Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 196 of 226
Found at i:62265579 original size:26 final size:25
Alignment explanation
Indices: 62265492--62265586 Score: 106
Period size: 26 Copynumber: 3.8 Consensus size: 25
62265482 GAGCCATGAT
* *
62265492 CGGTAAGCTCATTCCAAGCTGATAAA
1 CGGTAAGCTCA-TACGAGCTGATAAA
62265518 CGGTAAGCTC-TATCGAGCTG--AAA
1 CGGTAAGCTCATA-CGAGCTGATAAA
*
62265541 CGGTAAGCTCATAAGAGCTGATATAA
1 CGGTAAGCTCATACGAGCTGATA-AA
*
62265567 CGGTAAGATCATACGAGCTG
1 CGGTAAGCTCATACGAGCTG
62265587 TGGTAAGTCT
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
23 19 0.32
24 3 0.05
25 7 0.12
26 30 0.51
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGCTGATAAA
Found at i:62277560 original size:2 final size:2
Alignment explanation
Indices: 62277553--62277613 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
62277543 NNNNNNNNNN
62277553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62277595 TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA
62277614 ATCAATCGTA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 57 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:62292201 original size:13 final size:13
Alignment explanation
Indices: 62292178--62292216 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
62292168 CTCAAAATCA
62292178 ATTTTTT-AAAAT
1 ATTTTTTAAAAAT
62292190 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
* *
62292203 ATTTCTCAAAAAT
1 ATTTTTTAAAAAT
62292216 A
1 A
62292217 ATACTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:62293163 original size:73 final size:73
Alignment explanation
Indices: 62293037--62293175 Score: 183
Period size: 73 Copynumber: 1.9 Consensus size: 73
62293027 GATTTGAGTA
* **
62293037 AAGTAAATGTTTTGGGAGAAAACAAAAGGAAAAAAATTTTGGAGGTTTTGGGGAAGTAAAATTTT
1 AAGTAAATGTCTTGGGAGAAAACAAAAGGAAAAAAATTTTGGAGGTTGGGGGGAAGTAAAATTTT
62293102 TGAGGGAG
66 TGAGGGAG
** * *
62293110 AAGTAAATGTCTTGGGA-AAAGTAAAAGGAAAAAAGTTTTGG-GGATGTGGGGGGAAGTAAATTT
1 AAGTAAATGTCTTGGGAGAAAACAAAAGGAAAAAAATTTTGGAGG-T-TGGGGGGAAGTAAAATT
62293173 TTT
64 TTT
62293176 TGGGAAGGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
71 2 0.04
72 22 0.39
73 33 0.58
ACGTcount: A:0.40, C:0.01, G:0.31, T:0.28
Consensus pattern (73 bp):
AAGTAAATGTCTTGGGAGAAAACAAAAGGAAAAAAATTTTGGAGGTTGGGGGGAAGTAAAATTTT
TGAGGGAG
Found at i:62296715 original size:43 final size:43
Alignment explanation
Indices: 62296665--62296790 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 43
62296655 AAAGCTCGTA
* * *
62296665 CAATGCCAACATCCCAGACGTGGTCTTACATGTAATCACATA-T
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA-AGT
*
62296708 CGATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGT
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAGT
* * * *
62296751 CAATGCCAACGTACTAGACGTTGTCTTACACGAAAACACA
1 CAATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACA
62296791 TATTGGAGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
42 4 0.06
43 62 0.90
44 3 0.04
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAAGT
Found at i:62298450 original size:40 final size:40
Alignment explanation
Indices: 62298387--62298517 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
62298377 ATCGTTAGAT
* *
62298387 CAACCG-AACACACTAGAACGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
* *
62298426 CAACCGAAACACACCAAAAAGAAGCTCATAAGAACTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
* ** * *
62298466 CACCCGAAACACTTCAGACAGAAGCTGATAAGAGCTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
* *
62298506 TAATCGAAACAC
1 CAACCGAAACAC
62298518 GCTAGAAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 6 0.08
40 71 0.92
ACGTcount: A:0.46, C:0.27, G:0.14, T:0.13
Consensus pattern (40 bp):
CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
Found at i:62303369 original size:24 final size:24
Alignment explanation
Indices: 62303342--62303391 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
62303332 TTTTAATTCG
**
62303342 ATCCTTTATGTTATTTTTTATTTT
1 ATCCTTTATGTTATTTAATATTTT
62303366 ATCCTTTATGTTATTTAATATTTT
1 ATCCTTTATGTTATTTAATATTTT
62303390 AT
1 AT
62303392 GTTTAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (24 bp):
ATCCTTTATGTTATTTAATATTTT
Found at i:62311357 original size:94 final size:94
Alignment explanation
Indices: 62311105--62311475 Score: 386
Period size: 94 Copynumber: 4.0 Consensus size: 94
62311095 AGTGAAACCT
** * * * *
62311105 CAAATCCTATACCTTTGAAGTTGTAGTGGGTCGAATTGAAGCTACAATAGCAAATCTTATCTCCC
1 CAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAGCTACCATAGCGAATCTTATCTCCC
* * *
62311170 TGAAATTGCAATGGTGCAAGATGAAGCTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
*** * * * *
62311199 CAAATCCTATA-TTGTGAAGTTGCAATCGGTCAGATTGAAGCTACCATAGCGACTCTTATCTCCC
1 CAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAGCTACCATAGCGAATCTTATCTCCC
* *
62311263 TGGAGTTGCAGTGGAGCGAGATGAAGCTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * *
62311292 CAAATCTTATACCCCTGAAGTTGTAGTGGGTCAAATTAAAGCTACCATGGTGAATCTTATCTCCC
1 CAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAGCTACCATAGCGAATCTTATCTCCC
* * *
62311357 TGAAGATGCAGTGGACCAAGATGAAACTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * * *
62311386 CAAATCCTATATCCCTGAAATTGCAGTGGAAT-AGATTGAAACTACAATAGCAAATCTTATCTCC
1 CAAATCCTATACCCCTGAAGTTGCAGTGG-GTCAAATTGAAGCTACCATAGCGAATCTTATCTCC
* * * *
62311450 TTAAAGTTGCAATAGAGCAAGATGAA
65 CTGAAGTTGCAGTGGAGCAAGATGAA
62311476 ACTGTAACAC
Statistics
Matches: 225, Mismatches: 50, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
93 77 0.34
94 147 0.65
95 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (94 bp):
CAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAGCTACCATAGCGAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAAGATGAAGCTA
Found at i:62311426 original size:44 final size:43
Alignment explanation
Indices: 62311344--62311432 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 43
62311334 TACCATGGTG
* *
62311344 AATCTTATCTCCCTGAAGATGCAGTGGACCAAGATGAAACTACA
1 AATCCTATATCCCTGAAGATGCAGTGGA-CAAGATGAAACTACA
62311388 AATCCTATATCCCTGAA-ATTGCAGTGGA-ATAGATTGAAACTACA
1 AATCCTATATCCCTGAAGA-TGCAGTGGACA-AGA-TGAAACTACA
62311432 A
1 A
62311433 TAGCAAATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
42 1 0.03
43 4 0.10
44 35 0.88
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (43 bp):
AATCCTATATCCCTGAAGATGCAGTGGACAAGATGAAACTACA
Found at i:62318387 original size:11 final size:11
Alignment explanation
Indices: 62318373--62318399 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
62318363 TTGGGTGAGA
62318373 AAATGTCTTGG
1 AAATGTCTTGG
62318384 AAATGTCTTGG
1 AAATGTCTTGG
62318395 AAATG
1 AAATG
62318400 GCCTATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (11 bp):
AAATGTCTTGG
Found at i:62326090 original size:16 final size:15
Alignment explanation
Indices: 62326063--62326095 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
62326053 TTAAATATTT
62326063 TTATTATTCTTGTTA
1 TTATTATTCTTGTTA
62326078 TTATTATTTCTTGTTA
1 TTATTA-TTCTTGTTA
62326094 TT
1 TT
62326096 GTATTCACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (15 bp):
TTATTATTCTTGTTA
Found at i:62332969 original size:94 final size:94
Alignment explanation
Indices: 62332805--62334769 Score: 2148
Period size: 94 Copynumber: 21.0 Consensus size: 94
62332795 CAGTGAAATA
** * *
62332805 ACAAATCCTATACCCCTGAAGTTGCAGTATGTCGGATTGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
62332870 CTGAAGTTGCAGTGGAGCAAGATAAAGTT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * *
62332899 AGAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAATAACAAATATTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * ** * * *
62332964 TTGAAGTTTTAATGGAGTAACATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
62332993 ACAAATCTTATACCTCTGAAGTTGTAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTACCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
62333058 CTGAAGTTGCAGTGGAGTAAGATGAAGCC
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * *
62333087 ACAAATCCTGTACCCCTGAAGTTGCAATGGGTCAGATTGAAGCTACCATAGTGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* **
62333152 CTAAATTTGCAGTGGAGCAAGATGAAAAT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * ** * * * *
62333181 ACAAATCTTATACCCCTAAAGTTATAGTGGGTCAAATTAAAGCTACCATAGTGAATCCTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
*
62333246 CTAAAGTTGCAGTGGAGTAAGATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * *
62333275 CCAAATCATATACCCTTGACGTTGCAATGGGT--G---GAA-ATACCATAGCGAATC-TATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
62333333 CTAAAGTTGTAGTGGAGCAAGATAAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * *
62333362 ACAAATCATATACCCTTGAAGTTGTAGCGGGTCAGATTGAAGCTACCATA-CTGAATTTTGTCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGC-GAATCTTATCTC
* *
62333426 CTTGAAGTTGCAGTGGAGCAAGATGAAGCT
65 CCTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
62333456 ACAAATCTTGTACCCCTGAAGTTCCAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
62333521 CTAAAGTTGAAGTGAAGCAAGATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
62333550 ACAAATCTTATACCTCTGAAGTTACAGTAGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * * *
62333615 CTGAAGTTACAGTAGAGTAAGATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
62333644 ATAAATCCTATACCCCT-AGAGTTGCAGT-GGTCGGAATGAAGCTACGATAGCGAATCTTATCTC
1 ACAAATCCTATACCCCTGA-AGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTC
* *
62333707 CCTAAAGTTACAGTGGAGCAA-AGTGGAGCT
65 CCTAAAGTTGCAGTGGAGCAAGA-TGAAGCT
* * * *
62333737 ACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
62333802 TTGAAGTTGTAGTGGAGCAAGATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* ***
62333831 ACAAATCATATACCCCTGAAGTTGCAGTGGGTTTTATTGAAGCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * * * * *
62333896 CTAAAATTACAGAGAAACAAGATAAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * *
62333925 AGAAATCCTATACCCCTGAAGTTCCAGTGTGTCATAATGAAACTACAATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
*
62333990 CTAAAGATGCAGTGGAGCAAGATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * *
62334019 ACAAATCCTATACCCTTGAAGTTGTAGTAGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * * *
62334084 CTGAAGTTACAGTAGAGTAAGATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
62334113 ATAAATCCTATACCCCT-AGAGTTGCAGT-GGTCGGAATGAAGCTACGATAGCGAATCTTATCTC
1 ACAAATCCTATACCCCTGA-AGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTC
* *
62334176 CCTAAAGTTACAGTGGAGCAA-AGTGGAGCT
65 CCTAAAGTTGCAGTGGAGCAAGA-TGAAGCT
* * * *
62334206 ACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
62334271 TTGAAGTTGTAGTGGAGCAAGATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* ***
62334300 ACAAATCATATACCCCTGAAGTTGCAGTGGGTTTTATTGAAGCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * * * * * *
62334365 CTAAAATTACAGAGAAACAAAATAAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * *
62334394 ACAAATTCTATGCCCCTGAAGATGAAGTAGGTC-GAAATGAAGCTACCATAGCAAATCGTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG-ATTGAAGCTACCATAGCGAATCTTATCTC
* * *
