Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold14
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: 2879421
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 64274 characters in sequence are not A, C, G, or T
File 6 of 17
Found at i:978765 original size:20 final size:20
Alignment explanation
Indices: 978740--978789 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
978730 CAAGCAATGT
*
978740 ATCGATACAAT-TCATCATGA
1 ATCGATACAATGT-ACCATGA
*
978760 ATCGATACAATGTACCATGT
1 ATCGATACAATGTACCATGA
978780 ATCGATACAA
1 ATCGATACAA
978790 ACAGTGGTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 26 0.96
21 1 0.04
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (20 bp):
ATCGATACAATGTACCATGA
Found at i:978841 original size:19 final size:19
Alignment explanation
Indices: 978817--978853 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
978807 ACTGCTAGTT
978817 TCATGTATCGATACAATGA
1 TCATGTATCGATACAATGA
978836 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
978854 TATCGATACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:978856 original size:13 final size:13
Alignment explanation
Indices: 978838--978864 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
978828 TACAATGATC
978838 ATGTATCGATACA
1 ATGTATCGATACA
978851 ATGTATCGATACA
1 ATGTATCGATACA
978864 A
1 A
978865 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:978860 original size:32 final size:33
Alignment explanation
Indices: 978819--978881 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
978809 TGCTAGTTTC
* *
978819 ATGTATCGATACAATG-ATCATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
978851 ATGTATCGATACAAAGCATAATGTATCGATA
1 ATGTATCGATACAAAGCATAATGTATCGATA
978882 TATCTGGGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:982811 original size:13 final size:13
Alignment explanation
Indices: 982785--982818 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
982775 AGTGGAGGAT
* *
982785 ACCTTGACCTTAC
1 ACCTTCACCCTAC
982798 ACCTTCACCCTAC
1 ACCTTCACCCTAC
982811 ACCTTCAC
1 ACCTTCAC
982819 ATGCTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.47, G:0.03, T:0.26
Consensus pattern (13 bp):
ACCTTCACCCTAC
Found at i:984414 original size:12 final size:12
Alignment explanation
Indices: 984397--984421 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
984387 GCCTATGAAC
984397 ACCTCTACTTTA
1 ACCTCTACTTTA
984409 ACCTCTACTTTA
1 ACCTCTACTTTA
984421 A
1 A
984422 ACTAGTTGGA
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:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (12 bp):
ACCTCTACTTTA
Found at i:985002 original size:19 final size:18
Alignment explanation
Indices: 984978--985013 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
984968 TCTATATATA
*
984978 AAAATATAAAATAATAAAT
1 AAAATACAAAAT-ATAAAT
984997 AAAATACAAAATATAAA
1 AAAATACAAAATATAAA
985014 ACTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAATACAAAATATAAAT
Found at i:986329 original size:16 final size:16
Alignment explanation
Indices: 986295--986336 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
986285 AATTTTTAGG
*
986295 ATTTTTTATTT-TTTG
1 ATTTTTTATTTGTTTA
986310 ATTTTTTATTTGTTTA
1 ATTTTTTATTTGTTTA
986326 ATTTTTT-TTTG
1 ATTTTTTATTTG
986337 AAATTTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 15 0.60
16 10 0.40
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (16 bp):
ATTTTTTATTTGTTTA
Found at i:991690 original size:22 final size:22
Alignment explanation
Indices: 991665--991708 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
991655 TAAAGTTAAA
991665 ATGCATGAATTACATAATAGCT
1 ATGCATGAATTACATAATAGCT
*
991687 ATGCATGAATTACATAGTAGCT
1 ATGCATGAATTACATAATAGCT
991709 CCTAAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (22 bp):
ATGCATGAATTACATAATAGCT
Found at i:995596 original size:38 final size:37
Alignment explanation
Indices: 995534--995610 Score: 102
Period size: 38 Copynumber: 2.1 Consensus size: 37
995524 AAGGATTTTA
* *
995534 ATTTTTTATATAATTTTAATTATATTAA-ATAGTAATT
1 ATTTTTTAAATAATTTTAAATATATTAATATA-TAATT
*
995571 ATTTATTTAAATACTTTTAAATATATTAATATATAATT
1 ATTT-TTTAAATAATTTTAAATATATTAATATATAATT
995609 AT
1 AT
995611 ATTAAAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
37 4 0.11
38 28 0.80
39 3 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (37 bp):
ATTTTTTAAATAATTTTAAATATATTAATATATAATT
Found at i:995934 original size:10 final size:10
Alignment explanation
Indices: 995907--995954 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
995897 TTTTGTGTGT
*
995907 TATAATTATA
1 TATATTTATA
* *
995917 TGTAATTTATT
1 TAT-ATTTATA
995928 TATATTTATA
1 TATATTTATA
995938 TATATTTATA
1 TATATTTATA
*
995948 TAAATTT
1 TATATTT
995955 TGAGATACTA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TATATTTATA
Found at i:996002 original size:23 final size:24
Alignment explanation
Indices: 995976--996022 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
995966 TACCTTTGGC
*
995976 CATGTTT-GTGTTAATT-TTTAGTT
1 CATGTTTCATGTT-ATTCTTTAGTT
995999 CATGTTTCATGTTATTCTTTAGTT
1 CATGTTTCATGTTATTCTTTAGTT
996023 TTTTTGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.17, C:0.09, G:0.15, T:0.60
Consensus pattern (24 bp):
CATGTTTCATGTTATTCTTTAGTT
Found at i:996521 original size:148 final size:148
Alignment explanation
Indices: 996309--996577 Score: 346
Period size: 148 Copynumber: 1.8 Consensus size: 148
996299 TTAAAAGATT
* * * * * * *
996309 AAAAAGTGTATGATATGCACCTAAATGACCAAAGTATCCTAAATAGGTAATTTTGCACTTGAAAT
1 AAAAAATGCATGAAATGCACCTAAATGACCAAAGTACCCTAAATAGGTAATCTTACACTAGAAAT
* * *
996374 GACTTAAATAGCTCTAAAATG-TAAAGTTTTACTAA-ATTGTCC-CTAAACTTCTCAAAATTATA
66 GACCTAAATAGCCCTAAAATGAT-AAGTTTTACTAAGA-GGTCCAC-AAACTTCTCAAAATTATA
996436 ACAATAGCACCTAAAATGTTC
128 ACAATAGCACCTAAAATGTTC
* * * **
996457 AAAAAATGCATGAAATGCACTTAAATGACCAAAGTACCCTAATTTGGTAATCTTATTCTAGAAAT
1 AAAAAATGCATGAAATGCACCTAAATGACCAAAGTACCCTAAATAGGTAATCTTACACTAGAAAT
*
996522 GACCTAAATAGCCCTAAAATGATAAGTTTTGCTAAGAGGTCCACAAACTTCTCAAA
66 GACCTAAATAGCCCTAAAATGATAAGTTTTACTAAGAGGTCCACAAACTTCTCAAA
996578 TTTGCTAAAT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
148 99 0.97
149 3 0.03
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (148 bp):
AAAAAATGCATGAAATGCACCTAAATGACCAAAGTACCCTAAATAGGTAATCTTACACTAGAAAT
GACCTAAATAGCCCTAAAATGATAAGTTTTACTAAGAGGTCCACAAACTTCTCAAAATTATAACA
ATAGCACCTAAAATGTTC
Found at i:1000524 original size:35 final size:34
Alignment explanation
Indices: 1000431--1000509 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 34
1000421 AACCTTACAA
* * *
1000431 CCCTATCTTTTCACATA-CTAAGATAGAACCTCTT
1 CCCTATCTTTTCATA-AGCTAAGATAAAACCACTT
1000465 CCCTATCTTTTCATAAGCTAAGATAAAACCACTT
1 CCCTATCTTTTCATAAGCTAAGATAAAACCACTT
1000499 CCCTATCTTTT
1 CCCTATCTTTT
1000510 TCAAAGGTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
33 1 0.02
34 40 0.98
ACGTcount: A:0.29, C:0.29, G:0.05, T:0.37
Consensus pattern (34 bp):
CCCTATCTTTTCATAAGCTAAGATAAAACCACTT
Found at i:1000932 original size:20 final size:20
Alignment explanation
Indices: 1000909--1000964 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
1000899 TACACGCTCC
1000909 AATGTATCGATACAATTTAG
1 AATGTATCGATACAATTTAG
*
1000929 AATGTATCAATACAATTTAG
1 AATGTATCGATACAATTTAG
*
1000949 AAAGTATCGATACAAT
1 AATGTATCGATACAAT
1000965 GCATTTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACAATTTAG
Found at i:1001110 original size:20 final size:19
Alignment explanation
Indices: 1001087--1001137 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
1001077 CATTTTATGG
*
1001087 TGTATTGATACAAAGCAACT
1 TGTATCGATACAAAG-AACT
**
1001107 TGTATCGATACTTAGAACT
1 TGTATCGATACAAAGAACT
1001126 TGTATCGATACA
1 TGTATCGATACA
1001138 TCTGTGTGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAAAGAACT
Found at i:1003090 original size:21 final size:21
Alignment explanation
Indices: 1003064--1003106 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1003054 CAAATTTATG
*
1003064 AACAATTAACCACACAACATC
1 AACAATTAACAACACAACATC
*
1003085 AACAATTAACAACACAAGATC
1 AACAATTAACAACACAACATC
1003106 A
1 A
1003107 TTCAAACATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.28, G:0.02, T:0.14
Consensus pattern (21 bp):
AACAATTAACAACACAACATC
Found at i:1004034 original size:22 final size:22
