Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 198 of 333
Found at i:64803612 original size:43 final size:43
Alignment explanation
Indices: 64803564--64804061 Score: 552
Period size: 43 Copynumber: 11.6 Consensus size: 43
64803554 GGCACATATT
** * * * *
64803564 GTGCATCATCGAATAATACCAAAGAAACATACTGACACACATA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * * *
64803607 GTGCATTATTGGATAAAACCG-AGTCAACATACTGGCACATACA
1 GTGCATCATCGGGTAATACCGAAG-CAACATACTGGCACACACA
* * * * *
64803650 GTGCATCATTGGATAATACCGAAGCAATATATTGGCATACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* *
64803693 GTGCATCATCGGGTAATATCGAAGCAACATACTAGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* *
64803736 GTGCATCATCGAGTAATACCGAAGCAACATATTGGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * *
64803779 GTGCATCA-CTGGGTAATACCGTAGCAACATTCTAGCACACATA
1 GTGCATCATC-GGGTAATACCGAAGCAACATACTGGCACACACA
*
64803822 GTGCATCATCGGGTAATACCGAAGCAACATTCTGGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * *
64803865 ATGCATCGTCGGGTAATACCGAAACAAAATACTGGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * *
64803908 ATGCATCGTCGGGTAATACCGAAGCAACATATTGGCACACACA
1 GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * * * *
64803951 GGTGCATCATCAGATAAAACTGAAGCAACATATTGGCACACACA
1 -GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
* * *
64803995 GTGCATCAGT-GGATAATATCGAAGCAATATACTGGCACACACA
1 GTGCATCA-TCGGGTAATACCGAAGCAACATACTGGCACACACA
** *
64804038 GTGCATCATTTGATAATACCGAAG
1 GTGCATCATCGGGTAATACCGAAG
64804062 TATAACTTGC
Statistics
Matches: 391, Mismatches: 57, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
42 4 0.01
43 346 0.88
44 41 0.10
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.20
Consensus pattern (43 bp):
GTGCATCATCGGGTAATACCGAAGCAACATACTGGCACACACA
Found at i:64813373 original size:12 final size:14
Alignment explanation
Indices: 64813358--64813389 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
64813348 GTGAGAACAC
64813358 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
64813370 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
64813384 ATGTGT
1 ATGTGT
64813390 TTAAGATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:64813474 original size:50 final size:51
Alignment explanation
Indices: 64813355--64813650 Score: 266
Period size: 50 Copynumber: 5.9 Consensus size: 51
64813345 ATTGTGAGAA
* * * * * *
64813355 CACATGTGTAGTACTATGTGTAGGCTACTATGTGT-TTAAGATGATTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGAT-A-GTTAGGT
*
64813407 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAGTTAGGT
* * * * * * *
64813457 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGA-TAGTT-AGGT
* * * *
64813508 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTATA-TCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAGTTAGGT
* * * * *
64813558 CACATGTGTAGTACTAAGTACAGGATAATACGTGTA-TCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAGTTAGGT
* * *
64813607 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAC-CAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAG
64813651 CTTCGGTTAC
Statistics
Matches: 196, Mismatches: 41, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
49 39 0.20
50 82 0.42
51 38 0.19
52 36 0.18
53 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCAGATAGTTAGGT
Found at i:64813635 original size:150 final size:152
Alignment explanation
Indices: 64813359--64813644 Score: 425
Period size: 151 Copynumber: 1.9 Consensus size: 152
64813349 TGAGAACACA
* * * * * *
64813359 TGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGATTTTAGGTCACGTGTGTAGTACTAA
1 TGTGTAGTACTAAGTGTAGGCTACTACGTATATAAGATGA-GTTAGGTCACATGTGTAGTACTAA
* * *
64813424 GTGCAGGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
65 GTACAGGATAATACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
64813489 CGTACCCGACAACTTCAATCACG
130 CGTACCCGACAACTTCAATCACG
*
64813512 TGTGTAGTACTAAGTGTAGGCTACTACGTATATCAGATG-GTTAGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGTAGGCTACTACGTATATAAGATGAGTTAGGTCACATGTGTAGTACTAAG
* *
64813576 TACAGGATAATACGTGTA-TCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
66 TACAGGATAATACGTGTACT-AGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATG
64813639 CGTACC
130 CGTACC
64813645 AGATAGCTTC
Statistics
Matches: 120, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
150 42 0.35
151 44 0.37
153 34 0.28
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (152 bp):
TGTGTAGTACTAAGTGTAGGCTACTACGTATATAAGATGAGTTAGGTCACATGTGTAGTACTAAG
TACAGGATAATACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGC
GTACCCGACAACTTCAATCACG
Found at i:64813681 original size:150 final size:152
Alignment explanation
Indices: 64813362--64813647 Score: 389
Period size: 150 Copynumber: 1.9 Consensus size: 152
64813352 GAACACATGT
* * * * * *
64813362 GTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGATTTTAGGTCACGTGTGTAGTACTAAGTG
1 GTAGTACTATGTGTAGGCTACTACGTATATAAGATGA-GTTAGGTCACATGTGTAGTACTAAGTA
* *
64813427 CAGGCTACTACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
65 CAGGATAATACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
* ** *
64813492 ACCCGACAACTTCAATCACGTGT
130 ACCAGACAACTTCAATCACAAGG
* *
64813515 GTAGTACTAAGTGTAGGCTACTACGTATATCAGATG-GTTAGGTCACATGTGTAGTACTAAGTAC
1 GTAGTACTATGTGTAGGCTACTACGTATATAAGATGAGTTAGGTCACATGTGTAGTACTAAGTAC
* *
64813579 AGGATAATACGTGTA-TCGGATTGTT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
66 AGGATAATACGTGTACT-AGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGT
64813642 ACCAGA
130 ACCAGA
64813648 TAGCTTCGGT
Statistics
Matches: 119, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
150 44 0.37
151 44 0.37
153 31 0.26
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (152 bp):
GTAGTACTATGTGTAGGCTACTACGTATATAAGATGAGTTAGGTCACATGTGTAGTACTAAGTAC
AGGATAATACGTGTACTAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTA
CCAGACAACTTCAATCACAAGG
Found at i:64832241 original size:46 final size:46
Alignment explanation
Indices: 64832092--64832278 Score: 171
Period size: 46 Copynumber: 4.0 Consensus size: 46
64832082 CACTTACGTG
* * * **** *
64832092 AGCCAGTGTAAGACATGTCTGGCACATTCATC-GACCATTTTATGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGATGAT
* * * * * *
64832138 AGCCAATATAAGACCATGTCTGGGACATGGCATCAAC-ATTGAGACGAG
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGATGAT
* * *
64832186 AGCTAGTGTAAGACATGTCTGGGATATGCATCGGCTACGAGATGAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
64832232 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
64832278 A
1 A
64832279 TGTAACACCC
Statistics
Matches: 115, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
46 67 0.58
47 28 0.24
48 20 0.17
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGAT
Found at i:64833169 original size:27 final size:27
Alignment explanation
Indices: 64833139--64833389 Score: 222
Period size: 27 Copynumber: 9.3 Consensus size: 27
64833129 TGAAATGCCA
* *
64833139 TCGATTTGTAAAATTACCGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* *
64833166 TCGATTTACAAAATTACTATTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* * *
64833193 TC-AGTTTACAGAATTACTATTTTACCC
1 TCGA-TTTATAAAATTACTGTTTTACCC
* * *
64833220 TCAATTTATAGAATTACCGTTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* * *
64833247 TC-AGTTTACAGAATTACTATTTTACCC
1 TCGA-TTTATAAAATTACTGTTTTACCC
*
64833274 TCGATTTATAAAATTACTATTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
* * *
64833301 TCGATTTGTAAAATTACCGTTTTACCG
1 TCGATTTATAAAATTACTGTTTTACCC
* * * * * *
64833328 TTGATTTACAGAATGATTGGTTTACCC
1 TCGATTTATAAAATTACTGTTTTACCC
*
64833355 TC-AGTTTACAAAATTA-TCGTTTTACCC
1 TCGA-TTTATAAAATTACT-GTTTTACCC
64833382 TCGATTTA
1 TCGATTTA
64833390 CAGAATTGTC
Statistics
Matches: 187, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.02
27 180 0.96
28 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.41
Consensus pattern (27 bp):
TCGATTTATAAAATTACTGTTTTACCC
Found at i:64833208 original size:54 final size:54
Alignment explanation
Indices: 64833150--64833396 Score: 282
Period size: 54 Copynumber: 4.6 Consensus size: 54
64833140 CGATTTGTAA
*
64833150 AATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAG
** * * **
64833204 AATTACTATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAG
** * * *
64833258 AATTACTATTTTACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTGTA-A-
1 AATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTC-AGTT-TACAG
* * * * ** *
64833312 AATTACCGTTTTACCGTTGATTTACAGAATGATTGGTTTACCCTCAGTTTACAA
1 AATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAG
*
64833366 AATTATCGTTTTACCCTCGATTTACAGAATT
1 AATTACCGTTTTACCCTCGATTTACAGAATT
64833397 GTCGTTTTAT
Statistics
Matches: 162, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
52 2 0.01
53 4 0.02
54 150 0.93
55 4 0.02
56 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.41
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAG
Found at i:64833262 original size:81 final size:81
Alignment explanation
Indices: 64833139--64833414 Score: 324
Period size: 81 Copynumber: 3.4 Consensus size: 81
64833129 TGAAATGCCA
* * * *
64833139 TCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCAGTTTACAG
1 TCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAA
64833204 AATTACTATTTTACCC
66 AATTACTATTTTACCC
* *
64833220 TCAATTTATAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTC-GATTTAT
1 TCGATTTATAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACTATTTTACCCTCAG-TTTAC
64833283 AAAATTACTATTTTACCC
64 AAAATTACTATTTTACCC
* * * * * * **
64833301 TCGATTTGTAAAATTACCGTTTTACCGTTGATTTACAGAATGATTGGTTTACCCTCAGTTTACAA
1 TCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAA
*
64833366 AATTA-TCGTTTTACCC
66 AATTACT-ATTTTACCC
* ** * *
64833382 TCGATTTACAGAATTGTCGTTTTATCCTTGATT
1 TCGATTTATAGAATTACCGTTTTACCCTCGATT
64833415 GTGAAATTAC
Statistics
Matches: 166, Mismatches: 24, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
80 3 0.02
81 161 0.97
82 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (81 bp):
TCGATTTATAGAATTACCGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCAGTTTACAA
AATTACTATTTTACCC
Found at i:64833457 original size:27 final size:27
Alignment explanation
Indices: 64833419--64833614 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
64833409 TTGATTGTGA
*
64833419 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
64833446 AATTTCTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
64833473 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
64833500 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
64833527 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
64833554 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
64833581 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
64833608 AATTACC
1 AATTACC
64833615 ATTTTGCCCC
Statistics
Matches: 148, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 148 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:64833851 original size:27 final size:26
Alignment explanation
Indices: 64833813--64833895 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
64833803 CGGAGGAAGC
*
