Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 3 of 425
Found at i:727362 original size:3 final size:3
Alignment explanation
Indices: 727354--727378 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
727344 ATGTACAACT
727354 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
727379 GTTTCAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:730809 original size:6 final size:6
Alignment explanation
Indices: 730798--730832 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
730788 TCAATAACAT
*
730798 GAAAAA GAAAAA GAAAAA GAAAAA AAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
730833 CTCAACTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:737068 original size:13 final size:13
Alignment explanation
Indices: 737050--737075 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
737040 AATTAAATAG
737050 ATTTTATTTATTT
1 ATTTTATTTATTT
737063 ATTTTATTTATTT
1 ATTTTATTTATTT
737076 TAATATACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
ATTTTATTTATTT
Found at i:737236 original size:31 final size:30
Alignment explanation
Indices: 737201--737295 Score: 75
Period size: 31 Copynumber: 3.1 Consensus size: 30
737191 ATTATAATGT
737201 TAAATTATACTAATAATCATTCAACTATTAA
1 TAAATTATA-TAATAATCATTCAACTATTAA
** * *
737232 TAAATT-TCATTTTTAGTCATTCAACTATAAA
1 TAAATTAT-A-TAATAATCATTCAACTATTAA
* * * *
737263 AAAATTACAAAATGATCATTCAACTATTCAA
1 TAAATTATATAATAATCATTCAACTATT-AA
737294 TA
1 TA
737296 TTATCTTTTT
Statistics
Matches: 47, Mismatches: 14, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
30 14 0.30
31 33 0.70
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (30 bp):
TAAATTATATAATAATCATTCAACTATTAA
Found at i:738270 original size:19 final size:19
Alignment explanation
Indices: 738228--738271 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
738218 AGTATCCCTG
* * *
738228 AAAAGTTTAAAAATTTAAA
1 AAAAATTTAAAAAATAAAA
*
738247 TAAAATTTAAAAAATAAAA
1 AAAAATTTAAAAAATAAAA
738266 AAAAAT
1 AAAAAT
738272 CTTTTTTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAATTTAAAAAATAAAA
Found at i:741441 original size:90 final size:92
Alignment explanation
Indices: 741329--741913 Score: 361
Period size: 104 Copynumber: 5.8 Consensus size: 92
741319 AGCTAAAACA
* * ** *
741329 ACCAGTTTTAAGCTATAAACCCATAAATTTCCTCCATAATTTAATCAACAATTACCCCATTTCAT
1 ACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTTAATCAACAATAACCCCATTTCAT
741394 T-ATCCACTAGCAAAAACTAAAAG-CC
66 TAATCCACTAGCAAAAACTAAAAGACC
* * *
741419 GCCAATTTTAAGCTGTAAACCCATAAATTTCTTCCATTGTTTAACAATCAACAATCACCCCATTT
1 ACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTT---AATCAACAATAACCCCATTT
741484 CATTAATCCACTAG-AAAATACTAAAATCCAGCTAAAACC
63 CATTAATCCACTAGCAAAA-ACT-AAA---AG-----ACC
741523 ACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTTAA-CAATTACCAATAACCCCATT
1 ACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTTAATC-A--A-CAATAACCCCATT
**
741587 TCATTAATCCACTAGCAATTACTAAAATCCAGCTGAAACC
62 TCATTAATCCACTAGCAAAAACT-AAA---A---G--ACC
* * * *
741627 ATCAATTTTTAAGCTGTAAACCCACAAATTTCCTACATAGTTTAACCATCAACAATAACCCCATT
1 ACCAA-TTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTT-A--ATCAACAATAACCCCATT
* * * **
741692 TCATTAACCCATTATCAATTACTAAAATCCAGCTAAAACC
62 TCATTAATCCACTAGCAAAAACT-AAA---AG-----ACC
* * * *
741732 ACCGATTTTAAGCTGTAAACTCATAAAATTCCTCCATGGTTTAA-CAATCAATGATCACCCCATT
1 ACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTTAATCAA-CAAT-A--ACCCCATT
* **
741796 TCATTGATCCACTAGCAATTACTAAAATCCAGCAAAACTC
62 TCATTAATCCACTAGCAAAAACT-AAA---AG----AC-C
* * * *
741836 ACCAATTTTAAGCTGTAAACCCATAAAATTCCTACATAGTTTAACAATAAACAATAACCCCATTT
1 ACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTT---AATCAACAATAACCCCATTT
*
741901 CACTAATCCACTA
63 CATTAATCCACTA
741914 TCAATTACCA
Statistics
Matches: 417, Mismatches: 38, Indels: 66
0.80 0.07 0.13
Matches are distributed among these distances:
90 36 0.09
93 27 0.06
94 12 0.03
95 3 0.01
98 2 0.00
100 4 0.01
101 8 0.02
102 2 0.00
103 7 0.02
104 216 0.52
105 85 0.20
106 3 0.01
107 7 0.02
108 4 0.01
109 1 0.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.29
Consensus pattern (92 bp):
ACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTTAATCAACAATAACCCCATTTCAT
TAATCCACTAGCAAAAACTAAAAGACC
Found at i:741600 original size:104 final size:104
Alignment explanation
Indices: 741410--741972 Score: 761
Period size: 104 Copynumber: 5.4 Consensus size: 104
741400 CTAGCAAAAA
* * * *
741410 CTAAAAGCCGCCAATTTTAAGCTGTAAACCCATAAATTTCTTCCATTGTTTAACAATCAACAATC
1 CTAAAA-CCACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATAGTTTAACAATCAACAATA
* *
741475 ACCCCATTTCATTAATCCACTAGAAAATACTAAAATCCAG
65 ACCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
* * *
741515 CTAAAACCACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATTGTTTAACAATTACCAATAA
1 CTAAAACCACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATAGTTTAACAATCAACAATAA
741580 CCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
66 CCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
* * * * *
741619 CTGAAACCATCAATTTTTAAGCTGTAAACCCACAAATTTCCTACATAGTTTAACCATCAACAATA
1 CTAAAACCACCAA-TTTTAAGCTGTAAACCCATAAATTTCCTCCATAGTTTAACAATCAACAATA
* * *
741684 ACCCCATTTCATTAACCCATTATCAATTACTAAAATCCAG
65 ACCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
* * * * ** *
741724 CTAAAACCACCGATTTTAAGCTGTAAACTCATAAAATTCCTCCATGGTTTAACAATCAATGATCA
1 CTAAAACCACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATAGTTTAACAATCAACAATAA
*
741789 CCCCATTTCATTGATCCACTAGCAATTACTAAAATCCAG
66 CCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
* * *
741828 C-AAAACTCACCAATTTTAAGCTGTAAACCCATAAAATTCCTACATAGTTTAACAATAAACAATA
1 CTAAAAC-CACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATAGTTTAACAATCAACAATA
* * *
741892 ACCCCATTTCACTAATCCACTATCAATTACCAAAATCCAG
65 ACCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
* ** *
741932 CTTAAGTCATCAATTTTAAGCTGTAAACCCA-AAATTATCCT
1 CTAAAACCACCAATTTTAAGCTGTAAACCCATAAATT-TCCT
741973 AAAAAAAAGG
Statistics
Matches: 403, Mismatches: 51, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
103 9 0.02
104 294 0.73
105 100 0.25
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (104 bp):
CTAAAACCACCAATTTTAAGCTGTAAACCCATAAATTTCCTCCATAGTTTAACAATCAACAATAA
CCCCATTTCATTAATCCACTAGCAATTACTAAAATCCAG
Found at i:741794 original size:209 final size:208
Alignment explanation
Indices: 741420--741962 Score: 782
Period size: 209 Copynumber: 2.6 Consensus size: 208
741410 CTAAAAGCCG
* * * *
741420 CCAATTTTAAGCTGTAAACCCATAAATTTCTTCCATTGTTTAACAATCAACAATCACCCCATTTC
1 CCAATTTTAAGCTGTAAACCCATAAATTTCCTACATAGTTTAACAATCAACAATAACCCCATTTC
** *
741485 ATTAATCCACTAGAAAATACTAAAATCCAGCTAAAACCACCAATTTTAAGCTGTAAACCCATAAA
66 ATTAATCCACTATCAATTACTAAAATCCAGCTAAAACCACCAATTTTAAGCTGTAAACCCATAAA
* * * *
741550 TTTCCTCCATTGTTTAACAATTACCAATAACCCCATTTCATTAATCCACTAGCAATTACTAAAAT
131 ATTCCTCCATGGTTTAACAATCAACAATAACCCCATTTCATTAATCCACTAGCAATTACTAAAAT
*
741615 CCAGCTGAAAC-CA
196 CCAGC-AAAACTCA
* * *
741628 TCAATTTTTAAGCTGTAAACCCACAAATTTCCTACATAGTTTAACCATCAACAATAACCCCATTT
1 CCAA-TTTTAAGCTGTAAACCCATAAATTTCCTACATAGTTTAACAATCAACAATAACCCCATTT
* * * *
741693 CATTAACCCATTATCAATTACTAAAATCCAGCTAAAACCACCGATTTTAAGCTGTAAACTCATAA
65 CATTAATCCACTATCAATTACTAAAATCCAGCTAAAACCACCAATTTTAAGCTGTAAACCCATAA
** * *
741758 AATTCCTCCATGGTTTAACAATCAATGATCACCCCATTTCATTGATCCACTAGCAATTACTAAAA
130 AATTCCTCCATGGTTTAACAATCAACAATAACCCCATTTCATTAATCCACTAGCAATTACTAAAA
741823 TCCAGCAAAACTCA
195 TCCAGCAAAACTCA
* *
741837 CCAATTTTAAGCTGTAAACCCATAAAATTCCTACATAGTTTAACAATAAACAATAACCCCATTTC
1 CCAATTTTAAGCTGTAAACCCATAAATTTCCTACATAGTTTAACAATCAACAATAACCCCATTTC
* * * ** *
741902 ACTAATCCACTATCAATTACCAAAATCCAGCTTAAGTCATCAATTTTAAGCTGTAAACCCA
66 ATTAATCCACTATCAATTACTAAAATCCAGCTAAAACCACCAATTTTAAGCTGTAAACCCA
741963 AAATTATCCT
Statistics
Matches: 295, Mismatches: 38, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
208 115 0.39
209 180 0.61
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (208 bp):
CCAATTTTAAGCTGTAAACCCATAAATTTCCTACATAGTTTAACAATCAACAATAACCCCATTTC
ATTAATCCACTATCAATTACTAAAATCCAGCTAAAACCACCAATTTTAAGCTGTAAACCCATAAA
ATTCCTCCATGGTTTAACAATCAACAATAACCCCATTTCATTAATCCACTAGCAATTACTAAAAT
CCAGCAAAACTCA
Found at i:743151 original size:15 final size:16
Alignment explanation
Indices: 743131--743163 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
743121 TTACGCATTG
743131 TGCAATTT-TTTTTTT
1 TGCAATTTATTTTTTT
743146 TGCAATTTGATTTTTTT
1 TGCAATTT-ATTTTTTT
743163 T
1 T
743164 TGTGACCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.70
Consensus pattern (16 bp):
TGCAATTTATTTTTTT
Found at i:750135 original size:14 final size:15
Alignment explanation
Indices: 750116--750144 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
750106 GAGCTTACAG
750116 GTTTTTTT-TTCTTT
1 GTTTTTTTATTCTTT
750130 GTTTTTTTATTCTTT
1 GTTTTTTTATTCTTT
750145 CTTATGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.03, C:0.07, G:0.07, T:0.83
Consensus pattern (15 bp):
GTTTTTTTATTCTTT
Found at i:767019 original size:4 final size:4
Alignment explanation
Indices: 767010--767078 Score: 52
Period size: 4 Copynumber: 17.8 Consensus size: 4
767000 TTGCTTAGCT
* * * * *
767010 TGTA TGTA TGTA TGAA TGTA TGTG TGTA TG-- TGTA TGCA TGTA TATC
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * *
767056 TATC TGTG TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGTA TGTA TGT
767079 GTTTGTGTGT
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 2 0.04
4 50 0.96
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.48
