Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 230 of 378
Found at i:68009107 original size:1 final size:1
Alignment explanation
Indices: 68009101--68009127 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
68009091 TTCCTTTGAC
68009101 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
68009128 CAACAACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:68019733 original size:26 final size:25
Alignment explanation
Indices: 68019688--68019736 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
68019678 ATGAGTCCAC
*
68019688 TTTCTCCTCCACTTTTTTCTTCTAT
1 TTTCTCCTCCACTTCTTTCTTCTAT
*
68019713 TTTCTTCTCCTACTTCTTTCTTCT
1 TTTCTCCTCC-ACTTCTTTCTTCT
68019737 CCTTTCCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.06, C:0.33, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTCTCCTCCACTTCTTTCTTCTAT
Found at i:68019742 original size:26 final size:25
Alignment explanation
Indices: 68019686--68019742 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
68019676 CCATGAGTCC
*
68019686 ACTTTCTCCTCCACTTTTTTCTTCT
1 ACTTTCTCCTCCACTTCTTTCTTCT
* *
68019711 ATTTTCTTCTCCTACTTCTTTCTTCT
1 ACTTTCTCCTCC-ACTTCTTTCTTCT
*
68019737 CCTTTC
1 ACTTTC
68019743 CTTAGCTGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 10 0.38
26 16 0.62
ACGTcount: A:0.07, C:0.35, G:0.00, T:0.58
Consensus pattern (25 bp):
ACTTTCTCCTCCACTTCTTTCTTCT
Found at i:68022360 original size:34 final size:34
Alignment explanation
Indices: 68022321--68022402 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
68022311 TAAACCCATA
*
68022321 TTAGTAGCAATATCAATGTGGGCTTTAGCCC-AT
1 TTAGTAGCAATATCAATGTGGGCCTTAGCCCAAT
* * *
68022354 TATAGTAGCAGTAACAGTGTGGGCCTTAGCCCAAT
1 T-TAGTAGCAATATCAATGTGGGCCTTAGCCCAAT
*
68022389 TTAGTA-CCATATCA
1 TTAGTAGCAATATCA
68022403 GAAATGCATA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
33 6 0.15
34 31 0.77
35 3 0.08
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (34 bp):
TTAGTAGCAATATCAATGTGGGCCTTAGCCCAAT
Found at i:68037919 original size:40 final size:40
Alignment explanation
Indices: 68037845--68038130 Score: 457
Period size: 40 Copynumber: 7.2 Consensus size: 40
68037835 AACCCAAGTA
* * *
68037845 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
68037884 CCTTCGGGACTTAGCCCGGATATAGTAACAAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
68037924 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
* *
68037964 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAGATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
68038004 CCTTTGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
*
68038044 CCTTCGGGACTTAGCCCGGATATAGTAACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
** *
68038084 CCTTCGGGACTTAGCCTAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
68038124 CCTTCGG
1 CCTTCGG
68038131 ATATTAGTCC
Statistics
Matches: 228, Mismatches: 18, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 13 0.06
40 215 0.94
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATG
Found at i:68039522 original size:13 final size:13
Alignment explanation
Indices: 68039504--68039529 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
68039494 ATTTTTATTT
68039504 TTAACATAAAATA
1 TTAACATAAAATA
68039517 TTAACATAAAATA
1 TTAACATAAAATA
68039530 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:68050353 original size:19 final size:19
Alignment explanation
Indices: 68050329--68050366 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
68050319 TGAATTTAAT
68050329 GGTATAAATTGTATAACAC
1 GGTATAAATTGTATAACAC
68050348 GGTATAAATTGTATAACAC
1 GGTATAAATTGTATAACAC
68050367 ATATATAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.32
Consensus pattern (19 bp):
GGTATAAATTGTATAACAC
Found at i:68050866 original size:21 final size:21
Alignment explanation
Indices: 68050808--68050866 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
68050798 TAACATAATT
*
68050808 TATAAATAAAATATAT-AATAA
1 TATAAA-AATATATATAAATAA
**
68050829 TATAACTCATATA-ATAAATAA
1 TATAA-AAATATATATAAATAA
68050850 TATAAAAATATATATAA
1 TATAAAAATATATATAA
68050867 TAAAATGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
TATAAAAATATATATAAATAA
Found at i:68050867 original size:38 final size:39
Alignment explanation
Indices: 68050815--68050894 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
68050805 ATTTATAAAT
*
68050815 AAAATATATAATAATATAACT-CATATAATA-AATAATATA
1 AAAATATATAATAATA-AAATGCATATAATATAAT-ATATA
*
68050854 AAAATATAT-ATAATAAAATGTATATAATATAATATATA
1 AAAATATATAATAATAAAATGCATATAATATAATATATA
68050892 AAA
1 AAA
68050895 GAAAGAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 3 0.08
38 22 0.59
39 12 0.32
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (39 bp):
AAAATATATAATAATAAAATGCATATAATATAATATATA
Found at i:68050877 original size:14 final size:14
Alignment explanation
Indices: 68050808--68051121 Score: 119
Period size: 14 Copynumber: 22.4 Consensus size: 14
68050798 TAACATAATT
68050808 TATA-AATAAAATA
1 TATATAATAAAATA
*
68050821 TATAATAATATAACT-
1 TAT-ATAATA-AAATA
*
68050836 CATATAAT-AAATA
1 TATATAATAAAATA
68050849 -ATAT-A-AAAATA
1 TATATAATAAAATA
*
68050860 TATATAATAAAATG
1 TATATAATAAAATA
*
68050874 TATATAATATAATA
1 TATATAATAAAATA
* * *
68050888 TATAAAAGAAAGAAA
1 TATATAATAAA-ATA
* *
68050903 GATATTATAATGAATAA
1 TATATAATAA--AAT-A
*
68050920 TATATAACAAAATA
1 TATATAATAAAATA
68050934 TAATATGTAATAAAATA
1 T-ATA--TAATAAAATA
* *
68050951 TGTA-GATAAAATA
1 TATATAATAAAATA
* *
68050964 TA-ATGA-AATATA
1 TATATAATAAAATA
68050976 -ATATAATAAGGAATA
1 TATATAATAA--AATA
*
68050991 TATAAAATAATAATA
1 TATATAATAA-AATA
68051006 -ATA-ATATAAAA-A
1 TATATA-ATAAAATA
*
68051018 TATAGTAAAATAAATAA
1 TATA-TAATA-AAAT-A
68051035 TATATAATAAAA-A
1 TATATAATAAAATA
*
68051048 TATA-AATATAACAGA
1 TATATAATA-AA-ATA
68051063 -ATA-AATAATATATA
1 TATATAATAA-A-ATA
68051077 TATATAATAAAATA
1 TATATAATAAAATA
* * *
68051091 TTTTTAA-AAAAGTG
1 TATATAATAAAA-TA
68051105 TA-ATAATAAAATA
1 TATATAATAAAATA
68051118 -ATAT
1 TATAT
68051122 GTACTATTTT
Statistics
Matches: 227, Mismatches: 37, Indels: 74
0.67 0.11 0.22
Matches are distributed among these distances:
11 7 0.03
12 26 0.11
13 41 0.18
14 67 0.30
15 39 0.17
16 23 0.10
17 24 0.11
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (14 bp):
TATATAATAAAATA
Found at i:68050961 original size:13 final size:12
Alignment explanation
Indices: 68050930--68050964 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
68050920 TATATAACAA
*
68050930 AATATAATATGT
1 AATAAAATATGT
68050942 AATAAAATATGT
1 AATAAAATATGT
68050954 AGATAAAATAT
1 A-ATAAAATAT
68050965 AATGAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (12 bp):
AATAAAATATGT
Found at i:68050984 original size:25 final size:24
Alignment explanation
Indices: 68050956--68051091 Score: 84
Period size: 25 Copynumber: 5.4 Consensus size: 24
68050946 AAATATGTAG
68050956 ATAAAATATAATGAAATATAATATA
1 ATAAAATATAAT-AAATATAATATA
68050981 ATAAGGAATAT-ATAAA-AT-A-ATA
1 ATAA--AATATAATAAATATAATATA
* *
68051003 ATAATAATATAAAAATATAGTAAAATAA
1 ATAA-AATATAATAA-ATA-TAATAT-A
*
68051031 ATAATATATAATAAAAATATAAATATA
1 ATAAAATATAAT--AAATAT-AATATA
* *
68051058 ACAGAATA-AATAATATATATATATA
1 ATAAAATATAATAA-ATATA-ATATA
68051083 ATAAAATAT
1 ATAAAATAT
68051092 TTTTAAAAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
21 5 0.06
22 10 0.12
23 2 0.02
24 6 0.07
25 23 0.27
26 6 0.07
27 20 0.23
28 12 0.14
29 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAAAATATAATAAATATAATATA
Found at i:68051003 original size:27 final size:28
Alignment explanation
Indices: 68050958--68051051 Score: 95
Period size: 30 Copynumber: 3.3 Consensus size: 28
68050948 ATATGTAGAT
*
68050958 AAAATATAATGAAAT-ATAATATAATA-A
1 AAAATAT-ATAAAATAATAATATAATATA
**
68050985 GGAATATATAAAATAATAATAATAATATA
1 AAAATATATAAAATAATAAT-ATAATATA
68051014 AAAATATAGTAAAATAAATAATAT-ATAATA
1 AAAATATA-TAAAAT-AATAATATAAT-ATA
68051044 AAAATATA
1 AAAATATA
68051052 AATATAACAG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
26 6 0.11
27 10 0.18
28 6 0.11
29 9 0.16
30 19 0.34
31 6 0.11
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAATATATAAAATAATAATATAATATA
Found at i:68051012 original size:19 final size:18
Alignment explanation
Indices: 68050956--68051058 Score: 77
Period size: 19 Copynumber: 5.5 Consensus size: 18
68050946 AAATATGTAG
*
68050956 ATAAAAT-ATAATGAAAT
1 ATAAAATAATAATAAAAT
* * *
68050973 ATAATATAATAAGGAATAT
1 ATAAAATAATAA-TAAAAT
68050992 ATAAAATAATAATAATAAT
1 ATAAAATAATAATAA-AAT
*
68051011 ATAAAA-ATATAGTAAAAT
1 ATAAAATA-ATAATAAAAT
68051029 A-AATAATATATAATAAAAAT
1 ATAA-AATA-ATAAT-AAAAT
68051049 ATAAATATAA
1 ATAAA-ATAA
68051059 CAGAATAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
17 8 0.12
18 13 0.19
19 34 0.50
20 8 0.12
21 5 0.07
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAAAATAATAATAAAAT
Found at i:68051036 original size:17 final size:16
Alignment explanation
Indices: 68050809--68051076 Score: 95
Period size: 17 Copynumber: 15.9 Consensus size: 16
68050799 AACATAATTT
* *
68050809 ATAAATAAAATATATA
1 ATAAATAATATATAAA
68050825 ATAATATAACTCATAT--A
1 ATAA-ATAA-T-ATATAAA
68050842 ATAAATAATATA-AAA
1 ATAAATAATATATAAA
* * *
68050857 ATATATATAATAAAATGTAT
1 ATA-A-ATAAT-ATAT-AAA
68050877 ATAATATAATATATAAA
1 ATAA-ATAATATATAAA
* * * *
68050894 AGAAAGAAAGATATTATA
1 ATAAA-TAATATA-TAAA
*
68050912 ATGAATAATATATAACA
1 ATAAATAATATATAA-A
* *
68050929 A-AATATAATATGTAAT
1 ATAA-ATAATATATAAA
* *
68050945 A-AAATATGTAGATAAA
1 ATAAATA-ATATATAAA
*
68050961 ATATAATGAAATATAATATA
1 ATA-AAT--AATAT-ATAAA
**
68050981 ATAAGGAATATATAAA
1 ATAAATAATATATAAA
*
68050997 AT-AATAATA-ATAAT
1 ATAAATAATATATAAA
68051011 ATAAA-AATATAGTAAA
