Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 340 of 349
Found at i:112440250 original size:27 final size:26
Alignment explanation
Indices: 112440207--112440274 Score: 120
Period size: 26 Copynumber: 2.6 Consensus size: 26
112440197 ATAAAGCATA
112440207 TTGCATTTTTAAGAAAAAGATTCGAGT
1 TTGC-TTTTTAAGAAAAAGATTCGAGT
112440234 TTGCTTTTTAAGAAAAAGATTCGAGT
1 TTGCTTTTTAAGAAAAAGATTCGAGT
112440260 TTGCTTTTTAA-AAAA
1 TTGCTTTTTAAGAAAA
112440275 CGATATTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
25 4 0.10
26 33 0.80
27 4 0.10
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (26 bp):
TTGCTTTTTAAGAAAAAGATTCGAGT
Found at i:112451511 original size:27 final size:28
Alignment explanation
Indices: 112451472--112451525 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
112451462 TTTTATTTTA
* *
112451472 ATTTTTATAATTAAAT-TTAAATAAAAT
1 ATTTTAATAATTAAATAATAAATAAAAT
*
112451499 ATTTTAATCATTAAATAATAAATAAAA
1 ATTTTAATAATTAAATAATAAATAAAA
112451526 ATATAAGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
ATTTTAATAATTAAATAATAAATAAAAT
Found at i:112453476 original size:17 final size:17
Alignment explanation
Indices: 112453454--112453487 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
112453444 TAAATCTAAT
*
112453454 GTACAAAAATTATTTTA
1 GTACAAAAATTAATTTA
112453471 GTACAAAAATTAATTTA
1 GTACAAAAATTAATTTA
112453488 TTCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (17 bp):
GTACAAAAATTAATTTA
Found at i:112457454 original size:69 final size:69
Alignment explanation
Indices: 112457343--112457481 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
112457333 TTAATAAGAG
*
112457343 ATAAGGTTCTTATAATTACTAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
1 ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
112457408 TTTC
66 TTTC
112457412 ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
1 ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
112457477 TTTC
66 TTTC
112457481 A
1 A
112457482 GCATTCACTA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.35
Consensus pattern (69 bp):
ATAAGGTTCTTATAATTACCAACACTACCTTCCCTAATCAATTAGCTTCCTAATCCTACCACATA
TTTC
Found at i:112462587 original size:15 final size:15
Alignment explanation
Indices: 112462567--112462596 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
112462557 TATTTTTTTT
*
112462567 ATATTAGGATAATTA
1 ATATTAAGATAATTA
112462582 ATATTAAGATAATTA
1 ATATTAAGATAATTA
112462597 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:112462640 original size:10 final size:10
Alignment explanation
Indices: 112462625--112462652 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
112462615 AGGATTTAAT
112462625 TTTAATTATC
1 TTTAATTATC
112462635 TTTAATTATC
1 TTTAATTATC
112462645 TTTAATTA
1 TTTAATTA
112462653 AATGTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTAATTATC
Found at i:112471505 original size:38 final size:38
Alignment explanation
Indices: 112471454--112471531 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
112471444 AAAACGATAA
* *
112471454 CTCTTTTCACTTCACGGGCTACTATGGTAATGCTGACC
1 CTCTTTTCACTTCACGGGCTACTATGGGAATACTGACC
**
112471492 CTCTTTTCACTTCACGGGCTTTTATGGGAATACTGACC
1 CTCTTTTCACTTCACGGGCTACTATGGGAATACTGACC
112471530 CT
1 CT
112471532 AATAAAAGAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (38 bp):
CTCTTTTCACTTCACGGGCTACTATGGGAATACTGACC
Found at i:112477914 original size:83 final size:83
Alignment explanation
Indices: 112477769--112478369 Score: 945
Period size: 83 Copynumber: 7.2 Consensus size: 83
112477759 TCGATTTGTG
** * * *
112477769 AGGATGCCAAATCAGT-TTGAGTCTGTTTTGAGAACATTCAAAAGTCATATCTACTACT-TCCTC
1 AGGATGCCAAATCA-TCTTGAGTCTG-TTTGAGAACATTTGAGAGTCATATCTGC-AATATCCTC
112477832 GATTTGTTCCTTGTAAGCACA
63 GATTTGTTCCTTGTAAGCACA
*
112477853 AGGATGCCAAATTATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATATCCTCGAT
1 AGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATATCCTCGAT
112477918 TTGTTCCTTGTAAGCACA
66 TTGTTCCTTGTAAGCACA
* *
112477936 AGGATGCCAAATTATCTTGAGTCTGTTTGAGAATATTTGAGAGTCATATCTGCAATATCCTCGAT
1 AGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATATCCTCGAT
112478001 TTGTTCCTTGTAAGCACA
66 TTGTTCCTTGTAAGCACA
* *
112478019 AGGATGCCAAATCATTTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGAT
1 AGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATATCCTCGAT
112478084 TTGTTCCTTGTAAGCACA
66 TTGTTCCTTGTAAGCACA
* * *
112478102 AGGATGCCAAACCATCTTGAGTCTATTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGAT
1 AGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATATCCTCGAT
* *
112478167 TTTTTCCTTGTAAGCATA
66 TTGTTCCTTGTAAGCACA
* * * *
112478185 AGGATACCAAACCATCTTGAGTCTGTTTGAGAATATTTGAGAGTTATATCTGCAATATCCTCGAT
1 AGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATATCCTCGAT
112478250 TTGTTCCTTGTAAGCACA
66 TTGTTCCTTGTAAGCACA
* *
112478268 AGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCTTCGAT
1 AGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATATCCTCGAT
*
112478333 TTGTTCCTTGTAAACACA
66 TTGTTCCTTGTAAGCACA
* *
112478351 AGAATACCAAATCATCTTG
1 AGGATGCCAAATCATCTTG
112478370 GATCTGCTTC
Statistics
Matches: 483, Mismatches: 32, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
82 2 0.00
83 459 0.95
84 22 0.05
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (83 bp):
AGGATGCCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATATCCTCGAT
TTGTTCCTTGTAAGCACA
Found at i:112489825 original size:21 final size:21
Alignment explanation
Indices: 112489800--112489840 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
112489790 TACTAGGTAG
112489800 ATAAAAAATGAATAC-TACGAT
1 ATAAAAAAT-AATACATACGAT
*
112489821 ATAAAGAATAATACATACGA
1 ATAAAAAATAATACATACGA
112489841 AGCAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.22
Consensus pattern (21 bp):
ATAAAAAATAATACATACGAT
Found at i:112490441 original size:24 final size:22
Alignment explanation
Indices: 112490390--112490442 Score: 54
Period size: 24 Copynumber: 2.4 Consensus size: 22
112490380 TAACATATAT
112490390 ATGTAA-AAAATAATAAATAAA
1 ATGTAATAAAATAATAAATAAA
** *
112490411 ACATAATAAAGATTATATAATAAA
1 ATGTAATAAA-ATAATA-AATAAA
112490435 ATGTAATA
1 ATGTAATA
112490443 TAAACATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 4 0.17
22 3 0.12
23 5 0.21
24 12 0.50
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (22 bp):
ATGTAATAAAATAATAAATAAA
Found at i:112490618 original size:22 final size:19
Alignment explanation
Indices: 112490575--112490619 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
112490565 ATTTAAGGAA
*
112490575 AATAATATATATAATAAGT
1 AATAATATATATAATAAAT
*
112490594 AATAATAATATATAATTAA-
1 AATAAT-ATATATAATAAAT
112490613 AATAATA
1 AATAATA
112490620 CTCATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (19 bp):
AATAATATATATAATAAAT
Found at i:112490632 original size:17 final size:16
Alignment explanation
Indices: 112490578--112490635 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
112490568 TAAGGAAAAT
*
112490578 AATATATATAATAAGTAA
1 AATA-ATAT-ATAATTAA
112490596 TAATAATATATAATTAA
1 -AATAATATATAATTAA
112490613 AATAATACTCATAA-TAA
1 AATAATA-T-ATAATTAA
112490630 AATAAT
1 AATAAT
112490636 TTTATAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 7 0.19
17 17 0.47
18 8 0.22
19 4 0.11
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.34
Consensus pattern (16 bp):
AATAATATATAATTAA
Found at i:112490666 original size:54 final size:54
Alignment explanation
Indices: 112490573--112490717 Score: 136
Period size: 54 Copynumber: 2.6 Consensus size: 54
112490563 TAATTTAAGG
* * **
112490573 AAAATAATATATATAATAAGTAATAATAATATATAATTAAAATAATACTCATAAT
1 AAAATAATATATATAATAAGTAATAATAAAATAAAATTAAAATAA-ACAAATAAT
*
112490628 AAAATAAT-TTTATAATATA-TAAT-ATAAAAGTAAAATTAAAATAAACAAATAAT
1 AAAATAATATATATAATA-AGTAATAATAAAA-TAAAATTAAAATAAACAAATAAT
* * *
112490681 AAAATATAGATAAATATATATAG-AATAATATAATAAA
1 AAAATA-ATATATATA-ATA-AGTAATAATAAAATAAA
112490718 TATAGGACTA
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
53 18 0.24
54 26 0.35
55 13 0.18
56 12 0.16
57 5 0.07
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (54 bp):
AAAATAATATATATAATAAGTAATAATAAAATAAAATTAAAATAAACAAATAAT
Found at i:112495926 original size:32 final size:32
Alignment explanation
Indices: 112495890--112495956 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
112495880 ATTGTAAAAG
*
112495890 TAAAATTATGGAAAAATATAAAATTTTTATGA
1 TAAAATTATGAAAAAATATAAAATTTTTATGA
*
112495922 TAAAATTATGAAAAAATATGAAATTTTTATGA
1 TAAAATTATGAAAAAATATAAAATTTTTATGA
112495954 TAA
1 TAA
112495957 CAATGACTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (32 bp):
TAAAATTATGAAAAAATATAAAATTTTTATGA
Found at i:112509750 original size:21 final size:23
Alignment explanation
Indices: 112509703--112509756 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
