
150 32 0.04
151 38 0.05
152 10 0.01
153 19 0.02
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (142 bp):
TAATAATAATAATAATAATAATAATAATAATAATATTAAATACAAAAAGCAAATATAATAATAAT
AAAAATAAAGTAATTAAAAAATAATACTATGTATAAATATATATATATACATATATAAAAAAAAT
ATACACTAATAT
Found at i:21260601 original size:3 final size:3
Alignment explanation
Indices: 21260587--21260619 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
21260577 AAATATACAC
*
21260587 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21260620 CAACAACAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:21260745 original size:29 final size:26
Alignment explanation
Indices: 21260688--21260755 Score: 75
Period size: 29 Copynumber: 2.5 Consensus size: 26
21260678 AATACTATGT
21260688 ATAAAAATATATACATATACATATATA
1 ATAAAAA-ATATACATATACATATATA
21260715 ATAAAAAATATACACTATTA-ATAATAATA
1 ATAAAAAATATACA-TA-TACAT-AT-ATA
*
21260744 ATAATAAATATA
1 ATAAAAAATATA
21260756 ATAATAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 7 0.19
27 11 0.31
28 4 0.11
29 14 0.39
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (26 bp):
ATAAAAAATATACATATACATATATA
Found at i:21260757 original size:146 final size:146
Alignment explanation
Indices: 21260516--21261491 Score: 1152
Period size: 146 Copynumber: 6.7 Consensus size: 146
21260506 TAGTATAATA
* * *
21260516 AAAATAAAGTAATTAAAAAAATAATAGTATGTAT--AAATATA-AGTATATACATATATAA-AAA
1 AAAATAAAGTAATT-AGAAAATAATACTATGTATAAAAATATATA-CATATACATATATAATAAA
* *
21260577 AAATATACACTAATATTAATAATAATAAT--A-ATAATAATAATAACAACAACAAAAAGCAAGCA
64 AAATATACACTAATAATAATAATAATAATAAATATAATAATAATAACAATAACAAAAAGCAAGCA
21260639 TAATATAATAAAAATATT
129 TAATATAATAAAAATATT
21260657 AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAAA
1 AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAAA
* *
21260722 ATATACACTATTAATAATAATAATAATAAATATAATAATAATATCAATAACAAAAAGCAAGCATA
66 ATATACACTAATAATAATAATAATAATAAATATAATAATAATAACAATAACAAAAAGCAAGCATA
21260787 ATATAATAAAAATATT
131 ATATAATAAAAATATT
**
21260803 AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACACGTATAATAAAAA
1 AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAAA
*
21260868 ATATACACT-AT--TAATAATAATAATAAATATAATAATAATATCAATAACAAAAAGCAAGCATA
66 ATATACACTAATAATAATAATAATAATAAATATAATAATAATAACAATAACAAAAAGCAAGCATA
21260930 ATATAATAAAAATATT
131 ATATAATAAAAATATT
**
21260946 AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACACGTATAATAAAAA
1 AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAAA
* * ** *
21261011 ATATACACTATTATTAATAATAATAATAAATATAATAATAATATTAATAACAAAAAGCGAA-TAT
66 ATATACACTAATAATAATAATAATAATAAATATAATAATAATAACAATAACAAAAAGC-AAGCAT
21261075 AATATAATAAAAATATT
130 AATATAATAAAAATATT
* * *
21261092 AAAATAAAGTAATTA-AAAATAATGCTATATATAAAGATATAT--ATATACATATAT-AT-AAAA
1 AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAAA
* * *
21261152 ATATACACTAATATATAATAATAATAATAATAATAATAATAATGATAATAATAATATTGAAATA-
66 ATATACACTAATA-ATAATAATAATAAT-A-AAT-ATAATAATAATAACAATAACA---AAA-AG
**
21261216 CAAAAAAGTAAATATAAT-AAAATATT
123 C-AAGCA-T-AATATAATAAAAATATT
* * * * *
21261242 AAAAATAAA-TAA-TAAAAAATAATACTATATATAAATATATATACGTATACATATACAAT-AAA
1 -AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAA
* * * * *
21261304 AATATACACTAAT-AT-ATGATAATAAT-AATAATAATAATATTGA-AAT-CCAAAAAGC-A-TA
65 AATATACACTAATAATAATAATAATAATAAAT-ATAATAATAATAACAATAACAAAAAGCAAGCA
21261362 TAATATAATAAAAATATT
129 TAATATAATAAAAATATT
* * * * *
21261380 AAAAT-AAGGAA--ATAAAATAATACTATATATAAATATGTATATATATACATACATATATAATA
1 AAAATAAAGTAATTAGAAAATAATACTATGTATAAA-A---ATATATACATATACATATATAAT-
*
21261442 AAAATAATATACACTAATATTAATAATAATAAT-AATAATAATAATAATAA
61 AAAA-AATATACACTAATAATAATAATAATAATAAAT-ATAATAATAATAA
21261492 TATGAAAAAA
Statistics
Matches: 749, Mismatches: 47, Indels: 74
0.86 0.05 0.09
Matches are distributed among these distances:
136 23 0.03
137 15 0.02
138 9 0.01
139 1 0.00
140 37 0.05
141 31 0.04
142 43 0.06
143 196 0.26
144 5 0.01
145 70 0.09
146 200 0.27
147 16 0.02
148 6 0.01
149 4 0.01
150 47 0.06
151 18 0.02
152 10 0.01
153 18 0.02
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (146 bp):
AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACATATATAATAAAAA
ATATACACTAATAATAATAATAATAATAAATATAATAATAATAACAATAACAAAAAGCAAGCATA
ATATAATAAAAATATT
Found at i:21260760 original size:12 final size:11
Alignment explanation
Indices: 21260733--21260771 Score: 51
Period size: 12 Copynumber: 3.3 Consensus size: 11
21260723 TATACACTAT
21260733 TAATAATAATAA
1 TAATAAT-ATAA
21260745 TAATAAATATAA
1 TAAT-AATATAA
21260757 TAATAATATCAA
1 TAATAATAT-AA
21260769 TAA
1 TAA
21260772 CAAAAAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.20
12 17 0.68
13 3 0.12
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TAATAATATAA
Found at i:21260923 original size:289 final size:287
Alignment explanation
Indices: 21260516--21261487 Score: 1221
Period size: 289 Copynumber: 3.4 Consensus size: 287
21260506 TAGTATAATA
* * *
21260516 AAAATAAAGTAATTAAAAA-AATAATAGTATGTATAAATATA-AGTATATACATATATAA-AAAA
1 AAAATAAAGTAATTAAAAATAATACTA-TATATAAAAATATATA-TATATACATATATAATAAAA
* * *
21260578 AATATACACTAATATTAATAATAATAATAATAATAATAATAACAACAACAAAAAGCAAGCATAAT
64 AATATACACTAATAATAATAATAATAATAATAATAATAATATCAATAACAAAAAGCAAGCATAAT
21260643 ATAATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATAC
129 ATAATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATAC
21260708 ATATATAATAAAAAATATACACTATTAATAATAATAATAATAAATATAATAATAATATCAATAAC
194 ATATATAATAAAAAATATACACTATTAATAATAATAATAATAAATATAATAATAATATCAATAAC
*
21260773 AAAAAGCAAGCATAATATAATAAAAATATT
259 AAAAAGCAA-TATAATATAATAAAAATATT
* * **
21260803 AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACACGTATAATAAAAA
1 AAAATAAAGTAATTA-AAAATAATACTATATATAAAAATATATATATATACATATATAATAAAAA
*
21260868 ATATACACTATTAATAATAATAATAA-ATATAATAATAATATCAATAACAAAAAGCAAGCATAAT
65 ATATACACTAATAATAATAATAATAATA-ATAATAATAATATCAATAACAAAAAGCAAGCATAAT
21260932 ATAATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATAC
129 ATAATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATAC
** * *
21260997 ACGTATAATAAAAAATATACACTATTATTAATAATAATAATAAATATAATAATAATATTAATAAC
194 ATATATAATAAAAAATATACACTATTAATAATAATAATAATAAATATAATAATAATATCAATAAC
21261062 AAAAAGCGAATATAATATAATAAAAATATT
259 AAAAAGC-AATATAATATAATAAAAATATT
* *
21261092 AAAATAAAGTAATTAAAAATAATGCTATATAT--AAAGATATATATATACATATAT-AT-AAAAA
1 AAAATAAAGTAATTAAAAATAATACTATATATAAAAATATATATATATACATATATAATAAAAAA
* * *
21261153 TATACACTAATATATAATAATAATAATAATAATAATAATAATGATAATAATAATATTGAAATACA
66 TATACACTAATA-ATAATAATAATAATAATAATAATAAT-AT--CAATAA-CA-A---AAA-GC-
** * * *
21261218 AAAAAGTAAATATAAT-AAAATATTAAAAATAAA-TAA-TAAAAAATAATACTATATATAAATAT
120 AAGCA-T-AATATAATAAAAATATT-AAAATAAAGTAATTAGAAAATAATACTATGTATAAAAAT
* * * *
21261280 ATATACGTATACATATACAAT-AAAAATATACACTAAT-AT-ATGATAATAAT--A-ATAATAAT
182 ATATACATATACATATATAATAAAAAATATACACTATTAATAATAATAATAATAAATATAATAAT
* *
21261339 AATATTGAA-ATCCAAAAAGC-ATATAATATAATAAAAATATT
247 AATA-TCAATA-ACAAAAAGCAATATAATATAATAAAAATATT
* * *
21261380 AAAAT-AAGGAAAT-AAAATAATACTATATATAAATATGTATATATATACATACATATATAATAA
1 AAAATAAAGTAATTAAAAATAATACTATATATAAA-A---ATATATATATATACATATATAAT-A
*
21261443 AAATAATATACACTAATATTAATAATAATAATAATAATAATAATA
61 AAA-AATATACACTAATAATAATAATAATAATAATAATAATAATA
21261488 ATAATATGAA
Statistics
Matches: 606, Mismatches: 46, Indels: 59
0.85 0.06 0.08
Matches are distributed among these distances:
284 16 0.03
285 26 0.04
286 37 0.06
287 21 0.03
288 75 0.12
289 252 0.42
290 15 0.02
292 28 0.05
293 6 0.01
294 17 0.03
295 71 0.12
296 26 0.04
297 16 0.03
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (287 bp):
AAAATAAAGTAATTAAAAATAATACTATATATAAAAATATATATATATACATATATAATAAAAAA
TATACACTAATAATAATAATAATAATAATAATAATAATATCAATAACAAAAAGCAAGCATAATAT
AATAAAAATATTAAAATAAAGTAATTAGAAAATAATACTATGTATAAAAATATATACATATACAT
ATATAATAAAAAATATACACTATTAATAATAATAATAATAAATATAATAATAATATCAATAACAA
AAAGCAATATAATATAATAAAAATATT
Found at i:21261155 original size:20 final size:20
Alignment explanation
Indices: 21261134--21261174 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
21261124 AAAGATATAT
21261134 ATATACA-T-ATATATAAAA
1 ATATACACTAATATATAAAA
*
21261152 ATATACACTAATATATAATA
1 ATATACACTAATATATAAAA
21261172 ATA
1 ATA
21261175 ATAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATACACTAATATATAAAA
Found at i:21261174 original size:3 final size:3
Alignment explanation
Indices: 21261160--21261525 Score: 106
Period size: 3 Copynumber: 119.7 Consensus size: 3
21261150 AAATATACAC
*
21261160 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
21261206 TAT TGA -AA TACA -AA AAA GTAA -ATA TAA TAA -AA TAT TAA AAA TAAA
1 TAA TAA TAA TA-A TAA TAA -TAA TA-A TAA TAA TAA TAA TAA TAA T-AA
* *
21261251 TAA TAA -AA -AA TAA TAC T-A TATA TAA -ATA TATA TACG T-A TACA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A TAA TA-A
* * *
21261293 TATA CAA TAA AAA T-A TACA CTAA TATA TGA TAA TAA TAA TAA TAA TAA
1 TA-A TAA TAA TAA TAA TA-A -TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * ** * *
21261341 TAT TGA -AA TCCAA AAA GCA T-A TAA T-A TAA TAA AAA TAT TAA -AA
1 TAA TAA TAA T--AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * *
21261384 TAA GGA -AA TAA -AA TAA TAC T-A TATA TAAA TATG TATA TATA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A T-AA TA-A TA-A TA-A TA-A
* *
21261429 TACA TATA TAA TAA AAA TAA T-A TACA CTAA TAT TAA TAA TAA TAA TAA
1 TA-A TA-A TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA
* *
21261477 TAA TAA TAA TAA TAA T-A TGAA -AA AAA GAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
*
21261521 CAA TA
1 TAA TA
21261526 GTGTTTAGAC
Statistics
Matches: 273, Mismatches: 52, Indels: 76
0.68 0.13 0.19
Matches are distributed among these distances:
2 31 0.11
3 181 0.66
4 54 0.20
5 7 0.03
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:21261250 original size:23 final size:24
Alignment explanation
Indices: 21261218--21261262 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
21261208 TTGAAATACA
21261218 AAAAAGTAAAT-ATAATAAAATATT
1 AAAAAGTAAATAATAA-AAAATATT
21261242 AAAAA-TAAATAATAAAAAATA
1 AAAAAGTAAATAATAAAAAATA
