Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008211.1 Hibiscus syriacus cultivar Beakdansim tig00110833_pilon, whole genome shotgun sequence
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: 2208279
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1066156 original size:19 final size:17
Alignment explanation
Indices: 1066120--1066154 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1066110 CGAAGAAAGG
1066120 CAAACCAGTAACTCTCT
1 CAAACCAGTAACTCTCT
1066137 CAAACCAGTAACTCTCT
1 CAAACCAGTAACTCTCT
1066154 C
1 C
1066155 TCTCTCTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.06, T:0.23
Consensus pattern (17 bp):
CAAACCAGTAACTCTCT
Found at i:1069913 original size:37 final size:36
Alignment explanation
Indices: 1069841--1069913 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
1069831 TATATTTTTA
*
1069841 ATTTTGTAAAAAAAATTATATAAATATTATGAATTT
1 ATTTTGTAAAAAAAATTATATAAATATTATCAATTT
* *
1069877 ATTTTTTAAAAGAAAA-TATATAAATATTTTACAATTT
1 ATTTTGTAAAA-AAAATTATATAAATATTAT-CAATTT
1069914 GTAATATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 23 0.72
37 9 0.28
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (36 bp):
ATTTTGTAAAAAAAATTATATAAATATTATCAATTT
Found at i:1071748 original size:2 final size:2
Alignment explanation
Indices: 1071741--1071774 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1071731 AATGTGCTTG
1071741 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1071775 GGTATATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1076215 original size:15 final size:15
Alignment explanation
Indices: 1076195--1076224 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1076185 AGAAAAGAAG
1076195 ATGAAGTGGGGTTAA
1 ATGAAGTGGGGTTAA
1076210 ATGAAGTGGGGTTAA
1 ATGAAGTGGGGTTAA
1076225 TATGGGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.40, T:0.27
Consensus pattern (15 bp):
ATGAAGTGGGGTTAA
Found at i:1077553 original size:10 final size:10
Alignment explanation
Indices: 1077538--1077571 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1077528 CGTTAAAATG
1077538 ATAAACGAAC
1 ATAAACGAAC
*
1077548 ATAAACGAAT
1 ATAAACGAAC
*
1077558 GTAAACGAAC
1 ATAAACGAAC
1077568 ATAA
1 ATAA
1077572 GCGGACGAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.59, C:0.15, G:0.12, T:0.15
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1077945 original size:24 final size:26
Alignment explanation
Indices: 1077917--1077979 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
1077907 CCGTCCCTGG
1077917 ATATAAACGAACG-AACATAAATG-A-
1 ATATAAACGAACGTAA-ATAAATGAAC
*
1077941 ATATAAACGAACGTAAATGAATGAAC
1 ATATAAACGAACGTAAATAAATGAAC
*
1077967 ATATAAATGAACG
1 ATATAAACGAACG
1077980 GATTACCGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
24 19 0.56
25 3 0.09
26 12 0.35
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.19
Consensus pattern (26 bp):
ATATAAACGAACGTAAATAAATGAAC
Found at i:1083758 original size:17 final size:17
Alignment explanation
Indices: 1083738--1083775 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
1083728 GTTCATTTAA
*
1083738 AATATATTTTTTTTATT
1 AATATATTTATTTTATT
1083755 -A-ATATTTATTTTATT
1 AATATATTTATTTTATT
1083770 AATATA
1 AATATA
1083776 ATCTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 4
0.78 0.04 0.17
Matches are distributed among these distances:
15 13 0.72
16 2 0.11
17 3 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
AATATATTTATTTTATT
Found at i:1083784 original size:18 final size:15
Alignment explanation
Indices: 1083741--1083774 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1083731 CATTTAAAAT
*
1083741 ATATTTTTTTTATTA
1 ATATTTATTTTATTA
1083756 ATATTTATTTTATTA
1 ATATTTATTTTATTA
1083771 ATAT
1 ATAT
1083775 AATCTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
ATATTTATTTTATTA
Found at i:1085693 original size:36 final size:36
Alignment explanation
Indices: 1085653--1085722 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
1085643 ATAAAATACT
1085653 TAATTT-AGGGTATAGAATGTAATTAAAGTATTTTTC
1 TAATTTGA-GGTATAGAATGTAATTAAAGTATTTTTC
* *
1085689 TAATTTGAGGTTTAGAATGTAATTGAAGTATTTT
1 TAATTTGAGGTATAGAATGTAATTAAAGTATTTT
1085723 AGAAATTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 30 0.97
37 1 0.03
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (36 bp):
TAATTTGAGGTATAGAATGTAATTAAAGTATTTTTC
Found at i:1087074 original size:38 final size:39
Alignment explanation
Indices: 1087023--1087099 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
1087013 GTTGCGTTCC
1087023 AGCAATTCTTCCTT-TATTTTCTTTGTAAATAAAAAGTT
1 AGCAATTCTTCCTTATATTTTCTTTGTAAATAAAAAGTT
*
1087061 AGCAATTCTTCCTTATTTTTTCTTTGTAAATAAAAAGTT
1 AGCAATTCTTCCTTATATTTTCTTTGTAAATAAAAAGTT
1087100 GAAAGAGCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 14 0.38
39 23 0.62
ACGTcount: A:0.31, C:0.13, G:0.08, T:0.48
Consensus pattern (39 bp):
AGCAATTCTTCCTTATATTTTCTTTGTAAATAAAAAGTT
Found at i:1088404 original size:63 final size:63
Alignment explanation
Indices: 1088336--1088456 Score: 242
Period size: 63 Copynumber: 1.9 Consensus size: 63
1088326 CGAACGTCAT
1088336 CGATCTCGAATACCAAAGCGTTCGACACTCCCACACCGGACGACAACCGAAAGCTGGTCATCA
1 CGATCTCGAATACCAAAGCGTTCGACACTCCCACACCGGACGACAACCGAAAGCTGGTCATCA
1088399 CGATCTCGAATACCAAAGCGTTCGACACTCCCACACCGGACGACAACCGAAAGCTGGT
1 CGATCTCGAATACCAAAGCGTTCGACACTCCCACACCGGACGACAACCGAAAGCTGGT
1088457 ACACCCTGCG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.31, C:0.35, G:0.20, T:0.14
Consensus pattern (63 bp):
CGATCTCGAATACCAAAGCGTTCGACACTCCCACACCGGACGACAACCGAAAGCTGGTCATCA
Found at i:1091888 original size:22 final size:23
Alignment explanation
Indices: 1091860--1091904 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1091850 GGTTTAATCC
1091860 CATCACAC-AAAAAAAACTCACT
1 CATCACACAAAAAAAAACTCACT
1091882 CATCACACAAAAAAAAACTCACT
1 CATCACACAAAAAAAAACTCACT
1091905 ATTAGATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.56, C:0.31, G:0.00, T:0.13
Consensus pattern (23 bp):
CATCACACAAAAAAAAACTCACT
Found at i:1094716 original size:50 final size:49
Alignment explanation
Indices: 1094622--1094716 Score: 109
Period size: 50 Copynumber: 1.9 Consensus size: 49
1094612 AACATTATTA
* ***
1094622 TTTCTACCGGTTTTGTTATTATTGGGCGTTTTACCGATTTTGTTATTTT
1 TTTCTACCGGTTTTGTTATTATTGGGCATTTTACCGAAAATGTTATTTT
* * * *
1094671 TTTCTACCGGGTTTTGTTATTGTTTGGTATTTTATCGAAAATGTTA
1 TTTCTACC-GGTTTTGTTATTATTGGGCATTTTACCGAAAATGTTA
1094717 AAAATATTAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
49 8 0.22
50 29 0.78
ACGTcount: A:0.16, C:0.11, G:0.19, T:0.55
Consensus pattern (49 bp):
TTTCTACCGGTTTTGTTATTATTGGGCATTTTACCGAAAATGTTATTTT
Found at i:1095513 original size:17 final size:17
Alignment explanation
Indices: 1095488--1095521 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1095478 ATACCTAAAG
* *
1095488 TTTAGTTTTTGTTTTAT
1 TTTAATTTTTGTCTTAT
1095505 TTTAATTTTTGTCTTAT
1 TTTAATTTTTGTCTTAT
1095522 CTAAATGGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.09, T:0.74
Consensus pattern (17 bp):
TTTAATTTTTGTCTTAT
Found at i:1098138 original size:30 final size:30
Alignment explanation
Indices: 1098102--1098159 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
1098092 TTTTTCGGCC
*
1098102 CAATAGGGCA-CTCGAAATAATTATTTTGCA
1 CAATAGGACACCTCGAAA-AATTATTTTGCA
*
1098132 CAATAGGACACCTCTAAAAATTATTTTG
1 CAATAGGACACCTCGAAAAATTATTTTG
1098160 GGATTTACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.76
31 6 0.24
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (30 bp):
CAATAGGACACCTCGAAAAATTATTTTGCA
Found at i:1099685 original size:43 final size:40
Alignment explanation
Indices: 1099635--1099946 Score: 164
Period size: 43 Copynumber: 7.2 Consensus size: 40
1099625 TTAATTTAAG
1099635 TTTTTATCTTTATAATTGAGGTTCCTAATTTTTGTAATACTAC
1 TTTTTA-CTTTATAATTGAGGTTCCTAATTTTT-TAAT-CTAC
* * *
1099678 TTTTTATCTTTATAATTGAGGCTCTTAATTTTTTTTCAATTCTAT
1 TTTTTA-CTTTATAATTGAGGTTCCTAA--TTTTTT-AA-TCTAC
* * * *
1099723 TTTTTACATTTATAATTGATGATCCTAAGTTTTTCAATATCAC
1 TTTTTAC-TTTATAATTGAGGTTCCTAA-TTTTTTAATCT-AC
* * ** *
1099766 TTTGTACTTTTATAATTGAGCTT-CTGGTTTTTTTCAAACCTAC
1 TTTTTAC-TTTATAATTGAGGTTCCT-AATTTTTT--AATCTAC
* * * *
1099809 TTTGTACCTTTATAATTAAGG-CCTCTAATTTTTTCAATCTTAT
1 TTTTTA-CTTTATAATTGAGGTTC-CTAATTTTTT-AATC-TAC
* * *
1099852 TTTTTACTTATATAACTT-AAG-CCCTTAATTTTTTTAATCTCGC
1 TTTTTACTT-TATAA-TTGAGGTTCC-TAA-TTTTTTAATCT-AC
* *
1099895 TTTTTACCTTAATAATTGAGGTCCCTAATTTTTTAATCATAC
1 TTTTTA-CTTTATAATTGAGGTTCCTAATTTTTTAATC-TAC
*
1099937 TTTTTTCTTT
1 TTTTTACTTT
1099947 TATAGTTTAA
Statistics
Matches: 210, Mismatches: 37, Indels: 46
0.72 0.13 0.16
Matches are distributed among these distances:
41 3 0.01
42 35 0.17
43 111 0.53
44 27 0.13
45 33 0.16
46 1 0.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (40 bp):
TTTTTACTTTATAATTGAGGTTCCTAATTTTTTAATCTAC
Found at i:1099781 original size:131 final size:128
Alignment explanation
Indices: 1099642--1099946 Score: 295
Period size: 129 Copynumber: 2.4 Consensus size: 128
1099632 AAGTTTTTAT
*
1099642 CTTTATAATTGAGGTTCCTAATTTTTGTAATACTACTTTTTATCTTTATAATTGAGG-CTCTTAA
1 CTTTATAATTGAGGTTCCTAATTTTT-TAATACTACTTTTTATCTTTATAATTAAGGCCTC-TAA
* *
1099706 TTTTTTTTCAAT-TCTATTTTTTACATT-TATAA-TTGATGATCC-TAAGTTTTTCAATATCACT
64 --TTTTTTCAATCT-TATTTTTTAC-TTATATAACTT-AAG-CCCTTAAGTTTTTCAATATCACT
1099767 TTGTAC
123 TTGTAC
* * ** * *
1099773 TTTTATAATTGAGCTT-CTGGTTTTTTTCAA-ACCTACTTTGTACCTTTATAATTAAGGCCTCTA
1 CTTTATAATTGAGGTTCCT-AATTTTTT-AATA-CTACTTTTTATCTTTATAATTAAGGCCTCTA
* * * * *
1099836 ATTTTTTCAATCTTATTTTTTACTTATATAACTTAAGCCCTTAATTTTTTTAATCTCGCTTTTTA
63 ATTTTTTCAATCTTATTTTTTACTTATATAACTTAAGCCCTTAAGTTTTTCAATATCACTTTGTA
1099901 C
128 C
* *
1099902 CTTAATAATTGAGGTCCCTAATTTTTTAAT-CATACTTTTT-TCTTT
1 CTTTATAATTGAGGTTCCTAATTTTTTAATAC-TACTTTTTATCTTT
1099947 TATAGTTTAA
Statistics
Matches: 141, Mismatches: 22, Indels: 26
0.75 0.12 0.14
Matches are distributed among these distances:
127 5 0.04
128 13 0.09
129 65 0.46
130 9 0.06
131 46 0.33
132 3 0.02
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.52
Consensus pattern (128 bp):
CTTTATAATTGAGGTTCCTAATTTTTTAATACTACTTTTTATCTTTATAATTAAGGCCTCTAATT
