Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 76 of 438
Found at i:20396351 original size:18 final size:18
Alignment explanation
Indices: 20396328--20396362 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
20396318 AGTTGGTCAC
20396328 GTATGTATTATATACTTG
1 GTATGTATTATATACTTG
20396346 GTATGTATTATATACTT
1 GTATGTATTATATACTT
20396363 TTATATGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (18 bp):
GTATGTATTATATACTTG
Found at i:20397900 original size:21 final size:22
Alignment explanation
Indices: 20397876--20397920 Score: 83
Period size: 21 Copynumber: 2.1 Consensus size: 22
20397866 ATCATTTTGA
20397876 GTATGGCATGTATAGG-ACTTG
1 GTATGGCATGTATAGGAACTTG
20397897 GTATGGCATGTATAGGAACTTG
1 GTATGGCATGTATAGGAACTTG
20397919 GT
1 GT
20397921 CTTTTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.33
Consensus pattern (22 bp):
GTATGGCATGTATAGGAACTTG
Found at i:20400772 original size:8 final size:8
Alignment explanation
Indices: 20400730--20400754 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
20400720 ATATAGACTA
20400730 AATAAAAT
1 AATAAAAT
20400738 AATAAAAT
1 AATAAAAT
20400746 AATAAAAT
1 AATAAAAT
20400754 A
1 A
20400755 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:20403694 original size:29 final size:27
Alignment explanation
Indices: 20403660--20403762 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
20403650 TACTCAATCA
*
20403660 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
20403689 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
20403718 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
20403747 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
20403763 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:20411490 original size:29 final size:27
Alignment explanation
Indices: 20411456--20411558 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
20411446 TACTCAATCA
*
20411456 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
20411485 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
20411514 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
20411543 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
20411559 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:20414158 original size:18 final size:18
Alignment explanation
Indices: 20414132--20414166 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20414122 TCATAATGTT
*
20414132 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
20414150 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
20414167 CGTCCTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:20414812 original size:26 final size:26
Alignment explanation
Indices: 20414779--20414834 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
20414769 CCTAGCCTCT
20414779 TTTTCAATAAACTAGGGCATAAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCC
*
20414805 TTTTCAATAAACTGGGGCATAAGCCC
1 TTTTCAATAAACTAGGGCATAAGCCC
20414831 TTTT
1 TTTT
20414835 GCACTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (26 bp):
TTTTCAATAAACTAGGGCATAAGCCC
Found at i:20414929 original size:20 final size:21
Alignment explanation
Indices: 20414886--20414940 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
20414876 ATGAATACAT
* *
20414886 CATGTGCATTTCATA-CATAT
1 CATGTGCATATCATATCATAC
20414906 CATGTGCATATCATATCA-AC
1 CATGTGCATATCATATCATAC
20414926 CATGT--ATATCATATC
1 CATGTGCATATCATATC
20414941 CCACGTATCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 10 0.31
20 20 0.62
21 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (21 bp):
CATGTGCATATCATATCATAC
Found at i:20423645 original size:29 final size:29
Alignment explanation
Indices: 20423555--20423714 Score: 171
Period size: 29 Copynumber: 5.5 Consensus size: 29
20423545 ACTCGATTTC
* * **
20423555 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
20423584 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** * *
20423612 CGCACACCCAGTGCCGTAAATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
20423642 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
20423671 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
20423700 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
20423715 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 107 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:20432742 original size:48 final size:48
Alignment explanation
Indices: 20432667--20432894 Score: 218
Period size: 48 Copynumber: 4.9 Consensus size: 48
20432657 CACATGGTAG
* * * * *
20432667 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATTTT
1 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC
* ** *
20432715 GATGCCAATGCCATGTCCTAGACATGGTCTTGCATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC
*
20432763 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCCCATATC
1 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC
* * ** * *
20432811 GATGCCGAT---A-G--CTCAG-CTATGGTCTTACACGAAATTACATATT
1 GATGCCAATGCCATGTCCT-AGAC-ATGGTCTTACATGGGATCACATATC
* * *
20432854 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATTGGATC
1 GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATC
20432895 GCACATAACC
Statistics
Matches: 143, Mismatches: 28, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
42 3 0.02
43 28 0.20
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 106 0.74
49 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCACATATC
Found at i:20436420 original size:2 final size:2
Alignment explanation
Indices: 20436413--20436442 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20436403 TTGTTTGATG
20436413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20436443 GTATTCGGCA
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):
AT
Found at i:20437962 original size:47 final size:47
Alignment explanation
Indices: 20437908--20438101 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
20437898 TTAGGATTTT
** * *
20437908 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20437955 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
20438002 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
20438049 ACGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
20438096 ATGTGA
1 ATGTGA
20438102 AATATATATA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:20438008 original size:22 final size:22
Alignment explanation
Indices: 20437937--20438008 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
20437927 GTATATATGA
20437937 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
20437959 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
20437984 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
20438006 GAT
1 GAT
20438009 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:20438413 original size:37 final size:37
Alignment explanation
Indices: 20438305--20438413 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
20438295 GGAAATATAT
*
20438305 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
20438342 TTCGGGTAAGACCTGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
20438379 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
20438414 CGTCTGAGCT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:20441858 original size:41 final size:40
Alignment explanation
Indices: 20441725--20441948 Score: 281
Period size: 40 Copynumber: 5.6 Consensus size: 40
20441715 AACCCAAGTA
* * * *
20441725 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
20441764 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20441804 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* *
20441845 CCTTCGGGTCTTAGCCCGGATATCGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
20441885 CCTTCGGGACTTAACCCGGATATAGCCACTAGCAGAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
* *
20441926 CCTTCGGGTCTTAGCCTGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
20441949 CATCCGAATA
Statistics
Matches: 163, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 12 0.07
40 92 0.56
41 59 0.36
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:20441949 original size:81 final size:80
Alignment explanation
Indices: 20441725--20441949 Score: 308
Period size: 81 Copynumber: 2.8 Consensus size: 80
20441715 AACCCAAGTA
* * * * * *
20441725 CCTTCGGGATTTAA-CCGGATATAGCAAATCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
*
20441789 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* * *
20441804 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCCGGATATC
1 CCTTCGGGACTTAACCCGGATATAGCCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGGATATC
*
20441869 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
* *
20441885 CCTTCGGGACTTAACCCGGATATAGCCACTAGCAGAAAGTGCCTTCGGGTCTTAGCCTGGATATC
1 CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGGATATC
20441950 ATCCGAATAA
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 12 0.09
80 18 0.14
81 97 0.76
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATCG
TAACTAGCACAAATG
Found at i:20443374 original size:14 final size:14
Alignment explanation
Indices: 20443352--20443394 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
20443342 TTTCATTTTG
20443352 TAACATAAAATTAT
1 TAACATAAAATTAT
*
20443366 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
20443379 TAACACAAAATAAT
1 TAACATAAAATTAT
20443393 TA
1 TA
20443395 TAATATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:20443388 original size:13 final size:13
Alignment explanation
Indices: 20443352--20443390 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
20443342 TTTCATTTTG
20443352 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
20443366 TAGCATAAAATAT
1 TAACATAAAATAT
*
20443379 TAACACAAAATA
1 TAACATAAAATA
20443391 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:20449973 original size:41 final size:40
Alignment explanation
