Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 115 of 153
Found at i:36141321 original size:2 final size:2
Alignment explanation
Indices: 36141316--36141341 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36141306 TATTATATAC
36141316 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
36141342 ACACTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:36162191 original size:52 final size:53
Alignment explanation
Indices: 36162129--36162233 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 53
36162119 CTCTCTCTCG
36162129 TTCCCTCAATGTCGGACATGCACCCTTTTTTTATCTCGTTTC-TAAATTTTAT
1 TTCCCTCAATGTCGGACATGCACCCTTTTTTTATCTCGTTTCATAAATTTTAT
* *
36162181 TTCCCTCAATGTCGTACATGCACCCTTTTTTTATCTCGTTTCATAATTTTTAT
1 TTCCCTCAATGTCGGACATGCACCCTTTTTTTATCTCGTTTCATAAATTTTAT
36162234 CCTGAAAATG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
52 41 0.82
53 9 0.18
ACGTcount: A:0.19, C:0.25, G:0.09, T:0.48
Consensus pattern (53 bp):
TTCCCTCAATGTCGGACATGCACCCTTTTTTTATCTCGTTTCATAAATTTTAT
Found at i:36166878 original size:220 final size:219
Alignment explanation
Indices: 36166582--36167026 Score: 651
Period size: 220 Copynumber: 2.0 Consensus size: 219
36166572 AATGCTACGA
* * *
36166582 TTAAAAGAAGGTAGCTTAGCATGTATAATGAAGGTAAGTAGAGCTGATTATGGGACAAGCTTGAT
1 TTAAAAGAAAGTAGCTTAGCATGTATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTGAT
* * * *
36166647 CCATGCAAGGTATTTAGATTAATTTTTTAAGTTTGAGTTCGATCTGAT-TTGAAAAATGGATTTA
66 CCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCT-AAAAATGGATTTA
* * *
36166711 ATTTTTTGTTTACGTTTGGTCCAATTTAAGAAAGGTAAATTC-GGCCCAACCCGGTCCACCCATA
130 ATTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCATA
36166775 TTTAATTTTTTAGATTAGTTTTTAT
195 TTTAATTTTTTAGATTAGTTTTTAT
* * * *
36166800 TTAAAAGAAAGTAGCTTAGCATGTATATAATAAAGGTAACTAGAGGTGATTATGGGCCGAGTTTG
1 TTAAAAGAAAGTAGCTTAGCATG--TATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTG
* * * *
36166865 ATTCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCTACCCGATCCTAGAAATGGGTTT
64 ATCCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCTAAAAATGGATTT
* * *
36166930 AATTTTTTGTTTACGTTCGATCCGATTTAAGAAAGGTAAATCCGGGCCTAACCCGGTCCACTCAT
129 AATTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCAT
*
36166995 ATTTGATTTTTTAGATTAGTTTTTAT
194 ATTTAATTTTTTAGATTAGTTTTTAT
36167021 TTAAAA
1 TTAAAA
36167027 TCATTTAAAA
Statistics
Matches: 201, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
218 22 0.11
220 128 0.64
221 51 0.25
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (219 bp):
TTAAAAGAAAGTAGCTTAGCATGTATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTGAT
CCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCTAAAAATGGATTTAA
TTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCATAT
TTAATTTTTTAGATTAGTTTTTAT
Found at i:36174932 original size:13 final size:14
Alignment explanation
Indices: 36174903--36174935 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
36174893 TATGATTAGT
*
36174903 GTTAATTAGGCTTA
1 GTTAATTAAGCTTA
36174917 GTTAATTAAG-TTA
1 GTTAATTAAGCTTA
36174930 GTTAAT
1 GTTAAT
36174936 ATTAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (14 bp):
GTTAATTAAGCTTA
Found at i:36176939 original size:23 final size:21
Alignment explanation
Indices: 36176913--36176975 Score: 56
Period size: 24 Copynumber: 2.9 Consensus size: 21
36176903 ATATGAAATA
36176913 TAACATACAAAATAATATATAC
1 TAACATA-AAAATAATATATAC
* * *
36176935 TTAACCTAAATAAATATTACATAC
1 -TAACAT-AA-AAATAATATATAC
36176959 TAA-ATAAAAATAATATA
1 TAACATAAAAATAATATA
36176976 AAACCAACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 8 0.25
21 2 0.06
22 1 0.03
23 9 0.28
24 12 0.38
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
TAACATAAAAATAATATATAC
Found at i:36177170 original size:3 final size:3
Alignment explanation
Indices: 36177162--36177208 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
36177152 ATAATCAGAT
* *
36177162 ATA ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
36177207 AT
1 AT
36177209 TAAGTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:36178388 original size:44 final size:44
Alignment explanation
Indices: 36178327--36178598 Score: 329
Period size: 44 Copynumber: 6.2 Consensus size: 44
36178317 TTCGATCTGC
*
36178327 TCCACTACTGCTT-AGGGAGACAGGA-TCTACAATCTTCAACCTAT
1 TCCACTGCTG-TTCAGGGAGACAGGACT-TACAATCTTCAACCTAT
* * * *
36178371 TACACTGCTGTTCAGGGAGATAGGACATACAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
*
36178415 TCCACTGCTGTTCAGGGAG-CTAGGACTTACAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTAT
* * *
36178459 TCCACTACTGTTCAGGGAG-CTAGGACTTGCAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTAT
* * * *
36178503 TCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTTTAACCTAT
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
* *
36178547 TCCACTGCTGGTT-AGGGAGATAGGACTTGCAATCTTCAACCTAT
1 TCCACTGCT-GTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
36178591 TCCACTGC
1 TCCACTGC
36178599 CGTCTAAGGA
Statistics
Matches: 206, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
43 2 0.01
44 202 0.98
45 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
Found at i:36178432 original size:88 final size:88
Alignment explanation
Indices: 36178327--36178598 Score: 372
Period size: 88 Copynumber: 3.1 Consensus size: 88
36178317 TTCGATCTGC
* *
36178327 TCCACTACTGCTT-AGGGAGACAGGA-TCTACAATCTTCAACCTATTACACTGCTGTTCAGGGAG
1 TCCACTGCTG-TTCAGGGAGACAGGACT-TACAATCTTCAACCTATTCCACTGCTGTTCAGGGAG
* *
36178390 ATAGGACATACAATCTTCCACCTAT
64 ATAGGACTTGCAATCTTCCACCTAT
* * *
36178415 TCCACTGCTGTTCAGGGAG-CTAGGACTTACAATCTTCCACCTATTCCACTACTGTTCAGGGAGC
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGA
36178479 TAGGACTTGCAATCTTCCACCTAT
65 TAGGACTTGCAATCTTCCACCTAT
* * * *
36178503 TCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTTTAACCTATTCCACTGCTGGTT-AGGGAGA
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTATTCCACTGCT-GTTCAGGGAGA
*
36178567 TAGGACTTGCAATCTTCAACCTAT
65 TAGGACTTGCAATCTTCCACCTAT
36178591 TCCACTGC
1 TCCACTGC
36178599 CGTCTAAGGA
Statistics
Matches: 164, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
87 3 0.02
88 157 0.96
89 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (88 bp):
TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGAT
AGGACTTGCAATCTTCCACCTAT
Found at i:36178552 original size:132 final size:132
Alignment explanation
Indices: 36178327--36178596 Score: 377
Period size: 132 Copynumber: 2.0 Consensus size: 132
36178317 TTCGATCTGC
*
36178327 TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGTTCAGGGAGAT
1 TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGGTCAGGGAGAT
* * *
36178392 AGGACATACAATCTTCCACCTATTCCACTGCT-GTTCAGGGAGCTAGGACTTACAATCTTCCACC
66 AGGACATACAATCTTCAACCTATTCCACTGCTGGTT-AGGGAGATAGGACTTACAATCTTCAACC
36178456 TAT
130 TAT
* * *
36178459 TCCACTACTG-TTCAGGGAG-CTAGGA-CTTGCAATCTTCCACCTATTCCACTGCTGGTCAGGGA
1 TCCACTACTGCTT-AGGGAGAC-AGGATC-TACAATCTTCAACCTATTACACTGCTGGTCAGGGA
* * * *
36178521 GATAGGACTTGCAATCTTTAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTGCAATCTTCAA
63 GATAGGACATACAATCTTCAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTACAATCTTCAA
36178586 CCTAT
128 CCTAT
36178591 TCCACT
1 TCCACT
36178597 GCCGTCTAAG
Statistics
Matches: 123, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
131 4 0.03
132 116 0.94
133 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGGTCAGGGAGAT
AGGACATACAATCTTCAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTACAATCTTCAACCT
AT
Found at i:36178610 original size:44 final size:44
Alignment explanation
Indices: 36178356--36178615 Score: 362
Period size: 44 Copynumber: 5.9 Consensus size: 44
36178346 ACAGGATCTA
* * *
36178356 CAATCTTCAACCTATTACACTGCTGTTCAGGGAGATAGGACATA
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* * *
36178400 CAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACTTA
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* * *
36178444 CAATCTTCCACCTATTCCACTACTGTTCAGGGAGCTAGGACTTG
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* *
36178488 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTG
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
*
36178532 CAATCTTTAACCTATTCCACTGCTGGTT-AGGGAGATAGGACTTG
1 CAATCTTCAACCTATTCCACTGCT-GTTCAGGGAGATAGGACTTG
* *
36178576 CAATCTTCAACCTATTCCACTGCCG-TCTAAGGAGATAGGA
1 CAATCTTCAACCTATTCCACTGCTGTTC-AGGGAGATAGGA
36178616 ATAGTGGCTT
Statistics
Matches: 198, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 194 0.98
45 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (44 bp):
CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
Found at i:36178767 original size:44 final size:44
Alignment explanation
Indices: 36178666--36178767 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
36178656 AAGATTTGCC
* *
36178666 ATCTTTGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGTA
* * * *
36178710 ATTTTCAACCTGCTCCACTACTGCTTAGGGAGATAAG-GCT-TACA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGT--A
36178754 ATCTTCGATCTGCT
1 ATCTTCGATCTGCT
36178768 TCACCGTTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.02
43 2 0.04
44 44 0.94
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (44 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGTA
Found at i:36178837 original size:89 final size:88
Alignment explanation
Indices: 36178700--36178893 Score: 192
Period size: 88 Copynumber: 2.2 Consensus size: 88
36178690 TTAGGAAGAT
* * ** * * *
36178700 AAGATCTGTAATTTTCAACCTGCTCCACTACTGCTTAGGGAGATAAGGCTTACAATCTTCGATCT
1 AAGATCTGTTATTTTCAACCTGCTCCACTACTACCCAAGGAGACAAGGCTGAC-ATCTTCGATCT
* * *
36178765 GCTTCACCGTTAGTACAGGGAGGC
65 GCTTCACCGTCAGTACAAGAAGGC
* * * *
36178789 AAGATCTGTTATTTTCAACCTGCTCCGCTA-TAACCCAAGGAGGCAAGGCTGGCGTCTTCGATCT
1 AAGATCTGTTATTTTCAACCTGCTCCACTACT-ACCCAAGGAGACAAGGCTGACATCTTCGATCT
* * * *
36178853 GCTTCGCTGTCGGTGCAAGAAGGC
65 GCTTCACCGTCAGTACAAGAAGGC
*
36178877 AAGATCTGTTATCTTCA
1 AAGATCTGTTATTTTCA
36178894 CTGATCTGTT
Statistics
Matches: 85, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
88 44 0.52
89 41 0.48
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (88 bp):
AAGATCTGTTATTTTCAACCTGCTCCACTACTACCCAAGGAGACAAGGCTGACATCTTCGATCTG
CTTCACCGTCAGTACAAGAAGGC
Found at i:36185307 original size:31 final size:31
Alignment explanation
Indices: 36185234--36185310 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
36185224 ACTAGAATGA
* * *
36185234 GTATGATATGAACTACTAATTGACATGTGAT
1 GTATGATATGAATTGCTAAATGACATGTGAT
* * *
36185265 ATGTGATATGAATTGCTAAATGATATGTGAT
1 GTATGATATGAATTGCTAAATGACATGTGAT
*
36185296 GTATGAAATGAATTG
1 GTATGATATGAATTG
36185311 ATGATGAGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (31 bp):
GTATGATATGAATTGCTAAATGACATGTGAT
Found at i:36187009 original size:25 final size:25
Alignment explanation
Indices: 36186975--36187028 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
36186965 ATGAAAGGAA
36186975 TGTACCAACGTATTACAGATCAAGT
1 TGTACCAACGTATTACAGATCAAGT
36187000 TGTACCAACGTATTACAGATCAAGT
1 TGTACCAACGTATTACAGATCAAGT
36187025 TGTA
1 TGTA
36187029 GTCAAGCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (25 bp):