TTTTCAATCTTATTTTTTACTTATATAACTTAAGCCCTTAAGTTTTTCAATATCACTTTGTAC
Found at i:1099884 original size:86 final size:85
Alignment explanation
Indices: 1099794--1099967 Score: 192
Period size: 86 Copynumber: 2.0 Consensus size: 85
1099784 AGCTTCTGGT
* *
1099794 TTTTTTCAAACCT-ACTTTGTACCTTTATAATTAAGG-CCTCTAATTTTTTCAATCTTA-TTTTT
1 TTTTTT-AAACCTCACTTTGTACCTTAATAATTAAGGTCC-CTAATTTTTT-AATCATACTTTTT
*
1099856 TACTTATATAACTTAAGCCCTTAA
63 T-CTTATATAACTTAAGCCCCTAA
* * * * *
1099880 TTTTTTTAATCTCGCTTTTTACCTTAATAATTGAGGTCCCTAATTTTTTAATCATACTTTTTTCT
1 TTTTTTAAACCTCACTTTGTACCTTAATAATTAAGGTCCCTAATTTTTTAATCATACTTTTTTCT
* **
1099945 TTTATAGTTTAAGCCCCTAA
66 TATATAACTTAAGCCCCTAA
1099965 TTT
1 TTT
1099968 AATCATTTTT
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
85 31 0.42
86 41 0.55
87 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.06, T:0.51
Consensus pattern (85 bp):
TTTTTTAAACCTCACTTTGTACCTTAATAATTAAGGTCCCTAATTTTTTAATCATACTTTTTTCT
TATATAACTTAAGCCCCTAA
Found at i:1099963 original size:42 final size:41
Alignment explanation
Indices: 1099817--1099967 Score: 117
Period size: 42 Copynumber: 3.6 Consensus size: 41
1099807 ACTTTGTACC
*
1099817 TTTATAA-TTAAGGCCTCTAATTTTTTCAATCTTA-TTTTTTACT
1 TTTATAATTTAA-GCCCCTAATTTTTT-AATC-TACTTTTTT-CT
* * * * * *
1099860 TATATAACTTAAGCCCTTAATTTTTTTAATCTCGCTTTTTACC
1 TTTATAATTTAAGCCCCTAA-TTTTTTAATCT-ACTTTTTTCT
* * * *
1099903 TTAATAATTGAGGTCCCTAATTTTTTAATCATACTTTTTTCT
1 TTTATAATTTAAGCCCCTAATTTTTTAATC-TACTTTTTTCT
*
1099945 TTTATAGTTTAAGCCCCTAATTT
1 TTTATAATTTAAGCCCCTAATTT
1099968 AATCATTTTT
Statistics
Matches: 82, Mismatches: 21, Indels: 11
0.72 0.18 0.10
Matches are distributed among these distances:
42 36 0.44
43 31 0.38
44 15 0.18
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.52
Consensus pattern (41 bp):
TTTATAATTTAAGCCCCTAATTTTTTAATCTACTTTTTTCT
Found at i:1101637 original size:29 final size:28
Alignment explanation
Indices: 1101569--1101637 Score: 66
Period size: 29 Copynumber: 2.4 Consensus size: 28
1101559 ACGATATATG
*
1101569 TAAAATTTAGTGAGCAAAATAGAAAAAT
1 TAAAATTCAGTGAGCAAAATAGAAAAAT
* ** * *
1101597 TAAAAGTACAGTGAGTGAAATAAGAGAGAT
1 TAAAA-TTCAGTGAGCAAAAT-AGAAAAAT
1101627 TAAAATTCAGT
1 TAAAATTCAGT
1101638 AAGAAATAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 5 0.16
29 16 0.50
30 11 0.34
ACGTcount: A:0.52, C:0.04, G:0.19, T:0.25
Consensus pattern (28 bp):
TAAAATTCAGTGAGCAAAATAGAAAAAT
Found at i:1108872 original size:65 final size:66
Alignment explanation
Indices: 1108791--1108924 Score: 261
Period size: 65 Copynumber: 2.0 Consensus size: 66
1108781 TATTATATTA
1108791 TAAGATATGATTGTTTAATAAGACAATATGTGAAAAAATAAGTATTATAGTAAAATACC-GATTC
1 TAAGATATGATTGTTTAATAAGACAATATGTGAAAAAATAAGTATTATAGTAAAATACCGGATTC
1108855 T
66 T
1108856 TAAGATATGATTGTTTAATAAGACAATATGTGAAAAAATAAGTATTATAGTAAAATACCGGATTC
1 TAAGATATGATTGTTTAATAAGACAATATGTGAAAAAATAAGTATTATAGTAAAATACCGGATTC
1108921 T
66 T
1108922 TAA
1 TAA
1108925 TGATTCAGAA
Statistics
Matches: 68, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 59 0.87
66 9 0.13
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (66 bp):
TAAGATATGATTGTTTAATAAGACAATATGTGAAAAAATAAGTATTATAGTAAAATACCGGATTC
T
Found at i:1111072 original size:37 final size:39
Alignment explanation
Indices: 1111022--1111100 Score: 144
Period size: 37 Copynumber: 2.1 Consensus size: 39
1111012 CGAGTGTTCT
1111022 AAATTTCCGAGGTAAAGCCAAGA-ATGCATGAAA-CCTC
1 AAATTTCCGAGGTAAAGCCAAGACATGCATGAAACCCTC
1111059 AAATTTCCGAGGTAAAGCCAAGACATGCATGAAACCCTC
1 AAATTTCCGAGGTAAAGCCAAGACATGCATGAAACCCTC
1111098 AAA
1 AAA
1111101 GCATGATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
37 23 0.57
38 10 0.25
39 7 0.17
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (39 bp):
AAATTTCCGAGGTAAAGCCAAGACATGCATGAAACCCTC
Found at i:1119143 original size:3 final size:3
Alignment explanation
Indices: 1119137--1119181 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
1119127 TTTTAAATAA
** *
1119137 TAT TAT TAT TAT CGT TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1119182 GATTTACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1127127 original size:105 final size:104
Alignment explanation
Indices: 1126992--1127301 Score: 406
Period size: 105 Copynumber: 3.0 Consensus size: 104
1126982 CTTAAGACAA
* *
1126992 TTTATCTT-AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGTGATACAAATTTTGAATT
1 TTTAT-TTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTG-GATACAAATTTCGAATT
*
1127056 TGCTTCACTTAAAACAAAATTAATCTCACTTGAGATTGTTG
64 TGCTTCACTTGAAACAAAATTAATCTCACTTGAGATTGTTG
* * * *
1127097 TTTCTTTCAAAACAAATTTCGTCTTGCTTGAGACATTTTTCCTTTAAGATATAAATTTCGAATTT
1 TTTATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTT-GGATACAAATTTCGAATTT
* *
1127162 GCTTCACATGAAACATAATTAATCTCACTTGAGATTGTTG
65 GCTTCACTTGAAACAAAATTAATCTCACTTGAGATTGTTG
* * * ** * * *
1127202 TTTATTTTAAAACAAATTTCGTCTCACTTGAGACATTTTCCCTCAGAATACAAATTTCAAAGTTG
1 TTTATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGGATACAAATTTCGAATTTG
* * *
1127267 TTTTATTTGAAACAAAATTAATCTCACTTGAGATT
66 CTTCACTTGAAACAAAATTAATCTCACTTGAGATT
1127302 TTCAAAACCG
Statistics
Matches: 177, Mismatches: 26, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
104 47 0.27
105 130 0.73
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (104 bp):
TTTATTTCAAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGGATACAAATTTCGAATTTG
CTTCACTTGAAACAAAATTAATCTCACTTGAGATTGTTG
Found at i:1127455 original size:28 final size:28
Alignment explanation
Indices: 1127419--1127523 Score: 122
Period size: 28 Copynumber: 3.6 Consensus size: 28
1127409 TATCGAAACA
1127419 GTTTCTTTTGAAACAAATCTTTGAGTCT
1 GTTTCTTTTGAAACAAATCTTTGAGTCT
* *
1127447 GTTCCTTTTGAATAAAAATCTTTGAGT-T
1 GTTTCTTTTGAA-ACAAATCTTTGAGTCT
1127475 GTTTCTTTTGAAACAAAAAAATCTTTGAGTCT
1 GTTTCTTTTGAAAC----AAATCTTTGAGTCT
* *
1127507 ATTTCTTTGGAAACAAA
1 GTTTCTTTTGAAACAAA
1127524 ATTGTGTCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
27 1 0.02
28 26 0.40
29 13 0.20
31 12 0.18
32 13 0.20
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.43
Consensus pattern (28 bp):
GTTTCTTTTGAAACAAATCTTTGAGTCT
Found at i:1127520 original size:32 final size:31
Alignment explanation
Indices: 1127460--1127524 Score: 103
Period size: 32 Copynumber: 2.1 Consensus size: 31
1127450 CCTTTTGAAT
* *
1127460 AAAAATCTTTGAGTTGTTTCTTTTGAAACAA
1 AAAAATCTTTGAGTTATTTCTTTGGAAACAA
1127491 AAAAATCTTTGAGTCTATTTCTTTGGAAACAA
1 AAAAATCTTTGAGT-TATTTCTTTGGAAACAA
1127523 AA
1 AA
1127525 TTGTGTCTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (31 bp):
AAAAATCTTTGAGTTATTTCTTTGGAAACAA
Found at i:1127607 original size:64 final size:64
Alignment explanation
Indices: 1127489--1127631 Score: 182
Period size: 64 Copynumber: 2.2 Consensus size: 64
1127479 CTTTTGAAAC
*
1127489 AAAAAAATCTTTGAGTCTATTTCTTTGGAAACAAAATTGTGTCTCTCTTAAGACAATTTCTTTTG
1 AAAAAAATCTTTGAGTCTATTTCTTT-GAAACAAAATTGTGTCTCTCTTAAGACAATTTCTCTTG
* * * * *
1127554 AAAAAAATCTTTGAGTTTGTTTCTCTT-AAA-ATGAATTTTGTCTCTCTTGAGACAATTTCTCTT
1 AAAAAAATCTTTGAGTCTATTTCT-TTGAAACA-AAATTGTGTCTCTCTTAAGACAATTTCTCTT
1127617 G
64 G
*
1127618 AAATAAATCTTTGA
1 AAAAAAATCTTTGA
1127632 CTATGTTCCT
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.01
64 44 0.64
65 22 0.32
66 2 0.03
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (64 bp):
AAAAAAATCTTTGAGTCTATTTCTTTGAAACAAAATTGTGTCTCTCTTAAGACAATTTCTCTTG
Found at i:1127765 original size:189 final size:186
Alignment explanation
Indices: 1127420--1127765 Score: 421
Period size: 189 Copynumber: 1.8 Consensus size: 186
1127410 ATCGAAACAG
* * * *
1127420 TTTCTTTTGAAACAAATCTTTGAGTCTGTTCCTTTTGAATAAAAATCTTTGAGTTGTTTCTTTTG
1 TTTCTCTTGAAACAAATCTTTGACTATGTTCCTTTTG-A-AAAAATCTTTGAGTTGTTTCTCTT-
* ** *
1127485 AAACAAAAAAATCTTTGAGTCTATTTCTTTGGAAACAAAATTGTGTCTCTCTTAAGACAATTTCT
63 AAACAAAAAAATCTTTGAGGCTATTTCTTTAAAAAAAAAATTGTGTCTCTCTTAAGACAATTTCT
** *
1127550 TTTGAAAAAAATCTTTGAGTTTGTTTCTCTTAAAATGAATTTTGTCTCTCTTGAGACAA
128 AATGAAAAAAACCTTTGAGTTTGTTTCTCTTAAAATGAATTTTGTCTCTCTTGAGACAA
*
1127609 TTTCTCTTGAAATAAATCTTTGACTATGTTCCTTTTG-AAAAATCTTTGAGTTTGTTTCTCTT-A
1 TTTCTCTTGAAACAAATCTTTGACTATGTTCCTTTTGAAAAAATCTTTGAG-TTGTTTCTCTTAA
** * * *
1127672 ACAAAATCATCTCTT-AGGCTATTTCTTTAAAAAAAACAAATTTTGTCTCTCTTGAGACAGTTTC
65 ACAAAAAAATCT-TTGAGGCTATTTCTTT-AAAAAAA-AAATTGTGTCTCTCTTAAGACAATTTC
1127736 TAATGAAAAACCAACCTTTGA-TATTGTTTC
127 TAATGAAAAA--AACCTTTGAGT-TTGTTTC
1127766 ATTTGAAACA
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
185 23 0.17
186 19 0.14
187 42 0.32
188 1 0.01
189 48 0.36
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (186 bp):
TTTCTCTTGAAACAAATCTTTGACTATGTTCCTTTTGAAAAAATCTTTGAGTTGTTTCTCTTAAA
CAAAAAAATCTTTGAGGCTATTTCTTTAAAAAAAAAATTGTGTCTCTCTTAAGACAATTTCTAAT
GAAAAAAACCTTTGAGTTTGTTTCTCTTAAAATGAATTTTGTCTCTCTTGAGACAA
Found at i:1128051 original size:67 final size:65
Alignment explanation
Indices: 1127938--1128120 Score: 235
Period size: 67 Copynumber: 2.8 Consensus size: 65
1127928 ACACGACAAA
1127938 CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTCATTTGAGACAGTTT-CCTATGAAACA
1 CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTCATTTGAGACAGTTTCCCT-TGAAACA
1128002 C
65 C
* * * ** *
1128003 CAATCTTTGAGAACATTTCCCTTAAAAACAAATTTTGTCTCGCTTGAGACAGTTTCCCTTTAAAC
1 C-ATCTTTGAGATCGTTTCCCTT-AAAACGAATTTTGTCTCATTTGAGACAGTTTCCCTTGAAAC
**
1128068 GT
64 AC
* *
1128070 CATATTTGAG-TCGTTTCCCTTAAAACGAATTTTGTCTCTTTTGAGACAGTT
1 CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTCATTTGAGACAGTT
1128121 GCTTTTAAAA
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
64 27 0.27
65 10 0.10
66 27 0.27
67 34 0.34
68 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (65 bp):
CATCTTTGAGATCGTTTCCCTTAAAACGAATTTTGTCTCATTTGAGACAGTTTCCCTTGAAACAC
Found at i:1128215 original size:28 final size:28
Alignment explanation
Indices: 1128137--1128218 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
1128127 AAAACATATC
*
1128137 ATCTTTGAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTTTGTTTCTCTTGAAACAA
* *
1128165 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAGTTTGTTTCTCTTGAAACAA
** *
1128193 ATCTTTGAGTCGGTTTCCCTTGAAAC