64833813 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
64833840 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
64833866 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
64833893 GTT
1 GTT
64833896 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:64834015 original size:22 final size:22
Alignment explanation
Indices: 64833983--64834041 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
64833973 CCCGTTATTA
*
64833983 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
64834005 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
64834027 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
64834042 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:64834219 original size:25 final size:25
Alignment explanation
Indices: 64834181--64834272 Score: 69
Period size: 27 Copynumber: 3.5 Consensus size: 25
64834171 TATGGCTTTG
* *
64834181 TGCCACATATTCTGTT-AGGTGGGTT
1 TGCCACATA-TCTGTTCAGGTGGCTC
*
64834206 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACA-TATCTG-TTCAGGTGGCTC
* *
64834233 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCAC-ATATCTGT-TCAGGTGGCTC
*
64834260 TGTCACGATATCT
1 TGCCAC-ATATCT
64834273 ATTCTGGCAG
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
25 11 0.20
26 5 0.09
27 39 0.70
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (25 bp):
TGCCACATATCTGTTCAGGTGGCTC
Found at i:64834228 original size:27 final size:27
Alignment explanation
Indices: 64834206--64834272 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
64834196 TAGGTGGGTT
*
64834206 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
64834233 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
64834260 TGTCACGATATCT
1 TGCCACAATATCT
64834273 ATTCTGGCAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:64834406 original size:6 final size:6
Alignment explanation
Indices: 64834397--64834534 Score: 142
Period size: 6 Copynumber: 22.8 Consensus size: 6
64834387 TTGCATTCAC
* * * *
64834397 ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTA ATTATG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
64834446 -TTACTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
64834494 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
64834535 CATTTTGGTT
Statistics
Matches: 111, Mismatches: 10, Indels: 22
0.78 0.07 0.15
Matches are distributed among these distances:
5 8 0.07
6 94 0.85
7 7 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:64834555 original size:30 final size:30
Alignment explanation
Indices: 64834397--64834534 Score: 161
Period size: 30 Copynumber: 4.4 Consensus size: 30
64834387 TTGCATTCAC
*
64834397 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
* *
64834428 ATTCTAATTATGATTCTGTTACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACT-A-----ATTCTG
64834464 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
64834494 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
64834524 ATTCTGATTCT
1 ATTCTGATTCT
64834535 CATTTTGGTT
Statistics
Matches: 93, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
29 1 0.01
30 44 0.47
31 20 0.22
35 1 0.01
36 27 0.29
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:64838758 original size:49 final size:49
Alignment explanation
Indices: 64838686--64838917 Score: 250
Period size: 49 Copynumber: 4.7 Consensus size: 49
64838676 CTGGTGCGCA
* * *
64838686 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
* * * ** *
64838735 TAGTATCTTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCTGGTACACG
* * * * ***
64838785 TAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCTGGTACACG
64838836 TAGTAGCCTGCACTTAGTACTACACAT-TCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGT-GACCAATTATCTGGTACACG
* * *
64838885 TAGTAGTCTGCACTTATTACTACATATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
64838918 TCACAATAGA
Statistics
Matches: 148, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
49 67 0.45
50 46 0.31
51 35 0.24
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
Found at i:64838858 original size:101 final size:98
Alignment explanation
Indices: 64838686--64838908 Score: 268
Period size: 101 Copynumber: 2.2 Consensus size: 98
64838676 CTGGTGCGCA
* * * *
64838686 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTATCTTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACATATAGTAGCCTGCACTTA
64838751 GTACTACACACGT-GACCTAACCATCTGATACACG
66 GTACTACACA-GTCGACC-AACCATCTGATACACG
* * * * *
64838785 TAGTAGCCTGCATTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACATATAGTAGCCTGCACT
* ** *
64838850 TAGTACTACACATTCGACCAATTATCTGGTACACG
64 TAGTACTACACAGTCGACCAACCATCTGATACACG
* *
64838885 TAGTAGTCTGCACTTATTACTACA
1 TAGTAGCCTGCACTTAGTACTACA
64838909 TATGTGACCT
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
99 28 0.27
100 38 0.36
101 39 0.37
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (98 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACATATAGTAGCCTGCACTTA
GTACTACACAGTCGACCAACCATCTGATACACG
Found at i:64839182 original size:27 final size:27
Alignment explanation
Indices: 64839142--64839195 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64839132 AGGTACAACC
* *
64839142 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
64839169 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
64839196 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:64844656 original size:49 final size:49
Alignment explanation
Indices: 64844597--64844828 Score: 268
Period size: 49 Copynumber: 4.7 Consensus size: 49
64844587 CTAGTACGCA
* *
64844597 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * ** ** *
64844646 TAGTATCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AATTATCCGGTACACG
* * * ***
64844696 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
*
64844747 TAGTAGCCTACACTTAGTACTACACAT-TCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGT-GACCAATTATCCGGTACACG
*
64844796 TAGCAGCCTGCACTTAGTACTACACATGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
64844829 TCACAATAGA
Statistics
Matches: 150, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 69 0.46
50 47 0.31
51 34 0.23
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:64844821 original size:100 final size:99
Alignment explanation
Indices: 64844601--64844828 Score: 280
Period size: 100 Copynumber: 2.3 Consensus size: 99
64844591 TACGCATAGT
* * * *
64844601 AGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTATCCTGCACTTAGTAC
1 AGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACATATAGTAGCCTACACTTAGTAC
** *
64844666 TACACACGTGACCTAACCATTTGATACACGTAGT
66 TACACACGTGACCTAACCATCCGATACACGTAGC
* * * *
64844700 AGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGTATAGTAGCCTACACTTAGT
1 AGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACATATAGTAGCCTACACTTAGT
* ** *
64844765 ACTACACA-TTCGACC-AATTATCCGGTACACGTAGC
64 ACTACACACGT-GACCTAACCATCCGATACACGTAGC
64844800 AGCCTGCACTTAGTACTACACATGTGACC
1 AGCCTGCACTTAGTACTACACATGTGACC
64844829 TCACAATAGA
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
99 26 0.24
100 44 0.40
101 39 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
AGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACATATAGTAGCCTACACTTAGTAC
TACACACGTGACCTAACCATCCGATACACGTAGC
Found at i:64845093 original size:27 final size:27
Alignment explanation
Indices: 64845053--64845106 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
64845043 CAGGTAAACC
* *
64845053 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
64845080 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
64845107 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:64847277 original size:44 final size:43
Alignment explanation
Indices: 64847138--64847291 Score: 172
Period size: 43 Copynumber: 3.6 Consensus size: 43
64847128 TAGTACAATT
* *
64847138 CCAACGTCCCAGATGTGGTCTTACATGT-AATCAAATATTGATG
1 CCAACGTCCCAGACGTGGTCTTACATGTAAATCAAA-GTTGATG
*** *
64847181 CC-ACAGTCCCAGATAAGGTCTTACATG-AAATC-AAGTATAATG
1 CCAAC-GTCCCAGACGTGGTCTTACATGTAAATCAAAGT-TGATG
* *
64847223 CCAACGTCCCAGACGTGGTCTTACATGTAAACCATAAGTCGATG
1 CCAACGTCCCAGACGTGGTCTTACATGTAAATCA-AAGTTGATG
64847267 CCAACGTCCCAGACGTGGTCTTACA
1 CCAACGTCCCAGACGTGGTCTTACA
64847292 CGAAAACACA
Statistics
Matches: 94, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 29 0.31
43 32 0.34
44 28 0.30
45 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
CCAACGTCCCAGACGTGGTCTTACATGTAAATCAAAGTTGATG
Found at i:64861683 original size:47 final size:49
Alignment explanation
Indices: 64861614--64861885 Score: 202
Period size: 46 Copynumber: 5.8 Consensus size: 49
64861604 TGGGTAAGGT
* * *
64861614 GTCGATGCCATGTCCCCGACATGGTTTTACACTAGCTCAT-ATCTCAA-
1 GTCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCATCATCTCAAG
*
64861661 GTCGATGCCATGTTCCAGACATGGTCTTACACT-GACT-ATCATCTCGTA-
1 GTCGATGCCATGTTCCAGACATGGTCTTACACTAG-CTCATCATCTC-AAG
* * * *
64861709 GTCGATG-CATGTCCCAGACAT-GTCATACACTGGCTTA-CATCTCAAG
1 GTCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCATCATCTCAAG
* * *
64861755 GCCGATG-CATG-TCTCAGACAT-GTCTTACACTAGCTC-TCGTCTCAAT
1 GTCGATGCCATGTTC-CAGACATGGTCTTACACTAGCTCATCATCTCAAG
* * * * *
64861801 GCCGATGCAATG-TCCTAGACATGGTCTTACACTGGCTC-TCATAAT-ATG
1 GTCGATGCCATGTTCC-AGACATGGTCTTACACTAGCTCATCAT-CTCAAG
* *
64861849 G-CTGATG-CATGTCCCAGACAT-GTCTTACAGTAGCTCA
1 GTC-GATGCCATGTTCCAGACATGGTCTTACACTAGCTCA
64861886 CAAACAAATG
Statistics
Matches: 186, Mismatches: 24, Indels: 30
0.77 0.10 0.12
Matches are distributed among these distances:
45 2 0.01
46 77 0.41
47 73 0.39
48 33 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCATCATCTCAAG
Found at i:64861761 original size:46 final size:46
Alignment explanation
Indices: 64861616--64861877 Score: 214
Period size: 47 Copynumber: 5.6 Consensus size: 46
64861606 GGTAAGGTGT
* * * * * *
64861616 CGATGCCATGTCCCCGACATGGTTTTACACTAGCTCATATCTCAAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGC
* * * *
64861663 CGATGCCATGTTCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGT
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTC-AAGC
*
64861711 CGATGCATGTCCCAGACAT-GTCATACACTGGCTTACATCTCAAGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAA-GC
* * *
64861757 CGATGCATGTCTCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGC
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCAA-GC
* * *
64861803 CGATGCAATGTCCTAGACATGGTCTTACACTGGCTCT-CATAAT-ATGGC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCA-AGC
*
64861851 TGATGCATGTCCCAGACAT-GTCTTACA
1 CGATGCATGTCCCAGACATGGTCTTACA
64861878 GTAGCTCACA
Statistics
Matches: 180, Mismatches: 26, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
45 1 0.01
46 72 0.40
47 73 0.41
48 33 0.18
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCAAGC
Found at i:64861867 original size:94 final size:92
Alignment explanation
Indices: 64861663--64861884 Score: 236
Period size: 94 Copynumber: 2.4 Consensus size: 92
64861653 TATCTCAAGT
* * * * *
64861663 CGATGCCATGTTCCAGACATGGTCTTACACT-GACTATCATCTC-GTAGTCGATGCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCGTCTCAAT-GCCGATGCATGTCCCAG
*
64861726 ACATGTCATACACTGGCTTACATCTCAAGGC
62 ACATGTCATACACTGGCTTACATATCAAGGC