112509693 CATTCAAGAT
**
112509703 AAAATAATATATAAAACCCTTTA
1 AAAATAATATATAAAACCAATTA
*
112509726 AAAATAATATAT-AAA-CAATTC
1 AAAATAATATATAAAACCAATTA
112509747 AAAAT-ATATA
1 AAAATAATATA
112509757 ATGTGTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.18
21 8 0.29
22 3 0.11
23 12 0.43
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AAAATAATATATAAAACCAATTA
Found at i:112509750 original size:22 final size:23
Alignment explanation
Indices: 112509703--112509750 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
112509693 CATTCAAGAT
** *
112509703 AAAATAATATATAAAACCCTTTA
1 AAAATAATATATAAAACAATTCA
112509726 AAAATAATATAT-AAACAATTCA
1 AAAATAATATATAAAACAATTCA
112509748 AAA
1 AAA
112509751 TATATAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATAATATATAAAACAATTCA
Found at i:112509990 original size:15 final size:15
Alignment explanation
Indices: 112509966--112510011 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
112509956 ATATAAATAG
*
112509966 AAATAAAAATATAAT
1 AAATAGAAATATAAT
112509981 AAATAGAAATATAAT
1 AAATAGAAATATAAT
112509996 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
112510012 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:112509999 original size:23 final size:25
Alignment explanation
Indices: 112509941--112510002 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 25
112509931 AAATAGTAAT
*
112509941 GAAA-ATAATATTAGTATATAAATA
1 GAAATATAATAATAGTATATAAATA
112509965 GAAATA-AA-AATA-TA-ATAAATA
1 GAAATATAATAATAGTATATAAATA
112509986 GAAATATAATAATAGTA
1 GAAATATAATAATAGTA
112510003 GAAATATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 13 0.39
22 4 0.12
23 7 0.21
24 8 0.24
25 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (25 bp):
GAAATATAATAATAGTATATAAATA
Found at i:112510014 original size:44 final size:44
Alignment explanation
Indices: 112509960--112510043 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
112509950 ATTAGTATAT
112509960 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
112510004 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATA
112510044 ATATTAGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
44 25 0.71
45 5 0.14
46 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:112510031 original size:15 final size:14
Alignment explanation
Indices: 112509958--112510043 Score: 59
Period size: 15 Copynumber: 5.9 Consensus size: 14
112509948 ATATTAGTAT
*
112509958 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
112509971 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
112509987 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
112510001 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
112510016 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
112510031 ATAAATAATAATA
1 ATAAATAAAAATA
112510044 ATATTAGAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
13 3 0.05
14 19 0.32
15 34 0.58
16 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:112511775 original size:19 final size:19
Alignment explanation
Indices: 112511730--112511777 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
112511720 ATTTAATCAT
**
112511730 GATTTTAAAAAATTTTAAA
1 GATTTTAAAAAATCCTAAA
* * *
112511749 AATATTAAAAAATCCTATA
1 GATTTTAAAAAATCCTAAA
112511768 GATTTTAAAA
1 GATTTTAAAA
112511778 TTCGAATTTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
GATTTTAAAAAATCCTAAA
Found at i:112514635 original size:10 final size:11
Alignment explanation
Indices: 112514609--112514636 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
112514599 AAAAGTCACT
112514609 GAAAAATACAC
1 GAAAAATACAC
112514620 GAAAAATACAC
1 GAAAAATACAC
112514631 GAAAAA
1 GAAAAA
112514637 AGTTACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.14, G:0.11, T:0.07
Consensus pattern (11 bp):
GAAAAATACAC
Found at i:112517122 original size:3 final size:3
Alignment explanation
Indices: 112517116--112517145 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
112517106 CTTTATTAAC
112517116 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
112517146 TTGCTTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:112517398 original size:31 final size:31
Alignment explanation
Indices: 112517361--112517421 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
112517351 ATTTGGTTAA
* *
112517361 TAAACTATTCGAAAGTTTTTGTTTAAGTCAC
1 TAAACTATTCAAAAGTTTTTATTTAAGTCAC
*
112517392 TAAACTATTTAAAAGTTTTTATTTAAGTCA
1 TAAACTATTCAAAAGTTTTTATTTAAGTCA
112517422 TTTGTTGTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (31 bp):
TAAACTATTCAAAAGTTTTTATTTAAGTCAC
Found at i:112519128 original size:29 final size:29
Alignment explanation
Indices: 112519086--112519143 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
112519076 GTGGCTCGAG
112519086 TGCTAAAAGCTAAATATTTTGCAAACAAA
1 TGCTAAAAGCTAAATATTTTGCAAACAAA
112519115 TGCTAAAAGCTAAATATTTTGCAAACAAA
1 TGCTAAAAGCTAAATATTTTGCAAACAAA
112519144 GATTTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (29 bp):
TGCTAAAAGCTAAATATTTTGCAAACAAA
Found at i:112527604 original size:6 final size:6
Alignment explanation
Indices: 112527593--112527630 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
112527583 AGTTTATTTG
* *
112527593 TTTTAT TTTTA- TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
112527631 CTTAGACTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:112527615 original size:17 final size:18
Alignment explanation
Indices: 112527593--112527630 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
112527583 AGTTTATTTG
*
112527593 TTTTATTTTTATT-TTAT
1 TTTTATGTTTATTGTTAT
112527610 TTTTATGTTTATTGTTAT
1 TTTTATGTTTATTGTTAT
112527628 TTT
1 TTT
112527631 CTTAGACTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTATGTTTATTGTTAT
Found at i:112527620 original size:12 final size:11
Alignment explanation
Indices: 112527593--112527630 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
112527583 AGTTTATTTG
112527593 TTTTATTTTTA
1 TTTTATTTTTA
112527604 TTTTATTTTTA
1 TTTTATTTTTA
*
112527615 TGTTTATTGTTA
1 T-TTTATTTTTA
112527627 TTTT
1 TTTT
112527631 CTTAGACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:112530202 original size:29 final size:29
Alignment explanation
Indices: 112530160--112530220 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
112530150 GAAAGAGATT
*
112530160 TTAATTAATCAACCTAAAGTTAGTTGTTC
1 TTAATTAATCAACCTAAAGTCAGTTGTTC
*
112530189 TTAATTAATCAACCTAGAGTCAGTTGTTC
1 TTAATTAATCAACCTAAAGTCAGTTGTTC
112530218 TTA
1 TTA
112530221 CACTTGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (29 bp):
TTAATTAATCAACCTAAAGTCAGTTGTTC
Found at i:112532712 original size:29 final size:30
Alignment explanation
Indices: 112532666--112532722 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
112532656 GCAATGTTAT
112532666 ACATGAACTTTAATTTTG-TGCAATTTTGA
1 ACATGAACTTTAATTTTGATGCAATTTTGA
* *
112532695 ACATGATACTTTGA-TTTGATTCAATTTT
1 ACATGA-ACTTTAATTTTGATGCAATTTT
112532723 TTTGATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (30 bp):
ACATGAACTTTAATTTTGATGCAATTTTGA
Found at i:112535856 original size:17 final size:16
Alignment explanation
Indices: 112535812--112535856 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
112535802 TAAACAAATT
112535812 ATTAGTAAGATATTTGA
1 ATTAGTAA-ATATTTGA
* *
112535829 ATCATTAAATATTTGA
1 ATTAGTAAATATTTGA
112535845 ATTTAGTAAATA
1 A-TTAGTAAATA
112535857 AAATAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.42
Consensus pattern (16 bp):
ATTAGTAAATATTTGA
Found at i:112544686 original size:14 final size:15
Alignment explanation
Indices: 112544651--112544689 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
112544641 AATATTTACC
*
112544651 AAAATTATTATAATG
1 AAAATTATTACAATG
112544666 AAAATTATTACAA-G
1 AAAATTATTACAATG
*
112544680 GAAATTATTA
1 AAAATTATTA
112544690 AGTCTTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (15 bp):
AAAATTATTACAATG
Found at i:112552587 original size:12 final size:12
Alignment explanation
Indices: 112552570--112552634 Score: 73
Period size: 12 Copynumber: 5.3 Consensus size: 12
112552560 CCAATCTTTC
112552570 TTTTTATTTTTA
1 TTTTTATTTTTA
112552582 TTTTTATTTATT-
1 TTTTTATTT-TTA
112552594 TTTTTATTTTT-
1 TTTTTATTTTTA
112552605 TTATTTATTTTATTA
1 TT-TTTA-TTT-TTA
112552620 TTTTTA-TTTTA
1 TTTTTATTTTTA
112552631 TTTT
1 TTTT
112552635 AGTTAAATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.23
12 24 0.50
13 5 0.10
14 6 0.12
15 2 0.04
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:112552607 original size:20 final size:20
Alignment explanation
Indices: 112552571--112552635 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
112552561 CAATCTTTCT
*
112552571 TTTTATTTTTATTTTTATTTA
1 TTTTATTATT-TTTTTATTTA
*
112552592 TTTTTTTATTTTTTTATTTA
1 TTTTATTATTTTTTTATTTA
*
112552612 TTTTATTATTTTTAT-TTTA
1 TTTTATTATTTTTTTATTTA
112552631 TTTTA
1 TTTTA