Consensus pattern (4 bp):
TGTA
Found at i:767221 original size:42 final size:42
Alignment explanation
Indices: 767127--767229 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
767117 GCTTGCCTTG
*
767127 TATGTATT-TATGTTTGTATATATACATATGGAGGTATGCATG
1 TATGT-TTGTATGTTTGTATATATACATATGGAGGTATGCATA
** ** * *
767169 CGTGCATGTATGTTTGTATATATACATATGTATGTATGCATA
1 TATGTTTGTATGTTTGTATATATACATATGGAGGTATGCATA
*
767211 TATGTTTGTATGTGTGTAT
1 TATGTTTGTATGTTTGTAT
767230 TGGTATATGT
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.26, C:0.06, G:0.21, T:0.47
Consensus pattern (42 bp):
TATGTTTGTATGTTTGTATATATACATATGGAGGTATGCATA
Found at i:768234 original size:7 final size:7
Alignment explanation
Indices: 768224--768278 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
768214 GAATCCAAAT
768224 AGGTTTG
1 AGGTTTG
*
768231 AGGTTCG
1 AGGTTTG
*
768238 AGGTTTAA
1 AGGTTT-G
*
768246 AGTTTTG
1 AGGTTTG
768253 A-GTTT-
1 AGGTTTG
768258 AGGATTTG
1 AGG-TTTG
768266 AGGTTTG
1 AGGTTTG
768273 AGGTTT
1 AGGTTT
768279 AAGATTCGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
5 1 0.03
6 4 0.11
7 25 0.66
8 8 0.21
ACGTcount: A:0.20, C:0.02, G:0.35, T:0.44
Consensus pattern (7 bp):
AGGTTTG
Found at i:768291 original size:20 final size:20
Alignment explanation
Indices: 768249--768292 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
768239 GGTTTAAAGT
* *
768249 TTTGAGTTTAGGATTTGAGG
1 TTTGAGTTTAAGATTCGAGG
768269 TTTGAGGTTTAAGATTCGA-G
1 TTTGA-GTTTAAGATTCGAGG
768289 TTTG
1 TTTG
768293 GGATACGAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.45
Consensus pattern (20 bp):
TTTGAGTTTAAGATTCGAGG
Found at i:768303 original size:34 final size:35
Alignment explanation
Indices: 768230--768305 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 35
768220 AAATAGGTTT
* * * **
768230 GAGGTTCGAGGTTTAAAGTTTTGAGTTTAGGATTT
1 GAGGTTTGAGGTTTAAAGATTCGAGTTTAGGATAC
*
768265 GAGGTTTGAGGTTT-AAGATTCGAGTTTGGGATAC
1 GAGGTTTGAGGTTTAAAGATTCGAGTTTAGGATAC
768299 GAGGTTT
1 GAGGTTT
768306 AAAGTTTAGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
34 22 0.63
35 13 0.37
ACGTcount: A:0.22, C:0.04, G:0.34, T:0.39
Consensus pattern (35 bp):
GAGGTTTGAGGTTTAAAGATTCGAGTTTAGGATAC
Found at i:769124 original size:64 final size:62
Alignment explanation
Indices: 769006--769145 Score: 172
Period size: 64 Copynumber: 2.2 Consensus size: 62
768996 ATTTAACACA
* ** ** * **
769006 TATTGACATATATCTCAACATTTGTGTAGAATTACAACTTTTACGTATTTAAAAAAATACTTG
1 TATTGACACATATCTCAACATTCATGTAGAATTACAACTTCCACATA-TCCAAAAAATACTTG
*
769069 TATTCGACACATATCTCAACATTCATGTAGAATTACAACTTCCACATATCCAAAAAATATTTG
1 TATT-GACACATATCTCAACATTCATGTAGAATTACAACTTCCACATATCCAAAAAATACTTG
769132 TATTAGACACATAT
1 TATT-GACACATAT
769146 TAACATATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
63 29 0.44
64 37 0.56
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (62 bp):
TATTGACACATATCTCAACATTCATGTAGAATTACAACTTCCACATATCCAAAAAATACTTG
Found at i:769165 original size:137 final size:137
Alignment explanation
Indices: 768919--769366 Score: 463
Period size: 137 Copynumber: 3.2 Consensus size: 137
768909 CATATCCAAA
* * * * *
768919 AAAAATAATACTTGTATTTGACACATATCT-AACATTTATGTACAATTACAACTTCCTCATATAT
1 AAAAA-AATACTTGTATTCGACACATATCTCAACATTCATGTAGAATTACAACTTCCACATATCT
** * * *
768983 GGAAAATCCTTATATTTA-ACACATATTGACATATATCTCAACATTTGTGTAGAATTACAACTTT
65 AAAAAATACTTGTA-TTAGACACATATTGACATATATCTCAACATTTGTGTAGAATTACAACTTC
*
769047 TACGTATTT
129 CACGTATTT
*
769056 AAAAAAATACTTGTATTCGACACATATCTCAACATTCATGTAGAATTACAACTTCCACATATCCA
1 AAAAAAATACTTGTATTCGACACATATCTCAACATTCATGTAGAATTACAACTTCCACATATCTA
* * * * *
769121 AAAAATATTTGTATTAGACACATATTAACATATATCTCAACATTTGTGTGGAATTACGACATCCA
66 AAAAATACTTGTATTAGACACATATTGACATATATCTCAACATTTGTGTAGAATTACAACTTCCA
*
769186 CATATTT
131 CGTATTT
* *
769193 AAAAAAAATACTTGTATTCGATACATAT-TAACACACATTTCATCATTCGTGTAGAATTACAAAT
1 -AAAAAAATACTTGTATTCGACACATATCT--CA-ACA--T--TCA----TGTAGAATTACAACT
* * * * * * *
769257 TACACATATCTAAAAAATACTTGTATTCGACATATATCGACACATATCCCAACATTCGTGTAGAA
54 TCCACATATCTAAAAAATACTTGTATTAGACACATATTGACATATATCTCAACATTTGTGTAGAA
769322 TTACAACTTCCACGTATTT
119 TTACAACTTCCACGTATTT
* ** *
769341 -GAAAAATACTTCCATTCGCCACATAT
1 AAAAAAATACTTGTATTCGACACATAT
769367 GAATAATGTA
Statistics
Matches: 258, Mismatches: 39, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
136 26 0.10
137 92 0.36
138 26 0.10
139 2 0.01
140 3 0.01
142 1 0.00
144 3 0.01
146 21 0.08
148 84 0.33
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (137 bp):
AAAAAAATACTTGTATTCGACACATATCTCAACATTCATGTAGAATTACAACTTCCACATATCTA
AAAAATACTTGTATTAGACACATATTGACATATATCTCAACATTTGTGTAGAATTACAACTTCCA
CGTATTT
Found at i:769198 original size:73 final size:73
Alignment explanation
Indices: 769075--769366 Score: 316
Period size: 73 Copynumber: 4.0 Consensus size: 73
769065 CTTGTATTCG
* * * * *
769075 ACACATATCTCAACATTCATGTAGAATTACAACTTCCACATATCCAAAAAATATTTGTATTAGAC
1 ACACATATCTCAACATTCGTGTAGAATTACAACATCCACATATCTAAAAAATACTTGTATTCGAC
769140 ACATATTA
66 ACATATTA
* * * * *
769148 ACATATATCTCAACATTTGTGTGGAATTACGACATCCACATATTTAAAAAAAATACTTGTATTCG
1 ACACATATCTCAACATTCGTGTAGAATTACAACATCCACATATCT--AAAAAATACTTGTATTCG
*
769213 ATACATATTA
64 ACACATATTA
* * * *
769223 ACACACATTTCATCATTCGTGTAGAATTACAA-ATTACACATATCTAAAAAATACTTGTATTCGA
1 ACACATATCTCAACATTCGTGTAGAATTACAACA-TCCACATATCTAAAAAATACTTGTATTCGA
* **
769287 CATATATCG
65 CACATATTA
* * * * * ** *
769296 ACACATATCCCAACATTCGTGTAGAATTACAACTTCCACGTATTTGAAAAATACTTCCATTCGCC
1 ACACATATCTCAACATTCGTGTAGAATTACAACATCCACATATCTAAAAAATACTTGTATTCGAC
769361 ACATAT
66 ACATAT
769367 GAATAATGTA
Statistics
Matches: 178, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
73 118 0.66
74 1 0.01
75 59 0.33
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (73 bp):
ACACATATCTCAACATTCGTGTAGAATTACAACATCCACATATCTAAAAAATACTTGTATTCGAC
ACATATTA
Found at i:772504 original size:19 final size:18
Alignment explanation
Indices: 772482--772521 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
772472 AACTATGATA
772482 TAAA-TTTTAAATTGATTTT
1 TAAATTTTTAAA-T-ATTTT
772501 TAAATTTTTAAATATTTT
1 TAAATTTTTAAATATTTT
772519 TAA
1 TAA
772522 TTAAGTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 8 0.40
19 5 0.25
20 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
TAAATTTTTAAATATTTT
Found at i:777316 original size:18 final size:18
Alignment explanation
Indices: 777287--777353 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
777277 TCCTCCTCCT
* *
777287 CCTCCTCCTCTTCTTCTT
1 CCTCCTCTTCTTCTTCTA
*
777305 CTTCCTCTTCTTCTTCTA
1 CCTCCTCTTCTTCTTCTA
* *
777323 CCTCCACTTCTTCATACT-
1 CCTCCTCTTCTTC-TTCTA
*
777341 CCACCTCTTCTTC
1 CCTCCTCTTCTTC
777354 CATAGTCTCC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
18 37 0.93
19 3 0.08
ACGTcount: A:0.07, C:0.46, G:0.00, T:0.46
Consensus pattern (18 bp):
CCTCCTCTTCTTCTTCTA
Found at i:777332 original size:15 final size:15
Alignment explanation
Indices: 777299--777351 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
777289 TCCTCCTCTT
* **
777299 CTTCTTCTTCCTCTT
1 CTTCTTCTACCTCCA
777314 CTTCTTCTACCTCCA
1 CTTCTTCTACCTCCA
777329 CTTCTTCATA-CTCCA
1 CTTCTTC-TACCTCCA
*
777344 CCTCTTCT
1 CTTCTTCT
777352 TCCATAGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 1 0.03
15 30 0.91
16 2 0.06
ACGTcount: A:0.09, C:0.43, G:0.00, T:0.47
Consensus pattern (15 bp):
CTTCTTCTACCTCCA
Found at i:786140 original size:15 final size:14
Alignment explanation
Indices: 786088--786154 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
786078 GTTTCCAGGT
* *
786088 AAAATGTTTTGTGG
1 AAAATGATTTCTGG
786102 AAAATGATTTCTGG
1 AAAATGATTTCTGG
* *
786116 AAAATAATTTCTTGA
1 AAAATGATTTC-TGG
786131 AAAATGATTTCTGG
1 AAAATGATTTCTGG
786145 AAAATGATTT
1 AAAATGATTT
786155 ACTTTTCTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:792716 original size:100 final size:100
Alignment explanation
Indices: 792551--792993 Score: 510
Period size: 100 Copynumber: 4.4 Consensus size: 100
792541 GGAAGTAATT
* * * * * *
792551 ATCCCATATCACCGCCGTCACACGATATCTCTTGAGGCAAGGATCAAATGATCAAATTAAGACTA
1 ATCCCATATCAACGCCATCACACAATTTCTCTCGAGGCAAGGATCAAATGAGCAAATTAAGACTA
* *
792616 CGTATTACATAACCATGATTCATACACAAGTAAAA
66 CATATTACATAACCATGATTCATATACAAGTAAAA
* * * ** ** *
792651 AGCCCTTATCAAGGCTGTCACACAATTTCTCTCGAGGCAAGGATTGAGTGAGCAAATTAAGACTA
1 ATCCCATATCAACGCCATCACACAATTTCTCTCGAGGCAAGGATCAAATGAGCAAATTAAGACTA
* * *
792716 CATATTACATAACCGTGATTCATTTACAAGTAAAT
66 CATATTACATAACCATGATTCATATACAAGTAAAA
* * ** * * *
792751 ATCCCATATCATCGCCATCACACAATTGCTCTTAAGGCGAGGATCAAATGATCAAATCAAGACTA
1 ATCCCATATCAACGCCATCACACAATTTCTCTCGAGGCAAGGATCAAATGAGCAAATTAAGACTA
* *
792816 CATAGTACATAACCATGATTCATATACAAGTAATA
66 CATATTACATAACCATGATTCATATACAAGTAAAA
* * *
792851 ATCCCATATC-ACTGCCATCACACGATTTCTCTCGTGGCAAGTATCAAATGAGCAAATTAAGACT
1 ATCCCATATCAAC-GCCATCACACAATTTCTCTCGAGGCAAGGATCAAATGAGCAAATTAAGACT
* * *
792915 ACATATTACATAACCATTATTCATATGCAAGTAAAT
65 ACATATTACATAACCATGATTCATATACAAGTAAAA
* * * * * *
792951 ATCCCGTATCATCGCCACCACACGATTTCTCTCAAAGCAAGGA
1 ATCCCATATCAACGCCATCACACAATTTCTCTCGAGGCAAGGA
792994 CCGATACAGT
Statistics
Matches: 282, Mismatches: 59, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
99 1 0.00
100 280 0.99
101 1 0.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (100 bp):
ATCCCATATCAACGCCATCACACAATTTCTCTCGAGGCAAGGATCAAATGAGCAAATTAAGACTA
CATATTACATAACCATGATTCATATACAAGTAAAA
Found at i:792905 original size:200 final size:199
Alignment explanation
Indices: 792543--792993 Score: 596
