Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 56
Found at i:2139860 original size:31 final size:29
Alignment explanation
Indices: 2139821--2139880 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
2139811 CTATAATTTT
*
2139821 GAATAAAATAATAGTTG-GATGACTTAAATA
1 GAATAAAATAATAATTGAG-TGAC-TAAATA
2139851 GAATGAAAATAATAATTGAGTGACTAAATA
1 GAAT-AAAATAATAATTGAGTGACTAAATA
2139881 TGTAGTTTAC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 10 0.37
31 16 0.59
32 1 0.04
ACGTcount: A:0.52, C:0.03, G:0.17, T:0.28
Consensus pattern (29 bp):
GAATAAAATAATAATTGAGTGACTAAATA
Found at i:2139948 original size:2 final size:2
Alignment explanation
Indices: 2139941--2139974 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2139931 AATATACTTC
2139941 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
2139975 AATTGTCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:2150943 original size:31 final size:31
Alignment explanation
Indices: 2150871--2150967 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
2150861 AAGAGTTGAG
* *
2150871 GGTTACCTATGTCTTTCGGGACATATGGACA
1 GGTTACCTATGTCCTTCGGGATATATGGACA
2150902 GGATTACCTATGTCCTTCGGGATATATGGACA
1 GG-TTACCTATGTCCTTCGGGATATATGGACA
* *
2150934 TGTTACCTATGTCCTTCGGGATATATGGATA
1 GGTTACCTATGTCCTTCGGGATATATGGACA
2150965 GGT
1 GGT
2150968 CCTTCGGGAC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGGGATATATGGACA
Found at i:2150972 original size:22 final size:22
Alignment explanation
Indices: 2150944--2151003 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
2150934 TGTTACCTAT
* *
2150944 GTCCTTCGGGATATATGGATAG
1 GTCCTTCGGGACATATGCATAG
* *
2150966 GTCCTTCGGGACACATTCATAG
1 GTCCTTCGGGACATATGCATAG
*
2150988 GTCTTTCGGGACATAT
1 GTCCTTCGGGACATAT
2151004 TTCATATGCC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (22 bp):
GTCCTTCGGGACATATGCATAG
Found at i:2153077 original size:22 final size:22
Alignment explanation
Indices: 2153050--2153091 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2153040 ACATTAAAAA
*
2153050 ATATTTTATTTTTATCTTAAAT
1 ATATTTTATTCTTATCTTAAAT
*
2153072 ATATTTTATTCTTATTTTAA
1 ATATTTTATTCTTATCTTAA
2153092 CTTAAGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTTTATTCTTATCTTAAAT
Found at i:2153142 original size:32 final size:31
Alignment explanation
Indices: 2153070--2153142 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
2153060 TTTATCTTAA
* * * *
2153070 ATATATTTTATTCTTATTTTAACTTAAGAAT
1 ATATATTTTAGTCTAATCTTAACTTAAAAAT
2153101 ATATATTTTAGTCTAATCTTAACTTAAAAAAT
1 ATATATTTTAGTCTAATCTTAACTT-AAAAAT
*
2153133 GTATATTTTA
1 ATATATTTTA
2153143 TTTTTATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
31 22 0.61
32 14 0.39
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (31 bp):
ATATATTTTAGTCTAATCTTAACTTAAAAAT
Found at i:2153183 original size:24 final size:23
Alignment explanation
Indices: 2153135--2153208 Score: 60
Period size: 24 Copynumber: 3.1 Consensus size: 23
2153125 TAAAAAATGT
* * *
2153135 ATATTTTATTTTTATTTAAAATTA
1 ATATATTA-TTTTATTTTAATTTA
2153159 ATATATTATTCTTATTTTAATTTA
1 ATATATTATT-TTATTTTAATTTA
* *
2153183 A-AAATATATTTTATTTTTATCTTA
1 ATATAT-TATTTTATTTTAAT-TTA
2153207 AT
1 AT
2153209 TTTAAAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
23 14 0.34
24 27 0.66
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (23 bp):
ATATATTATTTTATTTTAATTTA
Found at i:2153208 original size:29 final size:29
Alignment explanation
Indices: 2153068--2153218 Score: 137
Period size: 29 Copynumber: 5.2 Consensus size: 29
2153058 TTTTTATCTT
*
2153068 AAATATATTTTATTCTTATTTTAACTTAA
1 AAATATATTTTATTCTTATTTTAATTTAA
* * * *
2153097 GAATATATATTTTAGTCTAATCTTAACTTAA
1 -AA-ATATATTTTATTCTTATTTTAATTTAA
* * *
2153128 AAA-AT-GTATATT-TTATTTTTATTTAA
1 AAATATATTTTATTCTTATTTTAATTTAA
* *
2153154 AATTAATATATTATTCTTATTTTAATTTAA
1 AAAT-ATATTTTATTCTTATTTTAATTTAA
* * *
2153184 AAATATATTTTATTTTTATCTTAATTTTA
1 AAATATATTTTATTCTTATTTTAATTTAA
2153213 AAATAT
1 AAATAT
2153219 TATAAGAATA
Statistics
Matches: 96, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
26 12 0.12
27 4 0.04
28 4 0.04
29 32 0.33
30 20 0.21
31 24 0.25
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (29 bp):
AAATATATTTTATTCTTATTTTAATTTAA
Found at i:2153283 original size:31 final size:30
Alignment explanation
Indices: 2153241--2153321 Score: 112
Period size: 29 Copynumber: 2.7 Consensus size: 30
2153231 ATATAAAATA
*
2153241 TTTAAGATAAGATAAGAATAAATTATATTTT
1 TTTAAGATAAGATAAGAATAAA-CATATTTT
* *
2153272 TTTAAGTTAAGATAAGACT-AACATATTTT
1 TTTAAGATAAGATAAGAATAAACATATTTT
2153301 TTTAAGATAA-ATAAGAATAAA
1 TTTAAGATAAGATAAGAATAAA
2153322 ATGTACTTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
28 7 0.16
29 18 0.41
30 2 0.05
31 17 0.39
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.38
Consensus pattern (30 bp):
TTTAAGATAAGATAAGAATAAACATATTTT
Found at i:2153387 original size:18 final size:18
Alignment explanation
Indices: 2153354--2153400 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2153344 AAAAAATATT
*
2153354 TTTAATGTTAAGATGTTAA
1 TTTAAT-TTAAGATGTGAA
*
2153373 TTTAATTTAATATGTGAA
1 TTTAATTTAAGATGTGAA
*
2153391 TTTAAGTTAA
1 TTTAATTTAA
2153401 AACATAGTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (18 bp):
TTTAATTTAAGATGTGAA
Found at i:2156201 original size:26 final size:26
Alignment explanation
Indices: 2156172--2156235 Score: 128
Period size: 26 Copynumber: 2.5 Consensus size: 26
2156162 TCCAGTGGCC
2156172 TGTGCTTTGGTGGGTGGTGTCTGTCT
1 TGTGCTTTGGTGGGTGGTGTCTGTCT
2156198 TGTGCTTTGGTGGGTGGTGTCTGTCT
1 TGTGCTTTGGTGGGTGGTGTCTGTCT
2156224 TGTGCTTTGGTG
1 TGTGCTTTGGTG
2156236 ATCTGTCGCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.00, C:0.11, G:0.42, T:0.47
Consensus pattern (26 bp):
TGTGCTTTGGTGGGTGGTGTCTGTCT
Found at i:2157716 original size:22 final size:23
Alignment explanation
Indices: 2157691--2157741 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
2157681 ATATTTTAAT
2157691 TTTAAAATCTAAAA-AATTAAAC
1 TTTAAAATCTAAAACAATTAAAC
* * * *
2157713 TTTAAATTTTAAAACATTTAAAG
1 TTTAAAATCTAAAACAATTAAAC
2157736 TTTAAA
1 TTTAAA
2157742 TTCTTGATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 12 0.50
23 12 0.50
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTAAAATCTAAAACAATTAAAC
Found at i:2158025 original size:15 final size:16
Alignment explanation
Indices: 2158000--2158032 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2157990 ATGGTCTTTA
*
2158000 TAAATATATTATTATT
1 TAAATATATTAATATT
2158016 TAAA-ATATTAATATT
1 TAAATATATTAATATT
2158031 TA
1 TA
2158033 TATTAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATATATTAATATT
Found at i:2158036 original size:21 final size:22
Alignment explanation
Indices: 2158002--2158053 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
2157992 GGTCTTTATA
2158002 AATATATTATTATTTAA-AAT-ATT
1 AATAT-TTATTA-TTAACAATGA-T
2158025 AATATTTA-TATTAACAATGAT
1 AATATTTATTATTAACAATGAT
2158046 AATATTTA
1 AATATTTA
2158054 ACATATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.15
21 14 0.52
22 4 0.15
23 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
AATATTTATTATTAACAATGAT
Found at i:2159746 original size:20 final size:19
Alignment explanation
Indices: 2159705--2159750 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2159695 TTTTATAAAT
*
2159705 ATATTATTATTAAAATATTA
1 ATATT-TTATTAAAATAGTA
*
2159725 ATATTTTATTAATAATGGTA
1 ATATTTTATTAA-AATAGTA
2159745 ATATTT
1 ATATTT
2159751 AATATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (19 bp):
ATATTTTATTAAAATAGTA
Found at i:2174595 original size:20 final size:21
Alignment explanation
Indices: 2174570--2174609 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2174560 ATTGTGGCCG
*
2174570 TTTCTAGCCG-TTGGGGATGA
1 TTTCTAGCAGTTTGGGGATGA
2174590 TTTCTAGCAGTTTGGGGATG
1 TTTCTAGCAGTTTGGGGATG
2174610 TTATTTATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.15, C:0.12, G:0.35, T:0.38
Consensus pattern (21 bp):
TTTCTAGCAGTTTGGGGATGA
Found at i:2178761 original size:16 final size:15
Alignment explanation
Indices: 2178722--2178763 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
2178712 CATTTTCTCT
2178722 TCATTTTTA-TTTAA
1 TCATTTTTATTTTAA
*
2178736 TCTATTTTTATTTTTA
1 TC-ATTTTTATTTTAA
2178752 TCATTGTTTATT
1 TCATT-TTTATT
2178764 ATATATTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 10 0.42
16 12 0.50
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.69
Consensus pattern (15 bp):
TCATTTTTATTTTAA
Found at i:2180247 original size:17 final size:17
Alignment explanation
Indices: 2180225--2180288 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
2180215 CGTATAAATG
*
2180225 TCCCGAAGGACCTATCA
1 TCCCGAAGGACATATCA
** *
2180242 TCCCGAAGGATGTCATCTG
1 TCCCGAAGGACAT-ATC-A
*
2180261 TGCCCGAAGGACATGTCA
1 T-CCCGAAGGACATATCA
2180279 TCCCGAAGGA
1 TCCCGAAGGA
2180289 TGTAATCTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
17 20 0.54
18 4 0.11
19 3 0.08
20 10 0.27
