Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 186 of 378
Found at i:54483223 original size:40 final size:40
Alignment explanation
Indices: 54483157--54483323 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
54483147 AAATTGAATG
* * *
54483157 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
54483196 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
54483236 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
54483276 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
54483316 ATATCCGG
1 ATATCCGG
54483324 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:54498008 original size:78 final size:80
Alignment explanation
Indices: 54497865--54498048 Score: 196
Period size: 78 Copynumber: 2.3 Consensus size: 80
54497855 TCGGATGATG
* * * *
54497865 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGGCTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
54497930 GTGCGAGTAAATAAA
66 GTGCGAGTAAATAAA
* * **
54497945 TCCGGGCTAA-TCCTGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
* **
54498007 CGTGCAAGTCGATATAA
65 CGTGCGAGTAAATA-AA
**
54498024 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
54498049 AGCGAGTCGT
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
77 1 0.01
78 44 0.51
79 27 0.31
80 14 0.16
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTAAATAAA
Found at i:54498028 original size:40 final size:40
Alignment explanation
Indices: 54497866--54498067 Score: 139
Period size: 40 Copynumber: 5.1 Consensus size: 40
54497856 CGGATGATGT
* * *
54497866 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCGATATAA
* * * * **
54497906 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTAAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGATATAA
* *
54497945 TCCGGGCTAA-TCCTGAAGGC-TTTGTGCAAGT-TACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGA-TATAA
* *
54497983 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGATATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGATATAA
** * * * *
54498024 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGATATAA
54498064 CCGG
1 CCGG
54498068 TTAAATTCCG
Statistics
Matches: 126, Mismatches: 27, Indels: 18
0.74 0.16 0.11
Matches are distributed among these distances:
37 1 0.01
38 22 0.17
39 17 0.13
40 76 0.60
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGATATAA
Found at i:54501486 original size:17 final size:19
Alignment explanation
Indices: 54501445--54501487 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
54501435 AGCAATACAT
54501445 ATATTATTATATACATATG
1 ATATTATTATATACATATG
*
54501464 ATTATTATT-TTTACATATG
1 A-TATTATTATATACATATG
54501483 -TATTA
1 ATATTA
54501488 ATCCAACACC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
19 10 0.45
20 7 0.32
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATATTATTATATACATATG
Found at i:54505225 original size:110 final size:110
Alignment explanation
Indices: 54505009--54505319 Score: 529
Period size: 110 Copynumber: 2.8 Consensus size: 110
54504999 ATCCTTTTGA
* * * * *
54505009 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAACCTTACCAA
54505072 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
54505117 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
54505182 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
54505227 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
* *
54505292 TGCCATGCATTGGCATGATCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
54505320 TATCCTTAAA
Statistics
Matches: 193, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
107 1 0.01
108 49 0.25
109 7 0.04
110 136 0.70
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:54505326 original size:55 final size:53
Alignment explanation
Indices: 54504962--54505326 Score: 340
Period size: 55 Copynumber: 6.8 Consensus size: 53
54504952 ACGTGAGTAC
* * *
54504962 CTTACC-ATTGCCATGAATTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATG-CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
54505011 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATTGCCATG-CTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAA
* * * *
54505064 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATG-CTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * *
54505119 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATG-CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* * *
54505172 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 -CTTACCAATTGCCATG-CTTGACATGGTCTTACATGGTATCC-TTGCC-T-TAGAAA
* * *
54505229 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAA
1 CTTACCAATTGCCATG-CTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
* *
54505282 CCTTACCAATTGCCATGCATTGGCATGATCTTACATGGTATCCTT
1 -CTTACCAATTGCCATGC-TTGACATGGTCTTACATGGTATCCTT
54505327 AAACCCTAAT
Statistics
Matches: 261, Mismatches: 35, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
49 39 0.15
52 4 0.02
53 49 0.19
54 23 0.09
55 129 0.49
56 12 0.05
57 5 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCAATTGCCATGCTTGACATGGTCTTACATGGTATCCTTGCCTTAGAAA
Found at i:54508435 original size:37 final size:37
Alignment explanation
Indices: 54508383--54508510 Score: 220
Period size: 37 Copynumber: 3.4 Consensus size: 37
54508373 TTATTACGAA
*
54508383 GTCTTACCCGAACATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
54508420 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
*
54508457 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
*
54508494 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
54508511 TTTCCAAGTT
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 82 0.94
38 5 0.06
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACATGTAGTCATCGG
Found at i:54508604 original size:48 final size:48
Alignment explanation
Indices: 54508550--54508701 Score: 241
Period size: 48 Copynumber: 3.2 Consensus size: 48
54508540 TATTACAATA
54508550 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* ** * *
54508598 TTCACATTAGCCATTCGGCTTTACCACATACACATATCTTATATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
54508646 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
54508694 TTCACATT
1 TTCACATT
54508702 CATCACATCG
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:54508797 original size:98 final size:98
Alignment explanation
Indices: 54508693--54508985 Score: 518
Period size: 98 Copynumber: 3.0 Consensus size: 98
54508683 CACACATATA
*
54508693 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
54508758 TCGGCCATTAGGCCTTATCACATATATATACAC
66 TCGGCCATTAGGCCTTATCACATATATATACAC
54508791 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
*
54508854 TCGGCCATTAGGCCATATCACATATATACATACAC
66 TCGGCCATTAGGCCTTATCACATATAT--ATACAC
54508889 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACACTTTCACATTCATCA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ATACACTTTCACATTCATCA
54508954 CATCGGCCATTAGGCCTTATCACATATATATA
64 CATCGGCCATTAGGCCTTATCACATATATATA
54508986 TCTCATACAT
Statistics
Matches: 186, Mismatches: 3, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
96 52 0.28
98 79 0.42
100 7 0.04
102 48 0.26
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (98 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:54508908 original size:51 final size:49
Alignment explanation
Indices: 54508693--54508985 Score: 518
Period size: 51 Copynumber: 5.9 Consensus size: 49
54508683 CACACATATA
*
54508693 TTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
54508742 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
54508791 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
*
54508838 TTTCACATTCATCACATCGGCCATTAGGCCATATCACATATATACATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ATACAC
54508889 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATACAC
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ATACAC
54508940 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
54508986 TCTCATACAT
Statistics
Matches: 237, Mismatches: 3, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
47 46 0.19
49 92 0.39
51 99 0.42
ACGTcount: A:0.31, C:0.29, G:0.08, T:0.32
Consensus pattern (49 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
Found at i:54512873 original size:49 final size:49
Alignment explanation
Indices: 54512699--54513166 Score: 705
Period size: 49 Copynumber: 9.7 Consensus size: 49
54512689 CCCTTCGGGA
* * * * *
54512699 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54512746 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54512793 CTTGTCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54512840 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
54512889 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
54512938 CTTATCACATATATATACACTTTCACATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54512987 CTTATCACATATCTATACCCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54513036 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
54513085 CTTATCACATATGTATACGCTTTCACATCCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
54513134 CTTATCTCATATATATACACATTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
54513167 GCGTAAAATC
Statistics
Matches: 392, Mismatches: 25, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
46 1 0.00
47 89 0.23
49 302 0.77
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:54521531 original size:15 final size:15
Alignment explanation
Indices: 54521508--54521538 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54521498 CTTCTTCACT
54521508 TACTCACTTACTTAA
1 TACTCACTTACTTAA
*
54521523 TACTTACTTACTTAA
1 TACTCACTTACTTAA
54521538 T
1 T
54521539 CAAATTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.00, T:0.45
Consensus pattern (15 bp):
TACTCACTTACTTAA