Alignment explanation
Indices: 1003983--1004034 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 22
1003973 CAAGTTTTTG
*
1003983 TTTTTCTTAGTCAATTCATTAT
1 TTTTTCTTAGTCAACTCATTAT
1004005 TTTCTTCTT-G-CAACTCATTTAT
1 TTT-TTCTTAGTCAACTCA-TTAT
1004027 CTTTTTCT
1 -TTTTTCT
1004035 CTAATTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 6 0.23
22 12 0.46
23 8 0.31
ACGTcount: A:0.17, C:0.19, G:0.04, T:0.60
Consensus pattern (22 bp):
TTTTTCTTAGTCAACTCATTAT
Found at i:1005673 original size:34 final size:34
Alignment explanation
Indices: 1005630--1005728 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 34
1005620 CTTACAACCT
*
1005630 TATCTTTTCACAAGCTAAGATAAAACCTTTTCCC
1 TATCTTTTCACAAGCTAAGATAAAACCTCTTCCC
* * * *
1005664 TATCTTTTCACAGGTTAAGATAGAATCTCTTCCC
1 TATCTTTTCACAAGCTAAGATAAAACCTCTTCCC
* *
1005698 TATCTTTTTCA-AAGGCTAAAATATAACCTCT
1 TATC-TTTTCACAA-GCTAAGATAAAACCTCT
1005729 CAATCACTTA
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 34 0.64
35 19 0.36
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.37
Consensus pattern (34 bp):
TATCTTTTCACAAGCTAAGATAAAACCTCTTCCC
Found at i:1010125 original size:52 final size:52
Alignment explanation
Indices: 1009977--1010105 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1009967 CGAAATATGA
1009977 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1010029 AAATTTGCCT-CTATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCTTGC-ATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1010081 AAATTTGCTTGCATGTATCGATACA
1 AAATTTGCTTGCATGTATCGATACA
1010106 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
51 1 0.01
52 70 0.97
53 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1010217 original size:32 final size:33
Alignment explanation
Indices: 1010176--1010244 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
1010166 GGCAGTAGCT
1010176 TACATTGTATCGATACAAAAC-TTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
1010208 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
1010241 TACA
1 TACA
1010245 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 20 0.57
33 15 0.43
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:1010218 original size:13 final size:13
Alignment explanation
Indices: 1010200--1010224 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1010190 ACAAAACTTA
1010200 TGTATCGATACAT
1 TGTATCGATACAT
1010213 TGTATCGATACA
1 TGTATCGATACA
1010225 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1012871 original size:5 final size:6
Alignment explanation
Indices: 1012853--1012886 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
1012843 AAAACTATCC
*
1012853 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTC TTCT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCT
1012887 CCTTCTTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTCTTT
Found at i:1012892 original size:18 final size:18
Alignment explanation
Indices: 1012850--1012893 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
1012840 ACCAAAACTA
*
1012850 TCCTTCTTTTTCTTTTTC
1 TCCTTCTTTTTCTTCTTC
**
1012868 TTTTTCTTTTTCTTCTTC
1 TCCTTCTTTTTCTTCTTC
1012886 TCCTTCTT
1 TCCTTCTT
1012894 CCTCTTTTCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TCCTTCTTTTTCTTCTTC
Found at i:1014300 original size:15 final size:15
Alignment explanation
Indices: 1014273--1014311 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1014263 TATTATTGTT
*
1014273 TAAATAAACTATAAC
1 TAAATAAAATATAAC
* *
1014288 TAATTAAAATATAAT
1 TAAATAAAATATAAC
1014303 TAAATAAAA
1 TAAATAAAA
1014312 ATATTAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAATAAAATATAAC
Found at i:1015124 original size:23 final size:22
Alignment explanation
Indices: 1015066--1015128 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 22
1015056 AATGAAAATG
1015066 TATTTTATATTT-TAGTTTATA
1 TATTTTATATTTATAGTTTATA
* * * *
1015087 TAAATTAAAAATTATAGTTTAATA
1 T-ATTTTATATTTATAGTTT-ATA
1015111 TATTTTATATTTAT-GTTT
1 TATTTTATATTTATAGTTT
1015129 CATTACTATT
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.35
23 15 0.48
24 4 0.13
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (22 bp):
TATTTTATATTTATAGTTTATA
Found at i:1015925 original size:18 final size:18
Alignment explanation
Indices: 1015899--1015958 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
1015889 CTTTTTATTT
*
1015899 TCTTATTTTTCATTTTTC
1 TCTTTTTTTTCATTTTTC
1015917 TC-TTTTTTTCTATTTTTC
1 TCTTTTTTTTC-ATTTTTC
*
1015935 TCTATTTTTCTC-TTTTT-
1 TCT-TTTTTTTCATTTTTC
1015952 TCTTTTT
1 TCTTTTT
1015959 CATTACTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 4 0.11
17 10 0.27
18 16 0.43
20 7 0.19
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.77
Consensus pattern (18 bp):
TCTTTTTTTTCATTTTTC
Found at i:1015926 original size:10 final size:10
Alignment explanation
Indices: 1015910--1015954 Score: 69
Period size: 9 Copynumber: 4.8 Consensus size: 10
1015900 CTTATTTTTC
1015910 ATTTTTCTCT
1 ATTTTTCTCT
1015920 -TTTTT-TCT
1 ATTTTTCTCT
1015928 ATTTTTCTCT
1 ATTTTTCTCT
1015938 ATTTTTCTCT
1 ATTTTTCTCT
1015948 -TTTTTCT
1 ATTTTTCT
1015955 TTTTCATTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 3 0.09
9 17 0.52
10 13 0.39
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTTTCTCT
Found at i:1015969 original size:35 final size:34
Alignment explanation
Indices: 1015896--1015969 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 34
1015886 TTTCTTTTTA
* *
1015896 TTTTCTTATTTTTCATTTTTCTCTTTTTTTCTAT
1 TTTTCTTATTTTTCATTTTTCTCTTTTTATCTAC
*
1015930 TTTTCTCTATTTTTC-TCTTTTTTCTTTTTCAT-TAC
1 TTTTCT-TATTTTTCAT-TTTTCTCTTTTT-ATCTAC
1015965 TTTTC
1 TTTTC
1015970 CTTACCATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 7 0.21
35 26 0.76
36 1 0.03
ACGTcount: A:0.08, C:0.18, G:0.00, T:0.74
Consensus pattern (34 bp):
TTTTCTTATTTTTCATTTTTCTCTTTTTATCTAC
Found at i:1018502 original size:18 final size:18
Alignment explanation
Indices: 1018479--1018513 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1018469 TATCCATGTA
* *
1018479 TTTTCTATTAGTCATAAT
1 TTTTCTAATAATCATAAT
1018497 TTTTCTAATAATCATAA
1 TTTTCTAATAATCATAA
1018514 AAAAATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.51
Consensus pattern (18 bp):
TTTTCTAATAATCATAAT
Found at i:1020092 original size:13 final size:13
Alignment explanation
Indices: 1020074--1020099 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1020064 ACATTTTATG
1020074 ATGTATCGATACA
1 ATGTATCGATACA
1020087 ATGTATCGATACA
1 ATGTATCGATACA
1020100 TATTGTGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1020094 original size:33 final size:32
Alignment explanation
Indices: 1020052--1020119 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1020042 CGTTACAAGC
* *
1020052 CAATGTATCGATACATTTTATGATGTATCGATA
1 CAATGTATCGATACATATTATG-TCTATCGATA
*
1020085 CAATGTATCGATACATATTGTGTCTATCGATA
1 CAATGTATCGATACATATTATGTCTATCGATA
1020117 CAA
1 CAA
1020120 ATTTAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTATGTCTATCGATA
Found at i:1020178 original size:21 final size:20
Alignment explanation
Indices: 1020152--1020203 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1020142 CCAATGACCT
**
1020152 GTATCGATACATCTTTTTCAA
1 GTATCGATACAT-TTGGTCAA
* *
1020173 GTATCGATATATTTGGTCAT
1 GTATCGATACATTTGGTCAA
1020193 GTATCGATACA
1 GTATCGATACA
1020204 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
GTATCGATACATTTGGTCAA
Found at i:1020209 original size:13 final size:13
Alignment explanation
Indices: 1020191--1020219 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1020181 ATATTTGGTC
1020191 ATGTATCGATACA
1 ATGTATCGATACA
1020204 ATGTATCGATACA
1 ATGTATCGATACA
1020217 ATG
1 ATG
1020220 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1020248 original size:20 final size:20
Alignment explanation
Indices: 1020205--1020255 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
1020195 ATCGATACAA
*
1020205 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
1020225 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
*
1020245 TGTATTGATAC
1 TGTATCGATAC
1020256 TTTTCAGGGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:1022279 original size:20 final size:22
Alignment explanation
Indices: 1022240--1022284 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