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.19
Consensus pattern (17 bp):
TCCCGAAGGACATATCA
Found at i:2180280 original size:37 final size:38
Alignment explanation
Indices: 2180223--2180317 Score: 138
Period size: 37 Copynumber: 2.5 Consensus size: 38
2180213 CTCGTATAAA
* *
2180223 TGTCCCGAAGGACCTATCATCCCGAAGGATGTCATCTG
1 TGTCCCGAAGGACATATCATCCCGAAGGATGTAATCTG
*
2180261 TG-CCCGAAGGACATGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACATATCATCCCGAAGGATGTAATCTG
* *
2180298 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACATATCAT
2180318 GTCTTATAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
37 34 0.68
38 16 0.32
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (38 bp):
TGTCCCGAAGGACATATCATCCCGAAGGATGTAATCTG
Found at i:2180527 original size:17 final size:17
Alignment explanation
Indices: 2180505--2180554 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
2180495 TTATATATTT
2180505 ATATGTCATTTCATATC
1 ATATGTCATTTCATATC
** *
2180522 ATATGT-ATCACGTATTC
1 ATATGTCATTTCATA-TC
2180539 ATATGTCATTTCATAT
1 ATATGTCATTTCATAT
2180555 ATCACATGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
16 5 0.20
17 15 0.60
18 5 0.20
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (17 bp):
ATATGTCATTTCATATC
Found at i:2180543 original size:34 final size:34
Alignment explanation
Indices: 2180500--2180578 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
2180490 ACGTATTATA
* *
2180500 TATTTATATGTCATTTC-ATATCATATGTATCACG
1 TATTCATATGTCATTTCAATATCACATGTA-CACG
2180534 TATTCATATGTCATTTCATATATCACATGTACACG
1 TATTCATATGTCATTTCA-ATATCACATGTACACG
2180569 TATTGCATAT
1 TATT-CATAT
2180579 TATGTAACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
34 16 0.40
35 8 0.20
36 16 0.40
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.44
Consensus pattern (34 bp):
TATTCATATGTCATTTCAATATCACATGTACACG
Found at i:2187115 original size:38 final size:38
Alignment explanation
Indices: 2187064--2187159 Score: 147
Period size: 38 Copynumber: 2.5 Consensus size: 38
2187054 CTCGTATAAA
*
2187064 TGTCCCGAAGGACCTATCATCCCAAAGGATATCATCTG
1 TGTCCCGAAGGACCTATCATCCCAAAGGATATAATCTG
* * *
2187102 TGTCCCGAAGGACCTGTCATCCCGAAGGATGTAATCTG
1 TGTCCCGAAGGACCTATCATCCCAAAGGATATAATCTG
*
2187140 TGTCCCGTAGGACCTATCAT
1 TGTCCCGAAGGACCTATCAT
2187160 ATGTCTTATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 52 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (38 bp):
TGTCCCGAAGGACCTATCATCCCAAAGGATATAATCTG
Found at i:2187379 original size:46 final size:45
Alignment explanation
Indices: 2187308--2187434 Score: 187
Period size: 39 Copynumber: 2.9 Consensus size: 45
2187298 ATGTGTAACC
2187308 ATGT-ATTTCATATCATATCACATGTATCACGTATTACATATTTAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATT-CATATTTAT
2187353 ATGTCATTTCATATCATATCACATGTATCACG------TATTTAT
1 ATGTCATTTCATATCATATCACATGTATCACGTATTCATATTTAT
2187392 ATGTCATTTCATATCATATCACATGTATCACGTATTGCATATT
1 ATGTCATTTCATATCATATCACATGTATCACGTATT-CATATT
2187435 ATGTAACATA
Statistics
Matches: 74, Mismatches: 0, Indels: 15
0.83 0.00 0.17
Matches are distributed among these distances:
39 39 0.53
45 4 0.05
46 31 0.42
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.43
Consensus pattern (45 bp):
ATGTCATTTCATATCATATCACATGTATCACGTATTCATATTTAT
Found at i:2193329 original size:21 final size:23
Alignment explanation
Indices: 2193300--2193343 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
2193290 TGCCTAAGAC
*
2193300 ATGGAGTATCATTAC-TCCTTTA
1 ATGGAGTATCAGTACTTCCTTTA
2193322 ATGG-GTATCAGTACTTCCTTTA
1 ATGGAGTATCAGTACTTCCTTTA
2193344 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
ATGGAGTATCAGTACTTCCTTTA
Found at i:2196728 original size:20 final size:21
Alignment explanation
Indices: 2196703--2196741 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
2196693 GTTGTGGCCG
2196703 TTTCTAGCCG-TTGGGGATAA
1 TTTCTAGCCGTTTGGGGATAA
2196723 TTTCTAGCCGTTTGGGGAT
1 TTTCTAGCCGTTTGGGGAT
2196742 GTTATCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.38
Consensus pattern (21 bp):
TTTCTAGCCGTTTGGGGATAA
Found at i:2204429 original size:81 final size:81
Alignment explanation
Indices: 2204294--2204455 Score: 279
Period size: 81 Copynumber: 2.0 Consensus size: 81
2204284 TCATTAATCA
* *
2204294 CCCGACTCATCCCGGAGAGTTGCAAGCATTGATCGATGATAAGGCTCCTTGCTTTCACCATTGAT
1 CCCGACTCATCCCGGAGAGTTGCAAGCATTGATCGACGATAAGACTCCTTGCTTTCACCATTGAT
2204359 AATTTGACATACAACC
66 AATTTGACATACAACC
* * *
2204375 CCCGACTCGTCCCGGAGAGTTGCAAGCATTGCTCGACGATATGACTCCTTGCTTTCACCATTGAT
1 CCCGACTCATCCCGGAGAGTTGCAAGCATTGATCGACGATAAGACTCCTTGCTTTCACCATTGAT
2204440 AATTTGACATACAACC
66 AATTTGACATACAACC
2204456 ATTCCAGTAA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (81 bp):
CCCGACTCATCCCGGAGAGTTGCAAGCATTGATCGACGATAAGACTCCTTGCTTTCACCATTGAT
AATTTGACATACAACC
Found at i:2209590 original size:21 final size:21
Alignment explanation
Indices: 2209566--2209618 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
2209556 GGGCTTGACC
2209566 AATATCGATACTATGCTTCAT
1 AATATCGATACTATGCTTCAT
* *
2209587 AATATCGATATTGTGCTTCAT
1 AATATCGATACTATGCTTCAT
**
2209608 GGTATCGATAC
1 AATATCGATAC
2209619 CAAATGTGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
AATATCGATACTATGCTTCAT
Found at i:2214498 original size:10 final size:10
Alignment explanation
Indices: 2214469--2214576 Score: 109
Period size: 10 Copynumber: 11.1 Consensus size: 10
2214459 GCTGCTGGAA
2214469 AACCGGTTTG
1 AACCGGTTTG
*
2214479 -ACCAGTTTTG
1 AACC-GGTTTG
2214489 AACCGGTTTG
1 AACCGGTTTG
*
2214499 -ACCGGTTCG
1 AACCGGTTTG
2214508 AACCGGTTTG
1 AACCGGTTTG
*
2214518 -ACCAGTTTTG
1 AACC-GGTTTG
2214528 AACCGGTTTG
1 AACCGGTTTG
*
2214538 -ACCGTTTTG
1 AACCGGTTTG
2214547 AACCGGTTTG
1 AACCGGTTTG
*
2214557 -ACCGGTCTG
1 AACCGGTTTG
*
2214566 AACCGGGTTG
1 AACCGGTTTG
2214576 A
1 A
2214577 CCCGACCCGA
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
9 30 0.38
10 44 0.55
11 6 0.08
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.31
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:2214512 original size:19 final size:19
Alignment explanation
Indices: 2214469--2214578 Score: 157
Period size: 19 Copynumber: 5.7 Consensus size: 19
2214459 GCTGCTGGAA
2214469 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GTTTTG
* *
2214489 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGTTTTG
2214508 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GTTTTG
2214528 AACCGGTTTGACCGTTTTG
1 AACCGGTTTGACCGTTTTG
* *
2214547 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGTTTTG
*
2214566 AACCGGGTTGACC
1 AACCGGTTTGACC
2214579 CGACCCGACT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
19 52 0.63
20 30 0.37
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (19 bp):
AACCGGTTTGACCGTTTTG
Found at i:2214523 original size:39 final size:39
Alignment explanation
Indices: 2214469--2214578 Score: 168
Period size: 39 Copynumber: 2.8 Consensus size: 39
2214459 GCTGCTGGAA
2214469 AACCGGTTTGACCAGTTTTGAACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCAGTTTTGAACCGGTTTGACCGGTTCG
* *
2214508 AACCGGTTTGACCAGTTTTGAACCGGTTTGACCGTTTTG
1 AACCGGTTTGACCAGTTTTGAACCGGTTTGACCGGTTCG
* * *
2214547 AACCGGTTTGACC-GGTCTGAACCGGGTTGACC
1 AACCGGTTTGACCAGTTTTGAACCGGTTTGACC
2214579 CGACCCGACT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 16 0.24
39 50 0.76
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (39 bp):
AACCGGTTTGACCAGTTTTGAACCGGTTTGACCGGTTCG
Found at i:2214594 original size:17 final size:17
Alignment explanation
Indices: 2214572--2214629 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
2214562 TCTGAACCGG
*
2214572 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
2214589 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
2214606 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
2214623 GTTGACC
1 GTTGACC
2214630 GTTGACTTTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:2222715 original size:32 final size:31
Alignment explanation
Indices: 2222642--2222718 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
2222632 CTAATGTGAC
* *
2222642 TCTTAGGTAGGCTCTGCGACCCTGAGATCAT
1 TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
** * **
2222673 TCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTGCGACCCTAAGAT-CAT
2222705 TCTTAGGTAGGCCC
1 TCTTAGGTAGGCCC
2222719 CACGGCCCCG
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.64
32 13 0.36
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTGCGACCCTAAGATCAT
Found at i:2226122 original size:21 final size:21
Alignment explanation
Indices: 2226098--2226151 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
2226088 TGAAAATATT
** *
2226098 CATTTTAGGTAGTGAAATTAA
1 CATTTTAGGTAGAAAAAATAA
**
2226119 CATTTTTTGTAGAAAAAATAA
1 CATTTTAGGTAGAAAAAATAA
2226140 CATTTTAGGTAG
1 CATTTTAGGTAG
2226152 CGTTGTACCG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (21 bp):
CATTTTAGGTAGAAAAAATAA
Found at i:2227870 original size:71 final size:70
