Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 120 of 322
Found at i:39209978 original size:25 final size:25
Alignment explanation
Indices: 39209950--39210002 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
39209940 TTGGGGCTTA
*
39209950 GCCCAGATATAACACTAGCACAAAT
1 GCCCAGATATAACACCAGCACAAAT
*
39209975 GCCCGGATATAACACCAGCACAAAT
1 GCCCAGATATAACACCAGCACAAAT
39210000 GCC
1 GCC
39210003 TTCGGGGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.32, G:0.15, T:0.13
Consensus pattern (25 bp):
GCCCAGATATAACACCAGCACAAAT
Found at i:39210012 original size:64 final size:64
Alignment explanation
Indices: 39209911--39210041 Score: 217
Period size: 64 Copynumber: 2.0 Consensus size: 64
39209901 TCGGAGCTTA
* * *
39209911 GCCCGGATATAACACCAGCACGAATGCCTTTGGGGCTTAGCCCAGATATAACACTAGCACAAAT
1 GCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCAGATATAACACCAGCACAAAT
* *
39209975 GCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAAT
1 GCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCAGATATAACACCAGCACAAAT
39210039 GCC
1 GCC
39210042 TTCGGGACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.31, C:0.31, G:0.21, T:0.17
Consensus pattern (64 bp):
GCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCAGATATAACACCAGCACAAAT
Found at i:39210029 original size:39 final size:39
Alignment explanation
Indices: 39209975--39210064 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 39
39209965 TAGCACAAAT
*
39209975 GCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTTA
1 GCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTA
*
39210014 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTA
1 GCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTA
39210053 GCCCGGATATAA
1 GCCCGGATATAA
39210065 TTCTCCATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.29, C:0.30, G:0.23, T:0.18
Consensus pattern (39 bp):
GCCCGGATATAACACCAGCACAAATGCCTTCGGGACTTA
Found at i:39210053 original size:103 final size:103
Alignment explanation
Indices: 39209872--39210064 Score: 323
Period size: 103 Copynumber: 1.9 Consensus size: 103
39209862 GGGACTTTAA
* *
39209872 GCCCGAATATAATACCAGCACGAATGCCTTCGGAGCTTAGCCCGGATATAACACCAGCACGAATG
1 GCCCGAATATAACACCAGCACAAATGCCTTCGGAGCTTAGCCCGGATATAACACCAGCACGAATG
* *
39209937 CCTTTGGGGCTTAGCCCAGATATAACACTAGCACAAAT
66 CCTTCGGGACTTAGCCCAGATATAACACTAGCACAAAT
* *
39209975 GCCCGGATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCGGATATAACACCAGCACGAATG
1 GCCCGAATATAACACCAGCACAAATGCCTTCGGAGCTTAGCCCGGATATAACACCAGCACGAATG
*
39210040 CCTTCGGGACTTAGCCCGGATATAA
66 CCTTCGGGACTTAGCCCAGATATAA
39210065 TTCTCCATTA
Statistics
Matches: 83, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.19
Consensus pattern (103 bp):
GCCCGAATATAACACCAGCACAAATGCCTTCGGAGCTTAGCCCGGATATAACACCAGCACGAATG
CCTTCGGGACTTAGCCCAGATATAACACTAGCACAAAT
Found at i:39219535 original size:25 final size:25
Alignment explanation
Indices: 39219507--39219558 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
39219497 TCGGGGCTTA
39219507 GCCCAGATATAACACCAGCACAAAT
1 GCCCAGATATAACACCAGCACAAAT
*
39219532 GCCCGGATATAACACCAGCACAAAT
1 GCCCAGATATAACACCAGCACAAAT
39219557 GC
1 GC
39219559 TTCGGGGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.33, G:0.15, T:0.12
Consensus pattern (25 bp):
GCCCAGATATAACACCAGCACAAAT
Found at i:39219583 original size:63 final size:64
Alignment explanation
Indices: 39219468--39219597 Score: 199
Period size: 63 Copynumber: 2.0 Consensus size: 64
39219458 GGGACTTTAA
* *
39219468 GCCCGAATATAATACCAGCACGAATGCCTTCGGGGCTTAGCCCAGATATAACACCAGCACAAAT
1 GCCCGAATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCAGATATAACACCAGCACAAAT
* ** *
39219532 GCCCGGATATAACACCAGCACAAATG-CTTCGGGGCTTAGCCTGGATATAACACCAGCACGAAT
1 GCCCGAATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCAGATATAACACCAGCACAAAT
39219595 GCC
1 GCC
39219598 TTCGGGACTT
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
63 37 0.62
64 23 0.38
ACGTcount: A:0.32, C:0.30, G:0.21, T:0.17
Consensus pattern (64 bp):
GCCCGAATATAACACCAGCACAAATGCCTTCGGGGCTTAGCCCAGATATAACACCAGCACAAAT
Found at i:39219617 original size:39 final size:39
Alignment explanation
Indices: 39219532--39219659 Score: 213
Period size: 39 Copynumber: 3.3 Consensus size: 39
39219522 CAGCACAAAT
* *
39219532 GCCCGGATATAACACCAGCACAAATG-CTTCGGGGCTTA
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTA
*
39219570 GCCTGGATATAACACCAGCACGAATGCCTTCGGGACTTA
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTA
*
39219609 GCCCGGATATAACACCAGCACGAATACCTTCGGGACTTA
1 GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTA
39219648 GCCCGGATATAA
1 GCCCGGATATAA
39219660 TTCTCCATTA
Statistics
Matches: 84, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
38 24 0.29
39 60 0.71
ACGTcount: A:0.30, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
GCCCGGATATAACACCAGCACGAATGCCTTCGGGACTTA
Found at i:39221556 original size:39 final size:39
Alignment explanation
Indices: 39221502--39221748 Score: 370
Period size: 39 Copynumber: 6.3 Consensus size: 39
39221492 TAATGGAGAA
*
39221502 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
39221541 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
39221580 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGTTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
39221619 TTACATCCGGGCTAAGCCCCGAAGGCATTTGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
39221658 TTATATCTGGGCTAAG-CCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTGGTG
* * * *
39221697 TTATATCCGGGCTAAGCCCCGAAGGCATTTGTGCTAGTA
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
39221736 TTATATTCGGGCT
1 TTATATCCGGGCT
39221749 TAAAGTCTCG
Statistics
Matches: 190, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
38 3 0.02
39 184 0.97
40 3 0.02
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:39225189 original size:29 final size:30
Alignment explanation
Indices: 39225132--39225189 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
39225122 TGGAAGGGGA
* * *
39225132 GTAAAAGTTTTGGGAGGAAAGTGAGAAGGG
1 GTAAAAGTTTTGGAAGGAAAGTAAAAAGGG
39225162 GTAAAAGTTTT-GAAGGAAAGTAAAAAGG
1 GTAAAAGTTTTGGAAGGAAAGTAAAAAGG
39225190 TTTGATAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.36, T:0.21
Consensus pattern (30 bp):
GTAAAAGTTTTGGAAGGAAAGTAAAAAGGG
Found at i:39225249 original size:9 final size:9
Alignment explanation
Indices: 39225231--39225267 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
39225221 TATAGTTTGA
39225231 TATTCGAAT
1 TATTCGAAT
*
39225240 TATTCAAAT
1 TATTCGAAT
*
39225249 TATTCGAGT
1 TATTCGAAT
39225258 TATTCGAAT
1 TATTCGAAT
39225267 T
1 T
39225268 CGAAAATTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:39232302 original size:40 final size:40
Alignment explanation
Indices: 39232243--39232430 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
39232233 GAGCACTGGA
* *
39232243 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
39232283 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
39232323 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
*
39232363 ATATATCCGGGTTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
39232403 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
39232431 ATGTGTTTGC
Statistics
Matches: 142, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:39239083 original size:23 final size:23
Alignment explanation
Indices: 39239057--39239101 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
39239047 GAGACTAAGT
39239057 GGTGATGAAGAAGAAGAGGAAAA
1 GGTGATGAAGAAGAAGAGGAAAA
39239080 GGTGATGAAGAAGAAGAGGAAA
1 GGTGATGAAGAAGAAGAGGAAA
39239102 GGTTGACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.40, T:0.09
Consensus pattern (23 bp):
GGTGATGAAGAAGAAGAGGAAAA
Found at i:39244863 original size:23 final size:22
Alignment explanation
Indices: 39244788--39244875 Score: 90
Period size: 21 Copynumber: 4.0 Consensus size: 22
39244778 ACCTGATCAG
*
39244788 AATACGACACATAAAGTGCCTA
1 AATACGACACATGAAGTGCCTA
*
39244810 AA-ACGACACACGAAGTGCCT-
1 AATACGACACATGAAGTGCCTA
* * *
39244830 CATACGGCACATGAGGTGCCTAA
1 AATACGACACATGAAGTGCCT-A
* *
39244853 AATACGACACATAAAGTACCTA
1 AATACGACACATGAAGTGCCTA
39244875 A
1 A
39244876 TCAGTAAAGC
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
20 1 0.02
21 31 0.60
22 4 0.08
23 16 0.31
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.16
Consensus pattern (22 bp):
AATACGACACATGAAGTGCCTA
Found at i:39245216 original size:39 final size:39
Alignment explanation
Indices: 39245162--39245240 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
39245152 ATTTGAATAG
39245162 TAATACAAACCCGAATTTTGCGATTACTCCTCGATAACT
1 TAATACAAACCCGAATTTTGCGATTACTCCTCGATAACT
*
39245201 TAATACAAACCCGAATTTTGCGATTACTGCTCGATAACT
1 TAATACAAACCCGAATTTTGCGATTACTCCTCGATAACT
39245240 T
1 T
39245241 TCTCCTTTCC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (39 bp):
TAATACAAACCCGAATTTTGCGATTACTCCTCGATAACT
Found at i:39246354 original size:3 final size:3
Alignment explanation
Indices: 39246346--39246407 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
39246336 ATATGAAACC
* ** *
39246346 ATA ATA ATA ATA ATA ATA ATA AT- TTA AT- ATA A-A ACC ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
39246391 ATTA ATA ATA ATA ATA A
1 A-TA ATA ATA ATA ATA A
39246408 AATCTTAGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
2 5 0.10
3 40 0.83
4 3 0.06
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:39246362 original size:36 final size:37
Alignment explanation
Indices: 39246321--39246404 Score: 125
Period size: 36 Copynumber: 2.3 Consensus size: 37
39246311 ATACCTATTA
* *
39246321 AATAATTATAACTTAATATGAAACCATAATAATAA-T
1 AATAATAATAACTTAATATAAAACCATAATAATAATT
* *
39246357 AATAATAATAATTTAATATAAAACCATACTAATAATT
1 AATAATAATAACTTAATATAAAACCATAATAATAATT
39246394 AATAATAATAA
1 AATAATAATAA
39246405 TAAAATCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
36 31 0.72
37 12 0.28
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.33
Consensus pattern (37 bp):