21261263 ATACTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAAAGTAAATAATAAAAAATATT
Found at i:21261328 original size:150 final size:151
Alignment explanation
Indices: 21261025--21261342 Score: 457
Period size: 153 Copynumber: 2.1 Consensus size: 151
21261015 ACACTATTAT
21261025 TAATAATAATAATAAATATAATAATAATATTAATAACAAAAAGCGAATATAATATAATAAAAATA
1 TAATAATAATAAT-AATATAATAATAATATTAATAACAAAAA--GAATATAATATAATAAAAATA
* * *
21261090 TTAAAATAAAGTAATTAAAAATAATGCTATATATAAAGATATATATATACATATATATAAAAATA
63 TTAAAATAAAGTAATAAAAAATAATACTATATATAAAGATATATATATACATATAAATAAAAATA
21261155 TACACTAATATATAATAATAATAA
128 TACACTAATATATAATAATAATAA
*
21261179 TAATAATAATAATAATGATAATAATAATATTGAA-ATACAAAAA-AGTA-AATATAAT-AAAATA
1 TAATAATAATAATAAT-ATAATAATAATATT-AATA-ACAAAAAGAATATAATATAATAAAAATA
*
21261240 TTAAAAATAAA-TAATAAAAAATAATACTATATATAAATATATATACGTATACATATACAATAAA
63 TT-AAAATAAAGTAATAAAAAATAATACTATATATAAAGATATATA--TATACATATA-AATAAA
*
21261304 AATATACACTAATATATGATAATAATAA
124 AATATACACTAATATATAATAATAATAA
21261332 TAATAATAATA
1 TAATAATAATA
21261343 TTGAAATCCA
Statistics
Matches: 151, Mismatches: 6, Indels: 15
0.88 0.03 0.09
Matches are distributed among these distances:
150 39 0.26
151 16 0.11
152 13 0.09
153 46 0.30
154 28 0.19
155 9 0.06
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.31
Consensus pattern (151 bp):
TAATAATAATAATAATATAATAATAATATTAATAACAAAAAGAATATAATATAATAAAAATATTA
AAATAAAGTAATAAAAAATAATACTATATATAAAGATATATATATACATATAAATAAAAATATAC
ACTAATATATAATAATAATAA
Found at i:21261413 original size:16 final size:16
Alignment explanation
Indices: 21261394--21261443 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
21261384 TAAGGAAATA
21261394 AAATA-ATACTATATAT
1 AAATACATA-TATATAT
**
21261410 AAATATGTATATATAT
1 AAATACATATATATAT
*
21261426 ACATACATATATA-AT
1 AAATACATATATATAT
21261441 AAA
1 AAA
21261444 AATAATATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 4 0.14
16 22 0.79
17 2 0.07
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATACATATATATAT
Found at i:21263327 original size:5 final size:5
Alignment explanation
Indices: 21263317--21263341 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21263307 TACGAATTTG
21263317 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
21263342 GAACACACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:21267946 original size:18 final size:19
Alignment explanation
Indices: 21267925--21267961 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
21267915 TTTTTTAAAA
*
21267925 TATAAAT-TTTGGAATTTT
1 TATAAATATTTAGAATTTT
21267943 TATAAATATTTAGAATTTT
1 TATAAATATTTAGAATTTT
21267962 GGAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:21267959 original size:27 final size:24
Alignment explanation
Indices: 21267914--21267965 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 24
21267904 TTTTATATAT
21267914 ATTTTTTAAAATATAAATTTTGGA
1 ATTTTTTAAAATATAAATTTTGGA
*
21267938 ATTTTTATAAATATTTAGAATTTTGGA
1 ATTTTT-TAAA-ATATA-AATTTTGGA
21267965 A
1 A
21267966 AATTATTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 6 0.25
25 4 0.17
26 4 0.17
27 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTTTTAAAATATAAATTTTGGA
Found at i:21274223 original size:31 final size:30
Alignment explanation
Indices: 21274189--21274245 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
21274179 AAAATCATAT
* * *
21274189 TTTTTCAAATTTATATTTTTACCCCTAAAC
1 TTTTTCAAAATTACACTTTTACCCCTAAAC
*
21274219 TTTTTCAAAATTACACTTTTGCCCCTA
1 TTTTTCAAAATTACACTTTTACCCCTA
21274246 GGCTCGTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.02, T:0.47
Consensus pattern (30 bp):
TTTTTCAAAATTACACTTTTACCCCTAAAC
Found at i:21291555 original size:20 final size:20
Alignment explanation
Indices: 21291530--21291579 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
21291520 GCACATGCCT
*
21291530 GTGTGGCCTGGGACACGCCC
1 GTGTGGCCTGGAACACGCCC
* *
21291550 GTGTGGCCTCGAACATGCCC
1 GTGTGGCCTGGAACACGCCC
*
21291570 GTATGGCCTG
1 GTGTGGCCTG
21291580 TCCATGGGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.12, C:0.32, G:0.36, T:0.20
Consensus pattern (20 bp):
GTGTGGCCTGGAACACGCCC
Found at i:21292516 original size:37 final size:40
Alignment explanation
Indices: 21292426--21292518 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
21292416 CCAGAATGCT
*
21292426 GACCAACGCCTCATCGGATAGTTCGAAGCAAATAAGTGAC
1 GACCAACGCCTCATCGGATAGTCCGAAGCAAATAAGTGAC
* * *
21292466 GACCAACGTCTCATCGGCTAAG-CCGAAGC-AA-AA-TGGC
1 GACCAACGCCTCATCGGAT-AGTCCGAAGCAAATAAGTGAC
21292503 GACCAACGCCTCATCG
1 GACCAACGCCTCATCG
21292519 AATCTATTCG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
37 18 0.38
38 2 0.04
39 2 0.04
40 23 0.49
41 2 0.04
ACGTcount: A:0.32, C:0.30, G:0.23, T:0.15
Consensus pattern (40 bp):
GACCAACGCCTCATCGGATAGTCCGAAGCAAATAAGTGAC
Found at i:21293684 original size:3 final size:3
Alignment explanation
Indices: 21293678--21293717 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
21293668 CAATTATTAG
*
21293678 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21293718 GTAAATATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21297387 original size:40 final size:40
Alignment explanation
Indices: 21297327--21297510 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
21297317 TATTCGAATG
* * *
21297327 ATATCCGGGCTAAGCCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGACTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
21297367 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGACTAAGACCCGAAGGCATTTATGCTAG-TGACT
* * * *
21297407 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGACTAAGACCCGAAGGCATTTATGCTAGTGACT
* ** *
21297447 ATATCC-GAGCTAAGTCCCCTAGGCATTTATGCTAGTGACC
1 ATATCCGGA-CTAAGACCCGAAGGCATTTATGCTAGTGACT
21297487 ATATCCTGG-CTAAGACCCGAAGGC
1 ATATCC-GGACTAAGACCCGAAGGC
21297511 CTTGTGCAAG
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.96
41 2 0.02
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGACTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:21297460 original size:80 final size:80
Alignment explanation
Indices: 21297327--21297510 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 80
21297317 TATTCGAATG
* * * *
21297327 ATATCCGGGCTAAGCCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCCAAGGC
* *
21297391 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* * *
21297407 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGACTATATCC-GAGCTAAGTCCCCTAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGA-CTAAGTCCCCAAGGC
*
21297471 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
*
21297487 ATATCCTGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
21297511 CTTGTGCAAG
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
79 5 0.06
80 84 0.94
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCCAAGGCA
TTTATGCGAGTGACC
Found at i:21305492 original size:40 final size:40
Alignment explanation
Indices: 21305432--21305615 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
21305422 TATTCGAATG
* *
21305432 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * * * *
21305472 ATATCCAGACTAAGATCCGAAGGCATTTGTCCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
* *
21305512 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * *
21305552 ATATCCGGGCTAAGTCCCGAAGTCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
21305592 ATGTCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
21305616 CTTGTGCGAG
Statistics
Matches: 120, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 117 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:21308956 original size:17 final size:17
Alignment explanation
Indices: 21308934--21308967 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21308924 TACATTTTGG
21308934 CATCGTGTTTCCCACAC
1 CATCGTGTTTCCCACAC
21308951 CATCGTGTTTCCCACAC
1 CATCGTGTTTCCCACAC
21308968 TTCCAACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.41, G:0.12, T:0.29
Consensus pattern (17 bp):
CATCGTGTTTCCCACAC
Found at i:21311394 original size:33 final size:33
Alignment explanation
Indices: 21311355--21311446 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 33
21311345 GAGGTGTACA
21311355 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
1 TTCCTTTCCAAGTGGTACACACAAAGTATACCT
* * * *
21311388 TTCCTTTTCATA-TGGTATACACTAAGTATACGT
1 TTCCTTTCCA-AGTGGTACACACAAAGTATACCT
** *
21311421 AACCTTTCCAAGT-GTACACATAAAGT
1 TTCCTTTCCAAGTGGTACACACAAAGT
21311447 GTACATAACC
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
32 11 0.23
33 35 0.74
34 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (33 bp):
TTCCTTTCCAAGTGGTACACACAAAGTATACCT
Found at i:21315399 original size:25 final size:25
Alignment explanation
Indices: 21315365--21315417 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
21315355 ATTACATAAA
*
21315365 ATACAAAAGTTAAGTTATAGTAGCT
1 ATACAAAAGTTAAGTTATAATAGCT
*
21315390 ATACAAAAGTTAAGTTCTAATAGCT
1 ATACAAAAGTTAAGTTATAATAGCT
21315415 ATA
1 ATA
21315418 GGTAGTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.32
Consensus pattern (25 bp):
ATACAAAAGTTAAGTTATAATAGCT
Found at i:21316676 original size:25 final size:26
Alignment explanation
Indices: 21316604--21316679 Score: 77
Period size: 25 Copynumber: 3.0 Consensus size: 26
21316594 ATAGGCTCTT
21316604 CATGAGCTTCCCGTTATACA-GCTCGA
1 CATGAGCTTCCCGTTATA-AGGCTCGA
* * * *
21316630 -ATAAGCTTCCCGATACATGGCTC-A
1 CATGAGCTTCCCGTTATAAGGCTCGA
*
21316654 CATGAGCTTCCTGTTATAAGGCTCGA
1 CATGAGCTTCCCGTTATAAGGCTCGA
21316680 GAGTGTGGTT
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (26 bp):
CATGAGCTTCCCGTTATAAGGCTCGA
Found at i:21323715 original size:40 final size:40
Alignment explanation
Indices: 21323612--21323832 Score: 295
Period size: 40 Copynumber: 5.6 Consensus size: 40
21323602 TATTCGGATG
* * *
21323612 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21323652 AT-TCCGGCCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21323691 ATAACCGAGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
21323731 ATAATCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21323771 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
21323811 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
21323833 TACTTGGTTG
Statistics