* *
64861757 CGATGCATGTCTCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCAATGTCCTAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGC-ATGTCCCAGACA
* *
64861822 TGGTCTTACACTGGCTCT-CATAAT-ATGGC
65 T-GTCATACACTGGCT-TACAT-ATCAAGGC
* *
64861851 TGATGCATGTCCCAGACATGTCTTACAGTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
64861885 ACAAACAAAT
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
92 25 0.23
93 26 0.24
94 56 0.51
95 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCCGATGCATGTCCCAGACAT
GTCATACACTGGCTTACATATCAAGGC
Found at i:64875621 original size:25 final size:25
Alignment explanation
Indices: 64875587--64875643 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
64875577 TCATGTACAT
*
64875587 GTATGCTCACACAAGCTGTGAATCG
1 GTATGCTCACACAAGCTATGAATCG
* *
64875612 GTATGCTCACACGAGCTATGAATTG
1 GTATGCTCACACAAGCTATGAATCG
64875637 GTATGCT
1 GTATGCT
64875644 TACAAGAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (25 bp):
GTATGCTCACACAAGCTATGAATCG
Found at i:64875652 original size:25 final size:25
Alignment explanation
Indices: 64875587--64875653 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
64875577 TCATGTACAT
*
64875587 GTATGCTCACACA-AGCTGTGAATCG
1 GTATGCTCACA-AGAGCTATGAATCG
* *
64875612 GTATGCTCACACGAGCTATGAATTG
1 GTATGCTCACAAGAGCTATGAATCG
*
64875637 GTATGCTTACAAGAGCT
1 GTATGCTCACAAGAGCT
64875654 GTAAAATTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (25 bp):
GTATGCTCACAAGAGCTATGAATCG
Found at i:64886023 original size:264 final size:264
Alignment explanation
Indices: 64885544--64886069 Score: 926
Period size: 264 Copynumber: 2.0 Consensus size: 264
64885534 TAACTCAGTG
* * *
64885544 AACATACCGATTATTAAGATAATAGAACTTTATTCATACAAAAGTTTACCATACTTAACAAAATT
1 AACATAACAATTATTAAGAAAATAGAACTTTATTCATACAAAAGTTTACCATACTTAACAAAATT
* * *
64885609 TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAGTTAATTCTAAGAGGAAATA
66 TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAATTAATCCTAAGAGCAAATA
* *
64885674 GTTTTAATTTTCGATCTCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAAGATAC
131 ATTTTAATTTTCGATCCCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAAGATAC
* *
64885739 TATACACCAAGTAGGATTCTAGAAAAGGGGAGGTGAGTCAATTTGAGTGCTTCAGTACCAAACTC
196 TATACACCAAGTAGGATTCTAAAAAAGGGGAGGTGAGTCAATTTGAGTGCTTAAGTACCAAACTC
64885804 TCTT
261 TCTT
* *
64885808 AACATAACAATTATTAAGAAAATAGAACTTTATTCATACTAAAGTTTAGCATACTTAACAAAATT
1 AACATAACAATTATTAAGAAAATAGAACTTTATTCATACAAAAGTTTACCATACTTAACAAAATT
64885873 TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAATTAATCCTAAGAGCAAATA
66 TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAATTAATCCTAAGAGCAAATA
*
64885938 ATTTTAATTTTCGATCCCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAAGATAT
131 ATTTTAATTTTCGATCCCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAAGATAC
*
64886003 TATACACCAAGTAGGATTCTAAAAAAGGGGAGGTGAGTCAATTTGAGTGCTTAAGTACCAAGCTC
196 TATACACCAAGTAGGATTCTAAAAAAGGGGAGGTGAGTCAATTTGAGTGCTTAAGTACCAAACTC
64886068 TC
261 TC
64886070 CTTAGATCCA
Statistics
Matches: 248, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
264 248 1.00
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (264 bp):
AACATAACAATTATTAAGAAAATAGAACTTTATTCATACAAAAGTTTACCATACTTAACAAAATT
TCAAATTTTTGAACAAAATATAACCTAACCATAATTAAAAGAAAAATTAATCCTAAGAGCAAATA
ATTTTAATTTTCGATCCCCCTACTTAAGATAAACAATGTCCTCATTGTTAGAAGTGAAAAGATAC
TATACACCAAGTAGGATTCTAAAAAAGGGGAGGTGAGTCAATTTGAGTGCTTAAGTACCAAACTC
TCTT
Found at i:64887523 original size:24 final size:26
Alignment explanation
Indices: 64887496--64887551 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
64887486 AATATTTTTC
* *
64887496 TAAAATATT-AATAATTTAAT-AAAT
1 TAAAATATTAAAGAATTAAATAAAAT
64887520 TAAAGA-ATTAAAGAATTAAATAAAAT
1 TAAA-ATATTAAAGAATTAAATAAAAT
64887546 TAAAAT
1 TAAAAT
64887552 TTAGGAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
24 7 0.27
25 11 0.42
26 8 0.31
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (26 bp):
TAAAATATTAAAGAATTAAATAAAAT
Found at i:64889354 original size:40 final size:40
Alignment explanation
Indices: 64889299--64889490 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 40
64889289 CGGATGATAA
64889299 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
*
64889339 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAGTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
64889379 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACCAAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAATT
* * *
64889420 -TGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
* * *
64889459 CTGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
64889491 AGCTATATCC
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 2 0.01
39 1 0.01
40 130 0.95
41 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:64891527 original size:16 final size:15
Alignment explanation
Indices: 64891502--64891535 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
64891492 AAGGCTAAAA
*
64891502 ATAATTAATATACATT
1 ATAATAAATATA-ATT
64891518 ATAATAAATATAATT
1 ATAATAAATATAATT
64891533 ATA
1 ATA
64891536 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:64891657 original size:29 final size:29
Alignment explanation
Indices: 64891603--64891658 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
64891593 GTCTTTAAAG
* *
64891603 ATATTTACAAAAAGAGACAACTAATTTCA
1 ATATTTACAAAAAGAGAAAACAAATTTCA
*
64891632 ATATTTACAGAAAGA-AAAACCAAATTT
1 ATATTTACAAAAAGAGAAAA-CAAATTT
64891659 TACAAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.13
29 20 0.87
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (29 bp):
ATATTTACAAAAAGAGAAAACAAATTTCA
Found at i:64894022 original size:29 final size:29
Alignment explanation
Indices: 64893955--64894079 Score: 153
Period size: 29 Copynumber: 4.3 Consensus size: 29
64893945 AAGTCTACAT
* * * *
64893955 ACATGCATATGGCTCACTAGGCAC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
64893983 ACATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
64894012 ATATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
** * *
64894041 ACATTCATACAGCCCATTAGGCGCACATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
64894070 ACATTCATAT
1 ACATTCATAT
64894080 ACATGCTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
28 20 0.24
29 63 0.76
ACGTcount: A:0.31, C:0.30, G:0.14, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:64898011 original size:30 final size:30
Alignment explanation
Indices: 64897970--64898027 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
64897960 CTGGGCATTT
* * *
64897970 CCACATGGGCTGGGCACACACCTGTGTGAG
1 CCACATAGGCTGGCCACACACCTATGTGAG
*
64898000 CCACATAGGCTGGCCACACGCCTATGTG
1 CCACATAGGCTGGCCACACACCTATGTG
64898028 CCAGCATGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (30 bp):
CCACATAGGCTGGCCACACACCTATGTGAG
Found at i:64902573 original size:21 final size:22
Alignment explanation
Indices: 64902549--64902589 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
64902539 GCATTTTATT
*
64902549 TTTGT-TTTTATTTTTTTCTAA
1 TTTGTCTTTTATTTTCTTCTAA
64902570 TTTGTCTTTTATTTTCTTCT
1 TTTGTCTTTTATTTTCTTCT
64902590 GGCAGGTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTGTCTTTTATTTTCTTCTAA
Found at i:64906291 original size:16 final size:15
Alignment explanation
Indices: 64906270--64906303 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
64906260 CTTTTTAATT
64906270 TTTATTTATTTCCTTA
1 TTTATTTATTT-CTTA
64906286 TTTATTTATTTCTTA
1 TTTATTTATTTCTTA
64906301 TTT
1 TTT
64906304 CTTAAGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATTTATTTCTTA
Found at i:64917206 original size:15 final size:14
Alignment explanation
Indices: 64917173--64917211 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
64917163 ATTGTTCTCA
64917173 AAAAATAAATTGATC
1 AAAAA-AAATTGATC
*
64917188 AAAAAAAATTGATG
1 AAAAAAAATTGATC
*
64917202 GAAAAAAATT
1 AAAAAAAATT
64917212 CATATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.23
Consensus pattern (14 bp):
AAAAAAAATTGATC
Found at i:64925289 original size:79 final size:81
Alignment explanation
Indices: 64925186--64925370 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
64925176 GCTCCTCGTT
* *
64925186 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
64925249 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
64925266 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
64925330 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
64925346 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64925371 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:64925370 original size:40 final size:40
Alignment explanation
Indices: 64925186--64925370 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
64925176 GCTCCTCGTT
* *
64925186 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
64925226 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
64925266 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
64925305 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
64925346 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64925371 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:64943273 original size:79 final size:81
Alignment explanation
Indices: 64943173--64943357 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
64943163 GCTCCTAGTT
* *
64943173 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
64943236 GAATTTAGTAACTT-GCA
64 GAATATAGTAACTTAGCA
* ** * *
64943253 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
* *
64943317 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
64943333 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64943358 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTAACTTAGCA
Found at i:64943294 original size:39 final size:40
Alignment explanation
Indices: 64943173--64943357 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
64943163 GCTCCTAGTT
* *
64943173 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
64943213 CAAATGCCTTCGGGACTTAACCC-GAATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAA-TTAGTAACTCGCA
*
64943253 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * * *
64943292 CAAATGCCTTC-GGATCTTAGTCTGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
64943333 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
64943358 CATCATTCAA
Statistics
Matches: 121, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 75 0.62
41 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:64951243 original size:46 final size:46
Alignment explanation
Indices: 64951193--64951365 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
64951183 TGGTTGAGCA
*
64951193 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
64951239 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
64951286 TCCGAACTCGCTGAGTTGGGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* **
64951332 CCCGTGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
64951366 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:64951349 original size:93 final size:93
Alignment explanation
Indices: 64951190--64951360 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
64951180 GGATGGTTGA
* * *
64951190 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
