Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 286 of 335
Found at i:86323941 original size:14 final size:15
Alignment explanation
Indices: 86323922--86324031 Score: 87
Period size: 18 Copynumber: 6.5 Consensus size: 15
86323912 AATCTTCAAT
86323922 GATATG-CAATCTTA
1 GATATGACAATCTTA
86323936 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
86323953 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
86323971 GATATGATATGCAATCTTA
1 GATATG--A--CAATCTTA
86323990 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
86324007 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
86324025 GATATGA
1 GATATGA
86324032 TATGCAATCT
Statistics
Matches: 85, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
14 6 0.07
15 2 0.02
17 28 0.33
18 29 0.34
19 19 0.22
20 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:86323966 original size:35 final size:36
Alignment explanation
Indices: 86323920--86324045 Score: 195
Period size: 35 Copynumber: 3.5 Consensus size: 36
86323910 ATAATCTTCA
86323920 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
86323956 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATA--CAATCTTAGAT
*
86323993 ATGATA--CAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGA-TACAATCTTAGAT
86324028 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
86324046 AGATATGATT
Statistics
Matches: 83, Mismatches: 1, Indels: 11
0.87 0.01 0.12
Matches are distributed among these distances:
35 36 0.43
36 20 0.24
37 27 0.33
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGAT
Found at i:86323978 original size:54 final size:54
Alignment explanation
Indices: 86323920--86324045 Score: 252
Period size: 54 Copynumber: 2.3 Consensus size: 54
86323910 ATAATCTTCA
86323920 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
86323974 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
86324028 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
86324046 AGATATGATT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (54 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGAT
Found at i:86324052 original size:17 final size:19
Alignment explanation
Indices: 86323920--86324045 Score: 210
Period size: 19 Copynumber: 6.9 Consensus size: 19
86323910 ATAATCTTCA
86323920 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
86323939 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
86323956 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
86323974 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
86323993 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
86324010 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
86324028 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
86324046 AGATATGATT
Statistics
Matches: 101, Mismatches: 0, Indels: 12
0.89 0.00 0.11
Matches are distributed among these distances:
17 32 0.32
18 32 0.32
19 37 0.37
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:86324071 original size:22 final size:22
Alignment explanation
Indices: 86323920--86324068 Score: 103
Period size: 19 Copynumber: 7.8 Consensus size: 22
86323910 ATAATCTTCA
86323920 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
86323939 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
86323956 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
86323974 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
86323993 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
86324010 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
86324028 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
86324050 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
86324069 GATTTAATTT
Statistics
Matches: 118, Mismatches: 2, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
17 32 0.27
18 32 0.27
19 34 0.29
22 8 0.07
23 12 0.10
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:86324552 original size:18 final size:17
Alignment explanation
Indices: 86324528--86324587 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
86324518 CCAATATATT
86324528 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
86324545 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
86324561 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
86324579 TTATATTTT
1 TTATATTTT
86324588 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:86324572 original size:15 final size:16
Alignment explanation
Indices: 86324529--86324587 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
86324519 CAATATATTT
86324529 TATATTTTTTATATAA
1 TATATTTTTTATATAA
86324545 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
86324561 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
86324579 TTATATTTT
1 -TATATTTT
86324588 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:86324612 original size:26 final size:26
Alignment explanation
Indices: 86324564--86324613 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
86324554 TTATAAATAT
* * * *
86324564 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
86324590 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
86324614 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:86325752 original size:20 final size:21
Alignment explanation
Indices: 86325727--86325765 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
86325717 CTCCCGTTTT
*
86325727 CATTTTTTAAAA-TCGATTCC
1 CATTTTTCAAAACTCGATTCC
86325747 CATTTTTCAAAACTCGATT
1 CATTTTTCAAAACTCGATT
86325766 TGAAAATGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.44
Consensus pattern (21 bp):
CATTTTTCAAAACTCGATTCC
Found at i:86325837 original size:25 final size:22
Alignment explanation
Indices: 86325788--86325837 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 22
86325778 CGACATCCTC
*
86325788 ACTATTCTAATTTAATTTTAAT
1 ACTATTCTAATTTAACTTTAAT
*
86325810 ACTATTCATAATATTATACTTTATT
1 ACTATTC-TAAT-TTA-ACTTTAAT
86325835 ACT
1 ACT
86325838 GTTATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 4 0.17
24 3 0.13
25 9 0.39
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (22 bp):
ACTATTCTAATTTAACTTTAAT
Found at i:86326077 original size:21 final size:22
Alignment explanation
Indices: 86326044--86326092 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
86326034 TATATACGTG
*
86326044 TATTTTATGTATATTATGTATA
1 TATTTTATATATATTATGTATA
*
86326066 TATTTTA-ATATATTATGTGTA
1 TATTTTATATATATTATGTATA
86326087 TATTTT
1 TATTTT
86326093 GTTTTGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (22 bp):
TATTTTATATATATTATGTATA
