Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 48 of 297
Found at i:17074291 original size:23 final size:22
Alignment explanation
Indices: 17074260--17074302 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17074250 TGATATGCCA
* *
17074260 TGAATGGTTTATACTTTGGTTG
1 TGAATGGTTTAAAATTTGGTTG
17074282 TGAATTGGTTTAAAATTTGGT
1 TGAA-TGGTTTAAAATTTGGT
17074303 ATTAAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.23, C:0.02, G:0.26, T:0.49
Consensus pattern (22 bp):
TGAATGGTTTAAAATTTGGTTG
Found at i:17076221 original size:31 final size:31
Alignment explanation
Indices: 17076183--17076242 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
17076173 TGAGCAAGAG
*
17076183 ATTGTGCAAAATCCAAGACATAGTAACACAA
1 ATTGTGCAAAATCCAAGACATAGCAACACAA
**
17076214 ATTGTGCAAAATCTGAGACATAGCAACAC
1 ATTGTGCAAAATCCAAGACATAGCAACAC
17076243 CTTAGCTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (31 bp):
ATTGTGCAAAATCCAAGACATAGCAACACAA
Found at i:17083510 original size:28 final size:28
Alignment explanation
Indices: 17083478--17083567 Score: 144
Period size: 28 Copynumber: 3.2 Consensus size: 28
17083468 TGGGAATTAG
* * * *
17083478 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCATGATGGGCCATGTGAACGAGA
17083506 TTGGGCATGATGGGCCATGTGAACGAGA
1 TTGGGCATGATGGGCCATGTGAACGAGA
17083534 TTGGGCATGATGGGCCATGTGAACGAGA
1 TTGGGCATGATGGGCCATGTGAACGAGA
17083562 TTGGGC
1 TTGGGC
17083568 CTAAAGGGGC
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.22, C:0.14, G:0.39, T:0.24
Consensus pattern (28 bp):
TTGGGCATGATGGGCCATGTGAACGAGA
Found at i:17085380 original size:29 final size:28
Alignment explanation
Indices: 17085306--17085423 Score: 100
Period size: 29 Copynumber: 4.2 Consensus size: 28
17085296 TACATACATG
*
17085306 CATATGGCCCACTAGGCCCAATCTTATT
1 CATATGGCCCACTAGGCCCAATCATATT
* *
17085334 CAAATGGCCCATCT-GGCCCAGTTCATATT
1 CATATGGCCCA-CTAGGCCCA-ATCATATT
* *
17085363 CTTATGGCCCACTAGGCCGAATTC-TCATT
1 CATATGGCCCACTAGGCCCAA-TCAT-ATT
* *
17085392 CATATGCCCCA-TAGCCCCAAATCATATT
1 CATATGGCCCACTAGGCCC-AATCATATT
17085420 -ATAT
1 CATAT
17085424 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
27 4 0.06
28 29 0.40
29 39 0.54
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (28 bp):
CATATGGCCCACTAGGCCCAATCATATT
Found at i:17085417 original size:57 final size:57
Alignment explanation
Indices: 17085308--17085419 Score: 136
Period size: 57 Copynumber: 2.0 Consensus size: 57
17085298 CATACATGCA
* * * * **
17085308 TATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATCTGGCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATCTCATTCAAATGCCCCATCAGCCCCAAATCATATTCT
* *
17085365 TATGGCCCACTAGGCCGAATTCTCATTCATATGCCCCAT-AGCCCCAAATCATATT
1 TATGGCCCACTAGGCCCAA-TCTCATTCAAATGCCCCATCAGCCCCAAATCATATT
17085420 ATATTCATGC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
57 30 0.65
58 16 0.35
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.29
Consensus pattern (57 bp):
TATGGCCCACTAGGCCCAATCTCATTCAAATGCCCCATCAGCCCCAAATCATATTCT
Found at i:17085648 original size:8 final size:8
Alignment explanation
Indices: 17085634--17085684 Score: 52
Period size: 8 Copynumber: 6.5 Consensus size: 8
17085624 CGTAGCCAAA
17085634 CTTTT-GG
1 CTTTTCGG
*
17085641 CTTTTTGG
1 CTTTTCGG
17085649 CATTTT-GG
1 C-TTTTCGG
*
17085657 CTTTTCAG
1 CTTTTCGG
17085665 CTTTTCGG
1 CTTTTCGG
*
17085673 CATTTCGG
1 CTTTTCGG
17085681 CTTT
1 CTTT
17085685 CGTCGATTCA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 9 0.24
8 24 0.65
9 4 0.11
ACGTcount: A:0.06, C:0.20, G:0.22, T:0.53
Consensus pattern (8 bp):
CTTTTCGG
Found at i:17086928 original size:16 final size:16
Alignment explanation
Indices: 17086909--17086939 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17086899 AAAATTCAAA
*
17086909 ATTTTGGGATTTTTGG
1 ATTTCGGGATTTTTGG
17086925 ATTTCGGGATTTTTG
1 ATTTCGGGATTTTTG
17086940 AGGCGTTACG
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:0.13, C:0.03, G:0.29, T:0.55
Consensus pattern (16 bp):
ATTTCGGGATTTTTGG
Found at i:17087262 original size:27 final size:27
Alignment explanation
Indices: 17087219--17087693 Score: 444
Period size: 27 Copynumber: 17.7 Consensus size: 27
17087209 GTAATAAAAG
* * *
17087219 AAAATTACCTAAGTACCCCCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
**
17087246 AAAATTACCGAAATACCCTTAATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
17087273 AAAATTATCAAAATACCCTCGA-TTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* ** *
17087299 GAAATTACTAAAATACCCTTGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
**
17087326 AAAATTACTAAAATACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
*
17087353 AAAATTACCGAAACACCCT-GAATTTGT
1 AAAATTACCGAAATACCCTCG-ATTTGT
* *
17087380 AAAATTATCGAAACACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
17087407 AAAATTACTGAAATACTCTCGATTATG-
1 AAAATTACCGAAATACCCTCGATT-TGT
** *
17087434 -AAATTACTAAAATACCCTCAATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
17087460 AAAATTATCGAAATACCCCCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* *
17087487 GAAATTACCGAAACACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* * * *
17087514 GAAATTATCAAAACACCCTCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
*
17087541 AAAATTATCGAAATACCCTC-AGTTTGT
1 AAAATTACCGAAATACCCTCGA-TTTGT
* *
17087568 AAAATTACCGAAACACCCCCGATTTGT
1 AAAATTACCGAAATACCCTCGATTTGT
* * * *
17087595 AAAATTATCAAAATACCCTTG-TAATGT
1 AAAATTACCGAAATACCCTCGAT-TTGT
** *
17087622 AAAATTATTGAAATACCCTCG-TAGTGT
1 AAAATTACCGAAATACCCTCGAT-TTGT
* * *
17087649 AAAATTACTGAAATACCCTTG-TAGTGT
1 AAAATTACCGAAATACCCTCGAT-TTGT
* *
17087676 AAAATGACCGACATACCC
1 AAAATTACCGAAATACCC
17087694 CTGTAGGGTA
Statistics
Matches: 381, Mismatches: 58, Indels: 18
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.01
26 45 0.12
27 330 0.87
28 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGATTTGT
Found at i:17087415 original size:81 final size:81
Alignment explanation
Indices: 17087232--17087667 Score: 489
Period size: 81 Copynumber: 5.4 Consensus size: 81
17087222 ATTACCTAAG
* **
17087232 TACCCCCGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTATCAAAATACCCTCG-A-
1 TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCCT-GAAT
* *
17087295 TTGTGAAATTA-CTAAAA
65 TTGTAAAATTATC-GAAA
* ** * * *
17087312 TACCCTTGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAACACCCTGAATT
1 TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTGAATT
17087377 TGTAAAATTATCGAAA
66 TGTAAAATTATCGAAA
* * * *
17087393 CACCCTCGATTTGTAAAATTACTGAAATACTCTCGATTATG--AAATTA-CTAAAATACCCTCAA
1 TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATT-TGTAAAATTATC-AAAATACCCTGAA
17087455 TTTGTAAAATTATCGAAA
64 TTTGTAAAATTATCGAAA
* * * * *
17087473 TACCCCCGATTTGTGAAATTACCGAAACACCCTCGATTTGTGAAATTATCAAAACACCCTCG-AT
1 TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCCT-GAAT
17087537 TTGTAAAATTATCGAAA
65 TTGTAAAATTATCGAAA
* *
17087554 TACCCTC-AGTTTGTAAAATTACCGAAACACCCCCGATTTGTAAAATTATCAAAATACCCTTGTA
1 TACCCTCGA-TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCC-TG-A
*
17087618 A--TGTAAAATTATTGAAA
63 ATTTGTAAAATTATCGAAA
* *
17087635 TACCCTCG-TAGTGTAAAATTACTGAAATACCCT
1 TACCCTCGAT-TTGTAAAATTACCGAAATACCCT
17087668 TGTAGTGTAA
Statistics
Matches: 305, Mismatches: 36, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
79 4 0.01
80 120 0.39
81 175 0.57
82 5 0.02
83 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
TACCCTCGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCCTGAATT
TGTAAAATTATCGAAA
Found at i:17087440 original size:134 final size:134
Alignment explanation
Indices: 17087219--17087613 Score: 517
Period size: 134 Copynumber: 2.9 Consensus size: 134
17087209 GTAATAAAAG
* ** * * * ** *
17087219 AAAATTACCTAAGTACCCCCGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTATCAA
1 AAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTATCGA
*
17087284 AATACCCTCGATTGTGAAATTACTAAAATACCCTTGATTTGTAAAATTA-CTAAAATACCCTCGA
66 AATACCCTCGATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTATC-AAAATACCCTCGA
17087348 TTTGT
130 TTTGT
17087353 AAAATTACCGAAACACCCT-GAATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTA-CT
1 AAAATTACCGAAACACCCTCG-ATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTATC-
* * * * *
17087416 GAAATACTCTCGATTATGAAATTACTAAAATACCCTCAATTTGTAAAATTATCGAAATACCCCCG
64 GAAATACCCTCGATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCG
17087481 ATTTGT
129 ATTTGT
* * *
17087487 GAAATTACCGAAACACCCTCGATTTGTGAAATTATCAAAACACCCTCGATTTGTAAAATTATCGA
1 AAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTATCGA
* * ** * *
17087552 AATACCCTCAGTTTGTAAAATTACCGAAACACCCCCGATTTGTAAAATTATCAAAATACCCT
66 AATACCCTC-GATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCT
17087614 TGTAATGTAA
Statistics
Matches: 226, Mismatches: 29, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
133 2 0.01
134 179 0.79
135 45 0.20
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (134 bp):
AAAATTACCGAAACACCCTCGATTTGTAAAATTATCGAAACACCCTCGATTTGTAAAATTATCGA
AATACCCTCGATTGTGAAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCGAT
TTGT
Found at i:17087705 original size:54 final size:54
Alignment explanation
Indices: 17087605--17087707 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
17087595 AAAATTATCA
* ** *
17087605 AAATACCCTTGTAATGTAAAATTATTGAAATACCCTCGTAGTGTAAAATTACTG
1 AAATACCCTTGTAATGTAAAATGACCGAAATACCCTCGTAGGGTAAAATTACTG
* *
17087659 AAATACCCTTGTAGTGTAAAATGACCGACATACCC-CTGTAGGGTAAAAT
1 AAATACCCTTGTAATGTAAAATGACCGAAATACCCTC-GTAGGGTAAAAT
17087708 GATTATTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.02
54 41 0.98
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (54 bp):
AAATACCCTTGTAATGTAAAATGACCGAAATACCCTCGTAGGGTAAAATTACTG
Found at i:17090098 original size:28 final size:29
Alignment explanation
Indices: 17090058--17090174 Score: 184
Period size: 29 Copynumber: 4.1 Consensus size: 29
17090048 ATTGCATGAC
*
17090058 TATGAATGTGA-TTGGGCCTAATGGGCCA
1 TATGAATGCGATTTGGGCCTAATGGGCCA
17090086 TATGAATGCGATTTGGGCCTAATGGGCCA
1 TATGAATGCGATTTGGGCCTAATGGGCCA
17090115 TATGAATGCGATTTGGGCCTAATGGGCCA
1 TATGAATGCGATTTGGGCCTAATGGGCCA
* * *
17090144 TATGAAAGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGCGATTTGGGCCTAATGGGCCA
17090172 TAT
1 TAT
17090175 ACATGTATGT
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
28 29 0.35
29 55 0.65
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TATGAATGCGATTTGGGCCTAATGGGCCA
Found at i:17090169 original size:57 final size:57
Alignment explanation
Indices: 17090058--17090174 Score: 182
Period size: 57 Copynumber: 2.1 Consensus size: 57
17090048 ATTGCATGAC
* * *
17090058 TATGAATGTGATTGGGCCTAATGGGCCATATGAATGCGATTTGGGCCTAATGGGCCA
1 TATGAATGCGATTGGGCCTAATGGGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
*
17090115 TATGAATGCGATTTGGGCCTAATGGGCCATATGAAAGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGCGA-TTGGGCCTAATGGGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
17090172 TAT
1 TAT
17090175 ACATGTATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 29 0.53
58 26 0.47
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (57 bp):
TATGAATGCGATTGGGCCTAATGGGCCATATGAAAGAGATTTGGGCCTAATGGGCCA