64951255 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
64951283 GCATCCGAACTCGCTGAGTTGGGTCCGAGTTCATTTATGGATGCGAACGCCCGTGCTCGTTGAGT
1 GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
64951348 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
64951361 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGCTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64968573 original size:39 final size:40
Alignment explanation
Indices: 64968480--64968702 Score: 267
Period size: 40 Copynumber: 5.6 Consensus size: 40
64968470 CGGATGATAA
* * *
64968480 CCGGGCTAAGTCCC-AAGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGCT-ACTATA-T
*
64968520 CCGGGCTAAGTCCCGAAGGCATTCGT-CAAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
* * *
64968559 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
* * *
64968599 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
* *
64968638 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
*
64968678 CCAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
64968703 AACTAGTGGC
Statistics
Matches: 165, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 68 0.41
40 94 0.57
41 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGCTACTATAT
Found at i:64968701 original size:79 final size:78
Alignment explanation
Indices: 64968479--64968702 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
64968469 TCGGATGATA
* * **
64968479 ACCGGGCTAAGTCCC-AAGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCAT
*
64968542 TCGTCAAGCTACTAT
64 TTGTCAAGCTACTAT
* * * *
64968557 ATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATATCCGGGCTAAGTCCCGAAGGCATT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATT
* * *
64968622 TGTGCGAGTTATTAT
65 TGT-CAAGCTACTAT
* *
64968637 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCAGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
64968702 G
66 G
64968703 AACTAGTGGC
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
78 1 0.01
79 111 0.89
80 13 0.10
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (78 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
GTCAAGCTACTAT
Found at i:64968724 original size:79 final size:78
Alignment explanation
Indices: 64968523--64968725 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 78
64968513 GCTAATTCCG
* * * *
64968523 GGCTAAGTCCCGAAGGCATTCGTCAAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCG
1 GGCTAAGTCCCGAAGGCATTTGACAAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCA
* * *
64968588 AGCTATTATATCCG
65 AGCTACTATAACCA
* * *
64968602 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTG-ACAAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
64968666 AAGTTACTATAACCA
64 AAGCTACTATAACCA
* *
64968681 GGCTAAGTCCCGAAGGCATTTGAACTAGTGGCTATATCC-GGCTAA
1 GGCTAAGTCCCGAAGGCATTTG-ACAAGT-ACTATATCCGGGCTAA
64968726 ACTCCGACGG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 93 0.89
80 11 0.10
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (78 bp):
GGCTAAGTCCCGAAGGCATTTGACAAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAA
GCTACTATAACCA
Found at i:64980361 original size:11 final size:11
Alignment explanation
Indices: 64980345--64980373 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
64980335 CAGAAAAATT
64980345 TATTTTTCTTA
1 TATTTTTCTTA
64980356 TATTTTTCTTA
1 TATTTTTCTTA
64980367 TATTTTT
1 TATTTTT
64980374 TTGGTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TATTTTTCTTA
Found at i:64988252 original size:96 final size:98
Alignment explanation
Indices: 64988088--64988366 Score: 252
Period size: 96 Copynumber: 2.9 Consensus size: 98
64988078 GTTTATGTGT
* * * * **
64988088 GAGCCAGTGTAAGACTG-TGTTTGGAACATGACA-TCGACATTGTTTTCAGAGCTAGTGTAAGAC
1 GAGCCAGTGTAAGA-TGATGTTTGGAACATGGCATTAGACATTGTTATCAGAGCCAAAGTAAGAC
*
64988151 CATGTCTAGG-ACATGGCATCGGC-CTCAA-TATGC
65 CATGTCT-GGAACATGGCATCGGCAC-CAAGTATGA
** *
64988184 GAGCCAGTGTAAGATGATGTTTGGAACATGGCATTAG-CATTGTTATGTGAGCCAAAGTAAGATC
1 GAGCCAGTGTAAGATGATGTTTGGAACATGGCATTAGACATTGTTATCAGAGCCAAAGTAAGACC
64988248 ATGTCTGGAACATGGCATCGGCACCAATGTATGA
66 ATGTCTGGAACATGGCATCGGCACCAA-GTATGA
* * * * * * ** *
64988282 GAGCCAATGTAAGA-GCATGTCTGGGACATGGCATTGGCACCAATG-TATGAGAGCCAGTGTAAA
1 GAGCCAGTGTAAGATG-ATGTTTGGAACATGGCATTAG-A-CATTGTTATCAGAGCCAAAGTAAG
64988345 ACCATGTCTGTG-ACATGGCATC
63 ACCATGTCTG-GAACATGGCATC
64988367 AGCATTTTAC
Statistics
Matches: 152, Mismatches: 20, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
95 4 0.03
96 71 0.47
97 4 0.03
98 35 0.23
100 33 0.22
101 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (98 bp):
GAGCCAGTGTAAGATGATGTTTGGAACATGGCATTAGACATTGTTATCAGAGCCAAAGTAAGACC
ATGTCTGGAACATGGCATCGGCACCAAGTATGA
Found at i:64988295 original size:50 final size:49
Alignment explanation
Indices: 64988143--64988366 Score: 208
Period size: 50 Copynumber: 4.6 Consensus size: 49
64988133 TCAGAGCTAG
* *
64988143 TGTAAGACCATGTCTAGGACATGGCATCGGC-CTCAA--TATGCGAGCCAG
1 TGTAAGACCATGTCT-GGACATGGCATCGGCAC-CAATGTATGAGAGCCAA
** * * * * *
64988191 TGTAAGATGATGTTTGGAACATGGCAT---TAGCATTGTTATGTGAGCCAA
1 TGTAAGACCATGTCTGG-ACATGGCATCGGCACCAATG-TATGAGAGCCAA
* *
64988239 AGTAAGATCATGTCTGGAACATGGCATCGGCACCAATGTATGAGAGCCAA
1 TGTAAGACCATGTCTGG-ACATGGCATCGGCACCAATGTATGAGAGCCAA
* * *
64988289 TGTAAGAGCATGTCTGGGACATGGCATTGGCACCAATGTATGAGAGCCAG
1 TGTAAGACCATGTCT-GGACATGGCATCGGCACCAATGTATGAGAGCCAA
*
64988339 TGTAAAACCATGTCTGTGACATGGCATC
1 TGTAAGACCATGTCTG-GACATGGCATC
64988367 AGCATTTTAC
Statistics
Matches: 144, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
47 2 0.01
48 55 0.38
49 1 0.01
50 77 0.53
51 7 0.05
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
TGTAAGACCATGTCTGGACATGGCATCGGCACCAATGTATGAGAGCCAA
Found at i:64994682 original size:50 final size:49
Alignment explanation
Indices: 64994476--64994753 Score: 253
Period size: 48 Copynumber: 5.7 Consensus size: 49
64994466 GGTTATGTGT
* *
64994476 GAGCCAGTGTAAGACCATG-CTTGGAGCATGGCATCGGCACTG-TTATGG
1 GAGCCAGTGTAAGACCATGTCTAGGA-CATGGCATCGGCACTGATTATGA
* * * * * * * *
64994524 GAGCTAATATAAGACCATGTCTGGGACATGGCATCGAC-CTCAATATGC
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGATTATGA
* * * * * * *
64994572 GAGCCAATGTAAGACAATGT-TTGGAACATAGCATCAGCATTG-TTATGT
1 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCACTGATTATGA
**
64994620 GAGCCAGTGTAAGACCATGTCTAGGACATAACATCGGCACTGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGAT-TATGA
* * **
64994670 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATTGGCACCAATATATGA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGAT-TATGA
*
64994720 GAGCCAGTGTAAGACCATG-CTCAAGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCT-AGGACATGGCAT
64994754 GTAACAGCCT
Statistics
Matches: 187, Mismatches: 35, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
47 5 0.03
48 94 0.50
49 12 0.06
50 76 0.41
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACTGATTATGA
Found at i:64996907 original size:18 final size:18
Alignment explanation
Indices: 64996884--64996986 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
64996874 CAGCTCTGAT
64996884 GAGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
* *
64996902 GAGCTTCTGTTTAGCACTTGT
1 GAGCTTCAG-TTAGC-CTT-C
*
64996923 GTGCTAT-AGTTAGCCTTC
1 GAGCT-TCAGTTAGCCTTC
* * *
64996941 GGGCTTCCGTTTAGCACTTGT
1 GAGCTTCAG-TTAGC-CTT-C
*
64996962 GTGCTTCAGTTAGCCTTC
1 GAGCTTCAGTTAGCCTTC
*
64996980 GGGCTTC
1 GAGCTTC
64996987 TGTTTAGCAC
Statistics
Matches: 65, Mismatches: 12, Indels: 16
0.70 0.13 0.17
Matches are distributed among these distances:
17 1 0.02
18 19 0.29
19 16 0.25
20 16 0.25
21 12 0.18
22 1 0.02
ACGTcount: A:0.13, C:0.24, G:0.25, T:0.38
Consensus pattern (18 bp):
GAGCTTCAGTTAGCCTTC
Found at i:64996947 original size:39 final size:39
Alignment explanation
Indices: 64996886--64996997 Score: 190
Period size: 39 Copynumber: 2.9 Consensus size: 39
64996876 GCTCTGATGA
*
64996886 GCTTCAGTTAGCCTTCGAGCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
*
64996925 GCTAT-AGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCT-TCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
64996964 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACT
1 GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACT
64996998 CTAGACTTCA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 66 0.97
40 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
Found at i:65002215 original size:28 final size:28
Alignment explanation
Indices: 65002175--65002283 Score: 116
Period size: 28 Copynumber: 3.9 Consensus size: 28
65002165 CATGACTGTA
65002175 AATGTGATTTGGGCCTAGT-GGCCATATG
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
* * *
65002203 AATGTGATTTGGGCCTAATGGGCCACATA
1 AATGTGA-TTGGGCCTAGTGGGCCATATG
*
65002232 AATGTGAATGGG-CT-GATGGGCCATATG
1 AATGTGATTGGGCCTAG-TGGGCCATATG
* *
65002259 AAAGAGATTGGGCCTAGTGGGCCAT
1 AATGTGATTGGGCCTAGTGGGCCAT
65002284 TTATAGGTAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
27 20 0.30
28 32 0.48
29 15 0.22
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAGTGGGCCATATG
Found at i:65002270 original size:27 final size:27
Alignment explanation
Indices: 65002194--65002283 Score: 83
Period size: 27 Copynumber: 3.2 Consensus size: 27
65002184 TGGGCCTAGT
*
65002194 GGCCATATGAATGTGATTTGGGCCTAATG
1 GGCCATATGAAAGTGA-TTGGG-CTAATG
* * *
65002223 GGCCACAT-AAATGTGAATGGGCTGATG
1 GGCCATATGAAA-GTGATTGGGCTAATG
* *
65002250 GGCCATATGAAAGAGATTGGGCCTAGTG
1 GGCCATATGAAAGTGATTGGG-CTAATG
65002278 GGCCAT
1 GGCCAT
65002284 TTATAGGTAT
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
27 19 0.39
28 19 0.39
29 11 0.22
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (27 bp):
GGCCATATGAAAGTGATTGGGCTAATG
Found at i:65004373 original size:23 final size:23
Alignment explanation
Indices: 65004343--65004393 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
65004333 TAAGTATTTA
65004343 TACATTGAAAATTCAACTAAAAG
1 TACATTGAAAATTCAACTAAAAG
65004366 TACATTGAAAATTCAACTAAAAG
1 TACATTGAAAATTCAACTAAAAG
65004389 TACAT
1 TACAT
65004394 CAAAGTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.27
Consensus pattern (23 bp):
TACATTGAAAATTCAACTAAAAG
Found at i:65009639 original size:39 final size:39
Alignment explanation
Indices: 65009560--65009765 Score: 288
Period size: 39 Copynumber: 5.3 Consensus size: 39
65009550 CAGGACTTTA
* * *
65009560 AGCCCGGATATAATACCAGCAC-AAAGCCTTAGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
65009598 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * * *
65009637 AGCCCGGGTATAACACCAGCATGAATACCTTTGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
65009676 AGCTCGGTTATAACACCAGCACGAATGCCTTTGGGACTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
* * *
65009715 AGCCCGGATATAACACTAGCACAAATGCCTTCGGGAATT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
65009754 AGCCCGGATATA
1 AGCCCGGATATA
65009766 TATCTCACAC
Statistics
Matches: 150, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 21 0.14
39 129 0.86
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGACTT
Found at i:65018174 original size:27 final size:27
Alignment explanation
Indices: 65018150--65018327 Score: 230
