Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 178 of 373
Found at i:59558725 original size:47 final size:50
Alignment explanation
Indices: 59558651--59558870 Score: 169
Period size: 47 Copynumber: 4.6 Consensus size: 50
59558641 GGCATAGAAT
*
59558651 GCCGATGCCATGTCCTAGACGTGGTCTTACACTGGCTCAT-ATC-TC-AA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATGATCATCGAA
* * * * *
59558698 GTCGATGTCATGTCCTAGACATAGTCTTACACTGACT-ATGATCATCGAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATGATCATCGAA
* * * * *
59558747 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCA-CATATCTG-T
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATGATC--ATC-GAA
* * * * * *
59558797 GCTGATGCCATGTCCTAGACATGGTTTTATACT-G-ACA-CATC-TCGTA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATGATCATCGAA
59558843 GCCGATG-CATGTCCTAGACAT-GTCTTAC
1 GCCGATGCCATGTCCTAGACATGGTCTTAC
59558871 GCTAGTTTAC
Statistics
Matches: 138, Mismatches: 25, Indels: 23
0.74 0.13 0.12
Matches are distributed among these distances:
44 5 0.04
45 15 0.11
46 10 0.07
47 35 0.25
48 6 0.04
49 35 0.25
50 31 0.22
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (50 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATGATCATCGAA
Found at i:59558847 original size:96 final size:97
Alignment explanation
Indices: 59558651--59558875 Score: 241
Period size: 96 Copynumber: 2.4 Consensus size: 97
59558641 GGCATAGAAT
* * * *
59558651 GCCGATGCCATGTCCTAGACGTGGTCTTACACT-GGCTCATATCTCAAGTCGATGTCATGTCCTA
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTAGGCTCACATATCAAGTCGATGCCATGTCCTA
*
59558715 GACATAGTCTTACACTGACTATGATCATCGAG
66 GACATAGTCTTACACTGACTATCATCATCGAG
* * * *
59558747 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-TGTGCTGATGCCATGTC
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTAG-GCTCACATATCAAGT-C-GATGCCATGTC
* * *
59558811 CTAGACATGGTTTTATACTGAC-A-CATC-TCGTA-
63 CTAGACATAGTCTTACACTGACTATCATCATCG-AG
*
59558843 GCCGATG-CATGTCCTAGACAT-GTCTTACGCTAG
1 GCCGATGCCATGTCCTAGACATGGTCTTACACTAG
59558876 TTTACGTCTT
Statistics
Matches: 109, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
94 11 0.10
95 13 0.12
96 39 0.36
97 7 0.06
98 10 0.09
99 29 0.27
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (97 bp):
GCCGATGCCATGTCCTAGACATGGTCTTACACTAGGCTCACATATCAAGTCGATGCCATGTCCTA
GACATAGTCTTACACTGACTATCATCATCGAG
Found at i:59566614 original size:46 final size:46
Alignment explanation
Indices: 59566549--59566676 Score: 177
Period size: 46 Copynumber: 2.7 Consensus size: 46
59566539 ATCTCGTAGT
* *
59566549 CGATGCATGTCCCAAACATGTCTTACACTGGCT-TATGTCTCAAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAAGGC
* * *
59566595 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGC
59566641 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC
59566677 ATAATAACCC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 44 0.61
47 14 0.19
48 14 0.19
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAGGC
Found at i:59572193 original size:46 final size:46
Alignment explanation
Indices: 59572125--59572261 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
59572115 TATATATACA
* * * * *
59572125 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCCCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
59572171 CATCCCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCCCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
59572217 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCCCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
59572262 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.32, G:0.09, T:0.34
Consensus pattern (46 bp):
CATCCCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:59572299 original size:47 final size:47
Alignment explanation
Indices: 59572235--59572617 Score: 507
Period size: 47 Copynumber: 8.1 Consensus size: 47
59572225 ACACATTTCG
* * * **
59572235 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * * * *
59572282 CATTGGCCATCCAGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
59572329 CATTGGCCATTCGGCATTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
59572376 CATTGGCCGAAT-GGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCC-ATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
59572423 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
59572470 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* ** *
59572517 CATTGGCCATTCGGCCTTATCACGCATATATATACAGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ACATACGCATGTTCACATTCATCA
* * * ** **
59572568 CATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
59572615 CAT
1 CAT
59572618 AAAATCCTAA
Statistics
Matches: 307, Mismatches: 23, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
46 2 0.01
47 261 0.85
48 2 0.01
49 2 0.01
51 40 0.13
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.31
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:59577907 original size:47 final size:46
Alignment explanation
Indices: 59577831--59578153 Score: 243
Period size: 46 Copynumber: 6.8 Consensus size: 46
59577821 GGGTAGAATA
*
59577831 CTGATGCCATGTCCCAGACATGGTTTTACACTAGCTCAGTTCTCAAGT
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCA--TCTCAAGT
* * *
59577879 C-GATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCATCGAGG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCATC-TCAAGT
* * *
59577927 CTGACGCCATGTCCCAAACATGGTCTTACACTAGCTC-TCACATATCTGT
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCTCA-A---GT
* * * *
59577976 GCTGATGTCATGTCCCAGACATGGTTTTATACT-GACACATCTCATAG-
1 -CTGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCTCA-AGT
* *
59578023 CCGATG-CATGTCCCAGACAT-GTCTTACGCTAGCTTACATCTCAAGGT
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAGC-T-CATCTCAA-GT
* * * *
59578070 C-GTTG-CATGTCTCAGACAT-GTCTTAAACTAGCTTTCGTCTCAA-T
1 CTGATGCCATGTCCCAGACATGGTCTTACACTAGC--TCATCTCAAGT
* *
59578114 GCTAATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT
1 -CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCAT
59578154 AATAACCCAT
Statistics
Matches: 221, Mismatches: 33, Indels: 44
0.74 0.11 0.15
Matches are distributed among these distances:
44 9 0.04
45 18 0.08
46 55 0.25
47 51 0.23
48 18 0.08
49 35 0.16
50 29 0.13
51 6 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
CTGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCTCAAGT
Found at i:59582870 original size:42 final size:42
Alignment explanation
Indices: 59582808--59582961 Score: 211
Period size: 42 Copynumber: 3.6 Consensus size: 42
59582798 TTATTTAAAA
* *
59582808 AAACGCCGCTAAAGACCATGACCTTTAGCGGTGCTTTTCTCGT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGG-GCTTTTCTCGC
*
59582851 AAACGCC-CTAAAGATCATGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGG-GCTTTTCTCGC
**
59582893 AAACGCTACTAAAGATCATGACCTTTAGCGGGCTTTTCTCGC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGGCTTTTCTCGC
* * *
59582935 AAACGCCGCTAAAAATTATGAACTTTA
1 AAACGCCGCTAAAGATCATGACCTTTA
59582962 AAAAAATTAT
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
42 69 0.70
43 30 0.30
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGGCTTTTCTCGC
Found at i:59583010 original size:22 final size:23
Alignment explanation
Indices: 59582982--59583024 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
59582972 TTTATTTTAA
*
59582982 TTAAATAATAT-TTATTTTTATG
1 TTAAATAATATATTATGTTTATG
*
59583004 TTAAATATTATATTATGTTTA
1 TTAAATAATATATTATGTTTA
59583025 ATTTTTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (23 bp):
TTAAATAATATATTATGTTTATG
Found at i:59589249 original size:19 final size:18
Alignment explanation
Indices: 59589206--59589250 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
59589196 GAAAGGCTGA
*
59589206 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
59589224 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
*
59589243 GAGAGAAA
1 GAAAGAAA
59589251 TAGAAGTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.40, T:0.07
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:59589485 original size:22 final size:20
Alignment explanation
Indices: 59589458--59589514 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
59589448 TGTTTGACTT
59589458 TTTTATAATTTTTATATTGAA
1 TTTTATAATTTTTATATT-AA
59589479 TTATTAT-ATCTTTTATATTAA
1 TT-TTATAAT-TTTTATATTAA
59589500 TTTTAAATAATTTTT
1 TTTT--ATAATTTTT
59589515 TTAAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 19 0.61
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTATATTAA
Found at i:59589940 original size:21 final size:22
Alignment explanation
Indices: 59589909--59589954 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
59589899 CCTAACCCCT
*
59589909 AACCCCTAACACCTAAACCTTA
1 AACCCCTAACACCTAAACCATA
*
59589931 AACCCC-AACACTTAAACCATA
1 AACCCCTAACACCTAAACCATA
59589952 AAC
1 AAC
59589955 TATAAACCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.15
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCATA
Found at i:59589953 original size:7 final size:7
Alignment explanation
Indices: 59589943--59589988 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
59589933 CCCCAACACT
59589943 TAAACCA
1 TAAACCA
*
59589950 TAAACTA
1 TAAACCA
59589957 TAAACCA
1 TAAACCA
*
59589964 TAATCCA
1 TAAACCA
*
59589971 TAATCCA
1 TAAACCA
*
59589978 TAAACCT
1 TAAACCA
59589985 TAAA
1 TAAA
59589989 ATAGTAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCA
Found at i:59590299 original size:24 final size:24
Alignment explanation
Indices: 59590268--59590314 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
59590258 CCAAAAAAAT
*
59590268 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
59590292 AATTAATTTTTATATAAACTTTT
1 AATTAATTTTTATATAAACTTTT
59590315 CATAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:59590997 original size:40 final size:42
Alignment explanation
Indices: 59590930--59591016 Score: 135
Period size: 41 Copynumber: 2.1 Consensus size: 42
59590920 TTATATGACT
59590930 TTTAGCGGCGTTTTTACCACAAACGCCGC-AATGCTCTGTCC
1 TTTAGCGGCGTTTTTACCACAAACGCCGCTAATGCTCTGTCC
*
59590971 TTTAGCGGCG-TTTTACCA-AAAGCGCCGCTAATGCTCTGTCT
1 TTTAGCGGCGTTTTTACCACAAA-CGCCGCTAATGCTCTGTCC
59591012 TTTAG
1 TTTAG
59591017 AGTTGCTCTG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
39 3 0.07
40 14 0.33
41 26 0.60
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.32
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTACCACAAACGCCGCTAATGCTCTGTCC
Found at i:59592609 original size:3 final size:3
Alignment explanation
Indices: 59592601--59592625 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
59592591 ATATATATAT
59592601 ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC A
59592626 AGGCATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:59592730 original size:158 final size:157