Found at i:54521916 original size:55 final size:53
Alignment explanation
Indices: 54521775--54521982 Score: 222
Period size: 55 Copynumber: 3.8 Consensus size: 53
54521765 ATCCTTTTGA
* *
54521775 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
54521828 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* * ***
54521882 TAACTTATCAATGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
54521935 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
54521983 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 46 0.36
54 8 0.06
55 69 0.54
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:54521919 original size:108 final size:110
Alignment explanation
Indices: 54521775--54521975 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
54521765 ATCCTTTTGA
* * *
54521775 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTCACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
54521838 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
* * *
54521883 AACTTATCAATGCCATGTCTTCACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTCACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
54521948 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
54521976 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTCACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:54523930 original size:46 final size:44
Alignment explanation
Indices: 54523873--54524000 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 44
54523863 ATTGAGACGA
* *
54523873 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGAT
1 GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAGAT
* *
54523917 GTAAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCGACTAGAT
1 GT--GCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAGAT
*
54523963 GTGTCAGTGTAAGACTATGTCTAGGACATGGCATCGGC
1 GTGCCAGTGTAAGAC-ATGTCTAGGACAT-GCATCGGC
54524001 ACAGATATGC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
44 14 0.19
45 13 0.17
46 48 0.64
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (44 bp):
GTGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCACGAGAT
Found at i:54526472 original size:67 final size:64
Alignment explanation
Indices: 54526351--54526522 Score: 193
Period size: 67 Copynumber: 2.7 Consensus size: 64
54526341 TCTGTTGTAC
* * * * * * * *
54526351 ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCT
1 ACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCT
* * * *
54526414 ACATGGTGTCATTCACCTGGAATCACGCATGCGACCTAGTTACATATATCCCGTAGCTCTCTTGT
1 ACATGGTGT-A--CACATAGAATCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGT
54526479 CT
63 CT
*
54526481 ACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 ACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACAT
54526523 CATAATGTCT
Statistics
Matches: 89, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
63 8 0.09
64 28 0.31
66 22 0.25
67 31 0.35
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (64 bp):
ACATGGTGTACACATAGAATCACCCATGCGACCTAGCTACATATATCCCGTAGCTCTCTTGTCT
Found at i:54527292 original size:30 final size:30
Alignment explanation
Indices: 54527257--54527317 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
54527247 TCTTTAACTC
54527257 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
54527287 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
54527317 A
1 A
54527318 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:54529669 original size:29 final size:29
Alignment explanation
Indices: 54529612--54529743 Score: 106
Period size: 29 Copynumber: 4.6 Consensus size: 29
54529602 AATTTAAGCC
* **
54529612 CGCACACACAGTGCCATA-CCTTCCGAGCT
1 CGCACACATAGTGCCATATTTTTCC-AGCT
** * *
54529641 CGCACACCCAGTGCCGTATTTTTCTAGCT
1 CGCACACATAGTGCCATATTTTTCCAGCT
* *
54529670 TGCACACATAGTGTCATATTTTTCCAGCAT
1 CGCACACATAGTGCCATATTTTTCCAGC-T
* * * *
54529700 -GCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATTTTTCCAGCT
*
54529728 CGCACACTTAGTGCCA
1 CGCACACATAGTGCCA
54529744 ATCTCGTCAC
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
29 79 0.95
30 4 0.05
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (29 bp):
CGCACACATAGTGCCATATTTTTCCAGCT
Found at i:54541871 original size:20 final size:20
Alignment explanation
Indices: 54541805--54541871 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
54541795 ATTTTAGTAA
*
54541805 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
54541825 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
54541845 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
54541865 ACATGAT
1 ACATGAT
54541872 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:54542003 original size:24 final size:24
Alignment explanation
Indices: 54541919--54542063 Score: 143
Period size: 25 Copynumber: 6.0 Consensus size: 24
54541909 GGAGGAAGTG
54541919 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
54541943 GATAAATGGCTTATGCCCCAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* *
54541968 GATAAAGGGCTTATGCCCTAGTTAT
1 TA-AAAGGGCTTATGCCCCAGTTAT
* * *
54541993 TAAAAGGGCTTATACCCTAATTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
54542017 T-ATAGGG-TTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
54542039 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
54542064 ACGATAAAGC
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
22 12 0.12
23 8 0.08
24 28 0.28
25 53 0.52
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:54542290 original size:30 final size:30
Alignment explanation
Indices: 54542256--54542314 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
54542246 TGTTTACAGT
*
54542256 AAAGGCTTCAGCCTAGTAATATGAAATATA
1 AAAGGCTTCAGCCCAGTAATATGAAATATA
* **
54542286 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCAGCCCAGTAATATGAAATAT
54542315 GAAGTGTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (30 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATA
Found at i:54553981 original size:29 final size:29
Alignment explanation
Indices: 54553948--54554078 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
54553938 GTGACGAGAT
* *
54553948 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* *
54553977 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
*
54554006 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
* * *
54554035 TGACACTATGTGTGCAAGCTGGAAAAAT-
1 TGGCACTAAGTGTGCATGCTGGAAAAATA
**
54554063 TGGCACTGGGTGTGCA
1 TGGCACTAAGTGTGCA
54554079 AGATCGAAGG
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 13 0.14
29 79 0.86
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAAAATA
Found at i:54556247 original size:40 final size:40
Alignment explanation
Indices: 54556181--54556347 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
54556171 AAATTGAATG
* * *
54556181 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
54556220 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
54556260 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
54556300 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
54556340 ATATCCGG
1 ATATCCGG
54556348 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:54564255 original size:40 final size:40
Alignment explanation
Indices: 54564189--54564355 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
54564179 AAATTGAATG
* * *
54564189 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
54564228 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
54564268 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
54564308 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
54564348 ATATCCGG
1 ATATCCGG
54564356 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:54571044 original size:53 final size:54
Alignment explanation
Indices: 54570959--54571162 Score: 194
Period size: 53 Copynumber: 3.8 Consensus size: 54
54570949 TTCCTTTTTA
* * * *
54570959 AACTTACCATTGTCATGTCTTGACATGGTCTTACGTGGTATCTTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* * * * * *
54571012 AACTAACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGTCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
** * * * * * * * *
54571066 TAGTTTATCAATGCCACGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
* *
54571121 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATC
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATC
54571163 CTTAAACCTT
Statistics
Matches: 117, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 45 0.38
54 34 0.29
55 38 0.32
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG
Found at i:54571098 original size:55 final size:53
Alignment explanation
Indices: 54570975--54571154 Score: 144
Period size: 55 Copynumber: 3.3 Consensus size: 53
54570965 CCATTGTCAT
* * * *
54570975 GTCTTGACATGGTCTTACGTGGTATCTTTGCCTTATGAACTAACCATTGCCAT
1 GTCTTGACATGGTCTTACATGGGATCTTTGCCTTATGAACTAACCAATGCCAC
* * * ** * *
54571028 GCCTTGGCATGGTCTTACATGGGATCTTTGTCTTATCGTAGTTTATCAATGCCAC
1 GTCTTGACATGGTCTTACATGGGATCTTTGCCTTAT-G-AACTAACCAATGCCAC
*** * * * * *
54571083 GTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGCCAT
1 GTCTTGACATGGTCTTACATGGGATCTTTGCCTTAT-GAACTAACCAATGCCAC
* *
54571137 GCCTTGGCATGGTCTTAC
1 GTCTTGACATGGTCTTAC
54571155 TTGGTATCCT
Statistics
Matches: 98, Mismatches: 27, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
53 31 0.32
54 29 0.30
55 38 0.39
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
GTCTTGACATGGTCTTACATGGGATCTTTGCCTTATGAACTAACCAATGCCAC
Found at i:54575890 original size:29 final size:29
Alignment explanation
Indices: 54575857--54575943 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
54575847 GTGTCGATGA
* *
54575857 TTACAGTTGTCAAGTACTTTGTATCAGTG
1 TTACAGTTATCAAGTACTATGTATCAGTG
* * * **
54575886 TTACAGTTATCAGGCACTCTGTGCCAGTG
1 TTACAGTTATCAAGTACTATGTATCAGTG
