Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 71 of 290
Found at i:21538061 original size:30 final size:32
Alignment explanation
Indices: 21538006--21538065 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
21537996 TTTATTATTA
21538006 TTTAAATATTTTACATATCATTATATTAAATT
1 TTTAAATATTTTACATATCATTATATTAAATT
21538038 TTTAAATATTATTA-AT-T-ATTATATTAAA
1 TTTAAATATT-TTACATATCATTATATTAAA
21538066 ATAATAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 11 0.41
31 1 0.04
32 12 0.44
33 3 0.11
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (32 bp):
TTTAAATATTTTACATATCATTATATTAAATT
Found at i:21539718 original size:453 final size:453
Alignment explanation
Indices: 21538872--21539775 Score: 1799
Period size: 453 Copynumber: 2.0 Consensus size: 453
21538862 TATTTTGATT
21538872 TGATATACACTATCACCGATCAATCTAAAGCTTCCATGATAACAGAAACCATACAAGACATAAGA
1 TGATATACACTATCACCGATCAATCTAAAGCTTCCATGATAACAGAAACCATACAAGACATAAGA
21538937 AAATAAGGACTTCAACAAAGCTTAAACTACGCCCTTAAGATGAATCATTAATAGCACTAGCAAGG
66 AAATAAGGACTTCAACAAAGCTTAAACTACGCCCTTAAGATGAATCATTAATAGCACTAGCAAGG
21539002 TTTGCACAATGATTTTTACCAATTGATTCATTTCAGATGTTGAAAACCAGCGCCTGATATGTGAC
131 TTTGCACAATGATTTTTACCAATTGATTCATTTCAGATGTTGAAAACCAGCGCCTGATATGTGAC
21539067 CATGCTCAGATTTTGGAGGCCACCGCCGGACAAAACTTGAATGCTTTTCTGGGTCATTCTATTTG
196 CATGCTCAGATTTTGGAGGCCACCGCCGGACAAAACTTGAATGCTTTTCTGGGTCATTCTATTTG
21539132 TCAAACTGAAGCCTATATGCTTGAATATATTTTGAAGATTGAATTCAAGACGTACCACTAGTGAG
261 TCAAACTGAAGCCTATATGCTTGAATATATTTTGAAGATTGAATTCAAGACGTACCACTAGTGAG
21539197 ATCATTGCCACCAAGACCCTGCCATGTGATGGTCCAGCCTCCGCATTGATAGCCCAAGTTATCAG
326 ATCATTGCCACCAAGACCCTGCCATGTGATGGTCCAGCCTCCGCATTGATAGCCCAAGTTATCAG
21539262 CATGAGTTCCGGATACTAGTATCTTAGTTGCTTTCTTGGGAAGGGGTAACAATGGCTTATCAG
391 CATGAGTTCCGGATACTAGTATCTTAGTTGCTTTCTTGGGAAGGGGTAACAATGGCTTATCAG
21539325 TGATATACACTATCACCGATCAATCTAAAGCTTCCATGATAACAGAAACCATACAAGACATAAGA
1 TGATATACACTATCACCGATCAATCTAAAGCTTCCATGATAACAGAAACCATACAAGACATAAGA
21539390 AAATAAGGACTTCAACAAAGCTTAAACTACGCCCTTAAGATGAATCATTAATAGCACTAGCAAGG
66 AAATAAGGACTTCAACAAAGCTTAAACTACGCCCTTAAGATGAATCATTAATAGCACTAGCAAGG
*
21539455 TTTGCACAATGATTTTTACCAATTGATTCATTTCAGATGTTGAAAACCAGTGCCTGATATGTGAC
131 TTTGCACAATGATTTTTACCAATTGATTCATTTCAGATGTTGAAAACCAGCGCCTGATATGTGAC
21539520 CATGCTCAGATTTTGGAGGCCACCGCCGGACAAAACTTGAATGCTTTTCTGGGTCATTCTATTTG
196 CATGCTCAGATTTTGGAGGCCACCGCCGGACAAAACTTGAATGCTTTTCTGGGTCATTCTATTTG
21539585 TCAAACTGAAGCCTATATGCTTGAATATATTTTGAAGATTGAATTCAAGACGTACCACTAGTGAG
261 TCAAACTGAAGCCTATATGCTTGAATATATTTTGAAGATTGAATTCAAGACGTACCACTAGTGAG
21539650 ATCATTGCCACCAAGACCCTGCCATGTGATGGTCCAGCCTCCGCATTGATAGCCCAAGTTATCAG
326 ATCATTGCCACCAAGACCCTGCCATGTGATGGTCCAGCCTCCGCATTGATAGCCCAAGTTATCAG
21539715 CATGAGTTCCGGATACTAGTATCTTAGTTGCTTTCTTGGGAAGGGGTAACAATGGCTTATC
391 CATGAGTTCCGGATACTAGTATCTTAGTTGCTTTCTTGGGAAGGGGTAACAATGGCTTATC
21539776 CGCAGATTCA
Statistics
Matches: 450, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
453 450 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (453 bp):
TGATATACACTATCACCGATCAATCTAAAGCTTCCATGATAACAGAAACCATACAAGACATAAGA
AAATAAGGACTTCAACAAAGCTTAAACTACGCCCTTAAGATGAATCATTAATAGCACTAGCAAGG
TTTGCACAATGATTTTTACCAATTGATTCATTTCAGATGTTGAAAACCAGCGCCTGATATGTGAC
CATGCTCAGATTTTGGAGGCCACCGCCGGACAAAACTTGAATGCTTTTCTGGGTCATTCTATTTG
TCAAACTGAAGCCTATATGCTTGAATATATTTTGAAGATTGAATTCAAGACGTACCACTAGTGAG
ATCATTGCCACCAAGACCCTGCCATGTGATGGTCCAGCCTCCGCATTGATAGCCCAAGTTATCAG
CATGAGTTCCGGATACTAGTATCTTAGTTGCTTTCTTGGGAAGGGGTAACAATGGCTTATCAG
Found at i:21541219 original size:3 final size:3
Alignment explanation
Indices: 21541211--21541273 Score: 117
Period size: 3 Copynumber: 20.7 Consensus size: 3
21541201 GTTCAACCTT
21541211 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
21541259 TTA TTA TTA TATA TT
1 TTA TTA TTA T-TA TT
21541274 TGGAGGATCC
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21545139 original size:35 final size:34
Alignment explanation
Indices: 21545091--21545168 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 34
21545081 AACGAAAAAT
*
21545091 GTTAATGGA-TGATTGATTTGTCACTTTTCGATAAC
1 GTTAAT-GACTGA-TGATTTGTCACTTTTCAATAAC
21545126 GTTAATGAC---TGATTTGTCACTTTTCAATAAC
1 GTTAATGACTGATGATTTGTCACTTTTCAATAAC
* *
21545157 GCTAGTGACTGA
1 GTTAATGACTGA
21545169 GTTGTTACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
31 28 0.78
34 2 0.06
35 6 0.17
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (34 bp):
GTTAATGACTGATGATTTGTCACTTTTCAATAAC
Found at i:21545142 original size:31 final size:31
Alignment explanation
Indices: 21545099--21545180 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
21545089 ATGTTAATGG
* * *
21545099 ATGATTGATTTGTCACTTTTCGATAACGTTA
1 ATGACTGATTTGTCACTTTTCAATAACGCTA
21545130 ATGACTGATTTGTCACTTTTCAATAACGCTA
1 ATGACTGATTTGTCACTTTTCAATAACGCTA
* * *
21545161 GTGACTGAGTTGTTACTTTT
1 ATGACTGATTTGTCACTTTT
21545181 TTTAAAGTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (31 bp):
ATGACTGATTTGTCACTTTTCAATAACGCTA
Found at i:21548805 original size:25 final size:25
Alignment explanation
Indices: 21548777--21548834 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
21548767 ATATGTAAAC
*
21548777 AATTTAATATTATA-ATTAAAAATAT
1 AATTTAATAATATATATT-AAAATAT
* *
21548802 AATTTAGTAATATATATTATAATAT
1 AATTTAATAATATATATTAAAATAT
21548827 -ATTTAATA
1 AATTTAATA
21548835 GTACAATAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 7 0.25
25 18 0.64
26 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
AATTTAATAATATATATTAAAATAT
Found at i:21558505 original size:16 final size:16
Alignment explanation
Indices: 21558475--21558516 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
21558465 TTATTTATTA
21558475 AATTAA-TTT-TAATT
1 AATTAATTTTCTAATT
21558489 AATTAATTTTCTAATT
1 AATTAATTTTCTAATT
*
21558505 AAATAATTTTCT
1 AATTAATTTTCT
21558517 CAACTCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.24
15 3 0.12
16 16 0.64
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTAATTTTCTAATT
Found at i:21568803 original size:18 final size:18
Alignment explanation
Indices: 21568780--21568902 Score: 183
Period size: 18 Copynumber: 6.8 Consensus size: 18
21568770 CGTTTACAGT
21568780 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
* * *
21568798 ACTATTTATGTATACGGT
1 ACTATTCACGTATACGGC
21568816 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
* *
21568834 ACTATTCACGTATATGGT
1 ACTATTCACGTATACGGC
*
21568852 ACTATTCACATATACGGC
1 ACTATTCACGTATACGGC
*
21568870 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
21568888 ACTATTCACGTATAC
1 ACTATTCACGTATAC
21568903 AGTAGTTGGG
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 92 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:21568825 original size:36 final size:36
Alignment explanation
Indices: 21568778--21568902 Score: 214
Period size: 36 Copynumber: 3.5 Consensus size: 36
21568768 ACCGTTTACA
* *
21568778 GTACTATTCACGTATACGGCACTATTTATGTATACG
1 GTACTATTCACGTATACGGCACTATTCACGTATACG
*
21568814 GTACTATTCACGTATACGGCACTATTCACGTATATG
1 GTACTATTCACGTATACGGCACTATTCACGTATACG
*
21568850 GTACTATTCACATATACGGCACTATTCACGTATACG
1 GTACTATTCACGTATACGGCACTATTCACGTATACG
21568886 GTACTATTCACGTATAC
1 GTACTATTCACGTATAC
21568903 AGTAGTTGGG
Statistics
Matches: 83, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 83 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (36 bp):
GTACTATTCACGTATACGGCACTATTCACGTATACG
Found at i:21574432 original size:29 final size:30
Alignment explanation
Indices: 21574400--21574458 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21574390 TAAAATAATT
21574400 ATTTAATATT-ATC-ACTTAATTAAATTAAA
1 ATTTAATATTGATCTA-TTAATTAAATTAAA
* *
21574429 ATTTATTATTGATCTATTAATTAATTTAAA
1 ATTTAATATTGATCTATTAATTAAATTAAA
21574459 TTAATGTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 9 0.35
30 16 0.62
31 1 0.04
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (30 bp):
ATTTAATATTGATCTATTAATTAAATTAAA
Found at i:21575453 original size:47 final size:46
Alignment explanation
Indices: 21575322--21575461 Score: 163
Period size: 47 Copynumber: 2.9 Consensus size: 46
21575312 TAAATTCTGA
*
21575322 TCCCCTTGACATTTTACAGAACAAAAACTCATCACCACGTCAAGTAATC
1 TCCCCTTGACATTTTAC--AAC-AAAACTCATCACCACGTCAAGTAAAC
* * * *
21575371 TCCCTTTGACATTTTGCAACACAAAATGATCACCACGTCAAGTAAAC
1 TCCCCTTGACATTTTACAACA-AAACTCATCACCACGTCAAGTAAAC
* * *
21575418 TCCCCTTGACATTTTACTACAAAACCTTATAACCACGTCAAGTA
1 TCCCCTTGACATTTTACAACAAAA-CTCATCACCACGTCAAGTA
21575462 GGAGTAAGCA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
46 4 0.05
47 59 0.76
49 15 0.19
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.26
Consensus pattern (46 bp):
TCCCCTTGACATTTTACAACAAAACTCATCACCACGTCAAGTAAAC
Found at i:21575871 original size:17 final size:18
Alignment explanation
Indices: 21575849--21575884 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21575839 TTATGAATTG
21575849 AAAAAG-AAAGAAAATAT
1 AAAAAGAAAAGAAAATAT
21575866 AAAAAGCAAAAGAAAATAT
1 AAAAAG-AAAAGAAAATAT
21575885 GGAACCATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
19 11 0.65
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.11
Consensus pattern (18 bp):
AAAAAGAAAAGAAAATAT
Found at i:21593047 original size:188 final size:188
Alignment explanation
Indices: 21592730--21593105 Score: 752
Period size: 188 Copynumber: 2.0 Consensus size: 188
21592720 TAAAAGATAG