AATAATAATAACTTAATATAAAACCATAATAATAATT
Found at i:39265352 original size:43 final size:43
Alignment explanation
Indices: 39265291--39265402 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 43
39265281 CTGGCATTAC
* *
39265291 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCGCGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
39265334 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
* *
39265377 GCCTGCTAGGCACAAAGGCCTGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
39265403 TAATACCAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACAAA
Found at i:39265443 original size:38 final size:38
Alignment explanation
Indices: 39265400--39265558 Score: 203
Period size: 38 Copynumber: 4.1 Consensus size: 38
39265390 AAAGGCCTGA
* * *
39265400 ATATAATACCAGCACTAGGCCTGCGGGATTTATCCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
39265438 ATATAATACCAGCACGAAGCCTGCAGAATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
** *
39265476 ATATTTTACCAGCACGAAGCCTGC-GGATCTTTAAGCTCGG
1 ATATAATACCAGCACGAAGCCTGCGGGA--TTTAA-CCCGG
*
39265516 ATATAATACCAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
39265554 ATATA
1 ATATA
39265559 CATCGTATAT
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
37 2 0.02
38 64 0.62
39 10 0.10
40 25 0.24
41 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:39269996 original size:10 final size:10
Alignment explanation
Indices: 39269983--39270021 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
39269973 ATATATGAAT
39269983 ATATCATGGC
1 ATATCATGGC
39269993 ATATCATGTGC
1 ATATCATG-GC
*
39270004 ATATTATGGC
1 ATATCATGGC
39270014 ATATCATG
1 ATATCATG
39270022 TACAAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (10 bp):
ATATCATGGC
Found at i:39270012 original size:21 final size:21
Alignment explanation
Indices: 39269983--39270022 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
39269973 ATATATGAAT
39269983 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
*
39270004 ATATTATGGCATATCATGT
1 ATATCATGGCATATCATGT
39270023 ACAAAAACAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:39270104 original size:24 final size:25
Alignment explanation
Indices: 39270062--39270111 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
39270052 ATAACATAAC
*
39270062 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCATAATGGTCATTTTCA
39270087 CCTAGGGGCA-AATGGTCATTTTCA
1 CCTAGGGGCATAATGGTCATTTTCA
39270111 C
1 C
39270112 ATTATAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (25 bp):
CCTAGGGGCATAATGGTCATTTTCA
Found at i:39277553 original size:29 final size:29
Alignment explanation
Indices: 39277511--39277586 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
39277501 TCTCAACATA
39277511 TACTGGGCCGAAGCCTTTCGTTTAACGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACGGT
*
39277540 TACTAGGCCGAAGCCTTTCGTTTAACGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACGGT
39277569 TACTGGGCCGAAGCCTTT
1 TACTGGGCCGAAGCCTTT
39277587 ACTGTATACG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.30
Consensus pattern (29 bp):
TACTGGGCCGAAGCCTTTCGTTTAACGGT
Found at i:39277879 original size:25 final size:24
Alignment explanation
Indices: 39277807--39277879 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 24
39277797 CTCTTTTAAT
*
39277807 AACTGGGACAAAGCCCTTTTTGATA
1 AACTGGG-CAAAGCCCTTTTTGGTA
39277832 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACT-GGGCAAAGCCCTTTTTGGTA
39277857 AACTCGGGCAAAGCCCTTTTTGG
1 AACT-GGGCAAAGCCCTTTTTGG
39277880 ACTTCCTCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
25 42 0.93
26 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (24 bp):
AACTGGGCAAAGCCCTTTTTGGTA
Found at i:39277947 original size:11 final size:10
Alignment explanation
Indices: 39277923--39277957 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
39277913 ATATATGAAT
39277923 ATATCATGGC
1 ATATCATGGC
*
39277933 ATATCGTGTGC
1 ATATCATG-GC
39277944 ATATCATGGC
1 ATATCATGGC
39277954 ATAT
1 ATAT
39277958 AACATACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:39278030 original size:25 final size:25
Alignment explanation
Indices: 39278002--39278052 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
39277992 ATATCATAAC
* *
39278002 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
39278027 CCTAGGGGCAAAATGGTCATTTTCA
1 CCTAGGGGCAAAATGGTCATTTTCA
39278052 C
1 C
39278053 ATTATAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTCA
Found at i:39282138 original size:16 final size:15
Alignment explanation
Indices: 39282117--39282159 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
39282107 CTAGATCAGC
39282117 AAAAGCCGAAAAGTCG
1 AAAAGCC-AAAAGTCG
39282133 AAAAGCCAAAATGTCG
1 AAAAGCCAAAA-GTCG
*
39282149 AAATGCCAAAA
1 AAAAGCCAAAA
39282160 AGCCAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (15 bp):
AAAAGCCAAAAGTCG
Found at i:39288817 original size:27 final size:26
Alignment explanation
Indices: 39288782--39288890 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 26
39288772 AGCATGGCTG
* *
39288782 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
39288808 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
39288836 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
39288863 CTAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
39288890 C
1 C
39288891 AAGGACGCTT
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.69
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:39290336 original size:24 final size:24
Alignment explanation
Indices: 39290309--39290355 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
39290299 CTAGATTTCC
**
39290309 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
39290333 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
39290356 CTCCTGACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.38, G:0.02, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:39293339 original size:44 final size:44
Alignment explanation
Indices: 39293276--39293364 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
39293266 TCAAAAATTG
39293276 ACTTAATTTCCTAATAGCCATTGTCGAAAATATTATCGATTACC
1 ACTTAATTTCCTAATAGCCATTGTCGAAAATATTATCGATTACC
*
39293320 ACTTAATTTCCTAATAGCCATTGTTGAAAATATTATCGATTACC
1 ACTTAATTTCCTAATAGCCATTGTCGAAAATATTATCGATTACC
39293364 A
1 A
39293365 ACCTTATGAA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (44 bp):
ACTTAATTTCCTAATAGCCATTGTCGAAAATATTATCGATTACC
Found at i:39295115 original size:13 final size:13
Alignment explanation
Indices: 39295097--39295122 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39295087 TTAAGAGTTT
39295097 GATATTTTTATGA
1 GATATTTTTATGA
39295110 GATATTTTTATGA
1 GATATTTTTATGA
39295123 TTTTTTGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
GATATTTTTATGA
Found at i:39296174 original size:40 final size:40
Alignment explanation
Indices: 39296126--39296291 Score: 264
Period size: 40 Copynumber: 4.2 Consensus size: 40
39296116 AAACTAAGAT
* * *
39296126 CCGAAGGCATTTGTGCTAG-TGACTAAATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
39296166 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
*
39296206 CCAAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
*
39296246 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
39296285 CCGAAGG
1 CCGAAGG
39296292 TACTTGGGTT
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.13
40 102 0.86
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
Found at i:39299776 original size:21 final size:21
Alignment explanation
Indices: 39299750--39299796 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
39299740 AGAACTATGA
39299750 TTCCACGTCATTTTTAT-AGTT
1 TTCCACGTCATTTTTATCA-TT
39299771 TTCCACGTCATTTTTATCATT
1 TTCCACGTCATTTTTATCATT
39299792 TTCCA
1 TTCCA
39299797 ACAAGAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.51
Consensus pattern (21 bp):
TTCCACGTCATTTTTATCATT
Found at i:39304264 original size:48 final size:48
Alignment explanation
Indices: 39304144--39304459 Score: 415
Period size: 48 Copynumber: 6.6 Consensus size: 48
39304134 AAATGAGATT
* *
39304144 CTGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTCGAGA-AGTGTGT
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGA-T-GATATA-TGTGC
* *
39304193 CTGTGTAAGACCATGTCTGGGACATGGCATTGGTGATGATATATGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
* *
39304241 CTGTGTAAGACCATGTCTGGGACATGGCATCAGCAATGATATATGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
* * *
39304289 CTGTATAAGACCATGTCTGGGACATAGCACCGGCGATGATATATGTGC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
* * * *
39304337 CAGTGTAAGACCATGTCTGGGATATGGCATCAGTGATGATATATGTGTC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTG-C
* * *
39304386 AT-TGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTTC
1 CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
39304433 CAT-TGTAAGACCATGTCTGGGACATGG
1 C-TGTGTAAGACCATGTCTGGGACATGG
39304460 TATTGGTACT
Statistics
Matches: 234, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
47 1 0.00
48 197 0.84
49 35 0.15
50 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (48 bp):
CTGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTGC
Found at i:39308273 original size:55 final size:54
Alignment explanation
Indices: 39308178--39308327 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
39308168 CTACTTTGTT
* ** * *
39308178 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
39308232 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
39308287 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
39308328 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:39308290 original size:27 final size:27
Alignment explanation
Indices: 39308150--39308327 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
39308140 TAAATTGTAC
39308150 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
39308177 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
39308203 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
39308231 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