Alignment explanation
Indices: 2227774--2227920 Score: 181
Period size: 70 Copynumber: 2.1 Consensus size: 70
2227764 ATCCTTTCTT
* *
2227774 TCGAGGATCAATTATTTTCCCCGAGAGATCGATCCTATGCAC-AACAGAAAGCTT-GGGATCGAT
1 TCGAGGATCAATCATTTTCCCCGAGAGATCGAT-CTATGC-CGAACAGAAA-CTTAAGGATCGAT
*
2227837 CCTTTTGG
63 CCCTTTGG
* * * * *
2227845 TCGAGGATCGATCATTTTTCTCGAGAGATCGATCTTTGCCGGACAGAAACTTAAGGATCGATCCC
1 TCGAGGATCAATCATTTTCCCCGAGAGATCGATCTATGCCGAACAGAAACTTAAGGATCGATCCC
2227910 TTTGG
66 TTTGG
2227915 TCGAGG
1 TCGAGG
2227921 GATATATCCT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
69 4 0.06
70 33 0.50
71 29 0.44
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (70 bp):
TCGAGGATCAATCATTTTCCCCGAGAGATCGATCTATGCCGAACAGAAACTTAAGGATCGATCCC
TTTGG
Found at i:2227874 original size:21 final size:20
Alignment explanation
Indices: 2227829--2227878 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2227819 AGAAAGCTTG
* *
2227829 GGATCGATCCTTTTGGTCGA
1 GGATCGATCATTTTGCTCGA
*
2227849 GGATCGATCATTTTTCTCGA
1 GGATCGATCATTTTGCTCGA
2227869 GAGATCGATC
1 G-GATCGATC
2227879 TTTGCCGGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (20 bp):
GGATCGATCATTTTGCTCGA
Found at i:2227935 original size:71 final size:71
Alignment explanation
Indices: 2227795--2227936 Score: 173
Period size: 70 Copynumber: 2.0 Consensus size: 71
2227785 TTATTTTCCC
* * *
2227795 CGAGAGATCGATCCTATGCACAACAGAAAGCTTGGGATCGATCCTTTTGGTCGAGGATCGATCAT
1 CGAGAGATCGATCCTATGCACAACAGAAAGCTTAGGATCGATCCCTTTGGTCGAGGATAGATCAT
2227860 TTTTCT
66 TTTTCT
* * *
2227866 CGAGAGATCGAT-CTTTGC-CGGACAGAAA-CTTAAGGATCGATCCCTTTGGTCGAGGGATATAT
1 CGAGAGATCGATCCTATGCAC-AACAGAAAGCTT-AGGATCGATCCCTTTGGTCGA-GGATAGAT
*
2227928 CCTTTTTCT
63 CATTTTTCT
2227937 AGGAATGACT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
69 4 0.07
70 31 0.51
71 26 0.43
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (71 bp):
CGAGAGATCGATCCTATGCACAACAGAAAGCTTAGGATCGATCCCTTTGGTCGAGGATAGATCAT
TTTTCT
Found at i:2231871 original size:21 final size:21
Alignment explanation
Indices: 2231847--2231886 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2231837 GTGATTGTAA
*
2231847 GTCTATGTGATATAAGCATAT
1 GTCTAAGTGATATAAGCATAT
* *
2231868 GTCTAAGTGTTATATGCAT
1 GTCTAAGTGATATAAGCAT
2231887 TGTTCTACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (21 bp):
GTCTAAGTGATATAAGCATAT
Found at i:2231958 original size:16 final size:17
Alignment explanation
Indices: 2231926--2231959 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2231916 AACCTACACG
*
2231926 TTACATGAATTATGTGA
1 TTACATGAATAATGTGA
2231943 TTACATGAA-AATGTGA
1 TTACATGAATAATGTGA
2231959 T
1 T
2231960 ATAAGGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (17 bp):
TTACATGAATAATGTGA
Found at i:2231980 original size:147 final size:147
Alignment explanation
Indices: 2231709--2232015 Score: 589
Period size: 147 Copynumber: 2.1 Consensus size: 147
2231699 GTGTACATGA
2231709 ATACAAGCATATGTCTAAGTGTTATATGCATTGTTCTACATGATCTATGTGTTACATGTCAACCT
1 ATACAAGCATATGTCTAAGTGTTATATGCATTGTTCTACATGATCTATGTGTTACATGTCAACCT
2231774 ACACGTTACATGAATTATGTGATTACATGAAAATATGATATAAGGTATATGACTATAATCTATGT
66 ACACGTTACATGAATTATGTGATTACATGAAAATATGATATAAGGTATATGACTATAATCTATGT
2231839 GATTGTAAGTCTATGTG
131 GATTGTAAGTCTATGTG
*
2231856 ATATAAGCATATGTCTAAGTGTTATATGCATTGTTCTACATGATCTATGTGTTACATGTCAACCT
1 ATACAAGCATATGTCTAAGTGTTATATGCATTGTTCTACATGATCTATGTGTTACATGTCAACCT
*
2231921 ACACGTTACATGAATTATGTGATTACATGAAAATGTGATATAAGGTATATGACTATAATCTATGT
66 ACACGTTACATGAATTATGTGATTACATGAAAATATGATATAAGGTATATGACTATAATCTATGT
2231986 GATTGTAAGTCTATGTG
131 GATTGTAAGTCTATGTG
2232003 ATACAAGC-TATGT
1 ATACAAGCATATGT
2232016 GAAATGTGTA
Statistics
Matches: 157, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
146 5 0.03
147 152 0.97
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.37
Consensus pattern (147 bp):
ATACAAGCATATGTCTAAGTGTTATATGCATTGTTCTACATGATCTATGTGTTACATGTCAACCT
ACACGTTACATGAATTATGTGATTACATGAAAATATGATATAAGGTATATGACTATAATCTATGT
GATTGTAAGTCTATGTG
Found at i:2232143 original size:22 final size:23
Alignment explanation
Indices: 2232094--2232144 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
2232084 AGTCGAGGGC
2232094 TCTACGTGGTCCTTCGGGATAAT
1 TCTACGTGGTCCTTCGGGATAAT
*
2232117 TCTACGTGGTCCTTCGGGA-CAT
1 TCTACGTGGTCCTTCGGGATAAT
2232139 TCTACG
1 TCTACG
2232145 CGATCATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.33
Consensus pattern (23 bp):
TCTACGTGGTCCTTCGGGATAAT
Found at i:2235131 original size:23 final size:23
Alignment explanation
Indices: 2235105--2235149 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2235095 CACCACAGCT
*
2235105 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
2235128 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
2235150 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:2242376 original size:150 final size:149
Alignment explanation
Indices: 2242171--2242486 Score: 553
Period size: 150 Copynumber: 2.1 Consensus size: 149
2242161 TATAAATGCA
2242171 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAA
2242235 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAAGACTTCACACATGT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTT-CAAGACTTCACACATGT
* * * *
2242300 TCTACAGAATATATATGTATC
129 TCCAAAGAATATACATATATC
2242321 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
*
2242386 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATTTGTCTTTCAAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
*
2242451 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
2242470 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
2242487 CCCTCTACCC
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
149 51 0.32
150 108 0.68
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:2244755 original size:5 final size:5
Alignment explanation
Indices: 2244745--2244779 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
2244735 TTAGGATATC
2244745 AACAT AACAT AACAT AACAT AACAT AACAT AACAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT
2244780 GATAAACATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (5 bp):
AACAT
Found at i:2246513 original size:43 final size:43
Alignment explanation
Indices: 2246465--2246725 Score: 240
Period size: 43 Copynumber: 6.0 Consensus size: 43
2246455 ACAAGCTTAT
*
2246465 GGACCTCAATTATAAAGGTAAAAAGTAAGATTAAAAAAATTAG
1 GGACCTCAATTATAAAGGTAAAAAATAAGATTAAAAAAATTAG
* * * * *
2246508 GGACCTTAATTATAAAGGTAGAAAGTGAAG-TTGAAAAAACTAAG
1 GGACCTCAATTATAAAGGTAAAAAAT-AAGATT-AAAAAAATTAG
** * * *
2246552 GGGTCTCAATTATAAAGTTTAAAAATGAGATTAAAAAAATTAGG
1 GGACCTCAATTATAAAGGTAAAAAATAAGATTAAAAAAATTA-G
* ** * ** *
2246596 GGA-CTCAATTATTAAGGTAAAAAATGTGACTGGAATAATTAG
1 GGACCTCAATTATAAAGGTAAAAAATAAGATTAAAAAAATTAG
* * * * *
2246638 AGACTTCAATTATAAAGTTAAAAATTGAGATTAAAAAAATTA-
1 GGACCTCAATTATAAAGGTAAAAAATAAGATTAAAAAAATTAG
* *
2246680 GAACCTCAATTATAAAGGTAAAAAAATAAGATTTAAAAAATTAG
1 GGACCTCAATTATAAAGGT-AAAAAATAAGATTAAAAAAATTAG
2246724 GG
1 GG
2246726 GCCCTAGTTA
Statistics
Matches: 170, Mismatches: 41, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
42 18 0.11
43 115 0.68
44 37 0.22
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.26
Consensus pattern (43 bp):
GGACCTCAATTATAAAGGTAAAAAATAAGATTAAAAAAATTAG
Found at i:2246590 original size:87 final size:84
Alignment explanation
Indices: 2246469--2246703 Score: 253
Period size: 87 Copynumber: 2.8 Consensus size: 84
2246459 GCTTATGGAC
* * * *
2246469 CTCAATTATAAAGGTAAAAAGTAAGATTAAAAAAATTAGGGACCTTAATTATAAAGGTAGAAA-G
1 CTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATTAGGGACCTCAATTATAAAGGTAAAAATG
* * *
2246533 TGAAGTTGAAAAAACTAAGGGGT
66 TG-A-CTGAAAAAA-TAA-GAGA
*
2246556 CTCAATTATAAAGTTTAAAAA-TGAGATTAAAAAAATTAGGGGA-CTCAATTATTAAGGTAAAAA
1 CTCAATTATAAAG-TTAAAAAGTGAGATTAAAAAAATTA-GGGACCTCAATTATAAAGGT-AAAA
* * *
2246619 ATGTGACTGGAATAATTAGAGA
63 ATGTGACTGAAAAAATAAGAGA
* *
2246641 CTTCAATTATAAAGTTAAAAATTGAGATTAAAAAAATTA-GAACCTCAATTATAAAGGTAAAAA
1 C-TCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATTAGGGACCTCAATTATAAAGGTAAAAA
2246704 AATAAGATTT
Statistics
Matches: 128, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
84 7 0.05
85 24 0.19
86 31 0.24
87 48 0.38
88 15 0.12
89 3 0.02
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (84 bp):
CTCAATTATAAAGTTAAAAAGTGAGATTAAAAAAATTAGGGACCTCAATTATAAAGGTAAAAATG
TGACTGAAAAAATAAGAGA
Found at i:2249752 original size:2 final size:2
Alignment explanation
Indices: 2249745--2249777 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2249735 TATTTTTGGG
*
2249745 TC TC TC TC TC TC TC TC TC TC TC TC TA TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2249778 TATATTGTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.03, C:0.45, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2255621 original size:2 final size:2
Alignment explanation
Indices: 2255614--2255644 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2255604 GAGTTCTTTA
