Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 125 of 213
Found at i:36183641 original size:3 final size:3
Alignment explanation
Indices: 36183633--36183681 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
36183623 CTAAATGTGC
36183633 TTA TTA TTA TTA 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 TTA TTA TTA TTA
36183681 T
1 T
36183682 CAATTTTTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36186351 original size:21 final size:22
Alignment explanation
Indices: 36186325--36186368 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
36186315 ATTTAATTTT
*
36186325 AAAAAATTTAAT-GACTAAATA
1 AAAAAAATTAATAGACTAAATA
36186346 AAAAAAATTAATAAGACTAAATA
1 AAAAAAATTAAT-AGACTAAATA
36186369 TGACTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (22 bp):
AAAAAAATTAATAGACTAAATA
Found at i:36189816 original size:18 final size:18
Alignment explanation
Indices: 36189793--36189848 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
36189783 TTCACCTCCA
*
36189793 CAACCATCATTCACAAGC
1 CAACCATCATCCACAAGC
*
36189811 CAACCACCATCCAC-AGAC
1 CAACCATCATCCACAAG-C
*
36189829 CAACCATCGTCCACAAGC
1 CAACCATCATCCACAAGC
36189847 CA
1 CA
36189849 CCCACCTACA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.06
18 28 0.88
19 2 0.06
ACGTcount: A:0.38, C:0.45, G:0.07, T:0.11
Consensus pattern (18 bp):
CAACCATCATCCACAAGC
Found at i:36190417 original size:40 final size:40
Alignment explanation
Indices: 36190362--36190443 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
36190352 ACATTGGCAT
36190362 ATACAACAACTTGATGTCAATAACGCGTTTCTTCATGGTG
1 ATACAACAACTTGATGTCAATAACGCGTTTCTTCATGGTG
36190402 ATACAACAACTTGATGTCAATAACGCGTTTCTTCATGGTG
1 ATACAACAACTTGATGTCAATAACGCGTTTCTTCATGGTG
36190442 AT
1 AT
36190444 CTCAATGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (40 bp):
ATACAACAACTTGATGTCAATAACGCGTTTCTTCATGGTG
Found at i:36198718 original size:51 final size:50
Alignment explanation
Indices: 36198653--36198842 Score: 213
Period size: 51 Copynumber: 3.8 Consensus size: 50
36198643 AAATGTAACA
* * *
36198653 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGATCATG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAG-TTTGATCACG
** * * *
36198704 TGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATA-TTAATGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGTT--TGATCACG
*
36198755 TGTGTAGTACTATGTGCAGGCTACTATGTGAACCAGAA-AGTTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATAGTTTGATCACG
** * *
36198805 TGTGTAGTACTATGTAAAGGCTACTACGTGTATCGAAT
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAT
36198843 GATAATAGTT
Statistics
Matches: 115, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
49 5 0.04
50 36 0.31
51 70 0.61
52 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATAGTTTGATCACG
Found at i:36198839 original size:101 final size:101
Alignment explanation
Indices: 36198598--36198844 Score: 322
Period size: 101 Copynumber: 2.5 Consensus size: 101
36198588 AAAGTGATGG
* **
36198598 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTATTAGAATGAAATGTAACATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCGGAATGAAATGTAACATGTGTAGTAC
*
36198663 TATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
66 TATGTGCAGGCTACTATGCGAACCGAATAGCTTCGA
* * * * *
36198699 TCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGATAT-TAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCGGA-ATGAAAT-GTAACATGTGTAGT
* *
36198763 ACTATGTGCAGGCTACTATGTGAACCAGAA-AG-TTTGA
64 ACTATGTGCAGGCTACTATGCGAACC-GAATAGCTTCGA
* *
36198800 TCACGTGTGTAGTACTATGTAAAGGCTACTACGTGTATC-GAATGA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCGGAATGA
36198845 TAATAGTTAA
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
99 2 0.02
100 2 0.02
101 80 0.63
102 40 0.31
103 3 0.02
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCGGAATGAAATGTAACATGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGAATAGCTTCGA
Found at i:36198866 original size:101 final size:101
Alignment explanation
Indices: 36198598--36198873 Score: 319
Period size: 101 Copynumber: 2.7 Consensus size: 101
36198588 AAAGTGATGG
* *
36198598 TCACGTGTGTAGTACTATGTGTAGGCTACTACATGTATTAGAATGA-AATG-TAACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTA-TCGAATGATAATGTTAA-ATGTGTAGT
*
36198661 ACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
64 ACTATGTGCAGGCTACTATGCGAACCGAATAGCTTCGA
* * * * **
36198699 TCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATCGGAT-ATTAATGGTCACGTGTGTAGT
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCGAATGA-TAAT-GTTAAATGTGTAGT
* *
36198763 ACTATGTGCAGGCTACTATGTGAACCAGAA-AG-TTTGA
64 ACTATGTGCAGGCTACTATGCGAACC-GAATAGCTTCGA
* * * *
36198800 TCACGTGTGTAGTACTATGTAAAGGCTACTACGTGTATCGAATGATAATAGTTAAATGAGTGGTA
1 TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCGAATGATAAT-GTTAAATGTGTAGTA
*
36198865 CTGTGTGCA
65 CTATGTGCA
36198874 AACCACCAAA
Statistics
Matches: 147, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
99 1 0.01
100 4 0.03
101 102 0.69
102 36 0.24
103 4 0.03
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGAAGGCTACTACATGTATCGAATGATAATGTTAAATGTGTAGTAC
TATGTGCAGGCTACTATGCGAACCGAATAGCTTCGA
Found at i:36207468 original size:30 final size:30
Alignment explanation
Indices: 36207434--36207497 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
36207424 ACTTAACAAG
36207434 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
36207464 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
36207494 -AAAT
1 CAAAT
36207498 AAAATAAGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.12
30 29 0.88
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:36207551 original size:22 final size:22
Alignment explanation
Indices: 36207526--36207568 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36207516 TATTCAAACA
36207526 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
36207548 ATAATAGTAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
36207569 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:36208115 original size:22 final size:20
Alignment explanation
Indices: 36208059--36208121 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
36208049 ATTAAAATTA
36208059 AAAAATAAATAATT-TTTTT
1 AAAAATAAATAATTATTTTT
* *
36208078 AAAAATCAATATTTATTTTT
1 AAAAATAAATAATTATTTTT
* *
36208098 ATCAAATAACATAATTATATTT
1 A-AAAATAA-ATAATTATTTTT
36208120 AA
1 AA
36208122 TATTTATATT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
19 12 0.35
20 6 0.18
21 5 0.15
22 11 0.32
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAAATAAATAATTATTTTT
Found at i:36208864 original size:28 final size:27
Alignment explanation
Indices: 36208813--36208893 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 27
36208803 TTTTCTAAAT
36208813 AAATATAAAAATTATTATAAAATTATA
1 AAATATAAAAATTATTATAAAATTATA
* *
36208840 AAATATAGAAATTTATTTTAAAATTATTA
1 AAATATA-AAAATTATTATAAAATTA-TA
* *
36208869 ATAATGGTAAGAAATTATTAGAAAA
1 A-AAT-ATAA-AAATTATTATAAAA
36208894 AATTTAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 7 0.16
28 16 0.37
29 3 0.07
30 4 0.09
31 13 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (27 bp):
AAATATAAAAATTATTATAAAATTATA
Found at i:36210960 original size:22 final size:22
Alignment explanation
Indices: 36210935--36210977 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36210925 TATCCAAACA
*
36210935 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAATAGCAAC
* *
36210957 ATAATAGTAAAATAATAGCAA
1 ATAACAATAAAATAATAGCAA
36210978 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAATAGCAAC
Found at i:36210973 original size:11 final size:11
Alignment explanation
Indices: 36210943--36210981 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
36210933 CAATAACAAT
*
36210943 AAAATAGTAGC
1 AAAATAATAGC
* *
36210954 AACATAATAGT
1 AAAATAATAGC
36210965 AAAATAATAGC
1 AAAATAATAGC
36210976 AAAATA
1 AAAATA
36210982 GGGAGAAAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.21
Consensus pattern (11 bp):
AAAATAATAGC
Found at i:36215928 original size:45 final size:45
Alignment explanation
Indices: 36215864--36215957 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
36215854 AACAGATACT
* * *
36215864 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
*
36215909 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTT
1 CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
36215954 CGGT
1 CGGT
36215958 TCGCATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:36216019 original size:51 final size:49
Alignment explanation
Indices: 36215961--36216149 Score: 209
Period size: 51 Copynumber: 3.8 Consensus size: 49
36215951 GTTCGGTTCG
*
36215961 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACA
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCG-TACA
* * * *
36216012 CATAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCTGTACG
1 CATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCC-GTACA
* * * *
36216063 CATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACA
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCC-GTACA
** *
36216113 TGTAGTGGCCTGCACATAGTACTACACACGTGACCAT
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCAT
36216150 CACTTTCACT
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.02
50 37 0.32
51 72 0.63
52 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (49 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGTACA
Found at i:36216179 original size:101 final size:100
Alignment explanation
Indices: 36215961--36216145 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 100
36215951 GTTCGGTTCG
* *
36215961 CATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACATAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACATAGTAGCCTGCA
*
36216026 CATAGTACTACACACGTGATCGAAACTATCCTGTAC
65 CATAGTACTACACACGTGATCCAAACTATCCTGTAC
* * ** *
36216062 GCATAGTAGCCTACACATAGTACTACACATGCGACC-TATCATTCCGGTACATGTAGTGGCCTGC
1 -CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACATAGTAGCCTGC
36216126 ACATAGTACTACACACGTGA
64 ACATAGTACTACACACGTGA