112552636 GTTAAATATT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.22
20 23 0.57
21 8 0.20
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTATTATTTTTTTATTTA
Found at i:112553795 original size:118 final size:118
Alignment explanation
Indices: 112553587--112553817 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
112553577 TGTTTTCCAT
* *
112553587 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
*
112553652 CTACTTCGTGTCAAAAGGTTGTGTGACGTGATAAGTAAAATTCCGCTAGTCGA
66 CTACTTCGTGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCCGCTAGTCGA
**
112553705 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
* **
112553770 CTACTTCGTGTCAAAAGGTTGTGTGACGTGTTGGGTAAAACTCCGCTA
66 CTACTTCGTGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCCGCTA
112553818 ACCGAAAATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.31
Consensus pattern (118 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGTGTCAAAAGGTTGTGTGACGTGATAAGTAAAACTCCGCTAGTCGA
Found at i:112554642 original size:20 final size:20
Alignment explanation
Indices: 112554612--112554659 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
112554602 AATTTAGGAT
* * *
112554612 TTTAT-TTTAATTATATTTG
1 TTTATCTTTAATTAAATGTA
112554631 TTTATCTTTAATTAAATGTA
1 TTTATCTTTAATTAAATGTA
112554651 TTTATCTTT
1 TTTATCTTT
112554660 TTAGAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (20 bp):
TTTATCTTTAATTAAATGTA
Found at i:112556825 original size:29 final size:28
Alignment explanation
Indices: 112556787--112556865 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 28
112556777 TGACACCTTT
112556787 CTTTTA-CTTTTTTTTTACTTTTTATTAA
1 CTTTTATCTTTTTTTTTA-TTTTTATTAA
* * *
112556815 CTTTTGTCTTTTTCTTTAATTTTTTTTAA
1 CTTTTATCTTTTT-TTTTATTTTTATTAA
* * *
112556844 GTTTTATATTTTTTCTTATTTT
1 CTTTTATCTTTTTTTTTATTTT
112556866 ATTTTGTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 12 0.29
29 25 0.61
30 4 0.10
ACGTcount: A:0.15, C:0.09, G:0.03, T:0.73
Consensus pattern (28 bp):
CTTTTATCTTTTTTTTTATTTTTATTAA
Found at i:112556977 original size:23 final size:24
Alignment explanation
Indices: 112556927--112556970 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
112556917 ATTTGAAATG
112556927 TTTTATAATATATATTTTTTAAAA
1 TTTTATAATATATATTTTTTAAAA
112556951 TTTTA-AATAT-TATTTTTTAA
1 TTTTATAATATATATTTTTTAA
112556971 TTATTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 5 0.25
24 5 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTTATAATATATATTTTTTAAAA
Found at i:112556996 original size:21 final size:21
Alignment explanation
Indices: 112556970--112557039 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 21
112556960 TTATTTTTTA
* *
112556970 ATTATTTTTTAAATTTTGAAT
1 ATTATTTTTTAAATATTAAAT
112556991 ATTATTTTTTTTAAATATTAAAT
1 ATTA--TTTTTTAAATATTAAAT
* *
112557014 ATATATTTTTAATAATATAAAAT
1 AT-TATTTTTTA-AATATTAAAT
112557037 ATT
1 ATT
112557040 TAAATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
21 4 0.10
22 7 0.17
23 28 0.68
24 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:112557001 original size:33 final size:33
Alignment explanation
Indices: 112556939--112557000 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
112556929 TTATAATATA
112556939 TATTTTTTAAAATTTTAAATATTATTTTTTAAT
1 TATTTTTTAAAATTTTAAATATTATTTTTTAAT
*
112556972 TATTTTTT-AAATTTTGAATATTATTTTTT
1 TATTTTTTAAAATTTTAAATATTATTTTTT
112557001 TTAAATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 20 0.71
33 8 0.29
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (33 bp):
TATTTTTTAAAATTTTAAATATTATTTTTTAAT
Found at i:112557004 original size:23 final size:24
Alignment explanation
Indices: 112556974--112557023 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
112556964 TTTTTAATTA
* *
112556974 TTTTTTAAATTTTGAATAT-TATT
1 TTTTTTAAATATTAAATATATATT
112556997 TTTTTTAAATATTAAATATATATT
1 TTTTTTAAATATTAAATATATATT
112557021 TTT
1 TTT
112557024 AATAATATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTTTAAATATTAAATATATATT
Found at i:112557556 original size:22 final size:22
Alignment explanation
Indices: 112557531--112557591 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
112557521 ATTTTAAATG
112557531 TTTAAATATTATTAAAAATATA
1 TTTAAATATTATTAAAAATATA
112557553 TTT-AATA-T-TTAAAAATAATA
1 TTTAAATATTATTAAAAAT-ATA
**
112557573 TTTAAA-ATTAAAAAAAATA
1 TTTAAATATTATTAAAAATA
112557592 AAAAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 8 0.24
20 8 0.24
21 8 0.24
22 9 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAAATATTATTAAAAATATA
Found at i:112557567 original size:20 final size:19
Alignment explanation
Indices: 112557541--112557591 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
112557531 TTTAAATATT
112557541 ATTAAAAAT-ATATTTAATA
1 ATTAAAAATAATATTTAA-A
*
112557560 TTTAAAAATAATATTTAAA
1 ATTAAAAATAATATTTAAA
*
112557579 ATTAAAAAAAATA
1 ATTAAAAATAATA
112557592 AAAAATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAAAATAATATTTAAA
Found at i:112557573 original size:13 final size:13
Alignment explanation
Indices: 112557555--112557579 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112557545 AAAATATATT
112557555 TAATATTTAAAAA
1 TAATATTTAAAAA
112557568 TAATATTTAAAA
1 TAATATTTAAAA
112557580 TTAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:112557650 original size:23 final size:24
Alignment explanation
Indices: 112557622--112557669 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
112557612 TATAAGACAT
*
112557622 AATTTAAAAAAATA-ATATT-TAA
1 AATTTTAAAAAATATATATTATAA
112557644 AATTTTAAAAAATATATATTATAA
1 AATTTTAAAAAATATATATTATAA
112557668 AA
1 AA
112557670 CTCAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.57
23 5 0.22
24 5 0.22
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AATTTTAAAAAATATATATTATAA
Found at i:112557779 original size:18 final size:18
Alignment explanation
Indices: 112557758--112557804 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
112557748 AATATATAAC
112557758 TTAAAAAAAGAGA-AAAAA
1 TTAAAAAAA-AGACAAAAA
*
112557776 TTAAAGAAAAAGACAAAAG
1 TTAAA-AAAAAGACAAAAA
112557795 TTAAAAAAAA
1 TTAAAAAAAA
112557805 AAAAGTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (18 bp):
TTAAAAAAAAGACAAAAA
Found at i:112557806 original size:20 final size:18
Alignment explanation
Indices: 112557758--112557805 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
112557748 AATATATAAC
*
112557758 TTAAAAAAAGAGAAAAAA
1 TTAAAAAAAAAGAAAAAA
* *
112557776 TTAAAGAAAAAGACAAAAG
1 TTAAAAAAAAAGA-AAAAA
112557795 TTAAAAAAAAA
1 TTAAAAAAAAA
112557806 AAAGTAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (18 bp):
TTAAAAAAAAAGAAAAAA
Found at i:112558407 original size:18 final size:18
Alignment explanation
Indices: 112558384--112558419 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
112558374 ATACACCCCC
112558384 AACTAAATATTATAAAGT
1 AACTAAATATTATAAAGT
112558402 AACTAAATATTATAAAGT
1 AACTAAATATTATAAAGT
112558420 GTGTTGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (18 bp):
AACTAAATATTATAAAGT
Found at i:112560610 original size:25 final size:25
Alignment explanation
Indices: 112560577--112560624 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
112560567 CCAATTACTA
* *
112560577 TAATTTATTATAATAATAA-ATTATT
1 TAATATATTAAAAT-ATAACATTATT
112560602 TAATATATTAAAATATAACATTA
1 TAATATATTAAAATATAACATTA
112560625 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TAATATATTAAAATATAACATTATT
Found at i:112565626 original size:92 final size:93
Alignment explanation
Indices: 112565515--112565686 Score: 285
Period size: 92 Copynumber: 1.9 Consensus size: 93
112565505 CGCCCATAAG
*
112565515 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CGCTCGCATCCATAAGTGAACTCAGACTCAACTC
112565579 AAC-AGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* *
112565607 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
112565672 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
112565687 CAAATATCCC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
92 61 0.82
93 13 0.18
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:112565677 original size:46 final size:46
Alignment explanation
Indices: 112565508--112565682 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
112565498 TGTAACCCGC
*
112565508 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-CGCTCGCAT
* * * *
112565554 CCATAAGTGAACTCAGACTCAACTCAAC-AGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
112565603 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
112565646 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
112565683 TGCCCAAATA
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 8 0.07
46 81 0.76
47 10 0.09
48 1 0.01
49 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:112565701 original size:46 final size:45
Alignment explanation