39308259 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
39308286 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
39308313 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39308328 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:39308291 original size:82 final size:81
Alignment explanation
Indices: 39308151--39308306 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
39308141 AAATTGTACA
* * * *
39308151 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
39308216 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
39308232 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
39308295 TGTGCGAGTTGA
63 TGTGCGAATTGA
39308307 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:39316243 original size:27 final size:27
Alignment explanation
Indices: 39316212--39316389 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
39316202 TAAATTGTAC
39316212 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39316239 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39316265 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39316293 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39316321 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39316348 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
39316375 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
39316390 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39316326 original size:82 final size:81
Alignment explanation
Indices: 39316213--39316368 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39316203 AAATTGTACA
* *
39316213 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39316277 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39316294 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39316359 TGCGAGTTGA
65 TGCGAATTGA
39316369 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39316380 original size:82 final size:81
Alignment explanation
Indices: 39316209--39316389 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
39316199 GATTAAATTG
* *
39316209 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
39316274 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
39316290 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
39316354 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
39316372 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
39316390 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:39323191 original size:25 final size:25
Alignment explanation
Indices: 39323130--39323194 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
39323120 AAGCTCTCTC
*
39323130 CTGAGCCATATAACAGGAAGCTCAT
1 CTGAGCTATATAACAGGAAGCTCAT
* * * *
39323155 GTGAGCTGTATAACGGGAAGCTTAT
1 CTGAGCTATATAACAGGAAGCTCAT
39323180 CT-AGGCTATATAACA
1 CTGA-GCTATATAACA
39323195 AAAAACTCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (25 bp):
CTGAGCTATATAACAGGAAGCTCAT
Found at i:39323928 original size:21 final size:22
Alignment explanation
Indices: 39323904--39323956 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 22
39323894 GAAAATGCAT
*
39323904 GTTTGT-TGTTAGTTAAACAAC
1 GTTTGTATGATAGTTAAACAAC
39323925 GTTTGTAAAGTGATAGTTAAACAAC
1 GTTTGT--A-TGATAGTTAAACAAC
39323950 GTTTGTA
1 GTTTGTA
39323957 AAGTGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 6 0.22
23 1 0.04
25 20 0.74
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.40
Consensus pattern (22 bp):
GTTTGTATGATAGTTAAACAAC
Found at i:39323947 original size:25 final size:25
Alignment explanation
Indices: 39323913--39323963 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
39323903 TGTTTGTTGT
39323913 TAGTTAAACAACGTTTGTAAAGTGA
1 TAGTTAAACAACGTTTGTAAAGTGA
39323938 TAGTTAAACAACGTTTGTAAAGTGA
1 TAGTTAAACAACGTTTGTAAAGTGA
39323963 T
1 T
39323964 TTTTGATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (25 bp):
TAGTTAAACAACGTTTGTAAAGTGA
Found at i:39325323 original size:99 final size:101
Alignment explanation
Indices: 39325125--39325324 Score: 359
Period size: 99 Copynumber: 2.0 Consensus size: 101
39325115 ATTATGTATG
39325125 TTTTGGTTGCCTAAGTATACCATGATTTATGCCATTGAACTTGTGTGTGTGTAGGCGGAAATGAG
1 TTTTGGTTGCCTAAGTATACCATGATTTATGCCATTGAACTTGTGTGTGTGTAGGCGGAAATGAG
39325190 GGTGACAAATGGCTCGGTAAATAGCCTTTATTTTGT
66 GGTGACAAATGGCTCGGTAAATAGCCTTTATTTTGT
*
39325226 TTTTGGTTGCCTAAGTATACCATGATTTATGCCATTGAAC-T-TGTGTGTGTAGGTGGAAATGAG
1 TTTTGGTTGCCTAAGTATACCATGATTTATGCCATTGAACTTGTGTGTGTGTAGGCGGAAATGAG
* *
39325289 GGTGACAAATGGCTTGGTACATAGCCTTTATTTTGT
66 GGTGACAAATGGCTCGGTAAATAGCCTTTATTTTGT
39325325 CCACATGGGT
Statistics
Matches: 96, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
99 55 0.57
100 1 0.01
101 40 0.42
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (101 bp):
TTTTGGTTGCCTAAGTATACCATGATTTATGCCATTGAACTTGTGTGTGTGTAGGCGGAAATGAG
GGTGACAAATGGCTCGGTAAATAGCCTTTATTTTGT
Found at i:39326030 original size:26 final size:26
Alignment explanation
Indices: 39325994--39326053 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
39325984 GAAGCTTTGG
*
39325994 AGAGCCATTAATTAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* *
39326020 AGAGCCTTTAATCAGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
*
39326046 AGAACCAT
1 AGAGCCAT
39326054 ATATCGGGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:39326153 original size:24 final size:25
Alignment explanation
Indices: 39326126--39326173 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
39326116 GGATAATCTG
* *
39326126 AAGAGCTAT-TAACGGGAAGCTCAC
1 AAGAGCCATATAACGAGAAGCTCAC
39326150 AAGAGCCATATAACGAGAAGCTCA
1 AAGAGCCATATAACGAGAAGCTCA
39326174 AGAGGGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.15
Consensus pattern (25 bp):
AAGAGCCATATAACGAGAAGCTCAC
Found at i:39326540 original size:21 final size:21
Alignment explanation
Indices: 39326516--39326557 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
39326506 TAAATTTAAC
*
39326516 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
39326537 TCAATTCAATTCAATTCATAT
1 TCAATTCAATACAATTCATAT
39326558 CTTAGGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:39326545 original size:5 final size:5
Alignment explanation
Indices: 39326516--39326554 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
39326506 TAAATTTAAC
* *
39326516 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
39326555 TATCTTAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:39330220 original size:17 final size:17
Alignment explanation
Indices: 39330200--39330240 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
39330190 AGAAAATTTT
*
39330200 ATTGATTATGTGGTTAA
1 ATTGATTATATGGTTAA
39330217 ATTGATTATATGGTTAA
1 ATTGATTATATGGTTAA
39330234 ATTGATT
1 ATTGATT
39330241 TAAAAGGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.49
Consensus pattern (17 bp):
ATTGATTATATGGTTAA
Found at i:39330539 original size:5 final size:5
Alignment explanation
Indices: 39330531--39330829 Score: 525
Period size: 5 Copynumber: 60.0 Consensus size: 5
39330521 ATTTAACATA
* *
39330531 TATAT TATAT TAT-T TTTACT TA-AT TA-AT AAGTA- TATTAT TATAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TA-TAT TAT-AT TATAT
39330575 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
39330625 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
39330675 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
39330725 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
39330775 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
39330825 TATAT
1 TATAT
39330830 AGTTTAATTT
Statistics
Matches: 284, Mismatches: 4, Indels: 12
0.95 0.01 0.04
Matches are distributed among these distances:
4 10 0.04
5 268 0.94
6 6 0.02
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:39331652 original size:25 final size:25
Alignment explanation
Indices: 39331624--39331682 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
39331614 CTTAGCCACA
*
39331624 CTCTGATTATTAGCACGTCAGTGCT
1 CTCTGATTACTAGCACGTCAGTGCT
* *
39331649 CTCTGATTACTAGTACGTTAGTGCT
1 CTCTGATTACTAGCACGTCAGTGCT
39331674 CTCTGATTA
1 CTCTGATTA
39331683 GCACATTTGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (25 bp):
CTCTGATTACTAGCACGTCAGTGCT
Found at i:39331697 original size:22 final size:23
Alignment explanation
Indices: 39331624--39331722 Score: 96
Period size: 22 Copynumber: 4.2 Consensus size: 23
39331614 CTTAGCCACA
* *
39331624 CTCTGATTATTAGCACGTCAGTGCT
1 CTCTGA-TA-TAGCACTTTAGTGCT
* *
39331649 CTCTGATTACTAGTACGTTAGTGCT
1 CTCTGA-TA-TAGCACTTTAGTGCT
39331674 CTCTGAT-TAGCACATTT-GTGCT
1 CTCTGATATAGCAC-TTTAGTGCT
39331696 CTCT-ATATAGCACTTTAGTGCT
1 CTCTGATATAGCACTTTAGTGCT
39331718 CTCTG
1 CTCTG
39331723 TTCATTAGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
21 5 0.08
22 29 0.45
23 2 0.03
24 1 0.02
25 28 0.43
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (23 bp):
CTCTGATATAGCACTTTAGTGCT
Found at i:39337043 original size:41 final size:40
Alignment explanation
Indices: 39336972--39337148 Score: 239
Period size: 41 Copynumber: 4.3 Consensus size: 40
39336962 AGAGTAATAG
*
39336972 AAACGCCGCTAAAAA-TAGAGCATTAGCGGCGCTTTTGATA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTG-TA
* * *
39337012 AAACGTCGCTAAAAACCAGAGCATTGGCGGCGCTTTTGGCA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GTA
*
39337053 CAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTTGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGC-TTTTGTA
*
39337094 AAACACCGCTAAAAACCAGAGCATTAGCGGCGCTTTTCGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GTA
* *
39337135 AAACACCGTTAAAA
1 AAACGCCGCTAAAA
39337149 GTCATATAAC
Statistics
Matches: 122, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
40 18 0.15
41 99 0.81
42 5 0.04
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.20
Consensus pattern (40 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGTA
Found at i:39337328 original size:14 final size:14
Alignment explanation
Indices: 39337306--39337350 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
39337296 TTAATTATTA
*
39337306 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
