Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 97 of 189
Found at i:27116679 original size:99 final size:98
Alignment explanation
Indices: 27116474--27116699 Score: 233
Period size: 99 Copynumber: 2.3 Consensus size: 98
27116464 TAAAGAGTTC
* * *
27116474 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATAAGAGGTCCCATGTAAGACCATG
1 CCATGTAAGACCATATCTGAGACATGGCGTTAGCACCGAGATAAGAGGTCCCA-GTAAGACCATG
* *** * **
27116539 TTTGGGACATGGTGTTGGCACCGAGATAAGAGGT
65 TCTGGGACATGACATGGGCACCGAGATAAGAACT
* * * *
27116573 CCCTGTAAGACCATATCTGAGACATGGTGTTAGCACCGAGATGAGAGGTCTTCC-GTAAGATCAT
1 CCATGTAAGACCATATCTGAGACATGGCGTTAGCACCGAGATAAGAGGTC--CCAGTAAGACCAT
*
27116637 GTCT-GGACATGACATGGGCACCGATG-TGAGAACT
64 GTCTGGGACATGACATGGGCACCGA-GATAAGAACT
* *
27116671 CTCATGTAAGACCATATCTGGGATATGGC
1 C-CATGTAAGACCATATCTGAGACATGGC
27116700 ATTGGCAGTA
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
98 22 0.21
99 80 0.77
101 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (98 bp):
CCATGTAAGACCATATCTGAGACATGGCGTTAGCACCGAGATAAGAGGTCCCAGTAAGACCATGT
CTGGGACATGACATGGGCACCGAGATAAGAACT
Found at i:27123335 original size:50 final size:50
Alignment explanation
Indices: 27123132--27123328 Score: 322
Period size: 50 Copynumber: 3.9 Consensus size: 50
27123122 CATTTGGGTA
27123132 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
27123182 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
27123232 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * *
27123282 GAGAGGTCCCCCGTAAGACCATGTCTCGGACATGGCATGGGCACCGA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
27123329 TATGAGAATT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 139 1.00
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:27124974 original size:40 final size:40
Alignment explanation
Indices: 27124891--27125076 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
27124881 TTGAATGATG
* * * *
27124891 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
27124931 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27124971 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27125011 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
27125052 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
27125077 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27142925 original size:68 final size:67
Alignment explanation
Indices: 27142816--27142953 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 67
27142806 ATTTATGTAC
* *
27142816 GATTTTGTAGCTGCCTAATTATGATTTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGATAA
1 GATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGA-AA
27142881 AAT
65 AAT
*
27142884 GATTTTGTAGCTATCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAAAA
1 GATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAAAA
27142949 AT
66 AT
27142951 GAT
1 GAT
27142954 ACATCATATT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
67 8 0.12
68 59 0.88
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (67 bp):
GATTTTGTAGCTACCTAATTATGATCTCGAGAGTTTCCCTTTAGAACTAGCAATATTAGAGAAAA
AT
Found at i:27144610 original size:38 final size:38
Alignment explanation
Indices: 27144530--27144631 Score: 106
Period size: 37 Copynumber: 2.8 Consensus size: 38
27144520 TTTTTATATT
* *
27144530 ATTA-TATATTATG-ATTTTAGTAAATTA-ATATAAGA
1 ATTATTATATTAAGAATTTTATTAAATTATATATAAGA
* * *
27144565 ATAATTATATTAAGAATTTTATTAAATTATATTTAATA
1 ATTATTATATTAAGAATTTTATTAAATTATATATAAGA
*
27144603 ATTATTAT-TTTA-AATTATTATTAAATTAT
1 ATTATTATATTAAGAATT-TTATTAAATTAT
27144632 TTATTATTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 3 0.05
36 12 0.21
37 28 0.50
38 13 0.23
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (38 bp):
ATTATTATATTAAGAATTTTATTAAATTATATATAAGA
Found at i:27144618 original size:13 final size:13
Alignment explanation
Indices: 27144586--27144632 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
27144576 AAGAATTTTA
27144586 TTAAATTA-TATT
1 TTAAATTATTATT
*
27144598 TAATAATTATTATT
1 TTA-AATTATTATT
27144612 TTAAATTATTA--
1 TTAAATTATTATT
27144623 TTAAATTATT
1 TTAAATTATT
27144633 TATTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 10 0.32
12 2 0.06
13 13 0.42
14 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTAAATTATTATT
Found at i:27144619 original size:26 final size:26
Alignment explanation
Indices: 27144567--27144640 Score: 75
Period size: 28 Copynumber: 2.9 Consensus size: 26
27144557 ATATAAGAAT
*
27144567 AATTATA-TTAAGAATT-TTA--TTA
1 AATTATATTTAATAATTATTATTTTA
27144589 AATTATATTTAATAATTATTATTTTA
1 AATTATATTTAATAATTATTATTTTA
* *
27144615 AATTATTATTAAATTATTTATTATTT
1 AATTA-TATTTAA-TAATTATTATTT
27144641 ATATTAATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
22 7 0.16
23 8 0.19
24 3 0.07
26 8 0.19
27 6 0.14
28 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (26 bp):
AATTATATTTAATAATTATTATTTTA
Found at i:27144865 original size:16 final size:16
Alignment explanation
Indices: 27144828--27144866 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
27144818 AATTGAATTG
*
27144828 CTATTATGCCTCTATA
1 CTATTACGCCTCTATA
* *
27144844 CCATTACGCCTCTATT
1 CTATTACGCCTCTATA
27144860 CTATTAC
1 CTATTAC
27144867 AGCGAACCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.05, T:0.41
Consensus pattern (16 bp):
CTATTACGCCTCTATA
Found at i:27167009 original size:23 final size:23
Alignment explanation
Indices: 27166979--27167029 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
27166969 CCACTACCTA
*
27166979 AAGCCTAGGTGCCCCAAATTCTT
1 AAGCCTAGGTGCCCCAAATTATT
*
27167002 AAGCCTAGGTGCCCCAACTTATT
1 AAGCCTAGGTGCCCCAAATTATT
27167025 AAGCC
1 AAGCC
27167030 CATTTCCCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (23 bp):
AAGCCTAGGTGCCCCAAATTATT
Found at i:27177615 original size:14 final size:14
Alignment explanation
Indices: 27177596--27177627 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
27177586 GAGTAGGTAT
27177596 GTACTCTAAGGATC
1 GTACTCTAAGGATC
*
27177610 GTACTCTGAGGATC
1 GTACTCTAAGGATC
27177624 GTAC
1 GTAC
27177628 CCAAGGGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (14 bp):
GTACTCTAAGGATC
Found at i:27183067 original size:25 final size:25
Alignment explanation
Indices: 27183050--27183207 Score: 126
Period size: 25 Copynumber: 6.3 Consensus size: 25
27183040 TGGCGTATCA
** *
27183050 TTTGGAAATACTTTGTGGTGAATTC
1 TTTGGAAAGCCTTTGTGGCGAATTC
**
27183075 TTTGGAAAGCCCTTT-TGGCCTA-TC
1 TTTGGAAAG-CCTTTGTGGCGAATTC
*
27183099 ATTTGGAAAGCCTATGTGGCGAATTC
1 -TTTGGAAAGCCTTTGTGGCGAATTC
* *
27183125 TCTGGAAAGCCTTTGTGGTGAATTC
1 TTTGGAAAGCCTTTGTGGCGAATTC
* * *
27183150 TATGGAAAACTTTTGTGGC--ATATC
1 TTTGGAAAGCCTTTGTGGCGAAT-TC
* *
27183174 ATTTGGAAAGCCTTTGTGGAGAATTA
1 -TTTGGAAAGCCTTTGTGGCGAATTC
*
27183200 TCTGGAAA
1 TTTGGAAA
27183208 TTCTTTATGG
Statistics
Matches: 104, Mismatches: 21, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
23 2 0.02
24 8 0.08
25 85 0.82
26 7 0.07
27 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (25 bp):
TTTGGAAAGCCTTTGTGGCGAATTC
Found at i:27183099 original size:50 final size:50
Alignment explanation
Indices: 27183005--27183135 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
27182995 AATTATTCTA
* * ** * *
27183005 AAAGCCTTTGTGATGAATTCTTTTAAAATCCCTCGTGGCGTATCATTTGG
1 AAAGACTTTGTGGTGAATTCTTTGGAAAGCCCTCGTGGCCTATCATTTGG
* **
27183055 AAATACTTTGTGGTGAATTCTTTGGAAAGCCCTTTTGGCCTATCATTTGG
1 AAAGACTTTGTGGTGAATTCTTTGGAAAGCCCTCGTGGCCTATCATTTGG
* * * *
27183105 AAAGCCTATGTGGCGAATTCTCTGGAAAGCC
1 AAAGACTTTGTGGTGAATTCTTTGGAAAGCC
27183136 TTTGTGGTGA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 67 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (50 bp):
AAAGACTTTGTGGTGAATTCTTTGGAAAGCCCTCGTGGCCTATCATTTGG
Found at i:27183118 original size:75 final size:75
Alignment explanation
Indices: 27183039--27183220 Score: 215
Period size: 75 Copynumber: 2.4 Consensus size: 75
27183029 AAAATCCCTC
* * * * *
27183039 GTGGCGTATCATTTGGAAATACTTTGTGGTGAATTCTTTGGAAAGCCCTTT-TGGCCTATCATTT
1 GTGGCGAATCATCTGGAAATACTTTGTGGTGAATTCTATGGAAA-ACCTTTGTGGCATATCATTT
27183103 GGAAAGCCTAT
65 GGAAAGCCTAT
** *
27183114 GTGGCGAATTC-TCTGGAAAGCCTTTGTGGTGAATTCTATGGAAAACTTTTGTGGCATATCATTT
1 GTGGCGAA-TCATCTGGAAATACTTTGTGGTGAATTCTATGGAAAACCTTTGTGGCATATCATTT
*
27183178 GGAAAGCCTTT
65 GGAAAGCCTAT
* * * *
27183189 GTGGAGAATTATCTGGAAATTCTTTATGGTGA
1 GTGGCGAATCATCTGGAAATACTTTGTGGTGA
27183221 GTTGTTATTT
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
74 5 0.06
75 83 0.92
76 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.37
Consensus pattern (75 bp):
GTGGCGAATCATCTGGAAATACTTTGTGGTGAATTCTATGGAAAACCTTTGTGGCATATCATTTG
GAAAGCCTAT
Found at i:27202384 original size:22 final size:19
Alignment explanation
Indices: 27202345--27202386 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
27202335 TGCAAAGTTG
27202345 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
27202364 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
27202386 A
1 A
27202387 ATGATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 3 0.15
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:27202507 original size:30 final size:30
Alignment explanation
Indices: 27202449--27202507 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
27202439 CTTTTGAAAA
* * *
27202449 TATTTACAAAAAGAGACATCTAATTTTTAG
1 TATTTACAAAAAGAGACACCAAAATTTTAG
27202479 TATTTACAAAAAGAG-CAACCAAAATTTTA
1 TATTTACAAAAAGAGAC-ACCAAAATTTTA
27202508 AAATAGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.32
Consensus pattern (30 bp):
TATTTACAAAAAGAGACACCAAAATTTTAG
Found at i:27210568 original size:11 final size:11
Alignment explanation
Indices: 27210552--27210588 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
27210542 AAGAGAGAAT
*
27210552 GATGCTTGATG
1 GATGCTTGAGG
27210563 GATGCTTGAGG
1 GATGCTTGAGG
*
27210574 GATGATTGAGG
1 GATGCTTGAGG
27210585 GATG
1 GATG
27210589 AGAGGGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.05, G:0.43, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:27217618 original size:25 final size:25
Alignment explanation
Indices: 27217586--27217637 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