Period size: 200 Copynumber: 2.3 Consensus size: 199
792533 AAATATATGG
* * * *
792543 AAGTAATTATCCCATATCACCGCCGTCACACGATATCTCTTGAGGCAAGGATCAAATGATCAAAT
1 AAGTAAATATCCCATATCATCGCCATCACACGAT-TCTCTTAAGGCAAGGATCAAATGATCAAAT
* * * * **
792608 TAAGACTACGTATTACATAACCATGATTCATACACAAGTAAAAAGCCCTTATCAAGGCTGTCACA
65 CAAGACTACATAGTACATAACCATGATTCATACACAAGTAAAAAGCCCATATCAAGGCCATCACA
** * *
792673 CAATTTCTCTCGAGGCAAGGATTGAGTGAGCAAATTAAGACTACATATTACATAACCGTGATTCA
130 CAATTTCTCTCGAGGCAAGGATCAAATGAGCAAATTAAGACTACATATTACATAACCATGATTCA
*
792738 TTTAC
195 TATAC
* *
792743 AAGTAAATATCCCATATCATCGCCATCACACAATTGCTCTTAAGGCGAGGATCAAATGATCAAAT
1 AAGTAAATATCCCATATCATCGCCATCACACGATT-CTCTTAAGGCAAGGATCAAATGATCAAAT
* * * **
792808 CAAGACTACATAGTACATAACCATGATTCATATACAAGTAATAATCCCATATCACTGCCATCACA
65 CAAGACTACATAGTACATAACCATGATTCATACACAAGTAAAAAGCCCATATCAAGGCCATCACA
* * * *
792873 CGATTTCTCTCGTGGCAAGTATCAAATGAGCAAATTAAGACTACATATTACATAACCATTATTCA
130 CAATTTCTCTCGAGGCAAGGATCAAATGAGCAAATTAAGACTACATATTACATAACCATGATTCA
*
792938 TATGC
195 TATAC
* * * *
792943 AAGTAAATATCCCGTATCATCGCCACCACACGATTTCTCTCAAAGCAAGGA
1 AAGTAAATATCCCATATCATCGCCATCACACGA-TTCTCTTAAGGCAAGGA
792994 CCGATACAGT
Statistics
Matches: 216, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
199 1 0.00
200 213 0.99
201 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (199 bp):
AAGTAAATATCCCATATCATCGCCATCACACGATTCTCTTAAGGCAAGGATCAAATGATCAAATC
AAGACTACATAGTACATAACCATGATTCATACACAAGTAAAAAGCCCATATCAAGGCCATCACAC
AATTTCTCTCGAGGCAAGGATCAAATGAGCAAATTAAGACTACATATTACATAACCATGATTCAT
ATAC
Found at i:793863 original size:25 final size:25
Alignment explanation
Indices: 793829--793880 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
793819 ATATTACGAG
*
793829 TTAGATTTTTAGAATCAAAGCTAAT
1 TTAGATTTTTAGAATCAAAACTAAT
793854 TTAGATTTTTAGAATCAAAACTAAT
1 TTAGATTTTTAGAATCAAAACTAAT
793879 TT
1 TT
793881 GACACAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (25 bp):
TTAGATTTTTAGAATCAAAACTAAT
Found at i:801443 original size:43 final size:43
Alignment explanation
Indices: 801390--801480 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 43
801380 TTAAGCTAAC
* * * *
801390 TTCTATGATTATAAAAATGGGTAATTAAAAGCCAAATTTCAGA
1 TTCTTTGATTATAAAAATGGATAATTAAAAGCAAAAATTCAGA
*
801433 TTCTTTGATTATTAAAATGGATAATTAAAAGCAAAAATTCAGA
1 TTCTTTGATTATAAAAATGGATAATTAAAAGCAAAAATTCAGA
801476 TTCTT
1 TTCTT
801481 GTAAATTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (43 bp):
TTCTTTGATTATAAAAATGGATAATTAAAAGCAAAAATTCAGA
Found at i:802288 original size:43 final size:43
Alignment explanation
Indices: 802222--802307 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
802212 TACAAATACG
*
802222 TAAGGCAACCAATTTGATGTCTTTTCCAACTTAATACCCAACC
1 TAAGACAACCAATTTGATGTCTTTTCCAACTTAATACCCAACC
**
802265 TAAGACAACCAATTTGATGTCTTTTCCAACTTTCTACCCAACC
1 TAAGACAACCAATTTGATGTCTTTTCCAACTTAATACCCAACC
802308 CATTCCTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.31
Consensus pattern (43 bp):
TAAGACAACCAATTTGATGTCTTTTCCAACTTAATACCCAACC
Found at i:802410 original size:45 final size:45
Alignment explanation
Indices: 802359--802480 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 45
802349 CCATGTGGAC
*
802359 CAATTTGATCAAGTTCAAAACATCTATGATGGAAACAAGAGTTTT
1 CAATTTGATCAAGTTCAAAACATCCATGATGGAAACAAGAGTTTT
* *
802404 CAATTTGATCAA-ATCCAAACATCCATG-TGG--AC---------
1 CAATTTGATCAAGTTCAAAACATCCATGATGGAAACAAGAGTTTT
802436 CAATTTGATCAAGTTCAAAACATCCATGATGGAAACAAGAGTTTT
1 CAATTTGATCAAGTTCAAAACATCCATGATGGAAACAAGAGTTTT
802481 GCAAGAATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 26
0.66 0.06 0.29
Matches are distributed among these distances:
32 12 0.20
33 13 0.22
34 3 0.05
36 2 0.03
41 2 0.03
43 3 0.05
44 12 0.20
45 12 0.20
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (45 bp):
CAATTTGATCAAGTTCAAAACATCCATGATGGAAACAAGAGTTTT
Found at i:802454 original size:77 final size:77
Alignment explanation
Indices: 802327--802480 Score: 299
Period size: 77 Copynumber: 2.0 Consensus size: 77
802317 TTAAACCAAC
*
802327 CAATTTGATCAAATCCAAACATCCATGTGGACCAATTTGATCAAGTTCAAAACATCTATGATGGA
1 CAATTTGATCAAATCCAAACATCCATGTGGACCAATTTGATCAAGTTCAAAACATCCATGATGGA
802392 AACAAGAGTTTT
66 AACAAGAGTTTT
802404 CAATTTGATCAAATCCAAACATCCATGTGGACCAATTTGATCAAGTTCAAAACATCCATGATGGA
1 CAATTTGATCAAATCCAAACATCCATGTGGACCAATTTGATCAAGTTCAAAACATCCATGATGGA
802469 AACAAGAGTTTT
66 AACAAGAGTTTT
802481 GCAAGAATCA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (77 bp):
CAATTTGATCAAATCCAAACATCCATGTGGACCAATTTGATCAAGTTCAAAACATCCATGATGGA
AACAAGAGTTTT
Found at i:807689 original size:22 final size:24
Alignment explanation
Indices: 807648--807693 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
807638 ATAAATTATA
*
807648 TTTATTAAATAAAATTAACAATTT
1 TTTATTAAATAAAATGAACAATTT
807672 TTTATT-AA-AAAATGAACAATTT
1 TTTATTAAATAAAATGAACAATTT
807694 GTAAATAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
23 2 0.10
24 6 0.29
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTATTAAATAAAATGAACAATTT
Found at i:812985 original size:21 final size:21
Alignment explanation
Indices: 812961--813000 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
812951 TTTAATAGAT
*
812961 TAAAATTAAA-AAATATTAAAA
1 TAAAATAAAATAAAT-TTAAAA
812982 TAAAATAAAATAAATTTAA
1 TAAAATAAAATAAATTTAA
813001 TTCTTTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAATAAAATAAATTTAAAA
Found at i:819356 original size:17 final size:17
Alignment explanation
Indices: 819324--819358 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
819314 TATATAGTAT
**
819324 ATATATTTATGTAAAAA
1 ATATATTTATAAAAAAA
819341 ATATATTTATAAAAAAA
1 ATATATTTATAAAAAAA
819358 A
1 A
819359 GTTGATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
ATATATTTATAAAAAAA
Found at i:823249 original size:1 final size:1
Alignment explanation
Indices: 823243--823273 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
823233 TTTAAACCAT
823243 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
823274 CTACTCCATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:824128 original size:19 final size:18
Alignment explanation
Indices: 824078--824133 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
824068 TTTTTGAATT
824078 TTTTATAATTATTTTTAAA
1 TTTTA-AATTATTTTTAAA
* *
824097 -TTTGATTTAATTTTATAAA
1 TTTTAAATT-ATTTT-TAAA
824116 TTTTAAATTATTTATTAA
1 TTTTAAATTATTT-TTAA
824134 TGTAACATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
17 3 0.10
18 8 0.28
19 11 0.38
20 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTAAATTATTTTTAAA
Found at i:825504 original size:6 final size:6
Alignment explanation
Indices: 825495--825524 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
825485 CCCAAAAATT
*
825495 AAAAAA AAAAAG AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
825525 CTTTTGTTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:828018 original size:24 final size:23
Alignment explanation
Indices: 827987--828069 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 23
827977 TTAAGCCCCC
827987 CAAAAAAACCTAACCCAAAAAAAAA
1 CAAAAAAACCTAA--CAAAAAAAAA
** *
828012 -AAAAAAA-AGAAAAAAGAAAAAA
1 CAAAAAAACCTAACAAA-AAAAAA
*
828034 GAAAAAAACCTAACAAAAAAAAA
1 CAAAAAAACCTAACAAAAAAAAA
828057 CTAAAAAAACCTA
1 C-AAAAAAACCTA
828070 GCCACCTAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
21 3 0.06
22 6 0.13
23 15 0.32
24 23 0.49
ACGTcount: A:0.77, C:0.14, G:0.04, T:0.05
Consensus pattern (23 bp):
CAAAAAAACCTAACAAAAAAAAA
Found at i:828024 original size:14 final size:14
Alignment explanation
Indices: 828003--828041 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
827993 AACCTAACCC
828003 AAAA-AAAAAAAAA
1 AAAAGAAAAAAAAA
*
828016 AAAAGAAAAAAGAA
1 AAAAGAAAAAAAAA
828030 AAAAGAAAAAAA
1 AAAAGAAAAAAA
828042 CCTAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (14 bp):
AAAAGAAAAAAAAA
Found at i:828056 original size:1 final size:1
Alignment explanation
Indices: 828003--828041 Score: 51
Period size: 1 Copynumber: 39.0 Consensus size: 1
827993 AACCTAACCC
* * *
828003 AAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
828042 CCTAACAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (1 bp):
A
Found at i:828112 original size:12 final size:12
Alignment explanation
Indices: 828095--828136 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
828085 TCCCACTTGC
828095 CCCATTTTTCCT
1 CCCATTTTTCCT
828107 CCCATTTTTCCT
1 CCCATTTTTCCT
828119 CCCATTTTTCCT
1 CCCATTTTTCCT
828131 CCCATT
1 CCCATT
828137 GTCTACCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.10, C:0.43, G:0.00, T:0.48
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:828590 original size:29 final size:29
Alignment explanation
Indices: 828534--828590 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
828524 TCTCTTCTTT
* *
828534 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
828563 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
828591 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:828851 original size:11 final size:11
Alignment explanation
Indices: 828833--828862 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
828823 GTGTATATTG
828833 TATATATTATA
1 TATATATTATA
*
828844 TTTATATTATA
1 TATATATTATA
828855 TATATATT
1 TATATATT
828863 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:844542 original size:13 final size:13
Alignment explanation
Indices: 844534--844558 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
844524 TAAAAAAAAG
844534 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
844547 AAAAGAAAAAGA
1 AAAAGAAAAAGA