* *
54575915 TTATATTTATCAAGTACTATGTATCAGTG
1 TTACAGTTATCAAGTACTATGTATCAGTG
54575944 GTAGATACCA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTACAGTTATCAAGTACTATGTATCAGTG
Found at i:54582352 original size:18 final size:18
Alignment explanation
Indices: 54582309--54582344 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
54582299 CCTTAGCACA
*
54582309 TGCATGCATATATGAATG
1 TGCATACATATATGAATG
54582327 TGCATACATATATGAATG
1 TGCATACATATATGAATG
54582345 GCCTTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (18 bp):
TGCATACATATATGAATG
Found at i:54591181 original size:16 final size:17
Alignment explanation
Indices: 54591150--54591182 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
54591140 ACTTGATTTC
54591150 AGTTTAGTTGTGGTTGA
1 AGTTTAGTTGTGGTTGA
*
54591167 AGTTTA-TTTTGGTTGA
1 AGTTTAGTTGTGGTTGA
54591183 GATGCCTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.52
Consensus pattern (17 bp):
AGTTTAGTTGTGGTTGA
Found at i:54591489 original size:2 final size:2
Alignment explanation
Indices: 54591482--54591511 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
54591472 TATAACGTAG
54591482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
54591512 CTTGGTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:54596669 original size:43 final size:45
Alignment explanation
Indices: 54596602--54596732 Score: 155
Period size: 45 Copynumber: 3.0 Consensus size: 45
54596592 CAAATTCATC
* * *
54596602 CACCGGCA-TATTGCCTGCTCGGCTCAA-AGCCCGA-TA-TCATTT
1 CACCGGCATTATAGCCTGCTAGGCTCAAGAGCCCGATTAGT-ATCT
*
54596644 CACCGGCATTATAGCCTGCTAGGCTCAAGGGCCCGATTAGTATCT
1 CACCGGCATTATAGCCTGCTAGGCTCAAGAGCCCGATTAGTATCT
* *
54596689 CACAGGCATTATAGCCTGCTAGGCTCTAAG-GCCTGATTAGTATC
1 CACCGGCATTATAGCCTGCTAGGCTC-AAGAGCCCGATTAGTATC
54596733 GTACGATATT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
42 8 0.10
43 17 0.22
44 6 0.08
45 43 0.55
46 4 0.05
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (45 bp):
CACCGGCATTATAGCCTGCTAGGCTCAAGAGCCCGATTAGTATCT
Found at i:54597242 original size:86 final size:86
Alignment explanation
Indices: 54597095--54597264 Score: 279
Period size: 86 Copynumber: 2.0 Consensus size: 86
54597085 TGTCATCTCG
* *
54597095 GTAATGTTAGTGGTAGCCGAGATACTACCAAAGATACGATAGCTAGATCTGAAGCATGAGCACCT
1 GTAATGTTAGTGGTAGCCGAGATACTACCAAAGATACGACAGCTAGATCTGAAGCACGAGCACCT
*
54597160 GCAAGAACATATGCTATTCCT
66 GCAAGAACATAGGCTATTCCT
* *
54597181 GTAATGTTAGTGGTA-CTCGAGGTACTACCAAGGATACGACAGCTAGATCTGAAGCACGAGCACC
1 GTAATGTTAGTGGTAGC-CGAGATACTACCAAAGATACGACAGCTAGATCTGAAGCACGAGCACC
54597245 TGCAAGAACATAGGCTATTC
65 TGCAAGAACATAGGCTATTC
54597265 GTGCTAGAGA
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 1 0.01
86 77 0.99
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.23
Consensus pattern (86 bp):
GTAATGTTAGTGGTAGCCGAGATACTACCAAAGATACGACAGCTAGATCTGAAGCACGAGCACCT
GCAAGAACATAGGCTATTCCT
Found at i:54606217 original size:15 final size:14
Alignment explanation
Indices: 54606184--54606213 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
54606174 TCATTCATGG
54606184 ATAAATTTTTAAAC
1 ATAAATTTTTAAAC
54606198 ATAAATTTTTAAAC
1 ATAAATTTTTAAAC
54606212 AT
1 AT
54606214 TAAAAACGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAAATTTTTAAAC
Found at i:54616984 original size:35 final size:35
Alignment explanation
Indices: 54616945--54617100 Score: 179
Period size: 35 Copynumber: 4.5 Consensus size: 35
54616935 CAATGTTCAT
*
54616945 TATATCATCACATATGGCCAAAAATACAAG-TACAA
1 TATATCATCACATATGGCCAAATATACAAGCT-CAA
* * *
54616980 TATATCATCATATATGACCGAATATACAAGCTCAA
1 TATATCATCACATATGGCCAAATATACAAGCTCAA
* * * * * * *
54617015 TATAACATCAAATGTAGTCAAATATTCAAGCTTAA
1 TATATCATCACATATGGCCAAATATACAAGCTCAA
* *
54617050 TATAACATCACATGTGGCCAAATATACAAGCTCAA
1 TATATCATCACATATGGCCAAATATACAAGCTCAA
54617085 TATATCATCACATATG
1 TATATCATCACATATG
54617101 TACATACCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
35 99 0.99
36 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (35 bp):
TATATCATCACATATGGCCAAATATACAAGCTCAA
Found at i:54624243 original size:35 final size:35
Alignment explanation
Indices: 54624187--54624348 Score: 198
Period size: 35 Copynumber: 4.6 Consensus size: 35
54624177 AATACTCAAG
*
54624187 GTTCATTATATCATCACATATGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * **
54624222 GTACAATATATCATCATATATGACTGAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * * *
54624257 GTTCAATATAACATCACATGTAGTCAAATATTCAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * *
54624292 GTTTAATATAACATCACATGTGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
54624327 GTTCAATATATCATCACATATG
1 GTTCAATATATCATCACATATG
54624349 TACATAACTA
Statistics
Matches: 104, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 104 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (35 bp):
GTTCAATATATCATCACATATGGCCAAATATACAA
Found at i:54631122 original size:35 final size:35
Alignment explanation
Indices: 54631066--54631227 Score: 198
Period size: 35 Copynumber: 4.6 Consensus size: 35
54631056 AATACTCAAG
*
54631066 GTTCATTATATCATCACATATGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * **
54631101 GTACAATATATCATCATATATGACTGAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * * *
54631136 GTTCAATATAACATCACATGTAGTCAAATATTCAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * *
54631171 GTTTAATATAACATCACATGTGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
54631206 GTTCAATATATCATCACATATG
1 GTTCAATATATCATCACATATG
54631228 TACATAACTA
Statistics
Matches: 104, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 104 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (35 bp):
GTTCAATATATCATCACATATGGCCAAATATACAA
Found at i:54638006 original size:35 final size:35
Alignment explanation
Indices: 54637950--54638111 Score: 198
Period size: 35 Copynumber: 4.6 Consensus size: 35
54637940 AATACTCAAG
*
54637950 GTTCATTATATCATCACATATGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * **
54637985 GTACAATATATCATCATATATGACTGAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * * * *
54638020 GTTCAATATAACATCACATGTAGTCAAATATTCAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
* * *
54638055 GTTTAATATAACATCACATGTGGCCAAATATACAA
1 GTTCAATATATCATCACATATGGCCAAATATACAA
54638090 GTTCAATATATCATCACATATG
1 GTTCAATATATCATCACATATG
54638112 TACATAACTA
Statistics
Matches: 104, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 104 1.00
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.31
Consensus pattern (35 bp):
GTTCAATATATCATCACATATGGCCAAATATACAA
Found at i:54642226 original size:15 final size:15
Alignment explanation
Indices: 54642206--54642236 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
54642196 AATTATGAAA
54642206 GATATGTTTTGGATT
1 GATATGTTTTGGATT
*
54642221 GATATGTTTTGTATT
1 GATATGTTTTGGATT
54642236 G
1 G
54642237 GAATTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (15 bp):
GATATGTTTTGGATT
Found at i:54644617 original size:27 final size:27
Alignment explanation
Indices: 54644594--54644728 Score: 198
Period size: 27 Copynumber: 5.0 Consensus size: 27
54644584 AAAAATTATT
*
54644594 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
54644621 AAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
54644648 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
54644675 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
54644702 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
54644729 ATTTTGCCCT
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:54644645 original size:54 final size:54
Alignment explanation
Indices: 54644587--54644729 Score: 223
Period size: 54 Copynumber: 2.6 Consensus size: 54
54644577 CGATTTAAAA
* *
54644587 AATTATTGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
54644641 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTATCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
54644695 AATTATCGAGATACCCTTGTGGGGTAAAATTACCA
1 AATTATCGAAATACCCTTGTAGGGTAGAATTACCA
54644730 TTTTGCCCTT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (54 bp):
AATTATCGAAATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:54644738 original size:27 final size:27
Alignment explanation
Indices: 54644708--54644771 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
54644698 TATCGAGATA
*
54644708 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
54644735 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
54644762 CCCTTGTGGG
1 CCCTTGTGGG
54644772 CAAGTGATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:54646157 original size:27 final size:26
Alignment explanation
Indices: 54646102--54646157 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
54646092 AACCTTAACA
* * *
54646102 CTAGGGGTATATTAGTAATTTTGCTC
1 CTAGGGGTAAATTAGTAATTTTCCAC
54646128 CTAGGGGTAAATCT-GTAAATTTTCCAC
1 CTAGGGGTAAAT-TAGT-AATTTTCCAC
54646155 CTA
1 CTA
54646158 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (26 bp):
CTAGGGGTAAATTAGTAATTTTCCAC
Found at i:54648411 original size:15 final size:15
Alignment explanation
Indices: 54648374--54648402 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
54648364 TTTTCCTATC
54648374 TAATAATAATAATTA
1 TAATAATAATAATTA
54648389 TAATAATAATAATT
1 TAATAATAATAATT
54648403 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:54648531 original size:19 final size:18
Alignment explanation
Indices: 54648494--54648537 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
54648484 ATACATACAG
54648494 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
54648511 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
54648530 TACTAATT
1 TAATAATT
54648538 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:54652133 original size:20 final size:20