TGTACCAACGTATTACAGATCAAGT
Found at i:36188246 original size:46 final size:45
Alignment explanation
Indices: 36188150--36188251 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 45
36188140 TTTTCATAAC
* * *
36188150 ATATGATTCAATACTAAAATCATTCCAAACTAACATGATAAGCAAT
1 ATATGA-TCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
* ** *
36188196 ATATGACTCAATACTAAAATCATTCCCAACTAGTATAACAAGTAAA
1 ATATGA-TCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
36188242 ATATGATCAA
1 ATATGATCAA
36188252 AATTGTAACA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 4 0.08
46 44 0.92
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (45 bp):
ATATGATCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
Found at i:36191369 original size:84 final size:84
Alignment explanation
Indices: 36191257--36191581 Score: 551
Period size: 84 Copynumber: 3.9 Consensus size: 84
36191247 CGTAAAAAAT
* *
36191257 AAAACACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTTGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
36191322 AATGGTCTATGTTTTTAGC
66 AATGGTCTATGTTTTTAGC
*
36191341 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTTGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
**
36191406 AATGGTCTGCGTTTTTAGC
66 AATGGTCTATGTTTTTAGC
* * * *
36191425 AAAATACAATGGCGTCGTTTATTGGCCTTCGGTGGCCTTAGTGGCGTTTTTTGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
36191490 AATGGTCTATGTTTTTAGC
66 AATGGTCTATGTTTTTAGC
* *
36191509 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
36191574 AATGGTCT
66 AATGGTCT
36191582 GTATTTGTAG
Statistics
Matches: 227, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 227 1.00
ACGTcount: A:0.16, C:0.21, G:0.28, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
AATGGTCTATGTTTTTAGC
Found at i:36191545 original size:168 final size:168
Alignment explanation
Indices: 36191257--36192333 Score: 862
Period size: 168 Copynumber: 6.0 Consensus size: 168
36191247 CGTAAAAAAT
* * *
36191257 AAAACACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTTGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
* * *
36191322 AATGGTCTATGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTTGTGGCA
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
* *
36191387 TTTTTGGTCTAGCGCCGCTAATGGTCTGCGTTTTTAGC
131 TTTTTGGTCTAGCGTCGCTAATGGTCTGTGTTTTTAGC
* * *
36191425 AAAATACAATGGCGTCGTTTATTGGCCTTCGGTGGCCTTAGTGGCGTTTTTTGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
*
36191490 AATGGTCTATGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
* *
36191555 TTTTTGGTCTAGCGTCGCTAATGGTCTGTATTTGTAGCGGCGTTTTC
131 TTTTTGGTCTAGCGTCGCTAATGGTCTGTGTTTTTA-----G----C
* * ** * * * * *
36191602 AGAAA-A-AACGCCG-CAAAAAATAAAATATA-ACGTCGTCGTTTAGTGGCCTTAGTGGCATTTT
1 A-AAATACAACGGCGTC-----GT----T-TAGTGGCCTTCG-GT-GG--CCTTAGTGGCGTTTT
* * * * *
36191663 TGGTCTAGTGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTAAAA-AAAACGCCG-CAAAAAAT
51 TGGTCTAGCGCCGCTAATGGTCTGTGTTTTTA---GC-----AAAATACAACGGCGTC-----GT
* ** * * * * **
36191726 AAAATACAACGG-CGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGC
103 ----T-TAGTGGCCTTCG-GT-G--GCCTT-AGTGG-C---GT----TTTTGGTC-TAGCGTCGC
36191790 TAATGGTCTGTGTTTTTAGC
149 TAATGGTCTGTGTTTTTAGC
*
36191810 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
36191875 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
36191940 TTTTTGGTCTAGCGTCGCTAATGGTCTGTGTTTTTAGC
131 TTTTTGGTCTAGCGTCGCTAATGGTCTGTGTTTTTAGC
*
36191978 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
36192043 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
* *
36192108 TTTTTGGTCTAGCGTCGCTAATGGTCTGTATTTGTAGCGGCGTTTTC
131 TTTTTGGTCTAGCGTCGCTAATGGTCTGTGTTTTTA-----G----C
* * ** * * * * *
36192155 AGAAA-A-AACGCCG-CAAAAAATAAAATATA-ACGTCGTCGTTTAGTGGCCTTAGTGGCATTTT
1 A-AAATACAACGGCGTC-----GT----T-TAGTGGCCTTCG-GT-GG--CCTTAGTGGCGTTTT
*
36192216 TGGTCTAGCGCCGCTAATGGTCTGTATTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCG
51 TGGTCTAGCGCCGCTAATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCG
* * * *
36192281 GTGGCCTTAGTGGCGTTTTTGGTCTAGGGCCACTAATGGTTTGTGTTTTTAGC
116 GTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCTAATGGTCTGTGTTTTTAGC
36192334 GGCGTTTTCA
Statistics
Matches: 739, Mismatches: 83, Indels: 163
0.75 0.08 0.17
Matches are distributed among these distances:
168 347 0.47
169 5 0.01
173 4 0.01
175 2 0.00
176 12 0.02
177 10 0.01
178 11 0.01
179 1 0.00
180 3 0.00
181 4 0.01
182 5 0.01
183 1 0.00
184 12 0.02
185 6 0.01
186 3 0.00
188 164 0.22
189 4 0.01
190 7 0.01
191 3 0.00
194 3 0.00
195 7 0.01
196 4 0.01
197 43 0.06
199 2 0.00
200 3 0.00
201 6 0.01
203 5 0.01
204 4 0.01
205 2 0.00
207 8 0.01
208 7 0.01
209 7 0.01
210 1 0.00
212 3 0.00
216 5 0.01
217 25 0.03
ACGTcount: A:0.19, C:0.19, G:0.28, T:0.34
Consensus pattern (168 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
TTTTTGGTCTAGCGTCGCTAATGGTCTGTGTTTTTAGC
Found at i:36191761 original size:104 final size:104
Alignment explanation
Indices: 36191540--36191754 Score: 342
Period size: 104 Copynumber: 2.1 Consensus size: 104
36191530 GTGGCCTTCG
* * * *
36191540 GTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCTAATGGTCTGTATTTGTAGCGGCGTTTTCAGA
1 GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTATGTATTTGTAGCGGCGTTTTCAAA
* *
36191605 AAAAACGCCGCAAAAAATAAAATATAACGTCGTCGTTTA
66 AAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTA
* * *
36191644 GTGGCCTTAGTGGCATTTTTGGTCTAGTGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTT-AAA
1 GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTATGTATTTGTAGCGGCGTTTTCAAA
36191708 AAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTA
66 AAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTA
36191747 GTGGCCTT
1 GTGGCCTT
36191755 CGGTGGCCTT
Statistics
Matches: 102, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 47 0.46
104 55 0.54
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (104 bp):
GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTATGTATTTGTAGCGGCGTTTTCAAA
AAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTA
Found at i:36191828 original size:84 final size:84
Alignment explanation
Indices: 36191726--36192145 Score: 822
Period size: 84 Copynumber: 5.0 Consensus size: 84
36191716 CGCAAAAAAT
36191726 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
36191791 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
36191810 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
36191875 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
36191894 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
36191959 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
36191978 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
36192043 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
36192062 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
* *
36192127 AATGGTCTGTATTTGTAGC
66 AATGGTCTGTGTTTTTAGC
36192146 GGCGTTTTCA
Statistics
Matches: 334, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 334 1.00
ACGTcount: A:0.16, C:0.19, G:0.30, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
AATGGTCTGTGTTTTTAGC
Found at i:36192336 original size:188 final size:188
Alignment explanation
Indices: 36192009--36192392 Score: 642
Period size: 188 Copynumber: 2.0 Consensus size: 188
36191999 GTGGCCTTCG
* * *
36192009 GTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCTAATGGTCTGTGTTTTTAGCAAAATACAACGG
1 GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTCTGTATTTTTAGCAAAATACAACGG
* *
36192074 CGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCTAATGGTCTGTAT
66 CGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACTAATGGTCTGTAT
* *
36192139 TTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAATAAAATATAACGTCGTCGTTTA
131 TTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTA
36192197 GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTCTGTATTTTTAGCAAAATACAACGG
1 GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTCTGTATTTTTAGCAAAATACAACGG
* * *
36192262 CGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGGGCCACTAATGGTTTGTGT
66 CGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACTAATGGTCTGTAT
* * * *
36192327 TTTTAGCGGCGTTTTCATAAAAAACGCCGCAAAAATTAAAATACCACGGCGTCGTTTA
131 TTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTA
36192385 GTGGCCTT
1 GTGGCCTT
36192393 CGGTGGCCTT
Statistics
Matches: 182, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
188 182 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.34
Consensus pattern (188 bp):
GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTCTGTATTTTTAGCAAAATACAACGG
CGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACTAATGGTCTGTAT
TTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTA
Found at i:36192412 original size:114 final size:114
Alignment explanation
Indices: 36192250--36192973 Score: 990
Period size: 114 Copynumber: 6.4 Consensus size: 114
36192240 TATTTTTAGC
*
36192250 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGGGCCACT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACT
* * *
36192315 AATGGTTTGTGTTTTTAGCGGCGTTTTCATAAAAAACGCCGCAAAAATT
66 AATGGTCTGTGTTTTTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
* *
36192364 AAAATACCACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGGGCCACT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACT
* * *
36192429 AATGGTTTGTGTTTTTAGCGGCGTTTTCATAAAAAACGCCGCAAAAATT
66 AATGGTCTGTGTTTTTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
* *
36192478 AAAATACCACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGGGCCACT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACT
* * *
36192543 AATGGTTTGTGTTTTTAGCGGCGTTTTCATAAAAAACGCCGCAAAAATT
66 AATGGTCTGTGTTTTTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
* * *
36192592 AAAATACCACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACT
* *
36192657 AATGGTCTGTATTTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
66 AATGGTCTGTGTTTTTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
* * * * *
36192706 AAAATATAACGTCGTCGTTTA----------GTGGCCTTAGTGGCATTTTTGGTCTAGCACCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACT
* * * *
36192761 AATGGTCTGTGTTTTTAGCGGCGTTTTTAGGAATAATGCCGCAAAAAAT
66 AATGGTCTGTGTTTTTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
* * * *
36192810 AAAATACAACGTCGTCGTTTAGTGG-CTAT-GGTGGCATTAGTGGCATTTTTGGTCT-GCCGCCG
1 AAAATACAACGGCGTCGTTTAGTGGCCT-TCGGTGGCCTTAGTGGCGTTTTTGGTCTAG-CGCCA
* * * *
36192872 CTAATTGTCTGTGTTTTTAGCGGCGTTTTCAGGATAAATGCCG-AGAAAAAT
64 CTAATGGTCTGTGTTTTTAGCGGCGTTTTCAGAAAAAACGCCGCA-AAAAAT
*
36192923 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTT
36192974 TTAGAAAAAC
Statistics
Matches: 565, Mismatches: 32, Indels: 26
0.91 0.05 0.04
Matches are distributed among these distances:
104 94 0.17
112 2 0.00
113 98 0.17
114 371 0.66
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (114 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACT
AATGGTCTGTGTTTTTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
Found at i:36192803 original size:104 final size:104
Alignment explanation