62334458 CTTGAAGTTGCAATGGAGCAAGATGAAGCT
65 CCTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * *
62334488 ACAAATCCTATGCCCCTGAGGATGCAGTAGG-CTGGAATGAAGTTACCATAGCGAATCTTATCTT
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTC-AGATTGAAGCTACCATAGCGAATCTTATCTC
* * * *
62334552 CGTGAAGTTGTAGTGGAGCAAGATAAAGCT
65 CCTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * *
62334582 AGAAATCCTATACCCCTGAAGATGCAGTGTGTCATAATGAAACTACAATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
*
62334647 CTAAAGATGCAGTGGAGCAAGATGAAGCT
66 CTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * * *
62334676 ACAAATCCTATACCCTTGAAGTTGTAGTGGGT-TGAAATGAAACTACAACAACAAATCTTATCT-
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG-ATTGAAGCTACCATAGCGAATCTTATCTC
* * *
62334739 CTTTAAGTTGCAATGGAGCAAGATGAAGCT
65 CCTAAAGTTGCAGTGGAGCAAGATGAAGCT
62334769 A
1 A
62334770 TGATACTAAA
Statistics
Matches: 1569, Mismatches: 278, Indels: 49
0.83 0.15 0.03
Matches are distributed among these distances:
87 60 0.04
88 13 0.01
89 3 0.00
92 6 0.00
93 199 0.13
94 1283 0.82
95 5 0.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
CTAAAGTTGCAGTGGAGCAAGATGAAGCT
Found at i:62333497 original size:44 final size:44
Alignment explanation
Indices: 62332805--62334345 Score: 395
Period size: 44 Copynumber: 33.0 Consensus size: 44
62332795 CAGTGAAATA
* ** *
62332805 ACAAATCCTATACCCCTGAAGTTGCAGTATGTCGGATTGAAGCTACCAT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAG----C-T
* *
62332854 AGCAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAAGA-TAAAGTT
1 A-CAAATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCT
* *
62332899 AGAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * * ** * * *
62332943 ACAATAACAAATATTATCTCCTTGAAGTTTTAATGGAGTAACA-TGAAGCT
1 ACAA-ATC--TTA-TA-C-CCCTGAAGTTGCAGTGG-GTCAGATTGAAGCT
* *
62332993 ACAAATCTTATACCTCTGAAGTTGTAGTGGGTCAGATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * *
62333037 ACCATAGCGAATCTTA-CCTCCCTGAAGTTGCAGTGGAGTAAGA-TGAAGCC
1 A-C--A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGATTGAAGCT
* * *
62333087 ACAAATCCTGTACCCCTGAAGTTGCAATGGGTCAGATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * **
62333131 ACCATAGTGAATCTTAT-CTCCCTAAATTTGCAGTGGAG-CAAGA-TGAAAAT
1 A-C--A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCT
* ** * *
62333181 ACAAATCTTATACCCCTAAAGTTATAGTGGGTCAAATTAAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * *
62333225 ACCATAGTGAATCCTAT-CTCCCTAAAGTTGCAGTGGAGTAAGA-TGAAGCT
1 A-C--A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGATTGAAGCT
* * * * * * * *
62333275 CCAAATCATATACCCTTGACGTTGCAATGGGT-GGA--AATACCAT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGA-AGC-T
* * * *
62333318 AGCGAATC-TAT-CTCCCTAAAGTTGTAGTGGAG-CAAGA-TAAAGCT
1 A-CAAATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCT
* * * *
62333362 ACAAATCATATACCCTTGAAGTTGTAGCGGGTCAGATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * *
62333406 ACCATACTGAATTTTGT-CTCCTTGAAGTTGCAGTGGAG-CAAGA-TGAAGCT
1 A-C--A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCT
* *
62333456 ACAAATCTTGTACCCCTGAAGTTCCAGTGGGTCAGATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * *
62333500 ACAATAGCGAATCTTAT-CTCCCTAAAGTTGAAGTGAAG-CAAGA-TGAAGCT
1 AC---A---AATCTTATAC-CCCTGAAGTTGCAGTG-GGTC-AGATTGAAGCT
* * *
62333550 ACAAATCTTATACCTCTGAAGTTACAGTAGGTCAGATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * *
62333594 ACCATAGCGAATCTTAT-CTCCCTGAAGTTACAGTAGAGTAAGA-TGAAGCT
1 A-C--A---AATCTTATAC-CCCTGAAGTTGCAGT-GGGTCAGATTGAAGCT
* * * *
62333644 ATAAATCCTATACCCCT-AGAGTTGCAGT-GGTCGGAATGAAGCT
1 ACAAATCTTATACCCCTGA-AGTTGCAGTGGGTCAGATTGAAGCT
* * * * *
62333687 ACGATAGCGAATCTTAT-CTCCCTAAAGTTACAGTGGAG-CAAAGTGGAGCT
1 AC---A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGATTGAAGCT
* * * *
62333737 ACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCAT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAG----C-T
* *
62333786 AGCAAATCTTAT-CTCCTTGAAGTTGTAGTGGAG-CAAGA-TGAAGCT
1 A-CAAATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCT
* ***
62333831 ACAAATCATATACCCCTGAAGTTGCAGTGGGTTTTATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * * * *** *
62333875 ACCATAGCGAATCTTAT-CTCCCTAAAATTACAGAGAAACAAGA-TAAAGCT
1 A-C--A---AATCTTATAC-CCCTGAAGTTGCAGTGGGTC-AGATTGAAGCT
* * * * * * *
62333925 AGAAATCCTATACCCCTGAAGTTCCAGTGTGTCATAATGAAACT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* *
62333969 ACAATAGCGAATCTTAT-CTCCCTAAAGATGCAGTGGAG-CAAGA-TGAAGCT
1 AC---A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCT
* * * *
62334019 ACAAATCCTATACCCTTGAAGTTGTAGTAGGTCAGATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
* * *
62334063 ACCATAGCGAATCTTAT-CTCCCTGAAGTTACAGTAGAGTAAGA-TGAAGCT
1 A-C--A---AATCTTATAC-CCCTGAAGTTGCAGT-GGGTCAGATTGAAGCT
* * * *
62334113 ATAAATCCTATACCCCT-AGAGTTGCAGT-GGTCGGAATGAAGCT
1 ACAAATCTTATACCCCTGA-AGTTGCAGTGGGTCAGATTGAAGCT
* * * * *
62334156 ACGATAGCGAATCTTAT-CTCCCTAAAGTTACAGTGGAG-CAAAGTGGAGCT
1 AC---A---AATCTTATAC-CCCTGAAGTTGCAGTGG-GTCAGATTGAAGCT
* * * *
62334206 ACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCAT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAG----C-T
* *
62334255 AGCAAATCTTAT-CTCCTTGAAGTTGTAGTGGAG-CAAGA-TGAAGCT
1 A-CAAATCTTATAC-CCCTGAAGTTGCAGTGG-GTC-AGATTGAAGCT
* ***
62334300 ACAAATCATATACCCCTGAAGTTGCAGTGGGTTTTATTGAAGCT
1 ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
62334344 AC
1 AC
62334346 CATAGCGAAT
Statistics
Matches: 1109, Mismatches: 209, Indels: 353
0.66 0.13 0.21
Matches are distributed among these distances:
41 1 0.00
42 13 0.01
43 81 0.07
44 439 0.40
45 35 0.03
46 8 0.01
47 24 0.02
48 6 0.01
49 62 0.06
50 388 0.35
51 52 0.05
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
ACAAATCTTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCT
Found at i:62333973 original size:469 final size:470
Alignment explanation
Indices: 62332805--62334769 Score: 2350
Period size: 469 Copynumber: 4.2 Consensus size: 470
62332795 CAGTGAAATA
* ** * *
62332805 ACAAATCCTATACCCCTGAAGTTGCAGTATGTCGGATTGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
* * * * * *
62332870 CTGAAGTTGCAGTGGAGCAAGATAAAGTTAGAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGA
66 TTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTTGCAGTGGGTCAGA
* * * * * * * ** * ** * *
62332935 TTGAAGCTACAATAACAAATATTATCTCCTTGAAGTTTTA-ATGGAGTAACATGAAGCTACAAAT
131 TTGAAGCTACCATAGCGAATCTTATCTCCCTAAAATTACAGA-GAAACAAGATAAAGCTACAAAT
* * ** * * * *
62332999 CTTATACCTCTGAAGTTGTAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTACCTCCCTGAAG
195 CCTATACCCCTGAAGTTCCAGTGGGTCAGAATGAAGCTACAATAGCGAATCTTATCTCCCTAAAG
* * * * * *
62333064 TTGCAGTGGAGTAAGATGAAGCCACAAATCCTGTACCCCTGAAGTTGCAATGGGTCAGATTGAAG
260 TTGAAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTCAGATTGAAG
* * * * * ** * *
62333129 CTACCATAGTGAATCTTATCTCCCTAAATTTGCAGTGGAGCAAGATGAAAATACAAATCTTATAC
325 CTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTATAAATCCTATAC
* ** * * * * * *
62333194 CCCTAAAGTTATAGTGGGTC-AAATTAAAGCTACCATAGTGAATCCTATCTCCCTAAAGTTGCAG
390 CCCTAGAGTTGCAGT-GGTCGGAA-TGAAGCTACGATAGCGAATCTTATCTCCCTAAAGTTACAG
*
62333258 TGGAG-TAAGATGAAGCT
453 TGGAGCAAAGATGAAGCT
* * * * * *
62333275 CCAAATCATATACCCTTGACGTTGCAATGGGT--G---GAA-ATACCATAGCGAATC-TATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
* * * * * *
62333333 CTAAAGTTGTAGTGGAGCAAGATAAAGCTACAAATCATATACCCTTGAAGTTGTAGCGGGTCAGA
66 TTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTTGCAGTGGGTCAGA
* * * * * * * * * *
62333398 TTGAAGCTACCATA-CTGAATTTTGTCTCCTTGAAGTTGCAGTGGAGCAAGATGAAGCTACAAAT
131 TTGAAGCTACCATAGC-GAATCTTATCTCCCTAAAATTACAGAGAAACAAGATAAAGCTACAAAT
* * *
62333462 CTTGTACCCCTGAAGTTCCAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCCCTAAAG
195 CCTATACCCCTGAAGTTCCAGTGGGTCAGAATGAAGCTACAATAGCGAATCTTATCTCCCTAAAG
* * * *
62333527 TTGAAGTGAAGCAAGATGAAGCTACAAATCTTATACCTCTGAAGTTACAGTAGGTCAGATTGAAG
260 TTGAAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTCAGATTGAAG
*
62333592 CTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTAGAGTAAGATGAAGCTATAAATCCTATAC
325 CTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTATAAATCCTATAC
62333657 CCCTAGAGTTGCAGTGGTCGGAATGAAGCTACGATAGCGAATCTTATCTCCCTAAAGTTACAGTG
390 CCCTAGAGTTGCAGTGGTCGGAATGAAGCTACGATAGCGAATCTTATCTCCCTAAAGTTACAGTG
*
62333722 GAGCAAAG-TGGAGCT
455 GAGCAAAGATGAAGCT
*
62333737 ACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
***
62333802 TTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTTGCAGTGGGTTTTA
66 TTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTTGCAGTGGGTCAGA
*
62333867 TTGAAGCTACCATAGCGAATCTTATCTCCCTAAAATTACAGAGAAACAAGATAAAGCTAGAAATC
131 TTGAAGCTACCATAGCGAATCTTATCTCCCTAAAATTACAGAGAAACAAGATAAAGCTACAAATC
* * * *
62333932 CTATACCCCTGAAGTTCCAGTGTGTCATAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGA
196 CTATACCCCTGAAGTTCCAGTGGGTCAGAATGAAGCTACAATAGCGAATCTTATCTCCCTAAAGT
* * *
62333997 TGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCTTGAAGTTGTAGTAGGTCAGATTGAAGC
261 TGAAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTCAGATTGAAGC
*
62334062 TACCATAGCGAATCTTATCTCCCTGAAGTTACAGTAGAGTAAGATGAAGCTATAAATCCTATACC
326 TACCATAGCGAATCTTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTATAAATCCTATACC
62334127 CCTAGAGTTGCAGTGGTCGGAATGAAGCTACGATAGCGAATCTTATCTCCCTAAAGTTACAGTGG
391 CCTAGAGTTGCAGTGGTCGGAATGAAGCTACGATAGCGAATCTTATCTCCCTAAAGTTACAGTGG
*
62334192 AGCAAAG-TGGAGCT
456 AGCAAAGATGAAGCT
*
62334206 ACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
***
62334271 TTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTTGCAGTGGGTTTTA
66 TTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTTGCAGTGGGTCAGA
* *
62334336 TTGAAGCTACCATAGCGAATCTTATCTCCCTAAAATTACAGAGAAACAAAATAAAGCTACAAATT
131 TTGAAGCTACCATAGCGAATCTTATCTCCCTAAAATTACAGAGAAACAAGATAAAGCTACAAATC
* * ** * * * * * *
62334401 CTATGCCCCTGAAGATGAAGTAGGTC-GAAATGAAGCTACCATAGCAAATCGTATCTCCTTGAAG
196 CTATACCCCTGAAGTTCCAGTGGGTCAG-AATGAAGCTACAATAGCGAATCTTATCTCCCTAAAG
* * * * *
62334465 TTGCAA-TGGAGCAAGATGAAGCTACAAATCCTATGCCCCTGAGGATGCAGTAGG-CTGGAATGA
260 TTG-AAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTC-AGATTGA
* * * ** * * *
62334528 AGTTACCATAGCGAATCTTATCTTCGTGAAGTTGTAGTGGAGCAAGATAAAGCTAGAAATCCTAT
323 AGCTACCATAGCGAATCTTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTATAAATCCTAT
* ** * * * *
62334593 ACCCCT-GAAGATGCAGTGTGTCATAATGAAACTACAATAGCGAATCTTATCTCCCTAAAGATGC
388 ACCCCTAG-AGTTGCAGTG-GTCGGAATGAAGCTACGATAGCGAATCTTATCTCCCTAAAGTTAC
62334657 AGTGGAGC-AAGATGAAGCT
451 AGTGGAGCAAAGATGAAGCT
* * * * * * * *
62334676 ACAAATCCTATACCCTTGAAGTTGTAGTGGGT-TGAAATGAAACTACAACAACAAATCTTATCT-
1 ACAAATCCTATACCCCTGAAGTTGCAATGGGTCAG-AATGAAGCTACCATAGCAAATCTTATCTC
* * *
62334739 CTTTAAGTTGCAATGGAGCAAGATGAAGCTA
65 CTTGAAGTTGTAGTGGAGCAAGATGAAGCTA
62334770 TGATACTAAA
Statistics
Matches: 1317, Mismatches: 159, Indels: 39
0.87 0.10 0.03
Matches are distributed among these distances:
462 78 0.06
463 301 0.23
464 14 0.01
465 3 0.00
467 3 0.00
468 16 0.01
469 770 0.58
470 132 0.10
