Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 241 of 318
Found at i:76369580 original size:14 final size:14
Alignment explanation
Indices: 76369561--76369587 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76369551 TTTTGAAAAA
76369561 TAATAATAAAATTT
1 TAATAATAAAATTT
76369575 TAATAATAAAATT
1 TAATAATAAAATT
76369588 AAATAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAAAATTT
Found at i:76371160 original size:25 final size:25
Alignment explanation
Indices: 76371132--76371179 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
76371122 AAATAGAAGG
*
76371132 TTATTCTTATTAA-ATTTTAATAAGA
1 TTATTCTTA-AAATATTTTAATAAGA
*
76371157 TTATTGTTAAAATATTTTAATAA
1 TTATTCTTAAAATATTTTAATAA
76371180 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (25 bp):
TTATTCTTAAAATATTTTAATAAGA
Found at i:76371220 original size:60 final size:58
Alignment explanation
Indices: 76371156--76371280 Score: 146
Period size: 57 Copynumber: 2.1 Consensus size: 58
76371146 TTTTAATAAG
* * * *
76371156 ATTATTGTTAAA-ATATTTTAATAAAAATAAAAATAAATATTTTAATCATA-TTATAATATA
1 ATTATTATTAAATATAATTTAAT-AAAAT---AATAAATAATTTAATAATATTTATAATATA
* *
76371216 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAATATTTATAATATA
76371274 ATTATTA
1 ATTATTA
76371281 ATAATATTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
57 16 0.28
58 16 0.28
60 16 0.28
61 9 0.16
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (58 bp):
ATTATTATTAAATATAATTTAATAAAATAATAAATAATTTAATAATATTTATAATATA
Found at i:76371258 original size:12 final size:11
Alignment explanation
Indices: 76371229--76371314 Score: 67
Period size: 12 Copynumber: 7.8 Consensus size: 11
76371219 ATTATTAAAT
76371229 ATAATTTAATA
1 ATAATTTAATA
76371240 A-AA--TAATA
1 ATAATTTAATA
76371248 TATAATTTAATA
1 -ATAATTTAATA
*
76371260 ATATTTTTAAT-
1 ATA-ATTTAATA
76371271 ATAATTATTAATA
1 ATAA-T-TTAATA
76371284 AT-ATTTAATA
1 ATAATTTAATA
76371294 ATAATTTTAAT-
1 ATAA-TTTAATA
76371305 ATAATATTAA
1 ATAAT-TTAA
76371315 CAATTTATTT
Statistics
Matches: 62, Mismatches: 2, Indels: 22
0.72 0.02 0.26
Matches are distributed among these distances:
8 5 0.08
9 1 0.02
10 13 0.21
11 18 0.29
12 23 0.37
13 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATAATTTAATA
Found at i:76371285 original size:15 final size:15
Alignment explanation
Indices: 76371204--76371287 Score: 54
Period size: 15 Copynumber: 5.8 Consensus size: 15
76371194 ATTTTAATCA
76371204 TATT-ATAATATAAT
1 TATTAATAATATAAT
*
76371218 TATTATTAAATATAA-
1 TATTAAT-AATATAAT
*
76371233 T-TTAATAAAATAA-
1 TATTAATAATATAAT
*
76371246 TA-T-ATAATTTAAT
1 TATTAATAATATAAT
**
76371259 AATATTTTTAATATAAT
1 --TATTAATAATATAAT
76371276 TATTAATAATAT
1 TATTAATAATAT
76371288 TTAATAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
12 7 0.13
13 8 0.15
14 8 0.15
15 14 0.26
16 8 0.15
17 8 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TATTAATAATATAAT
Found at i:76371308 original size:24 final size:24
Alignment explanation
Indices: 76371243--76371312 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 24
76371233 TTTAATAAAA
*
76371243 TAATATATAA-TTTAATA-ATATTTT
1 TAATA-ATAATTTTAATATA-ATATT
76371267 TAAT-ATAATTATT-A-ATAATATT
1 TAATAATAATT-TTAATATAATATT
76371289 TAATAATAATTTTAATATAATATT
1 TAATAATAATTTTAATATAATATT
76371313 AACAATTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
22 15 0.38
23 10 0.26
24 14 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATAATAATTTTAATATAATATT
Found at i:76379517 original size:13 final size:13
Alignment explanation
Indices: 76379491--76379589 Score: 71
Period size: 13 Copynumber: 7.5 Consensus size: 13
76379481 ATTGGGTGAA
* *
76379491 AAATGAATAAATG
1 AAATGATTATATG
76379504 AAATGATTATATG
1 AAATGATTATATG
76379517 -AATCGATTATATGG
1 AAAT-GATTATAT-G
*
76379531 AAGTAGA-TATATG
1 AAAT-GATTATATG
*
76379544 AAATGGTTATATG
1 AAATGATTATATG
*
76379557 -AATCAGTTATATG
1 AAATGA-TTATATG
76379570 AAAATAGA-TATATG
1 -AAAT-GATTATATG
76379584 AAATGA
1 AAATGA
76379590 AACATTGGAT
Statistics
Matches: 69, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
12 9 0.13
13 40 0.58
14 12 0.17
15 7 0.10
16 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.18, T:0.32
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:76379556 original size:40 final size:40
Alignment explanation
Indices: 76379501--76379589 Score: 135
Period size: 40 Copynumber: 2.2 Consensus size: 40
76379491 AAATGAATAA
* *
76379501 ATGAAATGATTATATGAATC-GATTATATGGAAGTAGATAT
1 ATGAAATGATTATATGAATCAG-TTATATGAAAATAGATAT
*
76379541 ATGAAATGGTTATATGAATCAGTTATATGAAAATAGATAT
1 ATGAAATGATTATATGAATCAGTTATATGAAAATAGATAT
76379581 ATGAAATGA
1 ATGAAATGA
76379590 AACATTGGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.34
Consensus pattern (40 bp):
ATGAAATGATTATATGAATCAGTTATATGAAAATAGATAT
Found at i:76380538 original size:30 final size:30
Alignment explanation
Indices: 76380512--76380574 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
76380502 CACATGATCG
76380512 TGTGTCACACACGATTGTTTGGCATGACCA
1 TGTGTCACACACGATTGTTTGGCATGACCA
* * *
76380542 TGTGTCACATACGGTTGTTTGGCACGACCA
1 TGTGTCACACACGATTGTTTGGCATGACCA
76380572 TGT
1 TGT
76380575 AGCTTATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.32
Consensus pattern (30 bp):
TGTGTCACACACGATTGTTTGGCATGACCA
Found at i:76381430 original size:15 final size:16
Alignment explanation
Indices: 76381420--76381457 Score: 62
Period size: 14 Copynumber: 2.5 Consensus size: 16
76381410 AAAGTAAGTG
76381420 ATGTTAAAGTAGAGAT
1 ATGTTAAAGTAGAGAT
76381436 ATGTTAAA-TAGA-AT
1 ATGTTAAAGTAGAGAT
76381450 ATGTTAAA
1 ATGTTAAA
76381458 AGAAGGCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.45
15 4 0.18
16 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.34
Consensus pattern (16 bp):
ATGTTAAAGTAGAGAT
Found at i:76390466 original size:15 final size:15
Alignment explanation
Indices: 76390446--76390475 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
76390436 AAGATGATTG
76390446 CCTTAACATTTTTAA
1 CCTTAACATTTTTAA
76390461 CCTTAACATTTTTAA
1 CCTTAACATTTTTAA
76390476 ACATTACATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.00, T:0.47
Consensus pattern (15 bp):
CCTTAACATTTTTAA
Found at i:76390484 original size:15 final size:16
Alignment explanation
Indices: 76390448--76390490 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
76390438 GATGATTGCC
*
76390448 TTAACATTTTT-AACC
1 TTAACATTTTTAAACA
76390463 TTAACATTTTTAAACA
1 TTAACATTTTTAAACA
76390479 TT-ACATTGTTTA
1 TTAACATT-TTTA
76390491 TTCATTTAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 16 0.64
16 9 0.36
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAACATTTTTAAACA
Found at i:76392831 original size:74 final size:74
Alignment explanation
Indices: 76392663--76392859 Score: 216
Period size: 74 Copynumber: 2.7 Consensus size: 74
76392653 AGACCCAAAA
* * * * *
76392663 AAATGATATTATTGTAAGAGAGCCACAAACCCTGAATACATTAATTTTCGTAAACCGTAATTCAA
1 AAATGATATTATTGTGAGACAACCACAAACCCTGAAAACATTAATTTTCATAAACCGTAATTCAA
76392728 ACATGAAAG
66 ACATGAAAG
* * * ** * * **
76392737 AAATTACATTGTTG-GTAGACAACCATGAACCCTAAAAACATTAATTTTCATATATTGTAATTCA
1 AAATGATATTATTGTG-AGACAACCACAAACCCTGAAAACATTAATTTTCATAAACCGTAATTCA
*
76392801 GACATGAAAG
65 AACATGAAAG
* * *
76392811 AGATGATATTATTGTGAGACAACCACAAATCCTGAAAACATTAGTTTTC
1 AAATGATATTATTGTGAGACAACCACAAACCCTGAAAACATTAATTTTC
76392860 GTGGACTTTA
Statistics
Matches: 97, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
74 96 0.99
75 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (74 bp):
AAATGATATTATTGTGAGACAACCACAAACCCTGAAAACATTAATTTTCATAAACCGTAATTCAA
ACATGAAAG
Found at i:76392917 original size:63 final size:63
Alignment explanation
Indices: 76392818--76392943 Score: 198
Period size: 63 Copynumber: 2.0 Consensus size: 63
76392808 AAGAGATGAT
* * * *
76392818 ATTATTGTGAGACAACCACAAATCCTGAAAACATTAGTTTTCGTGGACTTTAAAATGAATATA
1 ATTATTGTGAAACAACCACAAACCCTGAAAACATTAGTTTCCATGGACTTTAAAATGAATATA
* *
76392881 ATTATTGTGAAACAATCACAAACCCTGAAAACATTAGTTTCCATGGGCTTTAAAATGAATATA
1 ATTATTGTGAAACAACCACAAACCCTGAAAACATTAGTTTCCATGGACTTTAAAATGAATATA
76392944 GAGGAATGGC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 57 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.31
Consensus pattern (63 bp):
ATTATTGTGAAACAACCACAAACCCTGAAAACATTAGTTTCCATGGACTTTAAAATGAATATA
Found at i:76395956 original size:30 final size:30
Alignment explanation
Indices: 76395890--76395956 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 30
76395880 GTTATTGCTT
76395890 TAATATAAATATATATAATTATTATTTAACA
1 TAATAT-AATATATATAATTATTATTTAACA
*
76395921 T-ATATAATA-ATATAA-TATTTTTTATAACA
1 TAATATAATATATATAATTA-TTATT-TAACA
76395950 TAATATA
1 TAATATA
76395957 TTTGAGTCGG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 2 0.06
28 10 0.31
29 10 0.31
30 9 0.28
31 1 0.03
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (30 bp):
TAATATAATATATATAATTATTATTTAACA
Found at i:76399354 original size:99 final size:99
Alignment explanation
Indices: 76399183--76399383 Score: 321
Period size: 99 Copynumber: 2.0 Consensus size: 99
76399173 CTCAAATATA
* * *
76399183 AATTACATTATTTTAAATTTTAAATTTATATTTCCCTAGCCCAAACCCATTTAAGCTTTTACTTT
1 AATTACATTATTTTAAAATTTAAATTTATATTACCCAAGCCCAAACCCATTTAAGCTTTTACTTT