39337320 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
39337334 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
39337348 TTA
1 TTA
39337351 ATGTTTAGGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:39337464 original size:21 final size:21
Alignment explanation
Indices: 39337412--39337523 Score: 72
Period size: 22 Copynumber: 5.2 Consensus size: 21
39337402 GGGATTATGA
39337412 TTTAGGGTTTAAGGGTTAA-GG
1 TTTAGGG-TTAAGGGTTAAGGG
39337433 -TT-GGAGTTTAA-GGTGTAAGGG
1 TTTAGG-G-TTAAGGGT-TAAGGG
*
39337454 TTTGGGGTTAAGGGTTAAGGG
1 TTTAGGGTTAAGGGTTAAGGG
* * *
39337475 TTTAGGGTTTAGTGTTTATGGG
1 TTTAGGGTTAAG-GGTTAAGGG
* *
39337497 -ATAGGGGTTAAGAGGTTTAGGG
1 TTTA-GGGTTAAG-GGTTAAGGG
39337519 TTTAG
1 TTTAG
39337524 ATTAATTAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 17
0.72 0.11 0.17
Matches are distributed among these distances:
19 5 0.07
20 11 0.15
21 24 0.34
22 27 0.38
23 4 0.06
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (21 bp):
TTTAGGGTTAAGGGTTAAGGG
Found at i:39337522 original size:7 final size:7
Alignment explanation
Indices: 39337395--39337523 Score: 68
Period size: 7 Copynumber: 18.1 Consensus size: 7
39337385 GATGAATTAT
39337395 GGGTTTA
1 GGGTTTA
*
39337402 GGGATTA
1 GGGTTTA
* *
39337409 TGATTTA
1 GGGTTTA
39337416 GGGTTTAA
1 GGGTTT-A
39337424 GGG-TTA
1 GGGTTTA
*
39337430 AGG-TT-
1 GGGTTTA
39337435 GGAGTTTA
1 GG-GTTTA
* *
39337443 AGGTGTAA
1 GGGT-TTA
*
39337451 GGGTTTG
1 GGGTTTA
*
39337458 GGGTTAA
1 GGGTTTA
*
39337465 GGGTTAA
1 GGGTTTA
39337472 GGGTTTA
1 GGGTTTA
39337479 GGGTTTA
1 GGGTTTA
*
39337486 GTGTTTA
1 GGGTTTA
*
39337493 TGGG-ATA
1 -GGGTTTA
*
39337500 GGGGTTAA
1 -GGGTTTA
39337508 GAGGTTTA
1 G-GGTTTA
39337516 GGGTTTA
1 GGGTTTA
39337523 G
1 G
39337524 ATTAATTAGT
Statistics
Matches: 91, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
5 1 0.01
6 6 0.07
7 65 0.71
8 19 0.21
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (7 bp):
GGGTTTA
Found at i:39343368 original size:19 final size:19
Alignment explanation
Indices: 39343346--39343386 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
39343336 TTTATTGATA
39343346 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
39343364 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
39343383 TTTT
1 TTTT
39343387 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:39343421 original size:85 final size:86
Alignment explanation
Indices: 39343321--39343505 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 86
39343311 AAGTAACTTC
* *
39343321 ATTATAATATCTTATTTTATTGATATTTTTATATTTAATCTAGTTTTTATTATTTATTTTAGTTT
1 ATTATAATATCTTATTTTATTGATATCTTTATATTTAATCTAATTTTTATTATTTATTTTAGTTT
39343386 TGATTCTAAATTTTTATTTTT
66 TGATTCTAAATTTTTATTTTT
39343407 ATTA-AATATCTTATTTTATTGATATCTTTATATTTAATCTAATTTTTATTATTTATTTTAGTTT
1 ATTATAATATCTTATTTTATTGATATCTTTATATTTAATCTAATTTTTATTATTTATTTTAGTTT
39343471 TGATTCTAAATTTTTATTTTT
66 TGATTCTAAATTTTTATTTTT
*
39343492 ATTTTAATAT-TTAT
1 ATTATAATATCTTAT
39343506 GATAACTTAA
Statistics
Matches: 95, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
85 86 0.91
86 9 0.09
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (86 bp):
ATTATAATATCTTATTTTATTGATATCTTTATATTTAATCTAATTTTTATTATTTATTTTAGTTT
TGATTCTAAATTTTTATTTTT
Found at i:39349642 original size:29 final size:29
Alignment explanation
Indices: 39349600--39349686 Score: 147
Period size: 29 Copynumber: 3.0 Consensus size: 29
39349590 AGCATAAGAA
* *
39349600 TTTATAGCCAGAACCGCATAATATTTTTT
1 TTTATAGCCAGAACCACATAATATTTTTC
*
39349629 TTTATAGCCAGAACCACAAAATATTTTTC
1 TTTATAGCCAGAACCACATAATATTTTTC
39349658 TTTATAGCCAGAACCACATAATATTTTTC
1 TTTATAGCCAGAACCACATAATATTTTTC
39349687 ATTCTCAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.38
Consensus pattern (29 bp):
TTTATAGCCAGAACCACATAATATTTTTC
Found at i:39351249 original size:11 final size:12
Alignment explanation
Indices: 39351221--39351253 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
39351211 TGAAGCCGTT
*
39351221 CAAAAATAAATA
1 CAAAAATAAACA
39351233 CAAAAATAAACA
1 CAAAAATAAACA
39351245 C-AAAATAAA
1 CAAAAATAAA
39351254 GATATAGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (12 bp):
CAAAAATAAACA
Found at i:39356351 original size:26 final size:26
Alignment explanation
Indices: 39356321--39356375 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
39356311 AACCTTAACA
39356321 AGACCTTCTCTTGGTCGGCCACCTTG
1 AGACCTTCTCTTGGTCGGCCACCTTG
*
39356347 AGACCTTCTCTTGGTCGGCCACTTTG
1 AGACCTTCTCTTGGTCGGCCACCTTG
39356373 AGA
1 AGA
39356376 AACCCTTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.15, C:0.31, G:0.24, T:0.31
Consensus pattern (26 bp):
AGACCTTCTCTTGGTCGGCCACCTTG
Found at i:39363794 original size:49 final size:49
Alignment explanation
Indices: 39363730--39363925 Score: 250
Period size: 50 Copynumber: 3.9 Consensus size: 49
39363720 TAGCCAAAGC
* * *
39363730 TATCTGGTACGCGTAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* *
39363779 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACC-AAT
* * * *
39363829 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
* *
39363880 TATCGGGTACA-GATAGTAGCTTGCACTTAGTACTACACATGTGACC
1 TATCTGGTACACG-TAGTAGCCTGCACTTAGTACTACACATGTGACC
39363926 TCACAATAGA
Statistics
Matches: 126, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
49 42 0.33
50 46 0.37
51 38 0.30
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:39363914 original size:101 final size:99
Alignment explanation
Indices: 39363731--39363926 Score: 286
Period size: 101 Copynumber: 2.0 Consensus size: 99
39363721 AGCCAAAGCT
* * *
39363731 ATCTGGTACGCGTAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACGTAGT
39363796 AGCCTGCACTTAGTACTACACATGTGACCTAACC
66 AGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * *
39363830 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACA-GAT
1 ATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGCGA-CCAA-TTATCCGGTACACG-T
*
39363894 AGTAGCTTGCACTTAGTACTACACATGTGACCT
63 AGTAGCCTGCACTTAGTACTACACATGTGACCT
39363927 CACAATAGAT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
99 38 0.44
100 4 0.05
101 44 0.51
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (99 bp):
ATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACGTAGT
AGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:39369977 original size:43 final size:43
Alignment explanation
Indices: 39369909--39370077 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 43
39369899 TAAGCTCGTA
* * * *
39369909 CAATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* * * *
39369951 CAATGCCACTGTCCCAGACA-GTGTCTTACACGAAATCATATAA
1 CAATGCCAATGTCCCAGACATG-GTCTTACACGTAATCACATAT
* * * **
39369994 CGATTCCAATGTTCCAGACATCATCTTACACGTAATCACA-AT
1 CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
* *
39370036 ACAATGCCAATGTCCCAGACATGGTCTAACATGTAATCACAT
1 -CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAT
39370078 CTCGATAACC
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
42 9 0.09
43 89 0.91
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACATAT
Found at i:39375546 original size:47 final size:47
Alignment explanation
Indices: 39375486--39375604 Score: 193
Period size: 47 Copynumber: 2.5 Consensus size: 47
39375476 ACTTTGGCAC
*
39375486 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACACGGCATTTGG
* * *
39375533 TAAGACAATGATACCATGTAAGACAATGTTTGGAACACGGCATTTGG
1 TAAGATAAGGATACCATGTAAGACCATGTTTGGAACACGGCATTTGG
*
39375580 TAAGATAAGGATATCATGTAAGACC
1 TAAGATAAGGATACCATGTAAGACC
39375605 GTGCCAAGGC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGATAAGGATACCATGTAAGACCATGTTTGGAACACGGCATTTGG
Found at i:39375714 original size:55 final size:54
Alignment explanation
Indices: 39375586--39375782 Score: 236
Period size: 55 Copynumber: 3.6 Consensus size: 54
39375576 TTGGTAAGAT
* * * * *
39375586 AAGGATATCATGTAAGACCGTGCCAAGGCATGGCATTGATAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * *
39375640 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAAGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC
* *
39375695 AAAGG-TCCCATGTAAGACCATGCCAAGACATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
39375748 AAGGATACCACGTAAGACCATGTCAAAACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
39375783 ATGGTAAGTT
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 41 0.33
55 42 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:39376396 original size:19 final size:19
Alignment explanation
Indices: 39376372--39376409 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
39376362 GGGACTTAGC
39376372 CATTTTGTGTGTATGTCCT
1 CATTTTGTGTGTATGTCCT
39376391 CATTTTGTGTGTATGTCCT
1 CATTTTGTGTGTATGTCCT
39376410 TATGATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.11, C:0.16, G:0.21, T:0.53
Consensus pattern (19 bp):
CATTTTGTGTGTATGTCCT
Found at i:39377653 original size:46 final size:46
Alignment explanation
Indices: 39377598--39377693 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
39377588 TATTATGAGA
* *
39377598 TATTTGAATTTTTGTGAGATAGAATCAAAATGATTTCGGAATCCCT
1 TATTTGAATTTTTGTGAGACAGAATCAAAATGATTTCAGAATCCCT
* * *
39377644 TATTTGAATTTTTGTGAGACAGAGTCAGAATGATTTTAGAATCCCT
1 TATTTGAATTTTTGTGAGACAGAATCAAAATGATTTCAGAATCCCT
39377690 TATT
1 TATT
39377694 CTGATTTGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (46 bp):
TATTTGAATTTTTGTGAGACAGAATCAAAATGATTTCAGAATCCCT
Found at i:39380349 original size:27 final size:27
Alignment explanation
Indices: 39380318--39380712 Score: 364
Period size: 27 Copynumber: 14.7 Consensus size: 27
39380308 CCTTGACTTG
***
39380318 TAAAATTACCAAAGTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* *
39380345 CAAAATTACCGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
*
39380372 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* ***
39380399 TAGAATTATTGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* *
39380426 CAAAATTACCATTTTACCCTCAATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
**
39380453 TAAAATTACCATTTTATACTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* * *