Found at i:86326482 original size:2 final size:2
Alignment explanation
Indices: 86326475--86326509 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
86326465 TATTACTATC
86326475 AT AT AT AT 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 AT AT AT AT A
86326510 CTATGTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:86328120 original size:2 final size:2
Alignment explanation
Indices: 86328113--86328143 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
86328103 TAAAAACTAA
86328113 AT AT 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 AT AT A
86328144 ATGATAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86329774 original size:21 final size:21
Alignment explanation
Indices: 86329736--86329776 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
86329726 TAAAATAAAT
*
86329736 TATTTAAAAAATTCATAAAAA
1 TATTTAAAAAATACATAAAAA
*
86329757 TATTTAAAAAATAGATAAAA
1 TATTTAAAAAATACATAAAA
86329777 TTGGTTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
TATTTAAAAAATACATAAAAA
Found at i:86330106 original size:19 final size:19
Alignment explanation
Indices: 86330059--86330108 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
86330049 AAAAATAGGG
86330059 AAAAAAAT-AAAGAAAGAT
1 AAAAAAATAAAAGAAAGAT
*
86330077 AAATAATATAAAAGAAA-AT
1 AAA-AAAATAAAAGAAAGAT
86330096 AAGAAAAATAAAA
1 AA-AAAAATAAAA
86330109 AGAATTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 3 0.11
19 16 0.59
20 8 0.30
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (19 bp):
AAAAAAATAAAAGAAAGAT
Found at i:86331631 original size:45 final size:45
Alignment explanation
Indices: 86331575--86331662 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
86331565 CACCATTGGG
* *
86331575 CGGTCTGAAGAAGAAGAGAAACCATTATGTCGAAGGTGGAGATAT
1 CGGTCTAAAGAAGAAGAGAAACCATTACGTCGAAGGTGGAGATAT
* *
86331620 CGGTCTAAAGAAGAAGAGGAACCATTACGTTGAAGGTGGAGAT
1 CGGTCTAAAGAAGAAGAGAAACCATTACGTCGAAGGTGGAGAT
86331663 GTCTGCAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.11, G:0.32, T:0.19
Consensus pattern (45 bp):
CGGTCTAAAGAAGAAGAGAAACCATTACGTCGAAGGTGGAGATAT
Found at i:86331984 original size:15 final size:15
Alignment explanation
Indices: 86331966--86331997 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
86331956 TACATTAAGA
86331966 ATATTATTAAATTAT
1 ATATTATTAAATTAT
86331981 ATATTATTAAATTAT
1 ATATTATTAAATTAT
86331996 AT
1 AT
86331998 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATTAAATTAT
Found at i:86332215 original size:16 final size:16
Alignment explanation
Indices: 86332202--86332244 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
86332192 TGATTACAGT
86332202 TCTATTCCATTACAAC
1 TCTATTCCATTACAAC
*
86332218 TCTATTTCATTACAAC
1 TCTATTCCATTACAAC
*
86332234 CCTATTCCATT
1 TCTATTCCATT
86332245 TCCCCCAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (16 bp):
TCTATTCCATTACAAC
Found at i:86332555 original size:16 final size:18
Alignment explanation
Indices: 86332523--86332566 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
86332513 TCCAGCTAAG
*
86332523 TAAATTAATT-TATTTT-
1 TAAATTAATTGAATTTTC
*
86332539 TTAATTAATTGAATTTTC
1 TAAATTAATTGAATTTTC
86332557 TAAATTAATT
1 TAAATTAATT
86332567 AAAGGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 9 0.39
17 5 0.22
18 9 0.39
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TAAATTAATTGAATTTTC
Found at i:86335394 original size:21 final size:21
Alignment explanation
Indices: 86335365--86335412 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
86335355 TGGGGAGACT
*
86335365 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
*
86335386 ACTCCACCCTACCAGCCATAC
1 ACTCCACCCTACCAACCATAC
86335407 ACTCCA
1 ACTCCA
86335413 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.33, C:0.52, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Found at i:86337178 original size:26 final size:26
Alignment explanation
Indices: 86337140--86337197 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
86337130 TATGATATTC
86337140 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
86337166 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
86337192 TTATCA
1 TTATCA
86337198 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:86338291 original size:26 final size:26
Alignment explanation
Indices: 86338262--86338345 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
86338252 TGGTACAAAT
* *
86338262 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
86338288 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
86338314 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
86338340 TGATAA
1 TGATAA
86338346 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:86339858 original size:26 final size:26
Alignment explanation
Indices: 86339806--86339858 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
86339796 TTTACAGTTT
*
86339806 TACCCCTAGGAGATAAATTATCAAAA
1 TACCCCTAGGAGATAAATTACCAAAA
* *
86339832 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCAAAA
86339858 T
1 T
86339859 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:0.13, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCAAAA
Found at i:86342614 original size:11 final size:11
Alignment explanation
Indices: 86342594--86342622 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
86342584 CTTCCCTCCC
86342594 CTCTCCCTCTT
1 CTCTCCCTCTT
86342605 CTCTCCCTCTT
1 CTCTCCCTCTT
86342616 CTCTCCC
1 CTCTCCC
86342623 CTTTTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (11 bp):
CTCTCCCTCTT
Found at i:86343246 original size:14 final size:14
Alignment explanation
Indices: 86343211--86343247 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
86343201 TTTTTTTATA
86343211 TTATATATA-TGTG
1 TTATATATATTGTG
*
86343224 TTTTA-ATATTGTG
1 TTATATATATTGTG
86343237 TTATATATATT
1 TTATATATATT
86343248 ATATACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
12 3 0.15
13 12 0.60
14 5 0.25
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (14 bp):
TTATATATATTGTG
Found at i:86343731 original size:15 final size:15
Alignment explanation
Indices: 86343713--86343741 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
86343703 ATCGTGTATA
86343713 TTTTTATTTCTATTT
1 TTTTTATTTCTATTT
86343728 TTTTTATTTCTATT
1 TTTTTATTTCTATT
86343742 AACCATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTATTTCTATTT
Found at i:86343901 original size:19 final size:19
Alignment explanation
Indices: 86343877--86343913 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
