Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 232 of 325
Found at i:76036560 original size:44 final size:45
Alignment explanation
Indices: 76036512--76036621 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 45
76036502 ATGTATCGAC
**
76036512 TACTGTTACTGTTACTGTTACCAATTTGGCACTTTGTGTG-TCAA
1 TACTGTTACTGTTACTGTTACCAATTCAGCACTTTGTGTGTTCAA
* * * *
76036556 TACTGTTACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACCAATTCAGCACTTTGTGTGTTCAA
76036601 TACTGTTACTGTTACTGTTAC
1 TACTGTTACTGTTACTGTTAC
76036622 TGTTCCGGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 35 0.61
45 22 0.39
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCAATTCAGCACTTTGTGTGTTCAA
Found at i:76036612 original size:6 final size:6
Alignment explanation
Indices: 76036601--76036625 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
76036591 GTGTGTTGAA
76036601 TACTGT TACTGT TACTGT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT T
76036626 CCGGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (6 bp):
TACTGT
Found at i:76036812 original size:18 final size:18
Alignment explanation
Indices: 76036789--76036990 Score: 167
Period size: 18 Copynumber: 11.3 Consensus size: 18
76036779 AAAGGTATAA
*
76036789 AATAATTGATTATTTCTG
1 AATAATTGATTATTACTG
* *
76036807 AATAATTGACTGTTACTG
1 AATAATTGATTATTACTG
* *
76036825 AATAATTGACTGTTACTG
1 AATAATTGATTATTACTG
* * *
76036843 AATAATAGATTGTTACTA
1 AATAATTGATTATTACTG
* *
76036861 AATAACTGAATATTACTG
1 AATAATTGATTATTACTG
* *
76036879 -ATAAATGATCATTACTG
1 AATAATTGATTATTACTG
* * *
76036896 AATAACTGATTGTCACTG
1 AATAATTGATTATTACTG
* *
76036914 AATAAATGACTATTACTG
1 AATAATTGATTATTACTG
* *
76036932 AATAACTTAATTACTACTG
1 AATAA-TTGATTATTACTG
*
76036951 AAT-ATCTGATT-TTACTA
1 AATAAT-TGATTATTACTG
*
76036968 AATAATTGACTATTACTG
1 AATAATTGATTATTACTG
*
76036986 GATAA
1 AATAA
76036991 CCGATCAATT
Statistics
Matches: 147, Mismatches: 32, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
17 26 0.18
18 109 0.74
19 12 0.08
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (18 bp):
AATAATTGATTATTACTG
Found at i:76036897 original size:71 final size:72
Alignment explanation
Indices: 76036804--76036990 Score: 182
Period size: 71 Copynumber: 2.6 Consensus size: 72
76036794 TTGATTATTT
* * * *
76036804 CTGAATAATTGACTGTTACTGAATAATTGACTGTTACTGAAT-AATAGATTGTTACTAAATAACT
1 CTGAATAAATGA-TATTACTGAATAATTGACTGTTACTGAATAAAT-GACTATTACTAAATAACT
*
76036868 GAA-TATTA
64 GAATTACTA
* * * * *
76036876 CTG-ATAAATGATCATTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTT
1 CTGAATAAATGAT-ATTACTGAATAATTGACTGTTACTGAATAAATGACTATTACTAAATAACTG
76036940 AATTACTA
65 AATTACTA
** * * * *
76036948 CTGAATATCTGATTTTACTAAATAATTGACTATTACTGGATAA
1 CTGAATAAATGATATTACTGAATAATTGACTGTTACTGAATAA
76036991 CCGATCAATT
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
70 1 0.01
71 48 0.52
72 36 0.39
73 7 0.08
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (72 bp):
CTGAATAAATGATATTACTGAATAATTGACTGTTACTGAATAAATGACTATTACTAAATAACTGA
ATTACTA
Found at i:76036907 original size:53 final size:54
Alignment explanation
Indices: 76036837--76036991 Score: 172
Period size: 53 Copynumber: 2.9 Consensus size: 54
76036827 TAATTGACTG
* * *
76036837 TTACTGAATAA-TAGATTGTTACTAAATAACTGAATATTACTGATAA-ATGATCA
1 TTACTGAATAACT-GATTGTTACTAAATAAATGACTATTACTGATAACATAATCA
* * * *
76036890 TTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTTAATTA
1 TTACTGAATAACTGATTGTTACTAAATAAATGACTATTACTG-ATAACATAATCA
* * *
76036945 CTACTGAATATCTGATT-TTACTAAATAATTGACTATTACTGGATAAC
1 TTACTGAATAACTGATTGTTACTAAATAAATGACTATTACT-GATAAC
76036992 CGATCAATTG
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
53 36 0.42
54 30 0.35
55 20 0.23
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (54 bp):
TTACTGAATAACTGATTGTTACTAAATAAATGACTATTACTGATAACATAATCA
Found at i:76036966 original size:89 final size:89
Alignment explanation
Indices: 76036790--76036959 Score: 207
Period size: 89 Copynumber: 1.9 Consensus size: 89
76036780 AAGGTATAAA
* * * * * * * *
76036790 ATAATTGATTATTTCTGAATAATTGACTGTTACTGAATAATTGACTGTTACTGAATAATAGATTG
1 ATAAATGATCATTACTGAATAACTGACTGTCACTGAATAAATGACTATTACTGAATAATAGATTA
*
76036855 TTACTAAATAACTGAATATTACTG
66 CTACTAAATAACTGAATATTACTG
*
76036879 ATAAATGATCATTACTGAATAACTGATTGTCACTGAATAAATGACTATTACTGAATAACTTA-AT
1 ATAAATGATCATTACTGAATAACTGACTGTCACTGAATAAATGACTATTACTGAATAA--TAGAT
* *
76036943 TACTACTGAATATCTGA
64 TACTACTAAATAACTGA
76036960 TTTTACTAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
89 50 0.75
90 15 0.22
91 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (89 bp):
ATAAATGATCATTACTGAATAACTGACTGTCACTGAATAAATGACTATTACTGAATAATAGATTA
CTACTAAATAACTGAATATTACTG
Found at i:76037033 original size:18 final size:18
Alignment explanation
Indices: 76037007--76037083 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
76036997 AATTGATCGA
* *
76037007 TACTGAATAACTGGTTAT
1 TACTGAATAACTGATTGT
*
76037025 TATTGAATAACTGATTGT
1 TACTGAATAACTGATTGT
*
76037043 TACCGAATAACTGATTGT
1 TACTGAATAACTGATTGT
* *
76037061 TACTGAATAAATAATTGT
1 TACTGAATAACTGATTGT
76037079 T-CTGA
1 TACTGA
76037084 TTGTTAATGA
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
17 4 0.08
18 47 0.92
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:76041571 original size:15 final size:15
Alignment explanation
Indices: 76041551--76041589 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
76041541 TAACTCGACA
76041551 TTTACTTGTCACTCT
1 TTTACTTGTCACTCT
76041566 TTTACTTGTCACTCT
1 TTTACTTGTCACTCT
76041581 TTTACTTGT
1 TTTACTTGT
76041590 TGCGATTATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.13, C:0.23, G:0.08, T:0.56
Consensus pattern (15 bp):
TTTACTTGTCACTCT
Found at i:76045106 original size:55 final size:53
Alignment explanation
Indices: 76044951--76045151 Score: 177
Period size: 53 Copynumber: 3.7 Consensus size: 53
76044941 TTCCTTTTTA
* * *
76044951 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATG
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
* * * * *
76045004 AACTCACCATTTCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATC
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
* *** * * * * *
76045057 ATATTTTGTCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 A-A-CTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTAT-C
* ** * *
76045113 AACTTACCAATGCCATACCTTGGCATGGTCTTACTTGGT
1 AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGT
76045152 GTCCTTAAAC
Statistics
Matches: 117, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
53 48 0.41
54 30 0.26
55 38 0.32
56 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (53 bp):
AACTCACCAATGCCATGTCTTGACATGGTCTTACATGGTATCTTTGCCTTATC
Found at i:76047371 original size:96 final size:96
Alignment explanation
Indices: 76047207--76047387 Score: 283
Period size: 96 Copynumber: 1.9 Consensus size: 96
76047197 TGGTCACACA
* * *
76047207 CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAGCCTGTGTAGCTCTTTGTTTATGATGTCATC
1 CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAGCCCGTGTAGCTCTCTGATTATGATGTCATC
76047272 AACAAAACTAAGGTCACACGGCCAAGTCACT
66 AACAAAACTAAGGTCACACGGCCAAGTCACT
*
76047303 CGCTCGTGTGGCTTGGGACACGC-CCGTGTCCTCAGCCCGTGTATCTCTCTGATTATGATGTCAT
1 CGCTCGTGTGGCTTGGGACAC-CTCCGTGTCCTCAGCCCGTGTAGCTCTCTGATTATGATGTCAT
* * *
76047367 CAACACAATTAGGGTCACACG
65 CAACAAAACTAAGGTCACACG
76047388 CCCGTGTGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 76 0.99
97 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.28
Consensus pattern (96 bp):
CGCTCGTGTGGCTTGGGACACCTCCGTGTCCTCAGCCCGTGTAGCTCTCTGATTATGATGTCATC
AACAAAACTAAGGTCACACGGCCAAGTCACT
Found at i:76048659 original size:48 final size:48
Alignment explanation
Indices: 76048554--76048751 Score: 236
Period size: 48 Copynumber: 4.1 Consensus size: 48
76048544 AACTCTCATG
***
76048554 CACATAGTCAGATGCCAATGCCATATCCCAGATATGGTCTTACACCATG-T
1 CACATA-TC-GATGCCAATGCCATATCCCAGATATGGTCTTACA-TGGGAT
* * *
76048604 CTCATATCAATGCCAATGCCACATCCCAGATATGGTCTTACATGGGAT
1 CACATATCGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT
* * * *
76048652 CAAATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGAT
1 CACATATCGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT
* * * *
76048700 CACATTTCGGTGCCAATGCCATGTCCCAGATATGGTCTTATATGGGAT
1 CACATATCGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT
76048748 CACA
1 CACA
76048752 CATAATCCTA
Statistics
Matches: 128, Mismatches: 19, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
47 1 0.01
48 120 0.94
49 2 0.02
50 5 0.04
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (48 bp):
CACATATCGATGCCAATGCCATATCCCAGATATGGTCTTACATGGGAT
Found at i:76052985 original size:28 final size:28
Alignment explanation
Indices: 76052941--76052998 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
76052931 AGGACTCATG
76052941 TTAGAAATTAGAACCATGCATCAGATGA
1 TTAGAAATTAGAACCATGCATCAGATGA
* * *
76052969 TTAGAAATTTGACCCATTCATCAGATGA
1 TTAGAAATTAGAACCATGCATCAGATGA
76052997 TT
1 TT
76052999 GTTCTTTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (28 bp):
TTAGAAATTAGAACCATGCATCAGATGA
Found at i:76060748 original size:37 final size:37
Alignment explanation
Indices: 76060698--76060776 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
76060688 TTATTACGAA
* *
76060698 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
76060735 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
76060772 GTCTT
1 GTCTT
76060777 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:76060973 original size:47 final size:47
Alignment explanation
Indices: 76060895--76061477 Score: 1013
Period size: 47 Copynumber: 12.4 Consensus size: 47
76060885 CCCTTCGGGA
* * * * * * *
76060895 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
76060942 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76060989 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76061036 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76061083 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76061130 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76061177 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76061224 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76061271 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76061318 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76061365 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76061412 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76061459 CTTATCACATATATACACT
1 CTTATCACATATATACACT
76061478 GTCTTGGCTG
Statistics
