Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 32 of 170
Found at i:8777334 original size:31 final size:31
Alignment explanation
Indices: 8777297--8777358 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
8777287 TTGGTCATTG
*
8777297 AACTATTCAAAAGTTTTCT-TTTAAGTCACTA
1 AACTATTCAAAAGTTTT-TATTTAAGCCACTA
8777328 AACTATTCAAAAGTTTTTATTTAAGCCACTA
1 AACTATTCAAAAGTTTTTATTTAAGCCACTA
8777359 GGTTGTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 28 0.97
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.40
Consensus pattern (31 bp):
AACTATTCAAAAGTTTTTATTTAAGCCACTA
Found at i:8779523 original size:15 final size:14
Alignment explanation
Indices: 8779498--8779527 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
8779488 TCATTCGTTT
8779498 TTTATTTTTTTTCA
1 TTTATTTTTTTTCA
8779512 TTTATATTTTTTTCA
1 TTTAT-TTTTTTTCA
8779527 T
1 T
8779528 ATTTTAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTATTTTTTTTCA
Found at i:8788321 original size:6 final size:6
Alignment explanation
Indices: 8788296--8788332 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
8788286 CCAAACACAC
8788296 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
8788333 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:8788363 original size:45 final size:45
Alignment explanation
Indices: 8788307--8788461 Score: 247
Period size: 45 Copynumber: 3.4 Consensus size: 45
8788297 AGTATACAGT
* *
8788307 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * * *
8788352 AACCTGTAACAGTAACGGTAACTGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
8788397 AGTCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
8788442 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
8788462 GTCGGCACAT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:8788404 original size:39 final size:39
Alignment explanation
Indices: 8788316--8788488 Score: 143
Period size: 45 Copynumber: 4.2 Consensus size: 39
8788306 TAATCAGTAA
* *
8788316 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT
* *
8788359 AACAGTAACGGTAACTGTATTCGACACACAAAGTGCCGAGTCAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCC--G--AGT
*
8788404 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * *
8788445 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-T
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGT
8788483 CAGTAA
1 CAGTAA
8788489 GCCGGCAAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
38 14 0.12
39 26 0.23
41 2 0.02
43 1 0.01
45 68 0.60
47 1 0.01
48 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:8795380 original size:6 final size:6
Alignment explanation
Indices: 8795355--8795391 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
8795345 CCAAACACAC
8795355 CAGTATA CAGTAA TCAGTAA CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTA
8795392 TTCAACACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (6 bp):
CAGTAA
Found at i:8795422 original size:45 final size:45
Alignment explanation
Indices: 8795366--8795520 Score: 247
Period size: 45 Copynumber: 3.4 Consensus size: 45
8795356 AGTATACAGT
* *
8795366 AATCAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
* * * *
8795411 AACCTGTAACAGTAACGGTAACTGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
*
8795456 AGTCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
8795501 AATCAGTAACAGTAACAGTA
1 AATCAGTAACAGTAACAGTA
8795521 GTCGGCACAT
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 98 1.00
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (45 bp):
AATCAGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
Found at i:8795463 original size:39 final size:39
Alignment explanation
Indices: 8795375--8795547 Score: 143
Period size: 45 Copynumber: 4.2 Consensus size: 39
8795365 TAATCAGTAA
* *
8795375 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAACCTGT
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCG-A---GT
* *
8795418 AACAGTAACGGTAACTGTATTCGACACACAAAGTGCCGAGTCAGT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCC--G--AGT
*
8795463 AACAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAAT
1 --CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
* * *
8795504 CAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTGA-T
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCC-GAGT
8795542 CAGTAA
1 CAGTAA
8795548 GCCGGCAAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
38 14 0.12
39 26 0.23
41 2 0.02
43 1 0.01
45 68 0.60
47 1 0.01
48 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (39 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAGT
Found at i:8795808 original size:39 final size:40
Alignment explanation
Indices: 8795724--8795809 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
8795714 TTCTTTACTT
* * * *
8795724 CAGTAATTTCACAATTCAATGCATTATACATAACAATATT
1 CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
*
8795764 CAGTATTTTCACAATTCACT-CAGTAAT-CAAAACAATATC
1 CAGTATTTTCACAATTCAATGCA-TAATACAAAACAATATC
8795803 CAGTATT
1 CAGTATT
8795810 CCATAATTCG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
39 19 0.47
40 21 0.52
ACGTcount: A:0.41, C:0.20, G:0.06, T:0.34
Consensus pattern (40 bp):
CAGTATTTTCACAATTCAATGCATAATACAAAACAATATC
Found at i:8799528 original size:20 final size:19
Alignment explanation
Indices: 8799503--8799540 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8799493 TATATATACT
8799503 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
8799523 TTTAAAACATATTGATAA
1 TTTAAAAAATATTGATAA
8799541 TAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:8801714 original size:50 final size:50
Alignment explanation
Indices: 8801578--8801741 Score: 161
Period size: 50 Copynumber: 3.3 Consensus size: 50
8801568 GATTTGTAAC
* * *
8801578 TTGTAGCTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCACTG
1 TTGTAGCTTTAATCTGTTTAACTGTAATGTCGGGGAAGCAAGATTCACTA
* ** ** ** * * * *
8801628 TTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGCTA
1 TTGTAGCTTTAATCTGTTTAACTGTAATGTCGGGGAAGCAAGATTCACTA
* *
8801678 TTGTAGCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGA
1 TTGTAGCTTTAATCTGTTTAACTGTAATGTCGGGGAAGCAAGATTCA-CTA
8801729 TTG--GCTTTAATCT
1 TTGTAGCTTTAATCT
8801742 ATTCCATTGC
Statistics
Matches: 86, Mismatches: 27, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
49 10 0.12
50 71 0.83
51 5 0.06
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.35
Consensus pattern (50 bp):
TTGTAGCTTTAATCTGTTTAACTGTAATGTCGGGGAAGCAAGATTCACTA
Found at i:8801943 original size:44 final size:44
Alignment explanation
Indices: 8801895--8802211 Score: 132
Period size: 44 Copynumber: 7.2 Consensus size: 44
8801885 TATATTGGAA
*
8801895 AGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGAG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGAG
* * * * * * *
8801939 AGATAAGATCT-ACAATCTTTAA-CTTACTCCGCTGCTGCTCAGAG
1 AGATAAGATTTGTC-GTCTTTAATC-TGCTCCACTACTGCTTAGAG
* * * * * * *
8801983 AGACAAGGTTCGGT-GGCTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAAGATT-TGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGAG
* * * *
8802027 AGATAAGATTTGCCGTCTTTGATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGAG
* * * * * * ** * *
8802071 AGATAAGATCT-ACAATCTTCAACCTACTCCACCGCTGCTCAGTG
1 AGATAAGATTTGTC-GTCTTTAATCTGCTCCACTACTGCTTAGAG
* * * * * * *
8802115 AGACAAGGTTCGGT-GGCTTAAATCTGCTTCCCACTA-T-CTTGGAA
1 AGATAAGATT-TGTCGTCTTTAATCTGC-T-CCACTACTGCTTAGAG
* *
8802159 AGATAAGATTT-TCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGT-CGTCTTTAATCTGCTCCACTACTGCTTAGAG
8802203 AGATAAGAT
1 AGATAAGAT
8802212 CTACAATCTT
Statistics
Matches: 184, Mismatches: 70, Indels: 38
0.63 0.24 0.13
Matches are distributed among these distances:
42 12 0.07
43 8 0.04
44 151 0.82
45 5 0.03
46 8 0.04
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGAG
Found at i:8801986 original size:132 final size:132
Alignment explanation
Indices: 8801824--8802355 Score: 868
Period size: 132 Copynumber: 4.0 Consensus size: 132
8801814 ACTTGTAATT
* * *
8801824 TTCAACCTACTCCACTACTGCTCAGGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATA
1 TTCAACCTACTCCACTGCTGCTCAGAGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
* *
8801889 TTGGAAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGAGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
8801954 TC
131 TC
* * *
8801956 TTTAACTTACTCCGCTGCTGCTCAGAGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
1 TTCAACCTACTCCACTGCTGCTCAGAGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
*
8802021 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
8802086 TC
131 TC
* *
8802088 TTCAACCTACTCCACCGCTGCTCAGTGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
1 TTCAACCTACTCCACTGCTGCTCAGAGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
*
8802153 TTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
66 TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
8802218 TC
131 TC
* ** *
8802220 TTCAACCAACTCCGTTGCTACTCA-AGGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTAT
1 TTCAACCTACTCCACTGCTGCTCAGA-GAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTAT
* * * *
8802284 TTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTACT
65 CTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
8802349 ATC
130 ATC
8802352 TTCA
1 TTCA
8802356 CTGATCTGTT
Statistics
Matches: 372, Mismatches: 27, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
132 372 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
TTCAACCTACTCCACTGCTGCTCAGAGAGACAAGGTTCGGTGGCTTAAATCTGCTTCCCACTATC
TTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAA
TC
Found at i:8814695 original size:20 final size:19
Alignment explanation
Indices: 8814670--8814707 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
8814660 TATATATACT
8814670 TTTAAAATAATATTGATAAA
1 TTTAAAA-AATATTGATAAA
*
8814690 TTTAAAACATATTGATAA
1 TTTAAAAAATATTGATAA
8814708 CAAAAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:8814864 original size:12 final size:12
Alignment explanation
Indices: 8814847--8814883 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
8814837 TAAAACAATG
8814847 AATAATGTTGAA
1 AATAATGTTGAA
*
8814859 AATAATATT-AA
1 AATAATGTTGAA
8814870 AATAATGTTGAA
1 AATAATGTTGAA
8814882 AA
1 AA
8814884 CATAAAAGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.32
Consensus pattern (12 bp):
AATAATGTTGAA
Found at i:8818181 original size:17 final size:17
Alignment explanation
Indices: 8818156--8818195 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
8818146 TGTCAGGTCG
*
8818156 TGTGAGCCACACGGCCT
1 TGTGGGCCACACGGCCT
*
8818173 TGTGGGCCACATGGCCT
1 TGTGGGCCACACGGCCT
8818190 TGTGGG
1 TGTGGG