844559 GAGAGGGATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:845737 original size:71 final size:71
Alignment explanation
Indices: 845534--845744 Score: 282
Period size: 72 Copynumber: 3.0 Consensus size: 71
845524 CCTTTAATTT
* *
845534 TTGTT-TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAT
1 TTGTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTAT
*
845598 TTTCAA
66 TTTTAA
* * ** * ** *
845604 TTTTTGTGTTTTAATTTCAACTCATATTGCGA-CAGATGAGTTGAGCCTCAAGACACGTTGAGGT
1 TTGTTGT-TTTCAAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGACACGCTGAGGT
845668 ATTTTTAA
64 ATTTTTAA
*
845676 TTGTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
1 TTGTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTAT
845741 TTTT
66 TTTT
845745 TAGTTTTAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
70 4 0.03
71 53 0.45
72 60 0.51
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (71 bp):
TTGTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTAT
TTTTAA
Found at i:845834 original size:188 final size:195
Alignment explanation
Indices: 845597--846039 Score: 528
Period size: 188 Copynumber: 2.3 Consensus size: 195
845587 CGCTGAGGTA
** * *
845597 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGACAGATGAGTTGAGCCTCAAGACACG
1 TTTT-AATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
* * *
845661 TTGAGGTATTTTTAATTGTTGT-TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCG
64 CTGAGGTATTTTCAATTGTTGTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
* * **
845725 GGGCACGCTGAGGT-AT-T-TTT-TAGTTT-T-A-AATTGACTCATATTGCGAGAGGTGAGTT-A
129 GGACACGATGAGGTAATCTATTTCT-GTTTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
845782 AGCC
193 A-CC
* ** *
845786 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCT
* * ** *
845851 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
66 GAGGTATTTTCAATTGTTGTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
*
845916 ACACGATGAGGTAATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
131 ACACGATGAGGTAATCT--ATTTCTGTTTGT-AAGAATCAACTCATATTGCGAGAGGTGAGTTGA
845981 ACC
193 ACC
** *
845984 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
1 TTTTAATTT-TTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
846040 GGGTCACATG
Statistics
Matches: 215, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
187 4 0.02
188 65 0.30
189 53 0.25
190 2 0.01
191 1 0.00
194 7 0.03
195 2 0.01
197 1 0.00
198 36 0.17
199 44 0.20
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (195 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCT
GAGGTATTTTCAATTGTTGTGTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGG
ACACGATGAGGTAATCTATTTCTGTTTGTAAGAATCAACTCATATTGCGAGAGGTGAGTTGAACC
Found at i:845907 original size:72 final size:71
Alignment explanation
Indices: 845786--845980 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 71
845776 GAGTTAAGCC
* * * *
845786 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
845850 TGAGGTA
65 TGAGGTA
**
845857 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
845922 TGAGGTA
65 TGAGGTA
* * * * *
845929 ATCTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
845981 ACCTTTTAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 6 0.06
72 70 0.65
73 31 0.29
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
GAGGTA
Found at i:845928 original size:260 final size:262
Alignment explanation
Indices: 845426--845980 Score: 972
Period size: 260 Copynumber: 2.1 Consensus size: 262
845416 CTTTTCAAGG
845426 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTTTT
845491 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCCTTTAATTTTTGTTTTTTCAAAATCAACTCA
66 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCCTTTAATTTTTGTTTTTTCAAAATCAACTCA
845556 TATTGCTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTT
131 TATTGCTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTT
* * * *
845621 CAACTCATATTGCGACAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGT-TGTTT
196 CAACTCATATTGCGACAGATGAGTTGAGCCTCAAGACACGATGAGGTAATCTCAATT-TCTGTTT
845685 -TC
260 GTC
*
845687 AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTTTT
*
845752 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTG-TTTTTCAAAATCAACTCA
66 AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCCTTTAATTTTTGTTTTTTCAAAATCAACTCA
*
845816 TATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTT
131 TATTGCTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTT
* * *
845881 CAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATCTCAATTTCTGTTTG
196 CAACTCATATTGCGACAGATGAGTTGAGCCTCAAGACACGATGAGGTAATCTCAATTTCTGTTTG
845946 TC
261 TC
*
845948 AAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AA-AATCAACTCATATTGCGAGAGGTGAGTTGA
845981 ACCTTTTAAT
Statistics
Matches: 279, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
259 1 0.00
260 137 0.49
261 113 0.41
262 28 0.10
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.36
Consensus pattern (262 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTTAGTTTT
AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCCTTTAATTTTTGTTTTTTCAAAATCAACTCA
TATTGCTAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTTTGTGTTTTAATTT
CAACTCATATTGCGACAGATGAGTTGAGCCTCAAGACACGATGAGGTAATCTCAATTTCTGTTTG
TC
Found at i:846077 original size:14 final size:13
Alignment explanation
Indices: 846058--846093 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
846048 TGTCGAGGTA
846058 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
846071 TTTTTCAAATTCTG
1 -TTTTCAAAATCTG
846085 TTTTCAAAA
1 TTTTCAAAA
846094 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.50
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:846152 original size:88 final size:86
Alignment explanation
Indices: 845998--846166 Score: 232
Period size: 88 Copynumber: 1.9 Consensus size: 86
845988 AATTTCTACT
* * * *
845998 TTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTTC
1 TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTC
846063 AAAATCTGTTTTTCAAATTCTG
66 AAAATCTG-TTTTCAAATTCTG
* *
846085 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTG-CTGAGCTATTT
1 TTTTC-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTC-GAGCTATTT
**
846149 TCAATTTCTGTTTTCAAA
64 TCAAAATCTGTTTTCAAA
846167 AAATTTCAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
87 14 0.19
88 58 0.81
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (86 bp):
TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGCTCACATGTCGAGCTATTTTC
AAAATCTGTTTTCAAATTCTG
Found at i:846219 original size:30 final size:30
Alignment explanation
Indices: 846183--846244 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
846173 CAACTCATAT
846183 TGCGAGAGATGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGATGAGTTGAGTC-TTTTAATTTC
*
846213 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGATGAGTTGAGTCTTTTAATTTC
846243 TG
1 TG
846245 TTCTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.21, C:0.10, G:0.27, T:0.42
Consensus pattern (30 bp):
TGCGAGAGATGAGTTGAGTCTTTTAATTTC
Found at i:847097 original size:24 final size:23
Alignment explanation
Indices: 847066--847147 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 23
847056 TTAAGCCCCC
847066 CAAAAAAACCTAACCCAAAAAAAAA
1 CAAAAAAACCTAA--CAAAAAAAAA
* *
847091 -AAAAAAA--AAAAAAAGAAAAAA
1 CAAAAAAACCTAACAAA-AAAAAA
*
847112 GAAAAAAACCTAACAAAAAAAAA
1 CAAAAAAACCTAACAAAAAAAAA
847135 CTAAAAAAACCTA
1 C-AAAAAAACCTA
847148 GCCACCTAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.06
21 6 0.13
22 9 0.19
23 6 0.13
24 23 0.49
ACGTcount: A:0.78, C:0.15, G:0.02, T:0.05
Consensus pattern (23 bp):
CAAAAAAACCTAACAAAAAAAAA
Found at i:847130 original size:14 final size:13
Alignment explanation
Indices: 847082--847143 Score: 54
Period size: 15 Copynumber: 4.5 Consensus size: 13
847072 AACCTAACCC
*
847082 AAAAAAAAAAA-A
1 AAAAAAAAAAACT
**
847094 AAAAAAAAAAAGAA
1 AAAAAAAAAAA-CT
847108 AAAAGAAAAAAACCT
1 AAAA-AAAAAAA-CT
847123 AACAAAAAAAAACT
1 AA-AAAAAAAAACT
847137 AAAAAAA
1 AAAAAAA
847144 CCTAGCCACC
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 11 0.26
13 5 0.12
14 9 0.21
15 16 0.37
16 2 0.05
ACGTcount: A:0.87, C:0.06, G:0.03, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAACT
Found at i:847134 original size:1 final size:1
Alignment explanation
Indices: 847082--847119 Score: 58
Period size: 1 Copynumber: 38.0 Consensus size: 1
847072 AACCTAACCC
* *
847082 AAAAAAAAAAAAAAAAAAAAAAAGAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
847120 CCTAACAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.95, C:0.00, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:847190 original size:12 final size:12
Alignment explanation
Indices: 847173--847214 Score: 84
Period size: 12 Copynumber: 3.5 Consensus size: 12
847163 TCCCACTTGC
847173 CCCATTTTTCCT
1 CCCATTTTTCCT
847185 CCCATTTTTCCT
1 CCCATTTTTCCT
847197 CCCATTTTTCCT
1 CCCATTTTTCCT
847209 CCCATT
1 CCCATT
847215 GTCTACCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.10, C:0.43, G:0.00, T:0.48
Consensus pattern (12 bp):
CCCATTTTTCCT
Found at i:847669 original size:29 final size:29
Alignment explanation
Indices: 847613--847669 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
847603 TCTCTTCTTT
* *
847613 TTTCATTTATTTTTCGTATTTACCTTAGA
1 TTTCATTTATTTTGCGTATTTAACTTAGA
*
847642 TTTCATATTATTTTGC-TATTTAATTTAG
1 TTTCAT-TTATTTTGCGTATTTAACTTAG
847670 CTTTAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.60
Consensus pattern (29 bp):
TTTCATTTATTTTGCGTATTTAACTTAGA
