Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 33 of 163
Found at i:10639012 original size:50 final size:50
Alignment explanation
Indices: 10638939--10639129 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 50
10638929 TCCTGTACTA
* * * **
10638939 CCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * *
10638989 CCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * * **
10639039 CCAATGTCATGCCCCAGACATGGTCTTACGTGGGACCTCTCATAAACTCAATAATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT--A-TC---GGTG
*
10639095 CCAATGCCATGTCCTAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
10639130 TCTCATCCCC
Statistics
Matches: 113, Mismatches: 22, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
50 79 0.70
53 1 0.01
56 33 0.29
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:10639123 original size:56 final size:50
Alignment explanation
Indices: 10638887--10639136 Score: 159
Period size: 50 Copynumber: 4.9 Consensus size: 50
10638877 TGATAATAAC
* * * * ** *
10638887 ATGCCAAAGCCAAGTCCCAAACATGGTCTTACATGGGATGTTTC--CTGTA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCT-TA
* * * * * * ** * **
10638936 CTACCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTTA
* * *
10638986 GTGCCCATGCCATGTCCCAGACATGGTCTTACAG-GGGACCTCTCATCTTG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTAC-GTGGGACCTCTCATCTTA
* * *
10639036 GTGCCAATGTCATGCCCCAGACATGGTCTTACGTGGGACCTCTCATAAACTCAATA
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCAT---CT---TA
* *
10639092 ATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA--TCTCATC
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATC
10639137 CCCTTAATGT
Statistics
Matches: 159, Mismatches: 32, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
49 36 0.23
50 79 0.50
51 2 0.01
53 2 0.01
54 6 0.04
56 34 0.21
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTTA
Found at i:10640537 original size:14 final size:15
Alignment explanation
Indices: 10640502--10640540 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10640492 CCAAAGGAGG
10640502 TTGAAAATCATTTTA
1 TTGAAAATCATTTTA
*
10640517 TTAAAAATCATTTTA
1 TTGAAAATCATTTTA
10640532 -TGAAAATCA
1 TTGAAAATCA
10640541 ATATTAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (15 bp):
TTGAAAATCATTTTA
Found at i:10643582 original size:23 final size:21
Alignment explanation
Indices: 10643543--10643584 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
10643533 GTAGTTAAGT
10643543 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
10643564 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
10643585 ATATGGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:10652289 original size:47 final size:46
Alignment explanation
Indices: 10652164--10652341 Score: 128
Period size: 46 Copynumber: 3.8 Consensus size: 46
10652154 ATGTGAAAGT
* * * *
10652164 AATAGTGCCTAGTTACCTGCTT-GGGTTAAACCTACA-AGAATC-AAA
1 AATAGTGCCTAGTCACCCG-TTAGGGTTGAACCTACACA-AATCGGAA
** * * * * * *
10652209 TAATAGTGTTTGGTCTCCCATTAGGGTTAAACCTACTCAAATTGGAAA
1 -AATAGTGCCTAGTCACCCGTTAGGGTTGAACCTACACAAATCGG-AA
* * *
10652257 AATGGTGCCTAGTCACCCGTTAGGGTTGAACCTACACGAATCGGAT
1 AATAGTGCCTAGTCACCCGTTAGGGTTGAACCTACACAAATCGGAA
** * *
10652303 AATAGTGTTTGGTCACCCTTTAGGGTTGAACCTACACAA
1 AATAGTGCCTAGTCACCCGTTAGGGTTGAACCTACACAA
10652342 CAAATAGCCT
Statistics
Matches: 101, Mismatches: 27, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
45 2 0.02
46 62 0.61
47 35 0.35
48 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (46 bp):
AATAGTGCCTAGTCACCCGTTAGGGTTGAACCTACACAAATCGGAA
Found at i:10652327 original size:93 final size:93
Alignment explanation
Indices: 10652168--10652337 Score: 243
Period size: 93 Copynumber: 1.8 Consensus size: 93
10652158 GAAAGTAATA
* * *
10652168 GTGCCTAGTTACCTGCTTGGGTTAAACCTACAAGAATCAAATAATAGTGTTTGGTCTCCCATTAG
1 GTGCCTAGTCACCCGCTTGGGTTAAACCTACAAGAATCAAATAATAGTGTTTGGTCACCCATTAG
10652233 GGTTAAACCTACTCAAATTGGAAAAATG
66 GGTTAAACCTACTCAAATTGGAAAAATG
* * ** *
10652261 GTGCCTAGTCACCCG-TTAGGGTTGAACCTACACGAATCGGATAATAGTGTTTGGTCACCCTTTA
1 GTGCCTAGTCACCCGCTT-GGGTTAAACCTACAAGAATCAAATAATAGTGTTTGGTCACCCATTA
*
10652325 GGGTTGAACCTAC
65 GGGTTAAACCTAC
10652338 ACAACAAATA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
92 2 0.03
93 65 0.97
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (93 bp):
GTGCCTAGTCACCCGCTTGGGTTAAACCTACAAGAATCAAATAATAGTGTTTGGTCACCCATTAG
GGTTAAACCTACTCAAATTGGAAAAATG
Found at i:10652339 original size:46 final size:46
Alignment explanation
Indices: 10652186--10652339 Score: 155
Period size: 46 Copynumber: 3.3 Consensus size: 46
10652176 TTACCTGCTT
* ** *
10652186 GGGTTAAACCTACAAGAATCAAATAATAGTGTTTGGTCTCCCATTA
1 GGGTTAAACCTACACGAATCGGATAATAGTGTTTGGTCACCCATTA
* * * * * ** * *
10652232 GGGTTAAACCTACTCAAATTGGAAAAATGGTGCCTAGTCACCCGTTA
1 GGGTTAAACCTACACGAATCGG-ATAATAGTGTTTGGTCACCCATTA
* *
10652279 GGGTTGAACCTACACGAATCGGATAATAGTGTTTGGTCACCCTTTA
1 GGGTTAAACCTACACGAATCGGATAATAGTGTTTGGTCACCCATTA
*
10652325 GGGTTGAACCTACAC
1 GGGTTAAACCTACAC
10652340 AACAAATAGC
Statistics
Matches: 84, Mismatches: 23, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
46 49 0.58
47 35 0.42
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (46 bp):
GGGTTAAACCTACACGAATCGGATAATAGTGTTTGGTCACCCATTA
Found at i:10659849 original size:51 final size:50
Alignment explanation
Indices: 10659789--10660027 Score: 180
Period size: 51 Copynumber: 4.7 Consensus size: 50
10659779 ATGAACACGT
*
10659789 GTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACAA
1 GTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACAA
* * * * * * **
10659840 GTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGTTTTGAG-CACGT
1 GTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATG-GTCACAA
* * * * * *
10659891 GTGTAGTAGTGTGTGAAAGCTACTACGTGTATCGGTAAACTATGGTTACAT
1 GTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA-TATGGTCACAA
* * * * * * *
10659942 GTGTGGTACTAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTGGTCACGTA
1 GTGTAGTACTATGTGAAGGCTACTACGTG-TATC-GATAA-ATATGGTCAC-AA
10659994 -TGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 GTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
10660028 ATGATAAAAA
Statistics
Matches: 141, Mismatches: 38, Indels: 19
0.71 0.19 0.10
Matches are distributed among these distances:
50 4 0.03
51 133 0.94
52 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (50 bp):
GTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATGGTCACAA
Found at i:10659960 original size:102 final size:102
Alignment explanation
Indices: 10659784--10660027 Score: 343
Period size: 102 Copynumber: 2.4 Consensus size: 102
10659774 TATCGATGAA
10659784 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACAAGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACAAGTGTAGTAC
*
10659849 TAAGTGAAGGCTACTATGTG-TACC-GAGAAGTTTTGAG-
66 TAAGTGAAGGCTACTATG-GATACCGGA-AAGCTTTG-GT
* * * * * *
10659886 CACGTGTGTAGTAGTGTGTGAAAGCTACTACGTGTATCGGTAAACT-ATGGTTACATGTGTGGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACAAGTGTAGTA
10659950 CTAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
65 CTAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
* *
10659988 CACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGA
10660028 ATGATAAAAA
Statistics
Matches: 126, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
101 2 0.02
102 121 0.96
103 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACAAGTGTAGTAC
TAAGTGAAGGCTACTATGGATACCGGAAAGCTTTGGT
Found at i:10673704 original size:26 final size:26
Alignment explanation
Indices: 10673662--10673737 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
10673652 TCTCATCATT
* * **
10673662 ATTTTACCCCCAATAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACA
* * * *
10673688 ATTTTATCTCTGGTAAAAATTTGACA
1 ATTTTACCCCTAGTAAAATTTTGACA
10673714 ATTTTACCCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
10673738 GAAAATATGT
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACA
Found at i:10685091 original size:16 final size:16
Alignment explanation
Indices: 10685049--10685091 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
10685039 GGCTTTCTTG
*
10685049 GGTTCAAGTTTTTTCA
1 GGTTCAAATTTTTTCA
* * *
10685065 AGCTCAGATTTTTTCA
1 GGTTCAAATTTTTTCA
10685081 GGTTCAAATTT
1 GGTTCAAATTT
10685092 GTTACGGGTT
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (16 bp):
GGTTCAAATTTTTTCA
Found at i:10702115 original size:17 final size:16
Alignment explanation
Indices: 10702070--10702115 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 16
10702060 CCAGAGCTTT
*
10702070 TTCTTTTTGCTTTACTA
1 TTCTTTTT-CTTTTCTA
10702087 TTC-TTTTCTTTTCTA
1 TTCTTTTTCTTTTCTA
10702102 CTTCTTTTTCTTTT
1 -TTCTTTTTCTTTT
10702116 TTAATCTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 7 0.27
16 7 0.27
17 12 0.46
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.72
Consensus pattern (16 bp):
TTCTTTTTCTTTTCTA
Found at i:10724369 original size:108 final size:108
Alignment explanation
Indices: 10724180--10724397 Score: 436
Period size: 108 Copynumber: 2.0 Consensus size: 108
10724170 TCCCAAAACC
10724180 ACTGTTTTTATTTCATTGAAAACAGGCTGTTACAAAAGTAATGAGACTAATAATGGAAATATAAC
1 ACTGTTTTTATTTCATTGAAAACAGGCTGTTACAAAAGTAATGAGACTAATAATGGAAATATAAC
10724245 CATTTGTTAAATCAGTTAGTAGGAACCAAGTAATTACACTAGG
66 CATTTGTTAAATCAGTTAGTAGGAACCAAGTAATTACACTAGG
10724288 ACTGTTTTTATTTCATTGAAAACAGGCTGTTACAAAAGTAATGAGACTAATAATGGAAATATAAC
1 ACTGTTTTTATTTCATTGAAAACAGGCTGTTACAAAAGTAATGAGACTAATAATGGAAATATAAC