8818196 ACTATTTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.23
Consensus pattern (17 bp):
TGTGGGCCACACGGCCT
Found at i:8819696 original size:29 final size:30
Alignment explanation
Indices: 8819650--8819711 Score: 117
Period size: 29 Copynumber: 2.1 Consensus size: 30
8819640 ACTTGTTTTA
8819650 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
8819680 TTGTTAA-TTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAGAGGCAT
8819709 TTG
1 TTG
8819712 CTTTTTAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.23, C:0.03, G:0.18, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGGCAT
Found at i:8820927 original size:18 final size:18
Alignment explanation
Indices: 8820888--8820934 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
8820878 AATTACTTAT
8820888 CTCTTTT-CTTTAAATAC
1 CTCTTTTCCTTTAAATAC
* * *
8820905 ATCTTTTCCTTTTAGTAC
1 CTCTTTTCCTTTAAATAC
8820923 CTCTTTTCCTTT
1 CTCTTTTCCTTT
8820935 CATAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.15, C:0.26, G:0.02, T:0.57
Consensus pattern (18 bp):
CTCTTTTCCTTTAAATAC
Found at i:8823152 original size:5 final size:5
Alignment explanation
Indices: 8823137--8823200 Score: 65
Period size: 5 Copynumber: 12.8 Consensus size: 5
8823127 CATACCAGAA
* * * * * * *
8823137 CATAT CTTAT CATAT CACAA CGTAT CATAT TATAT CATAC CATAT CAGAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
8823187 CATAT CATAT CATA
1 CATAT CATAT CATA
8823201 ACATGTCCTA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.39, C:0.22, G:0.03, T:0.36
Consensus pattern (5 bp):
CATAT
Found at i:8826737 original size:33 final size:34
Alignment explanation
Indices: 8826679--8826767 Score: 90
Period size: 34 Copynumber: 2.6 Consensus size: 34
8826669 TTTTGATATG
*
8826679 ATATGACATTTTGATATGATATATG-TTCTGGAA
1 ATATGACATTCTGATATGATATATGTTTCTGGAA
* * * *
8826712 ATATGATATTCTGATTTGATGTATGTTTCTGGTA
1 ATATGACATTCTGATATGATATATGTTTCTGGAA
* * * *
8826746 TTGTGTCATTCTGATCTGATAT
1 ATATGACATTCTGATATGATAT
8826768 TTGTATGTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
33 21 0.48
34 23 0.52
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (34 bp):
ATATGACATTCTGATATGATATATGTTTCTGGAA
Found at i:8830942 original size:11 final size:11
Alignment explanation
Indices: 8830926--8830950 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8830916 GCGATTATTG
8830926 TATTTATTGTA
1 TATTTATTGTA
8830937 TATTTATTGTA
1 TATTTATTGTA
8830948 TAT
1 TAT
8830951 AAATGGACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:8832700 original size:3 final size:3
Alignment explanation
Indices: 8832692--8832727 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
8832682 TACTTTTTTG
8832692 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8832728 GCATAACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8834355 original size:19 final size:19
Alignment explanation
Indices: 8834331--8834389 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
8834321 ATATCTATGG
8834331 ATTAATAATACTCTATATA
1 ATTAATAATACTCTATATA
*
8834350 ATTAATAATACTTTATATA
1 ATTAATAATACTCTATATA
* *
8834369 GATAAATAATAATCTATATA
1 -ATTAATAATACTCTATATA
8834389 A
1 A
8834390 CATAATCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (19 bp):
ATTAATAATACTCTATATA
Found at i:8834396 original size:14 final size:14
Alignment explanation
Indices: 8834377--8834403 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8834367 TAGATAAATA
8834377 ATAATCTATATAAC
1 ATAATCTATATAAC
8834391 ATAATCTATATAA
1 ATAATCTATATAA
8834404 TAAAGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATCTATATAAC
Found at i:8836038 original size:18 final size:18
Alignment explanation
Indices: 8836017--8836051 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8836007 TTATTTATAA
*
8836017 TATTCGTGATATTATTAG
1 TATTCGTAATATTATTAG
*
8836035 TATTTGTAATATTATTA
1 TATTCGTAATATTATTA
8836052 TTAATGATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.54
Consensus pattern (18 bp):
TATTCGTAATATTATTAG
Found at i:8837548 original size:27 final size:27
Alignment explanation
Indices: 8837513--8837591 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
8837503 CAAGGTCACG
*
8837513 ATCAATAGCGTCACTATCATCAATAGC
1 ATCAATAGCATCACTATCATCAATAGC
* * * * *
8837540 GTCACTAGCATCAATATCGTCATTAGC
1 ATCAATAGCATCACTATCATCAATAGC
*
8837567 ATCAATATCATCACTATCATCAATA
1 ATCAATAGCATCACTATCATCAATA
8837592 TCGATATCAT
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (27 bp):
ATCAATAGCATCACTATCATCAATAGC
Found at i:8837553 original size:36 final size:35
Alignment explanation
Indices: 8837513--8837606 Score: 111
Period size: 36 Copynumber: 2.7 Consensus size: 35
8837503 CAAGGTCACG
* *
8837513 ATCAATAGCGTCACTATCATCAATAGCGTCACTAGC
1 ATCAATATCGTCA-TATCATCAATAGCATCACTAGC
* * *
8837549 ATCAATATCGTCATTAGCATCAATATCATCACTATC
1 ATCAATATCGTCA-TATCATCAATAGCATCACTAGC
8837585 ATCAATATCG--ATATCATCAATA
1 ATCAATATCGTCATATCATCAATA
8837607 AGAAAACCTT
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 10 0.20
34 1 0.02
36 40 0.78
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (35 bp):
ATCAATATCGTCATATCATCAATAGCATCACTAGC
Found at i:8837584 original size:9 final size:9
Alignment explanation
Indices: 8837513--8837593 Score: 63
Period size: 9 Copynumber: 9.0 Consensus size: 9
8837503 CAAGGTCACG
*
8837513 ATCAATAGC
1 ATCAATATC
* *
8837522 GTCACTATC
1 ATCAATATC
*
8837531 ATCAATAGC
1 ATCAATATC
* * *
8837540 GTCACTAGC
1 ATCAATATC
8837549 ATCAATATC
1 ATCAATATC
* * *
8837558 GTCATTAGC
1 ATCAATATC
8837567 ATCAATATC
1 ATCAATATC
*
8837576 ATCACTATC
1 ATCAATATC
8837585 ATCAATATC
1 ATCAATATC
8837594 GATATCATCA
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.30
Consensus pattern (9 bp):
ATCAATATC
Found at i:8837592 original size:18 final size:18
Alignment explanation
Indices: 8837513--8837594 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
8837503 CAAGGTCACG
* *
8837513 ATCAATAGCGTCACTATC
1 ATCAATATCGTCACTAGC
*
8837531 ATCAATAGCGTCACTAGC
1 ATCAATATCGTCACTAGC
*
8837549 ATCAATATCGTCATTAGC
1 ATCAATATCGTCACTAGC
* *
8837567 ATCAATATCATCACTATC
1 ATCAATATCGTCACTAGC
8837585 ATCAATATCG
1 ATCAATATCG
8837595 ATATCATCAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.35, C:0.26, G:0.10, T:0.29
Consensus pattern (18 bp):
ATCAATATCGTCACTAGC
Found at i:8837603 original size:18 final size:19
Alignment explanation
Indices: 8837548--8837603 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 19
8837538 GCGTCACTAG
* *
8837548 CATCAATATCG-TCATTAG
1 CATCAATATCGATCATCAT
8837566 CATCAATATC-ATCA-CTAT
1 CATCAATATCGATCATC-AT
8837584 CATCAATATCGAT-ATCAT
1 CATCAATATCGATCATCAT
8837602 CA
1 CA
8837604 ATAAGAAAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 29 0.91
19 3 0.09
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (19 bp):
CATCAATATCGATCATCAT
Found at i:8841442 original size:18 final size:19
Alignment explanation
Indices: 8841410--8841449 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
8841400 TTCATGCTAG
* *
8841410 AAATCCCAAATTAAAATCC
1 AAATCCCAAAATAAAACCC
8841429 AAAT-CCAAAATAAAACCC
1 AAATCCCAAAATAAAACCC
8841447 AAA
1 AAA
8841450 AGTTCAGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.60, C:0.25, G:0.00, T:0.15
Consensus pattern (19 bp):
AAATCCCAAAATAAAACCC
Found at i:8845237 original size:17 final size:18
Alignment explanation
Indices: 8845217--8845254 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
8845207 ATTTTTTACC
*
8845217 ATTAATTTATTTTC-TTA
1 ATTAATTAATTTTCTTTA
8845234 ATT-ATTAATTTTCTTTA
1 ATTAATTAATTTTCTTTA
8845251 ATTA
1 ATTA
8845255 GTATCGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTAATTAATTTTCTTTA
Found at i:8852249 original size:23 final size:23
Alignment explanation
Indices: 8852221--8852314 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
8852211 ATGTGTGTAT
* *
8852221 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
8852244 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
8852267 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
8852290 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
8852313 CT
1 CT
8852315 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:8856755 original size:23 final size:23
Alignment explanation
Indices: 8856727--8856820 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
8856717 ATGTAAGTAT
* *
8856727 CTTTTCATATTCAAGCCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
8856750 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
8856773 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
8856796 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
8856819 CT
1 CT
8856821 CTTCTAACTT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.22, C:0.26, G:0.04, T:0.48
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:8860776 original size:12 final size:12
Alignment explanation
Indices: 8860759--8860785 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
8860749 AAAAGAAATT
8860759 TTTGCCTCGAAA
1 TTTGCCTCGAAA
8860771 TTTGCCTCGAAA
1 TTTGCCTCGAAA
8860783 TTT
1 TTT
8860786 ACCTGATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (12 bp):
TTTGCCTCGAAA
Found at i:8879025 original size:44 final size:44
Alignment explanation
Indices: 8878974--8879335 Score: 213
Period size: 44 Copynumber: 8.1 Consensus size: 44
8878964 AGTGTAAGGA
* *
8878974 AGCAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGAGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
** * *
8879018 AGCAGATTGAAGCTAGTTATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
* ** * *
8879062 AGCGGATT-AAAATA-AAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCG
1 AGCAGATTGAAGCTAGAA--ATCTTATCTCCCTG-AG--AT--TACAG-AG---G
* * * *
8879115 CAGCAGATTAAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGG
1 -AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
* * *
8879160 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
* ** * ** *
8879204 AGCGGATT-AAAATAAAAGATCTTATCTCTTTGA-AGTTATAGTA-G
1 AGCAGATTGAAGCTAGAA-ATCTTATCTCCCTGAGA-TTACAG-AGG
* * * *
8879248 AGTAGA-TCATATC-AG--GTCTTATCTCCCTGAGATTACAGCA-G
1 AGCAGATTGA-AGCTAGAAATCTTATCTCCCTGAGATTACAG-AGG
* * *
8879289 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
8879333 AGC
1 AGC
8879336 GAATTAAAAC
Statistics
Matches: 238, Mismatches: 55, Indels: 50
0.69 0.16 0.15
Matches are distributed among these distances:
41 26 0.11
42 5 0.02
43 11 0.05
44 151 0.63
45 4 0.02
47 2 0.01
48 1 0.00
49 8 0.03
50 1 0.00
51 2 0.01
53 3 0.01
54 19 0.08
55 3 0.01
56 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
AGCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGAGG
Found at i:8879230 original size:142 final size:139
Alignment explanation