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (470 bp):
ACAAATCCTATACCCCTGAAGTTGCAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
TTGAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCATATACCCCTGAAGTTGCAGTGGGTCAGA
TTGAAGCTACCATAGCGAATCTTATCTCCCTAAAATTACAGAGAAACAAGATAAAGCTACAAATC
CTATACCCCTGAAGTTCCAGTGGGTCAGAATGAAGCTACAATAGCGAATCTTATCTCCCTAAAGT
TGAAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGCAGTAGGTCAGATTGAAGC
TACCATAGCGAATCTTATCTCCCTGAAGTTACAGTAGAGCAAGATGAAGCTATAAATCCTATACC
CCTAGAGTTGCAGTGGTCGGAATGAAGCTACGATAGCGAATCTTATCTCCCTAAAGTTACAGTGG
AGCAAAGATGAAGCT
Found at i:62335592 original size:22 final size:22
Alignment explanation
Indices: 62335564--62335609 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
62335554 CTCGTCAGAC
62335564 AAGGAGAAATTGAAAGGTTTCT
1 AAGGAGAAATTGAAAGGTTTCT
62335586 AAGGAGAAATTGAAAGGTTTCT
1 AAGGAGAAATTGAAAGGTTTCT
62335608 AA
1 AA
62335610 CCCTTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGAGAAATTGAAAGGTTTCT
Found at i:62339876 original size:12 final size:12
Alignment explanation
Indices: 62339859--62339886 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
62339849 TGGTATGTGA
62339859 TAATCTGATTTT
1 TAATCTGATTTT
62339871 TAATCTGATTTT
1 TAATCTGATTTT
62339883 TAAT
1 TAAT
62339887 GTCTTCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (12 bp):
TAATCTGATTTT
Found at i:62341593 original size:21 final size:21
Alignment explanation
Indices: 62341554--62341606 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
62341544 ATAATTATAG
62341554 AAAA-TTATT-AAAAAGATTT
1 AAAATTTATTGAAAAAGATTT
* * *
62341573 TAGATTTATTGAAAAATATTT
1 AAAATTTATTGAAAAAGATTT
62341594 AAAATTTATTGAA
1 AAAATTTATTGAA
62341607 CATCCAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.07
20 5 0.19
21 20 0.74
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.42
Consensus pattern (21 bp):
AAAATTTATTGAAAAAGATTT
Found at i:62342062 original size:21 final size:21
Alignment explanation
Indices: 62342036--62342075 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
62342026 ATAATTTCTT
62342036 ATAATTCT-CAATAATTTTTAA
1 ATAATT-TGCAATAATTTTTAA
*
62342057 ATAATTTGCTATAATTTTT
1 ATAATTTGCAATAATTTTT
62342076 TTATAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
ATAATTTGCAATAATTTTTAA
Found at i:62342084 original size:22 final size:22
Alignment explanation
Indices: 62342046--62342104 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
62342036 ATAATTCTCA
*
62342046 ATAATTTTTAAAT-AATTTGCT
1 ATAATTTTTTAATAAATTTGCT
* *
62342067 ATAATTTTTTTATAAATTTTCT
1 ATAATTTTTTAATAAATTTGCT
* *
62342089 ATGATTATTTAATAAA
1 ATAATTTTTTAATAAA
62342105 CCAATCCATA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (22 bp):
ATAATTTTTTAATAAATTTGCT
Found at i:62343704 original size:17 final size:18
Alignment explanation
Indices: 62343671--62343704 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62343661 TGTTAACACT
*
62343671 TAAAATAATATTATATAG
1 TAAAATAATAGTATATAG
62343689 TAAAATAAT-GTATATA
1 TAAAATAATAGTATATA
62343705 CAAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAAATAATAGTATATAG
Found at i:62349184 original size:6 final size:6
Alignment explanation
Indices: 62349174--62349228 Score: 92
Period size: 6 Copynumber: 9.2 Consensus size: 6
62349164 GGTTCTTCTT
* *
62349174 TCTTCT TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TTTTCC TCTTCC
1 TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC TCTTCC
62349222 TCTTCC T
1 TCTTCC T
62349229 TAAGTGGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (6 bp):
TCTTCC
Found at i:62350088 original size:27 final size:27
Alignment explanation
Indices: 62350042--62350150 Score: 146
Period size: 27 Copynumber: 4.0 Consensus size: 27
62350032 CGACAACAAG
* **
62350042 GAATAGCCTTTATGGTGAACTCTAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
* * *
62350069 GAACAGCCTTTGTGGCGAACTATAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
*
62350096 GAATAGCCTTTGTGGCAAACTCTGAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
*
62350123 GAATAGCCTTTGTGGCAAATTCTAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
62350150 G
1 G
62350151 GATCGCTTAG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.27
Consensus pattern (27 bp):
GAATAGCCTTTGTGGCAAACTCTAAAA
Found at i:62356673 original size:33 final size:34
Alignment explanation
Indices: 62356635--62356750 Score: 108
Period size: 37 Copynumber: 3.3 Consensus size: 34
62356625 TCAACCATAA
*
62356635 ATGCCGAATGCAC-ATATACACTTATACCCACTT
1 ATGCCGAATGCACAATATACACTTATACCCACCT
***
62356668 ATGCCGAATGCATACATATATACACTTATTTTCACCT
1 ATGCCGAATGC--ACA-ATATACACTTATACCCACCT
* **
62356705 ATGCCGAATGCATACATATATACCCTTATATTCACCT
1 ATGCCGAATGC--ACA-ATATACACTTATACCCACCT
62356742 ATGCCGAAT
1 ATGCCGAAT
62356751 ACATACATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
33 11 0.15
35 2 0.03
37 60 0.82
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.31
Consensus pattern (34 bp):
ATGCCGAATGCACAATATACACTTATACCCACCT
Found at i:62356696 original size:37 final size:37
Alignment explanation
Indices: 62356648--62356762 Score: 176
Period size: 37 Copynumber: 3.1 Consensus size: 37
62356638 CCGAATGCAC
** *
62356648 ATATACACTTATACCCACTTATGCCGAATGCATACAT
1 ATATACACTTATATTCACCTATGCCGAATGCATACAT
*
62356685 ATATACACTTATTTTCACCTATGCCGAATGCATACAT
1 ATATACACTTATATTCACCTATGCCGAATGCATACAT
* *
62356722 ATATACCCTTATATTCACCTATGCCGAATACATACAT
1 ATATACACTTATATTCACCTATGCCGAATGCATACAT
62356759 ATAT
1 ATAT
62356763 TTTTATCTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (37 bp):
ATATACACTTATATTCACCTATGCCGAATGCATACAT
Found at i:62357030 original size:41 final size:41
Alignment explanation
Indices: 62356984--62357086 Score: 129
Period size: 41 Copynumber: 2.5 Consensus size: 41
62356974 CTCTTGAGCT
* *
62356984 TGCTAGACTTATAGTCCG-A-AATGTATCGCCGGCATTAAGCC
1 TGCTAGACGTATAGTCCGAATAAT-T-TCACCGGCATTAAGCC
*
62357025 TGCTAGACGTATAGTCTGAATAATTTCACCGGCATTAAGCC
1 TGCTAGACGTATAGTCCGAATAATTTCACCGGCATTAAGCC
* *
62357066 TGCTAGACGTAAAGTCTGAAT
1 TGCTAGACGTATAGTCCGAAT
62357087 TATGTCACTG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 51 0.91
42 2 0.04
43 3 0.05
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (41 bp):
TGCTAGACGTATAGTCCGAATAATTTCACCGGCATTAAGCC
Found at i:62357292 original size:2 final size:2
Alignment explanation
Indices: 62357285--62357313 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62357275 ATACATCCGA
62357285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
62357314 ACTTAACACA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:62366787 original size:27 final size:27
Alignment explanation
Indices: 62366749--62366805 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
62366739 TACACATTTT
* *
62366749 TACCCTATGTTTAACGTCCTGGCAAAC
1 TACCCTATGTTTAACGTCCCGACAAAC
* *
62366776 TACCCTGTGTTTAATGTCCCGACAAAC
1 TACCCTATGTTTAACGTCCCGACAAAC
62366803 TAC
1 TAC
62366806 ATTTGTTGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (27 bp):
TACCCTATGTTTAACGTCCCGACAAAC
Found at i:62369576 original size:21 final size:21
Alignment explanation
Indices: 62369552--62369591 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
62369542 AATGTTTCAT
*
62369552 CATCAACATCCTCATCGCTCA
1 CATCAACATCATCATCGCTCA
**
62369573 CATCATTATCATCATCGCT
1 CATCAACATCATCATCGCT
62369592 GTTATCTCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.30
Consensus pattern (21 bp):
CATCAACATCATCATCGCTCA
Found at i:62372547 original size:16 final size:16
Alignment explanation
Indices: 62372528--62372579 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
62372518 GATTTGCTAT
* *
62372528 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
62372544 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
62372560 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
62372576 TACA
1 TACA
62372580 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:62373031 original size:9 final size:9
Alignment explanation
Indices: 62373017--62373093 Score: 102
Period size: 9 Copynumber: 8.4 Consensus size: 9
62373007 TTTTGGTTAA
62373017 AATTACCCG
1 AATTACCCG
62373026 AATTACCCG
1 AATTACCCG
62373035 AATTACCCG
1 AATTACCCG
*
62373044 AATTAACCG
1 AATTACCCG
*
62373053 AATTAACCG
1 AATTACCCG
62373062 AATTA-CCG
1 AATTACCCG
*
62373070 AAAAATACCCG
1 --AATTACCCG
62373081 AATTACCCG
1 AATTACCCG
62373090 AATT
1 AATT
62373094 TTTTTATTTT
Statistics
Matches: 62, Mismatches: 3, Indels: 6
0.87 0.04 0.08
Matches are distributed among these distances:
8 3 0.05
9 52 0.84
10 4 0.06
11 3 0.05
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:62373250 original size:13 final size:13
Alignment explanation
Indices: 62373232--62373261 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
62373222 TTTTAGTTTT
62373232 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
62373245 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
62373258 ATTG
1 ATTG
62373262 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:62374472 original size:70 final size:71
Alignment explanation
Indices: 62374387--62374531 Score: 220
Period size: 70 Copynumber: 2.1 Consensus size: 71
62374377 AATATATATC
* *
62374387 ATATTAAAATAAAAATTTAATTACATTGCGATTAAAAAGAAATTTAAA-ACATAAATACATCACA
1 ATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATCACA
62374451 TTAACA
66 TTAACA
* * * * *
62374457 ATATAAAAATAAAAATTTAATTACATTGCGGGTAAAAGGAAATTTAAACATATAAATGCATCATA
1 ATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATCACA
62374522 TTAACA
66 TTAACA
62374528 ATAT
1 ATAT
62374532 TAAATGCACT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
70 44 0.66
71 23 0.34
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (71 bp):
ATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATCACA
TTAACA
Found at i:62376948 original size:23 final size:23
Alignment explanation
Indices: 62376922--62376969 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
62376912 GTACTAGAAT
62376922 TTATGAGTAGATAAATTTAATTG
1 TTATGAGTAGATAAATTTAATTG
*
62376945 TTATTAGTAGATAAATTTAATTG
1 TTATGAGTAGATAAATTTAATTG
62376968 TT
1 TT
62376970 CTATAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.48
Consensus pattern (23 bp):
TTATGAGTAGATAAATTTAATTG
Found at i:62377541 original size:31 final size:31
Alignment explanation
Indices: 62377504--62377573 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
62377494 AGTTAGTCCT
* *
62377504 TAAACTTGACAATTGTTCCCACATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
* * *
62377535 TGAACTTGACAATTGCTCCTAAATTGGGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
62377566 TAAACTTG
1 TAAACTTG
62377574 GAAATATTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (31 bp):
TAAACTTGACAATTGCTCCCAAATTGAGGCC
Found at i:62388481 original size:25 final size:27
Alignment explanation
Indices: 62388426--62388481 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 27
62388416 TAAACATTAA
*
62388426 ATTAAATTTAATATTAAGATAATCACT
1 ATTAAATTTAATATTAAGAAAATCACT
* *
62388453 -TTAATTTTAA-ATTAATAAAAT-ACT
1 ATTAAATTTAATATTAAGAAAATCACT
62388477 ATTAA
1 ATTAA
62388482 GATAAGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 3 0.12
25 13 0.52
26 9 0.36