21592730 CATCTCTTGCTACTCTAGCAAGGTCCCAATCAGTAATCGTTCCCTGATTATACCTTGCCATCTTT
1 CATCTCTTGCTACTCTAGCAAGGTCCCAATCAGTAATCGTTCCCTGATTATACCTTGCCATCTTT
21592795 ACAGCTGGACGAATACGAGCTTTCAAACATAGTATTGTTATCATAGAAGGAAAATAAGCTGGACC
66 ACAGCTGGACGAATACGAGCTTTCAAACATAGTATTGTTATCATAGAAGGAAAATAAGCTGGACC
21592860 AGAATGTCTTGTAGCATAGCCTCAAATTTCTTTCAGAATGGTTTTTCTTAGGTTAATA
131 AGAATGTCTTGTAGCATAGCCTCAAATTTCTTTCAGAATGGTTTTTCTTAGGTTAATA
21592918 CATCTCTTGCTACTCTAGCAAGGTCCCAATCAGTAATCGTTCCCTGATTATACCTTGCCATCTTT
1 CATCTCTTGCTACTCTAGCAAGGTCCCAATCAGTAATCGTTCCCTGATTATACCTTGCCATCTTT
21592983 ACAGCTGGACGAATACGAGCTTTCAAACATAGTATTGTTATCATAGAAGGAAAATAAGCTGGACC
66 ACAGCTGGACGAATACGAGCTTTCAAACATAGTATTGTTATCATAGAAGGAAAATAAGCTGGACC
21593048 AGAATGTCTTGTAGCATAGCCTCAAATTTCTTTCAGAATGGTTTTTCTTAGGTTAATA
131 AGAATGTCTTGTAGCATAGCCTCAAATTTCTTTCAGAATGGTTTTTCTTAGGTTAATA
21593106 GTCTTTGTTT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
188 188 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (188 bp):
CATCTCTTGCTACTCTAGCAAGGTCCCAATCAGTAATCGTTCCCTGATTATACCTTGCCATCTTT
ACAGCTGGACGAATACGAGCTTTCAAACATAGTATTGTTATCATAGAAGGAAAATAAGCTGGACC
AGAATGTCTTGTAGCATAGCCTCAAATTTCTTTCAGAATGGTTTTTCTTAGGTTAATA
Found at i:21598470 original size:26 final size:26
Alignment explanation
Indices: 21598441--21598548 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21598431 TGATACAAAT
21598441 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* **
21598467 TGATAATGGATTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTCCA
21598493 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21598519 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21598545 TGAT
1 TGAT
21598549 TGGAATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21600063 original size:26 final size:26
Alignment explanation
Indices: 21600034--21600086 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
21600024 TTTACAGTTT
*
21600034 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCATAGG-GATAAATTGACCGAAA
* *
21600060 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCGAAA
21600086 T
1 T
21600087 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCGAAA
Found at i:21603431 original size:49 final size:49
Alignment explanation
Indices: 21603369--21603501 Score: 189
Period size: 49 Copynumber: 2.7 Consensus size: 49
21603359 CTTGTTGAGT
* *
21603369 GTCAGTGTAAGACCTGTTTAGGACATGGCATCGACAC-CGATAGATGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAA
* *
21603418 G-CTAGTGTAAGACCTGTGTGGGACATGGCATCGACCTCGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
*
21603467 GTCAGTGTAAGACCTGTCTGGGACACGGCATCGAC
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
21603502 TTTAATGTAC
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
48 2 0.03
49 73 0.96
50 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAA
Found at i:21614882 original size:298 final size:298
Alignment explanation
Indices: 21614346--21614944 Score: 1072
Period size: 298 Copynumber: 2.0 Consensus size: 298
21614336 GGATCAAGGT
*
21614346 TTAGAAATTTTATAGCCTAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTCCCA
1 TTAGAAATTTTATAGCCCAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTCCCA
* * *
21614411 TAAACAATTTTGTAAGGTGATGTTCCTATGAGGGTCTTAAAAGTAGTTCTATAAGTTCATAAAGC
66 TAAACAAGTTTGTAAGGTGATCTTCCTATGAGGGTCTTAAAAGTAGTTCTATAAGTCCATAAAGC
* *
21614476 ATCATCTACTTTCATCGCCCAATCCTTCTATTCGATTCTACTGTCTTTTTTAGGATACGTTTAAG
131 ATCATCTACTTTCATCCCCCAATCCTTCTATTCGATTCTACTGTCTTTTCTAGGATACGTTTAAG
*
21614541 CTCTTTGTCTGCCACTTCGACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTATGGT
196 CTCTTTGTCTGCCACTTCAACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTATGGT
*
21614606 GAATTCCATATTTCTTAAGGATCTTGTCAAATTGGGCG
261 GAATTACATATTTCTTAAGGATCTTGTCAAATTGGGCG
*
21614644 TTAGAAATTTTATAGCCCAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTTCCA
1 TTAGAAATTTTATAGCCCAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTCCCA
*
21614709 TAAACAAGTTTGTAAGGTGATCTTCCTATGGGGGTCTTAAAAGTAGTTCTATAAGTCCATAAAGC
66 TAAACAAGTTTGTAAGGTGATCTTCCTATGAGGGTCTTAAAAGTAGTTCTATAAGTCCATAAAGC
* *
21614774 ATCATCTACTTTCATCCCCCAATCCTTCTGTTCGATTTTACTGTCTTTTCTAGGATACGTTTAAG
131 ATCATCTACTTTCATCCCCCAATCCTTCTATTCGATTCTACTGTCTTTTCTAGGATACGTTTAAG
* *
21614839 CTCTTTGTTTGCCACTTCAACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTGTGGT
196 CTCTTTGTCTGCCACTTCAACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTATGGT
21614904 GAATTACATATTTCTTAAGGATCTTGTCAAATTGGGCG
261 GAATTACATATTTCTTAAGGATCTTGTCAAATTGGGCG
21614942 TTA
1 TTA
21614945 CAAAAATGAG
Statistics
Matches: 287, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
298 287 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (298 bp):
TTAGAAATTTTATAGCCCAGAATGCCTTGTGTTCTAACTCAAATGGTAGATGACAACTTTTCCCA
TAAACAAGTTTGTAAGGTGATCTTCCTATGAGGGTCTTAAAAGTAGTTCTATAAGTCCATAAAGC
ATCATCTACTTTCATCCCCCAATCCTTCTATTCGATTCTACTGTCTTTTCTAGGATACGTTTAAG
CTCTTTGTCTGCCACTTCAACTTGGCCACTAGTTTGAGGATGGTAAGGGGTAGCTGTTCTATGGT
GAATTACATATTTCTTAAGGATCTTGTCAAATTGGGCG
Found at i:21624833 original size:3 final size:3
Alignment explanation
Indices: 21624825--21624851 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21624815 TGGGTTAAGG
21624825 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
21624852 ATTAGAGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21626201 original size:19 final size:20
Alignment explanation
Indices: 21626172--21626219 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
21626162 TGAAAGATTA
*
21626172 AAAATAAATTTAATTCAAAT
1 AAAATAAATTTAAGTCAAAT
21626192 AAAA-AAATTTAAGTCAAAT
1 AAAATAAATTTAAGTCAAAT
*
21626211 TAAATAAAT
1 AAAATAAAT
21626220 GTGTAAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAATAAATTTAAGTCAAAT
Found at i:21631132 original size:21 final size:21
Alignment explanation
Indices: 21631108--21631156 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
21631098 GTCCCTTCTC
21631108 AATTATTTTGGCTATTT-TATT
1 AATTATTTTGGCT-TTTATATT
* *
21631129 AATTAATTTGGGTTTTATATT
1 AATTATTTTGGCTTTTATATT
*
21631150 TATTATT
1 AATTATT
21631157 ATTACATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (21 bp):
AATTATTTTGGCTTTTATATT
Found at i:21631157 original size:3 final size:3
Alignment explanation
Indices: 21631149--21631408 Score: 176
Period size: 3 Copynumber: 86.0 Consensus size: 3
21631139 GGTTTTATAT
* * * * *
21631149 TTA TTA TTA TTA -CA TTTA TTA TGA TTA TTTA GTA TTA TTA CTA TTG
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** * * *
21631195 TTA TTA CTA TTA CCA TTA TTA TTTA TTGA -CA TTG TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA TTA
* *
21631241 TTA TTA TTT TTA TCT- TT- TTA TT- TTA CTA TTA TTTA TGT- TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA
* * * * * **
21631285 TTG TTA TTA TTA TTA TTA CTA TCA TTA TTA TTT TTA CTA TTA CAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
21631333 TTT TCTA TAA TTA TTA TT- TTCA TCT- TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA TTA TTA TTA
21631379 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21631409 CTATCCTTAT
Statistics
Matches: 196, Mismatches: 44, Indels: 34
0.72 0.16 0.12
Matches are distributed among these distances:
2 11 0.06
3 168 0.86
4 16 0.08
5 1 0.01
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:21631733 original size:17 final size:17
Alignment explanation
Indices: 21631711--21631743 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21631701 CAAGTACGAC
21631711 CAATTTTACG-TTTTAAT
1 CAATTTT-CGATTTTAAT
21631728 CAATTTTCGATTTTAA
1 CAATTTTCGATTTTAA
21631744 ATGTTACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.30, C:0.12, G:0.06, T:0.52
Consensus pattern (17 bp):
CAATTTTCGATTTTAAT
Found at i:21643429 original size:130 final size:130
Alignment explanation
Indices: 21643195--21643800 Score: 714
Period size: 130 Copynumber: 4.6 Consensus size: 130
21643185 AAGTTTCAAT
* * * *
21643195 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGCTGAAAATTGCAGATCTTATCTCTCTAAGTAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * *
21643260 AGTGGAGCAGATCAAAGA-TGATTAATCATATCTCTATGTAGTG-CAATGGAGCGGATTTAAGCC
66 AGTGGAGTAGATCGAAGACAGA--AATCTTATCTCCATGTAGTGACAATGGAGCGGATTTAAGCC
21643323 AC
129 AC
* * *
21643325 TAGCCTTATCTCACTAAGCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
** * * ** *
21643390 AGTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGTGGTAATAGAGCGGATTTAAGCCA
66 AGTGGAGTAGATCGAAGACAG-AAATCTTATCTCCATGTAGTGACAATGGAGCGGATTTAAGCCA
21643455 C
130 C
* * *
21643456 TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGTTGAAGATTGCAGA-CTTATCTCCCTAAGCAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* ** * * * * *
21643520 AGTGGAGTAGATCGAAGACGGGGAGCTTATCTCCATGTAGCGAAAATGGAGCAGATTCAAGCCAC
66 AGTGGAGTAGATCGAAGACAGAAATCTTATCTCCATGTAGTGACAATGGAGCGGATTTAAGCCAC
* * * * * *
21643585 TAGCCTTATCCCCTTAACCAGTAGGGAACGGGTTGAAAATTATAGATCTTATCTCCCTAATCTGT
1 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
* * * * **
21643650 AGTGTAGTAGATCGAGGACAGTGAATCTTATCTCCATGTAGTGTCAATGGAATGGATTTAAGCCA
66 AGTGGAGTAGATCGAAGACAG-AAATCTTATCTCCATGTAGTGACAATGGAGCGGATTTAAGCCA
21643715 C
130 C
* * * * *
21643716 TAGCCTTATCCCCCTAGGTAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTTCCTAAGTAG
1 TAGCCTTATCCCCCTAAGCAGTAGGG-AACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAG
*
21643781 TAGTAGAGTAGATCGAAGAC