Found at i:17091399 original size:17 final size:18
Alignment explanation
Indices: 17091366--17091399 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17091356 TTTAAAGAAG
17091366 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
17091384 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
17091400 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:17094732 original size:29 final size:28
Alignment explanation
Indices: 17094663--17094751 Score: 97
Period size: 28 Copynumber: 3.1 Consensus size: 28
17094653 ATTGCATGAC
* * * *
17094663 TATGAATGTGATTGGGCCTAATAGGCCG
1 TATGAAAGAGATTGGGCCTAATGGGCCA
* * *
17094691 TATCAATGTGATTTGGGCCTAATGGGCCA
1 TATGAAAGAGA-TTGGGCCTAATGGGCCA
*
17094720 TATGAAAGAGATTGGGCCTAGTGGGCCA
1 TATGAAAGAGATTGGGCCTAATGGGCCA
17094748 TATG
1 TATG
17094752 CATGTATGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
28 30 0.57
29 23 0.43
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
TATGAAAGAGATTGGGCCTAATGGGCCA
Found at i:17095969 original size:17 final size:18
Alignment explanation
Indices: 17095937--17095970 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17095927 TTTAAAGAAG
17095937 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
17095955 GGTTTTCAA-GAAAACA
1 GGTTTTCAATGAAAACA
17095971 CTTCAATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.44, C:0.12, G:0.18, T:0.26
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:17096656 original size:42 final size:43
Alignment explanation
Indices: 17096542--17096698 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 43
17096532 TGTGATTTTG
* *
17096542 TGTAAGACCACGTCTAGGACGTTGGCATCGAT--TTGAGATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATACTT--GA-TTACA
* * ** * * *
17096586 TGTAAGACCATGTTTGGGACATCAGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATACTTGATTACA
* *
17096628 TGTATGACCTTGTCTGGGACAG-TGGCATCGATACTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATACTTGATTACA
*
17096671 TGTAAGACCATGTTTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
17096699 TGAACAAGCT
Statistics
Matches: 88, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
42 27 0.31
43 35 0.40
44 24 0.27
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATACTTGATTACA
Found at i:17097489 original size:23 final size:22
Alignment explanation
Indices: 17097458--17097500 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17097448 TGATATGGCA
* *
17097458 TGAATGGTTTATATTTTGGTTG
1 TGAATGGTTTAAAATTTGGTTG
17097480 TGAATTGGTTTAAAATTTGGT
1 TGAA-TGGTTTAAAATTTGGT
17097501 ATAAAATGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (22 bp):
TGAATGGTTTAAAATTTGGTTG
Found at i:17102364 original size:40 final size:39
Alignment explanation
Indices: 17102333--17102542 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
17102323 GGACTAAGAT
* *
17102333 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
17102373 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
17102413 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
17102453 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
17102493 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
17102532 CCGAAGGCATT
1 CCGAAGGCATT
17102543 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:17102496 original size:120 final size:120
Alignment explanation
Indices: 17102280--17102542 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
17102270 TTGAATGCTG
* *
17102280 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
17102344 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
17102400 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
17102463 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
17102519 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
17102543 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:17102562 original size:79 final size:80
Alignment explanation
Indices: 17102281--17102577 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
17102271 TGAATGCTGT
* ** * * * **
17102281 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
17102344 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
17102361 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
17102425 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
17102441 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
17102505 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
17102520 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
17102578 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:17112292 original size:26 final size:26
Alignment explanation
Indices: 17112262--17112317 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
17112252 TGAAATGCCC
17112262 ATCATAGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
*
17112288 ATCATGGAACATTTACCTAACCCATT
1 ATCATAGAACATTTACCTAACCCATT
17112314 ATCA
1 ATCA
17112318 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATAGAACATTTACCTAACCCATT
Found at i:17113671 original size:326 final size:326
Alignment explanation
Indices: 17112792--17114058 Score: 2096
Period size: 326 Copynumber: 3.9 Consensus size: 326
17112782 TTAATTAAAT
** * * * * * * *
17112792 TATTTGTTTATTTTTTAAGGAAGTTTAGTCTATTTTCAGAAAAAAACATAGGAGTT-TATAAAAA
1 TATTTGTTTATTTTGGATGAAAGTTTAATCTATTTTGAG-AAAAAACACAGGAGTTAAAAAAAAA
* ** * * **
17112856 -GATTAAGTTTAACATCTTCATTATAACAGTGTTTACTATTGAAATCTTAGTTGAAAATCCAAAT
65 CGATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAAT
* * * * * * **
17112920 TA-TTCTTTTAGCAATACATATTTACAATTTAGCA-ACGGAAAAA-TGATATTAATGTAACTTTA
130 TACCT-TTTTAACAAAACACATTTACAATTTAGTAGA--AAAAAAGTGATATTAACATAACTTTA
* * * *
17112982 ATAAAAACCATGTTTCATGCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAG
192 GTAAAATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAG
*
17113047 TGTCATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGATAAGTTATCAAAGTTTT
257 TGTCATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTT
17113112 AAAAA
322 AAAAA
*
17113117 TATTTGTTTATTTTAGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAGTTTAAAAAAAAA
1 TATTTGTTTATTTTGGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAG-TTAAAAAAAAA
17113182 CGATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAAT
65 CGATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAAT
17113247 TACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTA
130 TACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTA
*
17113312 AAATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAGGTGT
195 AAATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAGTGT
17113377 CATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTAAA
260 CATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTAAA
17113442 AA
325 AA
*
17113444 TATTTGTTTATTTTGGATGAAATTTTAATCTATTTTGAGAAAAAACACAGGAGTTAAAAAAAAAC
1 TATTTGTTTATTTTGGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAGTTAAAAAAAAAC
17113509 GATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAATT
66 GATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAATT
17113574 ACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTAA
131 ACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTAA
*
17113639 AATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAGGTGTC
196 AATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAGTGTC
17113704 ATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTAAAA
261 ATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTAAAA
17113769 A
326 A
*
17113770 TATTTGTTTATTTTGGATGAAATTTTAATCTATTTTGAGAAAAAACACAGGAGTTAAAAAAAAAC
1 TATTTGTTTATTTTGGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAGTTAAAAAAAAAC
17113835 GATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAATT
66 GATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAATT
17113900 ACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTAA
131 ACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTAA
* *
17113965 AATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGATTTAAATGTC
196 AATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAGTGTC
* *
17114030 ATGTATGCCAAAGTAAAAAATC-TAAACTA
261 ATGTATGCCTAAG-GAAAAATCGTAAACTA
17114059 ACTCTCATGT
Statistics
Matches: 898, Mismatches: 37, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
324 13 0.01
325 35 0.04
326 560 0.62
327 288 0.32
328 2 0.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (326 bp):
TATTTGTTTATTTTGGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAGTTAAAAAAAAAC
GATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAATT
ACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTAA
AATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAGTGTC
ATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTAAAA
A
Found at i:17114051 original size:653 final size:650
Alignment explanation
Indices: 17112792--17114058 Score: 2092
Period size: 653 Copynumber: 1.9 Consensus size: 650
17112782 TTAATTAAAT
** * * * * *
17112792 TATTTGTTTATTTTTTAAGGAAGTTTAGTCTATTTTCAGAAAAAAACATAGGAGTTTATAAAAAG
1 TATTTGTTTATTTTGGAAGAAAGTTTAATCTATTTTCAGAAAAAAACACAGGAGTTAAAAAAAAG
* *
17112857 ATTAAGTTTAACATCTTCATTATAACAGTGTTTACTATTGAAATCTTAGTTGAAAATCCAAATTA
66 ATTAAGTGTAACATCTTCATTATAACAGTGTTTACTATTGAAAACTTAGTTGAAAATCCAAATTA
* * * * * **
17112922 TTCTTTTAGCAATACATATTTACAATTTAGCAACGGAAAAATGATATTAATGTAACTTTAATAAA
131 CTCTTTTAACAAAACACATTTACAATTTAGCAAC-AAAAAATGATATTAACATAACTTTAATAAA
*
17112987 AACCATGTTTCATGCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAGTGTCA
195 AACCACGTTTCATGCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAGTGTCA
17113052 TGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGATAAGTTATCAAAGTTTTAAAAA
260 TGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGATAAGTTATCAAAGTTTTAAAAA
17113117 TATTTGTTTATTTTAGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAGTTTAAAAAAAAA
325 TATTTGTTTATTTTAGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAGTTTAAAAAAAAA
17113182 CGATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAAT
390 CGATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAAT
17113247 TACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTA
455 TACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTA
* **
17113312 AAATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAGGTGT
520 AAATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGATTTAAATGT
* *
17113377 CATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTAAA
585 CATGTATGCCAAAGAAAAAATC-TAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTAAA
17113442 AA
649 AA
* * *
17113444 TATTTGTTTATTTTGGATGAAATTTTAATCTATTTTGAG-AAAAAACACAGGAGTTAAAAAAAAA
1 TATTTGTTTATTTTGGAAGAAAGTTTAATCTATTTTCAGAAAAAAACACAGGAGTT-AAAAAAAA
** * **
17113508 CGATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAAT
65 -GATTAAGTGTAACATCTTCATTATAACAGTGTTTACTATTGAAAACTTAGTTGAAAATCCAAAT
* *
17113573 TAC-CTTTTTAACAAAACACATTTACAATTTAGTAGA-AAAAAAGTGATATTAACATAACTTTAG
129 TACTC-TTTTAACAAAACACATTTACAATTTAGCA-ACAAAAAA-TGATATTAACATAACTTTAA
* * *
17113636 TAAAATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAGGT
191 TAAAAACCACGTTTCATGCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAGT
*
17113701 GTCATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTA
256 GTCATGTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGATAAGTTATCAAAGTTTTA
