Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 53 of 259
Found at i:16682160 original size:94 final size:94
Alignment explanation
Indices: 16681995--16682168 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 94
16681985 ATTGGGTTAT
* **
16681995 ATGAGGGCTAGAGTAAGACATGTTTGGGACATGCATCAGCCATATTATGATAGCCAGTGTAAGAC
1 ATGAGGGCTAGAGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATAGCCAGTGTAAGAC
16682060 CATGTCTGGGACATGGCATTGGTGCAGAG
66 CATGTCTGGGACATGGCATTGGTGCAGAG
* * *
16682089 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAACGATGATAGCCAGTGTAAG
1 ATGAGGGCTAGAGTAAGACATGTCTGGGACATGCATCAGCCAT--ACGATGATAGCCAGTGTAAG
*
16682153 A-CGTGTCTGGGACATG
64 ACCATGTCTGGGACATG
16682169 CATCGGCTAA
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
93 1 0.01
94 51 0.72
95 19 0.27
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (94 bp):
ATGAGGGCTAGAGTAAGACATGTCTGGGACATGCATCAGCCATACGATGATAGCCAGTGTAAGAC
CATGTCTGGGACATGGCATTGGTGCAGAG
Found at i:16682212 original size:91 final size:94
Alignment explanation
Indices: 16681995--16682215 Score: 251
Period size: 94 Copynumber: 2.4 Consensus size: 94
16681985 ATTGGGTTAT
* * * * **
16681995 ATGAGGGCTAGAGTAAGACATGTTTGGGACATGCATCAG-C-CATATTATGATAGCCAGTGTAAG
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-ACGATGATAGCCAGTGTAAG
*
16682058 ACCATGTCTGGGACATGGCATTGGTGCAGAG
65 ACCATGTCTGGGACATGGCATCGGT-CAGAG
16682089 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACGATGATAGCCAGTGTAAGA
1 ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACGATGATAGCCAGTGTAAGA
*
16682154 -CGTGTCTGGGACAT-GCATCGG-CTA-AG
66 CCATGTCTGGGACATGGCATCGGTC-AGAG
* *
16682180 CTTTA-TGCTAGTGTAAGAC-TAGTCTGGGACATGCAT
1 -ATGAGTGCTAGTGTAAGACAT-GTCTGGGACATGCAT
16682216 TGGTACATAT
Statistics
Matches: 112, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
90 1 0.01
91 32 0.29
92 3 0.03
93 6 0.05
94 48 0.43
95 20 0.18
96 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (94 bp):
ATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAACGATGATAGCCAGTGTAAGA
CCATGTCTGGGACATGGCATCGGTCAGAG
Found at i:16683184 original size:55 final size:55
Alignment explanation
Indices: 16683067--16683184 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 55
16683057 TTAAACTTTT
* * * * * * *
16683067 AAATCAGGATTGCCCATGGTTAGGCCACATGGGCGTGTGCCATAGCCATGTCTTT
1 AAATCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCCCTA
* * * *
16683122 AAGTCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGTCATGGCCGTGCCCTA
1 AAATCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCCCTA
16683177 AAATCAGT
1 AAATCAGT
16683185 GTCGCACACG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (55 bp):
AAATCAGTATTGCCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCATGCCCTA
Found at i:16684095 original size:41 final size:42
Alignment explanation
Indices: 16684091--16684201 Score: 131
Period size: 41 Copynumber: 2.7 Consensus size: 42
16684081 GCTATCTTGG
*
16684091 TCTCGCACACTAAGTGCCATATATAGCCGAAGCTAT-TATAA
1 TCTCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTATAA
* ***
16684132 TCTCGCACACTAAGTGCCATAAATAGTCGAAGCTATCCCGAA
1 TCTCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTATAA
*
16684174 --TCGCACACTAACTGCCA-AACATAGCCGA
1 TCTCGCACACTAAGTGCCATAA-ATAGCCGA
16684202 TTTGTTGTTG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
39 2 0.03
40 23 0.38
41 34 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (42 bp):
TCTCGCACACTAAGTGCCATAAATAGCCGAAGCTATCTATAA
Found at i:16684146 original size:82 final size:83
Alignment explanation
Indices: 16684008--16684168 Score: 252
Period size: 82 Copynumber: 2.0 Consensus size: 83
16683998 ATACTCGATA
** * * * *
16684008 TCTCGCATGCTAAGTGCCAATGTATAGCTGAAGCTATTATAATCTCGCACACTAAGTGCCTTACA
1 TCTCGCACACTAAGTGCCAATATATAGCCGAAGCTATTATAATCTCGCACACTAAGTGCCATAAA
16684073 TAGCCGAAGCTATCTTGG
66 TAGCCGAAGCTATCTTGG
16684091 TCTCGCACACTAAGTGCC-ATATATAGCCGAAGCTATTATAATCTCGCACACTAAGTGCCATAAA
1 TCTCGCACACTAAGTGCCAATATATAGCCGAAGCTATTATAATCTCGCACACTAAGTGCCATAAA
*
16684155 TAGTCGAAGCTATC
66 TAGCCGAAGCTATC
16684169 CCGAATCGCA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 55 0.77
83 16 0.23
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.27
Consensus pattern (83 bp):
TCTCGCACACTAAGTGCCAATATATAGCCGAAGCTATTATAATCTCGCACACTAAGTGCCATAAA
TAGCCGAAGCTATCTTGG
Found at i:16685614 original size:37 final size:37
Alignment explanation
Indices: 16685564--16685645 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
16685554 GTAAACCCAT
* *
16685564 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAGATCAG
1 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAAATCAA
16685601 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAAATCAA
1 TTAACTCCAATTGGCTTTTTTCCTCTTGAAAAATCAA
16685638 TTAACTCC
1 TTAACTCC
16685646 CAGGTGTCGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (37 bp):
TTAACTCCAATTGGCTTTTTTCCTCTTGAAAAATCAA
Found at i:16695461 original size:30 final size:30
Alignment explanation
Indices: 16695427--16695498 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
16695417 GAATTTGATC
16695427 AAATTAAAATTTCATTTATAAAATTGCACA
1 AAATTAAAATTTCATTTATAAAATTGCACA
16695457 AAATTAAAATTTCATTTATAAAATTGCACA
1 AAATTAAAATTTCATTTATAAAATTGCACA
16695487 AAATTAAAATTT
1 AAATTAAAATTT
16695499 ATATATACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (30 bp):
AAATTAAAATTTCATTTATAAAATTGCACA
Found at i:16695466 original size:16 final size:16
Alignment explanation
Indices: 16695445--16695497 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
16695435 ATTTCATTTA
16695445 TAAAATTGCACAAAAT
1 TAAAATTGCACAAAAT
* ***
16695461 TAAAATTTCA-TTTA-
1 TAAAATTGCACAAAAT
16695475 TAAAATTGCACAAAAT
1 TAAAATTGCACAAAAT
16695491 TAAAATT
1 TAAAATT
16695498 TATATATACA
Statistics
Matches: 27, Mismatches: 8, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
14 9 0.33
15 2 0.07
16 16 0.59
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (16 bp):
TAAAATTGCACAAAAT
Found at i:16695835 original size:20 final size:20
Alignment explanation
Indices: 16695810--16695870 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
16695800 ATGACATGTG
16695810 ATATTTTTAATTAAATAAAA
1 ATATTTTTAATTAAATAAAA
**
16695830 ATATTTAAAATTAAAT---A
1 ATATTTTTAATTAAATAAAA
*
16695847 ATATTTTTAATTAAATAAAT
1 ATATTTTTAATTAAATAAAA
16695867 ATAT
1 ATAT
16695871 AGATGATGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
17 15 0.45
20 18 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTTTAATTAAATAAAA
Found at i:16695851 original size:17 final size:17
Alignment explanation
Indices: 16695825--16695864 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16695815 TTTAATTAAA
16695825 TAAA-AATATTTAAAAT
1 TAAATAATATTTAAAAT
**
16695841 TAAATAATATTTTTAAT
1 TAAATAATATTTAAAAT
16695858 TAAATAA
1 TAAATAA
16695865 ATATATAGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAATATTTAAAAT
Found at i:16696333 original size:29 final size:28
Alignment explanation
Indices: 16696275--16696333 Score: 82
Period size: 29 Copynumber: 2.1 Consensus size: 28
16696265 TTTGGTCTAA
* *
16696275 TGTGCATTTTATACATGAACTTTGATTT
1 TGTGCATTTTATACATGAAATTTGAATT
*
16696303 TGTGCAGTTTTATACATGAAATTTTAATT
1 TGTGCA-TTTTATACATGAAATTTGAATT
16696332 TG
1 TG
16696334 ATCCAACCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.49
Consensus pattern (28 bp):
TGTGCATTTTATACATGAAATTTGAATT
Found at i:16696428 original size:29 final size:29
Alignment explanation
Indices: 16696377--16696432 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
16696367 ATACATTCTT
* * *
16696377 TTATATTTATATATTGTATAAATAAATAA
1 TTATATTTATATAATATAAAAATAAATAA
*
16696406 TTATATTTATCTAATATAAAAATAAAT
1 TTATATTTATATAATATAAAAATAAAT
16696433 TGGTGTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
TTATATTTATATAATATAAAAATAAATAA
Found at i:16701442 original size:15 final size:15
Alignment explanation
Indices: 16701420--16701467 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
16701410 TTTTGAGCAA
16701420 TTTA-ATTTTTTTCT
1 TTTATATTTTTTTCT
16701434 TTTATATTTTTTTAACT
1 TTTATATTTTTTT--CT
*
16701451 TTCAT-TTTTTTTCT
1 TTTATATTTTTTTCT
16701465 TTT
1 TTT
16701468 TTTTCCATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
14 8 0.28
15 8 0.28
16 7 0.24
17 6 0.21
ACGTcount: A:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATATTTTTTTCT
Found at i:16709479 original size:26 final size:26
Alignment explanation
Indices: 16709411--16709481 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
16709401 TCTCATACCT
*
16709411 ATTTT-CCACCTAACAAAATTTTGACG
1 ATTTTACC-CCTAATAAAATTTTGACG
** *
16709437 ATTTTACCCCTGGTAAAATTTTGATG
1 ATTTTACCCCTAATAAAATTTTGACG
* *
16709463 ATTTTGCCCTTAATAAAAT
1 ATTTTACCCCTAATAAAAT
16709482 GTCGAGAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
26 34 0.94
27 2 0.06
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (26 bp):
ATTTTACCCCTAATAAAATTTTGACG
Found at i:16709637 original size:6 final size:6
Alignment explanation
Indices: 16709626--16709656 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
16709616 TGCAAAAGGA
16709626 TCATTT TCATTT TCATTT TCATTT TCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
16709657 TGGAAACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:16713856 original size:40 final size:40
Alignment explanation
Indices: 16713808--16714155 Score: 660
Period size: 40 Copynumber: 8.7 Consensus size: 40
16713798 GCAAACACAT
* *
16713808 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