36216146 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 33 0.44
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (100 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATCCAAACTATCCTGTAC
Found at i:36219401 original size:10 final size:10
Alignment explanation
Indices: 36219367--36219404 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
36219357 AGATGGAAAC
36219367 GAGCTC-ATT
1 GAGCTCAATT
*
36219376 GAGCTGCAAAT
1 GAGCT-CAATT
36219387 GAGCTCAATT
1 GAGCTCAATT
36219397 GAGCTCAA
1 GAGCTCAA
36219405 CAAGCTGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.20
10 13 0.52
11 7 0.28
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (10 bp):
GAGCTCAATT
Found at i:36220434 original size:23 final size:23
Alignment explanation
Indices: 36220408--36220452 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
36220398 AAAGCCATTA
36220408 TGGCATATTCTATGATGCCTTTG
1 TGGCATATTCTATGATGCCTTTG
* * *
36220431 TGGCGTATTTTGTGATGCCTTT
1 TGGCATATTCTATGATGCCTTT
36220453 ATGGTGCATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.13, C:0.16, G:0.24, T:0.47
Consensus pattern (23 bp):
TGGCATATTCTATGATGCCTTTG
Found at i:36222003 original size:32 final size:32
Alignment explanation
Indices: 36221958--36222274 Score: 375
Period size: 32 Copynumber: 9.9 Consensus size: 32
36221948 ATATGTTTGA
*
36221958 TATATTGCTGAATTGAATTGTATATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * * *
36221990 TATATTGTCGAATTAAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** *
36222022 CCTATTGCCGAATTGAATTGCATATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* *
36222054 TATATTGGCGAATTGAATTGTGTATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * *
36222086 TATATTGCCAAATTGAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
** *
36222118 CCTATTGCGGAATTGAATTGTATATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* * *
36222150 TATATTGTCGAATTGAATTGTATAGGTATACA
1 TATATTGCCGAATTGAATTGTATATGTATACT
**
36222182 CCTATTGCCGAATTGAATTGTATATGTATACT
1 TATATTGCCGAATTGAATTGTATATGTATACT
* *
36222214 TATATTGCCGAATTGAATTATATAGGTATAC-
1 TATATTGCCGAATTGAATTGTATATGTATACT
* ** *
36222245 AACTATTTTCGAATTGATTTGTATATGTAT
1 TA-TATTGCCGAATTGAATTGTATATGTAT
36222275 TTATATATTG
Statistics
Matches: 235, Mismatches: 49, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
31 1 0.00
32 234 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (32 bp):
TATATTGCCGAATTGAATTGTATATGTATACT
Found at i:36222285 original size:96 final size:96
Alignment explanation
Indices: 36221958--36222274 Score: 422
Period size: 96 Copynumber: 3.3 Consensus size: 96
36221948 ATATGTTTGA
* *
36221958 TATATTG-CTGAATTGAATTGTATATGTATACTTATATTGTCGAATTAAATTGTATAGGTATACA
1 TATATTGTC-GAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACA
*
36222022 CCTATTGCCGAATTGAATTGCATATGTATACT
65 CCTATTGCCGAATTGAATTGTATATGTATACT
* * *
36222054 TATATTGGCGAATTGAATTGTGTATGTATACTTATATTGCCAAATTGAATTGTATAGGTATACAC
1 TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACAC
*
36222119 CTATTGCGGAATTGAATTGTATATGTATACT
66 CTATTGCCGAATTGAATTGTATATGTATACT
* *** * **
36222150 TATATTGTCGAATTGAATTGTATAGGTATACACCTATTGCCGAATTGAATTGTATATGTATACTT
1 TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACAC
* * *
36222215 ATATTGCCGAATTGAATTATATAGGTATAC-
66 CTATTGCCGAATTGAATTGTATATGTATACT
* * *
36222245 AACTATTTTCGAATTGATTTGTATATGTAT
1 TA-TATTGTCGAATTGAATTGTATATGTAT
36222275 TTATATATTG
Statistics
Matches: 195, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
95 1 0.01
96 193 0.99
97 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.42
Consensus pattern (96 bp):
TATATTGTCGAATTGAATTGTATATGTATACTTATATTGCCGAATTGAATTGTATAGGTATACAC
CTATTGCCGAATTGAATTGTATATGTATACT
Found at i:36222472 original size:43 final size:43
Alignment explanation
Indices: 36222410--36222526 Score: 198
Period size: 43 Copynumber: 2.7 Consensus size: 43
36222400 GGCTTCTGAG
*
36222410 GTGTAAGACAATGTCTGGGACATTGGCATCGAAGTGAGGAAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGGAAAC
* *
36222453 GTGTAAGACCATGTTTGGGACATTGGCATTGAAGTGAGGAAAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGGAAAC
*
36222496 GTGCAAGACCATGTCTGGGACATTGGCATCG
1 GTGTAAGACCATGTCTGGGACATTGGCATCG
36222527 TGTATTATTC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.29, C:0.15, G:0.32, T:0.23
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGAAGTGAGGAAAC
Found at i:36226268 original size:23 final size:23
Alignment explanation
Indices: 36226238--36226283 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
36226228 TAAAAAGAAT
36226238 TAAAATAATAGTACAT-AATAAAA
1 TAAAATAAT-GTACATAAATAAAA
36226261 TAAAATAATGTACATAAATAAAA
1 TAAAATAATGTACATAAATAAAA
36226284 ATAGGTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAATAATGTACATAAATAAAA
Found at i:36227939 original size:44 final size:44
Alignment explanation
Indices: 36227884--36227986 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 44
36227874 GCTCCCAATA
* * * *
36227884 CAGGAAGACAAGATCTGTTATTTTCAAACTACTCCACTGCTGCT
1 CAGGGAGACAAGATCTGGTATCTTCAAACTACTCCACTACTGCT
* * * *
36227928 CAGGGAGACAAG-GCTGGTATCTTCGATCTGCTCCACTACTGCT
1 CAGGGAGACAAGATCTGGTATCTTCAAACTACTCCACTACTGCT
* *
36227971 TAGGGAGACAGGATCT
1 CAGGGAGACAAGATCT
36227987 ACAATCTTAC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
43 34 0.72
44 13 0.28
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.26
Consensus pattern (44 bp):
CAGGGAGACAAGATCTGGTATCTTCAAACTACTCCACTACTGCT
Found at i:36228159 original size:132 final size:132
Alignment explanation
Indices: 36227986--36228292 Score: 488
Period size: 132 Copynumber: 2.3 Consensus size: 132
36227976 AGACAGGATC
* * * * *
36227986 TACAATCTTACACCTATTCCACTGCTGTTTATGGAGCTAGGACATGCAATCTTCCACCTATTCCA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACATACAATCTTCCACCTATTCCA
* * * *
36228051 CTGCTGTTCAGGGAGCTAGGACATGCAATCTTCCACCTATTCCACTGCTGTTCAGGGAGTTAGGA
66 ATGCTGTTCAGGGAGCTAGGACATGCAATCTTCCACCTATTACACTGCTATTCAGGGAGCTAGGA
36228116 CT
131 CT
* *
36228118 TACAATCTTCCACCTATTCCACTGTTGTTCAGGGAGATAGGACATACAATTTTCCACCTATTCCA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACATACAATCTTCCACCTATTCCA
* *
36228183 ATGTTGTTCAGGGAGCTAGGACATGCAATCTTCCTCCTATTACACTGCTATTCAGGGAGCTAGGA
66 ATGCTGTTCAGGGAGCTAGGACATGCAATCTTCCACCTATTACACTGCTATTCAGGGAGCTAGGA
36228248 CT
131 CT
*
36228250 TACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGATAGGAC
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGAC
36228293 TTATAGTTTC
Statistics
Matches: 160, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 160 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (132 bp):
TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGATAGGACATACAATCTTCCACCTATTCCA
ATGCTGTTCAGGGAGCTAGGACATGCAATCTTCCACCTATTACACTGCTATTCAGGGAGCTAGGA
CT
Found at i:36228295 original size:44 final size:44
Alignment explanation
Indices: 36227986--36228292 Score: 443
Period size: 44 Copynumber: 7.0 Consensus size: 44
36227976 AGACAGGATC
* * *
36227986 TACAATCTTACACCTATTCCACTGCTGTTTATGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
*
36228030 TGCAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * *
36228074 TGCAATCTTCCACCTATTCCACTGCTGTTCAGGGAGTTAGGACT
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* *
36228118 TACAATCTTCCACCTATTCCACTGTTGTTCAGGGAGATAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * *
36228162 TACAATTTTCCACCTATTCCAATGTTGTTCAGGGAGCTAGGACA
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* * * * *
36228206 TGCAATCTTCCTCCTATTACACTGCTATTCAGGGAGCTAGGACT
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
* *
36228250 TACAATCTTCTACCTATTCCACTGCTGTTCAGGGAGATAGGAC
1 TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGAC
36228293 TTATAGTTTC
Statistics
Matches: 236, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 236 1.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (44 bp):
TACAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACA
Found at i:36238847 original size:37 final size:37
Alignment explanation
Indices: 36238797--36238875 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
36238787 TTATTACGAA
* *
36238797 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
36238834 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
36238871 GTCTT
1 GTCTT
36238876 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:36239072 original size:47 final size:47
Alignment explanation
Indices: 36238994--36239534 Score: 875
Period size: 47 Copynumber: 11.5 Consensus size: 47
36238984 CCTTTCGGGA
* * * * * * *
36238994 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36239041 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36239088 CTTATCACATATATACACTTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36239135 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36239182 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36239229 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36239276 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36239323 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36239370 CTTATCACATATATATACACTTTCACATTCGTCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
36239419 CTTATCACATATATACACTTTCACATTCATCACATCAGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
36239466 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
36239513 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
36239535 TTGGCTGAAT
Statistics
Matches: 465, Mismatches: 27, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 420 0.90
49 45 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:36245328 original size:23 final size:23
Alignment explanation
Indices: 36245298--36245343 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
36245288 TAAAAAGAAT
36245298 TAAAATAATAGTACAT-AATAAAA
1 TAAAATAAT-GTACATAAATAAAA
36245321 TAAAATAATGTACATAAATAAAA
1 TAAAATAATGTACATAAATAAAA
36245344 ATAGGTGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (23 bp):
TAAAATAATGTACATAAATAAAA
Found at i:36253654 original size:781 final size:778
Alignment explanation
Indices: 36252614--36254044 Score: 2341