86343867 ATTTTTTTTT
*
86343877 TCAATATGTATATATTATG
1 TCAATATGTAAATATTATG
*
86343896 TCAATATTTAAATATTAT
1 TCAATATGTAAATATTAT
86343914 ATTACATGCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (19 bp):
TCAATATGTAAATATTATG
Found at i:86344172 original size:2 final size:2
Alignment explanation
Indices: 86344165--86344189 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
86344155 TATTACTACT
86344165 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
86344190 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86345997 original size:17 final size:17
Alignment explanation
Indices: 86345961--86346004 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
86345951 CCGATTTGAA
*
86345961 AAAAAGAAAGAAATATAAT
1 AAAAAG-AA-AAATAAAAT
*
86345980 AAACAGAAAAATAAAAT
1 AAAAAGAAAAATAAAAT
86345997 AAAAAGAA
1 AAAAAGAA
86346005 CCAAGAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 15 0.68
18 2 0.09
19 5 0.23
ACGTcount: A:0.77, C:0.02, G:0.09, T:0.11
Consensus pattern (17 bp):
AAAAAGAAAAATAAAAT
Found at i:86354450 original size:20 final size:21
Alignment explanation
Indices: 86354421--86354469 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
86354411 GATTTTATGC
86354421 TTTTAATATT-TA-ATTAATT
1 TTTTAATATTGTATATTAATT
*
86354440 TTTTAAATATTGTATTTTAATT
1 TTTT-AATATTGTATATTAATT
86354462 TTTGTAAT
1 TTT-TAAT
86354470 TAATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 6 0.24
21 2 0.08
22 12 0.48
23 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TTTTAATATTGTATATTAATT
Found at i:86354521 original size:29 final size:30
Alignment explanation
Indices: 86354456--86354521 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
86354446 ATATTGTATT
86354456 TTAATT-TTTGTAATTAATATAAAATAATA
1 TTAATTATTTGTAATTAATATAAAATAATA
*
86354485 TTTATTATTTG-AATATAAT-TAAAAT-ATA
1 TTAATTATTTGTAAT-TAATATAAAATAATA
86354513 TTAACTTAT
1 TTAA-TTAT
86354522 CAATTCAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 6 0.19
29 18 0.56
30 8 0.25
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (30 bp):
TTAATTATTTGTAATTAATATAAAATAATA
Found at i:86364750 original size:2 final size:2
Alignment explanation
Indices: 86364743--86364781 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
86364733 AGTATACTCC
86364743 TA 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 TA T
86364782 GGAAATTACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:86364860 original size:24 final size:24
Alignment explanation
Indices: 86364833--86364895 Score: 108
Period size: 24 Copynumber: 2.6 Consensus size: 24
86364823 GGGTTACAAT
86364833 AAGATGAAAGGTGAAGAGTTAAGG
1 AAGATGAAAGGTGAAGAGTTAAGG
*
86364857 AAGATGATAGGTGAAGAGTTAAGG
1 AAGATGAAAGGTGAAGAGTTAAGG
*
86364881 AAGATGACAGGTGAA
1 AAGATGAAAGGTGAA
86364896 AGGTCGATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.44, C:0.02, G:0.37, T:0.17
Consensus pattern (24 bp):
AAGATGAAAGGTGAAGAGTTAAGG
Found at i:86377438 original size:34 final size:34
Alignment explanation
Indices: 86377365--86377439 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
86377355 GTACAGCATG
*
86377365 ACTGC-TACTGATACTGTGATGGGCTAAGGCCCT
1 ACTGCATACTAATACTGTGATGGGCTAAGGCCCT
* *
86377398 AATGCATACTAATACTGTGATGGGCTAAGGCCTT
1 ACTGCATACTAATACTGTGATGGGCTAAGGCCCT
*
86377432 GCTGCATA
1 ACTGCATA
86377440 TTTGATATTG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 4 0.11
34 32 0.89
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (34 bp):
ACTGCATACTAATACTGTGATGGGCTAAGGCCCT
Found at i:86383526 original size:17 final size:16
Alignment explanation
Indices: 86383506--86383539 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
86383496 CTACTTTTTC
*
86383506 TCTTTTTCTTCCTTCTT
1 TCTTTCTCTT-CTTCTT
86383523 TCTTTCTCTTCTTCTT
1 TCTTTCTCTTCTTCTT
86383539 T
1 T
86383540 GTTCTCTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (16 bp):
TCTTTCTCTTCTTCTT
Found at i:86384752 original size:41 final size:40
Alignment explanation
Indices: 86384679--86384764 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 40
86384669 GCATGATTGC
* * *
86384679 TACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTAA
1 TACTGATACTGAGATAGGCTAAGGCCCAACTGC-TATTTAA
*
86384720 TACTG-TACTGAGATAGGCTAAGGCCCAAACTGCTA-TTGA
1 TACTGATACTGAGATAGGCTAAGGCCC-AACTGCTATTTAA
86384759 TACTGA
1 TACTGA
86384765 AAGGGGATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
39 8 0.21
40 21 0.54
41 10 0.26
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (40 bp):
TACTGATACTGAGATAGGCTAAGGCCCAACTGCTATTTAA
Found at i:86386898 original size:18 final size:19
Alignment explanation
Indices: 86386864--86386899 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
86386854 GATATTTAAA
*
86386864 GAAAATCATTCGTGTTTAG
1 GAAAAACATTCGTGTTTAG
86386883 GAAAAACATT-GTGTTTA
1 GAAAAACATTCGTGTTTA
86386900 ATAAAACTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (19 bp):
GAAAAACATTCGTGTTTAG
Found at i:86386905 original size:18 final size:19
Alignment explanation
Indices: 86386862--86386905 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
86386852 GTGATATTTA
*
86386862 AAGAAAATCATTCGTGTTT
1 AAGAAAAACATTCGTGTTT
*
86386881 AGGAAAAACATT-GTGTTT
1 AAGAAAAACATTCGTGTTT
*
86386899 AATAAAA
1 AAGAAAA
86386906 CTGAGTTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (19 bp):
AAGAAAAACATTCGTGTTT
Found at i:86390235 original size:29 final size:29
Alignment explanation
Indices: 86390193--86390255 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
86390183 CATGGGATAC
86390193 ATAGTTTTCACAACTGGGAGACCTCGTGG
1 ATAGTTTTCACAACTGGGAGACCTCGTGG
86390222 ATAGTTTTCACAACTGGGAGACCTCGTGG
1 ATAGTTTTCACAACTGGGAGACCTCGTGG
*
86390251 CTAGT
1 ATAGT
86390256 GAAAATGATC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (29 bp):
ATAGTTTTCACAACTGGGAGACCTCGTGG
Found at i:86390998 original size:26 final size:26
Alignment explanation
Indices: 86390969--86391025 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
86390959 TTGTTTTCTT
*
86390969 TTTAAAAAATATATTTTCTAATTCAA
1 TTTAAAAAATATATTCTCTAATTCAA
**
86390995 TTTAATTAATATATTCTCTAATTCAA
1 TTTAAAAAATATATTCTCTAATTCAA
*
86391021 CTTAA
1 TTTAA
86391026 TTTTAGTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (26 bp):
TTTAAAAAATATATTCTCTAATTCAA
Found at i:86391026 original size:26 final size:26
Alignment explanation
Indices: 86390976--86391027 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
86390966 CTTTTTAAAA
* *