16713848 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
16713888 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16713928 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16713968 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16714008 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16714048 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16714088 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16714128 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
16714156 TCCAATGCTC
Statistics
Matches: 302, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 302 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:16722641 original size:40 final size:40
Alignment explanation
Indices: 16722593--16722860 Score: 500
Period size: 40 Copynumber: 6.7 Consensus size: 40
16722583 GCAAACACAT
* *
16722593 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
16722633 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
16722673 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16722713 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16722753 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16722793 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
16722833 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
16722861 TCCAATGCTC
Statistics
Matches: 222, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 222 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:16739569 original size:26 final size:26
Alignment explanation
Indices: 16739533--16739601 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
16739523 CCTGCACATA
*
16739533 TATGCTCACACGAGCTGTGAAATGAG
1 TATGCTCACACGAGCTGAGAAATGAG
* * *
16739559 TATGCTTACACGAGTTGAGAAATGGG
1 TATGCTCACACGAGCTGAGAAATGAG
* * *
16739585 TCTTCTCACATGAGCTG
1 TATGCTCACACGAGCTG
16739602 TGCGGTGGAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (26 bp):
TATGCTCACACGAGCTGAGAAATGAG
Found at i:16742091 original size:18 final size:18
Alignment explanation
Indices: 16742068--16742103 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
16742058 TAAGATTGTG
16742068 ATACAATGAACCTGGTCA
1 ATACAATGAACCTGGTCA
*
16742086 ATACAATGAACTTGGTCA
1 ATACAATGAACCTGGTCA
16742104 TAGTTGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (18 bp):
ATACAATGAACCTGGTCA
Found at i:16743713 original size:14 final size:15
Alignment explanation
Indices: 16743689--16743717 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
16743679 TGTGATTATT
16743689 ATGATGATTGATATG
1 ATGATGATTGATATG
16743704 ATGA-GATTGATATG
1 ATGATGATTGATATG
16743718 TTAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.00, G:0.28, T:0.38
Consensus pattern (15 bp):
ATGATGATTGATATG
Found at i:16743955 original size:16 final size:16
Alignment explanation
Indices: 16743929--16743966 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
16743919 TGGGATTTTC
16743929 TTTTGGATTTTGGATTA
1 TTTT-GATTTTGGATTA
*
16743946 TTTTGATTTTGGATTT
1 TTTTGATTTTGGATTA
16743962 TTTTG
1 TTTTG
16743967 CATGATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.66
Consensus pattern (16 bp):
TTTTGATTTTGGATTA
Found at i:16748508 original size:26 final size:26
Alignment explanation
Indices: 16748478--16748535 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
16748468 CATTATGTTA
* *
16748478 GAAAGTCTCGAAATCTTTATTTAATT
1 GAAAGACTCGAAATCTCTATTTAATT
16748504 GAAAGACTCGAAATCTCTATTTAATT
1 GAAAGACTCGAAATCTCTATTTAATT
*
16748530 AAAAGA
1 GAAAGA
16748536 ATTGTATATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (26 bp):
GAAAGACTCGAAATCTCTATTTAATT
Found at i:16750787 original size:22 final size:24
Alignment explanation
Indices: 16750743--16750788 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16750733 GGGTAGGACT
* *
16750743 TTTTCTGAGAAATCCACATTATTG
1 TTTTCTGAAAAATACACATTATTG
16750767 TTTTCTGAAAAATAC-CA-TATTG
1 TTTTCTGAAAAATACACATTATTG
16750789 GCATAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 2 0.10
24 13 0.65
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTCTGAAAAATACACATTATTG
Found at i:16762219 original size:22 final size:20
Alignment explanation
Indices: 16762162--16762221 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 20
16762152 TTAACAAAAG
16762162 AATAAAAATGACTAAACTAAA
1 AATAAAAAT-ACTAAACTAAA
* *
16762183 AAGAAAGTAAAACTAAACTAAA
1 AATAAA--AATACTAAACTAAA
16762205 AACCTAAAAATACTAAA
1 AA--TAAAAATACTAAA
16762222 ACGGCTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
21 5 0.16
22 21 0.68
23 2 0.06
24 3 0.10
ACGTcount: A:0.67, C:0.12, G:0.05, T:0.17
Consensus pattern (20 bp):
AATAAAAATACTAAACTAAA
Found at i:16774088 original size:51 final size:50
Alignment explanation
Indices: 16774010--16774184 Score: 219
Period size: 51 Copynumber: 3.5 Consensus size: 50
16774000 ACGGATACCC
* * *
16774010 AGTGGCCTGCACATAGTACCACTCTTGTAGTCAAAGCTACCTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GTCAAAGCTACCTTCTTCACAA
* * *
16774061 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCCATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTG-TCAAAGCTA-CCTTCTTCACAA
* * * *
16774113 AGTGG-CTTCACATAGTACCACACTTGTGACCAAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAA
16774161 AGTGGCCTTCACATAGTACCACAC
1 AGTGGCCTTCACATAGTACCACAC
16774185 CTGAGTCACT
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
48 13 0.12
49 18 0.17
50 7 0.06
51 56 0.51
52 15 0.14
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTACCTTCTTCACAA
Found at i:16782455 original size:23 final size:22
Alignment explanation
Indices: 16782404--16782455 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
16782394 CCTCGTCTTT
*
16782404 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
16782426 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
16782449 TTCTTTT
1 TTCTTTT
16782456 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:16782470 original size:18 final size:18
Alignment explanation
Indices: 16782449--16782487 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
16782439 TTTCTTCAAC
* *
16782449 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
16782467 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
16782485 TTC
1 TTC
16782488 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:16785180 original size:51 final size:50
Alignment explanation
Indices: 16785102--16785276 Score: 219
Period size: 51 Copynumber: 3.5 Consensus size: 50
16785092 ACGGATACCC
* * * *
16785102 AGTGGCCTGCACATAGTACCACTCTTGTAGTCAAAGCTACCTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGT-GACAAAGCTACCTTCTTCACAA
* * *
16785153 AGTGGCCTTCACATAGTACCACGCTTGTGACTAAAGCCATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGAC-AAAGCTA-CCTTCTTCACAA
* * *
16785205 AGTGG-CTTCACATAGTACCACACTTGTGACCAAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGACAAAGCTACCTTCTTCACAA
16785253 AGTGGCCTTCACATAGTACCACAC
1 AGTGGCCTTCACATAGTACCACAC
16785277 CTGAGTCACT
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
48 13 0.12
49 18 0.17
50 7 0.06
51 56 0.51
52 15 0.14
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (50 bp):
AGTGGCCTTCACATAGTACCACACTTGTGACAAAGCTACCTTCTTCACAA
Found at i:16791015 original size:155 final size:154
Alignment explanation
Indices: 16790733--16791039 Score: 569
Period size: 155 Copynumber: 2.0 Consensus size: 154
16790723 GCCATGGAAT
16790733 TTTAATTAGAGGGTCATAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
1 TTTAATTAGAGGGTCATAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
16790798 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
66 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
16790863 AAGGGAAAAATAGAGCAAAATTTGC
131 AAGGG-AAAATAGAGCAAAATTTGC
* *
16790888 TTTAATTAGAGGGTCTTAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAACTGGACATG
1 TTTAATTAGAGGGTCATAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
*
16790953 AATAGTAAAAATTTGAAAGAAAAGCCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
66 AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
*
16791018 AAGGGAAAATGGAGCAAAATTT
131 AAGGGAAAATAGAGCAAAATTT
16791040 ACTTATCTTC
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
154 16 0.11
155 132 0.89
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (154 bp):
TTTAATTAGAGGGTCATAAATAGCAGTTTGACCAAATTCTACAATTTTGGATAAAAATGGACATG
AATAGTAAAAATTTGAAAGAAAAACCTTAAGGGCATTTTAGTCATTTAGTAATTAAAAGAATAAA
AAGGGAAAATAGAGCAAAATTTGC
Found at i:16792611 original size:29 final size:30
Alignment explanation
Indices: 16792577--16792640 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
16792567 CAAGTAGTTG
*
16792577 AAGCTAG-TTAAATCGTACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
* *
16792606 AAGCTAGTTTAAGTTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
16792636 AAGCT
1 AAGCT
16792641 TCCGATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 7 0.23
30 24 0.77
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:16798443 original size:25 final size:25
Alignment explanation
Indices: 16798409--16798456 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
16798399 CAACATCGTC
16798409 AGCTACAGGTCTATCGGGATCCATT
1 AGCTACAGGTCTATCGGGATCCATT
16798434 AGCTACAGGTCTATCGGGATCCA
1 AGCTACAGGTCTATCGGGATCCA
16798457 AGAATTCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
AGCTACAGGTCTATCGGGATCCATT
Found at i:16799150 original size:29 final size:30
Alignment explanation
Indices: 16799116--16799179 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