Alignment explanation
Indices: 54652093--54652133 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
54652083 TGTGTGCTGT
*
54652093 TATTGTGGGCTTCATATCGA
1 TATTGTGGGCTTCATACCGA
*
54652113 TATTGTGGGCTTCATGCCGA
1 TATTGTGGGCTTCATACCGA
54652133 T
1 T
54652134 TATAAACCCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (20 bp):
TATTGTGGGCTTCATACCGA
Found at i:54652354 original size:6 final size:6
Alignment explanation
Indices: 54652345--54652400 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
54652335 TTACATTCAC
* * * *
54652345 ATTCTA ATTCTG ATTCTG ATTCTA ATTCTG ATTCTC ATTTTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
54652392 AGTTCTG AT
1 A-TTCTG AT
54652401 AATGTTTCTA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 1 0.02
6 39 0.95
7 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:54652360 original size:12 final size:12
Alignment explanation
Indices: 54652345--54652400 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
54652335 TTACATTCAC
* *
54652345 ATTCTAATTCTG
1 ATTCTGATTCTA
54652357 ATTCTGATTCTA
1 ATTCTGATTCTA
*
54652369 ATTCTGATTCTC
1 ATTCTGATTCTA
*
54652381 ATTTTGATTCTA
1 ATTCTGATTCTA
*
54652393 GTTCTGAT
1 ATTCTGAT
54652401 AATGTTTCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 37 1.00
ACGTcount: A:0.21, C:0.16, G:0.11, T:0.52
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:54652391 original size:18 final size:18
Alignment explanation
Indices: 54652339--54652383 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
54652329 TTGAGATTAC
*
54652339 ATTCACATTCTAATTCTG
1 ATTCTCATTCTAATTCTG
*
54652357 ATTCTGATTCTAATTCTG
1 ATTCTCATTCTAATTCTG
54652375 ATTCTCATT
1 ATTCTCATT
54652384 TTGATTCTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.07, T:0.49
Consensus pattern (18 bp):
ATTCTCATTCTAATTCTG
Found at i:54652409 original size:18 final size:18
Alignment explanation
Indices: 54652388--54652439 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
54652378 CTCATTTTGA
54652388 TTCTAGTTCTGATAATGT
1 TTCTAGTTCTGATAATGT
54652406 TTCTAGTTCTGATAATGT
1 TTCTAGTTCTGATAATGT
54652424 TTCTTA-TTCTG-TAATG
1 TTC-TAGTTCTGATAATG
54652440 GGCTAAGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 5 0.15
18 26 0.79
19 2 0.06
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (18 bp):
TTCTAGTTCTGATAATGT
Found at i:54652466 original size:31 final size:32
Alignment explanation
Indices: 54652431--54652495 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 32
54652421 TGTTTCTTAT
54652431 TCTG-TAATGGGCTAAGGCCC-ATCTGATACTG
1 TCTGTTAATGGGCTAAGGCCCAAT-TGATACTG
54652462 TCTGTTATAATGGGCTAAGGCCCAATTGATACTG
1 TCTG-T-TAATGGGCTAAGGCCCAATTGATACTG
54652496 AAACTGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 4 0.13
34 24 0.80
35 2 0.07
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (32 bp):
TCTGTTAATGGGCTAAGGCCCAATTGATACTG
Found at i:54654592 original size:27 final size:27
Alignment explanation
Indices: 54654486--54654619 Score: 94
Period size: 27 Copynumber: 5.0 Consensus size: 27
54654476 AAAATTGTTG
* * **
54654486 AAATACCCCTGTAGGGTATAATTACTG
1 AAATACCCCTGTAGGATAGAATTACCA
* * *
54654513 AAATGCCCCTGTAGTG-TAAAATTATCA
1 AAATACCCCTGTAG-GATAGAATTACCA
* * *
54654540 AAATACCCTTGTAGGGTAGAAATACCA
1 AAATACCCCTGTAGGATAGAATTACCA
*
54654567 AAATACCCCTGTAAGGAT-GAATTACCG
1 AAATACCCCTGT-AGGATAGAATTACCA
* * * *
54654594 AGATACCCTTGTTGGGTA-AATTACCA
1 AAATACCCCTGTAGGATAGAATTACCA
54654620 TTTTGCCCCT
Statistics
Matches: 84, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
26 11 0.13
27 68 0.81
28 5 0.06
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGATAGAATTACCA
Found at i:54655247 original size:12 final size:12
Alignment explanation
Indices: 54655232--54655291 Score: 59
Period size: 12 Copynumber: 4.9 Consensus size: 12
54655222 TTGCATTCAC
54655232 ATTCTGATTCTA
1 ATTCTGATTCTA
54655244 ATTCT-ATTACCTA
1 ATTCTGATT--CTA
*
54655257 ATACTGATTCTA
1 ATTCTGATTCTA
* *
54655269 ATTCTGATGCTC
1 ATTCTGATTCTA
*
54655281 ATTTTGATTCT
1 ATTCTGATTCT
54655292 TGTTCTGATA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
11 3 0.08
12 26 0.67
13 7 0.18
14 3 0.08
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTCTGATTCTA
Found at i:54663631 original size:46 final size:46
Alignment explanation
Indices: 54663564--54663738 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 46
54663554 TGTAACCCAC
* * *
54663564 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
*
54663610 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGC-A--T
* *** **
54663656 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
54663703 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
54663739 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 63 0.59
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:54663687 original size:93 final size:93
Alignment explanation
Indices: 54663571--54663743 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
54663561 CACCCATAAG
* **
54663571 CGAACTTGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54663636 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
*
54663664 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54663729 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
54663744 CAAATATCCC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:54666170 original size:42 final size:42
Alignment explanation
Indices: 54666123--54666205 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
54666113 CATGATTTCA
*
54666123 ATGCCATGTCCCAAACATGGTCTTACACA-AAATCTCATAACG
1 ATGCCATATCCCAAACATGGTCTTACACATAAA-CTCATAACG
* *
54666165 ATGCCATATCCCAGATATGGTCTTACACATAAACTCATAAC
1 ATGCCATATCCCAAACATGGTCTTACACATAAACTCATAAC
54666206 CCTAATGTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 34 0.92
43 3 0.08
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (42 bp):
ATGCCATATCCCAAACATGGTCTTACACATAAACTCATAACG
Found at i:54673284 original size:2 final size:2
Alignment explanation
Indices: 54673277--54673311 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
54673267 ATACAATAAC
54673277 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54673312 CATAACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:54673676 original size:42 final size:42
Alignment explanation
Indices: 54673615--54673720 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 42
54673605 TAAACTAGCT
* * *
54673615 ATGGTCTTACACG-ATTCTCATATCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATCTCATAGCGATGCCATATCCCAGAC
* *
54673656 ATGGTCTTACACGAAATCTCATAGCGATGCCATATCTCAGAT
1 ATGGTCTTACACGAAATCTCATAGCGATGCCATATCCCAGAC
*
54673698 ACGGTCTTACACGTAAA-CTCATA
1 ATGGTCTTACACG-AAATCTCATA
54673721 ACCCTAATGT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
41 13 0.23
42 41 0.72
43 3 0.05
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCTCATAGCGATGCCATATCCCAGAC
Found at i:54681818 original size:20 final size:20
Alignment explanation
Indices: 54681761--54681818 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
54681751 TAAGTTTATG
* * *
54681761 CTAAGCAAATGTAATGGAAA
1 CTAAGAAAATGGAATGGTAA
* *
54681781 GTAAGTAAATGGAATGGTAA
1 CTAAGAAAATGGAATGGTAA
54681801 CTAAGAAAATGGAATGGT
1 CTAAGAAAATGGAATGGT
54681819 TCTTAAACTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.22
Consensus pattern (20 bp):
CTAAGAAAATGGAATGGTAA
Found at i:54688466 original size:27 final size:27
Alignment explanation
Indices: 54688443--54688566 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
54688433 CAATTTACAG
54688443 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
54688470 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
54688497 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
**
54688524 AATTACCAAAATACCAATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
54688551 AATTACTAAAATACCC
1 AATTACCAAAATACCC
54688567 CTATAGGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:54688502 original size:54 final size:54
Alignment explanation
Indices: 54688443--54688566 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
54688433 CAATTTACAG
* ** *
54688443 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* *
54688497 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
54688551 AATTACTAAAATACCC
1 AATTACTAAAATACCC
54688567 CTATAGGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:54688528 original size:81 final size:81
Alignment explanation
Indices: 54688443--54688595 Score: 202
Period size: 81 Copynumber: 1.9 Consensus size: 81
54688433 CAATTTACAG
** * **
54688443 AATTACCAAAATACCCTTGGTTT-ATAAAATCACCAAAATACCCCTGGT-TTGTAAAATTACTAA
1 AATTACCAAAATACCAATGGTTTGA-AAAATCACCAAAATACCCCT-ATAGGGTAAAATTACTAA
54688506 AATACCCTTTGTTTATAA
64 AATACCCTTTGTTTATAA
* * *
54688524 AATTACCAAAATACCAATGGTTTGAAAAATTACTAAAATACCCCTATAGGGTAAAATTACTGAAA
1 AATTACCAAAATACCAATGGTTTGAAAAATCACCAAAATACCCCTATAGGGTAAAATTACTAAAA
54688589 TACCCTT
66 TACCCTT
54688596 GTGGGGTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.02
81 60 0.97
82 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTGAAAAATCACCAAAATACCCCTATAGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:54688579 original size:27 final size:27
Alignment explanation
Indices: 54688549--54688610 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
54688539 AATGGTTTGA
54688549 AAAATTACTAAAATACCCCTATAGGGT
1 AAAATTACTAAAATACCCCTATAGGGT
* * * *
54688576 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTATAGGGT
54688603 AAAATTAC
1 AAAATTAC
54688611 CATTTTGCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTATAGGGT
Found at i:54688579 original size:54 final size:53
Alignment explanation
Indices: 54688443--54688592 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 53
54688433 CAATTTACAG