1022230 GCTGCTAAGG
*
1022240 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
1022262 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
1022282 TGG
1 TGG
1022285 TGTGTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.04, C:0.29, G:0.49, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:1022742 original size:13 final size:13
Alignment explanation
Indices: 1022724--1022761 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1022714 ATAATCCCCT
*
1022724 TGTATCGATACAC
1 TGTATCGATACAA
1022737 TGTATCGATACAA
1 TGTATCGATACAA
1022750 TGTATCGATACA
1 TGTATCGATACA
1022762 GAGAATACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1028916 original size:33 final size:32
Alignment explanation
Indices: 1028874--1028941 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
1028864 CGTTATAAGC
* *
1028874 CAATGTATCGATACATTTTATGATGTATTGATA
1 CAATGTATCGATACATATTATG-TGTATCGATA
*
1028907 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTATGTGTATCGATA
1028939 CAA
1 CAA
1028942 ATTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (32 bp):
CAATGTATCGATACATATTATGTGTATCGATA
Found at i:1030888 original size:23 final size:21
Alignment explanation
Indices: 1030852--1030897 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1030842 AATTAATCTT
*
1030852 AAAATTTCAGATTTTAATCCAAA
1 AAAATTTAAGA-TTT-ATCCAAA
*
1030875 AAAATTTAATATTTATCCAAA
1 AAAATTTAAGATTTATCCAAA
1030896 AA
1 AA
1030898 GTTTTATTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.43
22 3 0.14
23 9 0.43
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATTTAAGATTTATCCAAA
Found at i:1030973 original size:6 final size:6
Alignment explanation
Indices: 1030962--1031012 Score: 79
Period size: 6 Copynumber: 8.8 Consensus size: 6
1030952 TTGAGTTTTC
*
1030962 TTAAAA TTAAAA CTAAAA TT--AA TTAAAA TTAAAA TTAAAA TTAAAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
1031008 TTAAA
1 TTAAA
1031013 CTCGAACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
4 4 0.10
6 37 0.90
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:1030987 original size:16 final size:16
Alignment explanation
Indices: 1030966--1030999 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1030956 GTTTTCTTAA
1030966 AATTAAAACTAAAATT
1 AATTAAAACTAAAATT
*
1030982 AATTAAAATTAAAATT
1 AATTAAAACTAAAATT
1030998 AA
1 AA
1031000 AATTAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTAAAACTAAAATT
Found at i:1030990 original size:22 final size:22
Alignment explanation
Indices: 1030962--1031005 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1030952 TTGAGTTTTC
1030962 TTAAAATTAAAACTAAAATTAA
1 TTAAAATTAAAACTAAAATTAA
*
1030984 TTAAAATTAAAATTAAAATTAA
1 TTAAAATTAAAACTAAAATTAA
1031006 AATTAAACTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
TTAAAATTAAAACTAAAATTAA
Found at i:1035805 original size:13 final size:13
Alignment explanation
Indices: 1035787--1035811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1035777 ACAAAACTTA
1035787 TGTATCAATACAT
1 TGTATCAATACAT
1035800 TGTATCAATACA
1 TGTATCAATACA
1035812 AATTATAGAA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:1037512 original size:15 final size:15
Alignment explanation
Indices: 1037494--1037534 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1037484 TTTTTTTTTA
1037494 TCTTCTCTCTTTCCT
1 TCTTCTCTCTTTCCT
* *
1037509 TCTTCTTTCTTTCTT
1 TCTTCTCTCTTTCCT
*
1037524 TTTTCTCTCTT
1 TCTTCTCTCTT
1037535 CCACTTTTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (15 bp):
TCTTCTCTCTTTCCT
Found at i:1037522 original size:23 final size:22
Alignment explanation
Indices: 1037471--1037535 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 22
1037461 CCAGGCCATC
* *
1037471 TCTTT-TCTCTTTCTTTTTTTT
1 TCTTTCTCTCTTTCTTCTTCTT
*
1037492 TATCTTCTCTCTTTCCTTCTTCTT
1 TCT-TTCTCTCTTT-CTTCTTCTT
*
1037516 TCTTTCT-TTTTTCTCTCTTC
1 TCTTTCTCTCTTTCT-TCTTC
1037536 CACTTTTCTT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 4 0.11
22 11 0.31
23 11 0.31
24 9 0.26
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.71
Consensus pattern (22 bp):
TCTTTCTCTCTTTCTTCTTCTT
Found at i:1037545 original size:30 final size:28
Alignment explanation
Indices: 1037480--1037558 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 28
1037470 CTCTTTTCTC
*
1037480 TTTCTTTTTT-TTTATCTTCTCTCTTTCCT
1 TTTCTTTTTTCTTT-T-TTCTCTCTTCCCT
1037509 TCTTCTTTCTTTCTTTTTTCTCTCTTCCACT
1 T-TTCTTT-TTTCTTTTTTCTCTCTTCC-CT
1037540 TTTCTTCTTTTCTCTTTTT
1 TTTCTT-TTTTCT-TTTTT
1037559 TTTCTTGTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
29 1 0.02
30 26 0.60
31 13 0.30
32 3 0.07
ACGTcount: A:0.03, C:0.27, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTCTTTTTTCTTTTTTCTCTCTTCCCT
Found at i:1038846 original size:20 final size:20
Alignment explanation
Indices: 1038823--1038895 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1038813 ACAATTCAAA
1038823 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1038843 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1038864 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1038884 GTATCGATACAT
1 GTATCGATACAT
1038896 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1038867 original size:21 final size:21
Alignment explanation
Indices: 1038841--1038916 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1038831 ACATGTTGCA
1038841 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1038862 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1038882 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1038903 ATGTATCGATACAT
1 ATGTATCGATACAT
1038917 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1038874 original size:41 final size:41
Alignment explanation
Indices: 1038823--1038916 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1038813 ACAATTCAAA
*
1038823 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1038864 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1038905 GTATCGATACAT
1 GTATCGATACAT
1038917 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1043011 original size:15 final size:15
Alignment explanation
Indices: 1042991--1043021 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1042981 TAAAAATGTC
*
1042991 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1043006 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1043021 C
1 C
1043022 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1046722 original size:20 final size:20
Alignment explanation
Indices: 1046699--1046771 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1046689 ACAATTCAAA
1046699 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1046719 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1046740 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1046760 GTATCGATACAT
1 GTATCGATACAT
1046772 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1046743 original size:21 final size:21
Alignment explanation
Indices: 1046717--1046792 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1046707 ACATGTTGCA
1046717 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
1046738 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
1046758 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
1046779 ATGTATCGATACAT
1 ATGTATCGATACAT
1046793 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:1046750 original size:41 final size:41
Alignment explanation
Indices: 1046699--1046792 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1046689 ACAATTCAAA
*
1046699 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1046740 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1046781 GTATCGATACAT
1 GTATCGATACAT
1046793 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1048027 original size:2 final size:2
Alignment explanation
Indices: 1048020--1048046 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1048010 GGAATTCTCG
1048020 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1048047 CATACACACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1049653 original size:842 final size:842
Alignment explanation
Indices: 1047968--1050536 Score: 4629
Period size: 842 Copynumber: 3.0 Consensus size: 842
1047958 CCTTTAGTAA
1047968 TTTAACTTAAATAGAGGATTTTAAACTTAGAGGATAGCATTGGGAATTCTCGATATATATATATA
1 TTTAACTTAAATAGAGGATTTTAAACTTAGAGGATAGCATTGGGAATTCTCG-----------TA