Found at i:847930 original size:11 final size:11
Alignment explanation
Indices: 847912--847941 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
847902 GTGTATATTG
847912 TATATATTATA
1 TATATATTATA
*
847923 TTTATATTATA
1 TATATATTATA
847934 TATATATT
1 TATATATT
847942 CTTAATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATATTATA
Found at i:853332 original size:22 final size:22
Alignment explanation
Indices: 853304--853368 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
853294 AATTTAAATT
853304 TTATATTTATCAAATAATTTAA
1 TTATATTTATCAAATAATTTAA
*
853326 TTATATTTCAT-AATTAATTTTAA
1 TTATATTT-ATCAAATAA-TTTAA
* *
853349 GTA-ATATATCAAATATATTT
1 TTATATTTATCAAATA-ATTT
853369 TTTAACTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 2 0.06
22 23 0.66
23 10 0.29
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (22 bp):
TTATATTTATCAAATAATTTAA
Found at i:856331 original size:2 final size:2
Alignment explanation
Indices: 856324--856349 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
856314 TCTTTGAGCA
856324 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
856350 CTTTGCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:856535 original size:2 final size:2
Alignment explanation
Indices: 856528--856557 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
856518 CTCTATACTT
856528 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
856558 AGTTTTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:858937 original size:16 final size:16
Alignment explanation
Indices: 858916--858948 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
858906 TTGGACTGAA
*
858916 TTTTTTAAT-AATTTT
1 TTTTTTTATGAATTTT
858931 TTTTTTTATGAATTTT
1 TTTTTTTATGAATTTT
858947 TT
1 TT
858949 AATGAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTTTATGAATTTT
Found at i:860540 original size:3 final size:3
Alignment explanation
Indices: 860532--860578 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
860522 ATCCCTTGCT
860532 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
860579 TATAACTATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:864341 original size:21 final size:24
Alignment explanation
Indices: 864315--864358 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
864305 AATTTCAAAA
864315 TAAATAT-AAA-TAA-AAAAATTT
1 TAAATATCAAATTAAGAAAAATTT
864336 TAAATATCAAATTAAGAAAAATT
1 TAAATATCAAATTAAGAAAAATT
864359 GACAAGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 3 0.15
24 7 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
TAAATATCAAATTAAGAAAAATTT
Found at i:864584 original size:15 final size:13
Alignment explanation
Indices: 864554--864588 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
864544 TTAACATTAA
864554 TTTTATTATAAAT
1 TTTTATTATAAAT
*
864567 TTTTATTATATAT
1 TTTTATTATAAAT
864580 TTTT-TTATA
1 TTTTATTATA
864589 TAGCGTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTATAAAT
Found at i:867128 original size:21 final size:21
Alignment explanation
Indices: 867103--867142 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
867093 ATTTTTAATT
867103 TAAATATT-TAAAACACGTGGA
1 TAAAT-TTGTAAAACACGTGGA
867124 TAAATTTGTAAAACACGTG
1 TAAATTTGTAAAACACGTG
867143 TTTATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (21 bp):
TAAATTTGTAAAACACGTGGA
Found at i:870006 original size:7 final size:7
Alignment explanation
Indices: 869996--870044 Score: 98
Period size: 7 Copynumber: 7.0 Consensus size: 7
869986 TTTATTGTTT
869996 ATAAATA
1 ATAAATA
870003 ATAAATA
1 ATAAATA
870010 ATAAATA
1 ATAAATA
870017 ATAAATA
1 ATAAATA
870024 ATAAATA
1 ATAAATA
870031 ATAAATA
1 ATAAATA
870038 ATAAATA
1 ATAAATA
870045 TATTAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:870074 original size:15 final size:16
Alignment explanation
Indices: 869997--870074 Score: 62
Period size: 14 Copynumber: 5.3 Consensus size: 16
869987 TTATTGTTTA
*
869997 TAAATA-ATAAATAA-
1 TAAATATATTAATAAT
*
870011 TAAATA-ATAAATAA-
1 TAAATATATTAATAAT
*
870025 TAAATA-ATAAATAA-
1 TAAATATATTAATAAT
*
870039 TAAATATATTAATATT
1 TAAATATATTAATAAT
*
870055 TAAATAT-TTTATAAT
1 TAAATATATTAATAAT
870070 TAAAT
1 TAAAT
870075 TTAAAAATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
14 34 0.59
15 17 0.29
16 7 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAATATATTAATAAT
Found at i:875476 original size:13 final size:13
Alignment explanation
Indices: 875458--875482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
875448 ATGAAATGTG
875458 ATTTCAATTTTAA
1 ATTTCAATTTTAA
875471 ATTTCAATTTTA
1 ATTTCAATTTTA
875483 TAGGGATTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTCAATTTTAA
Found at i:875607 original size:19 final size:19
Alignment explanation
Indices: 875570--875607 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
875560 AGGACTCACT
875570 AAGCTCACTGTAAGTTTTTA
1 AAGCTCACTGT-AGTTTTTA
875590 AAGCTCACTTGT-GTTTTT
1 AAGCTCAC-TGTAGTTTTT
875608 TTTTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 8 0.47
21 3 0.18
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (19 bp):
AAGCTCACTGTAGTTTTTA
Found at i:876174 original size:150 final size:149
Alignment explanation
Indices: 875901--876411 Score: 552
Period size: 150 Copynumber: 3.5 Consensus size: 149
875891 AACACTCTTG
*
875901 GTATGAATTCGTAATCTTAAATGATCGTGTTTCAAAAGTTAACTTAGTTTGCATTTTGTGTTT-G
1 GTATGAATTCGTAATCTTAAATGATCGTGTTTCGAAAGTTAACTTAGTTTGCA--TTGTGTTTCG
* * *
875965 AAATTGAAGTTTGAGATCAAAGTTGTTAAGAATATGGTCTGTATATTTGGGAGCCGAGTGTTGGG
64 AAATCGAAGTTTGATATCAAAGTTGTTAAGAATAAGGTCTGTATATTTGGGAGCCGAGTGTTGGG
*
876030 ATGGTAAGTACTTCCCGATTA
129 ATGGGAAGTACTTCCCGATTA
** ** *
876051 GTATGAATTCGTAATCTTAAACCATCACGATTCGAAAGTTAACTTAGTTTGCATTGTGTTTCGAA
1 GTATGAATTCGTAATCTTAAATGATCGTGTTTCGAAAGTTAACTTAGTTTGCATTGTGTTTCGAA
* * * **
876116 ATCGAATTTTGATATCAAAGTTGTTAAGAATACAGTTCTGTTTATTTGGGAGTGGAGTGTTGGGA
66 ATCGAAGTTTGATATCAAAGTTGTTAAGAATA-AGGTCTGTATATTTGGGAGCCGAGTGTTGGGA
* *
876181 TGGGAAGTACTTCCTGATTG
130 TGGGAAGTACTTCCCGATTA
* * * *
876201 GTATGAATTTGTAATCATAAATGATCGTGTTTCGAATGTTAAC-TAGGTTTGCATTTTGTGTTCG
1 GTATGAATTCGTAATCTTAAATGATCGTGTTTCGAAAGTTAACTTA-GTTTGCATTGTGT-TTCG
** **
876265 AAATCGAAGTTTGAGT-TTGAAGTTGTTAAG----A-------ATA-TTGGGAGTGGAGTGTTGG
64 AAATCGAAGTTTGA-TATCAAAGTTGTTAAGAATAAGGTCTGTATATTTGGGAGCCGAGTGTTGG
* *
876317 AATGGGAAGTACTTCCCGATTG
128 GATGGGAAGTACTTCCCGATTA
* * *
876339 GTATGAATTCGTAATCATAAATGATCGTGTTTC-AGATGTTAACTTGGTTTGCATTTTGTGTTT-
1 GTATGAATTCGTAATCTTAAATGATCGTGTTTCGA-AAGTTAACTTAGTTTGCA--TTGTGTTTC
876402 GAAATCGAAG
63 GAAATCGAAG
876412 ATAGAATCTG
Statistics
Matches: 317, Mismatches: 35, Indels: 30
0.83 0.09 0.08
Matches are distributed among these distances:
137 1 0.00
138 95 0.30
139 5 0.02
140 5 0.02
146 1 0.00
148 8 0.03
149 34 0.11
150 138 0.44
151 29 0.09
152 1 0.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (149 bp):
GTATGAATTCGTAATCTTAAATGATCGTGTTTCGAAAGTTAACTTAGTTTGCATTGTGTTTCGAA
ATCGAAGTTTGATATCAAAGTTGTTAAGAATAAGGTCTGTATATTTGGGAGCCGAGTGTTGGGAT
GGGAAGTACTTCCCGATTA
Found at i:876381 original size:138 final size:138
Alignment explanation
Indices: 876161--876411 Score: 441
Period size: 138 Copynumber: 1.8 Consensus size: 138
876151 TTCTGTTTAT
* * *
876161 TTGGGAGTGGAGTGTTGGGATGGGAAGTACTTCCTGATTGGTATGAATTTGTAATCATAAATGAT
1 TTGGGAGTGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGAT
876226 CGTGTTTCGAATGTTAACTAGGTTTGCATTTTGTGTTCGAAATCGAAGTTTGAGTTTGAAGTTGT
66 CGTGTTTCGAATGTTAACTAGGTTTGCATTTTGTGTTCGAAATCGAAGTTTGAGTTTGAAGTTGT
876291 TAAGAATA
131 TAAGAATA
876299 TTGGGAGTGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGAT
1 TTGGGAGTGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGAT
* *
876364 CGTGTTTC-AGATGTTAACTTGGTTTGCATTTTGTGTTTGAAATCGAAG
66 CGTGTTTCGA-ATGTTAACTAGGTTTGCATTTTGTGTTCGAAATCGAAG
876412 ATAGAATCTG
Statistics
Matches: 107, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
137 1 0.01
138 106 0.99
ACGTcount: A:0.25, C:0.08, G:0.28, T:0.38
Consensus pattern (138 bp):
TTGGGAGTGGAGTGTTGGAATGGGAAGTACTTCCCGATTGGTATGAATTCGTAATCATAAATGAT
CGTGTTTCGAATGTTAACTAGGTTTGCATTTTGTGTTCGAAATCGAAGTTTGAGTTTGAAGTTGT
TAAGAATA
Found at i:881186 original size:14 final size:14
Alignment explanation
Indices: 881135--881189 Score: 56
Period size: 14 Copynumber: 3.7 Consensus size: 14
881125 ATGTATAGGG
*
881135 GGTTTGCATGCATCAA
1 GGTTTGCA--CATAAA
*
881151 GGTTCGCACATAAA
1 GGTTTGCACATAAA
*
881165 GAGTTTGCACTTAAA
1 G-GTTTGCACATAAA
881180 GGTTTGCACA
1 GGTTTGCACA
881190 AGTAAGCATG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 14 0.42
15 12 0.36
16 7 0.21
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (14 bp):
GGTTTGCACATAAA
Found at i:881291 original size:18 final size:18
Alignment explanation
Indices: 881268--881303 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
881258 ATTAAATAGG
881268 TAGGGTTCACATGGTAAA
1 TAGGGTTCACATGGTAAA
* *
881286 TAGGGTTCGCATGTTAAA
1 TAGGGTTCACATGGTAAA
881304 CATGTAAGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (18 bp):
TAGGGTTCACATGGTAAA
Found at i:889770 original size:18 final size:20
Alignment explanation
Indices: 889749--889797 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 20
889739 CTCTCATCAA
889749 TTCTCTTTTTCTT-TGT-TC
1 TTCTCTTTTTCTTATGTGTC
* *
889767 TTCTCATTTACTTATGTGTC
1 TTCTCTTTTTCTTATGTGTC
889787 TTCTCTCTTTT
1 TTCTCT-TTTT
889798 TTTAGGTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 11 0.46
19 3 0.12
20 7 0.29
21 3 0.12
ACGTcount: A:0.06, C:0.22, G:0.06, T:0.65
Consensus pattern (20 bp):
TTCTCTTTTTCTTATGTGTC
Found at i:893337 original size:26 final size:26