Matches: 517, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 517 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:76066367 original size:46 final size:48
Alignment explanation
Indices: 76066309--76066422 Score: 160
Period size: 48 Copynumber: 2.4 Consensus size: 48
76066299 ACAGGAGAGA
*
76066309 AATGAGCCATGTAAGTCCATATCA-A-ATATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGACAGG
* *
76066355 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGACAGG
* **
76066403 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
76066423 GTCGAAGACA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 22 0.37
47 1 0.02
48 36 0.61
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (48 bp):
AATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGACAGG
Found at i:76066405 original size:48 final size:46
Alignment explanation
Indices: 76066309--76066441 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 46
76066299 ACAGGAGAGA
* *
76066309 AATGAGCCATGTAAGTCCATATCAAATATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCAAATATATGGCATTGGAGACAGG
*
76066355 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATCA-A-ATATATGGCATTGGAGACAGG
* ** * * * * *
76066403 AATAATTCATGTAAGTCCATGTCGAAGACATGGCATTGG
1 AATGAGCCATGTAAGCCCATATCAAATATATGGCATTGG
76066442 CAGGATATTG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
46 34 0.47
47 2 0.03
48 37 0.51
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (46 bp):
AATGAGCCATGTAAGCCCATATCAAATATATGGCATTGGAGACAGG
Found at i:76083945 original size:30 final size:30
Alignment explanation
Indices: 76083911--76084008 Score: 99
Period size: 30 Copynumber: 3.3 Consensus size: 30
76083901 AGCTCACTCC
76083911 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
76083941 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* *
76083971 TAGCTCA-ACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
76084001 TAGCTCAT
1 TAGCTCAT
76084009 TTTAGTTTAA
Statistics
Matches: 52, Mismatches: 14, Indels: 3
0.75 0.20 0.04
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:76089211 original size:40 final size:40
Alignment explanation
Indices: 76089106--76089308 Score: 304
Period size: 40 Copynumber: 5.1 Consensus size: 40
76089096 CGGATGATAA
* *
76089106 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
76089146 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
76089185 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
76089225 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
76089265 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
76089305 CCGG
1 CCGG
76089309 ATAAATTCCG
Statistics
Matches: 152, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
39 36 0.24
40 116 0.76
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:76089320 original size:119 final size:119
Alignment explanation
Indices: 76089102--76089322 Score: 322
Period size: 119 Copynumber: 1.9 Consensus size: 119
76089092 TATTCGGATG
* *
76089102 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * * *
76089167 TTGTGCGAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCAGGATAAATCCCGAAGGCATTTGTGCGAGTTACT
*
76089221 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
76089285 ATTTGAGCAAG-TAGCTATATCC-GGATAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCAGGATAAATCCCGAAGG
76089323 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
118 2 0.02
119 63 0.69
120 26 0.29
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCAGGATAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:76097193 original size:40 final size:40
Alignment explanation
Indices: 76097088--76097290 Score: 295
Period size: 40 Copynumber: 5.1 Consensus size: 40
76097078 CGGATGATAA
* *
76097088 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
76097128 TCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
76097167 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
76097207 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
76097247 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
76097287 CCGG
1 CCGG
76097291 ATAAATTCCG
Statistics
Matches: 150, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 36 0.24
40 114 0.76
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:76097302 original size:119 final size:119
Alignment explanation
Indices: 76097084--76097304 Score: 304
Period size: 119 Copynumber: 1.9 Consensus size: 119
76097074 TATTCGGATG
* **
76097084 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * * *
76097149 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGATAAATCCCGAAGGCATTTGTGCGAGTTACT
* *
76097203 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
76097267 ATTTGAGCAAG-TAGCTATATCC-GGATAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGATAAATCCCGAAGG
76097305 TACTTGGTTT
Statistics
Matches: 89, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
118 2 0.02
119 61 0.69
120 26 0.29
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGATAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:76108790 original size:27 final size:26
Alignment explanation
Indices: 76108730--76108798 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 26
76108720 GGGGTAAAAC
* *
76108730 AGTCATCTTACCACCTAAGGGCAAAT
1 AGTCATTTTACCACATAAGGGCAAAT
76108756 AGTCATTTTACCACATAAGGGCAAAAT
1 AGTCATTTTACCACATAAGGGC-AAAT
*
76108783 CGTCATTTTACCACAT
1 AGTCATTTTACCACAT
76108799 GAGAGAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
26 20 0.51
27 19 0.49
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.28
Consensus pattern (26 bp):
AGTCATTTTACCACATAAGGGCAAAT
Found at i:76108808 original size:27 final size:27
Alignment explanation
Indices: 76108725--76108848 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 27
76108715 ACGTAGGGGT
* * * *
76108725 AAAACAGTCATCTTACCACCTAAGGG-
1 AAAATAGTCATTTTACCACATGAGGGA
* * *
76108751 CAAATAGTCATTTTACCACATAAGGGC
1 AAAATAGTCATTTTACCACATGAGGGA
* *
76108778 AAAATCGTCATTTTACCACATGAGAGA
1 AAAATAGTCATTTTACCACATGAGGGA
* * * *
76108805 AAAATATTCAGTTTATCAAATGAGGGA
1 AAAATAGTCATTTTACCACATGAGGGA
*
76108832 AAAATATTCATTTTACC
1 AAAATAGTCATTTTACC
76108849 TTATAGGGGT
Statistics
Matches: 80, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
26 22 0.28
27 58 0.73
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.27
Consensus pattern (27 bp):
AAAATAGTCATTTTACCACATGAGGGA
Found at i:76108869 original size:27 final size:26
Alignment explanation
Indices: 76108839--76108953 Score: 99
Period size: 27 Copynumber: 4.3 Consensus size: 26
76108829 GGAAAAATAT
76108839 TCATTTTACCTTATAGGGGTATTATAG
1 TCATTTTACCTTATAGGGGTATT-TAG
*
76108866 TCATTTTATCC-TACT-GGGGTATTTCG
1 TCATTTTA-CCTTA-TAGGGGTATTTAG
* * * *
76108892 ATCATTTTACCTTGTGGGGGTGTTTCGG
1 -TCATTTTACCTTATAGGGGTATTT-AG
* *
76108920 TCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCTTATAGGGGTATTT-AG
76108947 TCATTTT
1 TCATTTT
76108954 TAAGTAAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 12
0.79 0.09 0.13
Matches are distributed among these distances:
26 5 0.07
27 65 0.88
28 4 0.05
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (26 bp):
TCATTTTACCTTATAGGGGTATTTAG
Found at i:76108897 original size:54 final size:54
Alignment explanation
Indices: 76108839--76108953 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
76108829 GGAAAAATAT
*
76108839 TCATTTTACCTTATAGGGGTATTAT-AGTCATTTTATCCTACT-GGGGTATTTCGA
1 TCATTTTACCTTATAGGGGTATT-TCAGTCATTTTACCCTA-TAGGGGTATTTCGA
* * * * *
76108893 TCATTTTACCTTGTGGGGGTGTTTCGGTCATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGA
76108947 TCATTTT
1 TCATTTT
76108954 TAAGTAAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
53 2 0.04
54 51 0.96
ACGTcount: A:0.17, C:0.16, G:0.22, T:0.45
Consensus pattern (54 bp):
TCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTTCGA
Found at i:76110645 original size:5 final size:5
Alignment explanation
Indices: 76110635--76110663 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
76110625 TTTTTCTTGC
76110635 AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATT
76110664 ATTATTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:76113829 original size:21 final size:21
Alignment explanation
Indices: 76113765--76113821 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
76113755 CACAGGAGTA
76113765 GAGCTTGAACACACGGGCATG
1 GAGCTTGAACACACGGGCATG
* *
76113786 GAGCTTGAACACATGGGCGTG
1 GAGCTTGAACACACGGGCATG
76113807 GAGCTTGAACACACG
1 GAGCTTGAACACACG
76113822 AAGCTGGACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.33, T:0.16
Consensus pattern (21 bp):
GAGCTTGAACACACGGGCATG
Found at i:76120749 original size:26 final size:26
Alignment explanation
Indices: 76120716--76120768 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
76120706 AAAACATAAA
76120716 ATAAAACAACCATGCATTTTGTTCAT
1 ATAAAACAACCATGCATTTTGTTCAT
76120742 ATAAAACAACCATGCATTTTGTTCAT
1 ATAAAACAACCATGCATTTTGTTCAT
76120768 A
1 A
76120769 CTTTTGACTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.34
Consensus pattern (26 bp):
ATAAAACAACCATGCATTTTGTTCAT
Found at i:76138581 original size:21 final size:19
Alignment explanation
Indices: 76138538--76138582 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
76138528 TTAAGTGCAC
*
76138538 TTTAATTATTTTATAAAAA
1 TTTAATTATTTTACAAAAA
76138557 -TTAATTATTTTCAACAAAAA
1 TTTAATTATTTT--ACAAAAA
76138577 TTTAAT
1 TTTAAT
76138583 CGAATTCACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.50
20 6 0.27
21 5 0.23
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAATTATTTTACAAAAA
Found at i:76140377 original size:16 final size:16
Alignment explanation
Indices: 76140356--76140389 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
76140346 AAATATATTT
76140356 CAGACCTGGATTCATG
1 CAGACCTGGATTCATG
76140372 CAGACCTGGATTCATG
1 CAGACCTGGATTCATG
76140388 CA
1 CA
76140390 TACTCATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (16 bp):
CAGACCTGGATTCATG
Found at i:76150839 original size:27 final size:28
Alignment explanation
Indices: 76150786--76150839 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
76150776 AAAATAATTA
* *
76150786 AAATTCAATATTTTAATAATTTAAGTAC
1 AAATTAAATATTTTAATAATTAAAGTAC
76150814 AAATTAAATATTTT-ATAATTAAAGTA
1 AAATTAAATATTTTAATAATTAAAGTA
76150840 TGGATTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (28 bp):
AAATTAAATATTTTAATAATTAAAGTAC
Found at i:76155841 original size:108 final size:110
Alignment explanation
Indices: 76155695--76155895 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
76155685 ATTGTTTTGA
* **
76155695 AACTTACCATTGTCAGGTCTCGACATGGTCTTACATGGTATCATTTCCTTATG-AA-CTCACCAA
1 AACTTACCAATGTCAGGTCTCGACATGGTCTTACATGGTATCATCACCTTA-GAAACCTCACCAA