16799106 CAAGTAGTCG
16799116 AAGCTAG-TTAAA-CCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCC-CACACTTAGTGCCA
* *
16799145 AAGCTAGTTTAAATTCCATACTTAGTGCCA
1 AAGCTAGTTTAAATCCCACACTTAGTGCCA
16799175 AAGCT
1 AAGCT
16799180 TCAGATTCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 7 0.23
30 23 0.74
31 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCCCACACTTAGTGCCA
Found at i:16803497 original size:18 final size:19
Alignment explanation
Indices: 16803474--16803512 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16803464 TGAAAATCCT
*
16803474 TCTTAA-AATAAAAGAAAA
1 TCTTAATAATAAAAAAAAA
*
16803492 TCTTAATTATAAAAAAAAA
1 TCTTAATAATAAAAAAAAA
16803511 TC
1 TC
16803513 CTTTCAATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (19 bp):
TCTTAATAATAAAAAAAAA
Found at i:16804607 original size:29 final size:29
Alignment explanation
Indices: 16804540--16804617 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
16804530 TAAATACATG
*
16804540 CATATGACCCA-CTTGGCCCAATCTCATTT
1 CATATGACCCATC-AGGCCCAATCTCATTT
* *
16804569 -ATATGGCCCATCAGGCTCAAT-TCATATT
1 CATATGACCCATCAGGCCCAATCTCAT-TT
*
16804597 CATATGACCCATTAGGCCCAA
1 CATATGACCCATCAGGCCCAA
16804618 ATCACCTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
27 4 0.10
28 18 0.45
29 18 0.45
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CATATGACCCATCAGGCCCAATCTCATTT
Found at i:16804630 original size:29 final size:29
Alignment explanation
Indices: 16804541--16804651 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 29
16804531 AAATACATGC
*
16804541 ATATGACCCACTT-GGCCC-AATCTCATTT
1 ATATGACCCA-TTAGGCCCAAATCACATTT
* * * * * *
16804569 ATATGGCCCATCAGGCTCAATTCATATTC
1 ATATGACCCATTAGGCCCAAATCACATTT
*
16804598 ATATGACCCATTAGGCCCAAATCACCTTT
1 ATATGACCCATTAGGCCCAAATCACATTT
* *
16804627 ATATGGCCCGTTAGGCCCAAATCAC
1 ATATGACCCATTAGGCCCAAATCAC
16804652 CTTATATTCA
Statistics
Matches: 65, Mismatches: 16, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
27 1 0.02
28 13 0.20
29 51 0.78
ACGTcount: A:0.28, C:0.31, G:0.14, T:0.28
Consensus pattern (29 bp):
ATATGACCCATTAGGCCCAAATCACATTT
Found at i:16809131 original size:29 final size:28
Alignment explanation
Indices: 16809062--16809168 Score: 112
Period size: 29 Copynumber: 3.8 Consensus size: 28
16809052 TACATACATG
16809062 CATATGGCCCACTT-GGCCCAATTTCATTT
1 CATATGGCCCA-TTAGGCCCAA-TTCATTT
*
16809091 -ATTTGGCCCATTAGGCCCAATTCATATT
1 CATATGGCCCATTAGGCCCAATTCAT-TT
*
16809119 CATATGGCCCATTAGGCCCAAATCACCTTT
1 CATATGGCCCATTAGGCCCAATTCA--TTT
* *
16809149 -TTATGGCCCGTTAGGCCCAA
1 CATATGGCCCATTAGGCCCAA
16809169 ATAACCTTAT
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.10
28 18 0.26
29 40 0.59
30 2 0.03
31 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (28 bp):
CATATGGCCCATTAGGCCCAATTCATTT
Found at i:16809169 original size:29 final size:29
Alignment explanation
Indices: 16809094--16809180 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 29
16809084 TTCATTTATT
* **
16809094 TGGCCCATTAGGCCCAATTCATATTCATA
1 TGGCCCATTAGGCCCAAATCACCTTCATA
**
16809123 TGGCCCATTAGGCCCAAATCACCTTTTTA
1 TGGCCCATTAGGCCCAAATCACCTTCATA
* *
16809152 TGGCCCGTTAGGCCCAAATAACCTT-ATA
1 TGGCCCATTAGGCCCAAATCACCTTCATA
16809180 T
1 T
16809181 TTATAACTCA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 3 0.06
29 47 0.94
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACCTTCATA
Found at i:16814377 original size:20 final size:19
Alignment explanation
Indices: 16814352--16814393 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
16814342 GCCATTTTAC
16814352 TTTATTTACAATTTGTAATT
1 TTTATTTAC-ATTTGTAATT
* *
16814372 TTTATTTTCTTTTGTAATT
1 TTTATTTACATTTGTAATT
16814391 TTT
1 TTT
16814394 CTTTTATTCG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTATTTACATTTGTAATT
Found at i:16816724 original size:68 final size:67
Alignment explanation
Indices: 16816652--16816799 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 67
16816642 CATCATGTGT
* * * *
16816652 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
16816714 ATGTAG
62 ATGTAG
* * *
16816720 ACAAGAGAGCTACAGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
16816785 AG
66 AG
16816787 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
16816800 GAGATAAACT
Statistics
Matches: 70, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:16821165 original size:68 final size:67
Alignment explanation
Indices: 16821093--16821240 Score: 167
Period size: 67 Copynumber: 2.2 Consensus size: 67
16821083 CATCATGTGT
* * * *
16821093 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC-AG-CA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
16821155 ATGTAG
62 ATGTAG
* * * *
16821161 ACAAGAGAGCTACAGGATATATGTAGCTAGGTTGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
16821226 AG
66 AG
16821228 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
16821241 GAGATAAACT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 19 0.28
65 7 0.10
66 3 0.04
67 27 0.39
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACAGCATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:16845499 original size:31 final size:31
Alignment explanation
Indices: 16845456--16845535 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
16845446 CTCAGCATAT
16845456 ACTGGGCCGAAGCCTTTACATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
* * *
16845487 ACTGGGCTGAAGCCTTTTCATTATTCATATC
1 ACTGGGCCGAAGCCTTTACATTATTCATACC
*
16845518 ACTGTGCCGAAGCCTTTA
1 ACTGGGCCGAAGCCTTTA
16845536 TTGTAAACGG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATTCATACC
Found at i:16845783 original size:25 final size:25
Alignment explanation
Indices: 16845755--16845849 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
16845745 CTCCTTTAAT
* * *
16845755 AACTGGGGCAAAGTCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
16845780 AACTGGGGTAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
16845805 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
16845830 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
16845850 GCACTTCCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:16845908 original size:10 final size:10
Alignment explanation
Indices: 16845895--16845929 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
16845885 ATATATGTAT
16845895 ATATCATGGC
1 ATATCATGGC
16845905 ATATCATGTGC
1 ATATCATG-GC
16845916 ATATCATGGC
1 ATATCATGGC
16845926 ATAT
1 ATAT
16845930 TATGCACAAA
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:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:16845942 original size:21 final size:21
Alignment explanation
Indices: 16845897--16845942 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16845887 ATATGTATAT
** *
16845897 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGCACAA
*
16845918 ATCATGGCATATTATGCACAA
1 ATCATGGCATATCATGCACAA
16845939 ATCA
1 ATCA
16845943 GTATCACATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ATCATGGCATATCATGCACAA
Found at i:16852291 original size:25 final size:24
Alignment explanation
Indices: 16852222--16852303 Score: 103
Period size: 24 Copynumber: 3.4 Consensus size: 24
16852212 CTGGAGGCCT
*
16852222 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
16852246 ATCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* *
16852270 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-GATAAACTGGGGCAA
16852295 AGCCCTTTT
1 AGCCCTTTT
16852304 ACACTTCCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
23 7 0.14
24 22 0.43
25 22 0.43
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:16852362 original size:10 final size:10
Alignment explanation
Indices: 16852349--16852383 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
16852339 ATATATGTAT
16852349 ATATCATGGC
1 ATATCATGGC
16852359 ATATCATGTGC
1 ATATCATG-GC
16852370 ATATCATGGC
1 ATATCATGGC
16852380 ATAT
1 ATAT
16852384 TATGCACAAA
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:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:16852396 original size:21 final size:21
Alignment explanation
Indices: 16852351--16852396 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16852341 ATATGTATAT
** *
16852351 ATCATGGCATATCATGTGCAT
1 ATCATGGCATATCATGCACAA
*
16852372 ATCATGGCATATTATGCACAA
1 ATCATGGCATATCATGCACAA
16852393 ATCA
1 ATCA
16852397 GAATCATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ATCATGGCATATCATGCACAA
Found at i:16855748 original size:17 final size:17
Alignment explanation
Indices: 16855726--16855764 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
16855716 GACCTCAGTG
16855726 GCTTCCATTCCAGAATC
1 GCTTCCATTCCAGAATC
16855743 GCTTCCATTCCAGAATC
1 GCTTCCATTCCAGAATC
16855760 GCTTC
1 GCTTC
16855765 AATCTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.31
Consensus pattern (17 bp):
GCTTCCATTCCAGAATC
Found at i:16859333 original size:27 final size:26
Alignment explanation
Indices: 16859285--16859336 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
16859275 GCGAGGCTGC
*
16859285 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
16859311 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
16859337 TTACAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:16860018 original size:27 final size:27
Alignment explanation
Indices: 16859988--16860133 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
16859978 GGGGCAAAAT
* * *