Period size: 781 Copynumber: 1.8 Consensus size: 778
36252604 TTTTAATAAA
36252614 TAAGTTTTTAGTATCACACTCATTAAATGTAATTTTATGTGTTTATTTTTTAAGTTATTAATAAA
1 TAAGTTTTTAGTATCACACTCATTAAATGTAATTTTATGTGTTTATTTTTTAAGTTATTAATAAA
* *
36252679 AATAAATAATAGTATTTTAATTTTTAAACATGATTAAAATATATTAAATATTTTGATTATTAAAA
66 AATAAATAATAGTATTTTAATTTTTAAACATGATTAAAATATATTAAATATATTGATAATTAAAA
* *
36252744 TATTAAAAAAATATAAAAATTAATAATAAGATTCTAACATTTTTAAATATTGTTAGTTACAACTT
131 TATTAAAAAAAAATAAAAATTAATAATAAGATTCTAACATTTTTAAATATTGTTAGCTACAACTT
*
36252809 GGATGAAAATATTAAATGTTGAAATTTTTTTATATAATACTTAGAATTATTCATAATTTTTTTCA
196 GGATGAAAATATTAAATGCTGAAATTTTTTTATATAATACTTAGAATTATTCATAATTTTTTTCA
* * * **
36252874 ACTTTAGACAGGAGGATAAATGTAAATGTTAATAAAAATGTAACCACCATCACTCTATCTTCTTT
261 ACTTTAGACAGGAGGATAAATGTAAACGTCAATAAAAATGTAACCACCATCACTCCATCTTCTCC
*
36252939 TCATTATGGACTCCGTTTTGGAAAAATTACATTTATGTCTTATGTTCGTTTCCGGCTCACAAGAA
326 TCATTATGGACTCCCTTTTGGAAAAATTACATTTATGTCTTATGTTCGTTTCCGGCTCACAAGAA
* * *
36253004 TTCTAAATATATAAACAATCCTACGTGGAGATAATAGTTCACAGTCTATTCTCTAAGAACCATAA
391 TTCTAAAAATAGAAACAATCCTACGTGGAGATAATAGTTCACAGTCTATTCCCTAAGAACCATAA
* **
36253069 CCTTGGAAAAAAATAATTATATAACAAATATATATAATATTGCATTCATTTGCATACATTCCCCT
456 CCTTGAAAAAAAATAATTATATAACAAATATATATAATATTGCATTCATTCACATACATTCCCCT
* * * *
36253134 AAACATGCGAATATTTATAAGAATGTCATATTTTAT-CAA-ATTAAACAAACAAAATGAAAAGAG
521 AAACATGCGAATAATTACAAGAATGTCACATCTTATCCAATATTAAACAAACAAAATGAAAAGAG
* * * * * *
36253197 AGATTCAGCCTCGGTTTATATTATAAATATAGCACATCTTGACTCAGATACTAATTGTTTGAAAA
586 AGATTCAGCCTCAGTTTACACTATAAACATAGCACATCTTGACTCAGATACGAATTGTTGGAAAA
36253262 TAGTTTTTAAATGTTGTGGTGTGACTTGGGTGAGAGAGAAAGCAATTGTGAAACGAGGCTTTGAT
651 TAGTTTTTAAATGTTGTGGTGTGACTTGGGTGAGAGAGAAAGCAATTGTGAAACGAGGCTTTGAT
36253327 AGTATAGCATTTGCAATATATGTACTTAGCACGGTTGAATTTTTTTAAACAACAATATTGCTT
716 AGTATAGCATTTGCAATATATGTACTTAGCACGGTTGAATTTTTTTAAACAACAATATTGCTT
* *
36253390 TAAGTTTTTAGTATCACACTTATTAAATGTAATTTTATGTGTTTA-TTTTTAATTTATTAATAAA
1 TAAGTTTTTAGTATCACACTCATTAAATGTAATTTTATGTGTTTATTTTTTAAGTTATTAATAAA
*
36253454 ATATAAATAATATTATTTTAATTTTTAAACATGATT-AAATATATTAAATATATTGATAATTAAA
66 A-ATAAATAATAGTATTTTAATTTTTAAACATGATTAAAATATATTAAATATATTGATAATTAAA
36253518 ATATTAAAAAATAAAAAATAGAGAAATTAATAATAAGATTCTAACATTTTTAAATATTGTTAGCT
130 ATATT---AAA-AAAAAATA-A-AAATTAATAATAAGATTCTAACATTTTTAAATATTGTTAGCT
* *
36253583 ACGACTTGGATGAAAATATTAAATGCT-AAATTTTTTTATATAATGCTTAGAATTATTCATAATC
189 ACAACTTGGATGAAAATATTAAATGCTGAAATTTTTTTATATAATACTTAGAATTATTCATAAT-
**
36253647 TTTTTTCAACTTTAGACAGGAGGATAAATGTAAACGTCAATAAAAATGTAACCACCATTGCTCCA
253 TTTTTTCAACTTTAGACAGGAGGATAAATGTAAACGTCAATAAAAATGTAACCACCATCACTCCA
*
36253712 TCTTCTCCTCGTTATGGACTCCCTTTTGGAAAAATTACATTTATGTCTTATGTTCGTTTCCGGCT
318 TCTTCTCCTCATTATGGACTCCCTTTTGGAAAAATTACATTTATGTCTTATGTTCGTTTCCGGCT
* * * *
36253777 CATAAGAATTCTAAAAATAGAAACAATCCTACGTGGAGATGATAGTTTACGGTCTATTCCCTAAG
383 CACAAGAATTCTAAAAATAGAAACAATCCTACGTGGAGATAATAGTTCACAGTCTATTCCCTAAG
36253842 AACCATAACCTTGAAAAAAAATAATTATATAACAAATATATATAATATTGCATTCATTCACATAC
448 AACCATAACCTTGAAAAAAAATAATTATATAACAAATATATATAATATTGCATTCATTCACATAC
* * *
36253907 ATTCCCCTAAACATGTGAATAATTACAAGAATGTCACATCTTATCCAATATTAATCAAACAAGAT
513 ATTCCCCTAAACATGCGAATAATTACAAGAATGTCACATCTTATCCAATATTAAACAAACAAAAT
* * * *
36253972 GAAGAGAGAGATTCAGTCTCAGTTTACACTATAAACATAGCACATCTTGGCTCTGATACGAATTG
578 GAAAAGAGAGATTCAGCCTCAGTTTACACTATAAACATAGCACATCTTGACTCAGATACGAATTG
36254037 TTGGAAAA
643 TTGGAAAA
36254045 AACCCAGTTT
Statistics
Matches: 599, Mismatches: 46, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
775 50 0.08
776 77 0.13
778 3 0.01
779 7 0.01
780 36 0.06
781 346 0.58
782 3 0.01
783 77 0.13
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (778 bp):
TAAGTTTTTAGTATCACACTCATTAAATGTAATTTTATGTGTTTATTTTTTAAGTTATTAATAAA
AATAAATAATAGTATTTTAATTTTTAAACATGATTAAAATATATTAAATATATTGATAATTAAAA
TATTAAAAAAAAATAAAAATTAATAATAAGATTCTAACATTTTTAAATATTGTTAGCTACAACTT
GGATGAAAATATTAAATGCTGAAATTTTTTTATATAATACTTAGAATTATTCATAATTTTTTTCA
ACTTTAGACAGGAGGATAAATGTAAACGTCAATAAAAATGTAACCACCATCACTCCATCTTCTCC
TCATTATGGACTCCCTTTTGGAAAAATTACATTTATGTCTTATGTTCGTTTCCGGCTCACAAGAA
TTCTAAAAATAGAAACAATCCTACGTGGAGATAATAGTTCACAGTCTATTCCCTAAGAACCATAA
CCTTGAAAAAAAATAATTATATAACAAATATATATAATATTGCATTCATTCACATACATTCCCCT
AAACATGCGAATAATTACAAGAATGTCACATCTTATCCAATATTAAACAAACAAAATGAAAAGAG
AGATTCAGCCTCAGTTTACACTATAAACATAGCACATCTTGACTCAGATACGAATTGTTGGAAAA
TAGTTTTTAAATGTTGTGGTGTGACTTGGGTGAGAGAGAAAGCAATTGTGAAACGAGGCTTTGAT
AGTATAGCATTTGCAATATATGTACTTAGCACGGTTGAATTTTTTTAAACAACAATATTGCTT
Found at i:36254797 original size:25 final size:25
Alignment explanation
Indices: 36254769--36254825 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
36254759 ATCCCCAACA
* *
36254769 AAATTTTGACTATTTTACCCCTGGT
1 AAATTTTGACAATTTTACCCCTAGT
* *
36254794 AAATTTTGACAATTTTGCCCCTATT
1 AAATTTTGACAATTTTACCCCTAGT
36254819 AAATTTT
1 AAATTTT
36254826 TGAGAAACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.09, T:0.46
Consensus pattern (25 bp):
AAATTTTGACAATTTTACCCCTAGT
Found at i:36261283 original size:29 final size:29
Alignment explanation
Indices: 36261220--36261287 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
36261210 TAATCAACCG
36261220 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
36261249 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
36261278 CGCACACTTA
1 CGCACACTTA
36261288 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:36261400 original size:174 final size:174
Alignment explanation
Indices: 36261109--36261436 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
36261099 AACTCAAGGT
* *
36261109 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
36261174 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
36261239 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
36261283 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
36261348 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
36261413 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
36261437 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:36261428 original size:29 final size:30
Alignment explanation
Indices: 36261389--36261467 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
36261379 CTTAATAATC
36261389 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
36261419 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
36261448 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
36261468 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:36279001 original size:39 final size:39
Alignment explanation
Indices: 36278935--36279031 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 39
36278925 AATTTAGTTC
* * * * *
36278935 GAGTATTTAATTATGTCATTATTTGAACATCATTAATAT
1 GAGTTTTTAATTATGTCATAATCTGAACAACATTAATAA
*
36278974 GAGTTTTTAATTTTGTCATAATCTGAACAACATTAATAA
1 GAGTTTTTAATTATGTCATAATCTGAACAACATTAATAA
*
36279013 G-GGTTTTAATTATGTCATA
1 GAGTTTTTAATTATGTCATA
36279032 GTTTAGGACA
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
38 16 0.32
39 34 0.68
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.44
Consensus pattern (39 bp):
GAGTTTTTAATTATGTCATAATCTGAACAACATTAATAA
Found at i:36279049 original size:39 final size:38
Alignment explanation
Indices: 36278940--36279049 Score: 114
Period size: 39 Copynumber: 2.8 Consensus size: 38
36278930 AGTTCGAGTA
* *
36278940 TTTAATTATGTCATTATTTGAACATCATTAATATGAGTT
1 TTTAATTATGTCA-TATTTGAACATCATTAATAAGAGGT
* * *
36278979 TTTAATTTTGTCATAATCTGAACAACATTAATAAG-GGT
1 TTTAATTATGTCAT-ATTTGAACATCATTAATAAGAGGT
* *
36279017 TTTAATTATGTCATAGTTTAGGACATCTTTAAT
1 TTTAATTATGTCATA-TTT-GAACATCATTAAT
36279050 GCATATTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
37 1 0.02
38 18 0.31
39 39 0.67
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (38 bp):
TTTAATTATGTCATATTTGAACATCATTAATAAGAGGT
Found at i:36280503 original size:52 final size:53
Alignment explanation
Indices: 36280423--36280524 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 53
36280413 TTAAGAAGTC
* ** * *
36280423 TGACTTAATAACATGCATTGATGTTGTTCAAACTAGAGCATAGTTAATAGGTG
1 TGACTTAATAACATCCATTGATAATGTTCAAACTAGAACATACTTAATAGGTG
* * *
36280476 TGACTTAA-AGCATCCATTGATAATGTTCGAATTAGAACATACTTAATAG
1 TGACTTAATAACATCCATTGATAATGTTCAAACTAGAACATACTTAATAG
36280525 ACATAAATCA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
52 33 0.80
53 8 0.20
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (53 bp):
TGACTTAATAACATCCATTGATAATGTTCAAACTAGAACATACTTAATAGGTG
Found at i:36285394 original size:13 final size:14
Alignment explanation
Indices: 36285376--36285404 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
36285366 AAATTTGCTT
36285376 AAAAATCAAG-CAA
1 AAAAATCAAGTCAA
36285389 AAAAATCAAGTCAA
1 AAAAATCAAGTCAA
36285403 AA
1 AA
36285405 GCCACTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.69, C:0.14, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAAATCAAGTCAA
Found at i:36291325 original size:45 final size:45
Alignment explanation
Indices: 36291274--36291361 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
36291264 TGTGAACCAA
* * *
36291274 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCGG
36291319 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACC
36291362 AAGTATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTACTATGTGCTGAATCCACCGG
Found at i:36295760 original size:13 final size:13
Alignment explanation
Indices: 36295742--36295766 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36295732 ATCATCAAAA
36295742 GAAAAAGTTTCAC
1 GAAAAAGTTTCAC
36295755 GAAAAAGTTTCA
1 GAAAAAGTTTCA
36295767 TCACGTTGTG
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
GAAAAAGTTTCAC
Found at i:36298894 original size:3 final size:3
Alignment explanation
Indices: 36298886--36298913 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
36298876 GATCCCGAAA
36298886 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
36298914 TCCTACAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:36301102 original size:14 final size:14
Alignment explanation
Indices: 36301083--36301109 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36301073 GTGGTCTAGT