Indices: 112565559--112565701 Score: 121
Period size: 46 Copynumber: 3.1 Consensus size: 45
112565549 CGCATCCATA
* * * *
112565559 AGTGAACTCAGACTCAACTCAAC-AGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * *
112565606 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
112565651 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
112565697 AGTGA
1 AGTGA
112565702 CATGTCACTT
Statistics
Matches: 75, Mismatches: 15, Indels: 13
0.73 0.15 0.13
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 56 0.75
47 10 0.13
48 4 0.05
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:112569614 original size:10 final size:10
Alignment explanation
Indices: 112569586--112569635 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
112569576 GGTCTCTCTC
112569586 TCAACAATAAT
1 TCAA-AATAAT
112569597 TGCAAAATAAT
1 T-CAAAATAAT
112569608 TCAAAATAATTT
1 TCAAAATAA--T
112569620 TC-AAA-AAT
1 TCAAAATAAT
112569628 TCAAAATA
1 TCAAAATA
112569636 CTTTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 11 0.32
11 11 0.32
12 6 0.18
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.30
Consensus pattern (10 bp):
TCAAAATAAT
Found at i:112569615 original size:21 final size:20
Alignment explanation
Indices: 112569586--112569671 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 20
112569576 GGTCTCTCTC
112569586 TCAACAATAA-TTGCAAAATAAT
1 TCAA-AATAATTTGC-AAA-AAT
*
112569608 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTGCAAAAAT
* **
112569628 TCAAAATACTTT-TTAAAAT
1 TCAAAATAATTTGCAAAAAT
*
112569647 TCAAAATAGTTAT--AAAAAT
1 TCAAAATAATT-TGCAAAAAT
112569666 TCAAAA
1 TCAAAA
112569672 ATTTTTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
19 26 0.46
20 15 0.27
21 8 0.14
22 7 0.12
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (20 bp):
TCAAAATAATTTGCAAAAAT
Found at i:112569647 original size:19 final size:19
Alignment explanation
Indices: 112569605--112569671 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
112569595 ATTGCAAAAT
112569605 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-AAA
* *
112569625 AATTCAAAATACTTTTTAA
1 AATTCAAAATAATTTTAAA
* *
112569644 AATTCAAAATAGTTATAAA
1 AATTCAAAATAATTTTAAA
112569663 AATTCAAAA
1 AATTCAAAA
112569672 ATTTTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 27 0.64
20 15 0.36
ACGTcount: A:0.55, C:0.09, G:0.01, T:0.34
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:112570615 original size:10 final size:10
Alignment explanation
Indices: 112570600--112570649 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
112570590 TGGATTTAAC
112570600 ATTTATCTTT
1 ATTTATCTTT
112570610 ATTTATCTTT
1 ATTTATCTTT
*
112570620 AATTATCTTT
1 ATTTATCTTT
112570630 ATTTAT-TTGT
1 ATTTATCTT-T
*
112570640 ATTCATCTTT
1 ATTTATCTTT
112570650 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:112572184 original size:19 final size:20
Alignment explanation
Indices: 112572155--112572193 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
112572145 TTTGGACAAA
112572155 GGACTAAATCGTAATA-AATT
1 GGACTAAATCG-AATAGAATT
112572175 GGAC-AAATCGAATAGAATT
1 GGACTAAATCGAATAGAATT
112572194 AAGAACCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 10 0.56
20 4 0.22
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (20 bp):
GGACTAAATCGAATAGAATT
Found at i:112573594 original size:10 final size:10
Alignment explanation
Indices: 112573566--112573615 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
112573556 GGTCTCTCTC
112573566 TCAACAATAAT
1 TCAA-AATAAT
112573577 TACAAAATAAT
1 T-CAAAATAAT
112573588 TCAAAATAATTT
1 TCAAAATAA--T
112573600 TC-AAA-AAT
1 TCAAAATAAT
112573608 TCAAAATA
1 TCAAAATA
112573616 CTTTTTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
8 3 0.09
9 3 0.09
10 11 0.32
11 11 0.32
12 6 0.18
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (10 bp):
TCAAAATAAT
Found at i:112573597 original size:21 final size:20
Alignment explanation
Indices: 112573566--112573653 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 20
112573556 GGTCTCTCTC
112573566 TCAACAATAA-TTACAAAATAAT
1 TCAA-AATAATTTAC-AAA-AAT
*
112573588 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTACAAAAAT
* **
112573608 TCAAAATACTTT-TTAAAAT
1 TCAAAATAATTTACAAAAAT
* *
112573627 TCAAAAT-AGTTATAAAAAT
1 TCAAAATAATTTACAAAAAT
112573646 TCCAAAAT
1 T-CAAAAT
112573654 TTTTATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
18 2 0.04
19 19 0.34
20 20 0.36
21 8 0.14
22 7 0.12
ACGTcount: A:0.55, C:0.11, G:0.01, T:0.33
Consensus pattern (20 bp):
TCAAAATAATTTACAAAAAT
Found at i:112573627 original size:19 final size:19
Alignment explanation
Indices: 112573585--112573653 Score: 84
Period size: 19 Copynumber: 3.5 Consensus size: 19
112573575 ATTACAAAAT
112573585 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-AAA
* *
112573605 AATTCAAAATACTTTTTAA
1 AATTCAAAATAATTTTAAA
* *
112573624 AATTCAAAATAGTTATAAA
1 AATTCAAAATAATTTTAAA
112573643 AATTCCAAAAT
1 AATT-CAAAAT
112573654 TTTTATTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 22 0.51
20 21 0.49
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:112573659 original size:20 final size:19
Alignment explanation
Indices: 112573602--112573659 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 19
112573592 AATAATTTTC
112573602 AAAAATTCAAAATACTTTT-T
1 AAAAATTCAAAAT--TTTTAT
**
112573622 -AAAATTCAAAATAGTTAT
1 AAAAATTCAAAATTTTTAT
112573640 AAAAATTCCAAAATTTTTAT
1 AAAAATT-CAAAATTTTTAT
112573660 TTTTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 18 0.58
20 10 0.32
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATTTTTAT
Found at i:112573703 original size:29 final size:28
Alignment explanation
Indices: 112573662--112573718 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
112573652 ATTTTTATTT
*
112573662 TTTAAAAATTATAAAAATTTCAAAAAAAA
1 TTTAAAAATTATAAAAAGTT-AAAAAAAA
*
112573691 TTTAATAAA-TATATAAAGTTAAAAAAAA
1 TTTAA-AAATTATAAAAAGTTAAAAAAAA
112573719 GTAAAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.32
29 14 0.56
30 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
TTTAAAAATTATAAAAAGTTAAAAAAAA
Found at i:112574025 original size:24 final size:24
Alignment explanation
Indices: 112573993--112574048 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
112573983 TGACTTGTCA
112573993 ACTCGATTAACTCAAAATTCTTTC
1 ACTCGATTAACTCAAAATTCTTTC
*
112574017 ACTCGATTAACTCGAAATTCTTTC
1 ACTCGATTAACTCAAAATTCTTTC
112574041 ACTCGATT
1 ACTCGATT
112574049 CTATTGAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (24 bp):
ACTCGATTAACTCAAAATTCTTTC
Found at i:112576808 original size:20 final size:18
Alignment explanation
Indices: 112576774--112576810 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
112576764 GCAACTCATA
112576774 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
112576792 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
112576811 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:112579688 original size:2 final size:2
Alignment explanation
Indices: 112579677--112579716 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
112579667 TTATTAACAT
112579677 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112579717 TAAAATGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112581032 original size:27 final size:28
Alignment explanation
Indices: 112580991--112581059 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
112580981 TTTGTAATAT
*
112580991 ATATTGTCAAATGAGCATA-GTCTAGGCG
1 ATATTG-CCAATGAGCATAGGTCTAGGCG
* *
112581019 ATATTGCCAATGAGGATAGGTGTAGGCG
1 ATATTGCCAATGAGCATAGGTCTAGGCG
*
112581047 ATATTGGCAATGA
1 ATATTGCCAATGA
112581060 ATGCATTGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 10 0.28
28 26 0.72
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.28
Consensus pattern (28 bp):
ATATTGCCAATGAGCATAGGTCTAGGCG
Found at i:112586835 original size:21 final size:21
Alignment explanation
Indices: 112586809--112586850 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
112586799 GTTACTCTTG
112586809 TAATTTAGTTCATTTTGAACT
1 TAATTTAGTTCATTTTGAACT
112586830 TAATTTAGTTCATTTTGAACT
1 TAATTTAGTTCATTTTGAACT
112586851 ATGTTTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (21 bp):
TAATTTAGTTCATTTTGAACT
Found at i:112593134 original size:9 final size:9
Alignment explanation
Indices: 112593122--112593164 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
112593112 TTCAAATCTC
112593122 TCAAAACCT
1 TCAAAACCT
112593131 TCAAAACCT
1 TCAAAACCT
*
112593140 TCAAAATCT
1 TCAAAACCT
*
112593149 CCTAAAACCT
1 TC-AAAACCT
112593159 TCAAAA
1 TCAAAA
112593165 GTATCATAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (9 bp):
TCAAAACCT
Found at i:112594833 original size:19 final size:19
Alignment explanation
Indices: 112594788--112594832 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
112594778 CAGTATAAAA