Indices: 36192623--36192951 Score: 421
Period size: 104 Copynumber: 3.1 Consensus size: 104
36192613 GTGGCCTTCG
* * * * *
36192623 GTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCTAATGGTCTGTATTTGTAGCGGCGTTTTCAGA
1 GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAGG
* * *
36192688 AAAAACGCCGCAAAAAATAAAATATAACGTCGTCGTTTA
66 AATAATGCCGCAAAAAATAAAATACAACGTCGTCGTTTA
* *
36192727 GTGGCCTTAGTGGCATTTTTGGTCTAGCACCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTTAGG
1 GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAGG
36192792 AATAATGCCGCAAAAAATAAAATACAACGTCGTCGTTTA
66 AATAATGCCGCAAAAAATAAAATACAACGTCGTCGTTTA
*
36192831 GTGGCTATGGTGGCATTAGTGGCATTTTTGGTCT-GCCGCCGCTAATTGTCTGTGTTTTTAGCGG
1 GTGGC--------C-TTAGTGGCATTTTTGGTCTAG-CGCCGCTAATGGTCTGTGTTTTTAGCGG
*
36192895 CGTTTTCAGG-ATAAATGCCG-AGAAAAATAAAATACAACGGCGTCGTTTA
56 CGTTTTCAGGAAT-AATGCCGCA-AAAAATAAAATACAACGTCGTCGTTTA
36192944 GTGGCCTT
1 GTGGCCTT
36192952 CGGTGGCCCT
Statistics
Matches: 199, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
104 101 0.51
105 1 0.01
112 5 0.03
113 92 0.46
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (104 bp):
GTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTCAGG
AATAATGCCGCAAAAAATAAAATACAACGTCGTCGTTTA
Found at i:36192925 original size:113 final size:114
Alignment explanation
Indices: 36192727--36192973 Score: 295
Period size: 113 Copynumber: 2.2 Consensus size: 114
36192717 TCGTCGTTTA
* * * * *
36192727 GTGGCCTTAGTGGCATTTTTGGTCTAGCACCGCTAATGGTCTGTGTTTTTAGCGGCGTTTTTAGG
1 GTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACTAATGGTCTGTGTTTTTAGCGGCGTTTTCAGA
* * *
36192792 AATAATGCCGCAAAAAATAAAATACAACGTCGTCGTTTAGTGG-CTAT-G
66 AAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTAGTGGCCT-TCG
* * * *
36192840 GTGGCATTAGTGGCATTTTTGGTCT-GCCGCCGCTAATTGTCTGTGTTTTTAGCGGCGTTTTCAG
1 GTGGCCTTAGTGGCGTTTTTGGTCTAG-CGCCACTAATGGTCTGTGTTTTTAGCGGCGTTTTCAG
* * *
36192904 GATAAATGCCG-AGAAAAATAAAATACAACGGCGTCGTTTAGTGGCCTTCG
65 AAAAAACGCCGCA-AAAAATAAAATACAACGGCGTCGTTTAGTGGCCTTCG
*
36192954 GTGGCCCTAGTGGCGTTTTT
1 GTGGCCTTAGTGGCGTTTTT
36192974 TTAGAAAAAC
Statistics
Matches: 120, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
112 2 0.02
113 98 0.82
114 20 0.17
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (114 bp):
GTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCACTAATGGTCTGTGTTTTTAGCGGCGTTTTCAGA
AAAAACGCCGCAAAAAATAAAATACAACGGCGTCGTTTAGTGGCCTTCG
Found at i:36193014 original size:67 final size:67
Alignment explanation
Indices: 36192935--36193093 Score: 309
Period size: 67 Copynumber: 2.4 Consensus size: 67
36192925 AATACAACGG
36192935 CGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTTTAGAAAAACACCGCAAAAAATAAAA
1 CGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTTTAGAAAAACACCGCAAAAAATAAAA
36193000 TA
66 TA
36193002 CGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTTTAGAAAAACACCGCAAAAAATAAAA
1 CGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTTTAGAAAAACACCGCAAAAAATAAAA
36193067 TA
66 TA
*
36193069 CGTCGTTTAGTGGCCTTCGATGGCC
1 CGTCGTTTAGTGGCCTTCGGTGGCC
36193094 TTTTACCTTA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 91 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (67 bp):
CGTCGTTTAGTGGCCTTCGGTGGCCCTAGTGGCGTTTTTTTAGAAAAACACCGCAAAAAATAAAA
TA
Found at i:36194329 original size:391 final size:385
Alignment explanation
Indices: 36193608--36194528 Score: 1453
Period size: 391 Copynumber: 2.4 Consensus size: 385
36193598 GTTCATATAA
* * * * * * *
36193608 TTTTAAGGTTTAGGGAGTACTATATATATAT-T-TATATATGGATTATAGATTAGGGGTTTTGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
*
36193671 TAATTAAGGGTTAGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
66 TAATTAAGGGTTGGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
* * *
36193736 AGGGATTT-TGTGTTTAGGGTTTCAGGGGTCGGGTTACAGTTTTGGTTTAGATTATTTTTTTATT
131 AGGGATTTAAG-GTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGGTTTAGATTATTTTTTTATT
* *
36193800 TATATTTTAAATATGTTCTTATGTAATTGTAAAATATGTATAATTTAGGGTTTAATTAATTATGC
195 TATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAA-TAATTATGC
* *
36193865 CTTGAGAGATATATATATAATAGATAGAGTACTTAAATATTTATATCCCTTCAATGGTTAATTTA
259 CTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTTAATTTA
36193930 GGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
324 GGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
36193992 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
* * *
36194057 TAACTAAGGGTTGGTCGGGATTTAAGGTTTAGGGGAGGGGTTTAGGGGTTAGATGTTAGTTGTTA
66 TAATTAAGGGTTGGTCGAGATTTAAGGTTT-----AGGGG-TTAGGGGTTAGATGTTAGTGGTTA
* *
36194122 AAACTTAGGGATTTAAGGTTTAGGGTTTCAGAGGTCTGGTTACAATTTTGGATTTAGATTAATTT
125 AGACTTAGGGATTTAAGGTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGG-TTTAGATT-ATTT
36194187 TTTTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTT-A-AA
188 TTTTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAATAA
36194250 TTATGCCTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTT
253 TTATGCCTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTT
*
36194315 AATTTAGGCGGGTTTAATAAGATTAAGGTTTAACTGAGATTTTGAATTTTATACAATTAATTAAT
318 AATTTAGGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAAT
36194380 GCT
383 GCT
*
36194383 TTTTAATGTTTAGGGAGTGC--TATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
* *
36194446 TAATTAAGGGTTGG-CTGAGATTTAAGATTTAGGGGTTAGGGGTTAGATGCTAGTGGTTAAGACT
66 TAATTAAGGGTTGGTC-GAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACT
* *
36194510 TAGGAATTTAGGGTTTAGG
130 TAGGGATTTAAGGTTTAGG
36194529 AGAGGACCAA
Statistics
Matches: 495, Mismatches: 30, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
383 43 0.09
384 35 0.07
385 1 0.00
386 52 0.11
388 1 0.00
389 68 0.14
391 156 0.32
392 67 0.14
393 10 0.02
394 62 0.13
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (385 bp):
TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
TAATTAAGGGTTGGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
AGGGATTTAAGGTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGGTTTAGATTATTTTTTTATTT
ATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAATAATTATGCCT
TGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTTAATTTAGG
CGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
Found at i:36198653 original size:21 final size:21
Alignment explanation
Indices: 36198613--36198683 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
36198603 CCACAACTTA
* *
36198613 AAGCAGAGGCGGCAGAGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
36198634 AAG-ATGCGGCTGCAGCGAGGG
1 AAGCA-GAGGCTGCAGCGAGGG
*
36198655 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
36198676 AAGCAGAG
1 AAGCAGAG
36198684 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.46, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:36200143 original size:2 final size:2
Alignment explanation
Indices: 36200136--36200171 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
36200126 GAGAAATCAA
36200136 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
36200172 CTAGTTAGGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:36203125 original size:17 final size:17
Alignment explanation
Indices: 36203078--36203127 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
36203068 AAAAAAATTA
*
36203078 AATTATAATATTCAAAG
1 AATTATAATATTTAAAG
*
36203095 AATACATAA-ATTTAAAG
1 AAT-TATAATATTTAAAG
*
36203112 AATTATAATCTTTAAA
1 AATTATAATATTTAAA
36203128 TTTTTACTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (17 bp):
AATTATAATATTTAAAG
Found at i:36203376 original size:22 final size:22
Alignment explanation
Indices: 36203351--36203397 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
36203341 AATTTTAATA
36203351 TTCAATTTAGTACTTGAA-TTTT
1 TTCAATTTAGTACTT-AAGTTTT
36203373 TTCAATTTAGTACTTAAGTTTT
1 TTCAATTTAGTACTTAAGTTTT
36203395 TTC
1 TTC
36203398 TTTGTCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (22 bp):
TTCAATTTAGTACTTAAGTTTT
Found at i:36207156 original size:27 final size:27
Alignment explanation
Indices: 36207113--36207164 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
36207103 TCCGCAGGGA
36207113 CAATAAACATAGAGTAGTCCGTCAGGT
1 CAATAAACATAGAGTAGTCCGTCAGGT
* *
36207140 CAATAAATA-AGATGTAGTCTGTCAG
1 CAATAAACATAGA-GTAGTCCGTCAG
36207165 AACATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (27 bp):
CAATAAACATAGAGTAGTCCGTCAGGT
Found at i:36211649 original size:68 final size:68
Alignment explanation
Indices: 36211519--36211653 Score: 193
Period size: 68 Copynumber: 2.0 Consensus size: 68
36211509 TGATTAAACT
*
36211519 TAATCACTTTAATATTAAATTAATGTAATATTTATCAAGATAAACATTAAATTTAATTTAATATT
1 TAATCACTTTAATATTAAATTAA-GTAATATTTATCAAGATAAACATTAAATTAAATTTAATATT
36211584 AAGA
65 AAGA
* **
36211588 TAATCACTTTAATATTAAATTAA-TAA-ATTACTATTAAGATAAGTATTAAATTAAATTTAATAT
1 TAATCACTTTAATATTAAATTAAGTAATATT--TATCAAGATAAACATTAAATTAAATTTAATAT
36211651 TAA
64 TAA
36211654 ATTATTAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
66 3 0.05
67 3 0.05
68 31 0.52
69 23 0.38
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAAGTAATATTTATCAAGATAAACATTAAATTAAATTTAATATTA
AGA
Found at i:36213295 original size:16 final size:16
Alignment explanation
Indices: 36213274--36213304 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36213264 CTATGCATGC
*
36213274 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
36213290 AAAATACAAAAGACA
1 AAAATACAAAAGACA
36213305 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:36225333 original size:19 final size:18
Alignment explanation
Indices: 36225311--36225353 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
36225301 AATACAAAAA
36225311 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTTT
*
36225330 AAAATTCAAAATATTTTT
1 AAAAATCAAAATATTTTT
36225348 AAAAAT
1 AAAAAT
36225354 TCTAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATCAAAATATTTTT
Found at i:36225354 original size:19 final size:19
Alignment explanation
Indices: 36225310--36225375 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
36225300 AAATACAAAA
*
36225310 AAAAAATCAAAATAATTTTT
1 AAAAATTCAAAAT-ATTTTT
36225330 -AAAATTCAAAATATTTTT
1 AAAAATTCAAAATATTTTT
36225348 AAAAATTCTAAAACTTATCTTTT
1 AAAAATTC-AAAA--TAT-TTTT
36225371 AAAAA
1 AAAAA
36225376 AATTATAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 6 0.15
19 18 0.45
20 4 0.10
22 3 0.08
23 9 0.22
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTT
Found at i:36225493 original size:35 final size:35
Alignment explanation
Indices: 36225457--36225533 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
36225447 TTTGGGAACT
36225457 AAATAATTTAATTAATGATTTAAGTTTATCATACTA
1 AAAT-ATTTAATTAATGATTTAAGTTTATCATACTA
*
36225493 AAATATTTAATTAATGATTTAAGTTTATCATACCA
1 AAATATTTAATTAATGATTTAAGTTTATCATACTA
36225528 AAATAT
1 AAATAT
36225534 CTTCTTCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (35 bp):
AAATATTTAATTAATGATTTAAGTTTATCATACTA
Found at i:36225978 original size:125 final size:123
Alignment explanation
Indices: 36225756--36226007 Score: 371
Period size: 125 Copynumber: 2.0 Consensus size: 123
36225746 AATGCTCACC