1 ATAAATAATATA-TAAA
68051027 ATAAATAATATATAATA
1 ATAAATAATATATAA-A
*
68051044 A-AAATATAAATATAACAGA
1 ATAAATA-ATATAT-A-A-A
68051063 ATAAATAATATATA
1 ATAAATAATATATA
68051077 TATATAATAA
Statistics
Matches: 187, Mismatches: 36, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
14 13 0.07
15 16 0.09
16 44 0.24
17 59 0.32
18 16 0.09
19 22 0.12
20 17 0.09
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (16 bp):
ATAAATAATATATAAA
Found at i:68051066 original size:36 final size:35
Alignment explanation
Indices: 68050995--68051088 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 35
68050985 GGAATATATA
* **
68050995 AAATAATA-ATAATAATATAAAAATATAGTAAAAT
1 AAATAATATATAATAAAATAAAAATATAACAAAAT
* *
68051029 AAATAATATATAATAAAAATATAAATATAACAGAAT
1 AAATAATATATAAT-AAAATAAAAATATAACAAAAT
*
68051065 AAATAATATATATATATAATAAAA
1 AAATAATATATA-ATAAAATAAAA
68051089 TATTTTTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 8 0.16
35 5 0.10
36 35 0.70
37 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (35 bp):
AAATAATATATAATAAAATAAAAATATAACAAAAT
Found at i:68055954 original size:2 final size:2
Alignment explanation
Indices: 68055947--68055979 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
68055937 TCATGACATG
68055947 TA TA 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 TA TA T
68055980 GACTAGTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68056726 original size:44 final size:44
Alignment explanation
Indices: 68056658--68056752 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
68056648 GTGTTACACA
68056658 CCAAATCTACTATCTTCGACCTGCTCTCTGACAATACAGAGACG
1 CCAAATCTACTATCTTCGACCTGCTCTCTGACAATACAGAGACG
* * *
68056702 CCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACG
1 CCAAATCTACTATCTTCGACCTGCTCTCTGACAATACAGAGACG
68056746 CCAAATC
1 CCAAATC
68056753 ATCTTAGATT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.29, C:0.31, G:0.14, T:0.26
Consensus pattern (44 bp):
CCAAATCTACTATCTTCGACCTGCTCTCTGACAATACAGAGACG
Found at i:68069799 original size:21 final size:21
Alignment explanation
Indices: 68069741--68069799 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
68069731 TAACATAATT
*
68069741 TATAAATAAAATATAT-AATAA
1 TATAAA-AATATATATAAATAA
**
68069762 TATAACTCATATA-ATAAATAA
1 TATAA-AAATATATATAAATAA
68069783 TATAAAAATATATATAA
1 TATAAAAATATATATAA
68069800 TAAAATGTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
TATAAAAATATATATAAATAA
Found at i:68069800 original size:38 final size:39
Alignment explanation
Indices: 68069748--68069827 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
68069738 ATTTATAAAT
*
68069748 AAAATATATAATAATATAACT-CATATAATA-AATAATATA
1 AAAATATATAATAATA-AAATGCATATAATATAAT-ATATA
*
68069787 AAAATATAT-ATAATAAAATGTATATAATATAATATATA
1 AAAATATATAATAATAAAATGCATATAATATAATATATA
68069825 AAA
1 AAA
68069828 GAAAGAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
37 3 0.08
38 22 0.59
39 12 0.32
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (39 bp):
AAAATATATAATAATAAAATGCATATAATATAATATATA
Found at i:68069810 original size:14 final size:14
Alignment explanation
Indices: 68069741--68070053 Score: 117
Period size: 14 Copynumber: 22.4 Consensus size: 14
68069731 TAACATAATT
68069741 TATA-AATAAAATA
1 TATATAATAAAATA
*
68069754 TATAATAATATAACT-
1 TAT-ATAATA-AAATA
*
68069769 CATATAAT-AAATA
1 TATATAATAAAATA
68069782 -ATAT-A-AAAATA
1 TATATAATAAAATA
*
68069793 TATATAATAAAATG
1 TATATAATAAAATA
*
68069807 TATATAATATAATA
1 TATATAATAAAATA
* * *
68069821 TATAAAAGAAAGAAA
1 TATATAATAAA-ATA
* *
68069836 GATATTATAATGAATAA
1 TATATAATAA--AAT-A
*
68069853 TATATAACAAAATA
1 TATATAATAAAATA
68069867 TAATATGTAATAAAATA
1 T-ATA--TAATAAAATA
* *
68069884 TGTA-GATAAAATA
1 TATATAATAAAATA
* *
68069897 TA-ATGA-AATATA
1 TATATAATAAAATA
68069909 -ATATAATAAGGAATA
1 TATATAATAA--AATA
*
68069924 TATAAAATAATAATA
1 TATATAATAA-AATA
68069939 -ATA-ATATAAAA-A
1 TATATA-ATAAAATA
*
68069951 TATAGTAAAATAAATAA
1 TATA-TAATA-AAAT-A
68069968 TATATAATAAAA-A
1 TATATAATAAAATA
*
68069981 TATA-AATATAACAGA
1 TATATAATA-AA-ATA
68069996 -ATA-AATAATATATA
1 TATATAATAA-A-ATA
68070010 TATATAATAAAATA
1 TATATAATAAAATA
* * * *
68070024 TTTTTAA-AAAGTG
1 TATATAATAAAATA
68070037 TA-ATAATAAAATA
1 TATATAATAAAATA
68070050 -ATAT
1 TATAT
68070054 GTACTATTTT
Statistics
Matches: 225, Mismatches: 39, Indels: 72
0.67 0.12 0.21
Matches are distributed among these distances:
11 7 0.03
12 29 0.13
13 42 0.19
14 61 0.27
15 39 0.17
16 23 0.10
17 24 0.11
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (14 bp):
TATATAATAAAATA
Found at i:68069894 original size:13 final size:12
Alignment explanation
Indices: 68069863--68069897 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
68069853 TATATAACAA
*
68069863 AATATAATATGT
1 AATAAAATATGT
68069875 AATAAAATATGT
1 AATAAAATATGT
68069887 AGATAAAATAT
1 A-ATAAAATAT
68069898 AATGAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (12 bp):
AATAAAATATGT
Found at i:68069917 original size:25 final size:24
Alignment explanation
Indices: 68069889--68070024 Score: 84
Period size: 25 Copynumber: 5.4 Consensus size: 24
68069879 AAATATGTAG
68069889 ATAAAATATAATGAAATATAATATA
1 ATAAAATATAAT-AAATATAATATA
68069914 ATAAGGAATAT-ATAAA-AT-A-ATA
1 ATAA--AATATAATAAATATAATATA
* *
68069936 ATAATAATATAAAAATATAGTAAAATAA
1 ATAA-AATATAATAA-ATA-TAATAT-A
*
68069964 ATAATATATAATAAAAATATAAATATA
1 ATAAAATATAAT--AAATAT-AATATA
* *
68069991 ACAGAATA-AATAATATATATATATA
1 ATAAAATATAATAA-ATATA-ATATA
68070016 ATAAAATAT
1 ATAAAATAT
68070025 TTTTAAAAAG
Statistics
Matches: 86, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
21 5 0.06
22 10 0.12
23 2 0.02
24 6 0.07
25 23 0.27
26 6 0.07
27 20 0.23
28 12 0.14
29 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.31
Consensus pattern (24 bp):
ATAAAATATAATAAATATAATATA
Found at i:68069936 original size:27 final size:28
Alignment explanation
Indices: 68069891--68069984 Score: 95
Period size: 30 Copynumber: 3.3 Consensus size: 28
68069881 ATATGTAGAT
*
68069891 AAAATATAATGAAAT-ATAATATAATA-A
1 AAAATAT-ATAAAATAATAATATAATATA
**
68069918 GGAATATATAAAATAATAATAATAATATA
1 AAAATATATAAAATAATAAT-ATAATATA
68069947 AAAATATAGTAAAATAAATAATAT-ATAATA
1 AAAATATA-TAAAAT-AATAATATAAT-ATA
68069977 AAAATATA
1 AAAATATA
68069985 AATATAACAG
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
26 6 0.11
27 10 0.18
28 6 0.11
29 9 0.16
30 19 0.34
31 6 0.11
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (28 bp):
AAAATATATAAAATAATAATATAATATA
Found at i:68069945 original size:19 final size:18
Alignment explanation
Indices: 68069889--68069991 Score: 77
Period size: 19 Copynumber: 5.5 Consensus size: 18
68069879 AAATATGTAG
*
68069889 ATAAAAT-ATAATGAAAT
1 ATAAAATAATAATAAAAT
* * *
68069906 ATAATATAATAAGGAATAT
1 ATAAAATAATAA-TAAAAT
68069925 ATAAAATAATAATAATAAT
1 ATAAAATAATAATAA-AAT
*
68069944 ATAAAA-ATATAGTAAAAT
1 ATAAAATA-ATAATAAAAT
68069962 A-AATAATATATAATAAAAAT
1 ATAA-AATA-ATAAT-AAAAT
68069982 ATAAATATAA
1 ATAAA-ATAA
68069992 CAGAATAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
17 8 0.12
18 13 0.19
19 34 0.50
20 8 0.12
21 5 0.07
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAAAATAATAATAAAAT
Found at i:68069969 original size:17 final size:16
Alignment explanation
Indices: 68069742--68070009 Score: 95
Period size: 17 Copynumber: 15.9 Consensus size: 16
68069732 AACATAATTT
* *
68069742 ATAAATAAAATATATA
1 ATAAATAATATATAAA
68069758 ATAATATAACTCATAT--A
1 ATAA-ATAA-T-ATATAAA
68069775 ATAAATAATATA-AAA
1 ATAAATAATATATAAA
* * *
68069790 ATATATATAATAAAATGTAT
1 ATA-A-ATAAT-ATAT-AAA
68069810 ATAATATAATATATAAA
1 ATAA-ATAATATATAAA
* * * *
68069827 AGAAAGAAAGATATTATA
1 ATAAA-TAATATA-TAAA
*
68069845 ATGAATAATATATAACA
1 ATAAATAATATATAA-A
* *
68069862 A-AATATAATATGTAAT
1 ATAA-ATAATATATAAA
* *
68069878 A-AAATATGTAGATAAA
1 ATAAATA-ATATATAAA
*
68069894 ATATAATGAAATATAATATA
1 ATA-AAT--AATAT-ATAAA
**
68069914 ATAAGGAATATATAAA
1 ATAAATAATATATAAA
*
68069930 AT-AATAATA-ATAAT
1 ATAAATAATATATAAA
68069944 ATAAA-AATATAGTAAA
1 ATAAATAATATA-TAAA
68069960 ATAAATAATATATAATA
1 ATAAATAATATATAA-A
*
68069977 A-AAATATAAATATAACAGA
1 ATAAATA-ATATAT-A-A-A
68069996 ATAAATAATATATA
1 ATAAATAATATATA
68070010 TATATAATAA
Statistics
Matches: 187, Mismatches: 36, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
14 13 0.07
15 16 0.09
16 44 0.24
17 59 0.32
18 16 0.09
19 22 0.12
20 17 0.09
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (16 bp):
ATAAATAATATATAAA
Found at i:68069999 original size:36 final size:35
Alignment explanation
Indices: 68069928--68070021 Score: 109
Period size: 36 Copynumber: 2.7 Consensus size: 35
68069918 GGAATATATA
* **
68069928 AAATAATA-ATAATAATATAAAAATATAGTAAAAT
1 AAATAATATATAATAAAATAAAAATATAACAAAAT
* *
68069962 AAATAATATATAATAAAAATATAAATATAACAGAAT
1 AAATAATATATAAT-AAAATAAAAATATAACAAAAT
*
68069998 AAATAATATATATATATAATAAAA
1 AAATAATATATA-ATAAAATAAAA
68070022 TATTTTTAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
34 8 0.16
35 5 0.10
36 35 0.70
37 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (35 bp):
AAATAATATATAATAAAATAAAAATATAACAAAAT
Found at i:68070326 original size:22 final size:23
Alignment explanation
Indices: 68070300--68070342 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
68070290 GGTTAGGGCT
68070300 AATTT-AAAA-ATAAAATAAAATG
1 AATTTGAAAATATAAAA-AAAATG
68070322 AATTTGAAAATATAAAAAAAA
1 AATTTGAAAATATAAAAAAAA
68070343 CACAGAAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 8 0.42
24 6 0.32
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.26
Consensus pattern (23 bp):
AATTTGAAAATATAAAAAAAATG
Found at i:68077508 original size:22 final size:22