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (27 bp):
ATTAAATTTAATATTAAGAAAATCACT
Found at i:62392078 original size:3 final size:3
Alignment explanation
Indices: 62392070--62392118 Score: 89
Period size: 3 Copynumber: 16.0 Consensus size: 3
62392060 TTGAACTTCT
62392070 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAGA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
62392116 TAA
1 TAA
62392119 GCAAGAATGA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:62392162 original size:13 final size:13
Alignment explanation
Indices: 62392144--62392171 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62392134 ATATTACTTG
62392144 AACTTACATAGAA
1 AACTTACATAGAA
62392157 AACTTACATAGAA
1 AACTTACATAGAA
62392170 AA
1 AA
62392172 GAAGATTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AACTTACATAGAA
Found at i:62392991 original size:31 final size:31
Alignment explanation
Indices: 62392954--62393023 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
62392944 AGTTAGTCCT
* *
62392954 TAAACTTGACAATTGTTCCCACATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
*
62392985 TGAACTTGACAATTGCTCCCAAATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
62393016 TAAACTTG
1 TAAACTTG
62393024 GAAATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (31 bp):
TAAACTTGACAATTGCTCCCAAATTGAGGCC
Found at i:62393399 original size:3 final size:3
Alignment explanation
Indices: 62393391--62393444 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
62393381 TTGAACTTCT
62393391 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62393439 TAA TAA
1 TAA TAA
62393445 GCAAGAATGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:62395806 original size:20 final size:20
Alignment explanation
Indices: 62395762--62395810 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
62395752 AGTCGAATCG
* *
62395762 GTCAAGTCATTGGTTCATCA
1 GTCAAGTCATTGATTCAACA
62395782 GTCAAGTCATTGATTCAACTA
1 GTCAAGTCATTGATTCAAC-A
62395803 -TCAAGTCA
1 GTCAAGTCA
62395811 ACTATTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (20 bp):
GTCAAGTCATTGATTCAACA
Found at i:62397324 original size:24 final size:26
Alignment explanation
Indices: 62397263--62397324 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
62397253 TATCTTTACA
*
62397263 TATTTTTAATAATTTGATTATTACTT
1 TATTTTTAATAATTTAATTATTACTT
*
62397289 TAGTTTTGAATAA-TTAATTA-TA-TT
1 TA-TTTTTAATAATTTAATTATTACTT
62397313 TATTTTATAATA
1 TATTTT-TAATA
62397325 TAAAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 4 0.13
24 8 0.26
25 2 0.06
26 8 0.26
27 9 0.29
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (26 bp):
TATTTTTAATAATTTAATTATTACTT
Found at i:62398199 original size:18 final size:18
Alignment explanation
Indices: 62398178--62398217 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
62398168 GGTTTTTTAA
* *
62398178 TTTTGTTAGGTTTGGGGT
1 TTTTGTTAGGGTTAGGGT
62398196 TTTTGTTAGGGTTAGGGT
1 TTTTGTTAGGGTTAGGGT
62398214 TTTT
1 TTTT
62398218 AAGGGTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.00, G:0.35, T:0.57
Consensus pattern (18 bp):
TTTTGTTAGGGTTAGGGT
Found at i:62400343 original size:11 final size:11
Alignment explanation
Indices: 62400327--62400351 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
62400317 GAATATATAT
62400327 AAAAATATTAA
1 AAAAATATTAA
62400338 AAAAATATTAA
1 AAAAATATTAA
62400349 AAA
1 AAA
62400352 TGGATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAAAATATTAA
Found at i:62401824 original size:18 final size:19
Alignment explanation
Indices: 62401777--62401825 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
62401767 TAATTCAACC
62401777 ATTTTTA-TTTTT-TTAAT
1 ATTTTTACTTTTTATTAAT
* * *
62401794 ATTTTTTCCTTTTATTTA-
1 ATTTTTACTTTTTATTAAT
62401812 ATTTTTACTTTTTA
1 ATTTTTACTTTTTA
62401826 GTATTTTTCG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 6 0.24
18 16 0.64
19 3 0.12
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (19 bp):
ATTTTTACTTTTTATTAAT
Found at i:62412499 original size:14 final size:12
Alignment explanation
Indices: 62412471--62412504 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
62412461 TGGCCTGCCC
62412471 ATATTATTTTTT
1 ATATTATTTTTT
62412483 ATATTATTTTTT
1 ATATTATTTTTT
*
62412495 ATATAATTTT
1 ATATTATTTT
62412505 AAAAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (12 bp):
ATATTATTTTTT
Found at i:62412664 original size:30 final size:30
Alignment explanation
Indices: 62412630--62412692 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
62412620 ACTTAACAAG
* *
62412630 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
*
62412660 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCTCTAAAATAATAACAAAATTAA
62412690 CAA
1 CAA
62412693 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.29
Consensus pattern (30 bp):
CAAATATCTCTAAAATAATAACAAAATTAA
Found at i:62420913 original size:20 final size:21
Alignment explanation
Indices: 62420877--62420923 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
62420867 GGCACATGTA
* *
62420877 AAGAAAA-CAAGTATTGTTAT
1 AAGAAAATCAAATATTGTAAT
62420897 AAGAAAATCAAAT-TTGTAAT
1 AAGAAAATCAAATATTGTAAT
62420917 AA-AAAAT
1 AAGAAAAT
62420924 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 15 0.62
21 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.11, T:0.28
Consensus pattern (21 bp):
AAGAAAATCAAATATTGTAAT
Found at i:62461605 original size:43 final size:44
Alignment explanation
Indices: 62461543--62461629 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 44
62461533 TTATATGAAA
*
62461543 TCATATACGATGCCAATGTCGCAAACATGGTCTTACACGTAATC
1 TCATATACGATGCCAATGTCGCAAACATGGTCTTACACGAAATC
* *
62461587 TCATAT-CGATGCCAATGTCTCAGACATGGTCTTACACGAAATC
1 TCATATACGATGCCAATGTCGCAAACATGGTCTTACACGAAATC
62461630 ACACCTCGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 34 0.85
44 6 0.15
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
TCATATACGATGCCAATGTCGCAAACATGGTCTTACACGAAATC
Found at i:62469199 original size:43 final size:44
Alignment explanation
Indices: 62469132--62469216 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 44
62469122 ATAAGAAATT
* *
62469132 ATATATGATGCCAATGTCCCAGACATGGTCTTACACGTAATCTC
1 ATATATGATGCCAACGTCCCAGACATGGTCTTACACGAAATCTC
*
62469176 ATAT-TGATGCCAACGTCCTAGACATGGTCTTACACGAAATC
1 ATATATGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
62469217 ACACCTCGGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
ATATATGATGCCAACGTCCCAGACATGGTCTTACACGAAATCTC
Found at i:62470597 original size:23 final size:23
Alignment explanation
Indices: 62470567--62470613 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
62470557 TAACATGTGA
*
62470567 TAGTGTGATGAGTCCTGCTTAGT
1 TAGTGTGATGAATCCTGCTTAGT
*
62470590 TAGTGTGATGAATCCTGTTTAGT
1 TAGTGTGATGAATCCTGCTTAGT
62470613 T
1 T
62470614 TGACTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.43
Consensus pattern (23 bp):
TAGTGTGATGAATCCTGCTTAGT
Found at i:62475156 original size:28 final size:29
Alignment explanation
Indices: 62475121--62475202 Score: 98
Period size: 28 Copynumber: 2.9 Consensus size: 29
62475111 GTGCCAATGA
62475121 TTACAGTTCCAGGTACTATGTACCGGTGT
1 TTACAGTTCCAGGTACTATGTACCGGTGT
* *
62475150 TT-CAGTTCCAGGCACCCTATG--CCGGTTT
1 TTACAGTTCCAGGTA--CTATGTACCGGTGT
*
62475178 TTACAGTTCCATGTACTATGTACCG
1 TTACAGTTCCAGGTACTATGTACCG
62475203 ATGGTGGATG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
27 5 0.11
28 19 0.43
29 15 0.34
30 5 0.11
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.34
Consensus pattern (29 bp):
TTACAGTTCCAGGTACTATGTACCGGTGT
Found at i:62478730 original size:23 final size:25
Alignment explanation
Indices: 62478680--62478736 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
62478670 ACAATTATTT
* *
62478680 TTAAAAAAA-ATATTTAATATATGT
1 TTAAAAAAATATATTTAATAAATGA
62478704 TTAAAAAAATATATTT-ATAAAT-A
1 TTAAAAAAATATATTTAATAAATGA
*
62478727 TTAAATAAAT
1 TTAAAAAAAT
62478737 GAGATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 9 0.31
24 14 0.48
25 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TTAAAAAAATATATTTAATAAATGA
Found at i:62479908 original size:43 final size:43
Alignment explanation
Indices: 62479846--62479931 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
62479836 CATCACTTAA
* *
62479846 ATTTAACTCGATTTAAATTCAAAAAGTGTGTTGGCTTGGAGTC
1 ATTTAACTCGATTTAAATTCAAAAAGCGCGTTGGCTTGGAGTC
* *
62479889 ATTTAACTTGATTTCAATTCAAAAAGCGCGTTGGCTTGGAGTC
1 ATTTAACTCGATTTAAATTCAAAAAGCGCGTTGGCTTGGAGTC
62479932 GTTTTGGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (43 bp):
ATTTAACTCGATTTAAATTCAAAAAGCGCGTTGGCTTGGAGTC
Found at i:62490796 original size:14 final size:15
Alignment explanation
Indices: 62490777--62490819 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62490767 TTATAATCTA
62490777 TATATATATATATGT
1 TATATATATATATGT
* *
62490792 T-TATATATTCTTTGT
1 TATATATA-TATATGT
62490807 TATATATATATAT
1 TATATATATATAT
62490820 ATATTCTTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (15 bp):
TATATATATATATGT
Found at i:62490896 original size:26 final size:26
Alignment explanation
Indices: 62490863--62490919 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
62490853 TATTTTCCAC
62490863 ATTT-TATTTATATATACATATATAT
1 ATTTATATTTATATATACATATATAT
* * *
62490888 ATTTATATTTATATTTATATTTATAT
1 ATTTATATTTATATATACATATATAT
62490914 ACTTTA
1 A-TTTA
62490920 CAAATATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 4 0.15
26 19 0.70
27 4 0.15
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATATTTATATATACATATATAT
Found at i:62490941 original size:6 final size:6
Alignment explanation
Indices: 62490880--62490913 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
62490870 TTATATATAC
*
62490880 ATATAT ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
62490914 ACTTTACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:62495671 original size:10 final size:10
Alignment explanation
Indices: 62495655--62495708 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 10
62495645 ATTCAATGCA
62495655 AAAAAAAAGAG
1 AAAAAAAA-AG
62495666 AAAAAAAAAG
1 AAAAAAAAAG
*
62495676 AACAAAAAAACA
1 AA-AAAAAAA-G
62495688 AAAACAAAAAG
1 AAAA-AAAAAG
62495699 AAACAAAAAA
1 AAA-AAAAAA
62495709 ACCTCTACCG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 4 0.11
11 25 0.68
12 8 0.22
ACGTcount: A:0.85, C:0.07, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:62495671 original size:12 final size:11
Alignment explanation
Indices: 62495654--62495709 Score: 67
Period size: 12 Copynumber: 4.8 Consensus size: 11
62495644 AATTCAATGC
62495654 AAAAAAAAAGA
1 AAAAAAAAAGA
62495665 GAAAAAAAAAGA
1 -AAAAAAAAAGA
* *
62495677 ACAAAAAAACA
1 AAAAAAAAAGA
62495688 AAAACAAAAAGA
1 AAAA-AAAAAGA
62495700 AACAAAAAAA
1 AA-AAAAAAA
62495710 CCTCTACCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 12 0.32
12 24 0.63
13 2 0.05
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:62495682 original size:8 final size:8
Alignment explanation
Indices: 62495656--62495710 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
62495646 TTCAATGCAA
*
62495656 AAAAAAAG
1 AAAAAAAC
*
62495664 AGAAAAA-
1 AAAAAAAC
*
62495671 AAAAGAAC