10724353 CATTTGTTAAATCAGTTAGTAGGAACCAAGTAATTACACTAGG
66 CATTTGTTAAATCAGTTAGTAGGAACCAAGTAATTACACTAGG
10724396 AC
1 AC
10724398 CCTAAAAAAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 110 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (108 bp):
ACTGTTTTTATTTCATTGAAAACAGGCTGTTACAAAAGTAATGAGACTAATAATGGAAATATAAC
CATTTGTTAAATCAGTTAGTAGGAACCAAGTAATTACACTAGG
Found at i:10725007 original size:63 final size:63
Alignment explanation
Indices: 10724908--10725206 Score: 352
Period size: 63 Copynumber: 4.8 Consensus size: 63
10724898 TATGTTACAT
* *
10724908 ATAAATAAATTATGGATTTGCGGAGGTTCGGTGGATGAGTACGGGAATCAAAATTGAAAATCG
1 ATAAATAAATTATGGCTTTGCGGAGGTTCGGTGGATGAGTACGAGAATCAAAATTGAAAATCG
* * * * *
10724971 ATAAATAAATTATGGCTTTGTGAAAGTTCAGTGGATGAGTACG-GTAATCAAAATTG-AAATCA
1 ATAAATAAATTATGGCTTTGCGGAGGTTCGGTGGATGAGTACGAG-AATCAAAATTGAAAATCG
* * * * * * * *
10725033 ATGAATAAATTATGGCTTTGCGGAGGTTCCGTGTAT-AATCACAAAAATCAAAATTGAAATTTG
1 ATAAATAAATTATGGCTTTGCGGAGGTTCGGTGGATGAGT-ACGAGAATCAAAATTGAAAATCG
* * * *
10725096 ATAAATAAATTATGGCTTTGTGGAGGTTCGGTGGATGAGTACGAGAATCAAAACTGAAATTTG
1 ATAAATAAATTATGGCTTTGCGGAGGTTCGGTGGATGAGTACGAGAATCAAAATTGAAAATCG
* * * *
10725159 ATAAATAAATTATGGCTTTGCAGAGGATCGATGGATGAGTACGGGAAT
1 ATAAATAAATTATGGCTTTGCGGAGGTTCGGTGGATGAGTACGAGAAT
10725207 TAGAATTGTA
Statistics
Matches: 200, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
61 2 0.01
62 49 0.25
63 147 0.74
64 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (63 bp):
ATAAATAAATTATGGCTTTGCGGAGGTTCGGTGGATGAGTACGAGAATCAAAATTGAAAATCG
Found at i:10725106 original size:125 final size:126
Alignment explanation
Indices: 10724908--10725184 Score: 362
Period size: 125 Copynumber: 2.2 Consensus size: 126
10724898 TATGTTACAT
* * * ***
10724908 ATAAATAAATTATGGATTTGCGGAGGTTCGGTGGATGAGTACGGGAATCAAAATTGAAAATCGAT
1 ATAAATAAATTATGGCTTTGCGGAGGTTCCGTGGATGAATACAAAAATCAAAATTGAAAATCGAT
*
10724973 AAATAAATTATGGCTTTGTGAAAGTTCAGTGGATGAGTACG-GTAATCAAAATTGAAA-TCA
66 AAATAAATTATGGCTTTGTGAAAGTTCAGTGGATGAGTACGAG-AATCAAAACTGAAATTCA
* * * *
10725033 ATGAATAAATTATGGCTTTGCGGAGGTTCCGTGTAT-AATCACAAAAATCAAAATTGAAATTTGA
1 ATAAATAAATTATGGCTTTGCGGAGGTTCCGTGGATGAAT-ACAAAAATCAAAATTGAAAATCGA
* * * **
10725097 TAAATAAATTATGGCTTTGTGGAGGTTCGGTGGATGAGTACGAGAATCAAAACTGAAATTTG
65 TAAATAAATTATGGCTTTGTGAAAGTTCAGTGGATGAGTACGAGAATCAAAACTGAAATTCA
*
10725159 ATAAATAAATTATGGCTTTGCAGAGG
1 ATAAATAAATTATGGCTTTGCGGAGG
10725185 ATCGATGGAT
Statistics
Matches: 131, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
124 2 0.02
125 103 0.79
126 26 0.20
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.30
Consensus pattern (126 bp):
ATAAATAAATTATGGCTTTGCGGAGGTTCCGTGGATGAATACAAAAATCAAAATTGAAAATCGAT
AAATAAATTATGGCTTTGTGAAAGTTCAGTGGATGAGTACGAGAATCAAAACTGAAATTCA
Found at i:10730329 original size:23 final size:23
Alignment explanation
Indices: 10730303--10730348 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
10730293 TTTTGGCTAT
*
10730303 CTTATGAT-GCATGTTTTGAATTG
1 CTTAT-ATGGCATGTCTTGAATTG
*
10730326 CTTATATGGTATGTCTTGAATTG
1 CTTATATGGCATGTCTTGAATTG
10730349 GTATGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.48
Consensus pattern (23 bp):
CTTATATGGCATGTCTTGAATTG
Found at i:10739638 original size:34 final size:36
Alignment explanation
Indices: 10739600--10739668 Score: 90
Period size: 34 Copynumber: 2.0 Consensus size: 36
10739590 TTGAGAGAAC
**
10739600 TCTATGAGAGTTAGGG-TTT-TATTTTT-GGGTTTGT
1 TCTATGAGAACTAGGGCTTTGT-TTTTTGGGGTTTGT
10739634 TCTATGAGAACTAGGGCTTTGTTTTTTGGGGTTTG
1 TCTATGAGAACTAGGGCTTTGTTTTTTGGGGTTTG
10739669 GTTTTATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 14 0.47
35 8 0.27
36 8 0.27
ACGTcount: A:0.14, C:0.06, G:0.30, T:0.49
Consensus pattern (36 bp):
TCTATGAGAACTAGGGCTTTGTTTTTTGGGGTTTGT
Found at i:10751667 original size:19 final size:19
Alignment explanation
Indices: 10751628--10751667 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10751618 TTTTCTAATT
*
10751628 CAATTTCTTCAAATTTTAA
1 CAATTTCTTCAAATTTGAA
10751647 CAATTT-TTCAAATTTGGAA
1 CAATTTCTTCAAATTT-GAA
10751666 CA
1 CA
10751668 GGGGCAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (19 bp):
CAATTTCTTCAAATTTGAA
Found at i:10752980 original size:27 final size:26
Alignment explanation
Indices: 10752904--10752981 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
10752894 ATAGCACAAA
*
10752904 TCAGTCA-TTTACCC-TCTAGGGGCAT
1 TCAGTCATTTTACCCTTC-AGGGGTAT
*
10752929 TACGGTCATTTTA-CCTTACAGGGGTAGT
1 T-CAGTCATTTTACCCTT-CAGGGGTA-T
10752957 TCAGTCATTTTACCCTTCAGGGGTA
1 TCAGTCATTTTACCCTTCAGGGGTA
10752982 CTTCGATCAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
25 1 0.02
26 7 0.16
27 29 0.66
28 7 0.16
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
TCAGTCATTTTACCCTTCAGGGGTAT
Found at i:10755717 original size:20 final size:19
Alignment explanation
Indices: 10755692--10755732 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
10755682 TTAGAAATTA
10755692 TTATTCCAAGAAAATAGAAT
1 TTATTCCAAGAAAATA-AAT
*
10755712 TTATTCTAAGAAAATAAAT
1 TTATTCCAAGAAAATAAAT
10755731 TT
1 TT
10755733 CCACTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (19 bp):
TTATTCCAAGAAAATAAAT
Found at i:10756110 original size:8 final size:9
Alignment explanation
Indices: 10756062--10756094 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
10756052 CAAATTAAAT
10756062 ATTAATT-A
1 ATTAATTAA
10756070 ATTAATTAA
1 ATTAATTAA
*
10756079 ATTAACTAA
1 ATTAATTAA
10756088 ATTAATT
1 ATTAATT
10756095 TCCCAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTAATTAA
Found at i:10768568 original size:20 final size:20
Alignment explanation
Indices: 10768543--10768581 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10768533 GTACGGGATA
10768543 GCACTTCAGTGCCTTTGTTT
1 GCACTTCAGTGCCTTTGTTT
10768563 GCACTTCAGTGCCTTTGTT
1 GCACTTCAGTGCCTTTGTT
10768582 ACACTTCGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.21, T:0.44
Consensus pattern (20 bp):
GCACTTCAGTGCCTTTGTTT
Found at i:10768588 original size:19 final size:20
Alignment explanation
Indices: 10768544--10768588 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
10768534 TACGGGATAG
*
10768544 CACTTCAGTGCCTTTGTTTG
1 CACTTCAGTGCCTTTGTTTA
10768564 CACTTCAGTGCCTTTG-TTA
1 CACTTCAGTGCCTTTGTTTA
10768583 CACTTC
1 CACTTC
10768589 GGTGTTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.13, C:0.29, G:0.16, T:0.42
Consensus pattern (20 bp):
CACTTCAGTGCCTTTGTTTA
Found at i:10775159 original size:20 final size:19
Alignment explanation
Indices: 10775119--10775159 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10775109 AAATAGTGAG
*
10775119 AAATTTATTTTCTAAGTAT
1 AAATTTATTTTCTAAGAAT
*
10775138 AAATTATATTTTCTGAGAAT
1 AAATT-TATTTTCTAAGAAT
10775158 AA
1 AA
10775160 TAATTCTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (19 bp):
AAATTTATTTTCTAAGAAT
Found at i:10796801 original size:15 final size:15
Alignment explanation
Indices: 10796781--10796813 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10796771 TTAAATTTTT
10796781 AATTAAGATTTCTAA
1 AATTAAGATTTCTAA
10796796 AATTAAGATTTCTAA
1 AATTAAGATTTCTAA
10796811 AAT
1 AAT
10796814 ATGTATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
AATTAAGATTTCTAA
Found at i:10801907 original size:13 final size:13
Alignment explanation
Indices: 10801891--10801915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10801881 AACACATTCG
10801891 CAAAAACAAAAAA
1 CAAAAACAAAAAA
10801904 CAAAAACAAAAA
1 CAAAAACAAAAA
10801916 CTTACAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAACAAAAAA
Found at i:10801934 original size:96 final size:97
Alignment explanation
Indices: 10801824--10802018 Score: 383
Period size: 96 Copynumber: 2.0 Consensus size: 97
10801814 ATTTATAAAA
10801824 AAATAACTTAAACTTCAAATATTTTTTAAAAATAAATTAAACGAAACTTAAATTTAAAACACATT
1 AAATAACTTAAACTTCAAATATTTTTTAAAAATAAATTAAACGAAACTTAAATTTAAAACACATT
10801889 CGCAAAAACAAAAAACAAAAACAAAAACTTAC
66 CGCAAAAACAAAAAACAAAAACAAAAACTTAC
10801921 AAATAACTT-AACTTCAAATATTTTTTAAAAATAAATTAAACGAAACTTAAATTTAAAACACATT
1 AAATAACTTAAACTTCAAATATTTTTTAAAAATAAATTAAACGAAACTTAAATTTAAAACACATT
10801985 CGCAAAAACAAAAAACAAAAACAAAAACTTAC
66 CGCAAAAACAAAAAACAAAAACAAAAACTTAC
10802017 AA
1 AA
10802019 CACAAAGATC
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
96 89 0.91
97 9 0.09
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (97 bp):
AAATAACTTAAACTTCAAATATTTTTTAAAAATAAATTAAACGAAACTTAAATTTAAAACACATT
CGCAAAAACAAAAAACAAAAACAAAAACTTAC
Found at i:10802003 original size:13 final size:13
Alignment explanation
Indices: 10801987--10802011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10801977 AACACATTCG
10801987 CAAAAACAAAAAA
1 CAAAAACAAAAAA
10802000 CAAAAACAAAAA
1 CAAAAACAAAAA
10802012 CTTACAACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
CAAAAACAAAAAA
Found at i:10819591 original size:12 final size:12
Alignment explanation
Indices: 10819576--10819605 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10819566 TTATGGCAAC
10819576 TCTTATAATAAT
1 TCTTATAATAAT
10819588 TCTTATAATAAT
1 TCTTATAATAAT
*
10819600 TTTTAT
1 TCTTAT
10819606 GTCAGTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
TCTTATAATAAT
Found at i:10822655 original size:3 final size:3
Alignment explanation
Indices: 10822647--10822678 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10822637 ATTCTTGTAT
10822647 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
10822679 TAGAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:10824898 original size:21 final size:20