27217576 ATGAATGATA
*
27217586 AACGGTAAGTTCCTCCAAGTTGAAT
1 AACGGTAAGTTCCTCCAAGCTGAAT
*
27217611 AACGGTAAGTTTCTCCAAGCTGAAT
1 AACGGTAAGTTCCTCCAAGCTGAAT
27217636 AA
1 AA
27217638 TGATAAGCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (25 bp):
AACGGTAAGTTCCTCCAAGCTGAAT
Found at i:27217644 original size:25 final size:25
Alignment explanation
Indices: 27217586--27217644 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
27217576 ATGAATGATA
* *
27217586 AACGGTAAGTTCCTCCAAGTTGAAT
1 AACGATAAGTTCCTCCAAGCTGAAT
* *
27217611 AACGGTAAGTTTCTCCAAGCTGAAT
1 AACGATAAGTTCCTCCAAGCTGAAT
*
27217636 AATGATAAG
1 AACGATAAG
27217645 CTCATACAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (25 bp):
AACGATAAGTTCCTCCAAGCTGAAT
Found at i:27217654 original size:25 final size:25
Alignment explanation
Indices: 27217626--27217692 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
27217616 TAAGTTTCTC
*
27217626 CAAGCTGAATAATGA-TAAGCTCATA
1 CAAGCTGAAT-ATCAGTAAGCTCATA
* *
27217651 CAAGTTGAGTATCAGTAAGCTCATA
1 CAAGCTGAATATCAGTAAGCTCATA
27217676 -AGAGCTGAA-ATCAGTAA
1 CA-AGCTGAATATCAGTAA
27217693 CCCTAATGAC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 12 0.34
25 23 0.66
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.24
Consensus pattern (25 bp):
CAAGCTGAATATCAGTAAGCTCATA
Found at i:27219556 original size:21 final size:22
Alignment explanation
Indices: 27219515--27219556 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
27219505 GATTTTTATG
*
27219515 ATTTTCTTTCTTTGTTGTTTTA
1 ATTTTCTTTCTTTGTTATTTTA
27219537 ATTTT-TTTCTTT-TTAATTTT
1 ATTTTCTTTCTTTGTT-ATTTT
27219557 TCTTGTTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 11 0.61
22 5 0.28
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.76
Consensus pattern (22 bp):
ATTTTCTTTCTTTGTTATTTTA
Found at i:27222302 original size:50 final size:50
Alignment explanation
Indices: 27222186--27222428 Score: 333
Period size: 50 Copynumber: 4.8 Consensus size: 50
27222176 GATAATAACA
* * ** *
27222186 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTCCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCT-CTCATCTCGG
* ** * *
27222237 TGCCCATGCCATGTCCCAGACATGGTCTTATGGGGGGCCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
27222287 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
*
27222337 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
27222387 TGCCAATGCCATGTCCAAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
27222429 TTACCCAAAA
Statistics
Matches: 171, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
50 139 0.81
51 32 0.19
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:27222365 original size:100 final size:100
Alignment explanation
Indices: 27222186--27222428 Score: 369
Period size: 100 Copynumber: 2.4 Consensus size: 100
27222176 GATAATAACA
* * *
27222186 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTCCTCATGTCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCT-CTCATCTCGGTGCCAATGCCATGT
** *
27222251 CCCAGACATGGTCTTATGGGGGGCCTCTCATCTCAG
65 CCCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
*
27222287 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGGTGCCAATGCCATGTC
* *
27222352 CCAGACATGGTCTTACATGGGACCTCTCATCTCGG
66 CCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
* * *
27222387 TGCCAATGCCATGTCCAAGACATGGTCTTACATGGGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
27222429 TTACCCAAAA
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
100 92 0.71
101 38 0.29
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (100 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCATCTCGGTGCCAATGCCATGTC
CCAGACATGGTCTTACAGGGGACCTCTCATCTCAG
Found at i:27228943 original size:20 final size:20
Alignment explanation
Indices: 27228918--27228958 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27228908 TTAAAAACAC
27228918 TAATTACCAACCTCTTTATT
1 TAATTACCAACCTCTTTATT
*
27228938 TAATTATCAACCTCTTTATT
1 TAATTACCAACCTCTTTATT
27228958 T
1 T
27228959 GCAGATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATTACCAACCTCTTTATT
Found at i:27231530 original size:27 final size:27
Alignment explanation
Indices: 27231492--27231547 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
27231482 TAGCATAACA
27231492 ACTTAATTCATCAACATTAAACCATTC
1 ACTTAATTCATCAACATTAAACCATTC
27231519 ACTTAATTCATCAACATTAAACCATTC
1 ACTTAATTCATCAACATTAAACCATTC
27231546 AC
1 AC
27231548 AAGTGATTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (27 bp):
ACTTAATTCATCAACATTAAACCATTC
Found at i:27231993 original size:39 final size:39
Alignment explanation
Indices: 27231933--27232012 Score: 115
Period size: 39 Copynumber: 2.1 Consensus size: 39
27231923 TGAAACTGCT
* * *
27231933 ATCAGGAGTACCGAAGTACAACAAGGGCACGTAATTGCG
1 ATCACGAGTACCGAAGCACAACAAGGGCACGTAAGTGCG
* *
27231972 ATCACGAGTATCGAAGCACAACAGGGGCACGTAAGTGCG
1 ATCACGAGTACCGAAGCACAACAAGGGCACGTAAGTGCG
27232011 AT
1 AT
27232013 TAGGGGAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.21, G:0.29, T:0.15
Consensus pattern (39 bp):
ATCACGAGTACCGAAGCACAACAAGGGCACGTAAGTGCG
Found at i:27232032 original size:39 final size:39
Alignment explanation
Indices: 27231944--27232057 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 39
27231934 TCAGGAGTAC
* * * * * *
27231944 CGAAGTACAACAAGGGCACGTAATTGCGATCACGAGTAT
1 CGAAGTACAACAGGGGCACGTAAGTGCGATTAGGGGAAT
*
27231983 CGAAGCACAACAGGGGCACGTAAGTGCGATTAGGGGAA-
1 CGAAGTACAACAGGGGCACGTAAGTGCGATTAGGGGAAT
* * *
27232021 CTGAAGTACAACAGGGGCATGTATGTGTGATTAGGGG
1 C-GAAGTACAACAGGGGCACGTAAGTGCGATTAGGGG
27232058 TACCAAAGTA
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 1 0.02
39 62 0.98
ACGTcount: A:0.32, C:0.17, G:0.33, T:0.18
Consensus pattern (39 bp):
CGAAGTACAACAGGGGCACGTAAGTGCGATTAGGGGAAT
Found at i:27232067 original size:39 final size:39
Alignment explanation
Indices: 27231946--27232070 Score: 115
Period size: 39 Copynumber: 3.2 Consensus size: 39
27231936 AGGAGTACCG
* * * * * * * *
27231946 AAGTACAACAAGGGCACGTAATTGCGATCACGAGTATCG
1 AAGTACAACAGGGGCACGTAAGTGCGATTAGGGGAACCA
* **
27231985 AAGCACAACAGGGGCACGTAAGTGCGATTAGGGGAACTG
1 AAGTACAACAGGGGCACGTAAGTGCGATTAGGGGAACCA
* * * *
27232024 AAGTACAACAGGGGCATGTATGTGTGATTAGGGGTACCA
1 AAGTACAACAGGGGCACGTAAGTGCGATTAGGGGAACCA
27232063 AAGTACAA
1 AAGTACAA
27232071 TAGTTGTCTA
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 70 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.18
Consensus pattern (39 bp):
AAGTACAACAGGGGCACGTAAGTGCGATTAGGGGAACCA
Found at i:27236384 original size:37 final size:37
Alignment explanation
Indices: 27236314--27236405 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
27236304 ATATGTGTGG
* *
27236314 AATTGAAATGAATAT-TGACTTGAAAATGGAAAAGTGA
1 AATTGAATTGAAT-TGTGACTTGAAAATGAAAAAGTGA
*
27236351 AATTTGAATTGAATTGTGA-TTGAAAGTGAAAAAGTGA
1 AA-TTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
* *
27236388 AATTAAATTGAAATGTGA
1 AATTGAATTGAATTGTGA
27236406 ATTTGGAGAC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
36 14 0.29
37 21 0.44
38 13 0.27
ACGTcount: A:0.47, C:0.01, G:0.22, T:0.30
Consensus pattern (37 bp):
AATTGAATTGAATTGTGACTTGAAAATGAAAAAGTGA
Found at i:27258997 original size:10 final size:10
Alignment explanation
Indices: 27258978--27259011 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
27258968 ATCTGCTCTT
*
27258978 GAAAAGAAAA
1 GAAAAAAAAA
27258988 GAAAAAAAAA
1 GAAAAAAAAA
*
27258998 GAAAAAAAGA
1 GAAAAAAAAA
27259008 GAAA
1 GAAA
27259012 TAAGAGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:27262870 original size:27 final size:27
Alignment explanation
Indices: 27262840--27262958 Score: 159
Period size: 27 Copynumber: 4.4 Consensus size: 27
27262830 CCAAAAATAA
* * *
27262840 GGTAAGATGACTAAAATACCCTCGAAG
1 GGTAAAATGACCAAAATACCCTCAAAG
27262867 GGTAAAATGACCAAAATACCC-CTAAAG
1 GGTAAAATGACCAAAATACCCTC-AAAG
* *
27262894 GGTAAAATGATCGAAATACCCTCAAAG
1 GGTAAAATGACCAAAATACCCTCAAAG
* *
27262921 GGTAAAATGACCGAAATACCCCCAAAG
1 GGTAAAATGACCAAAATACCCTCAAAG
27262948 GGTAAAATGAC
1 GGTAAAATGAC
27262959 ATTAACACCT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 81 0.98
28 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.19, T:0.16
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCTCAAAG
Found at i:27262922 original size:54 final size:54
Alignment explanation
Indices: 27262853--27262957 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
27262843 AAGATGACTA
* *
27262853 AAATACCCTCGAAGGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGATCG
1 AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGATCG
*
27262907 AAATACCCTCAAAGGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGA
1 AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGA
27262958 CATTAACACC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.46, C:0.21, G:0.18, T:0.15
Consensus pattern (54 bp):
AAATACCCTCAAAGGGTAAAATGACCAAAATACCCCCAAAGGGTAAAATGATCG
Found at i:27262979 original size:54 final size:54
Alignment explanation
Indices: 27262857--27262995 Score: 153
Period size: 54 Copynumber: 2.6 Consensus size: 54
27262847 TGACTAAAAT
* * * *
27262857 ACCCTCGAAGGGTAAAATGACCAAAATACCCCTAAAGGGTAAAATGATCGAAAT
1 ACCCTCGAAAGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCGAAAC
27262911 ACCCTC-AAAGGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGA-C-ATTAAC
1 ACCCTCGAAA-GGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCGA--AAC
* *
27262965 A-CCTCCGAAAGGT-AAATCACAGAAATACCCC
1 ACCCT-CGAAAGGTAAAATGACCGAAATACCCC
27262996 TGTAAGGTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
52 1 0.01
53 22 0.30
54 48 0.65
55 3 0.04
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (54 bp):
ACCCTCGAAAGGTAAAATGACCGAAATACCCCCAAAGGGTAAAATGATCGAAAC
Found at i:27263031 original size:27 final size:27
Alignment explanation
Indices: 27263001--27263060 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
27262991 ACCCCTGTAA
**
27263001 GGTAAAACGACTTTAATGCCCCTAGAG
1 GGTAAAACGACCGTAATGCCCCTAGAG
* *
27263028 GGTAAAATGACCGTAATGCCCCTGGAG
1 GGTAAAACGACCGTAATGCCCCTAGAG
27263055 GGTAAA
1 GGTAAA
27263061 TGACTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.20