* *
17113766 AAAATATTTGTTTATTTTGGATGAAATTTTAATCTATTTTGAGAAAAAACACAGGAG-TTAAAAA
321 AAAATATTTGTTTATTTTAGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAGTTTAAAAA
17113830 AAAACGATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCT
386 AAAACGATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCT
17113895 GAATTACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTT
451 GAATTACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTT
17113960 AGTAAAATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGATTTAA
516 AGTAAAATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGATTTAA
17114025 ATGTCATGTATGCCAAAGTAAAAAATCTAAACTA
581 ATGTCATGTATGCCAAAG-AAAAAATCTAAACTA
17114059 ACTCTCATGT
Statistics
Matches: 571, Mismatches: 38, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
651 15 0.03
652 267 0.47
653 288 0.50
654 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (650 bp):
TATTTGTTTATTTTGGAAGAAAGTTTAATCTATTTTCAGAAAAAAACACAGGAGTTAAAAAAAAG
ATTAAGTGTAACATCTTCATTATAACAGTGTTTACTATTGAAAACTTAGTTGAAAATCCAAATTA
CTCTTTTAACAAAACACATTTACAATTTAGCAACAAAAAATGATATTAACATAACTTTAATAAAA
ACCACGTTTCATGCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGGTTTAAGTGTCAT
GTATGCCTAAGGAAAAATCGTAAACTAGCTCCCATCCCACGATAAGTTATCAAAGTTTTAAAAAT
ATTTGTTTATTTTAGATGAAAGTTTAATCTATTTTGAGAAAAAACACAGGAGTTTAAAAAAAAAC
GATTAAGTGTAACATCTTCATTATAATGGTGTTTACTATTGAAAACTTAGTTGAAATTCTGAATT
ACCTTTTTAACAAAACACATTTACAATTTAGTAGAAAAAAAGTGATATTAACATAACTTTAGTAA
AATCCACGTTTCATTCATAATTAAATAAAAATTCATATTCTAATAGCCTAAATGATTTAAATGTC
ATGTATGCCAAAGAAAAAATCTAAACTAGCTCCCATCCCACGGTAAGTTATCAAAGTTTTAAAAA
Found at i:17114704 original size:19 final size:20
Alignment explanation
Indices: 17114680--17114717 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17114670 CCTTTCTACA
17114680 CAAAAC-ATAAAATTTAAGG
1 CAAAACTATAAAATTTAAGG
*
17114699 CAAAACTGTAAAATTTAAG
1 CAAAACTATAAAATTTAAG
17114718 ATGTAGAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (20 bp):
CAAAACTATAAAATTTAAGG
Found at i:17117194 original size:43 final size:44
Alignment explanation
Indices: 17117102--17117194 Score: 145
Period size: 42 Copynumber: 2.2 Consensus size: 44
17117092 CGAGCTAGAT
*
17117102 CTTTTCTATTTTGAGATAATCGGATTACCCGTCTGGGCTGAATC
1 CTTTTCTATTTTGAGATAATCGGATTACCCGTCCGGGCTGAATC
* *
17117146 C-TTTCTATTTTGAGAT-ATCGGATTATCCTTCCGGGCTGAATC
1 CTTTTCTATTTTGAGATAATCGGATTACCCGTCCGGGCTGAATC
17117188 CTTTTCT
1 CTTTTCT
17117195 GCAATACATG
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 24 0.53
43 20 0.44
44 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (44 bp):
CTTTTCTATTTTGAGATAATCGGATTACCCGTCCGGGCTGAATC
Found at i:17135694 original size:55 final size:54
Alignment explanation
Indices: 17135554--17135737 Score: 134
Period size: 54 Copynumber: 3.4 Consensus size: 54
17135544 GTTTAAGGAT
* * * ***
17135554 ACCAAGTAAGACCATGCCAAGGCCTGACATTGGTAAGTTTTACAAGGCAAAGAA
1 ACCATGTAAGACCATGCCAAGGCCTGACATTGATAACTACGACAAGGCAAAGAA
* * * * * * * * *
17135608 ATCATGAAAGACCATGTCAAGACATGGCATTGATAAACTACGATAAGGCAAATAT
1 ACCATGTAAGACCATGCCAAGGCCTGACATTGAT-AACTACGACAAGGCAAAGAA
* * * *** *
17135663 CCCATGTAAGACCATGCCAAGGCCTGACATTGGTAAGTTTTACAAGGTAAAGAA
1 ACCATGTAAGACCATGCCAAGGCCTGACATTGATAACTACGACAAGGCAAAGAA
* * *
17135717 ATCATGAAAGACCATGTCAAG
1 ACCATGTAAGACCATGCCAAG
17135738 ACATGGCAAT
Statistics
Matches: 94, Mismatches: 35, Indels: 2
0.72 0.27 0.02
Matches are distributed among these distances:
54 55 0.59
55 39 0.41
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGGCCTGACATTGATAACTACGACAAGGCAAAGAA
Found at i:17135753 original size:54 final size:54
Alignment explanation
Indices: 17135586--17135766 Score: 157
Period size: 54 Copynumber: 3.3 Consensus size: 54
17135576 CCTGACATTG
*
17135586 GTAAGTTTTACAAGGCAAAGAAATCATGAAAGACCATGTCAAGACATGGC-ATT
1 GTAAGTTTTACAAGGCAAAGAAATCATGAAAGACCATGTCAAGACATGGCAATC
* *** * * *** * * * * * * *
17135639 GATAAACTACGATAAGGCAAATATCCCATGTAAGACCATGCCAAGGCCTGACATTG
1 G-T-AAGTTTTACAAGGCAAAGAAATCATGAAAGACCATGTCAAGACATGGCAATC
*
17135695 GTAAGTTTTACAAGGTAAAGAAATCATGAAAGACCATGTCAAGACATGGCAATC
1 GTAAGTTTTACAAGGCAAAGAAATCATGAAAGACCATGTCAAGACATGGCAATC
* *
17135749 GTAAGTTTCAAAAGGCAA
1 GTAAGTTTTACAAGGCAA
17135767 GGTACCCGTG
Statistics
Matches: 89, Mismatches: 36, Indels: 5
0.68 0.28 0.04
Matches are distributed among these distances:
53 1 0.01
54 51 0.57
55 35 0.39
56 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (54 bp):
GTAAGTTTTACAAGGCAAAGAAATCATGAAAGACCATGTCAAGACATGGCAATC
Found at i:17140656 original size:278 final size:278
Alignment explanation
Indices: 17140248--17140803 Score: 1112
Period size: 278 Copynumber: 2.0 Consensus size: 278
17140238 AAGCCACATC
17140248 AGAAAATTTATTCGATACATGATTTAGAACTAGCTGCCATTGTATTTGCGTTGAAAATCTGGAGA
1 AGAAAATTTATTCGATACATGATTTAGAACTAGCTGCCATTGTATTTGCGTTGAAAATCTGGAGA
17140313 CATCACTTGTATGGTGAGAAGTGCTGAATATTTACTGATCATAAAAGTTTGTAATACTTAATTGC
66 CATCACTTGTATGGTGAGAAGTGCTGAATATTTACTGATCATAAAAGTTTGTAATACTTAATTGC
17140378 TCAGAAAGATTTGAACTTGAGGCAAAGAAGATGGCTAAAGTTGATTAAAGATTATGAACTAGTGA
131 TCAGAAAGATTTGAACTTGAGGCAAAGAAGATGGCTAAAGTTGATTAAAGATTATGAACTAGTGA
17140443 TAGATTATCGCTCGAGTAAGGCAAACGTAGTTGCTGATGCTTTGAGTAGAAAATCTTTATTTGCA
196 TAGATTATCGCTCGAGTAAGGCAAACGTAGTTGCTGATGCTTTGAGTAGAAAATCTTTATTTGCA
17140508 TTAAGAGTTTGAACATTA
261 TTAAGAGTTTGAACATTA
17140526 AGAAAATTTATTCGATACATGATTTAGAACTAGCTGCCATTGTATTTGCGTTGAAAATCTGGAGA
1 AGAAAATTTATTCGATACATGATTTAGAACTAGCTGCCATTGTATTTGCGTTGAAAATCTGGAGA
17140591 CATCACTTGTATGGTGAGAAGTGCTGAATATTTACTGATCATAAAAGTTTGTAATACTTAATTGC
66 CATCACTTGTATGGTGAGAAGTGCTGAATATTTACTGATCATAAAAGTTTGTAATACTTAATTGC
17140656 TCAGAAAGATTTGAACTTGAGGCAAAGAAGATGGCTAAAGTTGATTAAAGATTATGAACTAGTGA
131 TCAGAAAGATTTGAACTTGAGGCAAAGAAGATGGCTAAAGTTGATTAAAGATTATGAACTAGTGA
17140721 TAGATTATCGCTCGAGTAAGGCAAACGTAGTTGCTGATGCTTTGAGTAGAAAATCTTTATTTGCA
196 TAGATTATCGCTCGAGTAAGGCAAACGTAGTTGCTGATGCTTTGAGTAGAAAATCTTTATTTGCA
17140786 TTAAGAGTTTGAACATTA
261 TTAAGAGTTTGAACATTA
17140804 GTTTAACCTT
Statistics
Matches: 278, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 278 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (278 bp):
AGAAAATTTATTCGATACATGATTTAGAACTAGCTGCCATTGTATTTGCGTTGAAAATCTGGAGA
CATCACTTGTATGGTGAGAAGTGCTGAATATTTACTGATCATAAAAGTTTGTAATACTTAATTGC
TCAGAAAGATTTGAACTTGAGGCAAAGAAGATGGCTAAAGTTGATTAAAGATTATGAACTAGTGA
TAGATTATCGCTCGAGTAAGGCAAACGTAGTTGCTGATGCTTTGAGTAGAAAATCTTTATTTGCA
TTAAGAGTTTGAACATTA
Found at i:17164071 original size:30 final size:30
Alignment explanation
Indices: 17164027--17164115 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
17164017 CAAAGATAAC
17164027 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
17164056 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
17164086 AAGAGATCCAGCATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
17164116 CGAAACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.17, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:17164075 original size:15 final size:15
Alignment explanation
Indices: 17164027--17164106 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
17164017 CAAAGATAAC
*
17164027 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
17164041 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
17164056 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
17164071 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
17164086 AAGAGATCCAGCATA
1 AAGAAATCCAGAATA
17164101 AAGAAA
1 AAGAAA
17164107 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.15, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:17167161 original size:93 final size:93
Alignment explanation
Indices: 17167049--17167220 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
17167039 CGCCCATAAG
*
17167049 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGAACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGAACTCAACTC
17167113 AACGAGTTCGAATGCCTAGTTACATCTCT
65 AACGAGTTCGAATGCCTAGTTACATCTCT
* * * *
17167142 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
17167207 ACGAGTTCGGATGC
66 ACGAGTTCGAATGC
17167221 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGTTCGAATGCCTAGTTACATCTCT
Found at i:17167211 original size:46 final size:46
Alignment explanation
Indices: 17167042--17167217 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
17167032 TGTAACCCGC
* * *
17167042 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCAT
* * * * *
17167088 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGAATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG---GAC-ATTTGCAT
17167138 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* *
17167181 CCATAAGTGAACTCGGACTCAACTCCACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
17167218 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 2 0.02
45 1 0.01
46 59 0.56
47 26 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:17173013 original size:26 final size:26
Alignment explanation
Indices: 17172983--17173041 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
17172973 TGCTTAACAT
17172983 AATCATACATCACATAGGGGCATAAC
1 AATCATACATCACATAGGGGCATAAC
**
17173009 AATCATTTTATCACATAGGGGCATAAC
1 AATCA-TACATCACATAGGGGCATAAC
*
17173036 ATTCAT
1 AATCAT
17173042 TTTATCAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 6 0.21
27 23 0.79
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (26 bp):
AATCATACATCACATAGGGGCATAAC
Found at i:17173023 original size:27 final size:27
Alignment explanation
Indices: 17172991--17173048 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
17172981 ATAATCATAC
17172991 ATCACATAGGGGCATAACAATCATTTT
1 ATCACATAGGGGCATAACAATCATTTT
*
17173018 ATCACATAGGGGCATAACATTCATTTT
1 ATCACATAGGGGCATAACAATCATTTT
17173045 ATCA
1 ATCA
17173049 ATTAGTGGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (27 bp):
ATCACATAGGGGCATAACAATCATTTT
Found at i:17174731 original size:27 final size:27
Alignment explanation
Indices: 17174696--17174837 Score: 124
Period size: 27 Copynumber: 5.3 Consensus size: 27
17174686 TTTTACCCTA
* *
17174696 CAGGAGTATTTCGGTAATTTTACAAGT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* * *
17174723 CGGGGGTATTTCGGTAATTTCATAAAT
1 CAGGGGTATTTCGGTAATTTTACAAAT
* * *
17174750 -TGAGGGTATTTTGGTAATTTCACAAAT
1 CAG-GGGTATTTCGGTAATTTTACAAAT
* * **
17174777 CAGGTGTATTTCAGTAATTTTACAACC
1 CAGGGGTATTTCGGTAATTTTACAAAT
* ** *
17174804 CAGAGGTATTTCAATAATTTTACAAGT
1 CAGGGGTATTTCGGTAATTTTACAAAT
17174831 CAGGGGT
1 CAGGGGT
17174838 CTTAACGACC
Statistics
Matches: 92, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 1 0.01
27 90 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (27 bp):
CAGGGGTATTTCGGTAATTTTACAAAT
Found at i:17183159 original size:43 final size:44
Alignment explanation
Indices: 17183093--17183336 Score: 251
Period size: 43 Copynumber: 5.7 Consensus size: 44
17183083 AGCTCGTACA
* *
17183093 ATGCCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATTG
1 ATGCCAACGTCCCAGACAGTGGTCTTACACGTAATCAAATATCG
*
17183136 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACAGTGGTCTTACACGTAATCAAATATCG
* * * *
17183178 ATGCCAACGTCCTAGA-TGTAGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACAGTGGTCTTACACGTAATCAAATATCG
* *
17183221 ATGCC-ACTGTCCTAGACAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCAAC-GTCCCAGACAGTGGTCTTACACGTAATCAAATATCG