36301083 TGAACTGAACCGAG
1 TGAACTGAACCGAG
36301097 TGAACTGAACCGA
1 TGAACTGAACCGA
36301110 CCAAGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (14 bp):
TGAACTGAACCGAG
Found at i:36304658 original size:13 final size:13
Alignment explanation
Indices: 36304642--36304669 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
36304632 TTCTGAGTTC
36304642 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
36304655 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
36304668 TT
1 TT
36304670 CTTGTTCACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:36306329 original size:54 final size:54
Alignment explanation
Indices: 36306254--36306368 Score: 196
Period size: 54 Copynumber: 2.1 Consensus size: 54
36306244 TCGAGCCCAA
* *
36306254 TTCTAGTTTCTTTTAGCTTGAGAATTTAATTGCTGGAATAAAGAA-TTAATTCGG
1 TTCTAGTTTCCTTTAGCTTGAGAATTTAATTGCTGGAATAAA-AATTTAATTCAG
36306308 TTCTAGTTTCCTTTAGCTTGAGAATTTAATTGCTGGAATAAAAATTTAATTCAG
1 TTCTAGTTTCCTTTAGCTTGAGAATTTAATTGCTGGAATAAAAATTTAATTCAG
36306362 TTCTAGT
1 TTCTAGT
36306369 CAGTTAGTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (54 bp):
TTCTAGTTTCCTTTAGCTTGAGAATTTAATTGCTGGAATAAAAATTTAATTCAG
Found at i:36310488 original size:79 final size:80
Alignment explanation
Indices: 36310352--36310535 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 80
36310342 TTGAATGATG
* *
36310352 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
36310416 TGTGCGAG-ATACTAA
66 TGTGCGAGTATA-TAA
* * * **
36310431 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
36310493 ATTGTGCGAGTTATATAA
64 ATTGTGCGAG-TATATAA
*
36310511 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36310536 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 10 0.11
79 57 0.63
80 21 0.23
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGTATATAA
Found at i:36310542 original size:39 final size:40
Alignment explanation
Indices: 36310352--36310535 Score: 216
Period size: 39 Copynumber: 4.7 Consensus size: 40
36310342 TTGAATGATG
* * * *
36310352 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36310392 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
36310432 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36310471 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTA-TATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36310511 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36310536 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
39 59 0.48
40 57 0.46
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36310542 original size:79 final size:77
Alignment explanation
Indices: 36310405--36310568 Score: 190
Period size: 79 Copynumber: 2.1 Consensus size: 77
36310395 GGACTAAGAT
* **
36310405 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCAATTGTGCGAGATACTAA-TCCGGGCTAAGCCCGAAGGCATTTGAACGAG-TAGCTA
*
36310469 AATCCGGGTTAAGTC
64 AATCC-GGTTAAATC
*
36310484 CCGAAGGCAATTGTGCGAGTTATA-TAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCAATTGTGCGAG--ATACTAATCCGGGCTAAG-CCCGAAGGCATTTGAACGAGTAGCT
* *
36310547 ATATCCGGTTAAATT
63 AAATCCGGTTAAATC
36310562 CCGAAGG
1 CCGAAGG
36310569 TACGTGATTT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
78 25 0.34
79 43 0.58
80 3 0.04
81 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGAAGGCAATTGTGCGAGATACTAATCCGGGCTAAGCCCGAAGGCATTTGAACGAGTAGCTAAA
TCCGGTTAAATC
Found at i:36319351 original size:27 final size:27
Alignment explanation
Indices: 36319321--36319498 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
36319311 ATATTGAGCC
* *
36319321 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
36319348 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36319375 CGCACACTTGGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
36319403 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36319430 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
36319457 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36319484 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
36319499 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 100 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36319460 original size:82 final size:81
Alignment explanation
Indices: 36319342--36319497 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
36319332 TGCTATATAA
* * * *
36319342 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTGGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
36319407 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
36319424 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36319488 CCCTTAGTGC
65 CCCTTAGTGC
36319498 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:36326612 original size:27 final size:27
Alignment explanation
Indices: 36326582--36326759 Score: 151
Period size: 27 Copynumber: 6.6 Consensus size: 27
36326572 ATATTGAGCC
* *
36326582 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
36326609 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
36326636 CGCACACTTGGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
36326664 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
36326691 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
36326718 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
36326745 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
36326760 GTACAATTTA
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 100 0.82
28 22 0.18
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:36326721 original size:82 final size:81
Alignment explanation
Indices: 36326603--36326758 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
36326593 TGCTATATAA
* * * *
36326603 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTGGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
36326668 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
36326685 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36326749 CCCTTAGTGC
65 CCCTTAGTGC
36326759 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 17 0.27
82 47 0.73
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:36328170 original size:79 final size:81
Alignment explanation
Indices: 36328034--36328218 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
36328024 TTGGATGATG
* *
36328034 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
36328098 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
36328113 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
36328175 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
36328193 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36328219 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:36328232 original size:40 final size:40
Alignment explanation
Indices: 36328035--36328218 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
36328025 TGGATGATGT
* * * *
36328035 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
36328075 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
36328115 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
36328153 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
36328194 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
36328219 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:36328249 original size:79 final size:79
Alignment explanation
Indices: 36328081--36328251 Score: 197
Period size: 79 Copynumber: 2.2 Consensus size: 79
36328071 ATATCCGGAC
* * * **
36328081 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGT
1 TAAGTTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
36328146 TACTAAATCCGGGT
66 TACTAAATCCGGGT
* * *
36328160 TAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTTCCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA
*
36328224 G-TAGCTATATCC-GGT
64 GTTA-CTAAATCCGGGT
36328239 TCAA-TTCCGAAGG
1 T-AAGTTCCGAAGG
36328252 TACGTGATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 49 0.63
80 27 0.35
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TAAGTTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
TACTAAATCCGGGT
Found at i:36342128 original size:15 final size:15
Alignment explanation
Indices: 36342108--36342146 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
36342098 CCATTTGATC
*
36342108 ACTTCCTTTCTAACA
1 ACTTCCTTTCCAACA
*
36342123 ACTTCCTTTCCCACA
1 ACTTCCTTTCCAACA
36342138 ACTT-CTTTC
1 ACTTCCTTTC
36342147 ATAATAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.21, C:0.38, G:0.00, T:0.41
Consensus pattern (15 bp):
ACTTCCTTTCCAACA
Found at i:36343315 original size:21 final size:23
Alignment explanation
Indices: 36343270--36343316 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
36343260 TCACCTGCAA
* *
36343270 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
36343293 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
36343314 TAA
1 TAA
36343317 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:36348675 original size:17 final size:16
Alignment explanation
Indices: 36348653--36348694 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 16
36348643 TAGCTTCTTC
36348653 TTTTTTTTTTCACGAAA
1 TTTTTTTTTTCACG-AA
*
36348670 TTTTTTTTTTCATGAA
1 TTTTTTTTTTCACGAA
36348686 TTTTTTTTT
1 TTTTTTTTT
36348695 CAACTTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (16 bp):
TTTTTTTTTTCACGAA
Found at i:36348754 original size:11 final size:11
Alignment explanation
Indices: 36348738--36348781 Score: 88
Period size: 11 Copynumber: 4.0 Consensus size: 11
36348728 AAACCAAATT
36348738 TTTTTTTTGAA
1 TTTTTTTTGAA
36348749 TTTTTTTTGAA
1 TTTTTTTTGAA
36348760 TTTTTTTTGAA
1 TTTTTTTTGAA
36348771 TTTTTTTTGAA
1 TTTTTTTTGAA
36348782 GAAACTACTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:36349796 original size:21 final size:23
Alignment explanation
Indices: 36349751--36349797 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
36349741 TCACCTGCAA
* *
36349751 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
36349774 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
36349795 TAA
1 TAA
36349798 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:36357714 original size:368 final size:368
Alignment explanation