16859988 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16860015 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16860042 GGTATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16860069 GGTAATTCTATCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
16860096 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
16860123 AGTAATTCTAC
1 GGTAATTCTAC
16860134 AACTTATCCA
Statistics
Matches: 105, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:16869085 original size:42 final size:41
Alignment explanation
Indices: 16869038--16869155 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 41
16869028 TAGTTATTGA
*
16869038 GATTCCGTGTAAGACCATATCTGGGATATGGCCTCAATATG
1 GATTCCGTGTAAGACCATATCTGGGATATGGCATCAATATG
* * ** * *
16869079 TGATTCCGTATAAGACCATGTCAAGGACATGGCATCGATATG
1 -GATTCCGTGTAAGACCATATCTGGGATATGGCATCAATATG
* * *
16869121 GCATTTCATGTAAGACTATATCTGGGATATGGCAT
1 G-ATTCCGTGTAAGACCATATCTGGGATATGGCAT
16869156 TGATATGATA
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (41 bp):
GATTCCGTGTAAGACCATATCTGGGATATGGCATCAATATG
Found at i:16870518 original size:13 final size:13
Alignment explanation
Indices: 16870502--16870526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16870492 AAGCCATGTG
16870502 AGGGACACGGGCC
1 AGGGACACGGGCC
16870515 AGGGACACGGGC
1 AGGGACACGGGC
16870527 GTGTGCTCAG
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:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:16873712 original size:40 final size:40
Alignment explanation
Indices: 16873652--16873746 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
16873642 ACTATGTTCT
16873652 GCACTAAGTGTGCGAATTGAAATAGCTTCGGCCATAAATA
1 GCACTAAGTGTGCGAATTGAAATAGCTTCGGCCATAAATA
* * * ** *
16873692 GCACTAAGTGTGCGAGTTGAAATAGCTTTGGCTATATGTG
1 GCACTAAGTGTGCGAATTGAAATAGCTTCGGCCATAAATA
*
16873732 GCACTAAATGTGCGA
1 GCACTAAGTGTGCGA
16873747 TGTCGAGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (40 bp):
GCACTAAGTGTGCGAATTGAAATAGCTTCGGCCATAAATA
Found at i:16874003 original size:38 final size:38
Alignment explanation
Indices: 16873961--16874043 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
16873951 AGAGTATAAG
*
16873961 ATAGATGAACCTATGTGGTTGA-CAATATGGTGTATGAA
1 ATAGATGAACCTATGTGGATGATCAA-ATGGTGTATGAA
* *
16873999 ATAGATGAACTTATGTGGATGATGAAATGGTGTATGAA
1 ATAGATGAACCTATGTGGATGATCAAATGGTGTATGAA
*
16874037 TTAGATG
1 ATAGATG
16874044 CAAGGTTGTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 38 0.95
39 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (38 bp):
ATAGATGAACCTATGTGGATGATCAAATGGTGTATGAA
Found at i:16879686 original size:31 final size:31
Alignment explanation
Indices: 16879648--16879711 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
16879638 CCTTTTCATA
16879648 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
16879679 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
16879710 TT
1 TT
16879712 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:16879955 original size:23 final size:24
Alignment explanation
Indices: 16879905--16879976 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 24
16879895 GCTTTATCAT
* *
16879905 ATAACTGGAGGCCT-AGCCTCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
16879930 ATAACTGGGGCA-AAGTCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
16879953 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
16879977 CACTTCCTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 17 0.41
24 16 0.39
25 8 0.20
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:16880050 original size:20 final size:20
Alignment explanation
Indices: 16880025--16880085 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
16880015 TTATGAATAC
*
16880025 ATCATGTGCATAACATACAT
1 ATCATGTGCATATCATACAT
*
16880045 ATCATGTGCATATCATACGT
1 ATCATGTGCATATCATACAT
*
16880065 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
16880085 A
1 A
16880086 CCATATTTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:16881941 original size:42 final size:42
Alignment explanation
Indices: 16881890--16881978 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
16881880 ATGGCCTCGG
* *
16881890 TATGTTATTTCATATAAGACCATGTCA-AGGACATGGCATTGA
1 TATGATATTTCATATAAGACCATATCAGA-GACATGGCATTGA
* * *
16881932 TATGATATTTCATGTAAGACCATATCTGAGATATGGCATTGA
1 TATGATATTTCATATAAGACCATATCAGAGACATGGCATTGA
16881974 TATGA
1 TATGA
16881979 AATTATATGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
42 40 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (42 bp):
TATGATATTTCATATAAGACCATATCAGAGACATGGCATTGA
Found at i:16885112 original size:27 final size:26
Alignment explanation
Indices: 16885082--16885175 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 26
16885072 CATTTCAACC
16885082 CACAGCTCATGTGAGCAGGC-CC-ATTTT
1 CACAGCTCATGTGAGCA-GCACCGA--TT
* *
16885109 CACAGTTCGTGTGAGC-GCACCGATT
1 CACAGCTCATGTGAGCAGCACCGATT
*
16885134 CACAGCTCATGTGAGCA-TACCGATT
1 CACAGCTCATGTGAGCAGCACCGATT
**
16885159 CACAGCTTGTGTGAGCA
1 CACAGCTCATGTGAGCA
16885176 TACATGTACA
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
25 40 0.70
26 2 0.04
27 15 0.26
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGCACCGATT
Found at i:16885175 original size:25 final size:25
Alignment explanation
Indices: 16885107--16885178 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
16885097 CAGGCCCATT
**
16885107 TTCACAG-TTCGTGTGAGCGCACCGA
1 TTCACAGCTT-GTGTGAGCATACCGA
**
16885132 TTCACAGCTCATGTGAGCATACCGA
1 TTCACAGCTTGTGTGAGCATACCGA
16885157 TTCACAGCTTGTGTGAGCATAC
1 TTCACAGCTTGTGTGAGCATAC
16885179 ATGTACAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 39 0.98
26 1 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (25 bp):
TTCACAGCTTGTGTGAGCATACCGA
Found at i:16888257 original size:47 final size:47
Alignment explanation
Indices: 16888197--16888326 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
16888187 GTGCGAGGGA
* *
16888197 TACCTTGATTTGGCTACGAGCCATGGTATAGGTATTCAGAGG-GGAGT
1 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCAG-GGAGAAGT
* * * * *
16888244 TACCTTGATTTGGCTATGGGCCATGGTATAGGCACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCAGGGAGAAGT
16888291 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGAGCCATGGTATAGGTACT
16888327 TATAGATTGA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 2 0.03
47 70 0.97
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGAGCCATGGTATAGGTACTCAGGGAGAAGT
Found at i:16890667 original size:27 final size:27
Alignment explanation
Indices: 16890581--16890657 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
16890571 TATAAGATAG
16890581 AATGACTATTTTGCCCTTATGTGGCAA
1 AATGACTATTTTGCCCTTATGTGGCAA
*
16890608 AATAACTATTTTGCCCTTATGTGGCAA
1 AATGACTATTTTGCCCTTATGTGGCAA
* *
16890635 AATGACGATTTTGCTCTTATGTG
1 AATGACTATTTTGCCCTTATGTG
16890658 ATAAAGTGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (27 bp):
AATGACTATTTTGCCCTTATGTGGCAA
Found at i:16890689 original size:27 final size:26
Alignment explanation
Indices: 16890673--16890828 Score: 161
Period size: 27 Copynumber: 5.8 Consensus size: 26
16890663 GTGACCGAAA
*
16890673 TACCCCTGTAAGGTAAAATGACTTTAT
1 TACCCCTGTAAGGTAAAATGAC-TAAT
*
16890700 TACCCCTGTAGGGTAAAATGACT-AT
1 TACCCCTGTAAGGTAAAATGACTAAT
*
16890725 ATACCCCTGTATGGTAAAATGACTATAT
1 -TACCCCTGTAAGGTAAAATGACTA-AT
* * *
16890753 TACCCCCGTAAGGTAAAATGATTGTAT
1 TACCCCTGTAAGGTAAAATGACT-AAT
* * *
16890780 TACCCCTGTAGGGTAAAATAACTATAA
1 TACCCCTGTAAGGTAAAATGACTA-AT
* *
16890807 TACCCTTGTAAGATAAAATGAC
1 TACCCCTGTAAGGTAAAATGAC
16890829 AGATTTGTTC
Statistics
Matches: 108, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.02
26 23 0.21
27 81 0.75
28 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (26 bp):
TACCCCTGTAAGGTAAAATGACTAAT
Found at i:16890732 original size:53 final size:53
Alignment explanation
Indices: 16890672--16890828 Score: 206
Period size: 53 Copynumber: 2.9 Consensus size: 53
16890662 AGTGACCGAA
* *
16890672 ATACCCCTGTAAGGTAAAATGACTTTATTACCCCTGTAGGGTAAAATGACTAT
1 ATACCCCTGTAAGGTAAAATGACTATATTACCCCTGTAAGGTAAAATGACTAT
* * * *
16890725 ATACCCCTGTATGGTAAAATGACTATATTACCCCCGTAAGGTAAAATGATTGT
1 ATACCCCTGTAAGGTAAAATGACTATATTACCCCTGTAAGGTAAAATGACTAT
* * * * *
16890778 ATTACCCCTGTAGGGTAAAATAACTATAATACCCTTGTAAGATAAAATGAC
1 A-TACCCCTGTAAGGTAAAATGACTATATTACCCCTGTAAGGTAAAATGAC
16890829 AGATTTGTTC
Statistics
Matches: 90, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 48 0.53
54 42 0.47
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.29
Consensus pattern (53 bp):
ATACCCCTGTAAGGTAAAATGACTATATTACCCCTGTAAGGTAAAATGACTAT
Found at i:16890769 original size:80 final size:81
Alignment explanation
Indices: 16890673--16890828 Score: 244
Period size: 80 Copynumber: 1.9 Consensus size: 81
16890663 GTGACCGAAA
* *
16890673 TACCCCTGTAAGGTAAAATGACTT-TATTACCCCTGTAGGGTAAAATGACTAT-ATACCCCTGTA
1 TACCCCCGTAAGGTAAAATGA-TTGTATTACCCCTGTAGGGTAAAATAACTATAATACCCCTGTA
* *
16890736 TGGTAAAATGACTATAT
65 AGATAAAATGACTATAT
*
16890753 TACCCCCGTAAGGTAAAATGATTGTATTACCCCTGTAGGGTAAAATAACTATAATACCCTTGTAA
1 TACCCCCGTAAGGTAAAATGATTGTATTACCCCTGTAGGGTAAAATAACTATAATACCCCTGTAA
16890818 GATAAAATGAC
66 GATAAAATGAC
16890829 AGATTTGTTC
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 2 0.03
80 47 0.68
81 20 0.29
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (81 bp):
TACCCCCGTAAGGTAAAATGATTGTATTACCCCTGTAGGGTAAAATAACTATAATACCCCTGTAA
GATAAAATGACTATAT
Found at i:16891008 original size:23 final size:18
Alignment explanation
Indices: 16890960--16890995 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16890950 CTGTACTGGT
16890960 ATGGCTTTAAGCCTACTA