2255614 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
2255645 AATAAAAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2258630 original size:2 final size:2
Alignment explanation
Indices: 2258619--2258655 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
2258609 ATCTTGTTTT
2258619 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2258656 ATTATCTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2259047 original size:23 final size:23
Alignment explanation
Indices: 2259017--2259064 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
2259007 AACGTCCTAC
* *
2259017 TCCGATATGACTTGATTGATGGA
1 TCCGATATGAATTGATTGACGGA
2259040 TCCGATATGAATTGATTGACGGA
1 TCCGATATGAATTGATTGACGGA
2259063 TC
1 TC
2259065 AAGACATCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (23 bp):
TCCGATATGAATTGATTGACGGA
Found at i:2261811 original size:46 final size:44
Alignment explanation
Indices: 2261712--2261832 Score: 147
Period size: 46 Copynumber: 2.7 Consensus size: 44
2261702 AATTGCATTG
*
2261712 AGTACATAGTAGAGTGTTTATGGTACTATTGTATGCAGTTACATT
1 AGTACATAGTAGAGTGTTTATGGTACTATTGTATGCAGATACA-T
*
2261757 GAGTACATAGTAGAGTGTTTATGGTACTATTGTAATATCAAGAATACA-
1 -AGTACATAGTAGAGTGTTTATGGTACTATTGT-AT-GC-AG-ATACAT
*
2261805 AG-ACATAGTAGAGTGTTTATGATACTAT
1 AGTACATAGTAGAGTGTTTATGGTACTAT
2261833 GATATTCTTG
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
46 57 0.84
47 4 0.06
48 1 0.01
49 2 0.03
50 4 0.06
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.36
Consensus pattern (44 bp):
AGTACATAGTAGAGTGTTTATGGTACTATTGTATGCAGATACAT
Found at i:2263182 original size:20 final size:20
Alignment explanation
Indices: 2263154--2263192 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2263144 GGTGTTTATA
*
2263154 TTAAAGTTAAAATTTAAATT
1 TTAAAGTTAAAATTAAAATT
*
2263174 TTAATGTTAAAATTAAAAT
1 TTAAAGTTAAAATTAAAAT
2263193 AAATTAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAAAGTTAAAATTAAAATT
Found at i:2264014 original size:15 final size:15
Alignment explanation
Indices: 2263980--2264021 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
2263970 TTGTTATACT
*
2263980 TATAT-ATGTGTATA
1 TATATAATGTTTATA
2263994 TATATAAT-TTTATA
1 TATATAATGTTTATA
2264008 TTATATAATGTTTA
1 -TATATAATGTTTA
2264022 CTTTGTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.42
15 10 0.42
16 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
TATATAATGTTTATA
Found at i:2265007 original size:65 final size:65
Alignment explanation
Indices: 2264918--2265074 Score: 251
Period size: 65 Copynumber: 2.4 Consensus size: 65
2264908 AGAACGGGAT
* *
2264918 CAGTTGCAGATGCAGGACTTGAGTCTTAAATAAACCCTTAGTTGTTAGCCGGGAAAAAAGTGAAC
1 CAGTTGCAGATGCAGGACTTGAGTCTTAAATAAACCCTTAGTTGTAAACCGGGAAAAAAGTGAAC
* *
2264983 CAGTTGCAGATGCAGGACTTGAGTCTTAAATAAGCCCTTAGTTGTAAACCGGGAAATAAGTGAAC
1 CAGTTGCAGATGCAGGACTTGAGTCTTAAATAAACCCTTAGTTGTAAACCGGGAAAAAAGTGAAC
* *
2265048 CAGTTGCAGATGCTGGTATTTGAGTCT
1 CAGTTGCAGATGCAGG-ACTTGAGTCT
2265075 CGAACGCATT
Statistics
Matches: 85, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
65 76 0.89
66 9 0.11
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (65 bp):
CAGTTGCAGATGCAGGACTTGAGTCTTAAATAAACCCTTAGTTGTAAACCGGGAAAAAAGTGAAC
Found at i:2268447 original size:17 final size:18
Alignment explanation
Indices: 2268421--2268454 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2268411 GAATCTGATC
*
2268421 TGAAATAAATAT-ATTTA
1 TGAAAAAAATATCATTTA
2268438 TGAAAAAAATATCATTT
1 TGAAAAAAATATCATTT
2268455 TTATTCAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (18 bp):
TGAAAAAAATATCATTTA
Found at i:2268762 original size:2 final size:2
Alignment explanation
Indices: 2268755--2268799 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2268745 ATAATAAAAT
2268755 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2268797 TA T
1 TA T
2268800 TGATTAAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2274636 original size:2 final size:2
Alignment explanation
Indices: 2274597--2274621 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2274587 GATGTGTAAG
2274597 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2274622 CACAAAAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2279992 original size:10 final size:10
Alignment explanation
Indices: 2279977--2280007 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2279967 TTCTTTCAAA
*
2279977 GAGCCGAGCC
1 GAGCCGAGAC
2279987 GAGCCGAGAC
1 GAGCCGAGAC
2279997 GAGCCGAGAC
1 GAGCCGAGAC
2280007 G
1 G
2280008 GACGGCGGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.32, G:0.42, T:0.00
Consensus pattern (10 bp):
GAGCCGAGAC
Found at i:2284129 original size:41 final size:40
Alignment explanation
Indices: 2284082--2284208 Score: 132
Period size: 40 Copynumber: 3.1 Consensus size: 40
2284072 TTTGTTGTTC
* *
2284082 ACAAACAACCCTAAAGGTTATGTTTTTTAGCGGTGTTTTTT
1 ACAAAC-ACCCTAAAGGTTATGATATTTAGCGGTGTTTTTT
* * *
2284123 ACAAACACCGCTAAAGGTAATGATATATAGCGG-CTTTTTT
1 ACAAACACC-CTAAAGGTTATGATATTTAGCGGTGTTTTTT
* * *
2284163 ACAAACGCTGCTAAAGG-TATGACATTTAGCGGTGTTTTTT
1 ACAAACAC-CCTAAAGGTTATGATATTTAGCGGTGTTTTTT
*
2284203 CCAAAC
1 ACAAAC
2284209 GTCGCTATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
39 12 0.17
40 34 0.48
41 25 0.35
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (40 bp):
ACAAACACCCTAAAGGTTATGATATTTAGCGGTGTTTTTT
Found at i:2284193 original size:39 final size:41
Alignment explanation
Indices: 2284107--2284215 Score: 141
Period size: 40 Copynumber: 2.7 Consensus size: 41
2284097 GGTTATGTTT
* *
2284107 TTTAGCGGTGTTTTTTACAAACACCGCTAAAGGTAATGATA
1 TTTAGCGGTGTTTTTTACAAACGCCGCTAAAGGTAATGACA
* * *
2284148 TATAGCGG-CTTTTTTACAAACGCTGCTAAAGGT-ATGACA
1 TTTAGCGGTGTTTTTTACAAACGCCGCTAAAGGTAATGACA
* *
2284187 TTTAGCGGTGTTTTTTCCAAACGTCGCTA
1 TTTAGCGGTGTTTTTTACAAACGCCGCTA
2284216 TTTATCTTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
39 12 0.21
40 38 0.67
41 7 0.12
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (41 bp):
TTTAGCGGTGTTTTTTACAAACGCCGCTAAAGGTAATGACA
Found at i:2284329 original size:44 final size:44
Alignment explanation
Indices: 2284231--2284330 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
2284221 CTTTTCTTTT
* * **
2284231 GTGGCGTTT-TGTCCCAAAAACGCTGCTAAATGTTCTGACATATA
1 GTGGCGTTTGT-TCCCAAAAACGCCGCAAAATGTAATGACATATA
* *
2284275 GTGGCATTTGTTCCCAAAAACGCCGCAAAATGTAATGTCATATA
1 GTGGCGTTTGTTCCCAAAAACGCCGCAAAATGTAATGACATATA
2284319 GTGGCGTTTGTT
1 GTGGCGTTTGTT
2284331 AATGTAAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (44 bp):
GTGGCGTTTGTTCCCAAAAACGCCGCAAAATGTAATGACATATA
Found at i:2286673 original size:81 final size:79
Alignment explanation
Indices: 2286471--2286734 Score: 248
Period size: 81 Copynumber: 3.3 Consensus size: 79
2286461 GTGATGTATG
* * * * * *
2286471 TAAAAACGCCGCTAAAGTACTACTCTGTTGTGGCGTTTGTTGAGAAAATGTCAGTATAGATGAAC
1 TAAAAACACCGCTAAAGTACTACT-TG-TGAGGCGTTTGTT-AAAAAACGCCACTATAGATG-AC
* *
2286536 CCTATTATGGCATTTGTA
62 CCTATTGTGGCGTTTGTA
* *
2286554 T--AAACGA-TGCTAAAGTACTACTT-TGCGGCGTTTGTTAAAAAACGCCACTATAGATGACCCT
1 TAAAAAC-ACCGCTAAAGTACTACTTGTGAGGCGTTTGTTAAAAAACGCCACTATAGATGACCCT
*
2286615 ATTGTGGCGTTTATA
65 ATTGTGGCGTTTGTA
* * * **
2286630 TAAAAACACCGCTAAAGTACTACTATGTCGAGGCATTTGTTAAAAAACGCCACTATGGATAAATC
1 TAAAAACACCGCTAAAGTACTACT-TGT-GAGGCGTTTGTTAAAAAACGCCACTATAGATGACCC
**
2286695 TATTGTAACGTTTGTA
64 TATTGTGGCGTTTGTA
** *
2286711 TAAAAATGCCGTTAAAGTACTACT
1 TAAAAACACCGCTAAAGTACTACT
2286735 CTATCGCGGT
Statistics
Matches: 151, Mismatches: 23, Indels: 16
0.79 0.12 0.08
Matches are distributed among these distances:
76 18 0.12
77 17 0.11
78 30 0.20
79 1 0.01
80 2 0.01
81 82 0.54
83 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (79 bp):
TAAAAACACCGCTAAAGTACTACTTGTGAGGCGTTTGTTAAAAAACGCCACTATAGATGACCCTA
TTGTGGCGTTTGTA
Found at i:2291972 original size:24 final size:24
Alignment explanation
Indices: 2291944--2291991 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
2291934 CTTCTCCACC
2291944 GAACAGTCCACGTTTCTACCAGCT
1 GAACAGTCCACGTTTCTACCAGCT
*
2291968 GAACAGTCCACGTTTCTACTAGCT
1 GAACAGTCCACGTTTCTACCAGCT
2291992 CCCTCAAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (24 bp):
GAACAGTCCACGTTTCTACCAGCT
Found at i:2293594 original size:36 final size:36
Alignment explanation
Indices: 2293547--2293653 Score: 196
Period size: 36 Copynumber: 3.0 Consensus size: 36
2293537 TGTTATCACT
* *
2293547 TCAGTCTAACACACTGATGGTCTTTGGTTCATGTCG
1 TCAGTCTAACACACTAAAGGTCTTTGGTTCATGTCG
2293583 TCAGTCTAACACACTAAAGGTCTTTGGTTCATGTCG
1 TCAGTCTAACACACTAAAGGTCTTTGGTTCATGTCG
2293619 TCAGTCTAACACACTAAAGGTCTTTGGTTCATGTC
1 TCAGTCTAACACACTAAAGGTCTTTGGTTCATGTC
2293654 CGGGTGACGC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (36 bp):
TCAGTCTAACACACTAAAGGTCTTTGGTTCATGTCG
Found at i:2301899 original size:18 final size:18
Alignment explanation
Indices: 2301876--2301913 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2301866 AAGGTGGTGT
2301876 TCGCAATGAAAAGGATGA
1 TCGCAATGAAAAGGATGA