*
76399248 ACCTCATTTCCCCCCAAAGCCTGTTTGCCTCACC
66 ACCTCATTTCCCCCCAAAGCCTGTTTGCCCCACC
* * * * *
76399282 AATTATATTATTTTAAAATTTAAATTTATATTACCCAAGCTCAAACGCTTTTAGGCTTTTACTTT
1 AATTACATTATTTTAAAATTTAAATTTATATTACCCAAGCCCAAACCCATTTAAGCTTTTACTTT
76399347 ACCTCATTTCCCCCCAAAGCCTGTTTGCCCCACC
66 ACCTCATTTCCCCCCAAAGCCTGTTTGCCCCACC
76399381 AAT
1 AAT
76399384 CCACTTTCCC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.28, C:0.27, G:0.06, T:0.39
Consensus pattern (99 bp):
AATTACATTATTTTAAAATTTAAATTTATATTACCCAAGCCCAAACCCATTTAAGCTTTTACTTT
ACCTCATTTCCCCCCAAAGCCTGTTTGCCCCACC
Found at i:76399513 original size:38 final size:39
Alignment explanation
Indices: 76399440--76399529 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 39
76399430 TCATCCATTC
* *
76399440 AATTCAAACCCCAAATCTATTCTTTTTCTTCAAAAAACCTTA
1 AATT-AAACCCCAAATCTA-T-TTTTTCTTAAAAAAACCCTA
*
76399482 AATTAAACCCCAAATCTA-TTTTTCTTAAAAAATCCCTA
1 AATTAAACCCCAAATCTATTTTTTCTTAAAAAAACCCTA
76399520 AATTAAACCC
1 AATTAAACCC
76399530 TCTATTTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 27 0.60
41 14 0.31
42 4 0.09
ACGTcount: A:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (39 bp):
AATTAAACCCCAAATCTATTTTTTCTTAAAAAAACCCTA
Found at i:76401881 original size:56 final size:56
Alignment explanation
Indices: 76401795--76401908 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
76401785 CGAATCAGGT
* *
76401795 ATGTTTCAAGCCCTAGCTAAACAACATGCTTTCGAATTAGTATGGTTGATTGATTA
1 ATGTTTCAAGCCCTAGCTAAACAACATGCTTCCAAATTAGTATGGTTGATTGATTA
76401851 ATGTTTCAAGCCCTAGCTAAACAACATGCTTCCAAATTAGTATGGTTGATTGATTA
1 ATGTTTCAAGCCCTAGCTAAACAACATGCTTCCAAATTAGTATGGTTGATTGATTA
76401907 AT
1 AT
76401909 TGTATGGTTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (56 bp):
ATGTTTCAAGCCCTAGCTAAACAACATGCTTCCAAATTAGTATGGTTGATTGATTA
Found at i:76403322 original size:40 final size:39
Alignment explanation
Indices: 76403230--76403324 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 39
76403220 ACCAACTTTG
* *
76403230 TCCAACCCTACACACC-ATGTAGGGATAAAATCGACTCA
1 TCCAACCCTACACACCAATATAGGGATAAAATCGACCCA
* * *
76403268 -CTCATCCCTGCACACCAAATATGGGGATAAAATCGACCCA
1 TC-CAACCCTACACACC-AATATAGGGATAAAATCGACCCA
*
76403308 TCCAACCATACACACCA
1 TCCAACCCTACACACCA
76403325 TAAAGTATCG
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
37 1 0.02
38 12 0.27
39 1 0.02
40 30 0.67
41 1 0.02
ACGTcount: A:0.37, C:0.35, G:0.12, T:0.17
Consensus pattern (39 bp):
TCCAACCCTACACACCAATATAGGGATAAAATCGACCCA
Found at i:76413824 original size:78 final size:81
Alignment explanation
Indices: 76413673--76413832 Score: 220
Period size: 78 Copynumber: 2.0 Consensus size: 81
76413663 TGTATTTTAT
* * * *
76413673 ACTTTTGCTTATGTTTTTTTATTTATTATAATCTTGTTATGTTGTTGTTGTTGTTTACTTAGACT
1 ACTTTTACTTATGTTTTTTTATTTATTATAATCCTGTTATGTGGTTATTGTTGTTTACTTAGACT
* *
76413738 CGTGTTGTTTACTTGG
66 CATATTGTTTACTTGG
*
76413754 ACTTTTACTTATGTTTTTATTA-TTATTATAATCCTG-T-TG-GGTTATTGTTGTTTACTTGGAC
1 ACTTTTACTTATGTTTTT-TTATTTATTATAATCCTGTTATGTGGTTATTGTTGTTTACTTAGAC
76413815 TCATATTGTTTACTTGG
65 TCATATTGTTTACTTGG
76413832 A
1 A
76413833 TTGATGTTAT
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
78 35 0.49
79 2 0.03
80 1 0.01
81 30 0.42
82 3 0.04
ACGTcount: A:0.17, C:0.09, G:0.16, T:0.57
Consensus pattern (81 bp):
ACTTTTACTTATGTTTTTTTATTTATTATAATCCTGTTATGTGGTTATTGTTGTTTACTTAGACT
CATATTGTTTACTTGG
Found at i:76418652 original size:27 final size:27
Alignment explanation
Indices: 76418599--76418674 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
76418589 GTCATACATA
*
76418599 TCATAGGGGTAT-ATTGTCATTTTACC
1 TCATAGGGGTATAATAGTCATTTTACC
76418625 TCATAGGGGTATAATAGTCATTTTACC
1 TCATAGGGGTATAATAGTCATTTTACC
* * *
76418652 TCATAGAGGTATAACAATCATTT
1 TCATAGGGGTATAATAGTCATTT
76418675 CATCAAATCG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 12 0.27
27 33 0.73
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (27 bp):
TCATAGGGGTATAATAGTCATTTTACC
Found at i:76421348 original size:97 final size:94
Alignment explanation
Indices: 76421181--76421358 Score: 250
Period size: 97 Copynumber: 1.9 Consensus size: 94
76421171 CTATTTGTGT
* * *
76421181 GCTAGTGTAAGACATGTTTGGAACATGCATCGGCCACATTGTGAGAGCTAGTGTAAGACCACGTC
1 GCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATTGTGAGAGATAATGTAAGACCACGTC
76421246 AGGGACATGGCATCGGCATTGAGACAAGA
66 AGGGACATGGCATCGGCATTGAGACAAGA
**
76421275 GCTAGTGTAAGACATGTCTGGGCCATGCAATCGG-CACTAATATGTGAGAGATAATGTAAGACCA
1 GCTAGTGTAAGACATGTCTGGAACATGC-ATCGGCCAC--AT-TGTGAGAGATAATGTAAGACCA
* *
76421339 TGTCTGGGACATGGCATCGG
62 CGTCAGGGACATGGCATCGG
76421359 TCTCGATTTC
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 28 0.38
95 5 0.07
96 2 0.03
97 38 0.52
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATTGTGAGAGATAATGTAAGACCACGTC
AGGGACATGGCATCGGCATTGAGACAAGA
Found at i:76421383 original size:49 final size:48
Alignment explanation
Indices: 76421329--76421455 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 48
76421319 TGAGAGATAA
*
76421329 TGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATTTCAAT-AGTCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTCTCGA--TCAATGAGCCAG
* * * **
76421378 TGTAAGACCATGGCTGGGACATGGCATC-GACTTGATGGATGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATCAATGAGCCAG
* *
76421425 TGTAAGACCATGTTTGGGACATGGCGTCGGT
1 TGTAAGACCATGTCTGGGACATGGCATCGGT
76421456 ATTATACCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
46 3 0.05
47 30 0.45
48 6 0.09
49 27 0.41
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGTCTCGATCAATGAGCCAG
Found at i:76423289 original size:35 final size:35
Alignment explanation
Indices: 76423213--76423289 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
76423203 TTATAATCAC
* * * *
76423213 TGTCATATGGTATGAAAACATGCCCATATATTTAT
1 TGTCACATGGAATGAAAACATACCCATATATCTAT
*
76423248 TGTCACATGGAATGAATAACATACCCATATATCTCT
1 TGTCACATGGAATGAA-AACATACCCATATATCTAT
76423284 T-TCACA
1 TGTCACA
76423290 ACAGTCATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
35 19 0.53
36 17 0.47
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (35 bp):
TGTCACATGGAATGAAAACATACCCATATATCTAT
Found at i:76427050 original size:46 final size:46
Alignment explanation
Indices: 76426994--76427169 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
76426984 TATTTGGGCA
*
76426994 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
76427040 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
76427085 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
76427133 CCCGAGCTCGTTAAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
76427170 GTGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 60 0.55
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:76427150 original size:93 final size:93
Alignment explanation
Indices: 76426990--76427162 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
76426980 CAGATATTTG
* * *
76426990 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
76427055 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
76427083 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCAGTTATGGATGCGAACGCCCGAGCTCGTTAAG
1 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
76427148 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
76427163 CTTATGGGTG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:76429333 original size:12 final size:13
Alignment explanation
Indices: 76429316--76429345 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
76429306 TGTTGATGCA
76429316 TAATTAAAAT-AT
1 TAATTAAAATAAT
76429328 TAATTAAAATAAT
1 TAATTAAAATAAT
76429341 TAATT
1 TAATT
76429346 TAATAACCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TAATTAAAATAAT
Found at i:76429442 original size:19 final size:19
Alignment explanation
Indices: 76429418--76429454 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
76429408 CCTATGATCT
76429418 ATTAAATCCCTAATTATCA
1 ATTAAATCCCTAATTATCA
*
76429437 ATTAAATCGCTAATTATC
1 ATTAAATCCCTAATTATC
76429455 CTCAACTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTAAATCCCTAATTATCA
Found at i:76429967 original size:33 final size:33
Alignment explanation
Indices: 76429926--76429988 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
76429916 GATTCTGACT
*
76429926 AAGCGAACATAAGAAAA-ACTAAAA-TAAAACTA
1 AAGCGAACAAAAGAAAACA-TAAAATTAAAACTA
76429958 AAGCAGAACAAAAGAAAACATAAAATTAAAA
1 AAGC-GAACAAAAGAAAACATAAAATTAAAA
76429989 ATATGAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 4 0.15
33 17 0.63
34 6 0.22
ACGTcount: A:0.68, C:0.11, G:0.10, T:0.11
Consensus pattern (33 bp):
AAGCGAACAAAAGAAAACATAAAATTAAAACTA
Found at i:76434903 original size:34 final size:33
Alignment explanation
Indices: 76434851--76434948 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 33
76434841 TATGCATTTT
76434851 TGATACTG-TACTGAATTGGGCTAAGGCCCACAA
1 TGATACTGCTACTG-ATTGGGCTAAGGCCCACAA
*
76434884 TGATACTGCTACTGTATTGGGCTAAGGCCCACAC
1 TGATACTGCTACTG-ATTGGGCTAAGGCCCACAA
76434918 TGATA-TCGCTACTGATATGGGCTTAA-GCCCA
1 TGATACT-GCTACTGAT-TGGGC-TAAGGCCCA
76434949 GACTATTCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
33 11 0.19
34 45 0.76
35 3 0.05
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (33 bp):
TGATACTGCTACTGATTGGGCTAAGGCCCACAA