86390976 AATATATTTTCTAATTCAATTTAATT
1 AATATATTCTCTAATTCAACTTAATT
86391002 AATATATTCTCTAATTCAACTTAATT
1 AATATATTCTCTAATTCAACTTAATT
86391028 TTAGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (26 bp):
AATATATTCTCTAATTCAACTTAATT
Found at i:86396403 original size:19 final size:19
Alignment explanation
Indices: 86396379--86396440 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
86396369 ACCTTGGCAT
*
86396379 ATCTGCTATTTGAATATGA
1 ATCTGCTATCTGAATATGA
*
86396398 ATCTGCTATCTGAATCTGA
1 ATCTGCTATCTGAATATGA
* * * *
86396417 ATATGATATCTAAATCTGA
1 ATCTGCTATCTGAATATGA
86396436 ATCTG
1 ATCTG
86396441 AAACTGAGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (19 bp):
ATCTGCTATCTGAATATGA
Found at i:86396414 original size:6 final size:6
Alignment explanation
Indices: 86396389--86396447 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
86396379 ATCTGCTATT
* * * *
86396389 TGAATA TGAATC TGCTATC TGAATC TGAATA TGATATC TAAATC TGAATC
1 TGAATC TGAATC TG-AATC TGAATC TGAATC TGA-ATC TGAATC TGAATC
*
86396439 TGAAAC TGA
1 TGAATC TGA
86396448 GTCTATATCT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 34 0.79
7 9 0.21
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (6 bp):
TGAATC
Found at i:86414115 original size:137 final size:137
Alignment explanation
Indices: 86413869--86414155 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
86413859 CATTGGGCCT
**
86413869 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
86413934 AACCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AACCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
86413999 CATATGC
131 CATATGC
86414006 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
86414071 AGCCCCTTATTCAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AACCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
86414136 CATATGC
131 CATATGC
86414143 AAGCCCATTTGGG
1 AAGCCCATTTGGG
86414156 GAGACTACTC
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AACCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:86415969 original size:26 final size:26
Alignment explanation
Indices: 86415938--86416045 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
86415928 ATGAAATTCC
*
86415938 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
86415964 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
86415990 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
86416016 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86416042 ATCA
1 ATCA
86416046 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:86420303 original size:17 final size:17
Alignment explanation
Indices: 86420284--86420316 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
86420274 TTTTCGCAAA
86420284 AAAAT-TTTTGTTTTTG
1 AAAATCTTTTGTTTTTG
*
86420300 AAAATCTTTTTTTTTTG
1 AAAATCTTTTGTTTTTG
86420317 TAAACCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.24, C:0.03, G:0.09, T:0.64
Consensus pattern (17 bp):
AAAATCTTTTGTTTTTG
Found at i:86421332 original size:137 final size:137
Alignment explanation
Indices: 86421086--86421509 Score: 758
Period size: 137 Copynumber: 3.1 Consensus size: 137
86421076 TATTGGGCCT
** *
86421086 AAGCCCATTCAGGTAACAGTAGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
86421151 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
86421216 CATATGC
131 CATATGC
*
86421223 AAGCCCATTTGGGTAACAGTGGTACTGGGCTAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
86421288 AGCCCATTATTCAGATAACAGTATAGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
86421353 CATATGC
131 CATATGC
* *
86421360 AAGCTCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
86421425 AGCCCCTTATTTAGATAATAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
86421490 CATATGC
131 CATATGC
86421497 AAGCCCATTTGGG
1 AAGCCCATTTGGG
86421510 AAGACTACTC
Statistics
Matches: 273, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 273 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:86423324 original size:26 final size:26
Alignment explanation
Indices: 86423293--86423400 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
86423283 TGAAATTCCC
*
86423293 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
86423319 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
86423345 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
86423371 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86423397 ATCA
1 ATCA
86423401 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:86424231 original size:25 final size:25
Alignment explanation
Indices: 86424135--86424270 Score: 77
Period size: 25 Copynumber: 5.5 Consensus size: 25
86424125 GTATAACAAG
* * *
86424135 AAGCTCATA-AGAGCCGTAATCGGG
1 AAGCTCATAGAGAGCCATTATCGGA
* * *
86424159 AAGTTCA-AGCGAGCCAATATCAGGA
1 AAGCTCATAGAGAGCCATTATC-GGA
*
86424184 AA-CTC-TAGAGAGTCATTAATCGGA
1 AAGCTCATAGAGAGCCATT-ATCGGA
*
86424208 AAGCTCATAG-GAGCCAGTTATCGGG
1 AAGCTCATAGAGAGCCA-TTATCGGA
* * * *
86424233 AAGCTCACA-AGAACCATATAACGGG
1 AAGCTCATAGAGAGCCAT-TATCGGA
86424258 AAGCTCATTAGAG
1 AAGCTCA-TAGAG
86424271 CCAAATATGG
Statistics
Matches: 85, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
23 1 0.01
24 30 0.35
25 46 0.54
26 6 0.07
27 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
AAGCTCATAGAGAGCCATTATCGGA
Found at i:86428516 original size:27 final size:28
Alignment explanation
Indices: 86428459--86428516 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
86428449 TTGTTTTATG
* **
86428459 TATTTCCCTTTAAATCTATTTCATTGTA
1 TATTTCCCTTTAAATCAATTTCATTACA
* *
86428487 TATTTCCTTTTAAATCAATTTTA-TACA
1 TATTTCCCTTTAAATCAATTTCATTACA
86428514 TAT
1 TAT
86428517 ATATATCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.29, C:0.16, G:0.02, T:0.53
Consensus pattern (28 bp):
TATTTCCCTTTAAATCAATTTCATTACA
Found at i:86429453 original size:133 final size:131
Alignment explanation
Indices: 86429168--86429597 Score: 350
Period size: 131 Copynumber: 3.3 Consensus size: 131
86429158 CGTTATTTGA
* * * * * ***
86429168 CAATTCGTGGAATCGTGCCCTAACGTGTTAGGTTGCAATTTC-TCATTTGCTCAAAGTAATCAAA
1 CAATTCG-GGAATCGTGCCCTATCGTGCTGGGTTGC-GTTTCTTCATTTGTTCAAAACGATCAAA
* * * ** * * * ** *
86429232 GGTCCTTTCAAAATTTCACTCGTGTCTTCTAAAAATCCC-TTAAAA-CGAAGGCAATACTCGGTG
64 GATCCCTTCAGAATTTCACTCACGTTTTCTAAAAA-CCCTTTAAAATC-AAAGAAATGTTCGATG
86429295 TTT-G
127 TTTAG
* * * *
86429299 ATAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTT-GTTTGTTCAAAACGATCAAA
1 -CAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCG-TTTCTTCATTTGTTCAAAACGATCAAA