Alignment explanation
Indices: 59592452--59592753 Score: 505
Period size: 158 Copynumber: 1.9 Consensus size: 157
59592442 CGCGATATAT
*
59592452 ATCATCATCATCATCAAGGCATGTTTTGTTCACTCTCCTCCAAACCTTCCAACAGTGCTGCTGGG
1 ATCATCATCATCATCAAGGCATGTTTTGTTCACTCTCCTCCAAACCTTCCAACAGTACTGCTGGG
*
59592517 GGGTAGTGTGTAGAATATTGCTGGAAGCGTTTGAAGGAGACTGAGCAACCAATTCCTTGTAAGCT
66 GAGTAGTGTGTAGAATATTGCTGGAAGCGTTTGAAGGAGACTGAGCAACCAATTCCTTGTAAGCT
*
59592582 TCAATGTATATATATATATATCATCATC
131 TCAAT-AATATATATATATATCATCATC
* *
59592610 ATCATCATCATCATCAAGGCATGTTTTGTTCATTCTCCTCCAAACCTTCCAGCAGTACTGCTGGG
1 ATCATCATCATCATCAAGGCATGTTTTGTTCACTCTCCTCCAAACCTTCCAACAGTACTGCTGGG
* * * *
59592675 GAGTAGTGTGTAGCATATTGCTGGAAGCGTTTGAGGGAGATTGAGCAACCGATTCCTTGTAAGCT
66 GAGTAGTGTGTAGAATATTGCTGGAAGCGTTTGAAGGAGACTGAGCAACCAATTCCTTGTAAGCT
*
59592740 TTAATAATATATAT
131 TCAATAATATATAT
59592754 TCTTCTCTTG
Statistics
Matches: 134, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
157 8 0.06
158 126 0.94
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (157 bp):
ATCATCATCATCATCAAGGCATGTTTTGTTCACTCTCCTCCAAACCTTCCAACAGTACTGCTGGG
GAGTAGTGTGTAGAATATTGCTGGAAGCGTTTGAAGGAGACTGAGCAACCAATTCCTTGTAAGCT
TCAATAATATATATATATATCATCATC
Found at i:59593587 original size:29 final size:28
Alignment explanation
Indices: 59593536--59593603 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
59593526 ATAGGTAATA
59593536 TTATACATAAATTTTAATTTTGATTAAAT
1 TTATACATAAATTTTAA-TTTGATTAAAT
*
59593565 TTATACATAAGATTTTGAA-TTGATTTAAT
1 TTATACATAA-ATTTT-AATTTGATTAAAT
59593594 TT-T-CATAAAT
1 TTATACATAAAT
59593604 CATCGACACC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
26 2 0.06
27 5 0.14
28 1 0.03
29 21 0.58
30 5 0.14
31 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (28 bp):
TTATACATAAATTTTAATTTGATTAAAT
Found at i:59594106 original size:11 final size:13
Alignment explanation
Indices: 59594090--59594127 Score: 53
Period size: 11 Copynumber: 3.0 Consensus size: 13
59594080 TAAAGGAAAT
59594090 TATAAAAT-TAAA
1 TATAAAATATAAA
59594102 T-TAAAATATAAA
1 TATAAAATATAAA
59594114 TATAAAATAATAAA
1 TATAAAAT-ATAAA
59594128 ATATGATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 6 0.26
12 6 0.26
13 6 0.26
14 5 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TATAAAATATAAA
Found at i:59602529 original size:40 final size:40
Alignment explanation
Indices: 59602468--59602652 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
59602458 TACTCGAATG
* *
59602468 ATATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
59602509 -TATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * * *
59602549 ACATCCGGACTAAGAT-CTGAAGGCATTTGTGCTAGCAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
59602589 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
59602629 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
59602653 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 98 0.78
41 26 0.21
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:59602605 original size:81 final size:81
Alignment explanation
Indices: 59602470--59602622 Score: 229
Period size: 81 Copynumber: 1.9 Consensus size: 81
59602460 CTCGAATGAT
* * * *
59602470 ATCCGGGCTAAGTCTCGAAGGCTTTTGTGCTAAGCGACTTATCCGGGCTAAGTCCCGAAGGCTTT
1 ATCCGGACTAAGTCTCGAAGGCATTTGTGCTAAGCAACTTATCCGGGCTAAGTCCCGAAGGCATT
*
59602535 TGTGCTAAGCGACTAC
66 TATGCTAAGCGACTAC
59602551 ATCCGGACTAAGATCT-GAAGGCATTTGTGCT-AGCAACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCTCGAAGGCATTTGTGCTAAGCAACT-TATCCGGGCTAAGTCCCGAAGGCA
59602614 TTTATGCTA
64 TTTATGCTA
59602623 GTGACCATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 6 0.09
81 56 0.86
82 3 0.05
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (81 bp):
ATCCGGACTAAGTCTCGAAGGCATTTGTGCTAAGCAACTTATCCGGGCTAAGTCCCGAAGGCATT
TATGCTAAGCGACTAC
Found at i:59609982 original size:19 final size:19
Alignment explanation
Indices: 59609944--59609982 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
59609934 CTTCGGGCTC
* *
59609944 CTCAACACAGCAGCCCAAT
1 CTCAACACAACAACCCAAT
*
59609963 CTCAACACAACAACCTAAT
1 CTCAACACAACAACCCAAT
59609982 C
1 C
59609983 ATTCTCCCTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.41, G:0.05, T:0.13
Consensus pattern (19 bp):
CTCAACACAACAACCCAAT
Found at i:59615710 original size:47 final size:47
Alignment explanation
Indices: 59615632--59616177 Score: 905
Period size: 47 Copynumber: 11.6 Consensus size: 47
59615622 CCCTTCGGGA
* * * * *
59615632 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG-C
* * *
59615680 CGT-TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59615726 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59615773 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59615820 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59615867 CTTATCACATATATACACCTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59615914 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59615961 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59616008 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
59616055 CTTAGCACATATATATACAATTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59616104 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59616151 CTTATCACATATATACACTTTCGCATT
1 CTTATCACATATATACACTTTCACATT
59616178 TATTCAAATA
Statistics
Matches: 471, Mismatches: 24, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
46 3 0.01
47 423 0.90
48 2 0.00
49 43 0.09
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59615711 original size:25 final size:25
Alignment explanation
Indices: 59615683--59615760 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
59615673 CTCGGCCCGT
59615683 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
** * * *
59615708 TCACAT-T-GGC-CATTCGGCCTT-A
1 TCACATATATACACTTTC-ACATTCA
59615730 TCACATATATACACTTTCACATTCA
1 TCACATATATACACTTTCACATTCA
59615755 TCACAT
1 TCACAT
59615761 CGGCCATTAG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.29
23 5 0.13
24 5 0.13
25 17 0.45
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (25 bp):
TCACATATATACACTTTCACATTCA
Found at i:59619493 original size:15 final size:15
Alignment explanation
Indices: 59619473--59619524 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
59619463 ATGGTAGTAC
59619473 AACAAAATAGAACAA
1 AACAAAATAGAACAA
* *
59619488 AACAAATTAGAACAG
1 AACAAAATAGAACAA
* * *
59619503 AATAGAATAGAGCAA
1 AACAAAATAGAACAA
59619518 AACAAAA
1 AACAAAA
59619525 CAACAAATGT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.67, C:0.12, G:0.12, T:0.10
Consensus pattern (15 bp):
AACAAAATAGAACAA
Found at i:59626247 original size:2 final size:2
Alignment explanation
Indices: 59626242--59626281 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
59626232 TATATATATA
59626242 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
59626282 AATATGACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:59628180 original size:40 final size:40
Alignment explanation
Indices: 59628096--59628279 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
59628086 TTGAATGCTG
* * * *
59628096 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
59628135 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
59628176 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
59628216 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
59628256 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59628280 GTATGAGTTA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.02
40 112 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:59628233 original size:80 final size:81
Alignment explanation
Indices: 59628096--59628276 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 81
59628086 TTGAATGCTG
* *
59628096 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
59628160 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
59628176 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
*
59628237 ATTCGTGTGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
59628256 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
59628277 ATTGTATGAG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 4 0.04
80 76 0.85
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:59633810 original size:40 final size:40
Alignment explanation
Indices: 59633726--59633909 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
59633716 TTGAATGCTG
* * * *
59633726 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
59633765 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
59633806 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
59633846 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
59633886 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
59633910 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:59633863 original size:80 final size:81
Alignment explanation
Indices: 59633726--59633906 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
59633716 TTGAATGCTG
* *
59633726 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
59633790 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
59633806 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
59633867 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
59633886 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
59633907 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:59640607 original size:21 final size:21
Alignment explanation
Indices: 59640581--59640622 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59640571 GAGAACCTTT
59640581 TTCCATTGG-GACACCCTCAAA
1 TTCCA-TGGAGACACCCTCAAA
*
59640602 TTCCATGGAGACACCTTCAAA
1 TTCCATGGAGACACCCTCAAA
59640623 AATATTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (21 bp):
TTCCATGGAGACACCCTCAAA
Found at i:59643925 original size:28 final size:28
Alignment explanation
Indices: 59643885--59643946 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
59643875 TGGGAAGTAG
* *
59643885 TTGGGCATGATGGGCCATATGAATGTGA
1 TTGGGCATGATGGGCCATATGAACGAGA
* *
59643913 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCATGATGGGCCATATGAACGAGA
59643941 TTGGGC
1 TTGGGC
59643947 TTAAAGGGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.21, C:0.15, G:0.39, T:0.26
Consensus pattern (28 bp):
TTGGGCATGATGGGCCATATGAACGAGA
Found at i:59644295 original size:27 final size:27
Alignment explanation
Indices: 59644265--59644498 Score: 260
Period size: 27 Copynumber: 8.7 Consensus size: 27
59644255 TAATAAAGAG
59644265 AAATTATCGAAATA-CCTCCGATTTGTA
1 AAATTATCGAAATACCCT-CGATTTGTA
*
59644292 AAATTA-CTGAAATACCCTCGATTTGGA
1 AAATTATC-GAAATACCCTCGATTTGTA
* * * *
59644319 AAACTACCGAAGTACCCCCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
59644346 AAATTACCAAAATACCCTTGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* **
59644373 AAATTACCGAAATACCCTTAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* * *
59644400 AAATTATCAAAATACCCT-TAGTTTGTG
1 AAATTATCGAAATACCCTCGA-TTTGTA
59644427 AAATTATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTA
* *
59644454 GAATTATCGAAATACTCC-CAATTTGTA
1 AAATTATCGAAATAC-CCTCGATTTGTA
59644481 AAATTATCGAAATACCCT
1 AAATTATCGAAATACCCT
59644499 TGTAGTGTAA
Statistics
Matches: 178, Mismatches: 22, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.02
27 167 0.94
28 7 0.04
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGATTTGTA
Found at i:59644416 original size:81 final size:81
Alignment explanation
Indices: 59644284--59644551 Score: 274
Period size: 81 Copynumber: 3.3 Consensus size: 81
59644274 AAATACCTCC
* * * * * * *
59644284 GATTTGTAAAATTACTGAAATACCCTCGATTTGGAAAACTACCGAAGTACCCCCGATTTGTAAAA
1 GATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAA
59644349 TTACCAAAATACCCTT
66 TTACCAAAATACCCTT
* * * *
59644365 GATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTATCAAAATA-CCCTTAGTTTGTGAA
1 GATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCCTGA-TTTGTAAA
* * *
59644429 ATTATCGAAATACCCTC
65 ATTACCAAAATACCCTT
* * * *
59644446 GATTTGTAGAATTATCGAAATACTCC-CAATTTGTAAAATTATCGAAATACCCTTG-TAGTGTAA
1 GATTTGTAAAATTACCGAAATAC-CCTCAATTTGTAAAATTATCGAAATACCCCTGAT-TTGTAA
*
59644509 AATTACCAAAATACCATT
64 AATTACCAAAATACCCTT
* * *
59644527 G-TAGTGTAAAATGACCGACATACCC
1 GAT-TTGTAAAATTACCGAAATACCC
59644552 CTGTAGGGTA
Statistics
Matches: 151, Mismatches: 31, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
80 8 0.05
81 138 0.91
82 5 0.03
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (81 bp):
GATTTGTAAAATTACCGAAATACCCTCAATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAA
TTACCAAAATACCCTT
Found at i:59644507 original size:27 final size:27
Alignment explanation
Indices: 59644287--59644565 Score: 185
Period size: 27 Copynumber: 10.3 Consensus size: 27
59644277 TACCTCCGAT
* *
59644287 TTGTAAAATTACTGAAATACCCTCG-A
1 TTGTAAAATTACCGAAATACCCTTGTA
* * * **
59644313 TTTGGAAAACTACCGAAGTACCCCCG-A
1 -TTGTAAAATTACCGAAATACCCTTGTA
*
59644340 TTTGTAAAATTACCAAAATACCCTTG-A
1 -TTGTAAAATTACCGAAATACCCTTGTA
*
59644367 TTTGTAAAATTACCGAAATACCCTT-AA
1 -TTGTAAAATTACCGAAATACCCTTGTA
* *
59644394 TTTGTAAAATTATCAAAATACCCTTAGT-
1 -TTGTAAAATTACCGAAATACCCTT-GTA
* * *
59644422 TTGTGAAATTATCGAAATACCCTCG-A
1 TTGTAAAATTACCGAAATACCCTTGTA
* * ***
59644448 TTTGTAGAATTATCGAAATACTCCCAAT-
1 -TTGTAAAATTACCGAAATAC-CCTTGTA
*
59644476 TTGTAAAATTATCGAAATACCCTTGTA
1 TTGTAAAATTACCGAAATACCCTTGTA
* * *
59644503 GTGTAAAATTACCAAAATACCATTGTA
1 TTGTAAAATTACCGAAATACCCTTGTA
* * * *
59644530 GTGTAAAATGACCGACATACCCCTGTA
1 TTGTAAAATTACCGAAATACCCTTGTA
**
59644557 GGGTAAAAT
1 TTGTAAAAT
59644566 GACTATTTTG
Statistics
Matches: 207, Mismatches: 37, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.02
27 201 0.97
28 2 0.01
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTACCGAAATACCCTTGTA
Found at i:59647671 original size:28 final size:28
Alignment explanation
Indices: 59647586--59647658 Score: 146
Period size: 28 Copynumber: 2.6 Consensus size: 28
59647576 GCTATATGAA
59647586 AAACACAATTTAAACTTGTCAAGAGTCG
1 AAACACAATTTAAACTTGTCAAGAGTCG
59647614 AAACACAATTTAAACTTGTCAAGAGTCG
1 AAACACAATTTAAACTTGTCAAGAGTCG
59647642 AAACACAATTTAAACTT
1 AAACACAATTTAAACTT
59647659 AGCTAGACTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.26
Consensus pattern (28 bp):
AAACACAATTTAAACTTGTCAAGAGTCG
Found at i:59652560 original size:39 final size:40
Alignment explanation
Indices: 59652517--59652683 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
59652507 CTCGTTCAAG
* * * *
59652517 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
59652556 TGCCTT-GGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
59652595 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
59652635 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
59652675 TGCCTTCGG
1 TGCCTTCGG
59652684 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
38 19 0.17
39 18 0.17
40 68 0.62
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:59652669 original size:80 final size:80
Alignment explanation
Indices: 59652552--59652736 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
59652542 AGTAACTCAT
* * *
59652552 ACAATGCCTT-GGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
59652615 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
59652630 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
59652694 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
59652711 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
59652737 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
78 4 0.04
79 12 0.13
80 66 0.71
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:59652696 original size:40 final size:40
Alignment explanation
Indices: 59652554--59652736 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
59652544 TAACTCATAC
* *
59652554 AATGCCTT-GGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
59652593 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
59652633 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
59652673 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
59652714 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
59652737 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 16 0.13
40 96 0.78
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:59669626 original size:30 final size:30
Alignment explanation
Indices: 59669592--59669652 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
59669582 TTCCCGAGCC
*
59669592 TAGGGGCAAAAGTGTAAATATGCAATAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
59669622 TAGGGGCAAAATTGTAATTTTGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
59669652 T
1 T
59669653 GAGTTAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:59670266 original size:64 final size:64
Alignment explanation
Indices: 59670186--59670369 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
59670176 AGACATTATG
* * *
59670186 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
59670250 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGATAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
59670315 AA
63 AA
* * * *
59670317 ACTG--GCTAGGTCACATGGGTGGTAGTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
59670370 CAAAATTATG
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 25 0.26
66 20 0.21
67 30 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:59675061 original size:44 final size:44
Alignment explanation
Indices: 59674998--59675152 Score: 238
Period size: 44 Copynumber: 3.5 Consensus size: 44
59674988 CGAGTATCGC
* *
59674998 CAATACAGAGATGCCAAATCTGCTATCTTTGATCTGCTCTCTGT
1 CAATATAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGT
* *
59675042 CAATATAGAGACACCAAATCTGCTATCTTCGATCTGCTCTCTGT
1 CAATATAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGT
* * * *
59675086 CAAAATAGAGACGCCAAATCTGCTAACTTTGATCTGCTCTCCGC
1 CAATATAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGT
59675130 CAATATAGAGACGCCAAATCTGC
1 CAATATAGAGACGCCAAATCTGC
59675153 AAGATTGGCC
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 100 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (44 bp):
CAATATAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGT
Found at i:59685227 original size:639 final size:640
Alignment explanation
Indices: 59684008--59685287 Score: 2382
Period size: 639 Copynumber: 2.0 Consensus size: 640
59683998 CGCAACTTCT
*
59684008 TGTAGTTCGTCTTCAAACTGTCTAAATCTTCTTCGGCCTTGGTTTTCCCTTTTCTCCACTTTTCA
1 TGTAGTTCGTCTTCAAACTATCTAAATCTTCTTCGGCCTTGGTTTTCCCTTTTCTCCACTTTTCA
* *
59684073 GCCTCTGACCTCTGAACATCAGTGGCTAACCTTAAGTGCATCTTCTCTTCCTCTAATTGTTCGAT
66 GCCTCTAACCTATGAACATCAGTGGCTAACCTTAAGTGCATCTTCTCTTCCTCTAATTGTTCGAT
*
59684138 CTTCTTCCCAAGCTCCGAATTCTTCTTCTCAAAATCTTACCTTATAATCTCCAATTTTGACGGGG
131 CTTCTTCCCAAGCTCCGAATTCTTCTTCTCAAAATCTTACCTTATAATCTCCAATTCTGACGGGG
59684203 CGACTTGTAATTGTTCCCCGATAGGTTGAGCATTCTCCAAGCTTGGCCTAGGAACATCATCATTA
196 CGACTTGTAATTGTTCCCCGATAGGTTGAGCATTCTCCAAGCTTGGCCTAGGAACATCATCATTA
* *
59684268 ACCCTCTTCTTAAACAGCTAGTTATACTCAGACGTTACCATGGAACCGACGGCTAACCTCTTCAT
261 ACCCTCTTCTTAAACAACTAGTTATACTCAGACGTTACCATGGAACCGACAGCTAACCTCTTCAT
59684333 GCAACAAGTTTGTTTCCAAGCATCCGATAACTCCCGGACTCTCTTCCTATAGTGAGCACCTTTAA
326 GCAACAAGTTTGTTTCCAAGCATCCGATAACTCCCGGACTCTCTTCCTATAGTGAGCACCTTTAA
* *
59684398 AAGAGAATTCATTCTGAGCAAGTCCGTAGGTCGTGGGTACAAACTGCCTCGACTTATATTGCCTC
391 AAGAGAATTCATTCTGAGCAAGTCCATAGGTCGTGGGTACAAACTACCTCGACTTATATTGCCTC
*
59684463 AGGGCTAGCAATGGAGTATACCTAGTGGCTCCCCAAATTCCTAACAATGGCACCCAATCAAAGTT
456 AGGGCTAGCAATGGAGTATACCTAGTAGCTCCCCAAATTCCTAACAATGGCACCCAATCAAAGTT
59684528 ACCACATCGGTACATGATCTGGTCCGGAACCATCCAATAAGCTCTCGACTCGATATCCCCCTCCT
521 ACCACATCGGTACATGATCTGGTCCGGAACCATCCAATAAGCTCTCGACTCGATATCCCCCTCCT
59684593 TGAGGTTCTGAAGAATGTCCACCCATTTCTCCTCCGAGATATCCTCTCTCCTTTG
586 TGAGGTTCTGAAGAATGTCCACCCATTTCTCCTCCGAGATATCCTCTCTCCTTTG
*
59684648 TGTAGTTCGTCTTCACACTATCTAAATCTTCTTCGGCCTTGGTTTTCCCTTTTCTCCACTTTTCA
1 TGTAGTTCGTCTTCAAACTATCTAAATCTTCTTCGGCCTTGGTTTTCCCTTTTCTCCACTTTTCA
59684713 GCCTCTAACCTATGAACATCAGTGGCTAACCTTAAGTGCATCTTCTCTTCCTCTAATTGTTCGAT
66 GCCTCTAACCTATGAACATCAGTGGCTAACCTTAAGTGCATCTTCTCTTCCTCTAATTGTTCGAT
* *
59684778 CTTCTTTCCAAGCTCTGAATTCTTCTTCTCAAAATCTTACCTTATAATCTCCAATTCTGACGGGG
131 CTTCTTCCCAAGCTCCGAATTCTTCTTCTCAAAATCTTACCTTATAATCTCCAATTCTGACGGGG
*
59684843 CGACTTGTAATTGTTCCCCGATCGGTTGAGCATTCTCCAAGCTTGGCCTAGGAACATCATCATTA
196 CGACTTGTAATTGTTCCCCGATAGGTTGAGCATTCTCCAAGCTTGGCCTAGGAACATCATCATTA
59684908 ACCCTC-TCTTAAACAACTAGTTATACTCAGACGTTACCATGGAACCGACAGCTAACCTCTTCAT
261 ACCCTCTTCTTAAACAACTAGTTATACTCAGACGTTACCATGGAACCGACAGCTAACCTCTTCAT
*
59684972 GCAACAAGTTTGTTTCCAAGCATCCGATAACTCCTGGACTCTCTTCCTATAGTGAGCACCTTTAA
326 GCAACAAGTTTGTTTCCAAGCATCCGATAACTCCCGGACTCTCTTCCTATAGTGAGCACCTTTAA
59685037 AAGAGAATTCATTCTGAGCAAGTCCATAGGTCGTGGGTACAAACTACCTCGACTTATATTGCCTC
391 AAGAGAATTCATTCTGAGCAAGTCCATAGGTCGTGGGTACAAACTACCTCGACTTATATTGCCTC
* * * * *
59685102 AGGGTTAGCAATGGAGTATATCTGGTAGCTCCTCAAATTCCTAACAATGGCACCCAATCGAAGTT
456 AGGGCTAGCAATGGAGTATACCTAGTAGCTCCCCAAATTCCTAACAATGGCACCCAATCAAAGTT
59685167 ACCACATCGGTACATGATCTGGTCCGGAACCATCCAATAAGCTCTCGACTCGATATCCCCCTCCT
521 ACCACATCGGTACATGATCTGGTCCGGAACCATCCAATAAGCTCTCGACTCGATATCCCCCTCCT
59685232 TGAGGTTCTGAAGAATGTCCACCCATTTCTCCTCCGAGATATCCTCTCTCCTTTG
586 TGAGGTTCTGAAGAATGTCCACCCATTTCTCCTCCGAGATATCCTCTCTCCTTTG
59685287 T
1 T
59685288 ATAGCTGCCT
Statistics
Matches: 621, Mismatches: 19, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
639 363 0.58
640 258 0.42
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.32
Consensus pattern (640 bp):
TGTAGTTCGTCTTCAAACTATCTAAATCTTCTTCGGCCTTGGTTTTCCCTTTTCTCCACTTTTCA