* * * * ** *
54688443 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTAG-TGATAAAATTACCAAAATACCAATGGTTTGAAA
* *
54688497 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTAG-TGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
54688551 AATTACTAAAATACCCCTATAG-GGTAAAATTACTGAAATACC
1 AATTACTAAAATA-CCCT-TAGTGATAAAATTACCAAAATACC
54688593 CTTGTGGGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
54 77 0.93
55 4 0.05
56 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (53 bp):
AATTACTAAAATACCCTTAGTGATAAAATTACCAAAATACCAATGGTTTGAAA
Found at i:54689230 original size:28 final size:28
Alignment explanation
Indices: 54689198--54689266 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
54689188 GCGTAGATCA
54689198 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
54689226 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54689254 CGATA-TACCCCTA
1 CGAAATTACCCCTA
54689267 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:54692556 original size:27 final size:27
Alignment explanation
Indices: 54692488--54692558 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
54692478 CGACTTGTAA
* *
54692488 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
54692515 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
54692542 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
54692559 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:54692565 original size:27 final size:27
Alignment explanation
Indices: 54692542--54692665 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
54692532 CAATTTACAG
54692542 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
54692569 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
54692596 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
**
54692623 AATTACCAAAATACCAATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
54692650 AATTACTAAAATACCC
1 AATTACCAAAATACCC
54692666 CTGTAGGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:54692584 original size:54 final size:53
Alignment explanation
Indices: 54692526--54692637 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 53
54692516 ATTACCGTTT
54692526 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
54692580 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
54692634 TACC
1 TACC
54692638 AATGGTTTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 2 0.04
54 39 0.78
55 7 0.14
56 2 0.04
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:54692644 original size:54 final size:54
Alignment explanation
Indices: 54692542--54692665 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
54692532 CAATTTACAG
* ** *
54692542 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
* *
54692596 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
54692650 AATTACTAAAATACCC
1 AATTACTAAAATACCC
54692666 CTGTAGGGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCAATGGTTTGAAA
Found at i:54692678 original size:27 final size:26
Alignment explanation
Indices: 54692566--54692708 Score: 106
Period size: 27 Copynumber: 5.3 Consensus size: 26
54692556 CCTTGGTTTA
* * **
54692566 TAAAATCACCAAAATACCCCTGGTTTG
1 TAAAATTACTAAAATACCCCT-GTGGG
* ***
54692593 TAAAATTACTAAAATACCCTTTGTTTA
1 TAAAATTACTAAAATACCC-CTGTGGG
* ** **
54692620 TAAAATTACCAAAATACCAATGGTTTG
1 TAAAATTACTAAAATACCCCT-GTGGG
*
54692647 AAAAATTACTAAAATACCCCTGTAGGG
1 TAAAATTACTAAAATACCCCTGT-GGG
* *
54692674 TAAAATTACTGAAATACCCTTGTGGG
1 TAAAATTACTAAAATACCCCTGTGGG
54692700 TAAAATTAC
1 TAAAATTAC
54692709 CATTTTGCCC
Statistics
Matches: 96, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
26 15 0.16
27 80 0.83
28 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.30
Consensus pattern (26 bp):
TAAAATTACTAAAATACCCCTGTGGG
Found at i:54692678 original size:54 final size:54
Alignment explanation
Indices: 54692542--54692691 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
54692532 CAATTTACAG
* ** * ** *
54692542 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
54692596 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCAATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
* **
54692650 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACC
54692692 CTTGTGGGTA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 3 0.04
54 79 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (54 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCAATGGTTTGAAA
Found at i:54692694 original size:81 final size:81
Alignment explanation
Indices: 54692542--54692694 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
54692532 CAATTTACAG
** **
54692542 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
54692607 TACCCTTTGTTTATAA
66 TACCCTTTGTTTATAA
* * *
54692623 AATTACCAAAATACCAATGGTTTGA-AAAATTACTAAAATACCCCT-GTAGGGTAAAATTACTGA
1 AATTACCAAAATACCAATGGTTT-ATAAAATCACCAAAATACCCCTGGT-GGGTAAAATTACTAA
54692686 AATACCCTT
64 AATACCCTT
54692695 GTGGGTAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
AATTACCAAAATACCAATGGTTTATAAAATCACCAAAATACCCCTGGTGGGTAAAATTACTAAAA
TACCCTTTGTTTATAA
Found at i:54693330 original size:28 final size:28
Alignment explanation
Indices: 54693298--54693366 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
54693288 GCGTAGATCA
54693298 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
54693326 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54693354 CGATA-TACCCCTA
1 CGAAATTACCCCTA
54693367 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:54696661 original size:27 final size:27
Alignment explanation
Indices: 54696593--54696663 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
54696583 CGACTTGTAA
* *
54696593 AATTACCAAAGTACTCC-CGATTTACAG
1 AATTACCAAAATAC-CCTCAATTTACAG
****
54696620 AATTACCGTTTTACCCTCAATTTACAG
1 AATTACCAAAATACCCTCAATTTACAG
54696647 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
54696664 TGGTTTATAA
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTCAATTTACAG
Found at i:54696689 original size:54 final size:53
Alignment explanation
Indices: 54696631--54696769 Score: 136
Period size: 54 Copynumber: 2.6 Consensus size: 53
54696621 ATTACCGTTT
54696631 TACCCTCAATT-TACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTGTA-A-AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
*** * * *
54696685 TACCCCTGGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAA
1 TA-CCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
* *** * *
54696739 TACCATGGTTTGAAAAATTACTAAAATACCC
1 TACCCTCAATTGTAAAATTACCAAAATACCC
54696770 CTGTAGGGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
53 27 0.36
54 39 0.52
55 7 0.09
56 2 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTCAATTGTAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAA
Found at i:54696756 original size:26 final size:27
Alignment explanation
Indices: 54696647--54696769 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
54696637 CAATTTACAG
54696647 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
54696674 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
54696701 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
54696728 AATTACCAAAATA-CCATGGTTTGA-AA
1 AATTACCAAAATACCCTTGGTTT-ATAA
*
54696754 AATTACTAAAATACCC
1 AATTACCAAAATACCC
54696770 CTGTAGGGTA
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.26
27 61 0.74
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:54696782 original size:53 final size:53
Alignment explanation
Indices: 54696647--54696795 Score: 149
Period size: 53 Copynumber: 2.8 Consensus size: 53
54696637 CAATTTACAG
* ** * * *
54696647 AATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATA-CCATGGTTTGAAA
* **
54696701 AATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCATGGTTTGAAA
1 AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCATGGTTTGAAA
* **
54696754 AATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACC
1 AATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACC
54696796 CTTGTGGGTA
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
52 3 0.04
53 43 0.52
54 36 0.43
55 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (53 bp):
AATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCATGGTTTGAAA
Found at i:54696804 original size:26 final size:26
Alignment explanation
Indices: 54696647--54696812 Score: 116
Period size: 27 Copynumber: 6.2 Consensus size: 26
54696637 CAATTTACAG
* ***
54696647 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACTAAAATACCCTT-GTGGGTAA
* * * **
54696674 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATA-CCCTTGTGGGTAA
***
54696701 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACTAAAATACCC-TTGTGGGTAA
* * * ** *
54696728 AATTACCAAAATACCATGGTTTGAAA
1 AATTACTAAAATACCCTTGTGGGTAA
*
54696754 AATTACTAAAATACCCCTGTAGGGTAA
1 AATTACTAAAATACCCTTGT-GGGTAA
*
54696781 AATTACTGAAATACCCTTGTGGGTAA
1 AATTACTAAAATACCCTTGTGGGTAA
54696807 AATTAC
1 AATTAC
54696813 CATTTTGCCC
Statistics
Matches: 115, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
26 38 0.33
27 73 0.63
28 4 0.03
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (26 bp):
AATTACTAAAATACCCTTGTGGGTAA
Found at i:54697434 original size:28 final size:28
Alignment explanation
Indices: 54697402--54697470 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
54697392 GCGTAGATCA
54697402 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
54697430 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
54697458 CGATA-TACCCCTA
1 CGAAATTACCCCTA
54697471 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:54700029 original size:42 final size:43
Alignment explanation
Indices: 54699983--54700086 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 43
54699973 GTTAACGTAC
54699983 GCTCT-GCGACATGGCCATGTG-TCTCAAAATAATTTCAAACAT