*
2301894 TCGCAATGAACAGGATGA
1 TCGCAATGAAAAGGATGA
2301912 TC
1 TC
2301914 AATCTGGGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.16, G:0.26, T:0.18
Consensus pattern (18 bp):
TCGCAATGAAAAGGATGA
Found at i:2306614 original size:32 final size:30
Alignment explanation
Indices: 2306577--2306658 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 30
2306567 AAATCATTTT
* *
2306577 TAATATTTGTTATTAGGGGTTCAATTTGTTC
1 TAATATTTATTATTAGGGGTT-AATTTCTTC
* *
2306608 ATAATATTTATTATTATGGGCTTAGTTTCTTC
1 -TAATATTTATTATTA-GGGGTTAATTTCTTC
*
2306640 GAATATTTATTATTAGGGG
1 TAATATTTATTATTAGGGG
2306659 CCTACTCTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
30 3 0.07
31 14 0.33
32 21 0.49
33 5 0.12
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (30 bp):
TAATATTTATTATTAGGGGTTAATTTCTTC
Found at i:2307295 original size:28 final size:29
Alignment explanation
Indices: 2307245--2307309 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 29
2307235 TTTCTAGCAT
2307245 TTGTTATCAAAGGCATAATTTTTCAATAC
1 TTGTTATCAAAGGCATAATTTTTCAATAC
* *
2307274 TTGTTATC-AAGGCTCTAATTTTTCAATAT
1 TTGTTATCAAAGGC-ATAATTTTTCAATAC
2307303 TTGTTAT
1 TTGTTAT
2307310 TAGAGATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.29, C:0.12, G:0.11, T:0.48
Consensus pattern (29 bp):
TTGTTATCAAAGGCATAATTTTTCAATAC
Found at i:2307395 original size:28 final size:29
Alignment explanation
Indices: 2307363--2307419 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2307353 TTGTTAGGAT
2307363 TCTAA-TTTTTCAATACTTTTTATTAGGG
1 TCTAACTTTTTCAATACTTTTTATTAGGG
*
2307391 TCTAACTTTTTTAATACTTTTTATTAGGG
1 TCTAACTTTTTCAATACTTTTTATTAGGG
2307420 GCATACTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 5 0.19
29 22 0.81
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.54
Consensus pattern (29 bp):
TCTAACTTTTTCAATACTTTTTATTAGGG
Found at i:2307442 original size:105 final size:105
Alignment explanation
Indices: 2307260--2307451 Score: 246
Period size: 105 Copynumber: 1.8 Consensus size: 105
2307250 ATCAAAGGCA
* * *
2307260 TAATTTTTCAATACTTGTTATCAAGGCTCTAATTTTTCAATATTTGTTATTAGAGATATGCTTTT
1 TAATTTTTCAATACTTGTTATCAAGGCTCTAATTTTTCAATATTTGTTATTAGAGACATACTTCT
*
2307325 TAAAATTCATTTTTTAATATTTTTGTTGTTGTTAGGATTC
66 TAAAATTAATTTTTTAATATTTTTGTTGTTGTTAGGATTC
* * * * * *
2307365 TAATTTTTCAATACTTTTTAT-TAGGGTCTAACTTTTTTAATACTTT-TTATTAGGGGCATAC-T
1 TAATTTTTCAATACTTGTTATCAAGGCTCTAA-TTTTTCAATA-TTTGTTATTAGAGACATACTT
2307427 CTTAAAATTTAATTTTTTAATATTT
64 CTTAAAA-TTAATTTTTTAATATTT
2307452 GTTATTAGGG
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
104 15 0.20
105 56 0.76
106 3 0.04
ACGTcount: A:0.28, C:0.09, G:0.10, T:0.54
Consensus pattern (105 bp):
TAATTTTTCAATACTTGTTATCAAGGCTCTAATTTTTCAATATTTGTTATTAGAGACATACTTCT
TAAAATTAATTTTTTAATATTTTTGTTGTTGTTAGGATTC
Found at i:2308413 original size:11 final size:11
Alignment explanation
Indices: 2308383--2308420 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2308373 ATTAATTTTC
*
2308383 TAATAAATAGT
1 TAATAAATAAT
2308394 TAA-AAATAAT
1 TAATAAATAAT
*
2308404 AAATAAATAAT
1 TAATAAATAAT
2308415 TAATAA
1 TAATAA
2308421 TTATTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (11 bp):
TAATAAATAAT
Found at i:2308808 original size:68 final size:67
Alignment explanation
Indices: 2308657--2308814 Score: 194
Period size: 67 Copynumber: 2.4 Consensus size: 67
2308647 GGTGGGAAAT
* * * * *
2308657 AAGCTTAA-GAGCAACGAATCGAGCAACAATTTTTTTTAACGATCATGAGTCGAGTGAAAATTTA
1 AAGCTTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAACGAACATGAGTCGAGTAAAAATTTA
2308721 AC
66 AC
* * * *
2308723 AAGCTTAGCGAGTAACGAGGCGAGCAACAAATTTTCTTAACGAACATGAGTTGAG-AAAAAGTTT
1 AAGCTTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAACGAACATGAGTCGAGTAAAAA--TT
2308787 TAAC
64 TAAC
*
2308791 GAGCTTAACGAGCAACGAGTCGAG
1 AAGCTTAACGAGCAACGAGTCGAG
2308815 TACTGCCCAA
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
66 11 0.14
67 39 0.51
68 26 0.34
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (67 bp):
AAGCTTAACGAGCAACGAGTCGAGCAACAAATTTTCTTAACGAACATGAGTCGAGTAAAAATTTA
AC
Found at i:2311314 original size:22 final size:22
Alignment explanation
Indices: 2311289--2311338 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
2311279 CGGTTTGCTC
2311289 GGAGTTTGGGTTGCGATGATGT
1 GGAGTTTGGGTTGCGATGATGT
2311311 GGAGTTTGGGTTGCGATGATGT
1 GGAGTTTGGGTTGCGATGATGT
2311333 GGAGTT
1 GGAGTT
2311339 CAGCCCCGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.14, C:0.04, G:0.46, T:0.36
Consensus pattern (22 bp):
GGAGTTTGGGTTGCGATGATGT
Found at i:2313860 original size:77 final size:77
Alignment explanation
Indices: 2313765--2313914 Score: 219
Period size: 77 Copynumber: 1.9 Consensus size: 77
2313755 TTTTCTCCAG
* *
2313765 TAATTGTTATATGCATTTATATATTCAAATTCTTTATTGTCGACTATGCACTAATATTCGATCTC
1 TAATTGTTATATGCATTTATATATGCAAATTCTTTATTGTCGACTATGCACCAATATTCGATCTC
2313830 ATGTTAATTCTT
66 ATGTTAATTCTT
* * * * * * *
2313842 TAATTGTTATATGTATTTATATATGCAAATTCTTTATTGTTGATTGTGCACCAATTTTCGGTTTC
1 TAATTGTTATATGCATTTATATATGCAAATTCTTTATTGTCGACTATGCACCAATATTCGATCTC
2313907 ATGTTAAT
66 ATGTTAAT
2313915 CTGATGAGTG
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 64 1.00
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.49
Consensus pattern (77 bp):
TAATTGTTATATGCATTTATATATGCAAATTCTTTATTGTCGACTATGCACCAATATTCGATCTC
ATGTTAATTCTT
Found at i:2325236 original size:35 final size:34
Alignment explanation
Indices: 2325197--2325301 Score: 78
Period size: 35 Copynumber: 3.1 Consensus size: 34
2325187 TGGTTGTGCT
2325197 ATGTTGTAAAGGTTTTGACATGTGGGATATGTTGA
1 ATGTTGT-AAGGTTTTGACATGTGGGATATGTTGA
** *
2325232 ATG-T-TAACTTTTTTGAAATATGTGGGATATGTTG-
1 ATGTTGTAA-GGTTTTG--ACATGTGGGATATGTTGA
* **
2325266 ATTTTGT--GGTTTTGACATGTTTG-TATGTTGA
1 ATGTTGTAAGGTTTTGACATGTGGGATATGTTGA
2325297 ATGTT
1 ATGTT
2325302 ATATTATTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
30 7 0.13
31 10 0.19
32 2 0.04
33 11 0.20
34 3 0.06
35 20 0.37
36 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.27, T:0.48
Consensus pattern (34 bp):
ATGTTGTAAGGTTTTGACATGTGGGATATGTTGA
Found at i:2326138 original size:29 final size:30
Alignment explanation
Indices: 2326077--2326143 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
2326067 AAAATGATGT
* *
2326077 TGTAGATATGGATAATGCTGAAAGTGGTGG
1 TGTAGAAATGGATAATGCTGAAAGTGGTAG
2326107 TGTAGAAAT-GATAATGCTGAAA-TGGGTAG
1 TGTAGAAATGGATAATGCTGAAAGT-GGTAG
*
2326136 TGTTGAAA
1 TGTAGAAA
2326144 GGGACAGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 24 0.73
30 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.33, T:0.30
Consensus pattern (30 bp):
TGTAGAAATGGATAATGCTGAAAGTGGTAG
Found at i:2339667 original size:2 final size:2
Alignment explanation
Indices: 2339660--2339692 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2339650 TAATAGTGTT
2339660 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2339693 TTTTCTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2339972 original size:23 final size:22
Alignment explanation
Indices: 2339935--2340000 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 22
2339925 ATATACTGAA
*
2339935 ATATGCTATGAAATATGTTAAGAT
1 ATATGCTA--AAATATGTTAAGAG
*
2339959 ATACTGTTAAAATATGTT--GAG
1 ATA-TGCTAAAATATGTTAAGAG
2339980 ATATGCTAAAATATGTTAAGA
1 ATATGCTAAAATATGTTAAGA
2340001 CCATTTGAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 13 0.36
21 5 0.14
22 2 0.06
23 9 0.25
24 3 0.08
25 4 0.11
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.36
Consensus pattern (22 bp):
ATATGCTAAAATATGTTAAGAG
Found at i:2339976 original size:10 final size:10
Alignment explanation
Indices: 2339945--2339998 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
2339935 ATATGCTATG
2339945 AAATATGTTA
1 AAATATGTTA
2339955 AGATATACTGTTA
1 A-A-ATA-TGTTA
*
2339968 AAATATGTTG
1 AAATATGTTA
* *
2339978 AGATATGCTA
1 AAATATGTTA
2339988 AAATATGTTA
1 AAATATGTTA
2339998 A
1 A
2339999 GACCATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
10 21 0.60
11 4 0.11
12 4 0.11
13 6 0.17
ACGTcount: A:0.44, C:0.04, G:0.15, T:0.37
Consensus pattern (10 bp):
AAATATGTTA
Found at i:2340890 original size:23 final size:24
Alignment explanation
Indices: 2340816--2340892 Score: 120
Period size: 24 Copynumber: 3.2 Consensus size: 24
2340806 GAAGTGCCAT
*
2340816 GTAGAATTTGTCCCGAAGGACCAC
1 GTAGAATTTGTCCCAAAGGACCAC
*
2340840 GTAGAATTTGTCCCAAAGGACCAA
1 GTAGAATTTGTCCCAAAGGACCAC
*
2340864 GTAGAA-TTGTCCCAAAGGACCGC
1 GTAGAATTTGTCCCAAAGGACCAC
2340887 GTAGAA
1 GTAGAA
2340893 CCTTCGACTC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 21 0.43
24 28 0.57
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (24 bp):
GTAGAATTTGTCCCAAAGGACCAC
Found at i:2346434 original size:15 final size:15
Alignment explanation
Indices: 2346414--2346445 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2346404 CAGGTGAATT
2346414 ACTATTTCCCTATTG
1 ACTATTTCCCTATTG
2346429 ACTATTTCCCTATTG
1 ACTATTTCCCTATTG
2346444 AC