*
17183263 ATGCCAACGTCCCAGA-TGTGGTCTTACACGTAAATCATAAGT-T-G
1 ATGCCAACGTCCCAGACAGTGGTCTTACACGT-AATCA-AA-TATCG
* *
17183307 ATGCCAATGTCCCAAACA-TGGTCTTACACG
1 ATGCCAACGTCCCAGACAGTGGTCTTACACG
17183337 ATAACACATA
Statistics
Matches: 169, Mismatches: 18, Indels: 27
0.79 0.08 0.13
Matches are distributed among these distances:
41 2 0.01
42 60 0.36
43 75 0.44
44 31 0.18
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAGTGGTCTTACACGTAATCAAATATCG
Found at i:17183238 original size:85 final size:84
Alignment explanation
Indices: 17183093--17183337 Score: 366
Period size: 85 Copynumber: 2.9 Consensus size: 84
17183083 AGCTCGTACA
*
17183093 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATA-TGATGCCACTGTCCCAGACAGGGT
17183158 CTTACACGAAATCAAATACG
65 CTTACACGAAATCAAATACG
* * *
17183178 ATGCCAACGTCCTAGATGTAGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAGGGT
1 ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATAT-GATGCCACTGTCCCAGACAGGGT
17183243 CTTACACGAAATCAAATACG
65 CTTACACGAAATCAAATACG
* * * *
17183263 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAATCATAAGT-TGATGCCAATGTCCCAAACATG
1 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATCA-AA-TATGATGCCACTGTCCCAGACAGG
17183327 GTCTTACACGA
63 GTCTTACACGA
17183338 TAACACATAG
Statistics
Matches: 145, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
84 1 0.01
85 107 0.74
86 33 0.23
87 3 0.02
88 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (84 bp):
ATGCCAACGTCCCAGATGTGGTCTTACATGTAATCAAATATGATGCCACTGTCCCAGACAGGGTC
TTACACGAAATCAAATACG
Found at i:17190952 original size:35 final size:35
Alignment explanation
Indices: 17190911--17190980 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
17190901 CATTCATCAC
17190911 GCTATAGAATGCTTGACTAGCTTCATCATTCGGAT
1 GCTATAGAATGCTTGACTAGCTTCATCATTCGGAT
*
17190946 GCTATAGAATGCTTGTCTAGCTTCATCATTCGGAT
1 GCTATAGAATGCTTGACTAGCTTCATCATTCGGAT
17190981 TACTAGCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (35 bp):
GCTATAGAATGCTTGACTAGCTTCATCATTCGGAT
Found at i:17191415 original size:48 final size:48
Alignment explanation
Indices: 17191344--17191440 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
17191334 TTGAGTTTCA
17191344 CAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGT
1 CAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGT
17191392 CAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGT
1 CAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGT
17191440 C
1 C
17191441 CCCACCTATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (48 bp):
CAACTCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGT
Found at i:17192694 original size:39 final size:40
Alignment explanation
Indices: 17192649--17192820 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
17192639 GCTCCTCGTT
* * *
17192649 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
17192689 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
17192728 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
17192768 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
17192808 CAAATGCCTTCGG
1 CAAATGCCTTCGG
17192821 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:17192749 original size:40 final size:39
Alignment explanation
Indices: 17192651--17192873 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
17192641 TCCTCGTTCA
* * * *
17192651 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
17192690 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
17192729 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
17192769 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
17192809 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
17192850 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17192874 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:17192833 original size:80 final size:79
Alignment explanation
Indices: 17192649--17192873 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
17192639 GCTCCTCGTT
* * * * *
17192649 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
17192713 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
17192728 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
17192793 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
17192808 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
17192872 GA
63 GA
17192874 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:17192882 original size:41 final size:41
Alignment explanation
Indices: 17192805--17192882 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17192795 TTTGTATCTC
* * *
17192805 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17192846 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17192883 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17202413 original size:61 final size:61
Alignment explanation
Indices: 17202343--17202469 Score: 220
Period size: 61 Copynumber: 2.1 Consensus size: 61
17202333 ATGAAGGTGA
17202343 TTGATCTATGAAA-TCGAAACTAGAAAAGCATAGTATGATGATTATGCTATTGCATGAATGT
1 TTGATCTATGAAACT-GAAACTAGAAAAGCATAGTATGATGATTATGCTATTGCATGAATGT
* *
17202404 TTGATCTATGAAACTGAAACTAGAAAAGTATGGTATGATGATTATGCTATTGCATGAATGT
1 TTGATCTATGAAACTGAAACTAGAAAAGCATAGTATGATGATTATGCTATTGCATGAATGT
17202465 TTGAT
1 TTGAT
17202470 GGACTTTGCA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 62 0.98
62 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (61 bp):
TTGATCTATGAAACTGAAACTAGAAAAGCATAGTATGATGATTATGCTATTGCATGAATGT
Found at i:17202951 original size:27 final size:27
Alignment explanation
Indices: 17202913--17202997 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
17202903 ACACGCTAGA
17202913 AAAATGATGCCTTTGTGGAAATCTATG
1 AAAATGATGCCTTTGTGGAAATCTATG
17202940 AAAATAGA-GCCTTTGTGGAAATCTATG
1 AAAAT-GATGCCTTTGTGGAAATCTATG
* * * * * *
17202967 AAAAGGAAGCATTTATGGAAAACTATA
1 AAAATGATGCCTTTGTGGAAATCTATG
17202994 AAAA
1 AAAA
17202998 GGAATCCTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.04
27 47 0.92
28 2 0.04
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (27 bp):
AAAATGATGCCTTTGTGGAAATCTATG
Found at i:17203126 original size:79 final size:79
Alignment explanation
Indices: 17203022--17203187 Score: 271
Period size: 79 Copynumber: 2.1 Consensus size: 79
17203012 CGATCTATGA
17203022 TAAG-GAAGCCTTTTCGACGCACTCTAAAGAATGACCTTTATGGCAACCATCTGAAGGCAATGCA
1 TAAGAGAAGCCTTTTCGACGCACTCTAAAGAATGACCTTTATGGCAACCATCTGAAGGCAATGCA
*
17203086 TTTGTGGTCGACCC
66 TCTGTGGTCGACCC
* * *
17203100 TAAGAGAAGCCTTTTCGGCGCACTCTAAAGAATGACCTTTGTGGCAACCATCTGAAGGCAATGCC
1 TAAGAGAAGCCTTTTCGACGCACTCTAAAGAATGACCTTTATGGCAACCATCTGAAGGCAATGCA
*
17203165 TCTGTGGTGGACCC
66 TCTGTGGTCGACCC
*
17203179 TAAAAGAAG
1 TAAGAGAAG
17203188 GAAATGGTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
78 4 0.05
79 77 0.95
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (79 bp):
TAAGAGAAGCCTTTTCGACGCACTCTAAAGAATGACCTTTATGGCAACCATCTGAAGGCAATGCA
TCTGTGGTCGACCC
Found at i:17204999 original size:27 final size:27
Alignment explanation
Indices: 17204933--17205292 Score: 426
Period size: 27 Copynumber: 13.4 Consensus size: 27
17204923 ATTCGTGGGC
* *
17204933 AAAATGAATGAAATATCCT-GAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
17204959 AAAATGACCGAAATACCCTCAAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* * *
17204986 AAAATAACTAAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
17205013 AAAATGA-TCGAAATACCCCCGAAGGGT
1 AAAATGACT-GAAATACCCTCGAAGGGT
*
17205040 AAAATGA-TCGAAATACCCTTGAA-GGT
1 AAAATGACT-GAAATACCCTCGAAGGGT
*
17205066 AAACTGACTGAAATACCCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
17205093 AAAATGACTAAAATACCCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
17205120 AAACTGA-TCGAAATACCCTCGAAGGGT
1 AAAATGACT-GAAATACCCTCGAAGGGT
* * *
17205147 AAAATGACTAAAATACCCTCAAAAGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
17205174 AAAATGACCGAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* **
17205201 AAAATGACCGAAATACCCTTAAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
17205228 AAAATGACCGAAATACCCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
17205255 AAAATGA-TCGAAATACCCCCAATAGGGT
1 AAAATGACT-GAAATACCCTCGA-AGGGT
17205283 AAAATGACTG
1 AAAATGACTG
17205293 TTATACTCCT
Statistics
Matches: 289, Mismatches: 36, Indels: 16
0.85 0.11 0.05
Matches are distributed among these distances:
26 40 0.14
27 234 0.81
28 14 0.05
29 1 0.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCTCGAAGGGT
Found at i:17205493 original size:26 final size:26
Alignment explanation
Indices: 17205464--17205515 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
17205454 TTGTCACATA
*
17205464 TACTGTTACTGGTAGCCTTGCTGCGT
1 TACTGTTACTGGCAGCCTTGCTGCGT
* *
17205490 TACTGTTATTGGCAGCTTTGCTGCGT
1 TACTGTTACTGGCAGCCTTGCTGCGT
17205516 CATTATTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.21, G:0.27, T:0.40
Consensus pattern (26 bp):
TACTGTTACTGGCAGCCTTGCTGCGT
Found at i:17215966 original size:76 final size:76
Alignment explanation
Indices: 17215868--17216173 Score: 578
Period size: 76 Copynumber: 4.0 Consensus size: 76
17215858 GAATTTGATT
* *
17215868 TGGAAATTAGA-ATAGGAAAGGGATAGAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
1 TGGAAATTAGAGATAGGACAGGGATAAAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
17215932 GGAAATGAAGA
66 GGAAATGAAGA
17215943 TGGAAATTAGAGATAGGACAGGGATAAAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
1 TGGAAATTAGAGATAGGACAGGGATAAAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
17216008 GGAAATGAAGA
66 GGAAATGAAGA
17216019 TGGAAATTAGAGATAGGACAGGGATAAAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
1 TGGAAATTAGAGATAGGACAGGGATAAAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
17216084 GGAAATGAAGA
66 GGAAATGAAGA
17216095 TGGAAATTAGAGATAGGACAGGGATAAAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
1 TGGAAATTAGAGATAGGACAGGGATAAAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
*
17216160 GGAAATGAATA
66 GGAAATGAAGA
17216171 TGG
1 TGG
17216174 TAATATTCAG
Statistics
Matches: 227, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
75 11 0.05
76 216 0.95
ACGTcount: A:0.41, C:0.09, G:0.28, T:0.23
Consensus pattern (76 bp):
TGGAAATTAGAGATAGGACAGGGATAAAAAATCAAGTGGCTGATCACTTGTCTTGAATTGAAGCA
GGAAATGAAGA
Found at i:17233635 original size:28 final size:29
Alignment explanation
Indices: 17233578--17233635 Score: 66
Period size: 28 Copynumber: 2.0 Consensus size: 29
17233568 TTTAAATAAA
* *
17233578 TATGGACTTTTATTTATGATTTGGATTTT
1 TATGGACTTTTATTGATGATTTGGACTTT
*
17233607 TATGGAC-TTTATTGCT-ATTTGGGACTTT
1 TATGGACTTTTATTGATGATTT-GGACTTT
17233635 T
1 T
17233636 TATGTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 14 0.56
29 7 0.28
ACGTcount: A:0.19, C:0.07, G:0.19, T:0.55
Consensus pattern (29 bp):
TATGGACTTTTATTGATGATTTGGACTTT
Found at i:17233635 original size:29 final size:29
Alignment explanation
Indices: 17233578--17233639 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
17233568 TTTAAATAAA
*
17233578 TATGGACTTTTATTTATGATTTGGATTTT
1 TATGGACTTTTATTGATGATTTGGATTTT
*
17233607 TATGGAC-TTTATTGCT-ATTTGGGACTTTT
1 TATGGACTTTTATTGATGATTT-GGA-TTTT
17233636 TATG
1 TATG
17233640 TTCAATTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 4 0.14