1 AAAAAAAC
62495679 AAAAAAAC
1 AAAAAAAC
62495687 AAAAACAA-
1 AAAAA-AAC
*
62495695 AAAGAAAC
1 AAAAAAAC
62495703 AAAAAAAC
1 AAAAAAAC
62495711 CTCTACCGGG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 7 0.18
8 29 0.76
9 2 0.05
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:62495685 original size:23 final size:24
Alignment explanation
Indices: 62495656--62495710 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
62495646 TTCAATGCAA
*
62495656 AAAAAAAGAGAAAA-AAAAAG-AAC
1 AAAAAAACA-AAAACAAAAAGAAAC
62495679 AAAAAAACAAAAACAAAAAGAAAC
1 AAAAAAACAAAAACAAAAAGAAAC
62495703 AAAAAAAC
1 AAAAAAAC
62495711 CTCTACCGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 4 0.14
23 14 0.48
24 11 0.38
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (24 bp):
AAAAAAACAAAAACAAAAAGAAAC
Found at i:62496232 original size:7 final size:7
Alignment explanation
Indices: 62496215--62496260 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
62496205 AAATATGTGA
62496215 AAAAATG
1 AAAAATG
*
62496222 -AAAATAA
1 AAAAAT-G
62496229 AAAAATG
1 AAAAATG
62496236 AAAAATG
1 AAAAATG
62496243 AAAAATGG
1 AAAAAT-G
62496251 AAAAAT-
1 AAAAATG
62496257 AAAA
1 AAAA
62496261 GTGGAGAGGC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
6 9 0.26
7 13 0.38
8 12 0.35
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:62496240 original size:15 final size:15
Alignment explanation
Indices: 62496214--62496260 Score: 62
Period size: 14 Copynumber: 3.2 Consensus size: 15
62496204 AAAATATGTG
62496214 AAAAAATG-AAAATA
1 AAAAAATGAAAAATA
62496228 AAAAAATGAAAAAT-
1 AAAAAATGAAAAATA
*
62496242 GAAAAATGGAAAAATA
1 AAAAAAT-GAAAAATA
62496258 AAA
1 AAA
62496261 GTGGAGAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 14 0.50
15 12 0.43
16 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.13
Consensus pattern (15 bp):
AAAAAATGAAAAATA
Found at i:62496265 original size:14 final size:15
Alignment explanation
Indices: 62496229--62496265 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
62496219 ATGAAAATAA
62496229 AAAAAT-GAAAAATG
1 AAAAATGGAAAAATG
62496243 AAAAATGGAAAAAT-
1 AAAAATGGAAAAATG
*
62496257 AAAAGTGGA
1 AAAAATGGA
62496266 GAGGCTAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.19, T:0.14
Consensus pattern (15 bp):
AAAAATGGAAAAATG
Found at i:62497716 original size:88 final size:88
Alignment explanation
Indices: 62497535--62498017 Score: 708
Period size: 88 Copynumber: 5.5 Consensus size: 88
62497525 GACTGAAGAG
*
62497535 AGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAA-ATCGAAGATA-CAGCCTTGTCTCCCTGG
1 AGCAGATCTTGCCTTCCTGTACTGACAGAGAAG-AAGATCGAAGATACCAGCCTTGTCTCCCTGG
62497598 GCAGTAGTGGAGTAGGTTGAAAAT
65 GCAGTAGTGGAGTAGGTTGAAAAT
*
62497622 -GACAGATCTTGCCTTCCTATACTGACAGAGAAGAAGATCGAAGATACCAGCCTTGTCTCCCTGG
1 AG-CAGATCTTGCCTTCCTGTACTGACAGAGAAGAAGATCGAAGATACCAGCCTTGTCTCCCTGG
* * *
62497686 ACAGTAGCGGAGCAGGTTGAAAAT
65 GCAGTAGTGGAGTAGGTTGAAAAT
* *
62497710 AGCAGATCTTGCCTTCCTGTACTGACAGCGAA-ACAGATCAAAGATACCAGCCTTGTCTCCCTGG
1 AGCAGATCTTGCCTTCCTGTACTGACAGAGAAGA-AGATCGAAGATACCAGCCTTGTCTCCCTGG
62497774 GCAGTAGTGGAGTAGGTTGAAAAT
65 GCAGTAGTGGAGTAGGTTGAAAAT
* *
62497798 AGCAGATCTTGCCTTCCTGTACTGACAGAGAAGTAGATCGAAGATACCAGCCTTGTCTCCCTGAG
1 AGCAGATCTTGCCTTCCTGTACTGACAGAGAAGAAGATCGAAGATACCAGCCTTGTCTCCCTGGG
* *
62497863 CAGTAGCGGAGCAGGTTGAAAAT
66 CAGTAGTGGAGTAGGTTGAAAAT
* *
62497886 -GACAGATCTTGCCTTCCTGTACTAACA-ACGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTG
1 AG-CAGATCTTGCCTTCCTGTACTGACAGA-GAAGAAGATCGAAGATACCAGCCTTGTCTCCCTG
* *
62497949 GGCAGCAGTGGAGTAGGTCGAAAAT
64 GGCAGTAGTGGAGTAGGTTGAAAAT
* * * *
62497974 GGCAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGAAGA
1 AGCAGATCTTGCCTTCCTGTACTGACAGAGAAGAAGATCGAAGA
62498018 CATCAGTCTT
Statistics
Matches: 359, Mismatches: 27, Indels: 19
0.89 0.07 0.05
Matches are distributed among these distances:
86 3 0.01
87 42 0.12
88 312 0.87
89 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (88 bp):
AGCAGATCTTGCCTTCCTGTACTGACAGAGAAGAAGATCGAAGATACCAGCCTTGTCTCCCTGGG
CAGTAGTGGAGTAGGTTGAAAAT
Found at i:62497787 original size:176 final size:176
Alignment explanation
Indices: 62497535--62498017 Score: 794
Period size: 176 Copynumber: 2.8 Consensus size: 176
62497525 GACTGAAGAG
*
62497535 AGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAAATCGAAGATA-CAGCCTTGTCTCCCTGGG
1 AGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGG
*
62497599 CAGTAGTGGAGTAGGTTGAAAATGACAGATCTTGCCTTCCTATACTGACAGAGAAGAAGATCGAA
66 CAGTAGTGGAGTAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGACAGAGAAGAAGATCGAA
62497664 GATACCAGCCTTGTCTCCCTG-GACAGTAGCGGAGCAGGTTGAAAAT
131 GATACCAGCCTTGTCTCCCTGAG-CAGTAGCGGAGCAGGTTGAAAAT
* *
62497710 AGCAGATCTTGCCTTCCTGTACTGACAGCGAAACAGATCAAAGATACCAGCCTTGTCTCCCTGGG
1 AGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGG
*
62497775 CAGTAGTGGAGTAGGTTGAAAAT-AGCAGATCTTGCCTTCCTGTACTGACAGAGAAGTAGATCGA
66 CAGTAGTGGAGTAGGTTGAAAATGA-CAGATCTTGCCTTCCTGTACTGACAGAGAAGAAGATCGA
62497839 AGATACCAGCCTTGTCTCCCTGAGCAGTAGCGGAGCAGGTTGAAAAT
130 AGATACCAGCCTTGTCTCCCTGAGCAGTAGCGGAGCAGGTTGAAAAT
* *
62497886 -GACAGATCTTGCCTTCCTGTACTAACAACGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGG
1 AG-CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGG
* * * * * *
62497950 GCAGCAGTGGAGTAGGTCGAAAATGGCAGATCTTGCCTTCCTGTACTGGCAGTGAAGCAGATCGA
65 GCAGTAGTGGAGTAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGACAGAGAAGAAGATCGA
62498015 AGA
130 AGA
62498018 CATCAGTCTT
Statistics
Matches: 288, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
175 45 0.16
176 242 0.84
177 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (176 bp):
AGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATACCAGCCTTGTCTCCCTGGG
CAGTAGTGGAGTAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGACAGAGAAGAAGATCGAA
GATACCAGCCTTGTCTCCCTGAGCAGTAGCGGAGCAGGTTGAAAAT
Found at i:62499904 original size:14 final size:15
Alignment explanation
Indices: 62499885--62499927 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
62499875 ATAATCTATA
62499885 TATATATATATATGT
1 TATATATATATATGT
* *
62499900 T-TATATATTCTTTGT
1 TATATATA-TATATGT
62499915 TATATATATATAT
1 TATATATATATAT
62499928 ATATATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
14 6 0.27
15 10 0.45
16 6 0.27
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (15 bp):
TATATATATATATGT
Found at i:62500005 original size:12 final size:12
Alignment explanation
Indices: 62499975--62500030 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
62499965 TTTTCCACAT
*
62499975 TTTATTTATATA
1 TTTATATATATA
**
62499987 TACATATATATA
1 TTTATATATATA
*
62499999 TTTATATTTATA
1 TTTATATATATA
*
62500011 TTTATATTTATA
1 TTTATATATATA
62500023 TTTATATA
1 TTTATATA
62500031 CTTTACAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (12 bp):
TTTATATATATA
Found at i:62500057 original size:6 final size:6
Alignment explanation
Indices: 62499990--62500029 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
62499980 TTATATATAC
*
62499990 ATATAT ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
62500030 ACTTTACAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
ATATTT
Found at i:62502012 original size:9 final size:9
Alignment explanation
Indices: 62501998--62502028 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
62501988 AATTTCTAAA
62501998 AAAAAGAAG
1 AAAAAGAAG
62502007 AAAAAGAAG
1 AAAAAGAAG
*
62502016 AAGAAGAAG
1 AAAAAGAAG
62502025 AAAA
1 AAAA
62502029 GAGGGCTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:62504929 original size:41 final size:41
Alignment explanation
Indices: 62504872--62504980 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
62504862 TTTAACATAT
* *
62504872 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
62504913 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
62504954 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
62504981 AAGTCCGAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:62504999 original size:41 final size:41
Alignment explanation
Indices: 62504872--62505017 Score: 174
Period size: 41 Copynumber: 3.6 Consensus size: 41
62504862 TTTAACATAT
* *
62504872 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
*
62504913 TCACCGGCACTTAGCCTGCTAGGTTTATAA-CCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTA-AAGCCTGATTCAGA
* **
62504954 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCC-GAATT-ATT
1 TCACCGGCACTTAGCCTGCTAGGCTTAAAG-CCTG-ATTCAGA
62504995 TCACCGGC-CTTAAGCCTGCTAGG
1 TCACCGGCACTT-AGCCTGCTAGG
62505018 TTTTAAACCT
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
40 5 0.05
41 81 0.88
42 6 0.07
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTAAAGCCTGATTCAGA
Found at i:62505011 original size:82 final size:82
Alignment explanation
Indices: 62504872--62505029 Score: 207
Period size: 82 Copynumber: 1.9 Consensus size: 82
62504862 TTTAACATAT
* *
62504872 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG-
1 TCACCGGCAATTAGCCTGCTAGACTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
62504936 TTTATAACCTGATTCAGA
66 TTTA-AACCTGATTCAGA
* **
62504954 TCACCGGCACTTAGCCTGCTAGACTTAAAGTCC-GAATT-ATTTCACCGGC-CTTAAGCCTGCTA
1 TCACCGGCAATTAGCCTGCTAGACTTAAAG-CCTG-ATTCAGATCACCGGCACTT-AGCCTGCTA
62505016 GGTTTTAAACCTGA
63 GGTTTTAAACCTGA
62505030 ACATTTCAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
81 3 0.04
82 55 0.82
83 9 0.13
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (82 bp):
TCACCGGCAATTAGCCTGCTAGACTTAAAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGGT
TTTAAACCTGATTCAGA
Found at i:62510646 original size:101 final size:101
Alignment explanation
Indices: 62510469--62510728 Score: 276
Period size: 101 Copynumber: 2.6 Consensus size: 101
62510459 CGTTTTCTTT
* * * * * *
62510469 ATGCCATAGTCCAACTATGGTCTTACACAT--GCATTGTCATGGTCCAGCCATGGTCTTAAATTC
1 ATGCCATAGCCCAGCCATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
** * *
62510532 GTAGTGTCATAACCTAGTTATGGTCTTATCATCT-TA
66 AAAGTGTCATAACCCAGTTATGGTCTTATCAT-TAAA
*** * **
62510568 ATGCCATAGCCCAGCCATGGTCTTATTTATAAATATTGTCATGGTCCAACCATGGTCTTACGTTC
1 ATGCCATAGCCCAGCCATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
* * *
62510633 AAAGTG-CTTTAACCCAGTTATGTTCTTTTCATTAAA
66 AAAGTGTC-ATAACCCAGTTATGGTCTTATCATTAAA
* * *
62510669 ATGCCATGGCCCAGCTATGGTCTTACAAATAAACATTGCCATGGTCCAACCATGGTCTTA
1 ATGCCATAGCCCAGCCATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTA
62510729 TCCGTCAATT
Statistics
Matches: 132, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
99 24 0.18
100 2 0.02
101 106 0.80
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.34
Consensus pattern (101 bp):
ATGCCATAGCCCAGCCATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
AAAGTGTCATAACCCAGTTATGGTCTTATCATTAAA
Found at i:62519365 original size:12 final size:13
Alignment explanation
Indices: 62519348--62519376 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
62519338 TGATTGAATT
62519348 TTTATTTA-TTTA
1 TTTATTTATTTTA
62519360 TTTATTTATTTTA
1 TTTATTTATTTTA
62519373 TTTA
1 TTTA
62519377 AACGTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:62521353 original size:17 final size:17