Alignment explanation
Indices: 10824850--10824899 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
10824840 GATACTATTT
*
10824850 TATCGATACTTTTTGAAAAA
1 TATCGATACTGTTTGAAAAA
*
10824870 TATTGATACTCGTTT-AAAAA
1 TATCGATACT-GTTTGAAAAA
10824890 GTATCGATAC
1 -TATCGATAC
10824900 ACGTGAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (20 bp):
TATCGATACTGTTTGAAAAA
Found at i:10825007 original size:20 final size:20
Alignment explanation
Indices: 10824982--10825019 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10824972 CCCTCTCAAC
*
10824982 CCTTTTCTTCAAAATCTTCA
1 CCTTTTCTACAAAATCTTCA
10825002 CCTTTTCTACAAAATCTT
1 CCTTTTCTACAAAATCTT
10825020 GGCACAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (20 bp):
CCTTTTCTACAAAATCTTCA
Found at i:10829864 original size:56 final size:50
Alignment explanation
Indices: 10829795--10830034 Score: 234
Period size: 50 Copynumber: 4.7 Consensus size: 50
10829785 TAAAGTGATA
*
10829795 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAAATTATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CG--A-TATGAGAGGTC
* *
10829851 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGGTC
* * **
10829901 CTC-CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTC
1 C-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGGTC
* * * * * * **
10829951 CCATGTAAGACCATATCTGGGATATGGAATTGGCA--GTACAAGAAACATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ATATGAGAGGTC
* *
10830000 CCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10830035 TGTTATTATC
Statistics
Matches: 157, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 80 0.51
51 2 0.01
53 1 0.01
55 1 0.01
56 34 0.22
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGGTC
Found at i:10836349 original size:50 final size:50
Alignment explanation
Indices: 10836226--10836467 Score: 168
Period size: 50 Copynumber: 4.7 Consensus size: 50
10836216 GGTAAAGAGA
* * * *
10836226 TCCCATGTAAGACCATGTTTGGGAGATGGCATTGGCATCATTGAGGTTATGAGAGA-
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATGAGA-AC
* * * **
10836282 TCCCATGGAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * * *
10836332 TCCCCCGTAAGACCATGTTTGGGACATAGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * ** * *
10836382 TCCCATGTAAGACCATATCTGGGATATGGCATTGG--TTGTACAAGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC
* *
10836430 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
10836468 TGTTGTTATC
Statistics
Matches: 151, Mismatches: 30, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
48 4 0.03
49 36 0.24
50 74 0.49
52 1 0.01
53 2 0.01
55 1 0.01
56 33 0.22
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:10843466 original size:20 final size:18
Alignment explanation
Indices: 10843419--10843467 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
10843409 CAAGGTAAAC
10843419 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
10843436 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
10843456 ATTAAATTAATA
1 ATTAAATTAATA
10843468 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:10844388 original size:43 final size:43
Alignment explanation
Indices: 10844327--10844412 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
10844317 AAGTACCATG
10844327 ATTGAAAACTTCTTATTGTATACTCTTTATGAAAACAATTCAT
1 ATTGAAAACTTCTTATTGTATACTCTTTATGAAAACAATTCAT
10844370 ATTGAAAACTTCTTATTGTATACTCTTTATGAAAACAATTCAT
1 ATTGAAAACTTCTTATTGTATACTCTTTATGAAAACAATTCAT
10844413 CAAACTGCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (43 bp):
ATTGAAAACTTCTTATTGTATACTCTTTATGAAAACAATTCAT
Found at i:10846461 original size:20 final size:21
Alignment explanation
Indices: 10846432--10846488 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 21
10846422 ATAAACTATG
*
10846432 TACCACTCCATTTACTTT-CT
1 TACCATTCCATTTACTTTACT
*
10846452 TACCATTCCACTTA-TTTACT
1 TACCATTCCATTTACTTTACT
* **
10846472 TTCCATTTAATTTACTT
1 TACCATTCCATTTACTT
10846489 AACATAAGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.10
20 24 0.83
21 2 0.07
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.49
Consensus pattern (21 bp):
TACCATTCCATTTACTTTACT
Found at i:10847447 original size:138 final size:137
Alignment explanation
Indices: 10847188--10847450 Score: 319
Period size: 138 Copynumber: 1.9 Consensus size: 137
10847178 TAAATGGGTA
* * * *
10847188 TGCTCACACAAGTTGACGGTTAGAATGTAGCTACACGATGCCGCTTACACAAGATGACGAGTATA
1 TGCTCACACAAGTAGACGGTCAGAATGTAGCTACACAATGCCGCTCACACAAGATGACGAGTATA
* * * *
10847253 TGCAAAAAATGCCGGAACTCAGCCATCAATAGCATATTCAGGACCAACACCCGAAACATGGTAAC
66 CGCAAAAAATGCCGGAACTCAGCCATCAATAGAACATTCAGGACCAACACCAGAAACATGGTAAC
10847318 CTTGGTC
131 CTTGGTC
* * * * **
10847325 TGCTTACACAAGTAGACGGTCGGAATGTAAGCTACACAATGCTGCTCACACAAGCTGGTGAGTAT
1 TGCTCACACAAGTAGACGGTCAGAATGT-AGCTACACAATGCCGCTCACACAAGATGACGAGTAT
* * * * * ** *
10847390 CCGCAACAAATGTCGGACCTCAGCTATCGGTAGAACATTCAGGACCAGCACCAGAAACATG
65 ACGCAAAAAATGCCGGAACTCAGCCATCAATAGAACATTCAGGACCAACACCAGAAACATG
10847451 AAAACCCTAA
Statistics
Matches: 103, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
137 24 0.23
138 79 0.77
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (137 bp):
TGCTCACACAAGTAGACGGTCAGAATGTAGCTACACAATGCCGCTCACACAAGATGACGAGTATA
CGCAAAAAATGCCGGAACTCAGCCATCAATAGAACATTCAGGACCAACACCAGAAACATGGTAAC
CTTGGTC
Found at i:10850526 original size:28 final size:28
Alignment explanation
Indices: 10850472--10850700 Score: 293
Period size: 28 Copynumber: 8.3 Consensus size: 28
10850462 CTATTCAGTA
* **
10850472 ACAGT-ACAGTGT-GGCATTAGCCTGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
10850498 ACAGTAATAGTGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
** *
10850526 ACAGTAGTAGTGTGGGCCTTAGCCCGAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
10850554 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* * *
10850582 ATAGTAACAGTGTGGGCCATAGCCCCAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
10850610 ACAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
10850638 ACAGTAACACTGTGGGCCTTAGCCTAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
* *
10850666 ACTGTAACAGTGTGGGCCTTAACCCAA-
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
10850693 ATAGTAAC
1 ACAGTAAC
10850701 TAGTACAGTG
Statistics
Matches: 180, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
26 5 0.03
27 12 0.07
28 163 0.91
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:10857610 original size:26 final size:26
Alignment explanation
Indices: 10857572--10857678 Score: 151
Period size: 26 Copynumber: 4.1 Consensus size: 26
10857562 AACACACCAC
** * *
10857572 TATCGCAAAAAAGTTGCCAGTAATAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
10857598 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
10857624 TATCGCAGCAAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
10857650 TATCGCAGCAAAGTTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
10857676 TAT
1 TAT
10857679 ATGTGGCAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:10857961 original size:27 final size:27
Alignment explanation
Indices: 10857931--10858269 Score: 369
Period size: 27 Copynumber: 12.6 Consensus size: 27
10857921 TCCTATGGCA
*
10857931 GTATTTCAATCATTTTACCCTTCGAGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* * *
10857958 GTATTCCGATCATTTCACCCTTCGGGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* *
10857985 GTATTTTGATCATTTTACCCTTCGGGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* *
10858012 GTATTTCGATCATTTTACCTTTCGGGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* *
10858039 GTATTTTGATCATTTTACCCTTCGGGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* *
10858066 GTATTTTGGTCATTTTACCCTTCGAGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* **
10858093 GTATTTCGGTCATTTTACCAATCGAGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* *
10858120 GTATTTCGATCATTTTACACTTCTAGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* *
10858147 ATATTTTTG-TCATTTTA-CCTATCGAGG
1 GTA-TTTCGATCATTTTACCCT-TCGAGG
* *
10858174 GTATTTCAATTATTTTA-CCTATCGAGG
1 GTATTTCGATCATTTTACCCT-TCGAGG
* * **
10858201 GTATTTCGGTCATTTTACCCATAAAGG
1 GTATTTCGATCATTTTACCCTTCGAGG
* * *
10858228 GTATTTCGGTCATTTTACCCATCAAGG
1 GTATTTCGATCATTTTACCCTTCGAGG
*
10858255 TTATTTCGATCATTT
1 GTATTTCGATCATTT
10858270 GCCCACAAAT
Statistics
Matches: 270, Mismatches: 38, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 5 0.02
27 259 0.96
28 6 0.02
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
GTATTTCGATCATTTTACCCTTCGAGG
Found at i:10857987 original size:81 final size:81
Alignment explanation
Indices: 10857901--10858134 Score: 222
Period size: 81 Copynumber: 2.9 Consensus size: 81
10857891 TCATCTCTTA
*
10857901 GGGGTATAACAG-TCATTTTATCCTAT-GGCAGTATTTCAATCATTTTACCCTTCGAGGGTATTC
1 GGGGTAT-ACAGATCATTTTACCCT-TCGGCAGTATTTCAATCATTTTACCCTTCGAGGGTATTC
10857964 CGATCATTTCACCCTTCG
64 CGATCATTTCACCCTTCG
*** ** * * * **
10857982 GGGGTATTTTGATCATTTTACCCTTCGGGGGTATTTCGATCATTTTACCTTTCGGGGGTATTTTG
1 GGGGTATACAGATCATTTTACCCTTCGGCAGTATTTCAATCATTTTACCCTTCGAGGGTATTCCG
*
10858047 ATCATTTTACCCTTCG
66 ATCATTTCACCCTTCG
*** * * ** ** *
10858063 GGGGTATTTTGGTCATTTTACCCTTCGAG-GGTATTTCGGTCATTTTACCAATCGAGGGTATTTC
1 GGGGTATACAGATCATTTTACCCTTCG-GCAGTATTTCAATCATTTTACCCTTCGAGGGTATTCC
10858127 GATCATTT
65 GATCATTT
10858135 TACACTTCTA
Statistics
Matches: 132, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 129 0.98
82 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGGTATACAGATCATTTTACCCTTCGGCAGTATTTCAATCATTTTACCCTTCGAGGGTATTCCG
ATCATTTCACCCTTCG