Period size: 27 Copynumber: 6.6 Consensus size: 27
65018140 GGGCATTATC
*
65018150 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
65018177 GTTATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
* *
65018204 GTCATTATACCCTACAGGGGTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
65018231 GTTATTTTACCCTACAAGGGTATTATG
1 GTCATTTTACCCTACAGGGGTATTACG
* * *
65018258 GTCATTTTACCCTAAAGGGTTATTACA
1 GTCATTTTACCCTACAGGGGTATTACG
*
65018285 GTCATTTTACACTACAGGGGTATTACG
1 GTCATTTTACCCTACAGGGGTATTACG
*
65018312 GTCATTTTATCCTACA
1 GTCATTTTACCCTACA
65018328 AGATTATTAC
Statistics
Matches: 125, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTACG
Found at i:65018384 original size:27 final size:27
Alignment explanation
Indices: 65018354--65018810 Score: 320
Period size: 27 Copynumber: 17.0 Consensus size: 27
65018344 TTTGCAAACC
* * *
65018354 GGGGGTATTTCAACAATCTTATAAATA
1 GGGGGTATTTCGATAATCTTACAAATA
* * * *
65018381 GGGGGTATTTCGGTAATTTTACCAATT
1 GGGGGTATTTCGATAATCTTACAAATA
*
65018408 GGGGGTATTTCGATAATCTTACAAATC
1 GGGGGTATTTCGATAATCTTACAAATA
*
65018435 GGGGGTATTTCGATAATCTTACAAATC
1 GGGGGTATTTCGATAATCTTACAAATA
* * *
65018462 GGGGTTATTTCGATAATTTTACAAACA
1 GGGGGTATTTCGATAATCTTACAAATA
* *
65018489 GGGGGTATGTCGATAATCTTAGAAACT-
1 GGGGGTATTTCGATAATCTTACAAA-TA
* * *
65018516 GGGGGTATTT-TAGTAATTTTACAAACCA
1 GGGGGTATTTCGA-TAATCTTACAAA-TA
** * *
65018544 -AAGGTATTTCGTTAATTTTACAAACTA
1 GGGGGTATTTCGATAATCTTACAAA-TA
* * * * **
65018571 -AGGGTATTTCGAAAATTTTATAAACC
1 GGGGGTATTTCGATAATCTTACAAATA
* * **
65018597 GGGGGTATTTCAAAAATCTTACAGACCA
1 GGGGGTATTTCGATAATCTTACA-AATA
* * **
65018625 -GGGGTATTTCAATAATGTTACAAACC
1 GGGGGTATTTCGATAATCTTACAAATA
* * **
65018651 GGGGGTATTTCAATAATGTTACAAACC
1 GGGGGTATTTCGATAATCTTACAAATA
* *
65018678 GGGGGTATTTCGATAATGTTACAAATC
1 GGGGGTATTTCGATAATCTTACAAATA
* *
65018705 GGGGGTATTTCGATAATTTTACGAACTA
1 GGGGGTATTTCGATAATCTTAC-AAATA
*
65018733 -GGGGTATTTCGATAATTTTACAAAT-
1 GGGGGTATTTCGATAATCTTACAAATA
* * * * *
65018758 CGAGGTATTACGGTAATCTTTCAAACT-
1 GGGGGTATTTCGATAATCTTACAAA-TA
* *
65018785 CGGGGTATTTC-AGTAATTTTACAAAT
1 GGGGGTATTTCGA-TAATCTTACAAAT
65018811 TGAGGTCTTA
Statistics
Matches: 357, Mismatches: 62, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
26 26 0.07
27 326 0.91
28 5 0.01
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
GGGGGTATTTCGATAATCTTACAAATA
Found at i:65018443 original size:81 final size:81
Alignment explanation
Indices: 65018348--65018809 Score: 439
Period size: 81 Copynumber: 5.7 Consensus size: 81
65018338 GACCATTTTG
* * * * *
65018348 CAAACCGGGGGTATTTCAACAATCTTATAAATAGGGGGTATTTCGGTAATTTTACCAATTGGGGG
1 CAAACCGGGGGTATTTCAATAATCTTACAAATAGGGGGTATTTCGATAATTTTACAAACTGGGGG
65018413 TATTTCGATAATCTTA
66 TATTTCGATAATCTTA
* * * * *
65018429 CAAATCGGGGGTATTTCGATAATCTTACAAATCGGGGTTATTTCGATAATTTTACAAACAGGGGG
1 CAAACCGGGGGTATTTCAATAATCTTACAAATAGGGGGTATTTCGATAATTTTACAAACTGGGGG
*
65018494 TATGTCGATAATCTTA
66 TATTTCGATAATCTTA
* * * * * * ** * **
65018510 GAAACTGGGGGTATTTTAGTAATTTTACAAACCA-AAGGTATTTCGTTAATTTTACAAACTAAGG
1 CAAACCGGGGGTATTTCAATAATCTTACAAA-TAGGGGGTATTTCGATAATTTTACAAACTGGGG
* *
65018574 GTATTTCGAAAATTTTA
65 GTATTTCGATAATCTTA
* * ** * * *
65018591 TAAACCGGGGGTATTTCAAAAATCTTACAGACCA-GGGGTATTTCAATAATGTTACAAACCGGGG
1 CAAACCGGGGGTATTTCAATAATCTTACA-AATAGGGGGTATTTCGATAATTTTACAAACTGGGG
* *
65018655 GTATTTCAATAATGTTA
65 GTATTTCGATAATCTTA
* * * * *
65018672 CAAACCGGGGGTATTTCGATAATGTTACAAATCGGGGGTATTTCGATAATTTTACGAACTAGGGG
1 CAAACCGGGGGTATTTCAATAATCTTACAAATAGGGGGTATTTCGATAATTTTACAAACTGGGGG
*
65018737 TATTTCGATAATTTTA
66 TATTTCGATAATCTTA
* * * ** * *
65018753 CAAATC-GAGGTATTACGGTAATCTTTCAAACT-CGGGGTATTTC-AGTAATTTTACAAA
1 CAAACCGGGGGTATTTCAATAATCTTACAAA-TAGGGGGTATTTCGA-TAATTTTACAAA
65018810 TTGAGGTCTT
Statistics
Matches: 306, Mismatches: 70, Indels: 11
0.79 0.18 0.03
Matches are distributed among these distances:
79 1 0.00
80 41 0.13
81 263 0.86
82 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (81 bp):
CAAACCGGGGGTATTTCAATAATCTTACAAATAGGGGGTATTTCGATAATTTTACAAACTGGGGG
TATTTCGATAATCTTA
Found at i:65023958 original size:88 final size:88
Alignment explanation
Indices: 65023857--65024043 Score: 338
Period size: 88 Copynumber: 2.1 Consensus size: 88
65023847 ATATGTGGGA
* * *
65023857 AGCTCACAAAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCCTTTTCTTTTACATTGATG
1 AGCTCACACAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCATTTTCTTTTACATCGATG
65023922 CTCACTCGAGCTACAAATGGGTC
66 CTCACTCGAGCTACAAATGGGTC
65023945 AGCTCACACAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCATTTTCTTTTACATCGATG
1 AGCTCACACAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCATTTTCTTTTACATCGATG
65024010 CTCACTCGAGCTACAAATGGGTC
66 CTCACTCGAGCTACAAATGGGTC
*
65024033 AGCTTACACAA
1 AGCTCACACAA
65024044 GTTGACGGTC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
88 95 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (88 bp):
AGCTCACACAAAGTGTGCTAACATGTGGTCGAAACCATTCCTTTTCATTTTCTTTTACATCGATG
CTCACTCGAGCTACAAATGGGTC
Found at i:65024493 original size:16 final size:17
Alignment explanation
Indices: 65024460--65024493 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
65024450 CAATTCAATC
65024460 CAAAATTCATACTTTTG
1 CAAAATTCATACTTTTG
*
65024477 CAAAATT-ATAGTTTTG
1 CAAAATTCATACTTTTG
65024493 C
1 C
65024494 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (17 bp):
CAAAATTCATACTTTTG
Found at i:65032964 original size:17 final size:18
Alignment explanation
Indices: 65032944--65032979 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
65032934 TAATCTTGTT
65032944 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
65032961 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
65032979 T
1 T
65032980 ATAGTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:65037262 original size:49 final size:49
Alignment explanation
Indices: 65037190--65037361 Score: 195
Period size: 49 Copynumber: 3.4 Consensus size: 49
65037180 TGCGGTCACG
65037190 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-ATTTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTGGTT-CA
* * * * * *
65037239 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTGGTTCA
* ** *
65037288 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGG-TCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTGGTTCA
65037338 CGTGTGTAGTACTAAGTGCAGGCT
1 --TGTGTAGTACTAAGTGCAGGCT
65037362 TCTATGCGTA
Statistics
Matches: 105, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
49 37 0.35
50 32 0.30
51 36 0.34
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTTGGTTCA
Found at i:65039674 original size:27 final size:27
Alignment explanation
Indices: 65039644--65039821 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
65039634 ATATTGAGTC
* *
65039644 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
65039671 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
65039698 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
65039726 CGCACACTTAGTGCCGCATGGTCATTT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
65039753 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
65039780 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
65039807 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65039822 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:65043437 original size:19 final size:19
Alignment explanation
Indices: 65043409--65043452 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
65043399 CTCATTCACA
*
65043409 TCTCTTCTCTTACAATTCT
1 TCTCTCCTCTTACAATTCT
* * *
65043428 TCTCTCCTCTTTCATTTTT
1 TCTCTCCTCTTACAATTCT
65043447 TCTCTC
1 TCTCTC
65043453 ATTTTCCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.57
Consensus pattern (19 bp):
TCTCTCCTCTTACAATTCT
Found at i:65046695 original size:5 final size:5
Alignment explanation
Indices: 65046685--65046711 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
65046675 TTTTTTAATA
65046685 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
65046712 CCCCAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:65047940 original size:29 final size:30
Alignment explanation
Indices: 65047893--65047960 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
65047883 TGGCCCAAGA
* *
65047893 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
65047923 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
65047953 GCAAATAT
1 GTAAATAT
65047961 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:65050406 original size:46 final size:46
Alignment explanation
Indices: 65050354--65050673 Score: 507
Period size: 46 Copynumber: 7.0 Consensus size: 46
65050344 AGTGTGCTCT
*
65050354 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
65050400 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
65050446 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATGCCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
65050492 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCAAGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
65050538 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
65050584 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
65050630 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
65050674 TCATGTCAAA
Statistics
Matches: 259, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
45 1 0.00
46 258 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:65052131 original size:29 final size:29
Alignment explanation
Indices: 65052012--65052128 Score: 153
Period size: 29 Copynumber: 4.0 Consensus size: 29
65052002 TGGCCCATCT
*
65052012 CATTCATATGGCCCATTAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* *
65052041 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* * *
65052070 TATTCATATTGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
* * *
65052099 CCTTTATATGGCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATTAGGCCCAAATCA
65052128 C
1 C
65052129 CTTATATTCA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATTAGGCCCAAATCA
Found at i:65052372 original size:16 final size:16
Alignment explanation
Indices: 65052347--65052393 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
65052337 GCAGCCAAAC
* *
65052347 TTTTGGCTTTTTGGCA
1 TTTTGACTTTTCGGCA
65052363 TTTTGACTTTTCGGCA
1 TTTTGACTTTTCGGCA
65052379 TTTT-AGCTTTTCGGC
1 TTTTGA-CTTTTCGGC
65052394 TTCTTCCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 1 0.04
16 27 0.96
ACGTcount: A:0.09, C:0.17, G:0.21, T:0.53
Consensus pattern (16 bp):
TTTTGACTTTTCGGCA
Found at i:65055333 original size:17 final size:18
Alignment explanation
Indices: 65055311--65055344 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
65055301 TACATTGAAG
65055311 TGTTTT-AATGAAAACCA
1 TGTTTTCAATGAAAACCA
*
65055328 TGTTTTCATTGAAAACC
1 TGTTTTCAATGAAAACC
65055345 CTTCTTAAAC
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:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (18 bp):
TGTTTTCAATGAAAACCA
Found at i:65056468 original size:29 final size:29
Alignment explanation
Indices: 65056401--65056517 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
65056391 TGGCCCATCT
* *
65056401 CATTCATATAGCCCATCAGGCTCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