Alignment explanation
Indices: 62521331--62521368 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
62521321 ATATTTATTA
*
62521331 AATTTAT-TTCAAACATT
1 AATTTATCTT-AAAAATT
62521348 AATTTATCTTAAAAATT
1 AATTTATCTTAAAAATT
62521365 AATT
1 AATT
62521369 ATGGATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTTATCTTAAAAATT
Found at i:62521518 original size:22 final size:22
Alignment explanation
Indices: 62521493--62521535 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
62521483 AATTTAACTT
62521493 AAATAATAATTTT-AAAATATAG
1 AAATAAT-ATTTTAAAAATATAG
* *
62521515 AAATTATCTTTTAAAAATATA
1 AAATAATATTTTAAAAATATA
62521536 TAGAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATAATATTTTAAAAATATAG
Found at i:62523228 original size:5 final size:5
Alignment explanation
Indices: 62523220--62523262 Score: 50
Period size: 5 Copynumber: 8.0 Consensus size: 5
62523210 TTAATCTCAA
*
62523220 ATTTT ATTTT ATTTT ATTAT ATTATAT ATTTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATT-T-T A-TTTT ATTTT ATTTT
62523263 CTCTATCAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 26 0.79
6 2 0.06
7 3 0.09
8 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:62526798 original size:4 final size:4
Alignment explanation
Indices: 62526789--62526813 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
62526779 AGTACTCATT
62526789 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
62526814 GAAAATCTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:62527173 original size:91 final size:90
Alignment explanation
Indices: 62526995--62527173 Score: 234
Period size: 91 Copynumber: 2.0 Consensus size: 90
62526985 TTGATTAGAG
* * * *
62526995 ACATGTCAAATTGAGTAACGAGGTGAGGTGCTTGAGTTGTCATCTCATTTCGCGTAAAAGATTTG
1 ACATGTCAAATCGAGTAACGAGGTAAGGTGCTTGAGTTGTCATCTCATGTCGCATAAAAGATTTG
** * *
62527060 ACTATGTCTCGGATTTGTTAAAAAA
66 ACTATGTCTCAAATATGATAAAAAA
* * *
62527085 ACATGTCGAATCGAGTAACTGAGGTAAGGTGCTTGGGTTGTCATCTCATGTCGTATAAAAAGATT
1 ACATGTCAAATCGAGTAAC-GAGGTAAGGTGCTTGAGTTGTCATCTCATGTCGCAT-AAAAGATT
62527150 TGACTATGTCTCAAATAT-ATAAAA
64 TGACTATGTCTCAAATATGATAAAA
62527174 GTAAAAATAA
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
90 17 0.22
91 36 0.47
92 23 0.30
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.32
Consensus pattern (90 bp):
ACATGTCAAATCGAGTAACGAGGTAAGGTGCTTGAGTTGTCATCTCATGTCGCATAAAAGATTTG
ACTATGTCTCAAATATGATAAAAAA
Found at i:62527712 original size:14 final size:14
Alignment explanation
Indices: 62527693--62527724 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
62527683 TGATCCTTAG
*
62527693 TTTAAATTTTGATT
1 TTTAAATTTTAATT
62527707 TTTAAATTTTAATT
1 TTTAAATTTTAATT
62527721 TTTA
1 TTTA
62527725 GTTGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TTTAAATTTTAATT
Found at i:62531823 original size:2 final size:2
Alignment explanation
Indices: 62531816--62531856 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
62531806 TATTTCAATT
62531816 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
62531857 TGCGCATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:62537497 original size:23 final size:25
Alignment explanation
Indices: 62537467--62537514 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
62537457 TATATTTTAT
*
62537467 CAGTTTAA-ATTTTAA-TTATTAAA
1 CAGTTTAATATTTCAATTTATTAAA
62537490 CAGTTTAATATTTCAATTTATTAAA
1 CAGTTTAATATTTCAATTTATTAAA
62537515 GATTCACCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.36
24 6 0.27
25 8 0.36
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (25 bp):
CAGTTTAATATTTCAATTTATTAAA
Found at i:62537789 original size:29 final size:29
Alignment explanation
Indices: 62537755--62537828 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
62537745 ATTAATTTTT
62537755 AAATTTTTAAAAAT-A-AAAAATAATTATAA
1 AAATTTTTAAAAATAATAAAAAT-ATT-TAA
**
62537784 AAA--TTTAAAAATAATAAAAATATTTTT
1 AAATTTTTAAAAATAATAAAAATATTTAA
62537811 AAATTTTTAAAAA-AATAA
1 AAATTTTTAAAAATAATAA
62537829 TTAATTGCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 13 0.33
28 9 0.23
29 17 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATTTTTAAAAATAATAAAAATATTTAA
Found at i:62537814 original size:27 final size:26
Alignment explanation
Indices: 62537747--62537816 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 26
62537737 AACAATTAAT
62537747 TAATTTTTAAATTTTTAAAAATAAAAAA
1 TAATTTTTAAA--TTTAAAAATAAAAAA
**
62537775 TAATTATAAAAATTTAAAAATAATAAAA
1 TAATT-TTTAAATTTAAAAATAA-AAAA
62537803 -ATATTTTTAAATTT
1 TA-ATTTTTAAATTT
62537817 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 19 0.54
28 12 0.34
29 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATTTTTAAATTTAAAAATAAAAAA
Found at i:62539977 original size:15 final size:15
Alignment explanation
Indices: 62539957--62539986 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62539947 AGTTTATATT
*
62539957 TATAAATATAATAAA
1 TATAAATAAAATAAA
62539972 TATAAATAAAATAAA
1 TATAAATAAAATAAA
62539987 AATCTATTTC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAATAAAATAAA
Found at i:62540168 original size:18 final size:16
Alignment explanation
Indices: 62540116--62540169 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
62540106 GTGTCTTATT
*
62540116 AAACCTTATTAAGAGAA
1 AAACCTTATGAA-AGAA
*
62540133 AAACCTTATGAAAAAA
1 AAACCTTATGAAAGAA
*
62540149 AAATCCTTAGTGAACGAA
1 AAA-CCTTA-TGAAAGAA
62540167 AAA
1 AAA
62540170 AAGTACACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
16 6 0.19
17 16 0.52
18 9 0.29
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.20
Consensus pattern (16 bp):
AAACCTTATGAAAGAA
Found at i:62541223 original size:33 final size:32
Alignment explanation
Indices: 62541181--62541338 Score: 127
Period size: 33 Copynumber: 4.8 Consensus size: 32
62541171 CAGTATTTAT
62541181 ATGTAAGACCATAGCTGGGCTATGACATTCTG
1 ATGTAAGACCATAGCTGGGCTATGACATTCTG
** * * * *
62541213 ATGATAAGACCATAATTGGGTTATGGCACTATG
1 ATG-TAAGACCATAGCTGGGCTATGACATTCTG
* * * ** * *
62541246 AATGTAAGACCATGGTTGGACCGTGACAGTGTTTAT
1 -ATGTAAGACCATAGCTGGGCTATGACA-T-TCT-G
62541282 ATGTAAGACCATAGCTGGGCTATGACATTCTG
1 ATGTAAGACCATAGCTGGGCTATGACATTCTG
* *
62541314 ATGATAAGACCATAACTGGGTTATG
1 ATG-TAAGACCATAGCTGGGCTATG
62541339 GCACTACAAA
Statistics
Matches: 95, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
32 6 0.06
33 61 0.64
34 4 0.04
35 24 0.25
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGACATTCTG
Found at i:62541289 original size:101 final size:101
Alignment explanation
Indices: 62541114--62541353 Score: 399
Period size: 101 Copynumber: 2.4 Consensus size: 101
62541104 TGAATTGACG
* * *
62541114 GATAAGACCATAATTGGGTTATGACACTATGAACGTAAGACAATGGTTGGACCATGGCAGTATTT
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACAATGGTTGGACCATGACAGTATTT
62541179 ATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
66 ATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
* * *
62541215 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACCATGGTTGGACCGTGACAGTGTTT
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACAATGGTTGGACCATGACAGTATTT
62541280 ATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
66 ATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
* **
62541316 GATAAGACCATAACTGGGTTATGGCACTACAAATGTAA
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAA
62541354 ATGATGAATT
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 130 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACAATGGTTGGACCATGACAGTATTT
ATATGTAAGACCATAGCTGGGCTATGACATTCTGAT
Found at i:62546642 original size:18 final size:18
Alignment explanation
Indices: 62546621--62546655 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
62546611 TTTAATATGT
62546621 TTAAATTAGTTA-ATTTAA
1 TTAAATTA-TTATATTTAA
62546639 TTAAATTATTATATTTA
1 TTAAATTATTATATTTA
62546656 GATCAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAATTATTATATTTAA
Found at i:62546981 original size:26 final size:26
Alignment explanation
Indices: 62546952--62547020 Score: 93
Period size: 26 Copynumber: 2.6 Consensus size: 26
62546942 CTTTTTATCA
*
62546952 GTGTATATTTAGCAGGCTTTAAGTCG
1 GTGTATATTTAGCAGGCTTTAAGCCG
**
62546978 GTGTATATTTAGCAGGCTTTGTGCCG
1 GTGTATATTTAGCAGGCTTTAAGCCG
*
62547004 GTGTTTTATTTAGCAGG
1 GTG-TATATTTAGCAGG
62547021 TACTATGTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
26 26 0.68
27 12 0.32
ACGTcount: A:0.19, C:0.12, G:0.29, T:0.41
Consensus pattern (26 bp):
GTGTATATTTAGCAGGCTTTAAGCCG
Found at i:62549371 original size:28 final size:28
Alignment explanation
Indices: 62549339--62549398 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
62549329 TGGCTTTCAT
* * *
62549339 TTTTATTGGGAGTTGTTTTATGGTTATG
1 TTTTATAGAGAGTTGTTTTACGGTTATG
*
62549367 TTTTATAGAGAGTTGTTTTACGTTTATG
1 TTTTATAGAGAGTTGTTTTACGGTTATG
62549395 TTTT
1 TTTT
62549399 GTTTGGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.58
Consensus pattern (28 bp):
TTTTATAGAGAGTTGTTTTACGGTTATG
Found at i:62563415 original size:44 final size:43
Alignment explanation
Indices: 62563235--62563673 Score: 119
Period size: 44 Copynumber: 10.0 Consensus size: 43
62563225 GATAAGGTTG
* * *
62563235 AAGATTGTAGATCTTATCTCCCTAAGTAGTAGTGGAACAGATAA
1 AAGA-TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * *
62563279 AAGACGACAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTA
1 AAGATG-TAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
*** * * * * * * *
62563323 AAGCCACAAAG-CCTTGTCTCCCTGAGCAGCAGCGGAGTA-AGTTG
1 AAG--ATGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TTA
*
62563367 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCA
1 AAGA-TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * ***
62563411 AAGATGACAAATCTTATCTTTTTAAG-A-TAGTGGGAAGCAGATTTA
1 AAGATG-TAGATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGA-TTA
*** * * * * * * * *
62563456 AAGCCACCAAG-CCTTGTCTCCCTGAGCAGCACTGGAGTAGGTTG
1 AAG--ATGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
*
62563500 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTG
1 AAGA-TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
* * * * * *
62563544 AAGACGATAAATCTTATCTTTCC-AA--AATAGTGGGAAGTAGATTT
1 AAGATG-TAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTA
*** * * * * * * *
62563588 AAGCCACCAAG-CCTTATCTCCCTGAGCAGCAGCGGAGAAGGTTG
1 AAG--ATGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
*
62563632 AAGATTGTAGATCTTATCTCCCTAAGCAGTAGTTGAGCAGAT
1 AAGA-TGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
62563674 CANNNNNNNN
Statistics
Matches: 274, Mismatches: 87, Indels: 68
0.64 0.20 0.16
Matches are distributed among these distances:
42 16 0.06
43 25 0.09
44 185 0.68
45 32 0.12
46 13 0.05
47 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (43 bp):
AAGATGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTA
Found at i:62563438 original size:132 final size:133
Alignment explanation
Indices: 62563195--62563675 Score: 774
Period size: 132 Copynumber: 3.6 Consensus size: 133
62563185 ACCGGTGAAA
62563195 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGA-TAAGGTTGAAGATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAAGGTTGAAGATTGTAGATCTTATCTCCCTA