Indices: 20449841--20450063 Score: 254
Period size: 40 Copynumber: 5.6 Consensus size: 40
20449831 AACCCAAGTA
* * * *
20449841 CCTTCGGGATTTA-ACCGGATATAG-CAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
20449880 CCTTTGGGAC-TAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20449919 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AAATG
* * *
20449960 CCTTCGGGTCTTAGCCTGGATATCGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
20450000 CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-TG
* *
20450041 CCTTCGGGTCTTAGCCCGAATAT
1 CCTTCGGGACTTAGCCCGGATAT
20450064 CATCCGAATA
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
38 2 0.01
39 38 0.24
40 58 0.37
41 58 0.37
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:20450064 original size:81 final size:80
Alignment explanation
Indices: 20449841--20450064 Score: 290
Period size: 81 Copynumber: 2.8 Consensus size: 80
20449831 AACCCAAGTA
* * * * * * *
20449841 CCTTCGGGATTTAA-CCGGATATAGCAAATCGCACAAATGCCTTTGGGAC-TAGCCCGAATATAG
1 CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGAATATCG
*
20449904 TAACTCGCACAAATG
66 TAACTAGCACAAATG
* * * * *
20449919 CCTTCGGGACTTAGCCCAGATATAGTCACTAGCACAAAATGCCTTCGGGTCTTAGCCTGGATATC
1 CCTTCGGGACTTAACCCGGATATAGCCACTAGCAC-AAATGCCTTCGGGTCTTAGCCCGAATATC
*
20449984 GTCACTAGCACAAATG
65 GTAACTAGCACAAATG
20450000 CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAAGTGCCTTCGGGTCTTAGCCCGAATATC
1 CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAA-TGCCTTCGGGTCTTAGCCCGAATATC
20450065 ATCCGAATAA
Statistics
Matches: 123, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
78 12 0.10
79 15 0.12
80 16 0.13
81 80 0.65
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGAATATCG
TAACTAGCACAAATG
Found at i:20451490 original size:14 final size:14
Alignment explanation
Indices: 20451468--20451510 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
20451458 TTTCATTTTG
20451468 TAACATAAAATTAT
1 TAACATAAAATTAT
*
20451482 TAGCATAAAA-TAT
1 TAACATAAAATTAT
* *
20451495 TAACACAAAATAAT
1 TAACATAAAATTAT
20451509 TA
1 TA
20451511 TAATATGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.30
Consensus pattern (14 bp):
TAACATAAAATTAT
Found at i:20451504 original size:13 final size:13
Alignment explanation
Indices: 20451468--20451506 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
20451458 TTTCATTTTG
20451468 TAACATAAAATTAT
1 TAACATAAAA-TAT
*
20451482 TAGCATAAAATAT
1 TAACATAAAATAT
*
20451495 TAACACAAAATA
1 TAACATAAAATA
20451507 ATTATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (13 bp):
TAACATAAAATAT
Found at i:20459315 original size:35 final size:35
Alignment explanation
Indices: 20459273--20459359 Score: 95
Period size: 35 Copynumber: 2.5 Consensus size: 35
20459263 AATTACTCTT
** *
20459273 GCCACAACACCTGAACTTCTTTTACCAATCATCCC
1 GCCACAACACCAAAACTTCTTCTACCAATCATCCC
* *
20459308 GCCACAACGCCAAAACTTCTTCTATCAATCAT-CC
1 GCCACAACACCAAAACTTCTTCTACCAATCATCCC
* * *
20459342 ACCATAACACCAATACTT
1 GCCACAACACCAAAACTT
20459360 TTTCAATTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 16 0.37
35 27 0.63
ACGTcount: A:0.33, C:0.38, G:0.05, T:0.24
Consensus pattern (35 bp):
GCCACAACACCAAAACTTCTTCTACCAATCATCCC
Found at i:20462027 original size:26 final size:26
Alignment explanation
Indices: 20461974--20462027 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
20461964 ATTTTTTAGA
**
20461974 AATTTTACCAGGCGTAAAATTATTAT
1 AATTTTACCAGGCGTAAAATTAGAAT
* *
20462000 AATTTTACTAGGGGTAAAATTAGAAT
1 AATTTTACCAGGCGTAAAATTAGAAT
20462026 AA
1 AA
20462028 GAAAATTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (26 bp):
AATTTTACCAGGCGTAAAATTAGAAT
Found at i:20474364 original size:2 final size:2
Alignment explanation
Indices: 20474357--20474399 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
20474347 ATATGCAAAG
20474357 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20474397 AT A
1 AT A
20474400 GCAAGCAACC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 37 0.95
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:20482151 original size:49 final size:49
Alignment explanation
Indices: 20482026--20482158 Score: 135
Period size: 49 Copynumber: 2.7 Consensus size: 49
20482016 GCACATCAAA
* *
20482026 GTCGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATGGAG
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATGGAG
* * * * * * * * *
20482075 GCCGATACCGTGT-CTGAAATAGTTCTTACACTGGCTCTCATCTATCGG-T
1 GTCGATGCCATGTCCT-AGACAGGTCTTACACTGACTCTCATATAT-GGAG
20482124 GTCGATGCCATGTCCTAGACAGGTCTTACACTGAC
1 GTCGATGCCATGTCCTAGACAGGTCTTACACTGAC
20482159 ACACAACAAG
Statistics
Matches: 63, Mismatches: 18, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
48 1 0.02
49 58 0.92
50 4 0.06
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATATATGGAG
Found at i:20488938 original size:21 final size:21
Alignment explanation
Indices: 20488914--20488956 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
20488904 TTACCAATTA
20488914 AATGTGTTTCTAACGAATTTT
1 AATGTGTTTCTAACGAATTTT
20488935 AATGTGTTTCTAACGAATTTT
1 AATGTGTTTCTAACGAATTTT
20488956 A
1 A
20488957 CCCGTTACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (21 bp):
AATGTGTTTCTAACGAATTTT
Found at i:20490622 original size:27 final size:28
Alignment explanation
Indices: 20490592--20490661 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
20490582 ATAGTGAATC
*
20490592 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
20490619 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
20490647 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20490662 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:20490733 original size:42 final size:42
Alignment explanation
Indices: 20490669--20490775 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
20490659 GCTGTACAAT
* *
20490669 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
20490711 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
20490753 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
20490776 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:20494685 original size:26 final size:26
Alignment explanation
Indices: 20494656--20494709 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
20494646 TATAGCTCTC
20494656 TAATATGATGTAAATCATGTGAAAAG
1 TAATATGATGTAAATCATGTGAAAAG
**
20494682 TAATATGATGTAAATTGTGTGAAAAG
1 TAATATGATGTAAATCATGTGAAAAG
20494708 TA
1 TA
20494710 GGCTAGATGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.33
Consensus pattern (26 bp):
TAATATGATGTAAATCATGTGAAAAG
Found at i:20496405 original size:28 final size:29
Alignment explanation
Indices: 20496352--20496408 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
20496342 ACGGGGGGTT
*
20496352 TTCACACGGCCAAGCACACGCCCGTGTCC
1 TTCACACGGCCAAGCACACACCCGTGTCC
* *
20496381 TTCACATGGCCTAG-ACACACCCGTGTCC
1 TTCACACGGCCAAGCACACACCCGTGTCC
20496409 AAAAACTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.21, C:0.42, G:0.19, T:0.18
Consensus pattern (29 bp):
TTCACACGGCCAAGCACACACCCGTGTCC
Found at i:20500217 original size:24 final size:23
Alignment explanation
Indices: 20500190--20500250 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 23
20500180 CTGGCATATT
20500190 AAGCATTTTGATACATTTTCTTTA
1 AAGCATTTTG-TACATTTTCTTTA
20500214 AAGCA--TTGTACATTTTCTTTA
1 AAGCATTTTGTACATTTTCTTTA
*
20500235 AATCA--TTGTACATTTT
1 AAGCATTTTGTACATTTT
20500251 GGTATTTCCA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
21 28 0.78
22 3 0.08
24 5 0.14
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (23 bp):
AAGCATTTTGTACATTTTCTTTA
Found at i:20500227 original size:21 final size:21
Alignment explanation
Indices: 20500201--20500250 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
20500191 AGCATTTTGA
20500201 TACATTTTCTTTAAAGCATTG
1 TACATTTTCTTTAAAGCATTG
*
20500222 TACATTTTCTTTAAATCATTG
1 TACATTTTCTTTAAAGCATTG
20500243 TACATTTT
1 TACATTTT
20500251 GGTATTTCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.14, G:0.06, T:0.52
Consensus pattern (21 bp):
TACATTTTCTTTAAAGCATTG
Found at i:20513495 original size:43 final size:44
Alignment explanation
Indices: 20513387--20513496 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 44
20513377 GCAAACGTCT
*
20513387 CAGACGTGGTCTTACATGT-AATCAAATATTGATGCCACTATCC
1 CAGACATGGTCTTACATGTAAATCAAATATTGATGCCACTATCC
* * * *
20513430 CAGACAGGGTCTTACACG-AAATCAAATA-TGATGTCGA-TGTCC
1 CAGACATGGTCTTACATGTAAATCAAATATTGATG-CCACTATCC
*
20513472 CAGACATGGTTTTACATGTAAATCA
1 CAGACATGGTCTTACATGTAAATCA
20513497 TAAGTCGATG
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
42 24 0.43
43 32 0.57
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (44 bp):
CAGACATGGTCTTACATGTAAATCAAATATTGATGCCACTATCC
Found at i:20517086 original size:42 final size:44
Alignment explanation
Indices: 20517015--20517105 Score: 116
Period size: 42 Copynumber: 2.1 Consensus size: 44
20517005 TCTTATATGT
* * *
20517015 AATCAAATATTGATGCCACTGTCCTAGACAGGGTCTTACACG-A
1 AATCAAATATCGATGCCACTGTCCCAGACAAGGTCTTACACGTA
*
20517058 AATCAAATA-CGATGCCGA-TGTCCCAGACAAGGTCTTGCACGTA
1 AATCAAATATCGATGCC-ACTGTCCCAGACAAGGTCTTACACGTA
20517101 AATCA
1 AATCA
20517106 TAAGTTGATG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 26 0.62
43 16 0.38
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (44 bp):
AATCAAATATCGATGCCACTGTCCCAGACAAGGTCTTACACGTA
Found at i:20521538 original size:26 final size:26
Alignment explanation
Indices: 20521502--20521669 Score: 131
Period size: 25 Copynumber: 6.6 Consensus size: 26
20521492 TCGGGTTGCA
*
20521502 AAGGCTTTCCAAATAACTTCGCCACT
1 AAGGCTTTCCAGATAACTTCGCCACT
* *
20521528 AAGGCTTTCCAAATAA-TAT-GACAC-
1 AAGGCTTTCCAGATAACT-TCGCCACT
* * *
20521552 ATAGGCTTTTCAGATAAC-TCACCACA
1 A-AGGCTTTCCAGATAACTTCGCCACT