Indices: 36357037--36357772 Score: 1305
Period size: 368 Copynumber: 2.0 Consensus size: 368
36357027 ATTGAAGTAA
*
36357037 CCCTAAAGAAACTAAGGAACTTCAAAGGCAAGTAGCTAAGTTGATGGAAAAGGGGTACATTCGAG
1 CCCTAAAGAAACTAAGGAACTTCAAAGGCAAGTAGCTAAGTTGATGGAAAAGGGGTACATTCAAG
36357102 AGAGCTTAAGTCCTTGCGTCGTGCCCGTGCTCTTCGTGCTCAAAAGGATGGAACTTGGCATATAT
66 AGAGCTTAAGTCCTTGCGTCGTGCCCGTGCTCTTCGTGCTCAAAAGGATGGAACTTGGCATATAT
*
36357167 TTGTGGACTACCAAAAAATTAACAAGATCATAATCAAGTATAGGCACCCAATTCCACGCCTTGAT
131 TTGTCGACTACCAAAAAATTAACAAGATCATAATCAAGTATAGGCACCCAATTCCACGCCTTGAT
36357232 GACATGTTTGATGAACTAAACGGAGCCTAACTTTTCTCCAAAATAGATCTCAAGAGTGGATATCA
196 GACATGTTTGATGAACTAAACGGAGCCTAACTTTTCTCCAAAATAGATCTCAAGAGTGGATATCA
*
36357297 GCAAATCCGAATGCGAGAACCAGATGAGTGGAAAACGACGTTTAAGACAAAGCACAGG-TTGTAT
261 GCAAATCCGAATGCGAGAACCAGATGAGTGGAAAACGACGTTTAAGACAAAGCAC-GGTTTGTAC
*
36357361 GAGTGGTTGGTTATGCCATTCGGCTTAACTAACGCACCCAGCAC
325 AAGTGGTTGGTTATGCCATTCGGCTTAACTAACGCACCCAGCAC
* * *
36357405 CCCTAAAGAAACTAAGGAACTTTAAAGGCGAGTAGCTACGTTGATGGAAAAGGGGTACATTCAAG
1 CCCTAAAGAAACTAAGGAACTTCAAAGGCAAGTAGCTAAGTTGATGGAAAAGGGGTACATTCAAG
36357470 AGAGCTTAAGTCCTTGCGTCGTGCCCGTGCTCTTCGTGCTCAAAAGGATGGAACTTGGC-TCATA
66 AGAGCTTAAGTCCTTGCGTCGTGCCCGTGCTCTTCGTGCTCAAAAGGATGGAACTTGGCAT-ATA
* *
36357534 TTTGTCGACTACCAAACAATTAACAAGATCATAATCAAGTATAGGCATCCAATTCCACGCCTTGA
130 TTTGTCGACTACCAAAAAATTAACAAGATCATAATCAAGTATAGGCACCCAATTCCACGCCTTGA
*
36357599 TGACATGTTTGATGAACTAAACGGAGCCTAACTTTTCTCCAAAATATATCTCAAGAGTGGATATC
195 TGACATGTTTGATGAACTAAACGGAGCCTAACTTTTCTCCAAAATAGATCTCAAGAGTGGATATC
* * **
36357664 AGCAAATCCGAATGCGAGAACTAGATGAGTGGAGAACGGTGTTTAAGACAAAGCACGGTTTGTAC
260 AGCAAATCCGAATGCGAGAACCAGATGAGTGGAAAACGACGTTTAAGACAAAGCACGGTTTGTAC
*
36357729 AAGTGGTTGGTTATGCCATTCGGCTTAACTAACGTACCCAGCAC
325 AAGTGGTTGGTTATGCCATTCGGCTTAACTAACGCACCCAGCAC
36357773 TTTTATGTGT
Statistics
Matches: 351, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
367 3 0.01
368 348 0.99
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (368 bp):
CCCTAAAGAAACTAAGGAACTTCAAAGGCAAGTAGCTAAGTTGATGGAAAAGGGGTACATTCAAG
AGAGCTTAAGTCCTTGCGTCGTGCCCGTGCTCTTCGTGCTCAAAAGGATGGAACTTGGCATATAT
TTGTCGACTACCAAAAAATTAACAAGATCATAATCAAGTATAGGCACCCAATTCCACGCCTTGAT
GACATGTTTGATGAACTAAACGGAGCCTAACTTTTCTCCAAAATAGATCTCAAGAGTGGATATCA
GCAAATCCGAATGCGAGAACCAGATGAGTGGAAAACGACGTTTAAGACAAAGCACGGTTTGTACA
AGTGGTTGGTTATGCCATTCGGCTTAACTAACGCACCCAGCAC
Found at i:36364530 original size:18 final size:17
Alignment explanation
Indices: 36364507--36364558 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
36364497 GTAAGTGGTC
36364507 AAGAAAGAAAAAATGAAA-
1 AAGAAA-AAAAAA-GAAAT
36364525 AAGAAAAAGAAAAGAAAT
1 AAGAAAAA-AAAAGAAAT
*
36364543 CAGAAAAAAAAAGAAA
1 AAGAAAAAAAAAGAAA
36364559 GGAAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (17 bp):
AAGAAAAAAAAAGAAAT
Found at i:36364547 original size:12 final size:11
Alignment explanation
Indices: 36364523--36364565 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
36364513 GAAAAAATGA
36364523 AAAAGAAAAAG
1 AAAAGAAAAAG
*
36364534 AAAAGAAATCAG
1 AAAAGAAA-AAG
36364546 AAAA-AAAAAG
1 AAAAGAAAAAG
*
36364556 AAAGGAAAAA
1 AAAAGAAAAA
36364566 AGAATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 5 0.19
11 16 0.59
12 6 0.22
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:36364566 original size:12 final size:11
Alignment explanation
Indices: 36364507--36364569 Score: 56
Period size: 12 Copynumber: 5.5 Consensus size: 11
36364497 GTAAGTGGTC
36364507 AAGAAAGAAAA
1 AAGAAAGAAAA
*
36364518 AATGAAAAAGAAA
1 AA-GAAAGA-AAA
*
36364531 AAGAAAAGAAAT
1 AAG-AAAGAAAA
*
36364543 CAGAAA-AAAA
1 AAGAAAGAAAA
36364553 AAGAAAGGAAAA
1 AAGAAA-GAAAA
36364565 AAGAA
1 AAGAA
36364570 TTTAAAATGA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
10 8 0.20
11 5 0.12
12 19 0.46
13 9 0.22
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:36364569 original size:22 final size:22
Alignment explanation
Indices: 36364507--36364569 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 22
36364497 GTAAGTGGTC
36364507 AAGAAAGAAAAAATGAAAAAGAAA
1 AAGAAAGAAAAAA-G-AAAAGAAA
**
36364531 AAGAAAAGAAATCAGAAAA-AAA
1 AAG-AAAGAAAAAAGAAAAGAAA
36364553 AAGAAAGGAAAAAAGAA
1 AAGAAA-GAAAAAAGAA
36364570 TTTAAAATGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.09
22 14 0.42
23 4 0.12
24 4 0.12
25 8 0.24
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (22 bp):
AAGAAAGAAAAAAGAAAAGAAA
Found at i:36366396 original size:27 final size:27
Alignment explanation
Indices: 36366366--36366517 Score: 216
Period size: 27 Copynumber: 5.6 Consensus size: 27
36366356 ATATTAAGTC
* *
36366366 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
36366393 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
36366421 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
*
36366448 CGCACACTTAGTGCAACATAGTCAA-T
1 CGCACACTTAGTGCTACATAGTCAACT
*
36366474 CCGCACACTTAGTGCTACATATTCCAACT
1 -CGCACACTTAGTGCTACATAGT-CAACT
36366503 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36366518 GTACAATTTA
Statistics
Matches: 113, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
26 1 0.01
27 67 0.59
28 44 0.39
29 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:36366434 original size:55 final size:54
Alignment explanation
Indices: 36366365--36366517 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 54
36366355 TATATTAAGT
* *
36366365 CCGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAA
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAA
* * * *
36366419 CTCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAAT
1 C-CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAA
*
36366474 CCGCACACTTAGTGCTACATATTCCAACTCGCACACTTAGTGCT
1 CCGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
36366518 GTACAATTTA
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
54 22 0.25
55 66 0.75
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (54 bp):
CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAA
Found at i:36366503 original size:82 final size:82
Alignment explanation
Indices: 36366366--36366517 Score: 243
Period size: 82 Copynumber: 1.9 Consensus size: 82
36366356 ATATTAAGTC
* *
36366366 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
36366431 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * *
36366448 CGCACACTTAGTGCAACATAGTCAA-TCCGCACACTTAGTGCTACATATTCCAACTCGCACACTT
1 CGCACACTCAGTGCAACATAGTCAACT-CGCACACTTAGTGCTACATAATCAAACTCGCACACTT
36366512 AGTGCT
65 AGTGCT
36366518 GTACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 1 0.02
82 63 0.98
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:36370654 original size:27 final size:27
Alignment explanation
Indices: 36370623--36370800 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36370613 TAAATTGTAC
36370623 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
36370650 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36370676 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
36370704 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
36370732 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
36370759 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
36370786 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
36370801 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:36370737 original size:82 final size:81
Alignment explanation
Indices: 36370624--36370779 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36370614 AAATTGTACA
* *
36370624 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
36370688 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
36370705 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
36370770 TGCGAGTTGA
65 TGCGAATTGA
36370780 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:36370791 original size:82 final size:81
Alignment explanation
Indices: 36370620--36370800 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
36370610 GATTAAATTG
* *
36370620 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
36370685 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
36370701 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
36370765 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
36370783 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
36370801 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:36391305 original size:47 final size:47
Alignment explanation
Indices: 36391252--36391832 Score: 883
Period size: 47 Copynumber: 12.2 Consensus size: 47
36391242 AATTCTAAAT
36391252 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
36391299 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
36391346 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
36391395 TATGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
36391442 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
36391491 TATGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATC
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
36391538 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
36391587 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* **
36391634 TGCGATAAGGCCTAACAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
36391683 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
36391730 CGTGATAAGGCTTAATGGCCGGTGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
36391777 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
36391824 TGTGATAAG
1 TGTGATAAG
36391833 TCCCGAAGGG
Statistics
Matches: 488, Mismatches: 38, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
47 311 0.64
49 177 0.36
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:36391438 original size:96 final size:96
Alignment explanation
Indices: 36391252--36391832 Score: 945
Period size: 96 Copynumber: 6.1 Consensus size: 96
36391242 AATTCTAAAT
*
36391252 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
36391315 GGCCGATGTGATGAATGTGAAAGTGTATATA
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
*
36391346 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
36391411 GGCCGATGTGATGAATGTGAAAGTGTATATA