Consensus pattern (27 bp):
GGTAAAACGACCGTAATGCCCCTAGAG
Found at i:27263073 original size:26 final size:26
Alignment explanation
Indices: 27263014--27263089 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
27263004 AAAACGACTT
*
27263014 TAATGCCCCTAGAGGGTAAAATGACCG
1 TAATGCCCCTAGAGGGT-AAATGACCA
* *
27263041 TAATGCCCCTGGAGGGTAAATGACTA
1 TAATGCCCCTAGAGGGTAAATGACCA
** * *
27263067 TTTTGCCCCTCGAGGTTAAATGA
1 TAATGCCCCTAGAGGGTAAATGA
27263090 TTGATTTGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
26 26 0.62
27 16 0.38
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (26 bp):
TAATGCCCCTAGAGGGTAAATGACCA
Found at i:27263161 original size:24 final size:24
Alignment explanation
Indices: 27263082--27263167 Score: 77
Period size: 24 Copynumber: 3.6 Consensus size: 24
27263072 CCCCTCGAGG
* **
27263082 TTAAATGATTGATTTGTCCATG-A
1 TTAAATGACTGATTTGTCTGTGAA
* *
27263105 TGAAAATGACTGATTTGTCTGTGAT
1 T-TAAATGACTGATTTGTCTGTGAA
27263130 TTAAATGACT-ATTTTGTCTGTGAA
1 TTAAATGACTGA-TTTGTCTGTGAA
**
27263154 TTGTATGACTGATT
1 TTAAATGACTGATT
27263168 CTGAGCATGG
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
23 2 0.04
24 46 0.92
25 2 0.04
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (24 bp):
TTAAATGACTGATTTGTCTGTGAA
Found at i:27263388 original size:32 final size:33
Alignment explanation
Indices: 27263343--27263496 Score: 131
Period size: 32 Copynumber: 4.8 Consensus size: 33
27263333 GCGATGATGT
27263343 TGATGGCTTTGTGCTGATCATATTACCGTC-AC
1 TGATGGCTTTGTGCTGATCATATTACCGTCTAC
* * * * *
27263375 TGATGGCTGTGTGCCGATCATATCACTG-CTAT
1 TGATGGCTTTGTGCTGATCATATTACCGTCTAC
*
27263407 TGATGGCTTTCTGCCT-ATCATATTACCGT-TAC
1 TGATGGCTTTGTG-CTGATCATATTACCGTCTAC
* * * * *
27263439 TGATAGATGTGTGCTGGTCATATCA-C-TACTAC
1 TGATGGCTTTGTGCTGATCATATTACCGT-CTAC
**
27263471 TGATGGCTTTGTGCCAATCATATTAC
1 TGATGGCTTTGTGCTGATCATATTAC
27263497 TATATTTATG
Statistics
Matches: 91, Mismatches: 24, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
30 1 0.01
31 4 0.04
32 85 0.93
33 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (33 bp):
TGATGGCTTTGTGCTGATCATATTACCGTCTAC
Found at i:27263450 original size:64 final size:64
Alignment explanation
Indices: 27263342--27263496 Score: 213
Period size: 64 Copynumber: 2.4 Consensus size: 64
27263332 TGCGATGATG
* * *
27263342 TTGATGGCTTTGTG-CTGATCATATTACCGTCACTGATGGCTGTGTGCCGATCATATCACTGCTA
1 TTGATGGCTTTGTGCCT-ATCATATTACCGTCACTGATAGATGTGTGCCGATCATATCACTACTA
* * * *
27263406 TTGATGGCTTTCTGCCTATCATATTACCGTTACTGATAGATGTGTGCTGGTCATATCACTACTA
1 TTGATGGCTTTGTGCCTATCATATTACCGTCACTGATAGATGTGTGCCGATCATATCACTACTA
* *
27263470 CTGATGGCTTTGTGCCAATCATATTAC
1 TTGATGGCTTTGTGCCTATCATATTAC
27263497 TATATTTATG
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
64 78 0.98
65 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (64 bp):
TTGATGGCTTTGTGCCTATCATATTACCGTCACTGATAGATGTGTGCCGATCATATCACTACTA
Found at i:27263769 original size:28 final size:28
Alignment explanation
Indices: 27263729--27263782 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
27263719 GTACTGATAT
* *
27263729 TGTATTGGGCTAAGGCCCACATTGTTAC
1 TGTATAGGGCTAAGGCCCACACTGTTAC
27263757 TGTATAGGGCTAAGGCCCACACTGTT
1 TGTATAGGGCTAAGGCCCACACTGTT
27263783 TCTGCATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (28 bp):
TGTATAGGGCTAAGGCCCACACTGTTAC
Found at i:27286049 original size:16 final size:16
Alignment explanation
Indices: 27286024--27286054 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27286014 TAGAAAATGC
27286024 TTCTTCTTTTTTTCTT
1 TTCTTCTTTTTTTCTT
*
27286040 TTCTTTTTTTTTTCT
1 TTCTTCTTTTTTTCT
27286055 AAAGTAGGAG
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:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTCTTCTTTTTTTCTT
Found at i:27288626 original size:30 final size:30
Alignment explanation
Indices: 27288590--27288680 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
27288580 GCTCGAACGG
* *
27288590 GTAACCTTGATATAATTTCATCTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
*
27288620 GTAACCTTGATATAATGTCAGCTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
* * *
27288650 GCAACCCTAATATAATGTCAACTTGTGTGA
1 GTAACCTTGATATAATGTCAACTTGTGTGA
27288680 G
1 G
27288681 CAACTTAGTC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (30 bp):
GTAACCTTGATATAATGTCAACTTGTGTGA
Found at i:27288813 original size:7 final size:7
Alignment explanation
Indices: 27288801--27288825 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27288791 GCTTATTACT
27288801 TGATATG
1 TGATATG
27288808 TGATATG
1 TGATATG
27288815 TGATATG
1 TGATATG
27288822 TGAT
1 TGAT
27288826 TACATTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (7 bp):
TGATATG
Found at i:27291612 original size:22 final size:22
Alignment explanation
Indices: 27291558--27291612 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
27291548 AATTTAAAAC
* * *
27291558 AATATCTTATATATGAAATAAT
1 AATATATTATAAATAAAATAAT
* *
27291580 AATGTACTATAAATAAAATAAT
1 AATATATTATAAATAAAATAAT
*
27291602 AATATTTTATA
1 AATATATTATA
27291613 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (22 bp):
AATATATTATAAATAAAATAAT
Found at i:27296837 original size:14 final size:15
Alignment explanation
Indices: 27296820--27296853 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
27296810 AAATATTATT
27296820 AAATTTTAAT-TAAA
1 AAATTTTAATATAAA
*
27296834 AAATTTTAATATTAA
1 AAATTTTAATATAAA
27296849 AAATT
1 AAATT
27296854 AGAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AAATTTTAATATAAA
Found at i:27296871 original size:10 final size:10
Alignment explanation
Indices: 27296858--27296915 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
27296848 AAAATTAGAA
27296858 AAAAATATAT
1 AAAAATATAT
*
27296868 AAAAAT-TTT
1 AAAAATATAT
* *
27296877 AAAATTTTAT
1 AAAAATATAT
27296887 AAAAATCATA-
1 AAAAAT-ATAT
27296897 AAAAAT-TAT
1 AAAAATATAT
27296906 AAAACATATA
1 AAAA-ATATA
27296916 GAATTATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
8 2 0.05
9 11 0.29
10 21 0.55
11 4 0.11
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAATATAT
Found at i:27296880 original size:29 final size:29
Alignment explanation
Indices: 27296844--27296909 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
27296834 AAATTTTAAT
27296844 ATTA-AAAATTAGAAAAAAAT-ATATAAAA
1 ATTATAAAATTAGAAAAAAATCATA-AAAA
* ** *
27296872 ATTTTAAAATTTTATAAAAATCATAAAAA
1 ATTATAAAATTAGAAAAAAATCATAAAAA
27296901 ATTATAAAA
1 ATTATAAAA
27296910 CATATAGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 3 0.10
29 25 0.81
30 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
ATTATAAAATTAGAAAAAAATCATAAAAA
Found at i:27296898 original size:19 final size:19
Alignment explanation
Indices: 27296857--27296926 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
27296847 AAAAATTAGA
**
27296857 AAAAAATATATAAAAATTTT
1 AAAAAAT-TATAAAAATCAT
**
27296877 AAAATTTTATAAAAATCAT
1 AAAAAATTATAAAAATCAT
27296896 AAAAAATTAT-AAAA-CAT
1 AAAAAATTATAAAAATCAT
* *
27296913 ATAGAATTATAAAA
1 AAAAAATTATAAAA
27296927 TTTTATAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 11 0.27
18 7 0.17
19 18 0.44
20 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (19 bp):
AAAAAATTATAAAAATCAT
Found at i:27297474 original size:100 final size:98
Alignment explanation
Indices: 27297289--27297486 Score: 231
Period size: 100 Copynumber: 2.0 Consensus size: 98
27297279 GATTAATTGC
* * *
27297289 TTTTTTGAAAGATTTTGAGGGTCTTTTTGATACATTTTGAAAGTTAAAGTACCCAATTGAGTGAA
1 TTTTTTGAAAGAGTTTAAGGGCCTTTTTGATACATTTTGAAAGTTAAAGTACCCAATTGAGTGAA
*
27297354 AAAAATAAAGTAGAGGCTTAATTATTTTGTTTTT
66 AAAAATAAAGGAGAGGCTTAATTATTTT-TTTTT
* * * *
27297388 TTTTTTGGAAGAAGTTTAAGGGCCTTTTTGATGCATTTTGAACA-TTCAAGTGCCCAATTGAGTG
1 TTTTTTGAAAG-AGTTTAAGGGCCTTTTTGATACATTTTGAA-AGTTAAAGTACCCAATTGAGTG
* * *
27297452 CAAGAAAA-AGAGGA-AGGACTTAATTGTTTTTTTTT
64 -AAAAAAATAAAGGAGAGG-CTTAATTATTTTTTTTT
27297487 GAAAAAGTTT
Statistics
Matches: 84, Mismatches: 11, Indels: 8
0.82 0.11 0.08
Matches are distributed among these distances:
99 18 0.21
100 59 0.70
101 7 0.08
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (98 bp):
TTTTTTGAAAGAGTTTAAGGGCCTTTTTGATACATTTTGAAAGTTAAAGTACCCAATTGAGTGAA
AAAAATAAAGGAGAGGCTTAATTATTTTTTTTT
Found at i:27301097 original size:21 final size:21
Alignment explanation
Indices: 27301071--27301111 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27301061 ATCTGCTCAA
* *
27301071 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
27301092 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
27301112 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:27311743 original size:74 final size:74
Alignment explanation
Indices: 27311622--27311775 Score: 281
Period size: 74 Copynumber: 2.1 Consensus size: 74
27311612 AATCAGATAA
* *
27311622 TGAAAGATGAACTTGATATGTTATGTCGTAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
1 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
27311687 ATAGCTTAG
66 ATAGCTTAG
27311696 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
1 TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
*
27311761 GTAGCTTAG
66 ATAGCTTAG
27311770 TGAAAG
1 TGAAAG
27311776 GAAATTAAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (74 bp):
TGAAAGATGAACTTGATATGCTATGTCATAAAAGGTTGTAGTTGTAATCGTTATGGTTTAGCTGA
ATAGCTTAG
Found at i:27314004 original size:45 final size:45
Alignment explanation
Indices: 27313955--27314056 Score: 123
Period size: 45 Copynumber: 2.3 Consensus size: 45
27313945 TAGTCAGACC
* * * *
27313955 ATAGCTAAAAGATGTTATGGCACCATGTTAAAAATGATTAAAACA
1 ATAGCTGAAAGATATTATGGCACCATGATAAAAATGAGTAAAACA
* * * * *
27314000 ATAGCTGAAATATATTATGGCATCATGATAGAAATGAGTAAGACC
1 ATAGCTGAAAGATATTATGGCACCATGATAAAAATGAGTAAAACA
27314045 ATAGCTGAAAGA
1 ATAGCTGAAAGA
27314057 CACTGTGGCA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.25
Consensus pattern (45 bp):
ATAGCTGAAAGATATTATGGCACCATGATAAAAATGAGTAAAACA
Found at i:27314066 original size:45 final size:45
Alignment explanation
Indices: 27313970--27314070 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 45
27313960 TAAAAGATGT
* * * * * *