65 TAGTGGAGTAGATCGAAGAC
21643801 GGTGAGTCTT
Statistics
Matches: 400, Mismatches: 70, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
129 73 0.18
130 160 0.40
131 118 0.29
132 49 0.12
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (130 bp):
TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGTAGATCGAAGACAGAAATCTTATCTCCATGTAGTGACAATGGAGCGGATTTAAGCCAC
Found at i:21643664 original size:260 final size:260
Alignment explanation
Indices: 21643195--21643816 Score: 818
Period size: 260 Copynumber: 2.4 Consensus size: 260
21643185 AAGTTTCAAT
* *
21643195 TAGCCTTATCCCCCTAAGCAGTAGGGAACAGGCTGAAAATTGCAGATCTTATCTCTCTAAGTAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGCTGAAAATTGCAGATCTTATCTCCCTAAGTAGT
* * * * * * * * * * * *
21643260 AGTGGAGCAGATCAAAGATGATTAATCATATCTCTATGTAGTGCAATGGAGCGGATTTAAGCCAC
66 AGTGGAGTAGATCGAAGACG-GTGAGCTTATCTCCATGTAGCGAAATGGAGCAGATTCAAGCCAC
*
21643325 TAGCCTTATCTCACTAAGCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGT
130 TAGCCTTATCTCACTAACCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGT
*
21643390 AGTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGTGGT-AATAGAGCGGATTTAAGCC
195 AGTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGT-GTCAATAGAACGGATTTAAGCC
21643454 AC
259 AC
* * *
21643456 TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGTTGAAGATTGCAGA-CTTATCTCCCTAAGCAGT
1 TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGCTGAAAATTGCAGATCTTATCTCCCTAAGTAGT
*
21643520 AGTGGAGTAGATCGAAGACGGGGAGCTTATCTCCATGTAGCGAAAATGGAGCAGATTCAAGCCAC
66 AGTGGAGTAGATCGAAGACGGTGAGCTTATCTCCATGTAGCG-AAATGGAGCAGATTCAAGCCAC
* * * *
21643585 TAGCCTTATC-CCCTTAACCAGTAGGGAACGGGTTGAAAATTATAGATCTTATCTCCCTAATCTG
130 TAGCCTTATCTCAC-TAACCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAG
* ** * ** * * * *
21643649 TAGTGTAGTAGATCGAGGACAGTGAATCTTATCTCCATGTAGTGTCAATGGAATGGATTTAAGCC
194 TAGTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGTGTCAATAGAACGGATTTAAGCC
21643714 AC
259 AC
* * * *
21643716 TAGCCTTATCCCCCTAGGTAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTTCCTAAGTAG
1 TAGCCTTATCCCCCTAAGCAGTA-GGAAACAGGCTGAAAATTGCAGATCTTATCTCCCTAAGTAG
*
21643781 TAGTAGAGTAGATCGAAGACGGTGAGTCTTATCTCC
65 TAGTGGAGTAGATCGAAGACGGTGAG-CTTATCTCC
21643817 TTAAGCAGTA
Statistics
Matches: 312, Mismatches: 43, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
259 19 0.06
260 182 0.58
261 63 0.20
262 39 0.12
263 9 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (260 bp):
TAGCCTTATCCCCCTAAGCAGTAGGAAACAGGCTGAAAATTGCAGATCTTATCTCCCTAAGTAGT
AGTGGAGTAGATCGAAGACGGTGAGCTTATCTCCATGTAGCGAAATGGAGCAGATTCAAGCCACT
AGCCTTATCTCACTAACCAGTAGGGAACAGGTTGAAAATTATAGATCTTATCTCCCTAAGCAGTA
GTGGAACAGATCGAAGACAGCAAACCTTATCCCCATGTAGTGTCAATAGAACGGATTTAAGCCAC
Found at i:21643812 original size:88 final size:88
Alignment explanation
Indices: 21643720--21644135 Score: 431
Period size: 88 Copynumber: 4.7 Consensus size: 88
21643710 AGCCACTAGC
* * * * * *
21643720 CTTATCCCCCTAGGTAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTTCCTAAGTAGTAGT
1 CTTATCTCCCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
*
21643785 AGAGTAGATCGAAGACGGTGAGT
66 GGAGTAGATCGAAGACGGTGAGT
* * * * *
21643808 CTTATCTCCTTAAGCAGTAGGGAAACAGGTTGAAAGTTACAGATCTTATCTCCTTAAGCAGTAGT
1 CTTATCTCCCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
* *
21643873 GGAGCAAATCGAAGACGGTGAGT
66 GGAGTAGATCGAAGACGGTGAGT
* * *
21643896 CTTATCTCCCTAAGCAGTAGAGAAGCAGGCTGAAAATTACATATCTTATCTCCCTAAACAGTAGT
1 CTTATCTCCCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
* * *
21643961 GGAGTAGATCGCAGACGGTAAGC
66 GGAGTAGATCGAAGACGGTGAGT
* * **
21643984 CCTATCTCCCTAAGCAGTAGTAGAGTA-A-GCTGAAAATTGTAGATCTTATCTCCCTAAGCAGTA
1 CTTATCTCCCTAAGCAGTAG-AGA-AACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTA
* * * * * *
21644047 GTGAAGCAGATCGAGGACAGTAAGC
64 GTGGAGTAGATCGAAGACGGTGAGT
* * * * * * * * * * *
21644072 CTTATCTTCCTGAGCAGCAGTGGAGCAGGCTGAAGATTACAAATCATATCCCCCTAAACAGTAG
1 CTTATCTCCCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAG
21644136 CAAAGCAAAT
Statistics
Matches: 272, Mismatches: 52, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
87 2 0.01
88 266 0.98
89 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (88 bp):
CTTATCTCCCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
GGAGTAGATCGAAGACGGTGAGT
Found at i:21643855 original size:44 final size:44
Alignment explanation
Indices: 21643720--21643959 Score: 141
Period size: 44 Copynumber: 5.5 Consensus size: 44
21643710 AGCCACTAGC
* * * * * *
21643720 CTTATCCCCCTAGGTAGTAGGGAAACAGGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGAAGCAGGTTGAAAGTTACAGAT
* * * * * * * *
21643764 CTTATCTTCCTAAGTAGTA-GTAGAGTAGATCGAAGACGGT-GAG-T
1 CTTATCTCCCTAAGCAGTAGGGA-AGCAGGTTGAA-A-GTTACAGAT
* *
21643808 CTTATCTCCTTAAGCAGTAGGGAAACAGGTTGAAAGTTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGAAGCAGGTTGAAAGTTACAGAT
* ** * * *
21643852 CTTATCTCCTTAAGCAGTAGTGG-AGCAAATCGAAGACGGT-GAG-T
1 CTTATCTCCCTAAGCAGTAG-GGAAGCAGGTTGAA-A-GTTACAGAT
* * * *
21643896 CTTATCTCCCTAAGCAGTAGAGAAGCAGGCTGAAAATTACATAT
1 CTTATCTCCCTAAGCAGTAGGGAAGCAGGTTGAAAGTTACAGAT
*
21643940 CTTATCTCCCTAAACAGTAG
1 CTTATCTCCCTAAGCAGTAG
21643960 TGGAGTAGAT
Statistics
Matches: 145, Mismatches: 39, Indels: 24
0.70 0.19 0.12
Matches are distributed among these distances:
42 3 0.02
43 8 0.06
44 121 0.83
45 10 0.07
46 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGGGAAGCAGGTTGAAAGTTACAGAT
Found at i:21644076 original size:44 final size:43
Alignment explanation
Indices: 21643763--21644099 Score: 161
Period size: 44 Copynumber: 7.7 Consensus size: 43
21643753 AAATTACAGA
* * * * *
21643763 TCTTATCTTCCTAAGTAGTAGT-AGAGTAGATCGAAGACGGTGAG
1 TCTTATCTCCCTAAGCAGTAGTGA-AGCAGATCG-AGACAGTAAG
* * * * *
21643807 TCTTATCTCCTTAAGCAGTAGGGAAACAGGTTGA-A-AGTTACAG
1 TCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAGACAG-TA-AG
* * * * *
21643850 ATCTTATCTCCTTAAGCAGTAGTGGAGCAAATCGAAGACGGTGAG
1 -TCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG-AGACAGTAAG
* * * * *
21643895 TCTTATCTCCCTAAGCAGTAGAGAAGCAG-GCTGA-AAATTACATA
1 TCTTATCTCCCTAAGCAGTAGTGAAGCAGATC-GAGACAGTA-A-G
* * * *
21643939 TCTTATCTCCCTAAACAGTAGTGGAGTAGATCGCAGACGGTAAG
1 TCTTATCTCCCTAAGCAGTAGTGAAGCAGATCG-AGACAGTAAG
* * * * *
21643983 CCCTATCTCCCTAAGCAGTAGT-AGAGTA-AGCTGA-AAATTGT-AG
1 TCTTATCTCCCTAAGCAGTAGTGA-AGCAGATC-GAGACA--GTAAG
21644026 ATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAGGACAGTAAG
1 -TCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGA-GACAGTAAG
* * * * *
21644071 CCTTATCTTCCTGAGCAGCAGTGGAGCAG
1 TCTTATCTCCCTAAGCAGTAGTGAAGCAG
21644100 GCTGAAGATT
Statistics
Matches: 216, Mismatches: 54, Indels: 46
0.68 0.17 0.15
Matches are distributed among these distances:
41 1 0.00
42 5 0.02
43 11 0.05
44 179 0.83
45 12 0.06
46 7 0.03
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAGACAGTAAG
Found at i:21645439 original size:3 final size:3
Alignment explanation
Indices: 21645431--21645710 Score: 119
Period size: 3 Copynumber: 93.7 Consensus size: 3
21645421 GGTTTTATAT
* * * * *
21645431 TTA TTA TTA TTA -CA TTTA TTA TGA TTA TTTA GTA TTA TTA CTA TTG
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* ** * * *
21645477 TTA TTA CTA TTA CCA TTA TTA TTTA TTGA -CA TTG TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA TTA TTA TTA TTA
* * *
21645523 TTA TTA TTT TTA TCT- TT- TTA TT- TTA CTA TTA TTTA TGT- TCA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA
* * * * * * **
21645567 TTG TTA CTA TTA TTA TTA CTA TCA TTA TTA TTT TTA CTA TTA CAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * * * *
21645615 TTT TCTA TAA TTA TTA TTT TTA -TC TTA TCA TCA TCA TCA TCA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
21645660 TTA TTA TTA TTA TTA TTA TT- TCA TTA -TA GTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21645706 TTA TT
1 TTA TT
21645711 TTTGCGATCC
Statistics
Matches: 202, Mismatches: 59, Indels: 32
0.69 0.20 0.11
Matches are distributed among these distances:
2 11 0.05
3 176 0.87
4 15 0.07
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:21647594 original size:15 final size:17
Alignment explanation
Indices: 21647566--21647600 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21647556 AAAATAGTAG
21647566 ATAAAATAATATTTGAA
1 ATAAAATAATATTTGAA
21647583 ATAAAATAAT-TTT-AA
1 ATAAAATAATATTTGAA
21647598 ATA
1 ATA
21647601 TAGTTTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 3 0.17
17 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
ATAAAATAATATTTGAA
Found at i:21649558 original size:13 final size:13
Alignment explanation
Indices: 21649542--21649602 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
21649532 TAATAGTATG
21649542 TATTAATAAAATA
1 TATTAATAAAATA
*
21649555 TATT-ATAAATTCA
1 TATTAATAAAAT-A
21649568 TA-TAATAAAATA
1 TATTAATAAAATA
*
21649580 TATT-ATAAATTA
1 TATTAATAAAATA
21649592 -ATATAATAAAA
1 TAT-TAATAAAA
21649603 ATTATGTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
11 2 0.05
12 18 0.46
13 19 0.49
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (13 bp):
TATTAATAAAATA
Found at i:21649578 original size:25 final size:25
Alignment explanation
Indices: 21649545--21649602 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
21649535 TAGTATGTAT
*
21649545 TAATAAAATATATTATAAATTCATA
1 TAATAAAATATATTATAAATTAATA
