Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 213 of 279
Found at i:69572336 original size:16 final size:16
Alignment explanation
Indices: 69572310--69572353 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
69572300 TTTGAAAACT
* * *
69572310 AAAAAATTAAGTGCTG
1 AAAAAAATAAGTGATA
*
69572326 AAAATAATAAGTGATA
1 AAAAAAATAAGTGATA
69572342 AAAAAAATAAGT
1 AAAAAAATAAGT
69572354 ACCCAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.61, C:0.02, G:0.14, T:0.23
Consensus pattern (16 bp):
AAAAAAATAAGTGATA
Found at i:69579385 original size:41 final size:38
Alignment explanation
Indices: 69579293--69579388 Score: 95
Period size: 41 Copynumber: 2.5 Consensus size: 38
69579283 AATATAATGC
* *
69579293 CACCCAGTGTCTCATCG-GCCTAGCCGAAGTAAAGTGG
1 CACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAGTGA
* ** * *
69579330 TACCCAGTACCTCATCGAATCTATCCGAAGTAAAATAGTGA
1 CACCCAGTGTCTCATCGAACCTAGCCGAAGT--AA-AGTGA
69579371 CACCCAGTGTCTCATCGA
1 CACCCAGTGTCTCATCGA
69579389 CTCAAGGTCG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
37 14 0.31
38 10 0.22
40 2 0.04
41 19 0.42
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (38 bp):
CACCCAGTGTCTCATCGAACCTAGCCGAAGTAAAGTGA
Found at i:69579547 original size:33 final size:33
Alignment explanation
Indices: 69579488--69579563 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 33
69579478 TCACTTTCTG
69579488 AATTCAATATCACTTTCAATTCATATACGAA-TC
1 AATTCAATATCACTTTCAATTCATATAC-AATTC
*
69579521 AATTCAATTTCACTTTTC-A-TCAATATACAATTC
1 AATTCAATATCAC-TTTCAATTC-ATATACAATTC
69579554 AATATCAATA
1 AAT-TCAATA
69579564 CTTATCCATC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
32 4 0.11
33 24 0.65
34 9 0.24
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.38
Consensus pattern (33 bp):
AATTCAATATCACTTTCAATTCATATACAATTC
Found at i:69579552 original size:28 final size:28
Alignment explanation
Indices: 69579518--69579594 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 28
69579508 TCATATACGA
69579518 ATCAATTCAATTTCACTTTTCATCAAT-
1 ATCAATTCAATTTCACTTTTCATCAATC
* * * *
69579545 ATACAATTCAATATCAATACTT-ATCCATC
1 AT-CAATTCAATTTCACT-TTTCATCAATC
69579574 ATCAATTCAATTTC-CTTTTCA
1 ATCAATTCAATTTCACTTTTCA
69579595 ATTCCATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
26 2 0.05
27 4 0.10
28 29 0.74
29 4 0.10
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (28 bp):
ATCAATTCAATTTCACTTTTCATCAATC
Found at i:69579908 original size:23 final size:22
Alignment explanation
Indices: 69579861--69579908 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
69579851 CAATTTAATC
69579861 CTAACTAAATTCACTTACTTTT
1 CTAACTAAATTCACTTACTTTT
*
69579883 CTAACTCAATTCATACTT-CTTTT
1 CTAACTAAATTC--ACTTACTTTT
69579906 CTA
1 CTA
69579909 CTTAATTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 8 0.35
24 4 0.17
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (22 bp):
CTAACTAAATTCACTTACTTTT
Found at i:69583594 original size:28 final size:28
Alignment explanation
Indices: 69583554--69583609 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
69583544 GAACCACTCA
69583554 ACATCACGTATACCTTTCATTTTGTTTT
1 ACATCACGTATACCTTTCATTTTGTTTT
69583582 ACATCACGTATACCTTTCATTTTGTTTT
1 ACATCACGTATACCTTTCATTTTGTTTT
69583610 TGTAAGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.07, T:0.50
Consensus pattern (28 bp):
ACATCACGTATACCTTTCATTTTGTTTT
Found at i:69586785 original size:22 final size:22
Alignment explanation
Indices: 69586754--69586798 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
69586744 TACCCACTAG
*
69586754 TCATTAAATGTCTAATGCTCAA
1 TCATTAAATGTCCAATGCTCAA
*
69586776 TCATTCAATGTCCAATGCTCAA
1 TCATTAAATGTCCAATGCTCAA
69586798 T
1 T
69586799 AAGTTATGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (22 bp):
TCATTAAATGTCCAATGCTCAA
Found at i:69587850 original size:302 final size:302
Alignment explanation
Indices: 69587299--69587907 Score: 1046
Period size: 302 Copynumber: 2.0 Consensus size: 302
69587289 TAAATAGGCT
* * *
69587299 CACAAGGCCCAAAACATGCATTAGAGGTTGTTCGGGACTAAACCGAAAACTTAAGAAAAACTTGA
1 CACATGGCCCAAAACATACATTAGAGGTCGTTCGGGACTAAACCGAAAACTTAAGAAAAACTTGA
* * *
69587364 AAAACTTCATGCTTTAAAGCTCCACACGCCCGTGTGGATATAGACCGTGTGGTCACACACGCCCG
66 AAAACTTCATGCTTTAAAGCTCCACACGCCCATGTGGATATAGACCGTGTAGTCACACACACCCG
69587429 TGTGGCTTGGGGCATGCCCGTGCCCTTAGCCCATGTGCAACACTGACTTTAAAACACGGCCATGA
131 TGTGGCTTGGGGCATGCCCGTGCCCTTAGCCCATGTGCAACACTGACTTTAAAACACGGCCATGA
69587494 CACACGCCTATGGGGGCAGACCGTGTGCCACACACGCCTGTGTGACTATCGTGTGGACAATTACA
196 CACACGCCTATGGGGGCAGACCGTGTGCCACACACGCCTGTGTGACTATCGTGTGGACAATTACA
69587559 AGGCTATTTTCCAAGCCATTTGTCACCCTCACAACATATGCA
261 AGGCTATTTTCCAAGCCATTTGTCACCCTCACAACATATGCA
* *
69587601 CACATGGCCCAAAACATACATTAGAGG-CGATTTGGGACTACACC-AAGAACTTAAGAAAAACTT
1 CACATGGCCCAAAACATACATTAGAGGTCG-TTCGGGACTAAACCGAA-AACTTAAGAAAAACTT
* ** *
69587664 GAAAAA-TCTCATGTTTTACGGCTCCACACGCCCATGTGGGTATAGACCGTGTAGTCACACGA-A
64 GAAAAACT-TCATGCTTTAAAGCTCCACACGCCCATGTGGATATAGACCGTGTAGTCACAC-ACA
69587727 CCCGTGTGGCTTGGGGCATGCCCGTGCCCTTAGCCCATGTGCAACACTGACTTTAAAACACGGCC
127 CCCGTGTGGCTTGGGGCATGCCCGTGCCCTTAGCCCATGTGCAACACTGACTTTAAAACACGGCC
69587792 ATGACACACGCCTATGGGGGCAGACCGTGTGCCACACACGCCTGTGTGACTATCGTGTGGACAAT
192 ATGACACACGCCTATGGGGGCAGACCGTGTGCCACACACGCCTGTGTGACTATCGTGTGGACAAT
69587857 TACAAGGCTATTTTCCAAGCCATTTGTCACCCTCACAACATATGCA
257 TACAAGGCTATTTTCCAAGCCATTTGTCACCCTCACAACATATGCA
69587903 CACAT
1 CACAT
69587908 ACTTATCCAA
Statistics
Matches: 291, Mismatches: 12, Indels: 8
0.94 0.04 0.03
Matches are distributed among these distances:
301 4 0.01
302 286 0.98
303 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (302 bp):
CACATGGCCCAAAACATACATTAGAGGTCGTTCGGGACTAAACCGAAAACTTAAGAAAAACTTGA
AAAACTTCATGCTTTAAAGCTCCACACGCCCATGTGGATATAGACCGTGTAGTCACACACACCCG
TGTGGCTTGGGGCATGCCCGTGCCCTTAGCCCATGTGCAACACTGACTTTAAAACACGGCCATGA
CACACGCCTATGGGGGCAGACCGTGTGCCACACACGCCTGTGTGACTATCGTGTGGACAATTACA
AGGCTATTTTCCAAGCCATTTGTCACCCTCACAACATATGCA
Found at i:69596745 original size:94 final size:92
Alignment explanation
Indices: 69596583--69596756 Score: 208
Period size: 94 Copynumber: 1.9 Consensus size: 92
69596573 ATCTCGTAGC
* * *
69596583 CGATGCATGTCCCAGGCATGTTTTACACTAGCTTACATATCGAGGCAGATGCATGTCCCAAACAT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCAGATGCATGACCCAAACAT
69596648 GTCTTACACTAGCTCTCGACTCAATGT
66 GTCTTACACTAGCTCTCGACTCAATGT
* * * * *
69596675 CGATGCCATGTCCCAGATATAGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGTATGACCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCAGATGCATGACCCAA
* *
69596738 ACGTGTCTTACATTAGCTC
62 ACATGTCTTACACTAGCTC
69596757 ATGATAACCC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
92 5 0.07
93 12 0.18
94 48 0.71
95 3 0.04
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCAGATGCATGACCCAAACAT
GTCTTACACTAGCTCTCGACTCAATGT
Found at i:69607136 original size:46 final size:46
Alignment explanation
Indices: 69606937--69607255 Score: 238
Period size: 46 Copynumber: 6.7 Consensus size: 46
69606927 GGTAGAGAGT
* * *
69606937 CGATGCCATGTCCCAGACTTGGTCTTACACT-GACTATCGTCATCGAGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATC-TCGAGGC
* * * * * * *
69606986 TGACGCCATGTCTCAGACATGGTATTACTCTAGCTCTCGCATACCCG-TGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT--CAT-CTCGAGGC
* * * *
69607036 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTTGTA-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCG-AGGC
* * *
69607082 CAATGCATGTCCTAGACATATCTTACACTAGCT-TACATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAGGC
* * *
69607128 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGC
* * *
69607174 CGATGTCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTGAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAGGC
69607222 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
69607256 ACGATAACCC
Statistics
Matches: 217, Mismatches: 39, Indels: 31
0.76 0.14 0.11
Matches are distributed among these distances:
44 9 0.04
45 17 0.08
46 73 0.34
47 29 0.13
48 25 0.12
49 30 0.14
50 29 0.13
51 4 0.02
52 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGC
Found at i:69607248 original size:140 final size:143
Alignment explanation
Indices: 69606937--69607254 Score: 339
Period size: 140 Copynumber: 2.2 Consensus size: 143
69606927 GGTAGAGAGT
* * * *
69606937 CGATGCCATGTCCCAGACTTGGTCTTACACT-GAC-TATCGTCATCGAGGCTGACGCCATGTCTC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTATCATCATCGAGGCCGACGCCATGTCCC
* **
69607000 AGACATGGTATTACTCTAGCTCTCGCATACCCGTGCCGATGCCATGTCCCAGACATGGTCTTACA
63 AGACATGGTATTACACTAGCTCTCGCATA-CAATGCCGATGCCATGTCCCAGACATGGTCTTACA
** *
69607065 CTGACACATCTTGTAGT
127 CTGACACATAATGTAGC
* * * *
69607082 CAATGCATGTCCTAGACATATCTTACACTAGCTTA-CATC-TCGAGGCCGATG-CATGTCCCAGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTATCATCATCGAGGCCGACGCCATGTCCCAGA
* *
69607144 CAT-GTCTTACACTAGCTCTCGTC-T-CAATGCCGATGTCATGTCCCAGACATGGTCTTACACTA
66 CATGGTATTACACTAGCTCTCG-CATACAATGCCGATGCCATGTCCCAGACATGGTCTTACACT-
* *
69607206 GCTCTCATAATGT-GAC
129 G-ACACATAATGTAG-C
69607222 CGATGCATGTCCCAGACATGTCTTACACTAGCT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT
69607255 CACGATAACC
Statistics
Matches: 146, Mismatches: 21, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
138 34 0.23
139 2 0.01
140 54 0.37
141 14 0.10
142 10 0.07
143 13 0.09
144 15 0.10
145 4 0.03
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (143 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTATCATCATCGAGGCCGACGCCATGTCCCAGA
CATGGTATTACACTAGCTCTCGCATACAATGCCGATGCCATGTCCCAGACATGGTCTTACACTGA
CACATAATGTAGC
Found at i:69607725 original size:19 final size:18
Alignment explanation
Indices: 69607684--69607726 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
69607674 AGCAACCCCA
69607684 AATTT-CCACTATTTCAC
1 AATTTACCACTATTTCAC
*
69607701 ACATTTACCACTTATTTTAC
1 A-ATTTACCAC-TATTTCAC
69607721 AATTTA