76155758 -CGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TCGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * *
76155803 AACTTATCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTCACCTTAGAAACCTTACCAAT
1 AACTTACCAATGTCAGGTCTCGACATGGTCTTACATGGTATCATCACCTTAGAAACCTCACCAAT
* *
76155868 TGTCATGCCTTGGCATGGTCTTACATGG
66 CGCCATGCCTTGGCATGGTCTTACATGG
76155896 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.57
109 7 0.09
110 26 0.32
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGTCAGGTCTCGACATGGTCTTACATGGTATCATCACCTTAGAAACCTCACCAAT
CGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:76155896 original size:55 final size:53
Alignment explanation
Indices: 76155693--76155903 Score: 201
Period size: 55 Copynumber: 3.9 Consensus size: 53
76155683 GTATTGTTTT
* * * * * *
76155693 GAAACTTACCATTGTCAGGTCTCGACATGGTCTTACATGGTATCATTTCCTTA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA
* * * * * *
76155746 TG-AACTCACCAACGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 -GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCC-TTACC-T-TA
* * * *
76155801 GTAACTTATCAATGTCATGTCTTGACATGGTCTTACATGGTATCCTCACCTTA
1 GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA
*
76155854 GAAACCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTTA
1 GAAA-CTTACCAA-TGTCATGCCTTGACATGGTCTTACATGGTATCCTTA
76155904 AACCCTAATG
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
52 1 0.01
53 40 0.32
54 11 0.09
55 71 0.57
56 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (53 bp):
GAAACTTACCAATGTCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA
Found at i:76157336 original size:21 final size:21
Alignment explanation
Indices: 76157312--76157360 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
76157302 TTTCCTAGGA
*
76157312 TGTGAATTGAATTAAATTGAG
1 TGTGAAATGAATTAAATTGAG
*
76157333 TGTGAAATGGATTAAATTGA-
1 TGTGAAATGAATTAAATTGAG
*
76157353 TGTTAAAT
1 TGTGAAAT
76157361 TCATTTATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (21 bp):
TGTGAAATGAATTAAATTGAG
Found at i:76157949 original size:23 final size:23
Alignment explanation
Indices: 76157914--76158004 Score: 146
Period size: 23 Copynumber: 4.0 Consensus size: 23
76157904 CCCATTAAAT
** *
76157914 GGCTCTTATTGAGCTTCCTAATA
1 GGCTCTTCGTGAGCTTCCTGATA
76157937 GGCTCTTCGTGAGCTTCCTGATA
1 GGCTCTTCGTGAGCTTCCTGATA
76157960 GGCTCTTCGTGAGCTTCCTGATA
1 GGCTCTTCGTGAGCTTCCTGATA
*
76157983 GGCTCTTCGTGAGCTTCTTGAT
1 GGCTCTTCGTGAGCTTCCTGAT
76158005 TAAAAGTTCT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 64 1.00
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.37
Consensus pattern (23 bp):
GGCTCTTCGTGAGCTTCCTGATA
Found at i:76157954 original size:74 final size:76
Alignment explanation
Indices: 76157796--76157954 Score: 166
Period size: 74 Copynumber: 2.1 Consensus size: 76
76157786 TTAGCTCTTA
* * * **
76157796 TGAGCATCCCGATATATGGCTCTTCATGAGCTTCCTGTTAAATTGGCTCTTTGTGAGCTTCCCAA
1 TGAGCTTCCCAATATATGGCTATTCATGAGCTTCCCATTAAATTGGCTCTTTGTGAGCTTCCCAA
*
76157861 TAGTGCTCACT
66 TAGTGCTCACG
* * *
76157872 TAAACTTCCCAATATATGGCTA-TC-TAGAGCTTCCCATTAAA-TGGCTCTTAT-TGAGCTTCCT
1 TGAGCTTCCCAATATATGGCTATTCAT-GAGCTTCCCATTAAATTGGCTCTT-TGTGAGCTTCCC
*
76157933 AATAG-GCTCTTCG
64 AATAGTGCTC-ACG
76157946 TGAGCTTCC
1 TGAGCTTCC
76157955 TGATAGGCTC
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
73 4 0.06
74 31 0.46
75 16 0.24
76 17 0.25
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (76 bp):
TGAGCTTCCCAATATATGGCTATTCATGAGCTTCCCATTAAATTGGCTCTTTGTGAGCTTCCCAA
TAGTGCTCACG
Found at i:76163034 original size:47 final size:47
Alignment explanation
Indices: 76162881--76163097 Score: 234
Period size: 46 Copynumber: 4.6 Consensus size: 47
76162871 ATTGTTGGCT
* * * * *
76162881 AGTGTAAGA-CATGTCTGGGACATGCATAGGCCA-CATTATG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGA-GATGAT-AGTC
*
76162927 AGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
*
76162973 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TAT-AGA-GACGAGTGC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCTATGAGATGA-TAGT-C
*
76163020 TAGTGTAAGA-CATGTCTGGGATATGCATCGGCTATGAGATGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
*
76163067 AGTGTAAGACCATGTCTGGGAAATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
76163098 ACTTGAAATA
Statistics
Matches: 149, Mismatches: 10, Indels: 22
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.01
46 68 0.46
47 49 0.33
48 28 0.19
49 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCTATGAGATGATAGTC
Found at i:76163040 original size:94 final size:94
Alignment explanation
Indices: 76162927--76163097 Score: 315
Period size: 94 Copynumber: 1.8 Consensus size: 94
76162917 TATGTAAGCC
76162927 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
*
76162992 GACATGGCATCGGTATAGAGACGAGTGCT
66 GAAATGGCATCGGTATAGAGACGAGTGCT
* *
76163021 AGTGTAAGACATGTCTGGGATATGCATCGGCTATGAGATGATAGTCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
76163086 GAAATGGCATCG
66 GAAATGGCATCG
76163098 ACTTGAAATA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 74 1.00
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGTGTAAGACCATGTCTGG
GAAATGGCATCGGTATAGAGACGAGTGCT
Found at i:76165045 original size:40 final size:39
Alignment explanation
Indices: 76165001--76165185 Score: 228
Period size: 40 Copynumber: 4.7 Consensus size: 39
76164991 GCCACTAGCT
*
76165001 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
76165041 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
76165080 AAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * ** * *
76165120 CGAATGCCTTCGGGACTTAGCCCAGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
76165160 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
76165186 TATCATCCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
39 39 0.31
40 86 0.69
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:76167362 original size:13 final size:13
Alignment explanation
Indices: 76167344--76167390 Score: 85
Period size: 13 Copynumber: 3.6 Consensus size: 13
76167334 TCGTGTGAGG
76167344 GACACGGGCCATT
1 GACACGGGCCATT
76167357 GACACGGGCCATT
1 GACACGGGCCATT
*
76167370 GACATGGGCCATT
1 GACACGGGCCATT
76167383 GACACGGG
1 GACACGGG
76167391 TGTGTGTCTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.23, C:0.28, G:0.34, T:0.15
Consensus pattern (13 bp):
GACACGGGCCATT
Found at i:76175887 original size:46 final size:46
Alignment explanation
Indices: 76175652--76175963 Score: 176
Period size: 46 Copynumber: 6.7 Consensus size: 46
76175642 ATTGTTGGCT
* * * * *
76175652 AGTGTTAGACATGTCTGGGACATGCATAGGCCAC-ATTATG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAT-AGTC
* * *
76175698 AGTGTAAGACATATCTGGGACATGCATTGGCTACGAGATGACAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
* * * * *
76175744 AGTGTAAGACCATGTTTGGGACAAGGCATCAG-TATTGAGACG--AGTGC
1 AGTGTAAGA-CATGTCTGGGAC-ATGCATCGGCTA-CGAGATGATAGT-C
* ** * * *
76175791 TAGTGTAAGACATGTCTGAGACATGCGCCGACCT-TGAG--GCATAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCG-GCTACGAGATG-AT-AGTC
*
76175838 AGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
* * * * *
76175884 AGTGTAAGACCAGGTCTGGGACATCGCATCGACT-TGAAAT-ATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-AGTC
* *
76175931 AGTGTAAGACCGTGTCTAGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
76175964 ACCTTACCCA
Statistics
Matches: 207, Mismatches: 40, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
44 1 0.00
45 2 0.01
46 98 0.47
47 75 0.36
48 31 0.15
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
Found at i:76175934 original size:47 final size:47
Alignment explanation
Indices: 76175834--76175961 Score: 129
Period size: 47 Copynumber: 2.7 Consensus size: 47
76175824 TTGAGGCATA
* * * *
76175834 AGCCAGTGTAAGA-CATGTCTGGGACATGTATCGGCTACGAGATGAT
1 AGCCAGTGTAAGACCAGGTCTGGGACATGCATCGACTACGAAATGAT
* *
76175880 AGTCAGTGTAAGACCAGGTCTGGGACATCGCATCGACT-TGAAAT-AT
1 AGCCAGTGTAAGACCAGGTCTGGGACAT-GCATCGACTACGAAATGAT
*
76175926 GAGCCAGTGTAAGACC-GTGTCTAGGACATGGCATCG
1 -AGCCAGTGTAAGACCAG-GTCTGGGACAT-GCATCG
76175962 GCACCTTACC
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
46 15 0.22
47 47 0.68
48 7 0.10
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGCCAGTGTAAGACCAGGTCTGGGACATGCATCGACTACGAAATGAT
Found at i:76175947 original size:140 final size:140
Alignment explanation
Indices: 76175692--76175955 Score: 347
Period size: 140 Copynumber: 1.9 Consensus size: 140
76175682 CCACATTATG
* *
76175692 TAAGCCAGTGTAAGACATATCTGGGACATGCATTGGCTACGAGATGACAGTCAGTGTAAGACCAT
1 TAAGCCAGTGTAAGACATATCTGGGACATGCATCGGCTACGAGATGACAGTCAGTGTAAGACCAG
* * * * *
76175757 GTTTGGGACAAGGCATCAGTATTGAGACGAGTGCTAGTGTAAGACATGTCT-GAGACATGCGCCG
66 GTCTGGGACAACGCATCAGTATTGAGAAGAGAGCCAGTGTAAGACATGTCTAG-GACATGCGCCG
76175821 ACCTTGAGGCA
130 ACCTTGAGGCA
* * *
76175832 TAAGCCAGTGTAAGACATGTCTGGGACATGTATCGGCTACGAGATGATAGTCAGTGTAAGACCAG
1 TAAGCCAGTGTAAGACATATCTGGGACATGCATCGGCTACGAGATGACAGTCAGTGTAAGACCAG
* * *
76175897 GTCTGGGACATCGCATC-G-ACTTGA-AATATGAGCCAGTGTAAGACCGTGTCTAGGACATG
66 GTCTGGGACAACGCATCAGTA-TTGAGAAGA-GAGCCAGTGTAAGA-CATGTCTAGGACATG
76175956 GCATCGGCAC
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
138 3 0.03
139 17 0.16
140 86 0.80
141 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (140 bp):
TAAGCCAGTGTAAGACATATCTGGGACATGCATCGGCTACGAGATGACAGTCAGTGTAAGACCAG
GTCTGGGACAACGCATCAGTATTGAGAAGAGAGCCAGTGTAAGACATGTCTAGGACATGCGCCGA
CCTTGAGGCA
Found at i:76181470 original size:28 final size:28
Alignment explanation
Indices: 76181437--76181530 Score: 107
Period size: 28 Copynumber: 3.4 Consensus size: 28
76181427 GATTACATGA
*
76181437 ATATGAATGTGATTGGGCCTGACGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
* * *
76181465 ATATGAAAGTGATTAGGCCCGATGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
* * * *
76181493 ATATGAATGAGGTTGGGCCTAATGGGCT
1 ATATGAATGTGATTGGGCCTGATGGGCC
*
76181521 ATATGCATGT
1 ATATGAATGT
76181531 ATGTAGACTT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 53 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTGATGGGCC
Found at i:76186788 original size:45 final size:45
Alignment explanation
Indices: 76186724--76186809 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
76186714 CCAAAACATG
*
76186724 TGTCACATACATCATGAACTTAGACCACAACTCAATGAGTTCAGA
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
*
76186769 TGTCACATATATCATGAACTCAGACCACAACTCAATGAGTT
1 TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTT
76186810 TTGATCACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (45 bp):
TGTCACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGA
Found at i:76187724 original size:42 final size:42
Alignment explanation
Indices: 76187668--76187773 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
76187658 ATGATTTATG
* *
76187668 TGTAAGACCATGTCTGGGACATCAGCAT-GGTATTTGATTT-CA
1 TGTAAGACCCTGTCTGGGACAT-AGCATCGATATTTG-TTTACA
** *
76187710 TGTAAGACCCTGTCTGGGATGTGGCATCGATATTTGTTTACA
1 TGTAAGACCCTGTCTGGGACATAGCATCGATATTTGTTTACA
76187752 TGTAAGACCAC-GTCTGGGACAT
1 TGTAAGACC-CTGTCTGGGACAT
76187774 TGGCATTGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
41 7 0.13
42 46 0.85
43 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (42 bp):
TGTAAGACCCTGTCTGGGACATAGCATCGATATTTGTTTACA
Found at i:76191065 original size:49 final size:47
Alignment explanation
Indices: 76190891--76191254 Score: 541
Period size: 49 Copynumber: 7.6 Consensus size: 47
76190881 CCCTTCGGGA
* * * *
76190891 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
76190938 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
76190985 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
76191032 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
76191081 CTTATCATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATC--ACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
76191130 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
76191179 CTTATCACATATATACACTTTCACATTCATCATATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
76191225 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
76191255 TCAAATATAC
Statistics
Matches: 294, Mismatches: 17, Indels: 13
0.91 0.05 0.04
Matches are distributed among these distances:
46 37 0.13
47 121 0.41
49 135 0.46
51 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:76194576 original size:6 final size:7
Alignment explanation
Indices: 76194560--76194588 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
76194550 AAAACACCTG
76194560 AAAAATA
1 AAAAATA
76194567 AAAAAT-
1 AAAAATA
76194573 AAAAATA
1 AAAAATA
76194580 AAAAATA
1 AAAAATA
76194587 AA
1 AA
76194589 TTAGTAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:76194578 original size:13 final size:13
Alignment explanation
Indices: 76194560--76194588 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
76194550 AAAACACCTG
76194560 AAAAATAAAAAAT
1 AAAAATAAAAAAT
76194573 AAAAATAAAAAAT
1 AAAAATAAAAAAT
76194586 AAA
1 AAA
76194589 TTAGTAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:76202505 original size:14 final size:14
Alignment explanation
Indices: 76202486--76202516 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
76202476 ACTCCCATCA
*
76202486 AAATCGTAAGAAGC
1 AAATCGTAAGAAAC
76202500 AAATCGTAAGAAAC
1 AAATCGTAAGAAAC
76202514 AAA
1 AAA
76202517 GTTCGAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.58, C:0.13, G:0.16, T:0.13
Consensus pattern (14 bp):
AAATCGTAAGAAAC
Found at i:76206920 original size:29 final size:29
Alignment explanation
Indices: 76206861--76207004 Score: 175
Period size: 29 Copynumber: 5.0 Consensus size: 29
76206851 GTGAGCATGA
* * *
76206861 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
76206889 ATATAAATGTGATTTGGGCCTATTGGGAC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
76206918 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
76206947 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * * *
76206976 ATATGAATATGA-TTGAGCTTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
76207004 A
1 A
76207005 GATACAGGTA
Statistics
Matches: 100, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 26 0.26
29 74 0.74
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:76214284 original size:27 final size:27
Alignment explanation
Indices: 76214242--76214372 Score: 172
Period size: 27 Copynumber: 4.9 Consensus size: 27
76214232 TACATCACCT
* * * *
76214242 AGGGCAAAATAATCATCTTACCATATA
1 AGGGCAAAACAGTCATTTTACCACATA
76214269 AGGGCAAAACAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCACATA
* *
76214296 AAGGCAAAAAAGTCATTTTACCACATA
1 AGGGCAAAACAGTCATTTTACCACATA
* * *
76214323 AGGGTAAAACAATCATTTTACCACGTA
1 AGGGCAAAACAGTCATTTTACCACATA
*
76214350 AGGGCAAAATAGTCATTTTACCA
1 AGGGCAAAACAGTCATTTTACCA
76214373 ATTAGGGGTC
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (27 bp):
AGGGCAAAACAGTCATTTTACCACATA
Found at i:76218611 original size:48 final size:48
Alignment explanation
Indices: 76218477--76218613 Score: 177
Period size: 48 Copynumber: 2.9 Consensus size: 48
76218467 AATATCGATA
* * * * * *
76218477 CCAATGTCATATCCCAAATATGGTCTTACATGAGATCAAATATTAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATTAATG
* *
76218525 CCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACAT-TTCGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATT-AATG
*
76218573 CCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCACAT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT
76218614 GTACTGCCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
47 2 0.03
48 76 0.97
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATTAATG
Found at i:76219076 original size:24 final size:24
Alignment explanation
Indices: 76219023--76219070 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
76219013 CATTTCGTAT
76219023 ATTATGAGCTCATGAGATTATGTG
1 ATTATGAGCTCATGAGATTATGTG
*
76219047 ATTATGATCTCATGAGATTATGTG
1 ATTATGAGCTCATGAGATTATGTG
76219071 TATATGTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (24 bp):
ATTATGAGCTCATGAGATTATGTG
Found at i:76223648 original size:235 final size:235
Alignment explanation
Indices: 76223237--76223707 Score: 825
Period size: 235 Copynumber: 2.0 Consensus size: 235
76223227 GGTGTTTATC
* *
76223237 GATGATATCCTGATTTATTCTCGTGACGAGTCTGAACATGCCGATAATCTGAGGACTGTTTTGCA
1 GATGATATCCTGATTTATTCTCGTGACGAGTCTGAACATACCGATAATCTGAGGACTATTTTGCA
*
76223302 AACCTTGAAAGATAGGTAGTTGTATGCTAAGTTTAGCAAAAGTGAGTTCTGGCTTAGAGAAGTCA
66 AACCTTGAAAGATAGGTAGTTGTATGCTAAGTTTAGCAAAAGGGAGTTCTGGCTTAGAGAAGTCA
* * * *
76223367 TATTTTTATGGCATATTGTGTCGGGGGAAGGGATCCAAGGTGATCCGAGTAAGATTTCGGCCATT
131 GATTTTTAGGGCATATTATGTCGGGGGAAGAGATCCAAGGTGATCCGAGTAAGATTTCGGCCATT
76223432 GTTGATTGGAAACCACTAAGAAACGTATCCGAGGTTAGAA
196 GTTGATTGGAAACCACTAAGAAACGTATCCGAGGTTAGAA
*
76223472 GATGATATCCTGATTTATTCTCGTGACGAGTCTGAACATACCGATCATCTGAGGACTATTTTGCA
1 GATGATATCCTGATTTATTCTCGTGACGAGTCTGAACATACCGATAATCTGAGGACTATTTTGCA
*
76223537 AACCTTGAGAGATAGGTAGTTGTATGCTAAGTTTAGCAAAAGGGAGTTCTGGCTTAGAGAAGTCA
66 AACCTTGAAAGATAGGTAGTTGTATGCTAAGTTTAGCAAAAGGGAGTTCTGGCTTAGAGAAGTCA
** *
76223602 GATTTTTAGGGCATATTATGTCGGGGGAAGAGATCTGAGTTGATCCGAGTAAGATTTCGGCCATT
131 GATTTTTAGGGCATATTATGTCGGGGGAAGAGATCCAAGGTGATCCGAGTAAGATTTCGGCCATT
*
76223667 GTTGATTGGAAACCACTGAGAAACGTATCCGAGGTTAGAA
196 GTTGATTGGAAACCACTAAGAAACGTATCCGAGGTTAGAA
76223707 G
1 G
76223708 CTTTTTAGGC
Statistics
Matches: 223, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
235 223 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (235 bp):
GATGATATCCTGATTTATTCTCGTGACGAGTCTGAACATACCGATAATCTGAGGACTATTTTGCA
AACCTTGAAAGATAGGTAGTTGTATGCTAAGTTTAGCAAAAGGGAGTTCTGGCTTAGAGAAGTCA
GATTTTTAGGGCATATTATGTCGGGGGAAGAGATCCAAGGTGATCCGAGTAAGATTTCGGCCATT
GTTGATTGGAAACCACTAAGAAACGTATCCGAGGTTAGAA
Found at i:76226719 original size:42 final size:42
Alignment explanation
Indices: 76226608--76226754 Score: 161
Period size: 43 Copynumber: 3.5 Consensus size: 42
76226598 TTCTGAGATG
* * * *
76226608 TGATATCGTGTAAGACTATGTCTGGGACATTGGTATCG-ATC
1 TGATATCATGTAAGACCATGTCTGGGACATTGGCATCGTATA
* *
76226649 TGAGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTATA
1 TGATA-T-CATGTAAGACCATGTCTGGGACATTGGCATCGTATA
* * * * *
76226693 TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATATCATGTAAGACCATGTCTGGGACATTGGCATCG-TATA
76226736 TGATATCATGTAAGACCAT
1 TGATATCATGTAAGACCAT
76226755 ATCTAGCATA
Statistics
Matches: 86, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
41 4 0.05
42 29 0.34
43 48 0.56
44 5 0.06
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (42 bp):
TGATATCATGTAAGACCATGTCTGGGACATTGGCATCGTATA
Found at i:76230379 original size:94 final size:94
Alignment explanation
Indices: 76230275--76230459 Score: 370
Period size: 94 Copynumber: 2.0 Consensus size: 94
76230265 TGTCTTCAAT
76230275 TTTAAGCTATGCCTATGAATTTATGACAACACATAAGTAAACTATGTTATGTCAATGGTATTTAT
1 TTTAAGCTATGCCTATGAATTTATGACAACACATAAGTAAACTATGTTATGTCAATGGTATTTAT
76230340 ATATATGATTATGTTGCTAATTATTTACA
66 ATATATGATTATGTTGCTAATTATTTACA
76230369 TTTAAGCTATGCCTATGAATTTATGACAACACATAAGTAAACTATGTTATGTCAATGGTATTTAT
1 TTTAAGCTATGCCTATGAATTTATGACAACACATAAGTAAACTATGTTATGTCAATGGTATTTAT
76230434 ATATATGATTATGTTGCTAATTATTT
66 ATATATGATTATGTTGCTAATTATTT
76230460 GCATGTGAAC
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (94 bp):
TTTAAGCTATGCCTATGAATTTATGACAACACATAAGTAAACTATGTTATGTCAATGGTATTTAT
ATATATGATTATGTTGCTAATTATTTACA
Found at i:76232729 original size:37 final size:37
Alignment explanation
Indices: 76232676--76232774 Score: 180
Period size: 37 Copynumber: 2.7 Consensus size: 37
76232666 CGAATAGTCC
*
76232676 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
76232713 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
76232750 CCACACGTAGTCATCGGGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
76232775 TGGAATATAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:76232949 original size:46 final size:47
Alignment explanation
Indices: 76232897--76233022 Score: 119
Period size: 48 Copynumber: 2.7 Consensus size: 47
76232887 CACATTTGGT
* * *
76232897 CATTCGGC-CACAATATACACACATCTCCTACATATTTCACACTAGC
1 CATTCGGCTCACAACATACACACATCTCATACATACTTCACACTAGC
* * ** *
76232943 CATTCGGCTTTACCACATTTACATATCTCATACATACTTCACACTAGC
1 CATTCGGC-TCACAACATACACACATCTCATACATACTTCACACTAGC
* * * *
76232991 CATTCGGCTTTACCACATATACATATCTCATA
1 CATTCGGC-TCACAACATACACACATCTCATA
76233023 TATATTTATC
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 8 0.12
48 61 0.88
ACGTcount: A:0.31, C:0.32, G:0.06, T:0.31
Consensus pattern (47 bp):
CATTCGGCTCACAACATACACACATCTCATACATACTTCACACTAGC
Found at i:76232977 original size:48 final size:48
Alignment explanation
Indices: 76232919--76233029 Score: 186
Period size: 48 Copynumber: 2.3 Consensus size: 48
76232909 ATATACACAC
* *
76232919 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATTTACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
76232967 ATCTCATACATACTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
76233015 ATCTCATATATATTT
1 ATCTCATACATATTT
76233030 ATCTTGTATA
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.30, C:0.29, G:0.05, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:76240840 original size:29 final size:29