Matches: 160, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 50 0.31
40 110 0.69
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21331807 original size:40 final size:40
Alignment explanation
Indices: 21331693--21331834 Score: 155
Period size: 40 Copynumber: 3.6 Consensus size: 40
21331683 TATTCGGATG
* * *
21331693 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* **
21331733 A-ATTCCGACCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
21331773 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
21331813 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
21331835 TACTTGGTTG
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
39 17 0.20
40 68 0.79
41 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:21340783 original size:49 final size:49
Alignment explanation
Indices: 21340730--21340832 Score: 170
Period size: 49 Copynumber: 2.1 Consensus size: 49
21340720 TCATGTCGTG
* *
21340730 ACATCCCTAGAAGACTACTCATGTCGTGACACAGGTTAGTGATGTCGCA
1 ACATCCCTAGAAGACTACTCATGTCATGACACAAGTTAGTGATGTCGCA
* *
21340779 ACATCCCTAGAAGACTGCTCATGTCATGACACAAGTTAGTGATGTCGCG
1 ACATCCCTAGAAGACTACTCATGTCATGACACAAGTTAGTGATGTCGCA
21340828 ACATC
1 ACATC
21340833 GGGTTGATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (49 bp):
ACATCCCTAGAAGACTACTCATGTCATGACACAAGTTAGTGATGTCGCA
Found at i:21354162 original size:48 final size:49
Alignment explanation
Indices: 21354090--21354185 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 49
21354080 GCACACGGGT
* *
21354090 GTGTGCCTTGGCCGTGTGCCCCTAGATGGATGATGACATCATAAATAGC
1 GTGTGCCTAGGCCGTGTGCCCCTAGATGGATGACGACATCATAAATAGC
*
21354139 GTGTG-CTAGGCCGTGTGCCCCTAGATGGATGACGACGTCATAAATAG
1 GTGTGCCTAGGCCGTGTGCCCCTAGATGGATGACGACATCATAAATAG
21354186 AATGTCCAGG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
48 39 0.89
49 5 0.11
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (49 bp):
GTGTGCCTAGGCCGTGTGCCCCTAGATGGATGACGACATCATAAATAGC
Found at i:21354351 original size:20 final size:20
Alignment explanation
Indices: 21354326--21354363 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
21354316 CAGGTAAGGG
21354326 ACACGGGCATGTCCCAATGC
1 ACACGGGCATGTCCCAATGC
**
21354346 ACACGGGTGTGTCCCAAT
1 ACACGGGCATGTCCCAAT
21354364 ACACCCAGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.32, G:0.26, T:0.18
Consensus pattern (20 bp):
ACACGGGCATGTCCCAATGC
Found at i:21354377 original size:20 final size:20
Alignment explanation
Indices: 21354335--21354377 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
21354325 GACACGGGCA
* * *
21354335 TGTCCCAATGCACACGGGTG
1 TGTCCCAATACACACAGGCG
*
21354355 TGTCCCAATACACCCAGGCG
1 TGTCCCAATACACACAGGCG
21354375 TGT
1 TGT
21354378 GCATTGCCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.33, G:0.26, T:0.21
Consensus pattern (20 bp):
TGTCCCAATACACACAGGCG
Found at i:21357263 original size:24 final size:24
Alignment explanation
Indices: 21357233--21357281 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
21357223 CAAATAAAAC
21357233 TCTAAAGTACACTGAAACTCTAAT
1 TCTAAAGTACACTGAAACTCTAAT
*
21357257 TCTAAAGTACACTGAAACTTTAAT
1 TCTAAAGTACACTGAAACTCTAAT
21357281 T
1 T
21357282 AATCTAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (24 bp):
TCTAAAGTACACTGAAACTCTAAT
Found at i:21357946 original size:14 final size:15
Alignment explanation
Indices: 21357919--21357950 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
21357909 TTTAATAGAA
21357919 TTTCTTTCTCTTTTT
1 TTTCTTTCTCTTTTT
21357934 TTTC-TTCT-TTTTT
1 TTTCTTTCTCTTTTT
21357947 TTTC
1 TTTC
21357951 ATATCAGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTCTTTCTCTTTTT
Found at i:21359985 original size:29 final size:29
Alignment explanation
Indices: 21359922--21359984 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
21359912 TTTTAGATTT
*
21359922 TAAAAATGATAAGATTAAATTATTTAAAA
1 TAAAAATGATAAGATTAAATTATCTAAAA
21359951 TAAAAATAGA-AAGATTAAA-T-TCTAAATA
1 TAAAAAT-GATAAGATTAAATTATCTAAA-A
21359979 TAAAAA
1 TAAAAA
21359985 AATACAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 5 0.16
28 8 0.26
29 16 0.52
30 2 0.06
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (29 bp):
TAAAAATGATAAGATTAAATTATCTAAAA
Found at i:21360328 original size:22 final size:22
Alignment explanation
Indices: 21360298--21360339 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
21360288 GTTTAATAAA
*
21360298 ATGATAAAAAATAAA-TAAATTT
1 ATGA-AAAAAAAAAACTAAATTT
21360320 ATGAAAAAAAAAAACTAAAT
1 ATGAAAAAAAAAAACTAAAT
21360340 ATTAACAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (22 bp):
ATGAAAAAAAAAAACTAAATTT
Found at i:21361230 original size:69 final size:69
Alignment explanation
Indices: 21361119--21361256 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
21361109 ACAACCATTC
21361119 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
1 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
21361184 ATTT
66 ATTT
21361188 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
1 CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
21361253 ATTT
66 ATTT
21361257 GGTAATAAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (69 bp):
CACCTAGATAACATCATATAATTTTTGTAAAAATGTGTAATTGCATAATTAGATGAATATTACAA
ATTT
Found at i:21377781 original size:43 final size:43
Alignment explanation
Indices: 21377733--21377877 Score: 240
Period size: 43 Copynumber: 3.4 Consensus size: 43
21377723 CCCAACTATG
* *
21377733 GTCTTACACGA-AATCAAATAACGATGCCAATGTCCCAGACA-T
1 GTCTTACAC-ATAATCAAATAATGATGCCAATGTCCTAGACATT
21377775 GTTCTTACACATAATCAAATAATGATGCCAATGTCCTAGACATT
1 G-TCTTACACATAATCAAATAATGATGCCAATGTCCTAGACATT
21377819 GTCTTACACATAATCAAATAATGATGCCAATGTCCTAGACATT
1 GTCTTACACATAATCAAATAATGATGCCAATGTCCTAGACATT
21377862 GTCTTACACATAATCA
1 GTCTTACACATAATCA
21377878 CATCTTGCTA
Statistics
Matches: 98, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
42 2 0.02
43 94 0.96
44 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (43 bp):
GTCTTACACATAATCAAATAATGATGCCAATGTCCTAGACATT
Found at i:21380087 original size:49 final size:49
Alignment explanation
Indices: 21379830--21380141 Score: 165
Period size: 46 Copynumber: 6.7 Consensus size: 49
21379820 TGATATGTGT
* * * *
21379830 GCTAGTGTAAGACATGTCTAGGACAT-GCATCAGCCAC-AT-TATGAGA
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGAAA
* * * * * * * *
21379876 GCCAGTGTAAGACATGTCTGGGACAT-GCGTCGGCATTG--AGACGAGAA
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGA-AA
* * * * * *
21379923 -CTAGTGTAAGACATGTTTGGGACAT-GCATCAGCCTGGAAATAT-ACAA
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGA-AA
* * * * * * **
21379970 GTTAGTGTAATACTTGTCTAGGACATGGCAT-TG-CTTG-TTG-TGTGA
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGAAA
*
21380015 -C-AGTGTAAGA-CTGTCTAGGACATGGCATC-GACAC-CGATAGATGAGA
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATCAG-C-CTCGATAGATGAAA
* * * *
21380061 GCTAGTGTAAAACCTGTCTGGGACATGACATCAGCCTCGATATATGAAA
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGAAA
* *
21380110 GTTAGTGTAAGACCTGTCTAGGATATGGCATC
1 GCTAGTGTAAGACCTGTCTAGGACATGGCATC
21380142 TACTTTGATG
Statistics
Matches: 200, Mismatches: 47, Indels: 35
0.71 0.17 0.12
Matches are distributed among these distances:
42 18 0.09
43 8 0.04
44 1 0.00
45 5 0.03
46 68 0.34
47 8 0.04
48 32 0.16
49 59 0.29
50 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTAGGACATGGCATCAGCCTCGATAGATGAAA
Found at i:21380093 original size:140 final size:145
Alignment explanation
Indices: 21379918--21380186 Score: 354
Period size: 140 Copynumber: 1.9 Consensus size: 145
21379908 GCATTGAGAC
* * * *
21379918 GAGAACTAGTGTAAGACATGTTTGGGACATGCATCAGCCTGGAAATAT-ACAAGTTAGTGTAATA
1 GAGAACTAGTGTAAAACATGTCTGGGACATGCATCAGCCTCGAAATATGA-AAGTTAGTGTAAGA
* * *
21379982 CTTGTCTAGGACATGGCAT-TGC-TTGTTGTG-T-GACAGTGTAAGA-C-TGTCTAGGACATGGC
65 CCTGTCTAGGACATGGCATCTACTTTGATGTGTTAGACAGTGTAAGATCATGTCTAGGACATGGC
21380041 ATCGACACCGATAGAT
130 ATCGACACCGATAGAT
* * *
21380057 GAGAGCTAGTGTAAAACCTGTCTGGGACATGACATCAGCCTCGATATATGAAAGTTAGTGTAAGA
1 GAGAACTAGTGTAAAACATGTCTGGGACATG-CATCAGCCTCGAAATATGAAAGTTAGTGTAAGA
* * *
21380122 CCTGTCTAGGATATGGCATCTACTTTGATGTGTTAGCCAGTGTAAGATCATGTCTGGGACATGGC
65 CCTGTCTAGGACATGGCATCTACTTTGATGTGTTAGACAGTGTAAGATCATGTCTAGGACATGGC
21380187 GTCGGCATCT
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
139 27 0.25
140 45 0.41
141 3 0.03
142 7 0.06
143 1 0.01
144 11 0.10
145 1 0.01
146 14 0.13
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (145 bp):
GAGAACTAGTGTAAAACATGTCTGGGACATGCATCAGCCTCGAAATATGAAAGTTAGTGTAAGAC
CTGTCTAGGACATGGCATCTACTTTGATGTGTTAGACAGTGTAAGATCATGTCTAGGACATGGCA
TCGACACCGATAGAT
Found at i:21382151 original size:20 final size:21
Alignment explanation
Indices: 21382126--21382164 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
21382116 GTGTCATGGA
21382126 AAAATTTTCTAA-GTTTTCCC
1 AAAATTTTCTAAGGTTTTCCC
21382146 AAAATTTTCTAAGGTTTTC
1 AAAATTTTCTAAGGTTTTC
21382165 AGTTTAGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (21 bp):
AAAATTTTCTAAGGTTTTCCC
Found at i:21384005 original size:47 final size:47
Alignment explanation
Indices: 21383936--21384031 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
21383926 TTATTAAGAA
21383936 GACACAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
1 GACACAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
21383983 GACACAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
1 GACACAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
21384030 GA
1 GA
21384032 TTTAACTCAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.39, C:0.06, G:0.30, T:0.25
Consensus pattern (47 bp):
GACACAATGGTGACAATGAGATAAAATAGGGTTGTATTGAGTGAATG
Found at i:21397337 original size:48 final size:48
Alignment explanation
Indices: 21397274--21397403 Score: 206
Period size: 48 Copynumber: 2.7 Consensus size: 48
21397264 CGAGTCATAA
* * * *
21397274 CTTGATTTGGTTTCGGTCCATGGTATAGGTATTTCAGAGATGAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCAGAGATAAGTTAC
*
21397322 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCGGAGATAAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCAGAGATAAGTTAC
*
21397370 CTTGATTTTGCTTCGGGCCATGGTATAGGTACTT
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTT
21397404 ATTGTGCGAG
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (48 bp):
CTTGATTTGGCTTCGGGCCATGGTATAGGTACTTCAGAGATAAGTTAC
Found at i:21398926 original size:20 final size:19
Alignment explanation
Indices: 21398897--21398936 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
21398887 TCCCCTACAG
21398897 TTTGAAAAATTTTCTAAGT
1 TTTGAAAAATTTTCTAAGT
*
21398916 TTTGTAAAAATTTTCTGAGT
1 TTTG-AAAAATTTTCTAAGT
21398936 T
1 T
21398937 ATCCATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.33, C:0.05, G:0.12, T:0.50
Consensus pattern (19 bp):
TTTGAAAAATTTTCTAAGT
Found at i:21399047 original size:22 final size:23
Alignment explanation
Indices: 21399017--21399060 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
21399007 GATTTATGAG
*
21399017 AATGAATGCTTTATGTT-TGATA
1 AATGAATGCTATATGTTGTGATA
*
21399039 AATGTATGCTATATGTTGTGAT
1 AATGAATGCTATATGTTGTGAT
21399061 TTGATCAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (23 bp):
AATGAATGCTATATGTTGTGATA
Found at i:21403900 original size:48 final size:48
Alignment explanation
Indices: 21403837--21403965 Score: 204
Period size: 48 Copynumber: 2.7 Consensus size: 48
21403827 CGAGTCATAA
* * * *
21403837 CTTGATTTGGCTTCGGGCCATGGTATAGGTATTTCGGAGATGAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAGAGATAAGTTAC
21403885 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAGAGATAAGTTAC
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAGAGATAAGTTAC
* *
21403933 CTTAATTTTGCTTCGGGCCATGGTATAGGTACT
1 CTTGATTTGGCTTCGGGCCATGGTATAGGTACT
21403966 TATTGTGTGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (48 bp):
CTTGATTTGGCTTCGGGCCATGGTATAGGTACTCCAGAGATAAGTTAC
Found at i:21406385 original size:46 final size:46
Alignment explanation
Indices: 21406210--21406470 Score: 142
Period size: 46 Copynumber: 5.5 Consensus size: 46
21406200 TGAGCTAGTA
* * **
21406210 TAAGACATGTCTGGGACATGCATCGACCACATTATG-AGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCTACAAGATGTA-AGCCAGTG
* * * * *
21406256 TAAGACCATGTCTAGGACATGTCATCGGCATTGAGAGGA-GT--GCTAGTT
1 TAAGA-CATGTCTGGGACATG-CATCGGC--T-ACAAGATGTAAGCCAGTG
* * * *
21406304 TAAGACATGTCTGGGACATGCTTTGGACT-CGAGATGTAAGCCAATG
1 TAAGACATGTCTGGGACATGCATCGG-CTACAAGATGTAAGCCAGTG
*
21406350 TAAGACATGTCTGGGACATGCATCGGCTACAAGATGT--GTCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCTACAAGATGTAAGCCAGTG
* * * * * * **
21406394 TATGACCATTTTTGGGACATGACATCGAC-ACAGATATGCTAGAACTTGTG
1 TAAGA-CATGTCTGGGACATG-CATCGGCTACA-AGATG-TA-AGCCAGTG
21406444 TAAGACCATGTCTGGGACATGGCATCG
1 TAAGA-CATGTCTGGGACAT-GCATCG
21406471 ACACCTGACC
Statistics
Matches: 162, Mismatches: 34, Indels: 34
0.70 0.15 0.15
Matches are distributed among these distances:
43 2 0.01
44 11 0.07
45 19 0.12
46 54 0.33
47 30 0.19
48 16 0.10
50 26 0.16
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCTACAAGATGTAAGCCAGTG
Found at i:21408201 original size:22 final size:23
Alignment explanation
Indices: 21408171--21408214 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
21408161 GATTTATGAG
*
21408171 AATGAATGCTTTATGTT-TGATA
1 AATGAATGCTATATGTTGTGATA
*
21408193 AATGTATGCTATATGTTGTGAT
1 AATGAATGCTATATGTTGTGAT
21408215 TTGATCGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (23 bp):
AATGAATGCTATATGTTGTGATA
Found at i:21409926 original size:26 final size:26
Alignment explanation
Indices: 21409897--21409951 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
21409887 TTTGTGTAAT
21409897 CCAACTCAAACACAAGTGGATTAACA
1 CCAACTCAAACACAAGTGGATTAACA
* *
21409923 CCAACTTAAACACAAGTGGGTTAACA
1 CCAACTCAAACACAAGTGGATTAACA
21409949 CCA
1 CCA
21409952 TAAATAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.44, C:0.27, G:0.13, T:0.16
Consensus pattern (26 bp):
CCAACTCAAACACAAGTGGATTAACA
Found at i:21417444 original size:47 final size:48
Alignment explanation
Indices: 21417391--21417522 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 48
21417381 CACAATCAAT
21417391 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATC-CCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCCG
* * * * * **
21417438 AAGTACCTATACTATAGCTCGTAGCCAAATCGAGGTAACTTCTCTTTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCCG
*
21417486 AAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
21417523 TCATTCACAC
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 39 0.54
48 33 0.46
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.24
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCTCCG
Found at i:21423600 original size:30 final size:30
Alignment explanation
Indices: 21423539--21423600 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 30
21423529 CAATTTTCGG
* ***
21423539 GTCTAAGGGTAAAATGGACATTTTGTGAAA
1 GTCTAAGGGCAAAATGGACATTTTACCAAA
* *
21423569 GTCTAGGGGCAAAATGGTCATTTTACCAAA
1 GTCTAAGGGCAAAATGGACATTTTACCAAA
21423599 GT
1 GT
21423601 ATGAGTCTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (30 bp):
GTCTAAGGGCAAAATGGACATTTTACCAAA
Found at i:21427486 original size:26 final size:26
Alignment explanation
Indices: 21427454--21427507 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
21427444 CATTTTCTAA
21427454 GTCAGCATCTAGTTCAGGATTGGTTG
1 GTCAGCATCTAGTTCAGGATTGGTTG
*
21427480 GTCAGCATCTGGTTCAGGATTGGTTG
1 GTCAGCATCTAGTTCAGGATTGGTTG
21427506 GT
1 GT
21427508 GACTCTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.15, G:0.33, T:0.35
Consensus pattern (26 bp):
GTCAGCATCTAGTTCAGGATTGGTTG
Found at i:21431699 original size:45 final size:45
Alignment explanation
Indices: 21431619--21431723 Score: 140
Period size: 45 Copynumber: 2.3 Consensus size: 45
21431609 AGGCCTGATA
* * *
21431619 TCAAAAGCCCGAATAGTATCTCACCGGCATTATAGCATGCTAGGC
1 TCAAAGGCCCGAATAGTATCTCACCAGCATCATAGCATGCTAGGC
*
21431664 TCAAAGGCCCGAATAGTAT-TCCACCAGCATCATAGCCTGCTAGGC
1 TCAAAGGCCCGAATAGTATCT-CACCAGCATCATAGCATGCTAGGC
* *
21431709 ACGAAGGCCCGAATA
1 TCAAAGGCCCGAATA
21431724 CTCATCACCG
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 1 0.02
45 52 0.98
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (45 bp):
TCAAAGGCCCGAATAGTATCTCACCAGCATCATAGCATGCTAGGC
Found at i:21431753 original size:43 final size:43
Alignment explanation
Indices: 21431697--21431852 Score: 276
Period size: 43 Copynumber: 3.6 Consensus size: 43
21431687 CCAGCATCAT
*
21431697 AGCCTGCTAGGCACGAAGGCCCGAATACTCATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
*
21431740 AGCCTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
* *
21431783 AGCCTGCTAGGCACGAAGGCCTGAATACACATCACCGGCAAGA
1 AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
21431826 AGCCTGCTAGGCACGAAGGCCCGAATA
1 AGCCTGCTAGGCACGAAGGCCCGAATA
21431853 TAATACCAGC
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 107 1.00
ACGTcount: A:0.31, C:0.33, G:0.26, T:0.11
Consensus pattern (43 bp):
AGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGA
Found at i:21437131 original size:39 final size:39
Alignment explanation
Indices: 21437088--21437206 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
21437078 TGTGAATATA
*
21437088 TATATGCGAGAATTATATTCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
*
21437127 TATATACGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
* * *
21437166 TATATGCGAGAATTATATCCGGACTTTAGGTCCACAGGC
1 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
21437205 TA
1 TA
21437207 CGTGCTGGAC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
Found at i:21439337 original size:668 final size:668
Alignment explanation
Indices: 21438052--21439371 Score: 2144
Period size: 668 Copynumber: 2.0 Consensus size: 668
21438042 TTTACCTTAA
* * * *
21438052 AATAGATGCTGACAGCAGCAGTGATGTGAGTTTGAAAATTCACTAAAAATAGTAGGAAAGTAATT
1 AATAGATGCTGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAAAGAGTAGGAAAGAAATT
* * *
21438117 AAATAATAAATAAATTATGTAATCGAACCTTGATGAGTCTATTTTCATATGGAAGAAGCGAAATG
66 AAATAATAAATAAATTATGTAATCGAACCTTGATGAGTCTATTTTCATATGAAAGAAACGAAACG
* *
21438182 ACCATATGAGCCGTATTTTATGAGATGTTCAAGTTTTCGTGAAATAGGGCCAGAACGGTTACTGG
131 AACATATGAGCCGTATTTTATGAGATGTTCAAGTTTTCGTGAAACAGGGCCAGAACGGTTACTGG
*
21438247 ATCCCCTGTTCTGACTTTGGAAATTTACCATAAATTAACCAGAAATAATTAGAAGTCATGCTTTA
196 ATCCCCTGTTCTGACTTTGGAAATTCACCATAAATTAACCAGAAATAATTAGAAGTCATGCTTTA
* *
21438312 TATGTACAGATTCCTTTTTGAGTCTAGTTTCATTAGAAACAAACGGAATATGTATTGAAGCCCTG
261 TATGTACAGATTCCTTTTTGAGTCTAGTTTCATTAGAAACAAACGGAATAAGTATTGAAGCCCTA
*
21438377 TACAGGGAGATATCAAAGTCGTAATGCATGAAGGTCAGAGTAGTTGAACCCTGAAACAGGGGAGA
326 TACAGGGAGATATCAAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAACCCTGAAACAGGGGAGA
* **
21438442 CTTTAACTAATACACTGTACTAATTGGCCTGACCAAAAATTCTAAAAAAAATCTGTAGATGGATA
391 CTTTAACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTAAAAAAAATCTGTAGATGGATA
21438507 TATGAGTCTAGTTTCAGAGGAAATTTACGAAATCAGTTTTTGAGTTCTGGAACTCGAGATATGAT
456 TATGAGTCTAGTTTCAGAGGAAATTTACGAAATCAGTTTTTGAGTTCTGGAACTCGAGATATGAT
*
21438572 TTTTAAGGTGACAGTGACGCAGTTAGCCAGCTTGTCTGGAAATTTTAAAATGAACTGTGTAAATA
521 TTTTAAAGTGACAGTGACGCAGTTAGCCAGCTTGTCTGGAAATTTTAAAATGAACTGTGTAAATA
** * * * *
21438637 AATGAATTAAGTTCGTTAACACCTCGTGTTCGACTCCGGCAACGGTCTCGGGTGCGGGGCGTTAC
586 AATGAATTAAGCCCGATAACACCTCATGTTCGACTCCGGCAACGGTCTCGGGTACGGGACGTTAC
21438702 AATTTTATTGGTATCTTG
651 AATTTTATTGGTATCTTG
* * *
21438720 AATATATGCTGACATCAGCAGTGATGTGAATTTGAAAAATCACTAAAAAGAGTAGGAATGAAATT
1 AATAGATGCTGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAAAGAGTAGGAAAGAAATT
* * *
21438785 AAATAGTGAATAAATTATGTAATCGAAGCTTGATGAGTCTATTTTCATATGAAAGAAACGAAACG
66 AAATAATAAATAAATTATGTAATCGAACCTTGATGAGTCTATTTTCATATGAAAGAAACGAAACG
** * * *
21438850 AACATATGAGCCGTATTTTATGAGATGTTTGAGTTTTCGTGAAACAGGGCCAGAGCGTTTTCTGG
131 AACATATGAGCCGTATTTTATGAGATGTTCAAGTTTTCGTGAAACAGGGCCAGAACGGTTACTGG
* *
21438915 ATCCCCTGTTCTGA-TTTGGTAATTCACCATAAATTAACCAGAGATAATTAGAAGTCATGCTTTA
196 ATCCCCTGTTCTGACTTTGGAAATTCACCATAAATTAACCAGAAATAATTAGAAGTCATGCTTTA
*
21438979 TATGTACAGATTCCTTTTTGAGTCTAGTTTCATTAGAAACAAAC-GACATAAGTATTGAAGCTCT
261 TATGTACAGATTCCTTTTTGAGTCTAGTTTCATTAGAAACAAACGGA-ATAAGTATTGAAGCCCT
* *
21439043 ATACAGGGAGATATCTAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAACCTTGAAACAGGGGAG
325 ATACAGGGAGATATCAAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAACCCTGAAACAGGGGAG
* *
21439108 ACTTTAACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTAGAAACAAATTTGTAGATGGA
390 ACTTTAACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTA-AAAAAAATCTGTAGATGGA
* ** *
21439173 TATATGAGTCTAGTTTC-G-GGAAAAATTTACGGAATTGGTTTTTGAGTTTTGGAACTCGAGATA
454 TATATGAGTCTAGTTTCAGAGG--AAATTTACGAAATCAGTTTTTGAGTTCTGGAACTCGAGATA
* *
21439236 TGATTTTTAAAGTGACTGTGATGCAGTTAGCCAGCTTGTCTGGAAATTTTAAAATGAACTGTGTA
517 TGATTTTTAAAGTGACAGTGACGCAGTTAGCCAGCTTGTCTGGAAATTTTAAAATGAACTGTGTA
*
21439301 AGTAAATGAATTAAGCCCGATAACACCTCATGTTCGACTCCGGCAACGGTCTCGGGTACGGGACG
582 AATAAATGAATTAAGCCCGATAACACCTCATGTTCGACTCCGGCAACGGTCTCGGGTACGGGACG
21439366 TTACAA
647 TTACAA
21439372 CATTCCCTTT
Statistics
Matches: 600, Mismatches: 48, Indels: 8
0.91 0.07 0.01
Matches are distributed among these distances:
666 4 0.01
667 210 0.35
668 386 0.64
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (668 bp):
AATAGATGCTGACAGCAGCAGTGATGTGAATTTGAAAAATCACTAAAAAGAGTAGGAAAGAAATT
AAATAATAAATAAATTATGTAATCGAACCTTGATGAGTCTATTTTCATATGAAAGAAACGAAACG
AACATATGAGCCGTATTTTATGAGATGTTCAAGTTTTCGTGAAACAGGGCCAGAACGGTTACTGG
ATCCCCTGTTCTGACTTTGGAAATTCACCATAAATTAACCAGAAATAATTAGAAGTCATGCTTTA
TATGTACAGATTCCTTTTTGAGTCTAGTTTCATTAGAAACAAACGGAATAAGTATTGAAGCCCTA
TACAGGGAGATATCAAAGTCGTAATGCATGAAGGTCAGAGTAGTCGAACCCTGAAACAGGGGAGA
CTTTAACTAATAAACTGTACTAATTGGCCCAACCAAAAATTCTAAAAAAAATCTGTAGATGGATA
TATGAGTCTAGTTTCAGAGGAAATTTACGAAATCAGTTTTTGAGTTCTGGAACTCGAGATATGAT
TTTTAAAGTGACAGTGACGCAGTTAGCCAGCTTGTCTGGAAATTTTAAAATGAACTGTGTAAATA
AATGAATTAAGCCCGATAACACCTCATGTTCGACTCCGGCAACGGTCTCGGGTACGGGACGTTAC
AATTTTATTGGTATCTTG
Found at i:21443634 original size:40 final size:40
Alignment explanation
Indices: 21443604--21443828 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
21443594 GCTACTCGTT
* *
21443604 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
21443644 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
21443684 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
21443724 AAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
21443763 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
21443804 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21443829 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:21443812 original size:119 final size:120
Alignment explanation
Indices: 21443605--21443828 Score: 303
Period size: 119 Copynumber: 1.9 Consensus size: 120
21443595 CTACTCGTTC
*
21443605 AAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
21443670 TTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAA
66 TATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAA
* * **
21443725 AAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 AAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * *
21443787 GATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 GATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
21443829 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 21 0.23
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
AAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAA
Found at i:21453474 original size:12 final size:11
Alignment explanation
Indices: 21453443--21453478 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
21453433 GTTTTTAAAA
21453443 AATTAAAAACT
1 AATTAAAAACT
21453454 AATTAAAAACT
1 AATTAAAAACT
*
21453465 AAGTTTAAAACT
1 AA-TTAAAAACT
21453477 AA
1 AA
21453479 AACATAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (11 bp):
AATTAAAAACT
Found at i:21459357 original size:41 final size:41
Alignment explanation
Indices: 21459228--21459358 Score: 122
Period size: 43 Copynumber: 3.1 Consensus size: 41
21459218 TAAGATGCTA
* *
21459228 ATGCCATATCCCAGATATGGTCTTACAAGAGATCACATATCG
1 ATGCCATGTCCCA-ACATGGTCTTACAAGAGATCACATATCG
* * * * *
21459270 ATGGCAATAG-CCCAGCTATGGTCTTACACGAGGTCTCATAAT-G
1 AT-GCCAT-GTCCCAAC-ATGGTCTTACAAGAGATCACAT-ATCG
* *
21459313 ATGCCATGTCCCAACATGGTCTTACATGAAATCACATATCG
1 ATGCCATGTCCCAACATGGTCTTACAAGAGATCACATATCG
21459354 ATGCC
1 ATGCC
21459359 GATGCCATGT
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
40 2 0.03
41 25 0.36
42 11 0.16
43 30 0.43
44 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (41 bp):
ATGCCATGTCCCAACATGGTCTTACAAGAGATCACATATCG
Found at i:21459396 original size:48 final size:48
Alignment explanation
Indices: 21459312--21459530 Score: 246
Period size: 48 Copynumber: 4.6 Consensus size: 48
21459302 GTCTCATAAT
*
21459312 GATGCCATGTCCCA-ACATGGTCTTACA-TGAAATCACATATCGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTG-GATCACATATCGATGCC
* * ** *
21459359 GATGCCATGTCCCAGACATGGCCTTACACTGGCTCACACGTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCACATATCGATGCC
* * *
21459407 GATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAACGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GGATCACATATCGATGCC
* * * * * *
21459455 GATGCCATGTCCCAGACATGGCCTTATACAGGATCTCATCTTGATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCACATATCGATGCC
* *
21459503 AATGCCATGTCCCAAACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
21459531 TGGGATCTCA
Statistics
Matches: 142, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
47 16 0.11
48 123 0.87
49 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGATCACATATCGATGCC
Found at i:21459445 original size:96 final size:95
Alignment explanation
Indices: 21459312--21459532 Score: 286
Period size: 96 Copynumber: 2.3 Consensus size: 95
21459302 GTCTCATAAT
* *
21459312 GATGCCATGTCCCAACATGGTCTTACATGAAATCACATATCGATGCCGATGCCATGTCCCAGACA
1 GATGCCATGTCCCAACATGGTCTTACATGAAATCACATATCAACGCCGATGCCATGTCCCAGACA
* *
21459377 TGGCCTTACACTGGCTCACA-CGTCGAGGCC
66 TGGCCTTACACAGGATCACATC-TCGAGGCC
*
21459407 GATGCCATGTCCCAGACATGGTCTTACACT-AGCA-CACATATCAACGCCGATGCCATGTCCCAG
1 GATGCCATGTCCCA-ACATGGTCTTACA-TGA-AATCACATATCAACGCCGATGCCATGTCCCAG
* * * *
21459470 ACATGGCCTTATACAGGATCTCATCTTGATGCC
63 ACATGGCCTTACACAGGATCACATCTCGAGGCC
*
21459503 AATGCCATGTCCCAAACATGGTCTTACATG
1 GATGCCATGTCCC-AACATGGTCTTACATG
21459533 GGATCTCACA
Statistics
Matches: 110, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
95 15 0.14
96 91 0.83
97 4 0.04
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (95 bp):
GATGCCATGTCCCAACATGGTCTTACATGAAATCACATATCAACGCCGATGCCATGTCCCAGACA
TGGCCTTACACAGGATCACATCTCGAGGCC
Found at i:21465271 original size:40 final size:40
Alignment explanation
Indices: 21465177--21465401 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 40
21465167 TATTCGAATG
*
21465177 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
21465218 ATAACAGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
21465258 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * * *
21465298 ATATCCGGGCTAAAATTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
21465338 ATATTCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
21465378 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
21465402 CTTGTGCAAG
Statistics
Matches: 152, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
39 2 0.01
40 121 0.80
41 28 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:21465357 original size:80 final size:80
Alignment explanation
Indices: 21465177--21465437 Score: 258
Period size: 80 Copynumber: 3.3 Consensus size: 80
21465167 TATTCGAATG
* * * * *
21465177 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACAGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAAATCCGAAGGC
*
21465242 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
21465258 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAATTCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAATCCGAAGGCA
* * *
21465323 TTTGTGCTAG-CGATT
66 TTCGTGCGAGTCG-CT
* * * * * * *
21465338 ATATTCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAATCCGAAGGCA
* * *
21465403 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
* *
21465417 ATAT-CTGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
21465438 ATTACTTGAG
Statistics
Matches: 150, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
78 15 0.10
79 13 0.09
80 90 0.60
81 32 0.21
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAAATCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:21479227 original size:18 final size:18
Alignment explanation
Indices: 21479193--21479225 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
21479183 TCCAAATAAT
21479193 TTAACTAATTTTGATATG
1 TTAACTAATTTTGATATG
21479211 TTAA-TAATTTT-ATAT
1 TTAACTAATTTTGATAT
21479226 ATCTTTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (18 bp):
TTAACTAATTTTGATATG
Found at i:21493077 original size:35 final size:35
Alignment explanation
Indices: 21492996--21493113 Score: 143
Period size: 35 Copynumber: 3.3 Consensus size: 35
21492986 TGGTAGGTGC
*
21492996 ATATATAATATTAATATGTGTGCATGG-TTTTGTTAT
1 ATATATAATATAAATATGTGTGCATGGTTTTTG-T-T
*
21493032 ATATATAATATAAATATGGGTGCATGGTTTTTGTT
1 ATATATAATATAAATATGTGTGCATGGTTTTTGTT
*
21493067 ATATATAATATATATATGTGTG--TGAGTTTTGTGTT
1 ATATATAATATAAATATGTGTGCATG-GTTTT-TGTT
*
21493102 ATATGTAATATA
1 ATATATAATATA
21493114 TATTTGTATA
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
33 2 0.03
34 5 0.07
35 36 0.49
36 26 0.35
37 5 0.07
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (35 bp):
ATATATAATATAAATATGTGTGCATGGTTTTTGTT
Found at i:21498486 original size:22 final size:24
Alignment explanation
Indices: 21498450--21498497 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
21498440 AATTCTATGC
21498450 TAAATTGATAAAGAT-TAA-TATA
1 TAAATTGATAAAGATATAATTATA
21498472 TAAATT-ATAATAGATATAATTATA
1 TAAATTGATAA-AGATATAATTATA
21498496 TA
1 TA
21498498 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTGATAAAGATATAATTATA
Found at i:21507430 original size:17 final size:17
Alignment explanation
Indices: 21507410--21507483 Score: 85
Period size: 17 Copynumber: 4.4 Consensus size: 17
21507400 TTATGATGGA
21507410 GTATGAACTATTATTTT
1 GTATGAACTATTATTTT
* **
21507427 GTATGAATTATTATTCA
1 GTATGAACTATTATTTT
* *
21507444 GTATGAACTAATATTTC
1 GTATGAACTATTATTTT
*
21507461 ATATGAACTATTATTTT
1 GTATGAACTATTATTTT
*
21507478 GCATGA
1 GTATGA
21507484 GTTGTCATTT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.46
Consensus pattern (17 bp):