Found at i:10858135 original size:81 final size:81
Alignment explanation
Indices: 10857931--10858269 Score: 412
Period size: 81 Copynumber: 4.2 Consensus size: 81
10857921 TCCTATGGCA
* * * * *
10857931 GTATTTCAATCATTTTACCCT-TCGAGGGTATTCCGATCATTTCACCCTTCGGGGGTATTTTGAT
1 GTATTTCGATCATTTTA-CCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGGT
*
10857995 CATTTTACCCTTCGGGG
65 CATTTTACCCTTCGAGG
* * * *
10858012 GTATTTCGATCATTTTACCTTTCGGGGGTATTTTGATCATTTTACCCTTCGGGGGTATTTTGGTC
1 GTATTTCGATCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGGTC
10858077 ATTTTACCCTTCGAGG
66 ATTTTACCCTTCGAGG
* * * * * *
10858093 GTATTTCGGTCATTTTACCAATCGAGGGTATTTCGATCATTTTACACTTCTAGGATATTTTTGTC
1 GTATTTCGATCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGGTC
10858158 ATTTTA-CCTATCGAGG
66 ATTTTACCCT-TCGAGG
* * * * ** *
10858174 GTATTTCAATTATTTTACCTATCGAGGGTATTTCGGTCATTTTACCCATAAAGGGTATTTCGGTC
1 GTATTTCGATCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGGTC
* *
10858239 ATTTTACCCATCAAGG
66 ATTTTACCCTTCGAGG
*
10858255 TTATTTCGATCATTT
1 GTATTTCGATCATTT
10858270 GCCCACAAAT
Statistics
Matches: 221, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
80 6 0.03
81 213 0.96
82 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (81 bp):
GTATTTCGATCATTTTACCTATCGAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTTGGTC
ATTTTACCCTTCGAGG
Found at i:10866485 original size:12 final size:12
Alignment explanation
Indices: 10866468--10866499 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10866458 CTTTCCTCGA
10866468 GGAAAACTACAT
1 GGAAAACTACAT
10866480 GGAAAACTACAT
1 GGAAAACTACAT
*
10866492 GGATAACT
1 GGAAAACT
10866500 TTAAGCCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (12 bp):
GGAAAACTACAT
Found at i:10868400 original size:14 final size:14
Alignment explanation
Indices: 10868381--10868410 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10868371 TTCGCTAATA
*
10868381 TGTCTTTTGTATTT
1 TGTCTTTTATATTT
10868395 TGTCTTTTATATTT
1 TGTCTTTTATATTT
10868409 TG
1 TG
10868411 CATGCATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (14 bp):
TGTCTTTTATATTT
Found at i:10878678 original size:14 final size:14
Alignment explanation
Indices: 10878659--10878688 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10878649 TTCGCTAATA
*
10878659 TGTCTTTTGTATTT
1 TGTCTTTTATATTT
10878673 TGTCTTTTATATTT
1 TGTCTTTTATATTT
10878687 TG
1 TG
10878689 CATGCATAGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (14 bp):
TGTCTTTTATATTT
Found at i:10880472 original size:16 final size:16
Alignment explanation
Indices: 10880444--10880503 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
10880434 AATATTAAAT
10880444 TAATATAATATTTATC
1 TAATATAATATTTATC
*
10880460 TAATATAATATTTCTC
1 TAATATAATATTTATC
*
10880476 TTGATA-AATATTATAT-
1 -TAATATAATATT-TATC
*
10880492 TAATTTAATATT
1 TAATATAATATT
10880504 AAAGTGATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
15 3 0.08
16 27 0.75
17 6 0.17
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (16 bp):
TAATATAATATTTATC
Found at i:10880504 original size:16 final size:16
Alignment explanation
Indices: 10880430--10880504 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 16
10880420 TTTTAATAAG
*
10880430 ATTTAATATTAAATTA
1 ATTTAATATTATATTA
*
10880446 ATATAATATT-TATCTA
1 ATTTAATATTATAT-TA
* * * *
10880462 ATATAATATTTCTCTTG
1 ATTTAATA-TTATATTA
*
10880479 A-TAAATATTATATTA
1 ATTTAATATTATATTA
10880494 ATTTAATATTA
1 ATTTAATATTA
10880505 AAGTGATTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
15 8 0.18
16 31 0.69
17 4 0.09
18 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (16 bp):
ATTTAATATTATATTA
Found at i:10881310 original size:5 final size:5
Alignment explanation
Indices: 10881300--10881345 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
10881290 CATTTTTTTA
* *
10881300 TCTTT TCTTT TCTCT TCTTT TCTTT TCTTT CCTTT TCTTT TCTTT T
1 TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT TCTTT T
10881346 TTGTTTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:10883144 original size:26 final size:26
Alignment explanation
Indices: 10883115--10883191 Score: 109
Period size: 26 Copynumber: 2.9 Consensus size: 26
10883105 TTTTTGATGT
*
10883115 AATATGAAAGAAAGCCTTTGTGGTGG
1 AATATGAAAGAAAGCCTTTGTGGCGG
*
10883141 AATATGAAAGAAAACCTTTGTGGCGG
1 AATATGAAAGAAAGCCTTTGTGGCGG
* *
10883167 AATATGAAAGGAATGTCTTTGTGGC
1 AATATGAAA-GAAAGCCTTTGTGGC
10883192 AAACTCCGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 33 0.73
27 12 0.27
ACGTcount: A:0.35, C:0.09, G:0.29, T:0.27
Consensus pattern (26 bp):
AATATGAAAGAAAGCCTTTGTGGCGG
Found at i:10894684 original size:51 final size:51
Alignment explanation
Indices: 10894625--10894962 Score: 362
Period size: 51 Copynumber: 6.7 Consensus size: 51
10894615 TATCAATGAA
* **
10894625 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATCTTGGT
* * * * * * *
10894676 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGA-GAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATC-TTGGT
* *
10894727 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAAT-TATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATCT-TGGT
* * ** * *
10894778 CACATGTGTAGTACTAAGTGAAGGCTACTATATGTACCGA-AAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATC-TTGGT
* * **
10894829 GACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTAAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATCTTGGT
* * * *
10894879 CACGTGTGCAGTACTATGTGAAGGCTACCACGTGAACCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATCTTGGT
* *
10894929 CACGTGTGTAGTACTATGTGAAGGTTGCTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
10894963 TATCGAATGA
Statistics
Matches: 237, Mismatches: 44, Indels: 13
0.81 0.15 0.04
Matches are distributed among these distances:
50 85 0.36
51 149 0.63
52 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATCTTGGT
Found at i:10894801 original size:102 final size:101
Alignment explanation
Indices: 10894625--10894968 Score: 453
Period size: 102 Copynumber: 3.4 Consensus size: 101
10894615 TATCAATGAA
*
10894625 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATTATGGTCACATGTGTAGTAC
10894690 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGA-AAGCTTTGGT
*
10894727 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATTATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATTATGGTCACATGTGTAGTAC
* *
10894792 TAAGTGAAGGCTACTATATGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCG-AAAGCTTTGGT
* * * * *
10894829 GACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTA--ATCACGTGTGCAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGAT-AAA-TTATGGTCACATGTGTAGT
* * * * * *
10894891 ACTATGTGAAGGCTACCACGTGAACCGTAAAAC-TTGAT
64 ACTAAGTGAAGGCTACAATGTGTACCG-AAAGCTTTGGT
* * *
10894929 CACGTGTGTAGTACTATGTGAAGGTTGCTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
10894969 ATGATAAAAG
Statistics
Matches: 215, Mismatches: 23, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
100 38 0.18
101 38 0.18
102 135 0.63
103 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAAAGCTTTGGT
Found at i:10899940 original size:7 final size:7
Alignment explanation
Indices: 10899928--10899953 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10899918 TCTTCTTGCA
10899928 TGTTTTG
1 TGTTTTG
10899935 TGTTTTG
1 TGTTTTG
10899942 TGTTTTG
1 TGTTTTG
10899949 TGTTT
1 TGTTT
10899954 GCTTAAGGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.27, T:0.73
Consensus pattern (7 bp):
TGTTTTG
Found at i:10901835 original size:14 final size:15
Alignment explanation
Indices: 10901816--10901849 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10901806 ATGTAGCAGA
*
10901816 TTTTGT-TGTTTCTG
1 TTTTGTATGGTTCTG
10901830 TTTTGTATGGTTCTG
1 TTTTGTATGGTTCTG
10901845 TTTTG
1 TTTTG
10901850 GATGAACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.03, C:0.06, G:0.24, T:0.68
Consensus pattern (15 bp):
TTTTGTATGGTTCTG
Found at i:10904298 original size:15 final size:15
Alignment explanation
Indices: 10904263--10904304 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10904253 TTAAGAATTT
*
10904263 TATTAAATTAT-ATA
1 TATTTAATTATAATA
10904277 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
10904291 TATTTAATAATAAT
1 TATTTAATTATAAT
10904305 TATGTCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:10924116 original size:48 final size:48
Alignment explanation
Indices: 10924027--10924128 Score: 145
Period size: 48 Copynumber: 2.1 Consensus size: 48
10924017 GGGGTAGCAA
*
10924027 AGGGATAATGGGGAAGAGGGAAAAAATCAGAGTAGGAGGAGGGATGGT
1 AGGGAAAATGGGGAAGAGGGAAAAAATCAGAGTAGGAGGAGGGATGGT
* *
10924075 AGGGAAAAT-GGGAAGAGGGAGAGAGAATTAGAGTAGG-GGAGGGATGGT
1 AGGGAAAATGGGGAAGAGGGA-A-AAAATCAGAGTAGGAGGAGGGATGGT
10924123 AGGGAA
1 AGGGAA
10924129 GACGAAGAGG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
47 11 0.22
48 26 0.53
49 12 0.24
ACGTcount: A:0.39, C:0.01, G:0.48, T:0.12
Consensus pattern (48 bp):
AGGGAAAATGGGGAAGAGGGAAAAAATCAGAGTAGGAGGAGGGATGGT
Found at i:10924230 original size:30 final size:30
Alignment explanation
Indices: 10924164--10924230 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
10924154 ATAGGGGGAT
*
10924164 GAAAAATGGCAGCTCCGTTAAGTTTGTAAA
1 GAAAAATGGCAGCTCCGTTAAGTCTGTAAA
* * ** * *
10924194 GGAAAATGGTAGCTTTGTTACGTCTGTAAC
1 GAAAAATGGCAGCTCCGTTAAGTCTGTAAA
10924224 GAAAAAT
1 GAAAAAT
10924231 AGTTAGTGGT
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (30 bp):
GAAAAATGGCAGCTCCGTTAAGTCTGTAAA