28 10 0.34
29 15 0.52
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.55
Consensus pattern (29 bp):
TATGGACTTTTATTGATGATTTGGATTTT
Found at i:17237416 original size:13 final size:14
Alignment explanation
Indices: 17237398--17237426 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17237388 AAAATTGTTT
17237398 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
17237411 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
17237425 AA
1 AA
17237427 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:17250854 original size:19 final size:19
Alignment explanation
Indices: 17250830--17250867 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17250820 CTAGAGCAGA
17250830 GGTATCGATAATCGAGTTT
1 GGTATCGATAATCGAGTTT
*
17250849 GGTATCGATAATTGAGTTT
1 GGTATCGATAATCGAGTTT
17250868 TAAAATCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (19 bp):
GGTATCGATAATCGAGTTT
Found at i:17253796 original size:40 final size:41
Alignment explanation
Indices: 17253691--17253836 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 41
17253681 GCTACTCGTT
*
17253691 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
*
17253731 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
* * * * *
17253771 CCAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCA
17253812 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17253837 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.04
40 75 0.82
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCA
Found at i:17256680 original size:28 final size:28
Alignment explanation
Indices: 17256638--17256691 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
17256628 AGAGTAGCAA
* *
17256638 AAGCTTCCTACAGTTCTGTCTTTATTTT
1 AAGCTCCCTACAGTTCTGCCTTTATTTT
*
17256666 AAGCTCCCTATAGTTCTGCCTTTATT
1 AAGCTCCCTACAGTTCTGCCTTTATT
17256692 ATCTGATTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.19, C:0.24, G:0.11, T:0.46
Consensus pattern (28 bp):
AAGCTCCCTACAGTTCTGCCTTTATTTT
Found at i:17272662 original size:18 final size:19
Alignment explanation
Indices: 17272639--17272686 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
17272629 ACATTTTTGG
17272639 TGCCTTTGTCC-CCCTTAT
1 TGCCTTTGTCCTCCCTTAT
*
17272657 TGCCTTTTTCCCTCCCTTAT
1 TGCCTTTGT-CCTCCCTTAT
17272677 TGCCTTTGTC
1 TGCCTTTGTC
17272687 TCCTCCTCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 15 0.58
ACGTcount: A:0.04, C:0.38, G:0.10, T:0.48
Consensus pattern (19 bp):
TGCCTTTGTCCTCCCTTAT
Found at i:17272893 original size:56 final size:56
Alignment explanation
Indices: 17272797--17272908 Score: 206
Period size: 56 Copynumber: 2.0 Consensus size: 56
17272787 CACCTCTAAA
*
17272797 GGCCCCCAAACCACCAACTCACTGCCACCGCCACCGCCATCAGAGCCGCCACGCTG
1 GGCCACCAAACCACCAACTCACTGCCACCGCCACCGCCATCAGAGCCGCCACGCTG
*
17272853 GGCCACCAACCCACCAACTCACTGCCACCGCCACCGCCATCAGAGCCGCCACGCTG
1 GGCCACCAAACCACCAACTCACTGCCACCGCCACCGCCATCAGAGCCGCCACGCTG
17272909 CCGCCATCGA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.52, G:0.18, T:0.07
Consensus pattern (56 bp):
GGCCACCAAACCACCAACTCACTGCCACCGCCACCGCCATCAGAGCCGCCACGCTG
Found at i:17273054 original size:19 final size:19
Alignment explanation
Indices: 17273030--17273067 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17273020 ATATCACATC
17273030 ATATATCTA-ATTATTTTTT
1 ATATAT-TATATTATTTTTT
*
17273049 ATATATTATGTTATTTTTT
1 ATATATTATATTATTTTTT
17273068 GTCTAGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (19 bp):
ATATATTATATTATTTTTT
Found at i:17275115 original size:28 final size:27
Alignment explanation
Indices: 17275083--17275179 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 27
17275073 TTAATAAGTA
* *
17275083 CGCACACTTAGTGCTTAATAATCACACT
1 CGCACACTTAGTGCTT-ATAATTAAACT
*
17275111 CGCACACTTAGTGCTT-TACCATTATACT
1 CGCACACTTAGTGCTTATA--ATTAAACT
17275139 CGCACACTTAGTGCATT-TCAATTAAACT
1 CGCACACTTAGTGC-TTAT-AATTAAACT
17275167 CGCACACTTAGTG
1 CGCACACTTAGTG
17275180 TTGGGGGTCA
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.03
28 56 0.90
29 3 0.05
30 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (27 bp):
CGCACACTTAGTGCTTATAATTAAACT
Found at i:17276857 original size:35 final size:35
Alignment explanation
Indices: 17276825--17276907 Score: 96
Period size: 35 Copynumber: 2.4 Consensus size: 35
17276815 TTCTGATTTG
* *
17276825 CATATTGAGCATG-CTATTATTCTGATTATGATTCA
1 CATATTAAGCATGTC-ATGATTCTGATTATGATTCA
* *
17276860 CATGTTAAGCATGTCATGATTCTGATTCTGATTCA
1 CATATTAAGCATGTCATGATTCTGATTATGATTCA
* *
17276895 CATGTTAAACATG
1 CATATTAAGCATG
17276908 CCACTATAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 41 0.98
36 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (35 bp):
CATATTAAGCATGTCATGATTCTGATTATGATTCA
Found at i:17279125 original size:11 final size:10
Alignment explanation
Indices: 17279079--17279143 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
17279069 AAAAGGTTAT
17279079 AAAATTATT-
1 AAAATTATTA
* *
17279088 AATATTA-CA
1 AAAATTATTA
*
17279097 AAAACTATTA
1 AAAATTATTA
17279107 AAAATTATTA
1 AAAATTATTA
* *
17279117 AAATTTTATAAA
1 AAA-ATTAT-TA
17279129 AAAATTATTA
1 AAAATTATTA
17279139 AAAAT
1 AAAAT
17279144 ACTAAAAAGT
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
9 11 0.26
10 19 0.45
11 8 0.19
12 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAATTATTA
Found at i:17279151 original size:22 final size:22
Alignment explanation
Indices: 17279106--17279151 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17279096 AAAAACTATT
**
17279106 AAAAATTATTAAAATTTTATAA
1 AAAAATTATTAAAATACTATAA
17279128 AAAAATTATTAAAAATACTA-AA
1 AAAAATTATT-AAAATACTATAA
17279150 AA
1 AA
17279152 GTTAAATAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAATTATTAAAATACTATAA
Found at i:17289258 original size:19 final size:19
Alignment explanation
Indices: 17289234--17289275 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
17289224 TGAGTAGAGA
17289234 TATTTTAGTTATTAAATAG
1 TATTTTAGTTATTAAATAG
17289253 TATTTTAGTTATTAAATAG
1 TATTTTAGTTATTAAATAG
17289272 TATT
1 TATT
17289276 CTTTTGATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (19 bp):
TATTTTAGTTATTAAATAG
Found at i:17289654 original size:64 final size:64
Alignment explanation
Indices: 17289553--17289916 Score: 728
Period size: 64 Copynumber: 5.7 Consensus size: 64
17289543 TTTCTAAACA
17289553 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
1 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
17289617 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
1 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
17289681 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
1 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
17289745 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
1 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
17289809 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
1 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
17289873 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCAT
1 TTACCATTATCATAGCATAATCCATTCATACACATGCATATCAT
17289917 CCTTTATTCA
Statistics
Matches: 300, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 300 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.29
Consensus pattern (64 bp):
TTACCATTATCATAGCATAATCCATTCATACACATGCATATCATGGTAAATCAGCGCCGCAGAT
Found at i:17291666 original size:12 final size:12
Alignment explanation
Indices: 17291649--17291692 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
17291639 AACCAACAAG
17291649 ATAAGTCATATC
1 ATAAGTCATATC
*
17291661 ATAAGTCATA-G
1 ATAAGTCATATC
17291672 ATAAGTCA-ATC
1 ATAAGTCATATC
*
17291683 ATAACTCATA
1 ATAAGTCATA
17291693 CATTAACACA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 1 0.04
11 15 0.56
12 11 0.41
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (12 bp):
ATAAGTCATATC
Found at i:17291686 original size:22 final size:23
Alignment explanation
Indices: 17291647--17291692 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
17291637 ACAACCAACA
*
17291647 AGATAAGTCATATCATAAGTCAT
1 AGATAAGTCATATCATAACTCAT
17291670 AGATAAGTCA-ATCATAACTCAT
1 AGATAAGTCATATCATAACTCAT
17291692 A
1 A
17291693 CATTAACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (23 bp):
AGATAAGTCATATCATAACTCAT
Found at i:17297462 original size:19 final size:19
Alignment explanation
Indices: 17297438--17297476 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17297428 AAGGAGTTAA
17297438 TTAGAAAATGCATGATGTC
1 TTAGAAAATGCATGATGTC
17297457 TTAGAAAATGCATGATGTC
1 TTAGAAAATGCATGATGTC
17297476 T
1 T
17297477 GGTTTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (19 bp):
TTAGAAAATGCATGATGTC
Found at i:17308605 original size:22 final size:22
Alignment explanation
Indices: 17308580--17308671 Score: 130
Period size: 22 Copynumber: 4.2 Consensus size: 22
17308570 AGGTCATGCC
* *
17308580 ACCACTGATTTGCATATAAACT
1 ACCACTGAATTGCAGATAAACT
*
17308602 ACCACTGAATTGTAGATAAACT
1 ACCACTGAATTGCAGATAAACT
*
17308624 ACCATTGAATTGCAGATAAACT
1 ACCACTGAATTGCAGATAAACT
* *
17308646 GCCACTGATTTGCAGATAAACT
1 ACCACTGAATTGCAGATAAACT
17308668 ACCA
1 ACCA
17308672 TTAATAACAC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 61 1.00
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (22 bp):
ACCACTGAATTGCAGATAAACT
Found at i:17312275 original size:34 final size:33
Alignment explanation
Indices: 17312212--17312275 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
17312202 ATGTGAATGA
*
17312212 AATGAGTGAAAGAGAGAGAGAGCTTAAACAAGG
1 AATGAGTGAAAGAGAGAGAGAGCTCAAACAAGG
*
17312245 AATGAGTG-AAGAAGAAGAGAGTGCTCAAACA
1 AATGAGTGAAAG-AG-AGAGAGAGCTCAAACA
17312276 CAATGGAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 3 0.11
33 10 0.37
34 14 0.52
ACGTcount: A:0.48, C:0.08, G:0.31, T:0.12
Consensus pattern (33 bp):
AATGAGTGAAAGAGAGAGAGAGCTCAAACAAGG
Found at i:17336054 original size:41 final size:40
Alignment explanation
Indices: 17335978--17336055 Score: 88
Period size: 41 Copynumber: 1.9 Consensus size: 40
17335968 TCCAACACTT
* * *
17335978 TTTCTTTTCCCCGATCTAAATCTGTACATTGCTTTTCNCTC
1 TTTCCTTTCCCCAATCTAAATCTGTACATTACTTTTC-CTC
17336019 TTTCCTTTCCCCAATCTAAATAC-GTA-AGTTACTTTTC
1 TTTCCTTTCCCCAATCTAAAT-CTGTACA-TTACTTTTC
17336056 TTGATCTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.03
41 30 0.94
42 1 0.03
ACGTcount: A:0.19, C:0.28, G:0.06, T:0.45
Consensus pattern (40 bp):
TTTCCTTTCCCCAATCTAAATCTGTACATTACTTTTCCTC
Found at i:17342072 original size:20 final size:20
Alignment explanation
Indices: 17342047--17342085 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
17342037 TGAGTTATTT
17342047 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
17342067 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
17342086 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:17349458 original size:40 final size:40
Alignment explanation
Indices: 17349369--17349751 Score: 539
Period size: 40 Copynumber: 9.7 Consensus size: 40
17349359 TTGAATGATG
* *
17349369 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
17349408 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
17349448 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