27313970 TATGGCACCATGTTAAAAATGATTAAAACAATAGCTGAAATATAT
1 TATGGCATCATGATAAAAATGAGTAAAACAATAGCTGAAAGACAC
* * *
27314015 TATGGCATCATGATAGAAATGAGTAAGACCATAGCTGAAAGACAC
1 TATGGCATCATGATAAAAATGAGTAAAACAATAGCTGAAAGACAC
*
27314060 TGTGGCATCAT
1 TATGGCATCAT
27314071 ATGAAAGCAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.26
Consensus pattern (45 bp):
TATGGCATCATGATAAAAATGAGTAAAACAATAGCTGAAAGACAC
Found at i:27315389 original size:17 final size:17
Alignment explanation
Indices: 27315367--27315401 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
27315357 CCCTATATAC
27315367 GTGTTATAGTAAGTTTG
1 GTGTTATAGTAAGTTTG
27315384 GTGTTATAGTAAGTTTG
1 GTGTTATAGTAAGTTTG
27315401 G
1 G
27315402 CATAGTCCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (17 bp):
GTGTTATAGTAAGTTTG
Found at i:27321811 original size:15 final size:17
Alignment explanation
Indices: 27321786--27321817 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27321776 TTGAATGGCA
27321786 TGATAGAATTG-TATGT
1 TGATAGAATTGTTATGT
27321802 TGAT-GAATTGTTATGT
1 TGATAGAATTGTTATGT
27321818 GGTGTACTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (17 bp):
TGATAGAATTGTTATGT
Found at i:27324038 original size:26 final size:25
Alignment explanation
Indices: 27323979--27324038 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
27323969 ATTAAGAAAT
*
27323979 TAAATTATTTAATTAAATTAAATTA
1 TAAAATATTTAATTAAATTAAATTA
*
27324004 -AACAATATTTATTTAAGATTAAATTA
1 TAA-AATATTTAATTAA-ATTAAATTA
*
27324030 TAAAGTATT
1 TAAAATATT
27324039 GGGTCAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 2 0.07
25 11 0.38
26 14 0.48
27 2 0.07
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (25 bp):
TAAAATATTTAATTAAATTAAATTA
Found at i:27327303 original size:23 final size:23
Alignment explanation
Indices: 27327271--27327367 Score: 97
Period size: 23 Copynumber: 4.3 Consensus size: 23
27327261 TCACACAAGG
* *
27327271 TTCGCTTAATAGTTCATACAGGA
1 TTCGCATAATAGTTCATATAGGA
* *
27327294 TTCGCATAATAGTTCACATAGGG
1 TTCGCATAATAGTTCATATAGGA
** *
27327317 TTTACATAATAGTTCATATATG-
1 TTCGCATAATAGTTCATATAGGA
* * *
27327339 TTCACATACTAATTCATATAGGA
1 TTCGCATAATAGTTCATATAGGA
27327362 TTCGCA
1 TTCGCA
27327368 CATTAAATCA
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
22 18 0.30
23 42 0.70
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.36
Consensus pattern (23 bp):
TTCGCATAATAGTTCATATAGGA
Found at i:27327411 original size:36 final size:35
Alignment explanation
Indices: 27327340--27327440 Score: 107
Period size: 36 Copynumber: 2.8 Consensus size: 35
27327330 TCATATATGT
* *
27327340 TCACATACT-AATTCAT-ATAGGATTCGCACATTAAA
1 TCACATACTAAATTCATGA-AGG-TTCGCATACTAAA
27327375 TCACATACTAAATTTCATGAAGGTTCGCATACTAAA
1 TCACATACTAAA-TTCATGAAGGTTCGCATACTAAA
* * *
27327411 TCTCATACTAAAGTACATGAGGGTTCGCAT
1 TCACATACTAAA-TTCATGAAGGTTCGCAT
27327441 GCTCATATAC
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
35 9 0.16
36 39 0.68
37 8 0.14
38 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (35 bp):
TCACATACTAAATTCATGAAGGTTCGCATACTAAA
Found at i:27327460 original size:32 final size:35
Alignment explanation
Indices: 27327378--27327473 Score: 108
Period size: 36 Copynumber: 2.8 Consensus size: 35
27327368 CATTAAATCA
* *
27327378 CATACTAAATTTCATGAAGGTTCGCATACTAAATCT
1 CATACTAAATTACATGAGGGTTCGCATACTAAA-CT
* * *
27327414 CATACTAAAGTACATGAGGGTTCGCATGCT-CA-T
1 CATACTAAATTACATGAGGGTTCGCATACTAAACT
*
27327447 -ATACTAAATTACATGAGGGTTCACATA
1 CATACTAAATTACATGAGGGTTCGCATA
27327474 AAGTTCTCAT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
32 24 0.46
33 1 0.02
35 1 0.02
36 26 0.50
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (35 bp):
CATACTAAATTACATGAGGGTTCGCATACTAAACT
Found at i:27327684 original size:24 final size:24
Alignment explanation
Indices: 27327588--27327684 Score: 74
Period size: 24 Copynumber: 4.0 Consensus size: 24
27327578 ATTTATTAAG
* *
27327588 GGGTTCGCACAACAATTCACATAA
1 GGGTTCGCATAACAATACACATAA
27327612 GGGTTCGCAGT-ACAATTAC-CATAA
1 GGGTTCGCA-TAACAA-TACACATAA
* * * * *
27327636 GAGTTCGCATAATAGCT-CCCGTAA
1 GGGTTCGCATAACA-ATACACATAA
*
27327660 GGGTTCGCATAACAATACATATAA
1 GGGTTCGCATAACAATACACATAA
27327684 G
1 G
27327685 AGTTTTAATG
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
23 3 0.05
24 50 0.91
25 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.24
Consensus pattern (24 bp):
GGGTTCGCATAACAATACACATAA
Found at i:27330994 original size:38 final size:37
Alignment explanation
Indices: 27330947--27331042 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 37
27330937 AAATTAAAAC
27330947 AAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTAAAAAA-TATTTTAAAAATATTTTAAAATTA
*
27330985 AAAAATTAAAAAATATATTTAAAAGTATTTTAAAATTAA
1 AAAAATTAAAAAATAT-TTTAAAAATATTTTAAAATT-A
*
27331024 AAAAATAATAAAAATATTT
1 AAAAATTA-AAAAATATTT
27331043 ATTATTCGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
37 3 0.06
38 32 0.60
39 10 0.19
40 8 0.15
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (37 bp):
AAAAATTAAAAAATATTTTAAAAATATTTTAAAATTA
Found at i:27331043 original size:38 final size:38
Alignment explanation
Indices: 27330929--27331043 Score: 135
Period size: 38 Copynumber: 2.9 Consensus size: 38
27330919 ACCAAAAATT
27330929 TATTTTAAAAATTAAAACAAA-AATTAAAAAAGTATTTTAAAAA
1 TATTTT-AAAATTAAAA-AAATAA-T-AAAAA-TA-TTTAAAAA
* *
27330972 TATTTTAAAATTAAAAAATTAA-AAAATATATTTAAAAG
1 TATTTTAAAATTAAAAAAATAATAAAA-ATATTTAAAAA
27331010 TATTTTAAAATTAAAAAAATAATAAAAATATTTA
1 TATTTTAAAATTAAAAAAATAATAAAAATATTTA
27331044 TTATTCGGGC
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
38 35 0.53
39 10 0.15
40 1 0.02
41 2 0.03
42 12 0.18
43 6 0.09
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.36
Consensus pattern (38 bp):
TATTTTAAAATTAAAAAAATAATAAAAATATTTAAAAA
Found at i:27331972 original size:21 final size:21
Alignment explanation
Indices: 27331948--27331987 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
27331938 TTTTATCAAG
*
27331948 TAATAAATATTTTTTTTAAAA
1 TAATAAATATTATTTTTAAAA
27331969 TAATAAATATTATTTTTAA
1 TAATAAATATTATTTTTAA
27331988 TGTATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATAAATATTATTTTTAAAA
Found at i:27332104 original size:32 final size:31
Alignment explanation
Indices: 27332046--27332105 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
27332036 TATATCATAA
*
27332046 TTTTTACTATATTAATAATTATTATATAAAT
1 TTTTTACTATATTAATAAATATTATATAAAT
*
27332077 TTTTTACTGATATT-ATAAATGTGTATATA
1 TTTTTACT-ATATTAATAAATAT-TATATA
27332106 TGTAGATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (31 bp):
TTTTTACTATATTAATAAATATTATATAAAT
Found at i:27336164 original size:4 final size:4
Alignment explanation
Indices: 27336155--27336179 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27336145 ACTGTCACAA
27336155 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
27336180 TTATGCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:27342061 original size:16 final size:16
Alignment explanation
Indices: 27342040--27342078 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
27342030 ATGCACTGGA
27342040 AATTTTAAG-AGTAGAG
1 AATTTTAAGTA-TAGAG
27342056 AATTTTAAGTTATAGAG
1 AATTTTAAG-TATAGAG
27342073 AATTTT
1 AATTTT
27342079 GGTTACGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 9 0.43
17 11 0.52
18 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (16 bp):
AATTTTAAGTATAGAG
Found at i:27343030 original size:21 final size:20
Alignment explanation
Indices: 27343005--27343052 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 20
27342995 AGACAAAAAT
*
27343005 AACTAAGATAAAAATATAACA
1 AACTAAGATAAAAAGA-AACA
27343026 AACT-AG--AAAAAGAAACA
1 AACTAAGATAAAAAGAAACA
27343043 AACTAA-ATAA
1 AACTAAGATAA
27343053 TAAAAAGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
17 8 0.35
18 7 0.30
19 2 0.09
20 2 0.09
21 4 0.17
ACGTcount: A:0.69, C:0.10, G:0.06, T:0.15
Consensus pattern (20 bp):
AACTAAGATAAAAAGAAACA
Found at i:27350411 original size:17 final size:17
Alignment explanation
Indices: 27350380--27350412 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27350370 ATATCTTTAA
27350380 TTTTTAAAAGTGGATTG
1 TTTTTAAAAGTGGATTG
27350397 TTTTTCAAAAG-GGATT
1 TTTTT-AAAAGTGGATT
27350413 AAATTAGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.45
Consensus pattern (17 bp):
TTTTTAAAAGTGGATTG
Found at i:27353192 original size:26 final size:26
Alignment explanation
Indices: 27353139--27353197 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
27353129 TATTTTCTTG
* *
27353139 AAATTTTAACATGGGCAAAATCATCA
1 AAATTTTAACAAGGGCAAAATCACCA
*
27353165 AAATTTTAACAAGGGTAAAAT-AGCCA
1 AAATTTTAACAAGGGCAAAATCA-CCA
27353191 AAATTTT
1 AAATTTT
27353198 GCTACAGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 1 0.03
26 28 0.97
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (26 bp):
AAATTTTAACAAGGGCAAAATCACCA
Found at i:27364784 original size:16 final size:17
Alignment explanation
Indices: 27364752--27364785 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27364742 TCAGAAGCTC
27364752 GAAACAGAAAAATTAAG
1 GAAACAGAAAAATTAAG
*
27364769 GAAAGAGAAAAA-TAAG
1 GAAACAGAAAAATTAAG
27364785 G
1 G
27364786 CTGAGGAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.65, C:0.03, G:0.24, T:0.09
Consensus pattern (17 bp):
GAAACAGAAAAATTAAG
Found at i:27373953 original size:44 final size:43
Alignment explanation
Indices: 27373889--27374000 Score: 136
Period size: 44 Copynumber: 2.6 Consensus size: 43
27373879 GAAGATGGCG
27373889 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAG-ATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-AGAATTAAAG-CAAT
* * * **
27373933 AATCCTATCTCCCTGAAGTTGCGGTGGAGCGAATTAAAGTGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGAGAATTAAAGCAAT
*
27373976 AGATCTTATCTCTCTGAAGTTGCAG
1 A-ATCTTATCTCCCTGAAGTTGCAG
27374001 AGAACAGATC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 4 0.07
44 54 0.93
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGAGAATTAAAGCAAT
Found at i:27374127 original size:45 final size:45
Alignment explanation
Indices: 27373807--27374441 Score: 369
Period size: 45 Copynumber: 14.5 Consensus size: 45