* * ** * * **
86429363 TATTCCTTCAGGTTTTCACTCATGTTTTTTAAGAAAACCCTTTAAAA-CAAAGGCGATGTTCGAT
64 GATCCCTTCAGAATTTCACTCACGTTTTCT-A-AAAACCCTTTAAAATCAAA-GAAATGTTCGAT
*
86429427 GTTTGG
126 GTTTAG
* * * * *
86429433 CAATTCGAGAATCGTACCCTACCGTGCTGGGTTGCGTTTTTTCATTTGTTCAAAACGATCGAAGA
1 CAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGTTTCTTCATTTGTTCAAAACGATCAAAGA
* * *
86429498 TCCCTTCAGAATTTCACTCACGTTTTCTAAAAACTCTTTAAAATGAAAGAAATGTTTGATGTTTA
66 TCCCTTCAGAATTTCACTCACGTTTTCTAAAAACCCTTTAAAATCAAAGAAATGTTCGATGTTTA
86429563 G
131 G
* *
86429564 CAATTCGGGGAATAGTGCCCTATCGTGCCGGGTT
1 CAATTC-GGGAATCGTGCCCTATCGTGCTGGGTT
86429598 ACAATCTCCC
Statistics
Matches: 235, Mismatches: 53, Indels: 20
0.76 0.17 0.06
Matches are distributed among these distances:
131 95 0.40
132 44 0.19
133 95 0.40
134 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (131 bp):
CAATTCGGGAATCGTGCCCTATCGTGCTGGGTTGCGTTTCTTCATTTGTTCAAAACGATCAAAGA
TCCCTTCAGAATTTCACTCACGTTTTCTAAAAACCCTTTAAAATCAAAGAAATGTTCGATGTTTA
G
Found at i:86431512 original size:21 final size:21
Alignment explanation
Indices: 86431488--86431534 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
86431478 ATTAAAGTGT
86431488 TAAAA-TTT-ACATAAATATATG
1 TAAAACTTTAACAT-AAT-TATG
86431509 TAAAACTTTAAACATAATTATG
1 TAAAACTTT-AACATAATTATG
86431531 TAAA
1 TAAA
86431535 TAGTGGATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
21 5 0.22
22 11 0.48
23 3 0.13
24 4 0.17
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (21 bp):
TAAAACTTTAACATAATTATG
Found at i:86436890 original size:2 final size:2
Alignment explanation
Indices: 86436883--86436918 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
86436873 TGTTAATTAC
86436883 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
86436919 TGAGTATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86450301 original size:105 final size:105
Alignment explanation
Indices: 86450155--86450945 Score: 876
Period size: 105 Copynumber: 7.5 Consensus size: 105
86450145 TGGAGGTATA
* * ** *
86450155 TCAGCAAGCTATTCAGGAGTTGTAATCTTAAATCAACTAACTCAAATAAACTTAAGTTGCGATCT
1 TCAGCGAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCT
* * * *
86450220 TAAATCAACTAACCTTCACAATATTAGCTGTGAACGTAGG
66 TAAATCAGCTAACCTTCATAATATCAGCTGTGAACATAGG
* * * * *
86450260 TCAGCGAGCTGTTTAGGAGTTGCGATATTAAATCAATTAACTTAAATAAACTTAGGTTGCAATCT
1 TCAGCGAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCT
* **
86450325 TAAATTAGCTAACCTT--TAATATCAGCTGTGAATGTAGG
66 TAAATCAGCTAACCTTCATAATATCAGCTGTGAACATAGG
** * * *
86450363 TCAGCGAGCTATTTAAAAGTTGCGATCTTAAATAAACTAACTCAAATAAACTTAGGTTGCAATAT
1 TCAGCGAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCT
* * * *
86450428 TAAATCAGCTAACCTTTATAATATTAGATGTGAAAATAGG
66 TAAATCAGCTAACCTTCATAATATCAGCTGTGAACATAGG
* * * * * * * *
86450468 TCAGCGAGCTGTTTAGAAGTTGAGATATTAAATCAATTAACTCAAATAAACATAGGTTGCAATAT
1 TCAGCGAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCT
** * *
86450533 TAAATCAATTAACCTTCATAATATCAACTATGAACATAGG
66 TAAATCAGCTAACCTTCATAATATCAGCTGTGAACATAGG
* * * * * *
86450573 TC-GACGAGCTGTATAAGAGTTGCTATCTTAAAT-AACTAATTAAAATAAACTTAGGTTGCGATC
1 TCAG-CGAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATC
* * * * **
86450636 TTTAATCAGCTAACCTTTAAAAATATCTGCTGCAAACATAGG
65 TTAAATCAGCTAACC-TTCATAATATCAGCTGTGAACATAGG
* * * *
86450678 TCGGCGAGTTATTTAGGAGTTGCAATCTTAAATCAACTAACTCAAATAAACTTAGGTTACGATCT
1 TCAGCGAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCT
*
86450743 TAAATCAGCTAACC-TCTATAATATCAGTTGTGAACATAGG
66 TAAATCAGCTAACCTTC-ATAATATCAGCTGTGAACATAGG
* ** * * * * *
86450783 TTAGCGAGCTATTTAGGAGTTGTTATCCTAAAATCAACTAACTTAAATTAACTTAGGTTGTGATT
1 TCAGCGAGCTATTTAGGAGTTGCGAT-CTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATC
* *
86450848 TTAAATCAGCTAAACCTT-ATAATATCAGATGTGAACGTAGG
65 TTAAATCAGCT-AACCTTCATAATATCAGCTGTGAACATAGG
**
86450889 TCATTGAGCTATTTAGGAGTTGCGATC-TAAAGTCAACTAACTCAAATAAACTTAGGT
1 TCAGCGAGCTATTTAGGAGTTGCGATCTTAAA-TCAACTAACTCAAATAAACTTAGGT
86450946 ATAAACATTT
Statistics
Matches: 574, Mismatches: 101, Indels: 22
0.82 0.14 0.03
Matches are distributed among these distances:
103 91 0.16
104 41 0.07
105 310 0.54
106 127 0.22
107 4 0.01
108 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (105 bp):
TCAGCGAGCTATTTAGGAGTTGCGATCTTAAATCAACTAACTCAAATAAACTTAGGTTGCGATCT
TAAATCAGCTAACCTTCATAATATCAGCTGTGAACATAGG
Found at i:86452856 original size:29 final size:29
Alignment explanation
Indices: 86452791--86452849 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
86452781 ATTAATATCA
86452791 AACCCTAATATTTAGTCTTTTCACAATTT
1 AACCCTAATATTTAGTCTTTTCACAATTT
86452820 AACCCTAATATTTAGTCTTTTCACAATTT
1 AACCCTAATATTTAGTCTTTTCACAATTT
86452849 A
1 A
86452850 GTCCTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.44
Consensus pattern (29 bp):
AACCCTAATATTTAGTCTTTTCACAATTT
Found at i:86457882 original size:19 final size:19
Alignment explanation
Indices: 86457858--86457895 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
86457848 ATATTGTTTG
86457858 TTTATTTTTGTACGTAGGT
1 TTTATTTTTGTACGTAGGT
86457877 TTTATTTTTGTACGTAGGT
1 TTTATTTTTGTACGTAGGT
86457896 ACCATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.05, G:0.21, T:0.58
Consensus pattern (19 bp):
TTTATTTTTGTACGTAGGT
Found at i:86460908 original size:25 final size:24
Alignment explanation
Indices: 86460880--86460936 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
86460870 TTTGACTTTT
* *
86460880 TTAAAAGATTAATGATCAAATTTAA
1 TTAAAAAAATAATGATCAAA-TTAA
86460905 TTAAATAAAATAATGATCAAATTAA
1 TTAAA-AAAATAATGATCAAATTAA
86460930 -TAAAAAA
1 TTAAAAAA
86460937 GTATAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.10
24 4 0.14
25 9 0.31
26 13 0.45
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (24 bp):
TTAAAAAAATAATGATCAAATTAA
Found at i:86461498 original size:20 final size:21
Alignment explanation
Indices: 86461475--86461513 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
86461465 ACTTTTTTTT
*
86461475 AAAAAAAATTATAA-AAATCC
1 AAAAAAAATAATAATAAATCC
86461495 AAAAAAAATAATAATAAAT
1 AAAAAAAATAATAATAAAT
86461514 TATGTTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (21 bp):
AAAAAAAATAATAATAAATCC
Found at i:86466191 original size:13 final size:13
Alignment explanation
Indices: 86466173--86466197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
86466163 TAAAGATAAT
86466173 TAAAATTAAATCC
1 TAAAATTAAATCC
86466186 TAAAATTAAATC