1 ATCTTTGAGTTTGTTTCTCTTGAAAC
1128219 TCTTATCCCT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (28 bp):
ATCTTTGAGTTTGTTTCTCTTGAAACAA
Found at i:1128466 original size:134 final size:135
Alignment explanation
Indices: 1128281--1128585 Score: 468
Period size: 134 Copynumber: 2.3 Consensus size: 135
1128271 ACCCGACCTG
* * *
1128281 ATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAATCAGTCGTCCTCATCATGTAGGAACC
1 ATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACC
* * *
1128346 GAGTTATCACCTTTCCTAAAGAT-GACTAGAACTCTTCATCACGTATGAGCCGTGTCATCCACCG
66 GAGTTATCACCCTTCCTAAAGATGGACAAGAACTCTTCATCACGTATGAGCAGTGTCATCCACCG
1128410 ACCAA
131 ACCAA
* *
1128415 ATCTCTTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACT
1 ATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACC
* *
1128480 GAGTTATCACCCTTCCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCG
66 GAGTTATCACCCTTCCTAAAGATGGACAAGAACTCTTCATCACGTATGAGCAGTGTCATCCACCG
*
1128545 ACCAG
131 ACCAA
* * * *
1128550 ATATCCTCATCACGTAGGAGTCGAGTCACCCATAGA
1 ATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGA
1128586 CGACATGAAC
Statistics
Matches: 154, Mismatches: 16, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
134 82 0.53
135 72 0.47
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (135 bp):
ATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACC
GAGTTATCACCCTTCCTAAAGATGGACAAGAACTCTTCATCACGTATGAGCAGTGTCATCCACCG
ACCAA
Found at i:1128785 original size:3 final size:3
Alignment explanation
Indices: 1128779--1128823 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
1128769 TTTTAAATAA
** *
1128779 TAT TAT TAT TAT CGT TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1128824 GATTTACAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1134722 original size:30 final size:31
Alignment explanation
Indices: 1134656--1134723 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
1134646 TAATTTGTCC
* * *
1134656 CCTAAACTTTATATAGAATATTAATTTAATT
1 CCTAAATTTTAAATAAAATATTAATTTAATT
*
1134687 -TTAAATTTTAAATAAAATATTAATTT-ATT
1 CCTAAATTTTAAATAAAATATTAATTTAATT
1134716 CCTAAATT
1 CCTAAATT
1134724 CGATTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 3 0.10
30 28 0.90
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.47
Consensus pattern (31 bp):
CCTAAATTTTAAATAAAATATTAATTTAATT
Found at i:1136303 original size:416 final size:418
Alignment explanation
Indices: 1135510--1136350 Score: 1427
Period size: 416 Copynumber: 2.0 Consensus size: 418
1135500 CGTTAATCTG
* *
1135510 TCACCCTAGACTGTTATGTCAGCATCGTGAACTATGACGTTAGAACCGTGAACTGTAATGTCTGT
1 TCACCCTAGACTGTCATGTCAGCATCGTGAACTATGAAGTTAGAACCGTGAACTGTAATGTCTGT
* *
1135575 ACCGTAACGGTTAACAACAAAAACCTTTGGTAAAAAGGTCACATTAAGTTTATTTTTTTGAGTTG
66 ACCGTAACAGTTAACAACAAAAACCTTTAGTAAAAAGGTCACATTAAGTTTATTTTTTTGAGTTG
*
1135640 GAAGGTCATATTGACAGAAAAAAATAATAAGAGGGTCATAATGTTTTTTTGAAAACGTACAGGGA
131 GAAGGTCATATTGACAGAAAAAAATAATAAGAGGGTCATAATATTTTTTTGAAAACGTACAGGGA
* **
1135705 CCTCTGATGAATTTTTACCTTTGTTTACAAAACAGATCTCTTTCCTTGACATGCGTATCCAACTT
196 CCTCTGATGAATTTTTACCTTTGTTCACAAAACAGAGATCTTTCCTTGACATGCGTATCCAACTT
*
1135770 CTTCTCCTTCGTTTGTCTGTTTGTTGCTCCAGATTTGGTCTCATCTCGTTCTCAAACATAGCAAA
261 CTTCTCCTTCGTTTGTCAGTTTGTTGCTCCAGATTTGGTCTCATCTCGTTCTCAAACATAGCAAA
* *
1135835 ACTCGGGGCCAGTAGCAAGACACGTACTGTTATGGAGTTTACTTGGAGCACACAAAAATGGTCCA
326 ACTCGGGGCCAATAGCAAGACACGTACTGTAATGGAGTTTACTTGGAGCACACAAAAATGGTCCA
* *
1135900 AATCTAGAGATCAACATTTCGCATAAGT
391 AATCTAGAGACCAACATTCCGCATAAGT
* * * * * *
1135928 TCACCTTAGATTGTCATGTTAGCATCGTGAACTATGAAGTTAGAACTGTGAACTGTCATGTTTGT
1 TCACCCTAGACTGTCATGTCAGCATCGTGAACTATGAAGTTAGAACCGTGAACTGTAATGTCTGT
* * *
1135993 ACCGTAACAGTTAACAATAAAAACCTTTAGTAAAAATGTCACATTGAGTTTATTTTTTTGAGTTG
66 ACCGTAACAGTTAACAACAAAAACCTTTAGTAAAAAGGTCACATTAAGTTTATTTTTTTGAGTTG
* *
1136058 GAGGGTCATATTGACA-AAAAAAATAATAAGAGGGTCATATTATTTTTTTGAAAACGTACA-GGA
131 GAAGGTCATATTGACAGAAAAAAATAATAAGAGGGTCATAATATTTTTTTGAAAACGTACAGGGA
*
1136121 CCTCTGGTGAATTTTTACCTTTGTTCACAAAACAGAGATCTTTCCTTGACATGCGTATCCAACTT
196 CCTCTGATGAATTTTTACCTTTGTTCACAAAACAGAGATCTTTCCTTGACATGCGTATCCAACTT
1136186 CTTCTCCTTCGTTTGTCAGTTTGTTGCTCCAGATTTGGTCTCATCTCGTTCTCAAACATAGCAAA
261 CTTCTCCTTCGTTTGTCAGTTTGTTGCTCCAGATTTGGTCTCATCTCGTTCTCAAACATAGCAAA
1136251 ACTCGGGGCCAATAGCAAGACACGTACTGTAATGGAGTTTACTTGGAGCACACAAAAATGGTCCA
326 ACTCGGGGCCAATAGCAAGACACGTACTGTAATGGAGTTTACTTGGAGCACACAAAAATGGTCCA
1136316 AATCTAGAGACCAACATTCCGCATAA-T
391 AATCTAGAGACCAACATTCCGCATAAGT
1136343 TCCACCCT
1 T-CACCCT
1136351 CTCGAGCCAA
Statistics
Matches: 396, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
415 2 0.01
416 220 0.56
417 42 0.11
418 132 0.33
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (418 bp):
TCACCCTAGACTGTCATGTCAGCATCGTGAACTATGAAGTTAGAACCGTGAACTGTAATGTCTGT
ACCGTAACAGTTAACAACAAAAACCTTTAGTAAAAAGGTCACATTAAGTTTATTTTTTTGAGTTG
GAAGGTCATATTGACAGAAAAAAATAATAAGAGGGTCATAATATTTTTTTGAAAACGTACAGGGA
CCTCTGATGAATTTTTACCTTTGTTCACAAAACAGAGATCTTTCCTTGACATGCGTATCCAACTT
CTTCTCCTTCGTTTGTCAGTTTGTTGCTCCAGATTTGGTCTCATCTCGTTCTCAAACATAGCAAA
ACTCGGGGCCAATAGCAAGACACGTACTGTAATGGAGTTTACTTGGAGCACACAAAAATGGTCCA
AATCTAGAGACCAACATTCCGCATAAGT
Found at i:1139048 original size:2 final size:2
Alignment explanation
Indices: 1139041--1139065 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1139031 GGAATCAATT
1139041 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 T
1139066 CCTTAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1140178 original size:3 final size:3
Alignment explanation
Indices: 1140172--1140305 Score: 142
Period size: 3 Copynumber: 44.0 Consensus size: 3
1140162 TTTATTTAAA
** * * *
1140172 ATT ATT ATT ATT AAA ATT ATT ATT ATT AGT ATT ATT ATT AGT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
1140220 ATT ATT ATT ATT ATT ATA ATA ATA ATA ATA ATA ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1140268 ATTT ATT ATT ATT ATT AAT ATT ATAT ATT ATT ATT ATT
1 A-TT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
1140306 TAATAAATAA
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
3 109 0.95
4 6 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:1147606 original size:17 final size:19
Alignment explanation
Indices: 1147572--1147606 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
1147562 TCCAAGATTG
1147572 GTTTTTATTTACAAAAATT
1 GTTTTTATTTACAAAAATT
1147591 GTTTTT-TTTA-AAAAAT
1 GTTTTTATTTACAAAAAT
1147607 CTTTAATGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.37, C:0.03, G:0.06, T:0.54
Consensus pattern (19 bp):
GTTTTTATTTACAAAAATT
Found at i:1149666 original size:114 final size:114
Alignment explanation
Indices: 1149382--1149722 Score: 592
Period size: 114 Copynumber: 3.0 Consensus size: 114
1149372 AAGTGCCATG
1149382 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
1149447 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTAAAAGATGAATT
1149497 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1149562 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
* *
1149611 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * *
1149676 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTAAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAA
1149723 CTGCATGATC
Statistics
Matches: 217, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 134 0.62
115 83 0.38
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
Found at i:1150959 original size:145 final size:145
Alignment explanation
Indices: 1150696--1151003 Score: 571
Period size: 145 Copynumber: 2.1 Consensus size: 145
1150686 TAGAATATTT
1150696 GGGCATTTTGAAGGCTCACAACAATATGAATATTTAGGCATTCTTGGAGGCTCATCTCAACAAGA
1 GGGCATTTTGAAGGCTCACAACAATATGAATATTTAGGCATTCTTGGAGGCTCATCTCAACAAGA
*
1150761 AGTAATGTTGAACATACTTTTGGCATCTGTATCAGCAAATGTTGGGGCATTTTAAAGGTTCCTTC
66 AGTAATGTTGAACATACTTTTGGCATCTGTATCAGCAAATGTTGGGACATTTTAAAGGTTCCTTC
*
1150826 AGACAGATCAATGTG
131 AGACAGATCAATATG
*
1150841 GGGCATTTTGAAGGCTCACAACAATATGAATATTTGGGCATTCTTGGAGGCTCATCTCAACAAGA
1 GGGCATTTTGAAGGCTCACAACAATATGAATATTTAGGCATTCTTGGAGGCTCATCTCAACAAGA
*
1150906 AGTAATGTTGAACATACTTTTGGCATCTGTATCAGCAAATGTTGGGACATTTTAAAGGTTCTTTC
66 AGTAATGTTGAACATACTTTTGGCATCTGTATCAGCAAATGTTGGGACATTTTAAAGGTTCCTTC
*
1150971 AGACAGATCCATATG
131 AGACAGATCAATATG
1150986 GGGCATTTTGAAGGCTCA
1 GGGCATTTTGAAGGCTCA
1151004 GATTAACAAG
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 158 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (145 bp):
GGGCATTTTGAAGGCTCACAACAATATGAATATTTAGGCATTCTTGGAGGCTCATCTCAACAAGA
AGTAATGTTGAACATACTTTTGGCATCTGTATCAGCAAATGTTGGGACATTTTAAAGGTTCCTTC
AGACAGATCAATATG
Found at i:1151900 original size:54 final size:54
Alignment explanation
Indices: 1151835--1152048 Score: 295
Period size: 54 Copynumber: 3.9 Consensus size: 54
1151825 AGAAATCTTG
* *
1151835 ACAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 ACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1151889 ACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
1 ACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
* * * * *
1151943 ACAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTACTTGACCAATAATC-CA
1 ACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATG-T--TTTACGAA-CATCTGA
* *
1152000 AGCAGAAACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
1 A-CAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
1152049 CAGTGATTAT
Statistics
Matches: 142, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
54 89 0.63
55 7 0.05
57 9 0.06
58 37 0.26
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (54 bp):
ACAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
Found at i:1152040 original size:112 final size:108
Alignment explanation
Indices: 1151835--1152048 Score: 313
Period size: 112 Copynumber: 1.9 Consensus size: 108
1151825 AGAAATCTTG
* * * * *
1151835 ACAGAAGCCACAGTAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGAACAGAAACCAC
1 ACAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTGACCAAAATCTCAACAGAAACCAC
* *
1151900 AGGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATCTGA
66 AGGAAAAGATGAATGTATTGTCAAATGTTTTACGAACATCTGA
1151943 ACAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTACTTGACCAATAATC-CAAGCAGAA