Alignment explanation
Indices: 68077477--68077570 Score: 91
Period size: 22 Copynumber: 4.3 Consensus size: 22
68077467 CAGTGTTATT
* *
68077477 AGTGGCAGTTTATCTGCAAATC
1 AGTGGTAGTTTATCTGCAAATA
* * * * *
68077499 AGTGATAGTTTATCCGTAATTC
1 AGTGGTAGTTTATCTGCAAATA
68077521 AGTGGTAGTTGT-TCTGCAAATA
1 AGTGGTAGTT-TATCTGCAAATA
* *
68077543 AATGGCAGTTTATCTGCAAATA
1 AGTGGTAGTTTATCTGCAAATA
68077565 AGTGGT
1 AGTGGT
68077571 GGCATGTCCA
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
21 1 0.02
22 54 0.96
23 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (22 bp):
AGTGGTAGTTTATCTGCAAATA
Found at i:68077762 original size:12 final size:11
Alignment explanation
Indices: 68077724--68077765 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
68077714 ATTCCATAAT
68077724 TTTGATGTATG
1 TTTGATGTATG
*
68077735 ATT-ATGTCATG
1 TTTGATGT-ATG
68077746 TTTGATGTATG
1 TTTGATGTATG
68077757 TGTTGATGT
1 T-TTGATGT
68077766 GTATGCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 4 0.15
11 11 0.42
12 11 0.42
ACGTcount: A:0.19, C:0.02, G:0.26, T:0.52
Consensus pattern (11 bp):
TTTGATGTATG
Found at i:68077949 original size:29 final size:29
Alignment explanation
Indices: 68077916--68077974 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
68077906 TTTTATGGCT
68077916 ATGGACTATTT-TATTATTTTGGGACTTTC
1 ATGGACT-TTTATATTATTTTGGGACTTTC
*
68077945 ATGGACTTTTAAATTTTATTTTGGGACTTT
1 ATGGACTTTT--ATATTATTTTGGGACTTT
68077975 AATTTTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 7 0.27
31 16 0.62
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (29 bp):
ATGGACTTTTATATTATTTTGGGACTTTC
Found at i:68080261 original size:56 final size:56
Alignment explanation
Indices: 68080132--68080263 Score: 201
Period size: 56 Copynumber: 2.4 Consensus size: 56
68080122 TGGCATCGAC
*
68080132 ATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTTCAAT
1 ATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCAAT
* * **
68080188 ATATGTGTGTGAATAAGACCACGTTTAATACGTTGGTATCGATATGTGATTCCGTT
1 ATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCAAT
* *
68080244 ATATGTGCGCGAGTAAGACC
1 ATATGTGTGTGAGTAAGACC
68080264 CTGTCTGGGA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (56 bp):
ATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCCAAT
Found at i:68084670 original size:46 final size:44
Alignment explanation
Indices: 68084620--68084792 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 44
68084610 TGTTTGGGCA
68084620 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAA-G
*** * *
68084666 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GGAAG
68084713 TCC-AAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGAT-GAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-G
* *
68084756 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68084793 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
43 18 0.17
44 17 0.16
45 4 0.04
46 38 0.36
47 22 0.21
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (44 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAG
Found at i:68084784 original size:90 final size:92
Alignment explanation
Indices: 68084616--68084784 Score: 272
Period size: 90 Copynumber: 1.8 Consensus size: 92
68084606 AGGATGTTTG
* *
68084616 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-CGAACGCCCGAACTCGTTGAG
68084681 TTGAGTCCGAGTTCGAGAGATGTAACTA
65 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
68084709 GGCATCC-AAGCTCGTTGAGTTGAGT-CGAGTTCACTTATGGAT-GAACGCCCGAGCTCGTTGAG
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCGAACGCCCGAACTCGTTGAG
68084771 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
68084785 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
90 31 0.43
92 19 0.26
93 22 0.31
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:68087726 original size:15 final size:15
Alignment explanation
Indices: 68087706--68087769 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
68087696 GTATCTTGGG
68087706 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
68087721 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
68087736 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
68087751 TTTCTTTATTC-GG-
1 TTTCTTTATTCTGGA
68087764 TTTCTT
1 TTTCTT
68087770 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 4 0.09
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.16, G:0.12, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:68090195 original size:46 final size:46
Alignment explanation
Indices: 68090145--68090317 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
68090135 TTGGGCATCC
* *
68090145 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
* ** * *
68090191 GAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATTTAACTAGGCAT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATGCCT
* * * *
68090236 CCAAGCTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAACGCCC
1 -GAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
*
68090284 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
68090318 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
43 5 0.05
44 1 0.01
45 3 0.03
46 57 0.57
47 22 0.22
48 3 0.03
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCT
Found at i:68090297 original size:93 final size:93
Alignment explanation
Indices: 68090138--68090309 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
68090128 AGGATGTTTG
* * * * *
68090138 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
68090203 TTGAGTCCGAGTTCGAGAGATTTAACTA
66 TTGAGTCCGAGTTCGAGAGATTTAACTA
*
68090231 GGCATCC-AAGCTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAACGCCCGAGCTCGTTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGA
68090295 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
68090310 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATTTAACTA
Found at i:68091728 original size:21 final size:22
Alignment explanation
Indices: 68091703--68091744 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
68091693 GAGTAAAAGA
68091703 TAAAAGTTGCCTA-CT-ATTTGT
1 TAAAAG-TGCCTATCTGATTTGT
68091724 TAAAAGTGCCTATCTGATTTG
1 TAAAAGTGCCTATCTGATTTG
68091745 GCTTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (22 bp):
TAAAAGTGCCTATCTGATTTGT
Found at i:68092807 original size:44 final size:40
Alignment explanation
Indices: 68092757--68092903 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 40
68092747 GATTTTGTGA
* *
68092757 AAGACCATGTCTGGGACGCTGACATCGACTTCTGTTTTACGTGT
1 AAGACCATGTCTGGGACG-TGGCATCGA-TT-TG-ATTACGTGT
* * *
68092801 AAGACCATGTCTAGGACATTGGCATCGTATTTGATTCCGTGT
1 AAGACCATGTCTGGGAC-GTGGCATCG-ATTTGATTACGTGT
* *
68092843 AAGACCCTGTCTGGGACGTGGCATCGATGTTTGATTACATGT
1 AAGACCATGTCTGGGACGTGGCATCGA--TTTGATTACGTGT
*
68092885 AAGACCACGTCTGGGACGT
1 AAGACCATGTCTGGGACGT
68092904 CGACATTGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
40 1 0.01
41 8 0.09
42 50 0.57
43 2 0.02
44 25 0.29
45 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (40 bp):
AAGACCATGTCTGGGACGTGGCATCGATTTGATTACGTGT
Found at i:68102278 original size:29 final size:29
Alignment explanation
Indices: 68102244--68102346 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
68102234 TAATCAGCCG
** *
68102244 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
68102273 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
68102302 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
68102331 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
68102347 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:68110360 original size:29 final size:29
Alignment explanation
Indices: 68110326--68110428 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
68110316 TAATCAGCCG
** *
68110326 CGCACACTTAGTGCCATATACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAGCT
68110355 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
68110384 CGCACACTTAGTGCCATGCATTTCAAGCT
1 CGCACACTTAGTGCCATGCATTTCAAGCT
*
68110413 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
68110429 ATCTCTCAAC
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 3 0.04
29 66 0.96
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCT
Found at i:68112188 original size:6 final size:6
Alignment explanation
Indices: 68112177--68112226 Score: 64
Period size: 6 Copynumber: 8.2 Consensus size: 6
68112167 ACTTCAAAAT
* * *
68112177 TTTTAA TTTTAA TTTTAA TTTTAA TGTTAA TTTTAT TTTTTA TGTTTAA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T-TTTAA
68112226 T
1 T
68112227 AAAGGGGTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
6 32 0.86
7 5 0.14
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:68128938 original size:27 final size:27
Alignment explanation
Indices: 68128908--68129035 Score: 184
Period size: 27 Copynumber: 4.7 Consensus size: 27
68128898 TACTAAAATG
* *
68128908 CCCTCAATTTGTAAAATTACCGTTTTA
1 CCCTCAATTTATAGAATTACCGTTTTA
* *
68128935 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCAATTTATAGAATTACCGTTTTA
* *
68128962 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCAATTTATAGAATTACCGTTTTA
68128989 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCAATTTATAGAATTACCGTTTTA
* *
68129016 CCCTCAATTTACAAAATTAC
1 CCCTCAATTTATAGAATTAC
68129036 TAAAATACCC
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.38
Consensus pattern (27 bp):
CCCTCAATTTATAGAATTACCGTTTTA
Found at i:68129044 original size:27 final size:27
Alignment explanation
Indices: 68128888--68129180 Score: 135
Period size: 27 Copynumber: 10.9 Consensus size: 27
68128878 AATACTTTAG
* * * *
68128888 TTTACCAAATTACTAAAATGCCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** ****