1 TAAAATTAAATC
86466198 ATCCTAATAA
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAAATTAAATCC
Found at i:86466225 original size:15 final size:15
Alignment explanation
Indices: 86466205--86466234 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86466195 ATCATCCTAA
*
86466205 TAATTATCTTAATAT
1 TAATTATCCTAATAT
86466220 TAATTATCCTAATAT
1 TAATTATCCTAATAT
86466235 AAATAAAATG
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:86471228 original size:9 final size:9
Alignment explanation
Indices: 86471210--86471264 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 9
86471200 AAATTTTAAG
*
86471210 TATAAGATA
1 TATAATATA
86471219 TATAATATA
1 TATAATATA
86471228 TATAATATA
1 TATAATATA
*
86471237 T-TATTATA
1 TATAATATA
*
86471245 -ATAATTTA
1 TATAATATA
86471253 -ATAATATA
1 TATAATATA
86471261 -ATAA
1 TATAA
86471265 AGCATAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
8 22 0.55
9 18 0.45
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (9 bp):
TATAATATA
Found at i:86473244 original size:23 final size:23
Alignment explanation
Indices: 86473214--86473259 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
86473204 AAAATTTAGT
86473214 TTACCACACATCCTAGCCACATG
1 TTACCACACATCCTAGCCACATG
86473237 TTACCACACATCCTAGCCACATG
1 TTACCACACATCCTAGCCACATG
86473260 GGTGTGTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.39, G:0.09, T:0.22
Consensus pattern (23 bp):
TTACCACACATCCTAGCCACATG
Found at i:86475370 original size:21 final size:21
Alignment explanation
Indices: 86475344--86475383 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
86475334 TCAATGCTCT
86475344 TAACTAACATTTTTTATTGGC
1 TAACTAACATTTTTTATTGGC
86475365 TAACTAACATTTTTTATTG
1 TAACTAACATTTTTTATTG
86475384 AATGAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.50
Consensus pattern (21 bp):
TAACTAACATTTTTTATTGGC
Found at i:86476643 original size:27 final size:27
Alignment explanation
Indices: 86476613--86476667 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
86476603 TGGGCTATTA
86476613 TGAGCTTAGTCAAGAAGATGGAGACTT
1 TGAGCTTAGTCAAGAAGATGGAGACTT
86476640 TGAGCTTAGTCAAGAAGATGGAGACTT
1 TGAGCTTAGTCAAGAAGATGGAGACTT
86476667 T
1 T
86476668 ACCCATTCGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (27 bp):
TGAGCTTAGTCAAGAAGATGGAGACTT
Found at i:86480871 original size:18 final size:18
Alignment explanation
Indices: 86480848--86480883 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
86480838 GACCGTTTAT
*
86480848 GGCACTATTCATGTATAC
1 GGCACTATTCACGTATAC
86480866 GGCACTATTCACGTATAC
1 GGCACTATTCACGTATAC
86480884 AGTAGTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.31
Consensus pattern (18 bp):
GGCACTATTCACGTATAC
Found at i:86482207 original size:26 final size:26
Alignment explanation
Indices: 86482178--86482233 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
86482168 TGATAAAAAT
86482178 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86482204 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
86482230 TGAT
1 TGAT
86482234 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:86483751 original size:26 final size:26
Alignment explanation
Indices: 86483722--86483774 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
86483712 TTTACAGTTT
86483722 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
86483748 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
86483774 T
1 T
86483775 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:86490663 original size:26 final size:26
Alignment explanation
Indices: 86490626--86490761 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
86490616 TGATACAAAT
* *
86490626 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
86490652 TGATAATGGGTTAGGTAAGTGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
86490678 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
86490704 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
86490730 TGATAATGGGTTAGGTAAATGTTTAA
1 TGATAATGGGTTAGGTAAATGTTTCA
86490756 TGATAA
1 TGATAA
86490762 GAATTTCATG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.33, C:0.04, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:86492789 original size:136 final size:137
Alignment explanation
Indices: 86492544--86492829 Score: 511
Period size: 136 Copynumber: 2.1 Consensus size: 137
86492534 GAGTAGTCTC
86492544 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* * * *
86492609 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTTTGGCCCAGTATC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
86492674 ACTGTTA
131 ACTGTTA
86492681 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
86492745 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
86492810 ACTGTTA
131 ACTGTTA
**
86492817 CCTGAATGGGCTT
1 CCCAAATGGGCTT
86492830 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 123 0.86
137 20 0.14
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TATTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:86495048 original size:20 final size:19
Alignment explanation
Indices: 86495014--86495052 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
86495004 AATTCCATTA
* *
86495014 TATAATATTATATTACGTAC
1 TATAATAATAGATTA-GTAC
86495034 TATAATAATAGATTAGTAC
1 TATAATAATAGATTAGTAC
86495053 ATTATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (19 bp):
TATAATAATAGATTAGTAC
Found at i:86496574 original size:19 final size:20
Alignment explanation
Indices: 86496550--86496588 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
86496540 TCTTATTTTT
*
86496550 TATTTG-TTTTTTGTTTTAA
1 TATTTGCTTTTATGTTTTAA
86496569 TATTTGCTTTTATGTTTTAA
1 TATTTGCTTTTATGTTTTAA
86496589 ATGTATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (20 bp):
TATTTGCTTTTATGTTTTAA
Found at i:86498339 original size:3 final size:3
Alignment explanation
Indices: 86498331--86498397 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
86498321 TACTTTAATT
86498331 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
86498378 TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
86498398 GTGTGTTGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 61 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:86498460 original size:9 final size:9
Alignment explanation
Indices: 86498446--86498480 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
86498436 TATATTTAGG
86498446 TAATATTAT
1 TAATATTAT
86498455 TAATATTAT
1 TAATATTAT
86498464 TAATAATTAT
1 TAAT-ATTAT
*
86498474 TAGTATT