Indices: 8878974--8879385 Score: 601
Period size: 142 Copynumber: 3.0 Consensus size: 139
8878964 AGTGTAAGGA
* * *
8878974 AGCAGATTGAAGCCAGAAATCTTATCTCCTTGAGATTACAGAGGAGCAGATTGAAGCTAGTTATC
1 AGCAGATT-AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
8879039 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
65 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
8879104 AGAGTAGATCGC
130 AGAGTAGAT--C
*
8879116 AGCAGATTAAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 AGCAGATT-AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
* *
8879181 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTTTGAAGTTATAGT
65 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGT
8879246 AGAGTAGAT-
130 AGAGTAGATC
* * *
8879255 --C--A-T-A-TCAG--GTCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCC
1 AGCAGATTAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
* * *
8879311 TATCTCCCTGAGATTACAGTGGAGCGAATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTA
66 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTA
*
8879376 GAGTGGATC
131 GAGTAGATC
8879385 A
1 A
8879386 CATCAGGTCT
Statistics
Matches: 251, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
129 112 0.45
131 3 0.01
132 1 0.00
134 1 0.00
135 1 0.00
137 1 0.00
142 132 0.53
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (139 bp):
AGCAGATTAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCC
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTA
GAGTAGATC
Found at i:8879359 original size:44 final size:43
Alignment explanation
Indices: 8879116--8879374 Score: 150
Period size: 44 Copynumber: 6.0 Consensus size: 43
8879106 AGTAGATCGC
* * * * *
8879116 AGCAGATTAAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGG
1 AGCAGATTAAAACAAG-GATCTTATCTCCCTGAGATTACAGTGG
* * * * *
8879160 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTAAAACAAG-GATCTTATCTCCCTGAGATTACAGTGG
* * * ** * *
8879204 AGCGGATTAAAATAAAAGATCTTATCTCTTTGA-AGTTATAGTAG
1 AGCAGATTAAAA-CAAGGATCTTATCTCCCTGAGA-TTACAGTGG
* * * * **
8879248 AGTAGATCATATC-AGG-TCTTATCTCCCTGAGATTACAGCAG
1 AGCAGATTAAAACAAGGATCTTATCTCCCTGAGATTACAGTGG
* * * * *
8879289 AGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGG
1 AGCAGATTAAAACAAG-GATCTTATCTCCCTGAGATTACAGTGG
*
8879333 AGC-GAATTAAAACAAAGGATCTTATCTCTCTGA-AGTTACAGT
1 AGCAG-ATTAAAAC-AAGGATCTTATCTCCCTGAGA-TTACAGT
8879375 AGAGTGGATC
Statistics
Matches: 162, Mismatches: 44, Indels: 18
0.72 0.20 0.08
Matches are distributed among these distances:
41 27 0.17
42 5 0.03
43 3 0.02
44 124 0.77
45 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (43 bp):
AGCAGATTAAAACAAGGATCTTATCTCCCTGAGATTACAGTGG
Found at i:8879367 original size:129 final size:129
Alignment explanation
Indices: 8878993--8879400 Score: 566
Period size: 129 Copynumber: 3.1 Consensus size: 129
8878983 AAGCCAGAAA
* *
8878993 TCTTATCTCCTTGAGATTACAG-AGGAGCAGATTGAAGCTAGTTATCCTATCTCCCTGAGATTAC
1 TCTTATCTCCCTGAGATTACAGCA-GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTAC
8879057 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCAGCAGA
65 AGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGAT-----C--A
* *
8879122 TTAAAGCCAGAAA
123 -T--A-TCAG--G
* *
8879135 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* *
8879200 GTGGAGCGGATTAAAATAAAAGATCTTATCTCTTTGAAGTTATAGTAGAGTAGATCATATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCATATCAGG
8879264 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
* * * * *
8879329 GTGGAGCGAATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTGGATCACATCAGG
66 GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCATATCAGG
8879393 TCTTATCT
1 TCTTATCT
8879401 GCCTAAAATC
Statistics
Matches: 248, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
129 128 0.52
131 3 0.01
132 1 0.00
134 1 0.00
135 1 0.00
137 1 0.00
142 113 0.46
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (129 bp):
TCTTATCTCCCTGAGATTACAGCAGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
GTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCATATCAGG
Found at i:8883732 original size:25 final size:25
Alignment explanation
Indices: 8883704--8883754 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
8883694 ATCACTTTAA
* *
8883704 TATTAAATTAATATAATATTTATCT
1 TATTAAAATAATAGAATATTTATCT
8883729 TATTAAAATAATAGAATATTTATCT
1 TATTAAAATAATAGAATATTTATCT
8883754 T
1 T
8883755 TATATTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (25 bp):
TATTAAAATAATAGAATATTTATCT
Found at i:8883845 original size:37 final size:35
Alignment explanation
Indices: 8883803--8883908 Score: 90
Period size: 37 Copynumber: 2.9 Consensus size: 35
8883793 CAAGATAAAC
8883803 ATTAAATTTAATTTAATATTAAAATAATCACT-TTAA
1 ATTAAATTTAATTTAATATTAAAATAAT-A-TATTAA
** * *
8883839 TATTAAATTAATAAAATACTATTAAGATAA-ATATTAA
1 -ATTAAATT--TAATTTAATATTAAAATAATATATTAA
8883876 ATTAAATTTAATATTAAACTATTAAAATAATAT
1 ATTAAATTTAAT-TT-AA-TATTAAAATAATAT
8883909 TATTTTTGGA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
34 3 0.06
35 1 0.02
36 10 0.19
37 23 0.43
38 2 0.04
39 15 0.28
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.42
Consensus pattern (35 bp):
ATTAAATTTAATTTAATATTAAAATAATATATTAA
Found at i:8883849 original size:11 final size:11
Alignment explanation
Indices: 8883835--8883910 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
8883825 AATAATCACT
8883835 TTAATATTAAA
1 TTAATATTAAA
8883846 TTAATA--AAA
1 TTAATATTAAA
*
8883855 -TACTATTAAGA
1 TTAATATTAA-A
*
8883866 TAAATATTAAA
1 TTAATATTAAA
8883877 TTAA-ATTTAATA
1 TTAATA-TTAA-A
8883889 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
8883902 ATAATATTA
1 TTAATATTA
8883911 TTTTTGGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 3 0.06
11 20 0.39
12 12 0.24
13 4 0.08
14 4 0.08
15 1 0.02
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:8884352 original size:19 final size:19
Alignment explanation
Indices: 8884314--8884353 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8884304 AAAATATCAT
*
8884314 ATTAATTTTAATTGATTTG
1 ATTAATTTTAATTGACTTG
* *
8884333 ATTAATTTTATTTTACTTG
1 ATTAATTTTAATTGACTTG
8884352 AT
1 AT
8884354 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTGACTTG
Found at i:8885537 original size:15 final size:15
Alignment explanation
Indices: 8885513--8885544 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
8885503 TATGCATGCA
*
8885513 AAATATAAAAGACAT
1 AAATACAAAAGACAT
8885528 AAATACAAAAGACAT
1 AAATACAAAAGACAT
8885543 AA
1 AA
8885545 TAGTGAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.09, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:8891941 original size:16 final size:16
Alignment explanation
Indices: 8891920--8891984 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
8891910 TTCGCTGTAT
*
8891920 TGGAATAGAGGCGCAA
1 TGGAATAGAGGCGTAA
8891936 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
8891952 TGGAATAGAAGCGTAA
1 TGGAATAGAGGCGTAA
8891968 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
8891984 T
1 T
8891985 AGCAAATCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.38, C:0.08, G:0.35, T:0.18
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:8904181 original size:27 final size:28
Alignment explanation
Indices: 8904108--8904182 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 28
8904098 GAAAAAACAG
*
8904108 ACCATTGGCGTCTCTCAG-TATGGCACC
1 ACCATTGGCGCCTCTCAGATATGGCACC
** * *
8904135 AATAATGGCGCCTCCCAGATA-GGCACC
1 ACCATTGGCGCCTCTCAGATATGGCACC
*
8904162 ACCATTGGCGCCTCTGAGATA
1 ACCATTGGCGCCTCTCAGATA
8904183 AGCGCCAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
27 35 0.95
28 2 0.05
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.21
Consensus pattern (28 bp):
ACCATTGGCGCCTCTCAGATATGGCACC
Found at i:8909615 original size:18 final size:19
Alignment explanation
Indices: 8909593--8909634 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
8909583 TAAATTTTGA
*
8909593 AAATTTTATAAA-TATTTT
1 AAATTTTAAAAATTATTTT
*
8909611 GAATTTTAAAAATTATTTT
1 AAATTTTAAAAATTATTTT
8909630 AAATT
1 AAATT
8909635 ATTTTTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
AAATTTTAAAAATTATTTT
Found at i:8913602 original size:91 final size:90
Alignment explanation
Indices: 8913439--8913603 Score: 219
Period size: 91 Copynumber: 1.8 Consensus size: 90
8913429 CAGTTATTTA
* *
8913439 CAAACACTAGTGGTTTATCTACAAACTTACTGGCAACTTTTATTTGCAAACCTGTGTGCATTCAC
1 CAAACACTAGTGGTTTATCCACAAACTTACTGGCAACTTTTATTTGCAAACCCGTGTGCATTCAC
8913504 AACCTACTGACAACATATTAACCTG
66 AACCTACTGACAACATATTAACCTG
* * * *
8913529 CAAACATTGGTGGTTTATCCAC-AACTTTTACTTGCAACTTTTATCTT-CAAACCCGTTGTGTAT
1 CAAACACTAGTGGTTTATCCACAAAC--TTACTGGCAACTTTTAT-TTGCAAACCCG-TGTGCAT
8913592 TCACAA-CTACTG
62 TCACAACCTACTG
8913604 GCAGCGTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
89 3 0.05
90 19 0.29
91 29 0.45
92 14 0.22
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (90 bp):
CAAACACTAGTGGTTTATCCACAAACTTACTGGCAACTTTTATTTGCAAACCCGTGTGCATTCAC
AACCTACTGACAACATATTAACCTG
Found at i:8913614 original size:91 final size:89
Alignment explanation
Indices: 8913438--8913642 Score: 218
Period size: 91 Copynumber: 2.3 Consensus size: 89
8913428 ACAGTTATTT
* * *
8913438 ACAAACACTAGTGGTTTATCTACAAACTTACTGGCAACTTTTATTTGCAAACCTGTGTGCATTCA
1 ACAAACATTAGTGGTTTATCCAC-AACTTACTGGCAACTTTTATTTGCAAACCCGTGTGCATTCA
* *
8913503 CAACCTACTGACAACATATTAACCT
65 CAACCTACTGACAACATATTAAACA
* * * *
8913528 GCAAACATTGGTGGTTTATCCACAACTTTTACTTGCAACTTTTATCTT-CAAACCCGTTGTGTAT
1 ACAAACATTAGTGGTTTATCCACAAC--TTACTGGCAACTTTTAT-TTGCAAACCCG-TGTGCAT
* * *
8913592 TCACAA-CTACTGGCAGCGTATTAAACA
62 TCACAACCTACTGACAACATATTAAACA
* *
8913619 AC-AACATTTGTGGTTCATCCACAA
1 ACAAACATTAGTGGTTTATCCACAA
8913643 ACTGGAGTGT
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
89 3 0.03
90 39 0.41
91 40 0.42
92 14 0.15
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (89 bp):
ACAAACATTAGTGGTTTATCCACAACTTACTGGCAACTTTTATTTGCAAACCCGTGTGCATTCAC
AACCTACTGACAACATATTAAACA
Found at i:8915972 original size:43 final size:43
Alignment explanation
Indices: 8915843--8915973 Score: 158
Period size: 44 Copynumber: 3.0 Consensus size: 43
8915833 CATAGGATTC
*
8915843 CGTTATGTGTTTATCGTGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTTATGTGATTA-CGTGTAAGACCACGTCTAGGACGTTGGCAT
* * **
8915887 CGACT-TGTGACTTACGTGTAAGACC-CTGTCTGGGACAATGGCAT
1 CG-TTATGTGA-TTACGTGTAAGACCAC-GTCTAGGACGTTGGCAT
*
8915931 CGTTATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTTATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
8915974 TGTACGAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
43 29 0.40
44 39 0.54