1 AC
2346446 CATCTCCCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (15 bp):
ACTATTTCCCTATTG
Found at i:2346453 original size:15 final size:15
Alignment explanation
Indices: 2346420--2346453 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2346410 AATTACTATT
* *
2346420 TCCCTATTGACTATT
1 TCCCTATTGACCATC
2346435 TCCCTATTGACCATC
1 TCCCTATTGACCATC
2346450 TCCC
1 TCCC
2346454 ACTTCACTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.38, G:0.06, T:0.38
Consensus pattern (15 bp):
TCCCTATTGACCATC
Found at i:2347273 original size:23 final size:23
Alignment explanation
Indices: 2347242--2347303 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
2347232 TAATTTGCTT
*
2347242 AAAGGACCACGTAGAATTGTCCC
1 AAAGAACCACGTAGAATTGTCCC
* * *
2347265 GAAGAACCACATAGATTTGTCCC
1 AAAGAACCACGTAGAATTGTCCC
*
2347288 AAAGGACCACGTAGAA
1 AAAGAACCACGTAGAA
2347304 CCCTCAACTC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.16
Consensus pattern (23 bp):
AAAGAACCACGTAGAATTGTCCC
Found at i:2352601 original size:63 final size:63
Alignment explanation
Indices: 2352480--2352602 Score: 140
Period size: 63 Copynumber: 2.0 Consensus size: 63
2352470 TAATAACATC
* ** *
2352480 TTTTAATTTGAAATATTAAAAATATATAAGCATCTTTTATTATTAAAACTTAAGTAGATATTA
1 TTTTAATTTAAAATATTAAAAATATATAAGCATCTTTTAAAATTAAAACTTAAATAGATATTA
* * ** * *
2352543 TTTTAATTTAAAATATTTAAAAGTGTATAATTAT-TTTTAAAATTCAAAGTTAAATAGATA
1 TTTTAATTTAAAATA-TTAAAAATATATAAGCATCTTTTAAAATTAAAACTTAAATAGATA
2352603 ATAAATACAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
63 35 0.71
64 14 0.29
ACGTcount: A:0.46, C:0.03, G:0.07, T:0.45
Consensus pattern (63 bp):
TTTTAATTTAAAATATTAAAAATATATAAGCATCTTTTAAAATTAAAACTTAAATAGATATTA
Found at i:2358595 original size:18 final size:18
Alignment explanation
Indices: 2358572--2358644 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
2358562 TAGTGAAATA
2358572 TTAAATAAAGTAAAATGC
1 TTAAATAAAGTAAAATGC
* **
2358590 TTAAATAAATTAAATACATAATA
1 TTAAATAAAGT-AA-A-AT--GC
2358613 TTAAATAAAGTAAAATGC
1 TTAAATAAAGTAAAATGC
*
2358631 TTAAATAAATTAAA
1 TTAAATAAAGTAAA
2358645 TATATAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
18 23 0.53
19 2 0.05
20 3 0.07
21 3 0.07
22 2 0.05
23 10 0.23
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (18 bp):
TTAAATAAAGTAAAATGC
Found at i:2358613 original size:41 final size:41
Alignment explanation
Indices: 2358568--2358658 Score: 173
Period size: 41 Copynumber: 2.2 Consensus size: 41
2358558 ATATTAGTGA
2358568 AATATTAAATAAAGTAAAATGCTTAAATAAATTAAATACAT
1 AATATTAAATAAAGTAAAATGCTTAAATAAATTAAATACAT
*
2358609 AATATTAAATAAAGTAAAATGCTTAAATAAATTAAATATAT
1 AATATTAAATAAAGTAAAATGCTTAAATAAATTAAATACAT
2358650 AATATTAAA
1 AATATTAAA
2358659 AATATTATAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.33
Consensus pattern (41 bp):
AATATTAAATAAAGTAAAATGCTTAAATAAATTAAATACAT
Found at i:2358616 original size:23 final size:22
Alignment explanation
Indices: 2358590--2358658 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
2358580 AGTAAAATGC
2358590 TTAAATAAATTAAATACATAATA
1 TTAAATAAATTAAATA-ATAATA
* **
2358613 TTAAATAAAGT-AA-AAT--GC
1 TTAAATAAATTAAATAATAATA
2358631 TTAAATAAATTAAATATATAATA
1 TTAAATAAATTAAATA-ATAATA
2358654 TTAAA
1 TTAAA
2358659 AATATTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
18 10 0.29
19 2 0.06
20 3 0.09
21 3 0.09
22 2 0.06
23 15 0.43
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (22 bp):
TTAAATAAATTAAATAATAATA
Found at i:2358705 original size:10 final size:10
Alignment explanation
Indices: 2358686--2358716 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
2358676 CTTAAATAGA
*
2358686 GAGAGTATTT
1 GAGAGAATTT
2358696 GAGAGAATTT
1 GAGAGAATTT
2358706 GAGAGAATTT
1 GAGAGAATTT
2358716 G
1 G
2358717 GTGTGATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:2359721 original size:2 final size:2
Alignment explanation
Indices: 2359714--2359741 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2359704 ATTATAACTC
2359714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2359742 CATGATCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2363776 original size:42 final size:43
Alignment explanation
Indices: 2363717--2363802 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
2363707 TATGCTTACA
* * *
2363717 TCATTAAAAAATTTTATA-CCGTTAATATATATGTGCCCGCCC
1 TCATTAAAAAATTTTATATCCATTAACATATATGTGCCCACCC
*
2363759 TCATTCAAAAAA-TTTATATCTATTAACATATATGTGCCCACCC
1 TCATT-AAAAAATTTTATATCCATTAACATATATGTGCCCACCC
2363802 T
1 T
2363803 AAAAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 11 0.29
43 27 0.71
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (43 bp):
TCATTAAAAAATTTTATATCCATTAACATATATGTGCCCACCC
Found at i:2370447 original size:2 final size:2
Alignment explanation
Indices: 2370440--2370471 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2370430 CAAGTTAGGC
2370440 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2370472 GAATGATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2371795 original size:22 final size:23
Alignment explanation
Indices: 2371770--2371815 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
2371760 ATTTACTCAA
*
2371770 ACCTGATTTGAACCGAAT-ATTG
1 ACCTGATTTGAACCCAATAATTG
*
2371792 ACCTGATTTTAACCCAATAATTG
1 ACCTGATTTGAACCCAATAATTG
2371815 A
1 A
2371816 GTTAAAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (23 bp):
ACCTGATTTGAACCCAATAATTG
Found at i:2372012 original size:31 final size:29
Alignment explanation
Indices: 2371938--2372016 Score: 88
Period size: 31 Copynumber: 2.7 Consensus size: 29
2371928 CCTTCATTTC
* *
2371938 AAATTAGTCCCTAAACTTTGAAATATTTT
1 AAATTAGTCCTTAAACTTTGAAATATTCT
* *
2371967 AATTTCA-TCCTTAAACTTTGACTATTATTCT
1 AAATT-AGTCCTTAAACTTTGA--AATATTCT
2371998 AAATTAGTCCTTAAACTTT
1 AAATTAGTCCTTAAACTTT
2372017 TGAACATGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
29 17 0.41
30 2 0.05
31 22 0.54
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.44
Consensus pattern (29 bp):
AAATTAGTCCTTAAACTTTGAAATATTCT
Found at i:2372547 original size:22 final size:23
Alignment explanation
Indices: 2372497--2372547 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
2372487 TTTAATATGA
*
2372497 AAATAACTTATTTTTATAATACAT
1 AAATAACTTATTTTTACAATA-AT
2372521 AAATAACTTATTTTTACAAT-AT
1 AAATAACTTATTTTTACAATAAT
2372543 AAATA
1 AAATA
2372548 TATCTCTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.27
24 19 0.73
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATAACTTATTTTTACAATAAT
Found at i:2372880 original size:32 final size:32
Alignment explanation
Indices: 2372829--2372927 Score: 121
Period size: 31 Copynumber: 3.1 Consensus size: 32
2372819 GGGTCGAGTT
2372829 AATATCAGATTCGATTGATTTTTGGATCAT-GTC
1 AATATCAGA-TCGATTGATTTTTGGAT-ATGGTC
*
2372862 AATATCAGATCGATTGA-TTTTGGATTTGGTC
1 AATATCAGATCGATTGATTTTTGGATATGGTC
* * * *
2372893 AATGTCAGATCGATTCATTTTTGGTTAGGGTC
1 AATATCAGATCGATTGATTTTTGGATATGGTC
2372925 AAT
1 AAT
2372928 TCGGGTTGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
30 1 0.02
31 26 0.45
32 22 0.38
33 9 0.16
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.41
Consensus pattern (32 bp):
AATATCAGATCGATTGATTTTTGGATATGGTC
Found at i:2379822 original size:31 final size:31
Alignment explanation
Indices: 2379751--2379826 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
2379741 TTTGGGCCTG
**
2379751 AGAGCCTACCCAAGAAAGTTCTAGGGGTCAC
1 AGAGCCTACCCAAGAAAAATCTAGGGGTCAC
* * * *
2379782 AGGGACTACCTAAGAAAAATCTCA-GGGTCGC
1 AGAGCCTACCCAAGAAAAATCT-AGGGGTCAC
2379813 AGAGCCTACCCAAG
1 AGAGCCTACCCAAG
2379827 GGTCACCTTA
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.26, G:0.25, T:0.14
Consensus pattern (31 bp):
AGAGCCTACCCAAGAAAAATCTAGGGGTCAC
Found at i:2383064 original size:30 final size:30
Alignment explanation
Indices: 2383028--2383097 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
2383018 AATTACCCCA
*
2383028 TTCATACATGAA-GTATACCCAATTCTCAG-T
1 TTCATACATGAATGTATA-ACAATTCT-AGTT
*
2383058 TTCATACAT-AATGTTTAACAATTCTAGTT
1 TTCATACATGAATGTATAACAATTCTAGTT
2383087 TTCATACATGA
1 TTCATACATGA
2383098 TGTTTTATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 2 0.06
29 19 0.54
30 14 0.40
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.39
Consensus pattern (30 bp):
TTCATACATGAATGTATAACAATTCTAGTT
Found at i:2383089 original size:29 final size:29
Alignment explanation
Indices: 2383047--2383102 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
2383037 GAAGTATACC
2383047 CAATTCTCAGTTTCATACATAATGTTTAA
1 CAATTCTCAGTTTCATACATAATGTTTAA
*
2383076 CAATTCT-AGTTTTCATACATGATGTTT
1 CAATTCTCAG-TTTCATACATAATGTTT
2383103 TATACCGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.08
29 23 0.92
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.45
Consensus pattern (29 bp):
CAATTCTCAGTTTCATACATAATGTTTAA
Found at i:2393505 original size:14 final size:15
Alignment explanation
Indices: 2393481--2393510 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2393471 ATTTTTTAAA