*
1048033 TATATATATATATACATACACACATACACGTGTGTGTAAATACTTCTATTAAATCAGGGAACAAT
55 TATATATATATATACATACACACATACACGTGTGTGTAAATACTTCTATTAAATCATGGAACAAT
*
1048098 TCCAAACTTCTTTCTTTTTTAGTATATCTTGGAGGACTTTAATCTGAATTAAAATCTTGCTGTCT
120 TCCAAACTTCTTTCTTTTTTAGTATATCTTGGAGGACTTCAATCTGAATTAAAATCTTGCTGTCT
*
1048163 GTGTTATGTCGATTTAATTCAGCGAAAATGGCATTGATGGCACTCTAGGTCTTAAGCTTTTCTCA
185 GTGTTATGTCGATTTAATTTAGCGAAAATGGCATTGATGGCACTCTAGGTCTTAAGCTTTTCTCA
1048228 GTTAAATCGGCAGTTTAACATTTCAGAGGGAACAAGATGGCATCGTTCAAGATAGGGGAGATGGA
250 GTTAAATCGGCAGTTTAACATTTCAGAGGGAACAAGATGGCATCGTTCAAGATAGGGGAGATGGA
*
1048293 ATAAAAAAGATTAACAATGCAAGGGTTTTCTTCATATGTATCAACAAGAAAAAGGAATAAAATGA
315 ATAAAAAAGATTAACAATGCAAGGGTTTTCTTCATATGTATCGACAAGAAAAAGGAATAAAATGA
* *
1048358 AAAGATAGGAAATATTTAAAAGAAAAAGAAAATAAAGTTATTAATTCAAAAATTAATAAAAAAAC
380 AAAGATAGGAAAGATTTAAAAAAAAAAGAAAATAAAGTTATTAATTCAAAAATTAATAAAAAAAC
*
1048423 CTTAAAATCTTACACATAGCTTAAAGTTTTCATGTCATCAGCAACAGACGAATGAAAAATTTTGA
445 CTTAAAATTTTACACATAGCTTAAAGTTTTCATGTCATCAGCAACAGACGAATGAAAAATTTTGA
1048488 CCAACAACAATGTAATCTATTAGCAAAGTACTTTACTTTTAATTCGAATCAGTAAAGATTAAACT
510 CCAACAACAATGTAATCTATTAGCAAAGTACTTTACTTTTAATTCGAATCAGTAAAGATTAAACT
1048553 CTAGCAACCCAACTATAAAAAAGAATGAAAAATTATGAAAAAAACAGCTCACAAATATCAAATAT
575 CTAGCAACCCAACTATAAAAAAGAATGAAAAATTATGAAAAAAACAGCTCACAAATATCAAATAT
1048618 GTTTGAAAGCCAATAGCCGTATCAACTAAAGTAACAACAAGACTTATGGTTCACTATAGCAAAAT
640 GTTTGAAAGCCAATAGCCGTATCAACTAAAGTAACAACAAGACTTATGGTTCACTATAGCAAAAT
1048683 GATTAATAGTACATTTTACCTAAAAGTTTTCATTATATGCAATTTTTAATTTAATTTTCTTAATG
705 GATTAATAGTACATTTTACCTAAAAGTTTTCATTATATGCAATTTTTAATTTAATTTTCTTAATG
1048748 ATCATATGACCTTTATGCTATATTTCACTTCATTGCCACCCTTGAGCATCCAAACAAATATTTTA
770 ATCATATGACCTTTATGCTATATTTCACTTCATTGCCACCCTTGAGCATCCAAACAAATATTTTA
1048813 TCACTCAT
835 TCACTCAT
1048821 TTTAACTTAAATAGAGGATTTTAAACTTAGAGGATAGCATTGGGAATTCTCG-ATATATATATAT
1 TTTAACTTAAATAGAGGATTTTAAACTTAGAGGATAGCATTGGGAATTCTCGTATATATATATAT
1048885 ATACATACACACATACACGTGTGTGTAAATACTTCTATTAAATCATGGAACAATTCCAAACTTCT
66 ATACATACACACATACACGTGTGTGTAAATACTTCTATTAAATCATGGAACAATTCCAAACTTCT
*
1048950 TTCTTTTTTAGTATATCTTGGAGGACTTCAATCTGAATTAAAATCTTGTTGTCTGTGTTATGTCG
131 TTCTTTTTTAGTATATCTTGGAGGACTTCAATCTGAATTAAAATCTTGCTGTCTGTGTTATGTCG
1049015 ATTTAATTTAGCGAAAATGGCATTGATGGCACTCTAGGTCTTAAGCTTTTCTCAGTTAAATCGGC
196 ATTTAATTTAGCGAAAATGGCATTGATGGCACTCTAGGTCTTAAGCTTTTCTCAGTTAAATCGGC
1049080 AGTTTAACATTTCAGAGGGAACAAGATGGCATCGTTCAAGATAGGGGAGATGGAATAAAAAAGAT
261 AGTTTAACATTTCAGAGGGAACAAGATGGCATCGTTCAAGATAGGGGAGATGGAATAAAAAAGAT
1049145 TAACAATGCAAGGGTTTTCTTCATATGTATCGACAAGAAAAAGGAATAAAATGAAAAGATAGGAA
326 TAACAATGCAAGGGTTTTCTTCATATGTATCGACAAGAAAAAGGAATAAAATGAAAAGATAGGAA
1049210 AGATTTAAAAAAAAAAAGAAAATAAAGTTATTAATTCAAAAATTAATAAAAAAACCTTAAAATTT
391 AGATTT-AAAAAAAAAAGAAAATAAAGTTATTAATTCAAAAATTAATAAAAAAACCTTAAAATTT
1049275 TACACATAGCTTAAAGTTTTCATGTCATCAGCAACAGACGAATGAAAAATTTTGACCAACAACAA
455 TACACATAGCTTAAAGTTTTCATGTCATCAGCAACAGACGAATGAAAAATTTTGACCAACAACAA
1049340 TGTAATCTATTAGCAAAGTACTTTACTTTTAATTCGAATCAGTAAAGATTAAACTCTAGCAACCC
520 TGTAATCTATTAGCAAAGTACTTTACTTTTAATTCGAATCAGTAAAGATTAAACTCTAGCAACCC
*
1049405 AACTATAAAAAAGAATGAAAATTTATGAAAAAAACAGCTCACAAATATCAAATATGTTTGAAAGC
585 AACTATAAAAAAGAATGAAAAATTATGAAAAAAACAGCTCACAAATATCAAATATGTTTGAAAGC
1049470 CAATAGCCGTATCAACTAAAGTAACAACAAGACTTATGGTTCACTATAGCAAAATGATTAATAGT
650 CAATAGCCGTATCAACTAAAGTAACAACAAGACTTATGGTTCACTATAGCAAAATGATTAATAGT
1049535 ACATTTTACCTAAAAGTTTTCATTATATGCAATTTTTAATTTAATTTTCTTAATGATCATATGAC
715 ACATTTTACCTAAAAGTTTTCATTATATGCAATTTTTAATTTAATTTTCTTAATGATCATATGAC
1049600 CTTTATGCTATATTTCACTTCATTGCCACCCTTGAGCATCCAAACAAATATTTTATCACTCAT
780 CTTTATGCTATATTTCACTTCATTGCCACCCTTGAGCATCCAAACAAATATTTTATCACTCAT
1049663 TTTAACTTAAATAGAGGATTTTAAACTTAGAGGATAGCATTGGGAATTCTCGATATATATATATA
1 TTTAACTTAAATAGAGGATTTTAAACTTAGAGGATAGCATTGGGAATTCTCG-------------
1049728 TATATATATATTTATATATATATATATATACATACACACATACACGTGTGTGTAAATACTTCTAT
53 --------------TATATATATATATATACATACACACATACACGTGTGTGTAAATACTTCTAT
1049793 TAAATCATGGAACAATTCCAAACTTCTTTCTTTTTTTAGTATATCTTGGAGGACTTCAATCTGAA
104 TAAATCATGGAACAATTCCAAACTTCTTTC-TTTTTTAGTATATCTTGGAGGACTTCAATCTGAA
1049858 TTAAAATCTTGCTGTCTGTGTTATGTCGATTTAATTTAGCGAAAATGGCATTGATGGCACTCTAG
168 TTAAAATCTTGCTGTCTGTGTTATGTCGATTTAATTTAGCGAAAATGGCATTGATGGCACTCTAG
*
1049923 GTCTTAAGCTTTTCTCAGTTAAATCGGCAGTTTAACATTTCAGAGGGAACAAGATGGCATCGTTT
233 GTCTTAAGCTTTTCTCAGTTAAATCGGCAGTTTAACATTTCAGAGGGAACAAGATGGCATCGTTC
*
1049988 AAGATAGGGGAGATGGAATGAAAAAGATTAACAATGCAAGGGTTTTCTTCATATGTATCGACAAG
298 AAGATAGGGGAGATGGAATAAAAAAGATTAACAATGCAAGGGTTTTCTTCATATGTATCGACAAG
*
1050053 AAAAAGGAATAAAATGAAAAGATAGGAAAGATTT-TAAAAAAAAGAAAATAAAGTTATTAATTCA
363 AAAAAGGAATAAAATGAAAAGATAGGAAAGATTTAAAAAAAAAAGAAAATAAAGTTATTAATTCA
1050117 AAAATTAATAAAAAAACCTTAAAATTTTACACATAGCTTAAAGTTTTCATGTCATCAGCAACAGA
428 AAAATTAATAAAAAAACCTTAAAATTTTACACATAGCTTAAAGTTTTCATGTCATCAGCAACAGA
*
1050182 TGAATGAAAAATTTTGACCAACAACAATGTAATCTATTAGCAAAGTACTTTACTTTTAATTCGAA
493 CGAATGAAAAATTTTGACCAACAACAATGTAATCTATTAGCAAAGTACTTTACTTTTAATTCGAA
*
1050247 TCAGTAAAGATTAAACTCTAGCAACCCAACTATAAAAAAGAATGAAAAATTATAAAAAAAACAGC
558 TCAGTAAAGATTAAACTCTAGCAACCCAACTATAAAAAAGAATGAAAAATTATGAAAAAAACAGC
1050312 TCACAAATATCAAATATGTTTGAAAGCCAATAGCCGTATCAACTAAAGTAACAACAAGACTTATG
623 TCACAAATATCAAATATGTTTGAAAGCCAATAGCCGTATCAACTAAAGTAACAACAAGACTTATG
*
1050377 GTTCACTATAGCAAAATGATTAATAGTACATTTTACCTAAAAGTTTTCGTTATATGCAATTTTTA
688 GTTCACTATAGCAAAATGATTAATAGTACATTTTACCTAAAAGTTTTCATTATATGCAATTTTTA
1050442 ATTTAATTTTCTTAATGATCATATGACCTTTATGCTATATTTCACTTCATTGCCACCCTTGAGCA
753 ATTTAATTTTCTTAATGATCATATGACCTTTATGCTATATTTCACTTCATTGCCACCCTTGAGCA
1050507 TCCAAACAAATATTTTATCACTCAT
818 TCCAAACAAATATTTTATCACTCAT
1050532 TTTAA
1 TTTAA
1050537 TTTTATCAAT
Statistics
Matches: 1669, Mismatches: 17, Indels: 44
0.96 0.01 0.03
Matches are distributed among these distances:
841 337 0.20
842 495 0.30
853 52 0.03
869 445 0.27
870 80 0.05
871 260 0.16
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.32
Consensus pattern (842 bp):
TTTAACTTAAATAGAGGATTTTAAACTTAGAGGATAGCATTGGGAATTCTCGTATATATATATAT
ATACATACACACATACACGTGTGTGTAAATACTTCTATTAAATCATGGAACAATTCCAAACTTCT
TTCTTTTTTAGTATATCTTGGAGGACTTCAATCTGAATTAAAATCTTGCTGTCTGTGTTATGTCG
ATTTAATTTAGCGAAAATGGCATTGATGGCACTCTAGGTCTTAAGCTTTTCTCAGTTAAATCGGC
AGTTTAACATTTCAGAGGGAACAAGATGGCATCGTTCAAGATAGGGGAGATGGAATAAAAAAGAT
TAACAATGCAAGGGTTTTCTTCATATGTATCGACAAGAAAAAGGAATAAAATGAAAAGATAGGAA
AGATTTAAAAAAAAAAGAAAATAAAGTTATTAATTCAAAAATTAATAAAAAAACCTTAAAATTTT
ACACATAGCTTAAAGTTTTCATGTCATCAGCAACAGACGAATGAAAAATTTTGACCAACAACAAT
GTAATCTATTAGCAAAGTACTTTACTTTTAATTCGAATCAGTAAAGATTAAACTCTAGCAACCCA
ACTATAAAAAAGAATGAAAAATTATGAAAAAAACAGCTCACAAATATCAAATATGTTTGAAAGCC
AATAGCCGTATCAACTAAAGTAACAACAAGACTTATGGTTCACTATAGCAAAATGATTAATAGTA
CATTTTACCTAAAAGTTTTCATTATATGCAATTTTTAATTTAATTTTCTTAATGATCATATGACC
TTTATGCTATATTTCACTTCATTGCCACCCTTGAGCATCCAAACAAATATTTTATCACTCAT
Found at i:1049722 original size:2 final size:2
Alignment explanation
Indices: 1049715--1049757 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1049705 GGAATTCTCG
*
1049715 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1049757 A
1 A
1049758 CATACACACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1059294 original size:2 final size:2
Alignment explanation
Indices: 1059268--1059317 Score: 50
Period size: 2 Copynumber: 25.0 Consensus size: 2
1059258 AATTATTTTT
* *
1059268 TA TA TGA TA TA AA GTA TA T- TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA T-A TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1059311 T- TA TA TA
1 TA TA TA TA
1059318 ATTAAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
1 2 0.05
2 35 0.88
3 3 0.08
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1059296 original size:25 final size:25
Alignment explanation
Indices: 1059268--1059317 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 25
1059258 AATTATTTTT
1059268 TATATGATATAAAGTATATTATATATA
1 TATAT-ATATAAA-TATATTATATATA
1059295 TATATATATAAATATATTATATA
1 TATATATATAAATATATTATATA
1059318 ATTAAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.48
26 7 0.30
27 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TATATATATAAATATATTATATATA
Found at i:1059472 original size:13 final size:13