GCCTCTAACCTATGAACATCAGTGGCTAACCTTAAGTGCATCTTCTCTTCCTCTAATTGTTCGAT
CTTCTTCCCAAGCTCCGAATTCTTCTTCTCAAAATCTTACCTTATAATCTCCAATTCTGACGGGG
CGACTTGTAATTGTTCCCCGATAGGTTGAGCATTCTCCAAGCTTGGCCTAGGAACATCATCATTA
ACCCTCTTCTTAAACAACTAGTTATACTCAGACGTTACCATGGAACCGACAGCTAACCTCTTCAT
GCAACAAGTTTGTTTCCAAGCATCCGATAACTCCCGGACTCTCTTCCTATAGTGAGCACCTTTAA
AAGAGAATTCATTCTGAGCAAGTCCATAGGTCGTGGGTACAAACTACCTCGACTTATATTGCCTC
AGGGCTAGCAATGGAGTATACCTAGTAGCTCCCCAAATTCCTAACAATGGCACCCAATCAAAGTT
ACCACATCGGTACATGATCTGGTCCGGAACCATCCAATAAGCTCTCGACTCGATATCCCCCTCCT
TGAGGTTCTGAAGAATGTCCACCCATTTCTCCTCCGAGATATCCTCTCTCCTTTG
Found at i:59687727 original size:133 final size:130
Alignment explanation
Indices: 59687556--59687863 Score: 363
Period size: 133 Copynumber: 2.4 Consensus size: 130
59687546 TGTTTTGACT
* * * * *
59687556 AAACGAGAAA-TCACAACCCAACACGGTAGGGCATGATTCC-TGAATCGTAAAACACCG-AGTAT
1 AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAATCGCAAAACACCGCA-TAT
* * * * *
59687618 CGCCTTCGTTTTAAAGGATTTTTTAGAAGATACGAGTGAAATTTTGAGGGGATATTTGATTATTT
65 CGCCTTCG-TTTAAAGGA--TTTTAAAAGACACGAGTGAAA-TTTGAAGGGATATTCGATTATGT
59687683 TAAGC
126 TAAGC
* * * * *
59687688 AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAGTTGCCAAATATCGCATATC
1 AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAATCGCAAAACACCGCATATC
* * * *
59687753 GCCTTCGTTTAAGGGATTTTAAAAGACATGAGTGAAATTTGAAGTGATATTCGATTATGTTGAGC
66 GCCTTCGTTTAAAGGATTTTAAAAGACACGAGTGAAATTTGAAGGGATATTCGATTATGTTAAGC
*
59687818 AAACGCGAAATT-GCAACCCAACACGTTAGGGCACGATTCCACGAAT
1 AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAAT
59687864 TGCCAAATAT
Statistics
Matches: 152, Mismatches: 21, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
129 33 0.22
130 34 0.22
131 18 0.12
132 10 0.07
133 35 0.23
134 21 0.14
135 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (130 bp):
AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAATCGCAAAACACCGCATATC
GCCTTCGTTTAAAGGATTTTAAAAGACACGAGTGAAATTTGAAGGGATATTCGATTATGTTAAGC
Found at i:59687860 original size:129 final size:132
Alignment explanation
Indices: 59687556--59687896 Score: 404
Period size: 129 Copynumber: 2.6 Consensus size: 132
59687546 TGTTTTGACT
* * * * * ** * * *
59687556 AAACGAGAAA-TCACAACCCAACACGGTAGGGCATGATTCC-TGAATCGTAAAACACCGAGTATC
1 AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGAATATC
* * * * *
59687619 GCCTTCGTTTTAAAGGATTTTTTAGAAGATACGAGTGAAATTTTGAGGGGATATTTGATTATTTT
66 GCCTTCG-TTTAAAGGA-TTTTTAAAAGACACGAGTGAAATTTTGAAGGGATATTCGATTATGTT
59687684 AAGC
129 AAGC
* *
59687688 AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAGTTGCCAAATATCGCATATC
1 AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGAATATC
* * * *
59687753 GCCTTCGTTTAAGGGA-TTTTAAAAGACATGAGTGAAA-TTTGAAGTGATATTCGATTATGTTGA
66 GCCTTCGTTTAAAGGATTTTTAAAAGACACGAGTGAAATTTTGAAGGGATATTCGATTATGTTAA
59687816 GC
131 GC
* *
59687818 AAACGCGAAATT-GCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGAATCTC
1 AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGAATATC
*
59687882 GTCTTCGTTTTAAAG
66 GCCTTCG-TTTAAAG
59687897 AAATTTTTTT
Statistics
Matches: 179, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
129 55 0.31
130 40 0.22
131 18 0.10
132 10 0.06
133 35 0.20
134 21 0.12
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (132 bp):
AAACGAGAAATTCGCAACCCAACACGTTAGGGCACGATTCCACGAATTGCCAAATATCGAATATC
GCCTTCGTTTAAAGGATTTTTAAAAGACACGAGTGAAATTTTGAAGGGATATTCGATTATGTTAA
GC
Found at i:59691498 original size:19 final size:19
Alignment explanation
Indices: 59691474--59691513 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
59691464 AAATAAATTT
*
59691474 AATTAA-CTCAATGCAAATG
1 AATTAACCTAAATGC-AATG
59691493 AATTAACCTAAATGCAATG
1 AATTAACCTAAATGCAATG
59691512 AA
1 AA
59691514 ATGGTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (19 bp):
AATTAACCTAAATGCAATG
Found at i:59698995 original size:14 final size:14
Alignment explanation
Indices: 59698976--59699008 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
59698966 GTATTTAACA
59698976 GCAATTTCACAAAT
1 GCAATTTCACAAAT
59698990 GCAATTTCACAAAT
1 GCAATTTCACAAAT
59699004 G-AATT
1 GCAATT
59699009 AACCTAAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.30
Consensus pattern (14 bp):
GCAATTTCACAAAT
Found at i:59703884 original size:46 final size:46
Alignment explanation
Indices: 59703831--59704006 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
59703821 TATTTGGGCA
59703831 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59703877 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
59703922 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59703970 -CCTGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59704007 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 20
0.74 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 58 0.56
47 28 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59703986 original size:93 final size:93
Alignment explanation
Indices: 59703827--59703999 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
59703817 GGGATATTTG
* * *
59703827 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCATTGAG
59703892 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
59703920 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACCTATGGATGCGAACG-CCTGAGCTCATTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCC-GAACTCATTGA
59703984 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
59704000 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:59711397 original size:35 final size:35
Alignment explanation
Indices: 59711358--59711527 Score: 227
Period size: 35 Copynumber: 4.9 Consensus size: 35
59711348 TAACACGATG
**
59711358 ATGCTCATAAGAGATAATCCAACCGAAACATGCCA
1 ATGCTCATAAGAGATAATCCAACCGAAACACACCA
* *
59711393 ATGCTCACAATAGATAATCCAACC-ATAACACACCA
1 ATGCTCATAAGAGATAATCCAACCGA-AACACACCA
* * *
59711428 ATTCTCATAAGAGCTAATCCAACCGTAACACACCA
1 ATGCTCATAAGAGATAATCCAACCGAAACACACCA
*
59711463 ATGCTCATAAGA-ACTAATCCAACCGTAACACACCA
1 ATGCTCATAAGAGA-TAATCCAACCGAAACACACCA
*
59711498 ATGCTCATAAGAGCTAATCCAACCGAAACA
1 ATGCTCATAAGAGATAATCCAACCGAAACA
59711528 TGCCAGATAA
Statistics
Matches: 118, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
34 1 0.01
35 117 0.99
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.18
Consensus pattern (35 bp):
ATGCTCATAAGAGATAATCCAACCGAAACACACCA
Found at i:59711464 original size:70 final size:70
Alignment explanation
Indices: 59711340--59711527 Score: 254
Period size: 70 Copynumber: 2.7 Consensus size: 70
59711330 ATATGGTCAG
** * ** *
59711340 TCCAACCATAACACGA-TGATGCTCATAAGAGATAATCCAACCGAAACATGCCAATGCTCACAAT
1 TCCAACCATAACAC-ACCAATGCTCATAAGAGCTAATCCAACCGAAACACACCAATGCTCACAAG
59711404 AGA-TAA
65 A-ACTAA
* * *
59711410 TCCAACCATAACACACCAATTCTCATAAGAGCTAATCCAACCGTAACACACCAATGCTCATAAGA
1 TCCAACCATAACACACCAATGCTCATAAGAGCTAATCCAACCGAAACACACCAATGCTCACAAGA
59711475 ACTAA
66 ACTAA
*
59711480 TCCAACCGTAACACACCAATGCTCATAAGAGCTAATCCAACCGAAACA
1 TCCAACCATAACACACCAATGCTCATAAGAGCTAATCCAACCGAAACA
59711528 TGCCAGATAA
Statistics
Matches: 104, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
69 2 0.02
70 102 0.98
ACGTcount: A:0.43, C:0.30, G:0.10, T:0.18
Consensus pattern (70 bp):
TCCAACCATAACACACCAATGCTCATAAGAGCTAATCCAACCGAAACACACCAATGCTCACAAGA
ACTAA
Found at i:59716117 original size:58 final size:57
Alignment explanation
Indices: 59716027--59716176 Score: 153
Period size: 57 Copynumber: 2.6 Consensus size: 57
59716017 TATTGACCTT
* *** *
59716027 GTTATATAAAGGATTTAGCCCAAACAGGTAATCC-AGATATAATAC-CTCTTGAGTATAC
1 GTTATATAAAAGATTTAGCCTGGACTGGTAATCCTA-AT-TAA-ACTCTCTTGAGTATAC
* * * * *
59716085 GTTATGAT-TAGGGTTTAGCCTGGACTGGTAATCCTAATTGAACTCTTTTGAGTATAC
1 GTTAT-ATAAAAGATTTAGCCTGGACTGGTAATCCTAATTAAACTCTCTTGAGTATAC
59716142 GTTATATAAAAGATTTAGCCTGGACTGGTAATCCT
1 GTTATATAAAAGATTTAGCCTGGACTGGTAATCCT
59716177 GTTATACGAT
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
56 4 0.05
57 43 0.56
58 27 0.35
59 3 0.04
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (57 bp):
GTTATATAAAAGATTTAGCCTGGACTGGTAATCCTAATTAAACTCTCTTGAGTATAC
Found at i:59721100 original size:29 final size:29
Alignment explanation
Indices: 59721058--59721115 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
59721048 GGCTAACCGA
59721058 TAGGCAACTAGCCCTACTCTCTCGGTAAT
1 TAGGCAACTAGCCCTACTCTCTCGGTAAT
*
59721087 TAGGCAACTGGCCCTACTCTCTCGGTAAT
1 TAGGCAACTAGCCCTACTCTCTCGGTAAT
59721116 CTCATACGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.28
Consensus pattern (29 bp):
TAGGCAACTAGCCCTACTCTCTCGGTAAT
Found at i:59731635 original size:50 final size:47
Alignment explanation
Indices: 59731518--59731649 Score: 178
Period size: 47 Copynumber: 2.7 Consensus size: 47
59731508 AGGGTAGAGT
59731518 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCGTACATCAA
1 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCGTACATCAA
* * *
59731565 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAT-ATCC
1 GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCGT-ACATCA--A
59731613 GTATCGATGCCATGTCCTAGACATGGTCTTACACTAG
1 G--TCGATGCCATGTCCTAGACATGGTCTTACACTAG
59731650 TTCCCATAAC
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
46 2 0.03
47 40 0.53
48 1 0.01
50 32 0.43
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GTCGATGCCATGTCCTAGACATGGTCTTACACTAGCTCGTACATCAA
Found at i:59740748 original size:44 final size:44
Alignment explanation
Indices: 59740685--59740772 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
59740675 ATGAGTCAGA
*
59740685 TAATTCACCTCATGTGTCTTATGCTGGCGAGACACATAAACAAC
1 TAATTCACCTCATGCGTCTTATGCTGGCGAGACACATAAACAAC
* * *
59740729 TAATTCGCCTCATGCGTCTTATGCTGGTGAGACACATAAGCAAC
1 TAATTCACCTCATGCGTCTTATGCTGGCGAGACACATAAACAAC
59740773 CACGTTACCC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
TAATTCACCTCATGCGTCTTATGCTGGCGAGACACATAAACAAC
Found at i:59763035 original size:19 final size:19
Alignment explanation
Indices: 59763011--59763056 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
59763001 CAATGCACAT
*
59763011 GCCCGTGTGTTTGGGACAC
1 GCCCGTGTGCTTGGGACAC
59763030 GCCCGTGTGCTTGGGACAC
1 GCCCGTGTGCTTGGGACAC
59763049 GCCCGTGT
1 GCCCGTGT
59763057 CCCTTACCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.09, C:0.30, G:0.37, T:0.24
Consensus pattern (19 bp):
GCCCGTGTGCTTGGGACAC
Found at i:59764535 original size:51 final size:51
Alignment explanation
Indices: 59764480--59764579 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
59764470 CTACCACATA
* * *
59764480 ACATGTAA-CACATCCATAATGAACTCGGACCTCTCAACCAGCTCGGATGTT
1 ACATG-AATCACATCCATAATGAACTCAGACCACTCAACCAGCTCAGATGTT
* * * *
59764531 ACATGAATCGCATCCATCATTAACTCAGACCACTCAACGAGCTCAGATG
1 ACATGAATCACATCCATAATGAACTCAGACCACTCAACCAGCTCAGATG
59764580 CTTTCAGACA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (51 bp):