* *
36225756 CCTAATTATACCTATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTGATTTTAACAAGAGTGAC
1 CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
*
36225821 CAAAATGACCGAACTATGTAACGTGGGTGCTTAAATTACAAACTTTTTTTATTTTAAGTG
66 CAAAATGACCGAACTATATAACGTGGGTGCTTAAATTACAAA--TTTTTTATTTTAAGTG
* * * *
36225881 CCTAATTATATCAATTCTTTTAACTGTCACTTTATCTTGTTGTTTGTAATTTTAACGAGAGTGA-
1 CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
* * * *
36225945 CAACAATTATCGAACTATATAACGTTGGTGCTTAAATTGCAAATTTTTTATTTTAAGTG
66 CAA-AATGACCGAACTATATAACGTGGGTGCTTAAATTACAAATTTTTTATTTTAAGTG
36226004 CCTA
1 CCTA
36226008 TAATAAAAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
123 20 0.17
124 3 0.03
125 92 0.80
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (123 bp):
CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
CAAAATGACCGAACTATATAACGTGGGTGCTTAAATTACAAATTTTTTATTTTAAGTG
Found at i:36230000 original size:24 final size:24
Alignment explanation
Indices: 36229950--36230000 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
36229940 TATAACATTT
**
36229950 AAAAATTCCTAAAATTTATGGATA
1 AAAAATTCCTAAAATTTATAAATA
36229974 AAAAATTCCTAAAATTTA-AAATA
1 AAAAATTCCTAAAATTTATAAATA
36229997 AAAA
1 AAAA
36230001 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAAATTCCTAAAATTTATAAATA
Found at i:36231274 original size:23 final size:23
Alignment explanation
Indices: 36231247--36231302 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
36231237 ATCCCTTTAG
36231247 AATCTCAATTATAGATTGGCTTT
1 AATCTCAATTATAGATTGGCTTT
36231270 AATCTCAATTATAGATTGGCTTT
1 AATCTCAATTATAGATTGGCTTT
36231293 AATCTCAATT
1 AATCTCAATT
36231303 GTTGATGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (23 bp):
AATCTCAATTATAGATTGGCTTT
Found at i:36235616 original size:3 final size:3
Alignment explanation
Indices: 36235595--36235633 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
36235585 AAGCATAAAC
* * *
36235595 TAA TAA AAA TAA AAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
36235634 CATTGGAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:36235756 original size:23 final size:22
Alignment explanation
Indices: 36235730--36235783 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
36235720 TGTATACACG
36235730 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
36235753 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
36235775 TAC-TAATAA
1 TACATAATAA
36235784 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:36235764 original size:3 final size:3
Alignment explanation
Indices: 36235733--36235803 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
36235723 ATACACGTAC
* * * *
36235733 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
36235780 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
36235804 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36236282 original size:11 final size:11
Alignment explanation
Indices: 36236266--36236301 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
36236256 AGAAAAAAAA
36236266 GAAGAGAGAGG
1 GAAGAGAGAGG
*
36236277 GAAGAGAGAAG
1 GAAGAGAGAGG
36236288 GAAGAGAGAAGG
1 GAAGAGAG-AGG
36236300 GA
1 GA
36236302 GGGGGGAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAGG
Found at i:36236413 original size:16 final size:17
Alignment explanation
Indices: 36236392--36236429 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
36236382 GTGTAAAAAA
* *
36236392 TTTATTTTTTGT-TTTT
1 TTTATTTGTTGTATATT
36236408 TTTATTTGTTGTATATT
1 TTTATTTGTTGTATATT
36236425 TTTAT
1 TTTAT
36236430 GTTAAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTATTTGTTGTATATT
Found at i:36237548 original size:100 final size:100
Alignment explanation
Indices: 36237375--36237675 Score: 602
Period size: 100 Copynumber: 3.0 Consensus size: 100
36237365 AAATTTTGCC
36237375 TCTCCTTTGATTTTCAAACGCCCTGAATCTTGTCTTACTGGAAAATTTTAAGAATAAAATTCCTC
1 TCTCCTTTGATTTTCAAACGCCCTGAATCTTGTCTTACTGGAAAATTTTAAGAATAAAATTCCTC
36237440 AACGTCGTCACAATTATATAATTTCTAATTACAAG
66 AACGTCGTCACAATTATATAATTTCTAATTACAAG
36237475 TCTCCTTTGATTTTCAAACGCCCTGAATCTTGTCTTACTGGAAAATTTTAAGAATAAAATTCCTC
1 TCTCCTTTGATTTTCAAACGCCCTGAATCTTGTCTTACTGGAAAATTTTAAGAATAAAATTCCTC
36237540 AACGTCGTCACAATTATATAATTTCTAATTACAAG
66 AACGTCGTCACAATTATATAATTTCTAATTACAAG
36237575 TCTCCTTTGATTTTCAAACGCCCTGAATCTTGTCTTACTGGAAAATTTTAAGAATAAAATTCCTC
1 TCTCCTTTGATTTTCAAACGCCCTGAATCTTGTCTTACTGGAAAATTTTAAGAATAAAATTCCTC
36237640 AACGTCGTCACAATTATATAATTTCTAATTACAAG
66 AACGTCGTCACAATTATATAATTTCTAATTACAAG
36237675 T
1 T
36237676 TTACCAAGAA
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 201 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (100 bp):
TCTCCTTTGATTTTCAAACGCCCTGAATCTTGTCTTACTGGAAAATTTTAAGAATAAAATTCCTC
AACGTCGTCACAATTATATAATTTCTAATTACAAG
Found at i:36239453 original size:9 final size:9
Alignment explanation
Indices: 36239436--36239467 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
36239426 ATAGACACAC
*
36239436 AATAATAAT
1 AATAGTAAT
36239445 AATAGTAAT
1 AATAGTAAT
36239454 AATAGTAAT
1 AATAGTAAT
36239463 AATAG
1 AATAG
36239468 AAAGATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (9 bp):
AATAGTAAT
Found at i:36239830 original size:23 final size:22
Alignment explanation
Indices: 36239783--36239838 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
36239773 AACAATACTA
*
36239783 ATAT-TACATAAAGATATACCT
1 ATATATACATAAAGATATAACT
36239804 ATATATACATTAAAGATATATAC-
1 ATATATACA-TAAAGATATA-ACT
36239827 ATATATA-ATAAA
1 ATATATACATAAA
36239839 ATACATGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 8 0.26
22 5 0.16
23 17 0.55
24 1 0.03
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.34
Consensus pattern (22 bp):
ATATATACATAAAGATATAACT
Found at i:36239894 original size:44 final size:45
Alignment explanation
Indices: 36239812--36239897 Score: 106
Period size: 44 Copynumber: 1.9 Consensus size: 45
36239802 CTATATATAC
* *
36239812 ATTAAAGATATATACATATATAATAAAATACATGAATAATATGAT
1 ATTAAAGAAATATACATATATAATAAAATAAATGAATAATATGAT
*
36239857 ATTAAA-AAATATACATA-ATATGTAAAATAAAAT-AATAATAT
1 ATTAAAGAAATATACATATATA-ATAAAAT-AAATGAATAATAT
36239898 ACACATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 3 0.08
44 24 0.67
45 9 0.25
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (45 bp):
ATTAAAGAAATATACATATATAATAAAATAAATGAATAATATGAT
Found at i:36240153 original size:20 final size:21
Alignment explanation
Indices: 36240125--36240172 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
36240115 TAGATACATA
*
36240125 ATATCTACA-AAACATATATG
1 ATATATACATAAACATATATG
*
36240145 ATATATACATAAACATATACG
1 ATATATACATAAACATATATG
*
36240166 ACATATA
1 ATATATA
36240173 TATATTAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.29
Consensus pattern (21 bp):
ATATATACATAAACATATATG
Found at i:36240342 original size:12 final size:13
Alignment explanation
Indices: 36240327--36240358 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
36240317 TAATAACAGC
36240327 AATAATAT-GTAA
1 AATAATATGGTAA
36240339 AATAATATGGTAA
1 AATAATATGGTAA
36240352 AATAATA
1 AATAATA
36240359 ATAATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (13 bp):
AATAATATGGTAA
Found at i:36247084 original size:11 final size:11
Alignment explanation
Indices: 36247064--36247117 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
36247054 TTAGAATATA
*
36247064 CCCATTCCTTG
1 CCCATACCTTG
36247075 CCCATACCTTG
1 CCCATACCTTG
* *
36247086 CCCATACATTT
1 CCCATACCTTG
*
36247097 CCCATACC-TA
1 CCCATACCTTG
36247107 CCCATACCTTG
1 CCCATACCTTG
36247118 GAAAGGTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
10 9 0.25
11 27 0.75
ACGTcount: A:0.20, C:0.44, G:0.06, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:36247677 original size:18 final size:18
Alignment explanation
Indices: 36247654--36247689 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
36247644 GACCATTTAT
36247654 GGCACTATTTACGTATAC
1 GGCACTATTTACGTATAC
36247672 GGCACTATTTACGTATAC
1 GGCACTATTTACGTATAC
36247690 AGTACTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
GGCACTATTTACGTATAC
Found at i:36251773 original size:11 final size:11
Alignment explanation
Indices: 36251757--36251793 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
36251747 TATACACATT
36251757 CCTTGCCCATA
1 CCTTGCCCATA
36251768 CCTTGCCCATA
1 CCTTGCCCATA
*
36251779 CC-TACCCATA
1 CCTTGCCCATA
36251789 CCTTG
1 CCTTG
36251794 GAAAGGTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.19, C:0.46, G:0.08, T:0.27
Consensus pattern (11 bp):
CCTTGCCCATA
Found at i:36252874 original size:7 final size:7
Alignment explanation
Indices: 36252864--36252916 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
36252854 GATCTAATAA
*
36252864 ATTAAAA
1 ATTAAAT
*
36252871 ATTAAAA
1 ATTAAAT
*
36252878 AATAAAT
1 ATTAAAT
36252885 ATTAAAT
1 ATTAAAT
36252892 ATTAAAT
1 ATTAAAT
36252899 ATTAAAT
1 ATTAAAT
36252906 ATTAAAT
1 ATTAAAT
36252913 -TTAA
1 ATTAA
36252917 GTAATAAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
6 4 0.09
7 39 0.91
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
ATTAAAT
Found at i:36257515 original size:19 final size:19
Alignment explanation
Indices: 36257488--36257543 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
36257478 ATTTTCTCAC
36257488 CAATCAAACAATCTTCCGT
1 CAATCAAACAATCTTCCGT
* ** * *
36257507 CAATTAAACCCT-TTTCTT
1 CAATCAAACAATCTTCCGT
36257525 CAATCAAACAATCTTCCGT
1 CAATCAAACAATCTTCCGT
36257544 TAATTAAACC
Statistics
Matches: 26, Mismatches: 10, Indels: 2
0.68 0.26 0.05
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.32
Consensus pattern (19 bp):
CAATCAAACAATCTTCCGT
Found at i:36257531 original size:37 final size:37
Alignment explanation
Indices: 36257488--36257566 Score: 149
Period size: 37 Copynumber: 2.1 Consensus size: 37
36257478 ATTTTCTCAC
36257488 CAATCAAACAATCTTCCGTCAATTAAACCCTTTTCTT
1 CAATCAAACAATCTTCCGTCAATTAAACCCTTTTCTT
*
36257525 CAATCAAACAATCTTCCGTTAATTAAACCCTTTTCTT
1 CAATCAAACAATCTTCCGTCAATTAAACCCTTTTCTT
36257562 CAATC
1 CAATC
36257567 TTCAACTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (37 bp):
CAATCAAACAATCTTCCGTCAATTAAACCCTTTTCTT
Found at i:36257533 original size:18 final size:18
Alignment explanation
Indices: 36257506--36257566 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
36257496 CAATCTTCCG
*
36257506 TCAATTAAACCCTTTTCT
1 TCAATCAAACCCTTTTCT
** *
36257524 TCAATCAAACAATCTTCCGT
1 TCAATCAAACCCT-TTTC-T
*
36257544 T-AATTAAACCCTTTTCT
1 TCAATCAAACCCTTTTCT
36257561 TCAATC
1 TCAATC
36257567 TTCAACTAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
17 2 0.06
18 16 0.52
19 11 0.35
20 2 0.06
ACGTcount: A:0.31, C:0.28, G:0.02, T:0.39
Consensus pattern (18 bp):
TCAATCAAACCCTTTTCT
Found at i:36262553 original size:12 final size:12
Alignment explanation
Indices: 36262536--36262560 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36262526 ATATATATTC
36262536 TAGAGAAGAAAA
1 TAGAGAAGAAAA
36262548 TAGAGAAGAAAA
1 TAGAGAAGAAAA
36262560 T
1 T
36262561 TTATATGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (12 bp):
TAGAGAAGAAAA
Found at i:36264464 original size:23 final size:23
Alignment explanation