* * *
62563259 AGTAGTAGTGGAACAGATAAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTAA
66 AGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTAA
62563324 AGC
131 AGC
*
62563327 CACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAA-GTTGAAGATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAAGGTTGAAGATTGTAGATCTTATCTCCCTA
* **
62563391 AGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTTTAAGATAGTGGGAAGCAGATTTA
66 AGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGA-TTA
62563456 AAGC
130 AAGC
62563460 CACCAAGCCTTGTCTCCCTGAGCAGCA-CTGGAGT-AGGTTGAAGATTGTAGATCTTATCTCCCT
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGC-GGAGTAAGGTTGAAGATTGTAGATCTTATCTCCCT
** * * * *
62563523 AAGCAGTAGTGGAGCAGATTGAAGACGATAAATCTTATCTTTCCAAAATAGTGGGAAGTAGATTT
65 AAGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTA
62563588 AAGC
130 AAGC
*
62563592 CACCAAGCCTTATCTCCCTGAGCAGCAGCGGAG-AAGGTTGAAGATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAAGGTTGAAGATTGTAGATCTTATCTCCCTA
*
62563656 AGCAGTAGTTGAGCAGATCA
66 AGCAGTAGTGGAGCAGATCA
62563676 NNNNNNNNNN
Statistics
Matches: 322, Mismatches: 21, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
132 199 0.62
133 123 0.38
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (133 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAAGGTTGAAGATTGTAGATCTTATCTCCCTA
AGCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTAA
AGC
Found at i:62563672 original size:265 final size:265
Alignment explanation
Indices: 62563195--62563675 Score: 815
Period size: 265 Copynumber: 1.8 Consensus size: 265
62563185 ACCGGTGAAA
62563195 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGATAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGATAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
62563260 GTAGTAGTGGAACAGATAAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTAAA
66 GCAGTAGTGGAACAGATAAAAGACGACAAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTAAA
*
62563325 GCCACAAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACAAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCT
62563390 AAGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTTTAAGATAGTGGGAAGCAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTTTAAGATAGTGGGAAGCAGATTT
62563455 AAAGC
261 AAAGC
62563460 CACCAAGCCTTGTCTCCCTGAGCAGCA-CTGGAGT-AGGTTGAAGATTGTAGATCTTATCTCCCT
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGC-GGA-TAAGGTTGAAGATTGTAGATCTTATCTCCCT
* ** * * *
62563523 AAGCAGTAGTGGAGCAGATTGAAGACGATAAATCTTATCTTTCCAAAATAGTGGGAAGTAGATTT
64 AAGCAGTAGTGGAACAGATAAAAGACGACAAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTA
*
62563588 AAGCCACCAAGCCTTATCTCCCTGAGCAGCAGCGGAG-AAGGTTGAAGATTGTAGATCTTATCTC
129 AAGCCACAAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAA-GTTGAAGATTGTAGATCTTATCTC
*
62563652 CCTAAGCAGTAGTTGAGCAGATCA
193 CCTAAGCAGTAGTGGAGCAGATCA
62563676 NNNNNNNNNN
Statistics
Matches: 202, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
264 3 0.01
265 198 0.98
266 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (265 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGATAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAACAGATAAAAGACGACAAATCTTATCTTTCCAAAATAGTGGGAAGCAGATTAAA
GCCACAAAGCCTTATCTCCCTGAGCAGCAGCGGAGTAAGTTGAAGATTGTAGATCTTATCTCCCT
AAGCAGTAGTGGAGCAGATCAAAGATGACAAATCTTATCTTTTTAAGATAGTGGGAAGCAGATTT
AAAGC
Found at i:62564385 original size:13 final size:13
Alignment explanation
Indices: 62564367--62564392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62564357 CAAGATAGTG
62564367 GGAAGCAGATTTA
1 GGAAGCAGATTTA
62564380 GGAAGCAGATTTA
1 GGAAGCAGATTTA
62564393 AGCCACCAAG
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:0.38, C:0.08, G:0.31, T:0.23
Consensus pattern (13 bp):
GGAAGCAGATTTA
Found at i:62582630 original size:64 final size:64
Alignment explanation
Indices: 62582557--62582681 Score: 214
Period size: 64 Copynumber: 2.0 Consensus size: 64
62582547 TATGGGGGCG
62582557 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAAGGGATAGGATTGTGGTCC
1 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAAGGGATAGGATTGTGGTCC
* * **
62582621 AGTTATGTGGATGCTTGTAGACACGAGTTTATGAACCTTACTCAGGGGGATAGGATTGTGG
1 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAAGGGATAGGATTGTGG
62582682 CCAAGTTTGA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (64 bp):
AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAAGGGATAGGATTGTGGTCC
Found at i:62590535 original size:16 final size:16
Alignment explanation
Indices: 62590514--62590582 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
62590504 TTTGGTTCGC
62590514 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62590530 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62590546 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
62590563 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62590579 TGTA
1 TGTA
62590583 ATAGCTAATC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62590560 original size:33 final size:32
Alignment explanation
Indices: 62590514--62590582 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
62590504 TTTGGTTCGC
62590514 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGTGTATTGGATTAGAGG
62590546 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGTGTATTGGATTAGAGG
62590579 TGTA
1 TGTA
62590583 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 6 0.17
33 30 0.83
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGTGTATTGGATTAGAGG
Found at i:62590647 original size:44 final size:45
Alignment explanation
Indices: 62590563--62590653 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
62590553 GGATTAGAGG
* * *
62590563 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
62590608 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
62590652 TG
1 TG
62590654 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:62590835 original size:16 final size:16
Alignment explanation
Indices: 62590798--62590852 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
62590788 TTAATCATAT
*
62590798 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
62590814 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
62590829 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
62590847 -TAAAAT
1 TTAAAAT
62590853 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:62590845 original size:18 final size:18
Alignment explanation
Indices: 62590804--62590852 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
62590794 ATATTTAAAC
62590804 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
62590822 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
62590838 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
62590853 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:62590971 original size:67 final size:67
Alignment explanation
Indices: 62590900--62591112 Score: 168
Period size: 67 Copynumber: 3.1 Consensus size: 67
62590890 ATTGTTAATG
*
62590900 TTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATTATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATTATATTTAAACATAAT
62590965 TA
66 TA
* * * * * * * *
62590967 TTATTAAATATATTTTAATTAAAATATATAATT-T-AATAA-AATTCTTATAATTAGCA--GAAA
1 TTATT---TAAATTTTAA-TAAGAT-TATTATTATCAATAATAAATATTTTAATTA-TATTTAAA
** * *
62591027 TTTGTTATTG
60 --CATAATTA
* * *
62591037 TTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAAT
1 TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATTATATTTAAACATAAT
62591102 TA
66 TA
62591104 TTA-TTAAAT
1 TTATTTAAAT
62591113 ACATTATAAT
Statistics
Matches: 105, Mismatches: 28, Indels: 27
0.66 0.17 0.17
Matches are distributed among these distances:
65 5 0.05
66 12 0.11
67 27 0.26
68 12 0.11
69 14 0.13
70 23 0.22
71 6 0.06
72 6 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (67 bp):
TTATTTAAATTTTAATAAGATTATTATTATCAATAATAAATATTTTAATTATATTTAAACATAAT
TA
Found at i:62590989 original size:156 final size:156
Alignment explanation
Indices: 62590705--62591032 Score: 602
Period size: 156 Copynumber: 2.1 Consensus size: 156
62590695 TAGAATACCC
* * *
62590705 TTAGCATAAAATTATTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
62590770 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
62590835 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
62590861 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
* *
62590926 TTATCAGTAATAAATATTTTAATTATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
62590991 TATATAATTTAATAAAATTCTTATAA
131 TATATAATTTAATAAAATTCTTATAA
*
62591017 TTAGCAGAAATTTGTT
1 TTAGCAGAAAATTGTT
62591033 ATTGTTATTT
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTA
TTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTATAA
Found at i:62590995 original size:18 final size:17
Alignment explanation
Indices: 62590974--62591008 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
62590964 TTATTATTAA
*
62590974 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
62590992 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
62591009 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:62591042 original size:137 final size:138
Alignment explanation
Indices: 62590891--62591156 Score: 426
Period size: 137 Copynumber: 1.9 Consensus size: 138
62590881 TAAATGATTA
* * * *
62590891 TTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATTATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
* *
62590956 AAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTT-ATAATTA
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
62591020 GCAGAAAT
131 GCAGAAAT
*
62591028 TTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
1 TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
****
62591093 AAACATAATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT
66 AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
62591157 CATATTCTTA
Statistics
Matches: 117, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
137 111 0.95
138 6 0.05
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (138 bp):
TTGTTAATGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTT
AAACATAATTATTATTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
GCAGAAAT
Found at i:62591190 original size:137 final size:135
Alignment explanation
Indices: 62590912--62591190 Score: 330
Period size: 137 Copynumber: 2.0 Consensus size: 135
62590902 ATTTAAATTT
* * * *
62590912 TAATAAGATTATTATTATCAGTAATAAATATTTTAATTATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
* * * *
62590977 TATTTTAATTAAAATATATAATTTAATAAAATTCTTATAATTAGCAGAAATTTGTTATTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTA-CA-AAATTTCTTATTGTTACT
* **
62591042 TAAATTT
129 CAAATCA
62591049 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
**** *
62591114 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-C-ATA-TTCTTATATGAATTT
66 CATTATAATTAAAATATATAATTTAATAAAATTCTT-ATAATTACAAAATTTCTTAT-TG---TT
62591176 ACTCAAATCA
126 ACTCAAATCA
62591186 TAATA
1 TAATA
62591191 TATGATACTA
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
133 6 0.05
134 4 0.03
136 1 0.01
137 104 0.86