27373797 CAAATCCTGA
* ** * *
27373807 CTCCCTGAAGTTACAGTGGAGTGGA-TTAGAGTAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCA-AGAAAGCAAGTCTTAT
* **
27373852 C-CTCCTGAAGTTGCAGTGG-GACAGACTGAAGATGGCGAA-TCTTAT
1 CTC-CCTGAAGTTGCAGTGGAG-CAGACTCAAGAAAGC-AAGTCTTAT
* * * * * *
27373897 CTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAA-TAA-TCCTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAAGCAAGTCTTAT
* * * **
27373941 CTCCCTGAAGTTGCGGTGGAGC-GAATTAA-AGTG-ATAGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* * * * * * *
27373985 CTCTCTGAAGTTGCAG-AGAACAGA-TC--G-CATCTATTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * *
27374025 CTCCCTGAAGTTGCAGTGAAGCAGACT-GAGTAAGC-AGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAG-TCTTAT
*
27374069 C-CCCTGAGGTTGCAGTAGG-GCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGT-GGAGCAGACTCAAGAAAGCAAGTCTTAT
*
27374113 CTCCCTGAGGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* *
27374158 TTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * * * * *
27374203 C-CCCTTGAAATTGTAATTGG-GCAGACTGAATAAA-CAAATCCTAT
1 CTCCC-TGAAGTTG-CAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * ** * * *
27374247 CTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAATG-ATGGATCTTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCA-AG-TCTTAT
* ** * * * *
27374291 CTCTCTGAAGTTGCAGTAAAGCAGA-TC---ATATCAAATCGTAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
*
27374332 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTAAT
1 CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
* * * * * *
27374377 C-CCCTTGAAATTGCAATGGGGCAGACTGAATAAA--AATATCTTAT
1 CTCCC-TGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAA-GTCTTAT
27374421 CTCCCTGAAGTTGCAGTGGAG
1 CTCCCTGAAGTTGCAGTGGAG
27374442 TAGATTGAGA
Statistics
Matches: 452, Mismatches: 97, Indels: 83
0.72 0.15 0.13
Matches are distributed among these distances:
40 21 0.05
41 34 0.08
42 9 0.02
43 40 0.09
44 143 0.32
45 195 0.43
46 10 0.02
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
CTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTTAT
Found at i:27374265 original size:134 final size:133
Alignment explanation
Indices: 27374019--27374438 Score: 335
Period size: 133 Copynumber: 3.2 Consensus size: 133
27374009 TCGCATCTAT
* * * ** *
27374019 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTGAGTAAGCAGATCTTATCCCCTGAGGTTGCAG
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGAAAGCAAATCTTATCCCCTGAAATTGCAA
* * * *
27374084 TAGGGCAGACTCAAGAAAGCAAGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTCAAGAAAGC
66 TAGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGC
27374149 AAG
131 AAG
* * *
27374152 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTTATCCCCTTGAAATTGT
1 TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACT-AAGAAAGCAAATCTTATCCCC-TGAAATTGC
* * * * ** * *
27374217 AATTGGGCAGACTGAATAAA-CAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGA-T-TAGAAT
64 AATAGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAA
*
27374279 G-ATGG
129 GCA-AG
* * * * * * *
27374284 ATCTTATCTCTCTGAAGTTGCAGTAAAGCAGA-T--CATATCAAATCGTATCTCCCTGAAGTTGC
1 -TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGAAAGCAAATCTTATC-CCCTGAAATTGC
* * * * *
27374346 AGT-GGAGCAGACTCAAGAAAGCAAGT-CTAATC-CCCTTGAAA-TTGCAATGGGGCAGACTGAA
64 AATAGG-GCAGACTCAAGAAAGCAAATCCT-ATCTCCC-T-AAAGTTGCAGTGGAGCAGACTCAA
* *
27374407 TAAA--AATA
125 GAAAGCAA-G
27374415 TCTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
27374439 GAGTAGATTG
Statistics
Matches: 226, Mismatches: 48, Indels: 29
0.75 0.16 0.10
Matches are distributed among these distances:
128 2 0.01
129 38 0.17
130 43 0.19
131 6 0.03
132 10 0.04
133 59 0.26
134 46 0.20
135 22 0.10
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (133 bp):
TCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAGAAAGCAAATCTTATCCCCTGAAATTGCAA
TAGGGCAGACTCAAGAAAGCAAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGC
AAG
Found at i:27374476 original size:174 final size:174
Alignment explanation
Indices: 27374159--27374476 Score: 462
Period size: 174 Copynumber: 1.8 Consensus size: 174
27374149 AAGTCTTATT
* * *
27374159 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTTATCCCCTTGAAATTGTAATTGGG
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTAATCCCCTTGAAATTGCAATGGGG
* * * *** **
27374224 CAGACTGAATAAACAAATCCTATCTCCCTAAAGTTGTAGTGGAGTGGATTAGAATGATGGATCTT
66 CAGACTGAATAAACAAATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAGAATAACCAATCCA
27374289 ATCTCTCTGAAGTTGCAGTAAAGCAGATCATATCAAATCGTATC
131 ATCTCTCTGAAGTTGCAGTAAAGCAGATCATATCAAATCGTATC
*
27374333 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAGTCTAATCCCCTTGAAATTGCAATGGGG
1 TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTAATCCCCTTGAAATTGCAATGGGG
* *
27374398 CAGACTGAATAAA-AATATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAGAA-AACCAATC
66 CAGACTGAATAAACAA-ATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATT-AGAATAACCAATC
27374461 CAATCTC-CTTGAAGTT
129 CAATCTCTC-TGAAGTT
27374477 ACAATGGAGT
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
173 3 0.02
174 120 0.94
175 4 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (174 bp):
TCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAGCAAATCTAATCCCCTTGAAATTGCAATGGGG
CAGACTGAATAAACAAATCCTATCTCCCTAAAGTTGCAGTGGAGTAGATTAGAATAACCAATCCA
ATCTCTCTGAAGTTGCAGTAAAGCAGATCATATCAAATCGTATC
Found at i:27375998 original size:22 final size:23
Alignment explanation
Indices: 27375965--27376007 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
27375955 TATGTAATCA
27375965 TTATTTTCATAA-TATATATATAT
1 TTATTTTCATAACT-TATATATAT
27375988 TTATTTT-ATAACTTATATAT
1 TTATTTTCATAACTTATATAT
27376008 GTACATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATTTTCATAACTTATATATAT
Found at i:27376004 original size:24 final size:26
Alignment explanation
Indices: 27375939--27376007 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
27375929 TTATTATTTC
* *
27375939 TATTTTTTAACTTATATATGTAATCAT
1 TATTTTATAACTTATATATATAAT-AT
27375966 TATTTTCATAA--TATATATAT-AT-T
1 TATTTT-ATAACTTATATATATAATAT
27375989 TATTTTATAACTTATATAT
1 TATTTTATAACTTATATAT
27376008 GTACATACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
22 4 0.11
23 7 0.19
24 7 0.19
25 2 0.05
26 8 0.22
27 6 0.16
28 3 0.08
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (26 bp):
TATTTTATAACTTATATATATAATAT
Found at i:27380493 original size:41 final size:41
Alignment explanation
Indices: 27380436--27380724 Score: 112
Period size: 41 Copynumber: 6.5 Consensus size: 41
27380426 AATTACAGAT
* *
27380436 CTTATCTCTCTAAAGTTGCAGTAAAACAGATTATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAGTAAAACAGATTATAGCAAAC
** * * * * *
27380477 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAAGTTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTAAAACAGATT-ATAG-CA-AA-C
* * ** * *
27380522 CTTATCTCCTTGAAGTTGCAGTAGAGTAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTA-A--A-ACAGATTATAGCAAAC
* * * * *
27380567 ATTATTTCCCTGAAATTGCAGTAAAATAGATTAAAGCTATAAATTAC
1 CTTATCTCCCTGAAGTTGCAGTAAAACAGATTATAGC----AA--AC
* * * *
27380614 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAC
1 ----CTTATCTCCCTGAAGTTGCAGTAAAACAGATTATAGCAAAC
* * * * *
27380659 CTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGA-AGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTAAAACAGATT-ATAG---CAAAC
27380703 CTTATCTCCCTGAAGTTGCAGT
1 CTTATCTCCCTGAAGTTGCAGT
27380725 GGAGCAGATT
Statistics
Matches: 178, Mismatches: 48, Indels: 41
0.67 0.18 0.15
Matches are distributed among these distances:
41 62 0.35
42 5 0.03
43 1 0.01
44 27 0.15
45 44 0.25
46 2 0.01
47 3 0.02
48 4 0.02
49 2 0.01
51 28 0.16
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (41 bp):
CTTATCTCCCTGAAGTTGCAGTAAAACAGATTATAGCAAAC
Found at i:27380500 original size:92 final size:92
Alignment explanation
Indices: 27380376--27380690 Score: 315
Period size: 92 Copynumber: 3.4 Consensus size: 92
27380366 CAGACTGAAG
* * *
27380376 ATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTATAAATTACAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTAT
* *
27380441 CTCTCTAAAGTTGCAGTAAAACAGATT
66 CTCTCTGAAGTTGCAGTAAAACAGATC
* *
27380468 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAAG-T-T--A-TA-AG-TCTTA
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATT-AAAGCTATAAATTACAGATCTTA
* **
27380526 TCTC-CTTGAAGTTGCAGTAGAGTAGACTGAAG
65 TCTCTC-TGAAGTTGCAGTA-A--A-ACAGATC
* ** * * ** *
27380558 ATAGCGAATATTATTTCCCTGAAATTGCAGTAAAATAGATTAAAGCTATAAATTACAGATCTTAT
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTAT
* *
27380623 CTCTCTGAAGTTGCAGTAGAGCAGATC
66 CTCTCTGAAGTTGCAGTAAAACAGATC
*
27380650 ATAGCAAACCTTATCTCCTTGAAGTTGCAGT-GAAGCAGATT
1 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAA-CAGATT
27380691 GAAGATACCA
Statistics
Matches: 176, Mismatches: 32, Indels: 30
0.74 0.13 0.13
Matches are distributed among these distances:
85 1 0.01
86 21 0.12
87 3 0.02
88 2 0.01
89 6 0.03
90 36 0.20
91 4 0.02
92 70 0.40
93 6 0.03
94 2 0.01
95 2 0.01
96 22 0.12
97 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (92 bp):
ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTAT
CTCTCTGAAGTTGCAGTAAAACAGATC
Found at i:27380602 original size:182 final size:182
Alignment explanation
Indices: 27380296--27380738 Score: 640
Period size: 182 Copynumber: 2.4 Consensus size: 182
27380286 CATGGTGAAT
* * *
27380296 CTTATCTCCTTAAAGTTGCAATGGAGCAGATTGAAGTCACT-AGTCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAAGTCTTATCTCCCTGAAGTTGCA
* * **
27380360 GTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTACAGTGGAACAGATTAAAGCTAT
66 GTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTGAAATTACAGTAAAACAGATTAAAGCTAT
*
27380425 AAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAACAGATTATAGCAAAC
131 AAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAACAGATCATAGCAAAC
* * * *
27380477 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTCAAAGTTA-TAAGTCTTATCTCCTTGAAGTTGC