39380480 TAGAATTACCGTTTCT-TCCTCGATTTA
1 TAAAATTACCATTT-TACCCTCGATTTA
* * * *
39380507 CAAAATTATCATTTTACCTTTGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* * **
39380534 CAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* * *
39380561 CAGAATTA-CAGTTTTACCCTCAATTTA
1 TAAAATTACCA-TTTTACCCTCGATTTA
*
39380588 TAAAATTACCGTTTTACCC-CGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* **
39380614 TAGAATTACCATTTTACCCTTAATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* **
39380641 TAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* * * *
39380668 CAGAATTATCGTTTTACCCTCGATTTA
1 TAAAATTACCATTTTACCCTCGATTTA
* * **
39380695 CAGAATTACTGTTTTACC
1 TAAAATTACCATTTTACC
39380713 TTAATTTTGA
Statistics
Matches: 306, Mismatches: 57, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
26 24 0.08
27 280 0.92
28 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.41
Consensus pattern (27 bp):
TAAAATTACCATTTTACCCTCGATTTA
Found at i:39380379 original size:54 final size:54
Alignment explanation
Indices: 39380332--39380712 Score: 415
Period size: 54 Copynumber: 7.1 Consensus size: 54
39380322 ATTACCAAAG
*
39380332 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* ** * *
39380386 TACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * * * ** *
39380440 TACCCTCAATTTATAAAATTACCATTTTATACTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * * * * * * **
39380494 CT-TCCTCGATTTACAAAATTATCATTTTACCTTTGATTTACAGAATTACTGTTT
1 -TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * * *
39380548 TACCCTCGATTTACAGAATTACAGTTTTACCCTCAATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * ** **
39380602 TACCC-CGATTTATAGAATTACCATTTTACCCTTAATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
* * **
39380655 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
39380709 TACC
1 TACC
39380713 TTAATTTTGA
Statistics
Matches: 275, Mismatches: 49, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
53 48 0.17
54 226 0.82
55 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
Found at i:39380430 original size:81 final size:81
Alignment explanation
Indices: 39380332--39380712 Score: 505
Period size: 81 Copynumber: 4.7 Consensus size: 81
39380322 ATTACCAAAG
39380332 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
39380397 TATAGAATTATTGTTT
66 TATAGAATTACTGTTT
* * * **
39380413 TACCCTCGATTTACAAAATTACCATTTTACCCTCAATTTATAAAATTACCATTTTATACTCGATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
*
39380478 TATAGAATTACCGTTT
66 TATAGAATTACTGTTT
* * * * * * **
39380494 CT-TCCTCGATTTACAAAATTATCATTTTACCTTTGATTTACAGAATTACTGTTTTACCCTCGAT
1 -TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGAT
* *
39380558 TTACAGAATTACAGTTT
65 TTATAGAATTACTGTTT
* * **
39380575 TACCCTCAATTTATAAAATTACCGTTTTACCC-CGATTTATAGAATTACCATTTTACCCTTAATT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
39380639 TATAGAATTACTGTTT
66 TATAGAATTACTGTTT
* * * **
39380655 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAGAATTACTGTTTTACC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACC
39380713 TTAATTTTGA
Statistics
Matches: 256, Mismatches: 41, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
80 69 0.27
81 186 0.73
82 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATT
TATAGAATTACTGTTT
Found at i:39380761 original size:27 final size:27
Alignment explanation
Indices: 39380731--39380791 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
39380721 GAAATTACTG
39380731 AAATACCCCT-GTAGGGTAGAATTACCA
1 AAATACCCCTAGT-GGGTAGAATTACCA
* **
39380758 AAATGCCCCTAGTTTGTAGAATTACCA
1 AAATACCCCTAGTGGGTAGAATTACCA
39380785 AAATACC
1 AAATACC
39380792 ACTGGTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (27 bp):
AAATACCCCTAGTGGGTAGAATTACCA
Found at i:39380799 original size:27 final size:26
Alignment explanation
Indices: 39380750--39380845 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 26
39380740 TGTAGGGTAG
* *
39380750 AATTACCAAAATGCCCCTAGTTTGTAG
1 AATTACCAAAAT-ACCCTAGTTTGTAA
* *
39380777 AATTACCAAAATACCACTGGTTTTTAA
1 AATTACCAAAATACC-CTAGTTTGTAA
*
39380804 AATTACC-AAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AGTTTGTAA
*
39380830 AATTACCAAAACACCC
1 AATTACCAAAATACCC
39380846 CTGATTTACA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
25 2 0.03
26 22 0.38
27 34 0.59
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (26 bp):
AATTACCAAAATACCCTAGTTTGTAA
Found at i:39380872 original size:27 final size:26
Alignment explanation
Indices: 39380802--39380930 Score: 98
Period size: 27 Copynumber: 4.8 Consensus size: 26
39380792 ACTGGTTTTT
* ** **
39380802 AAAATTACCAAATACCCTCAATTTGT
1 AAAATTACAAAATACCCTTGATTTAC
* *
39380828 AAAATTACCAAAACACCCCTGATTTAC
1 AAAATTA-CAAAATACCCTTGATTTAC
*
39380855 AAAATTACAGAAATACCCTTAACTTT-C
1 AAAATTACA-AAATACCCTTGA-TTTAC
* * *
39380882 AAAAATTATAGAAATACCATTGGTTTAC
1 -AAAATTACA-AAATACCCTTGATTTAC
39380910 AAAATTACTAAAATACCCTTG
1 AAAATTAC-AAAATACCCTTG
39380931 GTTTGTAGAT
Statistics
Matches: 81, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
26 9 0.11
27 49 0.60
28 23 0.28
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (26 bp):
AAAATTACAAAATACCCTTGATTTAC
Found at i:39381920 original size:25 final size:25
Alignment explanation
Indices: 39381867--39381969 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
39381857 AGGAAGTGCT
* * *
39381867 AAAAGGGC-TATGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTGATC
* *
39381891 GAAAAAGGCTTTTGCCCGAGTTGATC
1 -AAAAGGGCTTTTGCCCCAGTTGATC
*
39381917 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTGATC
* * *
39381942 CAAAGGGC-TTTGCCCTAG-TGATT
1 AAAAGGGCTTTTGCCCCAGTTGATC
39381965 AAAAG
1 AAAAG
39381970 AGACTAGGCC
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
23 7 0.11
24 9 0.14
25 36 0.56
26 12 0.19
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTGATC
Found at i:39382168 original size:42 final size:42
Alignment explanation
Indices: 39382109--39382200 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
39382099 TAGTCTCCCC
* *
39382109 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTACATGTGATATTG
39382151 AAATGGGCTTGCATACATTCATTGATATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTACATGTGATATTG
39382193 AAATGGGC
1 AAATGGGC
39382201 CTATGGGCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.29, C:0.12, G:0.22, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTACATGTGATATTG
Found at i:39387302 original size:50 final size:51
Alignment explanation
Indices: 39387221--39387391 Score: 139
Period size: 51 Copynumber: 3.4 Consensus size: 51
39387211 ACGTCATGTA
* * * * **
39387221 TGTAGTACTAAGTGCT-GGCTACTACGTGTACCAGAT-GGTTAGGTCGTATG
1 TGTAGTACTAAGTG-TAGGCTACTATGCGTACCAGATAGCTTAGATCACATG
* *
39387271 TGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAGCTTCGATCACATG
1 TGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAGCTTAGATCACATG
* * * * ** * * *
39387322 TGTGGTACTAAGTGCAGGCCACTATGAGTAAAAGATAGCTTTGGTCACAAG
1 TGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAGCTTAGATCACATG
* * *
39387373 TGTGGTACTATGTGAAGGC
1 TGTAGTACTAAGTGTAGGC
39387392 CACTTTGTGA
Statistics
Matches: 99, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
49 1 0.01
50 31 0.31
51 67 0.68
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (51 bp):
TGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATAGCTTAGATCACATG
Found at i:39387334 original size:51 final size:51
Alignment explanation
Indices: 39387268--39387445 Score: 153
Period size: 51 Copynumber: 3.5 Consensus size: 51
39387258 GTTAGGTCGT
* * * * ***
39387268 ATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGATAGCTTCGATCAC
1 ATGTGTGGTACTAAGTGAAGGCCACTATGAGTAAAAGATAGCTTCGATCAC
* * *
39387319 ATGTGTGGTACTAAGTGCAGGCCACTATGAGTAAAAGATAGCTTTGGTCAC
1 ATGTGTGGTACTAAGTGAAGGCCACTATGAGTAAAAGATAGCTTCGATCAC
* * * * *
39387370 AAGTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGATAGCTTTGA-CTAC
1 ATGTGTGGTACTAAGTGAAGGCCACTATGAGTAA-AAGATAGCTTCGATC-AC
* * * *
39387421 AAGGGTGGTACTATGTGCAGGCCAC
1 ATGTGTGGTACTAAGTGAAGGCCAC
39387446 CGGGCATCTG
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
50 3 0.03
51 105 0.97
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (51 bp):
ATGTGTGGTACTAAGTGAAGGCCACTATGAGTAAAAGATAGCTTCGATCAC
Found at i:39389836 original size:50 final size:50
Alignment explanation
Indices: 39389759--39389867 Score: 164
Period size: 50 Copynumber: 2.2 Consensus size: 50
39389749 ATGACCATGC
* * *
39389759 ATATTCGGCCAGATAGGTATCTTCATATGTGATGTTATATTTGATCTTGT
1 ATATTCGGCCACATAGGTATCTACATATATGATGTTATATTTGATCTTGT
* *
39389809 ATATTCGGTCACATAGGTATGTACATATATGATGTTATATTTGATCTTGT
1 ATATTCGGCCACATAGGTATCTACATATATGATGTTATATTTGATCTTGT
*
39389859 GTATTCGGC
1 ATATTCGGC
39389868 TAAATGAGTG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (50 bp):
ATATTCGGCCACATAGGTATCTACATATATGATGTTATATTTGATCTTGT
Found at i:39396403 original size:42 final size:41
Alignment explanation
Indices: 39396344--39396514 Score: 180
Period size: 42 Copynumber: 4.0 Consensus size: 41
39396334 TTAGGGTTAC
* *
39396344 TGAGATTACGTGTAAGACCATAACTGGGATATGGCATCGGTA
1 TGAGATT-CATGTAAGACCATATCTGGGATATGGCATCGGTA
* * *
39396386 TGGGACTTCATATAAGACCATATCTGGGATATGGCATTGGTA
1 TGAGA-TTCATGTAAGACCATATCTGGGATATGGCATCGGTA
* * * *
39396428 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCATGTAAGACCATATCTGGGATA-TGGCATCGGTA
** * *
39396471 CAAGATTACATGTAAGACCATATCTGAGATATGGCATTGGTA
1 TGAGATT-CATGTAAGACCATATCTGGGATATGGCATCGGTA
39396513 TG
1 TG
39396515 GTACCGAGTG
Statistics
Matches: 103, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
42 70 0.68
43 33 0.32
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (41 bp):
TGAGATTCATGTAAGACCATATCTGGGATATGGCATCGGTA
Found at i:39396502 original size:85 final size:84
Alignment explanation
Indices: 39396344--39396514 Score: 236
Period size: 85 Copynumber: 2.0 Consensus size: 84
39396334 TTAGGGTTAC
* ***
39396344 TGAGATTACGTGTAAGACCATAACTGGGATATGGCATCGGTATGGGACTTCATATAAGACCATAT