1 GCTCTAGC-ACATGGCCATGTGTTCTCAAAATAATTTCAAACAT
**
54700025 GCTCTAGCACACAGCCA-GTGTTCTCAAAATAATTTCAAACAT
1 GCTCTAGCACATGGCCATGTGTTCTCAAAATAATTTCAAACAT
*
54700067 GGTCTAGCACATGGCC-TGTG
1 GCTCTAGCACATGGCCATGTG
54700087 ACAAGATCGT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
41 3 0.06
42 49 0.91
43 2 0.04
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (43 bp):
GCTCTAGCACATGGCCATGTGTTCTCAAAATAATTTCAAACAT
Found at i:54702727 original size:31 final size:31
Alignment explanation
Indices: 54702689--54702751 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
54702679 CTTTTCAGAC
54702689 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
54702720 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
54702751 T
1 T
54702752 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:54703051 original size:25 final size:24
Alignment explanation
Indices: 54702945--54703090 Score: 208
Period size: 25 Copynumber: 6.0 Consensus size: 24
54702935 GTTTTATCAT
*
54702945 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
54702970 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54702993 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
54703017 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
54703042 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54703065 CCATAACTGGGGCATAAGCCCTTTTA
1 --ATAACTGGGGCATAAGCCCTTTTA
54703091 CACTTCCTCC
Statistics
Matches: 112, Mismatches: 3, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
23 19 0.17
24 42 0.38
25 47 0.42
26 4 0.04
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54703059 original size:49 final size:48
Alignment explanation
Indices: 54702945--54703090 Score: 208
Period size: 48 Copynumber: 3.0 Consensus size: 48
54702935 GTTTTATCAT
*
54702945 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
54702993 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT-TA
54703042 ATAACTGGGGCATAAGCCC-TTTACCATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA--ATAACTGGGGCATAAGCCCTTTTA
54703091 CACTTCCTCC
Statistics
Matches: 90, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
47 22 0.24
48 25 0.28
49 21 0.23
50 22 0.24
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:54703164 original size:20 final size:20
Alignment explanation
Indices: 54703139--54703205 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
54703129 TTATGAATAC
*
54703139 ATCATGTGCATATGATACAT
1 ATCATGTGCATATCATACAT
54703159 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
54703179 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
54703199 ACCATGT
1 ATCATGT
54703206 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:54707276 original size:31 final size:31
Alignment explanation
Indices: 54707238--54707300 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
54707228 CTTTTCACAC
54707238 TTCATATTTCATAACACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
**
54707269 TTCATATTTCATATTACTGGGCCGAAGCCTT
1 TTCATATTTCATAACACTGGGCCGAAGCCTT
54707300 T
1 T
54707301 ACTATAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTGGGCCGAAGCCTT
Found at i:54707600 original size:25 final size:24
Alignment explanation
Indices: 54707494--54707639 Score: 215
Period size: 25 Copynumber: 6.0 Consensus size: 24
54707484 GCTTTATCAT
*
54707494 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
54707519 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54707542 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
54707566 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
54707591 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
54707616 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
54707640 CACTTCCTCC
Statistics
Matches: 115, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 18 0.16
24 41 0.36
25 56 0.49
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:54707713 original size:20 final size:20
Alignment explanation
Indices: 54707688--54707754 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
54707678 TTATGAATAC
54707688 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
54707708 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
54707728 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
*
54707748 ACCATGT
1 ATCATGT
54707755 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:54711078 original size:35 final size:35
Alignment explanation
Indices: 54711038--54711108 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
54711028 AAATAGCAAA
54711038 TAAATGATAATAATTAAAACATAAATATAAAATTT
1 TAAATGATAATAATTAAAACATAAATATAAAATTT
54711073 TAAATGATAATAATTAAAACATAAATATAAAATTT
1 TAAATGATAATAATTAAAACATAAATATAAAATTT
54711108 T
1 T
54711109 CATTCATTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (35 bp):
TAAATGATAATAATTAAAACATAAATATAAAATTT
Found at i:54714929 original size:28 final size:28
Alignment explanation
Indices: 54714889--54715043 Score: 186
Period size: 28 Copynumber: 5.6 Consensus size: 28
54714879 TGTACGACAG
* **
54714889 TTAGTGTGTGAGATATCAAGTATACCAC
1 TTAGTGTGTGAGATATCGAGTATGGCAC
*
54714917 TTAGAGTGTGAGATATCGAGTATGGCAC
1 TTAGTGTGTGAGATATCGAGTATGGCAC
* *
54714945 TTAGTGTGCGAGATAACGAGTATGGCAC
1 TTAGTGTGTGAGATATCGAGTATGGCAC
* *
54714973 TTAGTGTGGGAGATATCGAGTGTGGCAC
1 TTAGTGTGTGAGATATCGAGTATGGCAC
* * * *
54715001 TTAGTG-GCGAAATATTGAATATGGCAC
1 TTAGTGTGTGAGATATCGAGTATGGCAC
*
54715028 TAAGTGTGTGAGATAT
1 TTAGTGTGTGAGATAT
54715044 TAAGTATTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 21 0.19
28 87 0.81
ACGTcount: A:0.29, C:0.11, G:0.30, T:0.30
Consensus pattern (28 bp):
TTAGTGTGTGAGATATCGAGTATGGCAC
Found at i:54717349 original size:47 final size:47
Alignment explanation
Indices: 54717283--54717687 Score: 577
Period size: 47 Copynumber: 8.5 Consensus size: 47
54717273 TATCACAGTT
* *
54717283 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCATATAC
* * *
54717330 ATATACTTTCACACTCATCACATTGGCCATTCAGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
*
54717379 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
*
54717426 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC--ACAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
*
54717471 ATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACAC-T-TTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
54717522 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTAT--CATATAC
*
54717571 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
*
54717618 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATC--ACAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
*
54717663 ATACGCATGTTCACATTCATCACAT
1 ATACAC-T-TTCACATTCATCACAT
54717688 AAAATCCTAA
Statistics
Matches: 331, Mismatches: 16, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
45 16 0.05
46 2 0.01
47 177 0.53
48 1 0.00
49 126 0.38
50 1 0.00
51 8 0.02
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCATATAC
Found at i:54717447 original size:96 final size:96
Alignment explanation
Indices: 54717283--54717687 Score: 626
Period size: 96 Copynumber: 4.2 Consensus size: 96
54717273 TATCACAGTT
* * * * *
54717283 ATACACTTCCAC-TTCCATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACACTCA
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCA
* *
54717347 TCACATTGGCCATTCAGCCTTATCACATATAC
65 TCACATTGGCCATTCGGCCTTATCACACATAC
54717379 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
54717444 CACATTGGCCATTCGGCCTTATCACACATAC
66 CACATTGGCCATTCGGCCTTATCACACATAC
*
54717475 --GCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATT
1 ATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTTCACATT
*
54717537 CATCACATTGGCCATTCGGCCTTATCACATATAC
63 CATCACATTGGCCATTCGGCCTTATCACACATAC
54717571 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
54717636 CACATTGGCCATTCGGCCTTATCACACATAC
66 CACATTGGCCATTCGGCCTTATCACACATAC
*
54717667 --GCA-TGTTCACATTCATCACAT
1 ATACACT-TTCACATTCATCACAT
54717688 AAAATCCTAA
Statistics
Matches: 289, Mismatches: 12, Indels: 18
0.91 0.04 0.06
Matches are distributed among these distances:
93 2 0.01
94 56 0.19
96 190 0.66
97 2 0.01
98 38 0.13
99 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (96 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACACATAC
Found at i:54717541 original size:27 final size:27
Alignment explanation
Indices: 54717511--54717593 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
54717501 ATTCGGCCTT
54717511 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
* * *
54717538 ATCACAT-TGGC---CA--TTCGGCCTT-
1 ATCACATAT-ACATACACTTTC-ACATTC
54717560 ATCACATATACATACACTTTCACATTC
1 ATCACATATACATACACTTTCACATTC
54717587 ATCACAT
1 ATCACAT
54717594 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 18
0.63 0.09 0.28
Matches are distributed among these distances:
22 11 0.27
23 4 0.10
24 2 0.05
25 2 0.05
26 4 0.10
27 18 0.44
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (27 bp):
ATCACATATACATACACTTTCACATTC
Found at i:54717596 original size:192 final size:190
Alignment explanation
Indices: 54717298--54717687 Score: 726
Period size: 192 Copynumber: 2.0 Consensus size: 190
54717288 CTTCCACTTC
* *
54717298 CATCACATTGGCCATTCGGCCTTATCATATATATATACTTTCACACTCATCACATTGGCCATTCA
1 CATCACATTGGCCATTCGGCCTTATCATATACATACACTTTCACACTCATCACATTGGCCATTCA
54717363 GCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACAT
66 GCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACAT
54717428 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATT
131 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATT
*
54717488 CATCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATT
1 CATCACATTGGCCATTCGGCCTTAT--CATATACATACACTTTCACACTCATCACATTGGCCATT
*
54717553 CGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