Alignment explanation
Indices: 76240808--76240865 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
76240798 CAAATAATAT
76240808 GATCATAATATTGCATTATTTACATATGA
1 GATCATAATATTGCATTATTTACATATGA
76240837 GATCATAATATTGCATTATTTACATATGA
1 GATCATAATATTGCATTATTTACATATGA
76240866 ACTTACATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (29 bp):
GATCATAATATTGCATTATTTACATATGA
Found at i:76255430 original size:20 final size:19
Alignment explanation
Indices: 76255402--76255439 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
76255392 ACCTACCAGA
76255402 AGTGAATAAAAGAAAAATT
1 AGTGAATAAAAGAAAAATT
*
76255421 AGTGATATAAAATAAAAAT
1 AGTGA-ATAAAAGAAAAAT
76255440 AAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (19 bp):
AGTGAATAAAAGAAAAATT
Found at i:76256575 original size:13 final size:13
Alignment explanation
Indices: 76256557--76256597 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
76256547 GCTCGACAGG
76256557 GACACGCTCGTGT
1 GACACGCTCGTGT
*
76256570 GACACGCTCTTGT
1 GACACGCTCGTGT
*
76256583 GACACGCCCGTGT
1 GACACGCTCGTGT
76256596 GA
1 GA
76256598 GGTGGCTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.17, C:0.32, G:0.29, T:0.22
Consensus pattern (13 bp):
GACACGCTCGTGT
Found at i:76264581 original size:40 final size:40
Alignment explanation
Indices: 76264504--76264722 Score: 309
Period size: 40 Copynumber: 5.5 Consensus size: 40
76264494 AAACCAAGTA
* *
76264504 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
76264543 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
76264583 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
76264623 CCTTCGGGACTTAGCCCGGATATAGTAACGCCGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
* * * *
76264664 CCTTCGGGGCTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
76264704 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
76264723 TTATCATCCG
Statistics
Matches: 162, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 14 0.09
40 115 0.71
41 33 0.20
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:76264707 original size:81 final size:80
Alignment explanation
Indices: 76264504--76264722 Score: 291
Period size: 81 Copynumber: 2.7 Consensus size: 80
76264494 AAACCAAGTA
* * * * *
76264504 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGAATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
76264567 GTAACTCGCACAAATG
65 GTAACCCGCAAAAATG
* *
76264583 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
76264648 TAACGCCGCAAAAATG
66 TAAC-CCGCAAAAATG
* *
76264664 CCTTCGGGGCTTAGCCCAGAAT-TAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCC-GAATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
76264723 TTATCATCCG
Statistics
Matches: 127, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
79 14 0.11
80 50 0.39
81 60 0.47
82 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGAATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACCCGCAAAAATG
Found at i:76270823 original size:43 final size:42
Alignment explanation
Indices: 76270766--76270874 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
76270756 ATTGCCAACA
*
76270766 TCCCAAAC-GTGGTCTTACATGTAATCAAATATCGATG-CCATTG
1 TCCCAAACAG-GGTCTTACACGTAATCAAATA-CGATGTCCA-TG
* *
76270809 TCCCAAACAGGGTCTTACACGAAATCAAATACGATGTCGATG
1 TCCCAAACAGGGTCTTACACGTAATCAAATACGATGTCCATG
*
76270851 TCCCAAACATGGTCTTACACGTAA
1 TCCCAAACAGGGTCTTACACGTAA
76270875 ATCATAAGTC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
42 29 0.49
43 29 0.49
44 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
TCCCAAACAGGGTCTTACACGTAATCAAATACGATGTCCATG
Found at i:76270877 original size:43 final size:44
Alignment explanation
Indices: 76270766--76270878 Score: 153
Period size: 43 Copynumber: 2.6 Consensus size: 44
76270756 ATTGCCAACA
* *
76270766 TCCCAAACGTGGTCTTACATGT-AATCAAATATCGATGCCATTG
1 TCCCAAACATGGTCTTACACGTAAATCAAATATCGATGCCATTG
* *
76270809 TCCCAAACAGGGTCTTACACG-AAATCAAATA-CGATGTCGA-TG
1 TCCCAAACATGGTCTTACACGTAAATCAAATATCGATG-CCATTG
76270851 TCCCAAACATGGTCTTACACGTAAATCA
1 TCCCAAACATGGTCTTACACGTAAATCA
76270879 TAAGTCAATG
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (44 bp):
TCCCAAACATGGTCTTACACGTAAATCAAATATCGATGCCATTG
Found at i:76271355 original size:9 final size:8
Alignment explanation
Indices: 76271324--76271357 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
76271314 AGCCATTAAT
76271324 TCACAAAA
1 TCACAAAA
76271332 TCACAAAA
1 TCACAAAA
76271340 TCACAAAA
1 TCACAAAA
76271348 TACACAAAA
1 T-CACAAAA
76271357 T
1 T
76271358 TTCTTTGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.62, C:0.24, G:0.00, T:0.15
Consensus pattern (8 bp):
TCACAAAA
Found at i:76278558 original size:118 final size:119
Alignment explanation
Indices: 76278377--76278591 Score: 294
Period size: 118 Copynumber: 1.8 Consensus size: 119
76278367 TACTCGTTCA
*
76278377 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
76278442 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCAC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCAGATTTAGTAACTCGCAC
* * **
76278496 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
76278558 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTA
76278592 GCCCGGACAT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
117 4 0.05
118 60 0.71
119 20 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCAC
Found at i:76278598 original size:40 final size:40
Alignment explanation
Indices: 76278375--76278598 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
76278365 GCTACTCGTT
* *
76278375 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
76278415 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
76278455 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
76278495 C-AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
76278533 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
76278574 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
76278599 CATCATTCGA
Statistics
Matches: 162, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 23 0.14
39 21 0.13
40 106 0.65
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:76279833 original size:53 final size:55
Alignment explanation
Indices: 76279724--76279895 Score: 305
Period size: 56 Copynumber: 3.1 Consensus size: 55
76279714 TATTAGTTTA
76279724 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATT-TTCCATTAACACAACATGTTTCATGACATGTT
76279780 TTGCCCATGCTTCTTATTTTATTTTCCATT-A-ACAACATGTTTCATGACATG-T
1 TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
76279832 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTA-TTTTCCATTAACACAACATGTTTCATGACATGTT
76279888 TTGCCCAT
1 TTGCCCAT
76279896 CATCCCTTGT
Statistics
Matches: 112, Mismatches: 0, Indels: 8
0.93 0.00 0.07
Matches are distributed among these distances:
52 22 0.20
53 29 0.26
54 2 0.02
55 27 0.24
56 32 0.29
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (55 bp):
TTGCCCATGCTTCTTATTTTATTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:76284126 original size:47 final size:47
Alignment explanation
Indices: 76284055--76284504 Score: 774
Period size: 47 Copynumber: 9.6 Consensus size: 47
76284045 CCCTTCGGGA
* * * * * *
76284055 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
76284102 CCTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
76284149 CTTATCACATATATACACTTTCACATTCATCGCATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76284196 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76284243 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76284290 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76284337 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
76284384 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
76284431 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
76284478 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
76284505 TATTCAAATA
Statistics
Matches: 382, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 382 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:76289845 original size:39 final size:40
Alignment explanation
Indices: 76289774--76289996 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
76289764 GCTACTCGTT
*
76289774 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
76289814 CAAATGCCTT-GGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
76289853 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
76289893 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
76289931 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
76289972 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
76289997 CATCATTCGA
Statistics
Matches: 163, Mismatches: 13, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
38 25 0.15
39 55 0.34
40 72 0.44
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:76289886 original size:79 final size:80
Alignment explanation
Indices: 76289774--76289996 Score: 287
Period size: 78 Copynumber: 2.8 Consensus size: 80
76289764 GCTACTCGTT
* *
76289774 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTT-GGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
76289837 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
76289853 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
76289916 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * * *
76289931 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
76289994 GGA
64 GGA
76289997 CATCATTCGA
Statistics
Matches: 127, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
77 3 0.02
78 56 0.44
79 53 0.42
80 15 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:76291190 original size:56 final size:56
Alignment explanation
Indices: 76291123--76291298 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
76291113 TATTAGTTTA
*
76291123 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
76291179 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
76291235 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
76291291 TTGCCCAT
1 TTGCCCAT
76291299 CATCCCTTGT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:76297132 original size:43 final size:42
Alignment explanation
Indices: 76297062--76297183 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 42
76297052 GAAAAGCTCA
* * *
76297062 TACAATGCCAACGTCCCAGTCATGGTCTTACATGTAATCAAC
1 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAC
* * * *
76297104 TATCGATGCC-ACTGTTCC-AGACAG-GGTCTTACACGAAATCAAG
1 TA-CAATGCCAAC-G-TCCTAGAC-GTGGTCTTACATGTAATCAAC
76297147 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAA
1 TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAA
76297184 ATTATAAGTC
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
41 4 0.06
42 27 0.42
43 30 0.47
44 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
TACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAC
Found at i:76302284 original size:34 final size:33
Alignment explanation
Indices: 76302230--76302303 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 33
76302220 AGTGACAGCC
76302230 CAGTATCAGCGTGGCCTTAGCCCATTACAGTAA
1 CAGTATCAGCGTGGCCTTAGCCCATTACAGTAA
* * *
76302263 CAGTATCAGTGTGGGCCTTAGCCTATTATAGTAA
1 CAGTATCAGCGT-GGCCTTAGCCCATTACAGTAA
76302297 CAGTATC
1 CAGTATC
76302304 CATAAATGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 11 0.30
34 26 0.70
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (33 bp):
CAGTATCAGCGTGGCCTTAGCCCATTACAGTAA
Found at i:76303901 original size:27 final size:27
Alignment explanation
Indices: 76303866--76303930 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
76303856 GGGCAAAACA
*
76303866 GTCATTTTACACTACAGGGGTATGTTG
1 GTCATTTTACACTACAAGGGTATGTTG
* *
76303893 GTCATTTTACACTGCAAGGGTATTTTG
1 GTCATTTTACACTACAAGGGTATGTTG
* *
76303920 ATAATTTTACA
1 GTCATTTTACA
76303931 AATCGGGGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
GTCATTTTACACTACAAGGGTATGTTG
Found at i:76303927 original size:54 final size:54
Alignment explanation
Indices: 76303880--76304061 Score: 199
Period size: 54 Copynumber: 3.4 Consensus size: 54
76303870 TTTTACACTA
* * *
76303880 CAGGGGTATGTT-GGTCATTTTAC-ACTGCAAGGGTATTTTGATAATTTTACAAAT
1 CAGGGGTAT-TTCGGTAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAAT
* *
76303934 CGGGGGTGTTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
1 CAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
* * * * *
76303988 C-GAGGGTATTTTGATAATTTTACAAATCGAGGGTGTTTTGATAATTTTACAAAT
1 CAG-GGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
* * *
76304042 CGGGGGTCTTTCAGTAATTT
1 CAGGGGTATTTCGGTAATTT
76304062 CTCTTTATTA
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.03
54 103 0.94
55 3 0.03
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT
Found at i:76303940 original size:27 final size:27
Alignment explanation
Indices: 76303909--76304048 Score: 208
Period size: 27 Copynumber: 5.2 Consensus size: 27
76303899 TTACACTGCA
76303909 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
* * * * *
76303936 GGGGTGTTTCGGTAATTTTACAAATCA
1 AGGGTATTTTGATAATTTTACAAATCG
*
76303963 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
76303990 AGGGTATTTTGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
*
76304017 AGGGTGTTTTGATAATTTTACAAATCG
1 AGGGTATTTTGATAATTTTACAAATCG
*
76304044 GGGGT
1 AGGGT
76304049 CTTTCAGTAA
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
AGGGTATTTTGATAATTTTACAAATCG
Found at i:76309933 original size:43 final size:42
Alignment explanation
Indices: 76309872--76310032 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 42
76309862 AAAGCTCGTA
*
76309872 CAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATAT
1 CAATGCC-ACGTCCTAGACGTGGTCTTACACGTAATCAAATAT
* *
76309915 CAATGCCACTGTCCTAGACAG-GGTCTTACACGAAATCAAGTA-
1 CAATGCCAC-GTCCTAGAC-GTGGTCTTACACGTAATCAAATAT
* * * * *
76309957 CGATGCGAACGTCCCAGACGTGGTCTTACAGGTAAATCATAA-GT
1 CAATGC-CACGTCCTAGACGTGGTCTTACACGT-AATCA-AATAT
* *
76310001 CGATGCCAATGTCCTAGACGTGGTCTTACACG
1 CAATGCC-ACGTCCTAGACGTGGTCTTACACG
76310033 ATAACACATA
Statistics
Matches: 96, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 41 0.43
44 29 0.30
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (42 bp):
CAATGCCACGTCCTAGACGTGGTCTTACACGTAATCAAATAT
Found at i:76310026 original size:86 final size:85
Alignment explanation
Indices: 76309869--76310033 Score: 226
Period size: 86 Copynumber: 1.9 Consensus size: 85
76309859 CAGAAAGCTC
* * *
76309869 GTACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGTCCTAGAC
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACAGGTAATCAAATATCAATGCCAATGTCCTAGAC
76309934 AGGGTCTTACACGAAATCAA
66 AGGGTCTTACACGAAATCAA
* * * *
76309954 GTACGATGCGAACGTCCCAGACGTGGTCTTACAGGTAAATCATAA-GTCGATGCCAATGTCCTAG
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACAGGT-AATCA-AATATCAATGCCAATGTCCTAG
76310018 AC-GTGGTCTTACACGA
64 ACAG-GGTCTTACACGA
76310034 TAACACATAT
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
85 33 0.47
86 35 0.50
87 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (85 bp):
GTACAATGCCAACGTCCCAGACGTGGTCTTACAGGTAATCAAATATCAATGCCAATGTCCTAGAC
AGGGTCTTACACGAAATCAA
Found at i:76312463 original size:43 final size:43
Alignment explanation
Indices: 76312343--76312499 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
76312333 AGCTCTTACA
*
76312343 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATAG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATA-AG
* * *
76312386 ATGCC-ACTGTCCCAGACAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGTAAATCAAATAAG
* * *
76312428 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCA-AA-TAAG
* *
76312472 ATGCCAACGTCCCAGACGTGCTCTTACA
1 ATGCCAACGTCCCAGACATGGTCTTACA
76312500 CGATAACACA
Statistics
Matches: 95, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
42 27 0.28
43 40 0.42
44 27 0.28
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATAAG
Found at i:76312497 original size:86 final size:85
Alignment explanation
Indices: 76312343--76312502 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
76312333 AGCTCTTACA
* *
76312343 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATAGATGCCACTGTCCCAGACAGGGT
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCACTGTCCCAGACAGGCT
76312408 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* *
76312428 ATGCCAATGTCCTAGACATGGTCTTACATGTAAATCATAAGT-T-GATGCCAAC-GTCCCAGAC-
1 ATGCCAACGTCCCAGACATGGTCTTACATGT-AATCA-AA-TATAGATGCC-ACTGTCCCAGACA
76312489 GTGCTCTTACACGA
62 G-GCTCTTACACGA
76312503 TAACACATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
85 29 0.44
86 31 0.47
87 5 0.08
88 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCACTGTCCCAGACAGGCT
CTTACACGAAATCAAATACG
Found at i:76315317 original size:49 final size:49
Alignment explanation
Indices: 76315185--76315482 Score: 165
Period size: 49 Copynumber: 6.2 Consensus size: 49
76315175 TTCCAAACAT
* * *
76315185 GGTCTTACATTGGCTCTCAC--ATCTAAGTCGATGCCATGTCCCAGATA
1 GGTCTTACACTGGCTCTCACTTATCTGAGTCGATGCCATGTCCCAGACA
* **
76315232 GGTCTTACACTGACT-TC-CATATATC-GAGGTTAATGCCATGTCCCAGACA
1 GGTCTTACACTGGCTCTCAC-T-TATCTGA-GTCGATGCCATGTCCCAGACA
* * *
76315281 GGTCTTACACCGGCTCTCACTTATCTGTGTCGATGCCATGTCCTAGACA
1 GGTCTTACACTGGCTCTCACTTATCTGAGTCGATGCCATGTCCCAGACA
* * * * * * *
76315330 GGTCTTACAAT-G-ACACAC--CTC-AAGCCGATGCCATGTCCTAGACA
1 GGTCTTACACTGGCTCTCACTTATCTGAGTCGATGCCATGTCCCAGACA
* * *** * *
76315374 GGTCTTACACTAGCT-TGCA--TATCTTGAAGCCGATGTTGTGTCCCAAAAA
1 GGTCTTACACTGGCTCT-CACTTATC-TG-AGTCGATGCCATGTCCCAGACA
* * * * * *
76315423 GGTCTTATACTGGCTATCA-TCTATCGGTGCCGATGCCATGTTCCAGACA
1 GGTCTTACACTGGCTCTCACT-TATCTGAGTCGATGCCATGTCCCAGACA
*
76315472 AGTCTTACACT
1 GGTCTTACACT
76315483 AGCACACACA
Statistics
Matches: 190, Mismatches: 43, Indels: 34
0.71 0.16 0.13
Matches are distributed among these distances:
44 30 0.16
45 4 0.02
46 6 0.03
47 17 0.09
48 2 0.01
49 120 0.63
50 6 0.03
51 5 0.03
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (49 bp):
GGTCTTACACTGGCTCTCACTTATCTGAGTCGATGCCATGTCCCAGACA
Found at i:76318835 original size:43 final size:43
Alignment explanation
Indices: 76318666--76318836 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
76318656 ATAGGATTTT
* * *
76318666 GATATGTGATTTCATGTAAGACCACATCTGGGACGTTGGCATC
1 GATATGTGAGTTCATGTAAGACCACGTCTGGGACTTTGGCATC
* * * * * * * *
76318709 GATTTGTGATTTGCGTGTCAGACCATGTTTGGGACATCGGCATC
1 GATATGTGAGTT-CATGTAAGACCACGTCTGGGACTTTGGCATC
* * * *
76318753 G-TATATGAGTTCGTGTAAAACC-CTGTCTGGGA-TAGTGGCATC
1 GATATGTGAGTTCATGTAAGACCAC-GTCTGGGACT-TTGGCATC
76318795 GATATGTGA-TTACATGTAAGACCACGTCTGGGACTTTGGCAT
1 GATATGTGAGTT-CATGTAAGACCACGTCTGGGACTTTGGCAT
76318837 TGTACAAGCT
Statistics
Matches: 99, Mismatches: 22, Indels: 14
0.73 0.16 0.10
Matches are distributed among these distances:
42 25 0.25
43 47 0.47
44 27 0.27
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (43 bp):
GATATGTGAGTTCATGTAAGACCACGTCTGGGACTTTGGCATC
Found at i:76325595 original size:49 final size:49
Alignment explanation
Indices: 76325539--76325758 Score: 200
Period size: 49 Copynumber: 4.5 Consensus size: 49
76325529 AAGTCAATGT
* *
76325539 CATGTCCCAGACAGGTCTTACACTGACT-TCCAAATATCAAG-GCCGGTGC
1 CATGTCCCAGACAGGTCTTACACTGACTCT-CATATATC-AGTGCCGATGC
* * *
76325588 CATGTCCCAGACAGGTCTTACACTGGCTCTCACT-TATCCGTGCAGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCA-TATATCAGTGCCGATGC
* * * * *
76325637 CATGTCCCAGATAGGTCTTACACT-AGCT-TGCATATCT-TGAAGCCGATGT
1 CATGTCCCAGACAGGTCTTACACTGA-CTCT-CATATATCAG-TGCCGATGC
* * * * *
76325686 CGTGTCCCAGACATGTCTTACACTGGCTCTCATCTATCGGTGCCGATGC
1 CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCGATGC
*
76325735 CATGTCCCAGATAGGTCTTACACT
1 CATGTCCCAGACAGGTCTTACACT
76325759 AGCACACACA
Statistics
Matches: 137, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
48 4 0.03
49 130 0.95
50 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGACTCTCATATATCAGTGCCGATGC
Found at i:76325653 original size:98 final size:98
Alignment explanation
Indices: 76325539--76325761 Score: 299
Period size: 98 Copynumber: 2.3 Consensus size: 98
76325529 AAGTCAATGT
* *
76325539 CATGTCCCAGACAGGTCTTACACT-GACTTCCAAAT-ATCAAGGCCGGTGCCATGTCCCAGACAG
1 CATGTCCCAGATAGGTCTTACACTAG-CTTCCAAATCATCAA-GCCGATGCCATGTCCCAGACAG
76325602 GTCTTACACTGGCTCTCA-CTTATCCGTGCAGATGC
64 GTCTTACACTGGCTCTCATC-TATCCGTGCAGATGC
* * * * * * *
76325637 CATGTCCCAGATAGGTCTTACACTAGCTTGCATATCTTGAAGCCGATGTCGTGTCCCAGACATGT
1 CATGTCCCAGATAGGTCTTACACTAGCTTCCAAATCATCAAGCCGATGCCATGTCCCAGACAGGT
* *
76325702 CTTACACTGGCTCTCATCTATCGGTGCCGATGC
66 CTTACACTGGCTCTCATCTATCCGTGCAGATGC
76325735 CATGTCCCAGATAGGTCTTACACTAGC
1 CATGTCCCAGATAGGTCTTACACTAGC
76325762 ACACACATCA
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
98 106 0.95
99 5 0.05
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (98 bp):
CATGTCCCAGATAGGTCTTACACTAGCTTCCAAATCATCAAGCCGATGCCATGTCCCAGACAGGT
CTTACACTGGCTCTCATCTATCCGTGCAGATGC
Found at i:76330240 original size:18 final size:18
Alignment explanation
Indices: 76330198--76330241 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
76330188 AAGAAGCATT
76330198 ATCAGAA-CTAGAATCAAA
1 ATCAGAATC-AGAATCAAA
*
76330216 ATGAGAATCAGAATCAAA
1 ATCAGAATCAGAATCAAA
*
76330234 TTCAGAAT
1 ATCAGAAT