GTATGAACTATTATTTT
Found at i:21507447 original size:34 final size:34
Alignment explanation
Indices: 21507409--21507475 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
21507399 GTTATGATGG
* ** *
21507409 AGTATGAACTATTATTTTGTATGAATTATTATTC
1 AGTATGAACTAATATTTCATATGAACTATTATTC
21507443 AGTATGAACTAATATTTCATATGAACTATTATT
1 AGTATGAACTAATATTTCATATGAACTATTATT
21507476 TTGCATGAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.10, T:0.46
Consensus pattern (34 bp):
AGTATGAACTAATATTTCATATGAACTATTATTC
Found at i:21507499 original size:51 final size:51
Alignment explanation
Indices: 21507411--21507519 Score: 128
Period size: 51 Copynumber: 2.1 Consensus size: 51
21507401 TATGATGGAG
* *
21507411 TATGAACTATTATTTTGTATGAATTATTATTCAGTATGAACTAATATTTCA
1 TATGAACTATTATTTTGCATGAATTATCATTCAGTATGAACTAATATTTCA
* * ** * ** *
21507462 TATGAACTATTATTTTGCATGAGTTGTCATTTGGTATGAATTGTTATTTTA
1 TATGAACTATTATTTTGCATGAATTATCATTCAGTATGAACTAATATTTCA
21507513 TATGAAC
1 TATGAAC
21507520 AGATGTTTGA
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (51 bp):
TATGAACTATTATTTTGCATGAATTATCATTCAGTATGAACTAATATTTCA
Found at i:21513262 original size:23 final size:23
Alignment explanation
Indices: 21513225--21513312 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
21513215 TGATGGACAA
* *
21513225 TAAGCTTTATAGAGCTGAAACGG
1 TAAGCTCTATCGAGCTGAAACGG
*
21513248 TAAGCTCTATCGAGCTG-AACAG
1 TAAGCTCTATCGAGCTGAAACGG
*
21513270 TAAGCAC-ATACGAGCTGAAACGG
1 TAAGCTCTAT-CGAGCTGAAACGG
*
21513293 TAAGCTCCAAT-GAGCTGAAA
1 TAAGCT-CTATCGAGCTGAAA
21513313 ATAGTAAGCC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
21 2 0.04
22 17 0.31
23 33 0.60
24 1 0.02
25 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.20
Consensus pattern (23 bp):
TAAGCTCTATCGAGCTGAAACGG
Found at i:21513283 original size:22 final size:23
Alignment explanation
Indices: 21513236--21513297 Score: 83
Period size: 22 Copynumber: 2.7 Consensus size: 23
21513226 AAGCTTTATA
*
21513236 GAGCTGAAACGGTAAGCTCTATC
1 GAGCTGAAACGGTAAGCACTATC
*
21513259 GAGCTG-AACAGTAAGCAC-ATAC
1 GAGCTGAAACGGTAAGCACTAT-C
21513281 GAGCTGAAACGGTAAGC
1 GAGCTGAAACGGTAAGC
21513298 TCCAATGAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 2 0.06
22 17 0.50
23 15 0.44
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.16
Consensus pattern (23 bp):
GAGCTGAAACGGTAAGCACTATC
Found at i:21517887 original size:54 final size:55
Alignment explanation
Indices: 21517809--21517946 Score: 163
Period size: 54 Copynumber: 2.5 Consensus size: 55
21517799 CGATATGGCC
* ** *
21517809 GTGGTCGAGCCTGCCAAAACAACACGGGCGTGT-GACACGCCCGTGTGGAAGAACA
1 GTGGTCGAACCTGTTAAAACAACACGGGCGT-TCGACACGCCCGTGTGGAACAACA
* * * *
21517864 GTGGT-GAACCTGTTAAAACAACACGAGCGTTCGACACGCCTGTGTGGAACACCT
1 GTGGTCGAACCTGTTAAAACAACACGGGCGTTCGACACGCCCGTGTGGAACAACA
**
21517918 GTGGTCGAACCTGTTAAATTAACACGGGC
1 GTGGTCGAACCTGTTAAAACAACACGGGC
21517947 ATAGGGCTTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.01
54 44 0.63
55 25 0.36
ACGTcount: A:0.28, C:0.25, G:0.29, T:0.18
Consensus pattern (55 bp):
GTGGTCGAACCTGTTAAAACAACACGGGCGTTCGACACGCCCGTGTGGAACAACA
Found at i:21526790 original size:103 final size:104
Alignment explanation
Indices: 21526611--21526821 Score: 388
Period size: 103 Copynumber: 2.0 Consensus size: 104
21526601 GCGATTTTTG
21526611 ATGCATCTGACTCTTTAACTCGTAGCTAATAGTAACCTGATCCCAGATCAATCTTTGAAAATACT
1 ATGCATCTGACTCTTTAACTCGTAGCTAATAGTAACCTGATCCCAGATCAATCTTTGAAAATACT
21526676 GTAGCCCCTTTCAACTGAT-TAAATCGTCAATTCGTGGT
66 GTAGCCCCTTTCAACTGATATAAATCGTCAATTCGTGGT
21526714 ATGCATCTGACTCTTTAACTCGTAGCTAATAGTAACCTGATCCCAGATCAATCTTTGAAAATACT
1 ATGCATCTGACTCTTTAACTCGTAGCTAATAGTAACCTGATCCCAGATCAATCTTTGAAAATACT
21526779 GTAGCCCCTTTCAACTGATCAAATAAATCGTCAATTCGTGGT
66 GTAGCCCCTTTCAACTGAT---ATAAATCGTCAATTCGTGGT
21526821 A
1 A
21526822 AAAGGTATTT
Statistics
Matches: 104, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
103 84 0.81
107 20 0.19
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (104 bp):
ATGCATCTGACTCTTTAACTCGTAGCTAATAGTAACCTGATCCCAGATCAATCTTTGAAAATACT
GTAGCCCCTTTCAACTGATATAAATCGTCAATTCGTGGT
Found at i:21536281 original size:33 final size:33
Alignment explanation
Indices: 21536239--21536310 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
21536229 AATGTGCTAC
21536239 AATAACATAAGAACCCATAAATACTAGATGGCA
1 AATAACATAAGAACCCATAAATACTAGATGGCA
21536272 AATAACATAAGAACCCATAAATACTAGATGGCA
1 AATAACATAAGAACCCATAAATACTAGATGGCA
21536305 AATAAC
1 AATAAC
21536311 CTTTTTGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (33 bp):
AATAACATAAGAACCCATAAATACTAGATGGCA
Found at i:21547055 original size:40 final size:40
Alignment explanation
Indices: 21546971--21547194 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
21546961 TTGAATGATG
* * * *
21546971 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
21547011 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
21547051 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21547090 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21547130 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21547171 --CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21547195 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 57 0.34
40 99 0.60
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21547107 original size:79 final size:80
Alignment explanation
Indices: 21546971--21547194 Score: 296
Period size: 79 Copynumber: 2.8 Consensus size: 80
21546961 TTGAATGATG
* * * * *
21546971 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
21547034 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
*
21547051 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
*
21547115 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* *
21547130 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA--CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
21547193 TG
65 TG
21547195 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 82 0.64
80 44 0.34
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:21547185 original size:119 final size:119
Alignment explanation
Indices: 21546971--21547194 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 119
21546961 TTGAATGATG
*
21546971 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
21547036 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * * **
21547090 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
21547153 TTGTGCGAGTTACT-ATAACGGGCTATGTCCCGAAGGCATTTG
64 TTGTGCGAGATACTAATAACGGGCTAAG-CCCGAAGGCATTTG
21547195 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
118 11 0.12
119 73 0.80
120 7 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21547201 original size:119 final size:119
Alignment explanation
Indices: 21546971--21547227 Score: 299
Period size: 119 Copynumber: 2.2 Consensus size: 119
21546961 TTGAATGATG
* *
21546971 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
** **
21547036 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * **
21547090 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
21547153 TTGTGCGAGTTACT-ATAACGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTGCGAGATACTAATAACGGGCTAAG-CCCGAAGGCATTTGAACGAGTAGCTAAA
* *
21547209 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21547228 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
118 27 0.23
119 84 0.71
120 7 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATAACGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:21550043 original size:23 final size:22
Alignment explanation
Indices: 21550017--21550092 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 22
21550007 CTGATGGAGA
*
21550017 GTAAGCTCTATTGAGCTGAAATG
1 GTAAGCTCTATCGAGCTGAAA-G
21550040 GTAAGCTCTATCGAGCTGAACA-
1 GTAAGCTCTATCGAGCTGAA-AG
21550062 GTAAGCTC-ATACGAGCTGAAACG
1 GTAAGCTCTAT-CGAGCTGAAA-G
21550085 GTAAGCTC
1 GTAAGCTC
21550093 CAATGAGCTA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 3 0.06
22 17 0.35
23 27 0.56
24 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (22 bp):
GTAAGCTCTATCGAGCTGAAAG
Found at i:21550100 original size:23 final size:23
Alignment explanation
Indices: 21550016--21550116 Score: 82
Period size: 23 Copynumber: 4.4 Consensus size: 23
21550006 GCTGATGGAG
* * *
21550016 AGTAAGCTCTATTGAGCTGAAAT
1 AGTAAGCTCCAATGAGCTGAAAC
* *
21550039 GGTAAGCT-CTATCGAGCTG-AAC
1 AGTAAGCTCCAAT-GAGCTGAAAC
*
21550061 AGTAAGCT-CATACGAGCTGAAAC
1 AGTAAGCTCCA-ATGAGCTGAAAC
* *
21550084 GGTAAGCTCCAATGAGCTAAAAAC
1 AGTAAGCTCCAATGAGCT-GAAAC
21550108 AGTAAGCTC
1 AGTAAGCTC
21550117 TTACGAGCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
22 17 0.28
23 30 0.49
24 14 0.23
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.22
Consensus pattern (23 bp):
AGTAAGCTCCAATGAGCTGAAAC
Found at i:21550101 original size:45 final size:45
Alignment explanation
Indices: 21550016--21550125 Score: 125
Period size: 45 Copynumber: 2.4 Consensus size: 45
21550006 GCTGATGGAG
* * * *
21550016 AGTAAGCTCTATTGAGCTGAAATGGTAAGCTCTATCGAGCT-GAAC
1 AGTAAGCTCTA-CGAGCTGAAACGGTAAGCTCAATCGAGCTAAAAC
21550061 AGTAAGCTCATACGAGCTGAAACGGTAAGCTCCAAT-GAGCTAAAAAC
1 AGTAAGCTC-TACGAGCTGAAACGGTAAGCT-CAATCGAGCT-AAAAC
21550108 AGTAAGCTCTTACGAGCT
1 AGTAAGCTC-TACGAGCT
21550126 AATATATATC
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
45 31 0.55
46 5 0.09
47 20 0.36
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (45 bp):
AGTAAGCTCTACGAGCTGAAACGGTAAGCTCAATCGAGCTAAAAC
Found at i:21550112 original size:24 final size:24
Alignment explanation
Indices: 21550040--21550127 Score: 78
Period size: 23 Copynumber: 3.8 Consensus size: 24
21550030 AGCTGAAATG
* *
21550040 GTAAGCTCTAT-CGAGCT-GAACA
1 GTAAGCTCCATACGAGCTAAAACA
* *
21550062 GTAAGCT-CATACGAGCTGAAACG
1 GTAAGCTCCATACGAGCTAAAACA
*
21550085 GTAAGCTCCA-ATGAGCTAAAAACA
1 GTAAGCTCCATACGAGCT-AAAACA
*
21550109 GTAAGCT-CTTACGAGCTAA
1 GTAAGCTCCATACGAGCTAA
21550128 TATATATCGG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.04
22 13 0.25
23 19 0.36
24 19 0.36
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (24 bp):
GTAAGCTCCATACGAGCTAAAACA
Found at i:21555412 original size:12 final size:12
Alignment explanation
Indices: 21555395--21555419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21555385 TGACTCCATT