1 AATTTA
69607727 TACAAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 4 0.18
19 9 0.41
20 8 0.36
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTTACCACTATTTCAC
Found at i:69616476 original size:13 final size:13
Alignment explanation
Indices: 69616458--69616484 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69616448 AAAGGGCGGA
69616458 GTATGAAGCGATG
1 GTATGAAGCGATG
69616471 GTATGAAGCGATG
1 GTATGAAGCGATG
69616484 G
1 G
69616485 CTTCAAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.41, T:0.22
Consensus pattern (13 bp):
GTATGAAGCGATG
Found at i:69618614 original size:140 final size:140
Alignment explanation
Indices: 69618357--69618616 Score: 332
Period size: 140 Copynumber: 1.9 Consensus size: 140
69618347 TGATTTGTGC
* *
69618357 GCCAGTGTAAGACATGTCTGGGACATGTCATCGGCATCCAGACGAGGGCTAGTGTAAGACATGTC
1 GCCAGTGTAAGACATGTCTGGGACACGTCATCGGCATCAAGACGAGGGCTAGTGTAAGACATGTC
* * * * *
69618422 TGGGACATGCTTCAGCCATATTATGAGTGCCAGAGTAAGACATTTCTAGGACATGCATTATCCTC
66 TGGCACATGCATCAACCATATTATGAGAGCCAGAGTAAGACATGTCTAGGACATGCATTATCCTC
69618487 GACAGAGGTA
131 GACAGAGGTA
* * *
69618497 GCCAGTGTAAGACGTGTCTGGGACACG-CATCGGC-T-AAGA-GTTGTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACATGTCTGGGACACGTCATCGGCATCAAGACG-AGGGCTAGTGTAAGACATGT
* *
69618558 CTGGCACATGCATCAACACGCATA-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATG
65 CTGGCACATGCATC-A-AC-CATATTATGAGAGCCAGAGTAAGA-CATGTCTAGGACATG
69618617 GCATCGGTAA
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
136 1 0.01
137 33 0.32
138 2 0.02
139 25 0.24
140 42 0.41
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACACGTCATCGGCATCAAGACGAGGGCTAGTGTAAGACATGTC
TGGCACATGCATCAACCATATTATGAGAGCCAGAGTAAGACATGTCTAGGACATGCATTATCCTC
GACAGAGGTA
Found at i:69622136 original size:58 final size:57
Alignment explanation
Indices: 69621987--69622137 Score: 146
Period size: 57 Copynumber: 2.6 Consensus size: 57
69621977 TTCGTATAAT
* * * * *
69621987 AGGATTACCAGTTCAGGCTAAATCCTTTATATAACGTATGCTCATAAAAGTTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTCAGAAAAGTTCAATC
* * * * *
69622044 AGGATTACCAGTCCAGGCTAAACCCTAATC-ATAACATATGCTC-GAGAGGTATTATATC
1 AGGATTACCAGTCCAGGCTAAATCCT-TTCTATAACATATGCTCAGAAAAGT-TCA-ATC
*
69622102 AGGATTACTCA-TCGAGGCTAAATCCTTTCTATAACA
1 AGGATTAC-CAGTCCAGGCTAAATCCTTTCTATAACA
69622138 AGGTCAATAA
Statistics
Matches: 76, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
56 4 0.05
57 40 0.53
58 30 0.39
59 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCTTTCTATAACATATGCTCAGAAAAGTTCAATC
Found at i:69631683 original size:12 final size:12
Alignment explanation
Indices: 69631666--69631695 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
69631656 GTCACACGGG
69631666 CGTGTGGCTGGC
1 CGTGTGGCTGGC
*
69631678 CGTGTGGGTGGC
1 CGTGTGGCTGGC
69631690 CGTGTG
1 CGTGTG
69631696 CGAGAGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.53, T:0.27
Consensus pattern (12 bp):
CGTGTGGCTGGC
Found at i:69633312 original size:43 final size:42
Alignment explanation
Indices: 69633250--69633380 Score: 149
Period size: 43 Copynumber: 3.0 Consensus size: 42
69633240 TCTGTTAATG
* * *
69633250 TTAGCGGCGCTTTTCCCACAAACGCAGTTAAAGAACATGATCT
1 TTAGCGGCACTTTTACCACAAACGCA-CTAAAGAACATGATCT
* *
69633293 TTAGCGGCACTTTTACCACAATCGCCACTAAAGAATATGATCT
1 TTAGCGGCACTTTTACCACAAACG-CACTAAAGAACATGATCT
*
69633336 TTAGCGGCA-TTCTTACTACAAATAC-CACTAAAGAACATGATCT
1 TTAGCGGCACTT-TTACCAC-AA-ACGCACTAAAGAACATGATCT
69633379 TT
1 TT
69633381 TGCAGCGATT
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
42 2 0.03
43 69 0.91
44 4 0.05
45 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (42 bp):
TTAGCGGCACTTTTACCACAAACGCACTAAAGAACATGATCT
Found at i:69641620 original size:22 final size:22
Alignment explanation
Indices: 69641569--69641635 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
69641559 AGACTCACCA
* *
69641569 CAACTCGTATGGGCTTACCGTTT
1 CAACTCTTATGAGCTTACCG-TT
* *
69641592 CAGCTCTTATGAGCTTATCGTT
1 CAACTCTTATGAGCTTACCGTT
69641614 CAACTCTT-TGGAGCTTACCGTT
1 CAACTCTTAT-GAGCTTACCGTT
69641636 TCAGTCTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 1 0.03
22 20 0.54
23 16 0.43
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.37
Consensus pattern (22 bp):
CAACTCTTATGAGCTTACCGTT
Found at i:69641643 original size:22 final size:22
Alignment explanation
Indices: 69641581--69641704 Score: 89
Period size: 22 Copynumber: 5.5 Consensus size: 22
69641571 ACTCGTATGG
69641581 GCTTACCGTTTCAGCTCTTAT-GA
1 GCTTACCGTTTCAG-TCTT-TGGA
* *
69641604 GCTTATCG-TTCAACTCTTTGGA
1 GCTTACCGTTTC-AGTCTTTGGA
*
69641626 GCTTACCGTTTCAGTCTTTAGGG
1 GCTTACCGTTTCAGTCTTT-GGA
69641649 GCTTACCGTTTCAG-CTTTACGGA
1 GCTTACCGTTTCAGTCTTT--GGA
*
69641672 GCCTT-CCG-TTCAGCTCAATT-GA
1 G-CTTACCGTTTCAG-TC-TTTGGA
69641694 GCTTACCGTTT
1 GCTTACCGTTT
69641705 ATCGGCTCAG
Statistics
Matches: 82, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
21 4 0.05
22 37 0.45
23 35 0.43
24 4 0.05
25 2 0.02
ACGTcount: A:0.16, C:0.26, G:0.20, T:0.38
Consensus pattern (22 bp):
GCTTACCGTTTCAGTCTTTGGA
Found at i:69641920 original size:25 final size:25
Alignment explanation
Indices: 69641892--69641939 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
69641882 CTTACATGAA
69641892 TTACAT-G-TTATATGGATTATAAGGT
1 TTACATGGATTATAT-G-TTATAAGGT
69641917 TTACATGGATTATATGTTATAAG
1 TTACATGGATTATATGTTATAAG
69641940 AGTACACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 13 0.62
26 2 0.10
27 6 0.29
ACGTcount: A:0.33, C:0.04, G:0.19, T:0.44
Consensus pattern (25 bp):
TTACATGGATTATATGTTATAAGGT
Found at i:69647824 original size:14 final size:16
Alignment explanation
Indices: 69647805--69647839 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
69647795 TAAGTTACTA
69647805 AAATATAC-GGGA-TG
1 AAATATACGGGGAGTG
69647819 AAATATACGGGGAGTG
1 AAATATACGGGGAGTG
69647835 AAATA
1 AAATA
69647840 AAAATAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 4 0.21
16 7 0.37
ACGTcount: A:0.46, C:0.06, G:0.29, T:0.20
Consensus pattern (16 bp):
AAATATACGGGGAGTG
Found at i:69650013 original size:16 final size:16
Alignment explanation
Indices: 69649992--69650029 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
69649982 CAAAATCTCT
69649992 CCCCTCCCCCTCCCTC
1 CCCCTCCCCCTCCCTC
*
69650008 CCCCTCCCCCTCTCTC
1 CCCCTCCCCCTCCCTC
*
69650024 TCCCTC
1 CCCCTC
69650030 ATTATGTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.00, C:0.76, G:0.00, T:0.24
Consensus pattern (16 bp):
CCCCTCCCCCTCCCTC
Found at i:69654939 original size:51 final size:51
Alignment explanation
Indices: 69654863--69654965 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
69654853 CATAATAACC
69654863 CTTCAAAATAATATGGTGAGAAGTATCTTTATGCTTTTTAAAAATATGTTT
1 CTTCAAAATAATATGGTGAGAAGTATCTTTATGCTTTTTAAAAATATGTTT
69654914 CTTCAAAATAATATGGTGAGAAGTATCTTTATGCTTTTTAAAAATATGTTT
1 CTTCAAAATAATATGGTGAGAAGTATCTTTATGCTTTTTAAAAATATGTTT
69654965 C
1 C
69654966 ATGGAAGGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.43
Consensus pattern (51 bp):
CTTCAAAATAATATGGTGAGAAGTATCTTTATGCTTTTTAAAAATATGTTT
Found at i:69657098 original size:19 final size:20
Alignment explanation
Indices: 69657072--69657120 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
69657062 AAATTAATTA
69657072 TATATAATATTT-ATAAGTT
1 TATATAATATTTAATAAGTT
*
69657091 TTTATAAT-TTTAATAAGTT
1 TATATAATATTTAATAAGTT
69657110 TATATAA-ATTT
1 TATATAATATTT
69657121 TAGTATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (20 bp):
TATATAATATTTAATAAGTT
Found at i:69657182 original size:27 final size:28
Alignment explanation
Indices: 69657135--69657188 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
69657125 ATTTAATAAA
69657135 TTTTTTGATTTGTTTATATATTTTTATT
1 TTTTTTGATTTGTTTATATATTTTTATT
69657163 TTTTTCTGATTT-TTTA-ATATTTTTAT
1 TTTTT-TGATTTGTTTATATATTTTTAT
69657189 GAGAAAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.40
28 9 0.36
29 6 0.24
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.74
Consensus pattern (28 bp):
TTTTTTGATTTGTTTATATATTTTTATT
Found at i:69664286 original size:68 final size:68
Alignment explanation
Indices: 69664203--69664407 Score: 403
Period size: 68 Copynumber: 3.0 Consensus size: 68
69664193 TAGGCATCCG
69664203 TAGATTGAGGGAGCAAAACCAAGCTTTTATGTTTGAGATCGATTCAGAAAAAAAAAAATACAAAA
1 TAGATTGAGGGAGCAAAACCAAGCTTTTATGTTTGAGATCGATTCAGAAAAAAAAAAATACAAAA
69664268 TCT
66 TCT
69664271 TAGATTGAGGGAGCAAAACCAAGCTTTTATGTTTGAGATCGATTCAGAAAAAAAAAAATACAAAA
1 TAGATTGAGGGAGCAAAACCAAGCTTTTATGTTTGAGATCGATTCAGAAAAAAAAAAATACAAAA
69664336 TCT
66 TCT
69664339 TAGATTGAGGGAGCAAAACCAAGCTTTTATGTTTGAGATCGATTCAG-AAAAAAAAAATACAAAA
1 TAGATTGAGGGAGCAAAACCAAGCTTTTATGTTTGAGATCGATTCAGAAAAAAAAAAATACAAAA
69664403 TCT
66 TCT
69664406 TA
1 TA
69664408 CTGTTGTATT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 22 0.16
68 115 0.84
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.25
Consensus pattern (68 bp):
TAGATTGAGGGAGCAAAACCAAGCTTTTATGTTTGAGATCGATTCAGAAAAAAAAAAATACAAAA
TCT
Found at i:69680619 original size:18 final size:20
Alignment explanation
Indices: 69680577--69680613 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
69680567 ATATTTTATG
*
69680577 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
69680596 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
69680614 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:69682369 original size:46 final size:46
Alignment explanation
Indices: 69682317--69682590 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
69682307 AGTGTGCTCT
* *
69682317 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * *
69682363 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * * *
69682409 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAGC
* ** * *
69682455 ATGACGGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * *
69682501 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAGC
* * * *