20521578 AAGGCTTTCCAGATAA-TAT-GCCAC-
1 AAGGCTTTCCAGATAACT-TCGCCACT
20521602 ATAGGCCTTT-CAGATAAC-TCGCCA-T
1 A-AGG-CTTTCCAGATAACTTCGCCACT
* *
20521627 AAAGGCTTTCCAGATAACTTTGTCACT
1 -AAGGCTTTCCAGATAACTTCGCCACT
*
20521654 AAGGCTTCCCAGATAA
1 AAGGCTTTCCAGATAA
20521670 TAAGCCACAT
Statistics
Matches: 116, Mismatches: 10, Indels: 32
0.73 0.06 0.20
Matches are distributed among these distances:
24 8 0.07
25 64 0.55
26 43 0.37
27 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (26 bp):
AAGGCTTTCCAGATAACTTCGCCACT
Found at i:20521594 original size:50 final size:50
Alignment explanation
Indices: 20521503--20521643 Score: 201
Period size: 50 Copynumber: 2.8 Consensus size: 50
20521493 CGGGTTGCAA
* * * *
20521503 AGGCTTTCCAAATAACTTCGCCACTAAGGCTTTCCAAATAATATGACACAT
1 AGGCTTTTCAGATAAC-TCGCCACAAAGGCTTTCCAGATAATATGACACAT
* *
20521554 AGGCTTTTCAGATAACTCACCACAAAGGCTTTCCAGATAATATGCCACAT
1 AGGCTTTTCAGATAACTCGCCACAAAGGCTTTCCAGATAATATGACACAT
* *
20521604 AGGCCTTTCAGATAACTCGCCATAAAGGCTTTCCAGATAA
1 AGGCTTTTCAGATAACTCGCCACAAAGGCTTTCCAGATAA
20521644 CTTTGTCACT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 67 0.83
51 14 0.17
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (50 bp):
AGGCTTTTCAGATAACTCGCCACAAAGGCTTTCCAGATAATATGACACAT
Found at i:20522202 original size:2 final size:2
Alignment explanation
Indices: 20522195--20522225 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20522185 CACAGAAAAT
20522195 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
20522226 AATACATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:20535984 original size:18 final size:19
Alignment explanation
Indices: 20535961--20535999 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
20535951 TGAATTAAAG
*
20535961 TTTATAATTTTTTAA-AAT
1 TTTATAAATTTTTAATAAT
20535979 TTTATAAATTTTTAATAAT
1 TTTATAAATTTTTAATAAT
20535998 TT
1 TT
20536000 ATTTAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATAAATTTTTAATAAT
Found at i:20539403 original size:27 final size:30
Alignment explanation
Indices: 20539342--20539404 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 30
20539332 AAGTCAAAAA
20539342 TATTTTTTATATTTAAATATTTAATATTAT
1 TATTTTTTATATTTAAATATTTAATATTAT
* *
20539372 AATTTTTTA-ATTT-AA-ATTTAATATTTT
1 TATTTTTTATATTTAAATATTTAATATTAT
20539399 TATTTT
1 TATTTT
20539405 AAATAAACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 16 0.53
28 2 0.07
29 4 0.13
30 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TATTTTTTATATTTAAATATTTAATATTAT
Found at i:20542763 original size:6 final size:6
Alignment explanation
Indices: 20542752--20542787 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
20542742 TCCAAGTTTC
* *
20542752 CATTTT CATTTT CATTTT CATTTC CATTTC CATTTT
1 CATTTT CATTTT CATTTT CATTTT CATTTT CATTTT
20542788 TGGAAACCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (6 bp):
CATTTT
Found at i:20547130 original size:49 final size:49
Alignment explanation
Indices: 20547027--20547158 Score: 164
Period size: 49 Copynumber: 2.7 Consensus size: 49
20547017 ATGGATGTGT
* *
20547027 GCTAGTGTAAGACATGTCTGGGATAT-GCATCGACCTAGAGATATGTAA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTAGAGATATGTAA
* *
20547075 GCTAGTGTAAGACCTGCCTGGGACATGGCATCGACACTGATAGATGA-G-AA
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CT-AGAGAT-ATGTAA
*
20547125 -CTAGTGTAAGACCTGTCTGGGACATGACATCGAC
1 GCTAGTGTAAGACCTGTCTGGGACATGGCATCGAC
20547159 TTATATGTGT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
48 23 0.31
49 40 0.54
50 4 0.05
51 6 0.08
52 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (49 bp):
GCTAGTGTAAGACCTGTCTGGGACATGGCATCGACCTAGAGATATGTAA
Found at i:20547198 original size:97 final size:97
Alignment explanation
Indices: 20547028--20547203 Score: 221
Period size: 97 Copynumber: 1.8 Consensus size: 97
20547018 TGGATGTGTG
* * *
20547028 CTAGTGTAAGACATGTCTGGGATATGCATCGACCTAGAGATATGTAAGCTAGTGTAAGACCTGCC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGACCTAGAGATATGTAAGCCAGTGTAAGACCTACC
*
20547093 TGGGACATGGCATCGACACTGATAGATGAGAA
66 TGGAACATGGCATCGACACTGATAGATGAGAA
* * * * *
20547125 CTAGTGTAAGACCTGTCTGGGACATGACATCGA-CT-TATATGTGTGAGCCAGTGTAAGACCATA
1 CTAGTGTAAGACATGTCTGGGACATG-CATCGACCTAGAGATATGTAAGCCAGTGTAAGACC-TA
**
20547188 TTTGGAACATGGCATC
64 CCTGGAACATGGCATC
20547204 AGCATCGTAC
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
96 20 0.30
97 40 0.61
98 6 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.26
Consensus pattern (97 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGACCTAGAGATATGTAAGCCAGTGTAAGACCTACC
TGGAACATGGCATCGACACTGATAGATGAGAA
Found at i:20551044 original size:15 final size:15
Alignment explanation
Indices: 20551017--20551060 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
20551007 TATAGTATCA
20551017 TATCTTGGGATTTCTC
1 TATCTT-GGATTTCTC
*
20551033 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
20551048 TA-CTTGGTTTTCT
1 TATCTTGGATTTCT
20551061 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:20551239 original size:26 final size:26
Alignment explanation
Indices: 20551209--20551261 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
20551199 ATTTACATGT
* *
20551209 AAGGATTTGACATCGGTAAAGGAATA
1 AAGGATTTGACATAGGCAAAGGAATA
20551235 AAGGATTTGACATAGGCAAAGGAATA
1 AAGGATTTGACATAGGCAAAGGAATA
20551261 A
1 A
20551262 GTGGTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.26, T:0.21
Consensus pattern (26 bp):
AAGGATTTGACATAGGCAAAGGAATA
Found at i:20555975 original size:2 final size:2
Alignment explanation
Indices: 20555968--20555996 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20555958 TCATGACATG
20555968 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20555997 GACTAGTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20562202 original size:10 final size:10
Alignment explanation
Indices: 20562187--20562213 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
20562177 AGAACTCTTA
20562187 AAGGGAGTTG
1 AAGGGAGTTG
20562197 AAGGGAGTTG
1 AAGGGAGTTG
20562207 AAGGGAG
1 AAGGGAG
20562214 ATCTTAAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (10 bp):
AAGGGAGTTG
Found at i:20564764 original size:255 final size:255
Alignment explanation
Indices: 20564308--20564960 Score: 1164
Period size: 255 Copynumber: 2.6 Consensus size: 255
20564298 AAATGGAGTA
*
20564308 ATTAGCTGAAATTGCATTCGAGGTAAGTCCGTGTGACTAAATATCCATGTGATTGTTAATATACT
1 ATTAGCTGAAATTGCATTCGAGGTAAGTCCGTGTGACTAAATATGCATGTGATTGTTAATATACT
*
20564373 TGAAATCTATCTTGATTTAGTTATATTGAA-TATATGTTGATGATATTGAGTATGATGAAAGTGA
66 TGAAATCTATCTTGCTTTAGTTATATTGAATTATATGTTGATGATATTGAGTATGATGAAAGTGA
20564437 TGCCAAACGTTAATAATATTCATGTGATGATAGAATACATTAGAAATTTGATGGAATATGATATC
131 TGCCAAACGTTAATAATATTCATGTGATGATAGAATACATTAGAAATTTGATGGAATATGATATC
**
20564502 CCATAGAAACGAGTAAGTTGTATGTAAATAATGCAACTTAGTCGTATTTATACATTAAAT
196 CCATAGAAACGAGTAAGTTGTACATAAATAATGCAACTTAGTCGTATTTATACATTAAAT
* *
20564562 ATTAGTTGAAATTGCATTCGAGGTAAGTCTGTGTGACTAAATATGCATGTGATTGTTAATATACT
1 ATTAGCTGAAATTGCATTCGAGGTAAGTCCGTGTGACTAAATATGCATGTGATTGTTAATATACT
* *
20564627 TGAAATCTATCTTGCTTTGGTTATATTGAATTATATGTTGATGATATTGAGTATGGTGAAAGTGA
66 TGAAATCTATCTTGCTTTAGTTATATTGAATTATATGTTGATGATATTGAGTATGATGAAAGTGA
*
20564692 TGCCAAACGTTAATAATATTTATGTGATGATAGAATACATTAGAAATTTGATGGAATATGATATC
131 TGCCAAACGTTAATAATATTCATGTGATGATAGAATACATTAGAAATTTGATGGAATATGATATC
*
20564757 CCATAGAAACGAGTAAGTTGTACATAAATAATGCAACTTAGTCGTATTTATACATTGAAT
196 CCATAGAAACGAGTAAGTTGTACATAAATAATGCAACTTAGTCGTATTTATACATTAAAT
* **
20564817 GTTAGCCAAAATTGCATTCGAGGTAAGTCCGTGTGACTAAATATGCATGTGATTGTTAATATACT
1 ATTAGCTGAAATTGCATTCGAGGTAAGTCCGTGTGACTAAATATGCATGTGATTGTTAATATACT
* *
20564882 TGAAACCTATCTTGCTTTAGTTATAATGAATTATATGTTGATGATATTGAGTATGATGAAAGTGA
66 TGAAATCTATCTTGCTTTAGTTATATTGAATTATATGTTGATGATATTGAGTATGATGAAAGTGA
20564947 TGCCAAACGTTAAT
131 TGCCAAACGTTAAT
20564961 TGTAATACCC
Statistics
Matches: 379, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
254 90 0.24
255 289 0.76
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (255 bp):
ATTAGCTGAAATTGCATTCGAGGTAAGTCCGTGTGACTAAATATGCATGTGATTGTTAATATACT
TGAAATCTATCTTGCTTTAGTTATATTGAATTATATGTTGATGATATTGAGTATGATGAAAGTGA
TGCCAAACGTTAATAATATTCATGTGATGATAGAATACATTAGAAATTTGATGGAATATGATATC
CCATAGAAACGAGTAAGTTGTACATAAATAATGCAACTTAGTCGTATTTATACATTAAAT
Found at i:20565141 original size:22 final size:23
Alignment explanation
Indices: 20565116--20565161 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20565106 CAACCAAATC
20565116 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
20565138 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
20565161 A
1 A
20565162 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:20565167 original size:23 final size:23
Alignment explanation
Indices: 20565123--20565167 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
20565113 ATCAATTCAA
*
20565123 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
20565146 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
20565168 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:20566464 original size:32 final size:32
Alignment explanation
Indices: 20566423--20566484 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
20566413 TCTCTATTTT
20566423 CATTGTTCAACTCTTTGACAACACGAAAAATC
1 CATTGTTCAACTCTTTGACAACACGAAAAATC
*
20566455 CATTGTTCAACTCTTTGACAACATGAAAAA
1 CATTGTTCAACTCTTTGACAACACGAAAAA
20566485 ACCAAAAGCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.29
Consensus pattern (32 bp):
CATTGTTCAACTCTTTGACAACACGAAAAATC
Found at i:20572192 original size:22 final size:23
Alignment explanation
Indices: 20572167--20572212 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
20572157 CAACCAAATC
20572167 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