21555395 TCTCCATTTTCA
1 TCTCCATTTTCA
21555407 TCTCCATTTTCA
1 TCTCCATTTTCA
21555419 T
1 T
21555420 TTTGGAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.52
Consensus pattern (12 bp):
TCTCCATTTTCA
Found at i:21555415 original size:63 final size:62
Alignment explanation
Indices: 21555348--21555468 Score: 181
Period size: 63 Copynumber: 1.9 Consensus size: 62
21555338 TTTTTCAGGT
* *
21555348 CATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGA-CTCCATTTCTCCATTTTCATCTC
1 CATTTTCATTTTGGAGAAAACCACAATCATTTCCAAAT-ATCCCCATTT-TCCATTTTCATCTC
* *
21555411 CATTTTCATTTTGGAGATAACCATAATCATTTCCAAATATCCCCATTTTCCATTTTCA
1 CATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATATCCCCATTTTCCATTTTCA
21555469 CCATTTCTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
62 11 0.21
63 42 0.79
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.40
Consensus pattern (62 bp):
CATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATATCCCCATTTTCCATTTTCATCTC
Found at i:21590054 original size:116 final size:116
Alignment explanation
Indices: 21589910--21590160 Score: 273
Period size: 116 Copynumber: 2.2 Consensus size: 116
21589900 CAGCGGCTTG
* * *
21589910 AGCGGTGCTTTTCAAAAAA-TGCTGCAAAA-AA-TTT-AACACAACGCCGTCGTTTTGTATTGAG
1 AGCGGCGCTTTTTAAAAAACTGCTGCAAAAGAATTTTGAA-A-AA-GCCGTCGTTTTGTATTAAG
* * * * *
21589971 CCTTTAGTGGCTTTAGTAGTGCTTTTTTAAGAAACGCTGCTACAGGTAC-ACCT-TT
63 CCTTTAGTGGATTTAGCAGCGCTTTTGTAA-AAACGCCGCTACAGGT-CGA-CTATT
* *
21590026 AGCGGCGCTTTTTAAAAAACT-CTGCAAAAGAATTTTGAAAAATCCGTCGTTTTGTATTAAGCTT
1 AGCGGCGCTTTTTAAAAAACTGCTGCAAAAGAATTTTGAAAAAGCCGTCGTTTTGTATTAAGCCT
* * *
21590090 TTAGTGGATTTAGCGGCGCTTTTGTAAAAACGCCGCTATAGGTCGAGTATT
66 TTAGTGGATTTAGCAGCGCTTTTGTAAAAACGCCGCTACAGGTCGACTATT
*
21590141 AGCGGCGCTTTTTGAAAAAC
1 AGCGGCGCTTTTTAAAAAAC
21590161 GCCTTAAAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
114 2 0.02
115 36 0.31
116 66 0.57
117 5 0.04
118 4 0.03
119 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (116 bp):
AGCGGCGCTTTTTAAAAAACTGCTGCAAAAGAATTTTGAAAAAGCCGTCGTTTTGTATTAAGCCT
TTAGTGGATTTAGCAGCGCTTTTGTAAAAACGCCGCTACAGGTCGACTATT
Found at i:21590429 original size:15 final size:14
Alignment explanation
Indices: 21590409--21590446 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
21590399 AATATTTTAA
21590409 GGTTTATGGATTAT
1 GGTTTATGGATTAT
*
21590423 GGGTTTAGGGATTAT
1 -GGTTTATGGATTAT
21590438 GGTTTATGG
1 GGTTTATGG
21590447 TTTAAGAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.18, C:0.00, G:0.37, T:0.45
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:21590429 original size:22 final size:21
Alignment explanation
Indices: 21590404--21590452 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
21590394 TGTTAAATAT
*
21590404 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
21590426 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
21590447 TTTAAG
1 TTTAAG
21590453 AGTAGGGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:21590580 original size:36 final size:37
Alignment explanation
Indices: 21590524--21590601 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 37
21590514 ATGTTTATGA
* *
21590524 TTTATGGTTTAGGGGGTTTAGAATTTAAGATTTAATG
1 TTTATGGTTTAGAGGGTTTAGAATTTAAGATATAATG
* ** *
21590561 TTTATGGTTT-GAGGTTTTAGGGTTTATGATATAATG
1 TTTATGGTTTAGAGGGTTTAGAATTTAAGATATAATG
21590597 TTTAT
1 TTTAT
21590602 TATTTTGTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
36 25 0.71
37 10 0.29
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (37 bp):
TTTATGGTTTAGAGGGTTTAGAATTTAAGATATAATG
Found at i:21591174 original size:25 final size:25
Alignment explanation
Indices: 21591127--21591174 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21591117 ACAATTATTG
* *
21591127 ATATAAAAATATTTATATTTATTCA
1 ATATAAAAATATTTAGATGTATTCA
21591152 ATATAAAAATATATT-GATGTATT
1 ATATAAAAATAT-TTAGATGTATT
21591175 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 18 0.90
26 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATAAAAATATTTAGATGTATTCA
Found at i:21591521 original size:7 final size:7
Alignment explanation
Indices: 21591505--21591624 Score: 105
Period size: 7 Copynumber: 17.0 Consensus size: 7
21591495 AATCTTCAAA
*
21591505 AAAATGT
1 AAAATTT
21591512 AAAATTT
1 AAAATTT
21591519 AAAATTT
1 AAAATTT
21591526 AAAATTT
1 AAAATTT
21591533 AAAATTT
1 AAAATTT
*
21591540 AAAAATT
1 AAAATTT
*
21591547 AAAAATT
1 AAAATTT
*
21591554 AAAAATT
1 AAAATTT
*
21591561 AAAAATT
1 AAAATTT
*
21591568 AAAAATT
1 AAAATTT
* *
21591575 AAAAATA
1 AAAATTT
**
21591582 AAAATAA
1 AAAATTT
*
21591589 AAAACTT
1 AAAATTT
21591596 AAATATTT
1 AAA-ATTT
*
21591604 AATATTT
1 AAAATTT
*
21591611 AATATTT
1 AAAATTT
*
21591618 AATATTT
1 AAAATTT
21591625 TAGTCCATAT
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
7 97 0.95
8 5 0.05
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.37
Consensus pattern (7 bp):
AAAATTT
Found at i:21593701 original size:22 final size:22
Alignment explanation
Indices: 21593676--21593720 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
21593666 CGGGAAAGAG
21593676 AAAGAGAAGCTGCTCGAATTGC
1 AAAGAGAAGCTGCTCGAATTGC
21593698 AAAGAGAAGCTGCTCGAATTGC
1 AAAGAGAAGCTGCTCGAATTGC
21593720 A
1 A
21593721 TTACAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.18
Consensus pattern (22 bp):
AAAGAGAAGCTGCTCGAATTGC
Found at i:21596536 original size:206 final size:201
Alignment explanation
Indices: 21595773--21596975 Score: 1056
Period size: 206 Copynumber: 5.9 Consensus size: 201
21595763 GAAACTGAGA
* * * *
21595773 TGTTAATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCAGCAAATTGAAGTGTTTA
1 TGTTAATTGAGATGT-TAAATGCTGCTAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTA
* *
21595837 AATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTG-TTAAGTGCTGTAAATTGAAGTG
64 AATGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG
* * * * *
21595901 -TTAAAGTGCTGCAAATTGAAGTG-TTAAATGTTGTAAATTGAAGTGTTTAAATGCTGTAAATTG
129 TTTAAA-TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAA-TGTTTTAACGC--TAAATTG
*
21595964 AAGTGCTTAAATGT
190 -AGAG-TTAAATGT
* ** * * **
21595978 TGTAAATTGAGATGTTTTATCGCTG-TAATTGAGGTGTATAAA-TGTTGTTAATTG-AGATG-TT
1 TGTTAATTGAGATGTTAAAT-GCTGCTAATTGAAGTGT-TAAAGTGCTGCAAATTGAAG-TGTTT
* *
21596039 AAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAA
63 AAA-TGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAA
* * * * * * *
21596103 GTGTTTAAGTACTGCAAATTGAAGTATTT-AGTTGATGGAAATTGAGATGTTTGATCGCTATAAT
126 GTGTTTAAATGCTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGA-ATGTTTTAACGCTA-AAT
*
21596167 TGAGGGGTATAAATGT
188 TGA-GAGT-TAAATGT
* *
21596183 TGTTAATTGAGATGTTAAAGTGCTACAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTG-TTAA
1 TGTTAATTGAGATGTTAAA-TGCTGCTAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAA
* * * * * *
21596247 AGTGCTACAAATTGAAGTGTTTGAA-TGTTGTAAATTGAAGTGTTTAAATGTTGTAATTTGAAGT
65 A-TGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGT
* * * * * * *
21596311 GTTTAAGTACTGCAAATTGAAGTATATAATTGCTGGAAATTGAGATGTTTTAACACTACAATTGA
128 GTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGA-ATGTTTTAACGCTA-AATTGA
21596376 GGAGTATAAATGT
191 -GAGT-TAAATGT
* *
21596389 TGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTG-TTA
1 TGTTAATTGAGATGTTAAA-TGCTGCTAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTA
*
21596452 AAGTGTTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGT
64 AA-TGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGT
* * * * *
21596517 GTTTAAATGTTGTAAATTGAAGTGTTTAAGTACTACAAATTGAAGTGTAGTT---GCTGGAAATT
128 GTTTAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAA-TGT-TTTAACGCT--AAATT
** *
21596579 GAGATGTTTTATCGC
189 GAGA-GTTAAAT-GT
* * * * *
21596594 TG-TGATTGAGGTGTATAAATGTTGTTAATTG-AGATGTAAAAGTGCTGCAAATTGAAGTGTTTA
1 TGTTAATTGAGATGT-TAAATGCTGCTAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTA
* * *
21596657 AATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGTTGTAAATTGAAGTG
64 AATGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTG
* * * **
21596722 TTCAAATG-TCGTAAATTGAAGTGTTTAAGTACTGCAAATTGAA-GTGTTTAGTTGCTGGAAATT
129 TTTAAATGCT-GCAAATTGAAGTGTTTAAGTGCTGCAAATTGAATGT-TTTA-ACGCT--AAATT
* * *
21596785 GAGATGTTTTAACGC
189 GAGA-G-TTAAATGT
* * *
21596800 TG-TAATTGAGGA-GTATAAATGTTGTTAATTG-AGATGTTAAATTGCTGCAAATTGAAGTGTTT
1 TGTTAATTGA-GATGT-TAAATGCTGCTAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTT
* * * *
21596862 AAATGTTGTAAATTGAATTGTTAAAGTGCTGCAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAG
63 AAATGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAA-TGCTGTAAATTGAAG
* * *
21596926 TG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGTTGTAAATTGAA-GTTTT
127 TGTTTAAA-TGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAATGTTTT
21596976 TAAGTACTGC
Statistics
Matches: 856, Mismatches: 101, Indels: 82
0.82 0.10 0.08
Matches are distributed among these distances:
202 4 0.00
203 14 0.02
204 200 0.23
205 135 0.16
206 486 0.57
207 17 0.02
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (201 bp):
TGTTAATTGAGATGTTAAATGCTGCTAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAA
TGCTGCAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTT
TAAATGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAATGTTTTAACGCTAAATTGAGAGTT
AAATGT
Found at i:21596977 original size:23 final size:23
Alignment explanation
Indices: 21595777--21597000 Score: 910
Period size: 23 Copynumber: 53.6 Consensus size: 23
21595767 CTGAGATGTT
* * * *
21595777 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
* *
21595800 AATTG-AGATG-TTAAAGTGCAGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
21595823 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
21595846 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
*
21595869 AATTGAAGTG-TTAAGTGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
21595891 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
*
21595914 AATTGAAGTG-TTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
21595936 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* *
21595959 AATTGAAGTGCTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