1 ACAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATG-T--TTGACCAA-AATCTCAA-CAGAA
1152007 ACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
61 ACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
1152049 CAGTGATTAT
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
108 37 0.39
109 1 0.01
111 8 0.09
112 48 0.51
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.23
Consensus pattern (108 bp):
ACAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGTTTGACCAAAATCTCAACAGAAACCAC
AGGAAAAGATGAATGTATTGTCAAATGTTTTACGAACATCTGA
Found at i:1153175 original size:76 final size:76
Alignment explanation
Indices: 1153093--1153732 Score: 1201
Period size: 76 Copynumber: 8.4 Consensus size: 76
1153083 CTATTTCCCC
1153093 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153158 AGCC-TCAGGGT
66 AGCCTTC-GGGT
1153169 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153234 AGCCTTCGGGT
66 AGCCTTCGGGT
*
1153245 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
1153310 AAGCCTTAGGGT
65 AAGCCTTCGGGT
1153322 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153387 AGCCTTCGGGT
66 AGCCTTCGGGT
1153398 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153463 AGCCTTCGGGT
66 AGCCTTCGGGT
*
1153474 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153539 AGCCTTCGGGT
66 AGCCTTCGGGT
*
1153550 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
1153615 AAGCCTTAGGGT
65 AAGCCTTCGGGT
1153627 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153692 AGCCTTCGGGT
66 AGCCTTCGGGT
1153703 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1153733 TCAACATTTC
Statistics
Matches: 551, Mismatches: 10, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
76 401 0.73
77 150 0.27
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:1153494 original size:229 final size:228
Alignment explanation
Indices: 1153093--1153732 Score: 1201
Period size: 229 Copynumber: 2.8 Consensus size: 228
1153083 CTATTTCCCC
1153093 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153158 AGCC-TCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AGCCTTC-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1153222 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
*
1153287 CGGGAGCTTTTTGATGTTTACAAAAGCCTTAGGGT
195 CGGGAGCTTTTTGATATTTAC-AAAGCCTTAGGGT
1153322 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153387 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
1153452 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
* *
1153517 GGGAGCTTTTTGATATTTTCAAAGCCTTCGGGT
196 GGGAGCTTTTTGATATTTACAAAGCCTTAGGGT
*
1153550 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
*
1153615 AAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1153680 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
1153733 TCAACATTTC
Statistics
Matches: 404, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
228 74 0.18
229 328 0.81
230 2 0.00
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATATTTACAAAGCCTTAGGGT
Found at i:1153644 original size:305 final size:305
Alignment explanation
Indices: 1153093--1153732 Score: 1255
Period size: 305 Copynumber: 2.1 Consensus size: 305
1153083 CTATTTCCCC
1153093 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153158 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
1153223 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
1153288 GGGAGCTTTTTGATGTTTACAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
196 GGGAGCTTTTTGATGTTTACAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
1153353 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
261 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
1153398 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1153463 AGCCTTC-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
66 AGCC-TCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1153527 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
1153592 CGGGAGCTTTTTGATGTTTACAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
195 CGGGAGCTTTTTGATGTTTACAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
1153657 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
260 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
1153703 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
1153733 TCAACATTTC
Statistics
Matches: 333, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
305 331 0.99
306 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (305 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTCAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTACAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:1153870 original size:3 final size:3
Alignment explanation
Indices: 1153864--1153981 Score: 130
Period size: 3 Copynumber: 39.0 Consensus size: 3
1153854 TTTATTTAAA
** * * *
1153864 ATT ATT ATT ATT AAA ATT ATT ATT ATT AGT ATT ATT ATT AGT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
1153912 ATT ATT ATT A-T ATA ATA ATA ATT ATT ATT ATT ATT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
*
1153957 ATT AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT
1153982 TAATAAATAA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
2 2 0.02
3 90 0.92
4 6 0.06
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:1155454 original size:35 final size:35
Alignment explanation
Indices: 1155379--1155454 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
1155369 TAACTTAATT
*
1155379 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
1155414 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
1155449 TTTATT
1 TTTATT
1155455 TATTAATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:1160463 original size:20 final size:20
Alignment explanation
Indices: 1160438--1160476 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1160428 CGATATATTA
1160438 TATTTAAAATTA-TTAAAATT
1 TATTT-AAATTACTTAAAATT
1160458 TATTTAAATTACTTAAAAT
1 TATTTAAATTACTTAAAAT
1160477 CAATTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTTAAATTACTTAAAATT
Found at i:1167189 original size:2 final size:2
Alignment explanation
Indices: 1167176--1167211 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
1167166 TCGTGGACTT
1167176 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1167212 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1174007 original size:17 final size:17
Alignment explanation
Indices: 1173985--1174026 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
1173975 CAATTTAAAC
*
1173985 TATAATAAAAATATAA-T
1 TATAATAAAAACA-AATT
1174002 TATAATAAAAACAAATT
1 TATAATAAAAACAAATT
1174019 TATAATAA
1 TATAATAA
1174027 CTCACTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAATAAAAACAAATT
Found at i:1174481 original size:118 final size:119
Alignment explanation
Indices: 1174355--1174581 Score: 330
Period size: 118 Copynumber: 1.9 Consensus size: 119
1174345 ATGTGTCAAT
* * ** * *
1174355 CTAAAAAATATTTCTGGATCTGACATTGTGCCTCAGTAAGGGTAAAAATATAAATTCGCTTCAAA
1 CTAAAAAATATTTCTAGATCTGACACTGTGAATCAATAAGAGTAAAAATATAAATTCGCTTCAAA
*
1174420 ACGCAAAGTTAAAAATG-AAAAAAATAGAAATCCTAGCTTTTGCAGTGTGCATC
66 AAGCAAAGTTAAAAATGAAAAAAAATAGAAATCCTAGCTTTTGCAGTGTGCATC
* * *
1174473 CTAAAAAATATTTCTAGATCTGACACTGTGAATCAATAAGAGTAGAAATATAATTTTGCTTCAAA
1 CTAAAAAATATTTCTAGATCTGACACTGTGAATCAATAAGAGTAAAAATATAAATTCGCTTCAAA
* * *
1174538 AAGTAAAGTTGAAAATGAAAAAAAATAGAAATCTTAGCTTTTGC
66 AAGCAAAGTTAAAAATGAAAAAAAATAGAAATCCTAGCTTTTGC
1174582 GGTTGGTTTG
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
118 70 0.74
119 25 0.26
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (119 bp):
CTAAAAAATATTTCTAGATCTGACACTGTGAATCAATAAGAGTAAAAATATAAATTCGCTTCAAA
AAGCAAAGTTAAAAATGAAAAAAAATAGAAATCCTAGCTTTTGCAGTGTGCATC
Found at i:1174777 original size:2 final size:2
Alignment explanation
Indices: 1174770--1174819 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1174760 TTTACATTTA
1174770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1174812 AG AT AT AT
1 AT AT AT AT
1174820 CACACCTCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1175671 original size:22 final size:22
Alignment explanation
Indices: 1175646--1175690 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1175636 CGAGTCAACC
* * *
1175646 CTTTGACTGGTCTGACTGTTGA
1 CTTTGACCGGTCAGACCGTTGA
1175668 CTTTGACCGGTCAGACCGTTGA
1 CTTTGACCGGTCAGACCGTTGA
1175690 C
1 C
1175691 CGTTGACTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (22 bp):
CTTTGACCGGTCAGACCGTTGA
Found at i:1175869 original size:23 final size:23
Alignment explanation
Indices: 1175839--1175890 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1175829 ATATGGTTTC
* *
1175839 TAAATTAAGTCTAGTTTCTGACG
1 TAAATTAAGTCTAGTTTCTAACA
*
1175862 TAAATTAAGTTTAGTTTCTAACA
1 TAAATTAAGTCTAGTTTCTAACA
1175885 TAAATT
1 TAAATT
1175891 CGGTTGCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (23 bp):
TAAATTAAGTCTAGTTTCTAACA
Found at i:1177813 original size:14 final size:15
Alignment explanation
Indices: 1177779--1177813 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1177769 GATTACTATA
*
1177779 GTTTTTGAAAAATAT
1 GTTTTTGAAAAATAC
1177794 GTTTTTGAAAAATAC
1 GTTTTTGAAAAATAC
1177809 GTTTT
1 GTTTT
1177814 AAACTGCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (15 bp):
GTTTTTGAAAAATAC
Found at i:1179552 original size:30 final size:31
Alignment explanation
Indices: 1179494--1179573 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
1179484 TAGACAATGG
* * * *
1179494 TCGACTCGTGTTCGTTAAAAAATTTTGTTTC
1 TCGAATCGTGCTCGTTAAAAAATCTTGTTGC
1179525 TCGAATCGTGCTCGTTAAAAAA-CTTGTTGC
1 TCGAATCGTGCTCGTTAAAAAATCTTGTTGC
* *
1179555 TCGATTAGTTGCTCGTTAA
1 TCGAATCG-TGCTCGTTAA
1179574 GCTCGATGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 12 0.29
31 30 0.71
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (31 bp):
TCGAATCGTGCTCGTTAAAAAATCTTGTTGC
Found at i:1192255 original size:23 final size:24
Alignment explanation
Indices: 1192194--1192256 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 24
1192184 AAAATAATTT
*
1192194 TACCTTTATGACACGTCTTCATCTA
1 TACCTTTATGGCACGT-TTCATCTA
* * *
1192219 T--CTTTATTGTACGTTT-TTCTA