2393481 AAAATAAATAAAATT
1 AAAATAAATAAAATT
2393496 AAAA-AAATAAAATT
1 AAAATAAATAAAATT
2393510 A
1 A
2393511 TATATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATAAATAAAATT
Found at i:2407369 original size:227 final size:228
Alignment explanation
Indices: 2406915--2407403 Score: 910
Period size: 228 Copynumber: 2.1 Consensus size: 228
2406905 GTTATATTGT
* * *
2406915 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
2406980 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAAT
66 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAAT
2407045 AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
131 AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
2407110 AAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
*
2407143 AAAGTA-ATATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
2407207 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
2407272 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
130 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
2407336 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
2407370 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
2407404 GTATAAAAGT
Statistics
Matches: 253, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
227 77 0.30
228 176 0.70
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAAT
AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:2407475 original size:20 final size:19
Alignment explanation
Indices: 2407452--2407498 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
2407442 CGATATACCA
2407452 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
2407472 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
2407492 GGTAAAA
1 GGTAAAA
2407499 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2407656 original size:20 final size:19
Alignment explanation
Indices: 2407633--2407679 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2407623 CGATATAACA
2407633 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
2407653 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
2407673 GGTAAAA
1 GGTAAAA
2407680 TGATACCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:2407681 original size:17 final size:19
Alignment explanation
Indices: 2407642--2407684 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
2407632 AGGTAAAAAT
2407642 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
2407662 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
2407679 ATGATA
1 ATGATA
2407685 CCGAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:2409920 original size:21 final size:21
Alignment explanation
Indices: 2409896--2409939 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2409886 AAGACAATCA
2409896 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
2409917 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
2409938 AG
1 AG
2409940 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:2410015 original size:33 final size:33
Alignment explanation
Indices: 2409973--2410038 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
2409963 AAATAGATGG
*
2409973 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
2410006 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2410039 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2411832 original size:19 final size:19
Alignment explanation
Indices: 2411808--2411855 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
2411798 AATGTAGGGT
2411808 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
2411827 TAA-TTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
2411845 TATTTTTGTAT
1 TAATTTTGTAT
2411856 GTGAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.56
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:2413152 original size:198 final size:200
Alignment explanation
Indices: 2411972--2413730 Score: 3146
Period size: 197 Copynumber: 8.9 Consensus size: 200
2411962 CAATATGGCC
* *
2411972 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCAATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
*
2412036 CCAAAAGTATAATGTAA-ATGTAATTTTTCAATCTAACCAGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
*
2412100 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTGTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
2412165 TGGAA
196 TGGAA
* *
2412170 AACAGGGTGCAACCAAAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
2412235 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
2412300 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
2412365 TGGAA
196 TGGAA
* * *
2412370 AACAGGGTACAACCATAAAGTGTCGATCCATGTATAAAAAGTGTCGATCCCAAAAACA-CGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
2412434 CCAAAAGTATAATGTAATATGTAA--TTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
2412497 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
2412562 TGGAA
196 TGGAA
* *
2412567 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
2412629 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
2412694 GAATATGTCTAAA-AATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
2412757 TGGAA
196 TGGAA
*
2412762 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
*
2412826 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTATAAGTTTACCGG-TTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
2412890 GAATA-GTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
2412954 TGGAA
196 TGGAA
* *
2412959 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
* *
2413024 CCAAAAGTATAATGTAATATGTAATTTTTCATTCTAACCAGTACAAGTTTA-CGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
2413088 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
2413152 TGGAA
196 TGGAA
2413157 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
*
2413222 CCAAAAGTATAATGTAATATGTAATTTTTCAATCAAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
2413287 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
2413352 TGGAA
196 TGGAA
2413357 AACAGGGTTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AA
1 AACAGGG-TGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAA
*
2413421 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAG
65 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAG
2413486 AGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGA
130 AGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGA
2413551 ATGGAA
195 ATGGAA
*
2413557 AACAGGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCG-AA
1 AACA-GGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAA
* *
2413619 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAG
65 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAG
2413684 AGAATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
130 AGAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
2413731 CTAATTTAAA
Statistics
Matches: 1515, Mismatches: 29, Indels: 35
0.96 0.02 0.02
Matches are distributed among these distances:
195 108 0.07
196 82 0.05
197 376 0.25
198 355 0.23
199 177 0.12
200 360 0.24
201 57 0.04
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGAA
Found at i:2415195 original size:6 final size:6
Alignment explanation
Indices: 2415171--2415262 Score: 76
Period size: 6 Copynumber: 15.3 Consensus size: 6
2415161 AGCGGTCGCA
* * * * * *
2415171 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * *
2415219 GGCGAT GAAGAT GATGAT GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
2415263 TGATCCAAAC
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.22
Consensus pattern (6 bp):
GAAGAT
Found at i:2415206 original size:3 final size:3
Alignment explanation
Indices: 2415186--2415266 Score: 81
Period size: 3 Copynumber: 27.0 Consensus size: 3
2415176 TGAAGCTGAC
* * * * * ** *
2415186 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
2415234 GAT GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
2415267 CCAAACAAGT
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.36, C:0.05, G:0.35, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:2415225 original size:36 final size:36
Alignment explanation
Indices: 2415174--2415250 Score: 127
Period size: 36 Copynumber: 2.1 Consensus size: 36
2415164 GGTCGCAGAA
2415174 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
* * *
2415210 GATGAAGCTGGCGATGAAGATGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
2415246 GATGA
1 GATGA
2415251 TGATGAAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGATGATGATGAC
Found at i:2415266 original size:12 final size:12
Alignment explanation
Indices: 2415174--2415262 Score: 97
Period size: 12 Copynumber: 7.4 Consensus size: 12
2415164 GGTCGCAGAA
*
2415174 GATGAAGCTGAC
1 GATGAAGATGAC
2415186 GATGAAGATGAC
1 GATGAAGATGAC
*
2415198 GATGATGATGAC
1 GATGAAGATGAC
* *
2415210 GATGAAGCTGGC
1 GATGAAGATGAC
*
2415222 GATGAAGATGAT
1 GATGAAGATGAC
* *
2415234 GATGATGATGAT
1 GATGAAGATGAC
* *
2415246 GATGATGATGAA
1 GATGAAGATGAC
2415258 GATGA
1 GATGA