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
*
36391442 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
*
36391507 GGCCGATGTGATGAATGTGAAAGTGTATATC
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
36391538 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
*
36391603 GGCCGATGTGATGAATGTGAAAGTGTATATG
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
* **
36391634 TGCGATAAGGCCTAACAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
*
36391699 GGCCGATGTGATGAATGTGAAAGTGTATATG
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * ** *
36391730 CGTGATAAGGCTTAATGGCCGGTGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGT
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
* * * *
36391793 GGCCAATGTGATGGATGTGAAAGTGCATAAA
66 GGCCGATGTGATGAATGTGAAAGTGTATATA
36391824 TGTGATAAG
1 TGTGATAAG
36391833 TCCCGAAGGG
Statistics
Matches: 460, Mismatches: 25, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
94 92 0.20
96 368 0.80
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
GGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:36404404 original size:15 final size:15
Alignment explanation
Indices: 36404384--36404413 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36404374 CACAGTTTCA
36404384 CTATAGCTTTATAAT
1 CTATAGCTTTATAAT
*
36404399 CTATAGTTTTATAAT
1 CTATAGCTTTATAAT
36404414 ATAAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (15 bp):
CTATAGCTTTATAAT
Found at i:36405882 original size:42 final size:42
Alignment explanation
Indices: 36405836--36405936 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
36405826 CTAAGATCAA
* *
36405836 CATAGTCGGCATGCTTAACATGCT-AATCAAATCTCAATTTAT
1 CATAGTCGGCATGCTTAACATG-TAAATCAAATATCAATTAAT
*
36405878 CATAGTCGACATGCTTAACATGTAAATCAAATATCAATTAAT
1 CATAGTCGGCATGCTTAACATGTAAATCAAATATCAATTAAT
* *
36405920 AATAGT-GGCATGATTAA
1 CATAGTCGGCATGCTTAA
36405937 AAATATATCA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
41 10 0.19
42 42 0.81
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.32
Consensus pattern (42 bp):
CATAGTCGGCATGCTTAACATGTAAATCAAATATCAATTAAT
Found at i:36406183 original size:17 final size:17
Alignment explanation
Indices: 36406158--36406192 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
36406148 ATAAATTTTT
36406158 TTATCAAATATTAAATC
1 TTATCAAATATTAAATC
* *
36406175 TTATTAAATATTTAATC
1 TTATCAAATATTAAATC
36406192 T
1 T
36406193 CATTTTAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATCAAATATTAAATC
Found at i:36408005 original size:23 final size:23
Alignment explanation
Indices: 36407979--36408025 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
36407969 GGTGTCATTT
36407979 TCAAGCAATTAAAGACATTCAAA
1 TCAAGCAATTAAAGACATTCAAA
*
36408002 TCAAGCAATTCAAGACATTCAAA
1 TCAAGCAATTAAAGACATTCAAA
36408025 T
1 T
36408026 AACCTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (23 bp):
TCAAGCAATTAAAGACATTCAAA
Found at i:36408374 original size:46 final size:46
Alignment explanation
Indices: 36408323--36408416 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
36408313 ATAGTGTGGC
36408323 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
36408369 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
36408415 GT
1 GT
36408417 CTTTTCTTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAG
Found at i:36408836 original size:62 final size:60
Alignment explanation
Indices: 36408761--36408889 Score: 206
Period size: 61 Copynumber: 2.1 Consensus size: 60
36408751 AAAAACGAAT
36408761 TTAGTTTCCATTCAAAATTCAAGAGTGGATATCAAGTTGTAAAAAAAATTTCGTGAAAAAAAA-
1 TTAG-TTCCATTC-AAATTCAAGAGTGGATATCAAGTTGT-AAAAAAA-TTCGTGAAAAAAAAG
*
36408824 TTAGTTCCATTCAAATTCAAGAGTGGATATCAAGTTGTAAAAAAATTCTTGAAAAAAAAG
1 TTAGTTCCATTCAAATTCAAGAGTGGATATCAAGTTGTAAAAAAATTCGTGAAAAAAAAG
36408884 TTAGTT
1 TTAGTT
36408890 TTGAACATAC
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
59 13 0.20
60 13 0.20
61 26 0.41
62 8 0.12
63 4 0.06
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (60 bp):
TTAGTTCCATTCAAATTCAAGAGTGGATATCAAGTTGTAAAAAAATTCGTGAAAAAAAAG
Found at i:36411439 original size:23 final size:23
Alignment explanation
Indices: 36411408--36411451 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
36411398 TGACTTTTCA
36411408 GCTCATAACTCAAGAACTCAAGG
1 GCTCATAACTCAAGAACTCAAGG
*
36411431 GCTCGTAACTCAAGAACTCAA
1 GCTCATAACTCAAGAACTCAA
36411452 AGCTGTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (23 bp):
GCTCATAACTCAAGAACTCAAGG
Found at i:36411709 original size:23 final size:23
Alignment explanation
Indices: 36411683--36411729 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
36411673 TGTCATTTTC
36411683 AAGCAATTAAAGACATTCAAATA
1 AAGCAATTAAAGACATTCAAATA
*
36411706 AAGCAATTCAAGACATTCAAATA
1 AAGCAATTAAAGACATTCAAATA
36411729 A
1 A
36411730 CCTGAATTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (23 bp):
AAGCAATTAAAGACATTCAAATA
Found at i:36412076 original size:46 final size:46
Alignment explanation
Indices: 36412025--36412118 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
36412015 ATAGTGTGGC
36412025 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
* * * *
36412071 GTTCATCATATACTAAGGTTCTTATCATTCTTGATAGTGGGTTGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
36412117 GT
1 GT
36412119 CTTTTCTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.37
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGGTCGAG
Found at i:36414379 original size:12 final size:11
Alignment explanation
Indices: 36414362--36414413 Score: 77
Period size: 11 Copynumber: 4.6 Consensus size: 11
36414352 GTAGGTTCGG
36414362 AAAAAAAATTC
1 AAAAAAAATTC
36414373 AAAAAAAATTC
1 AAAAAAAATTC
*
36414384 AAAAAAAATTTG
1 AAAAAAAA-TTC
*
36414396 AAAAAAAATTT
1 AAAAAAAATTC
36414407 AAAAAAA
1 AAAAAAA
36414414 GATATATTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:36415365 original size:6 final size:6
Alignment explanation
Indices: 36415354--36415401 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
36415344 ATGTTGTAAT
*
36415354 GAAAAA GAAAAA GAAAAAGA GGAAAAA GGAAAA GAAAAA GAAAAA GAA
1 GAAAAA GAAAAA G-AAAA-A -GAAAAA GAAAAA GAAAAA GAAAAA GAA
36415402 GTTGAAAAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 26 0.70
7 5 0.14
8 5 0.14
9 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:36415380 original size:21 final size:21
Alignment explanation
Indices: 36415354--36415394 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
36415344 ATGTTGTAAT
36415354 GAAAAAGAAAAAGAAAAAGAG
1 GAAAAAGAAAAAGAAAAAGAG
*
36415375 GAAAAAGGAAAAGAAAAAGA
1 GAAAAAGAAAAAGAAAAAGA
36415395 AAAAGAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAAAGAAAAAGAAAAAGAG
Found at i:36415408 original size:18 final size:18
Alignment explanation
Indices: 36415387--36415431 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
36415377 AAAAGGAAAA
36415387 GAAAAAGAAAAAGAAGTT
1 GAAAAAGAAAAAGAAGTT
* * *
36415405 GAAAAAGAGACAGAATTT
1 GAAAAAGAAAAAGAAGTT
*
36415423 GAGAAAGAA
1 GAAAAAGAA
36415432 CATAAGAGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.62, C:0.02, G:0.24, T:0.11
Consensus pattern (18 bp):
GAAAAAGAAAAAGAAGTT
Found at i:36415543 original size:35 final size:34
Alignment explanation
Indices: 36415479--36415552 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
36415469 AATGAAAGTT
*
36415479 TGAGGAAAAAGAGAAAATTGAAAAGGAAAAAAAA
1 TGAGGAAAAAGAGAAAAGTGAAAAGGAAAAAAAA
**
36415513 TGAGAGAAAAAGAGGTAAGTGAACAA-G--AAAAAA
1 TGAG-GAAAAAGAGAAAAGTGAA-AAGGAAAAAAAA
36415546 TGAGGAA
1 TGAGGAA
36415553 TCTGTTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
32 3 0.09
33 10 0.29
34 4 0.11
35 16 0.46
36 2 0.06
ACGTcount: A:0.62, C:0.01, G:0.27, T:0.09
Consensus pattern (34 bp):
TGAGGAAAAAGAGAAAAGTGAAAAGGAAAAAAAA
Found at i:36418767 original size:11 final size:12
Alignment explanation
Indices: 36418712--36418771 Score: 61
Period size: 11 Copynumber: 4.9 Consensus size: 12
36418702 CCGGAGTAGG
36418712 TTCAGAAAAAAAA
1 TTCA-AAAAAAAA
*
36418725 TTC-AAACAAAA
1 TTCAAAAAAAAA
36418736 TTCAAACAAAAAA
1 TTCAAA-AAAAAA
*
36418749 TTTGAAAAAAAAA
1 -TTCAAAAAAAAA
36418762 TT-AAAAAAAA
1 TTCAAAAAAAA
36418772 GATATATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
11 18 0.44
12 4 0.10
13 14 0.34
14 5 0.12
ACGTcount: A:0.70, C:0.08, G:0.03, T:0.18
Consensus pattern (12 bp):
TTCAAAAAAAAA
Found at i:36419720 original size:6 final size:6
Alignment explanation
Indices: 36419709--36419756 Score: 69
Period size: 6 Copynumber: 7.5 Consensus size: 6
36419699 ATGTTGTAAT
36419709 GAAAAA GAAAAA GAAAAAGA GGAAAAA GAAAAA GAAAAA GAAAAA GAA
1 GAAAAA GAAAAA G-AAAA-A -GAAAAA GAAAAA GAAAAA GAAAAA GAA
36419757 GTTGAAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
6 28 0.72
7 5 0.13
8 5 0.13
9 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:36419735 original size:21 final size:21
Alignment explanation
Indices: 36419709--36419749 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
36419699 ATGTTGTAAT
36419709 GAAAAAGAAAAAGAAAAAGAG
1 GAAAAAGAAAAAGAAAAAGAG
36419730 GAAAAAGAAAAAGAAAAAGA
1 GAAAAAGAAAAAGAAAAAGA
36419750 AAAAGAAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (21 bp):
GAAAAAGAAAAAGAAAAAGAG
Found at i:36419898 original size:35 final size:34
Alignment explanation
Indices: 36419834--36419907 Score: 82
Period size: 35 Copynumber: 2.2 Consensus size: 34
36419824 AATGAAAGTG
*
36419834 TGAGGAAAAAGAGAAAATTGAAAAGGAAAAAAAA
1 TGAGGAAAAAGAGAAAAGTGAAAAGGAAAAAAAA
**
36419868 TGAGAGAAAAAGAGGTAAGTGAACAA-G--AAAAAA
1 TGAG-GAAAAAGAGAAAAGTGAA-AAGGAAAAAAAA
36419901 TGAGGAA
1 TGAGGAA
36419908 TCTGTTTACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
32 3 0.09
33 10 0.29
34 4 0.11
35 16 0.46
36 2 0.06
ACGTcount: A:0.62, C:0.01, G:0.27, T:0.09
Consensus pattern (34 bp):
TGAGGAAAAAGAGAAAAGTGAAAAGGAAAAAAAA
Found at i:36425156 original size:39 final size:39
Alignment explanation
Indices: 36425100--36425395 Score: 297
Period size: 39 Copynumber: 7.4 Consensus size: 39
36425090 AATGAAATAT
* * *
36425100 TGATTATACTAAATGCTTGCTTAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
*
36425139 TAATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* * *