21595982 AATTG-AGATGTTT-TATCGCTGT-
1 AATTGAAG-TGTTTAAAT-GCTGTA
* * * *
21596004 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
*
21596027 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
21596050 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
21596073 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* * *
21596096 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTA
* ** * *
21596119 AATTGAAGTATTTAGTTGATGGA
1 AATTGAAGTGTTTAAATGCTGTA
* *
21596142 AATTG-AGATGTTT-GATCGCTAT-
1 AATTGAAG-TGTTTAAAT-GCTGTA
* * * * *
21596164 AATTGAGGGGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
**
21596187 AATTG-AGATG-TTAAAGTGCTACA
1 AATTGAAG-TGTTTAAA-TGCTGTA
*
21596210 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
**
21596233 AATTGAAGTG-TTAAAGTGCTACA
1 AATTGAAGTGTTTAAA-TGCTGTA
* *
21596256 AATTGAAGTGTTTGAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
21596279 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* * * *
21596302 ATTTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTA
* * * *
21596325 AATTGAAGTATATAATTGCTGGA
1 AATTGAAGTGTTTAAATGCTGTA
* **
21596348 AATTG-AGATGTTTTAA--CACTA
1 AATTGAAG-TGTTTAAATGCTGTA
* * * * *
21596369 CAATTGAGGAGTATAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGTA
*
21596393 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
21596416 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* *
21596439 AATTGAAGTG-TTAAAGTGTTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
*
21596462 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
21596485 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
21596508 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* * **
21596531 AATTGAAGTGTTTAAGTACTACA
1 AATTGAAGTGTTTAAATGCTGTA
** *
21596554 AATTGAAGTG--TAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGTA
*
21596575 AATTG-AGATGTTT-TATCGCTGT-
1 AATTGAAG-TGTTTAAAT-GCTGTA
* * * * *
21596597 GATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
* *
21596620 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
21596643 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
21596666 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
* *
21596689 AATTGAAGTGTTTGAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
*
21596712 AATTGAAGTGTTCAAATG-TCGTA
1 AATTGAAGTGTTTAAATGCT-GTA
* * *
21596735 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTA
** *
21596758 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGTA
* *
21596781 AATTG-AGATGTTTTAACGCTGT-
1 AATTGAAG-TGTTTAAATGCTGTA
* * * * *
21596803 AATTGAGGAGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGTA
*
21596826 AATTG-AGATG-TTAAATTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGTA
*
21596849 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* *
21596872 AATTGAATTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
*
21596895 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
*
21596918 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGTA
*
21596941 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGTA
* * * *
21596964 AATTGAAGTTTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGTA
*
21596987 AATTGAATTGTTTA
1 AATTGAAGTGTTTA
21597001 GTTGCTGAAA
Statistics
Matches: 963, Mismatches: 178, Indels: 120
0.76 0.14 0.10
Matches are distributed among these distances:
20 2 0.00
21 15 0.02
22 158 0.16
23 732 0.76
24 56 0.06
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGTA
Found at i:21597675 original size:31 final size:31
Alignment explanation
Indices: 21597640--21597699 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
21597630 TCGCTAAAGA
* *
21597640 TCATGTTCTTTAGCGGCGTTTGTTGGGAAGG
1 TCATGTTCTTTAGCAGCGTTTGTGGGGAAGG
21597671 TCATGTTCTTTAGCAGCGTTTGTGGGGAA
1 TCATGTTCTTTAGCAGCGTTTGTGGGGAA
21597700 AGGGCCGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.15, C:0.13, G:0.33, T:0.38
Consensus pattern (31 bp):
TCATGTTCTTTAGCAGCGTTTGTGGGGAAGG
Found at i:21602248 original size:26 final size:26
Alignment explanation
Indices: 21602214--21602264 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
21602204 GTTGAATTGT
*
21602214 AAAAGTTTATTTCAACTTAAAAAATA
1 AAAAGTTTATTTAAACTTAAAAAATA
21602240 AAAAGTTTATTTAAACTTAAAAAAT
1 AAAAGTTTATTTAAACTTAAAAAAT
21602265 GAACTCCTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (26 bp):
AAAAGTTTATTTAAACTTAAAAAATA
Found at i:21604552 original size:26 final size:26
Alignment explanation
Indices: 21604523--21604630 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
21604513 TGATACAAAT
*
21604523 TGATAATGGGTTAGGTTAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21604549 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21604575 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21604601 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21604627 TGAT
1 TGAT
21604631 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21604834 original size:15 final size:15
Alignment explanation
Indices: 21604814--21604844 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
21604804 AAATTGAAGG
21604814 TAAGTTCATGGTAGT
1 TAAGTTCATGGTAGT
21604829 TAAGTTCATGGTAGT
1 TAAGTTCATGGTAGT
21604844 T
1 T
21604845 TGCTTCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (15 bp):
TAAGTTCATGGTAGT
Found at i:21606278 original size:27 final size:26
Alignment explanation
Indices: 21606240--21606294 Score: 92
Period size: 27 Copynumber: 2.1 Consensus size: 26
21606230 TGGAGGAAGC
*
21606240 GTTCTGGTGGCTCTGGCACATATATCT
1 GTTCTGGTGGCTCTGCCACA-ATATCT
21606267 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
21606293 GT
1 GT
21606295 ATCTAGTGAC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:21608117 original size:50 final size:49
Alignment explanation
Indices: 21607993--21608169 Score: 174
Period size: 47 Copynumber: 3.7 Consensus size: 49
21607983 TTGGGTATAA
*
21607993 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAG
* * * * *
21608042 T--CGATATCATGTCCCAAACATGGTCTTACACTGGCT-TTCCCGTATC-CG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACACTGGCTCAT-CC--ATCAAG
*
21608090 TGCCAATGTCATGTCCCAGACATGGTCTTACACTGGCTC-T-TAT-AATG
1 TGCCAATGTCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-G
*
21608137 TGGCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GCCAATGTCATGTCCCAGACATGGTCTTACACT
21608170 AGCACATAAA
Statistics
Matches: 107, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
46 13 0.12
47 49 0.46
48 8 0.07
49 4 0.04
50 33 0.31
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (49 bp):
TGCCAATGTCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAG
Found at i:21608160 original size:97 final size:96
Alignment explanation
Indices: 21607993--21608169 Score: 245
Period size: 97 Copynumber: 1.8 Consensus size: 96
21607983 TTGGGTATAA
*
21607993 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATATCATGTCCCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATAGCATGTCCCA
21608058 AACATGGTCTTACACTGGCTTTCCCGTATCCG
66 AACAT-GTCTTACACTGGCTTTCCCGTATCCG
* *
21608090 TGCCAATGTCATGTCCCAGACATGGTCTTACACTGGCTC-T-TAT-AATGTGGCCGAT-GCATGT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT---CGATAGCATGT
*
21608151 CCCAGACATGTCTTACACT
62 CCCAAACATGTCTTACACT
21608170 AGCACATAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 9
0.85 0.05 0.11
Matches are distributed among these distances:
94 2 0.03
95 4 0.06
96 11 0.15
97 51 0.71
98 4 0.06
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.29
Consensus pattern (96 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATAGCATGTCCCA
AACATGTCTTACACTGGCTTTCCCGTATCCG
Found at i:21608809 original size:110 final size:110
Alignment explanation
Indices: 21608613--21608829 Score: 407
Period size: 110 Copynumber: 2.0 Consensus size: 110
21608603 TCCAAAATTC
*
21608613 TCAATATTTCACATATTTATCACTTATTTTACAACTTATGCAAAATGGTCCTTTTTAGGGTTTTC
1 TCAATATTTCACATATTTATCACATATTTTACAACTTATGCAAAATGGTCCTTTTTAGGGTTTTC
*
21608678 ATGAGAAATCTTTTCACAAAAGTTGTTTATTTCATAACTATGGTT
66 ATGAGAAATCTTTTCAAAAAAGTTGTTTATTTCATAACTATGGTT
*
21608723 TCAATATTTCACATCTTTATCACATATTTTACAACTTATGCAAAATGGTCCTTTTTAGGGTTTTC
1 TCAATATTTCACATATTTATCACATATTTTACAACTTATGCAAAATGGTCCTTTTTAGGGTTTTC
21608788 ATGAGAAATCTTTTCAAAAAAGTTGTTTATTTCATAACTATG
66 ATGAGAAATCTTTTCAAAAAAGTTGTTTATTTCATAACTATG
21608830 ATTCATTTTC
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 104 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (110 bp):
TCAATATTTCACATATTTATCACATATTTTACAACTTATGCAAAATGGTCCTTTTTAGGGTTTTC
ATGAGAAATCTTTTCAAAAAAGTTGTTTATTTCATAACTATGGTT
Found at i:21615756 original size:12 final size:12
Alignment explanation
Indices: 21615739--21615763 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21615729 AATAATTTTG
21615739 AACTAAAACCTA
1 AACTAAAACCTA
21615751 AACTAAAACCTA
1 AACTAAAACCTA
21615763 A
1 A
21615764 CACAATTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.24, G:0.00, T:0.16
Consensus pattern (12 bp):
AACTAAAACCTA
Found at i:21628171 original size:26 final size:26
Alignment explanation
Indices: 21628133--21628186 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
21628123 GTACATCCAC
*
21628133 TTAATCAATCGGATCAATTTCTATCA
1 TTAATCAACCGGATCAATTTCTATCA
21628159 TTAATCAACCGGATCAATTTCTATCA
1 TTAATCAACCGGATCAATTTCTATCA
21628185 TT
1 TT
21628187 CTCTCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.39
Consensus pattern (26 bp):
TTAATCAACCGGATCAATTTCTATCA
Found at i:21630535 original size:38 final size:38
Alignment explanation
Indices: 21630479--21630678 Score: 328
Period size: 38 Copynumber: 5.3 Consensus size: 38
21630469 GGCTCAAAGG
* * * *
21630479 CCCGAATATAATACCAGCACTAGGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
21630517 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
21630555 CCCGGATATATTACCAACACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
21630593 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
21630631 CCCGGATATATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
21630669 CCCGAATATA
1 CCCGGATATA
21630679 CATAGAATAT
Statistics
Matches: 152, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 152 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Done.