65056430 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * * *
65056459 TATTCATATGGGCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * * * *
65056488 CCTTTATATGTCCCGTTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
65056517 C
1 C
65056518 CTTATATTCA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:65057917 original size:31 final size:31
Alignment explanation
Indices: 65057879--65057947 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
65057869 GGCCAAGTTG
* *
65057879 GGCGTGTGGACCCACACGGGCAGTCCATACA
1 GGCGTGTGGACCCACACGAGCAGTCCACACA
* *
65057910 GGCGTGTGGGCCCACACGAGCAGTCCACACG
1 GGCGTGTGGACCCACACGAGCAGTCCACACA
65057941 GGCGTGT
1 GGCGTGT
65057948 TGGTATTTGG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.19, C:0.32, G:0.36, T:0.13
Consensus pattern (31 bp):
GGCGTGTGGACCCACACGAGCAGTCCACACA
Found at i:65060738 original size:73 final size:73
Alignment explanation
Indices: 65060653--65060803 Score: 239
Period size: 73 Copynumber: 2.1 Consensus size: 73
65060643 ATATAAAGAT
** * * *
65060653 AATAATTAGTGAATATTTATTATTTTTCTGTTCAAATATGTCTCTTACTCCTCTTATTAGCATTC
1 AATAATTAGTGAATATTTATTATTTTTCAATTCAAATATGCCTCCTACTCATCTTATTAGCATTC
65060718 TTACTGAG
66 TTACTGAG
* *
65060726 AATAATTAGTGAATCTTTATTGTTTTTCAATTCAAATATGCCTCCTACTCATCTTATTAGCATTC
1 AATAATTAGTGAATATTTATTATTTTTCAATTCAAATATGCCTCCTACTCATCTTATTAGCATTC
65060791 TTACTGAG
66 TTACTGAG
65060799 AATAA
1 AATAA
65060804 ATTTAACGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (73 bp):
AATAATTAGTGAATATTTATTATTTTTCAATTCAAATATGCCTCCTACTCATCTTATTAGCATTC
TTACTGAG
Found at i:65062285 original size:36 final size:36
Alignment explanation
Indices: 65062238--65062311 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
65062228 TTAAGATTAT
*
65062238 TACGTGACTTTCATCGATGATTATTCTTGATAATAA
1 TACGTGACTTTCATCAATGATTATTCTTGATAATAA
*
65062274 TACGTGACTTTCATCAATGATTATTCTTGATAGTAA
1 TACGTGACTTTCATCAATGATTATTCTTGATAATAA
65062310 TA
1 TA
65062312 TGTTTATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (36 bp):
TACGTGACTTTCATCAATGATTATTCTTGATAATAA
Found at i:65087894 original size:11 final size:11
Alignment explanation
Indices: 65087878--65087914 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
65087868 CCTAAGGATG
*
65087878 AAATAAAATTA
1 AAATAAAATAA
*
65087889 AAATAAAAGAA
1 AAATAAAATAA
65087900 AAATAAAATAA
1 AAATAAAATAA
65087911 AAAT
1 AAAT
65087915 TAGTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:65087906 original size:16 final size:16
Alignment explanation
Indices: 65087882--65087912 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65087872 AGGATGAAAT
*
65087882 AAAATTAAAATAAAAG
1 AAAAATAAAATAAAAG
65087898 AAAAATAAAATAAAA
1 AAAAATAAAATAAAA
65087913 ATTAGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAATAAAATAAAAG
Found at i:65092050 original size:47 final size:47
Alignment explanation
Indices: 65091937--65092059 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 47
65091927 ATAGCTCAGC
* * *
65091937 CATGGTCTTACACGG-ATCACATATCACACTGATGCCATATCCCAAA
1 CATGGTCTTATACGGAAGCACATATCACACTGATGCAATATCCCAAA
* * * *
65091983 CATGGTCTTATGC-AATAGCACATATCACGCTGATGCAATATCCCAGA
1 CATGGTCTTATACGGA-AGCACATATCACACTGATGCAATATCCCAAA
*
65092030 TATGGTCTTATACGGAAGCACATAATCACA
1 CATGGTCTTATACGGAAGCACAT-ATCACA
65092060 TCTCTCTGAC
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
46 11 0.18
47 45 0.73
48 6 0.10
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.25
Consensus pattern (47 bp):
CATGGTCTTATACGGAAGCACATATCACACTGATGCAATATCCCAAA
Found at i:65092130 original size:54 final size:52
Alignment explanation
Indices: 65092014--65092165 Score: 171
Period size: 54 Copynumber: 2.9 Consensus size: 52
65092004 ATATCACGCT
* * * * * * * *
65092014 GATGCAATATCCCAGATATGGTCTTATACGGAAGCACATAATCACATCTCTCT
1 GATGCCATAGCCCAGCTATGGTCTTATAC-GAATCACATGATCACATCACACC
* *
65092067 GACGTCATAGCCCAGCTATGGTCTTATACGAAAATCACATGATCACATCACACC
1 GATGCCATAGCCCAGCTATGGTCTTATACG--AATCACATGATCACATCACACC
*
65092121 GATGCCATAGCCCAGCTATGGTCTTATACGGATCACATG-TCACAT
1 GATGCCATAGCCCAGCTATGGTCTTATACGAATCACATGATCACAT
65092166 GTTGTCATGA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
51 6 0.07
52 9 0.11
53 24 0.29
54 45 0.54
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGAATCACATGATCACATCACACC
Found at i:65094724 original size:72 final size:72
Alignment explanation
Indices: 65094556--65095153 Score: 476
Period size: 72 Copynumber: 8.3 Consensus size: 72
65094546 TCAATGAAAA
* * * ** * * * *
65094556 CCCAAATAGTTAACAATAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGTAAGTTCAATACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
*
65094621 ACAA-CC
66 GCAACCC
* *
65094627 CCCAAATAATTAGCGAGAGTTAAAAGC-CCCTAGTTGTTATCATTAAGGCTCGTAGGTTTAAAAC
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCC-AGTTGTCATCATTAAGGCTCGTAGGTTTAAAAC
65094691 TGCAACCC
65 TGCAACCC
* * * * *
65094699 CCCAAATAGTTAGCGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTTGTAGGTTTAAAACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
* *
65094764 GTATCCC
66 GCAACCC
** * ** *
65094771 TTCAAATAGTTAGTGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTTTAAAAC-
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
*
65094835 -CATAGCCT
66 GCA-A-CCC
* * * * * * **
65094843 CCAAAATAGTTAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAATAAAACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
** *
65094908 ATAGCCC
66 GCAACCC
* * * *
65094915 CCCAAATAGTTAACGAGAGTTAAAAGCTTCCAGTTGTCATTATTAAGGCTCGTAGGTTTACAACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
* **
65094980 GCATCAT
66 GCAACCC
* * * * * * * * *
65094987 CTCAAATAGTTAGTGAGAGTTAAAAGCTCTCAGTTGTC-TTATTAAGGCTTGCAAGTTCAATAC-
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
65095050 -CATAGCCC
66 GCA-A-CCC
* * * * ** * * * *
65095058 CCCAAACAGTTGGCAAGATTTAAAAGCTCCCAACTATCATTATTAAGACTCATAGGTTTAAAA-T
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
*
65095122 -CACAACC
66 GCA-ACCC
* * *
65095129 CCCAAATAGTCAACGATAGTTAAAA
1 CCCAAATAGTTAGCGAGAGTTAAAA
65095154 ACCCTCAGAT
Statistics
Matches: 413, Mismatches: 103, Indels: 22
0.77 0.19 0.04
Matches are distributed among these distances:
69 2 0.00
70 4 0.01
71 121 0.29
72 282 0.68
73 3 0.01
74 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (72 bp):
CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAGTTGTCATCATTAAGGCTCGTAGGTTTAAAACT
GCAACCC
Found at i:65094827 original size:144 final size:144
Alignment explanation
Indices: 65094556--65095153 Score: 557
Period size: 144 Copynumber: 4.2 Consensus size: 144
65094546 TCAATGAAAA
* * * * *
65094556 CCCAAATAGTTAACAATAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGTAAGTTCAATACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAGTTCAAAACT
* * * ** * *
65094621 ACA-ACCCCCAAATAATTAGCGAGAGTTAAAAGC-CCCTAGTTGTTATCATTAAGGCTCGTAGGT
66 ATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCC-AACTGTCATCATTAAGGCTCATAGGT
65094684 TTAAAACTGCA-ACCC
130 TTAAAACT-CACACCC
* * * * * * * *
65094699 CCCAAATAGTTAGCGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTTGTAGGTTTAAAACT
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAGTTCAAAACT
* * ** *
65094764 GTATCCCTTCAAATAGTTAGTGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTT
66 ATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTT
* *
65094829 TAAAAC-CATAGCCT
131 TAAAACTCACA-CCC
* * * *
65094843 CCAAAATAGTTAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAAT-AAAAC
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAG-TTCAAAAC
* * ** * *
65094907 TATAGCCCCCCAAATAGTTAACGAGAGTTAAAAGCTTCCAGTTGTCATTATTAAGGCTCGTAGGT
65 TATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGT
* *
65094972 TTACAACTGCATCA--T
130 TTAAAACT-CA-CACCC
* * * ** * * *
65094987 CTCAAATAGTTAGTGAGAGTTAAAAGCTCTCAGTTGTC-TTATTAAGGCTTGCAAGTTCAATACC
1 CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAGTTCAAAACT
* * * * * * *
65095051 ATAGCCCCCCAAACAGTTGGCAAGATTTAAAAGCTCCCAACTATCATTATTAAGACTCATAGGTT
66 ATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTT
*
65095116 TAAAA-TCACAACC
131 TAAAACTCACACCC
* * *
65095129 CCCAAATAGTCAACGATAGTTAAAA
1 CCCAAATAGTTAGCGAGAGTTAAAA
65095154 ACCCTCAGAT
Statistics
Matches: 369, Mismatches: 75, Indels: 23
0.79 0.16 0.05
Matches are distributed among these distances:
140 2 0.01
141 2 0.01
142 24 0.07
143 134 0.36
144 200 0.54
145 4 0.01
146 2 0.01
147 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (144 bp):
CCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGCAAGTTCAAAACT
ATAGCCCCCCAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTT
TAAAACTCACACCC
Found at i:65094941 original size:216 final size:214
Alignment explanation
Indices: 65094573--65095104 Score: 622
Period size: 216 Copynumber: 2.5 Consensus size: 214
65094563 AGTTAACAAT
* * * * *
65094573 AGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCGTAAGTTCAATACTACAACCCCCAAATAATT
1 AGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCAT-AGTTCAATACCATAGCCCCCAAATAGTT
* * * * * * ** *
65094638 AGCGAGAGTTAAAAGC-CCCTAGTTGTTATCATTAAGGCTCGTAGGTTTAAAACTGCAACCCCCC
65 AGCGAGATTTAAAAGCTCCC-AATTGTCATTATTAAGGCTCGCAAGAATAAAACTACAACCCCCC
* * *
65094702 AAATAGTTAGCGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTTGTAGGTTTAAAACTGTA
129 AAATAGTTAACGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTCGTAGGTTTAAAACTGCA
*
65094767 TC-CCTTCAAATAGTTAGTGAG
194 TCATC-TCAAATAGTTAGTGAG
* * * *
65094788 AGTTAAAAGCTCCCAACTGTCATCATTAAGGCTCATAGGTTTAAAACCATAGCCTCCAAAATAGT
1 AGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCATA-GTTCAATACCATAGCC-CCCAAATAGT
* *
65094853 TAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAATAAAACTATAGCCCCCC
64 TAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAATAAAACTACAACCCCCC
* * * * * *
65094918 AAATAGTTAACGAGAGTTAAAAGCTTCCAGTTGTCATTATTAAGGCTCGTAGGTTTACAACTGCA
129 AAATAGTTAACGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTCGTAGGTTTAAAACTGCA
65094983 TCATCTCAAATAGTTAGTGAG
194 TCATCTCAAATAGTTAGTGAG
* ** *
65095004 AGTTAAAAGCTCTCAGTTGTC-TTATTAAGGCTTGCA-AGTTCAATACCATAGCCCCCCAAACAG
1 AGTTAAAAGCTCCCAACTGTCATTATTAAGGC-T-CATAGTTCAATACCATAG-CCCCCAAATAG
* * * *
65095067 TTGGCAAGATTTAAAAGCTCCCAACTATCATTATTAAG
63 TTAGCGAGATTTAAAAGCTCCCAATTGTCATTATTAAG
65095105 ACTCATAGGT
Statistics
Matches: 268, Mismatches: 42, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
214 1 0.00
215 107 0.40
216 154 0.57
217 6 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (214 bp):
AGTTAAAAGCTCCCAACTGTCATTATTAAGGCTCATAGTTCAATACCATAGCCCCCAAATAGTTA
GCGAGATTTAAAAGCTCCCAATTGTCATTATTAAGGCTCGCAAGAATAAAACTACAACCCCCCAA
ATAGTTAACGAGAGATAAAAGCTCCCAGCTATCATAATTAAGGCTCGTAGGTTTAAAACTGCATC
ATCTCAAATAGTTAGTGAG
Found at i:65095571 original size:27 final size:27
Alignment explanation
Indices: 65095532--65095590 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
65095522 CCATATTCTT
** *
65095532 ATTCTCAGTAGGAAGGGTCACATTATC
1 ATTCTCAACAGGAAGGGCCACATTATC
* * *
65095559 ATTCTCAACAGGAGGGGCCATATTGTC
1 ATTCTCAACAGGAAGGGCCACATTATC
65095586 ATTCT
1 ATTCT
65095591 TGATAAGAGG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (27 bp):