45 4 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTTATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCAT
Found at i:8919821 original size:3 final size:3
Alignment explanation
Indices: 8919813--8919850 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
8919803 TAAACTAAAT
8919813 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
8919851 TAATAATTGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:8922625 original size:15 final size:15
Alignment explanation
Indices: 8922602--8922640 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
8922592 AAATTCAACC
*
8922602 CTTAATTTTTTAATA
1 CTTAATTTTTTAACA
8922617 CTT-ATTTTTTAACA
1 CTTAATTTTTTAACA
8922631 CTTAATTTTT
1 CTTAATTTTT
8922641 CAATTTATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.59
15 9 0.41
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
CTTAATTTTTTAACA
Found at i:8924828 original size:27 final size:27
Alignment explanation
Indices: 8924798--8924863 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
8924788 AACTGGATAT
*
8924798 ATATATATATATGTATTAAAAA-ACTGG
1 ATATATATATATGTATTAAAAATA-TGC
*
8924825 ATATATATATATATATTAAAAATATGC
1 ATATATATATATGTATTAAAAATATGC
8924852 ATAT-TATATATG
1 ATATATATATATG
8924864 GAAAATATGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.20
27 27 0.77
28 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (27 bp):
ATATATATATATGTATTAAAAATATGC
Found at i:8924862 original size:22 final size:23
Alignment explanation
Indices: 8924829--8924872 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
8924819 AACTGGATAT
*
8924829 ATATATATATATTAAAAATATGC
1 ATATATATATATGAAAAATATGC
*
8924852 ATAT-TATATATGGAAAATATG
1 ATATATATATATGAAAAATATG
8924873 TGTATGTGCT
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:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (23 bp):
ATATATATATATGAAAAATATGC
Found at i:8926412 original size:44 final size:44
Alignment explanation
Indices: 8926364--8926574 Score: 122
Period size: 44 Copynumber: 4.8 Consensus size: 44
8926354 AAAATCCACC
* * *
8926364 ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTTAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* ** * *
8926408 ATCTTTAATCTATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTTAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* * * * ** * * ****
8926449 CTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACC
1 AT--CTTTAATCTACTCCACTAC-TGCTCAGGGAGATAAGATCTGTA
* * * *
8926496 ATCTTTGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTA
1 ATCTTTAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
* ** *
8926540 ATCTTTAATCTATTCCACTGTTGCCCAGGGAGATA
1 ATCTTTAATCTACTCCACTACTGCTCAGGGAGATA
8926575 GAATTACTGG
Statistics
Matches: 115, Mismatches: 46, Indels: 12
0.66 0.27 0.07
Matches are distributed among these distances:
41 3 0.03
42 1 0.01
43 18 0.16
44 76 0.66
45 16 0.14
47 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (44 bp):
ATCTTTAATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTA
Found at i:8926451 original size:132 final size:132
Alignment explanation
Indices: 8926304--8926640 Score: 590
Period size: 132 Copynumber: 2.6 Consensus size: 132
8926294 GCAGCTTCAA
* *
8926304 GGAGATAGGAA-TACTGGCTTCAACGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCATCT
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCT
8926368 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCC
65 TTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCC
8926433 CAG
130 CAG
8926436 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
*
8926501 TGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
66 TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
8926566 AG
131 AG
*
8926568 GGAGATAGAATTACTGGCTTCAATGT-CTCCACTGCAACCTCAGGGAGATAAAAT-CAGCCATCT
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCA-CCATCT
*
8926631 TCGATCTGCT
65 TTGATCTGCT
8926641 TCGCTGTTTA
Statistics
Matches: 198, Mismatches: 5, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
130 2 0.01
131 45 0.23
132 151 0.76
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTT
TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGTTGCCC
AG
Found at i:8926802 original size:44 final size:44
Alignment explanation
Indices: 8926656--8926804 Score: 154
Period size: 44 Copynumber: 3.4 Consensus size: 44
8926646 GTTTATGTAG
* * * *
8926656 GAAGGCAAGATCTTCTATATTTGATCTACTTGACGCCAGTACAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
** * * * * **
8926700 GAAGACAAGATCTATTTTCTTCGATCTACTTCGCCACCAGTACGG
1 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCCAGTACAT
* * *
8926745 GAAGATAAGATCTGGTATCTTTGATCTACTTCACGCCAGTATAT
1 GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
8926789 GAAGACAAGATCTGCT
1 GAAGACAAGATCTGCT
8926805 TTTTCAATCG
Statistics
Matches: 81, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
44 46 0.57
45 35 0.43
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATCTTTGATCTACTTCACGCCAGTACAT
Found at i:8927103 original size:45 final size:44
Alignment explanation
Indices: 8927019--8927297 Score: 211
Period size: 45 Copynumber: 6.3 Consensus size: 44
8927009 GGACCTACTA
* * *** * *
8927019 TCTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTT
1 TCTTTGATCTACTCCACACCAGTATGGGGAGACAAGATCTGTTT
* * *
8927063 TCTTCGACCTACTCCATCACCAGTATGGGGGGACAAGATCTG-TT
1 TCTTTGATCTACTCCA-CACCAGTATGGGGAGACAAGATCTGTTT
* * * *** * **
8927107 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTT
1 TCTTTGATCTACTCCACACCAGTATGGGGAGACAAGATCTGTTT
* * *
8927151 TCATTGATCTACTCCACCACCAGTATGGGGAGACAAGGTCTGTTG
1 TCTTTGATCTACTCCA-CACCAGTATGGGGAGACAAGATCTGTTT
* * * *** * * *
8927196 ACTTTGATCTACTTCACGCC-GATACATGAAGGCAAGATCTGCTT
1 TCTTTGATCTACTCCACACCAG-TATGGGGAGACAAGATCTGTTT
*
8927240 TCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTTG
1 TCTTTGATCTACTCCA-CACCAGTATGGGGAGACAAGATCTGTTT
*
8927285 ACTTTGATCTACT
1 TCTTTGATCTACT
8927298 TCACGCTGAT
Statistics
Matches: 173, Mismatches: 56, Indels: 11
0.72 0.23 0.05
Matches are distributed among these distances:
43 18 0.10
44 75 0.43
45 79 0.46
46 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
TCTTTGATCTACTCCACACCAGTATGGGGAGACAAGATCTGTTT
Found at i:8927234 original size:89 final size:89
Alignment explanation
Indices: 8927020--8927539 Score: 595
Period size: 89 Copynumber: 5.8 Consensus size: 89
8927010 GACCTACTAT
* * * *
8927020 CTTTGATCTACTTCACGCCAGTACATGAAGACACGATCTGTTTTC-TTCGACCTACTCCATCACC
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTCGATCTACTCCACCACC
* *
8927084 AGTATGGGGGGACAAGATCTGTTT
66 AGTATGGGGAGACAAGATCTGTTA
* * *
8927108 CTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTCATT-GATCTACTCCACCACC
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTCGATCTACTCCACCACC
*
8927172 AGTATGGGGAGACAAGGTCTGTTGA
66 AGTATGGGGAGACAAGATCTGTT-A
*
8927197 CTTTGATCTACTTCACGCC-GATACATGAAGGCAAGATCTGCTTTCTTT-GATCTACTCCACCAC
1 CTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTCTTTCGATCTACTCCACCAC
8927260 CAGTATGGGGAGACAAGATCTGTTGA
65 CAGTATGGGGAGACAAGATCTGTT-A
* * * * * *
8927286 CTTTGATCTACTTCACG-CTGATACATGAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCAG-TACATGAAGACAAGATCTGCTTTCTTTCGATCTACTCCACCAC
* * * *
8927350 TAGTATGGGAAGGCGAGATCTGTATA
65 CAGTATGGGGAGACAAGATCTGT-TA
* * * * * * *
8927376 -TTCGATCTATTTCACGCTAGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TTCTTTCGATCTACTCCACCAC
* * *
8927439 CAGTATGGGAAGGCGAGATCTGTTA
65 CAGTATGGGGAGACAAGATCTGTTA
* * * *
8927464 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCC
1 -CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGC--TTTCTTTCGATCTACTCCACC
8927529 ACCAGTATGGG
63 ACCAGTATGGG
8927540 AAGGCGAGAT
Statistics
Matches: 384, Mismatches: 35, Indels: 22
0.87 0.08 0.05
Matches are distributed among these distances:
88 80 0.21
89 202 0.53
90 69 0.18
91 1 0.00
92 31 0.08
93 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (89 bp):
CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTTCGATCTACTCCACCACC
AGTATGGGGAGACAAGATCTGTTA
Found at i:8927562 original size:44 final size:44
Alignment explanation
Indices: 8927332--8927586 Score: 172
Period size: 44 Copynumber: 5.7 Consensus size: 44
8927322 TCTACTTTCT
* * * *
8927332 TTCGATCTGCTTCGCCACTAGTATGGGAAGGCGAGATCTGTATA
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTGTATC
* * * * * * * *
8927376 TTCGATCTATTTC-ACGCTAGTACATGAAGACAAGATCTGTATTCC
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTGTA-T-C
* *
8927421 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATC
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTG-TATC
* * * * * * * *
8927466 TTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTTTCC
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTG---TAT-C
* * * *
8927513 TTCGATCTGCTTCGCCACCAGTATGGGAAGGCGAGATTTGTATA
1 TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTGTATC
* * *
8927557 TTCGATCCACTTCGCTACCAATATAGGAAG
1 TTCGATCTACTTCGCCACCAGTATAGGAAG
8927587 ACAAGACCTG
Statistics
Matches: 156, Mismatches: 47, Indels: 16
0.71 0.21 0.07
Matches are distributed among these distances:
43 21 0.13
44 56 0.36
45 25 0.16
46 22 0.14
47 14 0.09
48 18 0.12
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (44 bp):
TTCGATCTACTTCGCCACCAGTATAGGAAGGCGAGATCTGTATC
Found at i:8927615 original size:92 final size:92
Alignment explanation
Indices: 8927338--8927603 Score: 270
Period size: 92 Copynumber: 2.9 Consensus size: 92
8927328 TTCTTTCGAT
* * * * * * *
8927338 CTGCTTCGCCACTAGTATGGGAAGGCGAGATCTG-TATATTCGATCTATTTCACGCTAGTACATG
1 CTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATATTCGATCCACTTCACACCAATACAGG
* * * *
8927402 AAGACAAGATCTG-T-ATTCCTTCGAT
66 AAGACAAGACCTGCTGCTTCCTTCAAC
* * * * * *
8927427 CTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATCTTTGATCTACTTCACGCCAGTACATG
1 CTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATATTCGATCCACTTCACACCAATACAGG
* ** * *
8927492 AAGACAAGATCTGCTTTTTCCTTCGAT
66 AAGACAAGACCTGCTGCTTCCTTCAAC
* * *
8927519 CTGCTTCGCCACCAGTATGGGAAGGCGAGATTTG-TATATTCGATCCACTTCGCTACCAATATAG
1 CTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATATTCGATCCACTTCAC-ACCAATACAG
8927583 GAAGACAAGACCTGCTGCTTC
65 GAAGACAAGACCTGCTGCTTC
8927604 TCAAAACCTG
Statistics
Matches: 155, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
89 33 0.21
90 39 0.25
91 16 0.10
92 67 0.43
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (92 bp):
CTGCTTCGCCACCAGTATGGGAAGGCGAGATCTGTTATATTCGATCCACTTCACACCAATACAGG
AAGACAAGACCTGCTGCTTCCTTCAAC
Found at i:8928925 original size:49 final size:47
Alignment explanation
Indices: 8928854--8928977 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
8928844 CCTTTGGTCT
* * *