Found at i:10924283 original size:20 final size:20
Alignment explanation
Indices: 10924258--10924295 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10924248 TTGTTATTTT
*
10924258 TTGAAATTTGAGTGACTGAA
1 TTGAAACTTGAGTGACTGAA
10924278 TTGAAACTTGAGTGACTG
1 TTGAAACTTGAGTGACTG
10924296 TTTTGTTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (20 bp):
TTGAAACTTGAGTGACTGAA
Found at i:10925799 original size:39 final size:38
Alignment explanation
Indices: 10925755--10925841 Score: 111
Period size: 39 Copynumber: 2.3 Consensus size: 38
10925745 CCACCAGCCA
* * *
10925755 CCACCATCGTCGTTCACCAGTTAGGTAGTCACCACCTAT
1 CCACCATCATCGTTCACCAGTCAAGTAGTCACCA-CTAT
* * *
10925794 CCACCATCATTGTTCATCAGTCAAGTAGTCACCACTGT
1 CCACCATCATCGTTCACCAGTCAAGTAGTCACCACTAT
10925832 CCACCATCAT
1 CCACCATCAT
10925842 TATTCAACAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 13 0.31
39 29 0.69
ACGTcount: A:0.25, C:0.36, G:0.13, T:0.26
Consensus pattern (38 bp):
CCACCATCATCGTTCACCAGTCAAGTAGTCACCACTAT
Found at i:10928883 original size:14 final size:14
Alignment explanation
Indices: 10928864--10928917 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
10928854 ACGTTATCGA
10928864 ATAAATATATAAAT
1 ATAAATATATAAAT
* *
10928878 ATAAATAAACAAAT
1 ATAAATATATAAAT
**
10928892 ATTTATATATAAA-
1 ATAAATATATAAAT
10928905 ATAAA-ATATAAAT
1 ATAAATATATAAAT
10928918 TGAATAATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
12 7 0.23
13 3 0.10
14 21 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAATATATAAAT
Found at i:10928901 original size:22 final size:23
Alignment explanation
Indices: 10928866--10928909 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
10928856 GTTATCGAAT
10928866 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
10928888 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
10928910 ATATAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:10929401 original size:21 final size:20
Alignment explanation
Indices: 10929367--10929408 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
10929357 TTAAATTCAT
10929367 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATCAAA
*
10929387 TTGATTTAGAATCAAATCAAA
1 TTGA-TTAAAATCAAATCAAA
10929408 T
1 T
10929409 CAAGATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (20 bp):
TTGATTAAAATCAAATCAAA
Found at i:10932395 original size:58 final size:54
Alignment explanation
Indices: 10932333--10932442 Score: 157
Period size: 54 Copynumber: 2.0 Consensus size: 54
10932323 GAAATTATTA
* *
10932333 TGGTTTTCTCCAAAATGAAAATGAAGATGGAGAAAATGGAATCATTTGGAAATGAATG
1 TGGTTTTCT-CAAAATGAAAATAAAAAT-GAG-AAAT-GAATCATTTGGAAATGAATG
*
10932391 TGGTTTTCTCAAAATGAAAATAAAAATGAGAAATGATTCATTTGGAAATGAA
1 TGGTTTTCTCAAAATGAAAATAAAAATGAGAAATGAATCATTTGGAAATGAA
10932443 AAAGGATTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 17 0.35
55 4 0.08
56 3 0.06
57 16 0.33
58 9 0.18
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (54 bp):
TGGTTTTCTCAAAATGAAAATAAAAATGAGAAATGAATCATTTGGAAATGAATG
Found at i:10932457 original size:54 final size:57
Alignment explanation
Indices: 10932343--10932458 Score: 130
Period size: 54 Copynumber: 2.1 Consensus size: 57
10932333 TGGTTTTCTC
* * *** * **
10932343 CAAAATGAAAATGAAGATGGAGAAAATGGAATCATTTGGAAATGAATGTGGTTTTCT
1 CAAAATGAAAATAAAAATGGAGAAAATGGAATCATTTGGAAATGAAAAAGGATTAAT
*
10932400 CAAAATGAAAATAAAAAT-GAG-AAAT-GATTCATTTGGAAATGAAAAAGGATTAAT
1 CAAAATGAAAATAAAAATGGAGAAAATGGAATCATTTGGAAATGAAAAAGGATTAAT
10932454 CAAAA
1 CAAAA
10932459 ATGATCTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
54 27 0.54
55 4 0.08
56 3 0.06
57 16 0.32
ACGTcount: A:0.50, C:0.05, G:0.20, T:0.25
Consensus pattern (57 bp):
CAAAATGAAAATAAAAATGGAGAAAATGGAATCATTTGGAAATGAAAAAGGATTAAT
Found at i:10937182 original size:25 final size:26
Alignment explanation
Indices: 10937154--10937202 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
10937144 GTAAATGAAG
*
10937154 TTATAAGCATA-GTGTTTGTTTGAGT
1 TTATAAACATATGTGTTTGTTTGAGT
*
10937179 TTATAAACATATGTTTTTGTTTGA
1 TTATAAACATATGTGTTTGTTTGA
10937203 AGCCTAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.27, C:0.04, G:0.18, T:0.51
Consensus pattern (26 bp):
TTATAAACATATGTGTTTGTTTGAGT
Found at i:10937680 original size:9 final size:10
Alignment explanation
Indices: 10937655--10937681 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
10937645 CCTGTCATAG
10937655 AATTTTTCTA
1 AATTTTTCTA
10937665 AATTTTTCTA
1 AATTTTTCTA
10937675 AATTTTT
1 AATTTTT
10937682 TCAAATGTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (10 bp):
AATTTTTCTA
Found at i:10943272 original size:20 final size:20
Alignment explanation
Indices: 10943236--10943273 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10943226 GTGAAATTTG
*
10943236 TATGAAAATATAGAATTAAT
1 TATGAAAATATAAAATTAAT
10943256 TATGAAGAATA-AAAATTA
1 TATGAA-AATATAAAATTA
10943274 GTCTCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.11, T:0.32
Consensus pattern (20 bp):
TATGAAAATATAAAATTAAT
Found at i:10953059 original size:30 final size:30
Alignment explanation
Indices: 10953023--10953084 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
10953013 TAAATTATTT
*
10953023 TTAAAAATTTGACT-ACTCCTTTTGTAAATA
1 TTAAAAATTAGA-TGACTCCTTTTGTAAATA
* *
10953053 TTAAAAATTAGATGCCTCTTTTTGTAAATA
1 TTAAAAATTAGATGACTCCTTTTGTAAATA
10953083 TT
1 TT
10953085 TTCAAAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.35, C:0.11, G:0.08, T:0.45
Consensus pattern (30 bp):
TTAAAAATTAGATGACTCCTTTTGTAAATA
Found at i:10953173 original size:22 final size:19
Alignment explanation
Indices: 10953142--10953188 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
10953132 AAAGATGATA
10953142 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
10953165 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
10953184 ATTAT
1 ATTAT
10953189 CAACTCTGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:10953184 original size:16 final size:15
Alignment explanation
Indices: 10953144--10953185 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
10953134 AGATGATAAT
10953144 TATTAATATATAATTA
1 TATTAAT-TATAATTA
10953160 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
10953176 TATTAATTAT
1 TATTAATTAT
10953186 TATCAACTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:10962574 original size:9 final size:9
Alignment explanation
Indices: 10962560--10962589 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
10962550 ATTAAAATAT
10962560 TAATTAAAC
1 TAATTAAAC
*
10962569 TAATTAAAT
1 TAATTAAAC
10962578 TAATTAAAC
1 TAATTAAAC
10962587 TAA
1 TAA
10962590 AATAACCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAC
Found at i:10962618 original size:29 final size:29
Alignment explanation
Indices: 10962577--10962632 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
10962567 ACTAATTAAA
*
10962577 TTAATTAAACTAAAATAACCTAATGGATT
1 TTAACTAAACTAAAATAACCTAATGGATT
* * *
10962606 TTAACTAACCTAAGATATCCTAATGGA
1 TTAACTAAACTAAAATAACCTAATGGA
10962633 ATTTCCTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (29 bp):
TTAACTAAACTAAAATAACCTAATGGATT
Found at i:10964724 original size:50 final size:50
Alignment explanation
Indices: 10964613--10964808 Score: 196
Period size: 50 Copynumber: 3.8 Consensus size: 50
10964603 ATTTGGGTAA
* *
10964613 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
10964669 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
10964719 AGAGGTCCCCCGTAAGACCGTATCTGGGACATGGCATGGGCACCGATG-TG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GATG
** * * * *
10964769 AGAACTCCCATGTAAGACCATATTTGGGATATGACATTGG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG
10964809 AAGTATAAGA
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
50 76 0.63
51 1 0.01
53 3 0.02
55 1 0.01
56 40 0.33
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:10972479 original size:96 final size:96
Alignment explanation
Indices: 10972315--10973530 Score: 1841
Period size: 96 Copynumber: 12.4 Consensus size: 96
10972305 TGCTAGGTTT
10972315 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10972380 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10972411 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10972476 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10972507 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10972572 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10972603 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10972668 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10972699 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10972764 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10972795 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10972860 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10972891 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10972956 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10972987 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10973052 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10973083 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
10973148 GTATAACAATTACATATACATTCAGCTATAG
66 GTATAACAATTACATATACATTCAGCTATAG
10973179 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAACCTATGTAATTTCAAA
1 ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCC---A--TA-G----TT----
** * * * * *
10973244 TAATTTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAG
52 TAATTTATTTCTCTGTATAAC-AAT-TACATATACATTCAGCTATAG
* ** * * * * * * **
10973291 TTTAAATT-ATTTCTCTGCATAAC-AAT-TACATATACATTCAGCTATAGATTAATTCATTTCAA