ACATGAATCACATCCATAATGAACTCAGACCACTCAACCAGCTCAGATGTT
Found at i:59768399 original size:49 final size:49
Alignment explanation
Indices: 59768226--59768470 Score: 301
Period size: 49 Copynumber: 4.9 Consensus size: 49
59768216 TCTATTGTGA
* * ** * *
59768226 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-T
* * * **
59768277 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
59768326 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
59768376 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
59768425 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59768471 GCTTTGGCTA
Statistics
Matches: 169, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 89 0.53
50 44 0.26
51 36 0.21
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59768413 original size:99 final size:100
Alignment explanation
Indices: 59768226--59768457 Score: 306
Period size: 99 Copynumber: 2.3 Consensus size: 100
59768216 TCTATTGTGA
* * *
59768226 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGAAAACTGTGATCACATGTGTAG
* **
59768291 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* ** * * * *
59768326 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCCGGATAA-T-TGGTCACATGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGAAAACTGTGATCACATGTGTA
59768389 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
65 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
59768425 GGTCGCATGTGTAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
59768458 TGCGTACCAG
Statistics
Matches: 115, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
98 30 0.26
99 45 0.39
100 1 0.01
101 39 0.34
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCATACCCGAAAACTGTGATCACATGTGTAG
TACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:59771494 original size:15 final size:15
Alignment explanation
Indices: 59771474--59771538 Score: 80
Period size: 15 Copynumber: 4.4 Consensus size: 15
59771464 GTATCTTAGG
59771474 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
59771489 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
59771504 TTT-TTCTATTTTGGA
1 TTTCTT-TATTCTGGA
*
59771519 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
59771533 TTTCTT
1 TTTCTT
59771539 GTTATCTTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
14 10 0.23
15 31 0.72
16 2 0.05
ACGTcount: A:0.09, C:0.12, G:0.14, T:0.65
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:59771519 original size:30 final size:30
Alignment explanation
Indices: 59771472--59771538 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
59771462 TCGTATCTTA
59771472 GGTTTCTTTATTCTGGATTTCTTTATTCTG
1 GGTTTCTTTATTCTGGATTTCTTTATTCTG
*
59771502 GGTTT-TTCTATTTTGGATTTCTTTATTC-G
1 GGTTTCTT-TATTCTGGATTTCTTTATTCTG
*
59771531 GTTTTCTT
1 GGTTTCTT
59771539 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.09, C:0.12, G:0.16, T:0.63
Consensus pattern (30 bp):
GGTTTCTTTATTCTGGATTTCTTTATTCTG
Found at i:59773855 original size:49 final size:49
Alignment explanation
Indices: 59773783--59773920 Score: 204
Period size: 49 Copynumber: 2.8 Consensus size: 49
59773773 CACGTGTCTA
*
59773783 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCAC
*
59773832 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCAC
* ** * * *
59773881 ATGTGCCGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
59773921 GCTTTGGCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 81 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (49 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCAC
Found at i:59773870 original size:106 final size:108
Alignment explanation
Indices: 59773676--59773870 Score: 304
Period size: 106 Copynumber: 1.8 Consensus size: 108
59773666 TGAGGTCGCA
* * *
59773676 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCATGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
*
59773741 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTCTAG
66 TGCAGGCTACTACGTGTACCAGATGGTTAGGTCACGTGTCTAG
* * * *
59773784 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCACGTGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
59773847 TGCAGGCTACTACGTGTACCAGAT
66 TGCAGGCTACTACGTGTACCAGAT
59773871 AATTGGTCGC
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 43 0.54
107 1 0.01
108 35 0.44
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (108 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAGTACTAAG
TGCAGGCTACTACGTGTACCAGATGGTTAGGTCACGTGTCTAG
Found at i:59781603 original size:93 final size:93
Alignment explanation
Indices: 59781495--59781665 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
59781485 GCCCCTAAGT
* * * * * * *
59781495 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAATTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCGAACTCAACTCAA
*
59781560 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CAAGTTCGGATGCCTAGTTACATCTCAC
*
59781588 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAATGAACTCGAACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCGAACTCAACTCAA
59781653 CAAGTTCGGATGC
66 CAAGTTCGGATGC
59781666 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCACAAATGAACTCGAACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATCTCAC
Found at i:59781649 original size:46 final size:45
Alignment explanation
Indices: 59781494--59781662 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 45
59781484 CGCCCCTAAG
* * * * *
59781494 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAA
1 TGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCACAA
* * *
59781539 GTGAACTCGGACTCAATTCAACGAGTTCGGATGCCTAGTT-ACATCTCAC--
1 -TGAACTCGAACTCAACTCAACGAGTTCGGA---C-A-TTCGCATC-CACAA
59781588 -GAACTC-AGACTCAACTCAACGAGTTCGGACATTCGCATCCACAAA
1 TGAACTCGA-ACTCAACTCAACGAGTTCGGACATTCGCATCCAC-AA
*
59781633 TGAACTCGAACTCAACTCAACAAGTTCGGA
1 TGAACTCGAACTCAACTCAACGAGTTCGGA
59781663 TGCTCAACCA
Statistics
Matches: 100, Mismatches: 10, Indels: 26
0.74 0.07 0.19
Matches are distributed among these distances:
42 5 0.05
43 5 0.05
44 1 0.01
46 53 0.53
47 27 0.27
49 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
TGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCACAA
Found at i:59782120 original size:30 final size:30
Alignment explanation
Indices: 59782084--59782144 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
59782074 CATTTAATAC
*
59782084 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
59782114 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
59782144 A
1 A
59782145 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:59800358 original size:25 final size:25
Alignment explanation
Indices: 59800329--59800376 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
59800319 TTATAACATG
* *
59800329 AAAATGACCATTTTTCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
59800354 AAAATGACTATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
59800377 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:59800479 original size:20 final size:20
Alignment explanation
Indices: 59800413--59800479 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
59800403 ATTTTCATAA
* *
59800413 ACATGGTATCTATGATATGC
1 ACATGATATGTATGATATGC
*
59800433 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
59800453 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
59800473 ACGTGAT
1 ACATGAT
59800480 GTAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:59800650 original size:24 final size:23
Alignment explanation
Indices: 59800531--59800648 Score: 209
Period size: 23 Copynumber: 5.1 Consensus size: 23
59800521 GGAAGTGAAT
59800531 AAGGGCTTATGCCCCAGTTATTA
1 AAGGGCTTATGCCCCAGTTATTA
*
59800554 AAGGGCTTGTGCCCCAGTTATTA
1 AAGGGCTTATGCCCCAGTTATTA
59800577 AAGGGCTTATGCCCCAGTTATTA
1 AAGGGCTTATGCCCCAGTTATTA
59800600 AAGGGCTTATGCCCCAGTTATTAA
1 AAGGGCTTATGCCCCAGTTATT-A
*
59800624 AAGGGCTTTTGCCCCAGTTATTA
1 AAGGGCTTATGCCCCAGTTATTA
59800647 AA
1 AA
59800649 AGAGGCTAGG
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 69 0.76
24 22 0.24
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (23 bp):
AAGGGCTTATGCCCCAGTTATTA
Found at i:59800899 original size:31 final size:31
Alignment explanation
Indices: 59800861--59800924 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
59800851 ACCGTACAGT
* *
59800861 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
**
59800892 AAAGGCTTCGACCCAGTGTTATGAAATATGA
1 AAAGGCTTCGACCCAGTAATATGAAATATGA
59800923 AA
1 AA
59800925 TATGGAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATGA
Found at i:59817883 original size:23 final size:23
Alignment explanation
Indices: 59817853--59817904 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
59817843 TGTAGTTATG
*
59817853 AATAGTAACACAGCAAAGCTGCT
1 AATAGTAACACAGCAAAGCTACT
*
59817876 AATAGTAACGCAGCAAAGCTACT
1 AATAGTAACACAGCAAAGCTACT
59817899 AATAGT
1 AATAGT
59817905 GGTAAACGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.17, T:0.19
Consensus pattern (23 bp):
AATAGTAACACAGCAAAGCTACT
Found at i:59826346 original size:11 final size:12
Alignment explanation
Indices: 59826330--59826378 Score: 50
Period size: 11 Copynumber: 4.3 Consensus size: 12
59826320 GCCGTGAGCT
59826330 AAAGAAAAGA-A
1 AAAGAAAAGACA
* *
59826341 AAAGAAAGGATA
1 AAAGAAAAGACA
*
59826353 AGAGAAAA-ACA
1 AAAGAAAAGACA
59826364 AAAG-AAAGACA
1 AAAGAAAAGACA
59826375 AAAG
1 AAAG
59826379 GTTGGTTTCA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 3 0.10
11 21 0.68
12 7 0.23
ACGTcount: A:0.73, C:0.04, G:0.20, T:0.02
Consensus pattern (12 bp):
AAAGAAAAGACA
Found at i:59827574 original size:27 final size:28
Alignment explanation
Indices: 59827493--59827587 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
59827483 GAGATTGGCG
* * * *
59827493 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
59827522 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
59827550 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
59827577 CTGAGTGTGCG
1 CTAAGTGTGCG
59827588 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:59827598 original size:27 final size:27
Alignment explanation
Indices: 59827518--59827601 Score: 98
Period size: 27 Copynumber: 3.1 Consensus size: 27
59827508 TAAATTGTAC
* *
59827518 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
59827546 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
59827573 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
59827600 AG
1 AG
59827602 TTTTGAATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 31 0.61
28 20 0.39
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:59833079 original size:25 final size:25
Alignment explanation
Indices: 59833051--59833108 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
59833041 ATTTTTCTCC
*
59833051 TAAA-TTTCAATTTTATTTAATTATT
1 TAAATTTTCAA-TTTATTAAATTATT