1 TACCTTTATGGCACGTTTCATCTA
1192240 TACCTTTATGGCACGTT
1 TACCTTTATGGCACGTT
1192257 CCGGTTGTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
21 5 0.17
22 2 0.07
23 22 0.73
25 1 0.03
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (24 bp):
TACCTTTATGGCACGTTTCATCTA
Found at i:1203560 original size:23 final size:23
Alignment explanation
Indices: 1203526--1203594 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
1203516 CACAACAGCT
*
1203526 CGTATAAAATGCACCAAAGTGCCG
1 CGTA-AAAATGCACCGAAGTGCCG
*
1203550 CGTAGAAATGCACCGAAGTGCCG
1 CGTAAAAATGCACCGAAGTGCCG
*
1203573 CGTAAAAATACACCGAAGTGCC
1 CGTAAAAATGCACCGAAGTGCC
1203595 ACATAGAATG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 37 0.90
24 4 0.10
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.14
Consensus pattern (23 bp):
CGTAAAAATGCACCGAAGTGCCG
Found at i:1203628 original size:21 final size:22
Alignment explanation
Indices: 1203585--1203650 Score: 82
Period size: 21 Copynumber: 3.0 Consensus size: 22
1203575 TAAAAATACA
1203585 CCGAAGTG-CCACATAGAATGTC
1 CCGAAG-GACCACATAGAATGTC
*
1203607 CCGAAGGACCACATA-TATGTC
1 CCGAAGGACCACATAGAATGTC
*
1203628 CCGAAGGACCACGTAGAAATGTC
1 CCGAAGGACCACATAG-AATGTC
1203651 TTGAATGATC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 20 0.53
22 13 0.34
23 5 0.13
ACGTcount: A:0.33, C:0.27, G:0.23, T:0.17
Consensus pattern (22 bp):
CCGAAGGACCACATAGAATGTC
Found at i:1206127 original size:20 final size:20
Alignment explanation
Indices: 1206102--1206139 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1206092 CACAGGTTAA
1206102 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
1206122 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
1206140 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:1206935 original size:18 final size:18
Alignment explanation
Indices: 1206912--1206963 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
1206902 GGGTTTACGC
*
1206912 GATCCTTCGGGATATAGT
1 GATCCTTCGGGACATAGT
*
1206930 GATCCTTTGGGACATAGT
1 GATCCTTCGGGACATAGT
* *
1206948 GGTCCTTCGAGACATA
1 GATCCTTCGGGACATA
1206964 AGTGTTATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (18 bp):
GATCCTTCGGGACATAGT
Found at i:1208399 original size:2 final size:2
Alignment explanation
Indices: 1208392--1208420 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1208382 TTCATGTTTG
1208392 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1208421 CAAACAGAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1208661 original size:2 final size:2
Alignment explanation
Indices: 1208654--1208681 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1208644 TGTCATCCAC
1208654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1208682 GGGCATGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1213541 original size:3 final size:3
Alignment explanation
Indices: 1213533--1213582 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
1213523 TTTAATTTTG
* * *
1213533 ATT ATT ATT AGT ATT GTT ATT ATT CATAT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -AT-T ATT ATT ATT ATT ATT ATT
1213580 ATT
1 ATT
1213583 TACTAAATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 34 0.87
4 4 0.10
5 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1218178 original size:9 final size:9
Alignment explanation
Indices: 1218164--1218190 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1218154 AATTGTCTAA
1218164 TTGATAGAT
1 TTGATAGAT
1218173 TTGATAGAT
1 TTGATAGAT
1218182 TTGATAGAT
1 TTGATAGAT
1218191 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
TTGATAGAT
Found at i:1221296 original size:38 final size:35
Alignment explanation
Indices: 1221218--1221308 Score: 105
Period size: 38 Copynumber: 2.5 Consensus size: 35
1221208 AGTCATATAT
1221218 TCGGGTCGGGTCGGGTCGGGTGAAACCTTAATTTCG
1 TCGGGTCGGGTCGGGTCGGGTGAAACCTT-ATTTCG
1221254 TCGGGTCGGGTCGGGTCACGGGTGAAAACCCTT-TCTTC-
1 TCGGGTCGGGTCGGGT--CGGGTG-AAA-CCTTAT-TTCG
1221292 TCGGGTCGGGTCCGGGT
1 TCGGGTCGGGT-CGGGT
1221309 GGCCCAAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
36 16 0.33
38 18 0.37
39 11 0.22
40 4 0.08
ACGTcount: A:0.11, C:0.23, G:0.40, T:0.26
Consensus pattern (35 bp):
TCGGGTCGGGTCGGGTCGGGTGAAACCTTATTTCG
Found at i:1222255 original size:29 final size:29
Alignment explanation
Indices: 1222203--1222267 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
1222193 TGGCGGAGTG
*
1222203 GGTGGAAAGAAATATGATAATGGAAGCTT
1 GGTGGAAAGAAATAGGATAATGGAAGCTT
* **
1222232 GGTGGAAAGAAATGGGATGGTGGAAGCTT
1 GGTGGAAAGAAATAGGATAATGGAAGCTT
1222261 GGTGGAA
1 GGTGGAA
1222268 GATGGGCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.35, C:0.03, G:0.40, T:0.22
Consensus pattern (29 bp):
GGTGGAAAGAAATAGGATAATGGAAGCTT
Found at i:1233183 original size:15 final size:16
Alignment explanation
Indices: 1233157--1233186 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1233147 AGTCTTACCC
1233157 AAAACTATTTAAAAAA
1 AAAACTATTTAAAAAA
1233173 AAAACTA-TTAAAAA
1 AAAACTATTTAAAAA
1233187 CAATGGATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (16 bp):
AAAACTATTTAAAAAA
Found at i:1234727 original size:99 final size:100
Alignment explanation
Indices: 1234551--1234750 Score: 393
Period size: 99 Copynumber: 2.0 Consensus size: 100
1234541 GTTCAAATCC
1234551 TTCGATTCCTTTTAATAATATACTAAATAAGATTCCATTTTGTTTTGGAATTCTGAATTTGAAAG
1 TTCGATTCCTTTTAATAATATACTAAATAAGATTCCATTTTGTTTTGGAATTCTGAATTTGAAAG
1234616 TGTATCTGTTCATATCAGAATCTGAGTGATTCAAT
66 TGTATCTGTTCATATCAGAATCTGAGTGATTCAAT
1234651 TTCGATTCCTTTTAATAATATACTAAATAAGATTCCA-TTTGTTTTGGAATTCTGAATTTGAAAG
1 TTCGATTCCTTTTAATAATATACTAAATAAGATTCCATTTTGTTTTGGAATTCTGAATTTGAAAG
1234715 TGTATCTGTTCATATCAGAATCTGAGTGATTCAAT
66 TGTATCTGTTCATATCAGAATCTGAGTGATTCAAT
1234750 T
1 T
1234751 GATAATGTGG
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
99 63 0.63
100 37 0.37
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (100 bp):
TTCGATTCCTTTTAATAATATACTAAATAAGATTCCATTTTGTTTTGGAATTCTGAATTTGAAAG
TGTATCTGTTCATATCAGAATCTGAGTGATTCAAT
Found at i:1244481 original size:32 final size:33
Alignment explanation
Indices: 1244443--1244505 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1244433 GATTAACGTG
*
1244443 TTTAGTACCTAAA-TTAT-TAATTTTTTTTCTGT
1 TTTAGTACCTAAACTT-TCAAATTTTTTTTCTGT
*
1244475 TTTAGTATCTAAACTTTCAAATTTTTTTTCT
1 TTTAGTACCTAAACTTTCAAATTTTTTTTCT
1244506 AAACCTAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.59
Consensus pattern (33 bp):
TTTAGTACCTAAACTTTCAAATTTTTTTTCTGT
Found at i:1247721 original size:14 final size:14
Alignment explanation
Indices: 1247702--1247731 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1247692 AATTCTGGGT
1247702 TTTTTTTAGGGTAC
1 TTTTTTTAGGGTAC
1247716 TTTTTTTAGGGTAC
1 TTTTTTTAGGGTAC
1247730 TT
1 TT
1247732 CTTAAACCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.07, G:0.20, T:0.60
Consensus pattern (14 bp):
TTTTTTTAGGGTAC
Found at i:1250737 original size:39 final size:39
Alignment explanation
Indices: 1250632--1250729 Score: 160
Period size: 39 Copynumber: 2.5 Consensus size: 39
1250622 AATTGCATAT
* *
1250632 CAAGAGCAGAATGTACTTGTCCCTTATACTATCAGATAC
1 CAAGAGCACAATGCACTTGTCCCTTATACTATCAGATAC
*
1250671 CAAGAGCACAATGCACTTGTCCCTTATACTATCAGGTAC
1 CAAGAGCACAATGCACTTGTCCCTTATACTATCAGATAC
*
1250710 CAAGAGCGCAATGCACTTGT
1 CAAGAGCACAATGCACTTGT
1250730 TGTTTATAGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (39 bp):
CAAGAGCACAATGCACTTGTCCCTTATACTATCAGATAC
Found at i:1258472 original size:53 final size:53
Alignment explanation
Indices: 1258405--1258509 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
1258395 GACGGCTCAC
* * *
1258405 AAAGCTTAGACGATTTCAATATGGTGAAAACAGGGGTGAAGTATAAACTAAGT
1 AAAGCTTAGACGATTGCAATATGGTAAAAACAGGGATGAAGTATAAACTAAGT
* *
1258458 AAAGCTTAGGCGATTGCAGTATGGTAAAAACAGGGATGAAGTATAAACTAAG
1 AAAGCTTAGACGATTGCAATATGGTAAAAACAGGGATGAAGTATAAACTAAG
1258510 CAAAAAACAA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.42, C:0.10, G:0.26, T:0.23
Consensus pattern (53 bp):
AAAGCTTAGACGATTGCAATATGGTAAAAACAGGGATGAAGTATAAACTAAGT
Found at i:1261160 original size:25 final size:25
Alignment explanation
Indices: 1261127--1261176 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1261117 GCTCCTTCAC
1261127 TTCTCCTTTGCTTCTCCTTT-CTTCT
1 TTCTCCTTTG-TTCTCCTTTACTTCT
* *
1261152 TTCTTCTTTGTTCTTCTTTACTTCT
1 TTCTCCTTTGTTCTCCTTTACTTCT
1261177 GCCGGTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.02, C:0.30, G:0.04, T:0.64
Consensus pattern (25 bp):
TTCTCCTTTGTTCTCCTTTACTTCT
Found at i:1261287 original size:20 final size:19
Alignment explanation
Indices: 1261237--1261291 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
1261227 TATTCTTCTC
* *
1261237 TTGTTTTTCAATTATTTTG
1 TTGTTTTTCATTTTTTTTG
* *
1261256 TTAATTTCTCATTTTTTTTCG
1 TT-GTTTTTCATTTTTTTT-G
1261277 TTGTTTTTCATTTTT
1 TTGTTTTTCATTTTT
1261292 CCTTCATTCT
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 23 0.82
21 3 0.11
ACGTcount: A:0.13, C:0.09, G:0.07, T:0.71
Consensus pattern (19 bp):
TTGTTTTTCATTTTTTTTG
Found at i:1261688 original size:18 final size:19
Alignment explanation
Indices: 1261665--1261708 Score: 81
Period size: 18 Copynumber: 2.4 Consensus size: 19
1261655 TATTCGTATT
1261665 ATATTAATAAATAAAT-AA
1 ATATTAATAAATAAATAAA
1261683 ATATTAATAAATAAATAAA
1 ATATTAATAAATAAATAAA
1261702 ATATTAA
1 ATATTAA
1261709 ATATTAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATATTAATAAATAAATAAA
Found at i:1261699 original size:26 final size:27
Alignment explanation
Indices: 1261670--1261730 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
1261660 GTATTATATT
* *
1261670 AATAAATA-AATAAATATTAATAAATA
1 AATAAATATAATAAATATTAACAAAAA
*
1261696 AATAAA-ATATTAAATATTAACAAAAA
1 AATAAATATAATAAATATTAACAAAAA
*
1261722 AATTAATAT
1 AATAAATAT
1261731 GTTTTATATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.03
26 26 0.90
27 2 0.07
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (27 bp):
AATAAATATAATAAATATTAACAAAAA
Found at i:1261907 original size:27 final size:28
Alignment explanation
Indices: 1261855--1261908 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
1261845 TAAAATATAT
* *