69682547 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
69682591 TCATGTCAAA
Statistics
Matches: 206, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 205 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAGC
Found at i:69682474 original size:92 final size:92
Alignment explanation
Indices: 69682317--69682590 Score: 386
Period size: 92 Copynumber: 3.0 Consensus size: 92
69682307 AGTGTGCTCT
* * * * * *
69682317 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
69682382 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * * *
69682409 CTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
69682474 ACCATGGTTGAAAGATACCATGGCAGC
66 ACCATGGTTGAAAGATACCATGGCAGC
* * ** *
69682501 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
* * *
69682566 ACCATAGTTGAAAGACACTATGGCA
66 ACCATGGTTGAAAGATACCATGGCA
69682591 TCATGTCAAA
Statistics
Matches: 160, Mismatches: 22, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
92 160 1.00
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (92 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAG
ACCATGGTTGAAAGATACCATGGCAGC
Found at i:69682576 original size:138 final size:138
Alignment explanation
Indices: 69682332--69682595 Score: 386
Period size: 138 Copynumber: 1.9 Consensus size: 138
69682322 ATGAAATGTG
* **
69682332 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
* * * * * *
69682397 TACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
69682462 GAAATAAA
131 GAAATAAA
* *
69682470 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
* * *
69682535 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
66 TACCATGGCAACATGACATG-AAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATG
69682596 TCAAAGATAA
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 1 0.01
138 110 0.99
ACGTcount: A:0.39, C:0.16, G:0.25, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGG
GAAATAAA
Found at i:69683578 original size:16 final size:16
Alignment explanation
Indices: 69683548--69683581 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
69683538 TATTTACGGG
**
69683548 AACAAATATTTTTAAA
1 AACAAATATAATTAAA
69683564 AACAAATATAATTAAA
1 AACAAATATAATTAAA
69683580 AA
1 AA
69683582 ATTATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AACAAATATAATTAAA
Found at i:69683612 original size:14 final size:14
Alignment explanation
Indices: 69683570--69683615 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
69683560 TAAAAACAAA
69683570 TATAATTAAAAAAT
1 TATAATTAAAAAAT
69683584 TATTTAAATTAAAAAAT
1 TA--T-AATTAAAAAAT
*
69683601 TATAATTCAAAAAT
1 TATAATTAAAAAAT
69683615 T
1 T
69683616 TTCTTTCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 13 0.46
15 1 0.04
16 1 0.04
17 13 0.46
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (14 bp):
TATAATTAAAAAAT
Found at i:69700143 original size:35 final size:35
Alignment explanation
Indices: 69700097--69700168 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
69700087 TTCACCACAA
*
69700097 TACTCTATCGCCAAAAATAAAACTAGAAGAGAAAT
1 TACTCTATCGCCAAAAACAAAACTAGAAGAGAAAT
*
69700132 TACTCTATCGCCAAAAACAGAACTAGAAGAGAAAT
1 TACTCTATCGCCAAAAACAAAACTAGAAGAGAAAT
69700167 TA
1 TA
69700169 AACCTCTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.19
Consensus pattern (35 bp):
TACTCTATCGCCAAAAACAAAACTAGAAGAGAAAT
Found at i:69702291 original size:20 final size:21
Alignment explanation
Indices: 69702263--69702301 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
69702253 AACATTAATT
*
69702263 TAATGAAAG-TTTTTAAAAAA
1 TAATGAAAGATATTTAAAAAA
*
69702283 TAATTAAAGATATTTAAAA
1 TAATGAAAGATATTTAAAA
69702302 TGGGCAAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (21 bp):
TAATGAAAGATATTTAAAAAA
Found at i:69704540 original size:34 final size:34
Alignment explanation
Indices: 69704502--69704598 Score: 79
Period size: 34 Copynumber: 3.1 Consensus size: 34
69704492 GACTATGATT
69704502 ATCCATTACGCATTTAACGAGATTAAATGATAAA
1 ATCCATTACGCATTTAACGAGATTAAATGATAAA
* * * * *
69704536 ATCCAATA---A--T-ATGTGACT--ATGAT--T
1 ATCCATTACGCATTTAACGAGATTAAATGATAAA
69704560 ATCCATTACGCATTTAACGAGATTAAATGATAAA
1 ATCCATTACGCATTTAACGAGATTAAATGATAAA
69704594 ATCCA
1 ATCCA
69704599 ATAATATGTG
Statistics
Matches: 43, Mismatches: 10, Indels: 20
0.59 0.14 0.27
Matches are distributed among these distances:
24 7 0.16
26 5 0.12
27 1 0.02
28 5 0.12
29 2 0.05
30 5 0.12
31 1 0.02
32 5 0.12
34 12 0.28
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.31
Consensus pattern (34 bp):
ATCCATTACGCATTTAACGAGATTAAATGATAAA
Found at i:69704561 original size:58 final size:58
Alignment explanation
Indices: 69704471--69704644 Score: 348
Period size: 58 Copynumber: 3.0 Consensus size: 58
69704461 TACCTCATAC
69704471 TGATAAAATCCAATAATATGTGACTATGATTATCCATTACGCATTTAACGAGATTAAA
1 TGATAAAATCCAATAATATGTGACTATGATTATCCATTACGCATTTAACGAGATTAAA
69704529 TGATAAAATCCAATAATATGTGACTATGATTATCCATTACGCATTTAACGAGATTAAA
1 TGATAAAATCCAATAATATGTGACTATGATTATCCATTACGCATTTAACGAGATTAAA
69704587 TGATAAAATCCAATAATATGTGACTATGATTATCCATTACGCATTTAACGAGATTAAA
1 TGATAAAATCCAATAATATGTGACTATGATTATCCATTACGCATTTAACGAGATTAAA
69704645 CGTTTATCTA
Statistics
Matches: 116, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 116 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (58 bp):
TGATAAAATCCAATAATATGTGACTATGATTATCCATTACGCATTTAACGAGATTAAA
Found at i:69710069 original size:27 final size:27
Alignment explanation
Indices: 69710037--69710108 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
69710027 ACACGCTATA
** *
69710037 AAAGGAATGCCTTTGTGGTAATATACG
1 AAAGGAATGCCTTCATGGAAATATACG
*
69710064 AAAGGAATGCCTTCATGGAAATATATG
1 AAAGGAATGCCTTCATGGAAATATACG
69710091 AAAGGAATGCCTTCATGG
1 AAAGGAATGCCTTCATGG
69710109 CAAACTCTGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (27 bp):
AAAGGAATGCCTTCATGGAAATATACG
Found at i:69710119 original size:27 final size:28
Alignment explanation
Indices: 69710037--69710136 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 28
69710027 ACACGCTATA
** * *
69710037 AAAGGAATGCCTTTGTGG-TAATATACG
1 AAAGGAATGCCTTCATGGCAAATATATG
69710064 AAAGGAATGCCTTCATGG-AAATATATG
1 AAAGGAATGCCTTCATGGCAAATATATG
* *
69710091 AAAGGAATGCCTTCATGGCAAA-CTCTG
1 AAAGGAATGCCTTCATGGCAAATATATG
* *
69710118 AAGGGAATGCCTTGATGGC
1 AAAGGAATGCCTTCATGGC
69710137 TTACTCTATA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 61 0.95
28 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (28 bp):
AAAGGAATGCCTTCATGGCAAATATATG
Found at i:69712505 original size:45 final size:45
Alignment explanation
Indices: 69712455--69712587 Score: 239
Period size: 45 Copynumber: 3.0 Consensus size: 45
69712445 TCCAAAACAT
* *
69712455 ATGTCATATATATCACGAACTCAGACCACAACTCAATGAGTTCGA
1 ATGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGA
69712500 ATGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGA
1 ATGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGA
*
69712545 ATGTCACATATATCATGAACTCAGACCACAGCTCAATGAGTTC
1 ATGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTC
69712588 ATATTACATA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (45 bp):
ATGTCACATATATCATGAACTCAGACCACAACTCAATGAGTTCGA
Found at i:69712517 original size:24 final size:24
Alignment explanation
Indices: 69712490--69712562 Score: 57
Period size: 24 Copynumber: 3.2 Consensus size: 24
69712480 CCACAACTCA
69712490 ATGAGTTCGAATGTCACATATATC
1 ATGAGTTCGAATGTCACATATATC
** * *
69712514 ATGAACTC--A-GACCACA-A-CTC
1 ATGAGTTCGAATG-TCACATATATC
69712534 AATGAGTTCGAATGTCACATATATC
1 -ATGAGTTCGAATGTCACATATATC
69712559 ATGA
1 ATGA
69712563 ACTCAGACCA
Statistics
Matches: 34, Mismatches: 8, Indels: 14
0.61 0.14 0.25
Matches are distributed among these distances:
20 2 0.06
21 8 0.24
22 5 0.15
23 5 0.15
24 12 0.35
25 2 0.06
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (24 bp):
ATGAGTTCGAATGTCACATATATC
Found at i:69717020 original size:18 final size:18
Alignment explanation
Indices: 69716992--69717037 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
69716982 TAATATTAAG
69716992 AATTCTTTAAAAAATATCT
1 AATT-TTTAAAAAATATCT
* *
69717011 -ATTTTTTAAAAATATTT
1 AATTTTTAAAAAATATCT
69717028 AATTTTTAAA
1 AATTTTTAAA
69717038 TAATCTCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTTTTAAAAAATATCT
Found at i:69717740 original size:21 final size:20
Alignment explanation
Indices: 69717699--69717745 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
69717689 ATGTGTTGAA
69717699 ACAATATATTTAAAAAATAT
1 ACAATATATTTAAAAAATAT
*
69717719 A-AATATGTTTAAAAATAATAT
1 ACAATATATTT-AAAA-AATAT
69717740 ACAATA
1 ACAATA
69717746 AATAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 8 0.35
20 5 0.22
21 6 0.26
22 4 0.17
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (20 bp):
ACAATATATTTAAAAAATAT
Found at i:69722267 original size:25 final size:25
Alignment explanation
Indices: 69722079--69722267 Score: 77
Period size: 25 Copynumber: 7.6 Consensus size: 25
69722069 AAGCTCTTTC
* * * *
69722079 GAGCCATATAACGGGACGCTCATGT
1 GAGCCATATATCGGGAAGCTCAAGA
* * * *
69722104 GAGCCATGTAACAGGAAGCTTATA-A
1 GAGCCATATATCGGGAAGCTCA-AGA
** * *
69722129 GAGCTGTA-ATCGGGAAGCTCATGC
1 GAGCCATATATCGGGAAGCTCAAGA
* ** *
69722153 GAGCCA-ATATCGAGAAGCTTTATA
1 GAGCCATATATCGGGAAGCTCAAGA
* *
69722177 GAGCCAT-TAATCGAGAAGCTCATGA
1 GAGCCATAT-ATCGGGAAGCTCAAGA
* ** *
69722202 GAGCTA-ATTATTTGGAAGCTCGCA-A
1 GAGCCATA-TATCGGGAAGCTC-AAGA
*
69722227 GAGCCAAATAAT-GGGAAGCTCAAGA
1 GAGCCATAT-ATCGGGAAGCTCAAGA
69722252 GAGCCATATATCGGGA
1 GAGCCATATATCGGGA
69722268 TGGTCATAAG
Statistics
Matches: 116, Mismatches: 36, Indels: 24
0.66 0.20 0.14
Matches are distributed among these distances:
23 1 0.01
24 34 0.29
25 77 0.66
26 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (25 bp):
GAGCCATATATCGGGAAGCTCAAGA
Found at i:69730160 original size:26 final size:26
Alignment explanation
Indices: 69730131--69730197 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