112594788 ATATGTTTAATATTATTAAT
1 ATAT-TTTAATATTATTAAT
112594808 ATATTTTAAT-TTATT-AT
1 ATATTTTAATATTATTAAT
112594825 ATAATTTT
1 AT-ATTTT
112594833 TTTCTTGCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.17
18 10 0.42
19 6 0.25
20 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATATTTTAATATTATTAAT
Found at i:112597312 original size:37 final size:37
Alignment explanation
Indices: 112597252--112597356 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
112597242 TGTTAATTTC
*
112597252 AAGACTTATG-AATGTTTTTAATTATTTAGTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
112597288 AAGACTTATGTAATGTTTTTAATTATGTAGTAATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
*
112597325 AAGACTTATGTAATATTTTTAATTATGTAGTG
1 AAGACTTATGTAATGTTTTTAATTATGTAGTG
112597357 TAGTGATTCA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
36 10 0.16
37 54 0.84
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTCA
Found at i:112597350 original size:17 final size:17
Alignment explanation
Indices: 112597293--112597353 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
112597283 ATTCAAAGAC
*
112597293 TTATGTAATGTTTTTAA
1 TTATGTAATATTTTTAA
* ***
112597310 TTATGTAGTAATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
112597329 CTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
112597347 TTATGTA
1 TTATGTA
112597354 GTGTAGTGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:112597378 original size:9 final size:9
Alignment explanation
Indices: 112597364--112597468 Score: 131
Period size: 9 Copynumber: 11.7 Consensus size: 9
112597354 GTGTAGTGAT
112597364 TCAATTCGG
1 TCAATTCGG
112597373 TCAATTCGG
1 TCAATTCGG
*
112597382 TTAATTCGG
1 TCAATTCGG
112597391 TCAATTCGG
1 TCAATTCGG
112597400 TCAATTCGG
1 TCAATTCGG
*
112597409 TCAATTTGG
1 TCAATTCGG
112597418 TCAATTCGG
1 TCAATTCGG
*
112597427 TTAATTCGG
1 TCAATTCGG
*
112597436 TTAATTCGG
1 TCAATTCGG
* *
112597445 TTAATCTGGG
1 TCAAT-TCGG
112597455 T-AATTCGG
1 TCAATTCGG
*
112597463 TTAATT
1 TCAATT
112597469 TTTAACCAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
8 4 0.05
9 79 0.91
10 4 0.05
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (9 bp):
TCAATTCGG
Found at i:112597402 original size:27 final size:27
Alignment explanation
Indices: 112597364--112597468 Score: 149
Period size: 27 Copynumber: 3.9 Consensus size: 27
112597354 GTGTAGTGAT
112597364 TCAATTCGGTCAATTCGGTTAATTCGG
1 TCAATTCGGTCAATTCGGTTAATTCGG
* *
112597391 TCAATTCGGTCAATTCGGTCAATTTGG
1 TCAATTCGGTCAATTCGGTTAATTCGG
*
112597418 TCAATTCGGTTAATTCGGTTAATTCGG
1 TCAATTCGGTCAATTCGGTTAATTCGG
* *
112597445 TTAATCTGGGT-AATTCGGTTAATT
1 TCAAT-TCGGTCAATTCGGTTAATT
112597469 TTTAACCAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
27 66 0.94
28 4 0.06
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (27 bp):
TCAATTCGGTCAATTCGGTTAATTCGG
Found at i:112615531 original size:10 final size:10
Alignment explanation
Indices: 112615511--112615541 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
112615501 ATTTGGTTCC
112615511 TTCTCTTTTTT
1 TTCT-TTTTTT
112615522 TTCTTTTTTT
1 TTCTTTTTTT
112615532 TTCTTTTTTT
1 TTCTTTTTTT
112615542 GGCCTTTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:112623249 original size:18 final size:17
Alignment explanation
Indices: 112623228--112623274 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
112623218 TTTTTTAAGT
*
112623228 TTTATATTATTTTCTTAA
1 TTTATATTATTGT-TTAA
*
112623246 TTTATTTTACTTGTTTAA
1 TTTATATTA-TTGTTTAA
112623264 TTTATATTATT
1 TTTATATTATT
112623275 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 2 0.08
18 20 0.80
19 3 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTATATTATTGTTTAA
Found at i:112623273 original size:36 final size:36
Alignment explanation
Indices: 112623203--112623274 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
112623193 ATATTTTGTC
*
112623203 TCTTAGATTTTTTTCTTTTTTAAGTTTTATATTATTT
1 TCTTAGATTTTTTTCTTGTTTAAG-TTTATATTATTT
112623240 TCTTA-ATTTATTTTACTTGTTTAA-TTTATATTATT
1 TCTTAGATTT-TTTT-CTTGTTTAAGTTTATATTATT
112623275 AATTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 15 0.47
37 9 0.28
38 8 0.25
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.68
Consensus pattern (36 bp):
TCTTAGATTTTTTTCTTGTTTAAGTTTATATTATTT
Found at i:112623352 original size:23 final size:24
Alignment explanation
Indices: 112623264--112623357 Score: 67
Period size: 21 Copynumber: 4.1 Consensus size: 24
112623254 ACTTGTTTAA
* *
112623264 TTTATATTATTAATTTTAAAAAAAT
1 TTTATATTATT-ATTTTTAAAATAT
* * *
112623289 TGTA-A-TA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAATAT
*
112623310 TTTATAATATT-TTTTT-AAAT-T
1 TTTATATTATTATTTTTAAAATAT
112623331 TTTA-ATTATTATTTTTAAAAATAT
1 TTTATATTATTATTTTT-AAAATAT
112623355 TTT
1 TTT
112623358 TTAACTTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
20 5 0.09
21 22 0.41
22 6 0.11
23 12 0.22
24 6 0.11
25 3 0.06
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTATATTATTATTTTTAAAATAT
Found at i:112623626 original size:13 final size:13
Alignment explanation
Indices: 112623575--112623629 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
112623565 GATTTTGTCT
112623575 TTTTCTTTATTTT-
1 TTTTC-TTATTTTA
*
112623588 TTTTCTTTTTTTA
1 TTTTCTTATTTTA
** *
112623601 AGTT-TTATATTA
1 TTTTCTTATTTTA
112623613 TTTTCTTATTTTA
1 TTTTCTTATTTTA
112623626 TTTT
1 TTTT
112623630 GTTTATTAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
12 14 0.44
13 18 0.56
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTTCTTATTTTA
Found at i:112623643 original size:36 final size:38
Alignment explanation
Indices: 112623575--112623651 Score: 97
Period size: 36 Copynumber: 2.1 Consensus size: 38
112623565 GATTTTGTCT
* * *
112623575 TTTTCTTTATTTTTTTTCTTTTTTTAAGTTTTATATTA
1 TTTTCTTTATTTTTTTTCGTTTATTAAGTTTTATAATA
112623613 TTTTC-TTATTTTATTTT-GTTTATT-AGTTTTATAATA
1 TTTTCTTTATTTT-TTTTCGTTTATTAAGTTTTATAATA
112623649 TTT
1 TTT
112623652 GAAATGTATG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 14 0.40
37 12 0.34
38 9 0.26
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (38 bp):
TTTTCTTTATTTTTTTTCGTTTATTAAGTTTTATAATA
Found at i:112624115 original size:10 final size:9
Alignment explanation
Indices: 112624097--112624194 Score: 65
Period size: 10 Copynumber: 10.4 Consensus size: 9
112624087 TAAAATTTAA
112624097 AAAATATTT
1 AAAATATTT
112624106 AAAATCATTT
1 AAAAT-ATTT
*
112624116 AAAATATTAA
1 AAAATATT-T
112624126 AAAATATTT
1 AAAATATTT
*
112624135 TAAATCATTTT
1 AAAAT-A-TTT
*
112624146 AAATTATTT
1 AAAATATTT
* *
112624155 TAAATGTTTT
1 AAAAT-ATTT
*
112624165 ATAATA-TT
1 AAAATATTT
112624173 AAAATATATT
1 AAAATAT-TT
*
112624183 -TAATATTT
1 AAAATATTT
112624191 AAAA
1 AAAA
112624195 AATAATTTGA
Statistics
Matches: 67, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
8 9 0.13
9 25 0.37
10 27 0.40
11 6 0.09
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (9 bp):
AAAATATTT
Found at i:112624159 original size:29 final size:29
Alignment explanation
Indices: 112624087--112624149 Score: 101
Period size: 29 Copynumber: 2.2 Consensus size: 29
112624077 AAATTCTATG
*
112624087 TAAAAT-TTAAAAAATATTTAAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
112624115 TAAAATATTAAAAAATATTTTAAATCATT
1 TAAAATATTAAAAAATATTTTAAATCATT
*
112624144 TTAAAT
1 TAAAAT
112624150 TATTTTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAATATTAAAAAATATTTTAAATCATT
Found at i:112624172 original size:19 final size:19
Alignment explanation
Indices: 112624127--112624172 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
112624117 AAATATTAAA
112624127 AAATATTTTAAATCATTTT
1 AAATATTTTAAATCATTTT
*
112624146 AAATTATTTTAAAT-GTTTT
1 AAA-TATTTTAAATCATTTT
112624165 ATAATATT
1 A-AATATT
112624173 AAAATATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (19 bp):
AAATATTTTAAATCATTTT
Found at i:112624208 original size:31 final size:33
Alignment explanation
Indices: 112624165--112624252 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 33
112624155 TAAATGTTTT
112624165 ATAATATTAAAATATA-TTTAATATTTA-AAAA
1 ATAATATTAAAATATATTTTAATATTTATAAAA
112624196 ATAAT-TTGAAAATATATTTTTAATATTTATAAAA
1 ATAATATT-AAAATATA-TTTTAATATTTATAAAA
*
112624230 ATATATATTATAAA-ACATTTTAA
1 ATA-ATATTA-AAATATATTTTAA
112624253 AAAATATATT
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
30 2 0.04
31 13 0.27
33 11 0.22
34 13 0.27
35 5 0.10
36 5 0.10
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (33 bp):
ATAATATTAAAATATATTTTAATATTTATAAAA
Found at i:112627730 original size:30 final size:30
Alignment explanation
Indices: 112627694--112627816 Score: 174
Period size: 30 Copynumber: 4.1 Consensus size: 30
112627684 GGTCAAATGG
* *
112627694 ACTCGAACCGCCTATATCCGGGTGATATGA
1 ACTCGAACCACCCATATCCGGGTGATATGA
* *
112627724 ACTCGAACCACCCATGTCCGGGTGATATAA