1 TGAGATTACGTGTAAGACCATAACTGGGATATGGCATCGATACAAGACTTCATATAAGACCATAT
*
39396409 CTGGGATATGGCATTGGTA
66 CTGAGATATGGCATTGGTA
* * * *
39396428 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATACAAGA-TTACATGTAAGACCAT
1 TGAGATTACGTGTAAGACCATAACTGGGATA-TGGCATCGATACAAGACTT-CATATAAGACCAT
39396492 ATCTGAGATATGGCATTGGTA
64 ATCTGAGATATGGCATTGGTA
39396513 TG
1 TG
39396515 GTACCGAGTG
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
84 30 0.39
85 46 0.61
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (84 bp):
TGAGATTACGTGTAAGACCATAACTGGGATATGGCATCGATACAAGACTTCATATAAGACCATAT
CTGAGATATGGCATTGGTA
Found at i:39397540 original size:24 final size:25
Alignment explanation
Indices: 39397513--39397589 Score: 102
Period size: 25 Copynumber: 3.1 Consensus size: 25
39397503 GCCTAGCCTC
39397513 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
39397537 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* * * *
39397562 TTTCAGTAAACTAGGGCATAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
39397587 TTT
1 TTT
39397590 AGCACTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.13
25 40 0.87
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:39397788 original size:27 final size:27
Alignment explanation
Indices: 39397756--39397813 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
39397746 TTGCCCACAA
39397756 GGGCAAAACAGTCATTTAACACCCTAG
1 GGGCAAAACAGTCATTTAACACCCTAG
* *
39397783 GGGCAAAACAGTCATTTAACGCCCTTG
1 GGGCAAAACAGTCATTTAACACCCTAG
39397810 GGGC
1 GGGC
39397814 TTTTACATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTAACACCCTAG
Found at i:39398500 original size:27 final size:27
Alignment explanation
Indices: 39398470--39398527 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
39398460 TACAAGGGTA
39398470 TTACGGTCACTTTACCCTATAGGGGCT
1 TTACGGTCACTTTACCCTATAGGGGCT
39398497 TTACGGTCACTTTACCCTATAGGGGCT
1 TTACGGTCACTTTACCCTATAGGGGCT
39398524 TTAC
1 TTAC
39398528 AGTCTTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (27 bp):
TTACGGTCACTTTACCCTATAGGGGCT
Found at i:39398546 original size:27 final size:27
Alignment explanation
Indices: 39398470--39398548 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
39398460 TACAAGGGTA
* *
39398470 TTACGGTCACTTTACCCTATAGGGGCT
1 TTACAGTCACTTTACACTATAGGGGCT
* *
39398497 TTACGGTCACTTTACCCTATAGGGGCT
1 TTACAGTCACTTTACACTATAGGGGCT
**
39398524 TTACAGTCTTTTTA-ACTATTAGGGG
1 TTACAGTCACTTTACACTA-TAGGGG
39398549 TATTTTAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 3 0.06
27 44 0.94
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (27 bp):
TTACAGTCACTTTACACTATAGGGGCT
Found at i:39398687 original size:56 final size:54
Alignment explanation
Indices: 39398601--39398756 Score: 161
Period size: 54 Copynumber: 2.9 Consensus size: 54
39398591 ACAAACCAGG
* ** *
39398601 ATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAGTCAAAGGT
1 ATTTCAGTAATTTTGTAAACTAGGGGTATTT-TGATAA-TTTTACAAA-TCAAAGGT
* * * *
39398657 ATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAAAGGT
1 ATTTCAGTAATTTTGTAAACTAGGGGTATTTTGATAATTTTACAAATCAAAGGT
* ** * *
39398711 ATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTGTACAAA
1 ATTTCAGTAATTTTGTAAACTAGGGGTATTTTGATAATTTTACAAA
39398757 CTAGGGGTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 48 0.56
55 9 0.10
56 29 0.34
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (54 bp):
ATTTCAGTAATTTTGTAAACTAGGGGTATTTTGATAATTTTACAAATCAAAGGT
Found at i:39398693 original size:27 final size:27
Alignment explanation
Indices: 39398654--39398776 Score: 158
Period size: 27 Copynumber: 4.6 Consensus size: 27
39398644 GAAAGTCAAA
** *
39398654 GGTATTTCT-GTAATTTTGTAAATTAGG
1 GGTATTT-TGGTAATTTTACAAACTAGG
* **
39398681 GGTATTTTGGTAATTTTACAAATTAAA
1 GGTATTTTGGTAATTTTACAAACTAGG
*
39398708 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
*
39398735 GGTATTTTGGTAATTGTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAACTAGG
39398762 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
39398777 CTACCCTACA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 84 0.99
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAACTAGG
Found at i:39398844 original size:27 final size:27
Alignment explanation
Indices: 39398808--39398926 Score: 175
Period size: 27 Copynumber: 4.4 Consensus size: 27
39398798 GTAATTTCAC
39398808 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
39398835 AATCAAGGGTAAAATGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
39398862 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
39398889 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
39398916 AATCGAAGGTA
1 AATCGAGGGTA
39398927 CTTTGGTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:39398961 original size:81 final size:80
Alignment explanation
Indices: 39398792--39398964 Score: 183
Period size: 81 Copynumber: 2.1 Consensus size: 80
39398782 CTACAGTGGT
*
39398792 ATTTCAGTAATTTCACAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATT
1 ATTTCAGTAATTTCAAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATT
*
39398857 CTGTAAATCGAGGGT
66 CTGTAAATCGAGGGC
*** * *** *
39398872 AAAACAGTAA-TTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAA-GGTACTTTGGTA
1 ATTTCAGTAATTTC-A-AAATCGAGGGTAAAACGGTAATTCTGTAAATC-AAGGGTAAAATGATA
39398935 ATT-T-TACAAGTCGAGGGC
63 ATTCTGTA-AA-TCGAGGGC
39398953 ATTTCAGTAATT
1 ATTTCAGTAATT
39398965 GGTAAACTAA
Statistics
Matches: 74, Mismatches: 13, Indels: 10
0.76 0.13 0.10
Matches are distributed among these distances:
79 5 0.07
80 11 0.15
81 55 0.74
82 3 0.04
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (80 bp):
ATTTCAGTAATTTCAAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAATGATAATT
CTGTAAATCGAGGGC
Found at i:39417946 original size:36 final size:36
Alignment explanation
Indices: 39417905--39417980 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
39417895 TGGAAAAGGG
*
39417905 AATGTAAATTTTATTTAGTTAATGTGCCGAATATGT
1 AATGTAAATTTTATTTAATTAATGTGCCGAATATGT
39417941 AATGTAAATTTTATTTAATTAATGTGCCGAATATGT
1 AATGTAAATTTTATTTAATTAATGTGCCGAATATGT
39417977 AATG
1 AATG
39417981 ATTTAAGGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (36 bp):
AATGTAAATTTTATTTAATTAATGTGCCGAATATGT
Found at i:39418904 original size:43 final size:43
Alignment explanation
Indices: 39418851--39418975 Score: 205
Period size: 43 Copynumber: 2.9 Consensus size: 43
39418841 GCTGGTATTA
39418851 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
39418894 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCAGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* *
39418937 TATTCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
39418976 AATGATATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.14, C:0.25, G:0.33, T:0.29
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:39424263 original size:11 final size:10
Alignment explanation
Indices: 39424208--39424265 Score: 84
Period size: 11 Copynumber: 5.8 Consensus size: 10
39424198 ATCTAAAATA
39424208 AAAAATATTT
1 AAAAATATTT
39424218 AAAAAATATTT
1 -AAAAATATTT
39424229 AAAAAT-TTT
1 AAAAATATTT
39424238 AAAAAT-TTT
1 AAAAATATTT
39424247 AAAAATTATTT
1 AAAAA-TATTT
39424258 AAAAATAT
1 AAAAATAT
39424266 AATAATTTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
9 17 0.38
10 10 0.22
11 18 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAAATATTT
Found at i:39446050 original size:27 final size:27
Alignment explanation
Indices: 39446012--39446065 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
39446002 CTTCTTGAAT
*
39446012 TTTTCCTTGATCTTTGCTCACCAAGAC
1 TTTTCCTTGATCTTTACTCACCAAGAC
39446039 TTTTCCTTGATCTTTACTCACCAAGAC
1 TTTTCCTTGATCTTTACTCACCAAGAC
39446066 AAGTATAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (27 bp):
TTTTCCTTGATCTTTACTCACCAAGAC
Found at i:39469578 original size:27 final size:27
Alignment explanation
Indices: 39469540--39469593 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
39469530 CTTCTTGAAT
*
39469540 TTTTCCTTGATCTTTGCTCACCAAGAC
1 TTTTCCTTGATCTTTACTCACCAAGAC
39469567 TTTTCCTTGATCTTTACTCACCAAGAC
1 TTTTCCTTGATCTTTACTCACCAAGAC
39469594 AAGTATAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (27 bp):
TTTTCCTTGATCTTTACTCACCAAGAC
Found at i:39478027 original size:39 final size:39
Alignment explanation
Indices: 39477979--39478295 Score: 305
Period size: 39 Copynumber: 8.1 Consensus size: 39
39477969 TAAGTGCAAA
* *
39477979 TCAGGGGTACCAAAGTGCAACAGGGGCATGTATGTGCAT
1 TCAGGGGTACCAAAGTACAACAGGGGCACGTATGTGCAT
* * *
39478018 TTAGGGGTACCGAAGTACAA-AGGGGGCACGTAGGTGCAT
1 TCAGGGGTACCAAAGTACAACA-GGGGCACGTATGTGCAT
* * * *
39478057 TCAGGGATACCAAAATACAACGGGGGCACGTAGGTGCAT
1 TCAGGGGTACCAAAGTACAACAGGGGCACGTATGTGCAT
* * * *
39478096 TCAAGGGTACCAAATTACAACAAGGGCACATATGTGCAT
1 TCAGGGGTACCAAAGTACAACAGGGGCACGTATGTGCAT
* * ** * *
39478135 TTAGAGGTACCAAAGTACAATGGGGGCACATAGGTGCAT
1 TCAGGGGTACCAAAGTACAACAGGGGCACGTATGTGCAT
* * *** *
39478174 TCATGGTTATTGAAGTACAACAGGGGCATGTATGTGCAT
1 TCAGGGGTACCAAAGTACAACAGGGGCACGTATGTGCAT
* ** *
39478213 TCAGGAGTACTGAAGTACAACAGGGGCAAGTATGTGCAT
1 TCAGGGGTACCAAAGTACAACAGGGGCACGTATGTGCAT
* * * *
39478252 TCAGGGTTGCCAGAA-TACAATAGGGGCACGAATGTGCAT
1 TCAGGGGTACCA-AAGTACAACAGGGGCACGTATGTGCAT
39478291 TCAGG
1 TCAGG
39478296 TACAATTACA
Statistics
Matches: 225, Mismatches: 50, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
38 1 0.00
39 222 0.99
40 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.21
Consensus pattern (39 bp):
TCAGGGGTACCAAAGTACAACAGGGGCACGTATGTGCAT
Found at i:39478271 original size:117 final size:117
Alignment explanation
Indices: 39477983--39478295 Score: 341
Period size: 117 Copynumber: 2.7 Consensus size: 117
39477973 TGCAAATCAG
* * *
39477983 GGGTACCAAAGTGCAACAGGGGCATGTATGTGCATTTAGGGGTACC-GAAGTACAAAGGGGGCAC
1 GGGTACCAAAGTACAACAGGGGCAAGTATGTGCATTTA-GGGTACCAGAAGTACAATGGGGGCAC
* *
39478047 GTAGGTGCATTCAGGGATACCAAAATACAACGGGGGCACGTAGGTGCATTCAA
65 ATAGGTGCATTCAGGGATACCAAAATACAACAGGGGCACGTAGGTGCATTCAA
* *
39478100 GGGTACCAAATTACAACAAGGGCACA-TATGTGCATTTAGAGGTACCA-AAGTACAATGGGGGCA