21649570 TAATAAAATATATTATAAATTAATA
1 TAATAAAATATATTATAAATTAATA
21649595 TAATAAAA
1 TAATAAAA
21649603 ATTATGTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
TAATAAAATATATTATAAATTAATA
Found at i:21649594 original size:15 final size:15
Alignment explanation
Indices: 21649551--21649606 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 15
21649541 GTATTAATAA
21649551 AATATATTATAAATT
1 AATATATTATAAATT
*
21649566 CATATA--AT-AA--
1 AATATATTATAAATT
21649576 AATATATTATAAATT
1 AATATATTATAAATT
* *
21649591 AATATAATAAAAATT
1 AATATATTATAAATT
21649606 A
1 A
21649607 TGTTTTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
10 5 0.16
12 4 0.12
13 4 0.12
15 19 0.59
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATATTATAAATT
Found at i:21654832 original size:18 final size:19
Alignment explanation
Indices: 21654796--21654833 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
21654786 AAAAATTACA
*
21654796 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATACTTAT
*
21654815 AAAAATTCTAAA-ACTTAT
1 AAAAATTCAAAATACTTAT
21654833 A
1 A
21654834 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATTCAAAATACTTAT
Found at i:21654915 original size:18 final size:20
Alignment explanation
Indices: 21654859--21654916 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 20
21654849 TATAATTTTT
*
21654859 TAAAAAAATTCTAAAAAATATG
1 TAAAGAAATTCT--AAAATATG
*
21654881 TAAAGAAATTTTAAAATAT-
1 TAAAGAAATTCTAAAATATG
*
21654900 TAAA-ATATTCTAAAATA
1 TAAAGAAATTCTAAAATA
21654917 ATAATTTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 11 0.34
19 4 0.12
20 7 0.22
22 10 0.31
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAAGAAATTCTAAAATATG
Found at i:21656724 original size:12 final size:13
Alignment explanation
Indices: 21656698--21656726 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21656688 ACCATAACAA
21656698 ATATATTTGTTAT
1 ATATATTTGTTAT
21656711 ATATATTT-TTAT
1 ATATATTTGTTAT
21656723 ATAT
1 ATAT
21656727 TTGTGTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (13 bp):
ATATATTTGTTAT
Found at i:21658933 original size:25 final size:24
Alignment explanation
Indices: 21658879--21658933 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
21658869 TTGAAAATTA
*
21658879 AAAGAAGAAAAACAAAAATGTAAC
1 AAAGAAAAAAAACAAAAATGTAAC
** * *
21658903 TTAGAAAAAAAATAAAGAATGTAAG
1 AAAGAAAAAAAACAAA-AATGTAAC
21658928 AAAGAA
1 AAAGAA
21658934 TTGTTTCAGA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.69, C:0.04, G:0.15, T:0.13
Consensus pattern (24 bp):
AAAGAAAAAAAACAAAAATGTAAC
Found at i:21667257 original size:11 final size:11
Alignment explanation
Indices: 21667243--21667282 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
21667233 GTTTTCTCCC
21667243 TATTTTGCTAT
1 TATTTTGCTAT
*
21667254 TATTTTACTAT
1 TATTTTGCTAT
* *
21667265 TATGTTGCTAC
1 TATTTTGCTAT
21667276 TATTTTG
1 TATTTTG
21667283 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:21667380 original size:30 final size:29
Alignment explanation
Indices: 21667319--21667380 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
21667309 ACTTATTTTA
* **
21667319 TTGTTATTTTTTTATTATTTTAAAGGTAT
1 TTGTTATTTTGTTATTATTTTAAAGACAT
21667348 TTGTTAATTTTGTTATTATTTTAGAA-ACAT
1 TTGTT-ATTTTGTTATTATTTTA-AAGACAT
21667378 TTG
1 TTG
21667381 CTTGTTAAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.18
30 21 0.75
31 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (29 bp):
TTGTTATTTTGTTATTATTTTAAAGACAT
Found at i:21667958 original size:17 final size:17
Alignment explanation
Indices: 21667938--21667970 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21667928 AACAAAATTA
21667938 AGAAAAACAAAAAAAAT
1 AGAAAAACAAAAAAAAT
*
21667955 AGAAATACAAAAAAAA
1 AGAAAAACAAAAAAAA
21667971 AATTGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
AGAAAAACAAAAAAAAT
Found at i:21680163 original size:30 final size:31
Alignment explanation
Indices: 21680124--21680183 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
21680114 GGAGGTGGGA
*
21680124 TGGGAAGGGAGTAAAAGTTTTAGG-GGGAAAG
1 TGGGAAGGGAGTAAAAATTTT-GGAGGGAAAG
21680155 TGGG-AGGGAGTAAAAATTTTGGAGGGAAA
1 TGGGAAGGGAGTAAAAATTTTGGAGGGAAA
21680184 ATATTAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 2 0.07
30 21 0.78
31 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAGTAAAAATTTTGGAGGGAAAG
Found at i:21680246 original size:109 final size:110
Alignment explanation
Indices: 21680057--21680286 Score: 444
Period size: 109 Copynumber: 2.1 Consensus size: 110
21680047 AAATGGGGGT
21680057 AAAATTTTGGAGGGAAAATATTAAAAAAATTGGGGGGTGATGGGTTTGGGGTAGATGGGAGGTGG
1 AAAATTTTGGAGGGAAAATATTAAAAAAATTGGGGGGTGATGGGTTTGGGGTAGATGGGAGGTGG
21680122 GATGGGAAGGGAGTAAAAGTTTTAGGGGGAAAGTGGGAGGGAGTA
66 GATGGGAAGGGAGTAAAAGTTTTAGGGGGAAAGTGGGAGGGAGTA
21680167 AAAATTTTGGAGGGAAAATATTAAAAAAATT-GGGGGTGATGGGTTTGGGGTAGATGGGAGGTGG
1 AAAATTTTGGAGGGAAAATATTAAAAAAATTGGGGGGTGATGGGTTTGGGGTAGATGGGAGGTGG
21680231 GATGGGAAGGGAGTAAAAGTTTTAGGGGGAAAGTGGGAGGGAGTA
66 GATGGGAAGGGAGTAAAAGTTTTAGGGGGAAAGTGGGAGGGAGTA
*
21680276 AAAGTTTTGGA
1 AAAATTTTGGA
21680287 TAAAAATAAA
Statistics
Matches: 119, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
109 88 0.74
110 31 0.26
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.23
Consensus pattern (110 bp):
AAAATTTTGGAGGGAAAATATTAAAAAAATTGGGGGGTGATGGGTTTGGGGTAGATGGGAGGTGG
GATGGGAAGGGAGTAAAAGTTTTAGGGGGAAAGTGGGAGGGAGTA
Found at i:21680447 original size:30 final size:31
Alignment explanation
Indices: 21680396--21680457 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
21680386 GGGGTTGGGA
* * *
21680396 TGGGAAGGGAGTAAAAGTTTTGGGGGAAAAG
1 TGGGAAGGGAGTAAAAATTTTGAGAGAAAAG
*
21680427 TGGGAA-GGTGTAAAAATTTTGAGAGAAAAG
1 TGGGAAGGGAGTAAAAATTTTGAGAGAAAAG
21680457 T
1 T
21680458 CAAAAGGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.39, C:0.00, G:0.39, T:0.23
Consensus pattern (31 bp):
TGGGAAGGGAGTAAAAATTTTGAGAGAAAAG
Found at i:21680981 original size:17 final size:17
Alignment explanation
Indices: 21680955--21680993 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
21680945 CTAGACTTTG
21680955 TTTTTAATAATTCTAATA
1 TTTTTAATAATTCTAA-A
*
21680973 TTTTT-ATAATTTTAAA
1 TTTTTAATAATTCTAAA
21680989 TTTTT
1 TTTTT
21680994 TTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 6 0.30
17 9 0.45
18 5 0.25
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTTAATAATTCTAAA
Found at i:21680994 original size:17 final size:17
Alignment explanation
Indices: 21680955--21681014 Score: 50
Period size: 19 Copynumber: 3.4 Consensus size: 17
21680945 CTAGACTTTG
* *
21680955 TTTTTAATAATTCT-AA
1 TTTTTTATAATTTTAAA
21680971 TATTTTTATAATTTTAAA
1 T-TTTTTATAATTTTAAA
*
21680989 TTTTTTTTATATTTTTATAA
1 --TTTTTTATAATTTTA-AA
21681009 TTTTTT
1 TTTTTT
21681015 TAAAAAACCA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 8 0.22
19 13 0.36
20 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTATAATTTTAAA
Found at i:21680995 original size:19 final size:20
Alignment explanation
Indices: 21680973--21681015 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
21680963 AATTCTAATA
21680973 TTTTTATAATTTTA-AATTT
1 TTTTTATAATTTTATAATTT
*
21680992 TTTTTATATTTTTATAATTT
1 TTTTTATAATTTTATAATTT
21681012 TTTT
1 TTTT
21681016 AAAAAACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATAATTTTATAATTT
Found at i:21681016 original size:19 final size:19
Alignment explanation
Indices: 21680968--21681016 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
21680958 TTAATAATTC
*
21680968 TAATATTTTTATAATTTTA
1 TAATTTTTTTATAATTTTA
*
21680987 -AATTTTTTTTATATTTTTA
1 TAA-TTTTTTTATAATTTTA
21681006 TAATTTTTTTA
1 TAATTTTTTTA
21681017 AAAAACCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 2 0.08
19 22 0.85
20 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TAATTTTTTTATAATTTTA
Found at i:21684692 original size:30 final size:30
Alignment explanation
Indices: 21684658--21684720 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21684648 ATTTATTTTA
*
21684658 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
*
21684688 TTGTTAATTTTTTTATTATTTTAAAAGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
21684718 TTG
1 TTG
21684721 CTTATTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.10, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAAGCAT
Found at i:21686539 original size:46 final size:44
Alignment explanation
Indices: 21686439--21686546 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
21686429 TGTCTTTGAC
** * * *
21686439 ATGGACTTACATGAATTATTCCTATCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
* *
21686483 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATA--TATAAT
21686529 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
21686547 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
Found at i:21695571 original size:18 final size:19
Alignment explanation
Indices: 21695534--21695571 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
21695524 AATTTCTGTT
21695534 AATAATAAAATACATCAAA
1 AATAATAAAATACATCAAA
* *
21695553 AATACTAAAA-ACATTAAA
1 AATAATAAAATACATCAAA
21695571 A
1 A
21695572 TAAATGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (19 bp):
AATAATAAAATACATCAAA
Found at i:21699150 original size:16 final size:15
Alignment explanation
Indices: 21699129--21699176 Score: 78
Period size: 16 Copynumber: 3.1 Consensus size: 15
21699119 GATGTGAATA