59833076 TAAATTTTCAATTTATTAAATTA-T
1 TAAATTTTCAATTTATTAAATTATT
59833100 TAATATTTT
1 TAA-ATTTT
59833109 ATACTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 20 0.67
26 6 0.20
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (25 bp):
TAAATTTTCAATTTATTAAATTATT
Found at i:59836723 original size:17 final size:18
Alignment explanation
Indices: 59836697--59836730 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
59836687 ATTTGAATCG
*
59836697 AAATTGCGAAA-TTAAAT
1 AAATTACGAAACTTAAAT
59836714 AAATTACGAAACTTAAA
1 AAATTACGAAACTTAAA
59836731 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTACGAAACTTAAAT
Found at i:59837479 original size:10 final size:10
Alignment explanation
Indices: 59837452--59837501 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
59837442 TGAAATTCTA
*
59837452 AAAGATAAAC
1 AAAGATAAAT
59837462 ACAA-ATAAAT
1 A-AAGATAAAT
59837472 AAAGATAAAT
1 AAAGATAAAT
59837482 AAAGATAAAT
1 AAAGATAAAT
59837492 GAAA-ATAAAT
1 -AAAGATAAAT
59837502 CTTAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 2 0.06
10 29 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:59838132 original size:10 final size:9
Alignment explanation
Indices: 59838117--59838149 Score: 50
Period size: 8 Copynumber: 3.7 Consensus size: 9
59838107 TATTAATACT
59838117 TTTTTTTTCC
1 TTTTTTTT-C
59838127 TTTTTTTTC
1 TTTTTTTTC
59838136 -TTTTTTTC
1 TTTTTTTTC
59838144 TTTTTT
1 TTTTTT
59838150 AATTAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 6 0.27
10 8 0.36
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:59839239 original size:21 final size:21
Alignment explanation
Indices: 59839213--59839261 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
59839203 AATAATTAAG
* *
59839213 TAATAAATCACTAAGATAAAA
1 TAATAAATAACTAAAATAAAA
*
59839234 TAATAAATAATTAAAATAAAA
1 TAATAAATAACTAAAATAAAA
59839255 TAATAAA
1 TAATAAA
59839262 GAAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
TAATAAATAACTAAAATAAAA
Found at i:59839271 original size:10 final size:10
Alignment explanation
Indices: 59839256--59839302 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
59839246 AAAATAAAAT
59839256 AATAAAGAAA
1 AATAAAGAAA
59839266 AATAAAGAAA
1 AATAAAGAAA
*
59839276 AAGAAA-AAA
1 AATAAAGAAA
*
59839285 AATAAA-AAT
1 AATAAAGAAA
59839294 AA-AAAGAAA
1 AATAAAGAAA
59839303 TAAAAATTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
8 3 0.09
9 14 0.44
10 15 0.47
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (10 bp):
AATAAAGAAA
Found at i:59839309 original size:6 final size:6
Alignment explanation
Indices: 59839235--59839298 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
59839225 AAGATAAAAT
* * *
59839235 AATAAA TAATTAA AAT-AA AATAATA AAGAAA AATAAA GAA-AAA GAAAAAA
1 AATAAA -AATAAA AATAAA AATAA-A AATAAA AATAAA -AATAAA -AATAAA
59839285 AATAAA AATAAA AA
1 AATAAA AATAAA AA
59839299 GAAATAAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
5 5 0.10
6 29 0.59
7 15 0.31
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AATAAA
Found at i:59839309 original size:16 final size:15
Alignment explanation
Indices: 59839246--59839308 Score: 72
Period size: 16 Copynumber: 3.9 Consensus size: 15
59839236 ATAAATAATT
59839246 AAAATAAAATAATAAAG
1 AAAA-AAAATAA-AAAG
*
59839263 AAAAATAAAGAAAAAG
1 AAAAA-AAATAAAAAG
*
59839279 AAAAAAAATAAAAAT
1 AAAAAAAATAAAAAG
59839294 AAAAAGAAATAAAAA
1 AAAAA-AAATAAAAA
59839309 TTGGGTTGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 13 0.32
16 19 0.46
17 9 0.22
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (15 bp):
AAAAAAAATAAAAAG
Found at i:59843031 original size:10 final size:10
Alignment explanation
Indices: 59843012--59843071 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
59843002 TGAAATTCTA
59843012 AAAGATAAAT
1 AAAGATAAAT
59843022 ACAA-ATAAAT
1 A-AAGATAAAT
*
59843032 AAAGATAATT
1 AAAGATAAAT
59843042 AAAGATAAAT
1 AAAGATAAAT
59843052 AAAGATAAAT
1 AAAGATAAAT
59843062 GAAA-ATAAAT
1 -AAAGATAAAT
59843072 CTTAAAATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:59854008 original size:37 final size:37
Alignment explanation
Indices: 59853949--59854094 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
59853939 AGCTCAGACG
* *
59853949 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
59853986 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59854023 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
59854060 TAATCTCCACACGTAGTCATCGAGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59854095 ATATATTTCA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59854371 original size:100 final size:96
Alignment explanation
Indices: 59854240--59854425 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 96
59854230 GCACATCGCC
* *
59854240 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACACATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
*
59854305 TT-GACCATTCGGCTTTATCACATATGCATATCTCA
62 TTAG-CCATTCGGCTTTACCACATATGCATATCTCA
*
59854340 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACACATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
59854405 CCATTCGGCTTTACCACATAT
66 CCATTCGGCTTTACCACATAT
59854426 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
96 35 0.43
97 1 0.01
100 45 0.56
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACACATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATGCATATCTCA
Found at i:59854475 original size:47 final size:47
Alignment explanation
Indices: 59854396--59854636 Score: 338
Period size: 47 Copynumber: 5.1 Consensus size: 47
59854386 CATACATATT
* * * * * *
59854396 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
59854443 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
59854490 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* **
59854537 TCACATTGGCCATTCGGCCTTATCACATATATGCATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* * * ***
59854584 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
59854631 TCACAT
1 TCACAT
59854637 AAAATCCTAA
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:59854492 original size:25 final size:25
Alignment explanation
Indices: 59854464--59854541 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 25
59854454 ATTCGGCCTT
59854464 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
* *
59854489 AT--CACAT-TGGCCAT--TCGGCCTT-
1 ATCACACATAT-G-CATGCTC-ACATTC
59854511 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATGCTCACATTC
59854536 ATCACA
1 ATCACA
59854542 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 5 0.12
23 12 0.30
24 12 0.30
25 11 0.28
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.28
Consensus pattern (25 bp):
ATCACACATATGCATGCTCACATTC
Found at i:59854516 original size:22 final size:22
Alignment explanation
Indices: 59854489--59854607 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
59854479 GCTCACATTC
59854489 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
59854511 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGGCCTT
59854535 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
59854558 ATCACATATATGCATATTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
59854582 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
59854605 ATC
1 ATC
59854608 TCATATATAC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:59854626 original size:94 final size:94
Alignment explanation
Indices: 59854300--59854636 Score: 351
Period size: 94 Copynumber: 3.6 Consensus size: 94
59854290 TATATATATT
* * * * *
59854300 TCACATTGACCATTCGGCTTTATCACATATGCATATCTCATACACATT--TCACATTAGCCATTC
1 TCACATTGGCCATTCGGCCTTATCACATAT--ATA-CACATTCACATTCATCACATTGGCCATTC
* * *
59854363 GGCTTTACCACATATA--CATATCTCATACATAT-T
63 GGCCTTATCACATATATGCATAT-TC--ACAT-TCA
* * * * ** * *
59854396 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
* **
59854461 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACATATATGCATATTCACATTCA
* * ***
59854490 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
59854555 CTTATCACATATATGCATATTCACATTCA
66 CTTATCACATATATGCATATTCACATTCA
*
59854584 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACAT
59854637 AAAATCCTAA
Statistics
Matches: 203, Mismatches: 33, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
93 8 0.04
94 137 0.67
95 26 0.13
96 29 0.14
97 3 0.01
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
TCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACATTGGCCATTCGGC
CTTATCACATATATGCATATTCACATTCA
Found at i:59854637 original size:25 final size:25
Alignment explanation
Indices: 59854558--59854637 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
59854548 ATTCGGCCTT
*
59854558 ATCACATATATGCATATTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
59854583 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
* *
59854605 ATCTCATATATACACATTCACATTC
1 ATCACATATATGCACATTCACATTC
59854630 ATCACATA
1 ATCACATA
59854638 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 10 0.25
23 6 0.15
24 5 0.12
25 19 0.47
ACGTcount: A:0.33, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:59858826 original size:40 final size:40
Alignment explanation
Indices: 59858768--59858998 Score: 419
Period size: 40 Copynumber: 5.8 Consensus size: 40
59858758 CCAGCATGAT
*
59858768 TGCTCTTCGGGACCTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
59858808 TGCTCTTCGGGACTTAGCCCGGATATATCATTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
59858848 T-CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
59858887 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
59858927 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
59858967 TGCTCTTCGAGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
59858999 TTCAATTCTC
Statistics
Matches: 184, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
39 38 0.21
40 146 0.79
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:59858870 original size:79 final size:80
Alignment explanation
Indices: 59858768--59858998 Score: 419
Period size: 79 Copynumber: 2.9 Consensus size: 80
59858758 CCAGCATGAT
*
59858768 TGCTCTTCGGGACCTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
59858833 TATCATTAGCACGAA
66 TATCACTAGCACGAA
59858848 T-CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
59858912 CATCACTAGCACGAA
66 TATCACTAGCACGAA
*
59858927 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
59858992 TATCACT
66 TATCACT
59858999 TTCAATTCTC
Statistics
Matches: 145, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
79 76 0.52
80 69 0.48
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAA
Found at i:59860330 original size:37 final size:37
Alignment explanation
Indices: 59860268--59860413 Score: 229
Period size: 37 Copynumber: 3.9 Consensus size: 37
59860258 AGCTCAGACG
* * * *