2415263 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 67 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:2415266 original size:18 final size:18
Alignment explanation
Indices: 2415171--2415262 Score: 85
Period size: 18 Copynumber: 5.1 Consensus size: 18
2415161 AGCGGTCGCA
*
2415171 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
2415189 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
2415207 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* *
2415225 GAAGATGATGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
2415243 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
2415261 GA
1 GA
2415263 TGATCCAAAC
Statistics
Matches: 59, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 59 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.22
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:2417207 original size:183 final size:181
Alignment explanation
Indices: 2416739--2417587 Score: 1418
Period size: 183 Copynumber: 4.7 Consensus size: 181
2416729 GCAATGCTAT
* *
2416739 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTAATCTTG
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTAATATTG
* *
2416804 TGTCGGTACTTTATGTCCAGATTGGAA-AAAAATGTGTCGATACATTGTTAAAAAGTGTCGACAT
66 TGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTATCGACAT
* *
2416868 TTACACATCGGAACCCATAATTATAATGTAATAGATAA-ATTGTAATATAAC
130 TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
2416919 CGGTAT-AATATATCGG-TTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTAATATTG
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTAATATTG
*
2416982 TGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACAT
66 TGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTATCGACAT
*
2417047 TTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
2417099 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT-TAATATT
* * *
2417164 GTGCCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
65 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTATCGACA
* *
2417229 TTTACACATCGGAACCCATAATTATAATGTAATAGATAAATTTGTAATATAAC
129 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
2417282 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACAC-TTTTAATATT
*
2417347 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
65 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTATCGACA
* *
2417412 TTTACACAACGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
129 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
2417465 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT-TAATATT
*
2417530 GTGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
65 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGT
2417588 GTCGGTAATT
Statistics
Matches: 628, Mismatches: 30, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
178 72 0.11
179 75 0.12
180 27 0.04
181 9 0.01
182 44 0.07
183 394 0.63
184 7 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (181 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTAATATTG
TGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTATCGACATT
TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:2417414 original size:366 final size:362
Alignment explanation
Indices: 2416739--2417591 Score: 1568
Period size: 366 Copynumber: 2.4 Consensus size: 362
2416729 GCAATGCTAT
* * *
2416739 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT-TAATCTT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
2416803 GTGTCGGTACTTTATGTCCAGATTGGAA-AAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
*
2416867 TTTACACATCGGAACCCATAATTATAATGTAATAGATAAATTGTAATATAACCGGTATAATATAT
131 TTTACACATCGGAACCCATAATTATAATGTAATAGATAAATTGTAATATAACCGGTATAATATAC
2416932 CGGTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATG
196 CGGTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATG
*
2416997 TCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACC
261 TCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACAACGGAACC
2417062 CAGATTTATAATGTAATAGATAATTTTGTAATATAAC
326 CAGATTTATAATGTAATAGATAATTTTGTAATATAAC
2417099 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
*
2417164 GTGCCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
2417229 TTTACACATCGGAACCCATAATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATAT
131 TTTACACATCGGAACCCATAATTATAATGTAATAGATAAA-TTGTAATATAACCGGTAT-AATAT
2417294 ACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTT
194 ACCGG-TTTATGCGCGAATAGGTCTACAACCTATATCGACAC-TTTTAATATTGTGTCGGTACTT
2417359 TATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACAACGG
257 TATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACAACGG
2417424 AACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
322 AACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
2417465 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
* *
2417530 GTGTCGGTACTTTATGTCCAGATTAGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTTAAAAAGTGTCG
2417592 GTAATTTTAA
Statistics
Matches: 477, Mismatches: 9, Indels: 8
0.97 0.02 0.02
Matches are distributed among these distances:
360 55 0.12
361 33 0.07
362 76 0.16
363 18 0.04
364 9 0.02
365 36 0.08
366 246 0.52
367 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (362 bp):
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
TTTACACATCGGAACCCATAATTATAATGTAATAGATAAATTGTAATATAACCGGTATAATATAC
CGGTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTAATATTGTGTCGGTACTTTATG
TCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACAACGGAACC
CAGATTTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:2420082 original size:25 final size:25
Alignment explanation
Indices: 2420054--2420117 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
2420044 TTATCATTAA
2420054 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
***
2420079 ATTTAGGTATGT-TGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
2420103 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
2420118 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
24 20 0.62
25 12 0.38
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:2420489 original size:23 final size:23
Alignment explanation
Indices: 2420458--2420521 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
2420448 ATAGGTAAAC
*
2420458 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2420481 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
2420504 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2420522 TGGTATATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2420973 original size:18 final size:18
Alignment explanation
Indices: 2420952--2420988 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2420942 GTAATTGGAG
2420952 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
2420970 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2420988 T
1 T
2420989 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2420996 original size:24 final size:24
Alignment explanation
Indices: 2420944--2420990 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2420934 TTTCATATGT
* *
2420944 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
2420968 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
2420991 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:2421290 original size:39 final size:39
Alignment explanation
Indices: 2421247--2421333 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
2421237 TCCGATGCTC
* *
2421247 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
* *
2421286 ATCAAAATTCAAATCTCATATGATGCCAAACAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
2421325 ATCAAAATC
1 ATCAAAATC
2421334 TACTTGAGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.13, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAACAAAAGGAA
Found at i:2421775 original size:23 final size:23
Alignment explanation
Indices: 2421744--2421816 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2421734 ATAGGTAAAA
*
2421744 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2421767 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2421790 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2421813 ATAT
1 ATAT
2421817 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:2421854 original size:19 final size:19
Alignment explanation
Indices: 2421819--2421855 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2421809 GGTTATATTG
* *
2421819 TAAAGTGTCTATCCTTTTA
1 TAAAGTGTCCATACTTTTA
2421838 TAAAGTGTCCATACTTTT
1 TAAAGTGTCCATACTTTT
2421856 TTCACTGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (19 bp):
TAAAGTGTCCATACTTTTA
Found at i:2422195 original size:23 final size:23
Alignment explanation
Indices: 2422164--2422236 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
2422154 ATAGGTAAAA
*
2422164 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2422187 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
2422210 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
2422233 ATAT
1 ATAT
2422237 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Done.