Found at i:76439809 original size:43 final size:43
Alignment explanation
Indices: 76439743--76439885 Score: 120
Period size: 43 Copynumber: 3.3 Consensus size: 43
76439733 AGCTCATACA
76439743 ATGCCAA-TGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTGTCCCAGACAG-GGTCTTACA-GTAATCAAATATCG
** *
76439786 ATGCC-ACTGTCCCAGACAGGGTCTTACACAAAGTCACATA-CG
1 ATGCCAACTGTCCCAGACAGGGTCTTACAGTAA-TCAAATATCG
* * * *
76439828 ATGCCGA-TATCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
1 ATGCCAACTGTCCCAGACAGGGTCTTACA-GT-AATC-AAATATCG
76439872 ATGCCAAC-GTCCCA
1 ATGCCAACTGTCCCA
76439886 AAAATGTTCT
Statistics
Matches: 80, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
42 29 0.36
43 34 0.43
44 17 0.21
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACTGTCCCAGACAGGGTCTTACAGTAATCAAATATCG
Found at i:76439909 original size:86 final size:85
Alignment explanation
Indices: 76439737--76439911 Score: 210
Period size: 86 Copynumber: 2.0 Consensus size: 85
76439727 TCAGAAAGCT
* * * *
76439737 CATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGA
1 CATACAATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAA
* *
76439802 CAGGGTCTTACACAAAGTCA
66 AAGGGTCTTACACAAAATCA
* * *
76439822 CATACGATGCCGATATCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCC
1 CATACAATGCCAATATCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCC
* *
76439885 AAAAATGTTCTTACACAAAATCA
63 AAAAAGGGTCTTACACAAAATCA
76439908 CATA
1 CATA
76439912 TCGGAATCCT
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
85 32 0.42
86 40 0.53
87 4 0.05
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (85 bp):
CATACAATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAAA
AAGGGTCTTACACAAAATCA
Found at i:76445204 original size:10 final size:10
Alignment explanation
Indices: 76445189--76445227 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
76445179 TGCTTTTGTA
76445189 CATGATATGC
1 CATGATATGC
76445199 CATGATATGC
1 CATGATATGC
76445209 ACATGATATGC
1 -CATGATATGC
76445220 CATGATAT
1 CATGATAT
76445228 ATTCACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (10 bp):
CATGATATGC
Found at i:76445213 original size:21 final size:21
Alignment explanation
Indices: 76445188--76445227 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
76445178 CTGCTTTTGT
76445188 ACATGATATGCCATGATATGC
1 ACATGATATGCCATGATATGC
76445209 ACATGATATGCCATGATAT
1 ACATGATATGCCATGATAT
76445228 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:76453108 original size:10 final size:10
Alignment explanation
Indices: 76453093--76453127 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
76453083 TGCTTTTGTA
76453093 CATGATATGC
1 CATGATATGC
76453103 CATGATATGC
1 CATGATATGC
76453113 ACATGATATGC
1 -CATGATATGC
76453124 CATG
1 CATG
76453128 CTATATTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (10 bp):
CATGATATGC
Found at i:76454176 original size:30 final size:30
Alignment explanation
Indices: 76454140--76454199 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
76454130 TCAAAACTTC
76454140 AATGTGACACGCCA-GATTCGGTCATAACGT
1 AATGTGACACG-CAGGATTCGGTCATAACGT
76454170 AATGTGACACGCAGGATTCGGTCATAACGT
1 AATGTGACACGCAGGATTCGGTCATAACGT
76454200 CTGGGCCGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (30 bp):
AATGTGACACGCAGGATTCGGTCATAACGT
Found at i:76455192 original size:13 final size:13
Alignment explanation
Indices: 76455174--76455204 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
76455164 ATACCTAAAG
*
76455174 CTTTCTTTTCTTT
1 CTTTCTTTTCTTA
76455187 CTTTCTTTTCTTA
1 CTTTCTTTTCTTA
76455200 CTTTC
1 CTTTC
76455205 GGTCAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTCTTTTCTTA
Found at i:76476033 original size:40 final size:40
Alignment explanation
Indices: 76475974--76476187 Score: 276
Period size: 40 Copynumber: 5.7 Consensus size: 40
76475964 GAGCATTGGA
* *
76475974 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
76476014 ATATATCCGGGCTATGACCCGAAGGC-ATTATGCGA-TT-
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
76476051 ATAT-TCC-GGCT-A-A-CC----G-AATTATGC-AGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
76476080 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
76476120 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
76476160 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
76476188 ATGTGTTTGC
Statistics
Matches: 155, Mismatches: 5, Indels: 28
0.82 0.03 0.15
Matches are distributed among these distances:
27 1 0.01
28 10 0.06
29 4 0.03
30 3 0.02
31 4 0.03
32 3 0.02
33 2 0.01
34 2 0.01
35 4 0.03
36 3 0.02
37 4 0.03
38 3 0.02
39 16 0.10
40 96 0.62
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.23
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:76484675 original size:40 final size:40
Alignment explanation
Indices: 76484616--76484843 Score: 402
Period size: 40 Copynumber: 5.7 Consensus size: 40
76484606 GAGCATTGGA
* *
76484616 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
76484656 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
76484696 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
76484736 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
76484776 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
76484816 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
76484844 ATGTGTTTGC
Statistics
Matches: 182, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 182 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:76491616 original size:43 final size:41
Alignment explanation
Indices: 76491561--76491716 Score: 161
Period size: 43 Copynumber: 3.7 Consensus size: 41
76491551 ATATCATATA
* *
76491561 ATGCCAACGTCCCAGACATGGTCTTACTTGTAATCATATGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACTCG-AATCAAAT-TCG
* *
76491604 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAATCACAATTACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACTCGAATCA-AATT-CG
* * *
76491647 ATGCCAATGTCCTAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACTCG-AATCAAAT-TCG
* *
76491690 ACGCCAACGTCCTAGACATGGTCTTAC
1 ATGCCAACGTCCCAGACATGGTCTTAC
76491717 ACGAGAACGC
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
42 8 0.08
43 81 0.84
44 7 0.07
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (41 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGAATCAAATTCG
Found at i:76491707 original size:86 final size:86
Alignment explanation
Indices: 76491561--76491720 Score: 223
Period size: 86 Copynumber: 1.9 Consensus size: 86
76491551 ATATCATATA
* * * * *
76491561 ATGCCAACGTCCCAGACATGGTCTTACTTGTAATCATATGTCGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCGACGCCACTGTCCCAGACAGGGT
76491626 CTTACACGAATCACAATTACG
66 CTTACACGAATCACAATTACG
* * * *
76491647 ATGCCAATGTCCTAGACATGGTCTTACTCGAAATCACATATCGACGCCAAC-GTCCTAGACATGG
1 ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCGACGCC-ACTGTCCCAGACAGGG
76491711 TCTTACACGA
65 TCTTACACGA
76491721 GAACGCATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 62 0.97
87 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (86 bp):
ATGCCAACGTCCCAGACATGGTCTTACTCGAAATCACATATCGACGCCACTGTCCCAGACAGGGT
CTTACACGAATCACAATTACG
Found at i:76493034 original size:28 final size:28
Alignment explanation
Indices: 76492994--76493049 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
76492984 CGTCCGCGAA
76492994 AACCTTACCAGAAAGTAGATTAAGGATT
1 AACCTTACCAGAAAGTAGATTAAGGATT
76493022 AACCTTACCAGAAAGTAGATTAAGGATT
1 AACCTTACCAGAAAGTAGATTAAGGATT
76493050 TTCTTCCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.25
Consensus pattern (28 bp):
AACCTTACCAGAAAGTAGATTAAGGATT
Found at i:76498773 original size:43 final size:42
Alignment explanation
Indices: 76498606--76498775 Score: 157
Period size: 43 Copynumber: 4.0 Consensus size: 42
76498596 ATATCATACA
* * * *
76498606 ATGCCAACGTTCC-AGACATGGTCTTACATGTAATCATATGTCG
1 ATGCCAACG-TCCTAGACATGGTCTTACACG-AAACACATATCG
* * * *
76498649 ATGCC-ACTGTCCCAGACAGGGTCTTACATGAATCACA-ATTACG
1 ATGCCAAC-GTCCTAGACATGGTCTTACACGAAACACATA-T-CG
* *
76498692 ATGCCAATGTCCTAGACATGGTCTTACTCGAAATCACATATCG
1 ATGCCAACGTCCTAGACATGGTCTTACACGAAA-CACATATCG
*
76498735 ATGCCAACGTCCTAGACGTGGTCTTACACGAGAACACATAT
1 ATGCCAACGTCCTAGACATGGTCTTACACGA-AACACATAT
76498776 TGAAAATCCT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
42 12 0.11
43 86 0.80
44 8 0.07
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACATGGTCTTACACGAAACACATATCG
Found at i:76499922 original size:14 final size:15
Alignment explanation
Indices: 76499905--76499933 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
76499895 GCATGAAAAT
76499905 TTCACACAT-ATAAA
1 TTCACACATAATAAA
76499919 TTCACACATAATAAA
1 TTCACACATAATAAA
76499934 CACTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:76503215 original size:27 final size:26
Alignment explanation
Indices: 76503171--76503222 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
76503161 CTCGCTGCAA
76503171 TCTGGTGGCCTCTCCACATATATCTGT
1 TCTGGTGGCCTCTCCACA-ATATCTGT
*
76503198 TCTGGTGGCTTCGT-CACAATATCTG
1 TCTGGTGGCCTC-TCCACAATATCTG
76503223 GCAACCTCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 15 0.65
28 1 0.04
ACGTcount: A:0.15, C:0.27, G:0.21, T:0.37
Consensus pattern (26 bp):
TCTGGTGGCCTCTCCACAATATCTGT