59860268 AAATCTCCACACGAAGTTATTGGGTCTTACTCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59860305 AAATCTCCACACGTAGACATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59860342 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
59860379 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
59860414 ATATATTTCC
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:59860619 original size:52 final size:48
Alignment explanation
Indices: 59860559--59860745 Score: 277
Period size: 48 Copynumber: 3.8 Consensus size: 48
59860549 GCACATCGCC
*
59860559 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
59860611 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
59860659 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
59860707 TACATATTTCACATTAGCCATTCAGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
59860746 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
48 81 0.65
49 1 0.01
51 1 0.01
52 42 0.34
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:59860680 original size:100 final size:96
Alignment explanation
Indices: 59860559--59860744 Score: 284
Period size: 100 Copynumber: 1.9 Consensus size: 96
59860549 GCACATCGCC
* *
59860559 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACA
1 TACACATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACA
*
59860624 TT-GACCATTCGGCTTTACCACATATGCATATCTCA
62 TTAG-CCATTCAGCTTTACCACATATGCATATCTCA
*
59860659 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACACATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
59860724 CCATTCAGCTTTACCACATAT
66 CCATTCAGCTTTACCACATAT
59860745 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
96 35 0.43
97 1 0.01
100 45 0.56
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (96 bp):
TACACATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCAGCTTTACCACATATGCATATCTCA
Found at i:59860687 original size:48 final size:48
Alignment explanation
Indices: 59860559--59860846 Score: 248
Period size: 48 Copynumber: 5.9 Consensus size: 48
59860549 GCACATCGCC
* * *
59860559 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTC----A
* *
59860611 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACACATTTCACATTAG-CCATTCGGCTTTACCACATATGCATATCTCA
*
59860659 TACACATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
* * *
59860707 TACATATTTCACATTAGCCATTCAGCTTTACCACATATATGCATGT-TCA
1 TACACATTTCACATTAGCCATTCGGCTTTACCAC--ATATGCATATCTCA
** * * * *
59860756 TATTCA--CCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTCA
1 TACACATTTCACATTAGCCATTCGGCTTTA-C-CACATATGCATATCTCA
* ** * *
59860803 CATTCA--TCACATTGGCCATTCGGCCTTATCACACATATGCATAT
1 TACACATTTCACATTAGCCATTCGGCTTTA-C-CACATATGCATAT
59860847 TCACATTCAT
Statistics
Matches: 207, Mismatches: 21, Indels: 20
0.83 0.08 0.08
Matches are distributed among these distances:
47 69 0.33
48 77 0.37
49 10 0.05
50 8 0.04
51 1 0.00
52 42 0.20
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (48 bp):
TACACATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
Found at i:59860794 original size:47 final size:47
Alignment explanation
Indices: 59860715--59860908 Score: 253
Period size: 47 Copynumber: 4.1 Consensus size: 47
59860705 CATACATATT
* * * * * *
59860715 TCACATTAGCCATTCAGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* *
59860762 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
*
59860809 TCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
* * * ** *
59860856 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTTACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
59860903 TCACAT
1 TCACAT
59860909 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCA
Found at i:59860835 original size:22 final size:22
Alignment explanation
Indices: 59860808--59860879 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
59860798 GCTCACATTC
59860808 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
59860830 ATCACACATAT-GCATATTC-ACATT
1 AT--CACAT-TGGC-CATTCGGCCTT
59860854 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
59860877 ATC
1 ATC
59860880 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 10 0.27
23 10 0.27
24 10 0.27
25 7 0.19
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:59860900 original size:94 final size:92
Alignment explanation
Indices: 59860619--59860908 Score: 289
Period size: 94 Copynumber: 3.1 Consensus size: 92
59860609 TATATATATT
* ** *
59860619 TCACATTGACCATTCGGCTTTAC-CACATATGCATATCTCATACACATTTCACATTAGCCATTCG
1 TCACATTGGCCATTCGGCTTTACACACATATGCATAT-TCATATTCA--TCACATTGGCCATTCG
* *
59860683 GCTTTA-CCACATATACATATCTCATACATAT-T
63 GCCTTATCCACATATACATAT-T--TACAT-TCA
* * * * *
59860715 TCACATTAGCCATTCAGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCTTTA-CACACATATGCATATTCATATTCATCACATTGGCCATTCGGC
* ** *
59860780 CTTATCACACATATGCATGCTCACATTCA
65 CTTATC-CACATATACATATTTACATTCA
* *
59860809 TCACATTGGCCATTCGGCCTTATCACACATATGCATATTCACATTCATCACATTGGCCATTCGGC
1 TCACATTGGCCATTCGGCTTTA-CACACATATGCATATTCATATTCATCACATTGGCCATTCGGC
* *
59860874 CTTATCTCATATATACACATTTACATTCA
65 CTTATC-CACATATACATATTTACATTCA
59860903 TCACAT
1 TCACAT
59860909 AAAATCCTAA
Statistics
Matches: 159, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
93 1 0.01
94 89 0.56
95 19 0.12
96 21 0.13
97 18 0.11
98 11 0.07
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (92 bp):
TCACATTGGCCATTCGGCTTTACACACATATGCATATTCATATTCATCACATTGGCCATTCGGCC
TTATCCACATATACATATTTACATTCA
Found at i:59863713 original size:29 final size:29
Alignment explanation
Indices: 59863680--59863738 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
59863670 AAAGTTATCA
59863680 TCCTACTTGGATTGACTAAATCTTCCCTT
1 TCCTACTTGGATTGACTAAATCTTCCCTT
59863709 TCCTACTTGGATTGACTAAATCTTCCCTT
1 TCCTACTTGGATTGACTAAATCTTCCCTT
59863738 T
1 T
59863739 GAGGACTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.10, T:0.42
Consensus pattern (29 bp):
TCCTACTTGGATTGACTAAATCTTCCCTT
Found at i:59869117 original size:43 final size:42
Alignment explanation
Indices: 59869069--59869230 Score: 121
Period size: 43 Copynumber: 3.8 Consensus size: 42
59869059 AGCATATACA
* *
59869069 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCAAACATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAA-ATCG
* * * * * *
59869112 ATGCC-ACAATCCCGGACAAGGTCTTACACGAAAT-TAGATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAAATCAAAAT-CG
* * * * * *
59869154 ATGTCGATGTCCCATACATGGTCTTACATGTAAAACAGAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AAATCA-AAATCG
* *
59869198 ATGCCAACGTCCCAGACGTGGTCTTACAGGAAA
1 ATGCCAACGTCCCAGACATGGTCTTACATGAAA
59869231 ACGCATATCG
Statistics
Matches: 88, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
41 2 0.02
42 26 0.30
43 32 0.36
44 26 0.30
45 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAAATCAAAATCG
Found at i:59870460 original size:39 final size:38
Alignment explanation
Indices: 59870417--59870528 Score: 125
Period size: 38 Copynumber: 2.9 Consensus size: 38
59870407 CTGGCAATTT
*
59870417 GCCTGCTAGGTATAAACCCGAACTTAACACTGGCATAA
1 GCCTGCTAGGTATAAACCCGAACTTAACACCGGCATAA
* * * * *
59870455 GGCCTGCTAGGTATCAACCTGAATTTATCACCGGCATGA
1 -GCCTGCTAGGTATAAACCCGAACTTAACACCGGCATAA
** * *
59870494 GCCTGCTAGGTATAAACTTGAATTTATCACCGGCA
1 GCCTGCTAGGTATAAACCCGAACTTAACACCGGCA
59870529 CGAGGCCTGC
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
38 33 0.51
39 32 0.49
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (38 bp):
GCCTGCTAGGTATAAACCCGAACTTAACACCGGCATAA
Found at i:59870516 original size:38 final size:39
Alignment explanation
Indices: 59870417--59870541 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
59870407 CTGGCAATTT
* * * * *
59870417 GCCTGCTAGGTATAAACCCGAACTTAACACTGGCATAAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCATGAG
*
59870456 GCCTGCTAGGTATCAACCTGAATTTATCACCGGCATGA-
1 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCATGAG
* *
59870494 GCCTGCTAGGTATAAACTTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCATGAG
59870533 GCCTGCTAG
1 GCCTGCTAG
59870542 ACATTAAGTC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
38 35 0.46
39 41 0.54
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAATTTATCACCGGCATGAG
Found at i:59879222 original size:40 final size:40
Alignment explanation
Indices: 59879132--59879301 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 40
59879122 TCCTCGTTCA
* * * * *
59879132 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
59879171 CATGCCTTCGGGA-TGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACT-TAACCCGGATTTAATAACTCGCACG
*
59879211 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
59879251 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
59879291 AAGGCCTTCGG
1 AATGCCTTCGG
59879302 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
39 31 0.28
40 79 0.71
41 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59887141 original size:40 final size:40
Alignment explanation
Indices: 59887050--59887219 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
59887040 TCCTCGTTCA
* * * * *
59887050 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
59887089 CATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
59887129 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * *
59887169 AATGCCCTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
59887209 AAGGCCTTCGG
1 AATGCCTTCGG
59887220 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:59889468 original size:39 final size:39
Alignment explanation
Indices: 59889413--59889538 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
59889403 CTGGCAATTT
* * *
59889413 GCCTGCTAGGTATAAACCCGAACTTAACACCAGCACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCAGCACGAG
* *
59889452 ACCTGCTAGGTATAAACCTGAATTTATCACCAGAACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCAGCACGAG
* **
59889491 GCCTACTAGGTATAAACCTGAATTTATCACTGGCACGAG
1 GCCTGCTAGGTATAAACCTGAATTTATCACCAGCACGAG
59889530 GCCTGCTAG
1 GCCTGCTAG
59889539 ACATTAAGTC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAATTTATCACCAGCACGAG
Found at i:59897866 original size:51 final size:51
Alignment explanation
Indices: 59897789--59897928 Score: 167
Period size: 51 Copynumber: 2.7 Consensus size: 51
59897779 TGGATGCCCG
*
59897789 GTGGCCTGCACATAGTACCACCCTTGTCG-TCAAAGCTACCTTCTT-CACAAA
1 GTGGCCTGCACATAGTACCACACTTGT-GATCAAAGCTACCTT-TTACACAAA
* * * *
59897840 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
* * * *
59897891 GTGTCCTGCACTTAGCACCACACATGTGATCAAAGCTA
1 GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTA
59897929 TCGGGTACGC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
50 3 0.04
51 73 0.96
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTGATCAAAGCTACCTTTTACACAAA
Found at i:59897942 original size:51 final size:51
Alignment explanation