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-GAAGTTACTAAGTCTTATCTCCCTGAAGTTGC
* * * * *
27380541 AGTAGAGTAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCAGTAAAATAGATTAAAGCTA
65 AGTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTGAAATTACAGTAAAACAGATTAAAGCTA
* * *
27380606 TAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATAGCAAAC
130 TAAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAACAGATCATAGCAAAC
* * *
27380659 CTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAA-TCTTATCTCCCTGAAGTTGCA
1 CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAAGTCTTATCTCCCTGAAGTTGCA
*
27380723 GTGGAGCAGATTGAAG
66 GTGGAGCAGACTGAAG
27380739 CTATTAATCC
Statistics
Matches: 229, Mismatches: 30, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
181 67 0.29
182 162 0.71
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (182 bp):
CTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGTTACTAAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGACTGAAGATAGCAAATATTATTTCCCTGAAATTACAGTAAAACAGATTAAAGCTAT
AAATTACAGATCTTATCTCTCTAAAGTTGCAGTAAAACAGATCATAGCAAAC
Found at i:27380721 original size:44 final size:44
Alignment explanation
Indices: 27380659--27381088 Score: 200
Period size: 44 Copynumber: 9.5 Consensus size: 44
27380649 CATAGCAAAC
*
27380659 CTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACCAAT
* * **
27380703 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTATTAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACCAAT
* * *
27380747 CCTATCTCCCTGAAGTTGTAGT-AGAGCAGATTAAAATGATA--AAT
1 CTTATCTCCCTGAAGTTGCAGTGA-AGCAGATT-GAA-GATACCAAT
** * * * * * * *
27380791 CCAATAC-CTCT-AAGGTTGCAGT-AGGTCGGATTAAATCTATATAGCAAAC
1 CTTAT-CTCCCTGAA-GTTGCAGTGAAG-CAGATT-GA---AGATA-CCAAT
* * *
27380840 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATA-CCAAT
* * * *
27380885 CTTATTTCCCTGAAGTTGTAGTGGAA-CAGATTAAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGT-GAAGCAGATTGAAG--AT--A--CCA-AT
* * * * * *
27380936 CTTATCTCTCTGAAGTTGCAAT-AGAGCAGA-T-CATAT-CTAAC
1 CTTATCTCCCTGAAGTTGCAGTGA-AGCAGATTGAAGATACCAAT
* * * * *
27380977 CTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAGT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACCAA-T
* * * *
27381021 CTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATA-CCAAT
* *
27381066 CTTATTTCCCTAAAGTTGCAGTG
1 CTTATCTCCCTGAAGTTGCAGTG
27381089 GAATAGATTA
Statistics
Matches: 291, Mismatches: 64, Indels: 61
0.70 0.15 0.15
Matches are distributed among these distances:
41 24 0.08
42 2 0.01
43 7 0.02
44 128 0.44
45 60 0.21
46 10 0.03
47 5 0.02
48 2 0.01
49 23 0.08
50 6 0.02
51 24 0.08
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGAAGCAGATTGAAGATACCAAT
Found at i:27380889 original size:45 final size:44
Alignment explanation
Indices: 27380831--27381090 Score: 188
Period size: 45 Copynumber: 5.8 Consensus size: 44
27380821 TTAAATCTAT
*
27380831 ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
1 ATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
27380876 ATAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAG
1 ATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * * *
27380921 CTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGA-T---C
1 --AT--A--GCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* * * * **
27380968 ATATCTAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAG
1 ATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* *
27381013 TTA-CAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAG
1 ATAGCAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
* *
27381057 ATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGA
1 ATAGC-AATCTTATCTCCCTGAAGTTGCAGTGGA
27381091 ATAGATTAAA
Statistics
Matches: 167, Mismatches: 33, Indels: 30
0.73 0.14 0.13
Matches are distributed among these distances:
41 26 0.16
42 2 0.01
43 3 0.02
44 36 0.22
45 66 0.40
46 2 0.01
47 2 0.01
49 1 0.01
50 2 0.01
51 27 0.16
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
ATAGCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG
Found at i:27380954 original size:96 final size:96
Alignment explanation
Indices: 27380840--27381146 Score: 350
Period size: 96 Copynumber: 3.3 Consensus size: 96
27380830 TATAGCAAAC
* *
27380840 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
27380905 GTGGAACAGATTAAAGCTATAAATTACAGAT
66 GTGGAACAGATTAAAGCTATAAATTACAGAT
* * * * * * *
27380936 CTTATCTCTCTGAAGTTGCAATAGAGCAGA-T---CATATCTAACCTTATCTCCTTGAAGTTGTA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
* * * *
27380997 GTGGAGCAGGTTGAAG-T-T--A-CA-AG-T
66 GTGGAACAGATTAAAGCTATAAATTACAGAT
* * *
27381021 CTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGC
1 CTTATCTCTC-TGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGT
* *
27381085 AGTGGAATAGATTAAAGCTATAAATTACAAAT
65 AGTGGAACAGATTAAAGCTATAAATTACAGAT
*
27381117 CTTATCCCTCTGAAGTTGCAGTAGAGCAGA
1 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA
27381147 TCATATCAAA
Statistics
Matches: 167, Mismatches: 31, Indels: 26
0.75 0.14 0.12
Matches are distributed among these distances:
84 1 0.01
85 27 0.16
86 3 0.02
87 1 0.01
88 1 0.01
89 34 0.20
90 2 0.01
91 2 0.01
92 37 0.22
93 1 0.01
94 1 0.01
95 2 0.01
96 54 0.32
97 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (96 bp):
CTTATCTCTCTGAAGTTGCAGTAGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
GTGGAACAGATTAAAGCTATAAATTACAGAT
Found at i:27381027 original size:181 final size:181
Alignment explanation
Indices: 27380840--27381186 Score: 597
Period size: 181 Copynumber: 1.9 Consensus size: 181
27380830 TATAGCAAAC
* *
27380840 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
* *
27380905 GTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
66 GTGGAACAGATTAAAGCTATAAATTACAAATCTTATCCCTCTGAAGTTGCAATAGAGCAGATCAT
* *
27380970 ATCTAACCTTATCTC-CTTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAGT
131 ATCAAACCTTATCTCTC-TGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
*
27381021 CTTATCTCCTTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
* *
27381086 GTGGAATAGATTAAAGCTATAAATTACAAATCTTATCCCTCTGAAGTTGCAGTAGAGCAGATCAT
66 GTGGAACAGATTAAAGCTATAAATTACAAATCTTATCCCTCTGAAGTTGCAATAGAGCAGATCAT
27381151 ATCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAG
131 ATCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAG
27381187 TTGTAGTAGA
Statistics
Matches: 156, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
181 155 0.99
182 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (181 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
GTGGAACAGATTAAAGCTATAAATTACAAATCTTATCCCTCTGAAGTTGCAATAGAGCAGATCAT
ATCAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
Found at i:27381159 original size:318 final size:313
Alignment explanation
Indices: 27380522--27381186 Score: 840
Period size: 318 Copynumber: 2.1 Consensus size: 313
27380512 AGTTATAAGT
* * *
27380522 CTTATCTCCTTGAAGTTGCAGTAGAGTAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCA
* *
27380587 GTAAAATAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCAT
66 GTAAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
27380652 AGCAAACCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAATCTTATCTCCCTGAA
131 AGCAAACCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAATCTTATCTCCCTGAA
* * ** * * *
27380717 GTTGCAGTGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTGTAGTAGAGCAGATTAAA
196 GTTGCAGTGGAGCAGACTGAAGATACGAATCCTATCTCCCTAAAGTTGCAGTAGAACAGATTAAA
*
27380782 ATGATAAATCCAATACCTCTAAGGTTGCAGTAGGTCGGATTAAATCTATATAGCAAAC
261 ATGATAAATCAAATACCTCTAAGGTTGCAGTAGGTC-G---AAATCTATATA-CAAAC
* * *
27380840 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCA
**
27380905 GTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
66 GTAAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
* * * * * * *
27380970 ATCTAACCTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGTTA-CAAGTCTTATCTCCTTGA
131 AGCAAACCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAA-TCTTATCTCCCTGA
* * * *
27381034 AGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTA
195 AGTTGCAGTGGAGCAGACTGAAGATA-CGAATCCTATCTCCCTAAAGTTGCAGTAGAACAGATTA
* *
27381099 AAGCT-ATAAATTACAAATCTTATCCCTCTGAA-GTTGCAGTAGAG-C-AGATC-ATAT-CAAAC
259 AA-ATGATAAA-T-CAAA---TA--CCTCT-AAGGTTGCAGTAG-GTCGAAATCTATATACAAAC
*
27381158 CTTATCTCTCTGAAGTTGCAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
27381187 TTGTAGTAGA
Statistics
Matches: 303, Mismatches: 32, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
317 3 0.01
318 230 0.76
319 36 0.12
320 6 0.02
321 7 0.02
324 2 0.01
326 16 0.05
327 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (313 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATATTATTTCCCTGAAATTGCA
GTAAAACAGATTAAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
AGCAAACCTTATCTCCTTGAAGTTGCAGTGAAGCAGATTGAAGATACCAATCTTATCTCCCTGAA
GTTGCAGTGGAGCAGACTGAAGATACGAATCCTATCTCCCTAAAGTTGCAGTAGAACAGATTAAA
ATGATAAATCAAATACCTCTAAGGTTGCAGTAGGTCGAAATCTATATACAAAC
Found at i:27393990 original size:3 final size:3
Alignment explanation
Indices: 27393984--27394020 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
27393974 GATAATAATG
* *
27393984 ACA ACA ACA ACA ACA ACA ACA ACA ATA AAA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
27394021 AACTAAGCAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.70, C:0.27, G:0.00, T:0.03
Consensus pattern (3 bp):
ACA
Found at i:27396314 original size:45 final size:45
Alignment explanation
Indices: 27396263--27396351 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
27396253 TAAAGATATT
*
27396263 TTATTAAGAGTTTAATTAAT-TTTTGACTTATCTTTATTTAGTTAG
1 TTATTAAGAGTTTAACTAATATTTT-ACTTATCTTTATTTAGTTAG
*
27396308 TTATTAAGAGTTTAACTAATATTTTATTTATCTTTATTTAGTTA
1 TTATTAAGAGTTTAACTAATATTTTACTTATCTTTATTTAGTTA
27396352 AATAAATGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
45 37 0.90
46 4 0.10
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.56
Consensus pattern (45 bp):
TTATTAAGAGTTTAACTAATATTTTACTTATCTTTATTTAGTTAG
Found at i:27396838 original size:38 final size:41
Alignment explanation