Indices: 36264438--36264484 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
36264428 TTAAAAACAT
* *
36264438 TTTAAAATGGATATTATATAAAA
1 TTTAAAATGAATAATATATAAAA
*
36264461 TTTAAAGTGAATAATATATAAAA
1 TTTAAAATGAATAATATATAAAA
36264484 T
1 T
36264485 AGTTTAAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (23 bp):
TTTAAAATGAATAATATATAAAA
Found at i:36264583 original size:21 final size:21
Alignment explanation
Indices: 36264543--36264596 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
36264533 GGTAAAATAG
36264543 TTTAAAATAATATATAAAGAAA
1 TTTAAAATAA-ATATAAAGAAA
* *
36264565 TTTGAAATAAATATTAAGAAA
1 TTTAAAATAAATATAAAGAAA
36264586 TTTAAAATAAA
1 TTTAAAATAAA
36264597 GAATATTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
TTTAAAATAAATATAAAGAAA
Found at i:36265774 original size:26 final size:26
Alignment explanation
Indices: 36265745--36265797 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
36265735 TTTACAGTTT
36265745 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
36265771 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
36265797 T
1 T
36265798 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:36270207 original size:24 final size:24
Alignment explanation
Indices: 36270179--36270235 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
36270169 ACAAAGTGGG
36270179 CTGCTTCTTTCTTATTCTTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTTT
*
36270203 CTGCTTCTTTCTTCTTCTTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTTT
*
36270227 -TGCTGCTTT
1 CTGCTTCTTT
36270236 TTTTTGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 8 0.26
24 23 0.74
ACGTcount: A:0.02, C:0.23, G:0.07, T:0.68
Consensus pattern (24 bp):
CTGCTTCTTTCTTATTCTTTTTTT
Found at i:36270255 original size:15 final size:13
Alignment explanation
Indices: 36270196--36270243 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
36270186 TTTCTTATTC
36270196 TTTTTTT-CTGCT
1 TTTTTTTGCTGCT
* *
36270208 TCTTTCTT-CTTCT
1 T-TTTTTTGCTGCT
36270221 TTTTTTTGCTGCT
1 TTTTTTTGCTGCT
36270234 TTTTTTTGCT
1 TTTTTTTGCT
36270244 TTGTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (13 bp):
TTTTTTTGCTGCT
Found at i:36270569 original size:49 final size:48
Alignment explanation
Indices: 36270496--36270603 Score: 191
Period size: 49 Copynumber: 2.2 Consensus size: 48
36270486 TCCCCTCCTC
36270496 TCTTCCTTCTCTCTTCTCTTTTCCTTCCTTTTTCTTTTTTTTCGAAACTT
1 TCTT-CTTCTCTCTTCTCTTTTCCTTCCTTTTTC-TTTTTTTCGAAACTT
36270546 TCTTCTTCTCTCTTCTCTTTTCCTTCCTTTTTCTTTTTTTCGAAACTT
1 TCTTCTTCTCTCTTCTCTTTTCCTTCCTTTTTCTTTTTTTCGAAACTT
36270594 TCTTC-TCTCT
1 TCTTCTTCTCT
36270604 TTTTTTTTTT
Statistics
Matches: 58, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
47 5 0.09
48 20 0.34
49 29 0.50
50 4 0.07
ACGTcount: A:0.06, C:0.31, G:0.02, T:0.62
Consensus pattern (48 bp):
TCTTCTTCTCTCTTCTCTTTTCCTTCCTTTTTCTTTTTTTCGAAACTT
Found at i:36270852 original size:29 final size:29
Alignment explanation
Indices: 36270819--36270935 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
36270809 TGTAATTTTT
*
36270819 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
36270848 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
36270878 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
36270907 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
36270936 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:36270874 original size:30 final size:30
Alignment explanation
Indices: 36270834--36271018 Score: 127
Period size: 30 Copynumber: 6.4 Consensus size: 30
36270824 ATTTAGGATT
*
36270834 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
36270864 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
36270894 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
* ** *** *
36270924 AAAATGCAATTT--TTATTTTTTA---AT-
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
36270948 -AAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
36270977 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
36271007 AAAATGCAATTT
1 AAAATGAAATTT
36271019 TTACTTTTTA
Statistics
Matches: 117, Mismatches: 29, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
23 9 0.08
25 6 0.05
28 6 0.05
29 4 0.03
30 92 0.79
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:36270962 original size:83 final size:83
Alignment explanation
Indices: 36270864--36271030 Score: 325
Period size: 83 Copynumber: 2.0 Consensus size: 83
36270854 TTTAGGGGTC
36270864 TAAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTTAGGAAAAGTTTAGGTGTCAAAAT
1 TAAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTTAGGAAAAGTTTAGGTGTCAAAAT
*
36270929 GCAATTTTTATTTTTTAA
66 GCAATTTTTACTTTTTAA
36270947 TAAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTTAGGAAAAGTTTAGGTGTCAAAAT
1 TAAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTTAGGAAAAGTTTAGGTGTCAAAAT
36271012 GCAATTTTTACTTTTTAA
66 GCAATTTTTACTTTTTAA
36271030 T
1 T
36271031 TTTTTTTTTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.42, C:0.04, G:0.18, T:0.36
Consensus pattern (83 bp):
TAAGTGAAATTTAAAGAAAGTTTAAGGGTCAAAATGAAATTTAGGAAAAGTTTAGGTGTCAAAAT
GCAATTTTTACTTTTTAA
Found at i:36271647 original size:55 final size:55
Alignment explanation
Indices: 36271560--36271680 Score: 183
Period size: 55 Copynumber: 2.2 Consensus size: 55
36271550 CACGTGAGCC
* *
36271560 AAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATT--AA
*
36271615 AAGGCTCAACTCACCTCTCGCAATATGGGTTGATTTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAA
36271670 AAGGCTCAACT
1 AAGGCTCAACT
36271681 TCGATCATTT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
55 44 0.72
56 6 0.10
57 11 0.18
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAA
Found at i:36272262 original size:130 final size:130
Alignment explanation
Indices: 36272024--36272281 Score: 453
Period size: 130 Copynumber: 2.0 Consensus size: 130
36272014 ATAGTTATGA
* ** * *
36272024 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTA
1 CTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACAAAAATTA
36272089 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATAC
66 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATAC
* *
36272154 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACATAAATTA
1 CTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACAAAAATTA
36272219 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAAT
66 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAAT
36272282 GTGTCTTGAG
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
130 121 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.28
Consensus pattern (130 bp):
CTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACAAAAATTA
AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATAC
Found at i:36272367 original size:75 final size:74
Alignment explanation
Indices: 36272253--36272400 Score: 197
Period size: 75 Copynumber: 2.0 Consensus size: 74
36272243 TATGAGTCAA
* * * ** * *
36272253 TTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
1 TTTAAAACAGAAACTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAG
36272318 TTGATTTTT
66 TTGATTTTT
* * *
36272327 TTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGA
1 TTTAA-AACAGAAACTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGA
36272392 GTTGATTTT
65 GTTGATTTT
36272401 GAAAAACATA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
74 5 0.08
75 58 0.92
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (74 bp):
TTTAAAACAGAAACTAAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAG
TTGATTTTT
Found at i:36272486 original size:197 final size:195
Alignment explanation
Indices: 36272149--36272609 Score: 784
Period size: 197 Copynumber: 2.4 Consensus size: 195
36272139 AAAATACCTC
36272149 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACATA
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACATA
36272214 AATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTC
66 AATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTC
* *
36272279 AATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTAACAA-CAGAAATT
131 AATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAA-AAGCAGAAATT
36272343 -AA
193 GAA
36272345 AATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACAT
1 AA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACAT
36272410 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCT
65 AAATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCT
36272475 CAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGA
130 CAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGA
36272540 A
195 A
** * * * *
36272541 AATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTG-AAAACAG
1 AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTG-ATTTTGAAAAACAT
36272605 AAATT
65 AAATT
36272610 GAAATTACCT
Statistics
Matches: 253, Mismatches: 8, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
194 2 0.01
195 68 0.27
196 12 0.05
197 171 0.68
ACGTcount: A:0.36, C:0.20, G:0.14, T:0.30
Consensus pattern (195 bp):
AATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAACATGAGTTGATTTTGAAAAACATA
AATTAAAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTC
AATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAA
Found at i:36272562 original size:73 final size:72
Alignment explanation
Indices: 36272418--36272626 Score: 280
Period size: 73 Copynumber: 2.9 Consensus size: 72
36272408 ATAAATTAAA
* ** * * * * **
36272418 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
36272480 TGTCTTG
66 TGTCCTG
36272487 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAGC
36272552 GTGTCCTG
65 GTGTCCTG
* *
36272560 AGGCTCAACTCATTTCTCGCAATATAAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCG
36272625 TG
66 TG
36272627 CATCCACGAT
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
69 25 0.20
70 3 0.02
71 3 0.02
72 28 0.23
73 65 0.52
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTCCTG
Found at i:36273360 original size:33 final size:33
Alignment explanation
Indices: 36273323--36273392 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
36273313 AAAATAGAAG
* *
36273323 TTTTAGGTTCATTAAAAGTTGGTA-AATACTTTT
1 TTTTAGGTCCATTAAAAGTTGGTAGAA-AATTTT
* *
36273356 TTTTATGTCCCTTAAAAGTTGGTAGAAAATTTT
1 TTTTAGGTCCATTAAAAGTTGGTAGAAAATTTT
36273389 TTTT
1 TTTT
36273393 GAGCCTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (33 bp):
TTTTAGGTCCATTAAAAGTTGGTAGAAAATTTT
Found at i:36285655 original size:16 final size:16
Alignment explanation
Indices: 36285636--36286066 Score: 77
Period size: 17 Copynumber: 25.0 Consensus size: 16
36285626 ACGAAAGTTT
* *
36285636 TTTTAAAATACGAGAAT
1 TTTTAAAACACGA-AAA
*
36285653 TTTTGAAAACACGAGAA
1 TTTT-AAAACACGAAAA
36285670 TTTGT-AAACACGAAAA
1 TTT-TAAAACACGAAAA
36285686 TTTTAGAAACACGAAAA
1 TTTTA-AAACACGAAAA
* *
36285703 TTTTTAGAAAAAACGAAATT
1 -TTTT--AAAACACGAAA-A
**
36285723 TTCTTAAAACACGACATTTT
1 TT-TTAAAACACGA-A--AA
* * *
36285743 TTTCTGAAACACGGGAAT
1 TTT-TAAAACAC-GAAAA
* *
36285761 TTTTAAAACAGGGAAA
1 TTTTAAAACACGAAAA
*
36285777 TTTTAGAAACACAAAAA
1 TTTTA-AAACACGAAAA
**
36285794 TTTTTAAAACACGACATT
1 -TTTTAAAACACGA-AAA
*
36285812 TTTTGAAACACG---A
1 TTTTAAAACACGAAAA
*