69730121 AATATATGGT
*
69730131 TCTTCGTGAGCTTCCTGATTAAAGGA
1 TCTTTGTGAGCTTCCTGATTAAAGGA
* ** * *
69730157 TCTTTGTGAGTTTTTTGATTAATGGC
1 TCTTTGTGAGCTTCCTGATTAAAGGA
69730183 TCTTTG-GAGCTTCCT
1 TCTTTGTGAGCTTCCT
69730198 AATATGGCTC
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.45
Consensus pattern (26 bp):
TCTTTGTGAGCTTCCTGATTAAAGGA
Found at i:69730262 original size:24 final size:24
Alignment explanation
Indices: 69730235--69730280 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
69730225 TATGGTTATC
*
69730235 CGGAGCTTCCCGTTAATGGCTCTT
1 CGGAGCTACCCGTTAATGGCTCTT
* *
69730259 CGGAGCTACCTGTTATTGGCTC
1 CGGAGCTACCCGTTAATGGCTC
69730281 GCATGAGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.28, G:0.26, T:0.33
Consensus pattern (24 bp):
CGGAGCTACCCGTTAATGGCTCTT
Found at i:69730288 original size:24 final size:24
Alignment explanation
Indices: 69730261--69730322 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
69730251 TGGCTCTTCG
*
69730261 GAGCTACCTGTTATTGGCTCGCAT
1 GAGCTTCCTGTTATTGGCTCGCAT
**
69730285 GAGCTTCCTGATTA-TGGCTCTTAT
1 GAGCTTCCTG-TTATTGGCTCGCAT
69730309 GAGCTTCCTGTTAT
1 GAGCTTCCTGTTAT
69730323 ATAGCCTGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 3 0.09
24 27 0.82
25 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.39
Consensus pattern (24 bp):
GAGCTTCCTGTTATTGGCTCGCAT
Found at i:69740916 original size:25 final size:25
Alignment explanation
Indices: 69740884--69740944 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
69740874 GCATGTAAAC
*
69740884 CGGG-AGCTCTTCTGAGCCATATAA
1 CGGGAAGCTCATCTGAGCCATATAA
* *
69740908 CGGGAAGCTCATGTGAGCCATGTAA
1 CGGGAAGCTCATCTGAGCCATATAA
*
69740933 CAGGAAGCTCAT
1 CGGGAAGCTCAT
69740945 AAGAGCCGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCATCTGAGCCATATAA
Found at i:69740950 original size:25 final size:25
Alignment explanation
Indices: 69740897--69740951 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
69740887 GAGCTCTTCT
* **
69740897 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATAA
*
69740922 GAGCCATGTAACAGGAAGCTCATAA
1 GAGCCATATAACAGGAAGCTCATAA
69740947 GAGCC
1 GAGCC
69740952 GTAATGCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.22, G:0.27, T:0.16
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATAA
Found at i:69744808 original size:40 final size:40
Alignment explanation
Indices: 69744764--69745027 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
69744754 GCTCCTCGTT
* *
69744764 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
69744804 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
69744844 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
69744884 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
69744924 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
69744963 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
69745004 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69745028 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:69769546 original size:176 final size:177
Alignment explanation
Indices: 69769348--69769673 Score: 474
Period size: 176 Copynumber: 1.8 Consensus size: 177
69769338 TCCGTTAATC
* *
69769348 CCAGAAACTAGACTCACATATATTCTTACCATAAAATTTTTAGAATTTCTGGTTTAGCCAATTAG
1 CCAGAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTCTGGTTTAGCCAATTAG
* * ** *
69769413 TATAGTTTATTCATTAAAGTTACCCCTGTTTCACTATCTAACAG-NACCGCTCTTCACTAAAAAT
66 TACAATTTATTCATTAAAAATACCCCTGTTTCACTATCTAACAGTAACCGCTCTTCACTAAAAAT
69769477 TATTTATCTCATGGTACGAGACTCAAAATTAAGAACCGCTAATTTTT
131 TATTTATCTCATGGTACGAGACTCAAAATTAAGAACCGCTAATTTTT
* * *
69769524 CCAGAAACTAGATTCGCATATATTATTACCATAAAATTTTCAGAATTTTTGGTTTAGCCAATTAG
1 CCAGAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTCTGGTTTAGCCAATTAG
* * * **
69769589 TACAATTTATTCATTAAAAATACCCTTGTTTCACTGTCTAACAGTTCTAATCTTTCTTCACTAAA
66 TACAATTTATTCATTAAAAATACCCCTGTTTCACTATCTAACAG---TAACCGCTCTTCACTAAA
*
69769654 ATTTATTTATCTCATGGTAC
128 AATTATTTATCTCATGGTAC
69769674 AGATATCGGA
Statistics
Matches: 130, Mismatches: 16, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
176 98 0.75
180 32 0.25
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (177 bp):
CCAGAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTCTGGTTTAGCCAATTAG
TACAATTTATTCATTAAAAATACCCCTGTTTCACTATCTAACAGTAACCGCTCTTCACTAAAAAT
TATTTATCTCATGGTACGAGACTCAAAATTAAGAACCGCTAATTTTT
Found at i:69770027 original size:17 final size:18
Alignment explanation
Indices: 69769996--69770030 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
69769986 TCCAAAATTG
69769996 TTTTATTACAAAATTTCA
1 TTTTATTACAAAATTTCA
*
69770014 TTTT-TTACATAATTTCA
1 TTTTATTACAAAATTTCA
69770031 CTTACTCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTATTACAAAATTTCA
Found at i:69770308 original size:50 final size:50
Alignment explanation
Indices: 69770252--69770525 Score: 300
Period size: 50 Copynumber: 5.4 Consensus size: 50
69770242 CATAGTAGAT
* ** * *
69770252 TGCACTTAGTACTACACATGCGACCTATGAATCTGGTACATGTAGTAGCC
1 TGCACTTAGTACTACACATGTGACCTAACAATCTGATACACGTAGTAGCC
* *
69770302 TGCACTTAGTACTACATATGTGACC-AATCAATCCGATACACGTAGTAGCC
1 TGCACTTAGTACTACACATGTGACCTAA-CAATCTGATACACGTAGTAGCC
* * * *
69770352 TGCACTTAGTACTACACACGTGACCTAACTATCTGATACACATAGTAGCT
1 TGCACTTAGTACTACACATGTGACCTAACAATCTGATACACGTAGTAGCC
* * * *
69770402 TGCACTTAGTACTACATATGCGACCTAACAATCTGGTACACGTAGTATCC
1 TGCACTTAGTACTACACATGTGACCTAACAATCTGATACACGTAGTAGCC
* * * *
69770452 TGCACTTAGTACTACACACGTGACCTAA-AACTGTCTTAAACACATAGTAGCC
1 TGCACTTAGTACTACACATGTGACCTAACAA---TCTGATACACGTAGTAGCC
** *
69770504 TGGGCATAGTACTACACATGTG
1 TGCACTTAGTACTACACATGTG
69770526 TTCTCACAAT
Statistics
Matches: 186, Mismatches: 33, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
49 3 0.02
50 149 0.80
51 2 0.01
52 32 0.17
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
TGCACTTAGTACTACACATGTGACCTAACAATCTGATACACGTAGTAGCC
Found at i:69770417 original size:100 final size:100
Alignment explanation
Indices: 69770252--69770525 Score: 334
Period size: 100 Copynumber: 2.7 Consensus size: 100
69770242 CATAGTAGAT
* * *** * **
69770252 TGCACTTAGTACTACACATGCGACCTATGAATCTGGTACATGTAGTAGCCTGCACTTAGTACTAC
1 TGCACTTAGTACTACACACGTGACCTAACTATCTGATACACATAGTAGCCTGCACTTAGTACTAC
69770317 ATATGTGACC-AATCAATCCGATACACGTAGTAGCC
66 ATATGTGACCTAA-CAATCCGATACACGTAGTAGCC
*
69770352 TGCACTTAGTACTACACACGTGACCTAACTATCTGATACACATAGTAGCTTGCACTTAGTACTAC
1 TGCACTTAGTACTACACACGTGACCTAACTATCTGATACACATAGTAGCCTGCACTTAGTACTAC
* * * *
69770417 ATATGCGACCTAACAATCTGGTACACGTAGTATCC
66 ATATGTGACCTAACAATCCGATACACGTAGTAGCC
* * * ** *
69770452 TGCACTTAGTACTACACACGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGGGCATAGTACT
1 TGCACTTAGTACTACACACGTGACCT--AACTATCTGATACACATAGTAGCCTGCACTTAGTACT
*
69770517 ACACATGTG
64 ACATATGTG
69770526 TTCTCACAAT
Statistics
Matches: 149, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
100 110 0.74
101 2 0.01
102 37 0.25
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (100 bp):
TGCACTTAGTACTACACACGTGACCTAACTATCTGATACACATAGTAGCCTGCACTTAGTACTAC
ATATGTGACCTAACAATCCGATACACGTAGTAGCC
Found at i:69776912 original size:18 final size:18
Alignment explanation
Indices: 69776891--69776933 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
69776881 ATTATTATAT
69776891 TTATTATCATTATTCTTA
1 TTATTATCATTATTCTTA
** *
69776909 TTATTATTTTTATTCTTG
1 TTATTATCATTATTCTTA
69776927 TTATTAT
1 TTATTAT
69776934 TCCTGCTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATTATCATTATTCTTA
Found at i:69776934 original size:18 final size:18
Alignment explanation
Indices: 69776900--69776934 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
69776890 TTTATTATCA
69776900 TTATTCTTATTATTATTT
1 TTATTCTTATTATTATTT
*
69776918 TTATTCTTGTTATTATT
1 TTATTCTTATTATTATT
69776935 CCTGCTCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
TTATTCTTATTATTATTT
Found at i:69788120 original size:6 final size:6
Alignment explanation
Indices: 69788109--69788159 Score: 57
Period size: 6 Copynumber: 7.8 Consensus size: 6
69788099 TTTGAGTCTA
*
69788109 TTTATT TTTATT ATTAGTT TTTATT TTTATTTT GTTTATT TTTATT TTTAT
1 TTTATT TTTATT TTTA-TT TTTATT TTTA--TT -TTTATT TTTATT TTTAT
69788160 AGACTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
6 26 0.67
7 7 0.18
8 2 0.05
9 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:69790393 original size:50 final size:50
Alignment explanation
Indices: 69790316--69790544 Score: 232
Period size: 50 Copynumber: 4.6 Consensus size: 50
69790306 ATTGTGAATA
** *
69790316 CACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
* * * **
69790366 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGT
* * * *
69790417 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGT
* * * * *
69790467 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
*
69790516 CGCATGTGTAGTACTAAGTGCAGGCTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACT
69790545 GTGCGTATTA
Statistics
Matches: 151, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 31 0.21
50 76 0.50
51 35 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGT
Found at i:69797318 original size:50 final size:50
Alignment explanation
Indices: 69797245--69797470 Score: 217
Period size: 50 Copynumber: 4.5 Consensus size: 50
69797235 TGAATACATG
* * *
69797245 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAACTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * * * * *
69797295 TGTGTAGTACTAAGTGCTGGCTACTATGCGTACTCAATAACT-TTGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * * * * *
69797346 TCTGTAGTACTAAGTGCAGGCTACTACATGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
69797396 TGTGTAGTACTAAGTGCAGGCTACTACGTCTACCAGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
69797445 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
69797471 TGCGTATTAG
Statistics
Matches: 145, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 1 0.01
49 33 0.23