1 ATGGCTTTAAGCCTACTA
16890978 ATGGCTTTAAGCCTACTA
1 ATGGCTTTAAGCCTACTA
16890996 TACTGGCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
ATGGCTTTAAGCCTACTA
Found at i:16891196 original size:18 final size:17
Alignment explanation
Indices: 16891149--16891196 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
16891139 TCTGCTTGCG
*
16891149 TACTGCACTGATTCCTGT
1 TACTGCACTGA-TCATGT
* *
16891167 TACTGTATTGATCATGGT
1 TACTGCACTGATCAT-GT
16891185 TACTGCACTGAT
1 TACTGCACTGAT
16891197 TACTATTACT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (17 bp):
TACTGCACTGATCATGT
Found at i:16896326 original size:40 final size:40
Alignment explanation
Indices: 16896271--16896350 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
16896261 CGTTTTTGAA
16896271 ACTGTTAAAGATTTTGAATTTTTCCATTGATGAATCTATG
1 ACTGTTAAAGATTTTGAATTTTTCCATTGATGAATCTATG
16896311 ACTGTTAAAGATTTTGAATTTTTCCATTGATGAATCTATG
1 ACTGTTAAAGATTTTGAATTTTTCCATTGATGAATCTATG
16896351 TCATTTTAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (40 bp):
ACTGTTAAAGATTTTGAATTTTTCCATTGATGAATCTATG
Found at i:16896974 original size:29 final size:29
Alignment explanation
Indices: 16896928--16897170 Score: 199
Period size: 29 Copynumber: 8.4 Consensus size: 29
16896918 ATCATCGAAC
* *
16896928 ATGAAAAAGGATAGCTTCGACTATTGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* *
16896957 ATGAAAAGGGATAACTTC-AGCTATCAATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGATT
**
16896986 ATGAAAAGGGATAGCTTCGGTTATCAGA-T
1 ATGAAAAGGGATAGCTTCGACTATC-GATT
* * * *
16897015 ATGAAAAAGGATATCTTTGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * **
16897044 ATGAAAAGGGAT-GGTGACGACCATCAACA
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
* * * * *
16897073 ATGAAAAGGGAT-GGTGACGACCATCAAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
*
16897102 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* *
16897131 ATGAAAAGGG-TAGTTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
16897159 ATGAAAAGGGAT
1 ATGAAAAGGGAT
16897171 GGTGATGAAC
Statistics
Matches: 176, Mismatches: 31, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
28 31 0.18
29 142 0.81
30 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGATT
Found at i:16897192 original size:116 final size:116
Alignment explanation
Indices: 16896979--16897225 Score: 313
Period size: 116 Copynumber: 2.1 Consensus size: 116
16896969 AACTTCAGCT
* * *
16896979 ATCAATTATGAAAAGGGATAGCTTCGGTTATCAGATATGAAAAAGGATATCTTTGGCTATCGATT
1 ATCAAATATGAAAAGGGATAGCTTCGGCTATCAGATATGAAAAAGGATATCTTCGGCTATCGATT
* *
16897044 ATGAAAAGGGATGGTGACGACCATCAACAATGAAAA-GGGATGGTGACGACC
66 ATGAAAAGGGATGGTGACGAACATCAACAATGAAAATGGG-TGGTGACAACC
*
16897095 ATCAAATATGAAAAGGGATAGCTTCGGCTATC-GATTATG-AAAAGGGTAGT-TTCGGCTATCGA
1 ATCAAATATGAAAAGGGATAGCTTCGGCTATCAGA-TATGAAAAAGGATA-TCTTCGGCTATCGA
* * ** **
16897157 TTATGAAAAGGGATGGTGATGAACTTCGATTAATGAAAATGGGTGGTTTCAACC
64 TTATGAAAAGGGATGGTGACGAACATC-AACAATGAAAATGGGTGGTGACAACC
*
16897211 ATCGAATATGAAAAG
1 ATCAAATATGAAAAG
16897226 AGACAGTTAC
Statistics
Matches: 114, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
115 45 0.39
116 66 0.58
117 3 0.03
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.26
Consensus pattern (116 bp):
ATCAAATATGAAAAGGGATAGCTTCGGCTATCAGATATGAAAAAGGATATCTTCGGCTATCGATT
ATGAAAAGGGATGGTGACGAACATCAACAATGAAAATGGGTGGTGACAACC
Found at i:16897193 original size:87 final size:86
Alignment explanation
Indices: 16896928--16897195 Score: 238
Period size: 87 Copynumber: 3.1 Consensus size: 86
16896918 ATCATCGAAC
* * ** *
16896928 ATGAAAAAGGATAGCTTCGACTATTGATTATGAAAAGGGATAACTTCAGCTATCAATTATGAAAA
1 ATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTTTCGGCTATCAATTATGAAAA
* **
16896993 GGGATAGCT--TCG-GTTATCAGAT
66 GGGAT-GGTGAT-GAACT-TC-GAT
* * * ** * * **
16897015 ATGAAAAAGGATATCTTTGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAACAATGAAAA
1 ATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTTTCGGCTATCAATTATGAAAA
* * * *
16897080 GGGATGGTGACGACCATCAAAT
66 GGGATGGTGATGAACTTC-GAT
* *
16897102 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGG-TAGTTTCGGCTATCGATTATGAAAA
1 ATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTTTCGGCTATCAATTATGAAAA
16897166 GGGATGGTGATGAACTTCGATT
66 GGGATGGTGATGAACTTCGA-T
16897188 AATGAAAA
1 -ATGAAAA
16897196 TGGGTGGTTT
Statistics
Matches: 141, Mismatches: 35, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
85 1 0.01
86 35 0.25
87 105 0.74
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (86 bp):
ATGAAAAAGGATAGCTTCGGCTATCGATTATGAAAAGGGATAGTTTCGGCTATCAATTATGAAAA
GGGATGGTGATGAACTTCGAT
Found at i:16899132 original size:20 final size:20
Alignment explanation
Indices: 16899107--16899144 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16899097 GTTATAAAGG
16899107 TTAGTTGATTAAGCTTAGCA
1 TTAGTTGATTAAGCTTAGCA
16899127 TTAGTTGATTAAGCTTAG
1 TTAGTTGATTAAGCTTAG
16899145 AAAATGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (20 bp):
TTAGTTGATTAAGCTTAGCA
Found at i:16901408 original size:14 final size:14
Alignment explanation
Indices: 16901389--16901417 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
16901379 TTGTAGGCCT
16901389 AGGTCAAGATAGGC
1 AGGTCAAGATAGGC
16901403 AGGTCAAGATAGGC
1 AGGTCAAGATAGGC
16901417 A
1 A
16901418 AGCCGCGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.14, G:0.34, T:0.14
Consensus pattern (14 bp):
AGGTCAAGATAGGC
Found at i:16902958 original size:5 final size:5
Alignment explanation
Indices: 16902950--16902974 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16902940 AAAATAAAAA
16902950 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
16902975 GATTTGAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:16907574 original size:55 final size:54
Alignment explanation
Indices: 16907485--16907740 Score: 246
Period size: 55 Copynumber: 4.8 Consensus size: 54
16907475 CATTAGGGTT
**
16907485 CAAGGATACCATGTAAGACCATG-CTAAGGTATGGCAATTGGTAAGGTTTCTAAGG
1 CAAGGATACCATGTAAGACCATGTC-AAGACATGGCAATTGGTAA-GTTTCTAAGG
* * ** *
16907540 CAAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTAATAAGTTACTATAAGG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTT--TCTAAGG
* * * *
16907595 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGG
1 C-AAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTC-TAAGG
*
16907648 CAAGGATACCATGTAAGACCATGTCAAAACATGGCAA-TGGTAAGTTTC-AA--
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
* * *
16907698 -AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAG
16907741 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 25, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 11 0.07
55 66 0.39
56 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGTCAAGACATGGCAATTGGTAAGTTTCTAAGG
Found at i:16907958 original size:16 final size:16
Alignment explanation
Indices: 16907937--16907967 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16907927 ATAAATTTGA
16907937 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
16907953 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
16907968 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:16913626 original size:103 final size:104
Alignment explanation
Indices: 16913394--16913658 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
16913384 ATTGTACATA
** *
16913394 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
16913459 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
16913498 AAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
16913562 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
16913601 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCAC
16913659 TAATAACGGT
Statistics
Matches: 150, Mismatches: 9, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
103 83 0.55
104 67 0.45
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:16916267 original size:30 final size:30
Alignment explanation
Indices: 16916231--16916312 Score: 137
Period size: 30 Copynumber: 2.7 Consensus size: 30
16916221 AATTTCAGGC
* * *
16916231 CTAGGGGTAAAATGGTCATTTTGTTGAAGT
1 CTAGGGGCAAATTGGTCATTTTGTTAAAGT
16916261 CTAGGGGCAAATTGGTCATTTTGTTAAAGT
1 CTAGGGGCAAATTGGTCATTTTGTTAAAGT
16916291 CTAGGGGCAAATTGGTCATTTT
1 CTAGGGGCAAATTGGTCATTTT
16916313 TCCCAATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.26, C:0.10, G:0.28, T:0.37
Consensus pattern (30 bp):
CTAGGGGCAAATTGGTCATTTTGTTAAAGT
Found at i:16916798 original size:46 final size:46
Alignment explanation
Indices: 16916645--16916816 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
16916635 TCACTTATGT
* * * * * *
16916645 GAGCTAGTGTAAGACATGTCTGTGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GACGA
* * * *
16916691 GAGCCAGTATAAGATCATGTCTGGGACATGGCAT-TGACATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCTCGAGACGA
* *
16916739 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACG-A
16916786 -AGCCAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT
16916817 TGGCTACGAG
Statistics
Matches: 103, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
46 53 0.51
47 30 0.29
48 19 0.18
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGA
Found at i:16916827 original size:46 final size:46
Alignment explanation
Indices: 16916645--16917007 Score: 186
Period size: 50 Copynumber: 7.6 Consensus size: 46
16916635 TCACTTATGT
* * * * * *
16916645 GAGCTAGTGTAAGACATGTCTGTGACATGCATCGGCCAC-ATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACGA-GACGA
* * *