8928854 AAAGCGCCCTTTGCAAGTTTTCACCTTAGCCTCTCCATTTTTTTTACTC
1 AAAGCGCCCTTTGTAGGCTTTCACCTT-G-CTCTCCATTTTTTTTACTC
* * * * * **
8928903 AAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTTTTTTTTTACTC
1 AAAGCGCCCTTTGTAGGCTTTCACCTTGCTCTCCATTTTTTTTACTC
8928950 AAAGCGCCCTTTGTAGGCTTTCACCTTG
1 AAAGCGCCCTTTGTAGGCTTTCACCTTG
8928978 GTCCCACCTT
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
47 40 0.65
48 1 0.02
49 21 0.34
ACGTcount: A:0.15, C:0.28, G:0.15, T:0.41
Consensus pattern (47 bp):
AAAGCGCCCTTTGTAGGCTTTCACCTTGCTCTCCATTTTTTTTACTC
Found at i:8928960 original size:47 final size:47
Alignment explanation
Indices: 8928891--8928980 Score: 144
Period size: 47 Copynumber: 1.9 Consensus size: 47
8928881 AGCCTCTCCA
* * *
8928891 TTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTT
1 TTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTCTT
*
8928938 TTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 TTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
8928981 CCACCTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.46
Consensus pattern (47 bp):
TTTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCTCTT
Found at i:8928990 original size:47 final size:47
Alignment explanation
Indices: 8928892--8928991 Score: 128
Period size: 47 Copynumber: 2.1 Consensus size: 47
8928882 GCCTCTCCAT
* * * * ***
8928892 TTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTGGTCTCTTT
1 TTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
*
8928939 TTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
8928986 TTTTTT
1 TTTTTT
8928992 AAGCAGAGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.12, C:0.27, G:0.15, T:0.46
Consensus pattern (47 bp):
TTTTTTTACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCACC
Found at i:8936541 original size:43 final size:43
Alignment explanation
Indices: 8936321--8936529 Score: 298
Period size: 43 Copynumber: 4.9 Consensus size: 43
8936311 TTATTGAAAT
* * *
8936321 AAACGCCGCTAAAGGTCATGTTCTTTA--GTCGCTTTTCCTTA-
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCC-CAC
* *
8936362 AAACGCCGCTAAAGGCCATGTTCTTTAGCGACGCCTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
8936405 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* *
8936448 AAACGCCGCTAAATGCCATGTTCTTTAGCTGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
* **
8936491 AAATGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTTC
1 AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTC
8936530 TCGCAAATGC
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
41 26 0.17
42 1 0.01
43 125 0.82
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTCCCAC
Found at i:8949365 original size:32 final size:32
Alignment explanation
Indices: 8949321--8949387 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
8949311 AATTTAAAAT
*
8949321 TAAAACTGTAATAAATTAATAATATTAATTAC
1 TAAAACTATAATAAATTAATAATATTAATTAC
8949353 TAAAACTATAATAAATTAATAATATTAATTAC
1 TAAAACTATAATAAATTAATAATATTAATTAC
8949385 TAA
1 TAA
8949388 GATTTAGATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.55, C:0.06, G:0.01, T:0.37
Consensus pattern (32 bp):
TAAAACTATAATAAATTAATAATATTAATTAC
Found at i:8951366 original size:30 final size:30
Alignment explanation
Indices: 8951326--8951405 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
8951316 CAAGTGTATG
** *
8951326 GCCGTGTGGGCCGTAAGGGCTATTGGCCAA
1 GCCGTGTGGGCCACAAGGGCTATGGGCCAA
* * *
8951356 GCCGTATGGGCCACACGGGCTATGGGCCAG
1 GCCGTGTGGGCCACAAGGGCTATGGGCCAA
8951386 GCCGTGTGGGCCACAAGGGC
1 GCCGTGTGGGCCACAAGGGC
8951406 AAGGGCAAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.16, C:0.28, G:0.41, T:0.15
Consensus pattern (30 bp):
GCCGTGTGGGCCACAAGGGCTATGGGCCAA
Found at i:8953295 original size:24 final size:24
Alignment explanation
Indices: 8953252--8953312 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 24
8953242 GTGGCACATG
* * *
8953252 GCCGTGTGACAACCCATGTCTCAA
1 GCCGTGTGACAGCTCATGTCACAA
* *
8953276 GCCGTGTGACAGCTCGTGTCACAG
1 GCCGTGTGACAGCTCATGTCACAA
*
8953300 GCCGTATG-CAGCT
1 GCCGTGTGACAGCT
8953313 GAATGTCTTC
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
23 5 0.16
24 26 0.84
ACGTcount: A:0.20, C:0.31, G:0.28, T:0.21
Consensus pattern (24 bp):
GCCGTGTGACAGCTCATGTCACAA
Found at i:8954274 original size:20 final size:20
Alignment explanation
Indices: 8954241--8954288 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
8954231 CAGAGCACTA
* * *
8954241 AAGTGAAAATAGAGGCATCG
1 AAGTGCAAACAGAGGCACCG
*
8954261 AAGTGCAAACAGAGTCACCG
1 AAGTGCAAACAGAGGCACCG
8954281 AAGTGCAA
1 AAGTGCAA
8954289 CCCCATACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.17, G:0.27, T:0.12
Consensus pattern (20 bp):
AAGTGCAAACAGAGGCACCG
Found at i:8962328 original size:84 final size:84
Alignment explanation
Indices: 8962182--8962535 Score: 460
Period size: 84 Copynumber: 4.2 Consensus size: 84
8962172 GGCCGTGTGT
* * * * * *
8962182 CCAAA-ACACATGCCCATGTGGGATCCCCAAATCACCAAGTTGGCCATATGGTCGTGTGGCATCA
1 CCAAACACACACGCCCGTGAGGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATCA
*
8962246 AATCACATAACCCTAACTC
66 AATCACATAACCCTAATTC
* * *
8962265 CCAAACACACACGCCCGTGAGGGATCCTTAAATCTCCAAGTTGGCCACACGGTCATGTGGCATCA
1 CCAAACACACACGCCCGTGAGGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATCA
8962330 AATCACATAACCCTAATTC
66 AATCACATAACCCTAATTC
* * * * * * ** *
8962349 CCTAACACACATGCTCGTGTGGGATCTCTAAATCACCAAGTTGGCCAAACGACCGTCTGGCATCA
1 CCAAACACACACGCCCGTGAGGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATCA
8962414 AATCACATAACCCTAATTC
66 AATCACATAACCCTAATTC
* * * * * *
8962433 TCGAACACACACGCTCGT-ATAGGATCCCTAAATCCCCAAGTTGGCCACACGGTTGTGTGGCATC
1 CCAAACACACACGCCCGTGA-GGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATC
8962497 AAATCACATAACCCTAATTC
65 AAATCACATAACCCTAATTC
8962517 CCAAACACACACGCCCGTG
1 CCAAACACACACGCCCGTG
8962536 CGAGAAAGGG
Statistics
Matches: 231, Mismatches: 37, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
83 5 0.02
84 226 0.98
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (84 bp):
CCAAACACACACGCCCGTGAGGGATCCCTAAATCACCAAGTTGGCCACACGGTCGTGTGGCATCA
AATCACATAACCCTAATTC
Found at i:8963233 original size:5 final size:6
Alignment explanation
Indices: 8963218--8963259 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
8963208 TTTTCATATC
8963218 AAAAAT AAAAAT AAAAAT AAGAAA- AAACGAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AA-AAAT AAA--AAT AAAAAT AAAA
8963260 GCTAACCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 1 0.03
6 23 0.72
7 5 0.16
8 3 0.09
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:8965150 original size:22 final size:22
Alignment explanation
Indices: 8965124--8965171 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
8965114 AAAAATAAAA
8965124 ATATT-AATAAACCCAAAACAAT
1 ATATTGAA-AAACCCAAAACAAT
* *
8965146 ATATTGAAACACCCAAATCAAT
1 ATATTGAAAAACCCAAAACAAT
8965168 ATAT
1 ATAT
8965172 ATCAGTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.54, C:0.19, G:0.02, T:0.25
Consensus pattern (22 bp):
ATATTGAAAAACCCAAAACAAT
Found at i:8966674 original size:17 final size:18
Alignment explanation
Indices: 8966630--8966675 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
8966620 AATAAATAAT
8966630 ATTAACTTTATTAAACATA
1 ATTAA-TTTATTAAACATA
**
8966649 ATTAA-TTATTAATTATA
1 ATTAATTTATTAAACATA
8966666 A-TAATTTATT
1 ATTAATTTATT
8966676 TTTCTTTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 3 0.12
17 16 0.67
19 5 0.21
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
ATTAATTTATTAAACATA
Found at i:8966725 original size:22 final size:23
Alignment explanation
Indices: 8966680--8966726 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
8966670 TTTATTTTTC
* * *
8966680 TTTTGGGTTTTAGGTTTCTTGAT
1 TTTTGGGTTTTAGGATTATGGAT
8966703 TTTTGGGTTTTA-GATTATGGAT
1 TTTTGGGTTTTAGGATTATGGAT
8966725 TT
1 TT
8966727 GGAGTTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.13, C:0.02, G:0.26, T:0.60
Consensus pattern (23 bp):
TTTTGGGTTTTAGGATTATGGAT
Found at i:8975801 original size:17 final size:17
Alignment explanation
Indices: 8975779--8975817 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
8975769 CATTCTATTA
8975779 ATTTAATA-ATATTTAAT
1 ATTTAATATA-ATTTAAT
*
8975796 ATTTAATTTAATTTAAT
1 ATTTAATATAATTTAAT
8975813 ATTTA
1 ATTTA
8975818 CCTTGAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTAATATAATTTAAT
Found at i:8976247 original size:34 final size:34
Alignment explanation
Indices: 8976137--8976249 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 34
8976127 TCGAATAATG
* * * * *
8976137 ATAAGCATGTCTTTTGCTACTATATTGATTTGTT
1 ATAAGCATGTCTATTACTACCATATTGATCTATT
* * *
8976171 ATAAGCATATCTATTCCTACCGTATTGATCTATT
1 ATAAGCATGTCTATTACTACCATATTGATCTATT
* *
8976205 ATAAGCATGTCCATTACTACCATTTTGATCTATT
1 ATAAGCATGTCTATTACTACCATATTGATCTATT
8976239 ATAAGCATGTC
1 ATAAGCATGTC
8976250 ATAATGCATT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (34 bp):
ATAAGCATGTCTATTACTACCATATTGATCTATT
Found at i:8977605 original size:24 final size:24
Alignment explanation
Indices: 8977561--8977606 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
8977551 GAAGGATTTG
*
8977561 TGCTAGTGTATTTAGCCAGCTTTT
1 TGCTAGTGTATTTAGCAAGCTTTT
*
8977585 TGCTAGTGTATTTAGTAAGCTT
1 TGCTAGTGTATTTAGCAAGCTT
8977607 CAAGCCGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.13, G:0.22, T:0.46
Consensus pattern (24 bp):
TGCTAGTGTATTTAGCAAGCTTTT
Found at i:8980767 original size:45 final size:44
Alignment explanation
Indices: 8980672--8980857 Score: 129
Period size: 45 Copynumber: 4.1 Consensus size: 44
8980662 GGGGTGTTAC
* * *** * * *
8980672 ATTTGTCCACAACATACTAGCAGTTTTTATCCACACCAATAACTG
1 ATTTATCCACAACATACTAGCAGCTTTTAT-TGTACTAATGAGTG
* * * * * *
8980717 GTTTATCTACAACGTACTAGTAGCTTTTATTTTCACTGATGAGTG
1 ATTTATCCACAACATACTAGCAGCTTTTATTGT-ACTAATGAGTG
** * *
8980762 ATTTATCCACAATTTACAAGCAGATTTTATATGTACTAATGAGTG
1 ATTTATCCACAACATACTAGCAGCTTTTAT-TGTACTAATGAGTG
* * * *
8980807 GTTTATCCACAACATACTAGCAACTTTTATTAGCACCAATGAGTG
1 ATTTATCCACAACATACTAGCAGCTTTTATT-GTACTAATGAGTG
*
8980852 GTTTAT
1 ATTTAT
8980858 AAATATCGTA
Statistics
Matches: 108, Mismatches: 30, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
44 1 0.01
45 105 0.97
46 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (44 bp):
ATTTATCCACAACATACTAGCAGCTTTTATTGTACTAATGAGTG
Found at i:8981340 original size:67 final size:67
Alignment explanation
Indices: 8981216--8981585 Score: 314
Period size: 67 Copynumber: 5.5 Consensus size: 67
8981206 ATGGGCTGTA
* * * ** * * * * * * *
8981216 ATGGGGTATGATATGTAAAATCATAGCTTAACTATAGCAACATAAAGCGTCCTCCAAGACATTAA
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATTAA
8981281 AC
66 AC
* * * * * * * *
8981283 ATGGGGTATGATGTGTAAGACCATAGCTCGGTTATGGTAATATATAGAGTCCCCCAAGACATTGA
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATTAA
8981348 AC
66 AC
* *
8981350 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTTCACTAGGACATTAA
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATTAA
8981415 AC
66 AC
* * * * * *
8981417 AT-GTGTATGATTTGTAAAACCATAGCACGATTATGGTC-ACATAAAGAG-CCTGCTAGGATATT
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGG-CAACATAGAGAGTCC-GCTAGGACATT
*
8981479 AAAA
64 AAAC
* * * * ** * * * * *
8981483 ATAGGGCATGATGTGTAAAACCATAGCTTGGCTATGGCCACATAGAGAGACTGTTAGGATATTAA
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATTAA
8981548 AC
66 AC
* * *
8981550 ATGGGGCATTATGTGTAAGACCATAGCTCGACTATG
1 ATGGGGTATGATGTGTAAGACCATAGCTCGATTATG
8981586 ACAGATCATA
Statistics
Matches: 250, Mismatches: 48, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
65 1 0.00
66 54 0.22
67 194 0.78
68 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (67 bp):
ATGGGGTATGATGTGTAAGACCATAGCTCGATTATGGCAACATAGAGAGTCCGCTAGGACATTAA
AC
Found at i:8986300 original size:67 final size:67
Alignment explanation
Indices: 8986192--8986495 Score: 398
Period size: 67 Copynumber: 4.6 Consensus size: 67
8986182 GGGTTGTAAT
*
8986192 AGGTATAATGTGTAAGACCATAGCTCAACTAT-AGCAACATAGAGAGTCTGCCAGGACATTAAAC
1 AGGTATGATGTGTAAGACCATAGCTCAACTATGA-CAACATAGAGAGTCTGCCAGGACATTAAAC
8986256 ATG
65 ATG
* * * *
8986259 AGGTATGATATGTAAGACCATAACTCAACTATGGCAACATAGAGAGTCTGTCAGGACATTAAACA
1 AGGTATGATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTGCCAGGACATTAAACA
8986324 TG
66 TG
* *** * *
8986326 TGGTATGATGTGTAAGACCATAGCTCGGTTATGACAACATAGAGAATCTGCTAGGACATTAAACA
1 AGGTATGATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTGCCAGGACATTAAACA
8986391 TG
66 TG
* * * * * * *
8986393 -GTGTATGATGTGTAAAACCATAGCTCGA-TATGACCATATAGAGAGTCTGTCAGAATATTAAAC
1 AG-GTATGATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTGCCAGGACATTAAAC
8986456 ATG
65 ATG
*
8986459 GGGTATGATGTGTAAGACCATAGCTCAACTATGACAA
1 AGGTATGATGTGTAAGACCATAGCTCAACTATGACAA
8986496 ATACAAAGTT
Statistics
Matches: 206, Mismatches: 27, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
66 56 0.27
67 150 0.73
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (67 bp):
AGGTATGATGTGTAAGACCATAGCTCAACTATGACAACATAGAGAGTCTGCCAGGACATTAAACA
TG
Found at i:9004883 original size:27 final size:25
Alignment explanation
Indices: 9004841--9004896 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 25
9004831 TAAAAGTAAA
* *
9004841 AAATAAATAAAGATAA-TTGAAATTG
1 AAATAAATAAAAATAAGTAGAAA-TG
9004866 AAATAAGAGTAAAAATAAGTAGAAATG
1 AAATAA-A-TAAAAATAAGTAGAAATG
9004893 AAAT
1 AAAT
9004897 TTAATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 6 0.23
26 1 0.04
27 14 0.54
28 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.23
Consensus pattern (25 bp):
AAATAAATAAAAATAAGTAGAAATG
Found at i:9005527 original size:5 final size:5
Alignment explanation
Indices: 9005517--9005546 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
9005507 AAGATTTTAT
9005517 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
9005547 CAAATATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:9005739 original size:20 final size:20
Alignment explanation
Indices: 9005714--9005759 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
9005704 TTTTCAATAA
9005714 TTTATTATCAAA-TCAATATT
1 TTTATTAT-AAATTCAATATT
*
9005734 TTTATTCTAAATTTCAATATT
1 TTTATTATAAA-TTCAATATT
9005755 TTTAT
1 TTTAT
9005760 CTTAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 3 0.13
20 7 0.30
21 13 0.57
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTATTATAAATTCAATATT
Found at i:9006890 original size:20 final size:20
Alignment explanation
Indices: 9006865--9006904 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
9006855 AGTAGTGAAC
9006865 TTGAGACAAAGATGCTTGAT
1 TTGAGACAAAGATGCTTGAT
9006885 TTGAGACAAAGATGCTTGAT
1 TTGAGACAAAGATGCTTGAT
9006905 ATAGGCTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (20 bp):
TTGAGACAAAGATGCTTGAT
Found at i:9008898 original size:23 final size:21
Alignment explanation
Indices: 9008848--9008898 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 21
9008838 CTCGTCTTTT
*
9008848 TCTTTTGTTTCTTTTTCTAAC
1 TCTTTTCTTTCTTTTTCTAAC
9008869 TCATTTTCTCTTCTTTCTTC-AAC
1 TC-TTTTCT-TTCTTT-TTCTAAC
9008892 ATCTTTT
1 -TCTTTT
9008899 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.12, C:0.24, G:0.02, T:0.63
Consensus pattern (21 bp):
TCTTTTCTTTCTTTTTCTAAC
Found at i:9019453 original size:38 final size:39
Alignment explanation
Indices: 9019408--9019507 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 39
9019398 AAAATCCTTG
**
9019408 TTATAATTATTGTAATTATAATTTAT-GATCGAACAATA
1 TTATAATTATTGTAATTATAATTTATCGATAAAACAATA
* * * *
9019446 TTATAATTATTGTAATTGTAATTTTTCGGTAAAACATTA
1 TTATAATTATTGTAATTATAATTTATCGATAAAACAATA
9019485 TTATAATTA-TGATAATTATAATT
1 TTATAATTATTG-TAATTATAATT
9019508 ATTATATTCA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 26 0.49
39 27 0.51
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (39 bp):
TTATAATTATTGTAATTATAATTTATCGATAAAACAATA
Found at i:9033028 original size:21 final size:21
Alignment explanation
Indices: 9033004--9033058 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
9032994 TTTTACTTTA
**
9033004 TGTTTAGCTCTTTTGAGCTTC
1 TGTTTAGCTCTTACGAGCTTC
9033025 TGTTTAGCTCTTACGAGCTTC
1 TGTTTAGCTCTTACGAGCTTC
*
9033046 TGTTTAACTCTTA
1 TGTTTAGCTCTTA
9033059 TCAATTTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.20, G:0.16, T:0.49
Consensus pattern (21 bp):
TGTTTAGCTCTTACGAGCTTC
Found at i:9037883 original size:21 final size:24
Alignment explanation
Indices: 9037859--9037904 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
9037849 TGCTTTTAAG
9037859 TAATCA-TTTTAAAT-TA-AATTA
1 TAATCATTTTTAAATGTATAATTA
*
9037880 TAATTATTTTTAAATGTATAATTA
1 TAATCATTTTTAAATGTATAATTA
9037904 T
1 T
9037905 CATAATTCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 8 0.38
23 2 0.10
24 6 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATCATTTTTAAATGTATAATTA
Found at i:9038021 original size:77 final size:76
Alignment explanation
Indices: 9037935--9038087 Score: 270
Period size: 77 Copynumber: 2.0 Consensus size: 76
9037925 ATTATCAAAC
*
9037935 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTTTAAATGTCAATTTAATAATACAATAA
1 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATGTCAATTTAATAATACAAT-A
9038000 AAAAATAAAAGG
65 AAAAATAAAAGG
* *
9038012 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATGTCAATTTAATAATAGAATAG
1 TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATGTCAATTTAATAATACAATAA
9038077 AAAATAAAAGG
66 AAAATAAAAGG
9038088 CTTTCTCATT
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
76 12 0.16
77 61 0.84
ACGTcount: A:0.50, C:0.05, G:0.06, T:0.40
Consensus pattern (76 bp):
TTTTTAACTAATATTTTTAAATTAAATTACAAATATTTGTAAATGTCAATTTAATAATACAATAA
AAAATAAAAGG
Found at i:9039119 original size:24 final size:22
Alignment explanation
Indices: 9039084--9039164 Score: 67
Period size: 24 Copynumber: 3.6 Consensus size: 22
9039074 ATGATAACGG
*
9039084 TAAATTAAATTATAATTATTTT
1 TAAATTTAATTATAATTATTTT
* **
9039106 TAAATATGTAATTATCACAATTTT
1 TAAAT-T-TAATTATAATTATTTT
*
9039130 T--ATTAAATTATAATTATTTT
1 TAAATTTAATTATAATTATTTT
9039150 TAAATGTATAATTAT
1 TAAAT-T-TAATTAT
9039165 TACTCCTATT
Statistics
Matches: 44, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
20 13 0.30
21 1 0.02
22 9 0.20
23 2 0.05
24 19 0.43
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TAAATTTAATTATAATTATTTT
Found at i:9039148 original size:20 final size:20
Alignment explanation
Indices: 9039087--9039151 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 20
9039077 ATAACGGTAA
9039087 ATTAAATTATAATTATTTTT
1 ATTAAATTATAATTATTTTT
* * **
9039107 AAATATGTAATTATCACAATTTTT
1 --AT-T-AAATTATAATTATTTTT
9039131 ATTAAATTATAATTATTTTT
1 ATTAAATTATAATTATTTTT
9039151 A
1 A
9039152 AATGTATAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
20 14 0.42
21 1 0.03
22 4 0.12
23 1 0.03
24 13 0.39
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTAAATTATAATTATTTTT
Found at i:9039161 original size:18 final size:17
Alignment explanation
Indices: 9039132--9039165 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
9039122 ACAATTTTTA
9039132 TTAAATTATAATTATTT
1 TTAAATTATAATTATTT
9039149 TTAAATGTATAATTATT
1 TTAAAT-TATAATTATT
9039166 ACTCCTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTAAATTATAATTATTT
Found at i:9047613 original size:24 final size:23
Alignment explanation
Indices: 9047564--9047613 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
9047554 TTAATATATG
* *
9047564 AAATATAAATTTTAAATTTTTTT
1 AAATATAAATATTAAATTTTTAT
9047587 AAATAATAAATATT-AATTATTTAT
1 AAAT-ATAAATATTAAATT-TTTAT
9047611 AAA
1 AAA
9047614 ATTTAATTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATAAATATTAAATTTTTAT
Found at i:9049671 original size:11 final size:11
Alignment explanation
Indices: 9049606--9049670 Score: 84
Period size: 11 Copynumber: 6.1 Consensus size: 11
9049596 ATATATTTTT
9049606 ATATTTTT-AA
1 ATATTTTTAAA
9049616 A-A-TTTTAAA
1 ATATTTTTAAA
9049625 ATATTTTTAAA
1 ATATTTTTAAA
9049636 ATATTTTTAAA
1 ATATTTTTAAA
9049647 ATACTTTTTTAAA
1 ATA--TTTTTAAA
9049660 AT-TTTTTAAA
1 ATATTTTTAAA
9049670 A
1 A
9049671 AAATTGGTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
8 4 0.08
9 4 0.08
10 11 0.22
11 21 0.42
13 10 0.20
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.54
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:9050615 original size:59 final size:60
Alignment explanation
Indices: 9050535--9050696 Score: 159
Period size: 59 Copynumber: 2.7 Consensus size: 60
9050525 ACTTTAACTT
* * *
9050535 TTCAATATTTACACATTTTATTAATTTGGTCTTAATTCTAAAA-ATTGAATAAATTTAGCC
1 TTCAATATTTACAAAATTTATT-ATTTAGTCTTAATTCTAAAACATTGAATAAATTTAGCC
* * * *
9050595 TTCAATA-TTACAAAATTTATTATTTAGTTTTAATTCTAAAACATTTAATAACTTTAGTC
1 TTCAATATTTACAAAATTTATTATTTAGTCTTAATTCTAAAACATTGAATAAATTTAGCC
** ** * *
9050654 TGGAACGTTTACAAAATTTATCAATTTAAT-TATAATTCTAAAA
1 TTCAATATTTACAAAATTTAT-TATTTAGTCT-TAATTCTAAAA
9050697 GTTAAAAAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
58 18 0.21
59 29 0.34
60 21 0.25
61 17 0.20
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.44
Consensus pattern (60 bp):
TTCAATATTTACAAAATTTATTATTTAGTCTTAATTCTAAAACATTGAATAAATTTAGCC
Found at i:9051227 original size:28 final size:27
Alignment explanation
Indices: 9051196--9051264 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
9051186 TTTTCTCTTT
* * *