50 71 0.49
51 32 0.22
52 4 0.03
53 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:69804362 original size:50 final size:50
Alignment explanation
Indices: 69804287--69804512 Score: 235
Period size: 50 Copynumber: 4.5 Consensus size: 50
69804277 TGAATACACG
* *
69804287 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * * ** *
69804337 TGTGTAGTACTAAGTACAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTAAGTCACA
* * ** *
69804388 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGA-TGGCGAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
69804438 TGTGTAGTACTAAGTGCAGGTTACTACGTGTACCAGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
69804487 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
69804513 TGCGTATAAG
Statistics
Matches: 144, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 32 0.22
50 70 0.49
51 33 0.23
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:69804642 original size:27 final size:26
Alignment explanation
Indices: 69804612--69804663 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
69804602 GGAAAAATCG
69804612 ATAAAGTGGTAGTATGTG-AAAGTTATT
1 ATAAAGTGG-A-TATGTGCAAAGTTATT
* *
69804639 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
69804664 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 6 0.27
26 8 0.36
27 8 0.36
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:69806135 original size:30 final size:30
Alignment explanation
Indices: 69806084--69806141 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
69806074 CTTTCAGGAT
*
69806084 CCACACGGGCTGAGCACACGCCCGTGTGAG
1 CCACACGGGCTGAGCACACGCCCATGTGAG
*
69806114 CCACACGGGCTG-GCCATACGCCCATGTG
1 CCACACGGGCTGAG-CACACGCCCATGTG
69806142 CTAGCCGTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.19, C:0.38, G:0.31, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTGAGCACACGCCCATGTGAG
Found at i:69808983 original size:46 final size:45
Alignment explanation
Indices: 69808933--69809108 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
69808923 TGTTTGGGCA
69808933 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
69808979 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
69809026 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
69809072 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69809109 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:69809088 original size:93 final size:93
Alignment explanation
Indices: 69808929--69809100 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
69808919 AGGATGTTTG
* *
69808929 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
69808994 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
69809022 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
69809087 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
69809101 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:69812072 original size:15 final size:15
Alignment explanation
Indices: 69812033--69812112 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
69812023 GTATCTTGGG
*
69812033 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
69812048 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
69812063 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
69812078 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
69812093 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
69812107 TTTCTT
1 TTTCTT
69812113 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:69812102 original size:30 final size:30
Alignment explanation
Indices: 69812024--69812111 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
69812014 CATAGTATCG
* * *
69812024 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
69812054 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
69812084 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
69812112 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:69824952 original size:24 final size:24
Alignment explanation
Indices: 69824925--69824970 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
69824915 GACGAAACAG
69824925 TACGATTTGCTGCTGTCAAAACCC
1 TACGATTTGCTGCTGTCAAAACCC
69824949 TACGATTTGCTGCTGTCAAAAC
1 TACGATTTGCTGCTGTCAAAAC
69824971 TCAAGAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (24 bp):
TACGATTTGCTGCTGTCAAAACCC
Found at i:69827515 original size:47 final size:47
Alignment explanation
Indices: 69827391--69827693 Score: 471
Period size: 47 Copynumber: 6.4 Consensus size: 47
69827381 CAGCCAAGGG
* * * **
69827391 AGTGTATATGTGTAATAAGGCCTAATAGCCGAAATGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
69827438 AGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTA--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
69827487 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
69827534 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
69827581 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
69827628 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
69827675 AGTGTATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
69827694 TCCCGAAGGG
Statistics
Matches: 239, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
47 197 0.82
49 42 0.18
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:69827868 original size:37 final size:37
Alignment explanation
Indices: 69827812--69827886 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
69827802 CCGAGCTCTA
* * *
69827812 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
69827849 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
69827886 A
1 A
69827887 GGACTTCGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:69829806 original size:43 final size:43
Alignment explanation
Indices: 69829758--69829860 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
69829748 TTGGTTTTCA
69829758 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
69829801 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
69829844 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
69829861 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:69829903 original size:20 final size:20
Alignment explanation
Indices: 69829878--69829917 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
69829868 GCATGGCACT
69829878 AAGTGTGCGAGTTTAAAGTA
1 AAGTGTGCGAGTTTAAAGTA
*
69829898 AAGTGTGTGAGTTTAAAGTA
1 AAGTGTGCGAGTTTAAAGTA
69829918 CATGGCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (20 bp):
AAGTGTGCGAGTTTAAAGTA
Found at i:69830755 original size:40 final size:40
Alignment explanation
Indices: 69830248--69830748 Score: 667
Period size: 40 Copynumber: 12.7 Consensus size: 40
69830238 TCGAATGATG
* * * *
69830248 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
69830288 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830328 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830367 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830407 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830446 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830486 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830525 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830565 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830604 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69830644 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69830683 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
69830724 -CCGGGCTATGTCCCGAAGGAATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69830749 AACGAGTAGC
Statistics
Matches: 402, Mismatches: 50, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
39 173 0.43
40 219 0.54
41 10 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69830781 original size:79 final size:79
Alignment explanation
Indices: 69830302--69830720 Score: 838
Period size: 79 Copynumber: 5.3 Consensus size: 79
69830292 GACTAAGATT
69830302 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
69830367 TCCGGGTTAAGTCC
66 TCCGGGTTAAGTCC
69830381 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
69830446 TCCGGGTTAAGTCC
66 TCCGGGTTAAGTCC
69830460 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
69830525 TCCGGGTTAAGTCC
66 TCCGGGTTAAGTCC
69830539 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
69830604 TCCGGGTTAAGTCC
66 TCCGGGTTAAGTCC
69830618 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
69830683 TCCGGGTTAAGTCC
66 TCCGGGTTAAGTCC
69830697 CGAAGGCATTTGTGCGAGTTACTA
1 CGAAGGCATTTGTGCGAGTTACTA
69830721 TAACCGGGCT
Statistics
Matches: 340, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 340 1.00
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
TCCGGGTTAAGTCC
Found at i:69830781 original size:237 final size:236
Alignment explanation
Indices: 69830285--69830781 Score: 820
Period size: 237 Copynumber: 2.1 Consensus size: 236
69830275 CTAAGTGACC
*
69830285 ATATCCGGACTAAGATT-CGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCA
1 ATATCCGG-TTAA-ATTCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCA
69830349 TTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGC
64 TTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGC
69830414 TAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
129 TAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
* * **
69830479 TACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACT
194 TACTAATACCGAGCTAAGCCCGAAGGAATTGGAACGAGTTACT
* * *
69830522 AAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCAT
1 ATATCC-GGTTAAATTCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCAT
69830587 TGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCT
65 TGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCT
69830652 AAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT
130 AAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTT
* * *
69830717 ACT-ATAACCGGGCTATGTCCCGAAGGAATTTGAACGAG-TAGCT
195 ACTAAT-ACCGAGCTAAG-CCCGAAGGAATTGGAACGAGTTA-CT
69830760 ATATCCGGTTAAATTCCGAAGG
1 ATATCCGGTTAAATTCCGAAGG