68128915 TTTGTAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
68128942 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *** *
68128969 TTTATAGAATTACCATTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* * **** *
68128996 TTTATAGAATTACCGTTTTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
68129023 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTCGA
68129050 TTTACAAAATTACCAAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *
68129077 -TCAGTAAAATTACCAAAATACCC-CTGG
1 TTTA-CAAAATTACCAAAATACCCTC-GA
** * *
68129104 TTTGTAAAATTACTAAAATACCC-CTGG
1 TTTACAAAATTACCAAAATACCCTC-GA
** *
68129131 TTTGTAAAATTACCAAAATACCC-CTGG
1 TTTACAAAATTACCAAAATACCCTC-GA
**
68129158 TTTGTAAAATTACCAAAATACCC
1 TTTACAAAATTACCAAAATACCC
68129181 CTGATTTGTG
Statistics
Matches: 226, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
26 3 0.01
27 222 0.98
28 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:68129061 original size:54 final size:54
Alignment explanation
Indices: 68128933--68129063 Score: 154
Period size: 54 Copynumber: 2.4 Consensus size: 54
68128923 ATTACCGTTT
* * * ***
68128933 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAA
* * *
68128987 TACCCTCAATTTATAGAATTACCGTTTTACCCTCAATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAA
* * *
68129041 TACCCTTGGTTTACAAAATTACC
1 TACCCTCGATTTACAGAATTACC
68129064 AAAATACCCT
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAAAATTACCAAAA
Found at i:68129072 original size:81 final size:81
Alignment explanation
Indices: 68128887--68129153 Score: 223
Period size: 81 Copynumber: 3.3 Consensus size: 81
68128877 GAATACTTTA
* * * * *
68128887 GTTTACCAAATTACTAAAATGCCCTCAATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAAT
1 GTTTACAAAATTACCAAAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAAT
***** *
68128952 TACCGTTTTACCCTCG
66 TACTAAAATACCCTTG
* * * *** * *
68128968 ATTTATAGAATTACCATTTTACCCTCAATTTATAGAATTACCGTTTTACCCTCAATTTACAAAAT
1 GTTTACAAAATTACCAAAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAAT
68129033 TACTAAAATACCCTTG
66 TACTAAAATACCCTTG
* * **** * **
68129049 GTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCAAAATACCC-CTGGTTTGTAAA
1 GTTTACAAAATTACCAAAATACCCTCAATTTA-TAAAATTACCGTTTTACCCTC-GATTTACAAA
*
68129112 ATTACTAAAATACCCCTG
64 ATTACTAAAATACCCTTG
**
68129130 GTTTGTAAAATTACCAAAATACCC
1 GTTTACAAAATTACCAAAATACCC
68129154 CTGGTTTGTA
Statistics
Matches: 145, Mismatches: 39, Indels: 4
0.77 0.21 0.02
Matches are distributed among these distances:
80 3 0.02
81 142 0.98
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.33
Consensus pattern (81 bp):
GTTTACAAAATTACCAAAATACCCTCAATTTATAAAATTACCGTTTTACCCTCGATTTACAAAAT
TACTAAAATACCCTTG
Found at i:68129181 original size:27 final size:27
Alignment explanation
Indices: 68129028--68129205 Score: 232
Period size: 27 Copynumber: 6.6 Consensus size: 27
68129018 CTCAATTTAC
* * **
68129028 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
68129055 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
68129082 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
68129109 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
68129136 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
68129163 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
68129190 GAAATTATCGAAATAC
1 AAAATTACCAAAATAC
68129206 TCTCAATTTG
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 3 0.02
27 126 0.95
28 4 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:68129216 original size:54 final size:54
Alignment explanation
Indices: 68129028--68129263 Score: 201
Period size: 54 Copynumber: 4.4 Consensus size: 54
68129018 CTCAATTTAC
* * ** ** **
68129028 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCT-GATTTGT
** * *
68129082 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGT
**
68129136 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGT
* * * * * * **
68129190 GAAATTATCGAAATA-CTCTCAATTTGTAAAA-TATCGAAATACCCCTG-TAGGGT
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTGAT-TTGT
* *
68129243 AGAATTACCGAAATACCCCTA
1 AAAATTACCAAAATACCCCTA
68129264 TAGGGTAGAG
Statistics
Matches: 154, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 32 0.21
54 117 0.76
55 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGATTTGT
Found at i:68129216 original size:81 final size:81
Alignment explanation
Indices: 68129028--68129262 Score: 221
Period size: 81 Copynumber: 2.9 Consensus size: 81
68129018 CTCAATTTAC
* ** ** *
68129028 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCT-GGTCAGTAAAATTACCA
*
68129092 AAATACCCCTGGTTTGT
65 AAATACCCCTGATTTGT
** **
68129109 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGGTCAGTAAAATTACCAA
68129174 AATACCCCTGATTTGT
66 AATACCCCTGATTTGT
* * * * * *
68129190 GAAATTA-TCGAAATA-CTCTCAATTTGTAAAA-TATCGAAATACCCCT-GT-AGGGTAGAATTA
1 AAAATTACT-AAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTGGTCA--GTAAAATTA
*
68129250 CCGAAATACCCCT
62 CCAAAATACCCCT
68129263 ATAGGGTAGA
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
79 2 0.02
80 37 0.28
81 89 0.67
82 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGGTCAGTAAAATTACCAA
AATACCCCTGATTTGT
Found at i:68129262 original size:27 final size:27
Alignment explanation
Indices: 68129224--68129359 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
68129214 TGTAAAATAT
68129224 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
68129251 CGAAATACCCCTATAGGGTAGAGTTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
68129278 CGAAATACCCTTGTAGGGTAAAAATAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
68129305 TGAAACACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * * *
68129332 CGAGATACCCTTGTGGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
68129359 C
1 C
68129360 ATTTTTCCCC
Statistics
Matches: 89, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:68129293 original size:54 final size:54
Alignment explanation
Indices: 68129224--68129359 Score: 182
Period size: 54 Copynumber: 2.5 Consensus size: 54
68129214 TGTAAAATAT
* * * *
68129224 CGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAGTTAC
1 CGAAATACCCTTGTAGGGTAAAATTACCGAAACACCCCTATAGGGTAGAATTAC
* ** *
68129278 CGAAATACCCTTGTAGGGTAAAAATATTGAAACACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCTTGTAGGGTAAAATTACCGAAACACCCCTATAGGGTAGAATTAC
* *
68129332 CGAGATACCCTTGTGGGGTAAAATTACC
1 CGAAATACCCTTGTAGGGTAAAATTACC
68129360 ATTTTTCCCC
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.24
Consensus pattern (54 bp):
CGAAATACCCTTGTAGGGTAAAATTACCGAAACACCCCTATAGGGTAGAATTAC
Found at i:68129600 original size:25 final size:25
Alignment explanation
Indices: 68129562--68129626 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
68129552 AGGAAGTGCT
*
68129562 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
68129587 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
68129612 AAAAGGGCTTTGCCC
1 AAAAGGGCTTTGCCC
68129627 TAATTATTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.22
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:68129888 original size:31 final size:31
Alignment explanation
Indices: 68129852--68129935 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
68129842 CGTTTACAGT
*
68129852 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
68129883 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
68129914 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
68129936 TCGAGAATGA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:68132197 original size:25 final size:25
Alignment explanation
Indices: 68132157--68132233 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
68132147 CATTAGGGAT
* *
68132157 TACCGA-TTGTAGCTCGTTAGAGCT
1 TACCGATTTGTAGCTCGTGAGAGCA
*
68132181 TACTGATTTGTAGCTCGTGAGAGCA
1 TACCGATTTGTAGCTCGTGAGAGCA
**
68132206 TACCGATTCATAGCTCGT-ATGAGCA
1 TACCGATTTGTAGCTCGTGA-GAGCA
68132231 TAC
1 TAC
68132234 ATGTACAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 6 0.13
25 39 0.87
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (25 bp):
TACCGATTTGTAGCTCGTGAGAGCA
Found at i:68136639 original size:27 final size:27
Alignment explanation
Indices: 68136577--68136775 Score: 111
Period size: 27 Copynumber: 7.4 Consensus size: 27
68136567 AAACATACAT
* * *
68136577 CACATAGGGGTAAAACAA-TCATCTTAC
1 CACATAAGGGCAAAA-AACTCATTTTAC
* * *
68136604 CATAAAAGGGAAAAATAACT-ATTTTAC
1 CACATAAGGGCAAAA-AACTCATTTTAC
* *
68136631 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAAAACTCATTTTAC
* *
68136658 CTCATAAGGGCAAAACGA-TCATTTTAC
1 CACATAAGGGCAAAA-AACTCATTTTAC
** *
68136685 CTTATAAGAGCAAAACAA-TCATTTTAC
1 CACATAAGGGCAAAA-AACTCATTTTAC
** * * *
68136712 CTTATAAAGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAAAACTCATTTTAC
** ** *
68136739 CTTATAACAG-AAAAACAATCATTTTAC
1 CACATAAGGGCAAAAA-ACTCATTTTAC
68136766 CACATAAGGG
1 CACATAAGGG
68136776 GTCTAAGTAA
Statistics
Matches: 140, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.05
27 131 0.94
28 2 0.01
ACGTcount: A:0.43, C:0.19, G:0.12, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAAAACTCATTTTAC
Found at i:68136646 original size:54 final size:53
Alignment explanation
Indices: 68136577--68136766 Score: 159
Period size: 54 Copynumber: 3.5 Consensus size: 53
68136567 AAACATACAT
* * * *
68136577 CACATAGGGGTAAAACAATCATCTTACCATAAAAGGGAAAAATAA-CTATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACC-TAAAAGGGAAAAACAATC-ATTTTAC
* * * *
68136631 CACATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAACGATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACCT-AAAAGGGAAAAACAATCATTTTAC