64 CAGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
54717618 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATT
129 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATT
54717680 CATCACAT
1 CATCACAT
54717688 AAAATCCTAA
Statistics
Matches: 194, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
190 25 0.13
192 169 0.87
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (190 bp):
CATCACATTGGCCATTCGGCCTTATCATATACATACACTTTCACACTCATCACATTGGCCATTCA
GCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACAT
ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATT
Found at i:54726359 original size:40 final size:40
Alignment explanation
Indices: 54726232--54726361 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
54726222 ATGCTGGAAA
* *
54726232 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
54726272 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
54726312 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
54726352 TTATATCCGG
1 TTATATCCGG
54726362 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:54734394 original size:40 final size:40
Alignment explanation
Indices: 54734267--54734396 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
54734257 ATGCTGGAAA
* *
54734267 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
54734307 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
54734347 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
54734387 TTATATCCGG
1 TTATATCCGG
54734397 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:54754501 original size:70 final size:70
Alignment explanation
Indices: 54754368--54754502 Score: 218
Period size: 70 Copynumber: 1.9 Consensus size: 70
54754358 TAGTTTATTA
* ** *
54754368 CTAATTAATTTGCTGCTGTAATGTTGTAAATTATTGGCTGTCCAAATTAGGAAAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGAAAAATTCATGGTG
54754433 CTTAG
66 CTTAG
54754438 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAA-TCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGA-AAAATTCATGGT
54754502 G
65 G
54754503 TTAAGTGCTA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 56 0.93
71 4 0.07
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGAAAAATTCATGGTG
CTTAG
Found at i:54756064 original size:40 final size:40
Alignment explanation
Indices: 54755956--54756165 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
54755946 CGGGATTTAA
* * * * *
54755956 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
54755996 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54756036 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54756076 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54756116 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54756156 CCGGATATAT
1 CCGGATATAT
54756166 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:54764200 original size:40 final size:40
Alignment explanation
Indices: 54764092--54764341 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
54764082 CGGGATTTAA
* * * * *
54764092 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
54764132 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54764172 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54764212 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54764252 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54764292 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
54764332 CCGGATATAT
1 CCGGATATAT
54764342 TTCCAATGTT
Statistics
Matches: 193, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:54766845 original size:43 final size:43
Alignment explanation
Indices: 54766788--54766941 Score: 193
Period size: 43 Copynumber: 3.6 Consensus size: 43
54766778 TCGAAATGTG
* *
54766788 ATATACGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTAAAATG
1 ATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAAATA
* * *
54766832 ATATTGGGCTTCGGGCCTAGTAGGCTATAATG-TCGGTGAGATA
1 ATATCGGGCTTCGGGCCTAGCAGGCTATAATGCT-GGTGAAATA
* *
54766875 ATATCGGGCCTCGGGCCTAGCAGGCTATAATGCCGGTGAAATA
1 ATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAAATA
* **
54766918 ATATCAGGCTTCAAGCCTAGCAGG
1 ATATCGGGCTTCGGGCCTAGCAGG
54766942 TGAAATGCCG
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
42 1 0.01
43 89 0.95
44 4 0.04
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
ATATCGGGCTTCGGGCCTAGCAGGCTATAATGCTGGTGAAATA
Found at i:54766980 original size:42 final size:42
Alignment explanation
Indices: 54766889--54766983 Score: 106
Period size: 42 Copynumber: 2.2 Consensus size: 42
54766879 CGGGCCTCGG
* *
54766889 GCCTAGCAGGCT-ATAATGCCGGTGAAATAATATCAGGCTTCAA
1 GCCTAGCAGG-TGA-AATGCCGGTGAAATAATATCAGACTTAAA
54766932 GCCTAGCAGGTGAAATGCCGGTG-AATGAAT-TCAGACTTAAA
1 GCCTAGCAGGTGAAATGCCGGTGAAAT-AATATCAGACTTAAA
*
54766973 GGTCTAGCAGG
1 -GCCTAGCAGG
54766984 CTTATGGCCG
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
41 12 0.26
42 23 0.50
43 11 0.24
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (42 bp):
GCCTAGCAGGTGAAATGCCGGTGAAATAATATCAGACTTAAA
Found at i:54769107 original size:29 final size:29
Alignment explanation
Indices: 54769074--54769150 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 29
54769064 GTGATTACAA
* * *
54769074 TTATCAGGTACTTTGTACTGGTGTTATAT
1 TTATCAGGTACTATGTACCGGTGTTATAC
* * * *
54769103 TTATCAAGCACTCTGTGCCGGTGTTATAC
1 TTATCAGGTACTATGTACCGGTGTTATAC
54769132 TTATCAGGTACTATGTACC
1 TTATCAGGTACTATGTACC
54769151 AGTGGTGGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (29 bp):
TTATCAGGTACTATGTACCGGTGTTATAC
Found at i:54774144 original size:43 final size:43
Alignment explanation
Indices: 54774083--54774340 Score: 311
Period size: 43 Copynumber: 6.0 Consensus size: 43
54774073 TTTATATAGA
* * * *
54774083 CATCGATATGTGCTTACGTGTAACACCACGTCTGGGATGTTGG
1 CATCGATATGCGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * *
54774126 CATCGATAGGCGATTACGTGTAAGTCAACGTCTGGGACGTTGG
1 CATCGATATGCGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * *
54774169 CATCGATATGTGATTACGTGTAAGACCATGTCTAGGACGTTGG
1 CATCGATATGCGATTACGTGTAAGACCACGTCTGGGACGTTGG
* *
54774212 CATCGATATGTGATTACGTGTAAGACCACATCTGGGACGTTGG
1 CATCGATATGCGATTACGTGTAAGACCACGTCTGGGACGTTGG
* * * **
54774255 CATCTATATGCGTTTACGAGTAAGACC-CTGTCTGGGACAATGG
1 CATCGATATGCGATTACGTGTAAGACCAC-GTCTGGGACGTTGG
* * * *
54774298 CGTCGATATGAGATTACATGTAAGACCACGTCAGGGACGTTGG
1 CATCGATATGCGATTACGTGTAAGACCACGTCTGGGACGTTGG
54774341 TATTGTACCT
Statistics
Matches: 181, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
42 1 0.01
43 179 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
CATCGATATGCGATTACGTGTAAGACCACGTCTGGGACGTTGG
Found at i:54776422 original size:27 final size:26
Alignment explanation
Indices: 54776374--54776425 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54776364 ACAAGGCTGC
*
54776374 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
54776400 CAGATATATGTGTCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
54776426 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:54777052 original size:26 final size:27
Alignment explanation
Indices: 54777023--54777076 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
54777013 TCACACAAGT
*
54777023 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
54777049 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
54777076 T
1 T
54777077 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:54777115 original size:27 final size:27
Alignment explanation
Indices: 54777077--54777275 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
54777067 GGGGCAAAAT
* * *
54777077 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54777104 GGTTATTCTACCTTACAAGTGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54777131 AGTATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
54777158 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
54777185 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
54777212 AATAATTCTACCCTAC-AGGGAATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
54777238 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
54777265 GGTAATTCTAC
1 GGTAATTCTAC
54777276 AACTTGCCCA
Statistics
Matches: 146, Mismatches: 25, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 21 0.14
27 125 0.86
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:54781938 original size:17 final size:18
Alignment explanation
Indices: 54781906--54781939 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54781896 CTCTCCTAAA
54781906 ACGATTCTGATCTTTCTC
1 ACGATTCTGATCTTTCTC
54781924 ACGATTCTG-TCTTTCT
1 ACGATTCTGATCTTTCT
54781940 ATATGCTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.15, C:0.26, G:0.12, T:0.47
Consensus pattern (18 bp):
ACGATTCTGATCTTTCTC
Found at i:54785883 original size:47 final size:47
Alignment explanation
Indices: 54785829--54786288 Score: 713
Period size: 47 Copynumber: 9.7 Consensus size: 47
54785819 TATTTTATGC
* * *
54785829 GATGAATGTGAATGTGTATGTATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
54785876 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
54785925 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
54785972 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
54786019 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
* *
54786068 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGT
54786117 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* *
54786164 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCGATGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
54786211 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
* * *
54786258 GATGGATGTGAAAGTGTAAAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
54786289 TCCCGAAGGA
Statistics
Matches: 387, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 250 0.65
49 137 0.35