138 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (135 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTCTTATAATTACAAAATTTCTTATTGTTACTCA
AATCA
Found at i:62611004 original size:13 final size:13
Alignment explanation
Indices: 62610986--62611015 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
62610976 CATCGTTTTA
*
62610986 TTTTCTTTTATTT
1 TTTTCTATTATTT
62610999 TTTTCTATTATTT
1 TTTTCTATTATTT
62611012 TTTT
1 TTTT
62611016 ACTCTACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTATTATTT
Found at i:62611835 original size:4 final size:4
Alignment explanation
Indices: 62611815--62611849 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
62611805 TATGTAATCA
*
62611815 TTAT TTTT TTCAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TT-AT TTAT TTAT TTAT TTAT TTAT TT
62611850 TCCTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 25 0.89
5 3 0.11
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:62615992 original size:24 final size:24
Alignment explanation
Indices: 62615965--62616010 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
62615955 AGAACAGTCC
* *
62615965 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
62615989 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
62616011 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:62624528 original size:217 final size:217
Alignment explanation
Indices: 62624268--62624865 Score: 903
Period size: 217 Copynumber: 2.8 Consensus size: 217
62624258 TAAGTAAACA
* *
62624268 AGTCTTATC-CTCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTT
* * *
62624332 GCAGTGAGGCAGACTGAAGATTACAGACCTTATCTTCCTGAAGTTACAGTGGAGCAGGTTAAAGC
65 GCAGTGAGGCAGACTGAAGATTGCAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGC
* * *
62624397 CGATAATCCTATCTCCCTGAACTGGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAA
130 TGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAA
*
62624462 GTTGCAGAGAATAGATCCCATCT
195 GTTGCAAAGAATAGATCCCATCT
* *
62624485 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATTCTCCTGAAGTTA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* * * **
62624550 CAGTGAGGCAAACTGAAGACTGCAAACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTAAAGCT
66 CAGTGAGGCAGACTGAAGATTGCAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGCT
* *
62624615 GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACTTTGGATCTTATCTCTCTGAAG
131 GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAG
* **
62624680 TTGCAAAGAGTAGATCGTATCT
196 TTGCAAAGAATAGATCCCATCT
*
62624702 AGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
* * **
62624767 CAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAG-T
66 CAGTGAGGCAGACTGAAGATTGCAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGCT
* * *
62624831 TACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCA
131 GATAATCC-TATCTCCCTGAAGTTGCAGTGGAGCA
62624866 AGACTAAGAT
Statistics
Matches: 342, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
216 6 0.02
217 335 0.98
218 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (217 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
CAGTGAGGCAGACTGAAGATTGCAAACCTTATCTCCCTGAAGTTACAGTGGAGCAGGTTAAAGCT
GATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAG
TTGCAAAGAATAGATCCCATCT
Found at i:62624535 original size:44 final size:44
Alignment explanation
Indices: 62624224--62624873 Score: 336
Period size: 44 Copynumber: 14.9 Consensus size: 44
62624214 GATCGCATCT
* *
62624224 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAACA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
62624268 AGTCTTATC-CTCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
62624312 AGTCTTATC-CTCCTAAAGTTGCAGT-GAGGCAGACTGAAGATTA-C-
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAG-TAAGCA
* * * * *
62624356 AGACCTTATCTTCCTGAAGTTACAGTGGAGCAG-GTTA--AAGCCGA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A
* * * * * * *
62624400 TAATCCTATCTCCCTGAACTGGCAGTGGAGCAGATTAA--AACCTT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-A
* * * ** ** *
62624444 GGATCTTATCTCTCTGAAGTTGCAG-AGAATAGATCCCA-T---CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCA
62624485 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* * *
62624529 AGTCTTAT-TCTCCTGAAGTTACAGT-GAGGCAAACTGAAG-ACTGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCA
** * * ** * *
62624574 AACCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTAAAGCTGA-TA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
* * * *
62624619 A-TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA--AA-CTTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC--A
* * ** * * * *
62624661 GGATCTTATCTCTCTGAAGTTGCA-AAGAGTAGA-T-CGT-ATCT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
62624702 AGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
62624746 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCA
* * * * *
62624791 AATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGTTA-CA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA
*
62624835 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAAGACTAAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTAAG
62624874 ATAGCAAATT
Statistics
Matches: 461, Mismatches: 97, Indels: 96
0.70 0.15 0.15
Matches are distributed among these distances:
40 44 0.10
41 16 0.03
42 5 0.01
43 26 0.06
44 258 0.56
45 101 0.22
46 11 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:62624635 original size:261 final size:261
Alignment explanation
Indices: 62624146--62624655 Score: 683
Period size: 261 Copynumber: 2.0 Consensus size: 261
62624136 CCAATAATTC
* * * * *
62624146 ATCTCCTTGAAGTTGCAGTGGAGCGGATTAAATCCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
1 ATCTCCCTGAACTGGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
* *
62624211 GCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAACAAGTCTTAT
66 ACAGATCCCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAACAAGTCTTAT
* * **
62624276 CCTCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTAAAGTTGCAGTGAGG
131 CCTCCTGAAGTTACAGTAGAGCAAACTAAGTAAGCAAACCTTATCCTCCTAAAGTTGCAGTGAGG
* * *
62624341 CAGACTGAAGATTACAGACCTTATCTTCCTGAAGTTACAGTGGAGCAGG-TTAAAGCCGATAATC
196 CAGACTAAAGATGACAGACCTTATCTCCCTGAAGTTACAGTGGAGC-GGATTAAAGCCGATAATC
62624405 CT
260 CT
62624407 ATCTCCCTGAACTGGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
1 ATCTCCCTGAACTGGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
* * *
62624472 ATAGATCCCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTAT
66 ACAGATCCCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAACAAGTCTTAT
* * *
62624537 TCTCCTGAAGTTACAGT-GAGGCAAACTGAAG-ACTGCAAACCTTAT-CTCCCTAAAGTTGTAGT
131 CCTCCTGAAGTTACAGTAGA-GCAAACT-AAGTA-AGCAAACCTTATCCT-CCTAAAGTTGCAGT
** * * *
62624599 G-GAGCAGGTTAAAGCTGATA-ATCC-TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
192 GAG-GCAGACTAAAGATGACAGA-CCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA
62624656 ACTTTGGATC
Statistics
Matches: 217, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
260 4 0.02
261 174 0.80
262 39 0.18
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (261 bp):
ATCTCCCTGAACTGGCAGTGGAGCAGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGA
ACAGATCCCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAACAAGTCTTAT
CCTCCTGAAGTTACAGTAGAGCAAACTAAGTAAGCAAACCTTATCCTCCTAAAGTTGCAGTGAGG
CAGACTAAAGATGACAGACCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAGCCGATAATCC
T
Found at i:62624816 original size:89 final size:89
Alignment explanation
Indices: 62624706--62624882 Score: 236
Period size: 89 Copynumber: 2.0 Consensus size: 89
62624696 GTATCTAGTT
* * *
62624706 TTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCAAGTCTTATC-CTCCTGAAGTTGCA
1 TTATCTCCCTGAAGTTACAGTGGAGCAAACTAAAGTAA-CAAGCCTTATCTC-CCTGAAGTTGCA
*
62624769 GT-GAGGC-AGACTGAAGATGGCAAATC
64 GTGGA-GCAAGACT-AAGATAGCAAATC
* *
62624795 TTATCTCCCTGAAGTTACAGTGGAGCAAATTAAAGTTACAAGCCTTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTACAGTGGAGCAAACTAAAGTAACAAGCCTTATCTCCCTGAAGTTGCAGT
62624860 GGAGCAAGACTAAGATAGCAAAT
66 GGAGCAAGACTAAGATAGCAAAT
62624883 TTTGTTCTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
89 65 0.83
90 13 0.17
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (89 bp):
TTATCTCCCTGAAGTTACAGTGGAGCAAACTAAAGTAACAAGCCTTATCTCCCTGAAGTTGCAGT
GGAGCAAGACTAAGATAGCAAATC
Found at i:62625559 original size:13 final size:13
Alignment explanation
Indices: 62625541--62625570 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
62625531 CATCGTTTTA
*
62625541 TTTTCTTTTATTT
1 TTTTCTATTATTT
62625554 TTTTCTATTATTT
1 TTTTCTATTATTT
62625567 TTTT
1 TTTT
62625571 ACTCTACTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTCTATTATTT
Found at i:62626373 original size:19 final size:19
Alignment explanation
Indices: 62626327--62626379 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
62626317 CAATTTAGTA
*
62626327 ATTT-TTTATTATTTTTTT
1 ATTTATTTATTATTTTTTC
* *
62626345 ATGTAATTATTATTTTTTC
1 ATTTATTTATTATTTTTTC
62626364 ATTTATTTATT-TTTTT
1 ATTTATTTATTATTTTT
62626380 CCTTTTTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (19 bp):
ATTTATTTATTATTTTTTC
Found at i:62629938 original size:22 final size:22
Alignment explanation
Indices: 62629887--62629938 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
62629877 TTTACATTAC
* *
62629887 TTTATATATATTTTTTAAAATA
1 TTTATATTTATTTTTAAAAATA
* *
62629909 ATTATATTTCTTTTTAAAAATA
1 TTTATATTTATTTTTAAAAATA
62629931 TTTATATT
1 TTTATATT
62629939 GACAAATACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTATATTTATTTTTAAAAATA
Found at i:62641146 original size:17 final size:17
Alignment explanation
Indices: 62641126--62641171 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
62641116 TAAAGATAAA
62641126 TTTAAAAATAATAATAT
1 TTTAAAAATAATAATAT
* *
62641143 TTTAAAAGT-ATTATAT
1 TTTAAAAATAATAATAT
*
62641159 TTTGAAAA-AATAA
1 TTTAAAAATAATAA
62641172 AGTAGGTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (17 bp):
TTTAAAAATAATAATAT
Found at i:62649515 original size:3 final size:3
Alignment explanation
Indices: 62649507--62649533 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
62649497 ATATGATACT
62649507 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
62649534 AATGTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:62655600 original size:6 final size:6
Alignment explanation
Indices: 62655589--62655616 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
62655579 AAGTGACTTT
62655589 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
62655617 TATGTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:62661333 original size:26 final size:29
Alignment explanation
Indices: 62661289--62661349 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
62661279 AGAGGTCATT
*
62661289 AAATGA-CTGAATTACCT-CCACAGTGTA
1 AAATGATCTGAATTACCTCCCACAGGGTA
*
62661316 AAATGATC-GAATTA-CTCCCATAGGGTA
1 AAATGATCTGAATTACCTCCCACAGGGTA
62661343 AAATGAT
1 AAATGAT
62661350 TGTTATACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 2 0.07
27 27 0.90
28 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (29 bp):
AAATGATCTGAATTACCTCCCACAGGGTA
Done.