Alignment explanation
Indices: 1059425--1059472 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
1059415 TTTTTATTAA
1059425 AAATAAT-TTTTT
1 AAATAATATTTTT
*
1059437 AATTTAATATTTTT
1 AA-ATAATATTTTT
*
1059451 AGATAAATATTTTT
1 AAAT-AATATTTTT
1059465 AAATAATA
1 AAATAATA
1059473 AATATTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
12 2 0.07
13 9 0.31
14 18 0.62
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
AAATAATATTTTT
Found at i:1059476 original size:47 final size:46
Alignment explanation
Indices: 1059395--1059483 Score: 108
Period size: 47 Copynumber: 1.9 Consensus size: 46
1059385 ATGTATTATA
* * * *
1059395 TAATTTTTTAGATACATCTCTTTTTATTAAAAATAATTTTTTAATT
1 TAATTTTTTAGATAAATATCTTTTAAATAAAAATAATTTTTTAATT
*
1059441 TAATATTTTTAGATAAATAT-TTTTAAATAATAAATATTTTTTT
1 TAAT-TTTTTAGATAAATATCTTTTAAATAA-AAATAATTTTTT
1059484 TCCCCAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
46 12 0.33
47 24 0.67
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.56
Consensus pattern (46 bp):
TAATTTTTTAGATAAATATCTTTTAAATAAAAATAATTTTTTAATT
Found at i:1065382 original size:27 final size:27
Alignment explanation
Indices: 1065352--1065452 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
1065342 TTCATTAAAA
*
1065352 AATGGGATTGGAGTATCCCCTC-AGAGG
1 AATGGGATTGGAGTATCCCCTCGA-AAG
* * *
1065379 AATGGGATTGGAATATTCTCTCGAAAG
1 AATGGGATTGGAGTATCCCCTCGAAAG
* * *
1065406 AATAGGATTGGAGTATTCTCTCGAAAG
1 AATGGGATTGGAGTATCCCCTCGAAAG
*
1065433 AATGGGATTAGAGTATCCCC
1 AATGGGATTGGAGTATCCCC
1065453 GTGTACCTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
27 62 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (27 bp):
AATGGGATTGGAGTATCCCCTCGAAAG
Found at i:1066577 original size:28 final size:27
Alignment explanation
Indices: 1066529--1066620 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
1066519 TAAAAAATGA
**
1066529 GATTGGAGTA-TCCCTTTAAAGGAATAG
1 GATTGGAGTATTCCCTCGAAA-GAATAG
1066556 GATT-GAGGTATTCCCTCGAAAGAATAG
1 GATTGGA-GTATTCCCTCGAAAGAATAG
*
1066583 GATTGGAGTATTCCCTCGAAAGAATGG
1 GATTGGAGTATTCCCTCGAAAGAATAG
*
1066610 GATTAGAGTAT
1 GATTGGAGTAT
1066621 CCCCGTGAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.03
27 46 0.79
28 10 0.17
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (27 bp):
GATTGGAGTATTCCCTCGAAAGAATAG
Found at i:1069436 original size:20 final size:20
Alignment explanation
Indices: 1069411--1069465 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
1069401 ATATTTTAAA
*
1069411 TATGTATCGATTCATT-CACT
1 TATGTATCGATACATTAC-CT
*
1069431 TATGTATTGATACATTACCT
1 TATGTATCGATACATTACCT
1069451 TATTGTATCGATACA
1 TA-TGTATCGATACA
1069466 ATTTGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (20 bp):
TATGTATCGATACATTACCT
Found at i:1073260 original size:65 final size:65
Alignment explanation
Indices: 1073183--1073376 Score: 286
Period size: 65 Copynumber: 3.0 Consensus size: 65
1073173 CCATATCAAC
* *
1073183 TATTTTTTATCAAGAACAATTTTGAGGAAAAAGATGAGATTTGATCCATCTCTTTCAAAAAGAAA
1 TATTTTTTATCAAGAACAATTTTGAGGAAAAAGATTAGATTTGATCCATCTCTTTCAAAAGGAAA
* ** * *
1073248 TATTTTCTATCAA-AACAAAATAGA-GAGAAAGATTAGATTTGATCCATCTCTTTCAAAAGGAAA
1 TATTTTTTATCAAGAACAATTTTGAGGAAAAAGATTAGATTTGATCCATCTCTTTCAAAAGGAAA
*
1073311 TATTTTTTATTAAGAACAATTTTG-GAGAAAAAGATTAGATTTGATCCATCTCTTTCAAAAGGAA
1 TATTTTTTATCAAGAACAATTTTGAG-GAAAAAGATTAGATTTGATCCATCTCTTTCAAAAGGAA
1073375 A
65 A
1073376 T
1 T
1073377 GCATTTATCA
Statistics
Matches: 113, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
63 47 0.42
64 15 0.13
65 51 0.45
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (65 bp):
TATTTTTTATCAAGAACAATTTTGAGGAAAAAGATTAGATTTGATCCATCTCTTTCAAAAGGAAA
Found at i:1077343 original size:14 final size:14
Alignment explanation
Indices: 1077324--1077353 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1077314 AAAAATTATA
*
1077324 AAATATTAAAATTT
1 AAATATTAAAAGTT
1077338 AAATATTAAAAGTT
1 AAATATTAAAAGTT
1077352 AA
1 AA
1077354 TCAACTGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (14 bp):
AAATATTAAAAGTT
Found at i:1079276 original size:2 final size:2
Alignment explanation
Indices: 1079269--1079305 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
1079259 TTCATCCATC
1079269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1079306 CTTGAAAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1079388 original size:17 final size:18
Alignment explanation
Indices: 1079354--1079387 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1079344 TTTTTTCCTG
1079354 TAAACAAAATCTTAAAAA
1 TAAACAAAATCTTAAAAA
1079372 TAAA-AAAAT-TTAAAAA
1 TAAACAAAATCTTAAAAA
1079388 AAATTAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 5 0.31
18 4 0.25
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAACAAAATCTTAAAAA
Found at i:1079718 original size:2 final size:2
Alignment explanation
Indices: 1079711--1079750 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1079701 ATTATCGAGA
1079711 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1079751 CGAGAGAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1084800 original size:13 final size:13
Alignment explanation
Indices: 1084769--1084802 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
1084759 TATGCATCCT
1084769 TTAAAATTAGAAA
1 TTAAAATTAGAAA
*
1084782 TT-AAATTTGAAA
1 TTAAAATTAGAAA
1084794 TTAAAATTA
1 TTAAAATTA
1084803 TAGAATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (13 bp):
TTAAAATTAGAAA
Found at i:1084959 original size:20 final size:21
Alignment explanation
Indices: 1084922--1084962 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1084912 TAATATTATT
1084922 TATAAAAAATTATCTATTAAA
1 TATAAAAAATTATCTATTAAA
* *
1084943 TATAAAATATT-TTTATTAAA
1 TATAAAAAATTATCTATTAAA
1084963 AAACCAGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TATAAAAAATTATCTATTAAA
Found at i:1085141 original size:19 final size:19
Alignment explanation
Indices: 1085100--1085142 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
1085090 CTATCAAATT
1085100 TATATTATAAAAATTATTTAA
1 TATATTATAAAAATTA--TAA
1085121 TATATTATTAAAAATTA-AA
1 TATATTA-TAAAAATTATAA
1085140 TAT
1 TAT
1085143 TAAATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 5 0.24
21 7 0.33
22 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATTATAAAAATTATAA
Found at i:1085462 original size:17 final size:18
Alignment explanation
Indices: 1085426--1085478 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
1085416 AATTTAATTT
*
1085426 AAATTATCAAACTTAATAAA
1 AAATT-TCAAA-TTATTAAA
1085446 AAATTT-AAATTATTAAA
1 AAATTTCAAATTATTAAA
* *
1085463 AATTTTCAATTTATTA
1 AAATTTCAAATTATTA
1085479 CGAAGCACAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.41
18 11 0.38
19 1 0.03
20 5 0.17
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTTCAAATTATTAAA
Found at i:1087082 original size:52 final size:50
Alignment explanation
Indices: 1087019--1087168 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 50
1087009 CATTACTTAA
*
1087019 ATGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAG
* * *
1087071 ATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGTCCAG
1 ATGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAG
*
1087123 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGTAAATTT
1 ATGTATCGATACACTATT--ATGTATCGATACATGCAGGCAAATTT
1087169 TCATATTTCG
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
51 2 0.02
52 85 0.98
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (50 bp):
ATGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:1089324 original size:27 final size:27
Alignment explanation
Indices: 1089286--1089359 Score: 130
Period size: 27 Copynumber: 2.7 Consensus size: 27
1089276 TTTATTCATC
* *
1089286 GGGGACACTCCAACCCCCTTCCTTCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
1089313 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
1089340 GGGGACACTCCAACCCCATT
1 GGGGACACTCCAACCCCATT
1089360 TTCAATCAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.22, C:0.43, G:0.19, T:0.16
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCCTCCGA
Found at i:1093739 original size:29 final size:29
Alignment explanation
Indices: 1093706--1093765 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
1093696 TAAAAGTCTC
*
1093706 TAGATAATGGAAGATGGCCTAAATGCCAT