21699129 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
21699145 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
21699160 ATCAAAATATTAAAAT
1 AT-AAAATATTAAAAT
21699176 A
1 A
21699177 ATAATAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:21699152 original size:24 final size:24
Alignment explanation
Indices: 21699125--21699180 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
21699115 TAATGATGTG
*
21699125 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
*
21699149 AATATTAAAATATCAAAATATTAA
1 AATAATAAAATATCAAAATATTAA
21699173 AATAATAA
1 AATAATAA
21699181 TAATTAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 6 0.21
24 22 0.79
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:21699159 original size:8 final size:8
Alignment explanation
Indices: 21699125--21699176 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
21699115 TAATGATGTG
*
21699125 AATAATAA
1 AATATTAA
21699133 AATATATAA
1 AATAT-TAA
21699142 AATA-TAA
1 AATATTAA
21699149 AATATTAA
1 AATATTAA
*
21699157 AATATCAA
1 AATATTAA
21699165 AATATTAA
1 AATATTAA
21699173 AATA
1 AATA
21699177 ATAATAATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
7 7 0.18
8 25 0.64
9 7 0.18
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:21699200 original size:23 final size:21
Alignment explanation
Indices: 21699165--21699206 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
21699155 AAAATATCAA
*
21699165 AATATTAAAATAATAATAATT
1 AATATTAAAATAAAAATAATT
21699186 AATATTGACAAATAAAAATAA
1 AATATT-A-AAATAAAAATAA
21699207 AATAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AATATTAAAATAAAAATAATT
Found at i:21699392 original size:22 final size:24
Alignment explanation
Indices: 21699329--21699393 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
21699319 CGTGATAATA
*
21699329 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
21699354 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
21699377 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
21699394 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:21699444 original size:25 final size:24
Alignment explanation
Indices: 21699416--21699545 Score: 94
Period size: 23 Copynumber: 5.6 Consensus size: 24
21699406 AAAGAAATAT
*
21699416 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAATATT-AAG
* * *
21699441 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAATATTAAG
*
21699464 ATATATACGTAATATAGA-ATTTAA-
1 ATATATACATAATATA-ATA-TTAAG
* * *
21699488 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAATATTAAG
*
21699510 A-ATATATATAATATAATATTAAG
1 ATATATACATAATATAATATTAAG
*
21699533 AAATATA-ATAATA
1 ATATATACATAATA
21699546 ACAAAAAGGA
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.02
22 15 0.18
23 41 0.49
24 7 0.08
25 19 0.23
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (24 bp):
ATATATACATAATATAATATTAAG
Found at i:21699462 original size:30 final size:31
Alignment explanation
Indices: 21699406--21699465 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
21699396 TAACATGTAG
*
21699406 AAAGAAATATATATATAAATAATATAATATT
1 AAAGAAATATACATATAAATAATATAATATT
* *
21699437 AAAGATATATACATA-AAATAGTATAATAT
1 AAAGAAATATACATATAAATAATATAATAT
21699466 ATATACGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 13 0.50
31 13 0.50
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (31 bp):
AAAGAAATATACATATAAATAATATAATATT
Found at i:21700077 original size:30 final size:31
Alignment explanation
Indices: 21700005--21700181 Score: 197
Period size: 30 Copynumber: 5.9 Consensus size: 31
21699995 TGTAGGTACA
* *
21700005 AGTT-GTGGTGGAGCAA-GTGTGGTTAGTGG
1 AGTTGGTGGTGGAGAAAGGTGTGGCTAGTGG
* * ** *
21700034 AATAGGTAATGGAGCAA-GTGTGGCTAGTGG
1 AGTTGGTGGTGGAGAAAGGTGTGGCTAGTGG
* *
21700064 ATTTGGTGGTGGAG-AAGGTATGGCTAGTGG
1 AGTTGGTGGTGGAGAAAGGTGTGGCTAGTGG
* *
21700094 AGTTGGTGGT-GAAAAAGGAGTGGCTAGTGG
1 AGTTGGTGGTGGAGAAAGGTGTGGCTAGTGG
21700124 AGTTGGTGGTGGA-AAAGGTGTGGCTAGTGG
1 AGTTGGTGGTGGAGAAAGGTGTGGCTAGTGG
*
21700154 AGTTGGTGGTGGA-AAATGTGTGGCTAGT
1 AGTTGGTGGTGGAGAAAGGTGTGGCTAGT
21700182 TGAGAAAAGT
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
29 6 0.05
30 120 0.94
31 2 0.02
ACGTcount: A:0.23, C:0.04, G:0.46, T:0.28
Consensus pattern (31 bp):
AGTTGGTGGTGGAGAAAGGTGTGGCTAGTGG
Found at i:21712150 original size:27 final size:27
Alignment explanation
Indices: 21712117--21712171 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
21712107 CCAAGAAAAC
*
21712117 TAAGTATCTTTGCAATTATCTCCTATT
1 TAAGTATCTTTGCAACTATCTCCTATT
21712144 TAAGTATCTTTGCAACTATCTCCTATT
1 TAAGTATCTTTGCAACTATCTCCTATT
21712171 T
1 T
21712172 CCGTCATCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.07, T:0.47
Consensus pattern (27 bp):
TAAGTATCTTTGCAACTATCTCCTATT
Found at i:21715927 original size:15 final size:15
Alignment explanation
Indices: 21715909--21715938 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21715899 AATAATAACG
21715909 TTAAAAATATTAATA
1 TTAAAAATATTAATA
*
21715924 TTAACAATATTAATA
1 TTAAAAATATTAATA
21715939 AATACAATAG
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:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAAATATTAATA
Found at i:21716198 original size:3 final size:3
Alignment explanation
Indices: 21716180--21716279 Score: 66
Period size: 3 Copynumber: 33.3 Consensus size: 3
21716170 AAAAAAGGAA
* * * *
21716180 AAT AGT AAT GAT AAT AAT AAT AAT AAT AA- AGT AGAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* *
21716225 ACATT AAT AA- AA- AAT AAT AAT -CT AAT AAT AAT ATAC AAT -AT AAT
1 A-A-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
21716269 AAAT AAT AAT A
1 -AAT AAT AAT A
21716280 GAAAAGGAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
2 8 0.11
3 58 0.76
4 8 0.11
5 2 0.03
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:21718515 original size:41 final size:41
Alignment explanation
Indices: 21718458--21718540 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
21718448 CAAAAGAGTG
* *
21718458 TGGTAACTTCATATCCAAAGTGTGTAATGAGTTTGGTGATA
1 TGGTAACTTCATATCCAAAGCGTATAATGAGTTTGGTGATA
21718499 TGGTAACTTCATATCCAAAGCGTATAATGAGTTTGGTGATA
1 TGGTAACTTCATATCCAAAGCGTATAATGAGTTTGGTGATA
21718540 T
1 T
21718541 CGATCGAGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (41 bp):
TGGTAACTTCATATCCAAAGCGTATAATGAGTTTGGTGATA
Found at i:21721061 original size:3 final size:3
Alignment explanation
Indices: 21721053--21721230 Score: 78
Period size: 3 Copynumber: 58.7 Consensus size: 3
21721043 TAATTTAATA
* * * * * * * *
21721053 TAT TAT TAT TAC TAT TTT TAC TAT TAT TAT TCT TAT TAG CA- TAC AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
21721100 TAT T-T CCTAT T-T TA- TAT TAT TAT TGT TAT CAA CAT ATAT TAT TAT
1 TAT TAT --TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * * *
21721145 TAT TAT TAT TCCT T-T TAT TATT TAT CAT CAAT GTAT TAT TAT CAC TAT
1 TAT TAT TAT T-AT TAT TAT TA-T TAT TAT -TAT -TAT TAT TAT TAT TAT
* * *
21721193 TAT TAC TAT TAT TGT TGT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
21721231 CCACCTTATC
Statistics
Matches: 131, Mismatches: 33, Indels: 22
0.70 0.18 0.12
Matches are distributed among these distances:
2 8 0.06
3 110 0.84
4 12 0.09
5 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:21723876 original size:28 final size:27
Alignment explanation
Indices: 21723805--21723878 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 27
21723795 CTTTATACAT
* *
21723805 ATATACATTATTT-GTTTTAAATTTTT
1 ATATACATTATTTATTTTTAAATTTTC
* *
21723831 ATATA-TTTACTGTCATTTTTAAATCTTTC
1 ATATACATTA-T-TTATTTTTAAAT-TTTC
21723860 ATATACATTATTTATTTTT
1 ATATACATTATTTATTTTT
21723879 TTAGTCTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
25 3 0.08
26 6 0.16
27 1 0.03
28 15 0.41
29 9 0.24
30 3 0.08
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (27 bp):
ATATACATTATTTATTTTTAAATTTTC
Found at i:21724160 original size:26 final size:24
Alignment explanation
Indices: 21724092--21724192 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
21724082 CTACATGTTG
21724092 TTTTAAA-TTGTTATATA-TATTA
1 TTTTAAATTTGTTATATATTATTA
** *
21724114 -TTTATTTTTGCT-T-TATT-TTA
1 TTTTAAATTTGTTATATATTATTA
21724134 TTTTAAATTATGTTATATATTAATTA
1 TTTTAAATT-TGTTATATATT-ATTA
*
21724160 TTTTAAA-TTGTTTTATATTATCTA
1 TTTTAAATTTGTTATATATTAT-TA
*
21724184 CTTTAAATT
1 TTTTAAATT
21724193 GCTTCCTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
20 5 0.08
21 12 0.20
22 7 0.11
23 3 0.05
24 22 0.36
25 2 0.03
26 10 0.16
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTTAAATTTGTTATATATTATTA
Found at i:21727987 original size:22 final size:21
Alignment explanation
Indices: 21727953--21727994 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
21727943 TTCTAGGACG
21727953 AAAATTCTATTTTATATAAAAT
1 AAAATTCTATTTTAT-TAAAAT
* *
21727975 AAAATTTTTTTTTATTAAAA
1 AAAATTCTATTTTATTAAAA
21727995 GAAGGATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTCTATTTTATTAAAAT
Found at i:21731586 original size:17 final size:18
Alignment explanation
Indices: 21731564--21731597 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21731554 ACTAAATACT
*
21731564 AATTAA-ATTTTACATAA
1 AATTAATATTTAACATAA
21731581 AATTAATATTTAACATA
1 AATTAATATTTAACATA
21731598 TAAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (18 bp):
AATTAATATTTAACATAA
Found at i:21732879 original size:15 final size:16
Alignment explanation