** * * *
68136685 CTTATAAGAGCAAAACAATCATTTTACCTTATAAA-GGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTACC-TA-AAAGGGAAAAACAATCATTTTAC
** ** *
68136739 CTTATAACAGAAAAACAATCATTTTACC
1 CACATAAGGGCAAAACAATCATTTTACC
68136767 ACATAAGGGG
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 1 0.01
54 110 0.96
55 4 0.03
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.26
Consensus pattern (53 bp):
CACATAAGGGCAAAACAATCATTTTACCTAAAAGGGAAAAACAATCATTTTAC
Found at i:68136773 original size:81 final size:81
Alignment explanation
Indices: 68136588--68136773 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
68136578 ACATAGGGGT
* * * * *
68136588 AAAACAATCATCTTACCATAAAAGGGAAAAATAACTATTTTACCACATAAGGGCAAAACAGTCAT
1 AAAACAATCATTTTACCATATAAGAGAAAAACAACTATTTTACCACATAAAGGCAAAACAGTCAT
** *
68136653 TTTACCTCATAAGGGC
66 TTTACCTCATAACAGA
* * * **
68136669 AAAACGATCATTTTACCTTATAAGAGCAAAACAA-TCATTTTACCTTATAAAGGCAAAACAGTCA
1 AAAACAATCATTTTACCATATAAGAGAAAAACAACT-ATTTTACCACATAAAGGCAAAACAGTCA
*
68136733 TTTTACCTTATAACAGA
65 TTTTACCTCATAACAGA
*
68136750 AAAACAATCATTTTACCACATAAG
1 AAAACAATCATTTTACCATATAAG
68136774 GGGTCTAAGT
Statistics
Matches: 87, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
80 1 0.01
81 86 0.99
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (81 bp):
AAAACAATCATTTTACCATATAAGAGAAAAACAACTATTTTACCACATAAAGGCAAAACAGTCAT
TTTACCTCATAACAGA
Found at i:68140726 original size:43 final size:43
Alignment explanation
Indices: 68140665--68140831 Score: 180
Period size: 43 Copynumber: 3.9 Consensus size: 43
68140655 GTAAGATTTC
*
68140665 CGATATGTG-TTATCATGTAAGACCACATTTGGGACATTGGCAT
1 CGATATGTGATTA-CATGTAAGACCACGTTTGGGACATTGGCAT
* * * * *
68140708 CGATATGTGATTACATGTAAGACCATGTCTGAGATATTGGGAT
1 CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
* * * * *
68140751 TG-TATATGATT-CGTGTAAGACC-CTGTCTGGGACAGTGGCAT
1 CGATATGTGATTACATGTAAGACCAC-GTTTGGGACATTGGCAT
*
68140792 CGATATGTGATTGCATGTAAGACCACGTTTGGGACATTGG
1 CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGG
68140832 AATTGTAAAA
Statistics
Matches: 100, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
41 24 0.24
42 16 0.16
43 56 0.56
44 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (43 bp):
CGATATGTGATTACATGTAAGACCACGTTTGGGACATTGGCAT
Found at i:68142182 original size:46 final size:47
Alignment explanation
Indices: 68142013--68142182 Score: 147
Period size: 46 Copynumber: 3.7 Consensus size: 47
68142003 TGTGTGAGCT
* * *
68142013 AGTGTAAGACATGCCTGGGACATGCATC-GCC---ACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACTAT-A-AGCC
* * * * *
68142058 AGTGTAAGACCATGTCTGGGACATGGCATTGACATTGAGACGAGT--GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGACTA-TAAGCC
* * *
68142106 AGTATAAGACATGTCTGTGACATGCTTCGGCCTTGAGA-TATAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACTATAAGCC
68142152 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
68142183 TACGAGAGGT
Statistics
Matches: 97, Mismatches: 19, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
44 1 0.01
45 10 0.10
46 54 0.56
47 17 0.18
48 11 0.11
51 3 0.03
52 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACTATAAGCC
Found at i:68148870 original size:46 final size:44
Alignment explanation
Indices: 68148746--68148908 Score: 150
Period size: 46 Copynumber: 3.5 Consensus size: 44
68148736 TATGAGAACT
* * *
68148746 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GACAGGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GAATCGGC--T-ACGAGAGGTGCC
* ** * *
68148794 AGTGTAAGACATGTCTGGAACATGCTTCGGCCT-CTAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGAATCGG-CTACGAGAGGT--GCC
*
68148840 AGTGTAAGACATGTCTGGGACATGAATCGGCTACGAGAGGTGTC
1 AGTGTAAGACATGTCTGGGACATGAATCGGCTACGAGAGGTGCC
68148884 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
68148909 GCAGTGACAC
Statistics
Matches: 97, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
44 15 0.15
45 18 0.19
46 41 0.42
47 14 0.14
48 9 0.09
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGAATCGGCTACGAGAGGTGCC
Found at i:68153521 original size:47 final size:49
Alignment explanation
Indices: 68153440--68153560 Score: 137
Period size: 47 Copynumber: 2.6 Consensus size: 49
68153430 GTGAGCTAGC
* **
68153440 GTAAGA-CATGTCTAGGACAT-GTATC-AGCTATGAGAAGAT-AGTTAGT
1 GTAAGACCATGTCTAGGACATGGCATCGAGCTATGAG-AGATAAGCCAGT
* *
68153486 GTAAGACCATGTCTGGGACATGGCATCGA-CT-TGAGATATAAGCCAGT
1 GTAAGACCATGTCTAGGACATGGCATCGAGCTATGAGAGATAAGCCAGT
*
68153533 GTAAGACCGTGTCTAGGACATGGCATCG
1 GTAAGACCATGTCTAGGACATGGCATCG
68153561 GTACCTTACC
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
46 9 0.14
47 48 0.75
48 6 0.09
49 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (49 bp):
GTAAGACCATGTCTAGGACATGGCATCGAGCTATGAGAGATAAGCCAGT
Found at i:68172513 original size:39 final size:39
Alignment explanation
Indices: 68172466--68172648 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
68172456 AATGTTCGAG
68172466 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
68172505 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
68172544 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
68172583 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
68172623 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
68172649 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:68179942 original size:39 final size:39
Alignment explanation
Indices: 68179895--68180077 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
68179885 AATGTTCGAG
68179895 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
68179934 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
68179973 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
68180012 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
68180052 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
68180078 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:68184234 original size:30 final size:29
Alignment explanation
Indices: 68184187--68184246 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
68184177 TCCTTAACTC
68184187 AAACTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTGCAAAATTACAATTTTGCCCCT
* * *
68184216 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAAC-TTTGCAAAATTACAATTTTGCCCCT
68184246 A
1 A
68184247 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (29 bp):
AAACTTTGCAAAATTACAATTTTGCCCCT
Found at i:68186602 original size:2 final size:2
Alignment explanation
Indices: 68186595--68186621 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
68186585 GAGACTAGTC
68186595 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
68186622 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:68187813 original size:50 final size:49
Alignment explanation
Indices: 68187700--68187884 Score: 203
Period size: 50 Copynumber: 3.7 Consensus size: 49
68187690 CTGGTACGCA
* *
68187700 TAGTAGCCTGCACTTAGTACTACACATGCT-ACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACG-TGACCTAATTAT-CAGTACACG
* *
68187749 TAGTAGCCTACACTTAGTACTACACACGTGACCTAATTATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATC-AGTACACG
* * * ** *
68187799 TAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TTATCA-GTACACG
* *
68187850 TAGTAGCCTGCACTTAGTACTACACATGCGACCTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTA
68187885 GCTACATATA
Statistics
Matches: 114, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 30 0.26
50 45 0.39
51 38 0.33
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCAGTACACG
Found at i:68187875 original size:101 final size:99
Alignment explanation
Indices: 68187700--68187884 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 99
68187690 CTGGTACGCA
* * *
68187700 TAGTAGCCTGCACTTAGTACTACACATGCTACCAATTATCCGGTACACGTAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGATACCAATTATCAGGTACACATAGTAGCCTACACTTA
*
68187765 GTACTACACACGTGACCTAATTATCTAATACACG
66 GTACTACACACGCGACCTAATTATCTAATACACG
* * ** *
68187799 TAGTAGCTTGCACTTAGTACTACACACGTGAT-CGAAGTTATCAGGTATGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACA--TGATACCAA-TTATCAGGTACACATAGTAGCCTACAC
*
68187863 TTAGTACTACACATGCGACCTA
63 TTAGTACTACACACGCGACCTA
68187885 GCTACATATA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
99 25 0.34
100 3 0.04
101 45 0.62
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGATACCAATTATCAGGTACACATAGTAGCCTACACTTA
GTACTACACACGCGACCTAATTATCTAATACACG
Found at i:68189728 original size:40 final size:40
Alignment explanation
Indices: 68189683--68189849 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
68189673 CGGAATATAA
68189683 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
68189723 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
68189763 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
68189803 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
68189842 CCGGATAT
1 CCGGATAT
68189850 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68189833 original size:80 final size:79
Alignment explanation
Indices: 68189683--68189849 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
68189673 CGGAATATAA
* *
68189683 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
68189748 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
68189763 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
68189825 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
68189842 CCGGATAT
1 CCGGATAT
68189850 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:68190697 original size:17 final size:19
Alignment explanation
Indices: 68190674--68190719 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
68190664 AAGAAGCATG
68190674 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