Alignment explanation
Indices: 893301--893384 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
893291 CATGAAATTC
893301 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
893327 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
893353 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
893379 TTATCA
1 TTATCA
893385 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:895277 original size:26 final size:26
Alignment explanation
Indices: 895240--895375 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
895230 TGATACAAAT
*
895240 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
895266 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
895292 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
895318 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
895344 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
895370 TGATAA
1 TGATAA
895376 GAATTTCATG
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:898406 original size:25 final size:25
Alignment explanation
Indices: 898339--898406 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
898329 CTCTCTGGAG
* * *
898339 CTTCCCGATAGTGGCTCACTTGAAC
1 CTTCCCGATATTAGCTCGCTTGAAC
898364 CTTCCCGATATTAGCTCGCTTGAAC
1 CTTCCCGATATTAGCTCGCTTGAAC
898389 CTTCCCGATATTAGCTCG
1 CTTCCCGATATTAGCTCG
898407 TATGAGCTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.31
Consensus pattern (25 bp):
CTTCCCGATATTAGCTCGCTTGAAC
Found at i:899046 original size:30 final size:30
Alignment explanation
Indices: 899011--899114 Score: 109
Period size: 30 Copynumber: 3.4 Consensus size: 30
899001 AGTTCTCATA
899011 TAGGGTTCACATGTATAGGGTTTGCACATC
1 TAGGGTTCACATGTATAGGGTTTGCACATC
* ** * * *
899041 CAGGGTTTGCATGTTTAAGGGGGTCTGTACATC
1 TAGGGTTCACATGTAT-A--GGGTTTGCACATC
**
899074 TAGGGTTCACATGTATAGGGTTTGCATGTC
1 TAGGGTTCACATGTATAGGGTTTGCACATC
899104 TAGGGTTCACA
1 TAGGGTTCACA
899115 CATAAAGAGA
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
30 32 0.56
31 1 0.02
32 1 0.02
33 23 0.40
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (30 bp):
TAGGGTTCACATGTATAGGGTTTGCACATC
Found at i:899092 original size:15 final size:15
Alignment explanation
Indices: 899074--899114 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
899064 TCTGTACATC
899074 TAGGGTTCACATGTA
1 TAGGGTTCACATGTA
** *
899089 TAGGGTTTGCATGTC
1 TAGGGTTCACATGTA
899104 TAGGGTTCACA
1 TAGGGTTCACA
899115 CATAAAGAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (15 bp):
TAGGGTTCACATGTA
Found at i:899129 original size:30 final size:30
Alignment explanation
Indices: 899072--899129 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
899062 GGTCTGTACA
** * * *
899072 TCTAGGGTTCACATGTATAGGGTTTGCATG
1 TCTAGGGTTCACACATAAAGAGATTGCATG
899102 TCTAGGGTTCACACATAAAGAGATTGCA
1 TCTAGGGTTCACACATAAAGAGATTGCA
899130 CTTAAGGGTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (30 bp):
TCTAGGGTTCACACATAAAGAGATTGCATG
Found at i:899706 original size:15 final size:15
Alignment explanation
Indices: 899686--899716 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
899676 AGAATAATAA
*
899686 AAGTAATCAACCAAG
1 AAGTAACCAACCAAG
899701 AAGTAACCAACCAAG
1 AAGTAACCAACCAAG
899716 A
1 A
899717 GTTATATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.23, G:0.13, T:0.10
Consensus pattern (15 bp):
AAGTAACCAACCAAG
Found at i:902345 original size:50 final size:50
Alignment explanation
Indices: 902269--902368 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
902259 TGTCAACATG
*
902269 CCATAATGTTCTATTAATACTAAGACTGGAGCATTTGTGTTGAAGGAGTT
1 CCATAATATTCTATTAATACTAAGACTGGAGCATTTGTGTTGAAGGAGTT
** * *
902319 CCATAATATTCTATTAATGTTGAGACTGGAGCATTTGTGTTGATGGAGTT
1 CCATAATATTCTATTAATACTAAGACTGGAGCATTTGTGTTGAAGGAGTT
902369 TATCCTTCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (50 bp):
CCATAATATTCTATTAATACTAAGACTGGAGCATTTGTGTTGAAGGAGTT
Found at i:904911 original size:93 final size:93
Alignment explanation
Indices: 904797--904983 Score: 331
Period size: 93 Copynumber: 2.0 Consensus size: 93
904787 AAACATAATA
*
904797 TGTTTCTACGGTAATTATTTTTCTTTTTTACCTTCCATGCATATTGGAA-ATCATCATAAATAGT
1 TGTTTCTAAGGTAATTATTTTTCTTTTTTACCTTCCATGCATATT-GAAGATCATCATAAATAGT
904861 GCATAACTCAACTTACTCAATATTACATC
65 GCATAACTCAACTTACTCAATATTACATC
* *
904890 TGTTTCTAAGGTGATTATTTTTCTTTTTTACCTTTCATGCATATTGAAGATCATCATAAATAGTG
1 TGTTTCTAAGGTAATTATTTTTCTTTTTTACCTTCCATGCATATTGAAGATCATCATAAATAGTG
904955 CATAACTCAACTTACTCAATATTACATC
66 CATAACTCAACTTACTCAATATTACATC
904983 T
1 T
904984 CCCAATATTT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 3 0.03
93 87 0.97
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (93 bp):
TGTTTCTAAGGTAATTATTTTTCTTTTTTACCTTCCATGCATATTGAAGATCATCATAAATAGTG
CATAACTCAACTTACTCAATATTACATC
Found at i:905021 original size:2 final size:2
Alignment explanation
Indices: 905014--905059 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
905004 CTAAGTCCCC
905014 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
905056 AT AT
1 AT AT
905060 GAACATATCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:906227 original size:17 final size:17
Alignment explanation
Indices: 906202--906236 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
906192 ATTAACAAAT
*
906202 AATTCAAAATTTCATAA
1 AATTCAAAAATTCATAA
*
906219 AATTTAAAAATTCATAA
1 AATTCAAAAATTCATAA
906236 A
1 A
906237 CTTTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTCAAAAATTCATAA
Found at i:907353 original size:19 final size:19
Alignment explanation
Indices: 907311--907353 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
907301 CTATATAATT
* *
907311 GATACTATTTAATAATTAA
1 GATAATATTTAATAATAAA
*
907330 GATAATATTTAATTATAAA
1 GATAATATTTAATAATAAA
*
907349 TATAA
1 GATAA
907354 ATAACATTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (19 bp):
GATAATATTTAATAATAAA
Found at i:917430 original size:45 final size:45
Alignment explanation
Indices: 917362--917536 Score: 246
Period size: 45 Copynumber: 3.9 Consensus size: 45
917352 CGATATCATT
* * *
917362 TCACCGGCATTAT-GACCTGCTAGGCTCGAAA-GCCTGAATAGTATC
1 TCACCGGCATAATAG-CCTGCTAGGCTC-AAAGGCCCGAATAGTGTC
* * *
917407 TCACCGACATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
**
917452 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCTTGAATAGTGTC
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
917497 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATA
917537 TAATACCAGC
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
44 3 0.03
45 113 0.97
46 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.22
Consensus pattern (45 bp):
TCACCGGCATAATAGCCTGCTAGGCTCAAAGGCCCGAATAGTGTC
Found at i:917577 original size:38 final size:38
Alignment explanation
Indices: 917529--917690 Score: 216
Period size: 38 Copynumber: 4.2 Consensus size: 38
917519 GGCTCAAAGG
* * * *
917529 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
917567 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
917605 CCCGGATATATTACCAGCACGAAGCCTGCGAGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* ** *
917643 CCCGGATATATTTTCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
917682 GCCCGGATA
1 -CCCGGATA
917691 CACATCAAAT
Statistics
Matches: 112, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 99 0.88
39 5 0.04
40 8 0.07
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:918749 original size:21 final size:21
Alignment explanation
Indices: 918723--918765 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
918713 AAAGGAATCA
918723 AGCTTAAACACTTAAGAACTT
1 AGCTTAAACACTTAAGAACTT
918744 AGCTTAAACACTTAAGAACTT
1 AGCTTAAACACTTAAGAACTT
918765 A
1 A
918766 CCTTGAATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (21 bp):
AGCTTAAACACTTAAGAACTT
Found at i:919463 original size:20 final size:21
Alignment explanation
Indices: 919432--919472 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
919422 GTAGGAATGT
919432 TTTCTAAAAATTATGCATTGA
1 TTTCTAAAAATTATGCATTGA
*
919453 TTTCT-AAAATTTTGCATTGA
1 TTTCTAAAAATTATGCATTGA
919473 CATTATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.46
Consensus pattern (21 bp):
TTTCTAAAAATTATGCATTGA
Found at i:922251 original size:21 final size:20
Alignment explanation
Indices: 922213--922266 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
922203 AAACCCTGGT
*
922213 AGGTATCGATA-CTTTTCTTA
1 AGGTATCGATATTTTTTC-TA
*
922233 AGGTGTCGATATTTTTTCTA
1 AGGTATCGATATTTTTTCTA
*
922253 ATGTATCGATATTT
1 AGGTATCGATATTT
922267 CTACTCCAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 24 0.83
21 5 0.17
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
AGGTATCGATATTTTTTCTA
Found at i:922806 original size:2 final size:2
Alignment explanation
Indices: 922799--922865 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
922789 GAGTAAAAAT
*
922799 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC GC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
922841 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
922866 TATATATATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.49, G:0.01, T:0.00
Consensus pattern (2 bp):
AC
Found at i:936097 original size:15 final size:15
Alignment explanation
Indices: 936077--936106 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
936067 AAAGCAAATA
936077 AACTAGGAAGATCAT
1 AACTAGGAAGATCAT
936092 AACTAGGAAGATCAT
1 AACTAGGAAGATCAT
936107 TTTATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (15 bp):
AACTAGGAAGATCAT
Found at i:940498 original size:111 final size:111
Alignment explanation
Indices: 940304--940525 Score: 444