1 GGGTACCAAAGTACAACAGGGGCA-AGTATGTGCATTTAG-GGTACCAGAAGTACAATGGGGGCA
* * *** * * *
39478163 CATAGGTGCATTCATGGTTATTGAAGTACAACAGGGGCATGTATGTGCATTC-A
64 CATAGGTGCATTCAGGGATACCAAAATACAACAGGGGCACGTAGGTGCATTCAA
** * * *
39478216 GGAGTACTGAAGTACAACAGGGGCAAGTATGTGCATTCAGGGTTGCCAGAA-TACAATAGGGGCA
1 GG-GTACCAAAGTACAACAGGGGCAAGTATGTGCATTTAGGG-TACCAGAAGTACAATGGGGGCA
*
39478280 CGA-ATGTGCATTCAGG
64 C-ATAGGTGCATTCAGG
39478296 TACAATTACA
Statistics
Matches: 164, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
116 7 0.04
117 154 0.94
118 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.31, T:0.21
Consensus pattern (117 bp):
GGGTACCAAAGTACAACAGGGGCAAGTATGTGCATTTAGGGTACCAGAAGTACAATGGGGGCACA
TAGGTGCATTCAGGGATACCAAAATACAACAGGGGCACGTAGGTGCATTCAA
Found at i:39485437 original size:43 final size:41
Alignment explanation
Indices: 39485291--39485437 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 41
39485281 TATCCCATAT
* * * *
39485291 ATGGTCTTACATGTTAT-CACATACCAATGCCACTTTCCCAGAT
1 ATGGTCTTACATGTAATCCA-ATA--AATGCCAATGTCCCAGAC
* * *
39485334 AGGGTCTTACATGTAATCGATTAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCCAATAA--ATGCCAATGTCCCAGAC
** *
39485377 ATGGTCTTACACATAATCTCAATATAATGCCAGTGTCCCAGAC
1 ATGGTCTTACATGTAATC-CAATA-AATGCCAATGTCCCAGAC
39485420 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGTAATC
39485438 ACATCTCAAT
Statistics
Matches: 84, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
43 78 0.93
44 4 0.05
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGGTCTTACATGTAATCCAATAAATGCCAATGTCCCAGAC
Found at i:39496793 original size:8 final size:8
Alignment explanation
Indices: 39496754--39496796 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
39496744 ATGTATCGAC
*
39496754 AAAAGCAG
1 AAAAGCCG
*
39496762 AAATGCCG
1 AAAAGCCG
*
39496770 AAAAGCCA
1 AAAAGCCG
39496778 AAAAGCCG
1 AAAAGCCG
39496786 AAAAGCCG
1 AAAAGCCG
39496794 AAA
1 AAA
39496797 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.56, C:0.21, G:0.21, T:0.02
Consensus pattern (8 bp):
AAAAGCCG
Found at i:39497054 original size:29 final size:27
Alignment explanation
Indices: 39497011--39497090 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
39497001 CATGATTATG
* *
39497011 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCA-ATA
*
39497039 AATGTGATTTGGGCCTAATGGGCCAATT
1 AATGTGA-TTGGGCCTAATGGGCCAATA
* *
39497067 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
39497091 GATACAGGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 16 0.35
28 15 0.33
29 15 0.33
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
AATGTGATTGGGCCTAATGGGCCAATA
Found at i:39498278 original size:26 final size:26
Alignment explanation
Indices: 39498243--39498301 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
39498233 TGGGATGTTA
*
39498243 TACTT-CCCGTACTTTTTCACTTCTG
1 TACTTACCCGTACTTATTCACTTCTG
*
39498268 TACTTACCCGTACTTATTCATTTCTG
1 TACTTACCCGTACTTATTCACTTCTG
39498294 TACTTACC
1 TACTTACC
39498302 TCATGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 5 0.16
26 26 0.84
ACGTcount: A:0.17, C:0.31, G:0.07, T:0.46
Consensus pattern (26 bp):
TACTTACCCGTACTTATTCACTTCTG
Found at i:39498499 original size:29 final size:30
Alignment explanation
Indices: 39498465--39498525 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
39498455 CAAGTAGTCG
*
39498465 AAGCTAG-TTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
*
39498494 AAGCTAGTTTAAATCGCAGACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
39498524 AA
1 AA
39498526 CTTTCATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:39505242 original size:40 final size:40
Alignment explanation
Indices: 39505159--39505405 Score: 272
Period size: 40 Copynumber: 6.2 Consensus size: 40
39505149 CGGATGATAA
* * **
39505159 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA-T
* *
39505199 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39505239 CCGGGCTTAGTCCTGAAGGCCTTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39505279 GCGGGCTAAGTCTCAAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
* *
39505319 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
39505359 CCGGGCTAAGTCCCAAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
39505398 CC-GGCTAA
1 CCGGGCTAA
39505406 ACCCCAAAGG
Statistics
Matches: 176, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 8 0.05
39 11 0.06
40 152 0.86
41 5 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39509651 original size:15 final size:15
Alignment explanation
Indices: 39509631--39509664 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
39509621 ATAATTCACC
*
39509631 ATAAATTATCCAGAG
1 ATAAATTAACCAGAG
39509646 ATAAATTAACCAGAG
1 ATAAATTAACCAGAG
39509661 ATAA
1 ATAA
39509665 TTAGAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.24
Consensus pattern (15 bp):
ATAAATTAACCAGAG
Found at i:39515911 original size:40 final size:40
Alignment explanation
Indices: 39515817--39516041 Score: 258
Period size: 40 Copynumber: 5.6 Consensus size: 40
39515807 TATTCGAATG
*
39515817 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
39515858 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
39515898 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
39515938 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
39515978 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
39516018 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
39516042 CTTGTGCAAG
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 1 0.01
40 127 0.80
41 29 0.18
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:39515997 original size:80 final size:80
Alignment explanation
Indices: 39515817--39516077 Score: 312
Period size: 80 Copynumber: 3.3 Consensus size: 80
39515807 TATTCGAATG
* * * *
39515817 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
39515882 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
39515898 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
39515963 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
39515978 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
39516043 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
39516057 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39516078 ATTACTTGAG
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
78 14 0.09
79 14 0.09
80 95 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:39516031 original size:120 final size:120
Alignment explanation
Indices: 39515817--39516077 Score: 325
Period size: 120 Copynumber: 2.2 Consensus size: 120
39515807 TATTCGAATG
* * *
39515817 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * * * *
39515882 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* * *
39515938 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* * *
39516001 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
65 CATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
39516057 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
39516078 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
118 15 0.12
119 19 0.16
120 57 0.47
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:39518025 original size:43 final size:43
Alignment explanation
Indices: 39517857--39518027 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
39517847 ATATAGCTTG
* * * * *
39517857 TACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA-TA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * * ** *
39517898 TATCGATGCCACTGTACCAGACAGGGTCTTACACGTAAT-TGAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* *
39517941 TAACGATGCCAATGTCTCAGACATGGTCTTACACGTAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
*
39517985 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
39518028 CTCAATAACC
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 93 0.89
44 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
Found at i:39521696 original size:46 final size:47
Alignment explanation
Indices: 39521559--39521774 Score: 176
Period size: 46 Copynumber: 4.6 Consensus size: 47
39521549 GTTATTTGTG
* * * * **
39521559 AGCCACTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGGG
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTA-CGAGATGTA
* * * *
39521607 AGCTAGTGTAAGA-CATGTCTGGGGCATGCATTAGCCT-CGAGATGTA
1 AGCCAGTGTAAGACCATGTCTGGGACATGCA-TCGGCTACGAGATGTA
*
39521653 AGCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACAAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGTA
* * * *
39521698 -GTCAGTGTAAGACCATGTCTAGGACATGACATCGGC-ATGGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATG-CATCGGCTA-CGAGATGT-A
*
39521746 GAGCTAGTGTAAGACCATGTCTGGGACAT
1 -AGCCAGTGTAAGACCATGTCTGGGACAT
39521775 TGTAACAGCC
Statistics
Matches: 135, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
44 11 0.08
45 19 0.14
46 55 0.41
47 15 0.11
48 11 0.08
50 24 0.18
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGATGTA
Found at i:39526245 original size:26 final size:26
Alignment explanation
Indices: 39526179--39526274 Score: 102
Period size: 27 Copynumber: 3.6 Consensus size: 26
39526169 TTATAAGATA
* * *
39526179 AAATGACTGTTTTACCCTTATGTGGC
1 AAATGACTATTTTGCCCTTATGTGGT
*
39526205 AAAGTGACTGTTTTGCCCTTATGTGGT
1 AAA-TGACTATTTTGCCCTTATGTGGT
* * *
39526232 AAATGACTATTTTGCCTTTATATGAT
1 AAATGACTATTTTGCCCTTATGTGGT
*
39526258 AAAATGACGATTTTGCC
1 -AAATGACTATTTTGCC
39526275 ATTCTGAGAT
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
26 22 0.36
27 39 0.64
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (26 bp):
AAATGACTATTTTGCCCTTATGTGGT
Found at i:39526270 original size:27 final size:26
Alignment explanation
Indices: 39526166--39526274 Score: 78
Period size: 27 Copynumber: 4.1 Consensus size: 26
39526156 TGTACTTGAA
* *
39526166 CCCTTATAAGATAAAATGACTG-TTTTA
1 CCCTTATATGAT-AAATGAC-GATTTTG
* **
39526193 CCCTTATGTGGCAAAGTGACTG-TTTTG
1 CCCTTATATGATAAA-TGAC-GATTTTG
* * *
39526220 CCCTTATGTGGTAAATGACTATTTTG
1 CCCTTATATGATAAATGACGATTTTG
*
39526246 CCTTTATATGATAAAATGACGATTTTG
1 CCCTTATATGAT-AAATGACGATTTTG
39526273 CC