36425178 TGATTATATTGAATGATTGCTCAAATGAGCATTATTCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* * * *
36425217 TAATTATACTAAATGTTTGAATGTTTTCTCAAACAAAGCATTATCCAC
1 TGA-T-TA-T--A---TTGAATGCTTGCTCAAAC-GAGCATTATCCAC
*
36425265 TGATTATATTGACTGCTTGCTCAAACGAGCATTATCCAC
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* ** *
36425304 TGATTATACTGAATGCTTGCTCAAGTGAGCATTATCCAT
1 TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
* * * * *
36425343 TGATTATACAT-AATGCTTACTCAAATGAGCATTACCCAT
1 TGATTATA-TTGAATGCTTGCTCAAACGAGCATTATCCAC
*
36425382 TGATTATACTGAAT
1 TGATTATATTGAAT
36425396 AAGATTTTTT
Statistics
Matches: 217, Mismatches: 29, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.00
39 162 0.75
40 17 0.08
41 2 0.01
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 2 0.01
47 16 0.07
48 13 0.06
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.35
Consensus pattern (39 bp):
TGATTATATTGAATGCTTGCTCAAACGAGCATTATCCAC
Found at i:36425257 original size:87 final size:86
Alignment explanation
Indices: 36425147--36425318 Score: 254
Period size: 87 Copynumber: 2.0 Consensus size: 86
36425137 ACTAATTATA
* *
36425147 TTGAATGCTTGCTCAAACGAGCATTATCCACTGATTATATTGAATGATTGCTCAAATGAGCATTA
1 TTGAATGCTTGCTCAAACAAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATTA
*
36425212 TTCACTAATTATACTAAATGT
66 TCCACTAATTATACTAAATGT
* * * *
36425233 TTGAATGTTTTCTCAAACAAAGCATTATCCACTGATTATATTGACTGCTTGCTCAAACGAGCATT
1 TTGAATGCTTGCTCAAAC-AAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATT
* *
36425298 ATCCACTGATTATACTGAATG
65 ATCCACTAATTATACTAAATG
36425319 CTTGCTCAAG
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
86 16 0.21
87 60 0.79
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (86 bp):
TTGAATGCTTGCTCAAACAAGCATTATCCACTGATTATATTGAATGATTGCTCAAACGAGCATTA
TCCACTAATTATACTAAATGT
Found at i:36427442 original size:14 final size:15
Alignment explanation
Indices: 36427408--36427448 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
36427398 TAGCCCCAAC
*
36427408 AATATAATATCTCAT
1 AATATAATATTTCAT
36427423 AA-ATAATATTTC-T
1 AATATAATATTTCAT
36427436 AATATAA-ATTTCA
1 AATATAATATTTCA
36427449 CGTGAAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 8 0.35
14 13 0.57
15 2 0.09
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATAATATTTCAT
Found at i:36427525 original size:65 final size:66
Alignment explanation
Indices: 36427444--36427576 Score: 259
Period size: 65 Copynumber: 2.0 Consensus size: 66
36427434 CTAATATAAA
36427444 TTTCACGTGAAATGACTAAAATACTCTTATACGAAAAATTTAAACTTTTACCTC-TTTTTATCTA
1 TTTCACGTGAAATGACTAAAATACTCTTATACGAAAAATTTAAACTTTTACCTCTTTTTTATCTA
36427508 C
66 C
36427509 TTTCACGTGAAATGACTAAAATACTCTTATACGAAAAATTTAAACTTTTACCTCTTTTTTATCTA
1 TTTCACGTGAAATGACTAAAATACTCTTATACGAAAAATTTAAACTTTTACCTCTTTTTTATCTA
36427574 C
66 C
36427575 TT
1 TT
36427577 ACTCTTCTCA
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
65 54 0.81
66 13 0.19
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (66 bp):
TTTCACGTGAAATGACTAAAATACTCTTATACGAAAAATTTAAACTTTTACCTCTTTTTTATCTA
C
Found at i:36432955 original size:137 final size:138
Alignment explanation
Indices: 36432694--36432967 Score: 462
Period size: 137 Copynumber: 2.0 Consensus size: 138
36432684 ATGCAAAACT
36432694 TTAGGTAACATTTGAAAAATAAAATTGAATTAATTTATGATTACAATAGGTTGTTTTGAGATATT
1 TTAGGTAACATTTGAAAAATAAAATTGAATTAATTTATGATTACAATAGGTTGTTTTGAGATATT
*
36432759 TGAAACTAATAAATTGAAATAAATTATTATATAGATCGAGATTTGAGTTAATCGAGGGATAATCA
66 TGAAACTAATAAATTGAAATAAATTATTATACAGATCGAGATTTGAGTTAATCGAGGGATAATCA
36432824 AGGAAAAG
131 AGGAAAAG
* * *
36432832 TTAGGTAACA-TTGAAAAAATGAAATTGAATTAATTTATGATTACAATGGGTTGTTTTGAGATGT
1 TTAGGTAACATTTG-AAAAATAAAATTGAATTAATTTATGATTACAATAGGTTGTTTTGAGATAT
* *
36432896 TTGAAA-TGATAAATTGAAATAAATTATTATACAGATCGAGATTTGAGTTAATCGGGGGATAATC
65 TTGAAACTAATAAATTGAAATAAATTATTATACAGATCGAGATTTGAGTTAATCGAGGGATAATC
*
36432960 GAGGAAAA
130 AAGGAAAA
36432968 TTCAACTTTT
Statistics
Matches: 128, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
137 65 0.51
138 63 0.49
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.34
Consensus pattern (138 bp):
TTAGGTAACATTTGAAAAATAAAATTGAATTAATTTATGATTACAATAGGTTGTTTTGAGATATT
TGAAACTAATAAATTGAAATAAATTATTATACAGATCGAGATTTGAGTTAATCGAGGGATAATCA
AGGAAAAG
Found at i:36438237 original size:39 final size:39
Alignment explanation
Indices: 36438033--36438251 Score: 190
Period size: 40 Copynumber: 5.5 Consensus size: 39
36438023 TTGAATGCTG
* * * * * *
36438033 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
36438073 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGC-ATTGTGCGAGTTACTAAA
* * *
36438112 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
**
36438153 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* *
36438193 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
36438232 ACCGGGCTATGTCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36438252 AATTTGAACG
Statistics
Matches: 152, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.23
40 105 0.69
41 12 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:36438275 original size:79 final size:80
Alignment explanation
Indices: 36438113--36438290 Score: 189
Period size: 79 Copynumber: 2.2 Consensus size: 80
36438103 AGATACAAAT
* * * * *
36438113 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGAATTC
** ** *
36438178 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
36438193 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGAATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGAATTC
*
36438257 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
36438272 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36438291 TACGTGATTT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 48 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGAATTC
GAACGAGGAGCTAAA
Found at i:36451337 original size:23 final size:22
Alignment explanation
Indices: 36451294--36451337 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
36451284 TTCTAAGCCG
36451294 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
36451317 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
36451338 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:36451446 original size:45 final size:45
Alignment explanation
Indices: 36451382--36451470 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
36451372 AACAGATACT
* * *
36451382 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGAACATAGCAACCACCTTACTAATCAATGATGTC
36451427 CGGTGGAATCAGAACATAGCAACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGAACATAGCAACCACCTTACTAATCAATGATGT
36451471 TTGGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGAACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:36451543 original size:51 final size:50
Alignment explanation
Indices: 36451477--36451667 Score: 213
Period size: 51 Copynumber: 3.8 Consensus size: 50
36451467 ATGTTTGGTT
*
36451477 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATCCGATA
* * * * ** ** *
36451528 CACGTAGTAGTCTGCACATAGTACTACACACGTGATCGAAACTGTTTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATCCGATA
* * *
36451579 CGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TCCGATA
* *
36451629 CACATAGTAGCCTACACATAGTACTGCACACGTGACCAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
36451668 CACTTTCACT
Statistics
Matches: 111, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 1 0.01
50 38 0.34
51 70 0.63
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATCCGATA
Found at i:36451687 original size:101 final size:99
Alignment explanation
Indices: 36451468--36451663 Score: 277
Period size: 102 Copynumber: 1.9 Consensus size: 99
36451458 TAATCAATGA
*
36451468 TGTTTGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATCCGATACACGT
1 TGTTTGG-T-ACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCATCCGATACACAT
* * *
36451533 AGTAGTCTGCACATAGTACTACACACGTGATCGAAAC
63 AGTAGCCTACACATAGTACTACACACGTGATCCAAAC
*
36451570 TGTTTGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACC-TATCATTCCGATACACAT
1 TGTTTGGTA--CATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-TCCGATACACAT
*
36451634 AGTAGCCTACACATAGTACTGCACACGTGA
63 AGTAGCCTACACATAGTACTACACACGTGA
36451664 CCATCACTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
100 5 0.06
101 39 0.45
102 42 0.49
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TGTTTGGTACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCATCCGATACACATAGT
AGCCTACACATAGTACTACACACGTGATCCAAAC
Found at i:36454401 original size:56 final size:50
Alignment explanation
Indices: 36454198--36454439 Score: 272
Period size: 50 Copynumber: 4.8 Consensus size: 50
36454188 ACTGCCAATT
* * * ** * * * * *
36454198 CCATATCCCAGATATGGTCTAACATGGGAGTTATCATATAAGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
** *
36454248 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
*
36454298 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
*
36454348 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G-TGCCAACG
*
36454404 CCATGTCCCAGAGATGGTCTTACATGGGA--TCTCATC
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATC
36454440 CTCTTAATGT
Statistics
Matches: 166, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
50 118 0.71
51 3 0.02
53 5 0.03
54 5 0.03
55 1 0.01
56 34 0.20
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
Found at i:36461032 original size:79 final size:81
Alignment explanation
Indices: 36460896--36461080 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
36460886 TTGAATGATG
* *
36460896 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
36460960 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
36460975 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
36461037 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
36461055 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36461081 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:36461094 original size:40 final size:40
Alignment explanation
Indices: 36460897--36461080 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