1261855 TTATTTGTATTTTTTAAAATATATTCATA
1 TTATTTGTA-TTTATAAAACATATTCATA
1261884 TTATTTGTA-TTATAAAACATATTCA
1 TTATTTGTATTTATAAAACATATTCA
1261909 AGTATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 14 0.61
29 9 0.39
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (28 bp):
TTATTTGTATTTATAAAACATATTCATA
Found at i:1267102 original size:42 final size:41
Alignment explanation
Indices: 1267035--1267137 Score: 120
Period size: 43 Copynumber: 2.5 Consensus size: 41
1267025 TATATTTTAT
* *
1267035 AATAATA-AATTTATAATTATTTTT-TACGTTTTAATAAGTTA
1 AATAATATATTTTATAATAATTTTTATA-GTTTTAATAA-TTA
*
1267076 AAGTAATATATTTTATAATAATTTTTATATTTTTAATAATTA
1 AA-TAATATATTTTATAATAATTTTTATAGTTTTAATAATTA
*
1267118 AATATTATATTTTAATAATA
1 AATAATATATTTT-ATAATA
1267138 TAAAAATACA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
41 12 0.22
42 16 0.30
43 24 0.44
44 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (41 bp):
AATAATATATTTTATAATAATTTTTATAGTTTTAATAATTA
Found at i:1267145 original size:24 final size:22
Alignment explanation
Indices: 1267063--1267141 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 22
1267053 ATTTTTTACG
*
1267063 TTTTAATAAGTTAAAGTAATATAT
1 TTTTAATAA-TTAAA-TATTATAT
1267087 TTTATAATAATT---T-TTATAT
1 TTT-TAATAATTAAATATTATAT
1267106 TTTTAATAATTAAATATTATA-
1 TTTTAATAATTAAATATTATAT
1267127 TTTTAATAATATAAA
1 TTTTAATAAT-TAAA
1267142 AATACAAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 14
0.76 0.02 0.22
Matches are distributed among these distances:
18 8 0.17
19 8 0.17
20 1 0.02
21 11 0.23
22 9 0.19
24 5 0.10
25 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.52
Consensus pattern (22 bp):
TTTTAATAATTAAATATTATAT
Found at i:1273348 original size:3 final size:3
Alignment explanation
Indices: 1273342--1273379 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
1273332 AATAAAGTAT
* *
1273342 TTA TTA TTA TTA TTA TTA TTG CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1273380 TTTTGAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1278299 original size:17 final size:17
Alignment explanation
Indices: 1278277--1278320 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
1278267 ATGTAAAAAT
1278277 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
1278294 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
1278311 AAATATTTAA
1 AAATATTTAA
1278321 TCAAGAAGCG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:1279368 original size:16 final size:16
Alignment explanation
Indices: 1279347--1279384 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1279337 AAAAATAATT
1279347 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
1279363 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
1279379 T-ATAAA
1 TAATAAA
1279385 TACATGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 4 0.21
16 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:1279563 original size:51 final size:51
Alignment explanation
Indices: 1279508--1279618 Score: 213
Period size: 51 Copynumber: 2.2 Consensus size: 51
1279498 ACATATAATG
*
1279508 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACATTAATAGTAAA
1279559 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACATTAATAGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACATTAATAGTAAA
1279610 ATAATAATA
1 ATAATAATA
1279619 AATATAATAG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.57, C:0.04, G:0.10, T:0.30
Consensus pattern (51 bp):
ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACATTAATAGTAAA
Found at i:1279646 original size:23 final size:21
Alignment explanation
Indices: 1279591--1279647 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
1279581 AAAATATATT
*
1279591 TATATACAT-TAATAGTAAAA
1 TATATAAATATAATAGTAAAA
1279611 TAATAATAAATATAATAGTTATAAA
1 T-AT-ATAAATATAATAG-TA-AAA
*
1279636 TATATATATATA
1 TATATAAATATA
1279648 TGATAACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.03
21 2 0.07
22 5 0.17
23 14 0.47
24 4 0.13
25 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (21 bp):
TATATAAATATAATAGTAAAA
Found at i:1280203 original size:37 final size:36
Alignment explanation
Indices: 1280160--1280261 Score: 154
Period size: 34 Copynumber: 2.9 Consensus size: 36
1280150 ATAGTAGAAC
1280160 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
* *
1280197 TTTATCCTATTTTTAGAAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
*
1280231 TCTATCCTATTTTTAGGAGTTTCAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1280262 TAGGACGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
34 31 0.53
37 27 0.47
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:1280944 original size:105 final size:105
Alignment explanation
Indices: 1280809--1281573 Score: 1055
Period size: 105 Copynumber: 7.3 Consensus size: 105
1280799 CATTGTTCCA
* * * ** * * *
1280809 AGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTG-TTGTTGACAAG
* * *
1280874 CAGTC-GT-CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
1280914 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCT-GAA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTGTTGACAAGC
1280974 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1281014 AATCCAATATCCTTCGTTGTGAAATTGAAATTGGCTCT-GAGATTGGGAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGA-ATTGAGAAGTTGTTGTTGACAAG
* * *
1281078 AAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
1281119 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAGATTGGGAAGTTGTTGTTGACAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGA-ATTGAGAAGTTGTTGTTGACAAG
*
1281183 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1281224 AGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTGTTGACAAGC
1281289 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
1281329 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTGTTGACAAGC
*
1281394 AGCGGTCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1281434 AGTCCAATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTG-TTGTTGACAAG
* * *
1281499 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
1281540 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
1281574 CGCAGATGGC
Statistics
Matches: 602, Mismatches: 45, Indels: 22
0.90 0.07 0.03
Matches are distributed among these distances:
98 1 0.00
99 15 0.02
100 66 0.11
101 3 0.00
102 4 0.01
103 3 0.00
104 5 0.01
105 432 0.72
106 48 0.08
107 4 0.01
109 21 0.03
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:1282457 original size:64 final size:65
Alignment explanation
Indices: 1282356--1282535 Score: 290
Period size: 65 Copynumber: 2.8 Consensus size: 65
1282346 GACAAAATTT
1282356 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCA-TTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* *
1282420 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* * **
1282485 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAA-TTCATTTCAAGGGAAA
1282536 CTATCTCAAG
Statistics
Matches: 106, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
64 36 0.34
65 56 0.53
66 14 0.13
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:1282571 original size:36 final size:37
Alignment explanation
Indices: 1282487--1282571 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 37
1282477 AATGTTTATG
* * * **
1282487 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTCA
1282524 TTTCAAGGGAAACTATCTCAAGAGAGACAAAA-TTCA
1 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTCA
1282560 TTTCAAGGGAAA
1 TTTCAAGGGAAA
1282572 TGTTTTCAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 14 0.33
37 29 0.67
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (37 bp):
TTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTCA
Found at i:1282597 original size:167 final size:167
Alignment explanation
Indices: 1282321--1282636 Score: 546
Period size: 167 Copynumber: 1.9 Consensus size: 167
1282311 AAGATGATGC
*
1282321 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTGTCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
1282386 GAAATTCATTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAA-GAGAGAC
66 AAAATTCATTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAATG-GAGAC
1282450 GGAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
130 GGAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
*
1282488 TTCAAGAG-AAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAC
1 TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
*
1282552 AAAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAATGGAGAC
66 AAAATTCA-TTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAATGGAGAC
**
1282617 GGAATTTGTTTCAAGGGAAA
130 GGAATTCATTTCAAGGGAAA
1282637 CTATCTCAAG
Statistics
Matches: 141, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
166 61 0.43
167 79 0.56
168 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.30
Consensus pattern (167 bp):
TTCAAGAGAAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACTATCTCAAGAGAGAC
AAAATTCATTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTATCTCAATGGAGACG
GAATTCATTTCAAGGGAAATGTTTTCAATGTTTATGT
Found at i:1282637 original size:36 final size:34
Alignment explanation
Indices: 1282485--1282789 Score: 165
Period size: 36 Copynumber: 8.9 Consensus size: 34
1282475 TCAATGTTTA
*
1282485 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAA-GGAGAC-AAA-TT
*
1282522 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGAC-AAATT
** * * *
1282558 CATTTCAAGGGAAA-TGTTTTCAA--TG----TTT
1 TGTTTCAAGGGAAACTG-TCTCAAGGAGACAAATT
* *
1282586 ATGTTTCAAGAGAAACTGTCTCAATGGAGACGGAATT
1 -TGTTTCAAGGGAAACTGTCTCAA-GGAGAC-AAATT
* *
1282623 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGAC-AAATT
** * *
1282659 CATTTCAAGGGAAA-TGTTTTCAA--TG-----TT
1 TGTTTCAAGGGAAACTG-TCTCAAGGAGACAAATT
* *
1282686 ATGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAA-GGAG-ACAAA-TT
*
1282724 TGTTTCAAGGGAAACTGTCTCACA-GAGACAAGTT
1 TGTTTCAAGGGAAACTGTCTCA-AGGAGACAAATT
*
1282758 TGTTTCAAGGGAAACTGTTTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAA
1282790 TGGTGAGCAC
Statistics
Matches: 205, Mismatches: 34, Indels: 60
0.69 0.11 0.20
Matches are distributed among these distances:
27 1 0.00
28 18 0.09