1 TAGATAATGGAAGATGACCTAAATGCCAT
1093735 TAGATAATGGAAGATGACCTAAATGCCAT
1 TAGATAATGGAAGATGACCTAAATGCCAT
1093764 TA
1 TA
1093766 AAATAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (29 bp):
TAGATAATGGAAGATGACCTAAATGCCAT
Found at i:1093786 original size:29 final size:29
Alignment explanation
Indices: 1093709--1093786 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
1093699 AAGTCTCTAG
* * *
1093709 ATAATGGAAGATGGCCTAAATGCCATTAG
1 ATAATGGAAGATGACATAAATGCCATTAA
*
1093738 ATAATGGAAGATGACCTAAATGCCATTAAA
1 ATAATGGAAGATGACATAAATGCCATT-AA
1093768 ATAAAT-GAA-ATGACATAAA
1 AT-AATGGAAGATGACATAAA
1093787 ATTTGCTAAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 35 0.80
30 6 0.14
31 3 0.07
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (29 bp):
ATAATGGAAGATGACATAAATGCCATTAA
Found at i:1099949 original size:21 final size:20
Alignment explanation
Indices: 1099916--1099956 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
1099906 GAGATGTTGG
1099916 ACATACTAAAAATGCATGAA
1 ACATACTAAAAATGCATGAA
*
1099936 ACATAGCTCAAAATGCATGAA
1 ACATA-CTAAAAATGCATGAA
1099957 TATGGGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (20 bp):
ACATACTAAAAATGCATGAA
Found at i:1100944 original size:21 final size:21
Alignment explanation
Indices: 1100898--1100952 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
1100888 CAAAACCCAG
1100898 AATGTATCGATAC-AATGAAT
1 AATGTATCGATACAAATGAAT
*
1100918 AATGTATCGATACAAAT-AGT
1 AATGTATCGATACAAATGAAT
*
1100938 AAATGTATCAATACA
1 -AATGTATCGATACA
1100953 TTTACTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACAAATGAAT
Found at i:1100975 original size:20 final size:20
Alignment explanation
Indices: 1100898--1100972 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
1100888 CAAAACCCAG
*
1100898 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATTAAT
* *
1100918 AATGTATCGATACAAATAGT
1 AATGTATCGATACAATTAAT
* * *
1100938 AAATGTATCAATACATTTACT
1 -AATGTATCGATACAATTAAT
*
1100959 TATGTATCGATACA
1 AATGTATCGATACA
1100973 TTTCCTTGGC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACAATTAAT
Found at i:1102298 original size:33 final size:32
Alignment explanation
Indices: 1102256--1102319 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
1102246 CACACCCAGA
* *
1102256 TGTATCGATACATATTGCTTTGTTTCGATACAT
1 TGTATCGATACATATT-CTTGGTATCGATACAT
*
1102289 TGTATCGATACATGTTCTTGGTATCGATACA
1 TGTATCGATACATATTCTTGGTATCGATACA
1102320 CAGTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.42
Consensus pattern (32 bp):
TGTATCGATACATATTCTTGGTATCGATACAT
Found at i:1103983 original size:3 final size:3
Alignment explanation
Indices: 1103975--1104003 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1103965 AACCATCAAA
1103975 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1104004 AGTTGACTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:1104216 original size:21 final size:21
Alignment explanation
Indices: 1104190--1104240 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1104180 CGACATTGAA
*
1104190 GAAGAAGAATTTAAATAAGTC
1 GAAGAAGAATTTAAATAAGCC
*
1104211 GAAGAAAAATTTAAATAAGCC
1 GAAGAAGAATTTAAATAAGCC
*
1104232 AAAGAAGAA
1 GAAGAAGAA
1104241 GGCTATGGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.59, C:0.06, G:0.18, T:0.18
Consensus pattern (21 bp):
GAAGAAGAATTTAAATAAGCC
Found at i:1111731 original size:34 final size:35
Alignment explanation
Indices: 1111662--1111734 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
1111652 GGTGTTTGTG
*
1111662 GAAAGAATAAGCACAAAGGAATACAAATGAGCTTT
1 GAAAGAATAAGCACAAAGGAATACAAAAGAGCTTT
**
1111697 GAAAGAATAA-CAACAAA-GAATACAAAAGCTCTTT
1 GAAAGAATAAGC-ACAAAGGAATACAAAAGAGCTTT
1111731 GAAA
1 GAAA
1111735 TGTAGAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 19 0.56
35 15 0.44
ACGTcount: A:0.55, C:0.12, G:0.16, T:0.16
Consensus pattern (35 bp):
GAAAGAATAAGCACAAAGGAATACAAAAGAGCTTT
Found at i:1114718 original size:20 final size:19
Alignment explanation
Indices: 1114687--1114743 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 19
1114677 CCTAAATAGT
1114687 ACTCACGTATCGATACAAAGA
1 ACTCA-GTATCGATACAAA-A
1114708 ACTCAGTATCGATACTAAAA
1 ACTCAGTATCGATAC-AAAA
*
1114728 A-TGCAGTATCTATACA
1 ACT-CAGTATCGATACA
1114744 TCTGGGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 2 0.06
20 23 0.70
21 8 0.24
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (19 bp):
ACTCAGTATCGATACAAAA
Found at i:1121005 original size:82 final size:81
Alignment explanation
Indices: 1120885--1121059 Score: 305
Period size: 82 Copynumber: 2.1 Consensus size: 81
1120875 TACATTTCTC
1120885 CATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAGTTTCATGTATCGATACTTTTTAAGG
1 CATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAGTTTCATGTATCGATACTTTTTAAGG
*
1120950 TGTATCGATATTATGAA
66 -GTATCGATACTATGAA
*
1120967 CATGTATCGATACAAATAGTGGTAGGGTAGCTACTGCCAGTTTCATGTATCGATACTTTTTAAGG
1 CATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAGTTTCATGTATCGATACTTTTTAAGG
*
1121032 GTATTGATACTATGAA
66 GTATCGATACTATGAA
*
1121048 CATATATCGATA
1 CATGTATCGATA
1121060 TAATGTATCG
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 25 0.28
82 64 0.72
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (81 bp):
CATGTATCGATACAAACAGTGGTAGGGTAGCTACTGCCAGTTTCATGTATCGATACTTTTTAAGG
GTATCGATACTATGAA
Found at i:1124312 original size:207 final size:210
Alignment explanation
Indices: 1123935--1124356 Score: 487
Period size: 209 Copynumber: 2.0 Consensus size: 210
1123925 TTGAAAAAAA
* ** * * *
1123935 AATAAGGTAGATGGGTAGATAAAAATGAAAATGGAATTAAGATTTCAAGACACGATGAATCTCTT
1 AATAAGGTAGATGGGTAGAGAAAAACAAAAATGGAATCAAGATTTCAAGACACGACGAATCACTT
* * * * **
1124000 TTTTTAAAGTGTTTTTTACCCTCCATACAAAGTTTGCTAATGGGTGTAGGCAATAACACTCCCAA
66 TCTTTAAAGAGTTATTTACCCTCCACACAAAGTTTGCTAACAGGTGTAGGCAATAACACTCCCAA
* * * ** *
1124065 GATACAACGAAGCCTTTATGAGTTCTGTAACTAGCAATATTGAAGAACT-TCTTACTCTCTTATT
131 AATACAACAAAGCCTTTATGAATTCTACAACTAGCAATATTGAAGAACTCT-TTAATCTCTTATT
*
1124129 CTT-TCTATTAAATTCT
195 -TTGTCTAGTAAATTCT
* * *
1124145 AATAAGGTAGATGGGTA-AGAAAAACAAAAATGGTATCAAGACTTT-AAGGCATGACGAATCACT
1 AATAAGGTAGATGGGTAGAGAAAAACAAAAATGGAATCAAGA-TTTCAAGACACGACGAATCACT
* * * * * *
1124208 TTCTTTAGAGAGTTATTTGCCCTCTACACAAAGTTTGCTAACAGGTTTAGG-AATAACA-TTCTA
65 TTCTTTAAAGAGTTATTTACCCTCCACACAAAGTTTGCTAACAGGTGTAGGCAATAACACTCCCA
* * * *
1124271 AAATACAACAAAGTCTTTATGAATTCTACAATTATCAATATTGAAGAACTCTTTAATCTTTTATT
130 AAATACAACAAAGCCTTTATGAATTCTACAACTAGCAATATTGAAGAACTCTTTAATCTCTTATT
1124336 TTGTCTAGTAAATTCT
195 TTGTCTAGTAAATTCT
1124352 AATAA
1 AATAA
1124357 TTTTGGATAT
Statistics
Matches: 177, Mismatches: 32, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
206 2 0.01
207 73 0.41
208 8 0.05
209 74 0.42
210 20 0.11
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (210 bp):
AATAAGGTAGATGGGTAGAGAAAAACAAAAATGGAATCAAGATTTCAAGACACGACGAATCACTT
TCTTTAAAGAGTTATTTACCCTCCACACAAAGTTTGCTAACAGGTGTAGGCAATAACACTCCCAA
AATACAACAAAGCCTTTATGAATTCTACAACTAGCAATATTGAAGAACTCTTTAATCTCTTATTT
TGTCTAGTAAATTCT
Found at i:1125100 original size:13 final size:13
Alignment explanation
Indices: 1125082--1125106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1125072 ACAGCAAGTT
1125082 TGTATCGATACAA
1 TGTATCGATACAA
1125095 TGTATCGATACA
1 TGTATCGATACA
1125107 CAAAAAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1127357 original size:21 final size:21
Alignment explanation
Indices: 1127324--1127368 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1127314 TTGCAAGTTG
*
1127324 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1127346 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1127366 AAA
1 AAA
1127369 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1129192 original size:15 final size:15
Alignment explanation
Indices: 1129172--1129202 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1129162 TAAAAATGTC
*
1129172 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1129187 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1129202 C
1 C
1129203 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1131295 original size:20 final size:20
Alignment explanation
Indices: 1131216--1131295 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
1131206 AATGTCCAAA
*