20572189 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
20572212 A
1 A
20572213 CGTCATCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:20572218 original size:23 final size:24
Alignment explanation
Indices: 20572174--20572225 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
20572164 ATCAATTCAA
*
20572174 CATATTTTCAAGATAAATTCAT-G
1 CATATTTTCAAGATAAAGTCATCG
*
20572197 CATATTTAT-AAGATAACGTCATCG
1 CATATTT-TCAAGATAAAGTCATCG
20572221 CATAT
1 CATAT
20572226 CTAAAACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (24 bp):
CATATTTTCAAGATAAAGTCATCG
Found at i:20573755 original size:12 final size:12
Alignment explanation
Indices: 20573738--20573781 Score: 88
Period size: 12 Copynumber: 3.7 Consensus size: 12
20573728 TATTTTATCC
20573738 AATTTCTTCAAT
1 AATTTCTTCAAT
20573750 AATTTCTTCAAT
1 AATTTCTTCAAT
20573762 AATTTCTTCAAT
1 AATTTCTTCAAT
20573774 AATTTCTT
1 AATTTCTT
20573782 TTTCTAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:20574270 original size:47 final size:48
Alignment explanation
Indices: 20574200--20574513 Score: 191
Period size: 49 Copynumber: 6.6 Consensus size: 48
20574190 GATGTGTGCT
20574200 AGTGTAAGACC-TGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * * ** * *
20574246 AGTGTAAGACCATGTCTGGAACATGGCATCGGCAATAAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * ***
20574294 AGTGTAAGA-CATGTCTGGGACACGGCATCGGCTTGA-CAT--GTTTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* * *
20574338 AGTGTAAGA-CATGTCTAGGACATGGCATC-GACACCGATAGATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-C-AT-TATGAGAGCC
* * * **
20574387 AGTGTAAGACC-TGTCTGGGACATGGCATCAGCCTCGATATATGAAAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-AT-TATGAGAGCC
* * * * * * * *
20574436 AGTGTAAGACC-TATCTAGGACATCGCATCGACTTAGA-TGTGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
* * *
20574483 AGTGTAAGACCATGTTTGGAACATGACATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
20574514 ACATCGTACC
Statistics
Matches: 202, Mismatches: 54, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
43 1 0.00
44 28 0.14
45 1 0.00
46 12 0.06
47 51 0.25
48 39 0.19
49 67 0.33
50 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:20574402 original size:93 final size:92
Alignment explanation
Indices: 20574245--20574415 Score: 240
Period size: 93 Copynumber: 1.8 Consensus size: 92
20574235 TTATGAGAGC
* *
20574245 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCAATAAGACGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGACAATAAGACGAGAGCCAGTGTAAGACATGTCT
20574310 GGGACACGGCATCGGCTTGACATGTTT
66 GGGACACGGCATCGGCTTGACATGTTT
* *
20574337 CAGTGTAAGA-CATGTCTAGG-ACATGGCATCGACACCGAT-AGATGAGAGCCAGTGTAAGACCT
1 CAGTGTAAGACCATGTCT-GGAACATGGCATCGACA---ATAAGACGAGAGCCAGTGTAAGACAT
*
20574399 GTCTGGGACATGGCATC
62 GTCTGGGACACGGCATC
20574416 AGCCTCGATA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
91 20 0.29
92 12 0.17
93 36 0.51
94 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (92 bp):
CAGTGTAAGACCATGTCTGGAACATGGCATCGACAATAAGACGAGAGCCAGTGTAAGACATGTCT
GGGACACGGCATCGGCTTGACATGTTT
Found at i:20575081 original size:7 final size:7
Alignment explanation
Indices: 20575069--20575101 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
20575059 CCTAGATGAA
20575069 TTGGGCT
1 TTGGGCT
20575076 TTGGGCT
1 TTGGGCT
20575083 TTGGGCT
1 TTGGGCT
20575090 TTGGGCT
1 TTGGGCT
20575097 TTGGG
1 TTGGG
20575102 TTTCATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.00, C:0.12, G:0.45, T:0.42
Consensus pattern (7 bp):
TTGGGCT
Found at i:20576607 original size:29 final size:29
Alignment explanation
Indices: 20576573--20576650 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 29
20576563 ATATAATTTT
20576573 ATTTGGGCCTAATGGGCCATATAAATGTG
1 ATTTGGGCCTAATGGGCCATATAAATGTG
* *
20576602 ATTTGGGCCTAAAGGGTCATATAAATGTG
1 ATTTGGGCCTAATGGGCCATATAAATGTG
20576631 ATTTGGGCCTAATGGGCCAT
1 ATTTGGGCCTAATGGGCCAT
20576651 GTGAATATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (29 bp):
ATTTGGGCCTAATGGGCCATATAAATGTG
Found at i:20579120 original size:27 final size:27
Alignment explanation
Indices: 20579090--20579374 Score: 394
Period size: 27 Copynumber: 10.6 Consensus size: 27
20579080 TTAGTTTACC
20579090 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
20579117 AAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
20579144 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
20579171 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
20579198 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
20579225 AAATTACTAAAATA-CCCTTTTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
20579251 AAATTACCAAAATA-CCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
20579277 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
20579304 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
20579331 AAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
20579358 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
20579375 TCGACCTGTA
Statistics
Matches: 224, Mismatches: 33, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 45 0.20
27 179 0.80
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:20579315 original size:133 final size:134
Alignment explanation
Indices: 20579090--20579375 Score: 412
Period size: 133 Copynumber: 2.1 Consensus size: 134
20579080 TTAGTTTACC
* * *
20579090 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATCACCAAA
1 AAATTACTAAAATA-CCCTGGTTTATAAAATTACCAAAATACCCTTAGTTTATAAAATCACCAAA
* * *
20579155 ATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGT
65 ATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGAT
20579220 TTGTA
130 TTGTA
** * * *
20579225 AAATTACTAAAATACCCTTTTTTATAAAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAA
1 AAATTACTAAAATACCCTGGTTTATAAAATTACCAAAATACCCTTAGTTTATAAAATCACCAAAA
* ** *
20579289 TACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTGATT
66 TACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGATT
*
20579354 TGTG
131 TGTA
20579358 AAATTACTAAAATACCCT
1 AAATTACTAAAATACCCT
20579376 CGACCTGTAA
Statistics
Matches: 135, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
133 97 0.72
134 25 0.19
135 13 0.10
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (134 bp):
AAATTACTAAAATACCCTGGTTTATAAAATTACCAAAATACCCTTAGTTTATAAAATCACCAAAA
TACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACCAAAATACCCCTGATT
TGTA
Found at i:20579385 original size:54 final size:52
Alignment explanation
Indices: 20579090--20579427 Score: 334
Period size: 54 Copynumber: 6.3 Consensus size: 52
20579080 TTAGTTTACC
* * *
20579090 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTAGTTTATA
1 AAATTACCAAAATACCCC-GATTTGTAAAATTACCAAAATACCC-TGGTTTATA
* * *
20579144 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCC-GATTTGTAAAATTACCAAAATACCC-TGGTTTATA
* * **
20579198 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTTTTTATA
1 AAATTACCAAAATACCCC-GATTTGTAAAATTACCAAAATACCCTGGTTTATA
* * *
20579251 AAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCGATTTGTAAAATTACCAAAATA-CCCTGGTTTATA
* * * * *
20579304 AAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAAATATCCCTGATTTGTG
1 AAATTACCAAAATACCCCGA-TTTGTAAAATTACCAAAATA-CCCTGGTTTATA
* ** *** ** *
20579358 AAATTACTAAAATACCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCC-CGATTTGTAAAATTACCAAAATACCCT-GGTTTATA
*
20579412 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
20579428 ATTGATTTAC
Statistics
Matches: 247, Mismatches: 33, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
52 21 0.09
53 52 0.21
54 172 0.70
55 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (52 bp):
AAATTACCAAAATACCCCGATTTGTAAAATTACCAAAATACCCTGGTTTATA
Found at i:20579387 original size:160 final size:161
Alignment explanation
Indices: 20579090--20579402 Score: 434
Period size: 160 Copynumber: 2.0 Consensus size: 161
20579080 TTAGTTTACC
* *
20579090 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTAGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATCACCAAA
* * **
20579155 ATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGT
66 ATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCCTGAC
*
20579220 TTGTAAAATTACTAAAATACCCTTTTTTATA
131 CTGTAAAATTACTAAAATACCCTTTTTTATA
* * * *
20579251 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATCACCAAA
*** *
20579315 ATACCCCTAGTTTGTAAAATTACCAAAATATCCC-TGATTTGTGAAATTACTAAAATA-CCCTCG
66 ATACCCCTAGTTTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATTACCAAAATACCCCT-G
* *
20579378 ACCTGTAAAATTATTGAAATACCCT
129 ACCTGTAAAATTACTAAAATACCCT
20579403 CGACTTGTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
159 4 0.03
160 112 0.84
161 17 0.13
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (161 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTATAAAATCACCAAA
ATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCCTGAC
CTGTAAAATTACTAAAATACCCTTTTTTATA
Found at i:20579388 original size:27 final size:27
Alignment explanation
Indices: 20579090--20579427 Score: 298
Period size: 27 Copynumber: 12.6 Consensus size: 27
20579080 TTAGTTTACC
*
20579090 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
20579117 AAATTACTAAAATACCCT-TAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
20579144 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
20579171 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
20579198 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* ** *
20579225 AAATTACTAAAATACCCT-TTTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
20579251 AAATTACCAAAATACCCT-GGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
20579277 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
20579304 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
20579331 AAATTACCAAAATATCCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
* **
20579358 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
20579385 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
20579412 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
20579428 ATTGATTTAC
Statistics
Matches: 257, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
26 48 0.19
27 205 0.80
28 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:20579388 original size:81 final size:79
Alignment explanation
Indices: 20579090--20579427 Score: 367
Period size: 81 Copynumber: 4.2 Consensus size: 79
20579080 TTAGTTTACC
* * * * *
20579090 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATA-CCCTTAGTTTATAAAATCACCAA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTAAAATTATCAA
*
20579154 AATACCCCTGGTTTGTA
64 AATA-CCCTAGTTTGTA
** *
20579171 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-CTAA
1 AAATTACCAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTATC-AA
** *
20579235 AATACCCTTTTTTATA
64 AATACCCTAGTTTGTA
*
20579251 AAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAA
1 AAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTATCAAAA
20579316 TACCCCTAGTTTGTA
66 TA-CCCTAGTTTGTA
* * * ** **
20579331 AAATTACCAAAATATCCCTGATTTGTGAAATTACTAAAATA-CCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATA-CCCTGGTTTGTAAAATTACCAAAATACCCCT-GATTTGTAAAATTATCAA
* *
20579395 AATACCCTCGACTTGTA
64 AATACCCTAG-TTTGTA
*
20579412 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
20579428 ATTGATTTAC
Statistics
Matches: 223, Mismatches: 26, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
79 46 0.21
80 65 0.29
81 108 0.48
82 4 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (79 bp):
AAATTACCAAAATACCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGTAAAATTATCAAAA
TACCCTAGTTTGTA
Found at i:20579497 original size:27 final size:27
Alignment explanation
Indices: 20579467--20579661 Score: 266
Period size: 27 Copynumber: 7.2 Consensus size: 27
20579457 CGATTTACAA
* *
20579467 AATTACTGAAATACGCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
20579494 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
20579521 AATTATTGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
20579548 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
20579575 AATTA-TCGCAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
20579602 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
20579629 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACTGAAATACCCCTGTAGGGTAG
20579656 AATTAC
1 AATTAC
20579662 CAAGATACCT
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:20579525 original size:54 final size:54
Alignment explanation
Indices: 20579467--20579687 Score: 293
Period size: 54 Copynumber: 4.1 Consensus size: 54
20579457 CGATTTACAA
* * *
20579467 AATTACTGAAATACGCCTGTAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* *
20579521 AATTATTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * *
20579575 AATTA-TCGCAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * * * *
20579629 AATTACTAAAATACCCCTATAGGGTGGAATTACCAAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
20579682 AATTAC
1 AATTAC
20579688 CATTTTGCCC
Statistics
Matches: 149, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
53 17 0.11
54 131 0.88
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.25
Consensus pattern (54 bp):
AATTACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:20579669 original size:27 final size:26
Alignment explanation
Indices: 20579475--20579689 Score: 245
Period size: 27 Copynumber: 8.0 Consensus size: 26
20579465 AAAATTACTG
* *
20579475 AAATACGCCTGTAGGATAGAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
**
20579501 AAAATACCCCTGTAGGGTAGAATTATTG
1 -AAATACCCCTGTAGGGTAGAATTA-CC
*
20579529 AAATACCCCTATAGGGTAGAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
20579555 GAAATACCCCTGTAGGGTAGAATTATCGC
1 -AAATACCCCTGTAGGGTAGAATTA-C-C
20579584 -AATACCCCTGTAGGGTAGAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
*
20579609 GAAATACCCCTGTAGGGTAGAATTACTA
1 -AAATACCCCTGTAGGGTAGAATTAC-C
* *
20579637 AAATACCCCTATAGGGTGGAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
* * *
20579663 AAGATA-CCTTGTGGGGTAAAATTACC
1 AA-ATACCCCTGTAGGGTAGAATTACC
20579689 A
1 A
20579690 TTTTGCCCCT
Statistics
Matches: 163, Mismatches: 17, Indels: 17
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.01
26 19 0.12
27 141 0.87
28 1 0.01
29 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (26 bp):
AAATACCCCTGTAGGGTAGAATTACC
Found at i:20580167 original size:22 final size:22
Alignment explanation
Indices: 20580115--20580179 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
20580105 TTAAAGCCTT
* *
20580115 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
20580137 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
20580159 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
20580180 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:20580368 original size:27 final size:27
Alignment explanation
Indices: 20580338--20580439 Score: 134
Period size: 27 Copynumber: 3.8 Consensus size: 27
20580328 ATTCTGTTAA
* *
20580338 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
*
20580365 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
*
20580392 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
20580419 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
20580440 ATAACTGAGC
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.12
27 52 0.78
28 7 0.10
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:20580621 original size:6 final size:6
Alignment explanation
Indices: 20580606--20580695 Score: 69
Period size: 6 Copynumber: 14.7 Consensus size: 6
20580596 TACCTAATAA
* * *
20580606 TGATTC TGATTT TGATTC TG-TTACC TTATAC TGATTC TGATTC TGATTC
1 TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATTC
* *
20580655 TG-TCACC TAATTC TGATTC TGATTC TGATTC T-AGTTC TGAT
1 TGAT--TC TGATTC TGATTC TGATTC TGATTC TGA-TTC TGAT
20580696 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 55 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
TGATTC
Found at i:20580622 original size:31 final size:31
Alignment explanation
Indices: 20580576--20580686 Score: 159
Period size: 31 Copynumber: 3.5 Consensus size: 31
20580566 TTGCATTCAC
* *
20580576 ATTCTGATTTTTGATTCTGTTACCTAATAATG
1 ATTCTGA-TTCTGATTCTGTTACCTAATACTG
* *
20580608 ATTCTGATTTTGATTCTGTTACCTTATACTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
* *
20580639 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTAATACTG
20580670 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
20580687 AGTTCTGATA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 66 0.90
32 7 0.10
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTAATACTG
Found at i:20582648 original size:27 final size:27
Alignment explanation
Indices: 20582626--20582911 Score: 376
Period size: 27 Copynumber: 10.6 Consensus size: 27
20582616 TTAGTTTACC
*
20582626 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
20582653 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
20582680 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
20582707 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
20582734 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
20582761 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
20582788 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
20582815 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
20582842 AAATTATAAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
20582869 AAATTACCAAAATA-CCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
20582895 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
20582912 TCGACCTGTA
Statistics
Matches: 224, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 21 0.09
27 203 0.91
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:20582691 original size:54 final size:54
Alignment explanation
Indices: 20582626--20582886 Score: 414
Period size: 54 Copynumber: 4.8 Consensus size: 54
20582616 TTAGTTTACC
*
20582626 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * *
20582680 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
20582734 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
20582788 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
**
20582842 AAATTATAAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
20582887 GATTTGTGAA
Statistics
Matches: 187, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 187 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:20582763 original size:81 final size:81
Alignment explanation
Indices: 20582626--20582968 Score: 386
Period size: 81 Copynumber: 4.2 Consensus size: 81
20582616 TTAGTTTACC
* * * * * * *
20582626 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAA
*
20582691 ATACCCCTGGTTTGTA
66 ATACCCCTAGTTTGTA
** * *
20582707 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAA
* * *
20582772 ATACCCTTTGTTTATA
66 ATACCCCTAGTTTGTA
*
20582788 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATAAAA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAA
20582853 ATACCCCTAGTTTGTA
66 ATACCCCTAGTTTGTA
* * ** *** ***
20582869 AAATTACCAAAATACCC-TGATTTGTGAAATTACTGAAATA-CCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTACAAA
* *
20582932 AATA-CCCTCGACTTGTA
65 AATACCCCTAG-TTTGTA
*
20582949 AAATTACCAAAGTACCCTTG
1 AAATTACCAAAATACCCTTG
20582969 ATTTACAGAA
Statistics
Matches: 226, Mismatches: 33, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
79 9 0.04
80 57 0.25
81 160 0.71
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAA
ATACCCCTAGTTTGTA
Found at i:20582964 original size:27 final size:27