Found at i:76511394 original size:27 final size:27
Alignment explanation
Indices: 76511346--76511505 Score: 159
Period size: 27 Copynumber: 5.9 Consensus size: 27
76511336 GCGAGGCTGC
* *
76511346 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
76511373 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
76511399 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
76511426 CAGATAATTGTAGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
76511453 CGGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
76511480 TAGATAAATTGTGGCATAGCCACCAG
1 CAGAT--ATTGTGGCAGAGCCACCAG
76511506 GACACTTCCT
Statistics
Matches: 112, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
26 10 0.09
27 81 0.72
28 19 0.17
29 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:76511436 original size:54 final size:54
Alignment explanation
Indices: 76511364--76511505 Score: 214
Period size: 54 Copynumber: 2.6 Consensus size: 54
76511354 GTGACGAAGT
*
76511364 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * *
76511418 CACCAGATCAGATAATTGTAGCATAGCCACCAGGACGGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
76511472 CACCAGATTAGATAAATTGTGGCATAGCCACCAG
1 CACCAGATCAGAT-AATTGTGGCATAGCCACCAG
76511506 GACACTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 5 0.06
54 56 0.70
55 19 0.24
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:76513693 original size:27 final size:26
Alignment explanation
Indices: 76513649--76513700 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
76513639 CTCACTGTAA
*
76513649 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
76513676 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
76513701 GCGGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:76513779 original size:27 final size:26
Alignment explanation
Indices: 76513741--76513800 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
76513731 ACATATATAT
* *
76513741 ATATATGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
76513767 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
76513794 ATATCTG
1 ATATCTG
76513801 GCAGCCTCAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:76524931 original size:44 final size:46
Alignment explanation
Indices: 76524874--76524992 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 46
76524864 ATACATGTAT
*
76524874 GCTGATACATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTGTCAG
* * * * *
76524918 GCTGATGCGTGTCCTAGACACGTCTTACACTAGCTATCTCTGTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTC-AG
*
76524965 GCCGATGCATGTCCCAGACATGTCTTAC
1 GCTGATGCATGTCCCAGACATGTCTTAC
76524993 TCTGGCACTC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 5 0.08
44 31 0.51
46 1 0.02
47 24 0.39
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTCAG
Found at i:76524984 original size:47 final size:44
Alignment explanation
Indices: 76524881--76525095 Score: 130
Period size: 47 Copynumber: 4.7 Consensus size: 44
76524871 TATGCTGATA
*
76524881 CATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATG
* * * * *
76524925 CGTGTCCTAGACACGTCTTACACTAGC-TATCTCTGTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCACAACTCT-T--A-GCCGATG
* * * * *
76524972 CATGTCCCAGACATGTCTTACTCTGGCACTCATCTCTGT-TCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCA--CAACTCT-TAGCCGATG
* * * * * * *
76525018 CCATGTCCCAGACATGGCCTTACACTGGCTCTCATAATGTGA-CCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTAG--CACA-ACTCTTAGCCGATG
*
76525066 CATGTCCCAGACATGTCTTACACTGGCACA
1 CATGTCCCAGACATGTCTTACACTAGCACA
76525096 CAACTCACCC
Statistics
Matches: 133, Mismatches: 25, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
43 5 0.04
44 28 0.21
46 17 0.13
47 56 0.42
48 16 0.12
49 2 0.02
50 9 0.07
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTAGCACAACTCTTAGCCGATG
Found at i:76525075 original size:94 final size:94
Alignment explanation
Indices: 76524828--76525101 Score: 296
Period size: 94 Copynumber: 2.9 Consensus size: 94
76524818 ATAAATTGTC
*
76524828 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATGT-ATGCTGATA-CATGTCCCAG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGA-GCCGA-AGCATGTCCCAG
*
76524891 ACATGTCTTACACTAGCA-CAACTCTTAGCTG
63 ACATGTCTTACACTGGCACCAACTCTTAGCTG
* * * * * * *
76524922 ATG-CGTGTCCTAGACA-CGTCTTACACTAGCTATC-T-CTGTCGAGGCCGATGCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GA-GCCGAAGCATGTCCCAGA
* * *
76524983 CATGTCTTACTCTGGCACTCATCTCTGT-TCTG
64 CATGTCTTACACTGGCAC-CAACTCT-TAGCTG
*
76525015 ATGCCATGTCCCAGACATGGCCTTACACTGGCTCTCATAATGTGA-CCGAAGCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGAGCCGAAGCATGTCCCAGACA
76525079 TGTCTTACACTGGCACACAACTC
66 TGTCTTACACTGGCAC-CAACTC
76525102 ACCCAATGTC
Statistics
Matches: 146, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
89 3 0.02
91 32 0.22
92 15 0.10
93 23 0.16
94 53 0.36
95 14 0.10
96 3 0.02
97 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGAGCCGAAGCATGTCCCAGACA
TGTCTTACACTGGCACCAACTCTTAGCTG
Found at i:76526649 original size:11 final size:10
Alignment explanation
Indices: 76526630--76526662 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
76526620 ATAAAACTTG
76526630 AAATTTTTAT
1 AAATTTTTAT
76526640 AAATTTTTTAT
1 AAA-TTTTTAT
76526651 AAATTTTTAT
1 AAATTTTTAT
76526661 AA
1 AA
76526663 TATTATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AAATTTTTAT
Found at i:76527007 original size:19 final size:18
Alignment explanation
Indices: 76526973--76527008 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
76526963 TTCGAAAAAA
76526973 ATTAATTTACTAATATCC
1 ATTAATTTACTAATATCC
*
76526991 ATTAATTATATTAATATC
1 ATTAATT-TACTAATATC
76527009 TTTTGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATTTACTAATATCC
Found at i:76527978 original size:14 final size:14
Alignment explanation
Indices: 76527959--76527985 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76527949 AGTAATATCT
76527959 TGTCTGACTATTCA
1 TGTCTGACTATTCA
76527973 TGTCTGACTATTC
1 TGTCTGACTATTC
76527986 CGTTAACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (14 bp):
TGTCTGACTATTCA
Found at i:76534556 original size:29 final size:29
Alignment explanation
Indices: 76534507--76534563 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
76534497 TCTTTTCTCT
* *
76534507 CTATTTTCTTTAAATATTTTGCCTATTTC
1 CTATTTTCTCTAAATATTTTGACTATTTC
*
76534536 CTATTTTCTCT-AATCTATTTGACTATTT
1 CTATTTTCTCTAAATAT-TTTGACTATTT
76534564 TAAGTGAACA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.21, C:0.18, G:0.04, T:0.58
Consensus pattern (29 bp):
CTATTTTCTCTAAATATTTTGACTATTTC
Found at i:76541485 original size:52 final size:52
Alignment explanation
Indices: 76541404--76541506 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
76541394 GTGGTTTGTC
*
76541404 GAGGGTTTCTCTCTGATTGCAACTTATTTGACTAAGCTTCTGTGTAAGGGTT
1 GAGGGTTTCTCTCTGATTGCAACTCATTTGACTAAGCTTCTGTGTAAGGGTT
76541456 GAGGGTTTCTCTCTGATTGCAACTCATTTGACTAAGCTTCTGTGTAAGGGT
1 GAGGGTTTCTCTCTGATTGCAACTCATTTGACTAAGCTTCTGTGTAAGGGT
76541507 GTTCCTTTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (52 bp):
GAGGGTTTCTCTCTGATTGCAACTCATTTGACTAAGCTTCTGTGTAAGGGTT
Found at i:76547976 original size:13 final size:15
Alignment explanation
Indices: 76547942--76547987 Score: 55
Period size: 13 Copynumber: 3.3 Consensus size: 15
76547932 AGCATGTTTA
76547942 ATCTGTTATTTCTGT
1 ATCTGTTATTTCTGT
*
76547957 ATTTGTT-TTTC-GT
1 ATCTGTTATTTCTGT
76547970 ATCTGTTA--TCTGT
1 ATCTGTTATTTCTGT
76547983 ATCTG
1 ATCTG
76547988 ATTTGGGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 2 0.07
13 15 0.56
14 4 0.15
15 6 0.22
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.59
Consensus pattern (15 bp):
ATCTGTTATTTCTGT
Found at i:76550829 original size:26 final size:26
Alignment explanation
Indices: 76550795--76550847 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
76550785 AGTTGGCATG
76550795 ATATAGGGTTGTGAGTACTTACCTAT
1 ATATAGGGTTGTGAGTACTTACCTAT
76550821 ATATAGGGTTGTGAGTACTTACCTAT
1 ATATAGGGTTGTGAGTACTTACCTAT
76550847 A
1 A
76550848 CGTATTATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.38
Consensus pattern (26 bp):
ATATAGGGTTGTGAGTACTTACCTAT
Found at i:76558814 original size:40 final size:40
Alignment explanation
Indices: 76558740--76558982 Score: 400
Period size: 40 Copynumber: 6.1 Consensus size: 40
76558730 AACCCAAGTA
* * *
76558740 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
76558779 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
76558819 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
76558859 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
76558899 CCTTCTGGG-CTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATATAGTAACTAGCACAAATG
76558939 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
76558979 CCTT
1 CCTT
76558983 TGAATTTTAG
Statistics
Matches: 194, Mismatches: 7, Indels: 5
0.94 0.03 0.02
Matches are distributed among these distances:
39 16 0.08
40 175 0.90
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:76560377 original size:13 final size:13
Alignment explanation
Indices: 76560359--76560384 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
76560349 TATTTTTATT
76560359 TTAACATAAAATA
1 TTAACATAAAATA
76560372 TTAACATAAAATA
1 TTAACATAAAATA