17349487 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17349526 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17349566 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17349606 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
17349646 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
17349686 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17349727 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17349752 AACGAGGAGC
Statistics
Matches: 318, Mismatches: 16, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
39 102 0.32
40 196 0.62
41 20 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17350594 original size:42 final size:42
Alignment explanation
Indices: 17350547--17350630 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
17350537 TGAATAAATT
*
17350547 ATGTAAACAAACCTTGATGAATTTACTTTCATAGGAAAGTAA
1 ATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAA
17350589 ATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAA
1 ATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAA
17350631 CGAAACAATC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGTAAACAAACCTTGATGAATCTACTTTCATAGGAAAGTAA
Found at i:17352856 original size:20 final size:20
Alignment explanation
Indices: 17352818--17352856 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17352808 ATTTAATAAA
* **
17352818 TAAAAATACAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
17352838 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
17352857 ACATATAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:17352890 original size:9 final size:9
Alignment explanation
Indices: 17352876--17352952 Score: 91
Period size: 9 Copynumber: 8.6 Consensus size: 9
17352866 TTTATACAAA
17352876 TAATTCGGT
1 TAATTCGGT
*
17352885 TAATTCAGT
1 TAATTCGGT
* *
17352894 TAATTGGGG
1 TAATTCGGT
*
17352903 TAATTCGGG
1 TAATTCGGT
17352912 TAATTCGGT
1 TAATTCGGT
*
17352921 TAATTCGAT
1 TAATTCGGT
*
17352930 TAATTTGGT
1 TAATTCGGT
*
17352939 CAATTCGGT
1 TAATTCGGT
17352948 TAATT
1 TAATT
17352953 TTGTACTTAT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:17354425 original size:26 final size:25
Alignment explanation
Indices: 17354392--17354443 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
17354382 AATTACAGGT
*
17354392 TTTATAATGTT-TTTATTAAAGTTAA
1 TTTATAAT-TTATGTATTAAAGTTAA
*
17354417 TTTAGTAATTTATGTATTAAGGTTAA
1 TTTA-TAATTTATGTATTAAAGTTAA
17354443 T
1 T
17354444 AAAATAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.54
Consensus pattern (25 bp):
TTTATAATTTATGTATTAAAGTTAA
Found at i:17358870 original size:48 final size:48
Alignment explanation
Indices: 17358808--17359203 Score: 598
Period size: 48 Copynumber: 8.2 Consensus size: 48
17358798 GAAATTGATA
*
17358808 TATGAGATATGTATATGTGGTAAATG-CGAATGGCTAGTGTGAAATATG
1 TATGAGATATGTATATGTGGTAAA-GCCGAATGGCTAATGTGAAATATG
* ** *
17358856 TATGAGATATGTATATATGGTAAAGAAGAATGGCTAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATG
*
17358906 TATGAGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
17358954 TATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATA
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATG
*
17359004 TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
17359052 TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
17359100 TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
* *
17359148 TATGAGATATGTATATTTGGTAAAGTCGAATGGCTAATGTGAAATATG
1 TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
*
17359196 TAGGAGAT
1 TATGAGAT
17359204 GTGTGTATAT
Statistics
Matches: 322, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
47 2 0.01
48 229 0.71
49 8 0.02
50 82 0.25
51 1 0.00
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (48 bp):
TATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATG
Found at i:17358975 original size:98 final size:98
Alignment explanation
Indices: 17358797--17359194 Score: 626
Period size: 98 Copynumber: 4.1 Consensus size: 98
17358787 AAGCTATTGC
*
17358797 TGAAAT-TGATATATGAGATATGTATATGTGGTAAATG-CGAATGGCTAGTGTGAAATATGTATG
1 TGAAATAT-ATATATGAGATATGTATATGTGGTAAA-GCCGAATGGCTAATGTGAAATATGTATG
* **
17358860 AGATATGTATATATGGTAAAGAAGAATGGCTAATG
64 AGATATGTATATGTGGTAAAGCCGAATGGCTAATG
*
17358895 TGAAATATATATATGAGATTTGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 TGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17358960 ATATGCATATGTGGTAAAGCCGAATGG-TCAATG
66 ATATGTATATGTGGTAAAGCCGAATGGCT-AATG
*
17358993 TGAAATATATATATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 TGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
17359058 ATATGTATATGTGGTAAATCCGAATGGCTAATG
66 ATATGTATATGTGGTAAAGCCGAATGGCTAATG
* *
17359091 TG-AA-ATATGTATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAG
1 TGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
17359154 ATATGTATATTTGGTAAAGTCGAATGGCTAATG
66 ATATGTATATGTGGTAAAGCCGAATGGCTAATG
17359187 TGAAATAT
1 TGAAATAT
17359195 GTAGGAGATG
Statistics
Matches: 280, Mismatches: 14, Indels: 12
0.92 0.05 0.04
Matches are distributed among these distances:
96 90 0.32
97 6 0.02
98 182 0.65
99 2 0.01
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (98 bp):
TGAAATATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
ATATGTATATGTGGTAAAGCCGAATGGCTAATG
Found at i:17359211 original size:146 final size:144
Alignment explanation
Indices: 17358808--17359218 Score: 610
Period size: 146 Copynumber: 2.8 Consensus size: 144
17358798 GAAATTGATA
* *
17358808 TATGAGATATGTATATGTGGTAAATGCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATA
1 TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATA
** *
17358873 TGGTAAAGAAGAATGGCTAATGTGAAATATATATATGAGATTTGTATATGTGGTAAAGCCGAATG
66 TGGTAAAGTCGAATGGCTAATGTG-AA-ATATGTATGAGATTTGTATATGTGGTAAAGCCGAATG
17358938 GCTAATGTGAAATATG
129 GCTAATGTGAAATATG
* * *
17358954 TATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTAT
1 TATGAGATATGTATATGTGGTAAATCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATGTAT
* * *
17359018 ATGTGGTAAA-TCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAATCCGAA
63 ATATGGTAAAGT-CGAATGGCTAATGTGAAATATGTATGAGATTTGTATATGTGGTAAAGCCGAA
17359082 TGGCTAATGTGAAATATG
127 TGGCTAATGTGAAATATG
*
17359100 TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATT
1 TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATA
*
17359165 TGGTAAAGTCGAATGGCTAATGTGAAATATGTAGGAGATGTGTGTATATTGTGG
66 TGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGAT-T-TGTATA-TGTGG
17359219 CCGAATGACC
Statistics
Matches: 239, Mismatches: 17, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
144 56 0.23
145 4 0.02
146 128 0.54
147 10 0.04
148 41 0.17
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (144 bp):
TATGAGATATGTATATGTGGTAAATCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATA
TGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATTTGTATATGTGGTAAAGCCGAATGGC
TAATGTGAAATATG
Found at i:17384264 original size:6 final size:6
Alignment explanation
Indices: 17384234--17384352 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
17384224 AAGAAACATT
* * *
17384234 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
17384283 ATCAGA ATCAGA ATTAGGTG AT-AGA ATTACA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
17384334 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
17384353 GTGAATGCAA
Statistics
Matches: 86, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
5 6 0.07
6 67 0.78
7 9 0.10
8 4 0.05
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:17384288 original size:25 final size:25
Alignment explanation
Indices: 17384255--17384324 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
17384245 AATCAAAATG
17384255 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
17384280 AGAATCAGAATCAGAATTAGGTGAT
1 AGAATCAGAATCAGAATCAGGTGAC
* *
17384305 AGAATTACAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
17384325 TATCAGGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:17384292 original size:31 final size:30
Alignment explanation
Indices: 17384255--17384352 Score: 98
Period size: 31 Copynumber: 3.4 Consensus size: 30
17384245 AATCAAAATG
17384255 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
* *
17384286 AGAATCAGAAT----T-AGGTGATAGAATT
1 AGAATCAGAATCAGATCAGGTGACAGAATC
* *
17384311 ACAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAG-ATCAGGTGACAGAATC
*
17384342 AAAATCAGAAT
1 AGAATCAGAAT
17384353 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
25 21 0.39
26 1 0.02
30 1 0.02
31 31 0.57
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGATCAGGTGACAGAATC
Found at i:17384341 original size:25 final size:25
Alignment explanation
Indices: 17384255--17384352 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 25
17384245 AATCAAAATG
*
17384255 AGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTAAC
* *
17384280 AGAATCAGAATCAGAATTAGGTGATAGAATT
1 AGAATCAGAATCAGAATCA-G-G-T--AA-C
* *
17384311 ACAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGGTAAC
*
17384336 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
17384353 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
25 32 0.56
26 3 0.05
27 1 0.02
28 2 0.04
29 1 0.02
30 2 0.04
31 16 0.28
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.20
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTAAC
Found at i:17384884 original size:27 final size:27
Alignment explanation
Indices: 17384854--17385318 Score: 538
Period size: 27 Copynumber: 17.2 Consensus size: 27
17384844 TAACACCCTA
* * *
17384854 AGGGTAAAATGGTAATTTTATAAATTG
1 AGGGTAAAATAGTAATTTTGTAAATCG
** *
17384881 AGGGTAAAACGGTAATTTTGTAAATTG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* *
17384908 AGGGTAAAACAATAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
*
17384935 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* * *
17384962 AGGGTAAAATAGTAATTCTATCAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
**
17384989 AGGGTAAAAT-GATAATTTTGTAAATAA
1 AGGGTAAAATAG-TAATTTTGTAAATCG
*
17385016 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
** * *
17385043 AGGGTAAAACGGTAATTCTGTAAATAG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* *
17385070 AGGGTAAAATAATAATTTTGTGAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* * * *
17385097 ATGGTAAAATAGTAATTCTATCAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* * *
17385124 AGGTTAAAATAGTAACTCTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
*
17385151 AGGGTAAAATAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* *
17385178 AAGGTAAAACAGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
**
17385205 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* *
17385232 AGGGTAAAA-CGATAATTTTATAAATCG
1 AGGGTAAAATAG-TAATTTTGTAAATCG
* *
17385259 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
* * *
17385286 AGGGTAAAACAGTAATTTTATAATTCG
1 AGGGTAAAATAGTAATTTTGTAAATCG
17385313 AGGGTA
1 AGGGTA
17385319 CTTTGATAAT
Statistics
Matches: 383, Mismatches: 51, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
26 2 0.01
27 379 0.99
28 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
AGGGTAAAATAGTAATTTTGTAAATCG
Found at i:17385328 original size:27 final size:25
Alignment explanation
Indices: 17385297--17385440 Score: 92
Period size: 27 Copynumber: 5.4 Consensus size: 25
17385287 GGGTAAAACA
17385297 GTAATTTTATAATTCGAGGGTACTTTG