Indices: 27396796--27396884 Score: 103
Period size: 44 Copynumber: 2.2 Consensus size: 41
27396786 TAAACTCTGT
* *
27396796 TTTTAATT-TCT-C-ACTTAAACTCTTATTAGTGTAGGTTA
1 TTTTAATTATCTCCTACCTAAACTCTGATTAGTGTAGGTTA
*
27396834 TTTTAATATTAGTTTCCTACCTAAACTCTGATTAGTGTAGGTTA
1 TTTT-A-ATTA-TCTCCTACCTAAACTCTGATTAGTGTAGGTTA
27396878 TTTTAAT
1 TTTTAAT
27396885 ATTAGTTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
38 4 0.10
39 1 0.02
40 3 0.07
42 4 0.10
43 2 0.05
44 28 0.67
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.49
Consensus pattern (41 bp):
TTTTAATTATCTCCTACCTAAACTCTGATTAGTGTAGGTTA
Found at i:27396861 original size:44 final size:44
Alignment explanation
Indices: 27396811--27396900 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
27396801 ATTTCTCACT
*
27396811 TAAACTCTTATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
1 TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
27396855 TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
1 TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
27396899 TA
1 TA
27396901 GTGTGTTTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.28, C:0.13, G:0.12, T:0.47
Consensus pattern (44 bp):
TAAACTCTGATTAGTGTAGGTTATTTTAATATTAGTTTCCTACC
Found at i:27400244 original size:26 final size:26
Alignment explanation
Indices: 27400169--27400244 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
27400159 ATTTTTTTCC
* *
27400169 CAATTTTACCCTTAGAAAAATTTTGA
1 CAATTTTACCCCTAGTAAAATTTTGA
* *
27400195 CAATTTTACCCC-AATAAATTTTTTGA
1 CAATTTTACCCCTAGTAAA-ATTTTGA
**
27400221 TTATTTTACCCCTAGTAAAATTTT
1 CAATTTTACCCCTAGTAAAATTTT
27400245 AAGAAAATAT
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 4 0.10
26 31 0.77
27 5 0.12
ACGTcount: A:0.34, C:0.17, G:0.05, T:0.43
Consensus pattern (26 bp):
CAATTTTACCCCTAGTAAAATTTTGA
Found at i:27400414 original size:19 final size:18
Alignment explanation
Indices: 27400390--27400427 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
27400380 TGCAAATGTA
27400390 TCATTTCTC-TTTCTCATTT
1 TCATTT-TCATTTC-CATTT
27400409 TCATTTTCATTTCCATTT
1 TCATTTTCATTTCCATTT
27400427 T
1 T
27400428 GAGAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (18 bp):
TCATTTTCATTTCCATTT
Found at i:27403083 original size:13 final size:13
Alignment explanation
Indices: 27403050--27403084 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
27403040 TTTAGGCTTA
27403050 TTACTATTTAGAC
1 TTACTATTTAGAC
**
27403063 TTGTTATTTAGAC
1 TTACTATTTAGAC
27403076 TTACTATTT
1 TTACTATTT
27403085 TACATATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (13 bp):
TTACTATTTAGAC
Found at i:27404825 original size:25 final size:24
Alignment explanation
Indices: 27404791--27404849 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
27404781 AGAAAGCAAC
* * *
27404791 AAAAATAAAATATATTCTAAAAAG
1 AAAAAGAAAACATAATCTAAAAAG
*
27404815 AAAAGAGAAAACCTAATCTAAAAAG
1 AAAA-AGAAAACATAATCTAAAAAG
27404840 AAAAAGAAAA
1 AAAAAGAAAA
27404850 GAAAATGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.69, C:0.07, G:0.08, T:0.15
Consensus pattern (24 bp):
AAAAAGAAAACATAATCTAAAAAG
Found at i:27408002 original size:17 final size:18
Alignment explanation
Indices: 27407982--27408025 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
27407972 CCAAAAATAA
27407982 TAATATTAT-AATAAATT
1 TAATATTATAAATAAATT
*
27407999 TAATATT-TAAATTAATT
1 TAATATTATAAATAAATT
27408016 TAATACTTAT
1 TAATA-TTAT
27408026 TCTGATAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 1 0.04
17 19 0.83
18 2 0.09
19 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATATTATAAATAAATT
Found at i:27408070 original size:68 final size:69
Alignment explanation
Indices: 27407998--27408125 Score: 163
Period size: 69 Copynumber: 1.9 Consensus size: 69
27407988 TATAATAAAT
* * *
27407998 TTAATATTTAAA-TTAATTTAATACTTATTCT-GAT-AGTATTTTATTAATTTAATATTAAATTA
1 TTAATA-TTAAATTTAATATAATACTTA-GCTAGATAAGTATTATATTAATTTAATATTAAATTA
27408060 ATTATC
64 ATTATC
* * *
27408066 TTAATATTAAATTTAATATGATATTTAGCTAGATAAGTATTATATTAATTTACTATTAAA
1 TTAATATTAAATTTAATATAATACTTAGCTAGATAAGTATTATATTAATTTAATATTAAA
27408126 GTGAACTCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
67 7 0.14
68 21 0.41
69 23 0.45
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (69 bp):
TTAATATTAAATTTAATATAATACTTAGCTAGATAAGTATTATATTAATTTAATATTAAATTAAT
TATC
Found at i:27414089 original size:22 final size:22
Alignment explanation
Indices: 27414056--27414415 Score: 443
Period size: 22 Copynumber: 16.4 Consensus size: 22
27414046 AGCAATTATC
*
27414056 CAAC-ATTCGGACAACATTTAAT
1 CAACAATT-GGACAGCATTTAAT
* *
27414078 CAACAATTGGACAGCAATCAAT
1 CAACAATTGGACAGCATTTAAT
*
27414100 CAACATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27414122 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
* * *
27414144 CAACATTTAGACAACATTTAAT
1 CAACAATTGGACAGCATTTAAT
* * *
27414166 CAATAATTGGACAACATTCAAT
1 CAACAATTGGACAGCATTTAAT
*
27414188 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
* * *
27414210 CAACATTTAGACAGAATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27414232 CAACAATTGGACAGCATTCAAT
1 CAACAATTGGACAGCATTTAAT
* *
27414254 CAATATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
*
27414276 CAACAATTGGACAGCATTAAAT
1 CAACAATTGGACAGCATTTAAT
* *
27414298 CAACAATTGGATAACATTTAAT
1 CAACAATTGGACAGCATTTAAT
27414320 CAACAATTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
* * *
27414342 CAACAATTGAACAACATTAAAT
1 CAACAATTGGACAGCATTTAAT
* * *
27414364 CAACATTTGGACAACATTCAAT
1 CAACAATTGGACAGCATTTAAT
* *
27414386 CAATATTTGGACAGCATTTAAT
1 CAACAATTGGACAGCATTTAAT
27414408 CAACAATT
1 CAACAATT
27414416 TTTACTTCAA
Statistics
Matches: 288, Mismatches: 49, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
22 285 0.99
23 3 0.01
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (22 bp):
CAACAATTGGACAGCATTTAAT
Found at i:27414324 original size:11 final size:11
Alignment explanation
Indices: 27414310--27414412 Score: 52
Period size: 11 Copynumber: 9.4 Consensus size: 11
27414300 ACAATTGGAT
27414310 AACATTTAATC
1 AACATTTAATC
**
27414321 AACAATTGGA-C
1 AAC-ATTTAATC
*
27414332 AGCATTTAATC
1 AACATTTAATC
*
27414343 AACAATTGAA-C
1 AAC-ATTTAATC
*
27414354 AACATTAAATC
1 AACATTTAATC
*
27414365 AACATTTGGA-C
1 AACATTT-AATC
*
27414376 AACATTCAATC
1 AACATTTAATC
* *
27414387 AATATTTGGA-C
1 AACATTT-AATC
*
27414398 AGCATTTAATC
1 AACATTTAATC
27414409 AACA
1 AACA
27414413 ATTTTTACTT
Statistics
Matches: 65, Mismatches: 19, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
10 11 0.17
11 43 0.66
12 11 0.17
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (11 bp):
AACATTTAATC
Found at i:27421305 original size:13 final size:13
Alignment explanation
Indices: 27421287--27421323 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
27421277 ATAAACTACA
27421287 ATATACATACATG
1 ATATACATACATG
27421300 ATATACATACATG
1 ATATACATACATG
27421313 ATATACATACA
1 ATATACATACA
27421324 AATTTTTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (13 bp):
ATATACATACATG
Found at i:27421529 original size:5 final size:5
Alignment explanation
Indices: 27421427--27421560 Score: 54
Period size: 5 Copynumber: 27.2 Consensus size: 5
27421417 GCCTACATTA
* * *
27421427 AACAT GACAT -ACAT AATA- AACA- AACAT AACAAT AATAT AACACAT
1 AACAT AACAT AACAT AACAT AACAT AACAT AAC-AT AACAT -A-ACAT
* * * *
27421472 AACA- AACAT -ACAAGT ATACAT -ACAT AATAT -GCAT AACAG CACAT
1 AACAT AACAT AAC-A-T A-ACAT AACAT AACAT AACAT AACAT AACAT
*
27421516 AACAT -ACAT AACAT AATAGT AAACAT AACAT -ACAT -ACAT AACAT A
1 AACAT AACAT AACAT AACA-T -AACAT AACAT AACAT AACAT AACAT A
27421561 CAAAATATGC
Statistics
Matches: 98, Mismatches: 15, Indels: 32
0.68 0.10 0.22
Matches are distributed among these distances:
4 35 0.36
5 44 0.45
6 10 0.10
7 7 0.07
8 2 0.02
ACGTcount: A:0.57, C:0.19, G:0.04, T:0.21
Consensus pattern (5 bp):
AACAT
Found at i:27421571 original size:67 final size:71
Alignment explanation
Indices: 27421445--27421576 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 71
27421435 ATACATAATA
*
27421445 AACAAACATAACAATAATATAACACATAACAAACATACAAGTATACATACATAATATGCATAACA
1 AACAAACATAACAATAATATAACACATAACAAACATACAAGTATACATACAAAATATGCATAACA
27421510 GCACAT
66 GCACAT
* *
27421516 AACATACATAAC-ATAATAGTAA-ACATAACATACATAC-A-TA-ACATACAAAATATGCATAAC
1 AACAAACATAACAATAATA-TAACACATAACAAACATACAAGTATACATACAAAATATGCATAAC
27421576 A
65 A
27421577 ATTTAAAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
67 20 0.35
68 2 0.04
69 1 0.02
70 20 0.35
71 14 0.25
ACGTcount: A:0.57, C:0.19, G:0.04, T:0.20
Consensus pattern (71 bp):
AACAAACATAACAATAATATAACACATAACAAACATACAAGTATACATACAAAATATGCATAACA
GCACAT
Found at i:27425076 original size:34 final size:33
Alignment explanation
Indices: 27425029--27425155 Score: 141
Period size: 34 Copynumber: 3.8 Consensus size: 33
27425019 AGGAGAGGGA
*
27425029 AAGAAGAAGAAAGAAAGAAAGAAAATGAAAGGAG
1 AAGAAGAAAAAAGAAAGAAAGAAAA-GAAAGGAG
* *
27425063 AAGAAGAAAAAAGAATGAAAGACAAGGAAAGGAG
1 AAGAAGAAAAAAGAAAGAAAGA-AAAGAAAGGAG
* *
27425097 AAG-AGAAAAAAAAAAG-AAGAAGAAGAAGAGGGG
1 AAGAAGAAAAAAGAAAGAAAGAA-AAGAA-AGGAG
* *
27425130 AGGAAGGAAAAAGAAAGAAAGAAAAG
1 AAGAAGAAAAAAGAAAGAAAGAAAAG
27425156 GTAATTTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
31 1 0.01
32 8 0.10
33 17 0.22
34 45 0.58
35 7 0.09
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.02
Consensus pattern (33 bp):
AAGAAGAAAAAAGAAAGAAAGAAAAGAAAGGAG
Found at i:27425293 original size:28 final size:27
Alignment explanation
Indices: 27425241--27425294 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
27425231 TTTTATTACG
* * *
27425241 TTATTTAGTATATAAATTTTATGAAAT
1 TTATTTAGCATACAAAATTTATGAAAT
27425268 TTATTTAGCATGACAAAATTTATGAAA
1 TTATTTAGCAT-ACAAAATTTATGAAA
27425295 AAATTCATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (27 bp):
TTATTTAGCATACAAAATTTATGAAAT
Found at i:27428793 original size:16 final size:17
Alignment explanation
Indices: 27428764--27428796 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
27428754 TCAAAATTAT
27428764 ACTAACTAAAAATAATA
1 ACTAACTAAAAATAATA
*
27428781 ACTAAC-AATAATAATA