76560385 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:76563725 original size:19 final size:20
Alignment explanation
Indices: 76563684--76563726 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
76563674 TTTTGTAAAG
* *
76563684 TTTGTAAAATAGATGGTACT
1 TTTGTAAAATAGATGGAAAT
*
76563704 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
76563723 TTTG
1 TTTG
76563727 GGTTTTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:76564298 original size:48 final size:48
Alignment explanation
Indices: 76564236--76564404 Score: 216
Period size: 48 Copynumber: 3.6 Consensus size: 48
76564226 ACATTTTGAG
*
76564236 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACA
* * ** *
76564284 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGA-CGA-G
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACA
** * *
76564330 AGATAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTACA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACA
* *
76564378 AGCTAGTGTAAGACCTGTCTGGGACAT
1 AGCCAGTGTAAGACATGTCTGGGACAT
76564405 AGTGTCAGCT
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
46 37 0.36
47 2 0.02
48 65 0.62
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACA
Found at i:76564511 original size:142 final size:138
Alignment explanation
Indices: 76564287--76564546 Score: 310
Period size: 142 Copynumber: 1.9 Consensus size: 138
76564277 ATATACCAGC
** *
76564287 CAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGACGAGAGATAGTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCGACACCGAGACGAGAGACAGTGTAAGACATGTCTGG
* *
76564352 GACATGCATCGGCCTCGAGATGT-ACAAG-CTAGTGTAAGACCTGTCTGGGACATAGTGTCAGCT
66 GACATGCATCGGCCTCGAGATATGA-AAGTC-AGTGTAAGACCTGTCTAGGACATAGTGTCAGCT
76564415 TGTTGTGTGT
129 TGTTGTGTGT
* * * * * * *
76564425 CAGTGTAAGACCTGTCTGGGATATGGCATCGACACCGATAGATGAGTGCCAGTGTAAGACCTGTT
1 CAGTGTAAGACATGTCTGGGACAT-GCATCGACACCG--AGACGAGAGACAGTGTAAGACATGTC
* *
76564490 TGGGACATGACATCAGG-CTCGATATATGAAAGTCAGTGTAAGAGCTGTCTAGGACAT
63 TGGGACATG-CATC-GGCCTCGAGATATGAAAGTCAGTGTAAGACCTGTCTAGGACAT
76564547 GGCATTGACT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
138 22 0.22
139 10 0.10
141 29 0.29
142 36 0.36
143 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (138 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGACACCGAGACGAGAGACAGTGTAAGACATGTCTGG
GACATGCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCTGTCTAGGACATAGTGTCAGCTTG
TTGTGTGT
Found at i:76564513 original size:49 final size:49
Alignment explanation
Indices: 76564236--76564595 Score: 153
Period size: 48 Copynumber: 7.6 Consensus size: 49
76564226 ACATTTTGAG
* * * *
76564236 AGCCAGTGTAAGACATGTCTGGGACATG-CATCGAC-CTCGAGATAT-ACC
1 AGCCAGTGTAAGACCTGTCTGGGACATGACATCGACAC-CGATAGATGA-A
* ** * *
76564284 AGCCAGTGTAAGACATGTCTGGGACATG-CATCGACATTG--AGACGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGACATCGACACCGATAGATGAA
** * *
76564330 AGATAGTGTAAGACATGTCTGGGACATG-CATCGGC-CTCG--AGATGTACA
1 AGCCAGTGTAAGACCTGTCTGGGACATGACATCGACAC-CGATAGATG-A-A
* * * * * * **
76564378 AGCTAGTGTAAGACCTGTCTGGGACAT-A-GT-GTCA--GCTTGTTGTG
1 AGCCAGTGTAAGACCTGTCTGGGACATGACATCGACACCGATAGATGAA
* * * * *
76564422 TGTCAGTGTAAGACCTGTCTGGGATATGGCATCGACACCGATAGATGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGACATCGACACCGATAGATGAA
* * * * *
76564471 TGCCAGTGTAAGACCTGTTTGGGACATGACATCAGGC-TCGATATATGAA
1 AGCCAGTGTAAGACCTGTCTGGGACATGACATC-GACACCGATAGATGAA
* * * * * *** **
76564520 AGTCAGTGTAAGAGCTGTCTAGGACATGGCATTGACTTTGAT-G-TGTT
1 AGCCAGTGTAAGACCTGTCTGGGACATGACATCGACACCGATAGATGAA
*
76564567 AGCCAGTGTAAGACCATGTCTAGGACATG
1 AGCCAGTGTAAGACC-TGTCTGGGACATG
76564596 GCATTGGCAT
Statistics
Matches: 242, Mismatches: 53, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
44 24 0.10
46 45 0.19
47 21 0.09
48 76 0.31
49 74 0.31
50 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (49 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGACATCGACACCGATAGATGAA
Found at i:76566053 original size:15 final size:15
Alignment explanation
Indices: 76566033--76566065 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
76566023 GTGTGTTTTA
76566033 AATTTCTAGATTAAG
1 AATTTCTAGATTAAG
76566048 AATTTCTAGATTAAG
1 AATTTCTAGATTAAG
76566063 AAT
1 AAT
76566066 GAAAAGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (15 bp):
AATTTCTAGATTAAG
Found at i:76568720 original size:28 final size:27
Alignment explanation
Indices: 76568672--76568724 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 27
76568662 TTGTTTAACT
76568672 AACATCAAATATTCATAATATATCATTA
1 AACATCAAATATTCATAATAT-TCATTA
76568700 AACATCAAA-ATGCTCAT-ATATTCAT
1 AACATCAAATAT--TCATAATATTCAT
76568725 CAATGGTAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
27 6 0.26
28 13 0.57
29 4 0.17
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (27 bp):
AACATCAAATATTCATAATATTCATTA
Found at i:76570100 original size:37 final size:37
Alignment explanation
Indices: 76570050--76570127 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
76570040 ATTAGATATA
* **
76570050 TTGTATTAAAAATATGTTTCAAATTTATGAAATTTAT
1 TTGTATGAAAAATATGACTCAAATTTATGAAATTTAT
*
76570087 TTGTATGAAAAATATGACTCAAATTTATTAAATTTAT
1 TTGTATGAAAAATATGACTCAAATTTATGAAATTTAT
76570124 TTGT
1 TTGT
76570128 CTATGATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (37 bp):
TTGTATGAAAAATATGACTCAAATTTATGAAATTTAT
Found at i:76570862 original size:22 final size:21
Alignment explanation
Indices: 76570836--76570877 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
76570826 TATGTTTAAA
*
76570836 CAATTAATTACATTATTTTTTT
1 CAATTAATTA-ATGATTTTTTT
*
76570858 CAATTTATTAATGATTTTTT
1 CAATTAATTAATGATTTTTT
76570878 AAATAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (21 bp):
CAATTAATTAATGATTTTTTT
Found at i:76578936 original size:13 final size:13
Alignment explanation
Indices: 76578909--76578942 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
76578899 TTTAATTTAG
76578909 TTTAATTTGATTT
1 TTTAATTTGATTT
76578922 TTTATATTTGA-TT
1 TTTA-ATTTGATTT
76578935 TTTAATTT
1 TTTAATTT
76578943 AAAAGTGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 10 0.50
14 6 0.30
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (13 bp):
TTTAATTTGATTT
Found at i:76579510 original size:15 final size:16
Alignment explanation
Indices: 76579490--76579524 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
76579480 TTACAAATCT
76579490 AAATA-TCAAATGAGA
1 AAATAGTCAAATGAGA
76579505 AAATATGTCAAATGAGA
1 AAATA-GTCAAATGAGA
76579522 AAA
1 AAA
76579525 ATAGAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
17 13 0.72
ACGTcount: A:0.60, C:0.06, G:0.14, T:0.20
Consensus pattern (16 bp):
AAATAGTCAAATGAGA
Found at i:76582713 original size:14 final size:14
Alignment explanation
Indices: 76582683--76582727 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
76582673 AGGCTCCATT
*
76582683 TGTTTGCCAGTAAAA
1 TGTTTTCCAG-AAAA
76582698 TGTTTTCCAGAAAA
1 TGTTTTCCAGAAAA
* *
76582712 TGATTTCTAGAAAA
1 TGTTTTCCAGAAAA
76582726 TG
1 TG
76582728 ATTTACTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 18 0.67
15 9 0.33
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (14 bp):
TGTTTTCCAGAAAA
Found at i:76582728 original size:14 final size:14
Alignment explanation
Indices: 76582689--76582731 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
76582679 CATTTGTTTG
*
76582689 CCAGTAAAATGTTTT
1 CCAG-AAAATGATTT
76582704 CCAGAAAATGATTT
1 CCAGAAAATGATTT
*
76582718 CTAGAAAATGATTT
1 CCAGAAAATGATTT
76582732 ACTTTTTTGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.35
Consensus pattern (14 bp):
CCAGAAAATGATTT
Found at i:76584162 original size:32 final size:32
Alignment explanation
Indices: 76584116--76584195 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 32
76584106 TGTTAATCAT
*
76584116 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
76584148 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
* *
76584180 TTCAAAATTCAACAAA
1 TTCAATATCCAACAAA
76584196 ATAAAATTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:76586513 original size:48 final size:48
Alignment explanation
Indices: 76586451--76586558 Score: 144
Period size: 48 Copynumber: 2.2 Consensus size: 48
76586441 ATATCTAGAT
* * ** *
76586451 ATGGTCTTATACTGGCACACATATCGATGCTGATGCCATGTCCCAAAC
1 ATGGTCTTACACTGGCACACATATCAACACAGATGCCATGTCCCAAAC
* **
76586499 ATGGTCTTACACTGGCTCTTATATCAACACAGATGCCATGTCCCAAAC
1 ATGGTCTTACACTGGCACACATATCAACACAGATGCCATGTCCCAAAC
76586547 ATGGTCTTACAC
1 ATGGTCTTACAC
76586559 GGGATCTCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (48 bp):
ATGGTCTTACACTGGCACACATATCAACACAGATGCCATGTCCCAAAC
Found at i:76590573 original size:19 final size:20
Alignment explanation
Indices: 76590536--76590573 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
76590526 CATAACAACG
* *
76590536 ATCACAAAAAGATAGAAATC
1 ATCACAAAAAGAGAAAAATC
76590556 ATCA-AAAAAGAGAAAAAT
1 ATCACAAAAAGAGAAAAAT
76590574 ACATACCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.13
Consensus pattern (20 bp):
ATCACAAAAAGAGAAAAATC
Found at i:76594877 original size:13 final size:14
Alignment explanation
Indices: 76594859--76594887 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
76594849 TTATTCATTG
76594859 ATCTCTTCCTC-GA