1 GTAATTTTA-AATTCGAGGGTA-TTTG
* * *
17385324 ATAATTTTACATGTCGAGGGTATTTCA
1 GTAATTTTAAAT-TCGAGGGTATTT-G
*
17385351 GTAATTTTGCAAACT-GAGGGTATTTCG
1 GTAATTTT--AAATTCGAGGGTATTT-G
* * *
17385378 GTAATTTTACAAGTCGAGGATATCTGG
1 GTAATTTTA-AATTCGAGGGTAT-TTG
** *
17385405 GTAATTTTATAAACCGATGGTACTTTG
1 GTAATTTTA-AATTCGAGGGTA-TTTG
17385432 GTAATTTTA
1 GTAATTTTA
17385441 CAACTGGGGG
Statistics
Matches: 93, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
25 1 0.01
26 8 0.09
27 79 0.85
28 3 0.03
29 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (25 bp):
GTAATTTTAAATTCGAGGGTATTTG
Found at i:17385341 original size:54 final size:54
Alignment explanation
Indices: 17385187--17385461 Score: 175
Period size: 54 Copynumber: 5.1 Consensus size: 54
17385177 GAAGGTAAAA
* **** ** * * *
17385187 CAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATAT
***** * *
17385241 C-GATAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTA-AA-TCGAGGGTAAAA
1 CAG-TAATTTTATAAATCGAGGGTACTTTGGTAATT-T-TACAAGTCGAGGGTATAT
* * * *
17385295 CAGTAATTTTATAATTCGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTT
1 CAGTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATAT
** * *
17385349 CAGTAATTTTGCAAA-CTGAGGGTA-TTTCGGTAATTTTACAAGTCGAGGATATCT
1 CAGTAATTTTATAAATC-GAGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATAT
** * * * * *
17385403 GGGTAATTTTATAAACCGATGGTACTTTGGTAATTTTACAACT-GGGGGTATTT
1 CAGTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATAT
17385456 CAGTAA
1 CAGTAA
17385462 GTTGGTAAAC
Statistics
Matches: 179, Mismatches: 32, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
52 2 0.01
53 18 0.10
54 150 0.84
55 8 0.04
56 1 0.01
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (54 bp):
CAGTAATTTTATAAATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTATAT
Found at i:17385370 original size:81 final size:81
Alignment explanation
Indices: 17384854--17385372 Score: 457
Period size: 81 Copynumber: 6.4 Consensus size: 81
17384844 TAACACCCTA
** * * * * * *
17384854 AGGGTAAAATGGTAATTTTATAAATTGAGGGTAAAACGGTAATTTTGTAAATTGAGGGTAAAACA
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACG
**
17384919 ATAATTTTGTAAATCG
66 ATAATTTTACAAATCG
* * * * * *
17384935 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTATCAATCGAGGGTAAAATG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACG
** **
17385000 ATAATTTTGTAAATAA
66 ATAATTTTACAAATCG
** * * * * **
17385016 AGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAATAGAGGGTAAAATA
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACG
***
17385081 ATAATTTTGTGAATCG
66 ATAATTTTACAAATCG
* * * * * * * * * * *
17385097 ATGGTAAAATAGTAATTCTATCAATCGAGGTTAAAATAGTAACTCTGTAAATCGAGGGTAAAA-T
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACG
* **
17385161 AGTAATTCTGTAAATCG
66 A-TAATTTTACAAATCG
* * *
17385178 AAGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACG
*
17385243 ATAATTTTATAAATCG
66 ATAATTTTACAAATCG
* * ****
17385259 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTATAATTCGAGGGTACTTTG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACG
**
17385324 ATAATTTTACATGTCG
66 ATAATTTTACAAATCG
*** *
17385340 AGGGTATTTCAGTAATTTTGCAAA-CTGAGGGTA
1 AGGGTAAAACAGTAATTTTGTAAATC-GAGGGTA
17385373 TTTCGGTAAT
Statistics
Matches: 367, Mismatches: 68, Indels: 6
0.83 0.15 0.01
Matches are distributed among these distances:
80 2 0.01
81 364 0.99
82 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.32
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACG
ATAATTTTACAAATCG
Found at i:17389045 original size:27 final size:27
Alignment explanation
Indices: 17389015--17389079 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
17389005 CTACCAGAAA
* *
17389015 CAGTGAATGTGGTAAAGCCACCAGTAT
1 CAGTGAATGTGGCAAAGCCACAAGTAT
* *
17389042 CAGT-AATTATGGCATAGCCACAAGTAT
1 CAGTGAA-TGTGGCAAAGCCACAAGTAT
*
17389069 TAGTGAATGTG
1 CAGTGAATGTG
17389080 ATATAGTCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
26 2 0.07
27 26 0.87
28 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (27 bp):
CAGTGAATGTGGCAAAGCCACAAGTAT
Found at i:17389265 original size:27 final size:27
Alignment explanation
Indices: 17389235--17389354 Score: 161
Period size: 27 Copynumber: 4.4 Consensus size: 27
17389225 GGGCATACTC
17389235 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
17389262 GTCATTTTATCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
17389289 ATCATTTTACCTTA-AGGGGGCATTACG
1 GTCATTTTACCCTACA-GGGGCATTACG
* *
17389316 GTTATTTTACCCTACGGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
17389343 GTTATTTTACCC
1 GTCATTTTACCC
17389355 CATAAGGGTA
Statistics
Matches: 81, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 80 0.99
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:17389367 original size:27 final size:27
Alignment explanation
Indices: 17389238--17389370 Score: 97
Period size: 27 Copynumber: 4.9 Consensus size: 27
17389228 CATACTCGTC
* * *
17389238 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCCACAAGGGCATTACGGTT
* * * ** *
17389265 ATTTTATCCTACAGGGGCATTACAATC
1 ATTTTACCCCACAAGGGCATTACGGTT
** *
17389292 ATTTTACCTTA-AGGGGGCATTACGGTT
1 ATTTTACCCCACA-AGGGCATTACGGTT
* **
17389319 ATTTTACCCTACGGGGGCATTACGGTT
1 ATTTTACCCCACAAGGGCATTACGGTT
* *
17389346 ATTTTACCCCATAAGGGTATTACGG
1 ATTTTACCCCACAAGGGCATTACGG
17389371 CCATTTCCAT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
26 1 0.01
27 88 0.99
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (27 bp):
ATTTTACCCCACAAGGGCATTACGGTT
Found at i:17389368 original size:54 final size:54
Alignment explanation
Indices: 17389236--17389376 Score: 142
Period size: 54 Copynumber: 2.6 Consensus size: 54
17389226 GGCATACTCG
* * * *
17389236 TCATTTTACCCTACAGGGGCATTACGGTCATTTTATCCTACAGGGGCATTACAA
1 TCATTTTACCCCATAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACAA
* * * **
17389290 TCATTTTA--CCTTAAGGGGGCATTACGGTTATTTTACCCTACGGGGGCATTACGG
1 TCATTTTACCCCATAA--GGGCATTACGGTCATTTTACCCTACAGGGGCATTACAA
* * *
17389344 TTATTTTACCCCATAAGGGTATTACGGCCATTT
1 TCATTTTACCCCATAAGGGCATTACGGTCATTT
17389377 CCATCCATTA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
52 2 0.03
54 62 0.90
56 5 0.07
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (54 bp):
TCATTTTACCCCATAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACAA
Found at i:17392339 original size:40 final size:40
Alignment explanation
Indices: 17392259--17392424 Score: 210
Period size: 40 Copynumber: 4.2 Consensus size: 40
17392249 AACCTAAGTA
* * * * *
17392259 CCTTCGGAATTTAG-CCGGATAT-AGCAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAATC-ACTAGCACAAATG
* * * *
17392298 CCTTTGGGACTTAGCCCAGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
* *
17392338 CCTTCGGGACTTAACCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
17392378 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
17392418 CCTTCGG
1 CCTTCGG
17392425 ATCTTAGTCC
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
39 11 0.10
40 96 0.89
41 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
Found at i:17420873 original size:33 final size:33
Alignment explanation
Indices: 17420836--17420899 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
17420826 GATAGTTCGC
*
17420836 TGGGATAGTAAAC-ACGAAACAGAGAAAGTCTAT
1 TGGGATAGTAAACAAAG-AACAGAGAAAGTCTAT
*
17420869 TGGGATAGTAAAGAAAGAACAGAGAAAGTCT
1 TGGGATAGTAAACAAAGAACAGAGAAAGTCT
17420900 GTCAGGACAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.47, C:0.09, G:0.27, T:0.17
Consensus pattern (33 bp):
TGGGATAGTAAACAAAGAACAGAGAAAGTCTAT
Found at i:17422478 original size:53 final size:53
Alignment explanation
Indices: 17422420--17422627 Score: 186
Period size: 53 Copynumber: 3.9 Consensus size: 53
17422410 CTTTCCTTTT
* * *
17422420 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTA
1 TGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * * **
17422473 TGAACTCACCATTACCATGCCTTGGCATGGTTTTACATGGGATTTTTGCCTTA
1 TGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * * * *
17422526 TCATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGACT-TCCTTGCCTTG
1 TGA-A-CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTATCCTTGCCTTA
* * *
17422581 TAAAACTTACCAATGCCATGCCTTGGCATGGT-TTACGTGGTATCCTT
1 T-GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
17422628 AAACCCTAAT
Statistics
Matches: 120, Mismatches: 30, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
52 1 0.01
53 57 0.47
54 24 0.20
55 37 0.31
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.38
Consensus pattern (53 bp):
TGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:17434827 original size:93 final size:93
Alignment explanation
Indices: 17434720--17434890 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
17434710 GCCCCTAAGT
* *
17434720 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17434785 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
17434813 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
17434878 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17434891 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:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17434887 original size:46 final size:46
Alignment explanation
Indices: 17434715--17434887 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
17434705 AACCCGCCCC
* * * *
17434715 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
17434761 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
17434809 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
17434854 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
17434888 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:17435344 original size:30 final size:30
Alignment explanation
Indices: 17435310--17435369 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17435300 ATTTAATACG
17435310 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
17435340 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
17435370 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:17438929 original size:57 final size:56
Alignment explanation
Indices: 17438830--17438965 Score: 173
Period size: 57 Copynumber: 2.4 Consensus size: 56
17438820 TGTCATATGA
*
17438830 TAGGATTACCAGTCCAGGCTAAATCCTTTATATAGCGGATGCTCAAAAAGCTTAAT
1 TAGGATTACCAGTACAGGCTAAATCCTTTATATAGCGGATGCTCAAAAAGCTTAAT
** * * * * * *
17438886 TAGGATTACCAGTACATGTTTAATTCTTTTATATAGTGTATGCTTAAAAAGCTTGAT
1 TAGGATTACCAGTACA-GGCTAAATCCTTTATATAGCGGATGCTCAAAAAGCTTAAT
*
17438943 TAGGATTACCAGTCCAGGCTAAA
1 TAGGATTACCAGTACAGGCTAAA
17438966 CCCTAATCTT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
56 19 0.29
57 47 0.71
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (56 bp):
TAGGATTACCAGTACAGGCTAAATCCTTTATATAGCGGATGCTCAAAAAGCTTAAT
Found at i:17446082 original size:25 final size:25
Alignment explanation
Indices: 17446020--17446115 Score: 106
Period size: 25 Copynumber: 3.8 Consensus size: 25
17446010 GTACATGTAT
*
17446020 GCTCATACGAGCT-ATGAATCGATAT
1 GCTCATACGAGCTGA-GAATCGATAA
* * * *
17446045 GCTC-TCACAAGCTGTGAATTGGTAA
1 GCTCAT-ACGAGCTGAGAATCGATAA
17446070 GCTCATACGAGCTGAGAATCGATAA
1 GCTCATACGAGCTGAGAATCGATAA
*
17446095 GCTCATATGAGCTGAGAATCG
1 GCTCATACGAGCTGAGAATCG