Alignment explanation
Indices: 20582626--20582972 Score: 303
Period size: 27 Copynumber: 12.9 Consensus size: 27
20582616 TTAGTTTACC
*
20582626 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
20582653 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
20582680 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * **
20582707 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
20582734 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
20582761 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *
20582788 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*
20582815 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
** *
20582842 AAATTATAAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
20582869 AAATTACCAAAATACCCT-GATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** **
20582895 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
20582922 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
20582949 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
20582973 ACAGAATCAC
Statistics
Matches: 263, Mismatches: 46, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
26 24 0.09
27 239 0.91
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:20583033 original size:27 final size:27
Alignment explanation
Indices: 20583003--20583250 Score: 322
Period size: 27 Copynumber: 9.3 Consensus size: 27
20582993 TTGATTTAAA
20583003 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
20583030 AATTACCGAAATACCCCTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
20583057 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
20583084 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
20583111 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
20583138 GATTATCGCAATACCCCTGTAGGGTA-
1 AATTACCGAAATACCCCTGTAGGGTAG
**
20583164 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
20583191 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
20583218 AATTACC-AAGATA-CCTTGTGGGGTAA
1 AATTACCGAA-ATACCCCTGTAGGGTAG
20583244 AATTACC
1 AATTACC
20583251 ATTTTGCCCC
Statistics
Matches: 197, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
26 38 0.19
27 159 0.81
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:20583729 original size:22 final size:22
Alignment explanation
Indices: 20583677--20583741 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
20583667 TTAAAGCCTT
* * *
20583677 CTGATTATGGCTTTGTGTCATC
1 CTGATTATGGCTCTGTGCCAAC
*
20583699 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
20583721 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
20583742 ACGTATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:20583931 original size:27 final size:27
Alignment explanation
Indices: 20583901--20584002 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
20583891 ATTCTGTTAA
* *
20583901 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTCTGCCACAATATCTGTTTCTG
* *
20583928 GTGGCTATGCCACAAATATTTG-TTCTG
1 GTGGCTCTGCCAC-AATATCTGTTTCTG
20583955 GTGGCTCTGCCACAATATCTGTATT-TG
1 GTGGCTCTGCCACAATATCTGT-TTCTG
* *
20583982 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
20584003 ATAACTGAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.11
27 50 0.77
28 8 0.12
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTTTCTG
Found at i:20584194 original size:31 final size:31
Alignment explanation
Indices: 20584156--20584272 Score: 125
Period size: 31 Copynumber: 3.9 Consensus size: 31
20584146 TTTTTTATTT
*
20584156 TGTTACCTGATACTGATTCTGATTTTGATTC
1 TGTTACCTGATACTGATTCTGATTCTGATTC
*
20584187 TGTTACCTGATACTGATTCTAATTCTGA-T-
1 TGTTACCTGATACTGATTCTGATTCTGATTC
* * *
20584216 TGTCACCTAATTCTGATTCTGATTCTGATTC
1 TGTTACCTGATACTGATTCTGATTCTGATTC
* * *
20584247 TAGTT--CTGATAATGTTTCTTATTCTG
1 T-GTTACCTGATACTGATTCTGATTCTG
20584273 TAATGGGTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
29 24 0.34
30 18 0.25
31 27 0.38
32 2 0.03
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
TGTTACCTGATACTGATTCTGATTCTGATTC
Found at i:20584236 original size:6 final size:6
Alignment explanation
Indices: 20584162--20584256 Score: 70
Period size: 6 Copynumber: 15.8 Consensus size: 6
20584152 ATTTTGTTAC
* * * *
20584162 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTAATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
20584211 CTGATT GTCA-C CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
20584257 AATGTTTCTT
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
5 5 0.07
6 59 0.86
7 4 0.06
8 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:20592187 original size:18 final size:18
Alignment explanation
Indices: 20592160--20592196 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20592150 TTAAAACCTG
20592160 TGAGTAGTAAGAAGGGTT
1 TGAGTAGTAAGAAGGGTT
*
20592178 TGAGTGGTAAGAAGGGTT
1 TGAGTAGTAAGAAGGGTT
20592196 T
1 T
20592197 AAAATGGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.41, T:0.30
Consensus pattern (18 bp):
TGAGTAGTAAGAAGGGTT
Found at i:20592213 original size:14 final size:14
Alignment explanation
Indices: 20592194--20592226 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
20592184 GTAAGAAGGG
20592194 TTTAAAATGGCCAT
1 TTTAAAATGGCCAT
20592208 TTTAAAATGGCCAT
1 TTTAAAATGGCCAT
20592222 TTTAA
1 TTTAA
20592227 TTTCCTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (14 bp):
TTTAAAATGGCCAT
Found at i:20593447 original size:53 final size:53
Alignment explanation
Indices: 20593256--20593781 Score: 531
Period size: 53 Copynumber: 9.9 Consensus size: 53
20593246 TTACACTACA
* * * * * * *
20593256 AGGGTATTTCGGTAATTTTAC-ACTACAAAGGTATTTTAATAATTTTACAAAT-A
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAGTAATTTCAC-AATCG
* * * * *
20593309 AGGGATGTTTCGATAATTTTACAAATTGAGGGTATTTC-GATAATTTTATAAATCG
1 AGGG-TATTTCGGTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCA-CAATCG
* * * * *
20593364 AGCGAATTTCGGTAATTTTACAAATCGAGGGTGTTTCAATAATTTCACAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCG
* *
20593417 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCG
* * * * * * *
20593470 ATGGTATTTTGGTAATTTTACAAATCCATGGTATTTCGGTAATTTTACAAATCC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCG
* * * * * * * *
20593524 ATGGTATTTTGATAATTTTACAAATAGAGGGTATTTTAGGAATTTTATAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCG
* * *
20593577 AGGGTATTTTGGTAATTTTATAAATCGAGGGTATTT-TGATAATTTCACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCACAATCG
* ** * **
20593630 AAGGTATTTTAGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCG
* *
20593683 AAGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTCACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCG
*
20593736 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTCCAGTAATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTC
20593782 TCTTTATTAT
Statistics
Matches: 397, Mismatches: 65, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.01
53 271 0.68
54 117 0.29
55 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAATCG
Found at i:20593503 original size:80 final size:81
Alignment explanation
Indices: 20593256--20593781 Score: 525
Period size: 80 Copynumber: 6.6 Consensus size: 81
20593246 TTACACTACA
* * * * * * *
20593256 AGGGTATTTCGGTAATTTTAC-ACTACAAAGGTATTTTAATAATTTTACAAAT-AAGGG-ATGTT
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCAGTAATTTCACAAATCGAGGGTAT-TT
* *
20593318 TCGATAATTTTACAAATTG
64 TAG-TAATTTTACAAATCG
* * * * * * * *
20593337 AGGGTATTTCGATAATTTTATAAATCGAGCGAATTTCGGTAATTTTACAAATCGAGGGTGTTTCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTA
* * *
20593402 ATAATTTCACAAAT-T
66 GTAATTTTACAAATCG
* * * *
20593417 AGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCAC-AATCGATGGTATTTTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTA
*
20593481 GTAATTTTACAAATCC
66 GTAATTTTACAAATCG
* * * * * *
20593497 ATGGTATTTCGGTAATTTTACAAATCCATGGTATTT-TGATAATTTTACAAATAGAGGGTATTTT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCACAAATCGAGGGTATTTT
* *
20593561 AGGAATTTTA-TAATCG
65 AGTAATTTTACAAATCG
* * * *
20593577 AGGGTATTTTGGTAATTTTATAAATCGAGGGTATTT-TGATAATTTCAC-AATCGAAGGTATTTT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG-TAATTTCACAAATCGAGGGTATTTT
*
20593640 AGTAATTTTACAAATTG
65 AGTAATTTTACAAATCG
* * * * *
20593657 AGGGTATTTTGGTAATTTCAC-AATCGAAGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTA
*
20593721 GTAATTTCAC-AATCG
66 GTAATTTTACAAATCG
*
20593736 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTCCAGTAATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTC
20593782 TCTTTATTAT
Statistics
Matches: 365, Mismatches: 70, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
79 91 0.25
80 193 0.53
81 72 0.20
82 8 0.02
83 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAGGGTATTTTA
GTAATTTTACAAATCG
Found at i:20593769 original size:27 final size:27
Alignment explanation
Indices: 20593230--20593780 Score: 501
Period size: 27 Copynumber: 20.6 Consensus size: 27
20593220 TACCCTACAT
* * * *
20593230 GGGTATGTCGGTCATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* *
20593257 GGGTATTTCGGTAATTTTAC-ACTACAA
1 GGGTATTTCGGTAATTTTACAAAT-CGA
* *** *
20593284 AGGTATTTTAATAATTTTACAAAT-AA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
20593310 GGGATGTTTCGATAATTTTACAAATTGA
1 GGG-TATTTCGGTAATTTTACAAATCGA
* *
20593338 GGGTATTTCGATAATTTTATAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
20593365 GCGAATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* ** * *
20593392 GGGTGTTTCAATAATTTCACAAAT-TA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
20593418 GGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
20593445 GGGTATTTCAGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