ATTCTCAACAGGAAGGGCCACATTATC
Found at i:65101198 original size:18 final size:19
Alignment explanation
Indices: 65101172--65101214 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
65101162 TTTCCCAAAA
65101172 TAAATATT-ATTTACTAAAT
1 TAAATATTAATTTACT-AAT
*
65101191 TAAA-ATTAATTTTCTAAT
1 TAAATATTAATTTACTAAT
65101209 TAAATA
1 TAAATA
65101215 ATTTTCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATATTAATTTACTAAT
Found at i:65103983 original size:13 final size:13
Alignment explanation
Indices: 65103965--65103992 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
65103955 TTTCTGACAA
65103965 TTCTTTTCTCTTC
1 TTCTTTTCTCTTC
65103978 TTCTTTTCTCTTC
1 TTCTTTTCTCTTC
65103991 TT
1 TT
65103993 TTCATCTATT
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:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (13 bp):
TTCTTTTCTCTTC
Found at i:65103989 original size:10 final size:10
Alignment explanation
Indices: 65103976--65104017 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
65103966 TCTTTTCTCT
65103976 TCTTCTTTTC
1 TCTTCTTTTC
65103986 TCTTCTTTTC
1 TCTTCTTTTC
*
65103996 ATC-TATTTTC
1 -TCTTCTTTTC
65104006 TCTTCTTCTTC
1 TCTTCTT-TTC
65104017 T
1 T
65104018 TTCCCTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 2 0.07
10 19 0.70
11 6 0.22
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.67
Consensus pattern (10 bp):
TCTTCTTTTC
Found at i:65103991 original size:18 final size:18
Alignment explanation
Indices: 65103965--65104018 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
65103955 TTTCTGACAA
* *
65103965 TTCTTTTCTCTTCTTCTT
1 TTCTCTTCTCTTCTTATT
*
65103983 TTCTCTTCTTTTCATCTATT
1 TTCTCTTCTCTTC-T-TATT
65104003 TTCTCTTCTTCTTCTT
1 TTCTCTTC-TCTTCTT
65104019 TCCCTCTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 11 0.38
19 2 0.07
20 12 0.41
21 4 0.14
ACGTcount: A:0.04, C:0.28, G:0.00, T:0.69
Consensus pattern (18 bp):
TTCTCTTCTCTTCTTATT
Found at i:65104026 original size:26 final size:25
Alignment explanation
Indices: 65103978--65104027 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
65103968 TTTTCTCTTC
* *
65103978 TTCTTTTCTCTTCTTTTCATCTATT
1 TTCTCTTCTCTTCTTTCCATCTATT
*
65104003 TTCTCTTCTTCTTCTTTCCCTCTAT
1 TTCTCTTC-TCTTCTTTCCATCTAT
65104028 AGCCGAATCT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.06, C:0.30, G:0.00, T:0.64
Consensus pattern (25 bp):
TTCTCTTCTCTTCTTTCCATCTATT
Found at i:65105105 original size:27 final size:25
Alignment explanation
Indices: 65105071--65105129 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 25
65105061 ATTTACTAAA
*
65105071 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCTAAG--TGCAAAATAACCATT
65105097 ATACTCCTAAGTGCAAAATAACCATT
1 ATAC-CCTAAGTGCAAAATAACCATT
65105123 ATACCCT
1 ATACCCT
65105130 TAGGGTTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.17
26 19 0.63
27 6 0.20
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.29
Consensus pattern (25 bp):
ATACCCTAAGTGCAAAATAACCATT
Found at i:65105310 original size:28 final size:27
Alignment explanation
Indices: 65105237--65105318 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 27
65105227 GAGGAAGCGT
* *
65105237 TCTGGTGGCTCTGCCACAAATGTCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
* *
65105265 TCTGGTGGCCCTACCACAATTATCTGTA
1 TCTGGTGGCTCTGCCACAA-TATCTGTA
* *
65105293 TCTGGTGACTCTGTCACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGT
65105319 TCTAGCAGTC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
27 9 0.20
28 36 0.80
ACGTcount: A:0.18, C:0.26, G:0.21, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:65112997 original size:26 final size:25
Alignment explanation
Indices: 65112968--65113026 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
65112958 ATTTACTAAA
*
65112968 ATACCCTAAGTATG-AAAATTACCATT
1 ATACCCT-AG-ATGCAAAATGACCATT
*
65112994 ATACCCCTAGGTGCAAAATGACCATT
1 ATA-CCCTAGATGCAAAATGACCATT
65113020 ATACCCT
1 ATACCCT
65113027 TAGGGTTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
25 6 0.21
26 19 0.66
27 4 0.14
ACGTcount: A:0.37, C:0.25, G:0.10, T:0.27
Consensus pattern (25 bp):
ATACCCTAGATGCAAAATGACCATT
Found at i:65113173 original size:28 final size:28
Alignment explanation
Indices: 65113133--65113244 Score: 154
Period size: 28 Copynumber: 4.0 Consensus size: 28
65113123 GGAGGAAGCG
*
65113133 TTCTGGTGGCTCTGTCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
65113161 TTCTGGTGGCTCTGCCACAAATGTCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* *
65113189 TTCTGGTGGCCCTGCCACAATTATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
* * *
65113217 ATCTGGTGACTCTGTCAC-AATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
65113244 T
1 T
65113245 CTAGCAGCCA
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 8 0.11
28 65 0.89
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:65123290 original size:27 final size:27
Alignment explanation
Indices: 65123232--65123291 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
65123222 CCCTGTTTCG
* ** *
65123232 ACGTCAGATACGGGGTAGGGGTGTTGC
1 ACGTCAAATACGGGGTAGGAATGTTAC
*
65123259 GCGTCAAATACGGGGTAGGAATGTTAC
1 ACGTCAAATACGGGGTAGGAATGTTAC
65123286 ACGTCA
1 ACGTCA
65123292 CAAGTGAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.22
Consensus pattern (27 bp):
ACGTCAAATACGGGGTAGGAATGTTAC
Found at i:65126445 original size:21 final size:21
Alignment explanation
Indices: 65126421--65126525 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
65126411 GAAGTAGTAT
65126421 ACGACACATAAAGTGCCTGAA
1 ACGACACATAAAGTGCCTGAA
* * * *
65126442 ACGACACACAAGGTGCTTGAT
1 ACGACACATAAAGTGCCTGAA
** *
65126463 ACGACACA-CGAGCTGCCTAAA
1 ACGACACATAAAG-TGCCTGAA
*
65126484 ACAACACATAAAGTGCCTGAA
1 ACGACACATAAAGTGCCTGAA
* *
65126505 TCTGACACATAAAGTGTCTGA
1 AC-GACACATAAAGTGCCTGA
65126526 TCGGCAATGC
Statistics
Matches: 64, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 45 0.70
22 18 0.28
ACGTcount: A:0.39, C:0.25, G:0.19, T:0.17
Consensus pattern (21 bp):
ACGACACATAAAGTGCCTGAA
Found at i:65127923 original size:32 final size:30
Alignment explanation
Indices: 65127886--65127967 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 30
65127876 ATTATTTAAT
*
65127886 TAATAAATATCT-TTTAACTTAATAATAATAAG
1 TAATAAATATCTATTT-ACTT-A-AATAAAAAG
65127918 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTTAAATAAAAAG
*
65127948 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
65127968 AATTGTATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
30 11 0.24
31 11 0.24
32 20 0.44
33 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAAAAAG
Found at i:65130206 original size:43 final size:43
Alignment explanation
Indices: 65130138--65130265 Score: 127
Period size: 44 Copynumber: 3.0 Consensus size: 43
65130128 CTCGTACAAC
* * * *
65130138 ACCAACATCCCAAACGTGGTCTTACATGTAATCACATATCGAT
1 ACCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCGAT
* *
65130181 GCC-ACTGTCCCAGATAG-GGTCTTACACGTAAATCACA-ATTCAAT
1 ACCAAC-GTCCCAGAT-GTGGTCTTACACGT-AATCACATA-TCGAT
* *
65130225 ACCAACGTCCCAGATGTGGTCTTACAGGAAATCACATATCG
1 ACCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCG
65130266 GAATCCTATG
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
42 2 0.03
43 30 0.44
44 34 0.50
45 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ACCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCGAT
Found at i:65133177 original size:48 final size:49
Alignment explanation
Indices: 65133097--65133242 Score: 161
Period size: 50 Copynumber: 3.0 Consensus size: 49
65133087 TCACATAATA
* * * * *
65133097 TGATGCCAACGCCATATCCCAGATATGGTCTTATATGGGATCACCA-CT-
1 TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC-CCATATG
* * *
65133145 TGATGCCAATGCCATGTCCCAAACATGATCTTACATGGGATCTCATATG
1 TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCCATATG
* * *
65133194 TCGATGTCAATGCCATGTCCCAGACATGGTCTTACATGAGATCTCATAT
1 T-GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCCATAT
65133243 CAACGCCATA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
47 2 0.02
48 37 0.45
49 1 0.01
50 43 0.52
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (49 bp):
TGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCCCATATG
Found at i:65134748 original size:20 final size:19
Alignment explanation
Indices: 65134685--65134744 Score: 70
Period size: 18 Copynumber: 3.3 Consensus size: 19
65134675 TAATTTTAAT
* *
65134685 TAAAATAT-AAAAAAAATA
1 TAAAATATCATAAAAATTA
*
65134703 TAAAA-ATCATAAAATTTA
1 TAAAATATCATAAAAATTA
*
65134721 TAGAATATCATAAAAATTA
1 TAAAATATCATAAAAATTA
65134740 TAAAA
1 TAAAA
65134745 ATATTTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
17 2 0.06
18 16 0.47
19 16 0.47
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAAATATCATAAAAATTA
Found at i:65134912 original size:20 final size:21
Alignment explanation
Indices: 65134887--65134945 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
65134877 CTATGAAAAA
65134887 TAAAAAATTATGAAA-ATATT
1 TAAAAAATTATGAAATATATT
* *
65134907 TAAAAATTTA-GAAATTTATT
1 TAAAAAATTATGAAATATATT
*
65134927 TAAAATATTAT-AAATATAT
1 TAAAAAATTATGAAATATAT
65134946 ATAGAAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.12
20 28 0.88
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
TAAAAAATTATGAAATATATT
Found at i:65134913 original size:19 final size:21
Alignment explanation
Indices: 65134889--65134947 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 21
65134879 ATGAAAAATA
65134889 AAAAATTAT-GAAA-ATATTT
1 AAAAATTATAGAAATATATTT
*
65134908 AAAAATT-TAGAAATTTATTT
1 AAAAATTATAGAAATATATTT
65134928 AAAATATTATA-AATATATAT
1 AAAA-ATTATAGAA-ATATAT
65134948 AGAAAAGTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 1 0.03
19 11 0.33
20 9 0.27
21 5 0.15
22 7 0.21
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (21 bp):
AAAAATTATAGAAATATATTT
Found at i:65135035 original size:20 final size:21
Alignment explanation
Indices: 65135010--65135048 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
65135000 TATTCAAAAA
*
65135010 ATATAAAAT-TACAAAAATAT
1 ATATAAAATATAAAAAAATAT
65135030 ATATAAAATATAAAAAAAT
1 ATATAAAATATAAAAAAAT
65135049 GTCTATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAAAATATAAAAAAATAT
Found at i:65135323 original size:9 final size:9
Alignment explanation
Indices: 65135309--65135433 Score: 54
Period size: 10 Copynumber: 13.1 Consensus size: 9
65135299 TTTTCAAATA
65135309 TTTTTAATT
1 TTTTTAATT
65135318 TTTTTAAATT
1 TTTTT-AATT
* **
65135328 TTTATGCTT
1 TTTTTAATT
* **
65135337 TTTATGTTT
1 TTTTTAATT
65135346 TTTTATAATAT
1 TTTT-TAAT-T
65135357 TTTGTTAATT
1 TTT-TTAATT
* **
65135367 TTATTAAAA
1 TTTTTAATT
*
65135376 TTTTTAATA
1 TTTTTAATT
*
65135385 ATTTTAA-T
1 TTTTTAATT
*
65135393 TTTTTATACT
1 TTTTTA-ATT
*
65135403 TTTTTACAAT
1 TTTTTA-ATT
65135413 TTTTTATATT
1 TTTTTA-ATT
65135423 TTTTATAATT
1 TTTT-TAATT
65135433 T
1 T
65135434 ATATTTATTT
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
8 5 0.06
9 36 0.40
10 38 0.42
11 10 0.11
12 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (9 bp):
TTTTTAATT
Found at i:65135415 original size:20 final size:19
Alignment explanation
Indices: 65135390--65135433 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