1 CC
39526275 ATTCTGAGAT
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 21 0.31
27 47 0.69
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (26 bp):
CCCTTATATGATAAATGACGATTTTG
Found at i:39526341 original size:27 final size:27
Alignment explanation
Indices: 39526287--39526538 Score: 244
Period size: 27 Copynumber: 9.3 Consensus size: 27
39526277 TCTGAGATAG
*
39526287 AATGACTGAAATACCCCCAT-AGGTTAA
1 AATGACTGAAATACCCCTATAAGG-TAA
* *
39526314 AATAACCGAAATACCCCTATAAGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
* * *
39526341 AATGA-TATAAATACCCCCATATGGTAA
1 AATGACT-GAAATACCCCTATAAGGTAA
* *
39526368 AATGATTGAAATACCTCTATAAGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
*
39526395 AATGACTGAAATA-CCCTCATAGGGTAA
1 AATGACTGAAATACCCCT-ATAAGGTAA
* * *
39526422 AATGATTGAGATACCCTTATAAGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
*
39526449 AATTA-TCGAAATACCCCTATACA-GTAA
1 AATGACT-GAAATACCCCTATA-AGGTAA
* * * *
39526476 AGTGACTGTAATACCCCTGTATGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
* * *
39526503 AATGACTGTAATATCCCTGTAAGGTAA
1 AATGACTGAAATACCCCTATAAGGTAA
39526530 AATGACTGA
1 AATGACTGA
39526539 TTTGCCCTAC
Statistics
Matches: 185, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.02
27 172 0.93
28 9 0.05
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.26
Consensus pattern (27 bp):
AATGACTGAAATACCCCTATAAGGTAA
Found at i:39526981 original size:34 final size:33
Alignment explanation
Indices: 39526903--39526990 Score: 99
Period size: 34 Copynumber: 2.6 Consensus size: 33
39526893 TACTGCACTA
*
39526903 ATTCTGTAATGGGCTTAGGCCCCACTGATACTG
1 ATTCTGAAATGGGCTTAGGCCCCACTGATACTG
* *
39526936 -TTACTGGAATGGACTTAGGCCCACACTGATTA-TG
1 ATT-CTGAAATGGGCTTAGGCCC-CACTGA-TACTG
*
39526970 ATTCTGAAATGGGCTAAGGCC
1 ATTCTGAAATGGGCTTAGGCC
39526991 TTAACTAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
32 2 0.04
33 17 0.37
34 23 0.50
35 4 0.09
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (33 bp):
ATTCTGAAATGGGCTTAGGCCCCACTGATACTG
Found at i:39530844 original size:27 final size:27
Alignment explanation
Indices: 39530814--39531119 Score: 316
Period size: 27 Copynumber: 11.4 Consensus size: 27
39530804 ACCCTAAAAT
39530814 AGGTAAAATGACCGTAATACCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
*
39530841 AGGTAAAATGACCGTAATGCCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
*
39530868 GGGTAAAATGACCGTAA-AGCCCCTGTA
1 AGGTAAAATGACCGTAATA-CCCCTGTA
* * * *
39530895 GGGTAAGACGACC-TAATGCCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
*
39530921 AGGTAAAATGGCCGTAATACCCCTGT-
1 AGGTAAAATGACCGTAATACCCCTGTA
* * *
39530947 AGCATAAAATGACCGTAATGCCCTTGTA
1 AG-GTAAAATGACCGTAATACCCCTGTA
* * * *
39530975 GGGTAAGATGACTGTAATGCCCCTGTA
1 AGGTAAAATGACCGTAATACCCCTGTA
*
39531002 AGGTAAAATGACCGTAATACCCCTGTG
1 AGGTAAAATGACCGTAATACCCCTGTA
* ** *
39531029 GGGTAAAATGATTGTAATACCCCTAT-
1 AGGTAAAATGACCGTAATACCCCTGTA
* *
39531055 AGTGTAAAATGATCGTAATGCCCCTGTA
1 AG-GTAAAATGACCGTAATACCCCTGTA
* * * *
39531083 GGGTAAGATAACCGTAATACCCCT-AA
1 AGGTAAAATGACCGTAATACCCCTGTA
39531109 ATGGTAAAATG
1 A-GGTAAAATG
39531120 GCTATTATGT
Statistics
Matches: 229, Mismatches: 42, Indels: 16
0.80 0.15 0.06
Matches are distributed among these distances:
26 24 0.10
27 203 0.89
28 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (27 bp):
AGGTAAAATGACCGTAATACCCCTGTA
Found at i:39530900 original size:54 final size:54
Alignment explanation
Indices: 39530815--39531106 Score: 372
Period size: 54 Copynumber: 5.4 Consensus size: 54
39530805 CCCTAAAATA
*
39530815 GGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
* * *
39530869 GGTAAAATGACCGTAA-AGCCCCTGTAGGGTAAGACGACC-TAATGCCCCTGTAA
1 GGTAAAATGACCGTAATA-CCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
* ** *
39530922 GGTAAAATGGCCGTAATACCCCTGTAGCATAAAATGACCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
* * * * * *
39530976 GGTAAGATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTGG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
** * * *
39531030 GGTAAAATGATTGTAATACCCCTATAGTGTAAAATGATCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
* *
39531084 GGTAAGATAACCGTAATACCCCT
1 GGTAAAATGACCGTAATACCCCT
39531107 AAATGGTAAA
Statistics
Matches: 201, Mismatches: 34, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
53 46 0.23
54 155 0.77
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (54 bp):
GGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGTAATGCCCCTGTAG
Found at i:39531024 original size:81 final size:81
Alignment explanation
Indices: 39530815--39531106 Score: 372
Period size: 81 Copynumber: 3.6 Consensus size: 81
39530805 CCCTAAAATA
* * *
39530815 GGTAAAATGACCGTAATACCCCTGTAAGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGAC
1 GGTAAAATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
*
39530880 CGTAAAGCCCCTGTAG
66 CGTAATGCCCCTGTAG
* * * * **
39530896 GGTAAGACGAC-CTAATGCCCCTGTAAGGTAAAATGGCCGTAATACCCCTGTAGCATAAAATGAC
1 GGTAAAATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
*
39530960 CGTAATGCCCTTGTAG
66 CGTAATGCCCCTGTAG
* * *
39530976 GGTAAGATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTGGGGTAAAATGAT
1 GGTAAAATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
* * *
39531041 TGTAATACCCCTATAG
66 CGTAATGCCCCTGTAG
* * * *
39531057 TGTAAAATGA-TCGTAATGCCCCTGTAGGGTAAGATAACCGTAATACCCCT
1 GGTAAAATGACT-GTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCT
39531107 AAATGGTAAA
Statistics
Matches: 183, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 72 0.39
81 111 0.61
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (81 bp):
GGTAAAATGACTGTAATGCCCCTGTAAGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGAC
CGTAATGCCCCTGTAG
Found at i:39537318 original size:27 final size:27
Alignment explanation
Indices: 39537287--39537455 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
39537277 TAAATTGTAC
39537287 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
39537314 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39537340 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
39537368 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
39537396 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
39537423 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
39537450 AGCACT
1 AGCACT
39537456 GNNNNNNNNN
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
27 98 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:39537401 original size:82 final size:81
Alignment explanation
Indices: 39537288--39537443 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
39537278 AAATTGTACA
* *
39537288 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
39537352 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
39537369 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
39537434 TGCGAGTTGA
65 TGCGAATTGA
39537444 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:39547513 original size:39 final size:39
Alignment explanation
Indices: 39547349--39547531 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
39547339 TTGAATGCTG
* * * * * * *
39547349 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
39547389 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
39547429 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
39547469 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
39547508 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
39547532 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:39547551 original size:79 final size:80
Alignment explanation
Indices: 39547385--39547566 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
39547375 GCTAAGTGAA
* * * *
39547385 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
39547449 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
39547465 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
39547529 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
39547544 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
39547567 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:39551025 original size:48 final size:48
Alignment explanation
Indices: 39550908--39551119 Score: 159
Period size: 48 Copynumber: 4.5 Consensus size: 48
39550898 CTATTGGTGT
* * * *
39550908 CGATGCCATGTCCCAGACAGGTCTTACACT-G---ATACACCACAA-GC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCCTATATATCTCAAGGC
* * * * * * *
39550952 TGATGCCATATCCCAAACAGGTCTTACGCTAGCCTGTATATCGCAAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCCTATATATCTCAAGGC
* ** *
39551001 CGATGCATGTCCCAGACATGTCTTACACTAG-CTCT-CGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCCTATATATCTCAAGGC
* * * * * **
39551047 CGATACATGTCCCATACATGTCTTACACTGGCTTAAATATCTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCCTATATATCTCAAGGC
39551095 CGATGCATGTCCCAGACATGTCTTA
1 CGATGCATGTCCCAGACATGTCTTA
39551120 AACTGGCTCT
Statistics
Matches: 130, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
44 26 0.20
45 1 0.01
46 35 0.27
47 4 0.03
48 58 0.45
49 6 0.05
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCCTATATATCTCAAGGC
Found at i:39551125 original size:48 final size:46
Alignment explanation
Indices: 39550995--39551168 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
39550985 CTGTATATCG
* *
39550995 CAAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCT
1 CAAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT
* * * *
39551041 CAATGCCGATACATGTCCCATACATGTCTTACACTGGCT-TAAATATCT
1 CAAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT---CATCT
** *
39551089 TGAGGCCGATGCATGTCCCAGACATGTCTTAAACTGGCTCTCATGCT
1 CAAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT-CT
* * **
39551136 -ATGGCTGATGTGTGTCCCAGACATGTCTTACAC
1 CAAGGCCGATGCATGTCCCAGACATGTCTTACAC
39551169 CACACACATA
Statistics
Matches: 104, Mismatches: 19, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 64 0.62
47 2 0.02
48 36 0.35
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CAAGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCT
Done.