20593471 TGGTATTTTGGTAATTTTACAAATCCA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
20593498 TGGTATTTCGGTAATTTTACAAATCCA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * * *
20593525 TGGTATTTTGATAATTTTACAAATAGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
20593552 GGGTATTTTAGG-AATTTTA-TAATCGA
1 GGGTA-TTTCGGTAATTTTACAAATCGA
* *
20593578 GGGTATTTTGGTAATTTTATAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* * *
20593605 GGGTATTTTGATAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* ** *
20593631 AGGTATTTTAGTAATTTTACAAATTGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
20593658 GGGTATTTTGGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
*
20593684 AGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
** *
20593711 GGGTATTTTAGTAATTTCAC-AATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
20593737 GGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCGGTAATTTTACAAATCGA
* *
20593764 GGGTATTCCAGTAATTT
1 GGGTATTTCGGTAATTT
20593781 CTCTTTATTA
Statistics
Matches: 440, Mismatches: 73, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
25 5 0.01
26 131 0.30
27 294 0.67
28 10 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACAAATCGA
Found at i:20600052 original size:43 final size:43
Alignment explanation
Indices: 20599999--20600123 Score: 123
Period size: 43 Copynumber: 2.9 Consensus size: 43
20599989 ATTGAGATAT
* * * *
20599999 GATTACATGTAAGACTATGTCTGGGACATTGGCATTGTATTGA
1 GATTTCATGTAAGACAATGTCTAGGACATTGGCATTGTATTCA
* *
20600042 GATTTCATGTAAGACCATGTCTCA-GACATTGGCATCAT-TAATCA
1 GATTTCATGTAAGACAATGTCT-AGGACATTGGCAT--TGTATTCA
* *
20600086 -ATTTCATGTAAGACAATATCTAGGATA-TGGCATTGTAT
1 GATTTCATGTAAGACAATGTCTAGGACATTGGCATTGTAT
20600124 GAGCTTATGT
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 7 0.10
43 53 0.78
44 4 0.06
45 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (43 bp):
GATTTCATGTAAGACAATGTCTAGGACATTGGCATTGTATTCA
Found at i:20607698 original size:43 final size:42
Alignment explanation
Indices: 20607650--20607762 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 42
20607640 GATTACATGC
* *
20607650 AAGACCATGTCTGGAACATTGGCATTG-TATTGAGATTTCGTGT
1 AAGACCATGTCTGG-ACATTGGCATTGTTAAT-AGATTTCGCGT
* *
20607693 AAGACCATGTCTCGGACATTGGCATCGTTAATCGATTTCGCGT
1 AAGACCATGTCT-GGACATTGGCATTGTTAATAGATTTCGCGT
* *
20607736 AAGACCCTGTCTGGGACAGTGGCATTG
1 AAGACCATGTCT-GGACATTGGCATTG
20607763 ATATGTGATA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
43 55 0.92
44 5 0.08
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
AAGACCATGTCTGGACATTGGCATTGTTAATAGATTTCGCGT
Found at i:20610901 original size:22 final size:21
Alignment explanation
Indices: 20610871--20610913 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
20610861 TACTATTATA
*
20610871 ATTTATTGTTTAGATTTTAGG
1 ATTTATTGTTTAGAATTTAGG
20610892 ATTTCATTGTTTAGAATTTAGG
1 ATTT-ATTGTTTAGAATTTAGG
20610914 GCATAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (21 bp):
ATTTATTGTTTAGAATTTAGG
Found at i:20617507 original size:17 final size:18
Alignment explanation
Indices: 20617485--20617518 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20617475 TTATGATTAT
*
20617485 ATATCTGTCTTT-TACAA
1 ATATCTATCTTTGTACAA
20617502 ATATCTATCTTTGTACA
1 ATATCTATCTTTGTACA
20617519 TTGAGGGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (18 bp):
ATATCTATCTTTGTACAA
Found at i:20625339 original size:55 final size:53
Alignment explanation
Indices: 20625241--20625484 Score: 225
Period size: 55 Copynumber: 4.6 Consensus size: 53
20625231 ATGATAACAT
* *
20625241 GTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTT-TCTAAGGCAAGGATACCAC
1 GTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTCTC-AAGGCAAGGATACCAC
* * * * *
20625296 GTAAGACCATGTCAAGACATGGCATTGATAAGTTACTACAAGGCAAATG-TCCCAT
1 GTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CT-CAAGGC-AAGGATACCAC
* *
20625351 GTAAGACCATGCCAA-AGCATGGCATTGGTGAGTTCAT-AAGGCAAGGATACCAT
1 GTAAGACCATGCCAAGA-CATGGCATTGGTAAGTTC-TCAAGGCAAGGATACCAC
* * *
20625404 GTAAGACCATGTCGAGACATGGCAATGGTAAGTT-TCAA---AAGGATACCAC
1 GTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTCAAGGCAAGGATACCAC
* * *
20625453 GTAAGACCATGACAAGTCATGGCAATGGTAAG
1 GTAAGACCATGCCAAGACATGGCATTGGTAAG
20625485 GTACCCGTGT
Statistics
Matches: 160, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
49 39 0.24
51 1 0.01
52 5 0.03
53 41 0.26
54 10 0.06
55 60 0.38
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTCAAGGCAAGGATACCAC
Found at i:20625436 original size:108 final size:110
Alignment explanation
Indices: 20625238--20625437 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
20625228 TTAATGATAA
*
20625238 CATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCACGTAAGAC
1 CATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCACGTAAGAC
*
20625303 CATGTCAAGACATGGCATTGATAAGTTACTACAAGGCAAATGTCC
66 CATGTCAAGACATGGCAATGATAAGTTACTACAAGGCAAATGTCC
* * *
20625348 CATGTAAGACCATGCCAAAGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGA
1 CATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCACGTAAGA
* *
20625410 CCATGTCGAGACATGGCAATGGTAAGTT
65 CCATGTCAAGACATGGCAATGATAAGTT
20625438 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 7 0.09
110 24 0.29
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CATGTAAGACCATGCCAAAGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCACGTAAGAC
CATGTCAAGACATGGCAATGATAAGTTACTACAAGGCAAATGTCC
Found at i:20625697 original size:16 final size:16
Alignment explanation
Indices: 20625676--20625706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20625666 ATAAATTTGA
20625676 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
20625692 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
20625707 AGTGAAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:20632646 original size:19 final size:19
Alignment explanation
Indices: 20632617--20632682 Score: 62
Period size: 19 Copynumber: 3.2 Consensus size: 19
20632607 AACAACCTTC
20632617 AAAAGTTTAAAATAATTTTT
1 AAAA-TTTAAAATAATTTTT
*
20632637 AAAATTTAAAAT-ATTTATA
1 AAAATTTAAAATAATTT-TT
20632656 AAAATTTCAAAATTTATATTTTT
1 AAAATTT-AAAA--TA-ATTTTT
20632679 AAAA
1 AAAA
20632683 AAAATTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
18 4 0.11
19 16 0.42
20 8 0.21
22 1 0.03
23 5 0.13
24 4 0.11
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATTTAAAATAATTTTT
Found at i:20632723 original size:21 final size:20
Alignment explanation
Indices: 20632677--20632724 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
20632667 ATTTATATTT
* *
20632677 TTAAAAAAAATTTAAAAAAT
1 TTAAAAAAAATATAAAAAAG
*
20632697 TCTAAAAAATATATAAAGAAAG
1 T-TAAAAAAAATATAAA-AAAG
20632719 TTAAAA
1 TTAAAA
20632725 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
TTAAAAAAAATATAAAAAAG
Found at i:20637670 original size:26 final size:26
Alignment explanation
Indices: 20637641--20637691 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
20637631 TTGCAATAGC
* *
20637641 TGATTTGACCAAATGATTTTATTAAT
1 TGATTTAACCAAATAATTTTATTAAT
*
20637667 TGATTTAACCAATTAATTTTATTAA
1 TGATTTAACCAAATAATTTTATTAA
20637692 CTATTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (26 bp):
TGATTTAACCAAATAATTTTATTAAT
Found at i:20638721 original size:18 final size:18
Alignment explanation
Indices: 20638687--20638733 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
20638677 ATTTTTAAGA
*
20638687 ATTAAAAATCATTAAAATT
1 ATTAAAAAT-ATGAAAATT
20638706 ATTAAAAATATGAAAATT
1 ATTAAAAATATGAAAATT
*
20638724 A-AAAAAATAT
1 ATTAAAAATAT
20638734 TTTTTAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 8 0.31
18 9 0.35
19 9 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (18 bp):
ATTAAAAATATGAAAATT
Found at i:20639523 original size:13 final size:13
Alignment explanation
Indices: 20639481--20639530 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
20639471 TAGTTTTCTT
20639481 CTCTTCTTCTTTG
1 CTCTTCTTCTTTG
* *
20639494 CTATCCTTCTTT-
1 CTCTTCTTCTTTG
*
20639506 TTCTTCTTCTTTG
1 CTCTTCTTCTTTG
*
20639519 CTCTTTTTCTTT
1 CTCTTCTTCTTT
20639531 TCTTTTTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
12 9 0.31
13 20 0.69
ACGTcount: A:0.02, C:0.28, G:0.04, T:0.66
Consensus pattern (13 bp):
CTCTTCTTCTTTG
Found at i:20639528 original size:25 final size:25
Alignment explanation
Indices: 20639474--20639531 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
20639464 TTTTCTTTAG
*
20639474 TTTTC-TTCTCTTCTTCTTTGCTAT
1 TTTTCTTTTTCTTCTTCTTTGCTAT
** *
20639498 CCTTCTTTTTCTTCTTCTTTGCTCT
1 TTTTCTTTTTCTTCTTCTTTGCTAT
20639523 TTTTCTTTT
1 TTTTCTTTT
20639532 CTTTTTATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 3 0.11
25 24 0.89
ACGTcount: A:0.02, C:0.26, G:0.03, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTTCTTCTTCTTTGCTAT
Found at i:20640709 original size:2 final size:2
Alignment explanation
Indices: 20640702--20640727 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20640692 GCCACGATAC
20640702 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20640728 GAATCTGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20644972 original size:68 final size:70
Alignment explanation
Indices: 20644900--20645097 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
20644890 ACACCCTGTA
* * * *
20644900 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
20644962 ATAAAT
65 ATAAAT
*
20644968 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
20645033 ATAAAT
65 ATAAAT
*
20645039 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
20645098 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:20645011 original size:41 final size:41
Alignment explanation
Indices: 20644966--20645083 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
20644956 TGAAAGATAA