68190692 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
68190710 AATCATGCTC
1 AATCATGCTC
68190720 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:68197729 original size:40 final size:40
Alignment explanation
Indices: 68197684--68197850 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
68197674 CGGAATATAA
68197684 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
68197724 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
68197764 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
68197804 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
68197843 CCGGATAT
1 CCGGATAT
68197851 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:68197834 original size:80 final size:79
Alignment explanation
Indices: 68197684--68197850 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
68197674 CGGAATATAA
* *
68197684 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
68197749 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
68197764 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
68197826 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
68197843 CCGGATAT
1 CCGGATAT
68197851 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:68198698 original size:17 final size:19
Alignment explanation
Indices: 68198675--68198720 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
68198665 AAGAAGCATG
68198675 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
68198693 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
68198711 AATCATGCTC
1 AATCATGCTC
68198721 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:68206017 original size:47 final size:48
Alignment explanation
Indices: 68205903--68206017 Score: 148
Period size: 47 Copynumber: 2.5 Consensus size: 48
68205893 TAAGCTAGCC
* *
68205903 TAAGAC-ATGTCTGGGACAT-GCATCGGCTACGAGATGATAGTCAGTG
1 TAAGACAATGTCTGGGACATGGCATCGACTACGAGATGATAGCCAGTG
*
68205949 TAAGACAATGTCTGGGACATGGCATCGACT-TGAGAT-ATGAGCCAGTG
1 TAAGACAATGTCTGGGACATGGCATCGACTACGAGATGAT-AGCCAGTG
**
68205996 TAAGACCGTGTCTGGGACATGG
1 TAAGACAATGTCTGGGACATGG
68206018 TATTAGCACC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
46 8 0.13
47 45 0.74
48 8 0.13
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.23
Consensus pattern (48 bp):
TAAGACAATGTCTGGGACATGGCATCGACTACGAGATGATAGCCAGTG
Found at i:68213319 original size:43 final size:42
Alignment explanation
Indices: 68213272--68213405 Score: 137
Period size: 43 Copynumber: 3.2 Consensus size: 42
68213262 TGTGTTCTCA
*
68213272 TGTAAGAATACATCTAGGACATTGGCATCGATATGTGATTACG
1 TGTAAGAATACATCTGGGACATTGGCATCGATATGTGATT-CG
* ** *
68213315 TGTAAGACTATGTCTGGGACATTGGCATCG-TATTTGATTCG
1 TGTAAGAATACATCTGGGACATTGGCATCGATATGTGATTCG
** * * *
68213356 TGTAAG-ACCCTATCCGGGACAGTGGCATCGATATGTGATTGCA
1 TGTAAGAATAC-ATCTGGGACATTGGCATCGATATGTGATT-CG
68213399 TGTAAGA
1 TGTAAGA
68213406 CCATGTCTAA
Statistics
Matches: 73, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
41 24 0.33
42 16 0.22
43 33 0.45
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (42 bp):
TGTAAGAATACATCTGGGACATTGGCATCGATATGTGATTCG
Found at i:68213375 original size:41 final size:43
Alignment explanation
Indices: 68213288--68213409 Score: 158
Period size: 41 Copynumber: 2.9 Consensus size: 43
68213278 AATACATCTA
* * *
68213288 GGACATTGGCATCGATATGTGATTACGTGTAAGACTATGTCTG
1 GGACATTGGCATCGATATGTGATTACGTGTAAGACCATATCCG
* *
68213331 GGACATTGGCATCG-TATTTGATT-CGTGTAAGACCCTATCCG
1 GGACATTGGCATCGATATGTGATTACGTGTAAGACCATATCCG
* * *
68213372 GGACAGTGGCATCGATATGTGATTGCATGTAAGACCAT
1 GGACATTGGCATCGATATGTGATTACGTGTAAGACCAT
68213410 GTCTAAGACC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 27 0.40
42 16 0.24
43 25 0.37
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
GGACATTGGCATCGATATGTGATTACGTGTAAGACCATATCCG
Found at i:68213418 original size:12 final size:12
Alignment explanation
Indices: 68213401--68213425 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68213391 TGATTGCATG
68213401 TAAGACCATGTC
1 TAAGACCATGTC
68213413 TAAGACCATGTC
1 TAAGACCATGTC
68213425 T
1 T
68213426 GAAATGTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (12 bp):
TAAGACCATGTC
Found at i:68213642 original size:18 final size:19
Alignment explanation
Indices: 68213608--68213645 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
68213598 GGTACAAATT
68213608 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
68213627 ATATATG-TGTATATGAAA
1 ATATATGATGTAAATGAAA
68213645 A
1 A
68213646 GTACATTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:68217902 original size:21 final size:21
Alignment explanation
Indices: 68217878--68217928 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
68217868 ACCAAGTTAA
68217878 AAGAGTTGAAACCACATCTGC
1 AAGAGTTGAAACCACATCTGC
* *
68217899 AAGAATTGAAAGCACATCTGC
1 AAGAGTTGAAACCACATCTGC
*
68217920 AAAAGTTGA
1 AAGAGTTGA
68217929 CAAATAAGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (21 bp):
AAGAGTTGAAACCACATCTGC
Found at i:68230094 original size:93 final size:93
Alignment explanation
Indices: 68229987--68230159 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
68229977 CGCCCATAAG
* * *
68229987 CGAACTCGGACTCAACTCAATGA-TCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGT-TCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTC
68230051 AACAAGCTCGGATGCCTAGTTACATCTCT
65 AACAAGCTCGGATGCCTAGTTACATCTCT
*
68230080 CGAACTCGGACTCAACTCAACGAGTTGGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
68230145 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
68230160 CAAATACCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 72 0.99
94 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCT
Found at i:68230149 original size:46 final size:45
Alignment explanation
Indices: 68229980--68230151 Score: 159
Period size: 46 Copynumber: 3.7 Consensus size: 45
68229970 TGTAACCCGC
* * *
68229980 CCATAAGCGAACTCGGACTCAACTCAATGA-TCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT-TGGAGC-TTCGCAT
* * * * *
68230026 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTGGA-GCTTCGCAT
* *** *
68230072 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTGGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTGGAGC-TTCGCAT
68230119 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
68230152 CGGATGCCCA
Statistics
Matches: 98, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
45 1 0.01
46 63 0.64
47 31 0.32
48 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTGGAGCTTCGCAT
Found at i:68244031 original size:25 final size:26
Alignment explanation
Indices: 68243990--68244063 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
68243980 TTACTGATTA
*
68243990 CAACTCGTGAGAGCTTACCGATTCT-
1 CAACTCATGAGAGCTTACCGATTCTG
* *
68244015 CAGCTCAT-ATGAGCTTACTGATT-TG
1 CAACTCATGA-GAGCTTACCGATTCTG
*
68244040 CAACTCATGAGAGCATACCGATTC
1 CAACTCATGAGAGCTTACCGATTC
68244064 ATAGTTTGTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
24 2 0.05
25 36 0.92
26 1 0.03
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (26 bp):
CAACTCATGAGAGCTTACCGATTCTG
Found at i:68265188 original size:46 final size:46
Alignment explanation
Indices: 68265140--68265309 Score: 188
Period size: 45 Copynumber: 3.7 Consensus size: 46
68265130 GTTGAGCATT
*
68265140 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTC
* * *
68265186 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G--TC
* * *
68265233 CGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATG-GAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTC
*
68265278 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
68265310 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 34 0.33
46 27 0.26
47 28 0.27
48 2 0.02
50 5 0.05
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTC
Found at i:68268062 original size:41 final size:41
Alignment explanation
Indices: 68268005--68268086 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
68267995 TCGATTGTTA
68268005 AAGTCTCAGTTGTATTACAGGATATCTCTAAAGGGGGTCTG
1 AAGTCTCAGTTGTATTACAGGATATCTCTAAAGGGGGTCTG
68268046 AAGTCTCAGTTGTATTACAGGATATCTCTAAAGGGGGTCTG
1 AAGTCTCAGTTGTATTACAGGATATCTCTAAAGGGGGTCTG
68268087 TAGACTATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (41 bp):
AAGTCTCAGTTGTATTACAGGATATCTCTAAAGGGGGTCTG
Found at i:68271666 original size:27 final size:26
Alignment explanation
Indices: 68271605--68271669 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
68271595 AAACCCCAAA
* * *
68271605 ATAGGTAAAATAATCGTAATGCTCCT
1 ATAGGTAAAATAACCGTAATACCCCT
*
68271631 GTAGAGTAAAATAACCGTAATACCCCT
1 ATAG-GTAAAATAACCGTAATACCCCT
68271658 ATATGGTAAAAT
1 ATA-GGTAAAAT
68271670 GACGATTATG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
26 3 0.09
27 28 0.88
28 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (26 bp):
ATAGGTAAAATAACCGTAATACCCCT
Found at i:68271846 original size:27 final size:27
Alignment explanation
Indices: 68271816--68271872 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
68271806 AGTACGGTAA
*
68271816 TGGTGACTATGTCACATTCACTGTTAC
1 TGGTGACTATGCCACATTCACTGTTAC
* * * *
68271843 TGGTGGCTTTGCCACATTTACTGTTTC
1 TGGTGACTATGCCACATTCACTGTTAC
68271870 TGG
1 TGG
68271873 CAGCTATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (27 bp):
TGGTGACTATGCCACATTCACTGTTAC
Found at i:68278350 original size:143 final size:141
Alignment explanation
Indices: 68278142--68278436 Score: 554
Period size: 143 Copynumber: 2.1 Consensus size: 141
68278132 TGAGTTAAAT
* *
68278142 TTCGGCCATGCATGTTGTTTTCCTTGGTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGCTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