1 ATCTCTTCCTCTGA
76594872 ATCTCTTCCTCTGA
1 ATCTCTTCCTCTGA
76594886 AT
1 AT
76594888 TAGCCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.17, C:0.34, G:0.07, T:0.41
Consensus pattern (14 bp):
ATCTCTTCCTCTGA
Found at i:76600947 original size:21 final size:21
Alignment explanation
Indices: 76600906--76600947 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
76600896 TCCCCCACCT
* *
76600906 CCCCCGATTCCTCAACTTGTA
1 CCCCCGATGCCTCAACGTGTA
*
76600927 CCCCCGATGCCTCAAGGTGTA
1 CCCCCGATGCCTCAACGTGTA
76600948 GATCTGATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.40, G:0.17, T:0.24
Consensus pattern (21 bp):
CCCCCGATGCCTCAACGTGTA
Found at i:76606108 original size:18 final size:18
Alignment explanation
Indices: 76606085--76606121 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
76606075 AAGCAAAGAA
76606085 AGGCATAAAATTTCAGGC
1 AGGCATAAAATTTCAGGC
*
76606103 AGGCATAAAATTTTAGGC
1 AGGCATAAAATTTCAGGC
76606121 A
1 A
76606122 TAAAATCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (18 bp):
AGGCATAAAATTTCAGGC
Found at i:76624698 original size:13 final size:13
Alignment explanation
Indices: 76624680--76624704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76624670 GAGTAATCAC
76624680 ACACGGGCGTGTT
1 ACACGGGCGTGTT
76624693 ACACGGGCGTGT
1 ACACGGGCGTGT
76624705 CCCTGCCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:76648124 original size:48 final size:48
Alignment explanation
Indices: 76648068--76648238 Score: 189
Period size: 48 Copynumber: 3.5 Consensus size: 48
76648058 AGCCAGTGAG
*
76648068 AGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTA
1 AGACCATGTCTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTA
* * * * * * * *
76648116 AGACCATGTCTGGGACAAGGCATTGGCCTTAACATGTGGGCTAGTGTA
1 AGACCATGTCTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTA
* * ** *
76648164 AGACCATGTTTGGAACATGGCATCGACACCGATATATGAGAGCCAGTGTA
1 AGACCATGTCTGGAACATGGCATCGGCA--TTTATATGAGAGCTAGTGTA
*
76648214 AGACCATGTCTGGGACATGGCATCG
1 AGACCATGTCTGGAACATGGCATCG
76648239 ACATCTTACC
Statistics
Matches: 97, Mismatches: 24, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
48 61 0.63
50 36 0.37
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
AGACCATGTCTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTA
Found at i:76659197 original size:17 final size:18
Alignment explanation
Indices: 76659175--76659208 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
76659165 TTCTGGGCTT
76659175 TGTGGG-CCACATGGGCG
1 TGTGGGCCCACATGGGCG
76659192 TGTGGGCCCACATGGGC
1 TGTGGGCCCACATGGGC
76659209 CCATTCTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.12, C:0.26, G:0.44, T:0.18
Consensus pattern (18 bp):
TGTGGGCCCACATGGGCG
Found at i:76662233 original size:24 final size:23
Alignment explanation
Indices: 76662155--76662239 Score: 73
Period size: 24 Copynumber: 3.5 Consensus size: 23
76662145 TTTAAAGGTC
* *
76662155 CGCACACATAGTGCTCTTACTCATT
1 CGCACACATAGTGCTATTAATC--T
* *
76662180 CGCACACATAGTGCCATGT-TTCCT
1 CGCACACATAGTGCTAT-TAAT-CT
*
76662204 CACACACATAGTGCTATATAATCT
1 CGCACACATAGTGCTAT-TAATCT
76662228 CGCACACATAGT
1 CGCACACATAGT
76662240 TCCATGTAGT
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
24 30 0.61
25 17 0.35
26 2 0.04
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (23 bp):
CGCACACATAGTGCTATTAATCT
Found at i:76672933 original size:48 final size:48
Alignment explanation
Indices: 76672816--76673067 Score: 290
Period size: 48 Copynumber: 5.3 Consensus size: 48
76672806 ATGCCTCATA
* * * * * *
76672816 CCGATGCAATGTCCCAGACATGGTCTTACGCTAGCTCACATAACGATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACAATG
* * * *
76672864 -TGATGCCATGTTCCAAACATGGTCTTACACTAGCTCATGTAACAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACAATG
* *
76672911 CCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCATGTAACAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACAATG
* * ** * *
76672959 TCGATGCCATGTCCCAAACATGGCCTTACTTTGGCTTACGTAATAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACAATG
* * * *
76673007 CCAATGCCATGTCCCAGACATGGTCTTCCACTGGCTTACGTAACAATG
1 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACAATG
*
76673055 TCGATGCCATGTC
1 CCGATGCCATGTC
76673068 TGTAACACCC
Statistics
Matches: 175, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
47 39 0.22
48 136 0.78
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTAACAATG
Found at i:76673014 original size:96 final size:96
Alignment explanation
Indices: 76672819--76673067 Score: 320
Period size: 96 Copynumber: 2.6 Consensus size: 96
76672809 CCTCATACCG
* * * * * *
76672819 ATGCAATGTCCCAGACATGGTCTTACGCTAGCTCACATAACGATGT-GATGCCATGTTCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGTCGATGCCATGTCCCAAACA
* * *
76672883 TGGTCTTACACTAGCTCATGTAACAATGCCG
66 TGGCCTTACACTAGCTCACGTAACAATGCCA
* * *
76672914 ATGCCATGTCCCAAACATGGTCTTACATTGGCTCATGTAACAATGTCGATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGTCGATGCCATGTCCCAAACA
** * * *
76672979 TGGCCTTACTTTGGCTTACGTAATAATGCCA
66 TGGCCTTACACTAGCTCACGTAACAATGCCA
* *
76673010 ATGCCATGTCCCAGACATGGTCTTCCACTGGCTTACGTAACAATGTCGATGCCATGTC
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGTCGATGCCATGTC
76673068 TGTAACACCC
Statistics
Matches: 131, Mismatches: 22, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 38 0.29
96 93 0.71
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGTCGATGCCATGTCCCAAACA
TGGCCTTACACTAGCTCACGTAACAATGCCA
Found at i:76674449 original size:27 final size:27
Alignment explanation
Indices: 76674419--76674596 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
76674409 ATATCGAGCC
* * *
76674419 CGCACACTCAGTGCTATAAAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
76674446 CGCACACTTAGTGCCACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
76674473 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
76674501 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
76674528 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
76674555 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
76674582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76674597 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:76674532 original size:82 final size:81
Alignment explanation
Indices: 76674440--76674595 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
76674430 TGCTATAAAA
*
76674440 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGC
76674504 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
76674522 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
76674587 ACTTAGTGC
66 ACTTAGTGC
76674596 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 17 0.25
82 51 0.75
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:76676351 original size:48 final size:48
Alignment explanation
Indices: 76676276--76676543 Score: 401
Period size: 48 Copynumber: 5.6 Consensus size: 48
76676266 GGCTGTCACA
* * * * *
76676276 ATGTCCAAGACATGGTCTTACACTGGCTTACGCAACAATGCTGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATACCGATGCC
* ** * *
76676324 ATGTCCCAGACATGGTCTTACATTGGCTCGTGTAACAATGCCAATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATACCGATGCC
* * *
76676372 ATGTACCAGACATGGTCTTACATTGGCTCACATAACAATACCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATACCGATGCC
*
76676420 ATGTCCCAGACATAGTCTTACACTGGCTCACGTAACAATACCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATACCGATGCC
*
76676468 ATGTCCCAGACATGGTCTTACATTGGCTCACGTAACAATACCGATGCC
1 ATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATACCGATGCC
76676516 ATGTCCCAGACATGGTCTTACACTGGCT
1 ATGTCCCAGACATGGTCTTACACTGGCT
76676544 TAGATATTGC
Statistics
Matches: 199, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 199 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (48 bp):
ATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATACCGATGCC
Found at i:76685165 original size:20 final size:20
Alignment explanation
Indices: 76685142--76685188 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
76685132 AGTTTAATAT
76685142 TGAATTTTGAATTTTATAAA
1 TGAATTTTGAATTTTATAAA
76685162 TGAATTTTGAATTTTATAAA
1 TGAATTTTGAATTTTATAAA
76685182 TGAATTT
1 TGAATTT
76685189 AATCATCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (20 bp):
TGAATTTTGAATTTTATAAA
Found at i:76691979 original size:40 final size:39
Alignment explanation
Indices: 76691935--76692146 Score: 237
Period size: 40 Copynumber: 5.3 Consensus size: 39
76691925 GGACTAAGAT
*
76691935 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
* * *
76691975 CCGAAGGCATTTGTGCGAGATACAAATTACGAGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
76692015 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * ** *
76692055 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
76692095 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
76692134 CCGAAGGCATTTG
1 CCGAAGGCATTTG
76692147 AACGAGGAGC
Statistics
Matches: 150, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 32 0.21
40 115 0.77
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:76692164 original size:79 final size:79
Alignment explanation
Indices: 76692014--76692179 Score: 181
Period size: 79 Copynumber: 2.1 Consensus size: 79
76692004 CGAGTTAAGC
* * * ** ** *