36285825 -TTTAAAAAAC-AAAA
1 TTTTAAAACACGAAAA
* * * *
36285839 ATTGAAATGCGA-GAATA
1 TTTTAAA-AC-ACGAAAA
* **
36285856 TTTTGAAACACGAATTT
1 TTTTAAAACACGAA-AA
* * *
36285873 TTTTTAAACGCGAGAAT
1 TTTTAAAACACGA-AAA
* *
36285890 TTTTGAAAACATGGAAA
1 TTTT-AAAACACGAAAA
* * * **
36285907 CTTTGAAACACTGGAGT
1 TTTTAAAACAC-GAAAA
*
36285924 TTTTGAAAACACGAGAA
1 TTTT-AAAACACGAAAA
*
36285941 TTTGTGAAACACGAAAA
1 TTT-TAAAACACGAAAA
*
36285958 TTTGTGAAAACACGTAAATTTT
1 TTT-T-AAAACACG-AAA---A
*
36285980 TTTTTAAACACGAAAA
1 TTTTAAAACACGAAAA
* * * *
36285996 TTTTTGAAACGCCAGAAT
1 -TTTTAAAACACGA-AAA
36286014 TTTTGAAAACAC-AAAGA
1 TTTT-AAAACACGAAA-A
36286031 TTTTTGAAAACACGAAAA
1 -TTTT-AAAACACGAAAA
36286049 TTTTTGAAAACACGAAAA
1 -TTTT-AAAACACGAAAA
36286067 CACTAAATTT
Statistics
Matches: 307, Mismatches: 65, Indels: 83
0.67 0.14 0.18
Matches are distributed among these distances:
12 8 0.03
14 1 0.00
15 7 0.02
16 33 0.11
17 121 0.39
18 89 0.29
19 22 0.07
20 21 0.07
21 2 0.01
22 3 0.01
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (16 bp):
TTTTAAAACACGAAAA
Found at i:36285900 original size:35 final size:34
Alignment explanation
Indices: 36285848--36286063 Score: 120
Period size: 35 Copynumber: 6.1 Consensus size: 34
36285838 AATTGAAATG
* *
36285848 CGAGAATATTTTG-AAACACGAATTTTTTTTAAACG
1 CGAGAAT-TTTTGAAAACACGAA-TTTTTTGAAACA
* **
36285883 CGAGAATTTTTGAAAACATGGAA-ACTTTGAAACA
1 CGAGAATTTTTGAAAACA-CGAATTTTTTGAAACA
* * *
36285917 CTG-GAGTTTTTGAAAACACGAGAATTTGTGAAACA
1 C-GAGAATTTTTGAAAACACGA-ATTTTTTGAAACA
* * *
36285952 CGAAAATTTGTGAAAACACGTAAATTTTTTTTTAAACA
1 CGAGAATTTTTGAAAACACG--AA--TTTTTTGAAACA
* *
36285990 CGAAAATTTTTG-AAACGCCAGAA-TTTTTGAAAACA
1 CGAGAATTTTTGAAAAC-AC-GAATTTTTTG-AAACA
* *
36286025 C-AAAGATTTTTGAAAACACGAAAATTTTTGAAAACA
1 CGAGA-ATTTTTGAAAACACG-AATTTTTTG-AAACA
36286061 CGA
1 CGA
36286064 AAACACTAAA
Statistics
Matches: 143, Mismatches: 20, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
33 2 0.01
34 38 0.27
35 52 0.36
36 21 0.15
37 8 0.06
38 21 0.15
39 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (34 bp):
CGAGAATTTTTGAAAACACGAATTTTTTGAAACA
Found at i:36285998 original size:55 final size:53
Alignment explanation
Indices: 36285923--36286066 Score: 171
Period size: 55 Copynumber: 2.7 Consensus size: 53
36285913 AACACTGGAG
* * **
36285923 TTTTTGAAAACACGAGAATTTGTGAAACACGAAAATTTGTGAAAACACGTAAATT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACAC--AAAGA
** * * * *
36285978 TTTTTTTAAACACGAAAATTTTTGAAACGCCAGAATTTTTGAAAACACAAAGA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACACAAAGA
36286031 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
36286067 CACTAAATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
53 25 0.34
54 8 0.11
55 40 0.55
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (53 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTGTGAAAACACAAAGA
Found at i:36286064 original size:18 final size:18
Alignment explanation
Indices: 36285634--36286066 Score: 209
Period size: 18 Copynumber: 25.0 Consensus size: 18
36285624 AAACGAAAGT
* * *
36285634 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
*
36285652 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
36285670 --TTTGTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
36285686 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
36285703 TTTTTAGAAAAAACG-AAA
1 TTTTT-GAAAACACGAAAA
* **
36285721 TTTTCTTAAAACACGACATTT
1 TTTT-TGAAAACACGA-A-AA
**
36285742 TTTTCTG-AAACACGGGAA
1 TTTT-TGAAAACACGAAAA
* *
36285760 TTTTT-AAAACAGGGAAA
1 TTTTTGAAAACACGAAAA
* *
36285777 TTTTAG-AAACACAAAAA
1 TTTTTGAAAACACGAAAA
* *
36285794 TTTTT-AAAACACGACAT
1 TTTTTGAAAACACGAAAA
36285811 TTTTTG-AAACACG---A
1 TTTTTGAAAACACGAAAA
*
36285825 --TTT-AAAAAAC-AAAA
1 TTTTTGAAAACACGAAAA
* ** *
36285839 --ATTG-AAATGCGAGAA
1 TTTTTGAAAACACGAAAA
*
36285854 TATTTTG-AAACACG-AAT
1 T-TTTTGAAAACACGAAAA
** * *
36285871 TTTTTTTAAACGCGAGAA
1 TTTTTGAAAACACGAAAA
* *
36285889 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACACGAAAA
* * *
36285907 -CTTTG-AAACACTG-GAG
1 TTTTTGAAAACAC-GAAAA
*
36285923 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
36285941 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
36285958 TTTGTGAAAACACGTAAATT
1 TTTTTGAAAACACG-AAA-A
**
36285978 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
36285996 TTTTTG-AAACGCCAGAA
1 TTTTTGAAAACACGAAAA
36286013 TTTTTGAAAACAC-AAAGA
1 TTTTTGAAAACACGAAA-A
36286031 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
36286049 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
36286067 CACTAAATTT
Statistics
Matches: 316, Mismatches: 66, Indels: 66
0.71 0.15 0.15
Matches are distributed among these distances:
12 8 0.03
14 7 0.02
15 3 0.01
16 24 0.08
17 111 0.35
18 122 0.39
19 16 0.05
20 19 0.06
21 6 0.02
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:36286143 original size:9 final size:9
Alignment explanation
Indices: 36286129--36286171 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
36286119 ATTCACGAGA
36286129 ATTTTTTTT
1 ATTTTTTTT
36286138 ATTTTTTTT
1 ATTTTTTTT
36286147 A--TTTTTT
1 ATTTTTTTT
*
36286154 ATTATTTTT
1 ATTTTTTTT
36286163 ATTTTTTTT
1 ATTTTTTTT
36286172 TGAAACACGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 7 0.23
9 23 0.77
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:36286145 original size:10 final size:10
Alignment explanation
Indices: 36286130--36286172 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
36286120 TTCACGAGAA
36286130 TTTTTTTTA-
1 TTTTTTTTAT
36286139 TTTTTTTTAT
1 TTTTTTTTAT
*
36286149 TTTTTATTAT
1 TTTTTTTTAT
36286159 TTTTATTTT-T
1 TTTT-TTTTAT
36286169 TTTT
1 TTTT
36286173 GAAACACGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 9 0.30
10 18 0.60
11 3 0.10
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:36286153 original size:16 final size:16
Alignment explanation
Indices: 36286132--36286169 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
36286122 CACGAGAATT
*
36286132 TTTTTTATTTTTTTTA
1 TTTTTTATTATTTTTA
36286148 TTTTTTATTATTTTTA
1 TTTTTTATTATTTTTA
36286164 TTTTTT
1 TTTTTT
36286170 TTTGAAACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTATTATTTTTA
Found at i:36286186 original size:20 final size:20
Alignment explanation
Indices: 36286165--36286201 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
36286155 TTATTTTTAT
36286165 TTTTTTTTG-AAACACGAGA
1 TTTTTTTTGAAAACACGAGA
36286184 TTTTTTTTGAAAACACGA
1 TTTTTTTTGAAAACACGA
36286202 AAACACGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (20 bp):
TTTTTTTTGAAAACACGAGA
Found at i:36286249 original size:17 final size:16
Alignment explanation
Indices: 36286200--36286247 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
36286190 TTGAAAACAC
36286200 GAAAACACGAATTTTT
1 GAAAACACGAATTTTT
36286216 G-AAACACGGAAATTTTT
1 GAAAACAC-G-AATTTTT
36286233 GAAAACACG-ATTTTT
1 GAAAACACGAATTTTT
36286248 TTAGAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 2 0.07
17 9 0.31
18 6 0.21
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (16 bp):
GAAAACACGAATTTTT
Found at i:36286802 original size:11 final size:12
Alignment explanation
Indices: 36286775--36286816 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
36286765 AAAAGCCCCC
36286775 TTTTCCTTTTTT
1 TTTTCCTTTTTT
*
36286787 CTTTTTCTTTTTT
1 -TTTTCCTTTTTT
36286800 TTTTCCTTATTTT
1 TTTTCCTT-TTTT
36286813 TTTT
1 TTTT
36286817 GCTGGGCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 7 0.27
13 19 0.73
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCCTTTTTT
Found at i:36286812 original size:14 final size:13
Alignment explanation
Indices: 36286775--36286816 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
36286765 AAAAGCCCCC
36286775 TTTTCCTTTTTTCT
1 TTTTCCTTTTTT-T
36286789 TTTT-C-TTTTTT
1 TTTTCCTTTTTTT
36286800 TTTTCCTTATTTTT
1 TTTTCCTT-TTTTT
36286814 TTT
1 TTT
36286817 GCTGGGCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 5 0.20
12 6 0.24
13 2 0.08
14 12 0.48
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCCTTTTTTT
Found at i:36286967 original size:24 final size:24
Alignment explanation
Indices: 36286939--36286995 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
36286929 ACAAAGTGGG
36286939 CTGCTTCTTTCTTATTCTTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTTT
*
36286963 CTGCTTCTTTCTTCTTCTTTTTTT
1 CTGCTTCTTTCTTATTCTTTTTTT
*
36286987 -TGCTGCTTT
1 CTGCTTCTTT
36286996 TTTTTGCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 8 0.26
24 23 0.74
ACGTcount: A:0.02, C:0.23, G:0.07, T:0.68
Consensus pattern (24 bp):
CTGCTTCTTTCTTATTCTTTTTTT
Found at i:36287015 original size:15 final size:13
Alignment explanation
Indices: 36286956--36287003 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
36286946 TTTCTTATTC
36286956 TTTTTTT-CTGCT
1 TTTTTTTGCTGCT
* *
36286968 TCTTTCTT-CTTCT
1 T-TTTTTTGCTGCT
36286981 TTTTTTTGCTGCT
1 TTTTTTTGCTGCT
36286994 TTTTTTTGCT
1 TTTTTTTGCT
36287004 TTGTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 6 0.20
13 24 0.80
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (13 bp):
TTTTTTTGCTGCT
Found at i:36287563 original size:29 final size:29
Alignment explanation
Indices: 36287530--36287646 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
36287520 TGTAATTTTT
*
36287530 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
36287559 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
36287589 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
36287618 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
36287647 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:36287585 original size:30 final size:30
Alignment explanation
Indices: 36287545--36287646 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
36287535 ATTTAGGATT
*
36287545 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
36287575 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
36287605 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
36287635 AAAATGCAATTT
1 AAAATGAAATTT
36287647 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:36289028 original size:33 final size:33
Alignment explanation
Indices: 36288991--36289060 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
36288981 AAAATAGAAG
* *
36288991 TTTTAGGTTCATTAAAAGTTGGTA-AATACTTTT
1 TTTTAGGTCCATTAAAAGTTGGTAGAA-AATTTT
* *
36289024 TTTTATGTCCCTTAAAAGTTGGTAGAAAATTTT
1 TTTTAGGTCCATTAAAAGTTGGTAGAAAATTTT
36289057 TTTT
1 TTTT
36289061 GAGCCTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (33 bp):
TTTTAGGTCCATTAAAAGTTGGTAGAAAATTTT
Found at i:36293387 original size:7 final size:7
Alignment explanation
Indices: 36293375--36293403 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
36293365 GAGGCAGCCG
36293375 ATTGACA
1 ATTGACA
36293382 ATTGACA
1 ATTGACA
36293389 ATTGACA
1 ATTGACA
36293396 ATTGACA
1 ATTGACA
36293403 A
1 A
36293404 CCCCACCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (7 bp):
ATTGACA
Found at i:36293454 original size:25 final size:27
Alignment explanation
Indices: 36293426--36293489 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 27
36293416 TAAGAAAGGA
36293426 ACAAGTAA-G-AGTTCCAAGTTGGTTG