1 ATT-AATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTC
* *
10973353 TGTATAACAAATATATATATACATTCGGCCATAACCTATG
65 TGTATAAC-AAT-TACATATACATTCAG-C-T-A--TA-G
* * *
10973393 TAATTTCAAATAATTTATTTCAATGCATAAC-AA-ATATATATACATTCGGCCATAGTTTAATTC
1 --A--T----TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTT
*
10973456 ATTTCTCTGCATAACAATTACATATACATTCAGCTATAG
58 ATTTCTCTGTATAACAATTACATATACATTCAGCTATAG
* * *
10973495 ATTAATTCATTTTC-TTGCATAACAAATATATTTATA
1 ATTAATTCA-TTTCAATGTATAACAAATATATATATA
10973531 TATATACATT
Statistics
Matches: 1050, Mismatches: 34, Indels: 72
0.91 0.03 0.06
Matches are distributed among these distances:
94 14 0.01
95 6 0.01
96 859 0.82
97 1 0.00
98 1 0.00
99 2 0.00
100 2 0.00
101 4 0.00
102 3 0.00
103 2 0.00
104 1 0.00
105 3 0.00
106 4 0.00
107 2 0.00
108 13 0.01
109 7 0.01
110 85 0.08
111 6 0.01
112 31 0.03
113 4 0.00
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (96 bp):
ATTAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCT
GTATAACAATTACATATACATTCAGCTATAG
Found at i:10973374 original size:159 final size:158
Alignment explanation
Indices: 10973085--10973530 Score: 772
Period size: 159 Copynumber: 2.8 Consensus size: 158
10973075 AGCTATAGAT
* * * *
10973085 TAATTCATTTCAATGTATAACAAATATATATATACATTCGGCCATAGTTTAATTTATTTCTCTGT
1 TAATTTATTTCAATGCATAACAAATATATATAT-CATTCGGCCATAGTTTAAATTATTTCTCTGC
10973150 ATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATA
65 ATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATA
10973215 CATTCGGCCATAACCTATGTAATTTCAAA
130 CATTCGGCCATAACCTATGTAATTTCAAA
10973244 TAATTTATTTCAATGCATAACAAATATATATATGCATTCGGCCATAGTTTAAATTATTTCTCTGC
1 TAATTTATTTCAATGCATAACAAATATATATAT-CATTCGGCCATAGTTTAAATTATTTCTCTGC
10973309 ATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATA
65 ATAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATA
10973374 CATTCGGCCATAACCTATGTAATTTCAAA
130 CATTCGGCCATAACCTATGTAATTTCAAA
10973403 TAATTTATTTCAATGCATAACAAATATATATA-CATTCGGCCATAGTTT-AATTCATTTCTCTGC
1 TAATTTATTTCAATGCATAACAAATATATATATCATTCGGCCATAGTTTAAATT-ATTTCTCTGC
* * *
10973466 ATAACAATTACATATACATTCAGCTATAGATTAATTCATTTTC-TTGCATAACAAATATATTTAT
65 ATAACAATTACATATACATTCAGCTATAGATTAATTCA-TTTCAATGTATAACAAATATATATAT
10973530 A
129 A
10973531 TATATACATT
Statistics
Matches: 277, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
156 4 0.01
157 83 0.30
158 4 0.01
159 186 0.67
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (158 bp):
TAATTTATTTCAATGCATAACAAATATATATATCATTCGGCCATAGTTTAAATTATTTCTCTGCA
TAACAATTACATATACATTCAGCTATAGATTAATTCATTTCAATGTATAACAAATATATATATAC
ATTCGGCCATAACCTATGTAATTTCAAA
Found at i:10978632 original size:50 final size:50
Alignment explanation
Indices: 10978565--10978749 Score: 246
Period size: 50 Copynumber: 3.7 Consensus size: 50
10978555 GTGAATGAGA
10978565 TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
10978615 TCCCATGTAAAACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
10978665 TCCCCCGTAATACCATGTCTAGGACATGGCA-TGAGCACCGATATGAGAAC
1 TCCCATGTAAAACCATGTCTGGGACATGGCATTG-GCACCGAGATGAGAGG
* * *
10978715 TCCCATGTAAGACCATATCTGGGATATGGCATTGG
1 TCCCATGTAAAACCATGTCTGGGACATGGCATTGG
10978750 AAGTACAAGA
Statistics
Matches: 116, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 2 0.02
50 112 0.97
51 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAAACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:10979445 original size:35 final size:35
Alignment explanation
Indices: 10979399--10979467 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
10979389 AAAATTTGCA
*
10979399 ATGAAACAGTTTTGGGACAGCAGCAGTGACGTGAG
1 ATGAAACAGTTTTGGGACAACAGCAGTGACGTGAG
*
10979434 ATGAAACAGTTTTGGGACAACAGCAGTGATGTGA
1 ATGAAACAGTTTTGGGACAACAGCAGTGACGTGA
10979468 CTTTGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (35 bp):
ATGAAACAGTTTTGGGACAACAGCAGTGACGTGAG
Found at i:10984202 original size:38 final size:38
Alignment explanation
Indices: 10984151--10984230 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 38
10984141 TTATGAAATT
* *
10984151 TTAAATTGGAGGTCTTTATATTTTAATTAGAACATTGG
1 TTAAATTGGAGGTCTTTATATTGTAATTAGAACATTAG
*
10984189 TTAAATTGGAGGTCTTTATATTGTAATTAGACCATTAG
1 TTAAATTGGAGGTCTTTATATTGTAATTAGAACATTAG
10984227 TTAA
1 TTAA
10984231 GTTATGGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (38 bp):
TTAAATTGGAGGTCTTTATATTGTAATTAGAACATTAG
Found at i:10985214 original size:50 final size:50
Alignment explanation
Indices: 10985159--10985337 Score: 209
Period size: 50 Copynumber: 3.6 Consensus size: 50
10985149 GGGAATGAGA
*
10985159 TCCCATGTAAAACCATGTCTGGGACATGGTATTAACACCGAGATGAGAGG
1 TCCCATGTAAAACCATGTCTGGGACATGGCATTAACACCGAGATGAGAGG
* * **
10985209 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAAACCATGTCTGGGACATGGCATTAACACCGAGATGAGAGG
* * * **
10985259 TCCC-TCG-AAAGACCATGTCTGGGACATGGCATGAACACCAATATGAGAAC
1 TCCCAT-GTAAA-ACCATGTCTGGGACATGGCATTAACACCGAGATGAGAGG
* * *
10985309 TCCCATGTAAAAACATATCTGGGATATGG
1 TCCCATGTAAAACCATGTCTGGGACATGG
10985338 AATTGGAAGT
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
49 3 0.03
50 101 0.94
51 4 0.04
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAAACCATGTCTGGGACATGGCATTAACACCGAGATGAGAGG
Found at i:10987332 original size:29 final size:29
Alignment explanation
Indices: 10987300--10987358 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
10987290 CAAAAGCTAT
*
10987300 ATGAATG-CATGAAACAGATGAAAATCAAA
1 ATGAATGACATGAAA-AGATAAAAATCAAA
*
10987329 ATGAATGATCATGAAAATATAAAAATCAAA
1 ATGAATGA-CATGAAAAGATAAAAATCAAA
10987359 GTTTGGAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.27
30 12 0.46
31 7 0.27
ACGTcount: A:0.58, C:0.08, G:0.14, T:0.20
Consensus pattern (29 bp):
ATGAATGACATGAAAAGATAAAAATCAAA
Found at i:11005674 original size:50 final size:49
Alignment explanation
Indices: 11005546--11005786 Score: 169
Period size: 49 Copynumber: 4.8 Consensus size: 49
11005536 GATAATAACA
* * * * *
11005546 TGCCAAAGCCTTGTCCCAGACATGGTCTTACATGGGATGTT-TCCTGTAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATATAG
* * * *
11005595 TTCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
* * ** ** * *
11005644 TGCCCATGCAATTGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 TGCCAATGCCA-TGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
* * * * * * *
11005694 TGCCAACGCCATGTCCTAGACATGGTCTTACGTGTGACCTCTCATAACCTCAATAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GT-TC-T--CAT--ATAG
*
11005750 TGCCAATGTCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
11005787 TCTCATTCCC
Statistics
Matches: 147, Mismatches: 36, Indels: 11
0.76 0.19 0.06
Matches are distributed among these distances:
48 3 0.02
49 67 0.46
50 39 0.27
51 2 0.01
52 1 0.01
54 2 0.01
56 33 0.22
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATAG
Found at i:11006519 original size:10 final size:11
Alignment explanation
Indices: 11006496--11006520 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11006486 CGAGGACTCC
11006496 AAAAACATTAA
1 AAAAACATTAA
11006507 AAAAACATTAA
1 AAAAACATTAA
11006518 AAA
1 AAA
11006521 CGGGGCTTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAAACATTAA
Found at i:11012953 original size:20 final size:20
Alignment explanation
Indices: 11012908--11012953 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11012898 ATCATAGTCT
11012908 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
*
11012927 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
11012947 TTGCTTA
1 TTGCTTA
11012954 ATTAAATAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.13, C:0.24, G:0.07, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:11017234 original size:21 final size:21
Alignment explanation
Indices: 11017208--11017274 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
11017198 ATCATTCTAG
11017208 CAACTTCCTCTTCTTCAGCAA
1 CAACTTCCTCTTCTTCAGCAA
11017229 CAACTTCCTCTTC-T-A-CAA
1 CAACTTCCTCTTCTTCAGCAA
* * *
11017247 AAACTT-CTACTTCTGCAGCAT
1 CAACTTCCT-CTTCTTCAGCAA
11017268 CAACTTC
1 CAACTTC
11017275 TTTCTCAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 2 0.05
18 12 0.32
19 1 0.03
20 2 0.05
21 20 0.54
ACGTcount: A:0.27, C:0.36, G:0.04, T:0.33
Consensus pattern (21 bp):
CAACTTCCTCTTCTTCAGCAA
Found at i:11024584 original size:14 final size:14
Alignment explanation
Indices: 11024567--11024596 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11024557 AAATGAAGTT
*
11024567 AAAGAAATATAAAC
1 AAAGAAAAATAAAC
11024581 AAAGAAAAATAAAC
1 AAAGAAAAATAAAC
11024595 AA
1 AA
11024597 TTAGTGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAGAAAAATAAAC
Found at i:11025769 original size:55 final size:55
Alignment explanation
Indices: 11025691--11025798 Score: 126
Period size: 55 Copynumber: 2.0 Consensus size: 55
11025681 TTCTTATCCG
* * * **
11025691 GACAGCTGTCAAGTGTGATGACAATTTTGAACGCAATCTGGAATTAACACATGTA
1 GACAGCTGTCAAGTGCGACGACAATTCTGAACGCAATCTAAAATTAACACATGTA
* * * * *
11025746 GACATCTGTCAAGTGCGGCGACAATTCTGGATGCAATCTAAAATTAACTCATG
1 GACAGCTGTCAAGTGCGACGACAATTCTGAACGCAATCTAAAATTAACACATG
11025799 CAACGGCATT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (55 bp):
GACAGCTGTCAAGTGCGACGACAATTCTGAACGCAATCTAAAATTAACACATGTA
Found at i:11026864 original size:19 final size:19
Alignment explanation
Indices: 11026842--11026879 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11026832 TCAATCATCC
11026842 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
11026861 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