68278207 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTA--TGTGT
68278272 GTGTGCATGAGTA
129 GTGTGCATGAGTA
68278285 TTCGGCCATGCATGTTGTCTTCCTTGCTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
1 TTCGGCCATGCATGTTGTCTTCCTTGCTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
68278350 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
66 GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
68278415 GTGCATGAGTA
131 GTGCATGAGTA
68278426 TTCGGCCATGC
1 TTCGGCCATGC
68278437 TATAGAATTT
Statistics
Matches: 150, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
141 29 0.19
143 121 0.81
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (141 bp):
TTCGGCCATGCATGTTGTCTTCCTTGCTGAGTGTTTTGATGTTGTTGTGATGAAAGCATGGAGAT
GAGTGAGTTCGAATGTTTAACAAAAAGGAAATTTTGTGCCATTGAGTTCTTGTTGTTATGTGTGT
GTGCATGAGTA
Found at i:68279113 original size:29 final size:29
Alignment explanation
Indices: 68279081--68279211 Score: 163
Period size: 29 Copynumber: 4.5 Consensus size: 29
68279071 TGACGAGATT
* *
68279081 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
* *
68279110 GGCACTAAGTGTGCGTGCTGGAAATATAA
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
*
68279139 GGCACTAAGTGTGCATGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
* * **
68279168 GACACTATGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAAAATAC
**
68279197 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
68279212 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAAAATAC
Found at i:68281701 original size:61 final size:61
Alignment explanation
Indices: 68281626--68281748 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
68281616 AATTATTTGC
68281626 AGCTACAGCAGGTCTAACTATGCTCGATCAATTCCTGTTAAAGAAGGTTTGGCATAATCAT
1 AGCTACAGCAGGTCTAACTATGCTCGATCAATTCCTGTTAAAGAAGGTTTGGCATAATCAT
68281687 AGCTACAGCAGGTCTAACTATGCTCGATCAATTCCTGTTAAAGAAGGTTTGGCATAATCAT
1 AGCTACAGCAGGTCTAACTATGCTCGATCAATTCCTGTTAAAGAAGGTTTGGCATAATCAT
68281748 A
1 A
68281749 TATAGTGCAC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (61 bp):
AGCTACAGCAGGTCTAACTATGCTCGATCAATTCCTGTTAAAGAAGGTTTGGCATAATCAT
Found at i:68288244 original size:43 final size:42
Alignment explanation
Indices: 68288183--68288276 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
68288173 TCCTAGACGT
*
68288183 GGTCTCACATGTAATCAAATATAGATGC-CACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATA-AGATGCTCA-TATCCCAGACAG
* * * *
68288226 GGTCTTACATG-AAGTCAAATACGATGCTGATGTCCCAGACAT
1 GGTCTTACATGTAA-TCAAATAAGATGCTCATATCCCAGACAG
68288268 GGTCTTACA
1 GGTCTTACA
68288277 CGAAATCACA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
42 26 0.59
43 18 0.41
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATAAGATGCTCATATCCCAGACAG
Found at i:68289276 original size:18 final size:18
Alignment explanation
Indices: 68289253--68289289 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
68289243 TATAAAGACA
68289253 TAGCAATTCAGCACTTAT
1 TAGCAATTCAGCACTTAT
68289271 TAGCAATTCAGCACTTAT
1 TAGCAATTCAGCACTTAT
68289289 T
1 T
68289290 CATGTAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (18 bp):
TAGCAATTCAGCACTTAT
Found at i:68293758 original size:20 final size:20
Alignment explanation
Indices: 68293733--68293778 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
68293723 ATTGGGCCTT
68293733 GCCCATATT-AACATAGTTGG
1 GCCCATATTCAACATAGTT-G
*
68293753 GCCCAT-TTCAATATAGTTG
1 GCCCATATTCAACATAGTTG
68293772 GCCCATA
1 GCCCATA
68293779 ACAAAACAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (20 bp):
GCCCATATTCAACATAGTTG
Found at i:68296220 original size:3 final size:3
Alignment explanation
Indices: 68296212--68296237 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
68296202 TAACATACTA
68296212 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
68296238 CATCCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:68300758 original size:28 final size:28
Alignment explanation
Indices: 68300718--68300782 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
68300708 ATGTACTAGA
*
68300718 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
68300746 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
68300774 ATACCCCTA
1 ATACCCCTA
68300783 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:68300929 original size:28 final size:27
Alignment explanation
Indices: 68300889--68300975 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 27
68300879 GGAAGCGTCT
*
68300889 TGGTGGCTATGCCACAAATTATCTGTTC
1 TGGTGGCAATGCCACAAA-TATCTGTTC
** * *
68300917 TGGTGGCCCTGCCACATATATTTGTTC
1 TGGTGGCAATGCCACAAATATCTGTTC
*
68300944 TGGTGGCATTGCCACAAAATATCTGTATC
1 TGGTGGCAATGCCAC-AAATATCTGT-TC
68300973 TGG
1 TGG
68300976 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 21 0.43
28 23 0.47
29 5 0.10
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (27 bp):
TGGTGGCAATGCCACAAATATCTGTTC
Found at i:68300950 original size:27 final size:28
Alignment explanation
Indices: 68300889--68300975 Score: 95
Period size: 27 Copynumber: 3.1 Consensus size: 28
68300879 GGAAGCGTCT
*
68300889 TGGTGGCTATGCCACAAATTATCTGTTC
1 TGGTGGCAATGCCACAAATTATCTGTTC
** * *
68300917 TGGTGGCCCTGCCACATA-TATTTGTTC
1 TGGTGGCAATGCCACAAATTATCTGTTC
* *
68300944 TGGTGGCATTGCCACAAAATATCTGTATC
1 TGGTGGCAATGCCACAAATTATCTGT-TC
68300973 TGG
1 TGG
68300976 CAGCCATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
27 23 0.47
28 21 0.43
29 5 0.10
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.34
Consensus pattern (28 bp):
TGGTGGCAATGCCACAAATTATCTGTTC
Found at i:68306638 original size:40 final size:40
Alignment explanation
Indices: 68306593--68306800 Score: 193
Period size: 40 Copynumber: 5.2 Consensus size: 40
68306583 CGGAATACAA
*
68306593 CCGGATATAACCACAAGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * * *
68306633 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
68306673 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* *** *
68306713 CCGGATGTGGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAAT-GCCTTCGGGTCTTAGC
* ** ** * * *
68306753 CCGGGTATAATTACTAGCATAAATGTCTTTGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
*
68306793 TCGGATAT
1 CCGGATAT
68306801 CATTCAATTG
Statistics
Matches: 136, Mismatches: 30, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
39 3 0.02
40 130 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:68311875 original size:28 final size:28
Alignment explanation
Indices: 68311835--68311899 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
68311825 ATGTACTAGA
*
68311835 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
68311863 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
68311891 ATACCCCTA
1 ATACCCCTA
68311900 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:68312061 original size:27 final size:28
Alignment explanation
Indices: 68312004--68312091 Score: 103
Period size: 26 Copynumber: 3.2 Consensus size: 28
68311994 AGGAAGCGTC
*
68312004 CTGGTGGCTA-TG-CACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* *
68312031 -TGGTGGCCCTGCCAC-ATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
68312057 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
68312086 CTGGTG
1 CTGGTG
68312092 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
26 18 0.35
27 17 0.33
28 9 0.18
29 7 0.14
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:68312102 original size:29 final size:28
Alignment explanation
Indices: 68312016--68312102 Score: 88
Period size: 27 Copynumber: 3.1 Consensus size: 28
68312006 GGTGGCTATG
* * *
68312016 CACAAATTATCTGTT-TGGTGGCCCTGC
1 CACAAAATATCTGTTCTGGTGACACTGC
* *
68312043 CAC-ATATATCTGTTCTGGTGGCACTGC
1 CACAAAATATCTGTTCTGGTGACACTGC
* *
68312070 CACAAAATATCTGTATCTGGTGACTCTGT
1 CACAAAATATCTGT-TCTGGTGACACTGC
68312099 CACA
1 CACA
68312103 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 9 0.18
27 17 0.34
28 9 0.18
29 15 0.30
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (28 bp):
CACAAAATATCTGTTCTGGTGACACTGC
Found at i:68315609 original size:40 final size:40
Alignment explanation
Indices: 68315549--68315732 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
68315539 TATTCGAATG
*
68315549 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
68315589 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
68315629 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
68315669 ATATCCGGGCTAAG-TCTCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACT
* *
68315709 ATATCCGGGCTAATACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
68315733 CTTGTGCGAG
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 118 0.94
41 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:68315690 original size:80 final size:78
Alignment explanation
Indices: 68315549--68315768 Score: 255
Period size: 80 Copynumber: 2.8 Consensus size: 78
68315539 TATTCGAATG
* * *
68315549 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAG-TCCGAAGGCA
* *
68315614 TTTGTGCGAGTTG-CT
64 TTTATGCGAG-TGACC
*
68315629 ATATTCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGACTATATCCGGGCTAAGTC-CGAAGGCA
*
68315694 TTTATGCTAGTGACC
64 TTTATGCGAGTGACC
* * * ** *
68315709 ATATCCGGGCTAATACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGT-CCGAAG
68315769 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 12 0.10
79 22 0.18
80 88 0.72
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGACTATATCCGGGCTAAGTCCGAAGGCATT
TATGCGAGTGACC
Found at i:68321337 original size:28 final size:27
Alignment explanation
Indices: 68321274--68321343 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
68321264 ATAGTGAGTC
*
68321274 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