20644966 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
20645007 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
20645037 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
20645078 ATGTAG
1 ATGTAG
20645084 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:20645023 original size:71 final size:71
Alignment explanation
Indices: 20644934--20645097 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
20644924 GAGATGTATC
20644934 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
20644999 AGGACA
66 AGGACA
20645005 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
20645070 AGGACA
66 AGGACA
20645076 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
20645098 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:20651001 original size:68 final size:70
Alignment explanation
Indices: 20650929--20651126 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
20650919 ACACCCTGTA
* * * *
20650929 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
20650991 ATAAAT
65 ATAAAT
*
20650997 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
20651062 ATAAAT
65 ATAAAT
*
20651068 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
20651127 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:20651040 original size:41 final size:41
Alignment explanation
Indices: 20650995--20651112 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
20650985 TGAAAGATAA
20650995 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
20651036 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
20651066 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
20651107 ATGTAG
1 ATGTAG
20651113 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:20651052 original size:71 final size:71
Alignment explanation
Indices: 20650963--20651126 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
20650953 GAGATGTATC
20650963 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
20651028 AGGACA
66 AGGACA
20651034 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
20651099 AGGACA
66 AGGACA
20651105 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
20651127 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:20664771 original size:2 final size:2
Alignment explanation
Indices: 20664764--20664795 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
20664754 GCCACGATAC
20664764 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20664796 GAATATGGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20669943 original size:15 final size:15
Alignment explanation
Indices: 20669923--20669958 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
20669913 CTAGCCAACA
20669923 ATCATCTTATGCCAG
1 ATCATCTTATGCCAG
20669938 ATCATCTTATGCCAG
1 ATCATCTTATGCCAG
20669953 ATCATC
1 ATCATC
20669959 ACTTCTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.33
Consensus pattern (15 bp):
ATCATCTTATGCCAG
Found at i:20670284 original size:16 final size:16
Alignment explanation
Indices: 20670259--20670298 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
20670249 TTGGGGAAAA
*
20670259 GAAAATAAATGTAATG
1 GAAAAAAAATGTAATG
* *
20670275 GAAAAAAAATTTACTG
1 GAAAAAAAATGTAATG
20670291 GAAAAAAA
1 GAAAAAAA
20670299 TATGGAACGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.62, C:0.03, G:0.15, T:0.20
Consensus pattern (16 bp):
GAAAAAAAATGTAATG
Found at i:20670453 original size:10 final size:10
Alignment explanation
Indices: 20670426--20670464 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
20670416 TAAAACTCTA
20670426 AAAGATAAAT
1 AAAGATAAAT
20670436 ACAA-ATAAAT
1 A-AAGATAAAT
*
20670446 AAAGATAATT
1 AAAGATAAAT
20670456 AAAGATAAA
1 AAAGATAAA
20670465 AGCTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 2 0.08
10 21 0.84
11 2 0.08
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:20671109 original size:3 final size:3
Alignment explanation
Indices: 20671103--20671132 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
20671093 TTTATTATTA
20671103 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
20671133 CTGCTTAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:20674441 original size:42 final size:42
Alignment explanation
Indices: 20674364--20674447 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
20674354 AAGGCACAAG
* * *
20674364 CCCATGTGCTAGGCCGTGTCCTTCACACGGCTGAGACACACA
1 CCCATGTGCTAGGCCGTGTCCTTCAAACAGCTGAGAAACACA
*
20674406 CCCATGTGCTAGGCCGTGTCCTTCAAACAGTTGAGAAACACA
1 CCCATGTGCTAGGCCGTGTCCTTCAAACAGCTGAGAAACACA
20674448 GTCATATCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.23, T:0.20
Consensus pattern (42 bp):
CCCATGTGCTAGGCCGTGTCCTTCAAACAGCTGAGAAACACA
Found at i:20675442 original size:46 final size:47
Alignment explanation
Indices: 20675346--20675519 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 47
20675336 TCATATCTGT
* * *
20675346 GCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACAC-CTC-GTA
1 GCCGATG-CATGTCCCAAACATGGTCTTACACTAG-CACTCTCTCAATA
20675392 GCCGATGCATGTCCCAAACAT-GTCTTACACTAGCACTCGTCTCAAT-
1 GCCGATGCATGTCCCAAACATGGTCTTACACTAGCACTC-TCTCAATA
* *
20675438 GCCGATGCAATGTCCCAAACATGGTCTTATACTAG--CTCTCAT-AATGTG
1 GCCGATGC-ATGTCCCAAACATGGTCTTACACTAGCACTCTC-TCAA--TA
* *
20675486 GCCGATGCATGTTCCAGACAT-GTCTTACACTAGC
1 GCCGATGCATGTCCCAAACATGGTCTTACACTAGC
20675520 TCACACAAGT
Statistics
Matches: 110, Mismatches: 7, Indels: 21
0.80 0.05 0.15
Matches are distributed among these distances:
44 14 0.13
45 18 0.16
46 33 0.30
47 26 0.24
48 19 0.17
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAAACATGGTCTTACACTAGCACTCTCTCAATA
Found at i:20675464 original size:92 final size:93
Alignment explanation
Indices: 20675345--20675519 Score: 228
Period size: 92 Copynumber: 1.9 Consensus size: 93
20675335 ATCATATCTG
* * *
20675345 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GACACACCT-CGTAGCCGATGCATGTCCCA
1 TGCCGATGCAATGTCCCAAACATGGTCTTACACTAG-CACACATACGTAGCCGATGCATGTCCCA
20675408 AACATGTCTTACACTAGCACTCGTCTCAA
65 AACATGTCTTACACTAGCACTCGTCTCAA
* * * * * *
20675437 TGCCGATGCAATGTCCCAAACATGGTCTTATACTAGCTCTCATAATGTGGCCGATGCATGTTCCA
1 TGCCGATGCAATGTCCCAAACATGGTCTTACACTAGCACACAT-ACGTAGCCGATGCATGTCCCA
*
20675502 GACATGTCTTACACTAGC
65 AACATGTCTTACACTAGC
20675520 TCACACAAGT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
92 35 0.50
93 1 0.01
94 34 0.49
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (93 bp):
TGCCGATGCAATGTCCCAAACATGGTCTTACACTAGCACACATACGTAGCCGATGCATGTCCCAA
ACATGTCTTACACTAGCACTCGTCTCAA
Found at i:20675894 original size:30 final size:30
Alignment explanation
Indices: 20675858--20675915 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
20675848 AAATTCATAT
*
20675858 CTTTGATAAAATAACCATTTTGCCCCTAAA
1 CTTTGATAAAATAACCATTTTACCCCTAAA
20675888 CTTTGATAAAATAACCATTTTACCCCTA
1 CTTTGATAAAATAACCATTTTACCCCTA
20675916 GGCTCGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (30 bp):
CTTTGATAAAATAACCATTTTACCCCTAAA
Found at i:20676889 original size:5 final size:5
Alignment explanation
Indices: 20676879--20676940 Score: 70
Period size: 5 Copynumber: 11.4 Consensus size: 5
20676869 GTAATAAAGT
*
20676879 AATAA AATAA AATAATA AATACT AATAA AATAA AATAA AATAA AATAAA
1 AATAA AATAA AAT-A-A AATA-A AATAA AATAA AATAA AATAA AAT-AA
20676928 TAATAA AATAA AA
1 -AATAA AATAA AA
20676941 ATTCATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 33 0.66
6 10 0.20
7 7 0.14
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:20676912 original size:15 final size:14
Alignment explanation
Indices: 20676861--20676939 Score: 62
Period size: 12 Copynumber: 5.9 Consensus size: 14
20676851 TCAATATCCA
*
20676861 AAAATAAAGT-AAT
1 AAAATAAAATAAAT
* *
20676874 AAAGTAATA-AAAT
1 AAAATAAAATAAAT
20676887 AAAAT--AATAAAT
1 AAAATAAAATAAAT
*
20676899 ACTAATAAAATAAAAT
1 A-AAATAAAAT-AAAT
20676915 AAAATAAAATAAAT
1 AAAATAAAATAAAT
20676929 --AATAAAATAAA
1 AAAATAAAATAAA
20676940 AATTCATAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
11 1 0.02
12 16 0.30
13 16 0.30
14 4 0.08
15 11 0.21
16 5 0.09
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:20676942 original size:33 final size:33
Alignment explanation
Indices: 20676879--20676940 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
20676869 GTAATAAAGT
*
20676879 AATAAAATAAAATAATAAATACTAATAAAATAA
1 AATAAAATAAAATAATAAATACAAATAAAATAA
20676912 AATAAAATAAAATAA-ATAATA-AAATAAAA
1 AATAAAATAAAATAATA-AATACAAATAAAA
20676941 ATTCATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 8 0.30
33 19 0.70
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.23
Consensus pattern (33 bp):
AATAAAATAAAATAATAAATACAAATAAAATAA
Found at i:20678261 original size:41 final size:42
Alignment explanation
Indices: 20678199--20678278 Score: 126
Period size: 41 Copynumber: 1.9 Consensus size: 42
20678189 AGTATGGGTT
* *
20678199 ATCCCAGATGTAATTTTGAGCCTC-TCTCTAAGCTTGTCGTC
1 ATCCCAGATGTAATATCGAGCCTCTTCTCTAAGCTTGTCGTC
*
20678240 ATCCCAGATGTAATATCGAGCCTCTTGTCTAAGCTTGTC
1 ATCCCAGATGTAATATCGAGCCTCTTCTCTAAGCTTGTC
20678279 CTTCACAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.35
Consensus pattern (42 bp):
ATCCCAGATGTAATATCGAGCCTCTTCTCTAAGCTTGTCGTC
Found at i:20683380 original size:20 final size:20
Alignment explanation
Indices: 20683357--20683394 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20683347 TTAAATTCTA
20683357 AAAGATAAATAAAAATAATT
1 AAAGATAAATAAAAATAATT
* *
20683377 AAAGATAATTAAAGATAA
1 AAAGATAAATAAAAATAA
20683395 AAGCTAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:20685866 original size:5 final size:5
Alignment explanation
Indices: 20685856--20685883 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20685846 AGAGAGTAAT
20685856 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
20685884 CAAAGAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Done.