Indices: 21732822--21732879 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
21732812 AACGGGCCGA
21732822 CTCAGG-TCAGGCTTT
1 CTCAGGCTCAGGCTTT
*
21732837 CTTACAGCCTCAGGCTTT
1 C-T-CAGGCTCAGGCTTT
*
21732855 CTCGGGCTCAGGCTTT
1 CTCAGGCTCAGGCTTT
*
21732871 -TTAGGCTCA
1 CTCAGGCTCA
21732880 AATTTTTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 8 0.23
16 13 0.37
17 4 0.11
18 10 0.29
ACGTcount: A:0.14, C:0.29, G:0.24, T:0.33
Consensus pattern (16 bp):
CTCAGGCTCAGGCTTT
Found at i:21741674 original size:27 final size:26
Alignment explanation
Indices: 21741644--21741698 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
21741634 ATAAAATTTT
*
21741644 AAAAATATTAAAATTTCTA-TTTTTTAA
1 AAAAATAGT-AAATTT-TAGTTTTTTAA
21741671 AAAAATAGTAAATTTTAGTTTTTTAA
1 AAAAATAGTAAATTTTAGTTTTTTAA
21741697 AA
1 AA
21741699 TATTTTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 2 0.08
26 16 0.62
27 8 0.31
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (26 bp):
AAAAATAGTAAATTTTAGTTTTTTAA
Found at i:21741748 original size:24 final size:22
Alignment explanation
Indices: 21741702--21741749 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
21741692 TTTAAAATAT
*
21741702 TTTTATAATTTTCTTTTTGTAA
1 TTTTATAATTTTCTTTTTCTAA
21741724 TTTTATAGATTTTCTATTTTCTAA
1 TTTTATA-ATTTTCT-TTTTCTAA
21741748 TT
1 TT
21741750 ATTTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTATAATTTTCTTTTTCTAA
Found at i:21741751 original size:22 final size:21
Alignment explanation
Indices: 21741703--21741749 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
21741693 TTAAAATATT
*
21741703 TTTATAATTTTCTTTTTGTAA
1 TTTATAATTTTCTTTTTCTAA
21741724 TTTTATAGATTTTCTATTTTCTAA
1 -TTTATA-ATTTTCT-TTTTCTAA
21741748 TT
1 TT
21741750 ATTTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 9 0.41
24 7 0.32
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.66
Consensus pattern (21 bp):
TTTATAATTTTCTTTTTCTAA
Found at i:21741821 original size:17 final size:17
Alignment explanation
Indices: 21741801--21741837 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
21741791 TTTTTAATAA
*
21741801 TTTTATATTTTTGTATT
1 TTTTATATTTTTATATT
21741818 TTTTATATTTTTATATT
1 TTTTATATTTTTATATT
21741835 TTT
1 TTT
21741838 AAAGATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTTTATATTTTTATATT
Found at i:21741828 original size:7 final size:8
Alignment explanation
Indices: 21741791--21741838 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
21741781 TTTTGTAATT
21741791 TTTTTAATA
1 TTTTT-ATA
*
21741800 ATTTTATA
1 TTTTTATA
*
21741808 TTTTTGTA
1 TTTTTATA
21741816 TTTTTTATA
1 -TTTTTATA
21741825 TTTTTATA
1 TTTTTATA
21741833 TTTTTA
1 TTTTTA
21741839 AAGATTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
8 23 0.68
9 11 0.32
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (8 bp):
TTTTTATA
Found at i:21749305 original size:12 final size:12
Alignment explanation
Indices: 21749290--21749320 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21749280 TCTTTTAGGC
21749290 ATATATTTAAGA
1 ATATATTTAAGA
*
21749302 ATATATTTAGGA
1 ATATATTTAAGA
21749314 ATATATT
1 ATATATT
21749321 ATATATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (12 bp):
ATATATTTAAGA
Found at i:21750257 original size:18 final size:18
Alignment explanation
Indices: 21750234--21750271 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21750224 AATCGGTTTT
*
21750234 AACTTCCTCTTCATTCTC
1 AACTTCCTCTTCATTATC
*
21750252 AACTTCCTTTTCATTATC
1 AACTTCCTCTTCATTATC
21750270 AA
1 AA
21750272 TCCCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.45
Consensus pattern (18 bp):
AACTTCCTCTTCATTATC
Found at i:21752627 original size:15 final size:15
Alignment explanation
Indices: 21752607--21752636 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21752597 ATAATCCTAA
*
21752607 TAATTATCTTAATAT
1 TAATTATCCTAATAT
21752622 TAATTATCCTAATAT
1 TAATTATCCTAATAT
21752637 AAATAGAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:21756036 original size:7 final size:8
Alignment explanation
Indices: 21756014--21756057 Score: 54
Period size: 8 Copynumber: 5.2 Consensus size: 8
21756004 TTTTATTAAT
21756014 ATAATAAA
1 ATAATAAA
21756022 ATAATAAA
1 ATAATAAA
21756030 A-AATAAA
1 ATAATAAA
21756037 ATAAAATAATA
1 AT--AATAA-A
21756048 ATAATAAA
1 ATAATAAA
21756056 AT
1 AT
21756058 TTAATATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.22
8 12 0.38
9 5 0.16
10 5 0.16
11 3 0.09
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
ATAATAAA
Found at i:21756039 original size:20 final size:19
Alignment explanation
Indices: 21756011--21756057 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
21756001 TAATTTTATT
*
21756011 AATATAATAAAATAATAAAA
1 AATAAAATAAAATAAT-AAA
*
21756031 AATAAAATAAAATAATAAT
1 AATAAAATAAAATAATAAA
21756050 AATAAAAT
1 AATAAAAT
21756058 TTAATATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAAAATAAAATAATAAA
Found at i:21756062 original size:13 final size:13
Alignment explanation
Indices: 21756010--21756068 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
21756000 ATAATTTTAT
* *
21756010 TAATATAATAAAA
1 TAATAAAATATAA
*
21756023 TAATAAAAAATAA
1 TAATAAAATATAA
21756036 -AATAAAATAATAA
1 TAATAAAAT-ATAA
*
21756049 TAATAAAATTTAA
1 TAATAAAATATAA
*
21756062 TATTAAA
1 TAATAAA
21756069 GATTGGGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
12 7 0.18
13 23 0.61
14 8 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAAAATATAA
Found at i:21757884 original size:6 final size:6
Alignment explanation
Indices: 21757870--21757912 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
21757860 TATTGAATCG
*
21757870 TTTTT- TTTTTC TTTTTC TTTTGC -TTTTC TTTTTC TTCTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TT
21757913 CTATATTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 9 0.27
6 18 0.55
7 6 0.18
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:21758690 original size:34 final size:34
Alignment explanation
Indices: 21758652--21758721 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
21758642 GTTCTATTAC
21758652 TTTATTTTTATAATTTCATTAGTATAGCAACTTT
1 TTTATTTTTATAATTTCATTAGTATAGCAACTTT
21758686 TTTATTTTTATAATTTCATTAGTATAGCAACTTT
1 TTTATTTTTATAATTTCATTAGTATAGCAACTTT
21758720 TT
1 TT
21758722 GTATCTCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (34 bp):
TTTATTTTTATAATTTCATTAGTATAGCAACTTT
Found at i:21758939 original size:15 final size:15
Alignment explanation
Indices: 21758920--21758964 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
21758910 ATTATCTCTA
21758920 ATATATGTATATATT
1 ATATATGTATATATT
* *
21758935 GTATATGTTTATATT
1 ATATATGTATATATT
21758950 ATATA--TATATATT
1 ATATATGTATATATT
21758963 AT
1 AT
21758965 TTCTTTACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 9 0.35
15 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:21758960 original size:13 final size:13
Alignment explanation
Indices: 21758921--21758964 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
21758911 TTATCTCTAA
21758921 TATATGTATATATT
1 TATATGTATATA-T
*
21758935 GTATATGTTTATAT
1 -TATATGTATATAT
*
21758949 TATATATATATAT
1 TATATGTATATAT
21758962 TAT
1 TAT
21758965 TTCTTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 14 0.54
14 1 0.04
15 11 0.42
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TATATGTATATAT
Found at i:21759255 original size:22 final size:21
Alignment explanation
Indices: 21759219--21759259 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
21759209 ATGTTAGTAC
21759219 ATATATTTTATTATACGTATAT
1 ATATATTTTATTATA-GTATAT
21759241 ATATATTTT-TATATAGTAT
1 ATATATTTTAT-TATAGTAT
21759260 CATTTTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (21 bp):
ATATATTTTATTATAGTATAT
Found at i:21765460 original size:15 final size:15
Alignment explanation
Indices: 21765440--21765469 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21765430 ATAATCCTAA
*
21765440 TAATTATCTTAATAT
1 TAATTATCCTAATAT
21765455 TAATTATCCTAATAT
1 TAATTATCCTAATAT
21765470 AAATAGAATA
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:21771651 original size:18 final size:18
Alignment explanation
Indices: 21771617--21771654 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21771607 TTTATTTTTC
**
21771617 TTTGTATTTATTTATTTA
1 TTTGTATTTATACATTTA
21771635 TTTGTATTTATACATTTA
1 TTTGTATTTATACATTTA
21771653 TT
1 TT
21771655 GGTTTTTCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTGTATTTATACATTTA
Found at i:21771951 original size:12 final size:12
Alignment explanation
Indices: 21771907--21771953 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
21771897 TATTTTGTCA
21771907 TTATTATTATT-T
1 TTATT-TTATTAT
*
21771919 TTATCATTATTAT
1 TTAT-TTTATTAT
*
21771932 TTACTTTATTAT
1 TTATTTTATTAT
21771944 TTATTTTATT
1 TTATTTTATT
21771954 TTCCTTTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 25 0.86
13 4 0.14
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:21775097 original size:12 final size:12
Alignment explanation
Indices: 21775080--21775104 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21775070 GCCAAGTATT
21775080 AAAAATATTTTA
1 AAAAATATTTTA
21775092 AAAAATATTTTA
1 AAAAATATTTTA
21775104 A
1 A
21775105 GCAATTTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAATATTTTA
Found at i:21775116 original size:23 final size:22
Alignment explanation
Indices: 21775086--21775128 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