Period size: 111 Copynumber: 2.0 Consensus size: 111
940294 CTTCGTGTAT
940304 ACTCTCGGAGACATCAGCTGCCTGAGACCGAAACAGCAGTGCCTATGCCATCTTTACCCGAGGAC
1 ACTCTCGGAGACATCAGCTGCCTGAGACCGAAACAGCAGTGCCTATGCCATCTTTACCCGAGGAC
940369 TGTCCTGAGGAAGAAGTTTCACCTCCTTCATCTTCCATCCATCTTC
66 TGTCCTGAGGAAGAAGTTTCACCTCCTTCATCTTCCATCCATCTTC
940415 ACTCTCGGAGACATCAGCTGCCTGAGACCGAAACAGCAGTGCCTATGCCATCTTTACCCGAGGAC
1 ACTCTCGGAGACATCAGCTGCCTGAGACCGAAACAGCAGTGCCTATGCCATCTTTACCCGAGGAC
940480 TGTCCTGAGGAAGAAGTTTCACCTCCTTCATCTTCCATCCATCTTC
66 TGTCCTGAGGAAGAAGTTTCACCTCCTTCATCTTCCATCCATCTTC
940526 CAATTGCAGT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.25
Consensus pattern (111 bp):
ACTCTCGGAGACATCAGCTGCCTGAGACCGAAACAGCAGTGCCTATGCCATCTTTACCCGAGGAC
TGTCCTGAGGAAGAAGTTTCACCTCCTTCATCTTCCATCCATCTTC
Found at i:960962 original size:78 final size:77
Alignment explanation
Indices: 960878--961042 Score: 240
Period size: 78 Copynumber: 2.1 Consensus size: 77
960868 TCTGCTTGGA
* *
960878 GAGGTAAAGTAAATTCTGGGTATTTCTTTGATTTAATTTTCTGGGTTTCTTTTTGGTGTTTGTTT
1 GAGGTAAAGTAAATTCTGGGTATTTCTTTGATTTAACTTTCTGGATTTCTTTTTGGTGTTTGTTT
*
960943 GGTGAAAAAAATG
66 GATG-AAAAAATG
* * **
960956 GAGGTAAAGTAAATTCTGGTTGTTTCTTTGATTTTGCTTTCTGGATTTCTTTTTGGTGTTTGTTT
1 GAGGTAAAGTAAATTCTGGGTATTTCTTTGATTTAACTTTCTGGATTTCTTTTTGGTGTTTGTTT
*
961021 GATGAGAAAATG
66 GATGAAAAAATG
*
961033 AAGGTAAAGT
1 GAGGTAAAGT
961043 TTAACAATTT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
77 16 0.21
78 62 0.79
ACGTcount: A:0.23, C:0.05, G:0.25, T:0.47
Consensus pattern (77 bp):
GAGGTAAAGTAAATTCTGGGTATTTCTTTGATTTAACTTTCTGGATTTCTTTTTGGTGTTTGTTT
GATGAAAAAATG
Found at i:972235 original size:15 final size:14
Alignment explanation
Indices: 972215--972247 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
972205 GGTTAAATCA
972215 ATTTTTAATAATATT
1 ATTTTTAATAAT-TT
972230 ATTTTTAATAATTT
1 ATTTTTAATAATTT
972244 ATTT
1 ATTT
972248 AATTAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTAATAATTT
Found at i:973584 original size:31 final size:29
Alignment explanation
Indices: 973523--973590 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
973513 ACAGTTATAG
*
973523 ATTTTAGTTTATATACTTTGATTTGATCA
1 ATTTTAGTTTATATACTTTGATTAGATCA
973552 ATTTTAGTTTATATACTTTTTGAATTAG-TCA
1 ATTTTAGTTTATATAC--TTTG-ATTAGATCA
973583 ATTTTAGT
1 ATTTTAGT
973591 ATTTGTCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
29 16 0.46
31 15 0.43
32 4 0.11
ACGTcount: A:0.28, C:0.06, G:0.10, T:0.56
Consensus pattern (29 bp):
ATTTTAGTTTATATACTTTGATTAGATCA
Found at i:979175 original size:20 final size:20
Alignment explanation
Indices: 979150--979188 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
979140 ACAAAGAAAC
* *
979150 TAAGTTTAAGTATTTAATTG
1 TAAGTTCAAGTACTTAATTG
979170 TAAGTTCAAGTACTTAATT
1 TAAGTTCAAGTACTTAATT
979189 AGATAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (20 bp):
TAAGTTCAAGTACTTAATTG
Found at i:980361 original size:11 final size:11
Alignment explanation
Indices: 980345--980370 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
980335 TTTTCCCTTC
980345 AAATATTTATA
1 AAATATTTATA
980356 AAATATTTATA
1 AAATATTTATA
980367 AAAT
1 AAAT
980371 TTCAATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAATATTTATA
Found at i:984328 original size:195 final size:196
Alignment explanation
Indices: 984110--984501 Score: 671
Period size: 196 Copynumber: 2.0 Consensus size: 196
984100 AGTAAAGTTC
* * *
984110 AATACATTTGGATGCATAATTTAGATTTTTTTTTAT-AATTAAGTTGATCTCAATGCTTATGTTA
1 AATACATTTGGATACAGAATTTAGATTTTTTTTTATAAATTAAGTTGATCTCAATGCTTATATTA
* * *
984174 TTGTTTCGCAACGAATTAAATGGTTTGAAAAGAGTAAGGTTAAT-GATTAGGAGGATTTAGTGTT
66 TTGTTTCGCAAAGAATTAAATGGTTCG-AAAGAGTAAGGTTAATCGATTAAGAGGATTTAGTGTT
*
984238 TTATGTTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTTGTTTTGTTTTGTTCGAA
130 TTATGTTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTGGTTTTGTTTTGTTCGAA
984303 TT
195 TT
984305 AATACATTTGGATACAGAATTTAGATTTTTTTTTATAAATTAAGTTGATCTCAATGCTTATATTA
1 AATACATTTGGATACAGAATTTAGATTTTTTTTTATAAATTAAGTTGATCTCAATGCTTATATTA
* * *
984370 TTGTTTCGTAAAGAGTTAAATGGTTCGAAGGAGTAAGGTTAATCGATTAAGAGGATTTAGTGTTT
66 TTGTTTCGCAAAGAATTAAATGGTTCGAAAGAGTAAGGTTAATCGATTAAGAGGATTTAGTGTTT
984435 TATGTTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTGGTTTTGTTTTGTTCGAAT
131 TATGTTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTGGTTTTGTTTTGTTCGAAT
984500 T
196 T
984501 A
1 A
984502 GATGCTTGAA
Statistics
Matches: 185, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
195 49 0.26
196 136 0.74
ACGTcount: A:0.29, C:0.06, G:0.19, T:0.46
Consensus pattern (196 bp):
AATACATTTGGATACAGAATTTAGATTTTTTTTTATAAATTAAGTTGATCTCAATGCTTATATTA
TTGTTTCGCAAAGAATTAAATGGTTCGAAAGAGTAAGGTTAATCGATTAAGAGGATTTAGTGTTT
TATGTTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTGGTTTTGTTTTGTTCGAAT
T
Found at i:984682 original size:217 final size:219
Alignment explanation
Indices: 984305--984697 Score: 684
Period size: 217 Copynumber: 1.8 Consensus size: 219
984295 TGTTCGAATT
*
984305 AATACATTTGGATACAGAATTTAGATTTTTTTTTATAAATTAAGTTGATCTCAATGCTTATATTA
1 AATACATTGGGATACAGAATTTAGATTTTTTTTTATAAATTAAGTTGATCTCAATGCTTATATTA
984370 TTGTTTCGTAAAGAGTTAAATGGTTCGAAGGAGTAAGGTTAATCGATTAAGAGGATTTAGTGTTT
66 TTGTTTCGTAAAGAGTTAAATGGTTCGAAGGAGTAAGGTTAATCGATTAAGAGGATTTAGTGTTT
*
984435 TATGTTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTGGTTTTGTTTTGTTCGAAT
131 TATGGTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTGGTTTTGTTTTGTTCGAAT
984500 TAGATGCTTGAATTAGTAAAGTTC
196 TAGATGCTTGAATTAGTAAAGTTC
*
984524 AATACATTGGGATACAGAATTTGGATTTTTTTTT-T-AATTAAGTTGATCTCAATGCTTATATTA
1 AATACATTGGGATACAGAATTTAGATTTTTTTTTATAAATTAAGTTGATCTCAATGCTTATATTA
* * * * *
984587 TTGTTTCGTAACGAGTTAGATGGTTTGAAGGAGTAAGGTTAATTGATTAGGAGGATTTAGTGTTT
66 TTGTTTCGTAAAGAGTTAAATGGTTCGAAGGAGTAAGGTTAATCGATTAAGAGGATTTAGTGTTT
984652 TATGGTTGATAT-TAGATTTTGATTTTCAGGGAAAATTTGAATTTTT
131 TATGGTTGAT-TCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTT
984698 TTTTTGGTTG
Statistics
Matches: 165, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
217 131 0.79
218 2 0.01
219 32 0.19
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (219 bp):
AATACATTGGGATACAGAATTTAGATTTTTTTTTATAAATTAAGTTGATCTCAATGCTTATATTA
TTGTTTCGTAAAGAGTTAAATGGTTCGAAGGAGTAAGGTTAATCGATTAAGAGGATTTAGTGTTT
TATGGTTGATTCTAGATTTTGATTTTCAGGGAAAATTTGAATTTTTGGTTTTGTTTTGTTCGAAT
TAGATGCTTGAATTAGTAAAGTTC
Found at i:989397 original size:1 final size:1
Alignment explanation
Indices: 989347--989379 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
989337 ACGTGTTTCC
989347 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
989380 CTCTTTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:991544 original size:12 final size:11
Alignment explanation
Indices: 991522--991547 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
991512 TTCCAATTTC
991522 TTTTGTTTTTT
1 TTTTGTTTTTT
991533 TTTTGTTTTTT
1 TTTTGTTTTTT
991544 TTTT
1 TTTT
991548 CACTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:995947 original size:162 final size:166
Alignment explanation
Indices: 995746--996269 Score: 464
Period size: 165 Copynumber: 3.2 Consensus size: 166
995736 TACTTTACTT
* * * * * *
995746 AAACTTTTCATTTTCTCTAAAACACCCGTGCTCGATATTTGTTTTTGATATGCATGCCAACATGG
1 AAACTCTTCATTTTCTCTAAAATA-CCATGCTTGATATTTGTTTTTGACATGCATGCAAACATGG
* ** * *
995811 GTTTTTGGTTAGTTTTTAGAC-ATGTATACTTGTATAACACATTTATTTGAGTTCAGCTAAAGTA
65 GTTTTTGATT-GTTTTTAGACAATGTATACTCATATAACACATTTACTCGAGTTCAGCTAAAGTA
* *
995875 AG-AGATGTGTCATGAATTCTCCG-A-A-TTA-TGT-TC
129 AGAAG-TGTGTCATGAATTATACGAACACTTACTGTATC
* *
995908 AAACTCTTCATTTTCTTTAAAATACGCATGCTTGATATTTGTTTTTGACATGCATGCAAATATGG
1 AAACTCTTCATTTTCTCTAAAATAC-CATGCTTGATATTTGTTTTTGACATGCATGCAAACATGG
* **
995973 GTTTTTGATTGTTTTTAGACATATGTATACTCATATCACACATTTACTCGAGTTTGGCTAAAGTA
65 GTTTTTGATTGTTTTTAGACA-ATGTATACTCATATAACACATTTACTCGAGTTCAGCTAAAGTA
*
996038 AGAAGTGTGTCATGAATTATACGAACTATGCTTACTTTACTC
129 AGAAGTGTGTCATGAATTATACGAAC-A--CTTACTGTA-TC
*** * * *
996080 AAACTCTTCATTTTCTCTAAAATACCAATGCTTGATATTTGTTTTTGACACATATACAAACACGA
1 AAACTCTTCATTTTCTCTAAAATACC-ATGCTTGATATTTGTTTTTGACATGCATGCAAACATGG
* ** * * * **
996145 G-TTTTGATTATCATTAGAC-ATGTACACT--TGTATCACGA---ACTCGAGTTTGGCTAAAGTA
65 GTTTTTGATTGTTTTTAGACAATGTATACTCATATAACAC-ATTTACTCGAGTTCAGCTAAAGTA
* * * * *
996203 AGAAGTGTGTCATGAATTCTTCGAATCATGCTTATTTTACCC
129 AGAAGTGTGTCATGAATTATACGAA-CA--CTTACTGTA-TC
*
996245 AAACCCTTCATTTTCTCTAAAATAC
1 AAACTCTTCATTTTCTCTAAAATAC
996270 TCATATTTGA
Statistics
Matches: 307, Mismatches: 39, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
161 11 0.04
162 64 0.21
163 54 0.18
164 3 0.01
165 80 0.26
166 2 0.01
167 5 0.02
168 1 0.00
169 11 0.04
170 2 0.01
171 16 0.05
172 58 0.19
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (166 bp):
AAACTCTTCATTTTCTCTAAAATACCATGCTTGATATTTGTTTTTGACATGCATGCAAACATGGG
TTTTTGATTGTTTTTAGACAATGTATACTCATATAACACATTTACTCGAGTTCAGCTAAAGTAAG
AAGTGTGTCATGAATTATACGAACACTTACTGTATC
Found at i:1006157 original size:36 final size:37
Alignment explanation
Indices: 1006102--1006171 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 37
1006092 GCTTAACTAT
*
1006102 TTTAATATAGTTTACATTATGAAATTAT-TTTTTATA
1 TTTAATATAGTTTAAATTATGAAATTATATTTTTATA
*
1006138 TTTAATATATTTTAAATTATGAAATTATATTTTT
1 TTTAATATAGTTTAAATTATGAAATTATATTTTT
1006172 TACTCAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 26 0.84
37 5 0.16
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (37 bp):
TTTAATATAGTTTAAATTATGAAATTATATTTTTATA