1 ACAAGTAAGGAAGTTCCAAGTTGGTTG
36293451 ACAAGTAATAGTGTAAGTTCCAAGTTGGTTG
1 ACAAGT-A-AG-G-AAGTTCCAAGTTGGTTG
36293482 ACAAGTAA
1 ACAAGTAA
36293490 TAGTGTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
25 6 0.18
26 1 0.03
27 1 0.03
29 2 0.06
30 1 0.03
31 22 0.67
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (27 bp):
ACAAGTAAGGAAGTTCCAAGTTGGTTG
Found at i:36293470 original size:31 final size:31
Alignment explanation
Indices: 36293435--36293497 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
36293425 AACAAGTAAG
36293435 AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
1 AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
36293466 AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
1 AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
36293497 A
1 A
36293498 TTACAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (31 bp):
AGTTCCAAGTTGGTTGACAAGTAATAGTGTA
Found at i:36295031 original size:16 final size:16
Alignment explanation
Indices: 36294978--36295047 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
36294968 TGAATTACTA
* *
36294978 ATTACAGCTCTATTCT
1 ATTACAACTCTATTCC
*
36294994 ATTATAACTCTATTCC
1 ATTACAACTCTATTCC
* *
36295010 AATACAACTCTATACC
1 ATTACAACTCTATTCC
** *
36295026 ATTACAGTTCTATTTC
1 ATTACAACTCTATTCC
36295042 ATTACA
1 ATTACA
36295048 GCGAACCAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.33, C:0.24, G:0.03, T:0.40
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:36295927 original size:21 final size:21
Alignment explanation
Indices: 36295903--36295944 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
36295893 TATATGTAAA
36295903 TTATTACATATTATATTATTT
1 TTATTACATATTATATTATTT
***
36295924 TTATTTTTTATTATATTATTT
1 TTATTACATATTATATTATTT
36295945 ATATATCATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTATTACATATTATATTATTT
Found at i:36295956 original size:24 final size:21
Alignment explanation
Indices: 36295911--36295962 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 21
36295901 AATTATTACA
*
36295911 TATTATATTATTTTTATTTTT
1 TATTATATTATTTTTATATTT
36295932 TATTATATTATTTATATATCATTT
1 TATTATATTATTT-T-TAT-ATTT
36295956 TATTATA
1 TATTATA
36295963 AACTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 13 0.48
22 1 0.04
23 3 0.11
24 10 0.37
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TATTATATTATTTTTATATTT
Found at i:36296352 original size:18 final size:18
Alignment explanation
Indices: 36296329--36296365 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36296319 TATCTCATAA
36296329 ATTATTTGTTATTTTTAT
1 ATTATTTGTTATTTTTAT
* *
36296347 ATTATTTTTTGTTTTTAT
1 ATTATTTGTTATTTTTAT
36296365 A
1 A
36296366 CATTTGCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (18 bp):
ATTATTTGTTATTTTTAT
Found at i:36299886 original size:40 final size:39
Alignment explanation
Indices: 36299842--36299967 Score: 95
Period size: 40 Copynumber: 3.3 Consensus size: 39
36299832 GCACCTAGTG
36299842 CTAGTCGGATAAATCGAAAATAATGAATGTGAGCCCAGCT
1 CTAGTCGGATAAA-CGAAAATAATGAATGTGAGCCCAGCT
* * * **
36299882 CTAGTTGGA-CAA-GACAACGAT--AT-TGCA-CCCAG-T
1 CTAGTCGGATAAACGAAAATAATGAATGTG-AGCCCAGCT
* *
36299915 GCTAGTCGGATAAACCAACAATAATGAATGTGAGCACAGCT
1 -CTAGTCGGATAAACGAA-AATAATGAATGTGAGCCCAGCT
*
36299956 CTAGTTGGATAA
1 CTAGTCGGATAA
36299968 GACAACGATA
Statistics
Matches: 63, Mismatches: 13, Indels: 20
0.66 0.14 0.21
Matches are distributed among these distances:
33 1 0.02
34 15 0.24
35 5 0.08
36 1 0.02
37 10 0.16
39 5 0.08
40 25 0.40
41 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (39 bp):
CTAGTCGGATAAACGAAAATAATGAATGTGAGCCCAGCT
Found at i:36300050 original size:74 final size:74
Alignment explanation
Indices: 36299766--36300036 Score: 362
Period size: 74 Copynumber: 3.7 Consensus size: 74
36299756 TTGTGCTCAA
* * * * * * * *
36299766 TGCTAGTTGGATTAACCGACAATAATGAATGTGAGCCTAGATCTAGTTGGAAAAGCCAATGATAT
1 TGCTAGTCGGATAAATCGACAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
36299831 TGCACCTAG
66 TGCACCTAG
*
36299840 TGCTAGTCGGATAAATCGAAAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
1 TGCTAGTCGGATAAATCGACAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
*
36299905 TGCACCCAG
66 TGCACCTAG
* * * *
36299914 TGCTAGTCGGATAAACCAACAATAATGAATGTGAGCACAGCTCTAGTTGGATAAGACAACGATAT
1 TGCTAGTCGGATAAATCGACAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
36299979 TGCACCTAG
66 TGCACCTAG
** * * * *
36299988 TGCTAGTCAAATAAATCGACGATGATAAATGTGAGCCCAGCTCAAGTTG
1 TGCTAGTCGGATAAATCGACAATAATGAATGTGAGCCCAGCTCTAGTTG
36300037 AACGTATCGA
Statistics
Matches: 172, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
74 172 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (74 bp):
TGCTAGTCGGATAAATCGACAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGACAACGATAT
TGCACCTAG
Found at i:36300050 original size:148 final size:148
Alignment explanation
Indices: 36299766--36300036 Score: 400
Period size: 148 Copynumber: 1.8 Consensus size: 148
36299756 TTGTGCTCAA
* * * * *
36299766 TGCTAGTTGGATTAACCGACAATAATGAATGTGAGCCTAGATCTAGTTGGAAAAGCCAATGATAT
1 TGCTAGTCGGATAAACCAACAATAATGAATGTGAGCCTAGATCTAGTTGGAAAAGACAACGATAT
** * *
36299831 TGCACCTAGTGCTAGTCGGATAAATCGAAAATAATGAATGTGAGCCCAGCTCTAGTTGGACAAGA
66 TGCACCTAGTGCTAGTCAAATAAATCGAAAATAATAAATGTGAGCCCAGCTCAAGTTGGACAAGA
36299896 CAACGATATTGCACCCAG
131 CAACGATATTGCACCCAG
* *
36299914 TGCTAGTCGGATAAACCAACAATAATGAATGTGAGCAC-AGCTCTAGTTGGATAAGACAACGATA
1 TGCTAGTCGGATAAACCAACAATAATGAATGTGAGC-CTAGATCTAGTTGGAAAAGACAACGATA
** *
36299978 TTGCACCTAGTGCTAGTCAAATAAATCGACGATGATAAATGTGAGCCCAGCTCAAGTTG
65 TTGCACCTAGTGCTAGTCAAATAAATCGAAAATAATAAATGTGAGCCCAGCTCAAGTTG
36300037 AACGTATCGA
Statistics
Matches: 108, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
148 107 0.99
149 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (148 bp):
TGCTAGTCGGATAAACCAACAATAATGAATGTGAGCCTAGATCTAGTTGGAAAAGACAACGATAT
TGCACCTAGTGCTAGTCAAATAAATCGAAAATAATAAATGTGAGCCCAGCTCAAGTTGGACAAGA
CAACGATATTGCACCCAG
Found at i:36302150 original size:30 final size:30
Alignment explanation
Indices: 36302116--36302178 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
36302106 ACTTAACAAG
*
36302116 CAAATG-CTTCTAAAATAATAATAAAAATAA
1 CAAATGCCTT-TAAAATAATAAGAAAAATAA
*
36302146 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAAATAA
36302176 CAA
1 CAA
36302179 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAAATAA
Found at i:36306444 original size:18 final size:18
Alignment explanation
Indices: 36306421--36306482 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
36306411 TAACATTTAT
*
36306421 TATATTTTATTTTTATTC
1 TATATTTTATTTTTATTA
*
36306439 TATATTACTTATTTTTTTTA
1 TATATT--TTATTTTTATTA
* * * *
36306459 TATATGTTATGTGTATCA
1 TATATTTTATTTTTATTA
36306477 TATATT
1 TATATT
36306483 ATCTATTATA
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
18 19 0.56
20 15 0.44
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (18 bp):
TATATTTTATTTTTATTA
Found at i:36306698 original size:14 final size:14
Alignment explanation
Indices: 36306630--36306702 Score: 55
Period size: 13 Copynumber: 5.2 Consensus size: 14
36306620 TACCTACTTT
36306630 TATTTTATATATT-
1 TATTTTATATATTA
*
36306643 TTTTTTATATAATTA
1 TATTTTATAT-ATTA
*
36306658 TTATTCTCT-TATA-AA
1 -TATT-T-TATATATTA
*
36306673 TATTTTGT-TATTA
1 TATTTTATATATTA
36306686 TATTTTATATATTA
1 TATTTTATATATTA
36306700 TAT
1 TAT
36306703 AGCAAATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
12 3 0.06
13 19 0.40
14 15 0.32
15 1 0.02
16 4 0.09
17 4 0.09
18 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (14 bp):
TATTTTATATATTA
Found at i:36311908 original size:103 final size:104
Alignment explanation
Indices: 36311664--36311929 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
36311654 GTTGTACATA
** *
36311664 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
36311729 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
36311768 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
36311833 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
36311871 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
36311930 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:36321770 original size:119 final size:119
Alignment explanation
Indices: 36321183--36321770 Score: 964
Period size: 119 Copynumber: 4.9 Consensus size: 119
36321173 AATTGAAGAC
** **
36321183 AGCAGATCTAGA-CTTCAGACATTTATGTTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
* * *
36321247 TACAAGAAACAAGTCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAGAT
65 TACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
*
36321302 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTTTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * *
36321367 ACAAGAAACAAATCGAGGACATGGCAGATTTGACTCCCAGATGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
*
36321421 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTATGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
*
36321486 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAGCGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
*
36321540 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTATGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* *
36321605 ACAAGAAACAAATCGAGGACATAGCAGCTTTGACTCTCAAGCGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
36321659 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * *
36321724 ACAA-AGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
66 ACAAGA-AACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCT
36321771 GAAACAGACT
Statistics
Matches: 443, Mismatches: 24, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
118 2 0.00
119 441 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.30
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
Found at i:36323476 original size:16 final size:17
Alignment explanation
Indices: 36323455--36323495 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
36323445 TTATATTATA
36323455 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
36323471 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
36323488 TAATTATA
1 T-ATTATA
36323496 TATGATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:36327904 original size:16 final size:16
Alignment explanation
Indices: 36327883--36328005 Score: 76
Period size: 16 Copynumber: 7.8 Consensus size: 16
36327873 AAACACAAGA
36327883 ATTCTATTACAGTTCT
1 ATTCTATTACAGTTCT
*
36327899 ATTCTATTCCA--TCT
1 ATTCTATTACAGTTCT
* * * **
36327913 A-ACCA-AACAGTTGA
1 ATTCTATTACAGTTCT
36327927 ATTACTTATTACAGTTCT
1 ATT-CT-ATTACAGTTCT
* *
36327945 ATTCCATTACAGCTCT
1 ATTCTATTACAGTTCT
*
36327961 ATT-TCATTACAGCTCT
1 ATTCT-ATTACAGTTCT
* *
36327977 ATTCAATTACAGCTCT
1 ATTCTATTACAGTTCT
*
36327993 ATTCCATTACAGT
1 ATTCTATTACAGT
36328006 GAACCAAACG
Statistics
Matches: 81, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
12 2 0.02
13 2 0.02
14 6 0.07
16 60 0.74
17 2 0.02
18 9 0.11
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.41
Consensus pattern (16 bp):
ATTCTATTACAGTTCT
Found at i:36327978 original size:32 final size:32
Alignment explanation
Indices: 36327934--36328004 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