68321301 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
68321329 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68321344 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:68325299 original size:39 final size:39
Alignment explanation
Indices: 68325179--68325340 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
68325169 TATGGTAACC
* *
68325179 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
68325219 CGCACAATTGCCTTCGGGCTTA-CCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
68325257 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
68325296 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
68325335 CGCACA
1 CGCACA
68325341 TTCATTCACA
Statistics
Matches: 115, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
38 36 0.31
39 62 0.54
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:68325299 original size:77 final size:79
Alignment explanation
Indices: 68325179--68325329 Score: 261
Period size: 77 Copynumber: 1.9 Consensus size: 79
68325169 TATGGTAACC
68325179 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTA-CC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
68325243 CGGATATCATAGCT
66 CGGATATCATAGCT
* * *
68325257 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
68325321 CGGATATCA
66 CGGATATCA
68325330 CAATTCGCAC
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
77 41 0.59
78 28 0.41
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (79 bp):
CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:68332542 original size:28 final size:27
Alignment explanation
Indices: 68332479--68332548 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
68332469 ATAGTGAGTC
*
68332479 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
68332506 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
68332534 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
68332549 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:68338287 original size:40 final size:40
Alignment explanation
Indices: 68338227--68338410 Score: 230
Period size: 40 Copynumber: 4.6 Consensus size: 40
68338217 TATTCGAATG
* *
68338227 ATATCCGGGCTAAG-TCCCGAAGACTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
68338267 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
68338307 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
68338347 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
68338387 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
68338411 CTTGTGCGAG
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 121 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:68338360 original size:80 final size:80
Alignment explanation
Indices: 68338227--68338410 Score: 255
Period size: 80 Copynumber: 2.3 Consensus size: 80
68338217 TATTCGAATG
* * * *
68338227 ATATCCGGGCTAAGTCCCGAAGACTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
68338291 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
68338307 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
68338372 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
68338387 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
68338411 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 90 0.97
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:68342524 original size:32 final size:32
Alignment explanation
Indices: 68342488--68342557 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
68342478 ATTTTAAAGG
68342488 TTAAAATAGTAAATATGTAATTAATAATTAAA
1 TTAAAATAGTAAATATGTAATTAATAATTAAA
*
68342520 TTAAAATAGTAAATATGTAATTAGTAATTAAA
1 TTAAAATAGTAAATATGTAATTAATAATTAAA
*
68342552 GTAAAA
1 TTAAAA
68342558 GACGACAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (32 bp):
TTAAAATAGTAAATATGTAATTAATAATTAAA
Found at i:68345960 original size:18 final size:18
Alignment explanation
Indices: 68345913--68345963 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
68345903 GGCTATAGAG
68345913 GAAAAGAAGAAGAAGAGGA
1 GAAAAGAAGAAG-AGAGGA
* *
68345932 -AATAGATGAAGAGAGGA
1 GAAAAGAAGAAGAGAGGA
68345949 GAAAAGAAGAAGAGA
1 GAAAAGAAGAAGAGA
68345964 AAAGAATTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.61, C:0.00, G:0.35, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGGA
Found at i:68345969 original size:18 final size:18
Alignment explanation
Indices: 68345913--68345969 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
68345903 GGCTATAGAG
*
68345913 GAAAAGAAGAAGA-AGAG
1 GAAAAGAAGAAGAGAGAA
* *
68345930 GAAATAGATGAAGAGAGGA
1 GAAA-AGAAGAAGAGAGAA
*
68345949 GAAAAGAAGAAGAGAAAA
1 GAAAAGAAGAAGAGAGAA
68345967 GAA
1 GAA
68345970 TTGTTAGAGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 4 0.12
18 22 0.69
19 6 0.19
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.04
Consensus pattern (18 bp):
GAAAAGAAGAAGAGAGAA
Found at i:68348610 original size:17 final size:18
Alignment explanation
Indices: 68348588--68348621 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
68348578 CACATTGAAG
68348588 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
68348605 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
68348622 CCTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:68353298 original size:18 final size:18
Alignment explanation
Indices: 68353274--68353321 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
68353264 GTGTTTTATC
* *
68353274 AAAAACCTTGTTTTCATT
1 AAAAACCTTGTTTACAAT
* *
68353292 GAAAACCCTTCTTTACAAT
1 -AAAAACCTTGTTTACAAT
68353311 AAAAACCTTGT
1 AAAAACCTTGT
68353322 GTAAAATCCC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAAACCTTGTTTACAAT
Found at i:68353495 original size:39 final size:39
Alignment explanation
Indices: 68353438--68353518 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 39
68353428 CAGAAGCTTT
* *
68353438 ATTTAAAACAGATGATCTATGAAAACATGTTATTTAAAA
1 ATTTAAAACAGATAATCTATGAAAACATGTCATTTAAAA
*
68353477 ATTTAAAACAGATAATCTATGAAAACTTGTCATTTAAAA
1 ATTTAAAACAGATAATCTATGAAAACATGTCATTTAAAA
68353516 ATT
1 ATT
68353519 AAGTTGCGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.35
Consensus pattern (39 bp):
ATTTAAAACAGATAATCTATGAAAACATGTCATTTAAAA
Found at i:68356299 original size:35 final size:35
Alignment explanation
Indices: 68356200--68356339 Score: 133
Period size: 35 Copynumber: 4.0 Consensus size: 35
68356190 TCACATATGG
* * *
68356200 CCGAATATACATATTCAAAATAA-CTTCACATATAA
1 CCGAATATACAAATTCAATATAAGC-TCACATGTAA
*
68356235 CC-AAGTATACAAGTTCAAATATAAGCTCACATGTAA
1 CCGAA-TATACAAATTC-AATATAAGCTCACATGTAA
* * *
68356271 TCGAATACTA-AAATTCAATATAATCTCACATGCAA
1 CCGAATA-TACAAATTCAATATAAGCTCACATGTAA
* * *
68356306 CCGAATATACTAGTTCAATATAAGCTGACATGTA
1 CCGAATATACAAATTCAATATAAGCTCACATGTA
68356340 CTCACCTATG
Statistics
Matches: 85, Mismatches: 14, Indels: 12
0.77 0.13 0.11
Matches are distributed among these distances:
34 4 0.05
35 53 0.62
36 23 0.27
37 5 0.06
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (35 bp):
CCGAATATACAAATTCAATATAAGCTCACATGTAA
Found at i:68357134 original size:30 final size:28
Alignment explanation
Indices: 68357100--68357165 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
68357090 ATACTCATAC
* *
68357100 TAGTCCATACATTTTATTTATTTTACATTT
1 TAGTCC-TACAATTTA-TTATTTTACAATT
* *
68357130 TAGTCCTTCAATTTATTATTTTATAATT
1 TAGTCCTACAATTTATTATTTTACAATT
68357158 TAGTCCTA
1 TAGTCCTA
68357166 TTAACTCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 18 0.58
29 7 0.23
30 6 0.19
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.55
Consensus pattern (28 bp):
TAGTCCTACAATTTATTATTTTACAATT
Found at i:68358573 original size:27 final size:28
Alignment explanation
Indices: 68358527--68358600 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 28
68358517 TGGCCTATTT
*
68358527 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * *
68358555 -GGCCCAATCACTTTGATATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
68358582 AAGCCCAATCACATTCATA
1 AGGCCCAATCACATTCATA
68358601 GTCATACAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 23 0.61
28 15 0.39
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:68370239 original size:45 final size:46
Alignment explanation
Indices: 68370175--68370349 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
68370165 ATGTAACCCG
*
68370175 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
68370220 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C--GTTCGCAT
* *
68370270 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
68370313 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
68370350 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 36 0.32
46 29 0.26
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:68370340 original size:93 final size:92
Alignment explanation
Indices: 68370182--68370352 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 92
68370172 CCGCCATAAG
*
68370182 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68370247 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
*
68370274 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
68370339 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
68370353 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 48 0.63
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:68377219 original size:93 final size:93
Alignment explanation
Indices: 68377111--68377281 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
68377101 GCCTATAAGT
* *
68377111 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68377176 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
68377204 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
68377269 CGAGTTCGGATGC
66 CGAGTTCGGATGC
68377282 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Done.