11026880 ACTCTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:11036276 original size:19 final size:19
Alignment explanation
Indices: 11036254--11036291 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11036244 TCAATCATCC
11036254 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
11036273 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
11036292 ACTCTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:11043366 original size:25 final size:25
Alignment explanation
Indices: 11043337--11043387 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
11043327 CTCTAGCAAC
11043337 GACACAGAATAGAAGAGGCAACCTG
1 GACACAGAATAGAAGAGGCAACCTG
11043362 GACACAGAATAGAAGAGGCAACCTG
1 GACACAGAATAGAAGAGGCAACCTG
11043387 G
1 G
11043388 GAACCTGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.20, G:0.29, T:0.08
Consensus pattern (25 bp):
GACACAGAATAGAAGAGGCAACCTG
Found at i:11047399 original size:27 final size:27
Alignment explanation
Indices: 11047369--11047423 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
11047359 TTGTGTAAGT
11047369 AGCCCAAATATCACAACTTGTATGAGC
1 AGCCCAAATATCACAACTTGTATGAGC
* *
11047396 AGCCCAAATATCACAGCTTGTGTGAGC
1 AGCCCAAATATCACAACTTGTATGAGC
11047423 A
1 A
11047424 AATCGAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (27 bp):
AGCCCAAATATCACAACTTGTATGAGC
Found at i:11053492 original size:11 final size:11
Alignment explanation
Indices: 11053478--11053553 Score: 89
Period size: 11 Copynumber: 6.6 Consensus size: 11
11053468 ACCACCACTT
*
11053478 CACCACCATAG
1 CACCACCATAC
*
11053489 CACCACCATAA
1 CACCACCATAC
11053500 CACCACCATAC
1 CACCACCATAC
11053511 CACCACCATAACAC
1 CACCACCAT---AC
*
11053525 CACCACCATAG
1 CACCACCATAC
*
11053536 CACCACCGTAC
1 CACCACCATAC
11053547 CACCACC
1 CACCACC
11053554 TTTACACCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
11 46 0.81
14 11 0.19
ACGTcount: A:0.37, C:0.51, G:0.04, T:0.08
Consensus pattern (11 bp):
CACCACCATAC
Found at i:11053495 original size:22 final size:22
Alignment explanation
Indices: 11053468--11053529 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
11053458 ATTCGATATT
*
11053468 ACCACCACTTCACCACCATAGC
1 ACCACCACTACACCACCATAGC
*
11053490 ACCACCA-TAACACCACCATACC
1 ACCACCACT-ACACCACCATAGC
11053512 ACCACCA-TAACACCACCA
1 ACCACCACT-ACACCACCA
11053530 CCATAGCACC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.39, C:0.50, G:0.02, T:0.10
Consensus pattern (22 bp):
ACCACCACTACACCACCATAGC
Found at i:11053529 original size:36 final size:36
Alignment explanation
Indices: 11053489--11053564 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
11053479 ACCACCATAG
11053489 CACCACCATAACACCACCATACCACCACCATAACAC
1 CACCACCATAACACCACCATACCACCACCATAACAC
* * * *
11053525 CACCACCATAGCACCACCGTACCACCACCTTTACAC
1 CACCACCATAACACCACCATACCACCACCATAACAC
11053561 CACC
1 CACC
11053565 TTCAAAACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.51, G:0.03, T:0.11
Consensus pattern (36 bp):
CACCACCATAACACCACCATACCACCACCATAACAC
Found at i:11053548 original size:22 final size:22
Alignment explanation
Indices: 11053478--11053553 Score: 98
Period size: 22 Copynumber: 3.3 Consensus size: 22
11053468 ACCACCACTT
*
11053478 CACCACCATAGCACCACCATAA
1 CACCACCATAGCACCACCATAC
*
11053500 CACCACCATACCACCACCATAACAC
1 CACCACCATAGCACCACCAT---AC
*
11053525 CACCACCATAGCACCACCGTAC
1 CACCACCATAGCACCACCATAC
11053547 CACCACC
1 CACCACC
11053554 TTTACACCAC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
22 28 0.60
25 19 0.40
ACGTcount: A:0.37, C:0.51, G:0.04, T:0.08
Consensus pattern (22 bp):
CACCACCATAGCACCACCATAC
Found at i:11055835 original size:26 final size:25
Alignment explanation
Indices: 11055806--11055863 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
11055796 TTACAAAATT
* * *
11055806 AAACAACAAAAATAAAAGTTATTCTA
1 AAACAA-AAAAAGAAAACTTAATCTA
*
11055832 AAACAAAAAGAGAAAACTTAATCTA
1 AAACAAAAAAAGAAAACTTAATCTA
11055857 AAA-AAAA
1 AAACAAAA
11055864 TAGAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 4 0.14
25 18 0.64
26 6 0.21
ACGTcount: A:0.67, C:0.10, G:0.05, T:0.17
Consensus pattern (25 bp):
AAACAAAAAAAGAAAACTTAATCTA
Found at i:11057782 original size:14 final size:14
Alignment explanation
Indices: 11057759--11057805 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
11057749 TAAGTATTTT
*
11057759 TTAAGCTTAATTAA
1 TTAAACTTAATTAA
*
11057773 TTAAATTTAATTAAA
1 TTAAACTTAATT-AA
*
11057788 TTAAACATAATTAA
1 TTAAACTTAATTAA
11057802 TTAA
1 TTAA
11057806 CTAAAACATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (14 bp):
TTAAACTTAATTAA
Found at i:11062182 original size:29 final size:29
Alignment explanation
Indices: 11062149--11062207 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
11062139 TTTTTTATCC
*
11062149 ATTTTTTA-ATAAATGACCTAATATTTTT
1 ATTTTTTATATAAATGACCTAATATGTTT
* *
11062177 ATTTTTTATATAAGTGGCCTAATATGTTT
1 ATTTTTTATATAAATGACCTAATATGTTT
11062206 AT
1 AT
11062208 ACTTCTTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.53
Consensus pattern (29 bp):
ATTTTTTATATAAATGACCTAATATGTTT
Found at i:11063049 original size:3 final size:3
Alignment explanation
Indices: 11063041--11063114 Score: 125
Period size: 3 Copynumber: 25.3 Consensus size: 3
11063031 GGAAATTTTC
11063041 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
11063089 TCT TCT T-T TCT TCT TC- TCT GCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
11063115 TTTTTTATTT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 4 0.06
3 63 0.94
ACGTcount: A:0.00, C:0.32, G:0.01, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:11068610 original size:43 final size:42
Alignment explanation
Indices: 11068510--11068655 Score: 145
Period size: 43 Copynumber: 3.5 Consensus size: 42
11068500 GTTACTCGGT
* * *
11068510 GGAATCAGCACTTAGCAACCAAC-TTATATTC-AGTGATACGG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAAG-GATACGG
* * *
11068551 GGAATCAACACATAGCAACC-CCTTTCACAATCAAGGATACAGT
1 GGAATCAGCACTTAGCAACCACCTTT-ACAATCAAGGATAC-GG
* ** *
11068594 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACGG
*
11068636 GGAATTAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
11068656 CCTCGAGGAA
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
40 1 0.01
41 20 0.23
42 29 0.34
43 31 0.36
44 5 0.06
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTTACAATCAAGGATACGG
Found at i:11068650 original size:42 final size:42
Alignment explanation
Indices: 11068510--11068655 Score: 152
Period size: 42 Copynumber: 3.5 Consensus size: 42
11068500 GTTACTCGGT
* * * *
11068510 GGAATCAGCACTTAGCAACCAAC-TTATATTCAGTGATACGG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
* * * *
11068551 GGAATCAACACATAGCAACC-CCTTTCACAATCAAGGATACAGT
1 GGAATCAGCACTTAGCAACCACCTTT-ACAATCAATGATAC-GG
* * *
11068594 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGG
1 GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
*
11068636 GGAATTAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
11068656 CCTCGAGGAA
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
40 1 0.01
41 20 0.24
42 30 0.35
43 29 0.34
44 5 0.06
ACGTcount: A:0.36, C:0.25, G:0.17, T:0.22
Consensus pattern (42 bp):
GGAATCAGCACTTAGCAACCACCTTTACAATCAATGATACGG
Found at i:11068707 original size:41 final size:41
Alignment explanation
Indices: 11068662--11068769 Score: 182
Period size: 40 Copynumber: 2.7 Consensus size: 41
11068652 AACCCCTCGA
*
11068662 GGAATCTGCACTTAGCAACCCCTTTTTGATTAGTGATTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
*
11068703 GGAATCTGCACTTCGCAACCCC-TTTTGATCAGTGATTCGG
1 GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
*
11068743 GGAATCTGCACTTAGCAACCCTTTTTT
1 GGAATCTGCACTTAGCAACCCCTTTTT
11068770 TTTTCAATGA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 37 0.60
41 25 0.40
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (41 bp):
GGAATCTGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
Found at i:11068714 original size:67 final size:68
Alignment explanation
Indices: 11068594--11068725 Score: 171
Period size: 67 Copynumber: 2.0 Consensus size: 68
11068584 AGGATACAGT
11068594 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATTAGCACTTAGCAACCCCT
1 GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATTAGCACTTAGCAACCCCT
11068659 CGA
66 CGA
* * * * * *
11068662 GGAATCTGCACTTAGCAACC-CCTTTTTG-ATTAGTGATTCGGGGAATCT-GCACTTCGCAACCC
1 GGAATCAGCACTTAGCAACCACC-TTTAGAATCAATAATTCGGGGAAT-TAGCACTTAGCAACCC
11068724 CT
64 CT
11068726 TTTGATCAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
67 32 0.57
68 24 0.43
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (68 bp):
GGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATTAGCACTTAGCAACCCCT
CGA
Found at i:11068957 original size:38 final size:38
Alignment explanation
Indices: 11068914--11068990 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
11068904 TAAATTCCTA
11068914 GGACAAAATAACAATAATTAGCAATATAGAGCAATAGG
1 GGACAAAATAACAATAATTAGCAATATAGAGCAATAGG
11068952 GGACAAAATAACAATAATTAGCAATATAGAGCAATAGG
1 GGACAAAATAACAATAATTAGCAATATAGAGCAATAGG
11068990 G
1 G
11068991 TCGAATCCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.52, C:0.10, G:0.19, T:0.18
Consensus pattern (38 bp):
GGACAAAATAACAATAATTAGCAATATAGAGCAATAGG
Found at i:11070126 original size:23 final size:23
Alignment explanation
Indices: 11070056--11070132 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
11070046 GCTAGATTTT
* *
11070056 TTCTAAATATTGTAACTAAATAA
1 TTCTAAATATTATCACTAAATAA
* *
11070079 TCCTAAATATTATCATTAAATAA
1 TTCTAAATATTATCACTAAATAA
11070102 TTCTAAATATTATCACTAAATAA