17446116 GTGAACTCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.02
25 56 0.97
26 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGATAA
Found at i:17446108 original size:50 final size:51
Alignment explanation
Indices: 17446020--17446126 Score: 123
Period size: 50 Copynumber: 2.1 Consensus size: 51
17446010 GTACATGTAT
* * *
17446020 GCTCATACGAGCTATGAATCGATATGCTCTCACAAGCTGTGAATTGGT-AA
1 GCTCATACGAGCTATGAATCGATAAGCTCTCACAAGCTGAGAATCGGTGAA
**
17446070 GCTCATACGAGCTGA-GAATCGATAAGCTCAT-ATGAGCTGAGAATCGGTGAA
1 GCTCATACGAGCT-ATGAATCGATAAGCTC-TCACAAGCTGAGAATCGGTGAA
17446121 -CTCATA
1 GCTCATA
17446127 AGGGTTGTGG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
50 45 0.92
51 4 0.08
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (51 bp):
GCTCATACGAGCTATGAATCGATAAGCTCTCACAAGCTGAGAATCGGTGAA
Found at i:17446124 original size:25 final size:25
Alignment explanation
Indices: 17446020--17446126 Score: 103
Period size: 25 Copynumber: 4.3 Consensus size: 25
17446010 GTACATGTAT
* *
17446020 GCTCATACGAGCT-ATGAATCGATAT
1 GCTCATACGAGCTGA-GAATCGGTAA
* * *
17446045 GCTC-TCACAAGCTGTGAATTGGTAA
1 GCTCAT-ACGAGCTGAGAATCGGTAA
*
17446070 GCTCATACGAGCTGAGAATCGATAA
1 GCTCATACGAGCTGAGAATCGGTAA
*
17446095 GCTCATATGAGCTGAGAATCGGTGAA
1 GCTCATACGAGCTGAGAATCGGT-AA
17446121 -CTCATA
1 GCTCATA
17446127 AGGGTTGTGG
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.01
25 63 0.94
26 3 0.04
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAGAATCGGTAA
Found at i:17446506 original size:17 final size:18
Alignment explanation
Indices: 17446466--17446507 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
17446456 GATCTACATT
*
17446466 AATAATTTCATACAATAT
1 AATAATTTCATACAATAA
*
17446484 ATTAATTT-ATACAATAA
1 AATAATTTCATACAATAA
17446501 AATAATT
1 AATAATT
17446508 CATTTTATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATTTCATACAATAA
Found at i:17455361 original size:32 final size:32
Alignment explanation
Indices: 17455325--17455386 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
17455315 AGAAGATGGA
*
17455325 AAGAAAGGGACAATTGATGGACAACGAAGATC
1 AAGAAAGGGACAATTAATGGACAACGAAGATC
*
17455357 AAGAAAGGGACAATTAATGGACAATGAAGA
1 AAGAAAGGGACAATTAATGGACAACGAAGA
17455387 CTGAACCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.50, C:0.10, G:0.27, T:0.13
Consensus pattern (32 bp):
AAGAAAGGGACAATTAATGGACAACGAAGATC
Found at i:17460511 original size:18 final size:18
Alignment explanation
Indices: 17460488--17460522 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
17460478 ACCGAACCAG
17460488 CCTCTAAATGGGCAGCCT
1 CCTCTAAATGGGCAGCCT
17460506 CCTCTAAATGGGCAGCC
1 CCTCTAAATGGGCAGCC
17460523 CAGAACCGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.20
Consensus pattern (18 bp):
CCTCTAAATGGGCAGCCT
Found at i:17467582 original size:26 final size:26
Alignment explanation
Indices: 17467552--17467604 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
17467542 CCCGACTTAG
* * * *
17467552 TATATTTATCCTTGATATAGATATAT
1 TATATCTATCCCTAATATAGAAATAT
17467578 TATATCTATCCCTAATATAGAAATAT
1 TATATCTATCCCTAATATAGAAATAT
17467604 T
1 T
17467605 CATCCATAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (26 bp):
TATATCTATCCCTAATATAGAAATAT
Found at i:17468429 original size:10 final size:10
Alignment explanation
Indices: 17468391--17468440 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
17468381 GAAAATTATG
*
17468391 AATTTTAATT
1 AATTTTGATT
17468401 AATTTTGTAGTT
1 AATTTTG-A-TT
17468413 AATTTTGATT
1 AATTTTGATT
*
17468423 AATTTTGGTT
1 AATTTTGATT
*
17468433 ATTTTTGA
1 AATTTTGA
17468441 CAGAATTACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
10 23 0.68
11 2 0.06
12 9 0.26
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (10 bp):
AATTTTGATT
Found at i:17480823 original size:41 final size:43
Alignment explanation
Indices: 17480699--17480854 Score: 153
Period size: 45 Copynumber: 3.7 Consensus size: 43
17480689 TGTGTGCTCA
*
17480699 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATATGTGGTTACG
1 TGTAAGACCATGTCTGGGACAG-TGGCATCG--ATATGTGATTACG
* * *
17480744 TGTAAGACCATGTTTGGGACA-TCTGCATCG-TATTTGATT-CG
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGATATGTGATTACG
* *
17480785 TGTAAG-CCCTGTCTGGGACAGTGGCATCGATATGTGATTACA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACG
* *
17480827 TATAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCATGTCTGGGACAG-TGGCAT
17480855 TGTACAATAT
Statistics
Matches: 92, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
40 18 0.20
41 17 0.18
42 14 0.15
43 17 0.18
44 1 0.01
45 25 0.27
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGATTACG
Found at i:17486392 original size:33 final size:33
Alignment explanation
Indices: 17486338--17486407 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
17486328 TCAGAATATG
* * *
17486338 CAGATCAGTCTGGGTCGTAGCCTTATTCAGTAA
1 CAGAGCAGTCTGGGTCGTAGCCCTATACAGTAA
* *
17486371 CAGAGCAGTCTGGG-CTTTAGCCCTATACAGTAG
1 CAGAGCAGTCTGGGTC-GTAGCCCTATACAGTAA
17486404 CAGA
1 CAGA
17486408 ATGGGCCCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (33 bp):
CAGAGCAGTCTGGGTCGTAGCCCTATACAGTAA
Found at i:17489591 original size:39 final size:39
Alignment explanation
Indices: 17489533--17489622 Score: 135
Period size: 39 Copynumber: 2.3 Consensus size: 39
17489523 TGATACTTGA
* *
17489533 AAACATATCCGGACTTGAGGTCCGCCGGCTACGTACTGG
1 AAACATATCCGGACATGAGGTCCGCAGGCTACGTACTGG
* *
17489572 AAACATATCCGGACATGAGGTCCGCAGGCTATGTGCTGG
1 AAACATATCCGGACATGAGGTCCGCAGGCTACGTACTGG
*
17489611 AAATATATCCGG
1 AAACATATCCGG
17489623 GCTTAAAGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (39 bp):
AAACATATCCGGACATGAGGTCCGCAGGCTACGTACTGG
Found at i:17497392 original size:39 final size:39
Alignment explanation
Indices: 17497285--17497395 Score: 143
Period size: 39 Copynumber: 2.8 Consensus size: 39
17497275 GCATGATACT
17497285 TGGAAACATATCCGGGCTTGAGGTCCGCAGGCTACGTAC
1 TGGAAACATATCCGGGCTTGAGGTCCGCAGGCTACGTAC
** *
17497324 TGGAAACATATCCGAACTTGAGGTCCGCAGGCTA-GTGC
1 TGGAAACATATCCGGGCTTGAGGTCCGCAGGCTACGTAC
* * * *
17497362 TGGAAATATATTCGGGCTTAAAGTCTCGCAGGCT
1 TGGAAACATATCCGGGCTTGAGGTC-CGCAGGCT
17497396 TTGTGCTAGA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 22 0.35
39 40 0.65
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAACATATCCGGGCTTGAGGTCCGCAGGCTACGTAC
Found at i:17501947 original size:13 final size:13
Alignment explanation
Indices: 17501929--17501953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17501919 TCTGACTTTG
17501929 TTTCGAAGTGTTC
1 TTTCGAAGTGTTC
17501942 TTTCGAAGTGTT
1 TTTCGAAGTGTT
17501954 TGCTGTGTCA
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:0.12, G:0.24, T:0.48
Consensus pattern (13 bp):
TTTCGAAGTGTTC
Found at i:17505096 original size:39 final size:39
Alignment explanation
Indices: 17505042--17505134 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 39
17505032 GCATGATACT
*
17505042 TGGAAACATATCCGGACTTGAGGTCCGCAGGCTACGTAC
1 TGGAAACATATCCGGACTTGACGTCCGCAGGCTACGTAC
* *
17505081 TGGAAACATATCCGGACTTGACGTCCGCAGGCTATGTGC
1 TGGAAACATATCCGGACTTGACGTCCGCAGGCTACGTAC
* *
17505120 TGGGAATATATCCGG
1 TGGAAACATATCCGG
17505135 GCTTAAAGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.23
Consensus pattern (39 bp):
TGGAAACATATCCGGACTTGACGTCCGCAGGCTACGTAC
Found at i:17505759 original size:19 final size:20
Alignment explanation
Indices: 17505735--17505772 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17505725 GGTACCACCA
17505735 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
17505754 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
17505773 ACTATAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:17513803 original size:13 final size:13
Alignment explanation
Indices: 17513785--17513817 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
17513775 CCTCAAATCT
*
17513785 GGCCTTCTTTATA
1 GGCCTTCTTTACA
17513798 GGCCTTCTTTACA
1 GGCCTTCTTTACA
17513811 GGCCTTC
1 GGCCTTC
17513818 CAGAAGAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.18, T:0.39
Consensus pattern (13 bp):
GGCCTTCTTTACA
Found at i:17515172 original size:12 final size:12
Alignment explanation
Indices: 17515155--17515230 Score: 104
Period size: 12 Copynumber: 6.4 Consensus size: 12
17515145 TTGTCGATAG
17515155 AAGTTTATTTCT
1 AAGTTTATTTCT
17515167 AAGTTTATTTC-
1 AAGTTTATTTCT
*
17515178 -ATTATTATTTCT
1 AAGT-TTATTTCT
17515190 AAGTTTATTTCT
1 AAGTTTATTTCT
17515202 AAGTTTATTTCCT
1 AAGTTTATTT-CT
17515215 -AGTTTATTTCT
1 AAGTTTATTTCT
17515226 AAGTT
1 AAGTT
17515231 GTCTTTGTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.04
11 9 0.16
12 42 0.74
13 4 0.07
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.58
Consensus pattern (12 bp):
AAGTTTATTTCT
Found at i:17515201 original size:35 final size:35
Alignment explanation
Indices: 17515155--17515230 Score: 118
Period size: 35 Copynumber: 2.1 Consensus size: 35
17515145 TTGTCGATAG
*
17515155 AAGTTTATTTCTAAGTTTATTTCATTA-TTATTTCT
1 AAGTTTATTTCTAAGTTTATTTC-CTAGTTATTTCT
17515190 AAGTTTATTTCTAAGTTTATTTCCTAGTTTATTTCT
1 AAGTTTATTTCTAAGTTTATTTCCTAG-TTATTTCT
17515226 AAGTT
1 AAGTT
17515231 GTCTTTGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
34 2 0.05
35 23 0.61
36 13 0.34
ACGTcount: A:0.25, C:0.09, G:0.08, T:0.58
Consensus pattern (35 bp):
AAGTTTATTTCTAAGTTTATTTCCTAGTTATTTCT
Found at i:17518632 original size:39 final size:40
Alignment explanation
Indices: 17518537--17518798 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
17518527 TTGAATGATG
*
17518537 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
17518575 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
17518616 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
17518655 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
17518694 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
17518733 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
17518772 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
17518799 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:17527602 original size:40 final size:40
Alignment explanation
Indices: 17527513--17527776 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
17527503 TTGAATGATG
* *
17527513 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
17527552 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
17527592 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17527631 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17527671 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
17527711 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17527752 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17527777 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17527794 original size:120 final size:118
Alignment explanation
Indices: 17527513--17527809 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
17527503 TTGAATGATG
* *
17527513 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
17527573 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
17527631 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
17527696 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
17527752 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
17527810 TACTTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Done.