69830782 TACGTGATTC
Statistics
Matches: 241, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
236 3 0.01
237 213 0.88
238 25 0.10
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (236 bp):
ATATCCGGTTAAATTCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATT
GGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGAGCTA
AGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA
CTAATACCGAGCTAAGCCCGAAGGAATTGGAACGAGTTACT
Found at i:69842672 original size:40 final size:40
Alignment explanation
Indices: 69842572--69842836 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
69842562 GCTCCTCGTT
* * * *
69842572 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
69842612 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
69842651 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
69842691 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
69842731 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
69842771 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
69842812 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
69842837 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:69842796 original size:80 final size:80
Alignment explanation
Indices: 69842539--69842836 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
69842529 AAATCACGTA
* ** * * *
69842539 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
69842601 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
69842617 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
69842680 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
69842697 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
69842761 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
69842777 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
69842837 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:69842845 original size:41 final size:41
Alignment explanation
Indices: 69842768--69842845 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
69842758 TTTGTATCTC
* * *
69842768 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
69842809 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
69842846 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:69850401 original size:39 final size:40
Alignment explanation
Indices: 69850301--69850404 Score: 156
Period size: 39 Copynumber: 2.6 Consensus size: 40
69850291 AGCCCGGTTA
* *
69850301 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
* *
69850341 TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGAAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
*
69850380 TAGTAACTCGCACAAACGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
69850405 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 33 0.57
40 25 0.43
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAAT
Found at i:69850441 original size:79 final size:80
Alignment explanation
Indices: 69850301--69850455 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
69850291 AGCCCGGTTA
* * * *
69850301 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGG
1 TAGTAACTCGCACAAACGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
69850366 G-CTTAGCCCGAAAT
66 GACTTAGCCCGAAAT
** * *
69850380 TAGTAACTCGCACAAACGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAACGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
69850443 GGGACTTAGCCCG
64 GGGACTTAGCCCG
69850456 GACATCATTC
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 3 0.05
79 49 0.75
80 13 0.20
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TAGTAACTCGCACAAACGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGG
GACTTAGCCCGAAAT
Found at i:69850457 original size:40 final size:40
Alignment explanation
Indices: 69850273--69850457 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
69850263 GCTACTCATT
* * *
69850273 CAAATGCCTTTGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
69850313 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
69850353 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * *
69850392 CAAACGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
69850433 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
69850458 CATCATTCGA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 28 0.23
40 76 0.62
41 14 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:69854218 original size:34 final size:34
Alignment explanation
Indices: 69854172--69854239 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
69854162 ATGGAAGTGG
69854172 GAAAGAGGAACAATGGACTTTGTGAGTGGGTTAC
1 GAAAGAGGAACAATGGACTTTGTGAGTGGGTTAC
*
69854206 GAAAGAGTAACAATGGACTTTGTGAGTGGGTTAC
1 GAAAGAGGAACAATGGACTTTGTGAGTGGGTTAC
69854240 CTTTGACACC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.09, G:0.34, T:0.25
Consensus pattern (34 bp):
GAAAGAGGAACAATGGACTTTGTGAGTGGGTTAC
Found at i:69857660 original size:47 final size:47
Alignment explanation
Indices: 69857591--69857683 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
69857581 GATTCAGAGT
*
69857591 GGCCATGAAGATTGATTGCCGGATTTAATAAGTTTAGCATTTAATTG
1 GGCCATGAAGATTGATTGCCGGATTTAATAAGTTTAGCATTGAATTG
69857638 GGCCATGAAGATTGATTGCCGGATTTAATAAGTTTAGCATTGAATT
1 GGCCATGAAGATTGATTGCCGGATTTAATAAGTTTAGCATTGAATT
69857684 TGGATTATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (47 bp):
GGCCATGAAGATTGATTGCCGGATTTAATAAGTTTAGCATTGAATTG
Found at i:69863458 original size:41 final size:41
Alignment explanation
Indices: 69863401--69863498 Score: 115
Period size: 41 Copynumber: 2.4 Consensus size: 41
69863391 AATGGGCCTT
* * * *
69863401 CTCACACAAGCTGTGGGTCAGAATACAGTTACATGATGCTG
1 CTCACACGAGCTGTGGGTCAGAACACAGCTACATGATGATG
* ** *
69863442 CTCACACGAGCTGTGGGTCGGAACGTAGCTACATGATGATT
1 CTCACACGAGCTGTGGGTCAGAACACAGCTACATGATGATG
*
69863483 CTCACATGAGCTGTGG
1 CTCACACGAGCTGTGG
69863499 AGTATCCACA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (41 bp):
CTCACACGAGCTGTGGGTCAGAACACAGCTACATGATGATG
Found at i:69868911 original size:9 final size:9
Alignment explanation
Indices: 69868899--69868939 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
69868889 ATTTGGCTTT
*
69868899 ATTTTAATT
1 ATTTTAATC
69868908 ATTTT-ATC
1 ATTTTAATC
69868916 ATTTTAATC
1 ATTTTAATC
*
69868925 ATTTT-ACC
1 ATTTTAATC
69868933 ATTTTAA
1 ATTTTAA
69868940 CCTTTACTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 14 0.50
9 14 0.50
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (9 bp):
ATTTTAATC
Found at i:69868921 original size:17 final size:17
Alignment explanation
Indices: 69868899--69868939 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
69868889 ATTTGGCTTT
* *
69868899 ATTTTAATTATTTTATC
1 ATTTTAATCATTTTACC
69868916 ATTTTAATCATTTTACC
1 ATTTTAATCATTTTACC
69868933 ATTTTAA
1 ATTTTAA
69868940 CCTTTACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTAATCATTTTACC
Found at i:69880963 original size:28 final size:28
Alignment explanation
Indices: 69880927--69880993 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
69880917 ACTCAGTGTA
*
69880927 CAAAATATTGAGAATGGCACTTAATGTG
1 CAAAATATTGAGAATGACACTTAATGTG
* * * *
69880955 CGAGATATTGTGAATGACACTTAGTGTG
1 CAAAATATTGAGAATGACACTTAATGTG
69880983 CAAAATATTGA
1 CAAAATATTGA
69880994 ATGATTAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.30
Consensus pattern (28 bp):
CAAAATATTGAGAATGACACTTAATGTG
Found at i:69881263 original size:40 final size:40
Alignment explanation
Indices: 69881074--69881296 Score: 224
Period size: 39 Copynumber: 5.7 Consensus size: 40
69881064 AATGGTGTTA
* * ** *
69881074 TATCCGGGC-T-AAGTCCCGAAGGCATTCGTGCTGGTGTTA
1 TATCCGGGCTTAAAGACCCGCAGGC-TTCGTGCTGGAATTG
* *
69881113 TATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* **
69881152 TATCCGGACTT-AAGGTCCGCAGGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* ** *
69881191 TATCCGGACTT-AAGGTCCGCAAGCTTCGTGCTGGAATTG
1 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
* * *
69881230 TATTCGGGCTTAAAGACCCGCAGGCTGT-ATGCTGGAATTA
1 TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCTGGAATTG
*
69881270 TATCCGGGCTTAAAGACCCGTAGGCTT
1 TATCCGGGCTTAAAGACCCGCAGGCTT
69881297 TGTGTTGGTG
Statistics
Matches: 161, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 102 0.63
40 58 0.36
41 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.28
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTG
Found at i:69887634 original size:28 final size:28
Alignment explanation
Indices: 69887565--69887637 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
69887555 TATGGTACTC
* *
69887565 AGTGTACAAAATATTGAGAATGGCACTT
1 AGTGTGCAAAATATTGAGAATGACACTT
* ** *
69887593 AATGTGTGAGATATTGAGAATGACACTT
1 AGTGTGCAAAATATTGAGAATGACACTT
69887621 AGTGTGCAAAATATTGA
1 AGTGTGCAAAATATTGA
69887638 ATGATTAAAT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (28 bp):
AGTGTGCAAAATATTGAGAATGACACTT
Found at i:69887758 original size:39 final size:39
Alignment explanation
Indices: 69887714--69887828 Score: 171
Period size: 39 Copynumber: 3.0 Consensus size: 39
69887704 TTTATAATGG
69887714 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGC
1 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGC
*
69887753 TGTTATATCCGGGCTAAG-CCCTGAAGGCATTCGTGCTGG
1 TGTTATATCCGGGCTAAGTCCC-GAAGGCATTCGTGCTGC
* * *
69887792 TGTTATATCTGGGCTAAGTCCCGTAGGC-TTTGTGCTG
1 TGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTG
69887829 GAATTGTATC
Statistics
Matches: 70, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
38 11 0.16
39 56 0.80
40 3 0.04
ACGTcount: A:0.17, C:0.23, G:0.30, T:0.31
Consensus pattern (39 bp):
TGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGC
Found at i:69887909 original size:40 final size:40
Alignment explanation
Indices: 69887824--69887932 Score: 123
Period size: 40 Copynumber: 2.8 Consensus size: 40
69887814 GTAGGCTTTG
* * ** * *
69887824 TGCTGGAATTGTATCC-GGATTTAAGGTCCGCAGGCTTCG
1 TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCA
69887863 TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGC-TCTA
1 TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTC-A
* *
69887903 TGCTGGAATTATATCAGGGCTTAAAGACCC
1 TGCTGGAATTGTATCCGGGCTTAAAGACCC
69887933 GTAGGCTTTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
39 18 0.30
40 42 0.70
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
TGCTGGAATTGTATCCGGGCTTAAAGACCCACAGGCTTCA
Found at i:69896284 original size:28 final size:29
Alignment explanation
Indices: 69896239--69896298 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 29
69896229 ACAAAGTCAT
*
69896239 CAGATACAGATATTTTGTGGCAGT-GCCAC
1 CAGATACAGATAATTTGTGGCA-TAGCCAC
69896268 CAGA-ACAGATAATTTGTGGCATAGCCAC
1 CAGATACAGATAATTTGTGGCATAGCCAC
69896296 CAG
1 CAG
69896299 GACGCTTCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 1 0.03
28 24 0.83
29 4 0.14
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (29 bp):
CAGATACAGATAATTTGTGGCATAGCCAC
Found at i:69896451 original size:28 final size:28
Alignment explanation
Indices: 69896404--69896468 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
69896394 AAATTAACCC
*
69896404 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
69896432 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
69896460 TAGGGGTAT
1 TAGGGGTAT
69896469 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:69904115 original size:28 final size:28
Alignment explanation
Indices: 69904083--69904137 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
69904073 GTCACTAAAT
*
69904083 ACAGATATTTTGTGGCAGT-GCCACCAGA
1 ACAGATAATTTGTGGCA-TAGCCACCAGA
69904111 ACAGATAATTTGTGGCATAGCCACCAG
1 ACAGATAATTTGTGGCATAGCCACCAG
69904138 GACGCTTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 24 0.96
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
ACAGATAATTTGTGGCATAGCCACCAGA
Found at i:69904290 original size:28 final size:28
Alignment explanation
Indices: 69904243--69904307 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
69904233 AAATTAACCC
*
69904243 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
69904271 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
69904299 TAGGGGTAT
1 TAGGGGTAT
69904308 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:69906188 original size:25 final size:25
Alignment explanation
Indices: 69906160--69906228 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
69906150 TTGTAAACGG
*
69906160 TAAGCTCCTCTGAGCTAAATAACAA
1 TAAGCTCCTCCGAGCTAAATAACAA
* * *
69906185 TAAGCTCCTCCGAGTTGAATAACAG
1 TAAGCTCCTCCGAGCTAAATAACAA
* *
69906210 TAAGCTCATACGAGCTAAA
1 TAAGCTCCTCCGAGCTAAA
69906229 ATCGGCAACC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (25 bp):
TAAGCTCCTCCGAGCTAAATAACAA
Found at i:69908262 original size:46 final size:46
Alignment explanation
Indices: 69908212--69908343 Score: 165
Period size: 47 Copynumber: 2.8 Consensus size: 46
69908202 CTGGTTTATG
* *
69908212 TCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCT
1 TCTCGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCA
* ** *
69908258 TCTCGATGCAAATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCA
1 TCTCGAGGCCGATG-CATGTCCTAGACAT-GTCTTACACTAGCACTCA
* * *
69908306 TATTGTGGCCGATGCATGTCCTAGACATGTCTTACACT
1 TCTCGAGGCCGATGCATGTCCTAGACATGTCTTACACT
69908344 GGCTCACACA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
46 21 0.29
47 27 0.38
48 24 0.33
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (46 bp):
TCTCGAGGCCGATGCATGTCCTAGACATGTCTTACACTAGCACTCA
Found at i:69910983 original size:40 final size:40
Alignment explanation
Indices: 69910953--69911135 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
69910943 GCTCCTCGTT
*
69910953 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
69910993 CAAATGCCTTCAGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
69911033 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
69911072 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
69911113 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
69911136 AACATCATTC
Statistics
Matches: 121, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 74 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:69911055 original size:79 final size:81
Alignment explanation
Indices: 69910953--69911135 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
69910943 GCTCCTCGTT
* *
69910953 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCAGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
69911016 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
69911033 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
69911097 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
69911113 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
69911136 AACATCATTC
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.61
80 32 0.36
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:69920210 original size:62 final size:63
Alignment explanation
Indices: 69920138--69920307 Score: 162
Period size: 65 Copynumber: 2.7 Consensus size: 63
69920128 AGACATTATG
* *
69920138 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGAAAAGAAAGCTACGGGAT-
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGAAAAGAAAGCTACGAGATA
* * * * * * *
69920200 ATGTAGCTAGGTTGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGAAAAGAAAGCTACGAGAT
69920265 A
63 A
** * * * * *
69920266 AACTGGCTAGGTCCCATGGATGGTACTAAGTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
69920308 GTACAAGAGA
Statistics
Matches: 83, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
62 24 0.29
63 9 0.11
64 3 0.04
65 27 0.33
66 20 0.24
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGAAAAGAAAGCTACGAGATA
Found at i:69924174 original size:18 final size:19
Alignment explanation
Indices: 69924141--69924176 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
69924131 TTAAATTTAG
*
69924141 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
69924160 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
69924177 GTGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:69924660 original size:64 final size:64
Alignment explanation
Indices: 69924579--69924762 Score: 194
Period size: 64 Copynumber: 2.9 Consensus size: 64
69924569 AGACATTATG
* * * *
69924579 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAAAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
69924643 ATGTAGTTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGA-CTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
69924707 AA
63 AA
* * * *
69924709 AT-TGGCTAGGTCCCATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCT
69924763 GAACTATATG
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
61 1 0.01
62 17 0.18
63 3 0.03
64 24 0.25
65 20 0.21
66 13 0.13
67 19 0.20
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:69929946 original size:39 final size:40
Alignment explanation
Indices: 69929879--69929971 Score: 143
Period size: 39 Copynumber: 2.4 Consensus size: 40
69929869 GTCGGTATCA
* * *
69929879 CACACTTAGTGCCTTATATAGCCGAAGCTATGCTAACTCG
1 CACACTTAGTGCCATATATAGCCGAAGCTATACTAAATCG
*
69929919 CACACTTAGTGCCAT-TATAGCCGAAGCTATATTAAATCG
1 CACACTTAGTGCCATATATAGCCGAAGCTATACTAAATCG
69929958 CACACTTAGTGCCA
1 CACACTTAGTGCCA
69929972 ATCTTTGTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 35 0.71
40 14 0.29
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (40 bp):
CACACTTAGTGCCATATATAGCCGAAGCTATACTAAATCG
Found at i:69931928 original size:27 final size:27
Alignment explanation
Indices: 69931882--69931983 Score: 143
Period size: 27 Copynumber: 3.8 Consensus size: 27
69931872 ATTACCAAAG
*
69931882 TACCCTCGA-TTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
69931908 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
69931935 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
69931962 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
69931984 AAAAATACCC
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
26 8 0.12
27 61 0.88
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:69931965 original size:54 final size:54
Alignment explanation
Indices: 69931869--69932010 Score: 160
Period size: 54 Copynumber: 2.6 Consensus size: 54
69931859 CTCAAATTAT
* * * * * *
69931869 AAAATTACCAAAGTACCCTCGA-TTATAGAATTACTGTTTTACCCTTGATTTAT
1 AAAATTACAAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
* * ***
69931922 AGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
1 AAAATTACAAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
* *
69931976 AAAATTACAAAAATACCCTTGGTTTACAAAATTAC
1 AAAATTACAAAAATACCCTTGATTTACAGAATTAC
69932011 CAAAATACCC
Statistics
Matches: 72, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 16 0.22
54 56 0.78
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.37
Consensus pattern (54 bp):
AAAATTACAAAAATACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTAC
Found at i:69931992 original size:27 final size:27
Alignment explanation
Indices: 69931962--69932144 Score: 145
Period size: 27 Copynumber: 6.8 Consensus size: 27
69931952 ATTACTGTTT
* *
69931962 TACCCTCGATTTACAAAATTACAAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
69931989 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
69932016 TACCCTC-AGTCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-TAAAATTACCAAAA
* *
69932043 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * * * *
69932070 TACCATTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
69932097 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* ** *
69932124 TAACCTTAATTTACAAAATTA
1 TACCCTCGATTTATAAAATTA
69932145 TAGAAATACC
Statistics
Matches: 125, Mismatches: 27, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.02
27 121 0.97
28 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:69932020 original size:54 final size:54
Alignment explanation
Indices: 69931962--69932183 Score: 185
Period size: 54 Copynumber: 4.1 Consensus size: 54
69931952 ATTACTGTTT