29 18 0.09
30 2 0.01
31 1 0.00
32 1 0.00
33 3 0.01
34 23 0.11
35 13 0.06
36 69 0.34
37 53 0.26
38 3 0.01
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (34 bp):
TGTTTCAAGGGAAACTGTCTCAAGGAGACAAATT
Found at i:1282726 original size:101 final size:102
Alignment explanation
Indices: 1282420--1282777 Score: 562
Period size: 102 Copynumber: 3.5 Consensus size: 102
1282410 TCAATGTTTA
* **
1282420 TGTTTCAAGAGAAACTATCTCAAGAGAGACGGAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1282485 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1282522 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
* **
1282587 TGTTTCAAGAGAAACTGTCTCAATGGAGACGGAA-TT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
*
1282623 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAATGTTTTCAATG-TTA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
*
1282687 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
66 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
* * * **
1282724 TGTTTCAAGGGAAACTGTCTC-ACAGAGAC-AAGTTTGTTTCAAGGGAAACTGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAA-TGTTT
1282778 CAAGAGAGAC
Statistics
Matches: 237, Mismatches: 17, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
99 15 0.06
100 45 0.19
101 84 0.35
102 93 0.39
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (102 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:1282765 original size:34 final size:33
Alignment explanation
Indices: 1282687--1282784 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 33
1282677 TTCAATGTTA
* *
1282687 TGTTTCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAA--GAG--AAAAGTT
*
1282724 TGTTTCAAGGGAAACTGTCTCACAGAGACAAGTT
1 TGTTTCAAGGGAAACTGTCTCA-AGAGAAAAGTT
*
1282758 TGTTTCAAGGGAAACTGTTTCAAGAGA
1 TGTTTCAAGGGAAACTGTCTCAAGAGA
1282785 GACAATGGTG
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.09
34 26 0.46
36 3 0.05
37 21 0.38
38 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (33 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAAAAGTT
Found at i:1282778 original size:15 final size:15
Alignment explanation
Indices: 1282724--1282781 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 15
1282714 GAAAAAATTT
1282724 TGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
* * *
1282739 TGTCTCACAGAGACAAGTT
1 TGTTTCA-AGGGA-AA--C
1282758 TGTTTCAAGGGAAAC
1 TGTTTCAAGGGAAAC
1282773 TGTTTCAAG
1 TGTTTCAAG
1282782 AGAGACAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 15 0.45
16 4 0.12
17 4 0.12
18 4 0.12
19 6 0.18
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (15 bp):
TGTTTCAAGGGAAAC
Found at i:1283671 original size:22 final size:22
Alignment explanation
Indices: 1283646--1283696 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
1283636 TTGTGTTTGG
1283646 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
1283668 TCAAAGGTTTGGTATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
1283690 TCAAAGG
1 TCAAAGG
1283697 ATTGATGGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.25, C:0.12, G:0.27, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:1284366 original size:8 final size:7
Alignment explanation
Indices: 1284355--1284424 Score: 50
Period size: 8 Copynumber: 8.9 Consensus size: 7
1284345 ATTTTTGCTT
1284355 TTTTTTCC
1 TTTTTT-C
1284363 TTTTGTTC
1 TTTT-TTC
*
1284371 TTGTTTC
1 TTTTTTC
1284378 TCTTTTTC
1 T-TTTTTC
*
1284386 TTTGTTTTT
1 -TT-TTTTC
1284395 TTTTTTGC
1 TTTTTT-C
1284403 TTTTTTGC
1 TTTTTT-C
1284411 TTCTTTTC
1 TT-TTTTC
1284419 TTTTTT
1 TTTTTT
1284425 GTTCTTGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
7 12 0.23
8 29 0.56
9 11 0.21
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (7 bp):
TTTTTTC
Found at i:1284423 original size:16 final size:16
Alignment explanation
Indices: 1284347--1284430 Score: 59
Period size: 17 Copynumber: 5.1 Consensus size: 16
1284337 TCTTTTTGAT
1284347 TTTTGCTTTTTT-TTCC
1 TTTTGCTTTTTTGTT-C
1284363 TTTTG-TTCTTGTT-TCTC
1 TTTTGCTT-TT-TTGT-TC
* * *
1284380 TTTTTCTTTGTTTTTTT
1 TTTTGCTTT-TTTGTTC
1284397 TTTTGCTTTTTTGCTTC
1 TTTTGCTTTTTTG-TTC
1284414 TTTT-CTTTTTTGTTC
1 TTTTGCTTTTTTGTTC
1284429 TT
1 TT
1284431 GATTGGATCT
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
15 7 0.12
16 18 0.32
17 26 0.46
18 5 0.09
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.77
Consensus pattern (16 bp):
TTTTGCTTTTTTGTTC
Found at i:1288345 original size:16 final size:16
Alignment explanation
Indices: 1288324--1288358 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1288314 AAAAATAATT
1288324 TAATAAAGTAAAATAA
1 TAATAAAGTAAAATAA
* *
1288340 TAATAATGTAATATAA
1 TAATAAAGTAAAATAA
1288356 TAA
1 TAA
1288359 ATACATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
TAATAAAGTAAAATAA
Found at i:1288473 original size:50 final size:50
Alignment explanation
Indices: 1288378--1288473 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
1288368 AACAAAAAAA
* ** * *
1288378 AAAAAAAGTAAAATATAAAAATATAATTAAATGTATATATGCATATGTTT
1 AAAAAAAGTAAAATATAAAAATATAAATAAATAAAAATATACATATGTTT
1288428 AAAAAAAGTAAAA-ATAAAAA-ATAAAATACAATAAAAATATACATAT
1 AAAAAAAGTAAAATATAAAAATAT-AAATA-AATAAAAATATACATAT
1288474 AATGATAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
48 2 0.05
49 11 0.28
50 26 0.67
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (50 bp):
AAAAAAAGTAAAATATAAAAATATAAATAAATAAAAATATACATATGTTT
Found at i:1288533 original size:49 final size:51
Alignment explanation
Indices: 1288478--1288586 Score: 204
Period size: 49 Copynumber: 2.2 Consensus size: 51
1288468 ACATATAATG
1288478 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACG-TAATAGT-AA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
1288527 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
1 ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
1288578 ATAATAATA
1 ATAATAATA
1288587 ATAATAGTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
49 40 0.69
50 7 0.12
51 11 0.19
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.29
Consensus pattern (51 bp):
ATAATAATAGTAGCAAAAGAGAAAAATATATTTATATACGTTAATAGTAAA
Found at i:1289168 original size:37 final size:36
Alignment explanation
Indices: 1289125--1289226 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
1289115 ATAGTAGAAC
1289125 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
*
1289162 TTTATCCTATTTTTAGGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
*
1289196 TCTATCCTATTTTTAGGAGTTTCAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
1289227 TAGGACGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
34 32 0.53
37 28 0.47
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:1289596 original size:29 final size:28
Alignment explanation
Indices: 1289571--1289634 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 28
1289561 ACTTAATTCG
1289571 AAATAAATAAATTACAT-TCCATTAATTTA
1 AAATAAATAAATTACATCT-CATTAA-TTA
*
1289600 AAATAAATAAATTACATCTCATTAATTT
1 AAATAAATAAATTACATCTCATTAATTA
1289628 AAATAAA
1 AAATAAA
1289635 AATAACAGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 9 0.27
29 23 0.70
30 1 0.03
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (28 bp):
AAATAAATAAATTACATCTCATTAATTA
Found at i:1290193 original size:6 final size:6
Alignment explanation
Indices: 1290184--1290423 Score: 156
Period size: 6 Copynumber: 39.8 Consensus size: 6
1290174 GATCTTCCGC
* * *
1290184 GCGTGC GCGTGT GCGTGT GCGTGT GCGTGT GCGTGTGT GTGTGT GTGTGT
1 GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GC--GTGT GCGTGT GCGTGT
* * * * * * * *
1290234 GCGCGC GCGCGC GTGTGT GTGTGT GTGTGT GCGTGT GTGTGT GCGTGT
1 GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT
* * * * *
1290282 GCGCGC GTGCGC GCGTGCT GCGTGT GCGTGT --GTGT GCGTGT GCGTGCGT
1 GCGTGT GCGTGT GCGTG-T GCGTGT GCGTGT GCGTGT GCGTGT GCGT--GT
* * *
1290331 GCTGTGT GTGTGT GCGTGT GCGTGCGT GCTGTGT GTGTGT GTGTGT GC--GT
1 GC-GTGT GCGTGT GCGTGT GCGT--GT GC-GTGT GCGTGT GCGTGT GCGTGT
1290381 GCGTGCT GCGTGT GC---T GCGTGT GCGTGT --GTGT GCGTGT GCGTG
1 GCGTG-T GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTGT GCGTG
1290424 GACTTTCAGA
Statistics
Matches: 194, Mismatches: 21, Indels: 38
0.77 0.08 0.15
Matches are distributed among these distances:
3 3 0.02
4 12 0.06
6 145 0.75
7 17 0.09
8 13 0.07
9 4 0.02
ACGTcount: A:0.00, C:0.17, G:0.49, T:0.34
Consensus pattern (6 bp):
GCGTGT
Found at i:1290223 original size:2 final size:2
Alignment explanation
Indices: 1290192--1290419 Score: 123
Period size: 2 Copynumber: 111.5 Consensus size: 2
1290182 GCGCGTGCGC
* * * *
1290192 GT GT GC GT GT GC GT GT GC GT GT GC GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
* * * * * * *
1290234 GC GC GC GC GC GC GT GT GT GT GT GT GT GT GT GC GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
* * * * * * * * * *
1290276 GC GT GT GC GC GC GT GC GC GC GT GCT GC GT GT GC GT GT GT GT GC
1 GT GT GT GT GT GT GT GT GT GT GT G-T GT GT GT GT GT GT GT GT GT
* * * * *
1290319 GT GT GC GT GC GT GCT GT GT GT GT GT GC GT GT GC GT GC GT GCT GT
1 GT GT GT GT GT GT G-T GT GT GT GT GT GT GT GT GT GT GT GT G-T GT
* * * * *
1290363 GT GT GT GT GT GT GT GC GT GC GT GCT GC GT GT GCT GC GT GT GC GT
1 GT GT GT GT GT GT GT GT GT GT GT G-T GT GT GT G-T GT GT GT GT GT
*
1290407 GT GT GT GC GT GT G
1 GT GT GT GT GT GT G
1290420 CGTGGACTTT
Statistics
Matches: 175, Mismatches: 46, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
2 165 0.94
3 10 0.06
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (2 bp):
GT
Found at i:1291428 original size:31 final size:34
Alignment explanation
Indices: 1291372--1291439 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 34
1291362 TTCTAAATTT
*
1291372 TATAATTTTTTTATTAATATGATATAT-TA-ATA
1 TATAATTTTTTAATTAATATGATATATATATATA
1291404 TATAA-TTTTTAATTATATAT-ATATATATATATA
1 TATAATTTTTTAATTA-ATATGATATATATATATA
1291437 TAT
1 TAT
1291440 TGAAAATGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
31 15 0.47
32 11 0.34
33 6 0.19
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (34 bp):
TATAATTTTTTAATTAATATGATATATATATATA
Found at i:1300630 original size:156 final size:155
Alignment explanation