1 TTCTAAATATTATCACTAAATAA
*
11070125 TTCAAAAT
1 TTCTAAAT
11070133 TTTAAAATGA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (23 bp):
TTCTAAATATTATCACTAAATAA
Found at i:11078806 original size:27 final size:27
Alignment explanation
Indices: 11078750--11078808 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
11078740 CTTCTAAAGA
* * **
11078750 AATAAAATACTCATAAATAAATCTCCT
1 AATAAAATAATAATAAATAAATCTAAT
11078777 AATAAAATAATAATAAACT-AATCTAAT
1 AATAAAATAATAATAAA-TAAATCTAAT
11078804 AATAA
1 AATAA
11078809 TTAATTGACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (27 bp):
AATAAAATAATAATAAATAAATCTAAT
Found at i:11083290 original size:11 final size:10
Alignment explanation
Indices: 11083267--11083299 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
11083257 GAATCGAGTC
11083267 TTTTT-TTAT
1 TTTTTATTAT
11083276 TTTTTATTCAT
1 TTTTTATT-AT
11083287 TTTTTATTAT
1 TTTTTATTAT
11083297 TTT
1 TTT
11083300 ATTTTGTAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.23
10 7 0.32
11 10 0.45
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:11083889 original size:3 final size:3
Alignment explanation
Indices: 11083883--11083918 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
11083873 TGTTGTTAAG
11083883 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11083919 CTATATATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11084192 original size:10 final size:10
Alignment explanation
Indices: 11084153--11084185 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11084143 TTAACGCATA
11084153 TTTTATA-AT
1 TTTTATATAT
*
11084162 TTATATATAT
1 TTTTATATAT
11084172 TTTTATATAT
1 TTTTATATAT
11084182 TTTT
1 TTTT
11084186 CTTTATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATATAT
Found at i:11090689 original size:19 final size:19
Alignment explanation
Indices: 11090644--11090692 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
11090634 TAAACCACTC
*
11090644 CATTTACTTACTTGCTATT
1 CATTTACTTGCTTGCTATT
11090663 CTATTTACTTGCTTGC-ATTT
1 C-ATTTACTTGCTTGCTA-TT
11090683 CATTTACTTG
1 CATTTACTTG
11090693 GCATAAGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.18, C:0.20, G:0.08, T:0.53
Consensus pattern (19 bp):
CATTTACTTGCTTGCTATT
Found at i:11090762 original size:21 final size:21
Alignment explanation
Indices: 11090737--11090777 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11090727 TTGTGTATTT
*
11090737 ATCCAT-GTCATAGGTAAATTC
1 ATCCATAG-CATAAGTAAATTC
11090758 ATCCATAGCATAAGTAAATT
1 ATCCATAGCATAAGTAAATT
11090778 TCTCACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (21 bp):
ATCCATAGCATAAGTAAATTC
Found at i:11098848 original size:23 final size:22
Alignment explanation
Indices: 11098800--11098844 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
11098790 GACTCTTCGG
11098800 ATTTATCGTTTTACCCCTTTCAA
1 ATTTATCGTTTTA-CCCTTTCAA
*
11098823 ATTTATCGTTTT-GCCTTTCAA
1 ATTTATCGTTTTACCCTTTCAA
11098844 A
1 A
11098845 AATTCTTAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
23 12 0.57
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTTATCGTTTTACCCTTTCAA
Found at i:11100580 original size:20 final size:20
Alignment explanation
Indices: 11100557--11100605 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
11100547 AGGCCACTAC
**
11100557 TAATGCAGACAAGCTGCCAG
1 TAATGCAGACAAGCCACCAG
** *
11100577 TAATGTGGTCAAGCCACCAG
1 TAATGCAGACAAGCCACCAG
11100597 TAATGCAGA
1 TAATGCAGA
11100606 TAAACTGTTA
Statistics
Matches: 21, Mismatches: 8, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (20 bp):
TAATGCAGACAAGCCACCAG
Found at i:11103593 original size:55 final size:54
Alignment explanation
Indices: 11103510--11103620 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 54
11103500 CCAGTGTTAC
11103510 AAGAACCTAAGGGTCACACCCTATGGTTAAAGCGAACAAAATCATAATTTCAAT
1 AAGAACCTAAGGGTCACACCCTATGGTTAAAGCGAACAAAATCATAATTTCAAT
* *
11103564 AAGAACCTACAGGGTCGCACCCTATGGTTAAAGCGAACAATATCATAATTTCAAT
1 AAGAACCTA-AGGGTCACACCCTATGGTTAAAGCGAACAAAATCATAATTTCAAT
11103619 AA
1 AA
11103621 TTTGATTACA
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 9 0.17
55 45 0.83
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (54 bp):
AAGAACCTAAGGGTCACACCCTATGGTTAAAGCGAACAAAATCATAATTTCAAT
Found at i:11104991 original size:20 final size:20
Alignment explanation
Indices: 11104963--11105019 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
11104953 AATATTAAGA
* *
11104963 ACCACTCCATTTACTTTCTT
1 ACCATTCCATTTACTTACTT
11104983 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
* *
11105003 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
11105020 ACATAAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:11105727 original size:40 final size:40
Alignment explanation
Indices: 11105669--11105968 Score: 363
Period size: 40 Copynumber: 7.5 Consensus size: 40
11105659 ATCGTCAGAT
* *
11105669 CAACCG-AACATACCAGACAAAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
11105708 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
* * * * *
11105748 CAACTGAAACACGCCAAACAAAAGCTCATAATAGCTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
* * * *
11105788 CAACTGAAACACGCTAAACAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
* * *
11105828 TAACCGAAACA-AGCCAAACAGTAGCTCATAAGAGCTAATC
1 CAACCGAAACACA-CCAGACAGAAGCTCATAAGAGCTAATC
*
11105868 CAACCGAAACACACCAGACAGAATCTCAT-AGAGCTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
* ** *
11105907 CAATCGAAACATGCCAGACAGAAGCTCATAAAAGCTAATC
1 CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
* * * *
11105947 CAATCAAAACACGCCAGTCAGA
1 CAACCGAAACACACCAGACAGA
11105969 GAGTATAACA
Statistics
Matches: 230, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 41 0.18
40 188 0.82
41 1 0.00
ACGTcount: A:0.45, C:0.28, G:0.14, T:0.13
Consensus pattern (40 bp):
CAACCGAAACACACCAGACAGAAGCTCATAAGAGCTAATC
Found at i:11118964 original size:21 final size:22
Alignment explanation
Indices: 11118936--11118990 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
11118926 AACAGCGGTG
11118936 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
*
11118957 GTGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
*
11118978 GCAGTGAGATTAG
1 GCGGTGAGATTAG
11118991 AAACAGCGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.90
22 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.29
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:11123673 original size:45 final size:45
Alignment explanation
Indices: 11123608--11123765 Score: 201
Period size: 45 Copynumber: 3.5 Consensus size: 45
11123598 CACCATCTTT
* * *
11123608 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAA
1 GATCTGCTATCTTTGATCTACTTCGCCACCAGTATAGGAAGACAA
* * * * * *
11123653 GATCTACTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAA
1 GATCTGCTATCTTTGATCTACTTCGCCACCAGTATAGGAAGACAA
* *
11123697 GATCTGCTCTCTTGGATCTACTTCGCCACCAGTATAGGAAGACAA
1 GATCTGCTATCTTTGATCTACTTCGCCACCAGTATAGGAAGACAA
*
11123742 AATCTGCTATCTTTGATCTACTTC
1 GATCTGCTATCTTTGATCTACTTC
11123766 ACGCCAATAN
Statistics
Matches: 92, Mismatches: 20, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
44 35 0.38
45 57 0.62
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (45 bp):
GATCTGCTATCTTTGATCTACTTCGCCACCAGTATAGGAAGACAA
Found at i:11123759 original size:89 final size:89
Alignment explanation
Indices: 11123608--11123774 Score: 289
Period size: 89 Copynumber: 1.9 Consensus size: 89
11123598 CACCATCTTT
* * *
11123608 GATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTATCTTTGATCTA
1 GATCTGCTCTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAAATCTACTATCTTTGATCTA
11123673 CTTCACGCCAATACATGAAGACAA
66 CTTCACGCCAATACATGAAGACAA
* *
11123697 GATCTGCTCTCTTGGATCTACTTCGCCACCAGTATAGGAAGACAAAATCTGCTATCTTTGATCTA
1 GATCTGCTCTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAAATCTACTATCTTTGATCTA
11123762 CTTCACGCCAATA
66 CTTCACGCCAATA
11123775 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 73 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (89 bp):
GATCTGCTCTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAAAATCTACTATCTTTGATCTA
CTTCACGCCAATACATGAAGACAA
Found at i:11136557 original size:30 final size:30
Alignment explanation
Indices: 11136521--11136579 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11136511 TTGGGATTGA
11136521 GAAGACTAGATA-TGTCGTTCA-AGAGCTTGT
1 GAAGACTAGATATTG-CGTTCAGA-AGCTTGT
*
11136551 GAAGACTCGATATTGCGTTCAGAAGCTTG
1 GAAGACTAGATATTGCGTTCAGAAGCTTG
11136580 GGAGTGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 23 0.88
31 3 0.12
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GAAGACTAGATATTGCGTTCAGAAGCTTGT
Found at i:11136557 original size:66 final size:66
Alignment explanation
Indices: 11136451--11136621 Score: 150
Period size: 66 Copynumber: 2.6 Consensus size: 66
11136441 GTTCAGGAAC
* * * * * *
11136451 TTGAGAAGACCTAATATCTTGTTCAGGAGTTTGGAAAGACTCAATATCT-CGTTTAGGATCTTGG
1 TTGAGAAGACCTAATATCTCGTTCAAGAGCTTGGAAAGACTCAATAT-TGCGTTCAGAAGCTTGG
11136515 GA
65 GA
* *
11136517 TTGAGAAGA-CTAGATATGTCGTTCAAGAGCTTGTG-AAGACTCGATATTGCGTTCAGAAGCTTG
1 TTGAGAAGACCTA-ATATCTCGTTCAAGAGCTTG-GAAAGACTCAATATTGCGTTCAGAAGCTTG
11136580 GGA
64 GGA
* * * * * * * *
11136583 GTGAGAATACATGATATCTTGTTTAGGAGCTTGAAAAGA
1 TTGAGAAGACCTAATATCTCGTTCAAGAGCTTGGAAAGA
11136622 TTTGATATTT
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
65 4 0.05
66 77 0.93
67 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (66 bp):
TTGAGAAGACCTAATATCTCGTTCAAGAGCTTGGAAAGACTCAATATTGCGTTCAGAAGCTTGGG
A
Done.