36460887 TGAATGATGT
* * * *
36460897 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
36460937 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
36460977 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
36461015 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
36461056 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
36461081 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:36461102 original size:79 final size:79
Alignment explanation
Indices: 36460949--36461113 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
36460939 GGACTAAGAT
* * **
36460949 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
36461014 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
36461028 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
36461091 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
36461107 CCGAAGG
1 CCGAAGG
36461114 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:36465502 original size:20 final size:20
Alignment explanation
Indices: 36465477--36465515 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
36465467 TGAGTTATTG
36465477 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
36465497 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
36465516 AAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:36470946 original size:38 final size:38
Alignment explanation
Indices: 36470899--36470975 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
36470889 GGCAAGAACA
36470899 ATTGAAAAGATGGAGTTTGATCGATCTTTGTTGCCAAG
1 ATTGAAAAGATGGAGTTTGATCGATCTTTGTTGCCAAG
36470937 ATTGAAAAGATGGAGTTTGATCGATCTTTGTTGCCAAG
1 ATTGAAAAGATGGAGTTTGATCGATCTTTGTTGCCAAG
36470975 A
1 A
36470976 AAGGGTGCCG
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:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (38 bp):
ATTGAAAAGATGGAGTTTGATCGATCTTTGTTGCCAAG
Found at i:36474279 original size:14 final size:14
Alignment explanation
Indices: 36474238--36474279 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
36474228 AATATTTATA
*
36474238 ACATGCATTTCAAC
1 ACATACATTTCAAC
*
36474252 ACA-ACATTTAAAC
1 ACATACATTTCAAC
*
36474265 ACATTCATTTCAAC
1 ACATACATTTCAAC
36474279 A
1 A
36474280 TATATATCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (14 bp):
ACATACATTTCAAC
Found at i:36474567 original size:48 final size:48
Alignment explanation
Indices: 36474462--36474582 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 48
36474452 AAGCCACCAA
* * * *
36474462 ATAAATGTCGATAAATAACCACATAACACTTTGTGGAGAACCCATCAC
1 ATAAATGCCGATAAATGACCACATAACACATTGTGGACAACCCATCAC
*
36474510 ATAAATGCCGATAAATGACCACATAACACATTGTGGACAAGCCA-C-C
1 ATAAATGCCGATAAATGACCACATAACACATTGTGGACAACCCATCAC
* *
36474556 ATAGAGTTGCCGAT-AATGGCCACATAA
1 ATA-A-ATGCCGATAAATGACCACATAA
36474583 TTGTAGATAA
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
46 4 0.06
47 14 0.22
48 46 0.72
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (48 bp):
ATAAATGCCGATAAATGACCACATAACACATTGTGGACAACCCATCAC
Found at i:36475958 original size:13 final size:13
Alignment explanation
Indices: 36475940--36475964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36475930 GAGGAATTTT
36475940 AGGTGGTGGTTGA
1 AGGTGGTGGTTGA
36475953 AGGTGGTGGTTG
1 AGGTGGTGGTTG
36475965 TTTGTCAAAT
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:0.12, C:0.00, G:0.56, T:0.32
Consensus pattern (13 bp):
AGGTGGTGGTTGA
Found at i:36477351 original size:29 final size:29
Alignment explanation
Indices: 36477319--36477387 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
36477309 GCACACGGTT
36477319 GTGTGTTAG-CTCGTGTATGACACACAACC
1 GTGTGTTAGCCT-GTGTATGACACACAACC
* * *
36477348 GTGTGTTAGCCTGTGTGTGACATACGACC
1 GTGTGTTAGCCTGTGTATGACACACAACC
*
36477377 ATGTGTTAGCC
1 GTGTGTTAGCC
36477388 CATGTACAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 33 0.94
30 2 0.06
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (29 bp):
GTGTGTTAGCCTGTGTATGACACACAACC
Found at i:36481956 original size:22 final size:22
Alignment explanation
Indices: 36481931--36482003 Score: 67
Period size: 22 Copynumber: 3.1 Consensus size: 22
36481921 AACACACCAT
36481931 TTGTGGATAAGCCACCACATAA
1 TTGTGGATAAGCCACCACATAA
* *
36481953 TTGTCGAT-AGACGACCACATAACACA
1 TTGTGGATAAG-CCACCACAT---A-A
*
36481979 TTGTGGACAAGCCACCACATAA
1 TTGTGGATAAGCCACCACATAA
36482001 TTG
1 TTG
36482004 CTAATAACGA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
21 2 0.05
22 19 0.47
23 1 0.03
25 1 0.03
26 15 0.38
27 2 0.05
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.22
Consensus pattern (22 bp):
TTGTGGATAAGCCACCACATAA
Found at i:36481994 original size:48 final size:47
Alignment explanation
Indices: 36481931--36482021 Score: 139
Period size: 48 Copynumber: 1.9 Consensus size: 47
36481921 AACACACCAT
* *
36481931 TTGTGGATAAGCCACCACATAATTG-TCGATAGACGACCACATAACACA
1 TTGTGGACAAGCCACCACATAATTGCT-AATA-ACGACCACATAACACA
36481979 TTGTGGACAAGCCACCACATAATTGCTAATAACGACCACATAA
1 TTGTGGACAAGCCACCACATAATTGCTAATAACGACCACATAA
36482022 TCCATATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
47 12 0.30
48 27 0.68
49 1 0.03
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.21
Consensus pattern (47 bp):
TTGTGGACAAGCCACCACATAATTGCTAATAACGACCACATAACACA
Found at i:36487116 original size:22 final size:21
Alignment explanation
Indices: 36487091--36487136 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
36487081 TGATAAACTT
36487091 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
36487113 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
36487134 TAA
1 TAA
36487137 ACTTAGCTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 11 0.50
23 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:36503218 original size:22 final size:20
Alignment explanation
Indices: 36503193--36503238 Score: 51
Period size: 19 Copynumber: 2.3 Consensus size: 20
36503183 TTATTTATGT
36503193 ATAAAGGTTATAATAATTAAA
1 ATAAAGG-TATAATAATTAAA
*
36503214 A-ATAA-GTATTATAATTAAA
1 ATA-AAGGTATAATAATTAAA
36503233 ATAAAG
1 ATAAAG
36503239 ATGAAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
19 15 0.71
20 3 0.14
21 3 0.14
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (20 bp):
ATAAAGGTATAATAATTAAA
Found at i:36505003 original size:20 final size:21
Alignment explanation
Indices: 36504980--36505023 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
36504970 ATTTCAATTC
36504980 AGCTTAATT-TTAGCTCAATG
1 AGCTTAATTCTTAGCTCAATG
**
36505000 AGC-TCGTTCTTAGCTCAATG
1 AGCTTAATTCTTAGCTCAATG
36505020 AGCT
1 AGCT
36505024 CGTTTTTAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (21 bp):
AGCTTAATTCTTAGCTCAATG
Found at i:36505024 original size:20 final size:20
Alignment explanation
Indices: 36504989--36505034 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
36504979 CAGCTTAATT
36504989 TTAGCTCAATGAGCTCGTTC
1 TTAGCTCAATGAGCTCGTTC
*
36505009 TTAGCTCAATGAGCTCGTTT
1 TTAGCTCAATGAGCTCGTTC
36505029 TTAGCT
1 TTAGCT
36505035 TAGTTTAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (20 bp):
TTAGCTCAATGAGCTCGTTC
Found at i:36507765 original size:17 final size:18
Alignment explanation
Indices: 36507729--36507766 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
36507719 AGAAAATTGA
*
36507729 AAACGAGATTGAAGAAAG
1 AAACGAGAGTGAAGAAAG
*
36507747 AAACGAGAGTGCA-AAAG
1 AAACGAGAGTGAAGAAAG
36507764 AAA
1 AAA
36507767 TGAGTGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.58, C:0.08, G:0.26, T:0.08
Consensus pattern (18 bp):
AAACGAGAGTGAAGAAAG
Found at i:36509864 original size:120 final size:118
Alignment explanation
Indices: 36509646--36509890 Score: 325
Period size: 120 Copynumber: 2.1 Consensus size: 118
36509636 GGACTAAGAT
*
36509646 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
** *
36509711 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * *
36509765 CCGAAGGCATTTGTGCGAGTTACTAAATCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * * *
36509830 TAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
36509884 CCGAAGG
1 CCGAAGG
36509891 TACGTGATTT
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
119 52 0.47
120 57 0.51
121 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCAGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:36509871 original size:40 final size:40
Alignment explanation
Indices: 36509593--36509857 Score: 315
Period size: 40 Copynumber: 6.7 Consensus size: 40
36509583 TTGAATGATG
* * * * *
36509593 TCCGGGCTAAGTCCAGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
36509633 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36509673 TCCAGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36509712 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36509752 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36509792 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36509833 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36509858 AACGAGTAGC
Statistics
Matches: 194, Mismatches: 24, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
39 34 0.18
40 150 0.77
41 10 0.05
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36529389 original size:40 final size:39
Alignment explanation
Indices: 36529313--36529524 Score: 207
Period size: 40 Copynumber: 5.3 Consensus size: 39
36529303 ATGTCCGGGC
* * * * *
36529313 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGAC
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-T
*
36529353 TAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC-GGT
36529393 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCAGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC-GGT
*
36529433 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGT
* ** *
36529473 TATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGT
* *
36529512 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
36529525 TACGTGATTT
Statistics
Matches: 147, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.11
40 119 0.81
41 12 0.08
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (39 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGT
Done.