1 ACTAACTAAAAATAATA
27428797 CTAGTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (17 bp):
ACTAACTAAAAATAATA
Found at i:27429135 original size:27 final size:27
Alignment explanation
Indices: 27429096--27429157 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
27429086 AACACGACTA
* *
27429096 GTGCCACCAATGGGAATGGCACCATCG
1 GTGCCGCCAATGGGAATGACACCATCG
* * *
27429123 GTGCCGCCCATGGGAATGACACCTTTG
1 GTGCCGCCAATGGGAATGACACCATCG
27429150 GTGCCGCC
1 GTGCCGCC
27429158 TATCAGTTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.19, C:0.32, G:0.31, T:0.18
Consensus pattern (27 bp):
GTGCCGCCAATGGGAATGACACCATCG
Found at i:27429202 original size:27 final size:27
Alignment explanation
Indices: 27429142--27429194 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
27429132 ATGGGAATGA
* * *
27429142 CACCTTTGGTGCCGCCTATCAGTTAGG
1 CACCTTTGGTGCCGCCAATCAGATACG
*
27429169 CACCTTTGGTGCCGCCAATTAGATAC
1 CACCTTTGGTGCCGCCAATCAGATAC
27429195 TCTCCTTTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (27 bp):
CACCTTTGGTGCCGCCAATCAGATACG
Found at i:27433712 original size:21 final size:21
Alignment explanation
Indices: 27433674--27433713 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27433664 CAAACACATT
*
27433674 CTATTATTAATTTTAATCTAA
1 CTATTATTAATTTCAATCTAA
27433695 CTATTA-TAATATTCAATCT
1 CTATTATTAAT-TTCAATCT
27433714 CAGTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
CTATTATTAATTTCAATCTAA
Found at i:27434181 original size:27 final size:27
Alignment explanation
Indices: 27434143--27434230 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
27434133 GGAGGGTTTT
*
27434143 TGATTGGCGGCACCAAAGGTGCC-TAAC
1 TGATTGGCGGCACCAATGGTGCCAT-AC
*
27434170 TGATTGGCGGCACCGATGGTGCCATAC
1 TGATTGGCGGCACCAATGGTGCCATAC
* *
27434197 TGGTTGGCAGCACCAATGGTGCCATAC
1 TGATTGGCGGCACCAATGGTGCCATAC
27434224 TGATTGG
1 TGATTGG
27434231 TGGGACTACT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 53 0.98
28 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.32, T:0.23
Consensus pattern (27 bp):
TGATTGGCGGCACCAATGGTGCCATAC
Found at i:27434421 original size:21 final size:22
Alignment explanation
Indices: 27434381--27434429 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
27434371 TTATCTTGTT
27434381 GTTATTGTTTTGTATAATTTGTA
1 GTTATTGTTTTGTATAATTT-TA
* *
27434404 -TTATT-TTTTGTTTTATTTTA
1 GTTATTGTTTTGTATAATTTTA
27434424 GTTATT
1 GTTATT
27434430 AAGATTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.09
21 16 0.70
22 5 0.22
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.69
Consensus pattern (22 bp):
GTTATTGTTTTGTATAATTTTA
Found at i:27434474 original size:3 final size:3
Alignment explanation
Indices: 27434466--27434500 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27434456 TTTTAGTTAG
27434466 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
27434501 AGATGTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:27437154 original size:27 final size:27
Alignment explanation
Indices: 27437065--27437155 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
27437055 ATGAGTAGTC
*
27437065 CCGCTAATCAGTATGGCACCATTGGTG
1 CCGCCAATCAGTATGGCACCATTGGTG
* *
27437092 CCGCCAACCAGTATGGCACCATCGGTG
1 CCGCCAATCAGTATGGCACCATTGGTG
* *
27437119 CCGCTAATCAGT-TAGGCACCTTTGGTG
1 CCGCCAATCAGTAT-GGCACCATTGGTG
*
27437146 CTGCCAATCA
1 CCGCCAATCA
27437156 AAAACCCTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.02
27 53 0.98
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.23
Consensus pattern (27 bp):
CCGCCAATCAGTATGGCACCATTGGTG
Found at i:27438351 original size:31 final size:29
Alignment explanation
Indices: 27438287--27438354 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 29
27438277 TATTTAGTCA
27438287 TTTAATAAATTATTAATATAATTTATTATT
1 TTTAATAAATTATTAATAT-ATTTATTATT
*
27438317 TTTAATAAATTATTTAATAT-TTTAATTTTAT
1 TTTAATAAATTA-TTAATATATTT-ATTAT-T
27438348 TTTAATA
1 TTTAATA
27438355 GTAAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.09
30 16 0.47
31 15 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTAATAAATTATTAATATATTTATTATT
Found at i:27455042 original size:20 final size:20
Alignment explanation
Indices: 27455017--27455062 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
27455007 ATTTATTTTC
27455017 TAATTATTAAAAACTT-TAAA
1 TAATTATTAAAAA-TTGTAAA
27455037 TAATTATTAAAAATTGTAAA
1 TAATTATTAAAAATTGTAAA
27455057 TAATTA
1 TAATTA
27455063 ACAAATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (20 bp):
TAATTATTAAAAATTGTAAA
Found at i:27455380 original size:19 final size:20
Alignment explanation
Indices: 27455358--27455402 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
27455348 ATTTGCAATT
* *
27455358 TTTTAAATAA-TTTTCCCAA
1 TTTTAAATAACTTTTACAAA
*
27455377 TTTTTAATAACTTTTACAAA
1 TTTTAAATAACTTTTACAAA
27455397 TTTTAA
1 TTTTAA
27455403 TTTTTTATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTAAATAACTTTTACAAA
Found at i:27455427 original size:11 final size:10
Alignment explanation
Indices: 27455375--27455498 Score: 59
Period size: 9 Copynumber: 12.9 Consensus size: 10
27455365 TAATTTTCCC
27455375 AATTTTTAAT
1 AATTTTTAAT
*
27455385 AACTTTTACA-
1 AATTTTTA-AT
27455395 AA-TTTTAAT
1 AATTTTTAAT
27455404 --TTTTT-AT
1 AATTTTTAAT
27455411 AATTTTTAAT
1 AATTTTTAAT
* *
27455421 AACTTTTTTAC
1 AA-TTTTTAAT
*
27455432 AA-TTTTAAA
1 AATTTTTAAT
*
27455441 ATATTTTTAAC
1 A-ATTTTTAAT
**
27455452 AATACTTAAT
1 AATTTTTAAT
27455462 AATTATTTAA-
1 AATT-TTTAAT
* *
27455472 AATATCTAA-
1 AATTTTTAAT
*
27455481 AATTTTT-AC
1 AATTTTTAAT
27455490 AATTTTTAA
1 AATTTTTAA
27455499 ATATATATTT
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
7 2 0.02
8 6 0.07
9 32 0.37
10 27 0.31
11 20 0.23
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.52
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:27455447 original size:20 final size:20
Alignment explanation
Indices: 27455401--27455519 Score: 59
Period size: 20 Copynumber: 5.8 Consensus size: 20
27455391 TACAAATTTT
*
27455401 AATTTTTTATAATTTTTAATA
1 AATTTTTTACAA-TTTTAATA
*
27455422 ACTTTTTTACAATTTTAA-A
1 AATTTTTTACAATTTTAATA
* *
27455441 ATATTTTTAACAATACTTAAT-
1 A-ATTTTTTACAAT-TTTAATA
* * *
27455462 AATTATTTAAAATATCT-A-A
1 AATTTTTTACAAT-TTTAATA
27455481 AA-TTTTTACAATTTTTAAATA
1 AATTTTTTACAA-TTTT-AATA
*
27455502 TATATTTTTTATAATTTT
1 -A-ATTTTTTACAATTTT
27455520 CTAGTCTAAT
Statistics
Matches: 73, Mismatches: 14, Indels: 20
0.68 0.13 0.19
Matches are distributed among these distances:
18 9 0.12
19 6 0.08
20 28 0.38
21 16 0.22
22 1 0.01
23 5 0.07
24 8 0.11
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTTTACAATTTTAATA
Found at i:27464754 original size:42 final size:42
Alignment explanation
Indices: 27464707--27464793 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
27464697 TATTAATTTA
* * * *
27464707 ATATTAATACGATATATTAAATTTAATTTAATATTTTTCTAG
1 ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
*
27464749 ATATTAATATGAAATATTAAATTAAATTAAATATTTATCTAG
1 ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
27464791 ATA
1 ATA
27464794 GTATTTTATT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (42 bp):
ATATTAATACGAAATATTAAATTAAATTAAATATTTATCTAG
Found at i:27464800 original size:103 final size:103
Alignment explanation
Indices: 27464628--27464817 Score: 353
Period size: 103 Copynumber: 1.8 Consensus size: 103
27464618 ATTAAAAATA
27464628 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
1 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
27464693 ATTTTATTAATTTAATATTAATACGATATATTAAATTT
66 ATTTTATTAATTTAATATTAATACGATATATTAAATTT
* *
27464731 AATTTAATATTTTTCTAGATATTAATATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
1 AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
*
27464796 ATTTTATTAATTTAATGTTAAT
66 ATTTTATTAATTTAATATTAAT
27464818 GTGATTAATT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (103 bp):
AATTTAATATTTATCTAGATATTAACATGAAATATTAAATTAAATTAAATATTTATCTAGATAGT
ATTTTATTAATTTAATATTAATACGATATATTAAATTT
Found at i:27475955 original size:3 final size:3
Alignment explanation
Indices: 27475947--27475981 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27475937 AACCCAACAG
27475947 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
27475982 GTCATTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:27488135 original size:13 final size:13
Alignment explanation
Indices: 27488117--27488142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27488107 TACAGCAAAA
27488117 CATAATTTAAAGG
1 CATAATTTAAAGG
27488130 CATAATTTAAAGG
1 CATAATTTAAAGG
27488143 TTAATTAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
CATAATTTAAAGG
Found at i:27489002 original size:20 final size:21
Alignment explanation
Indices: 27488977--27489015 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27488967 GGTGGTCTGG
*
27488977 AGTTGG-TGTTGTAACATCCA
1 AGTTGGATGTTGCAACATCCA
27488997 AGTTGGATGTTGCAACATC
1 AGTTGGATGTTGCAACATC
27489016 GAGGGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (21 bp):
AGTTGGATGTTGCAACATCCA
Found at i:27493025 original size:12 final size:13
Alignment explanation
Indices: 27493003--27493031 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27492993 ACTTCTTCTC
27493003 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
27493016 CTTTTC-TTCTTT
1 CTTTTCTTTCTTT
27493028 CTTT
1 CTTT
27493032 AACTTGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:27493100 original size:3 final size:3
Alignment explanation
Indices: 27493092--27493136 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
27493082 TTTTACTTTC
27493092 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
27493137 ATAATACATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:27496466 original size:27 final size:27
Alignment explanation
Indices: 27496408--27496467 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
27496398 TTGAAAGAAC
* * *
27496408 ACCTTTGTGGAGCAATATGAAAGGAAT
1 ACCTTTGTGGAGCAATATAAAAGAAAA
* * *
27496435 GCCTTTGTGGTGCCATATAAAAGAAAA
1 ACCTTTGTGGAGCAATATAAAAGAAAA
27496462 ACCTTT
1 ACCTTT
27496468 ATGGCAAATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (27 bp):
ACCTTTGTGGAGCAATATAAAAGAAAA
Done.