76330242 GAAGCCCGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 21 0.95
19 1 0.05
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (18 bp):
ATCAGAATCAGAATCAAA
Found at i:76330441 original size:27 final size:26
Alignment explanation
Indices: 76330402--76330482 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
76330392 AGCATGGCTG
* *
76330402 CCAGAACTGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
76330428 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
76330455 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
76330482 C
1 C
76330483 TTAACAGAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 6 0.12
27 42 0.88
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:76330745 original size:27 final size:26
Alignment explanation
Indices: 76330695--76330776 Score: 92
Period size: 27 Copynumber: 3.1 Consensus size: 26
76330685 TCGATCGGTC
* * *
76330695 AACAGATATTGTGACAAAGTCACCAG
1 AACAAATATTGTGGCAAAGCCACCAG
*
76330721 ATACAAATATTGTGGCAGAGCCACCAG
1 A-ACAAATATTGTGGCAAAGCCACCAG
* *
76330748 AACAGATATTTGTGGCATAGCCACCAG
1 AACAAATA-TTGTGGCAAAGCCACCAG
76330775 AA
1 AA
76330777 TGCTACCTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
AACAAATATTGTGGCAAAGCCACCAG
Found at i:76331033 original size:27 final size:27
Alignment explanation
Indices: 76331002--76331331 Score: 425
Period size: 27 Copynumber: 12.2 Consensus size: 27
76330992 GGGTAAAATG
* * * *
76331002 GTAATTTTACCCCACAAGGGTATCTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
76331028 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
76331056 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
76331083 GTAATT-TAACCTTACAGGGGTATTTTA
1 GTAATTCT-ACCCTACAGGGGTATTTCA
* *
76331110 GTAATTCTACCCTATAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
76331137 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
76331164 GTAATTCTACCCTACAAGGGTATTTCT
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
76331191 GTATTTCTACCCTATAAGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
76331217 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
76331245 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
76331272 GTAATTCTACCTTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
76331298 GATAATTCTACCCTATAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
76331326 ATAATT
1 GTAATT
76331332 TTGTCAATCG
Statistics
Matches: 268, Mismatches: 28, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
26 4 0.01
27 261 0.97
28 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:76331367 original size:27 final size:27
Alignment explanation
Indices: 76331337--76331401 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
76331327 TAATTTTGTC
*
76331337 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTACA
* *** *
76331364 AATCGGGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAATGGTAATTCTACA
*
76331391 AGTCGAGGGTA
1 AATCGAGGGTA
76331402 TTTCAATAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTACA
Found at i:76331438 original size:81 final size:80
Alignment explanation
Indices: 76331314--76331549 Score: 235
Period size: 81 Copynumber: 2.9 Consensus size: 80
76331304 TCTACCCTAT
* ** * * * *
76331314 AGGGGTATTTCAATAATTTTGTC-AATCGAGGGTAAAATGGTAATTCTATAAA-TCGGGGGTACT
1 AGGGGTATTTCAATAATTTT-ACAAATCGAGGGT-ATTTCGTAATTTTACAAACT-GGGGGTATT
*
76331377 TTGGTAATTTTACAAGTC
63 TTGGTAATTTTACAAATC
* *
76331395 -GAGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCAGTAATTTTGCAAACTGAGGGTATTT
1 AG-GGGTATTTCAATAATTTTACAAATCGAGGGTATTTC-GTAATTTTACAAACTGGGGGTATTT
*
76331459 TGGTAATTTCACAAATC
64 TGGTAATTTTACAAATC
*** * * * *
76331476 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTCGTAATTTTACAAACTAGGGGTATTTT
1 AGGGGTATTTCAATAATTTTACAAATCGAGGGTA-TTTCGTAATTTTACAAACTGGGGGTATTTT
76331541 GGTAATTTT
65 GGTAATTTT
76331550 GTAAACTAAG
Statistics
Matches: 128, Mismatches: 21, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
80 4 0.03
81 118 0.92
82 6 0.05
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.39
Consensus pattern (80 bp):
AGGGGTATTTCAATAATTTTACAAATCGAGGGTATTTCGTAATTTTACAAACTGGGGGTATTTTG
GTAATTTTACAAATC
Found at i:76331563 original size:81 final size:82
Alignment explanation
Indices: 76331370--76331594 Score: 260
Period size: 81 Copynumber: 2.8 Consensus size: 82
76331360 TATAAATCGG
* * * * *** * *
76331370 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAAATCGAGGGTA-TTTCA
1 GGGTATTTTGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTCA
*
76331434 GTAATTTTGCAAACTGA
66 GTAATTTTACAAACTGA
* *
76331451 GGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTC-
1 GGGTATTTTGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTCA
76331515 GTAATTTTACAAACT-A
66 GTAATTTTACAAACTGA
*** *
76331531 GGGGTATTTTGGTAATTTTGTAAA-CTAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
1 -GGGTATTTTGGTAATTTCACAAATC-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
76331595 GGTGATTTGA
Statistics
Matches: 123, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 117 0.95
82 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (82 bp):
GGGTATTTTGGTAATTTCACAAATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTCA
GTAATTTTACAAACTGA
Found at i:76331609 original size:27 final size:27
Alignment explanation
Indices: 76331351--76331602 Score: 222
Period size: 27 Copynumber: 9.3 Consensus size: 27
76331341 GAGGGTAAAA
* * * * *
76331351 TGGTAATTCTATAAATCGGGGGTACTT
1 TGGTAATTTTACAAACCAGGGGTATTT
**
76331378 TGGTAATTTTACAAGTC-GAGGGTATTT
1 TGGTAATTTTACAAACCAG-GGGTATTT
*** *
76331405 CAATAATTTTACAAATC-GAGGGTATTT
1 TGGTAATTTTACAAACCAG-GGGTATTT
** * *
76331432 CAGTAATTTTGCAAA-CTGAGGGTATTT
1 TGGTAATTTTACAAACCAG-GGGTATTT
* *
76331459 TGGTAATTTCACAAATCAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
* *
76331486 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
* *
76331513 TCGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
** * *
76331540 TGGTAATTTTGTAAACTAAGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
76331567 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAGGGGTATTT
*
76331594 TGGTGATTT
1 TGGTAATTT
76331603 GATAAACTAA
Statistics
Matches: 190, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.01
27 186 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACAAACCAGGGGTATTT
Found at i:76331609 original size:54 final size:54
Alignment explanation
Indices: 76331408--76331612 Score: 254
Period size: 54 Copynumber: 3.8 Consensus size: 54
76331398 GGTATTTCAA
* ** * *
76331408 TAATTTTACAAATC-GAGGGTATTTCAGTAATTTTG-CAAACTGAGGGTATTTTGG
1 TAATTTTACAAACCAG-GGGTATTTTGGTAA-TTTGATAAACTAAGGGTATTTTGG
* * * * *
76331462 TAATTTCACAAATCAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTCG
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTGATAAACTAAGGGTATTTTGG
*
76331516 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTG-TAAACTAAGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGGTAA-TTTGATAAACTAAGGGTATTTTGG
*
76331570 TAATTTTACAAACCAGGGGTATTTTGGTGATTTGATAAACTAA
1 TAATTTTACAAACCAGGGGTATTTTGGTAATTTGATAAACTAA
76331613 AGTATTCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
53 7 0.05
54 120 0.92
55 4 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
TAATTTTACAAACCAGGGGTATTTTGGTAATTTGATAAACTAAGGGTATTTTGG
Found at i:76334318 original size:24 final size:24
Alignment explanation
Indices: 76334276--76334323 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
76334266 TAAGTAGATT
*
76334276 AGAAAATAAAAGAAGTGAATTAAAA
1 AGAAAAAAAAAGAAGTGAA-TAAAA
*
76334301 AGAAAAAAAAAGGA-TGAATAAAA
1 AGAAAAAAAAAGAAGTGAATAAAA
76334324 TAAGGGAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 4 0.19
25 12 0.57
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (24 bp):
AGAAAAAAAAAGAAGTGAATAAAA
Found at i:76335052 original size:2 final size:2
Alignment explanation
Indices: 76335045--76335079 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
76335035 CATATTCGGC
* *
76335045 TA TA TA TA TA TA TA TA TA TA TA TA CA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76335080 GTAAGCCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:76335876 original size:27 final size:27
Alignment explanation
Indices: 76335839--76336016 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
76335829 TAAATTGTAC
76335839 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
76335866 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
76335893 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
76335919 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
76335947 GGCACTAAGTGTGCGAGTTTGACTAAGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * * *
76335975 AGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
76336002 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
76336017 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 106 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:76339912 original size:27 final size:27
Alignment explanation
Indices: 76339882--76340059 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
76339872 ATATTGAGTC
* *
76339882 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
76339909 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
76339936 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
76339964 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
**
76339991 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAATCAACT
* * *
76340018 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
76340045 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76340060 GTACAATTTA
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.03
27 98 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:76360314 original size:46 final size:46
Alignment explanation
Indices: 76360247--76360417 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
76360237 TAACCGCCCC
*
76360247 TAAGTGAACTCGGACTCAACTCAACGA-TCTCGAGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGT-TCGAGCATTTGCATCCA
* *
76360293 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-G-C-ATTTGCATCCA
* * *
76360341 TCA-CGAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGAG-CATTTGCATCCA
*
76360386 TAGGTGAACTCGGACTCAACTCAACGAGTTCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG
76360418 GATGCTCAAC
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 5 0.05
44 3 0.03
45 1 0.01
46 57 0.54
47 29 0.28
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGAGCATTTGCATCCA
Found at i:76360364 original size:93 final size:93
Alignment explanation
Indices: 76360252--76360422 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
76360242 GCCCCTAAGT