16916691 GAGCCAGTATAAGATCATGTCTGGGACATGGCATTGAC-ATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTA-CGAGACGA
* * * *
16916739 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCAT-TGGCTACGAGACG-A
*
16916786 -AGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGA--T
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGACGA
* ** * * * *
16916829 GTGTTAATGTAAGACCATGTCTAGGACATGGCATCGGC-ACGGATATGCGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTAC-GAGA--CGA
* * * *
16916879 GAGCTAGTGCAAGACCATGTCTGGGACATGGCATCGG-TACGGATATGCGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTAC-GAGA--CGA
* * * *
16916929 GAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCT-CGATGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATTGG-CTACGA-GACGA
* * *
16916978 TAACCAGTGTAAGACCATGTCTAGGACATG
1 GAGCCAGTGTAAGA-CATGTCTGGGACATG
16917008 GCATCGGCAT
Statistics
Matches: 256, Mismatches: 41, Indels: 38
0.76 0.12 0.11
Matches are distributed among these distances:
44 9 0.04
45 18 0.07
46 66 0.26
47 31 0.12
48 21 0.08
49 27 0.11
50 81 0.32
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATTGGCTACGAGACGA
Found at i:16916896 original size:50 final size:50
Alignment explanation
Indices: 16916836--16917016 Score: 242
Period size: 50 Copynumber: 3.6 Consensus size: 50
16916826 GATGTGTTAA
16916836 TGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAG
* * *
16916886 TGCAAGACCATGTCTGGGACATGGCATCGGTACGGATATGCGAGAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAG
* * * * * *
16916936 TGTAAGACCATGTCTGGGATATGGCATCGGC-CTCGATGAT--GATAACCAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGAT-ATGCGAGAGCTAG
16916985 TGTAAGACCATGTCTAGGACATGGCATCGGCA
1 TGTAAGACCATGTCTAGGACATGGCATCGGCA
16917017 TCTTACCCCA
Statistics
Matches: 116, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
49 36 0.31
50 78 0.67
51 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (50 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCACGGATATGCGAGAGCTAG
Found at i:16916950 original size:100 final size:99
Alignment explanation
Indices: 16916645--16917014 Score: 256
Period size: 94 Copynumber: 3.9 Consensus size: 99
16916635 TCACTTATGT
* * * ** *
16916645 GAGCTAGTGTAAGA-CATGTCT-GTGACAT-GCATCGGCCAC-ATTATGAGAGCCAGTATAAGAT
1 GAGCTAGTGTAAGACCATGTCTAG-GACATGGCATCGGCCTCGATGATGAGAACCAGTGCAAGAC
* * ** ** *
16916706 CATGTCTGGGACATGGCATTGACATTGAGA--CGA
65 CATGTCTAGGACATGGCATCGGTACGGATATGCGA
* * * * * *
16916739 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCGA-GACGTA-AGCCAGTGTAAGA-
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGATG-AGAACCAGTGCAAGAC
* * *
16916799 CATGTCTGGGACAT-GCATTGGCTAC-GAGAT----
65 CATGTCTAGGACATGGCATCGG-TACGGATATGCGA
* * * * * *
16916829 GTGTTAATGTAAGACCATGTCTAGGACATGGCATCGGCAC-GGAT-ATGCGAGAGCTAGTGCAAG
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGC-CTCGATGAT--GAGAACCAGTGCAAG
*
16916892 ACCATGTCTGGGACATGGCATCGGTACGGATATGCGA
63 ACCATGTCTAGGACATGGCATCGGTACGGATATGCGA
* * * *
16916929 GAGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCTCGATGATGATAACCAGTGTAAGACC
1 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGATGAGAACCAGTGCAAGACC
16916994 ATGTCTAGGACATGGCATCGG
66 ATGTCTAGGACATGGCATCGG
16917015 CATCTTACCC
Statistics
Matches: 225, Mismatches: 30, Indels: 37
0.77 0.10 0.13
Matches are distributed among these distances:
90 12 0.05
91 13 0.06
92 20 0.09
93 17 0.08
94 60 0.27
95 20 0.09
96 10 0.04
99 35 0.16
100 36 0.16
101 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (99 bp):
GAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATGATGAGAACCAGTGCAAGACC
ATGTCTAGGACATGGCATCGGTACGGATATGCGA
Found at i:16924471 original size:40 final size:40
Alignment explanation
Indices: 16924411--16924572 Score: 184
Period size: 40 Copynumber: 4.0 Consensus size: 40
16924401 CTAACGGGGT
* * * * *
16924411 TAAGTCCCAAAGACAATTGTGCTAGTGATTAATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* *
16924451 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
* * *
16924491 TAAGTTCTGAAGGCATTTGTGCGAGTTACT-ATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
* *
16924531 TAAGTCCCGAAGGCATTTGTGCTAGTGAC-CATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC
16924571 TA
1 TA
16924573 TCACCCGACG
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 104 0.98
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGC
Found at i:16924580 original size:40 final size:40
Alignment explanation
Indices: 16924444--16924596 Score: 130
Period size: 40 Copynumber: 3.9 Consensus size: 40
16924434 AGTGATTAAT
** * *
16924444 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAACACCCGAAGGCATTTGTGCGAGTGACCATA
* *** * * *
16924483 TTCCGGGATAAGTTCTGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAACACCCGAAGGCATTTGTGCGAGTGACCATA
** *
16924524 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATA
1 TCCGGGCTAACACCCGAAGGCATTTGTGCGAGTGACCATA
* * *
16924564 TCCGGGCTATCACCCGACGGC-CTTGTGCGAGTG
1 TCCGGGCTAACACCCGAAGGCATTTGTGCGAGTG
16924597 GTTATATCCA
Statistics
Matches: 97, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
39 10 0.10
40 86 0.89
41 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAACACCCGAAGGCATTTGTGCGAGTGACCATA
Found at i:16932491 original size:40 final size:40
Alignment explanation
Indices: 16932436--16932624 Score: 342
Period size: 40 Copynumber: 4.7 Consensus size: 40
16932426 TATTCGGATG
*
16932436 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
16932476 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
16932516 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
16932556 ATAACCGAGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
16932596 GTAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
16932625 AGCAAGTAGC
Statistics
Matches: 144, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 144 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:16932638 original size:80 final size:79
Alignment explanation
Indices: 16932436--16932657 Score: 338
Period size: 80 Copynumber: 2.8 Consensus size: 79
16932426 TATTCGGATG
*
16932436 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACAATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC-GGCTAAGTCCCGAAGGCA
16932501 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
16932516 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGAGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG-GCTAAGTCCCGAAGGCA
*
16932581 TTTGTGTGAGTTACT
65 TTTGTGCGAGTTACT
* * * * * *
16932596 GTAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCCGGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGCTAAGTCCCGAAGG
16932658 TACTTGGTTT
Statistics
Matches: 132, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
79 16 0.12
80 116 0.88
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:16937585 original size:46 final size:46
Alignment explanation
Indices: 16937518--16937689 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
16937508 AACCCGCCCC
*
16937518 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
16937564 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * * *
16937612 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
16937657 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
16937690 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 1 0.01
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:16937630 original size:93 final size:93
Alignment explanation
Indices: 16937523--16937693 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
16937513 GCCCCTAAGT
* *
16937523 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16937588 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
16937616 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
16937681 CGAGTTCGGATGC
66 CGAGTTCGGATGC
16937694 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:16939231 original size:40 final size:40
Alignment explanation
Indices: 16939133--16939302 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
16939123 TCCTCGTTCA
* * * *
16939133 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
16939172 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
16939212 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * *
16939252 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
16939292 AAGGCCTTCGG
1 AATGCCTTCGG
16939303 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:16939277 original size:80 final size:79
Alignment explanation
Indices: 16939131--16939355 Score: 254
Period size: 80 Copynumber: 2.8 Consensus size: 79
16939121 GCTCCTCGTT
* * * * *
16939131 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
16939196 TTTAACAACTCGCA
66 TTTAACAACTCGCA
* *
16939210 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
** *
16939275 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
* * * * * * * *
16939290 CAAAGGCCTTC-GGATCTTAGTCCGAATATATTCACTTAGCACAAAGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAATAAC-TCGCACAATGCCTTCGGGACTTAACCCG
16939354 GA
64 GA
16939356 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.31
80 80 0.65
81 5 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAATAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:16947137 original size:27 final size:27
Alignment explanation
Indices: 16947104--16947310 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
16947094 TAAATTGTGC
*
16947104 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
16947131 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