1 TAATATT
86498481 TCTAATGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
TAATATTAT
Found at i:86498509 original size:12 final size:13
Alignment explanation
Indices: 86498492--86498521 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
86498482 CTAATGTGTC
86498492 TATATTATGTAT-
1 TATATTATGTATA
86498504 TATATTATGTATA
1 TATATTATGTATA
86498517 TATAT
1 TATAT
86498522 ATTTTTATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TATATTATGTATA
Found at i:86498546 original size:18 final size:19
Alignment explanation
Indices: 86498515--86498556 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
86498505 ATATTATGTA
* *
86498515 TATATATATTTTTATACAT
1 TATATATATCTTTAAACAT
*
86498534 TATATATA-CTTTAAATAT
1 TATATATATCTTTAAACAT
86498552 TATAT
1 TATAT
86498557 CTTATATACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATATATCTTTAAACAT
Found at i:86499336 original size:2 final size:2
Alignment explanation
Indices: 86499329--86499362 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
86499319 ATTACTATTC
86499329 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
86499363 TACGTACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86502913 original size:26 final size:26
Alignment explanation
Indices: 86502882--86502988 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
86502872 TGAAATGCCC
*
86502882 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
86502908 ATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
86502933 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
86502959 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86502985 ATCA
1 ATCA
86502989 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 24 0.32
26 51 0.68
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:86502952 original size:51 final size:52
Alignment explanation
Indices: 86502882--86502988 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
86502872 TGAAATGCCC
86502882 ATCATGGAACATTTACCTAAACCATTATCAT-GAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
86502933 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
86502985 ATCA
1 ATCA
86502989 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 29 0.55
52 24 0.45
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:86509970 original size:26 final size:26
Alignment explanation
Indices: 86509935--86510042 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
86509925 TGAAATGCCC
*
86509935 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
86509961 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
86509987 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
86510013 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
86510039 ATCA
1 ATCA
86510043 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:86511110 original size:20 final size:21
Alignment explanation
Indices: 86511068--86511112 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
86511058 TTTTGTTGTT
*
86511068 TATTCTTATTTTCTTATTAAA
1 TATTCTTATTATCTTATTAAA
86511089 TATTCTTATTAT-TTA-TATAA
1 TATTCTTATTATCTTATTA-AA
86511109 TATT
1 TATT
86511113 AGTACTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 9 0.41
21 11 0.50
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTCTTATTATCTTATTAAA
Found at i:86511159 original size:3 final size:3
Alignment explanation
Indices: 86511153--86511207 Score: 101
Period size: 3 Copynumber: 18.0 Consensus size: 3
86511143 CTTCTTCTTC
86511153 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
86511201 TGTA TTA
1 T-TA TTA
86511208 GTTTATGTTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:86511439 original size:15 final size:15
Alignment explanation
Indices: 86511406--86511444 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
86511396 TTTAATGTCG
*
86511406 TATTATTATGTTTTAA
1 TATTA-TATATTTTAA
*
86511422 TATTATATATTTTCA
1 TATTATATATTTTAA
86511437 TATTATAT
1 TATTATAT
86511445 TATATACGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATATATTTTAA
Found at i:86511465 original size:26 final size:25
Alignment explanation
Indices: 86511427--86511502 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
86511417 TTTAATATTA
86511427 TATATTTTCATATTATATTATATACG
1 TATATTTTCATATTATATTATATA-G
*
86511453 TATACTTTT-ATA-TATTATTATGT-G
1 TATA-TTTTCATATTA-TATTATATAG
*
86511477 TATATTTTGATATTATCAGTTATATA
1 TATATTTTCATATTAT-A-TTATATA
86511503 TTTCTTATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
23 4 0.10
24 9 0.22
25 5 0.12
26 19 0.46
27 4 0.10
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (25 bp):
TATATTTTCATATTATATTATATAG
Found at i:86524320 original size:54 final size:54
Alignment explanation
Indices: 86524175--86524383 Score: 303
Period size: 54 Copynumber: 3.9 Consensus size: 54
86524165 TTCCAATTCC
* *
86524175 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTTTCAATTTA
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTA
*
86524229 TATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTC
1 TATTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTA
* * *
86524284 TGTTTTTCAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CCTTTTAATTTT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTTAATTTA
* * * *
86524338 TCTTTTTCAAAAATCAACCCATATTGCAAGAAGTGAGTTGAGCCTT
1 TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
86524384 AGGTCATATG
Statistics
Matches: 141, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
53 1 0.01
54 89 0.63
55 51 0.36
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.37
Consensus pattern (54 bp):
TATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTA
Found at i:86526279 original size:3 final size:3
Alignment explanation
Indices: 86526200--86526325 Score: 110
Period size: 3 Copynumber: 41.0 Consensus size: 3
86526190 TTTTTGTTGT
* * * * *
86526200 TTA TTC TTA TT- TTC TTA TTAA ATA TTC TTA TTA TTTA TATA ATA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA -TTA T-TA TTA TTA
* * * * * *
86526247 GTA CTA TTA CTA TTA CTA TTG TTC 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
86526295 TTA TTA TTA TTA TTA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
86526326 GTTTATGTTT
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.02
3 87 0.88
4 10 0.10
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:86526557 original size:15 final size:15
Alignment explanation
Indices: 86526524--86526562 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
86526514 TTTAATATCG
*