1 ACTCGAACCACCCATATCCGGGTGATATGA
*
112627754 ACTCGAACCACCCATATCCGGATGATATGA
1 ACTCGAACCACCCATATCCGGGTGATATGA
* * *
112627784 ACTCGAACCACCTATGTCCGGGTTATATGA
1 ACTCGAACCACCCATATCCGGGTGATATGA
112627814 ACT
1 ACT
112627817 GCTCTAGGAC
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 82 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (30 bp):
ACTCGAACCACCCATATCCGGGTGATATGA
Found at i:112627787 original size:60 final size:60
Alignment explanation
Indices: 112627694--112627816 Score: 192
Period size: 60 Copynumber: 2.0 Consensus size: 60
112627684 GGTCAAATGG
* * *
112627694 ACTCGAACCGCCTATATCCGGGTGATATGAACTCGAACCACCCATGTCCGGGTGATATAA
1 ACTCGAACCACCCATATCCGGATGATATGAACTCGAACCACCCATGTCCGGGTGATATAA
* * *
112627754 ACTCGAACCACCCATATCCGGATGATATGAACTCGAACCACCTATGTCCGGGTTATATGA
1 ACTCGAACCACCCATATCCGGATGATATGAACTCGAACCACCCATGTCCGGGTGATATAA
112627814 ACT
1 ACT
112627817 GCTCTAGGAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (60 bp):
ACTCGAACCACCCATATCCGGATGATATGAACTCGAACCACCCATGTCCGGGTGATATAA
Found at i:112630850 original size:18 final size:18
Alignment explanation
Indices: 112630807--112630854 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
112630797 TAATAAAAAA
*
112630807 TATATTT-AATATATATT
1 TATATTTAAATTTATATT
*
112630824 T-T-TTAAAATTTATATT
1 TATATTTAAATTTATATT
112630840 TATATTTAAATTTAT
1 TATATTTAAATTTAT
112630855 TAATAATCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 2 0.08
16 11 0.44
17 2 0.08
18 10 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTAAATTTATATT
Found at i:112630976 original size:21 final size:21
Alignment explanation
Indices: 112630948--112630991 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
112630938 TTAAAAAAAG
112630948 AATTT-AAAAATAATATT-TAA
1 AATTTAAAAAAT-ATATTATAA
112630968 AATTGTAAAAAATATATTATAA
1 AATT-TAAAAAATATATTATAA
112630990 AA
1 AA
112630992 CATTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 11 0.52
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AATTTAAAAAATATATTATAA
Found at i:112631161 original size:25 final size:27
Alignment explanation
Indices: 112631112--112631181 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 27
112631102 AAATTTTAAA
* *
112631112 AAATATATTTAAAATATTATGATTTCTT
1 AAATGTATTTAAAA-ATTATAATTTCTT
* *
112631140 ATAT-TA-TTAAAAATTATAATTTTTT
1 AAATGTATTTAAAAATTATAATTTCTT
112631165 AAATGTATTTAAAAATT
1 AAATGTATTTAAAAATT
112631182 GTATTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 14 0.39
26 8 0.22
27 11 0.31
28 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (27 bp):
AAATGTATTTAAAAATTATAATTTCTT
Found at i:112631351 original size:23 final size:23
Alignment explanation
Indices: 112631320--112631386 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
112631310 AAAAAGAGTA
*
112631320 AAAAAAATATATTTAATATTTAT
1 AAAATAATATATTTAATATTTAT
* *
112631343 AAAATAATAT-TTAATATATTTTTT
1 AAAATAATATATTTA-ATA-TTTAT
*
112631367 AAAAT-TTATATTT-ATATTTA
1 AAAATAATATATTTAATATTTA
112631387 AATTTATTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
21 3 0.09
22 6 0.17
23 15 0.43
24 11 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AAAATAATATATTTAATATTTAT
Found at i:112631676 original size:21 final size:21
Alignment explanation
Indices: 112631651--112631737 Score: 61
Period size: 22 Copynumber: 4.0 Consensus size: 21
112631641 TAAAAAATAT
112631651 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATTAAAA
*
112631672 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATA--ATTAAA-A
* * *
112631695 TTTTAAATATACATTA-CAAAA
1 TTTTAAAAATA-ATAATTAAAA
*
112631716 TTTTTAAAATTAATAATATAAA
1 -TTTTAAAAATAATAAT-TAAA
112631738 TTAAATAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
20 4 0.08
21 13 0.26
22 17 0.34
23 13 0.26
24 1 0.02
25 2 0.04
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTTAAAAATAATAATTAAAA
Found at i:112631697 original size:23 final size:21
Alignment explanation
Indices: 112631651--112631739 Score: 72
Period size: 21 Copynumber: 4.1 Consensus size: 21
112631641 TAAAAAATAT
*
112631651 TTTTAAAAATAATAATTAAAA
1 TTTTAAAAATAATAATAAAAA
112631672 TTTTAAAAA-AATATTATAAAACA
1 TTTTAAAAATAATA--ATAAAA-A
* * * *
112631695 TTTTAAATATACATTACAAAAT
1 TTTTAAAAATA-ATAATAAAAA
* *
112631717 TTTTAAAATTAATAATATAAA
1 TTTTAAAAATAATAATAAAAA
112631738 TT
1 TT
112631740 AAATAAGTAA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
20 4 0.08
21 17 0.33
22 14 0.27
23 14 0.27
24 1 0.02
25 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAAATAATAATAAAAA
Found at i:112631752 original size:14 final size:14
Alignment explanation
Indices: 112631720--112631772 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 14
112631710 ACAAAATTTT
112631720 TAAAATT-AATAA-
1 TAAAATTAAATAAG
112631732 TATAAATTAAATAAG
1 TA-AAATTAAATAAG
112631747 TAAAA-TAAATTAAG
1 TAAAATTAAA-TAAG
*
112631761 -AAAATGAAATAA
1 TAAAATTAAATAA
112631773 AACTTAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 2 0.06
13 16 0.46
14 15 0.43
15 2 0.06
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (14 bp):
TAAAATTAAATAAG
Found at i:112634971 original size:30 final size:29
Alignment explanation
Indices: 112634950--112635007 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
112634940 TTTTAATTTC
*
112634950 TTTAAAAGATATTTTTAAAATTGTTATAAAT
1 TTTAAAA-ATATTATTAAAATT-TTATAAAT
112634981 TTTAAAAATATTATTAAAA-TTTATAAA
1 TTTAAAAATATTATTAAAATTTTATAAA
112635008 AATCATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 1 0.04
30 11 0.42
31 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTAAAAATATTATTAAAATTTTATAAAT
Found at i:112634998 original size:19 final size:19
Alignment explanation
Indices: 112634962--112635019 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 19
112634952 TAAAAGATAT
* *
112634962 TTTTAAAATTGTTAT-AAA
1 TTTTAAAAATATTATAAAA
112634980 TTTTAAAAATATTATTAAAA
1 TTTTAAAAATATTA-TAAAA
112635000 TTTATAAAAATCATT-TAAAA
1 TTT-TAAAAAT-ATTATAAAA
112635020 GTTAAGTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 12 0.35
19 1 0.03
20 11 0.32
21 7 0.21
22 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATATTATAAAA
Found at i:112637878 original size:4 final size:4
Alignment explanation
Indices: 112637855--112637905 Score: 57
Period size: 4 Copynumber: 12.5 Consensus size: 4
112637845 TAAAAGCGGC
* * * *
112637855 TGTA TTTA TGTA TATA TGTA TGTA TGTA TGTA TGTG TGTG TGTA TTGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -TGTA
112637904 TG
1 TG
112637906 CTGAGATGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
4 36 0.90
5 4 0.10
ACGTcount: A:0.22, C:0.00, G:0.25, T:0.53
Consensus pattern (4 bp):
TGTA
Found at i:112638045 original size:4 final size:4
Alignment explanation
Indices: 112638028--112638071 Score: 52
Period size: 4 Copynumber: 11.0 Consensus size: 4
112638018 TAAAAGCTGC
* ** *
112638028 TGTA TGTT TGTA TGTA TGTA TCCA TGTA TGTA TGTA TATA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
112638072 CGTGTATGTG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.05, G:0.20, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:112645250 original size:42 final size:42
Alignment explanation
Indices: 112645198--112645407 Score: 140
Period size: 42 Copynumber: 5.0 Consensus size: 42
112645188 GTGCCATTGG
* *
112645198 ATAAATCGAAGCAATCATACTGATACATAAGTGCATCATCGA
1 ATAAACCGAAGCAATCATACTGACACATAAGTGCATCATCGA
** * * * * * * *
112645240 ATTTACCGAAGCATAT-AAACTAACACACGAGGTGCATAATTGG
1 ATAAACCGAAGCA-ATCATACTGACACA-TAAGTGCATCATCGA
* * *
112645283 ATAAACCGAAGTAATCATACTGACACATAAGTGCATAATTGGA
1 ATAAACCGAAGCAATCATACTGACACATAAGTGCATCA-TCGA
* * * * * *
112645326 AGT--ACTGAAGTAAAT-ATATTGACACACGAGGTGCATCATTGA
1 A-TAAACCGAAG-CAATCATACTGACACA-TAAGTGCATCATCGA
* *
112645368 ATAAACTGAAGCAATCATACTGATACATAAGTGCATCATC
1 ATAAACCGAAGCAATCATACTGACACATAAGTGCATCATC
112645408 AGATAGATTG
Statistics
Matches: 125, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
41 1 0.01
42 62 0.50
43 61 0.49
44 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (42 bp):
ATAAACCGAAGCAATCATACTGACACATAAGTGCATCATCGA
Found at i:112645291 original size:43 final size:42
Alignment explanation
Indices: 112645193--112645390 Score: 132
Period size: 43 Copynumber: 4.6 Consensus size: 42
112645183 ACATAGTGCC
* * * * *
112645193 ATTGGATAAATCGAAGCAATCATACTGATACA-TAAGTGCATC
1 ATTGGATAAACCGAAGCAAT-ATACTGACACACGAGGTGCATA
* * ** * *
112645235 ATCGAATTTACCGAAGCATATAAACTAACACACGAGGTGCATA
1 ATTGGATAAACCGAAGCA-ATATACTGACACACGAGGTGCATA
* * *
112645278 ATTGGATAAACCGAAGTAATCATACTGACACA-TAAGTGCATA
1 ATTGGATAAACCGAAGCAAT-ATACTGACACACGAGGTGCATA
* * * * *
112645320 ATTGGA-AGTACTGAAGTAAATATATTGACACACGAGGTGCATC
1 ATTGGATA-AACCGAAG-CAATATACTGACACACGAGGTGCATA
* *
112645363 ATTGAATAAACTGAAGCAATCATACTGA
1 ATTGGATAAACCGAAGCAAT-ATACTGA
112645391 TACATAAGTG
Statistics