1131216 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
1131236 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
1131261 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
1131281 TTGTATCGATACATT
1 ATGTATCGATACATT
1131296 GTATCGATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:1131299 original size:13 final size:13
Alignment explanation
Indices: 1131281--1131319 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1131271 ACATTTTTCT
1131281 TTGTATCGATACA
1 TTGTATCGATACA
1131294 TTGTATCGATACA
1 TTGTATCGATACA
*
1131307 CTGTATCGATACA
1 TTGTATCGATACA
1131320 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1133864 original size:13 final size:13
Alignment explanation
Indices: 1133846--1133870 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1133836 ACAGCAAGTT
1133846 TGTATCGATACAA
1 TGTATCGATACAA
1133859 TGTATCGATACA
1 TGTATCGATACA
1133871 CAAAAAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1134877 original size:14 final size:14
Alignment explanation
Indices: 1134858--1134887 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1134848 TTGAGAATAC
1134858 ATCCATATACATAT
1 ATCCATATACATAT
*
1134872 ATCCATATATATAT
1 ATCCATATACATAT
1134886 AT
1 AT
1134888 ATACATCCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (14 bp):
ATCCATATACATAT
Found at i:1134881 original size:2 final size:2
Alignment explanation
Indices: 1134862--1134929 Score: 73
Period size: 2 Copynumber: 34.0 Consensus size: 2
1134852 GAATACATCC
* ** * ** *
1134862 AT AT AC AT AT AT CC AT AT AT AT AT AT AT AC AT CC AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1134904 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1134930 TCAAAAGCTT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.47, C:0.09, G:0.01, T:0.43
Consensus pattern (2 bp):
AT
Found at i:1139470 original size:18 final size:18
Alignment explanation
Indices: 1139447--1139492 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1139437 TTTGACATTA
* *
1139447 AAAAATAAAAAATATAAT
1 AAAAATAAAAAAAAGAAT
1139465 AAAAATAAAAAAAAGAAT
1 AAAAATAAAAAAAAGAAT
*
1139483 AAAATTAAAA
1 AAAAATAAAA
1139493 TTTAGTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAAATAAAAAAAAGAAT
Found at i:1139474 original size:23 final size:23
Alignment explanation
Indices: 1139447--1139493 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1139437 TTTGACATTA
* *
1139447 AAAAATAAAAAATATAATAAAAAT
1 AAAAA-AAAGAATAAAATAAAAAT
*
1139471 AAAAAAAAGAATAAAATTAAAAT
1 AAAAAAAAGAATAAAATAAAAAT
1139494 TTAGTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (23 bp):
AAAAAAAAGAATAAAATAAAAAT
Found at i:1140000 original size:73 final size:73
Alignment explanation
Indices: 1139913--1140060 Score: 233
Period size: 73 Copynumber: 2.0 Consensus size: 73
1139903 AATTAAACAA
* * * *
1139913 CTACTGCAGTTGCTGTAGAAGAAGAAGAAACGCAAGAACAAAAGCAAGTAACAGCAGCAACAAGA
1 CTACTGCAGCTGCTGAACAACAAGAAGAAACGCAAGAACAAAAGCAAGTAACAGCAGCAACAAGA
1139978 AAGAAACG
66 AAGAAACG
***
1139986 CTACTGCAGCTGCTGAACAACAAGAAGAAACGCAAGAACAAAAGCGTTTAACAGCAGCAACAAGA
1 CTACTGCAGCTGCTGAACAACAAGAAGAAACGCAAGAACAAAAGCAAGTAACAGCAGCAACAAGA
1140051 AAGAAACG
66 AAGAAACG
1140059 CT
1 CT
1140061 GCTGAAATGA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.48, C:0.20, G:0.22, T:0.10
Consensus pattern (73 bp):
CTACTGCAGCTGCTGAACAACAAGAAGAAACGCAAGAACAAAAGCAAGTAACAGCAGCAACAAGA
AAGAAACG
Found at i:1140332 original size:19 final size:21
Alignment explanation
Indices: 1140291--1140332 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1140281 CCGAATTGGG
**
1140291 AGCAAAAAAAGAGGAAATTAA
1 AGCAAAAAAAGAGGAAAAGAA
1140312 AGCAAAAAAA-A-GAAAAGAA
1 AGCAAAAAAAGAGGAAAAGAA
1140331 AG
1 AG
1140333 AAATCGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 8 0.42
20 1 0.05
21 10 0.53
ACGTcount: A:0.71, C:0.05, G:0.19, T:0.05
Consensus pattern (21 bp):
AGCAAAAAAAGAGGAAAAGAA
Found at i:1140702 original size:23 final size:23
Alignment explanation
Indices: 1140676--1140732 Score: 89
Period size: 22 Copynumber: 2.5 Consensus size: 23
1140666 CGCAACACTC
1140676 CAGCAAGCAAAGCAAAACCAAAA
1 CAGCAAGCAAAGCAAAACCAAAA
*
1140699 CAGCAAGC-AAGCAAAACCGAAA
1 CAGCAAGCAAAGCAAAACCAAAA
*
1140721 TAGCAAGCAAAG
1 CAGCAAGCAAAG
1140733 ATAGAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.56, C:0.25, G:0.18, T:0.02
Consensus pattern (23 bp):
CAGCAAGCAAAGCAAAACCAAAA
Found at i:1143161 original size:105 final size:105
Alignment explanation
Indices: 1143032--1143238 Score: 360
Period size: 105 Copynumber: 2.0 Consensus size: 105
1143022 TTCCATTGAC
* *
1143032 TATCCTATCTTACTCAAAAGGGTTAATTGAGTTTAGTTGTATCCCTAATTCATTTTTCAACCATT
1 TATCCTATCTTACTCAAAAAGGTTAATTGAGTTTAGTTGTACCCCTAATTCATTTTTCAACCATT
*
1143097 TATTTTTAATTCTAAATTTCTTAATTTGGAATTTTTTCAT
66 TATTTTTAATTATAAATTTCTTAATTTGGAATTTTTTCAT
1143137 TATCCTATCTTACTCAAAAAGGTTAATTGAGTTTAGTTGTACCCCTAATTCATTTTTCAACCATT
1 TATCCTATCTTACTCAAAAAGGTTAATTGAGTTTAGTTGTACCCCTAATTCATTTTTCAACCATT
* * *
1143202 TATTTTTAATTATAACTTTTTTAATTTGGATTTTTTT
66 TATTTTTAATTATAAATTTCTTAATTTGGAATTTTTT
1143239 TCAATTTTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (105 bp):
TATCCTATCTTACTCAAAAAGGTTAATTGAGTTTAGTTGTACCCCTAATTCATTTTTCAACCATT
TATTTTTAATTATAAATTTCTTAATTTGGAATTTTTTCAT
Found at i:1145492 original size:85 final size:84
Alignment explanation
Indices: 1145350--1145512 Score: 222
Period size: 85 Copynumber: 1.9 Consensus size: 84
1145340 AGTTGTAGGC
* *
1145350 CAATGCATGATGAATTTAAGAGAAATTATGTTTTTAAATTCATAAAGTTAGCCATATGCTACAAC
1 CAATGCATGATGAATTTAAAAGAAATTATGTTTTTAAATTCATAAAGTTAACCATATGCTACAAC
*
1145415 AACTAATTGGGATTGATAG
66 AACTAATTAGGATTGATAG
* *
1145434 CAATGCATGATTGAATTTAAAAGAAATTAT-TTCTTTAAATTCAT-ATGTTTAACCATATGCTGC
1 CAATGCATGA-TGAATTTAAAAGAAATTATGTT-TTTAAATTCATAAAG-TTAACCATATGCTAC
* *
1145497 AAGATCTAATTAGGAT
63 AACAACTAATTAGGAT
1145513 ATTTGGTGAA
Statistics
Matches: 69, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 14 0.20
85 55 0.80
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (84 bp):
CAATGCATGATGAATTTAAAAGAAATTATGTTTTTAAATTCATAAAGTTAACCATATGCTACAAC
AACTAATTAGGATTGATAG
Found at i:1152854 original size:2 final size:2
Alignment explanation
Indices: 1152847--1152872 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1152837 TGACTCCAAC
1152847 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1152873 GAAATTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1153329 original size:58 final size:57
Alignment explanation
Indices: 1153129--1153321 Score: 201
Period size: 58 Copynumber: 3.4 Consensus size: 57
1153119 GCATAAAAAA
* * *
1153129 CCTAGATCATGG-AAATAACCTAAATGACCCAATCATACATAAAATTACATAAAGGTG
1 CCTAGATCATGGAAAATAACCTAAATGACCCAA-CATATATAAAATTACATAAAAGTT
* ** * *
1153186 CCTAAATCATGGAAAATAAATTAAAAGACCCCAACATATAAAAAATTACATAAAA-TT
1 CCTAGATCATGGAAAATAACCTAAATGA-CCCAACATATATAAAATTACATAAAAGTT
* * * * **
1153243 CCCTAGATTATGGAAAATGACCTAAATGACTACAACATATATGAAATTGTATAAAAGTT
1 -CCTAGATCATGGAAAATAACCTAAATGAC-CCAACATATATAAAATTACATAAAAGTT
*
1153302 CCTAGATCATGAAAAATAAC
1 CCTAGATCATGGAAAATAAC
1153322 TTGAATGATA
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
57 13 0.12
58 89 0.82
59 7 0.06
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (57 bp):
CCTAGATCATGGAAAATAACCTAAATGACCCAACATATATAAAATTACATAAAAGTT
Found at i:1153387 original size:58 final size:58
Alignment explanation
Indices: 1153358--1153568 Score: 180
Period size: 58 Copynumber: 3.7 Consensus size: 58
1153348 GACATAATAG
* *
1153358 TCCCTAAGTTATGGAAAATGATTAAAATGATATAAAAATGCATGAAATATCATAAAAA
1 TCCCTAAGTTATGGAAAATGACTAAAATGATATAAAAATGCATAAAATATCATAAAAA
* * * * * *
1153416 TTCCTTAGTTGTGGAAAATGACTAAAATGATATAAAAATGCATGAAATGTCATAAAAT
1 TCCCTAAGTTATGGAAAATGACTAAAATGATATAAAAATGCATAAAATATCATAAAAA
* * * * * * * * *
1153474 TCCCTAAATCT-TGAAAAAT-AATAAAGTGACA-AAAATTGCATGAAATGA-CCT-AATA
1 TCCCTAAGT-TATGGAAAATGACTAAAATGATATAAAAATGCATAAAAT-ATCATAAAAA
* * * *
1153529 TCCCTAAGTCATAGAAAATGACTAAACTGACATAAAAATG
1 TCCCTAAGTTATGGAAAATGACTAAAATGATATAAAAATG
1153569 AATAGGAATT
Statistics
Matches: 123, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
55 16 0.13
56 26 0.21
57 15 0.12
58 65 0.53
59 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (58 bp):
TCCCTAAGTTATGGAAAATGACTAAAATGATATAAAAATGCATAAAATATCATAAAAA