21775076 TATTAAAAAT
*
21775086 ATTTTAAAAAATATTTTAAGCA
1 ATTTTAAAAAATATATTAAGCA
*
21775108 ATTTCTAAAATATATATTAAG
1 ATTT-TAAAAAATATATTAAG
21775129 TATAATAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.42
Consensus pattern (22 bp):
ATTTTAAAAAATATATTAAGCA
Found at i:21775819 original size:23 final size:24
Alignment explanation
Indices: 21775786--21775830 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
21775776 TATGAATTTT
21775786 ATTTTCAAATTTATCAA-ATAAATC
1 ATTTTCAAATTTAT-AATATAAATC
21775810 ATTTT-AAATTTATAATATAAA
1 ATTTTCAAATTTATAATATAAA
21775831 GAAAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.10
23 13 0.65
24 5 0.25
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (24 bp):
ATTTTCAAATTTATAATATAAATC
Found at i:21777237 original size:9 final size:9
Alignment explanation
Indices: 21777223--21777248 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21777213 GTTAAACGAA
21777223 TCGAGTTAT
1 TCGAGTTAT
21777232 TCGAGTTAT
1 TCGAGTTAT
21777241 TCGAGTTA
1 TCGAGTTA
21777249 ACTCGAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:21777315 original size:9 final size:9
Alignment explanation
Indices: 21777298--21777334 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
21777288 TGAGTTTTCG
21777298 AATTCGAAT
1 AATTCGAAT
*
21777307 AACTCGAAT
1 AATTCGAAT
21777316 AATTCGAAT
1 AATTCGAAT
21777325 AATTCGAAT
1 AATTCGAAT
21777334 A
1 A
21777335 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:21778257 original size:5 final size:5
Alignment explanation
Indices: 21778247--21778322 Score: 57
Period size: 5 Copynumber: 14.8 Consensus size: 5
21778237 GAACAAATAA
* * *
21778247 ATTCG ATTCG ATTCG ATTCG ATTCAA ATTCC ATCTC- ATTCG ACTCG ATTCG
1 ATTCG ATTCG ATTCG ATTCG ATTC-G ATTCG AT-TCG ATTCG ATTCG ATTCG
* *
21778298 AATTCC ATCTC- ATTCG ACTCG ATTC
1 -ATTCG AT-TCG ATTCG ATTCG ATTC
21778323 AAGAAAATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
4 4 0.07
5 42 0.72
6 12 0.21
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.37
Consensus pattern (5 bp):
ATTCG
Found at i:21778274 original size:26 final size:26
Alignment explanation
Indices: 21778257--21778324 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
21778247 ATTCGATTCG
*
21778257 ATTCGATTCGATTCAAATTCCATCTC
1 ATTCGACTCGATTCAAATTCCATCTC
*
21778283 ATTCGACTCGATTCGAATTCCATCTC
1 ATTCGACTCGATTCAAATTCCATCTC
21778309 ATTCGACTCGATTCAA
1 ATTCGACTCGATTCAA
21778325 GAAAATTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.35
Consensus pattern (26 bp):
ATTCGACTCGATTCAAATTCCATCTC
Found at i:21783947 original size:17 final size:19
Alignment explanation
Indices: 21783910--21783947 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21783900 TAAAATAAAA
*
21783910 ATATTAATTTATTTAAATT
1 ATATTAATTTATATAAATT
21783929 ATATTAATTT-TAT-AATT
1 ATATTAATTTATATAAATT
21783946 AT
1 AT
21783948 GTCAAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 2 0.11
19 10 0.56
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATATTAATTTATATAAATT
Found at i:21791130 original size:2 final size:2
Alignment explanation
Indices: 21791123--21791150 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21791113 ATTGTTGCAT
21791123 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
21791151 AGAAGAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21797480 original size:20 final size:21
Alignment explanation
Indices: 21797455--21797495 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
21797445 AATATTTTAA
21797455 ATTAT-GGCTTGAAATTGTTG
1 ATTATGGGCTTGAAATTGTTG
21797475 ATTATGGGCTTGAAATTGTTG
1 ATTATGGGCTTGAAATTGTTG
21797496 GAATTGAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.24, C:0.05, G:0.27, T:0.44
Consensus pattern (21 bp):
ATTATGGGCTTGAAATTGTTG
Found at i:21798990 original size:37 final size:39
Alignment explanation
Indices: 21798948--21799045 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 39
21798938 TATTAATAGT
21798948 TTAATAGTTTAATATTAAATTTAAT-TT-AA-T-ACTTATC
1 TTAATAGTTTAATATT-AATTTAATATTAAAGTGA-TTATC
*
21798985 TTAATAGTATT-TTATTAATTTAATATTAAAGTGATTATC
1 TTAATAGT-TTAATATTAATTTAATATTAAAGTGATTATC
*
21799024 TTAATA-TTAAAT-TTAATTTAAT
1 TTAATAGTTTAATATTAATTTAAT
21799046 GTTTATCTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
36 8 0.15
37 25 0.48
38 6 0.12
39 12 0.23
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (39 bp):
TTAATAGTTTAATATTAATTTAATATTAAAGTGATTATC
Found at i:21803774 original size:9 final size:9
Alignment explanation
Indices: 21803756--21803787 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
21803746 ATATATATAA
21803756 AATTAACCG
1 AATTAACCG
*
21803765 AATTACCCG
1 AATTAACCG
21803774 AATTAACCG
1 AATTAACCG
21803783 AATTA
1 AATTA
21803788 TTTGTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:21803819 original size:6 final size:6
Alignment explanation
Indices: 21803808--21803860 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
21803798 ATTATATGTT
* * *
21803808 TTTTTA TTTTTA TTTTTA GTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
21803858 TTT
1 TTT
21803861 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:21804798 original size:17 final size:19
Alignment explanation
Indices: 21804771--21804812 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
21804761 ATGCCTCTAA
21804771 AATAGTAACAA-AATTA-AC
1 AATA-TAACAAGAATTATAC
*
21804789 AATATAACAAGAGTTATAC
1 AATATAACAAGAATTATAC
21804808 AATAT
1 AATAT
21804813 TCAAATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 8 0.38
19 7 0.33
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.26
Consensus pattern (19 bp):
AATATAACAAGAATTATAC
Found at i:21804845 original size:22 final size:22
Alignment explanation
Indices: 21804819--21804870 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
21804809 ATATTCAAAT
21804819 AATAATAACGAAATAGTAACAA
1 AATAATAACGAAATAGTAACAA
* *** *
21804841 CATAATAGTTAAATAGTAGCAA
1 AATAATAACGAAATAGTAACAA
21804863 AATAATAA
1 AATAATAA
21804871 AAAAGCACAC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.08, G:0.10, T:0.23
Consensus pattern (22 bp):
AATAATAACGAAATAGTAACAA
Found at i:21806373 original size:26 final size:26
Alignment explanation
Indices: 21806337--21806391 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
21806327 GACCTGCATT
*
21806337 TATATAATTTTATAAT-TAAATTTAAA
1 TATAAAATTTT-TAATCTAAATTTAAA
* *
21806363 TATAAAATTTTTAATCTATATTTATA
1 TATAAAATTTTTAATCTAAATTTAAA
21806389 TAT
1 TAT
21806392 TAAAGGAAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (26 bp):
TATAAAATTTTTAATCTAAATTTAAA
Found at i:21807384 original size:3 final size:3
Alignment explanation
Indices: 21807378--21807415 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
21807368 CTCCACCACG
* *
21807378 ACA ACA ACA ACG ACG ACA ACA ACA ACA ACA ACA ACA AC
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA AC
21807416 GTCATCTCGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.61, C:0.34, G:0.05, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:21818165 original size:22 final size:23
Alignment explanation
Indices: 21818121--21818183 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 23
21818111 CCACAAAATA
* * *
21818121 ATATATAAAT-TAAATTAAATTT
1 ATATATAAATATATATTTATTTT
* *
21818143 ATTTTTAAATATAT-TTTATTTT
1 ATATATAAATATATATTTATTTT
21818165 ATATATAAATATATATTTA
1 ATATATAAATATATATTTA
21818184 AAGCTTTTAC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 26 0.81
23 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATATATAAATATATATTTATTTT
Found at i:21824996 original size:47 final size:47
Alignment explanation
Indices: 21824925--21825016 Score: 130
Period size: 47 Copynumber: 2.0 Consensus size: 47
21824915 GAAGAAACAT
* *
21824925 CTCTTTCTAAAATAATCAAGAATTATTAACACAATAAGCTATGATCA
1 CTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGATCA
* * * *
21824972 CTCTTACTAAAATGATCCATAATTATTAACACAATTAGCCATGAT
1 CTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGAT
21825017 TCGACAGGCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 39 1.00
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (47 bp):
CTCTTACTAAAATAATCAAGAATTATTAACACAATAAGCCATGATCA
Found at i:21829008 original size:12 final size:12
Alignment explanation
Indices: 21828993--21829017 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21828983 ACTCATTTGG
21828993 AAATAAAATAAA
1 AAATAAAATAAA
21829005 AAATAAAATAAA
1 AAATAAAATAAA
21829017 A
1 A
21829018 TCTGTTGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAATAAAATAAA
Found at i:21829122 original size:86 final size:86
Alignment explanation
Indices: 21828971--21829274 Score: 409
Period size: 86 Copynumber: 3.5 Consensus size: 86
21828961 GAACTACGGG
* * * * *
21828971 ATTT-ATTTTAATACTCATTTGGAAATAAAATAAAAAATAAAATAAAATCTGTTGAACGACAGGA
1 ATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAACGGCGGGA
* *
21829035 ATAAATCTCAAAACAGATTTT
66 ATAAATCTCGAAACAAATTTT
* * *
21829056 ATTTAGTTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTAAATGGCGGGA
1 ATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAACGGCGGGA
21829121 ATAAATCTCGAAACAAATTTT
66 ATAAATCTCGAAACAAATTTT
* *
21829142 ATTTAATTTTAATACTAGTTTGGAAA-AAAATAAAAAAAT-AGAATAACATCTGTTGAACGGCGG
1 ATTTAATTTTAATACTCGTTTGGAAACAAAAT-AAAAAATGA-AATAAAATCTGTTGAACGGCGG
*
21829205 GAATAAATC-CTGAAACATATTTT
64 GAATAAATCTC-GAAACAAATTTT