Matches: 117, Mismatches: 31, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
41 1 0.01
42 56 0.48
43 59 0.50
44 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.24
Consensus pattern (42 bp):
ATTGGATAAACCGAAGCAATATACTGACACACGAGGTGCATA
Found at i:112645299 original size:85 final size:84
Alignment explanation
Indices: 112645193--112645407 Score: 277
Period size: 85 Copynumber: 2.5 Consensus size: 84
112645183 ACATAGTGCC
* * *
112645193 ATTGGATAAATCGAAGCAATCATACTGATACATAAGTGCATCATCGAATTTACCGAAGCATATAA
1 ATTGGATAAACCGAAGCAATCATACTGATACATAAGTGCATCATCGAA-GTACCGAAGCAAATAA
112645258 ACTAACACACGAGGTGCATA
65 ACTAACACACGAGGTGCATA
* * * * * * *
112645278 ATTGGATAAACCGAAGTAATCATACTGACACATAAGTGCATAATTGGAAGTACTGAAGTAAATAT
1 ATTGGATAAACCGAAGCAATCATACTGATACATAAGTGCATCA-TCGAAGTACCGAAGCAAATAA
* * *
112645343 ATTGACACACGAGGTGCATC
65 ACTAACACACGAGGTGCATA
* *
112645363 ATTGAATAAACTGAAGCAATCATACTGATACATAAGTGCATCATC
1 ATTGGATAAACCGAAGCAATCATACTGATACATAAGTGCATCATC
112645408 AGATAGATTG
Statistics
Matches: 110, Mismatches: 19, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
84 1 0.01
85 105 0.95
86 4 0.04
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (84 bp):
ATTGGATAAACCGAAGCAATCATACTGATACATAAGTGCATCATCGAAGTACCGAAGCAAATAAA
CTAACACACGAGGTGCATA
Found at i:112645516 original size:7 final size:7
Alignment explanation
Indices: 112645506--112645535 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
112645496 ATTCATCGTG
112645506 AATTCGC
1 AATTCGC
112645513 AATTCGC
1 AATTCGC
112645520 AATTCGC
1 AATTCGC
112645527 AATTC-C
1 AATTCGC
112645533 AAT
1 AAT
112645536 ACAACATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 19 0.83
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (7 bp):
AATTCGC
Found at i:112646805 original size:39 final size:39
Alignment explanation
Indices: 112646751--112646866 Score: 205
Period size: 39 Copynumber: 3.0 Consensus size: 39
112646741 TTTAGTGATG
112646751 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
112646790 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGAAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* *
112646829 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
112646867 ATATGTCCAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:112646890 original size:78 final size:78
Alignment explanation
Indices: 112646751--112646894 Score: 202
Period size: 78 Copynumber: 1.8 Consensus size: 78
112646741 TTTAGTGATG
* * * **
112646751 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGC
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
112646816 TATGTGCTGAAAT
66 TATGTGCTGAAAT
*
112646829 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATGTCCAGG-C-TAAAGTCCCGCAG
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCC-GGACTTAAAGT-CCGCAG
112646892 GCT
64 GCT
112646895 TCGAGCTGGT
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
77 4 0.07
78 52 0.90
79 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (78 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGC
TATGTGCTGAAAT
Found at i:112650046 original size:2 final size:2
Alignment explanation
Indices: 112650039--112650067 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
112650029 GCAGTTTTTG
112650039 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112650068 TTTTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112651347 original size:22 final size:21
Alignment explanation
Indices: 112651308--112651351 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
112651298 AAATATGATG
112651308 TTGATTATGTCATAATTATTA
1 TTGATTATGTCATAATTATTA
* *
112651329 TTGATTAATGTTATTATTATTA
1 TTGATT-ATGTCATAATTATTA
112651351 T
1 T
112651352 AGTTGTGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (21 bp):
TTGATTATGTCATAATTATTA
Found at i:112655280 original size:15 final size:15
Alignment explanation
Indices: 112655262--112655313 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
112655252 AGAGGAAGAG
*
112655262 GAGGAAGTGGAAGTT
1 GAGGAAGTGGAAGTA
* * *
112655277 GAGGAAGAGGTAGAA
1 GAGGAAGTGGAAGTA
112655292 GAGGAAGTGGAAGTA
1 GAGGAAGTGGAAGTA
*
112655307 GAAGAAG
1 GAGGAAG
112655314 AAGAGGACGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.46, T:0.12
Consensus pattern (15 bp):
GAGGAAGTGGAAGTA
Found at i:112655285 original size:24 final size:24
Alignment explanation
Indices: 112655253--112655299 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
112655243 TGAAGAAATA
*
112655253 GAGGAAGAGG-AGGAAGTGGAAGTT
1 GAGGAAGAGGTA-GAAGAGGAAGTT
112655277 GAGGAAGAGGTAGAAGAGGAAGT
1 GAGGAAGAGGTAGAAGAGGAAGT
112655300 GGAAGTAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.49, T:0.11
Consensus pattern (24 bp):
GAGGAAGAGGTAGAAGAGGAAGTT
Found at i:112655296 original size:30 final size:30
Alignment explanation
Indices: 112655252--112655314 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
112655242 ATGAAGAAAT
* * *
112655252 AGAGGAAGAGGAGGAAGTGGAAGTTGAGGA
1 AGAGGAAGAAGAGGAAGTGGAAGTAGAAGA
*
112655282 AGAGGTAGAAGAGGAAGTGGAAGTAGAAGA
1 AGAGGAAGAAGAGGAAGTGGAAGTAGAAGA
112655312 AGA
1 AGA
112655315 AGAGGACGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (30 bp):
AGAGGAAGAAGAGGAAGTGGAAGTAGAAGA
Found at i:112658370 original size:41 final size:41
Alignment explanation
Indices: 112658313--112658395 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
112658303 TTTAAATGAA
112658313 TTAATCTTTATTCAAAACGATGTAAATATAAAACTGTCTTT
1 TTAATCTTTATTCAAAACGATGTAAATATAAAACTGTCTTT
112658354 TTAATCTTTATTCAAAACGATGTAAATATAAAACTGTCTTT
1 TTAATCTTTATTCAAAACGATGTAAATATAAAACTGTCTTT
112658395 T
1 T
112658396 AATTATTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (41 bp):
TTAATCTTTATTCAAAACGATGTAAATATAAAACTGTCTTT
Found at i:112664687 original size:166 final size:166
Alignment explanation
Indices: 112664413--112664911 Score: 944
Period size: 166 Copynumber: 3.0 Consensus size: 166
112664403 TCCTATTTAA
*
112664413 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCATCATAATTAAAA
1 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTAAAA
112664478 CAATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
66 CAATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
*
112664543 GAAAACATTGATCACACAGTGAAAACTAAGATATTG
131 GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
*
112664579 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTGAAA
1 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTAAAA
112664644 CAATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
66 CAATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
112664709 GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
131 GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
*
112664745 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAAGTAGCAAATAACACATGCACCATAATTAAAA
1 GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTAAAA
*
112664810 CGATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
66 CAATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
*
112664875 GAAAACATTGATCAAAAAGTGAAAACTAAGATATTG
131 GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
112664911 G
1 G
112664912 TTAGAAGAAT
Statistics
Matches: 326, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 326 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (166 bp):
GAACGGTATTTTTGTCGTATAGCCTAAAACAAAATTAGCAAATAACACATGCACCATAATTAAAA
CAATTTTCTTTAAAACCTTTCTTTGAAAAGATTGATCTCTGTAAATTTGGCTATCTCAAATAACG
GAAAACATTGATCAAACAGTGAAAACTAAGATATTG
Found at i:112669501 original size:30 final size:30
Alignment explanation
Indices: 112669465--112669533 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
112669455 GCGGTTTTAG
*
112669465 TATTTTGGCTATAACTTGATATACAAACAT
1 TATTTTGGCCATAACTTGATATACAAACAT
112669495 TATTTTGGCCATAACTTGATATACAAACAT
1 TATTTTGGCCATAACTTGATATACAAACAT
112669525 TCATTTTGG
1 T-ATTTTGG
112669534 ACCCACAATA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 30 0.81
31 7 0.19
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (30 bp):
TATTTTGGCCATAACTTGATATACAAACAT
Found at i:112670762 original size:14 final size:14
Alignment explanation
Indices: 112670727--112670762 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
112670717 GTTAGTTAAA
112670727 AAAAATTTAA-TAT
1 AAAAATTTAATTAT
112670740 AAAAA--TAATTAT
1 AAAAATTTAATTAT
112670752 AAAAATTTAAT
1 AAAAATTTAAT
112670763 AGTAAGTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 5 0.25
14 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAAATTTAATTAT
Found at i:112670939 original size:20 final size:19
Alignment explanation
Indices: 112670897--112670939 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
112670887 TTTCCATTTT
* **
112670897 TTTTCCTTCTTTTTCCCGG
1 TTTTCCTTCTTCTTCCCAA
112670916 TTTTCCTTTCTTCTTCCCAA
1 TTTTCC-TTCTTCTTCCCAA
112670936 TTTT
1 TTTT