76692014 CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTT
1 CCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCT
**
76692079 AAATCCGGGTTATGT
66 AAATCC-GGTTAAAT
* * * *
76692094 CCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCT
1 CCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCT
*
76692158 ATATCCGGTTAAAT
66 AAATCCGGTTAAAT
76692172 CCCGAAGG
1 CCCGAAGG
76692180 TACGTGATTT
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.20
79 49 0.69
80 8 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCT
AAATCCGGTTAAAT
Found at i:76699903 original size:40 final size:40
Alignment explanation
Indices: 76699872--76700083 Score: 243
Period size: 40 Copynumber: 5.3 Consensus size: 40
76699862 GGACTAAGAT
76699872 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
76699912 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
76699952 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
* * ** * *
76699992 CCGAAGGCATTCGTGCGAGTTGTTAAA-TCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCC
* * * * * *
76700032 CCGAAGGCA-TTGTGTGAGTTACTAAA-ACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
76700071 CCGAAGGCATTTG
1 CCGAAGGCATTTG
76700084 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 14, Indels: 8
0.88 0.08 0.05
Matches are distributed among these distances:
39 32 0.21
40 119 0.77
41 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:76699956 original size:80 final size:80
Alignment explanation
Indices: 76699819--76700083 Score: 272
Period size: 80 Copynumber: 3.3 Consensus size: 80
76699809 TAGAATGCTG
* * ** **
76699819 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGA-ATATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TGACA-A-ATCCGGGTTAAGCCCCGAAGGCA
76699881 TTTGTGCGAGATAC-AAA
63 TTTGTGCGAGATACTAAA
* *
76699898 TTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGGCAT
76699962 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* * ** * *
76699979 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCA-TT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTT
* *
76700043 GTGTGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
76700058 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
76700084 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 22, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
79 38 0.24
80 102 0.65
81 16 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:76704182 original size:40 final size:40
Alignment explanation
Indices: 76704047--76704184 Score: 199
Period size: 40 Copynumber: 3.5 Consensus size: 40
76704037 AAACCAAGTA
* * * *
76704047 CCTTCGGGATTTAG-CCAGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
76704086 CCTTCGGGACTTAGCCTGGAGATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
76704126 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
76704166 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
76704185 TTATCATCCG
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.16
40 75 0.84
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:76711997 original size:35 final size:36
Alignment explanation
Indices: 76711951--76712035 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 36
76711941 CCAAGTACCT
* *
76711951 TCGGGATTTAGCCAGA-TA-AGCTCTCGCT-AACTGCC
1 TCGGGACTTAGCCAGACTATAGCTAT-GCTCAA-TGCC
76711986 TCGGGACTTAGCCAGACTATAGCTATGCTCAATGCC
1 TCGGGACTTAGCCAGACTATAGCTATGCTCAATGCC
76712022 TCGGGGACTTAGCC
1 TC-GGGACTTAGCC
76712036 CGGAGGATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
35 15 0.34
36 11 0.25
37 18 0.41
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (36 bp):
TCGGGACTTAGCCAGACTATAGCTATGCTCAATGCC
Found at i:76724600 original size:39 final size:40
Alignment explanation
Indices: 76724552--76724723 Score: 186
Period size: 40 Copynumber: 4.3 Consensus size: 40
76724542 GCTCCTCGTT
* * * *
76724552 CAAAGGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
** *
76724592 C-AATGCCTTCGGGACATAACCCGGATTTAACAACACGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
76724631 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
76724671 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
*
76724711 CAAAAGCCTTCGG
1 CAAATGCCTTCGG
76724724 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 32 0.28
40 78 0.68
41 4 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:76724785 original size:41 final size:41
Alignment explanation
Indices: 76724708--76724785 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
76724698 TTTGTATCTC
* * *
76724708 GCACAAAAGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
76724749 GCAC-AAAGCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAAGCCTTC-GGATCTTAGCCCGGACA-CATTCA
76724786 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 12 0.38
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAAGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:76728041 original size:40 final size:40
Alignment explanation
Indices: 76728010--76728148 Score: 235
Period size: 40 Copynumber: 3.5 Consensus size: 40
76728000 GGACTAAGAT
76728010 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
76728050 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
* *
76728090 CCGAAGGCCTTTGTGCGAGATACTAAA-TCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
*
76728130 CCGAAGGCATTCGTGCGAG
1 CCGAAGGCATTTGTGCGAG
76728149 TTGTTAAATC
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 91 0.97
41 3 0.03
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
Found at i:76728157 original size:40 final size:39
Alignment explanation
Indices: 76727957--76728221 Score: 232
Period size: 40 Copynumber: 6.7 Consensus size: 39
76727947 TTGAATGCTG
* * *
76727957 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T--ATAAA
** *
76727997 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGATATAAA
* *
76728036 TTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATACAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATAAA
* *
76728076 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATA-TAAA
* * *
76728117 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGAT-ATAAA
* * * *
76728157 TCCGGGTTATGTCCTGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATA-TAAA
* * * *
76728196 ACTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
76728222 AACGAGGAGC
Statistics
Matches: 193, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
39 34 0.18
40 145 0.75
41 13 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATATAAA
Found at i:76736021 original size:39 final size:39
Alignment explanation
Indices: 76735974--76736184 Score: 255
Period size: 40 Copynumber: 5.3 Consensus size: 39
76735964 GGACTAAGAT
76735974 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
76736013 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACAAA-TCCGGGTTAAGTC
*
76736053 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
* * ** *
76736093 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTTGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
76736133 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATAC-AAATCCGGGTTAAGTC
76736172 CCGAAGGCATTTG
1 CCGAAGGCATTTG
76736185 AACGAGGAGC
Statistics
Matches: 153, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 70 0.46
40 80 0.52
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:76736057 original size:79 final size:80
Alignment explanation
Indices: 76735921--76736184 Score: 272
Period size: 79 Copynumber: 3.3 Consensus size: 80
76735911 TTGAATGCTG
* * ** **
76735921 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGA-ATATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TGACA-A-ATCCGGGTTAAGCCCCGAAGGCA
76735983 TTTGTGCGAGATAC-AAA
63 TTTGTGCGAGATACTAAA
*
76736000 TTCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCT
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGGCAT
76736063 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
* * ** * *
76736080 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCA-TT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTT
* *
76736144 GTGTGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
76736159 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
76736185 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
78 1 0.01
79 90 0.57
80 62 0.39
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:76736202 original size:79 final size:80
Alignment explanation
Indices: 76735974--76736217 Score: 205
Period size: 79 Copynumber: 3.1 Consensus size: 80
76735964 GGACTAAGAT
* * * ** *
76735974 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAG-CCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
76736035 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * ** ** *
76736053 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
76736118 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * *
76736133 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
76736197 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
76736211 CCGAAGG
1 CCGAAGG
76736218 TACGTGATTT
Statistics
Matches: 137, Mismatches: 23, Indels: 11
0.80 0.13 0.06
Matches are distributed among these distances:
78 14 0.10
79 80 0.58
80 40 0.29