65135380 TAATAATTTT
65135390 AATTTTTTATACTTTTTTAC
1 AATTTTTTATA-TTTTTTAC
*
65135410 AATTTTTTATATTTTTTAT
1 AATTTTTTATATTTTTTAC
65135429 AATTT
1 AATTT
65135434 ATATTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTTTTATATTTTTTAC
Found at i:65135432 original size:45 final size:45
Alignment explanation
Indices: 65135375--65135578 Score: 161
Period size: 45 Copynumber: 4.5 Consensus size: 45
65135365 TTTTATTAAA
* *
65135375 ATTTTTAATAATTTTA-ATTTTTTATACTTTTTTACAATTTTTTAT
1 ATTTTTTATAATTTTATATTTTTTATACTTTTATA-AATTTTTTAT
* * *
65135420 ATTTTTTATAA-TTTATATTTATTTATA-TTTTTTGTAATTTTTAAT
1 ATTTTTTATAATTTTATATTT-TTTATACTTTTAT-AAATTTTTTAT
*** * **
65135465 AAAATTTATAATTTATATATTTTTT-TCAATTTTAATAAATTTTACA-
1 ATTTTTTATAATTT-TATATTTTTTAT-ACTTTT-ATAAATTTTTTAT
* * * *
65135511 ATTTTCTAT-ATTTTATAATTTTTGTAC-TTTATAATTTTTTTAT
1 ATTTTTTATAATTTTATATTTTTTATACTTTTATAAATTTTTTAT
65135554 ATTTTTTATAATTTCTATATTTTTT
1 ATTTTTTATAATTT-TATATTTTTT
65135579 TATGATTTTA
Statistics
Matches: 126, Mismatches: 21, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
42 9 0.07
43 11 0.09
44 18 0.14
45 52 0.41
46 17 0.13
47 18 0.14
48 1 0.01
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (45 bp):
ATTTTTTATAATTTTATATTTTTTATACTTTTATAAATTTTTTAT
Found at i:65135434 original size:26 final size:26
Alignment explanation
Indices: 65135405--65135459 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
65135395 TTTATACTTT
65135405 TTTACAATTT-TTTATATTTTTTATAA
1 TTTA-AATTTATTTATATTTTTTATAA
* *
65135431 TTTATATTTATTTATATTTTTTGTAA
1 TTTAAATTTATTTATATTTTTTATAA
65135457 TTT
1 TTT
65135460 TTAATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTAAATTTATTTATATTTTTTATAA
Found at i:65135436 original size:16 final size:17
Alignment explanation
Indices: 65135415--65135446 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
65135405 TTTACAATTT
65135415 TTTATATTT-TTTATAA
1 TTTATATTTATTTATAA
65135431 TTTATATTTATTTATA
1 TTTATATTTATTTATA
65135447 TTTTTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTATATTTATTTATAA
Found at i:65135508 original size:81 final size:81
Alignment explanation
Indices: 65135374--65135563 Score: 181
Period size: 81 Copynumber: 2.3 Consensus size: 81
65135364 ATTTTATTAA
* * ** *
65135374 AATTTTTAATAATTTTAATTTTTTATACTTTTTTACAATTTTTTATATTTTTTATAA-TTTATAT
1 AATTTTTAATAATTTTAATTTTATATACTTTTTTACAATTTTTAATAAATTTTACAATTTTATAT
* *
65135438 TTATTTATATTTTTTGT
66 AT-TTTATAATTTTTGT
* *
65135455 AATTTTTAATAAAATTTATAA-TTTATATA-TTTTTTTCAA-TTTTAATAAATTTTACAATTTTC
1 AATTTTTAAT--AATTT-TAATTTTATATACTTTTTTACAATTTTTAATAAATTTTACAATTTTA
65135517 TATATTTTATAATTTTTGT
63 TATATTTTATAATTTTTGT
* * ** *
65135536 ACTTTATAATTTTTTTATATTTTTTATA
1 AATTTTTAATAATTTTA-ATTTTATATA
65135564 ATTTCTATAT
Statistics
Matches: 89, Mismatches: 14, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
78 2 0.02
79 4 0.04
80 7 0.08
81 45 0.51
82 16 0.18
83 12 0.13
84 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (81 bp):
AATTTTTAATAATTTTAATTTTATATACTTTTTTACAATTTTTAATAAATTTTACAATTTTATAT
ATTTTATAATTTTTGT
Found at i:65135533 original size:9 final size:9
Alignment explanation
Indices: 65135288--65135577 Score: 109
Period size: 9 Copynumber: 31.6 Consensus size: 9
65135278 AAAATAGTTT
65135288 TTTTTATAA
1 TTTTTATAA
65135297 CTTTTTCA-AA
1 -TTTTT-ATAA
65135307 TATTTT-TAA
1 T-TTTTATAA
*
65135316 TTTTTTTAAA
1 TTTTTAT-AA
**
65135326 TTTTTATGC
1 TTTTTATAA
**
65135335 TTTTTATGTT
1 TTTTTAT-AA
65135345 TTTTTATAA
1 TTTTTATAA
*
65135354 TATTTTGTTAA
1 T-TTTT-ATAA
*
65135365 TTTTATTAAAA
1 -TTT-TTATAA
65135376 TTTTTAATAA
1 TTTTT-ATAA
*
65135386 -TTTTA-AT
1 TTTTTATAA
*
65135393 TTTTTATACT
1 TTTTTATA-A
*
65135403 TTTTTACAA
1 TTTTTATAA
*
65135412 TTTTTTATAT
1 -TTTTTATAA
65135422 TTTTTATAA
1 TTTTTATAA
*
65135431 --TTTATAT
1 TTTTTATAA
*
65135438 TTATTTATAT
1 TT-TTTATAA
*
65135448 TTTTTGTAA
1 TTTTTATAA
65135457 TTTTTAATAA
1 TTTTT-ATAA
**
65135467 AATTTATAA
1 TTTTTATAA
*
65135476 TTTATAT-A
1 TTTTTATAA
*
65135484 TTTTTTTCAA
1 TTTTTAT-AA
*
65135494 TTTTAATAA
1 TTTTTATAA
* *
65135503 ATTTTACAA
1 TTTTTATAA
65135512 TTTTCTAT-A
1 TTTT-TATAA
65135521 -TTTTATAA
1 TTTTTATAA
*
65135529 TTTTTGT-A
1 TTTTTATAA
*
65135537 -CTTTATAA
1 TTTTTATAA
*
65135545 TTTTTTTATAT
1 --TTTTTATAA
65135556 TTTTTATAA
1 TTTTTATAA
*
65135565 TTTCTAT-A
1 TTTTTATAA
65135573 TTTTT
1 TTTTT
65135578 TTATGATTTT
Statistics
Matches: 209, Mismatches: 43, Indels: 58
0.67 0.14 0.19
Matches are distributed among these distances:
7 14 0.07
8 27 0.13
9 77 0.37
10 74 0.35
11 14 0.07
12 3 0.01
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTTATAA
Found at i:65135551 original size:27 final size:28
Alignment explanation
Indices: 65135521--65135587 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
65135511 ATTTTCTATA
* *
65135521 TTTTATAATTTTTGTACTTTATA-ATTT
1 TTTTATAATTTTTATAATTTATATATTT
* *
65135548 TTTTATATTTTTTATAATTTCTATATTT
1 TTTTATAATTTTTATAATTTATATATTT
*
65135576 TTTTATGATTTT
1 TTTTATAATTTT
65135588 ACTTTAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 19 0.58
28 14 0.42
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (28 bp):
TTTTATAATTTTTATAATTTATATATTT
Found at i:65135554 original size:11 final size:10
Alignment explanation
Indices: 65135538--65135587 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
65135528 ATTTTTGTAC
65135538 TTTATAATTTT
1 TTTAT-ATTTT
65135549 TTTATA-TTT
1 TTTATATTTT
*
65135558 TTTATA-ATT
1 TTTATATTTT
*
65135567 TCTATATTTT
1 TTTATATTTT
65135577 TTTATGATTTT
1 TTTAT-ATTTT
65135588 ACTTTAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 16 0.48
10 7 0.21
11 10 0.30
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTATATTTT
Found at i:65135563 original size:20 final size:19
Alignment explanation
Indices: 65135538--65135587 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
65135528 ATTTTTGTAC
*
65135538 TTTATAATTTTTTTATATTT
1 TTTATAATTTTTATAT-TTT
*
65135558 TTTATAATTTCTATATTTT
1 TTTATAATTTTTATATTTT
*
65135577 TTTATGATTTT
1 TTTATAATTTT
65135588 ACTTTAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTATAATTTTTATATTTT
Found at i:65137056 original size:14 final size:15
Alignment explanation
Indices: 65137039--65137067 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
65137029 GAGTATGGTA
65137039 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
65137053 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
65137068 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:65137494 original size:26 final size:26
Alignment explanation
Indices: 65137432--65137494 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
65137422 ATTTGAGTGC
* *
65137432 CAAATACTCACCATTTATTTATTAAT
1 CAAACACTCATCATTTATTTATTAAT
*
65137458 CAAATACTCATCATTTATTTATTAAT
1 CAAACACTCATCATTTATTTATTAAT
*
65137484 CAAACATTCAT
1 CAAACACTCAT
65137495 AATATAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.41
Consensus pattern (26 bp):
CAAACACTCATCATTTATTTATTAAT
Found at i:65145697 original size:48 final size:48
Alignment explanation
Indices: 65145612--65145845 Score: 270
Period size: 48 Copynumber: 4.8 Consensus size: 48
65145602 ATACTAGGGG
* * * *
65145612 TATGCGAGCCAGTGTAAGACCATGTTTGGAACATGGCACCGGCATTTA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
* * *
65145660 TATGAGAGCTAGTATAAGACCATGTTTGGAACATGGCATCGGCATTTG
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
* * * **
65145708 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
* ** *
65145756 TATGTGAGCTAAAGTAAGACCATGTTTGGAACATGGCATCAGCATCAATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCAT--TTA
* * * *
65145806 TATGAGAGCTTGTGTAAAACCATGTCTGGGACATGGCATC
1 TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATC
65145846 GACATCTTAC
Statistics
Matches: 156, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
48 122 0.78
50 34 0.22
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.26
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTTA
Found at i:65153299 original size:48 final size:48
Alignment explanation
Indices: 65153245--65153517 Score: 287
Period size: 48 Copynumber: 5.6 Consensus size: 48
65153235 TATGTAAGCC
* *
65153245 AGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
* * * *
65153293 AGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
* * * *
65153341 AGTGCAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
* * * * *
65153389 AGTGTAAGACTATGTCTGGGACATGGCATCGACCTCAATATGTGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
* * * * ** * *
65153437 AGAGTAAGGCAATGTTTAGAACATGGCATCGGCACCGGTATCTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATC-G-ACCTCTATATGAGAGCT
* *
65153487 AGTGTAAGACTATGTCTAGG-ACATGGCATCG
1 AGTGTAAGACCATGT-TTGGAACATGGCATCG
65153518 GCATCTTACC
Statistics
Matches: 184, Mismatches: 38, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
48 147 0.80
49 2 0.01
50 33 0.18
51 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGACCTCTATATGAGAGCT
Found at i:65153413 original size:96 final size:96
Alignment explanation
Indices: 65153235--65153519 Score: 390
Period size: 96 Copynumber: 2.9 Consensus size: 96
65153225 ATACTAGGGT
* *
65153235 TATGTAAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
* * * *
65153300 GACCATGTTTGGAACATGGCATCGGCCTCGA
66 GACTATGTCTGGGACATGGCATCGGCCTCAA
*
65153331 TATGTGAGCCAGTGCAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
*
65153396 GACTATGTCTGGGACATGGCATCGACCTCAA
66 GACTATGTCTGGGACATGGCATCGGCCTCAA
* * * * * ** * *
65153427 TATGTGAGCTAGAGTAAGGCAATGTTTAGAACATGGCATCGGCACCGGTATCTGAGAGCCAGTGT
1 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA--TTTATATGAGAGCTAGTGT
*
65153492 AAGACTATGTCTAGGACATGGCATCGGC
64 AAGACTATGTCTGGGACATGGCATCGGC
65153520 ATCTTACCCT
Statistics
Matches: 167, Mismatches: 20, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 126 0.75
98 41 0.25
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (96 bp):
TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAA
GACTATGTCTGGGACATGGCATCGGCCTCAA
Found at i:65160220 original size:28 final size:28
Alignment explanation
Indices: 65160180--65160240 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
65160170 CCATCAAAGA
65160180 TAGATGAAAGATCATCTTAATTGATGAT
1 TAGATGAAAGATCATCTTAATTGATGAT
65160208 TAGATGAAAGATCATCTTAATTGATGAT
1 TAGATGAAAGATCATCTTAATTGATGAT
*
65160236 GAGAT
1 TAGAT
65160241 AAAATTATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (28 bp):
TAGATGAAAGATCATCTTAATTGATGAT
Found at i:65160532 original size:12 final size:12
Alignment explanation
Indices: 65160515--65160540 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65160505 TAACTTCAAA
65160515 ATAATTAATTAT
1 ATAATTAATTAT
65160527 ATAATTAATTAT
1 ATAATTAATTAT
65160539 AT
1 AT
65160541 CAGAGGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATAATTAATTAT
Found at i:65160583 original size:25 final size:25
Alignment explanation
Indices: 65160554--65160601 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
65160544 AGGTCATTAT
65160554 AATATA-CTTTTTTAAACATTGTATA
1 AATATAGCTTTTTTAAA-ATTGTATA
*
65160579 AATATAGTTTTTTTAAAATTGTA
1 AATATAGCTTTTTTAAAATTGTA
65160602 CAATAACTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (25 bp):
AATATAGCTTTTTTAAAATTGTATA
Done.