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:54785929 original size:96 final size:96
Alignment explanation
Indices: 54785829--54786288 Score: 734
Period size: 96 Copynumber: 4.8 Consensus size: 96
54785819 TATTTTATGC
* * *
54785829 GATGAATGTGAATGTGTATGTATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
54785894 TATATATGTGATAAGGCCGAATGGCCAATGT
66 TATATATGTGATAAGGCCGAATGGCCAATGT
54785925 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* *
54785988 TATATATGTGATAAGGCCTAATGGCCGATGT
66 TATATATGTGATAAGGCCGAATGGCCAATGT
54786019 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
54786084 TATATATATGTGATAAGGCCGAATGGCCAATGT
64 TATATATATGTGATAAGGCCGAATGGCCAATGT
*
54786117 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
54786180 TATATATGTGATAAGGCCGAATGGCCGATGT
66 TATATATGTGATAAGGCCGAATGGCCAATGT
* * * * * *
54786211 GATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
54786276 -A-AAATGTGATAAG
66 TATATATGTGATAAG
54786289 TCCCGAAGGA
Statistics
Matches: 341, Mismatches: 17, Indels: 14
0.92 0.05 0.04
Matches are distributed among these distances:
94 139 0.41
95 7 0.02
96 150 0.44
98 45 0.13
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (96 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:54786897 original size:23 final size:23
Alignment explanation
Indices: 54786869--54786914 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
54786859 AACTTACTAA
54786869 GCATTGTAATGCTTACTCCGTTT
1 GCATTGTAATGCTTACTCCGTTT
54786892 GCATTGTAATGCTTACTCCGTTT
1 GCATTGTAATGCTTACTCCGTTT
54786915 ACTCTGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.43
Consensus pattern (23 bp):
GCATTGTAATGCTTACTCCGTTT
Found at i:54789320 original size:29 final size:28
Alignment explanation
Indices: 54789232--54789334 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
54789222 TACTCAATCA
* *
54789232 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATA-CATTCAAGCT
* * * * *
54789261 CGCAGACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATACA-TTCAAGCT
*
54789290 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
*
54789319 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
54789335 ATCTTGTCAC
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
28 2 0.03
29 56 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:54791307 original size:27 final size:26
Alignment explanation
Indices: 54791260--54791310 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
54791250 CGAGGCTGCT
*
54791260 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
54791286 AGATATATGTGTCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
54791311 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:54791983 original size:27 final size:27
Alignment explanation
Indices: 54791935--54792106 Score: 193
Period size: 27 Copynumber: 6.4 Consensus size: 27
54791925 GGGGCAAAAT
* * * * *
54791935 GGTAATTTTACCCCACAAGGGTGTCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54791962 GGTAATTCTAACCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
54791989 AGTATTTCTGCCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54792016 GGTAATTCTATCCTACA-GGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
54792042 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
54792069 AGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54792096 AGTAATTCTAC
1 GGTAATTCTAC
54792107 AACTTATCCA
Statistics
Matches: 122, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 24 0.20
27 98 0.80
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:54800792 original size:43 final size:43
Alignment explanation
Indices: 54800731--54800941 Score: 284
Period size: 43 Copynumber: 4.9 Consensus size: 43
54800721 TATAGACATA
* *
54800731 GATATGTGATTACGTGTAAGACCACATCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATC
*
54800774 GATATGTGACTACGTGTAAGACCACGTCTAGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATC
54800817 GATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATC
* * *
54800860 TATATGTGTTTACGAGTAAGACC-CTGTCTAGGACAG-TGGCATC
1 GATATGTGATTACGTGTAAGACCAC-GTCTAGGAC-GTTGGCATC
** * *
54800903 GATATGAAATTACATGTAAGACCATGT-TAGGGACGTTGG
1 GATATGTGATTACGTGTAAGACCACGTCTA-GGACGTTGG
54800942 AATTGTACCT
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
42 4 0.03
43 144 0.97
44 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTAGGACGTTGGCATC
Found at i:54805182 original size:11 final size:11
Alignment explanation
Indices: 54805166--54805194 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
54805156 AGAAAATAGC
54805166 TGATTTTGGCT
1 TGATTTTGGCT
54805177 TGATTTTGGCT
1 TGATTTTGGCT
54805188 TGATTTT
1 TGATTTT
54805195 TCCCATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.07, G:0.24, T:0.59
Consensus pattern (11 bp):
TGATTTTGGCT
Found at i:54807590 original size:43 final size:43
Alignment explanation
Indices: 54807493--54807638 Score: 113
Period size: 43 Copynumber: 3.4 Consensus size: 43
54807483 ACCGAGATGT
** * *
54807493 GATTACACCTAAGACCATGT-TTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTT-GGACATTGGCATCGTAATGA
*
54807536 GATTACATGTAAGACCATGTCTTGGACATTGGCATCGTTAAT-C
1 GATTACATGTAAGACCATGTCTTGGACATTGGCATCG-TAATGA
* * * * * * *
54807579 GATTTCGTGTAAGACCCTATCTGGGACAGTGGCAT-G-ATATTA
1 GATTACATGTAAGACCATGTCTTGGACATTGGCATCGTA-ATGA
54807621 GA-TAGCATGTAAGACCAT
1 GATTA-CATGTAAGACCAT
54807639 ATCTGGGATA
Statistics
Matches: 83, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 14 0.17
43 60 0.72
44 5 0.06
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTTGGACATTGGCATCGTAATGA
Found at i:54810216 original size:6 final size:7
Alignment explanation
Indices: 54810210--54810291 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 7
54810200 TAATTCTAAT
54810210 ATCAATA
1 ATCAATA
54810217 ATCAA-A
1 ATCAATA
*
54810223 A-CACAAA
1 ATCA-ATA
54810230 AT-AATA
1 ATCAATA
54810236 AT-AATA
1 ATCAATA
54810242 AT-AATA
1 ATCAATA
54810248 AT-AATA
1 ATCAATA
54810254 AT-AATA
1 ATCAATA
54810260 AT-AATA
1 ATCAATA
54810266 AT-AATA
1 ATCAATA
54810272 AT-AATA
1 ATCAATA
54810278 AT-AATA
1 ATCAATA
54810284 AT-AATA
1 ATCAATA
54810290 AT
1 AT
54810292 GGGGTGACAA
Statistics
Matches: 71, Mismatches: 1, Indels: 7
0.90 0.01 0.09
Matches are distributed among these distances:
5 2 0.03
6 61 0.86
7 8 0.11
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (7 bp):
ATCAATA
Found at i:54810237 original size:3 final size:3
Alignment explanation
Indices: 54810229--54810291 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
54810219 CAAAACACAA
54810229 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
54810277 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
54810292 GGGGTGACAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:54812204 original size:44 final size:45
Alignment explanation
Indices: 54812156--54812281 Score: 155
Period size: 44 Copynumber: 2.8 Consensus size: 45
54812146 AGAATTTGTT
54812156 GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGA-TTAATA
1 GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTAATA
* * * *
54812200 GCTTCCATCTGCTCCACTACAACTTCGAGGAGATAAGATTTACTA
1 GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTAATA
* * ** * *
54812245 TCTTCTATCTACTCCACTTTAACTTCAGGGAGTTAAG
1 GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAG
54812282 CTTATCTATC
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
44 35 0.51
45 34 0.49
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (45 bp):
GCTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTTAATA
Found at i:54812291 original size:45 final size:45
Alignment explanation
Indices: 54812157--54812329 Score: 165
Period size: 45 Copynumber: 3.9 Consensus size: 45
54812147 GAATTTGTTG
* * * *
54812157 CTTCAATCTACTCCACTACAACTTCAAGGAGATAAGATTA-ATAG
1 CTTCTATCTACTCCACTACAACTTCAGGGAGATAAGATTATCTAT
* *
54812201 CTTCCATCTGCTCCACTACAACTTC-GAGGAGATAAGATT-TACTAT
1 CTTCTATCTACTCCACTACAACTTCAG-GGAGATAAGATTAT-CTAT
** * *
54812246 CTTCTATCTACTCCACTTTAACTTCAGGGAGTTAAGCTTATCTAT
1 CTTCTATCTACTCCACTACAACTTCAGGGAGATAAGATTATCTAT
* * * *
54812291 CTT-TGATCTACACCACTGCAATTTTAGGGAGATAAGATT
1 CTTCT-ATCTACTCCACTACAACTTCAGGGAGATAAGATT
54812330 TGTAATTTGC
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
44 36 0.34
45 67 0.64
46 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (45 bp):
CTTCTATCTACTCCACTACAACTTCAGGGAGATAAGATTATCTAT
Found at i:54812463 original size:44 final size:44
Alignment explanation
Indices: 54812394--54812511 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
54812384 TATCTTTAGT
* * *
54812394 CTGCTCCACTGTAA-TCTCAGTGAGATAAGACTTGTAACTTCAAC
1 CTGCTCCACTGCAACT-TCAGAGAGATAAGACTTATAACTTCAAC
* ** * * *
54812438 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTATAGCTTTAAT
1 CTGCTCCACTGCAACTTCAGAGAGATAAGACTTATAACTTCAAC
*
54812482 CTGCTCAACTGCAACTTCAGAGAGATAAGA
1 CTGCTCCACTGCAACTTCAGAGAGATAAGA
54812512 TTCATTATCT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
44 61 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGAGAGATAAGACTTATAACTTCAAC
Found at i:54812742 original size:44 final size:44
Alignment explanation
Indices: 54812684--54812812 Score: 143
Period size: 44 Copynumber: 2.9 Consensus size: 44
54812674 GGCTTGCTAT
*
54812684 CTTCGATCTACTCCACTGCAACTCCAAGGAGATAAGATTTGTAA
1 CTTCAATCTACTCCACTGCAACTCCAAGGAGATAAGATTTGTAA
* ** * **
54812728 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGG
1 CTTCAATCTACTCCACTGCAACTCCAAGGAGATAAGATTTGTAA
* * * *
54812772 CTTCAATCTACTCCATTGTAAC-CTCAAAGAGATAATATTTG
1 CTTCAATCTACTCCACTGCAACTC-CAAGGAGATAAGATTTG
54812813 CCATAATAAC
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.31
Consensus pattern (44 bp):
CTTCAATCTACTCCACTGCAACTCCAAGGAGATAAGATTTGTAA
Done.