Found at i:1155407 original size:65 final size:64
Alignment explanation
Indices: 1155275--1155450 Score: 185
Period size: 64 Copynumber: 2.7 Consensus size: 64
1155265 ATGTGGCTAG
** * * * * *
1155275 ACTTGTTTGAAAAGATACAAGTTTG-ACTCTTAAACTATTTAGAAATAAACAAGTTCGACTTCTA
1 ACTTGTTCAAAAAGATACAAG-TTGAACTTTTAACCTATTTAGAAAGAAACAAGCTCAACTTCTA
* * *
1155339 ACTTGTTCAAAAAGATACAAGCTTGAATTTTTGACCTATTTGGAAAGAAACAAGCTCAAACTT-T
1 ACTTGTTCAAAAAGATACAAG-TTGAACTTTTAACCTATTTAGAAAGAAACAAGCTC-AACTTCT
1155403 A
64 A
** * *
1155404 ACTTGTTTGAAAAGATATAAGTTTAACTTTTAACCTATTTAGAAAGA
1 ACTTGTTCAAAAAGATACAAGTTGAACTTTTAACCTATTTAGAAAGA
1155451 TATAGGTTTG
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
64 44 0.48
65 44 0.48
66 4 0.04
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (64 bp):
ACTTGTTCAAAAAGATACAAGTTGAACTTTTAACCTATTTAGAAAGAAACAAGCTCAACTTCTA
Found at i:1155528 original size:61 final size:60
Alignment explanation
Indices: 1155344--1155532 Score: 153
Period size: 61 Copynumber: 3.0 Consensus size: 60
1155334 TTCTAACTTG
* * * * * *
1155344 TTCAAAAAGATACAAGCTTGAATTTTTGACCTATTTGGAAAGAAACAAGCTCAAACTTTAAC
1 TTCAAAAAGATATAAGTTTG-A-TTTTGACCTATTTGGAAAGATATAAGATCAAATTTTAAC
** * * * * * ****
1155406 TTGTTTGAAAAGATATAAGTTTAACTTTTAACCTATTTAGAAAGATATAGGTTTGGTTTTTAAC
1 ---TTCAAAAAGATATAAGTTTGA-TTTTGACCTATTTGGAAAGATATAAGATCAAATTTTAAC
*
1155470 TTCAAAAAGATATAAGTTTGATGTTTGACCTATCTGGAAAGATATAAGATCAAATTTTAAC
1 TTCAAAAAGATATAAGTTTGAT-TTTGACCTATTTGGAAAGATATAAGATCAAATTTTAAC
1155531 TT
1 TT
1155533 ATTAAAAAAA
Statistics
Matches: 94, Mismatches: 29, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
60 1 0.01
61 49 0.52
64 29 0.31
65 15 0.16
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (60 bp):
TTCAAAAAGATATAAGTTTGATTTTGACCTATTTGGAAAGATATAAGATCAAATTTTAAC
Found at i:1155598 original size:127 final size:126
Alignment explanation
Indices: 1155344--1155598 Score: 296
Period size: 127 Copynumber: 2.0 Consensus size: 126
1155334 TTCTAACTTG
* * * *
1155344 TTCAAAAAGATACAAGCTTGAATTTTTGACCTATTTGGAAAGAAACAAGCTCAAACTTTAACTTG
1 TTCAAAAAGATACAAGCTTGAATGTTTGACCTATCTGGAAAGAAACAAGATCAAACTTTAACTTA
** * * * * * * * *
1155409 TTTGAAAAGATATAAGTTTAACTTTTAACCTATTTAGAAAGATATAGGTTTGGTTTTTAAC
66 TTAAAAAAAAAACAAGTTTAACTTCTAACATATTCAAAAAGATATAGGTTTGGCTTTTAAC
* * * * *
1155470 TTCAAAAAGATATAAGTTTG-ATGTTTGACCTATCTGGAAAGATATAAGATCAAATTTTAACTTA
1 TTCAAAAAGATACAAGCTTGAATGTTTGACCTATCTGGAAAGAAACAAGATCAAACTTTAACTTA
**
1155534 TTAAAAAAAAAAAGCAAGTTTGGCTTCTAACATATTCAAAAAGATATAGGTTTGGCTTTTAAC
66 TT-AAAAAAAAAA-CAAGTTTAACTTCTAACATATTCAAAAAGATATAGGTTTGGCTTTTAAC
1155597 TT
1 TT
1155599 GTTCAAGAAT
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
125 39 0.37
126 24 0.23
127 43 0.41
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (126 bp):
TTCAAAAAGATACAAGCTTGAATGTTTGACCTATCTGGAAAGAAACAAGATCAAACTTTAACTTA
TTAAAAAAAAAACAAGTTTAACTTCTAACATATTCAAAAAGATATAGGTTTGGCTTTTAAC
Found at i:1156540 original size:34 final size:34
Alignment explanation
Indices: 1156483--1156577 Score: 113
Period size: 34 Copynumber: 2.8 Consensus size: 34
1156473 GATTGAAAGG
*
1156483 TTCTATCCTAGCCTT-TGAAAAAGATAGGGA-AGAGA
1 TTCTATCTTAG-CTTGT-AAAAAGATAGGGAGA-AGA
*
1156518 TTCTATCTTAGCTTGTAAAAAGATAGGGAGAAGG
1 TTCTATCTTAGCTTGTAAAAAGATAGGGAGAAGA
* *
1156552 TTCTATTTTAGCTTGTGAAAAGATAG
1 TTCTATCTTAGCTTGTAAAAAGATAG
1156578 AGTTGTAAGG
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
34 42 0.78
35 12 0.22
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.32
Consensus pattern (34 bp):
TTCTATCTTAGCTTGTAAAAAGATAGGGAGAAGA
Found at i:1157268 original size:19 final size:19
Alignment explanation
Indices: 1157244--1157293 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1157234 ATTGATACAA
1157244 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1157263 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
*
1157282 TGAATCGATACA
1 TGTATCGATACA
1157294 ATATATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1157364 original size:13 final size:13
Alignment explanation
Indices: 1157346--1157370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1157336 ATTACTCAAA
1157346 TGTATCGATACAT
1 TGTATCGATACAT
1157359 TGTATCGATACA
1 TGTATCGATACA
1157371 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1159329 original size:21 final size:21
Alignment explanation
Indices: 1159303--1159378 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1159293 CTGCCAAGAA
*
1159303 ATGTATCGATATATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
1159324 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1159344 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1159365 ATGTATCGATACAT
1 ATGTATCGATACAT
1159379 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1159348 original size:20 final size:20
Alignment explanation
Indices: 1159323--1159396 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1159313 ATATCTTTTT
1159323 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
1159343 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
1159364 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1159384 CATGTATCGATAC
1 CATGTATCGATAC
1159397 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1159360 original size:41 final size:41
Alignment explanation
Indices: 1159303--1159396 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1159293 CTGCCAAGAA
*
1159303 ATGTATCGATATATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1159344 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1159385 ATGTATCGATAC
1 ATGTATCGATAC
1159397 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1161870 original size:13 final size:13
Alignment explanation
Indices: 1161852--1161890 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1161842 ATAATCACCC
*
1161852 TGTATCGATACAG
1 TGTATCGATACAA
1161865 TGTATCGATACAA
1 TGTATCGATACAA
1161878 TGTATCGATACAA
1 TGTATCGATACAA
1161891 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1161901 original size:20 final size:20
Alignment explanation
Indices: 1161876--1161954 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1161866 GTATCGATAC
1161876 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1161896 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
1161921 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1161941 CATGTATCGATACA
1 AATGTATCGATACA
1161955 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1165824 original size:21 final size:21
Alignment explanation
Indices: 1165795--1165839 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1165785 AAGTTTTCAT
*
1165795 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1165815 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1165837 TTT
1 TTT
1165840 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1166314 original size:20 final size:20
Alignment explanation
Indices: 1166291--1166363 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1166281 ACAATTCAAA
1166291 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
1166311 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
1166332 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1166352 GTATCGATACAT
1 GTATCGATACAT
1166364 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1166342 original size:41 final size:42
Alignment explanation
Indices: 1166291--1166385 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
1166281 ACAATTCAAA
*
1166291 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1166332 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1166374 GTATCGATACAT
1 GTATCGATACAT
1166386 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1166442 original size:13 final size:13
Alignment explanation
Indices: 1166424--1166449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1166414 TACAGCAAGT
1166424 ATGTATCGATACA
1 ATGTATCGATACA
1166437 ATGTATCGATACA
1 ATGTATCGATACA
1166450 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1170390 original size:15 final size:15
Alignment explanation
Indices: 1170370--1170400 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1170360 TAAAAATGTC
*
1170370 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1170385 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1170400 C
1 C
1170401 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Done.