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:76740301 original size:45 final size:45
Alignment explanation
Indices: 76740242--76740376 Score: 182
Period size: 45 Copynumber: 3.0 Consensus size: 45
76740232 GAATCAAATA
* *
76740242 CGATGCCGATGTCCTAGACATGGTCTTACACATAACCACATATAT
1 CGATGCCAATGTCCTAGACGTGGTCTTACACATAACCACATATAT
* * **
76740287 CGATGCCAACGTCCTAGATGTGGTCTTACATGTAACCACATATAT
1 CGATGCCAATGTCCTAGACGTGGTCTTACACATAACCACATATAT
* *
76740332 CGATGCCAATGTCCCAGACGTGGTCTTACACGAGAA-CACATATAT
1 CGATGCCAATGTCCTAGACGTGGTCTTACAC-ATAACCACATATAT
76740377 TGGAAATCCT
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 75 0.97
46 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (45 bp):
CGATGCCAATGTCCTAGACGTGGTCTTACACATAACCACATATAT
Found at i:76763842 original size:27 final size:26
Alignment explanation
Indices: 76763798--76763849 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
76763788 CTCGCTGCAA
*
76763798 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
76763825 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
76763850 GCAGCCTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:76763907 original size:33 final size:32
Alignment explanation
Indices: 76763865--76763928 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
76763855 CTTGCTGCAA
*
76763865 TCTGGTGGCTTCGCCACAAATATATATATCTGT
1 TCTGGTGGCTTAGCCAC-AATATATATATCTGT
*
76763898 TCTGGTGGCTTAGCCACAATATCTATATCTG
1 TCTGGTGGCTTAGCCACAATATATATATCTG
76763929 GTGACTTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (32 bp):
TCTGGTGGCTTAGCCACAATATATATATCTGT
Found at i:76770720 original size:87 final size:87
Alignment explanation
Indices: 76770581--76770752 Score: 263
Period size: 87 Copynumber: 2.0 Consensus size: 87
76770571 GGGACACGCT
* * * *
76770581 CGTGTAACCCTGGGACACGCCCGTGCTAGAGGTCGTGTTCGACCCTATGTAACTCTCTGACTTGC
1 CGTGTAACCCTAGGACACACCCGTACTAGAGGTCGTGTTCGACCCTATGTAACTCTCTAACTTGC
* *
76770646 ACACACGGCCCTGCCACACGTC
66 ACACACGACCATGCCACACGTC
* * *
76770668 CGTGTGACCCTAGGACACACCCGTACTAGAGGTCGTGTTTGACCCTGTGTAACTCTCTAACTTGC
1 CGTGTAACCCTAGGACACACCCGTACTAGAGGTCGTGTTCGACCCTATGTAACTCTCTAACTTGC
76770733 ACACACGACCATGCCACACG
66 ACACACGACCATGCCACACG
76770753 CACGTCTACA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.21, C:0.34, G:0.23, T:0.22
Consensus pattern (87 bp):
CGTGTAACCCTAGGACACACCCGTACTAGAGGTCGTGTTCGACCCTATGTAACTCTCTAACTTGC
ACACACGACCATGCCACACGTC
Found at i:76775668 original size:20 final size:20
Alignment explanation
Indices: 76775634--76775683 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
76775624 TTTCCAGCAC
*
76775634 ATTTATTCATAAAATTTTAGA
1 ATTT-TTCATAAAATTTTACA
*
76775655 ATTTTTCATCAAATTTTACA
1 ATTTTTCATAAAATTTTACA
*
76775675 ACTTTTCAT
1 ATTTTTCAT
76775684 TTTAGTCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTTTCATAAAATTTTACA
Found at i:76777307 original size:15 final size:16
Alignment explanation
Indices: 76777277--76777310 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
76777267 TTTGGTTTGG
76777277 TTATTTTAGTATTTAAT
1 TTATTTTAG-ATTTAAT
76777294 TTATTTTA-ATTTAAT
1 TTATTTTAGATTTAAT
76777309 TT
1 TT
76777311 TTACAGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TTATTTTAGATTTAAT
Found at i:76779264 original size:13 final size:13
Alignment explanation
Indices: 76779248--76779274 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
76779238 AATTTAGCAA
76779248 TTTTTCTTTTAAT
1 TTTTTCTTTTAAT
76779261 TTTTTCTTTTAAT
1 TTTTTCTTTTAAT
76779274 T
1 T
76779275 AATAATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTCTTTTAAT
Found at i:76782812 original size:41 final size:41
Alignment explanation
Indices: 76782761--76782861 Score: 193
Period size: 41 Copynumber: 2.5 Consensus size: 41
76782751 TGTGAATACT
*
76782761 TGACAGCTTGTGTGAGCAGCACCGCGTAGCTACATCTTGAC
1 TGACAGCTTGTGTGAGCAGCACCGCGTAGCTACATCTTAAC
76782802 TGACAGCTTGTGTGAGCAGCACCGCGTAGCTACATCTTAAC
1 TGACAGCTTGTGTGAGCAGCACCGCGTAGCTACATCTTAAC
76782843 TGACAGCTTGTGTGAGCAG
1 TGACAGCTTGTGTGAGCAG
76782862 GCCCGTCGAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.25
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCAGCACCGCGTAGCTACATCTTAAC
Found at i:76782973 original size:13 final size:13
Alignment explanation
Indices: 76782955--76782983 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
76782945 AAATCTCGAG
76782955 TATCCGACATTAT
1 TATCCGACATTAT
76782968 TATCCGACATTAT
1 TATCCGACATTAT
76782981 TAT
1 TAT
76782984 TCGAGATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (13 bp):
TATCCGACATTAT
Found at i:76783644 original size:15 final size:17
Alignment explanation
Indices: 76783612--76783644 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
76783602 TGTTGAAACT
76783612 TGTGAATGTGAGTTTGG
1 TGTGAATGTGAGTTTGG
76783629 TGTGAAT-TGA-TTTGG
1 TGTGAATGTGAGTTTGG
76783644 T
1 T
76783645 AAATTATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (17 bp):
TGTGAATGTGAGTTTGG
Found at i:76784868 original size:37 final size:40
Alignment explanation
Indices: 76784771--76784869 Score: 98
Period size: 40 Copynumber: 2.5 Consensus size: 40
76784761 AACACACCAG
* * *
76784771 TTTGGTACCCAGTGCCTCATCAGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCGGATAACTCGAAGTAATAA
* ** *
76784811 TTTGACACCCAGTGTTTCATCGGTTAAACT-GAAGT-A-AA
1 TTTGGCACCCAGTGCCTCATCGGAT-AACTCGAAGTAATAA
76784849 -TTGGCACCCAGTGCCTCATCG
1 TTTGGCACCCAGTGCCTCATCG
76784870 AATTAATCCG
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
37 18 0.38
38 2 0.04
39 1 0.02
40 24 0.50
41 3 0.06
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTGGCACCCAGTGCCTCATCGGATAACTCGAAGTAATAA
Found at i:76785117 original size:24 final size:24
Alignment explanation
Indices: 76785064--76785122 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 24
76785054 CAATATATAT
76785064 ATCAATTCAATCAATATAAATTAA
1 ATCAATTCAATCAATATAAATTAA
*
76785088 AT-AATTC-ATCACATACTAAA-TCA
1 ATCAATTCAATCA-ATA-TAAATTAA
76785111 ATCAATTTCAAT
1 ATCAA-TTCAAT
76785123 TGCAAAACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
22 4 0.14
23 12 0.41
24 8 0.28
25 3 0.10
26 2 0.07
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (24 bp):
ATCAATTCAATCAATATAAATTAA
Found at i:76785906 original size:5 final size:5
Alignment explanation
Indices: 76785888--76785918 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
76785878 CTTCATATTT
76785888 TAATA TAATAA TAATA TAATA TAATA TAATA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA
76785919 ATATATTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATA
Found at i:76788769 original size:10 final size:10
Alignment explanation
Indices: 76788751--76788802 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
76788741 ATTATTAACA
*
76788751 TAATGAATTT
1 TAATTAATTT
76788761 TAATTAATTTT
1 TAATTAA-TTT
76788772 ATAATTAATTT
1 -TAATTAATTT
*
76788783 TGATTAATTT
1 TAATTAATTT
*
76788793 TGATT-ATTT
1 TAATTAATTT
76788802 T
1 T
76788803 CGACAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 6 0.16
12 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (10 bp):
TAATTAATTT
Found at i:76788775 original size:22 final size:22
Alignment explanation
Indices: 76788750--76788793 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
76788740 AATTATTAAC
76788750 ATAATGAATTTTAATTAATTTT
1 ATAATGAATTTTAATTAATTTT
* *
76788772 ATAATTAATTTTGATTAATTTT
1 ATAATGAATTTTAATTAATTTT
76788794 GATTATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATGAATTTTAATTAATTTT
Found at i:76792549 original size:41 final size:43
Alignment explanation
Indices: 76792446--76792549 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 43
76792436 TCGATGTGTG
* *
76792446 ATTTGTGTAAGATCATGTCTAGGACATTGGCATCGAAGTGAGA
1 ATTTGTGTAAGACCATGTCTAGAACATTGGCATCGAAGTGAGA
** * *
76792489 AAATGTGTAAGACCATGTCTAGAACATTGGCATCGTA-T-ATA
1 ATTTGTGTAAGACCATGTCTAGAACATTGGCATCGAAGTGAGA
*
76792530 ATTTGTGTAAGACCCTGTCT
1 ATTTGTGTAAGACCATGTCT
76792550 GGGTCAATGG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
41 19 0.37
42 1 0.02
43 32 0.62
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (43 bp):
ATTTGTGTAAGACCATGTCTAGAACATTGGCATCGAAGTGAGA
Found at i:76792561 original size:41 final size:40
Alignment explanation
Indices: 76792446--76792568 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 40
76792436 TCGATGTGTG
* * * *
76792446 ATTTGTGTAAGATCATGTCTAGGACATTGGCATCGAAGTGAGA
1 ATTTGTGTAAGACCATGTCTAGAACAATGGCATCG-A-T-ATA
** *
76792489 AAATGTGTAAGACCATGTCTAGAACATTGGCATCGTATATA
1 ATTTGTGTAAGACCATGTCTAGAACAATGGCATCG-ATATA
* * **
76792530 ATTTGTGTAAGACCCTGTCTGGGTCAATGGCATCGATAT
1 ATTTGTGTAAGACCATGTCTAGAACAATGGCATCGATAT
76792569 GTGATAACAT
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
40 4 0.06
41 30 0.45
42 1 0.01
43 32 0.48
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (40 bp):
ATTTGTGTAAGACCATGTCTAGAACAATGGCATCGATATA
Found at i:76803439 original size:21 final size:20
Alignment explanation
Indices: 76803395--76803443 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
76803385 TCAGCTCCCA
* *
76803395 TCAGCTCACTTGAGCTCGAT
1 TCAGCTCGCTTGAGCTAGAT
*
76803415 TCAGCTCGTTTGAGCTAGAAT
1 TCAGCTCGCTTGAGCTAG-AT
76803436 TCAGCTCG
1 TCAGCTCG
76803444 ATCTAGCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (20 bp):
TCAGCTCGCTTGAGCTAGAT
Done.