36327924 TGAATTACTT
* * *
36327934 ATTACAGTTCTATTCCATTACAGCTCTATTTC
1 ATTACAGCTCTATTCAATTACAGCTCTATTCC
36327966 ATTACAGCTCTATTCAATTACAGCTCTATTCC
1 ATTACAGCTCTATTCAATTACAGCTCTATTCC
36327998 ATTACAG
1 ATTACAG
36328005 TGAACCAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.39
Consensus pattern (32 bp):
ATTACAGCTCTATTCAATTACAGCTCTATTCC
Found at i:36328271 original size:31 final size:31
Alignment explanation
Indices: 36328209--36328277 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
36328199 CATTTACATT
* **
36328209 TTATATATTATTATATTAAATATTTTGAATA
1 TTATTTATTATTATATTAAATATTTAAAATA
*
36328240 TTATTTATTATTATTTTAAAT-TATTAAAATA
1 TTATTTATTATTATATTAAATAT-TTAAAATA
36328271 TT-TTTAT
1 TTATTTAT
36328278 AACTTGTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (31 bp):
TTATTTATTATTATATTAAATATTTAAAATA
Found at i:36330404 original size:29 final size:29
Alignment explanation
Indices: 36330331--36330407 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
36330321 AACAAATTTC
*
36330331 AATAAATAAAAAT-ATATAAAATTATTCA
1 AATAAATTAAAATAATATAAAATTATTCA
* * *
36330359 ATATTAAAATAATATAATATAAATATT-TTTA
1 A-A-TAAATTAAAATAATATAAA-ATTATTCA
36330390 AATAAATTAAAATAATAT
1 AATAAATTAAAATAATAT
36330408 GGATGAGCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
28 1 0.03
29 15 0.38
30 9 0.23
31 11 0.28
32 3 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (29 bp):
AATAAATTAAAATAATATAAAATTATTCA
Found at i:36332985 original size:95 final size:95
Alignment explanation
Indices: 36332822--36333650 Score: 1631
Period size: 95 Copynumber: 8.7 Consensus size: 95
36332812 CACAATGTAT
* **
36332822 AGAAGATAATGTGTTTCAGTGCGCTCAAATTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36332887 AATCTATAGTTTCTTTCCAATCCATAAATA
66 AATCTATAGTTTCTTTCCAATCCATAAATA
36332917 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36332982 AATCTATAGTTTCTTTCCAATCCATAAATA
66 AATCTATAGTTTCTTTCCAATCCATAAATA
36333012 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36333077 AATCTATAGTTTCTTTCCAATCCATAAATA
66 AATCTATAGTTTCTTTCCAATCCATAAATA
36333107 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36333172 AATCTATAGTTTCTTTCCAATCCATAAATA
66 AATCTATAGTTTCTTTCCAATCCATAAATA
36333202 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36333267 AATCTATAGTTTCTTTCCAATCCATAAATA
66 AATCTATAGTTTCTTTCCAATCCATAAATA
36333297 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36333362 AATCTATAGTTTCTTTCCAATCCATAAATA
66 AATCTATAGTTTCTTTCCAATCCATAAATA
36333392 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36333457 AATCTATAGTTTCTTTCCAATCCATAAATA
66 AATCTATAGTTTCTTTCCAATCCATAAATA
36333487 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36333552 AATCTATAGTTTCTTTCCAATCCATAAATA
66 AATCTATAGTTTCTTTCCAATCCATAAATA
36333582 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
1 AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
36333647 AATC
66 AATC
36333651 AAACTAATAC
Statistics
Matches: 731, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 731 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.34
Consensus pattern (95 bp):
AGAAGATAATGTGTTTCAGTGCACTCAACCTCATATACTCTTGTATTGACAACAATACACATACT
AATCTATAGTTTCTTTCCAATCCATAAATA
Found at i:36336486 original size:17 final size:17
Alignment explanation
Indices: 36336367--36336477 Score: 76
Period size: 17 Copynumber: 6.7 Consensus size: 17
36336357 TTAAAGTTTT
36336367 TTAAAATTTTAAATATA
1 TTAAAATTTTAAATATA
*
36336384 TTAAAAAATATTAAATATA
1 TT--AAAATTTTAAATATA
* * *
36336403 AT-CAATTTTAAA-ATT
1 TTAAAATTTTAAATATA
36336418 TTAATACA-TTT-AATATA
1 TTAA-A-ATTTTAAATATA
*
36336435 TT----TTTAAAAATATA
1 TTAAAATTT-TAAATATA
36336449 TTAAAATTTTAAATATA
1 TTAAAATTTTAAATATA
36336466 TTAAAATTTTAA
1 TTAAAATTTTAA
36336478 TATTCTTAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 26
0.66 0.09 0.24
Matches are distributed among these distances:
12 2 0.03
14 8 0.11
15 3 0.04
16 10 0.14
17 29 0.41
18 4 0.06
19 15 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAAAATTTTAAATATA
Found at i:36336576 original size:15 final size:16
Alignment explanation
Indices: 36336555--36336591 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
36336545 AAAATTTTAA
*
36336555 AAAAATTAAATATATT
1 AAAATTTAAATATATT
36336571 AAAATTTTAAATATATT
1 AAAA-TTTAAATATATT
36336588 AAAA
1 AAAA
36336592 AATGTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATTTAAATATATT
Found at i:36336593 original size:19 final size:19
Alignment explanation
Indices: 36336551--36336604 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
36336541 TTAAAAAATT
36336551 TTAAAAAA-ATTAAATATA
1 TTAAAAAATATTAAATATA
*
36336569 TT--AAAATTTTAAATATA
1 TTAAAAAATATTAAATATA
* *
36336586 TTAAAAAATGTTAAGTATA
1 TTAAAAAATATTAAATATA
36336605 ACCAAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 11 0.37
18 2 0.07
19 13 0.43
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (19 bp):
TTAAAAAATATTAAATATA
Found at i:36336685 original size:9 final size:9
Alignment explanation
Indices: 36336667--36336722 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 9
36336657 GATTTTTAAT
*
36336667 ATATTTAAA
1 ATATTAAAA
*
36336676 ATTTTAAAA
1 ATATTAAAA
*
36336685 A-ATTAAAT
1 ATATTAAAA
36336693 ATATT-AAA
1 ATATTAAAA
* *
36336701 ATTTTAAAT
1 ATATTAAAA
36336710 ATATTAAAA
1 ATATTAAAA
36336719 ATAT
1 ATAT
36336723 GTGAAGTATA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
8 12 0.33
9 24 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATATTAAAA
Found at i:36336694 original size:26 final size:27
Alignment explanation
Indices: 36336664--36336722 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
36336654 AAAGATTTTT
36336664 AATATATTTAAAATTTTAAA-AAATTA
1 AATATATTTAAAATTTTAAATAAATTA
*
36336690 AATATA-TTAAAATTTTAAATATATTA
1 AATATATTTAAAATTTTAAATAAATTA
*
36336716 AAAATAT
1 AATATAT
36336723 GTGAAGTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
AATATATTTAAAATTTTAAATAAATTA
Found at i:36336699 original size:17 final size:17
Alignment explanation
Indices: 36336679--36336719 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
36336669 ATTTAAAATT
36336679 TTAAAAAATTAAATATA
1 TTAAAAAATTAAATATA
**
36336696 TTAAAATTTTAAATATA
1 TTAAAAAATTAAATATA
36336713 TTAAAAA
1 TTAAAAA
36336720 TATGTGAAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAAATTAAATATA
Found at i:36336701 original size:15 final size:16
Alignment explanation
Indices: 36336669--36336718 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
36336659 TTTTTAATAT
*
36336669 ATTTAAA-ATTTTAAAA
1 ATTTAAATATATT-AAA
*
36336685 AATTAAATATATTAAA
1 ATTTAAATATATTAAA
36336701 ATTTTAAATATATTAAA
1 A-TTTAAATATATTAAA
36336718 A
1 A
36336719 ATATGTGAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 10 0.34
17 19 0.66
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTTAAATATATTAAA
Found at i:36336711 original size:127 final size:130
Alignment explanation
Indices: 36336545--36336823 Score: 422
Period size: 127 Copynumber: 2.1 Consensus size: 130
36336535 AAGATTTTAA
*
36336545 AAAATTTTAAAAAAATTAAATATATTAAAATTTTAAATATATTAAAAA-ATGTTAAGTATAACCA
1 AAAATTTT-AAAAAATTAAATATATTAAAATTTTAAATATATTAAAAATATGTGAAGTAT-ACCA
*
36336609 AATTTAAAAATTTAATATATTCAATATATTTTTTAATAGGT-A-AAAAAAGA-TTTTTAATATAT
64 AATTTAAAAATTTAATATATTCAATATATTTTTTAATAGATAAGAAAAAAGATTTTTTAATATAT
36336671 TT
129 TT
*
36336673 AAAATTTTAAAAAATTAAATATATTAAAATTTTAAATATATTAAAAATATGTGAAGTATACCAAT
1 AAAATTTTAAAAAATTAAATATATTAAAATTTTAAATATATTAAAAATATGTGAAGTATACCAAA
*
36336738 TTTAAAAATTTAATATATTTAATATATTTTTTAATAGATAAAGGTAAAAAAGATTTTTTTAATAT
66 TTTAAAAATTTAATATATTCAATATATTTTTTAATAGAT-AA-G-AAAAAAGA-TTTTTTAATAT
36336803 ATTT
127 ATTT
*
36336807 AAAATTTCCAAAAAATT
1 AAAATTT-TAAAAAATT
36336824 TAAAGAAAAA
Statistics
Matches: 137, Mismatches: 5, Indels: 11
0.90 0.03 0.07
Matches are distributed among these distances:
127 81 0.59
128 18 0.13
129 1 0.01
132 8 0.06
134 21 0.15
135 8 0.06
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.42
Consensus pattern (130 bp):
AAAATTTTAAAAAATTAAATATATTAAAATTTTAAATATATTAAAAATATGTGAAGTATACCAAA
TTTAAAAATTTAATATATTCAATATATTTTTTAATAGATAAGAAAAAAGATTTTTTAATATATTT
Found at i:36337314 original size:10 final size:9
Alignment explanation
Indices: 36337301--36337715 Score: 90
Period size: 9 Copynumber: 42.8 Consensus size: 9
36337291 TTATTATGTT
36337301 TTTTTAATAA
1 TTTTT-ATAA
36337311 TTTTTAT-A
1 TTTTTATAA
36337319 TTATTTATAAA
1 TT-TTTAT-AA
36337330 TTTTTATAA
1 TTTTTATAA
36337339 GTTTTTATAAA
1 -TTTTTAT-AA
** * *
36337350 AATTCAAATA
1 TTTTTATA-A
*
36337360 TATTTTATTA
1 T-TTTTATAA
*
36337370 CTTTTATAA
1 TTTTTATAA
*
36337379 -TTTTATATT
1 TTTTTATA-A
36337388 TTTTTATAA
1 TTTTTATAA
*
36337397 TATTTATAA
1 TTTTTATAA
*
36337406 GTTTTTTTATGAT
1 ---TTTTTAT-AA
36337419 TTTTTATAA
1 TTTTTATAA
*
36337428 TTATTATAA
1 TTTTTATAA
*
36337437 GTTTATATCAA
1 -TTTTTAT-AA
** *
36337448 TTTCAATAT
1 TTTTTATAA
36337457 TTTTTA-AA
1 TTTTTATAA
*
36337465 TTGTTAATGATA
1 TT-TTTAT-A-A
* *
36337477 TTTTTCTTA
1 TTTTTATAA
36337486 TTTTTAATGATA
1 TTTTT-AT-A-A
*
36337498 TTTTTTTATA
1 TTTTTATA-A
*
36337508 TTTTTATATG
1 TTTTTATA-A
36337518 TTTTTATAAA
1 TTTTTAT-AA
*
36337528 ATTTTA-AA
1 TTTTTATAA
*
36337536 TATTTTAAATA
1 T-TTTTATA-A
*
36337547 TGTTTTATTCA
1 T-TTTTA-TAA
**
36337558 TTTTATATTTT
1 TTTT-TA-TAA
36337569 TTTTTATAA
1 TTTTTATAA
* *
36337578 TTTATTAGAT
1 TTT-TTATAA
36337588 TTTTTA-AA
1 TTTTTATAA
* *
36337596 TATTTAAGTTA
1 T-TTTTA-TAA
36337607 TTTTTATAA
1 TTTTTATAA
*
36337616 TATTTATAA
1 TTTTTATAA
*
36337625 GTTTCTATAA
1 -TTTTTATAA
*
36337635 ATTTTA-ATA
1 TTTTTATA-A
*
36337644 TTTTTATTA
1 TTTTTATAA
*
36337653 -TTTAATAA
1 TTTTTATAA
*
36337661 -TTTAATAA
1 TTTTTATAA
* *
36337669 TTTTAATGA
1 TTTTTATAA
36337678 TTTTTAATAAAA
1 TTTTT-AT--AA
*
36337690 TTTTTATGA
1 TTTTTATAA
*
36337699 TTTTTAATAG
1 TTTTT-ATAA
36337709 TTTTTAT
1 TTTTTAT
36337716 GAGAAAATAT
Statistics
Matches: 298, Mismatches: 67, Indels: 81
0.67 0.15 0.18
Matches are distributed among these distances:
8 32 0.11
9 104 0.35
10 103 0.35
11 37 0.12
12 21 0.07
13 1 0.00
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:36337343 original size:41 final size:41
Alignment explanation
Indices: 36337271--36337353 Score: 96
Period size: 41 Copynumber: 2.0 Consensus size: 41
36337261 AAATGACTAC
* ** * * *
36337271 TTTTATATATTTTTAGCTTTTTATTATGTTTTTTTAATAAT
1 TTTTATATATTTATAAATTTTTATTAAGTTTTTATAAAAAT
36337312 TTTTATATTATTTATAAATTTTTA-TAAGTTTTTATAAAAAT
1 TTTTATA-TATTTATAAATTTTTATTAAGTTTTTATAAAAAT
36337353 T
1 T
36337354 CAAATATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (41 bp):
TTTTATATATTTATAAATTTTTATTAAGTTTTTATAAAAAT
Found at i:36337402 original size:19 final size:20
Alignment explanation
Indices: 36337371--36337421 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 20
36337361 ATTTTATTAC
36337371 TTTTATAATTTTAT-A-TTT
1 TTTTATAATTTTATAAGTTT
36337389 TTTTATAATATTTATAAGTTT
1 TTTTATAAT-TTTATAAGTTT
*
36337410 TTTTATGATTTT
1 TTTTATAATTTT
36337422 TTATAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.31
19 5 0.17
20 4 0.14
21 11 0.38
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTATAATTTTATAAGTTT
Done.