16947159 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
16947186 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
16947214 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16947241 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
16947269 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16947296 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16947311 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16947168 original size:55 final size:55
Alignment explanation
Indices: 16947104--16947310 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
16947094 TAAATTGTGC
16947104 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
16947159 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
16947214 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
16947269 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
16947311 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:16955241 original size:27 final size:27
Alignment explanation
Indices: 16955208--16955414 Score: 315
Period size: 27 Copynumber: 7.6 Consensus size: 27
16955198 TAAATTGTGC
*
16955208 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
16955235 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
16955263 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
16955290 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
16955318 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16955345 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
16955373 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
16955400 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
16955415 GACTTAATAT
Statistics
Matches: 168, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
27 91 0.54
28 77 0.46
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:16955272 original size:55 final size:55
Alignment explanation
Indices: 16955208--16955414 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
16955198 TAAATTGTGC
16955208 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
16955263 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
16955318 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * * *
16955373 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCG
16955415 GACTTAATAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:16967758 original size:174 final size:174
Alignment explanation
Indices: 16967468--16967964 Score: 878
Period size: 174 Copynumber: 2.9 Consensus size: 174
16967458 AACTCAAGGT
*
16967468 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
16967533 GAAAATATATATTGAGTTTGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
16967598 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGGAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
16967642 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
16967707 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
16967772 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
16967816 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
16967881 GAAAATATATATT-TGTTCGCACACATAGTGCTTAAT-A-CAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
16967943 ACTTT-AA-TCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
16967965 TGTACAATTT
Statistics
Matches: 311, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
169 14 0.05
170 2 0.01
171 29 0.09
172 1 0.00
173 21 0.07
174 244 0.78
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:16967816 original size:29 final size:29
Alignment explanation
Indices: 16967753--16967820 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
16967743 TAATCAACCG
16967753 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
16967782 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
16967811 CGCACACTTA
1 CGCACACTTA
16967821 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:16967956 original size:27 final size:28
Alignment explanation
Indices: 16967924--16967994 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
16967914 AATACAACCG
*
16967924 CGCACACTTAGTGCCATGTAC-TTTAAT
1 CGCACACTTAGTGCCATGTACATTTAAA
16967951 CGCACACTTAGTG-C-TGTACAATTTAAA
1 CGCACACTTAGTGCCATGTAC-ATTTAAA
*
16967978 CCCAACACTTAGTGCCA
1 CGC-ACACTTAGTGCCA
16967995 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
25 5 0.14
26 1 0.03
27 20 0.54
28 10 0.27
29 1 0.03
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (28 bp):
CGCACACTTAGTGCCATGTACATTTAAA
Found at i:16972919 original size:95 final size:94
Alignment explanation
Indices: 16972784--16972972 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 94
16972774 GGGAAATCTT
* * * *
16972784 ACACATATCGATGCTGATGCCATATCCCAGATATGTTCTTACAC-AGGCTTTCATATATCGAGGC
1 ACACATATCGAAGCCGATGCCATATCCCAGACATGGTCTTACACTA-GCTTTCATATATCGAGGC
16972848 CGATGCCATGTCCCAGACATGGTCTTACACTG
65 CGATG-CATGTCCCAGACAT-GTCTTACACTG
* * * *
16972880 ACACATATC-AAGCCGATGCCATGTTCCAGACATGGTCTTACACTAGCTTTCATATCTCGAGGCT
1 ACACATATCGAAGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTTTCATATATCGAGGCC
*
16972944 GATGCGTGTCCCAGACATGTCTTACACTG
66 GATGCATGTCCCAGACATGTCTTACACTG
16972973 GCTTATATAA
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
93 11 0.13
94 13 0.16
95 49 0.59
96 10 0.12
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (94 bp):
ACACATATCGAAGCCGATGCCATATCCCAGACATGGTCTTACACTAGCTTTCATATATCGAGGCC
GATGCATGTCCCAGACATGTCTTACACTG
Found at i:16974596 original size:20 final size:23
Alignment explanation
Indices: 16974552--16974600 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
16974542 AAAAGCGAAC
16974552 TAAATAAAAAAGCTATATTAGTAT
1 TAAATAAAAAA-CTATATTAGTAT
16974576 TAAATAAAAAA-TA-ATTA-TAT
1 TAAATAAAAAACTATATTAGTAT
16974596 TAAAT
1 TAAAT
16974601 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.32
21 4 0.16
22 2 0.08
24 11 0.44
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (23 bp):
TAAATAAAAAACTATATTAGTAT
Found at i:16974609 original size:24 final size:24
Alignment explanation
Indices: 16974552--16974612 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
16974542 AAAAGCGAAC
* *
16974552 TAAATAAAAAAGCTATATTAGTAT
1 TAAATAAAAAAACTATATTAGAAT
*
16974576 TAAATAAAAAATAATTATATTA-AAT
1 TAAAT-AAAAA-AACTATATTAGAAT
16974601 TAAATAAAAAAA
1 TAAATAAAAAAA
16974613 GTCCTCCACC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
23 2 0.06
24 10 0.31
25 12 0.38
26 8 0.25
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
TAAATAAAAAAACTATATTAGAAT
Found at i:16974738 original size:20 final size:20
Alignment explanation
Indices: 16974695--16974739 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
16974685 CTTTCGATAT
*
16974695 CAAACTAATTGAAATGCTAA
1 CAAACTAATTGAAATGCGAA
16974715 CAAACT-ATTGAAATGCGAA
1 CAAACTAATTGAAATGCGAA
16974734 CCAAAC
1 -CAAAC
16974740 AGCTCTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.49, C:0.20, G:0.11, T:0.20
Consensus pattern (20 bp):
CAAACTAATTGAAATGCGAA
Found at i:16975433 original size:93 final size:94
Alignment explanation
Indices: 16975266--16975464 Score: 237
Period size: 94 Copynumber: 2.1 Consensus size: 94
16975256 GTTTTTAAAT
* * * *
16975266 TTTAGGG-TTTTAAGGAAAAATTAAATAAATTAGGGTTTAGTGTTTATTAATTAAATTAATTACT
1 TTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAG-GATTATTAAGTAAATTAATTACT
* * *
16975330 AATTT-TAAAAATTAGATTATGG-TTTAGTG
65 AATTTAAAAAAAATAGATTA-GGATTTAGGG
* *
16975359 TTTATGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTA-GATTACTTGAGTAAATTAATTA-T
1 TTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGATTA-TTAAGTAAATTAATTACT
16975422 AAATTTAAAAAAAATAGATTAGGATTTTAGGG
65 -AATTTAAAAAAAATAGATTAGGA-TTTAGGG
16975454 TTTAGGGTTTT
1 TTTAGGGTTTT
16975465 AGGGTATTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
92 5 0.06
93 27 0.30
94 42 0.47
95 16 0.18
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.42
Consensus pattern (94 bp):
TTTAGGGTTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGATTATTAAGTAAATTAATTACTA
ATTTAAAAAAAATAGATTAGGATTTAGGG
Found at i:16975464 original size:15 final size:15
Alignment explanation
Indices: 16975440--16975469 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16975430 AAAAAATAGA
16975440 TTAGGATTTTAGGGT
1 TTAGGATTTTAGGGT
*
16975455 TTAGGGTTTTAGGGT
1 TTAGGATTTTAGGGT
16975470 ATTTAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (15 bp):
TTAGGATTTTAGGGT
Found at i:16975776 original size:125 final size:126
Alignment explanation
Indices: 16975552--16975837 Score: 459
Period size: 125 Copynumber: 2.3 Consensus size: 126
16975542 AAAAGCTTCT
* *
16975552 ACGTGGACGCTCTTTTGCTACAGTAGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCGCAA
1 ACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* * *
16975617 ATAGTGGTAAAAACGCTTCAAGCAGGATGTATTTTCAGC-AAATTACTGGAAGAAGCTCCC
66 ATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
* *
16975677 ACGTGGATGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCATAA
1 ACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
* *
16975742 ATAGT-GTCAAAAATGCTTCAAGCATGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
66 ATAGTGGT-AAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
*
16975803 ACGTGGACGCTCTTTTGCTACAGTGGTTTCTGAAA
1 ACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAA
16975838 TAACTTGGGC
Statistics
Matches: 148, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
124 2 0.01
125 94 0.64
126 52 0.35
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (126 bp):
ACGTGGACGCTCTTTTGCTACAGTGGTCTCTGAAAAAATAATTTTGAGAAGACGTGTCTGCACAA