* **
69931962 TACCCTCGATTTACAAAATTACAAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACAAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * * *
69932016 TACCCTC-AGTCAGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACAAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *** ** * *
69932070 TACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACAAAAATACCCTTAGTTTGTAAAATTACCAAAA
* ** * * * * *
69932124 TAACCTTAATTTACAAAATTATAGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACAAAAATACCCTTAGTTTGTAAAATTACCAAAA
*
69932178 CACCCT
1 TACCCT
69932184 TGTAGGATGA
Statistics
Matches: 131, Mismatches: 35, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
53 3 0.02
54 127 0.97
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACAAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:69932163 original size:81 final size:80
Alignment explanation
Indices: 69931970--69932183 Score: 248
Period size: 81 Copynumber: 2.6 Consensus size: 80
69931960 TTTACCCTCG
** *
69931970 ATTTACAAAATTACAAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAGTCAGTAAAAT
1 ATTTACAAAATTAC-AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTCAATCAGTAAAAT
*
69932035 TACCAAAATACCCCTA
65 TACCAAAATAACCCTA
* ** * * * **
69932051 GTTTGTAAAATTACCAAAATACCATTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAAT
1 ATTTACAAAATTA-CAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTCAATCAGTAAAAT
*
69932116 TACCAAAATAACCTTA
65 TACCAAAATAACCCTA
* * * *
69932132 ATTTACAAAATTATAGAAATACCCTTGGTTTGTAGATTTACCAAAACACCCT
1 ATTTACAAAATTACA-AAATACCCTTGGTTTGTAAAATTACCAAAATACCCT
69932184 TGTAGGATGA
Statistics
Matches: 108, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
80 1 0.01
81 106 0.98
82 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (80 bp):
ATTTACAAAATTACAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCTCAATCAGTAAAATT
ACCAAAATAACCCTA
Found at i:69932246 original size:27 final size:27
Alignment explanation
Indices: 69932216--69932307 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
69932206 ACCCCTATTA
*
69932216 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
69932243 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
69932270 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
69932297 GGTAAAATGAC
1 GGTAAAATGAC
69932308 GAATATGCCC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 59 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:69933154 original size:25 final size:25
Alignment explanation
Indices: 69933109--69933179 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
69933099 GAGGAAGTGC
**
69933109 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTACCG
69933135 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
69933160 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
69933180 ATTAAAGAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
25 33 0.77
26 10 0.23
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:69939557 original size:46 final size:47
Alignment explanation
Indices: 69939470--69939643 Score: 140
Period size: 46 Copynumber: 3.7 Consensus size: 47
69939460 ACATCTCGTA
* * * * *
69939470 GCCGAGGCATATCCCAGACATGTCTTATATTGGC-T-TATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCT-TGTCTCGAG
* * *
69939516 GCCGATGCATGTCCCAGACCTGTCTTACACTAGCA-CTTGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCTTGTCTCGAG
* * * * ** * * *
69939562 GCCGATGCCATGTCCTAAACATGGTCTTACA-TTGGATCTCATATTGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCATCTTGTCTCGAG
69939610 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
69939644 TCACACAAGT
Statistics
Matches: 98, Mismatches: 24, Indels: 11
0.74 0.18 0.08
Matches are distributed among these distances:
46 50 0.51
47 29 0.30
48 19 0.19
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCATCTTGTCTCGAG
Found at i:69942762 original size:27 final size:26
Alignment explanation
Indices: 69942714--69942794 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 26
69942704 GCGAGGCTGC
*
69942714 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
69942741 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
69942767 CATATATATATGTGGCGAAGCCACCAGA
1 C--AGATAT-TGTGACGAAGCCACCAGA
69942795 TTGCAGCGAG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 2 0.05
27 21 0.48
28 5 0.11
29 16 0.36
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:69948183 original size:17 final size:18
Alignment explanation
Indices: 69948151--69948184 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69948141 CTCTCCTAAA
*
69948151 ACGATTCTGATCTTTCTC
1 ACGATTATGATCTTTCTC
69948169 ACGATTATG-TCTTTCT
1 ACGATTATGATCTTTCT
69948185 ATAAGCTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.47
Consensus pattern (18 bp):
ACGATTATGATCTTTCTC
Found at i:69954806 original size:77 final size:77
Alignment explanation
Indices: 69954679--69954831 Score: 297
Period size: 77 Copynumber: 2.0 Consensus size: 77
69954669 CTACTCGATC
69954679 GAAGTGCTCATCTTAGACAAATTGAAAATGCACAATTTTGATTAAGTGTTTATTGTTTTAGATAT
1 GAAGTGCTCATCTTAGACAAATTGAAAATGCACAATTTTGATTAAGTGTTTATTGTTTTAGATAT
69954744 CACAACCAATAT
66 CACAACCAATAT
*
69954756 GAAGTGCTCATCTTAGACAAATTGAAAATGTACAATTTTGATTAAGTGTTTATTGTTTTAGATAT
1 GAAGTGCTCATCTTAGACAAATTGAAAATGCACAATTTTGATTAAGTGTTTATTGTTTTAGATAT
69954821 CACAACCAATA
66 CACAACCAATA
69954832 CTTATTTTGG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (77 bp):
GAAGTGCTCATCTTAGACAAATTGAAAATGCACAATTTTGATTAAGTGTTTATTGTTTTAGATAT
CACAACCAATAT
Found at i:69955232 original size:79 final size:79
Alignment explanation
Indices: 69955142--69955298 Score: 305
Period size: 79 Copynumber: 2.0 Consensus size: 79
69955132 AAATGTTTGT
*
69955142 ATACATTAAAAAACATAACCCATTTTCTAAGCGACAAACAATTGGAAACAAGAATTAGAATTGAA
1 ATACATTAAAAAACATAACCCATTTTCTAAACGACAAACAATTGGAAACAAGAATTAGAATTGAA
69955207 CAAACCTCGACTCG
66 CAAACCTCGACTCG
69955221 ATACATTAAAAAACATAACCCATTTTCTAAACGACAAACAATTGGAAACAAGAATTAGAATTGAA
1 ATACATTAAAAAACATAACCCATTTTCTAAACGACAAACAATTGGAAACAAGAATTAGAATTGAA
69955286 CAAACCTCGACTC
66 CAAACCTCGACTC
69955299 ATTGTTTATG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 77 1.00
ACGTcount: A:0.48, C:0.20, G:0.10, T:0.22
Consensus pattern (79 bp):
ATACATTAAAAAACATAACCCATTTTCTAAACGACAAACAATTGGAAACAAGAATTAGAATTGAA
CAAACCTCGACTCG
Found at i:69958019 original size:23 final size:23
Alignment explanation
Indices: 69957976--69958020 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
69957966 GAGAATGCAA
**
69957976 AAAAAAAGAGCATGAGGGAAAAG
1 AAAAAAAGAGCATGAAAGAAAAG
69957999 AAAAAAAGAGCGAT-AAAGAAAA
1 AAAAAAAGAGC-ATGAAAGAAAA
69958021 ATAAAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.67, C:0.04, G:0.24, T:0.04
Consensus pattern (23 bp):
AAAAAAAGAGCATGAAAGAAAAG
Found at i:69958021 original size:24 final size:23
Alignment explanation
Indices: 69957976--69958026 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
69957966 GAGAATGCAA
* * *
69957976 AAAAAAAGAGCATGAGGGAAAAG
1 AAAAAAAGAGCATAAAGAAAAAG
*
69957999 AAAAAAAGAGCGATAAAGAAAAAT
1 AAAAAAAGAGC-ATAAAGAAAAAG
69958023 AAAA
1 AAAA
69958027 GAAAAACAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.69, C:0.04, G:0.22, T:0.06
Consensus pattern (23 bp):
AAAAAAAGAGCATAAAGAAAAAG
Found at i:69961171 original size:55 final size:55
Alignment explanation
Indices: 69961096--69961200 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
69961086 TAAAGTTGTG
* **
69961096 TTTATGTTTCATTGAATGTTTTGTTGTATTCATAAATAAAGTTGTGTTTTCTTTA
1 TTTATGTTTCATTGAATGTTTTGTTGCATTCATAAATAAAGCGGTGTTTTCTTTA
*
69961151 TTTATGTTTTATT-AATTGTTTTGTTGCATTCATAAATAAAGCGGTGTTTT
1 TTTATGTTTCATTGAA-TGTTTTGTTGCATTCATAAATAAAGCGGTGTTTT
69961201 TAATTATGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 2 0.04
55 43 0.96
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (55 bp):
TTTATGTTTCATTGAATGTTTTGTTGCATTCATAAATAAAGCGGTGTTTTCTTTA
Found at i:69961218 original size:55 final size:52
Alignment explanation
Indices: 69961112--69961233 Score: 124
Period size: 55 Copynumber: 2.3 Consensus size: 52
69961102 TTTCATTGAA
* * * *
69961112 TGTTTTGTTGTATTCATAAATAAAGTTGTGTTTTCTTTATTTATGTTTTATTAAT
1 TGTTTTGTTGCATTCATAAATAAAGTCGTGTGTTCTTTAATTATGTTTTA-T--T
69961167 TGTTTTGTTGCATTCATAAATAAAG-CG-GTGTT-TTTAATTATGCTTCATTATT
1 TGTTTTGTTGCATTCATAAATAAAGTCGTGTGTTCTTTAATTATG-TT--TTATT
69961219 TGTTTTTGTTGCATT
1 TG-TTTTGTTGCATT
69961234 TATTTTTTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
52 12 0.20
53 18 0.31
54 2 0.03
55 27 0.46
ACGTcount: A:0.22, C:0.07, G:0.15, T:0.57
Consensus pattern (52 bp):
TGTTTTGTTGCATTCATAAATAAAGTCGTGTGTTCTTTAATTATGTTTTATT
Found at i:69964559 original size:12 final size:12
Alignment explanation
Indices: 69964538--69964571 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
69964528 TGGGCTTTCA
69964538 TTTTCCTTTTTTG
1 TTTT-CTTTTTTG
*
69964551 TTTTGTTTTTTG
1 TTTTCTTTTTTG
69964563 TTTTCTTTT
1 TTTTCTTTT
69964572 GTACTAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTTTG
Found at i:69973067 original size:10 final size:11
Alignment explanation
Indices: 69973041--69973073 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
69973031 AGTTAAGATT
69973041 AAAACTTCTGGA
1 AAAACTTCT-GA
69973053 AAAACTTCT-A
1 AAAACTTCTGA
69973063 AAAACTTCTGA
1 AAAACTTCTGA
69973074 TAAATACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 1 0.05
12 9 0.45
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.27
Consensus pattern (11 bp):
AAAACTTCTGA
Found at i:69982667 original size:21 final size:22
Alignment explanation
Indices: 69982626--69982669 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
69982616 CTTATTTTGT
*
69982626 GGAGAAATAAGAGGTGAGAGAA
1 GGAGAAATAAGAGGGGAGAGAA
69982648 GGAGAAATAA-AGGGGAGAGAA
1 GGAGAAATAAGAGGGGAGAGAA
69982669 G
1 G
69982670 TATGTTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.43, T:0.07
Consensus pattern (22 bp):
GGAGAAATAAGAGGGGAGAGAA
Done.