** *
21829228 ATTTAATTTTAATACTTTTTTGGAAACAAAATAAAAAATGTAATAAA
1 ATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAA
21829275 TCTCAAAATA
Statistics
Matches: 193, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
85 11 0.06
86 177 0.92
87 5 0.03
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.33
Consensus pattern (86 bp):
ATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAATGAAATAAAATCTGTTGAACGGCGGGA
ATAAATCTCGAAACAAATTTT
Found at i:21829420 original size:22 final size:23
Alignment explanation
Indices: 21829386--21829428 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
21829376 TTGACTAACA
21829386 AATATATAAATAT-AAATAAATG
1 AATATATAAATATAAAATAAATG
* *
21829408 AATATTTATATATAAAATAAA
1 AATATATAAATATAAAATAAA
21829429 ATATAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
AATATATAAATATAAAATAAATG
Found at i:21829430 original size:28 final size:33
Alignment explanation
Indices: 21829387--21829455 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 33
21829377 TGACTAACAA
21829387 ATATAT-AAAT-ATAA-ATAAA-TGAATA-TTT
1 ATATATAAAATAATAATATAAATTGAATAGTTT
21829415 ATATATAAAATAA-AATATAAATTGAATAGTTT
1 ATATATAAAATAATAATATAAATTGAATAGTTT
*
21829447 ATATTTAAA
1 ATATATAAA
21829456 TTATCAGATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 6 0.17
29 6 0.17
30 6 0.17
31 6 0.17
32 11 0.31
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (33 bp):
ATATATAAAATAATAATATAAATTGAATAGTTT
Found at i:21829916 original size:20 final size:20
Alignment explanation
Indices: 21829873--21829921 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
21829863 AGGAGCAACT
* *
21829873 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATA
**
21829893 AAATCAAATTGATTGGAATA
1 AAATCAAATTGATTAAAATA
*
21829913 AAATAAAAT
1 AAATCAAAT
21829922 CAAGATATAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.55, C:0.06, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:21830536 original size:13 final size:13
Alignment explanation
Indices: 21830518--21830581 Score: 92
Period size: 13 Copynumber: 4.9 Consensus size: 13
21830508 AGTTTGGCAA
21830518 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
21830531 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
21830544 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
21830557 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
21830570 TGCTTTTGAAAA
1 TGCTTTTGAAAA
21830582 ATTTGGTTTA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:21830547 original size:26 final size:26
Alignment explanation
Indices: 21830518--21830581 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
21830508 AGTTTGGCAA
21830518 TGCTTTTGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
* *
21830544 TGCTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
21830570 TGCTTTTGAAAA
1 TGCTTTTGAAAA
21830582 ATTTGGTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.28, C:0.08, G:0.28, T:0.36
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTTTTGAGAAG
Found at i:21831803 original size:19 final size:18
Alignment explanation
Indices: 21831779--21831816 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
21831769 AAAATTTTAA
*
21831779 AAAAATTATTTAACAAATT
1 AAAAATTATATAA-AAATT
21831798 AAAAATTATATAAAAATT
1 AAAAATTATATAAAAATT
21831816 A
1 A
21831817 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATTATATAAAAATT
Found at i:21832832 original size:114 final size:114
Alignment explanation
Indices: 21832634--21833059 Score: 466
Period size: 114 Copynumber: 3.7 Consensus size: 114
21832624 GTTTACTACC
** * * * * *
21832634 AAGCGCCGCAAAAGCTCTTATCCAAAACGCAGCGCTTTGGTCTTGATGTATAGTAGCCTTAGTGG
1 AAGCGCCGC-AAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* *
21832699 CGCTTATATTCAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACTGAA
65 CGCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
21832749 AAGCGCCGCAATATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* * * ** * *
21832813 CGCTTAT-TTAAAAACGCCGCTAACGCATAGTAGTAGCGGCGCTTATTGTA
65 CGCTTATATT-AAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* * * * * * * *
21832863 AAGCGTCGCAAA-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTACCAGTAGTGGC
1 AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
* ** * *
21832927 ACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAA
66 GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
21832976 AAGCGCCGCAAGATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGCGGTATATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
*
21833040 CGCTTAT-TGGAAAACGCCGC
65 CGCTTATAT-TAAAACGCCGC
21833060 AAAATATTAA
Statistics
Matches: 252, Mismatches: 52, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
112 17 0.07
113 74 0.29
114 117 0.46
115 44 0.17
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (114 bp):
AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
Found at i:21833167 original size:188 final size:188
Alignment explanation
Indices: 21832850--21833252 Score: 689
Period size: 188 Copynumber: 2.1 Consensus size: 188
21832840 TAGTAGTAGC
* * *
21832850 GGCGCTTATTGTAAAGCGTCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
21832915 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
* * *
21832980 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
21833038 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
* * * *
21833103 AGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
*
21833168 GCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
* *
21833226 GGCGCTTATTTGAAAACGCCGCTAAAT
1 GGCGCTTATTGGAAAACGCCGCAAAAT
21833253 CATAGTATTA
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 202 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (188 bp):
GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
Found at i:21833375 original size:113 final size:112
Alignment explanation
Indices: 21833032--21833382 Score: 415
Period size: 113 Copynumber: 3.1 Consensus size: 112
21833022 GTATATTAGG
* *
21833032 ATTAGTGGCGCTTATTGGAAAA-CGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGAT
1 ATTAGCGGCGCTTATT-GAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGAT
* * *
21833096 GTATACTAGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGA-ATAGT
65 GTATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAA-ACATAGT
** * * *
21833145 ATTAGCGGCGAGTAGTGAAAAGCGCCGCAATATTTC-TTAACCAAAACGCAGAG-TTTGGTCTTG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAA-A--ACATTAACCAAAACGCAGCGCTTTGGTCTTG
* * * * *
21833208 AGGTACATTACGA-TTAGTGGCGCTTATTTGAAAACGCCGCTAAATCATAGT
63 ATGTATACTACCAGTT-GTGGCGCTTATTT-AAAACGCCGCTAAAACATAGT
*
21833259 ATTAGCGGCGCTTATTGTAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* * *
21833324 TATACTACCAGTTGTGGCGCTTATGGTAAAACGCCGGTAAAACATATT
66 TATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAAACATAGT
21833372 ATTAGCGGCGC
1 ATTAGCGGCGC
21833383 GTTGTGGGAA
Statistics
Matches: 198, Mismatches: 29, Indels: 22
0.80 0.12 0.09
Matches are distributed among these distances:
111 1 0.01
112 21 0.11
113 83 0.42
114 77 0.39
115 16 0.08
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (112 bp):
ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
TATACTACCAGTTGTGGCGCTTATTTAAAACGCCGCTAAAACATAGT
Found at i:21833435 original size:17 final size:17
Alignment explanation
Indices: 21833404--21833453 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
21833394 CGCCGCTAGA
*
21833404 TTATTATAT-ATGTAGT
1 TTATTATATAATGTAGG
21833420 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
21833437 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
21833454 AAATAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (17 bp):
TTATTATATAATGTAGG
Found at i:21833505 original size:7 final size:7
Alignment explanation
Indices: 21833493--21833569 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
21833483 TTTGAATTCT
21833493 GGTTTAG
1 GGTTTAG
21833500 GGTTTAG
1 GGTTTAG
*
21833507 AGTTTAG
1 GGTTTAG
*
21833514 GGTTTAA
1 GGTTTAG
*
21833521 GGTTTAC
1 GGTTTAG
* *
21833528 GATGTA-
1 GGTTTAG
21833534 GGTTTAG
1 GGTTTAG
* **
21833541 TGTTTTT
1 GGTTTAG
21833548 GGTTTAG
1 GGTTTAG
21833555 GGTTTGAG
1 GGTTT-AG
*
21833563 AGTTTAG
1 GGTTTAG
21833570 TGATTAAGGT
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:21835528 original size:11 final size:11
Alignment explanation
Indices: 21835491--21835530 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
21835481 GAATATCTCA
21835491 AACT-ATGGGT
1 AACTAATGGGT
*
21835501 AACTAGTGGGT
1 AACTAATGGGT
21835512 AACTAATGGGT
1 AACTAATGGGT
21835523 AACTAATG
1 AACTAATG
21835531 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:21836887 original size:16 final size:16
Alignment explanation
Indices: 21836866--21836957 Score: 76
Period size: 16 Copynumber: 6.2 Consensus size: 16
21836856 GTTAAATTTA
21836866 ACTTACTAAATACATT
1 ACTTACTAAATACATT
*
21836882 ACTTACTAAATAAATT
1 ACTTACTAAATACATT
21836898 ACTTACT-AA-A-ATT
1 ACTTACTAAATACATT
**
21836911 TGTT--TAAAT---TT
1 ACTTACTAAATACATT
21836922 A-TTACTAAAATACATT
1 ACTTACT-AAATACATT
21836938 ACTTACTAAAATACATT
1 ACTTACT-AAATACATT
21836955 ACT
1 ACT
21836958 AATAAATTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
10 2 0.03
11 3 0.05
12 3 0.05
13 9 0.14
14 1 0.02
15 2 0.03
16 25 0.40
17 18 0.29
ACGTcount: A:0.45, C:0.14, G:0.01, T:0.40
Consensus pattern (16 bp):
ACTTACTAAATACATT
Done.