Indices: 1300440--1300734 Score: 428
Period size: 156 Copynumber: 1.9 Consensus size: 155
1300430 AGTTATATTT
* * * * *
1300440 TGGTTCAAATTTGGTTAAAAAATGGACTTAAAATGAATGAGAAATTGAAGAAACAATAAAATAAA
1 TGGTTCAAATTTAGTAAAAAAATAGACTTAAAATGAAGGAGAAATTGAAGAAACAATAAAACAAA
* * *
1300505 GGACTAAATCGTAAAACTATCAAAATACTTAGTCAAATTTTTGGTTTTTCGAGTAACTTAAAAAT
66 GGACTAAATCGTAAAACTATCAAAATACTTAGTCAAATTTTTGATTTTTCGAATAACTCAAAAAT
1300570 TCAAAATTTTCGGTTTAGGAGCATA
131 TCAAAATTTTCGGTTTAGGAGCATA
* * *
1300595 TGGTTCAAATTTAGTAAAAAAAATAGACTTAAAATGAAGGAGAAATTGAAGAAATAATGAAACCA
1 TGGTTCAAATTTAGT-AAAAAAATAGACTTAAAATGAAGGAGAAATTGAAGAAACAATAAAACAA
* ** * * *
1300660 ATGACTAAATCGTAAAACTATCAAAATTTTTGGTCAAATTTTTGATTTTTTGAATAACTCGAAAA
65 AGGACTAAATCGTAAAACTATCAAAATACTTAGTCAAATTTTTGATTTTTCGAATAACTCAAAAA
1300725 TTCAAAATTT
130 TTCAAAATTT
1300735 CAACTCGACT
Statistics
Matches: 122, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
155 14 0.11
156 108 0.89
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (155 bp):
TGGTTCAAATTTAGTAAAAAAATAGACTTAAAATGAAGGAGAAATTGAAGAAACAATAAAACAAA
GGACTAAATCGTAAAACTATCAAAATACTTAGTCAAATTTTTGATTTTTCGAATAACTCAAAAAT
TCAAAATTTTCGGTTTAGGAGCATA
Found at i:1303396 original size:31 final size:31
Alignment explanation
Indices: 1303361--1303437 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
1303351 ATGATTTTGA
* * *
1303361 AAAATTGA-AAGTTTATATACTTAAACGGACC
1 AAAATTGATAA-TTTAGATACTAAAACAGACC
*
1303392 AAAATTGATAATTTAGGTACTAAAACAGACC
1 AAAATTGATAATTTAGATACTAAAACAGACC
* *
1303423 AAGATTGATATTTTA
1 AAAATTGATAATTTA
1303438 AGCACTAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.31
Consensus pattern (31 bp):
AAAATTGATAATTTAGATACTAAAACAGACC
Found at i:1303445 original size:31 final size:31
Alignment explanation
Indices: 1303383--1303446 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
1303373 TTATATACTT
* * *
1303383 AAACGGACCAAAATTGATAATTTAGGTACTA
1 AAACAGACCAAAATTGATAATTTAAGCACTA
* *
1303414 AAACAGACCAAGATTGATATTTTAAGCACTA
1 AAACAGACCAAAATTGATAATTTAAGCACTA
1303445 AA
1 AA
1303447 GGCATAGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.14, G:0.14, T:0.25
Consensus pattern (31 bp):
AAACAGACCAAAATTGATAATTTAAGCACTA
Found at i:1307162 original size:5 final size:5
Alignment explanation
Indices: 1307152--1307177 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1307142 TTATAATTTT
1307152 TTGGG TTGGG TTGGG TTGGG TTGGG T
1 TTGGG TTGGG TTGGG TTGGG TTGGG T
1307178 ATTTTTCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.58, T:0.42
Consensus pattern (5 bp):
TTGGG
Found at i:1310517 original size:156 final size:157
Alignment explanation
Indices: 1310231--1310546 Score: 510
Period size: 156 Copynumber: 2.0 Consensus size: 157
1310221 TTTCAAAATG
* *
1310231 TTTCCTTTAATTTTAAATAATTATTATTCTCCTAAGCATGATCGTTCAACAAACAAATGGAAAAA
1 TTTCCTCTAATTTTAAATAATTATTATTCTCCTAAGCATGATCGTTCAACAAACAAATGCAAAAA
* *
1310296 CAACATATTAATCAATTGATCAGAAAAAACTATTTCACAGAACAAGCAAGCATATGCAACCTTTT
66 CAACATATTAATCAATTGATCAGAAAAAACTATTTCACAGAACAAGCAAGCAAATACAACCTTTT
* * *
1310361 T-CATAAAAAAAAATAATTCCAGACAC
131 TAAACAAAAAAAAATAATTCCAAACAC
* *
1310387 TTTCCTCTAATTTTCAATAATTATTATTCTCCTAAGCATGATCGTTCAACAAACAAATGCTAAAA
1 TTTCCTCTAATTTTAAATAATTATTATTCTCCTAAGCATGATCGTTCAACAAACAAATGCAAAAA
*
1310452 CAACATATTAATCAATTGATCAG-AAAAACTATTTCACAGAACATGCAAGCAAATACAACCTTTT
66 CAACATATTAATCAATTGATCAGAAAAAACTATTTCACAGAACAAGCAAGCAAATACAACC-TTT
1310516 TTAAAACAAAAAAAAATAATTCCAAACAC
130 TT-AAACAAAAAAAAATAATTCCAAACAC
1310545 TT
1 TT
1310547 CCTGATCGTG
Statistics
Matches: 147, Mismatches: 10, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
155 34 0.23
156 89 0.61
158 24 0.16
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.30
Consensus pattern (157 bp):
TTTCCTCTAATTTTAAATAATTATTATTCTCCTAAGCATGATCGTTCAACAAACAAATGCAAAAA
CAACATATTAATCAATTGATCAGAAAAAACTATTTCACAGAACAAGCAAGCAAATACAACCTTTT
TAAACAAAAAAAAATAATTCCAAACAC
Found at i:1314832 original size:14 final size:14
Alignment explanation
Indices: 1314813--1314841 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1314803 ATGATAGGTA
1314813 TGAATAAAATAAAT
1 TGAATAAAATAAAT
1314827 TGAATAAAATAAAT
1 TGAATAAAATAAAT
1314841 T
1 T
1314842 AAGTTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (14 bp):
TGAATAAAATAAAT
Found at i:1317925 original size:60 final size:60
Alignment explanation
Indices: 1317861--1317989 Score: 161
Period size: 60 Copynumber: 2.1 Consensus size: 60
1317851 ATACAGAAAT
* * * * * *
1317861 ATACTTATACAAATATAATTATGTGTTTATTTTTAGGTATCAAGATGTTGA-GAGATGTAC
1 ATACTTACACAAATATAAGTATGTATGTATTTTGAGGTATCAAGATATT-ATGAGATGTAC
** *
1317921 ATACTTACACTGATGTAAGTATGTATGTATTTTGAGGTATCAAGATATTATGAGATGTAC
1 ATACTTACACAAATATAAGTATGTATGTATTTTGAGGTATCAAGATATTATGAGATGTAC
1317981 ATACTTACA
1 ATACTTACA
1317990 TCGGTGTAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.02
60 58 0.98
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (60 bp):
ATACTTACACAAATATAAGTATGTATGTATTTTGAGGTATCAAGATATTATGAGATGTAC
Found at i:1317998 original size:60 final size:60
Alignment explanation
Indices: 1317888--1318003 Score: 173
Period size: 60 Copynumber: 1.9 Consensus size: 60
1317878 ATTATGTGTT
* *
1317888 TATTTTTAGGTATCAAGATGTTGAGAGATGTACATACTTACACTGATGTAAGTATGTATG
1 TATTTTGAGGTATCAAGATATTGAGAGATGTACATACTTACACTGATGTAAGTATGTATG
*
1317948 TATTTTGAGGTATCAAGATATT-ATGAGATGTACATACTTACA-TCGGTGTAAGTATG
1 TATTTTGAGGTATCAAGATATTGA-GAGATGTACATACTTACACT-GATGTAAGTATG
1318004 CGTTAATTGC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
59 2 0.04
60 49 0.96
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (60 bp):
TATTTTGAGGTATCAAGATATTGAGAGATGTACATACTTACACTGATGTAAGTATGTATG
Found at i:1318173 original size:27 final size:29
Alignment explanation
Indices: 1318143--1318196 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
1318133 AATTAATCCT
*
1318143 AAAAAT-AAACGT-AATAAAACACATAGC
1 AAAAATGAAACCTGAATAAAACACATAGC
*
1318170 AAAAATGAAACCTGAATCAAACACATA
1 AAAAATGAAACCTGAATAAAACACATA
1318197 CATAATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 5 0.22
29 12 0.52
ACGTcount: A:0.61, C:0.17, G:0.07, T:0.15
Consensus pattern (29 bp):
AAAAATGAAACCTGAATAAAACACATAGC
Found at i:1323480 original size:14 final size:14
Alignment explanation
Indices: 1323461--1323498 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
1323451 TGTTCGGTAA
1323461 TATGTTCGTTCATT
1 TATGTTCGTTCATT
*
1323475 TATGTTCGTTCGTT
1 TATGTTCGTTCATT
1323489 TATGTTCGTT
1 TATGTTCGTT
1323499 TATATGCGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.11, C:0.13, G:0.18, T:0.58
Consensus pattern (14 bp):
TATGTTCGTTCATT
Found at i:1323764 original size:23 final size:23
Alignment explanation
Indices: 1323734--1323835 Score: 82
Period size: 23 Copynumber: 4.3 Consensus size: 23
1323724 GTTTGTTCGT
1323734 TTGTGTTCATTTACGTTCGTTTA
1 TTGTGTTCATTTACGTTCGTTTA
* * *
1323757 TTGTGTTCGTTTACATCCGTTCGT-
1 TTGTGTTCATTTACGTTCGTT--TA
*
1323781 TTGTGTT-ATTTAACGTTCATTTA
1 TTGTGTTCATTT-ACGTTCGTTTA
* * * *
1323804 TTGTATTCGTTTATGTTCGTTCA
1 TTGTGTTCATTTACGTTCGTTTA
1323827 TTTGTGTTC
1 -TTGTGTTC
1323836 GCTTATCATT
Statistics
Matches: 60, Mismatches: 13, Indels: 11
0.71 0.15 0.13
Matches are distributed among these distances:
22 1 0.02
23 35 0.58
24 23 0.38
25 1 0.02
ACGTcount: A:0.13, C:0.14, G:0.18, T:0.56
Consensus pattern (23 bp):
TTGTGTTCATTTACGTTCGTTTA
Found at i:1323779 original size:47 final size:48
Alignment explanation
Indices: 1323702--1323835 Score: 148
Period size: 47 Copynumber: 2.9 Consensus size: 48
1323692 GTTCGTTTAT
** * **
1323702 GTTCA-TTATTGTATTTTTTTACGTTTGTTCGTTTGTGTTCATTT-AC
1 GTTCATTTATTGTATTCGTTTACATCCGTTCGTTTGTGTTCATTTAAC
* *
1323748 GTTCGTTTATTGTGTTCGTTTACATCCGTTCGTTTGTGTT-ATTTAAC
1 GTTCATTTATTGTATTCGTTTACATCCGTTCGTTTGTGTTCATTTAAC
** * *
1323795 GTTCATTTATTGTATTCGTTTATGTTCGTTCATTTGTGTTC
1 GTTCATTTATTGTATTCGTTTACATCCGTTCGTTTGTGTTC
1323836 GCTTATCATT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
46 8 0.11
47 64 0.89
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (48 bp):
GTTCATTTATTGTATTCGTTTACATCCGTTCGTTTGTGTTCATTTAAC
Found at i:1327309 original size:30 final size:30
Alignment explanation
Indices: 1327258--1327330 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
1327248 TAAGTATTTA
1327258 AAATACCTAAAGTATTTTTTTTA-TCAAAAT
1 AAATACCTAAAG-ATTTTTTTTAGTCAAAAT
*
1327288 AAATACCTAAA-ATTATATTTTTAGTTAAAAT
1 AAATACCTAAAGATT-T-TTTTTAGTCAAAAT
**
1327319 ACGTACCTAAAG
1 AAATACCTAAAG
1327331 CATTGTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 3 0.08
29 1 0.03
30 17 0.47
31 15 0.42
ACGTcount: A:0.45, C:0.11, G:0.05, T:0.38
Consensus pattern (30 bp):
AAATACCTAAAGATTTTTTTTAGTCAAAAT
Found at i:1327884 original size:37 final size:37
Alignment explanation
Indices: 1327811--1327885 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 37
1327801 GTTGGAAAAT
* *
1327811 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
* *
1327848 ATTTATATAATTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTAAAAAATTAAAAATCATAAA
1327885 A
1 A
1327886 AATATTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 14 0.42
38 19 0.58
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
Found at i:1332280 original size:12 final size:12
Alignment explanation
Indices: 1332235--1332286 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
1332225 CCTATATTAT
*
1332235 TTAAATAAAAAA
1 TTAAATATAAAA
*
1332247 TTAAAATTTTAAAA
1 TT-AAA-TATAAAA
*
1332261 AT-AATATAAAA
1 TTAAATATAAAA
1332272 TTAAATATAAAA
1 TTAAATATAAAA
1332284 TTA
1 TTA
1332287 TTTTTTTACC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
11 7 0.22
12 16 0.50
13 3 0.09
14 6 0.19
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TTAAATATAAAA
Found at i:1350143 original size:26 final size:27
Alignment explanation
Indices: 1350112--1350165 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
1350102 TGAAGGTGAG
* *
1350112 TGGGATTTAATTTGAG-ATTTAAGGTT
1 TGGGATATAATTTAAGAATTTAAGGTT
*
1350138 TGGGATATAATTTAAGAATTTAGGGTT
1 TGGGATATAATTTAAGAATTTAAGGTT
1350165 T
1 T
1350166 AGACCTAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (27 bp):
TGGGATATAATTTAAGAATTTAAGGTT
Done.