ATAGTGGTAAAAACGCTTCAAGCAGGATGCATTTTCAGCAAAAGTACTGAAAGAAGCTCCC
Found at i:16978471 original size:114 final size:116
Alignment explanation
Indices: 16978019--16978513 Score: 865
Period size: 115 Copynumber: 4.3 Consensus size: 116
16978009 TTTATATTTT
* *
16978019 ATTACATGAAATAATATAAAAATATTCAAAATATTG-CTTTATTTAAAATAATTTTCATTTTATT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGTC-TTATTTAAAATAATTTCCATTTTATT
* * *
16978083 -AAAATATAAAAGTAAATTATAATTACTTTATTTAAAACAACCTTTTATATT
65 AAAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
* * *
16978134 ATCACATGAAATAATATACAAATATTCAAAATGTTGCCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTCCATTTTATTA
16978199 AAAATAT-AAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
16978249 ATTACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTCCATTTTATTA
16978314 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
16978365 ATTACATGAAATAATAT-AAAATATTCAAAATGTTGTCTTATTT-AAATAATTTCCATTTTATTA
1 ATTACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTCCATTTTATTA
16978428 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
66 AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
*
16978479 ATTACATGAAATAATATAAAAAGATTCAAAATGTT
1 ATTACATGAAATAATATAAAAATATTCAAAATGTT
16978514 TGTACAATAT
Statistics
Matches: 365, Mismatches: 11, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
114 88 0.24
115 209 0.57
116 68 0.19
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (116 bp):
ATTACATGAAATAATATAAAAATATTCAAAATGTTGTCTTATTTAAAATAATTTCCATTTTATTA
AAAATATAAAAGTAAATTACAATTACTTTATTTAAAACAACCTTTTATCTA
Found at i:16978921 original size:18 final size:18
Alignment explanation
Indices: 16978895--16978937 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
16978885 GACTAGAAAA
* *
16978895 AGGAAACATATAAGGGCT
1 AGGATACATAAAAGGGCT
16978913 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
16978931 AGGATAC
1 AGGATAC
16978938 GTACCTGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:16979032 original size:30 final size:30
Alignment explanation
Indices: 16978991--16979056 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
16978981 GTTGAACTGT
*
16978991 TGGGCCCGGTGACTGTGTAGGT-CCTGTTGC
1 TGGGCCCGGTGACTGTGTAGGTGCC-GTTGA
* * *
16979021 TGGGCCGGGTGATTGTGTGGGTGCCGTTGA
1 TGGGCCCGGTGACTGTGTAGGTGCCGTTGA
16979051 TGGGCC
1 TGGGCC
16979057 TGCGTCGTCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.06, C:0.20, G:0.45, T:0.29
Consensus pattern (30 bp):
TGGGCCCGGTGACTGTGTAGGTGCCGTTGA
Found at i:16979565 original size:7 final size:7
Alignment explanation
Indices: 16979553--16979579 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
16979543 AGTTAAATAA
16979553 AAATACT
1 AAATACT
16979560 AAATACT
1 AAATACT
16979567 AAATACT
1 AAATACT
16979574 AAATAC
1 AAATAC
16979580 GAATCCACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (7 bp):
AAATACT
Found at i:16980701 original size:15 final size:15
Alignment explanation
Indices: 16980681--16980711 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16980671 TTTTTATTTT
*
16980681 AAAAAATAAATTTAG
1 AAAAAATAAAATTAG
16980696 AAAAAATAAAATTAG
1 AAAAAATAAAATTAG
16980711 A
1 A
16980712 GCTTTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (15 bp):
AAAAAATAAAATTAG
Found at i:16980749 original size:22 final size:22
Alignment explanation
Indices: 16980737--16980786 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 22
16980727 TAACGAGAGT
16980737 TTTGAGAGGAATTTAAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
*
16980759 TTTGAGA-G-ATTTGAGAGAAA
1 TTTGAGAGGAATTTAAGAGAAA
16980779 TTTGAGAG
1 TTTGAGAG
16980787 AATATTGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 18 0.69
21 1 0.04
22 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTTGAGAGGAATTTAAGAGAAA
Found at i:16980760 original size:11 final size:11
Alignment explanation
Indices: 16980737--16980788 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
16980727 TAACGAGAGT
*
16980737 TTTGAGAGGAA
1 TTTGAGAGAAA
*
16980748 TTTAAGAGAAA
1 TTTGAGAGAAA
16980759 TTTGAGAG--A
1 TTTGAGAGAAA
16980768 TTTGAGAGAAA
1 TTTGAGAGAAA
16980779 TTTGAGAGAA
1 TTTGAGAGAA
16980789 TATTGAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:16980800 original size:31 final size:31
Alignment explanation
Indices: 16980737--16980800 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
16980727 TAACGAGAGT
* *
16980737 TTTGAGAGGAATTTAAGAGAAATTTGAGAGA
1 TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
*
16980768 TTTGAGAGAAATTTGAGAG-AATATTGAAAGA
1 TTTGAGAGAAATTTAAGAGAAAT-TTGAAAGA
16980799 TT
1 TT
16980801 GAAGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.42, C:0.00, G:0.27, T:0.31
Consensus pattern (31 bp):
TTTGAGAGAAATTTAAGAGAAATTTGAAAGA
Found at i:16982326 original size:16 final size:16
Alignment explanation
Indices: 16982307--16982360 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
16982297 TGGGTGGGAA
*
16982307 GAAAATTGGAAAGATG
1 GAAAATTAGAAAGATG
* *
16982323 GAAAA-TCGAAAGGGTG
1 GAAAATTAGAAA-GATG
*
16982339 GAAAAGTAGAAAGATG
1 GAAAATTAGAAAGATG
16982355 GAAAAT
1 GAAAAT
16982361 ATAAATTTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 5 0.16
16 21 0.68
17 5 0.16
ACGTcount: A:0.52, C:0.02, G:0.31, T:0.15
Consensus pattern (16 bp):
GAAAATTAGAAAGATG
Found at i:16985969 original size:111 final size:113
Alignment explanation
Indices: 16985840--16986064 Score: 323
Period size: 111 Copynumber: 2.0 Consensus size: 113
16985830 GTTCTAATTC
* * *
16985840 CAAAATTTATCCCCCTACTTTATGAAAATTGAGAAGTTAGCCT-CTT-TATTG-TTTTTTAACTA
1 CAAAATTGATCCCCCTACTTTATGAAAATTGAAAAGTTA--ATACTTATATTGTTTTTTTAACTA
16985902 AATGCTCAAGTTGTTATTTCTC-TTTTTTTTGCAAAACAATGTCTAACTA
64 AATGCTCAAGTTGTTATTTCTCTTTTTTTTTGCAAAACAATGTCTAACTA
* * *
16985951 CAAAATTGGTCCCTCTACTTTATGAAAATTGAAAAGTTAATACTTATATTGTTTTTTTTACTAAA
1 CAAAATTGATCCCCCTACTTTATGAAAATTGAAAAGTTAATACTTATATTGTTTTTTTAACTAAA
* *
16986016 TGCTCAAGTTGTTGTTTCTCTTTTTTTTTTTCAAAACAATGTCTAACTA
66 TGCTCAAGTTGTTATTTCTC-TTTTTTTTTGCAAAACAATGTCTAACTA
16986065 TACTTTATGA
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
109 1 0.01
110 3 0.03
111 40 0.40
112 31 0.31
114 26 0.26
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.45
Consensus pattern (113 bp):
CAAAATTGATCCCCCTACTTTATGAAAATTGAAAAGTTAATACTTATATTGTTTTTTTAACTAAA
TGCTCAAGTTGTTATTTCTCTTTTTTTTTGCAAAACAATGTCTAACTA
Found at i:16986126 original size:99 final size:99
Alignment explanation
Indices: 16985966--16986160 Score: 345
Period size: 99 Copynumber: 2.0 Consensus size: 99
16985956 TTGGTCCCTC
* *
16985966 TACTTTATGAAAATTGAAAAGTTAATACTTATATTGTTTTTTTTACTAAATGCTCAAGTTGTTGT
1 TACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTTACTAAATGCTCAAGTTGTTAT
* *
16986031 TTCTCTTTTTTTTTTTCAAAACAATGTCTAACTA
66 TTCTCTTCTTCTTTTTCAAAACAATGTCTAACTA
*
16986065 TACTTTATGAAAATTGAAAAGTTAGTACCTATATTGTTTTTTTTACTAAATGCTCAAGTTGTTAT
1 TACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTTACTAAATGCTCAAGTTGTTAT
16986130 TTCTCTTCTTCTTTTTCAAAACAATGTCTAA
66 TTCTCTTCTTCTTTTTCAAAACAATGTCTAA
16986161 GTACATAATC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (99 bp):
TACTTTATGAAAATTGAAAAGTTAATACCTATATTGTTTTTTTTACTAAATGCTCAAGTTGTTAT
TTCTCTTCTTCTTTTTCAAAACAATGTCTAACTA
Found at i:16990116 original size:10 final size:9
Alignment explanation
Indices: 16990092--16990116 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16990082 ATTTTGGTCC
16990092 TGTTTTTAA
1 TGTTTTTAA
16990101 TGTTTTTAA
1 TGTTTTTAA
16990110 TGTTTTT
1 TGTTTTT
16990117 GAGTTCGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (9 bp):
TGTTTTTAA
Found at i:16995835 original size:33 final size:33
Alignment explanation
Indices: 16995793--16995859 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
16995783 ACAACAAGGT
16995793 AAGTTTGATCATATGAATATGTGATACTATTTC
1 AAGTTTGATCATATGAATATGTGATACTATTTC
16995826 AAGTTTGATCATATGAATATGTGATACTATTTC
1 AAGTTTGATCATATGAATATGTGATACTATTTC
16995859 A
1 A
16995860 TACATATTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (33 bp):
AAGTTTGATCATATGAATATGTGATACTATTTC
Found at i:16996908 original size:28 final size:27
Alignment explanation
Indices: 16996852--16996910 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
16996842 ATAAAAAAAT
* *
16996852 TAAAATAAATAATCAAGATATATAGAA
1 TAAAATAAAAAATCAAGATATATACAA
*
16996879 TAAAATAATAAAATCAAAGAT-TGTACAA
1 TAAAATAA-AAAATC-AAGATATATACAA
16996907 TAAA
1 TAAA
16996911 GAAGATAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 8 0.30
28 14 0.52
29 5 0.19
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (27 bp):
TAAAATAAAAAATCAAGATATATACAA
Found at i:16997309 original size:17 final size:17
Alignment explanation
Indices: 16997280--16997312 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16997270 TTGCTGACAT
16997280 AAACTCTTAAATAATTG
1 AAACTCTTAAATAATTG
16997297 AAACTACTT-AATAATT
1 AAACT-CTTAAATAATT
16997313 ATTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (17 bp):
AAACTCTTAAATAATTG
Found at i:16998021 original size:31 final size:31
Alignment explanation
Indices: 16997986--16998047 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
16997976 CTGAAGTGTT
* *
16997986 TGAATGGAATTCGAACTGAGTAGTTAGGGGA
1 TGAATAGAATTCGAACTGAGTAGTTAAGGGA
*
16998017 TGAATAGAATTTGAACTGAGTAGTTAAGGGA
1 TGAATAGAATTCGAACTGAGTAGTTAAGGGA
16998048 GGTATGATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.05, G:0.32, T:0.27
Consensus pattern (31 bp):
TGAATAGAATTCGAACTGAGTAGTTAAGGGA
Done.