Indices: 59897856--59898003 Score: 149
Period size: 51 Copynumber: 2.9 Consensus size: 51
59897846 TTCACATAGT
* ***
59897856 ACCACACTTGTGACCAAAGCTATCTTTTACACATAGT-GTCCTGCACTTAGC
1 ACCACACATGTGACCAAAGCTATCGGGTACACATAGTAG-CCTGCACTTAGC
* * *
59897907 ACCACACATGTGATCAAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGT
1 ACCACACATGTGACCAAAGCTATCGGGTACACATAGTAGCCTGCACTTAGC
* * * * * *
59897958 ACTACACATGCGACCTAA-CCATCTGGTACACGTAGTAG-CTGCACTT
1 ACCACACATGTGACCAAAGCTATCGGGTACACATAGTAGCCTGCACTT
59898004 TGTAACAGCC
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
49 8 0.10
50 16 0.20
51 56 0.69
52 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (51 bp):
ACCACACATGTGACCAAAGCTATCGGGTACACATAGTAGCCTGCACTTAGC
Found at i:59899676 original size:23 final size:24
Alignment explanation
Indices: 59899630--59899705 Score: 127
Period size: 24 Copynumber: 3.2 Consensus size: 24
59899620 AAGTCTATCA
*
59899630 GGAGAGGATTTAAGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
59899654 GGAGAGGATTTAGGA-CTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
59899677 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
59899701 GGAGA
1 GGAGA
59899706 ACAGTGTTGG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.47
24 26 0.53
ACGTcount: A:0.34, C:0.04, G:0.41, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:59901155 original size:27 final size:26
Alignment explanation
Indices: 59901115--59901225 Score: 141
Period size: 27 Copynumber: 4.2 Consensus size: 26
59901105 AGGAAGCGTC
* *
59901115 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
59901142 CTGGTGGCTCTGCCACATATATCTTTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
59901169 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
* * *
59901196 CTGGTGACTCTGTCACATCATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
59901222 CTGG
1 CTGG
59901226 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 15 0.20
27 58 0.77
28 2 0.03
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:59914627 original size:40 final size:40
Alignment explanation
Indices: 59914572--59914874 Score: 466
Period size: 40 Copynumber: 7.6 Consensus size: 40
59914562 TATTCGGATG
**
59914572 ATAACCGGGCTAAGTCATGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
59914612 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59914652 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
59914692 ATATCCGGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAACC-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
59914733 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
59914773 ATATCCGGGCTAAGTCCCGATGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
59914813 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
59914853 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
59914875 TACTTGGTTT
Statistics
Matches: 249, Mismatches: 12, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
39 17 0.07
40 192 0.77
41 40 0.16
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:59914792 original size:121 final size:120
Alignment explanation
Indices: 59914572--59914874 Score: 468
Period size: 121 Copynumber: 2.5 Consensus size: 120
59914562 TATTCGGATG
** * *
59914572 ATAACCGGGCTAAGTCATGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
59914637 TTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
66 TTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
*
59914692 ATATCCGGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATAACC-GGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
* * *
59914757 ATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGATGGCATTTGTGCGAGTTACT
65 ATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
* *
59914813 ATAACCGGGCTAAATCCCGAAGGCATTTG-AGCGAG-TAGCTATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
59914875 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
119 18 0.11
120 39 0.23
121 112 0.66
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
Found at i:59914841 original size:161 final size:159
Alignment explanation
Indices: 59914576--59914874 Score: 494
Period size: 161 Copynumber: 1.9 Consensus size: 159
59914566 CGGATGATAA
*
59914576 CCGGGCTAAGTCATGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
59914641 TGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTA-CGAGTTA-CTATATCCGGGGCT
66 TGCGAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTG-AGCGAG-TAGCTATATCC--GGCT
59914704 AAGTCCCGAAGGCATTTGTACGAGTTACTATAT
127 AAGTCCCGAAGGCATTTGTACGAGTTACTATAT
* * *
59914737 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGATGGCATTTG
1 CCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
*
59914802 TGCGAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGCTAATT
66 TGCGAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGCTAAGT
59914867 CCCGAAGG
131 CCCGAAGG
59914875 TACTTGGTTT
Statistics
Matches: 130, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
159 15 0.12
160 3 0.02
161 112 0.86
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (159 bp):
CCGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAGTAGCTATATCCGGCTAAGT
CCCGAAGGCATTTGTACGAGTTACTATAT
Found at i:59917171 original size:119 final size:118
Alignment explanation
Indices: 59916960--59917199 Score: 471
Period size: 119 Copynumber: 2.0 Consensus size: 118
59916950 ATATTGGTAT
59916960 ATGACATGTATAGGCTAGTGAGTTTATGATATATTTTGAGATTTGATATAGCCGTGAGATTTGGC
1 ATGACATGTATAGGCTAGTGAGTTTATGATATATTTTGAGATTTGATATAGCCGTGAGATTTGGC
59917025 TTGCTTTAGTTGAAAATGTTAGCATGTATTTGGTCATTTAAGTTAGCCTAAGTG
66 TTGCTTTAGTTGAAAATGTTAGCATGTATTT-GTCATTTAAGTTAGCCTAAGTG
59917079 ATGACATGTATAGGCTAGTGAGTTTATGATATATTTTGAGATTTGATATAGCCGTGAGATTTGGC
1 ATGACATGTATAGGCTAGTGAGTTTATGATATATTTTGAGATTTGATATAGCCGTGAGATTTGGC
59917144 TTGCTTTAGTTGAAAATGTTAGCATGTATTTGTCATTTAAGTTAGCCTAAGTG
66 TTGCTTTAGTTGAAAATGTTAGCATGTATTTGTCATTTAAGTTAGCCTAAGTG
59917197 ATG
1 ATG
59917200 TGCTTGGTAA
Statistics
Matches: 121, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 25 0.21
119 96 0.79
ACGTcount: A:0.27, C:0.08, G:0.24, T:0.40
Consensus pattern (118 bp):
ATGACATGTATAGGCTAGTGAGTTTATGATATATTTTGAGATTTGATATAGCCGTGAGATTTGGC
TTGCTTTAGTTGAAAATGTTAGCATGTATTTGTCATTTAAGTTAGCCTAAGTG
Found at i:59917205 original size:59 final size:59
Alignment explanation
Indices: 59917023--59917205 Score: 128
Period size: 59 Copynumber: 3.1 Consensus size: 59
59917013 GTGAGATTTG
59917023 GCTTGCTTTAGTTGAAAATGTTAGCATGTATTTGGTCATTTAAGTTAGCCTAAGTGATG-
1 GCTTGCTTTAGTTGAAAATGTTAGCATGTATTT-GTCATTTAAGTTAGCCTAAGTGATGT
* * * * ** * * ** * * *
59917082 ACATG-TATAGGCTAGTGAGT-TTATG-ATATATTTTGAGATTTGA-TATAGCCGT--GAGATTT
1 GCTTGCTTTA-G-TTGAAAATGTTA-GCATGTA-TTTGTCATTTAAGT-TAGCC-TAAGTGATGT
59917141 GGCTTGCTTTAGTTGAAAATGTTAGCATGTATTTGTCATTTAAGTTAGCCTAAGTGATGT
1 -GCTTGCTTTAGTTGAAAATGTTAGCATGTATTTGTCATTTAAGTTAGCCTAAGTGATGT
59917201 GCTTG
1 GCTTG
59917206 GTAAGTGATA
Statistics
Matches: 84, Mismatches: 26, Indels: 28
0.61 0.19 0.20
Matches are distributed among these distances:
58 9 0.11
59 46 0.55
60 26 0.31
61 3 0.04
ACGTcount: A:0.26, C:0.09, G:0.24, T:0.41
Consensus pattern (59 bp):
GCTTGCTTTAGTTGAAAATGTTAGCATGTATTTGTCATTTAAGTTAGCCTAAGTGATGT
Found at i:59919921 original size:20 final size:20
Alignment explanation
Indices: 59919898--59919939 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
59919888 GTACAAACAA
*
59919898 GGGCACGTAAGTGCAATCAG
1 GGGCACATAAGTGCAATCAG
*
59919918 GGGCACATAAGTGTAATCAG
1 GGGCACATAAGTGCAATCAG
59919938 GG
1 GG
59919940 TATAATTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.36, T:0.17
Consensus pattern (20 bp):
GGGCACATAAGTGCAATCAG
Found at i:59927785 original size:56 final size:57
Alignment explanation
Indices: 59927717--59927827 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 57
59927707 CATATATATA
* * * * *
59927717 TGGCCCACTAGGCC-CAATCTCTTTCATATGGCCCATTAGGCCC-ATTCACATTTATG
1 TGGCCCACTAGGCCAAAATCACATTCATATGG-CCACTAGGCCCAAATCACATTTATG
*
59927773 TGGCCCATTAGGCCAAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
1 TGGCCCACTAGGCCAAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTA
59927828 CAATCATGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
56 23 0.49
57 24 0.51
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (57 bp):
TGGCCCACTAGGCCAAAATCACATTCATATGGCCACTAGGCCCAAATCACATTTATG
Found at i:59927823 original size:28 final size:28
Alignment explanation
Indices: 59927714--59927825 Score: 127
Period size: 28 Copynumber: 4.0 Consensus size: 28
59927704 ATTCATATAT
* *
59927714 ATATGGCCCACTAGGCCCAATCTCTTTC
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
59927742 ATATGGCCCATTAGGCCCATTCACATTT
1 ATATGGCCCACTAGGCCCAATCACATTC
* * *
59927770 ATGTGGCCCATTAGGCCAAAATCACATTC
1 ATATGGCCCACTAGGCC-CAATCACATTC
59927799 ATATGG-CCACTAGGCCCAAATCACATT
1 ATATGGCCCACTAGGCCC-AATCACATT
59927826 TACAATCATG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
28 57 0.81
29 13 0.19
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (28 bp):
ATATGGCCCACTAGGCCCAATCACATTC
Found at i:59927921 original size:19 final size:19
Alignment explanation
Indices: 59927897--59927934 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
59927887 ATGGGCCCAA
*
59927897 CAGCCCATTTAGCCCATTC
1 CAGCCCATTTAGCCAATTC
59927916 CAGCCCATTTAGCCAATTC
1 CAGCCCATTTAGCCAATTC
59927935 AAAACCCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.11, T:0.26
Consensus pattern (19 bp):
CAGCCCATTTAGCCAATTC
Found at i:59930147 original size:57 final size:57
Alignment explanation
Indices: 59930084--59930191 Score: 162
Period size: 57 Copynumber: 1.9 Consensus size: 57
59930074 ATATAACATT
* *
59930084 GAAATGAATTTTGTGAAATGGGTATGATATTATAGATTGATAATAGAATATCACAAG
1 GAAATGAACTTTGTGAAATGGGTATGATATTACAGATTGATAATAGAATATCACAAG
* * * *
59930141 GAAATGAACTTTGTGAAATTGGTATGATCTTACGGATTGATGATAGAATAT
1 GAAATGAACTTTGTGAAATGGGTATGATATTACAGATTGATAATAGAATAT
59930192 GATGTTTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 45 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (57 bp):
GAAATGAACTTTGTGAAATGGGTATGATATTACAGATTGATAATAGAATATCACAAG
Found at i:59932237 original size:55 final size:55
Alignment explanation
Indices: 59932150--59932294 Score: 179
Period size: 55 Copynumber: 2.6 Consensus size: 55
59932140 ATTAGGGTTT
* * *
59932150 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGC-
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGATAA-GTTATATAAGGCA
*
59932205 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTA-TATAAGGCA
* * *
59932261 AAGG-TCCCATGTAAGACCATGCCGAGGCATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
59932295 GACCATGCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
53 3 0.04
54 7 0.09
55 65 0.82
56 4 0.05
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTATATAAGGCA
Done.