9051196 TCAATTTTTAGATTTAGAATTAAATTGA
1 TCAATTTTTAAAATTAGAACTAAA-TGA
9051224 TCAATTTTTTAAAATTAGAACTAAATGA
1 TCAA-TTTTTAAAATTAGAACTAAATGA
*
9051252 TAAATTTTGTAAA
1 TCAATTTT-TAAA
9051265 CATTGAAGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
27 4 0.11
28 14 0.40
29 17 0.49
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (27 bp):
TCAATTTTTAAAATTAGAACTAAATGA
Found at i:9051241 original size:29 final size:28
Alignment explanation
Indices: 9051196--9051264 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
9051186 TTTTCTCTTT
* * *
9051196 TCAA-TTTTTAGATTTAGAATTAAATTGA
1 TCAATTTTTTAAAATTAGAACTAAA-TGA
9051224 TCAATTTTTTAAAATTAGAACTAAATGA
1 TCAATTTTTTAAAATTAGAACTAAATGA
* *
9051252 TAAATTTTGTAAA
1 TCAATTTTTTAAA
9051265 CATTGAAGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 18 0.51
29 17 0.49
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
TCAATTTTTTAAAATTAGAACTAAATGA
Found at i:9055579 original size:46 final size:45
Alignment explanation
Indices: 9055512--9055755 Score: 303
Period size: 46 Copynumber: 5.6 Consensus size: 45
9055502 TTTGAGTACT
* *
9055512 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
9055558 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
9055594 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
9055640 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
9055686 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
9055731 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
9055756 ATCTTACGTA
Statistics
Matches: 177, Mismatches: 11, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
36 28 0.16
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.02
43 15 0.08
44 3 0.02
45 20 0.11
46 101 0.57
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:9055594 original size:36 final size:36
Alignment explanation
Indices: 9055548--9055620 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
9055538 GGTAGCTTTA
9055548 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
9055584 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
9055620 G
1 G
9055621 TTAGCCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:9055615 original size:82 final size:85
Alignment explanation
Indices: 9055512--9055755 Score: 311
Period size: 82 Copynumber: 2.8 Consensus size: 85
9055502 TTTGAGTACT
* *
9055512 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAAGTGAAAAAGT
9055577 GATAAGTG-C-TA-T-ACTTA
65 GATAAGTGCCTTACTAACTTA
* *
9055594 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAAGTGAAAAAGT
9055659 GATAAGTGGTAGCCTTAGCTACACTTA
65 GATAA---GT-GCCTTA-CTA-ACTTA
* * *
9055686 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATC-AG-GGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
9055749 ATAAGTG
66 ATAAGTG
9055756 ATCTTACGTA
Statistics
Matches: 142, Mismatches: 9, Indels: 19
0.84 0.05 0.11
Matches are distributed among these distances:
82 64 0.45
83 1 0.01
85 3 0.02
86 3 0.02
87 1 0.01
88 2 0.01
89 10 0.07
90 3 0.02
91 20 0.14
92 35 0.25
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.29
Consensus pattern (85 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAAAAAGTG
ATAAGTGCCTTACTAACTTA
Found at i:9060244 original size:41 final size:41
Alignment explanation
Indices: 9060187--9060346 Score: 232
Period size: 41 Copynumber: 3.9 Consensus size: 41
9060177 AATGAGATAA
* *
9060187 TTCAGACTTTACGTCTAGTAGGCTTGATGCCGATGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
*
9060228 TTCAGACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* *
9060269 TTCAGACTTTACGTCTAGCAGGCTTGACGCCGGTGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* * *
9060310 TTCGGACTTTACGTCTAGTAGGC-TAATTGCCGGTGAA
1 TTCAGACTTTACGTCTAGCAGGCTTGA-TGCCGGTGAA
9060347 TCTGTTGAAA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
40 2 0.02
41 106 0.98
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:9062454 original size:23 final size:23
Alignment explanation
Indices: 9062424--9062469 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9062414 TGCACTTTCT
*
9062424 TTTAACAAGTCCTAAGTTTGAAA
1 TTTAACAAGTCCTAAGTTCGAAA
9062447 TTTAACAAGTCCTAAGTTCGAAA
1 TTTAACAAGTCCTAAGTTCGAAA
9062470 CCCTTCCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (23 bp):
TTTAACAAGTCCTAAGTTCGAAA
Found at i:9062652 original size:22 final size:21
Alignment explanation
Indices: 9062627--9062685 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
9062617 ATTTTTAATT
9062627 AATAACTTATTTATATAGAT-AA
1 AATAA-TTATTTATATA-ATGAA
* *
9062649 AATAATAAATTTGTATAATGAA
1 AATAAT-TATTTATATAATGAA
9062671 AATAATT-TTTATATA
1 AATAATTATTTATATA
9062686 TCATTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 21 0.68
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (21 bp):
AATAATTATTTATATAATGAA
Found at i:9062917 original size:68 final size:68
Alignment explanation
Indices: 9062786--9062914 Score: 181
Period size: 68 Copynumber: 1.9 Consensus size: 68
9062776 TTTTTTAACG
* *
9062786 TACATTGTGAGTATGGTAAATTCTAATATTGTAAAAATAATTATTTCAAATATTATTATATTTTC
1 TACATTGTGAGTATGGTAAATTCTAATATTGAAAAAATAATTATTTCAAATATCATTATATTTTC
9062851 CCC
66 CCC
*
9062854 TACATTGTGAGTATGGTAAA-TCTAATATAT-AAAATCAATTAATTATTTCGAATATCATTAT
1 TACATTGTGAGTATGGTAAATTCTAATAT-TGAAAA--AA-TAATTATTTCAAATATCATTAT
9062915 TTTAGTAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
67 11 0.20
68 21 0.39
69 2 0.04
70 20 0.37
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (68 bp):
TACATTGTGAGTATGGTAAATTCTAATATTGAAAAAATAATTATTTCAAATATCATTATATTTTC
CCC
Found at i:9063145 original size:70 final size:69
Alignment explanation
Indices: 9063041--9063183 Score: 157
Period size: 70 Copynumber: 2.1 Consensus size: 69
9063031 TTTCACATAT
*
9063041 AAAAACAATGGCATTTGAAATAATTAATTAATTTT-T-ATATTAAAAATTGCTA-TACCCACAAT
1 AAAAACAATGACATTTGAAATAATTAATTAATTTTATAATATT-AAAATT--TACTA-CCACAAT
*
9063103 GTAGGTGA
62 GTACGTGA
* ** * * *
9063111 AAAAATAATGACATTTGAAATGGTTATTTGATTTTATAATATTAGAATTTACTACCACAATGTAC
1 AAAAACAATGACATTTGAAATAATTAATTAATTTTATAATATTAAAATTTACTACCACAATGTAC
9063176 GTGA
66 GTGA
9063180 AAAA
1 AAAA
9063184 TAAATATTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
69 20 0.32
70 31 0.50
71 6 0.10
72 5 0.08
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (69 bp):
AAAAACAATGACATTTGAAATAATTAATTAATTTTATAATATTAAAATTTACTACCACAATGTAC
GTGA
Found at i:9065106 original size:110 final size:109
Alignment explanation
Indices: 9064722--9065778 Score: 1458
Period size: 105 Copynumber: 9.6 Consensus size: 109
9064712 TACGAAAAAG
* * *
9064722 AAAAAAAC-AAAAAAA-AAAAAAAAATTTGGGTGCTGACCTGTCAATGGCCGGCACCCAATACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
9064785 AGTACAAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATAT
66 AGTAC-AAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATAT
* * *
9064830 AAAAATATGAAAAAAAATAAAATAAAAAAAATTGGGTGCTGGCCTGTCAATTGCCGGCACCCAGT
1 AAAAATACG-AAAAAAAT--AA-AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT
****
9064895 ACACAGTACAAAAAAAA---A-AAAATTTTCGTGTCAGAATCAGATAT
62 ACACAGTACAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATAT
* *
9064939 AAAAATACGAAAAAATTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
* * *
9065004 AGTACAAAAAAAATTTATTTTTTTTTCATGTTAGAATAAGATAT
66 AGTACAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATAT
*
9065048 AAAAATATGAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
1 AAAAATACGAAAAAAATAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
9065113 CAGTACAAAAAAAATTTATTTATTTTTTCGTGTCAGAATCAGATAT
65 CAGTACAAAAAAAATTTATTT-TTTTTTCGTGTCAGAATCAGATAT
*
9065159 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
* *
9065224 AGTACAAAAAAAAATTTTTTATTTTTTTTCATGTCAGAATCAGATAT
66 AGTAC-AAAAAAAA-TTTAT-TTTTTTTTCGTGTCAGAATCAGATAT
9065271 AAAAATACGAAAAAAATAAAAAAAAA-TTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
9065335 AGTAC-AAAAAAATTTA--TTTTTTTCGTGTCAGAATCAGATAT
66 AGTACAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATAT
* *
9065376 AAAAATACGAAAAAAAT-AAAAAAAATTTGGGTGCTGGTCTGTCAATGGCCGACACCCAGTACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
* *
9065440 AGTAC-AAAAAAATTT-TATTTTTTTCGTGTCAGAATCAAATAT
66 AGTACAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATAT
9065482 AAAAATACGAAAAAAATAAAAAAAACAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACC
1 AAAAATACGAAAAAAAT------AA-AAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACC
** * *
9065547 CAGTACACAGTACAAAAATATTTTTTTTAATTTTTTTCGTGTCAGAATCAAATAT
58 CAGTACACAGTACAAAAA-AAATTTATT--TTTTTTTCGTGTCAGAATCAGATAT
* * *
9065602 AAAAATACGAAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATTGTCGGCAACCAGT
1 AAAAATACG-AAAAAAAT--AAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT
*** *
9065667 ACACAGTAC-AAAATTTTTTTTTATTTTTTTCGTGTCAGAATCAGATAT
62 ACACAGTACAAAAAAAATTTATT-TTTTTTTCGTGTCAGAATCAGATAT
* *
9065715 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCGAGTACA
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
9065779 ATCATATATA
Statistics
Matches: 863, Mismatches: 53, Indels: 65
0.88 0.05 0.07
Matches are distributed among these distances:
104 8 0.01
105 148 0.17
106 43 0.05
108 17 0.02
109 113 0.13
110 118 0.14
111 96 0.11
112 61 0.07
113 47 0.05
114 62 0.07
115 46 0.05
116 53 0.06
117 8 0.01
118 1 0.00
120 34 0.04
121 8 0.01
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (109 bp):
AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
AGTACAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATAT
Found at i:9065173 original size:220 final size:217
Alignment explanation
Indices: 9064722--9065778 Score: 1463
Period size: 220 Copynumber: 4.8 Consensus size: 217
9064712 TACGAAAAAG
* * *
9064722 AAAAAAAC-AAAAAAA-AAAAAAAAATTTGGGTGCTGACCTGTCAATGGCCGGCACCCAATACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
*
9064785 AGTACAAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATATAAAAATATGAAAAAAAATAA
66 AGTAC-AAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATATAAAAATACG-AAAAAAAT--
* *
9064850 AATAAAAAAAATTGGGTGCTGGCCTGTCAATTGCCGGCACCCAGTACACAGTACAAAAAAAA---
127 AA-AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAAAAATTT
* **
9064912 AAAAATTTTCGTGTCAGAATCAGATAT
191 ATATTTTTTCGTGTCAGAATCAGATAT
* *
9064939 AAAAATACGAAAAAATTAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
* * * *
9065004 AGTACAAAAAAAATTTATTTTTTTTTCATGTTAGAATAAGATATAAAAATATGAAAAAAATAAAA
66 AGTACAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAA
9065069 AAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAAAAATTTATTT
131 AAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAAAAATTTA--T
9065134 ATTTTTTCGTGTCAGAATCAGATAT
193 ATTTTTTCGTGTCAGAATCAGATAT
*