* *
76360252 GAACTCGGACTCAACTCAACGA-TCTC-GAGCGTTTGCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGAGT-TCGGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
76360315 AACGAGTTCGGATGCCTAGTTACATCTCAC
64 AACGAGTTCGGATGCCTAGTTACATCTCAC
*
76360345 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76360410 CGAGTTCGGATGC
66 CGAGTTCGGATGC
76360423 TCAACCATCC
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
93 70 0.96
94 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:76363255 original size:16 final size:16
Alignment explanation
Indices: 76363236--76363286 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
76363226 GCAAAAGCCC
76363236 AAATGCCGAAAAGTTG
1 AAATGCCGAAAAGTTG
*
76363252 AAATGCC-AAAATGCTG
1 AAATGCCGAAAA-GTTG
*
76363268 AAATGCCGAAAAGTAG
1 AAATGCCGAAAAGTTG
76363284 AAA
1 AAA
76363287 GTTTGGCTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 4 0.13
16 22 0.73
17 4 0.13
ACGTcount: A:0.49, C:0.14, G:0.22, T:0.16
Consensus pattern (16 bp):
AAATGCCGAAAAGTTG
Found at i:76363515 original size:28 final size:28
Alignment explanation
Indices: 76363475--76363597 Score: 115
Period size: 29 Copynumber: 4.3 Consensus size: 28
76363465 GCTATGTGAT
76363475 TTGGGCC-AGATGGGCCATATAAATGAGA
1 TTGGGCCTA-ATGGGCCATATAAATGAGA
* *
76363503 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATAAATGAG-A
* * * *
76363532 TTAGGCTTGATGGGCCATATGAACGTGA-A
1 TTGGGCCTAATGGGCCATAT-AA-ATGAGA
* **
76363561 TTGGGTCGGATGGGCCATATAAATGAGA
1 TTGGGCCTAATGGGCCATATAAATGAGA
76363589 TTGGGCCTA
1 TTGGGCCTA
76363598 GAAGGTCATA
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
27 3 0.04
28 32 0.43
29 36 0.49
30 1 0.01
31 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.26
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATAAATGAGA
Found at i:76363530 original size:57 final size:57
Alignment explanation
Indices: 76363468--76363595 Score: 134
Period size: 57 Copynumber: 2.2 Consensus size: 57
76363458 AAGTGATGCT
* *
76363468 ATGTGATTTGGGCCAGATGGGCCATAT-AA-ATGAGATTGGGCCTAATGGGCCATATGA
1 ATGTGA-TTGGGCCAGATGGGCCATATGAACATGA-ATTGGGCCGAATGGGCCATATAA
* ** * * *
76363525 ATGTGAATTAGGCTTGATGGGCCATATGAACGTGAATTGGGTCGGATGGGCCATATAA
1 ATGTG-ATTGGGCCAGATGGGCCATATGAACATGAATTGGGCCGAATGGGCCATATAA
*
76363583 ATGAGATTGGGCC
1 ATGTGATTGGGCC
76363596 TAGAAGGTCA
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
57 28 0.49
58 26 0.46
59 3 0.05
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (57 bp):
ATGTGATTGGGCCAGATGGGCCATATGAACATGAATTGGGCCGAATGGGCCATATAA
Found at i:76365773 original size:100 final size:100
Alignment explanation
Indices: 76365600--76365785 Score: 336
Period size: 100 Copynumber: 1.9 Consensus size: 100
76365590 TATTGTGAGG
*
76365600 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
76365665 AAGTGCAGGCTACTATGCGTAACCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTAACCGAAAACTGTGA
* * *
76365700 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTGCT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
76365765 AAGTGCAGGCTACTATGCGTA
66 AAGTGCAGGCTACTATGCGTA
76365786 CCAGATAGTT
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTAACCGAAAACTGTGA
Found at i:76365787 original size:49 final size:49
Alignment explanation
Indices: 76365605--76365792 Score: 234
Period size: 49 Copynumber: 3.8 Consensus size: 49
76365595 TGAGGTCACG
** *
76365605 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * * * *
76365654 TGTGTAGTACTAAGTGCAGGCTACTATGCGTAACC-GAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGT-ACCAGATAA-T-TGGTCGCA
* *
76365705 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* *
76365754 TGTGTAGTGCTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
76365793 GTTTCGACTA
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
49 72 0.62
50 8 0.07
51 37 0.32
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:76368388 original size:22 final size:22
Alignment explanation
Indices: 76368333--76368388 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
76368323 ATAGGGCTCA
*
76368333 CACGCCCGTGTCGTCTAATGGC
1 CACGCCCGTGTGGTCTAATGGC
*
76368355 CACGCTCGTGTGGTCTAATGGC
1 CACGCCCGTGTGGTCTAATGGC
*
76368377 CACGCCCTTGTG
1 CACGCCCGTGTG
76368389 ACCTGGGACA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.12, C:0.34, G:0.29, T:0.25
Consensus pattern (22 bp):
CACGCCCGTGTGGTCTAATGGC
Found at i:76369263 original size:19 final size:19
Alignment explanation
Indices: 76369239--76369276 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
76369229 GTACTTAACT
76369239 TACCATTCATTCTATTTTA
1 TACCATTCATTCTATTTTA
76369258 TACCATTCATTCTATTTTA
1 TACCATTCATTCTATTTTA
76369277 AGGTAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (19 bp):
TACCATTCATTCTATTTTA
Found at i:76376839 original size:33 final size:33
Alignment explanation
Indices: 76376780--76376868 Score: 97
Period size: 33 Copynumber: 2.7 Consensus size: 33
76376770 GCATCCATAG
* * * *
76376780 AGATAATCCACTGGGATAGTAAACACAAAACAG
1 AGATAGTCCATTGGGACAGTAAACACAAAACAA
* * *
76376813 AGTTAGTCCATTGGGACAGTAGACACAGAACAA
1 AGATAGTCCATTGGGACAGTAAACACAAAACAA
**
76376846 AGATAGTCTGTTGGGACAGTAAA
1 AGATAGTCCATTGGGACAGTAAA
76376869 TAAAGAATGA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.19
Consensus pattern (33 bp):
AGATAGTCCATTGGGACAGTAAACACAAAACAA
Found at i:76379230 original size:3 final size:3
Alignment explanation
Indices: 76379222--76379258 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
76379212 ATTCCACCAA
76379222 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
76379259 TAAAGTATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:76383916 original size:47 final size:47
Alignment explanation
Indices: 76383847--76383951 Score: 183
Period size: 47 Copynumber: 2.2 Consensus size: 47
76383837 CCCTTTGGGA
* *
76383847 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCAGC
*
76383894 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCAGC
76383941 CTTATCACATA
1 CTTATCACATA
76383952 ATTAATACTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATCCATCACATTGGCCATTCAGC
Found at i:76397838 original size:15 final size:15
Alignment explanation
Indices: 76397805--76397845 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
76397795 TATTTATTAC
*
76397805 TTTATTCTATTTCTG
1 TTTATTCTATTTCTA
76397820 TTTATGTCTATTTC-A
1 TTTAT-TCTATTTCTA
76397835 TTTATT-TATTT
1 TTTATTCTATTT
76397846 ATCTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.21
14 1 0.04
15 10 0.42
16 8 0.33
ACGTcount: A:0.17, C:0.10, G:0.05, T:0.68
Consensus pattern (15 bp):
TTTATTCTATTTCTA
Found at i:76405943 original size:55 final size:53
Alignment explanation
Indices: 76405812--76406007 Score: 173
Period size: 55 Copynumber: 3.6 Consensus size: 53
76405802 CTTACCATTG
* * *
76405812 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAAATCACCAATA
* * *
76405865 CCAT-TCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAAATTATCAATA
1 CCATGT-CTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AAATCACCAATA
*** * * *
76405920 CCATGTCTTGACATGGTCTTACATGATTTCCTGGCCTTA-GAAACCTTACCAATTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAAA--TCACCAA-TA
* * *
76405975 CCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
76406008 AAACTCTAAT
Statistics
Matches: 116, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
52 6 0.05
53 34 0.29
54 7 0.06
55 66 0.57
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAAATCACCAATA
Found at i:76408771 original size:93 final size:93
Alignment explanation
Indices: 76408656--76408828 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
76408646 CGCCCATAAG
*** *
76408656 CGAACTCAGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGCAAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGCAAACTCGGACTCAACTCA
*
76408721 ACGATTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * **
76408749 CGAACTCGGACTCAACTCAACGAGTTCGAACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGCAAACTCGGACTCAACTCA
*
76408814 ATGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
76408829 CAAATATCCC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGAACGCTCGCATCCATAAGCAAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:76410553 original size:22 final size:22
Alignment explanation
Indices: 76410528--76410598 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
76410518 GTAGTACATG
76410528 AATGTTGTAATTTGAGTTGTTA
1 AATGTTGTAATTTGAGTTGTTA
* * * *
76410550 AATGCTGCAAATT-ATTATGTTTA
1 AATGTTGTAATTTGAGT-TG-TTA
*
76410573 AATGTTGTAATTTGAGGTGTTA
1 AATGTTGTAATTTGAGTTGTTA
76410595 AATG
1 AATG
76410599 CTACCAACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
21 2 0.05
22 19 0.51
23 15 0.41
24 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.45
Consensus pattern (22 bp):
AATGTTGTAATTTGAGTTGTTA
Found at i:76410562 original size:23 final size:22
Alignment explanation
Indices: 76410536--76410600 Score: 53
Period size: 23 Copynumber: 2.9 Consensus size: 22
76410526 TGAATGTTGT
76410536 AATTTGAGTTGTTAAATGCTGCA
1 AATTTGAGTTGTTAAATGCTG-A
* * *
76410559 AA-TT-ATTATGTTTAAATGTTGT
1 AATTTGAGT-TG-TTAAATGCTGA
*
76410581 AATTTGAGGTGTTAAATGCT
1 AATTTGAGTTGTTAAATGCT
76410601 ACCAACTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 9
0.68 0.13 0.19
Matches are distributed among these distances:
21 2 0.06
22 14 0.44
23 15 0.47
24 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.45
Consensus pattern (22 bp):
AATTTGAGTTGTTAAATGCTGA
Found at i:76410620 original size:45 final size:45
Alignment explanation
Indices: 76410528--76410624 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 45
76410518 GTAGTACATG
* * * * *
76410528 AATGTTGTAATTTGAGTTGTTAAATGCTGCAAATTATTATGTTTA
1 AATGTTGTAATTTGAGGTGTTAAATGCTACAAACTATAATGTCTA
*
76410573 AATGTTGTAATTTGAGGTGTTAAATGCTACCAACTA-AAGTGTCTA
1 AATGTTGTAATTTGAGGTGTTAAATGCTACAAACTATAA-TGTCTA
76410618 AATGTTG
1 AATGTTG
76410625 CGCTTTATAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (45 bp):
AATGTTGTAATTTGAGGTGTTAAATGCTACAAACTATAATGTCTA
Found at i:76413283 original size:22 final size:22
Alignment explanation
Indices: 76413255--76413376 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
76413245 TTCCACATCC
76413255 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
76413277 ATCACATATATACACTTTC-TCATT
1 ATCACAT-T-GGC-CATTCGGCCTT
76413301 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
76413324 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
76413348 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
76413371 ATCACA
1 ATCACA
76413377 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Done.