112670940 ATTCTCTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.05, C:0.30, G:0.05, T:0.60
Consensus pattern (19 bp):
TTTTCCTTCTTCTTCCCAA
Found at i:112671867 original size:20 final size:20
Alignment explanation
Indices: 112671828--112671879 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
112671818 GTTCATTCGG
* * *
112671828 GGGAAGGAAAAAAGGGAAATT
1 GGGAA-GAAGAAAGGAAAATC
112671849 GGGAAGAAGAAAGGAAAATC
1 GGGAAGAAGAAAGGAAAATC
*
112671869 GGGAAAAAGAA
1 GGGAAGAAGAA
112671880 GAAGAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.37, T:0.06
Consensus pattern (20 bp):
GGGAAGAAGAAAGGAAAATC
Found at i:112674715 original size:3 final size:3
Alignment explanation
Indices: 112674707--112674741 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
112674697 CTTAATAAAT
112674707 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
112674742 TCTTCCTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:112675244 original size:24 final size:23
Alignment explanation
Indices: 112675207--112675251 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
112675197 TATATATACG
*
112675207 TATATTTATTTATTTTATTAAAA
1 TATATTTATATATTTTATTAAAA
112675230 TATACTTTATATATTTTATTAA
1 TATA-TTTATATATTTTATTAA
112675252 TTCATGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TATATTTATATATTTTATTAAAA
Found at i:112675290 original size:22 final size:23
Alignment explanation
Indices: 112675237--112675290 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
112675227 AAATATACTT
*
112675237 TATATATTTTATTAATTCATGTA
1 TATATATATTATTAATTCATGTA
* * * *
112675260 TACACATATT-TTAGTTCATGTC
1 TATATATATTATTAATTCATGTA
112675282 TATATATAT
1 TATATATAT
112675291 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (23 bp):
TATATATATTATTAATTCATGTA
Found at i:112687653 original size:50 final size:49
Alignment explanation
Indices: 112687563--112688076 Score: 405
Period size: 50 Copynumber: 10.3 Consensus size: 49
112687553 TCCTGTACTG
* * * ** *
112687563 ACAGCGGATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACA
1 ACAGCGGATCTTACTTTCC-AGCATTGCAGTGGAACAGATTGAAGCTACA
*
112687613 ACAGCGGATCTTACTTTCCAGGCAATGCAGTGGAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTTCCA-GCATTGCAGTGGAACAGATTGAAGCT-ACA
* * * * ** *
112687663 AC-GACGAATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACA
1 ACAG-CGGATCTTACTTTCC-AGCATTGCAGTGGAACAGATTGAAGCTACA
*
112687713 ACAGCGGATCTTACTTTCCAGGCAATGCAGTGGAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTTCCA-GCATTGCAGTGGAACAGATTGAAGCT-ACA
* * * * ** *
112687763 AC-GACGAATCTTACTTCCCTGACATTGCAATTTAAAAGATTGAAGCTACA
1 ACAG-CGGATCTTACTTTCCAG-CATTGCAGTGGAACAGATTGAAGCTACA
*
112687813 ACAGCGGATCTTACTTTCTTAGCATTGCAGTGGAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTTC-CAGCATTGCAGTGGAACAGATTGAAGCT-ACA
* * * * ** *
112687863 AC-GACGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACA
1 ACAG-CGGATCTTACTTTCCAG-CATTGCAGTGGAACAGATTGAAGCTACA
* * * *
112687913 ACAGCGGATCTTACTTTCTTAGCGTTGCAGAGGAATAGATTGAAGCTACA
1 ACAGCGGATCTTACTTTC-CAGCATTGCAGTGGAACAGATTGAAGCTACA
* *
112687963 ACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAG-TCACA
1 ACAGCGGATCTTACTTTC-CAGCATTGCAGTGGAACAGATTGAAGCT-ACA
* * * ** * *
112688013 AC-GACGGATCTTACTTCCCTGACATTGCAATTAAAAATATTGAAGCTACA
1 ACAG-CGGATCTTACTTTCCAG-CATTGCAGTGGAACAGATTGAAGCTACA
* *
112688063 ACAGCAGATTTTAC
1 ACAGCGGATCTTAC
112688077 CCTTCTGATG
Statistics
Matches: 370, Mismatches: 70, Indels: 48
0.76 0.14 0.10
Matches are distributed among these distances:
49 13 0.04
50 346 0.94
51 11 0.03
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (49 bp):
ACAGCGGATCTTACTTTCCAGCATTGCAGTGGAACAGATTGAAGCTACA
Found at i:112687839 original size:150 final size:150
Alignment explanation
Indices: 112687567--112688067 Score: 518
Period size: 150 Copynumber: 3.3 Consensus size: 150
112687557 GTACTGACAG
* * *
112687567 CGGATCTTACTTCCCTA-ACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
1 CGGATCTTACTTCCC-AGACAATGCAATGAAAAAGATTGAAGCTACAACAGCGAATCTTAC-TTC
* * * * * * * * *
112687631 CAG-GCAATGCAGTGGAACAGATTGAAG-TCACAAC-GACGAATCTTACTTCCCTAACATTGCAA
64 CTGAGCATTGCAGAGGAAAAGATTGAAGCT-ACAACAG-CGGATCTTACTTTCTTAGCATTGCAG
** *
112687693 TTAAAAAGATTGAAG-CTACAAC-A
127 TGGAACAGATTGAAGTC-ACAACGA
* * * * *
112687716 GCGGATCTTACTTTCCAGGCAATGCAGTGGAACAGATTGAAG-TCACAAC-GACGAATCTTACTT
1 -CGGATCTTACTTCCCAGACAATGCAATGAAAAAGATTGAAGCT-ACAACAG-CGAATCTTACTT
**
112687779 CCCTGA-CATTGCA-ATTTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCA
63 -CCTGAGCATTGCAGA-GGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCA
112687842 GTGGAACAGATTGAAGTCACAACGA
126 GTGGAACAGATTGAAGTCACAACGA
* * * * * *
112687867 CGAATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCT
1 CGGATCTTACTTCCCAGACAATGCAATGAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCT
* * * *
112687932 TAGCGTTGCAGAGGAATAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGA
66 GAGCATTGCAGAGGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGA
112687997 ACAGATTGAAGTCACAACGA
131 ACAGATTGAAGTCACAACGA
* * * *
112688017 CGGATCTTACTTCCCTGACATTGCAATTAAAAATATTGAAGCTACAACAGC
1 CGGATCTTACTTCCCAGACAATGCAATGAAAAAGATTGAAGCTACAACAGC
112688068 AGATTTTACC
Statistics
Matches: 296, Mismatches: 41, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
149 8 0.03
150 281 0.95
151 7 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (150 bp):
CGGATCTTACTTCCCAGACAATGCAATGAAAAAGATTGAAGCTACAACAGCGAATCTTACTTCCT
GAGCATTGCAGAGGAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTAGCATTGCAGTGGA
ACAGATTGAAGTCACAACGA
Found at i:112687978 original size:100 final size:100
Alignment explanation
Indices: 112687570--112687930 Score: 661
Period size: 100 Copynumber: 3.6 Consensus size: 100
112687560 CTGACAGCGG
112687570 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCAGG
1 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCAGG
112687635 CAATGCAGTGGAACAGATTGAAGTCACAACGACGA
66 CAATGCAGTGGAACAGATTGAAGTCACAACGACGA
112687670 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCAGG
1 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCAGG
112687735 CAATGCAGTGGAACAGATTGAAGTCACAACGACGA
66 CAATGCAGTGGAACAGATTGAAGTCACAACGACGA
* * *
112687770 ATCTTACTTCCCTGACATTGCAATTTAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-
1 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC-CAG
*
112687834 GCATTGCAGTGGAACAGATTGAAGTCACAACGACGA
65 GCAATGCAGTGGAACAGATTGAAGTCACAACGACGA
*
112687870 ATCTTACTTCCCTGACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
1 ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC
112687931 TTAGCGTTGC
Statistics
Matches: 255, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
100 254 1.00
101 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (100 bp):
ATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCAGG
CAATGCAGTGGAACAGATTGAAGTCACAACGACGA
Found at i:112688005 original size:200 final size:200
Alignment explanation
Indices: 112687563--112688028 Score: 658
Period size: 200 Copynumber: 2.3 Consensus size: 200
112687553 TCCTGTACTG
*
112687563 ACAGCGGATCTTACTTCCCTAACATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACT
1 ACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACT
112687628 TTCCAGGCAATGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTAACATTGCAA
66 TTCCAGGCAATGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTAACATTGCAA
*
112687693 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCAGGCAATGCAGTGGAACAGATTGAAG
131 TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCAGGCAATGCAGAGGAACAGATTGAAG
112687758 TCACA
196 TCACA
* *
112687763 AC-GACGAATCTTACTTCCCT-GACATTGCAATTTAAAAGATTGAAGCTACAACAGCGGATCTTA
1 ACAG-CGGATCTTACTTCCCTAG-CATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTA
* * *
112687826 CTTTCTTA-GCATTGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTGACATTG
64 CTTTC-CAGGCAATGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTAACATTG
* ** *
112687890 CAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCTTA-GCGTTGCAGAGGAATAGATT
128 CAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTC-CAGGCAATGCAGAGGAACAGATT
112687954 GAAG-CTACA
192 GAAGTC-ACA
* * * * ** *
112687963 ACAGCGGATCTTACTTTCTTAGCGTTGCAGTGGAACAGATTGAAG-TCACAAC-GACGGATCTTA
1 ACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCT-ACAACAG-CGGATCTTA
112688026 CTT
64 CTT
112688029 CCCTGACATT
Statistics
Matches: 238, Mismatches: 19, Indels: 18
0.87 0.07 0.07
Matches are distributed among these distances:
199 4 0.02
200 230 0.97
201 4 0.02
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (200 bp):
ACAGCGGATCTTACTTCCCTAGCATTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTTACT
TTCCAGGCAATGCAGTGGAACAGATTGAAGTCACAACGACGAATCTTACTTCCCTAACATTGCAA
TTAAAAAGATTGAAGCTACAACAGCGGATCTTACTTTCCAGGCAATGCAGAGGAACAGATTGAAG
TCACA
Done.