9065159 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGCACCCAGTACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
* *
9065224 AGTACAAAAAAAAATTTTTTATTTTTTTTCATGTCAGAATCAGATATAAAAATACGAAAAAAATA
66 AGTAC-AAAAAAAA-TTTAT-TTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATA
9065289 AAAAAAAA-TTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AAAAAAATTTAT
128 AAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAAAAATTTAT
9065352 -TTTTTTCGTGTCAGAATCAGATAT
193 ATTTTTTCGTGTCAGAATCAGATAT
* *
9065376 AAAAATACGAAAAAAAT-AAAAAAAATTTGGGTGCTGGTCTGTCAATGGCCGACACCCAGTACAC
1 AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
* *
9065440 AGTAC-AAAAAAATTT-TATTTTTTTCGTGTCAGAATCAAATATAAAAATACGAAAAAAATAAAA
66 AGTACAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAT----
9065503 AAAACAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAATAT
127 --AA-AAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAA-A-
** * *
9065568 TTTTTTTAATTTTTTTCGTGTCAGAATCAAATAT
186 AATTTAT-A-TTTTTTCGTGTCAGAATCAGATAT
* * *
9065602 AAAAATACGAAAAAAAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATTGTCGGCAACCAGT
1 AAAAATACG-AAAAAAAT--AAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT
*** *
9065667 ACACAGTAC-AAAATTTTTTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAA
62 ACACAGTACAAAAAAAATTTATT-TTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAA
* *
9065731 TAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCTGGCACCGAGTACA
126 TAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
9065779 ATCATATATA
Statistics
Matches: 765, Mismatches: 42, Indels: 58
0.88 0.05 0.07
Matches are distributed among these distances:
211 40 0.05
212 1 0.00
213 3 0.00
214 14 0.02
215 52 0.07
216 49 0.06
217 58 0.08
218 60 0.08
219 50 0.07
220 144 0.19
221 55 0.07
222 5 0.01
223 53 0.07
225 36 0.05
226 39 0.05
227 10 0.01
230 8 0.01
231 46 0.06
232 1 0.00
233 41 0.05
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (217 bp):
AAAAATACGAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAC
AGTACAAAAAAAATTTATTTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAA
AAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAAAAATTTATATT
TTTTCGTGTCAGAATCAGATAT
Found at i:9065511 original size:17 final size:19
Alignment explanation
Indices: 9065476--9065515 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
9065466 TGTCAGAATC
*
9065476 AAATATAAAAATACGAAAA
1 AAATATAAAAAAACGAAAA
9065495 AAATA-AAAAAAAC-AAAA
1 AAATATAAAAAAACGAAAA
9065512 AAAT
1 AAAT
9065516 TTTGGGTGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 7 0.35
19 5 0.25
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (19 bp):
AAATATAAAAAAACGAAAA
Found at i:9065740 original size:116 final size:116
Alignment explanation
Indices: 9065385--9065778 Score: 544
Period size: 116 Copynumber: 3.5 Consensus size: 116
9065375 TAAAAATACG
* *
9065385 AAAAAAATAAAAAAAA-TTTGGGTGCTGGTCTGTCAATGGCCGACACCCAGTACACAGTACAAAA
1 AAAAAAA-AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAA
***
9065449 --AAATTTTATTTTTTTCGTGTCAGAATCAAATATAAAAATACGAAAAAAAT
65 TTTTTTTTTATTTTTTTCGTGTCAGAATCAAATATAAAAATACGAAAAAAAT
9065499 AAAAAAAACAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAA
1 AAAAAAAA-AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AAA
9065564 ATATTTTTTTTAATTTTTTTCGTGTCAGAATCAAATATAAAAATACG--AAAAA-
64 AT-TTTTTTTT-ATTTTTTTCGTGTCAGAATCAAATATAAAAATACGAAAAAAAT
* * * *
9065616 AAATAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATTGTCGGCAACCAGTACACAGTACAAAAT
1 AAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAT
*
9065681 TTTTTTTTATTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAT
66 TTTTTTTTATTTTTTTCGTGTCAGAATCAAATATAAAAATACGAAAAAAAT
* *
9065732 ------AAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCTGGCACCGAGTACA
1 AAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
9065779 ATCATATATA
Statistics
Matches: 255, Mismatches: 15, Indels: 25
0.86 0.05 0.08
Matches are distributed among these distances:
109 33 0.13
110 9 0.04
113 35 0.14
114 22 0.09
115 52 0.20
116 53 0.21
117 7 0.03
118 5 0.02
119 4 0.02
120 35 0.14
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (116 bp):
AAAAAAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAT
TTTTTTTTATTTTTTTCGTGTCAGAATCAAATATAAAAATACGAAAAAAAT
Found at i:9068725 original size:107 final size:109
Alignment explanation
Indices: 9068570--9068785 Score: 400
Period size: 107 Copynumber: 2.0 Consensus size: 109
9068560 TTATACCGAA
*
9068570 ATTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATTAAAAAAAAATTGTACTGTG-A
1 ATTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAAAAAAAATTGTACTGTGTA
9068634 CTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTT
66 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT
9068677 ATTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAAAAAAAATTGTACTGTGTA
1 ATTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAAAAAAAATTGTACTGTGTA
*
9068742 CTGGGTGCCGGCTATTGACAGGCCAGCACCCAAAATTTTTTTTT
66 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT
9068786 TGTTTTTTTC
Statistics
Matches: 105, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 62 0.59
108 31 0.30
109 12 0.11
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (109 bp):
ATTTTTTCGTATTTTTATATCTGATTCTGACACGAAAAAAAATAAAAAAAAAATTGTACTGTGTA
CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTT
Found at i:9071264 original size:36 final size:36
Alignment explanation
Indices: 9071216--9071288 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
9071206 TCTCCCCGAG
* * *
9071216 ACGAAGGCGCTTTGATTTTGATTTATACACTCGGGA
1 ACGAAGGCGCTTTGACTTTGACTTATACAATCGGGA
*
9071252 ACGAAGGTGCTTTGACTTTGACTTATACAATCGGGA
1 ACGAAGGCGCTTTGACTTTGACTTATACAATCGGGA
9071288 A
1 A
9071289 GGATAGCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (36 bp):
ACGAAGGCGCTTTGACTTTGACTTATACAATCGGGA
Found at i:9074176 original size:14 final size:14
Alignment explanation
Indices: 9074157--9074196 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9074147 TTGATAGCCA
9074157 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
9074171 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
9074185 GGAAAATGTTTT
1 GTAAAATGTTTT
9074197 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:9074205 original size:20 final size:20
Alignment explanation
Indices: 9074180--9074219 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9074170 CGTAAAATGA
*
9074180 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
9074200 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
9074220 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:9074209 original size:34 final size:35
Alignment explanation
Indices: 9074165--9074231 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
9074155 CAGTAAAATG
*
9074165 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
9074199 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
9074232 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:9074235 original size:14 final size:15
Alignment explanation
Indices: 9074159--9074235 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
9074149 GATAGCCAGT
* *
9074159 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
9074173 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
9074187 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
9074207 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
9074222 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
9074236 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:9081190 original size:31 final size:34
Alignment explanation
Indices: 9081122--9081191 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 34
9081112 GCCTTTATGT
* * *
9081122 AATTATATATATATCATATTTTTATGTCTTTTTA
1 AATTAAATATATATCATATTTTTAAGTCTTTTAA
*
9081156 AATTAAAT-TATAT-ATTTTTTTAAGT-TTTTAA
1 AATTAAATATATATCATATTTTTAAGTCTTTTAA
9081187 AATTA
1 AATTA
9081192 TAGAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 10 0.31
32 10 0.31
33 5 0.16
34 7 0.22
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (34 bp):
AATTAAATATATATCATATTTTTAAGTCTTTTAA
Found at i:9087377 original size:28 final size:27
Alignment explanation
Indices: 9087339--9087409 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
9087329 AAAAATAAAA
*
9087339 ATTTACCAAAATGT-TATAACTTTTTTTT
1 ATTTACCAAAATATATATAA--TTTTTTT
*
9087367 ATTTATCAAAATATATATAATTTTTTT
1 ATTTACCAAAATATATATAATTTTTTT
9087394 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
9087410 TAAAAAAACA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 22 0.56
28 12 0.31
29 5 0.13
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.51
Consensus pattern (27 bp):
ATTTACCAAAATATATATAATTTTTTT
Found at i:9087497 original size:39 final size:39
Alignment explanation
Indices: 9087443--9087525 Score: 157
Period size: 39 Copynumber: 2.1 Consensus size: 39
9087433 GAACCAATTT
9087443 GACAACTCCCTGGTGGAGGGAACACTGTTGGCGGCACCA
1 GACAACTCCCTGGTGGAGGGAACACTGTTGGCGGCACCA
9087482 GACAACTCCCTGGTGGAGGGAACACTGTTGGCGGCACCA
1 GACAACTCCCTGGTGGAGGGAACACTGTTGGCGGCACCA
*
9087521 AACAA
1 GACAA
9087526 GGGAATCCTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.27, C:0.28, G:0.31, T:0.14
Consensus pattern (39 bp):
GACAACTCCCTGGTGGAGGGAACACTGTTGGCGGCACCA
Found at i:9087618 original size:18 final size:17
Alignment explanation
Indices: 9087595--9087710 Score: 76
Period size: 18 Copynumber: 6.5 Consensus size: 17
9087585 GAAGGAGAGG
9087595 GGAAG-AAGAAGAAAGAAA
1 GGAAGAAAGAA-AAAG-AA
9087613 GGAAGAAAGAAAAAGAA
1 GGAAGAAAGAAAAAGAA
* *
9087630 GG-A-AAAGGAAAGGAGA
1 GGAAGAAAGAAAAAGA-A
9087646 GGAAAGAAAGAAAAAGAA
1 GG-AAGAAAGAAAAAGAA
** *
9087664 GGAAAGAAAAGGAAAGGGGA
1 GG-AAG-AAA-GAAAAAGAA
*
9087684 GGAAAGAAAGAAAAATAA
1 GG-AAGAAAGAAAAAGAA
9087702 GGAAAGAAA
1 GG-AAGAAA
9087711 AGGAAAGGAG
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
15 9 0.11
16 4 0.05
17 4 0.05
18 31 0.39
19 20 0.25
20 12 0.15
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.01
Consensus pattern (17 bp):
GGAAGAAAGAAAAAGAA
Found at i:9087628 original size:10 final size:10
Alignment explanation
Indices: 9087597--9087668 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
9087587 AGGAGAGGGG
*
9087597 AAGAAGAAGA
1 AAGAAAAAGA
9087607 AAGAAAGGAAGA
1 AAGAAA--AAGA
9087619 AAGAAAAAGA
1 AAGAAAAAGA
* *
9087629 AGGAAAAGGA
1 AAGAAAAAGA
9087639 AAGGAGAGGAAAGA
1 AA-GA-A--AAAGA
9087653 AAGAAAAAGA
1 AAGAAAAAGA
*
9087663 AGGAAA
1 AAGAAA
9087669 GAAAAGGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 28 0.56
11 2 0.04
12 12 0.24
13 2 0.04
14 6 0.12
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Done.