Found at i:1006168 original size:20 final size:20
Alignment explanation
Indices: 1006107--1006170 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
1006097 ACTATTTTAA
* *
1006107 TATAGTTTACATTATGAAAT
1 TATATTTTAAATTATGAAAT
* *
1006127 TATTTTTTATATT-T--AA-
1 TATATTTTAAATTATGAAAT
1006143 TATATTTTAAATTATGAAAT
1 TATATTTTAAATTATGAAAT
1006163 TATATTTT
1 TATATTTT
1006171 TTACTCAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 11 0.31
17 3 0.09
19 3 0.09
20 18 0.51
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (20 bp):
TATATTTTAAATTATGAAAT
Found at i:1011007 original size:56 final size:56
Alignment explanation
Indices: 1010921--1011033 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
1010911 ACTATGACTC
1010921 ACTGAATCATTCAATACATTAAGAATGCATAAACTAGCAGTTATAATATGGAGGAG
1 ACTGAATCATTCAATACATTAAGAATGCATAAACTAGCAGTTATAATATGGAGGAG
1010977 ACTGAATCATTCAATACATTAAGAATGCATAAACTAGCAGTTATAATATGGAGGAG
1 ACTGAATCATTCAATACATTAAGAATGCATAAACTAGCAGTTATAATATGGAGGAG
1011033 A
1 A
1011034 TACTTCAACT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (56 bp):
ACTGAATCATTCAATACATTAAGAATGCATAAACTAGCAGTTATAATATGGAGGAG
Found at i:1016815 original size:18 final size:18
Alignment explanation
Indices: 1016794--1016831 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
1016784 TTTTAAAAAA
1016794 TATAAA-TTTTGAAATTTT
1 TATAAAGTTTTG-AATTTT
1016812 TATAAATGTTTTGAATTTT
1 TATAAA-GTTTTGAATTTT
1016831 T
1 T
1016832 TTGTAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 7 0.39
20 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (18 bp):
TATAAAGTTTTGAATTTT
Found at i:1019958 original size:2 final size:2
Alignment explanation
Indices: 1019951--1019975 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1019941 GGTTTTATTG
1019951 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1019976 AAGAAGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1021229 original size:29 final size:27
Alignment explanation
Indices: 1021197--1021275 Score: 65
Period size: 29 Copynumber: 2.8 Consensus size: 27
1021187 TTTCCTTTTT
1021197 GTCACCTAACTATCCAATTTTTAAATTTG
1 GTCACCTAACTATCCAATTTTT--ATTTG
* *
1021226 GTCA-CTCAGCTATTGTCC-ATTTTTTTTTG
1 GTCACCT-AACTA---TCCAATTTTTATTTG
1021255 GTCACCTAACTAT-CAATTTTT
1 GTCACCTAACTATCCAATTTTT
1021276 TTAGTTTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 15
0.69 0.05 0.25
Matches are distributed among these distances:
25 1 0.02
26 7 0.17
28 2 0.05
29 20 0.49
30 2 0.05
31 6 0.15
32 3 0.07
ACGTcount: A:0.24, C:0.22, G:0.09, T:0.46
Consensus pattern (27 bp):
GTCACCTAACTATCCAATTTTTATTTG
Found at i:1024769 original size:59 final size:59
Alignment explanation
Indices: 1024681--1024808 Score: 166
Period size: 59 Copynumber: 2.2 Consensus size: 59
1024671 CCAAAAAAAC
* * *
1024681 ATAAATTTACTAATAGTTTAGCGACTTTGAATGTAGTTTACCCATAATTAAAACAATCT
1 ATAAAATTACTAATAGTTTAGCGACTTTGAATCTAGTTTACCCATAATCAAAACAATCT
* * * * * *
1024740 ATAAAATTACTACTAGTTTAGTGATTTTGAATCTAGTTTACCGATAATCAGAACGATCT
1 ATAAAATTACTAATAGTTTAGCGACTTTGAATCTAGTTTACCCATAATCAAAACAATCT
1024799 ATAAATATTA
1 ATAAA-ATTA
1024809 GATTATGTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 55 0.93
60 4 0.07
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (59 bp):
ATAAAATTACTAATAGTTTAGCGACTTTGAATCTAGTTTACCCATAATCAAAACAATCT
Found at i:1026005 original size:26 final size:27
Alignment explanation
Indices: 1025967--1026035 Score: 68
Period size: 30 Copynumber: 2.5 Consensus size: 27
1025957 ACAATAGAAA
** *
1025967 TAATTTAAATTTTTAATAGA-AACAAT
1 TAATTTATTTTTTTAATAGACAAAAAT
*
1025993 TAATTTATTTTTTATTTAATATACAAAAAT
1 TAATTTA--TTTT-TTTAATAGACAAAAAT
1026023 TAATTTATTTTTT
1 TAATTTATTTTTT
1026036 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
26 7 0.20
27 2 0.06
28 6 0.17
29 8 0.23
30 12 0.34
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (27 bp):
TAATTTATTTTTTTAATAGACAAAAAT
Found at i:1028041 original size:29 final size:30
Alignment explanation
Indices: 1028009--1028070 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
1027999 ACTTAACAAG
*
1028009 CAAATGCTTTTAAAATAATAA-AAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
1028038 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
1028068 CAA
1 CAA
1028071 TAAAATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.58, C:0.10, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAATTAA
Found at i:1031452 original size:5 final size:5
Alignment explanation
Indices: 1031442--1031467 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1031432 CATTTATTAA
1031442 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
1031468 TGTATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:1031610 original size:56 final size:56
Alignment explanation
Indices: 1031542--1031653 Score: 188
Period size: 56 Copynumber: 2.0 Consensus size: 56
1031532 GGATTGCATG
* * *
1031542 CTTTGATAAAAATATTTATTTGGAAGGACTTATGTCCTAGATTAAAATATGTAGGT
1 CTTTGACAAAAATATTCACTTGGAAGGACTTATGTCCTAGATTAAAATATGTAGGT
*
1031598 CTTTGACAAAAATATTCACTTGGAAGGACTTATGTCCTATATTAAAATATGTAGGT
1 CTTTGACAAAAATATTCACTTGGAAGGACTTATGTCCTAGATTAAAATATGTAGGT
1031654 GTGTTAGACA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (56 bp):
CTTTGACAAAAATATTCACTTGGAAGGACTTATGTCCTAGATTAAAATATGTAGGT
Found at i:1035607 original size:13 final size:13
Alignment explanation
Indices: 1035589--1035613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1035579 AGCTTAATAC
1035589 AATCTAAGTTTGG
1 AATCTAAGTTTGG
1035602 AATCTAAGTTTG
1 AATCTAAGTTTG
1035614 AAAAATTACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (13 bp):
AATCTAAGTTTGG
Found at i:1038692 original size:24 final size:24
Alignment explanation
Indices: 1038660--1038710 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
1038650 ACTTCTTAAT
1038660 AGTCCTTTGATGTAGAACAATGGA
1 AGTCCTTTGATGTAGAACAATGGA
1038684 AGTCCTTTGATGTAGAACAATGGA
1 AGTCCTTTGATGTAGAACAATGGA
1038708 AGT
1 AGT
1038711 GAACAAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.29
Consensus pattern (24 bp):
AGTCCTTTGATGTAGAACAATGGA
Found at i:1038791 original size:12 final size:12
Alignment explanation
Indices: 1038764--1038801 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
1038754 TAGTACTTTC
* *
1038764 TTTTTCCTTTTG
1 TTTTTCTTTTTA
1038776 TTTTT-TTTTTA
1 TTTTTCTTTTTA
1038787 TTTTTCTTTTTA
1 TTTTTCTTTTTA
1038799 TTT
1 TTT
1038802 CTCCCTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.05, C:0.08, G:0.03, T:0.84
Consensus pattern (12 bp):
TTTTTCTTTTTA
Found at i:1049182 original size:52 final size:52
Alignment explanation
Indices: 1049050--1049197 Score: 172
Period size: 52 Copynumber: 2.8 Consensus size: 52
1049040 AACATGTGAC
* * * *
1049050 ATGTGCTCCCATATAAGACCATAGCTAGACTATGGCATCGGTGTGATAAGAT
1 ATGTGCTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTGAGATAAGAT
* * **
1049102 ATGTGCTTCTATGTAAGACCATAGCTGGGCTATGGCATCGGTGAGATTTGATT
1 ATGTGCTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTGAGATAAGA-T
* * * *
1049155 ATGTGCTTCCGTATAAGACCAT-TCTGGGATATGGCGTCGGTGA
1 ATGTGCTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTGA
1049198 TATATGTGCT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
52 61 0.75
53 20 0.25
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (52 bp):
ATGTGCTTCCATATAAGACCATAGCTGGGCTATGGCATCGGTGAGATAAGAT
Found at i:1050089 original size:206 final size:206
Alignment explanation
Indices: 1049728--1050155 Score: 811
Period size: 206 Copynumber: 2.1 Consensus size: 206
1049718 CACGACCTAG
*
1049728 CACATGGGCGTGTGGCTTGGCCGTATGACGCACACGGGCTTTAACATGACCGTGTGATACGGCCG
1 CACACGGGCGTGTGGCTTGGCCGTATGACGCACACGGGCTTTAACATGACCGTGTGATACGGCCG
1049793 TGTGAAGTCTGCACCTAAAATGTGAAATTAAATTATCACATGGCCTAGCAACACAGGCGTGTGCT
66 TGTGAAGTCTGCACCTAAAATGTGAAATTAAATTATCACATGGCCTAGCAACACAGGCGTGTGCT
*
1049858 CAGGCCGTGTGACTCAAGTTTCTTCTTGAATGCAAGTCAGAGAGCTCTATGGGCTTGGAACAGGG
131 CAGGCCGTGTGACTCAAGCTTCTTCTTGAATGCAAGTCAGAGAGCTCTATGGGCTTGGAACAGGG
1049923 ACGTGTGTGAC
196 ACGTGTGTGAC
*
1049934 CACACGGGCGTGTGGTTTGGCCGTATGACGCACACGGGCTTTAACATGACCGTGTGATACGGCCG
1 CACACGGGCGTGTGGCTTGGCCGTATGACGCACACGGGCTTTAACATGACCGTGTGATACGGCCG
1049999 TGTGAAGTCTGCACCTAAAATGTGAAATTAAATTATCACATGGCCTAGCAACACAGGCGTGTGCT
66 TGTGAAGTCTGCACCTAAAATGTGAAATTAAATTATCACATGGCCTAGCAACACAGGCGTGTGCT
* *
1050064 CAGGCCGTGTGATTCAAGCTTCTTCTTGAATGCAAGTCAGAGAGCTCTATGGGCTTGGAATAGGG
131 CAGGCCGTGTGACTCAAGCTTCTTCTTGAATGCAAGTCAGAGAGCTCTATGGGCTTGGAACAGGG
1050129 ACGTGTGTGAC
196 ACGTGTGTGAC
1050140 CACACGGGCGTGTGGC
1 CACACGGGCGTGTGGC
1050156 CCTATTTCAT
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
206 216 1.00
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (206 bp):
CACACGGGCGTGTGGCTTGGCCGTATGACGCACACGGGCTTTAACATGACCGTGTGATACGGCCG
TGTGAAGTCTGCACCTAAAATGTGAAATTAAATTATCACATGGCCTAGCAACACAGGCGTGTGCT
CAGGCCGTGTGACTCAAGCTTCTTCTTGAATGCAAGTCAGAGAGCTCTATGGGCTTGGAACAGGG
ACGTGTGTGAC
Found at i:1051603 original size:23 final size:23
Alignment explanation
Indices: 1051577--1051620 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1051567 TTTAATCCCT
1051577 TTAAAAAATGATAAAATTATAAA
1 TTAAAAAATGATAAAATTATAAA
***
1051600 TTAACTCATGATAAAATTATA
1 TTAAAAAATGATAAAATTATA
1051621 CTTTTACCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TTAAAAAATGATAAAATTATAAA
Found at i:1051844 original size:2 final size:2
Alignment explanation
Indices: 1051837--1051874 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1051827 ATTTGAAATA
1051837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1051875 TTGCTTACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.