86526524 TATTATTATGTTTTAA
1 TATTA-TATATTTTAA
*
86526540 TATTATATATTTTCA
1 TATTATATATTTTAA
86526555 TATTATAT
1 TATTATAT
86526563 TATATACGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (15 bp):
TATTATATATTTTAA
Found at i:86526583 original size:26 final size:25
Alignment explanation
Indices: 86526545--86526620 Score: 68
Period size: 26 Copynumber: 3.0 Consensus size: 25
86526535 TTTAATATTA
86526545 TATATTTTCATATTATATTATATACG
1 TATATTTTCATATTATATTATATA-G
*
86526571 TATACTTTT-ATA-TATTATTATGT-G
1 TATA-TTTTCATATTA-TATTATATAG
*
86526595 TATATTTTGATATTATCAGTTATATA
1 TATATTTTCATATTAT-A-TTATATA
86526621 TTTCTTATGT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
23 4 0.10
24 9 0.22
25 5 0.12
26 19 0.46
27 4 0.10
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (25 bp):
TATATTTTCATATTATATTATATAG
Found at i:86530637 original size:29 final size:30
Alignment explanation
Indices: 86530580--86530638 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
86530570 TATTTTATTA
86530580 TTAACTTTGTTATTATTTTAAAGGCATTTG
1 TTAACTTTGTTATTATTTTAAAGGCATTTG
* * *
86530610 TTAATTTTGTTA-TATTTTAGAGGTATTTG
1 TTAACTTTGTTATTATTTTAAAGGCATTTG
86530639 CTTGTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.56
Consensus pattern (30 bp):
TTAACTTTGTTATTATTTTAAAGGCATTTG
Found at i:86533562 original size:27 final size:26
Alignment explanation
Indices: 86533513--86533569 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
86533503 AACCTAAACA
* *
86533513 TAAACCTAAACCTTAAATTCAAACCC
1 TAAACCTAAACCTCAAATCCAAACCC
* *
86533539 TAAACCTTAAACCTCGAATCCAAATCC
1 TAAACC-TAAACCTCAAATCCAAACCC
86533566 TAAA
1 TAAA
86533570 ACTCATTAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.23
Consensus pattern (26 bp):
TAAACCTAAACCTCAAATCCAAACCC
Found at i:86533812 original size:17 final size:18
Alignment explanation
Indices: 86533790--86533823 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86533780 TTGTTTATAA
86533790 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
86533807 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
86533824 AAGTTAAATT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:86541270 original size:3 final size:3
Alignment explanation
Indices: 86541262--86541295 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
86541252 TATTTACTTG
86541262 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
86541296 GAAACATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:86541626 original size:26 final size:26
Alignment explanation
Indices: 86541588--86541638 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
86541578 TTTAAGCTGT
*
86541588 TTTATGTAATAGTTATTTTTTTATTTG
1 TTTATGTAATAGTT-TTTTTTAATTTG
*
86541615 TTTAT-TATTAGTTTTTTTTAATTT
1 TTTATGTAATAGTTTTTTTTAATTT
86541639 TAAATTCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 7 0.32
27 5 0.23
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.71
Consensus pattern (26 bp):
TTTATGTAATAGTTTTTTTTAATTTG
Found at i:86543642 original size:27 final size:27
Alignment explanation
Indices: 86543583--86543643 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
86543573 TTGAACCGCA
*
86543583 AGGTTCGAGGTTTAAGGTTTAAGTTTT
1 AGGTTCGAGGTTCAAGGTTTAAGTTTT
**
86543610 AGGGTTCGA-GTTCAAGGTTTGGGATTTT
1 A-GGTTCGAGGTTCAAGGTTTAAG-TTTT
86543638 AGGTTC
1 AGGTTC
86543644 AAGATTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.41
Consensus pattern (27 bp):
AGGTTCGAGGTTCAAGGTTTAAGTTTT
Found at i:86547360 original size:2 final size:2
Alignment explanation
Indices: 86547353--86547381 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
86547343 ATCTAATGTT
86547353 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
86547382 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:86547469 original size:14 final size:14
Alignment explanation
Indices: 86547450--86547485 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
86547440 GCTTCATTAT
86547450 ATTGAGTTATTTTA
1 ATTGAGTTATTTTA
86547464 ATTGAGTTATTTTA
1 ATTGAGTTATTTTA
86547478 ATTGAGTT
1 ATTGAGTT
86547486 CTCGACTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.56
Consensus pattern (14 bp):
ATTGAGTTATTTTA
Found at i:86550270 original size:20 final size:20
Alignment explanation
Indices: 86550246--86550284 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
86550236 ATTTTATTTT
*
86550246 ATTTTCATTCTTT-TTCCAA
1 ATTTTTATTCTTTCTTCCAA
86550265 ATTTTTATTCTTTCTTCCAA
1 ATTTTTATTCTTTCTTCCAA
86550285 TCAACTGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTATTCTTTCTTCCAA
Found at i:86552498 original size:30 final size:28
Alignment explanation
Indices: 86552455--86552528 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 28
86552445 AAATTTTAAA
* *
86552455 TTAATAATAATAAAATTGTACTTTAATTCT
1 TTAAAAATAATAAAATT-TAATTTAA-TCT
*
86552485 TTAAAAATGATAAAAATTTAATTTAATCT
1 TTAAAAATAAT-AAAATTTAATTTAATCT
*
86552514 TTAAAAATTATAAAA
1 TTAAAAATAATAAAA
86552529 ATATAATATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 4 0.10
29 13 0.33
30 16 0.41
31 6 0.15
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (28 bp):
TTAAAAATAATAAAATTTAATTTAATCT
Found at i:86552526 original size:29 final size:30
Alignment explanation
Indices: 86552466--86552535 Score: 97
Period size: 29 Copynumber: 2.3 Consensus size: 30
86552456 TAATAATAAT
*
86552466 AAAATTGTACTTTAATTCTTTAAAAATGATA
1 AAAATT-TAATTTAATTCTTTAAAAATGATA
*
86552497 AAAATTTAATTTAA-TCTTTAAAAATTATA
1 AAAATTTAATTTAATTCTTTAAAAATGATA
*
86552526 AAAATATAAT
1 AAAATTTAAT
86552536 ATATTAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 23 0.64
30 7 0.19
31 6 0.17
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATTTAATTTAATTCTTTAAAAATGATA
Found at i:86557104 original size:84 final size:83
Alignment explanation
Indices: 86556939--86557093 Score: 238
Period size: 83 Copynumber: 1.9 Consensus size: 83
86556929 GTCAACCGAG
** * * *
86556939 GCTATGAAGGATTAGAAGACTCCATTTGATGAGCAAATGTTTGGCACAAAAGACTGGGATAGTCA
1 GCTATGAAGGAAGAGAAGACTCCATTTGATCAACAAATATTTGGCACAAAAGACTGGGATAGTCA
86557004 AGTGTGCAAGTCAGATTT
66 AGTGTGCAAGTCAGATTT
* *
86557022 GCTATGAAGGAAGAGAAGACTCCATTTGATCAACGAATATTTAGGCACAAAAGACTTGGATAGTC
1 GCTATGAAGGAAGAGAAGACTCCATTTGATCAACAAATATTT-GGCACAAAAGACTGGGATAGTC
86557087 AAGTGTG
65 AAGTGTG
86557094 TGAGTGAGAT
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
83 36 0.56
84 28 0.44
ACGTcount: A:0.35, C:0.14, G:0.26, T:0.25
Consensus pattern (83 bp):
GCTATGAAGGAAGAGAAGACTCCATTTGATCAACAAATATTTGGCACAAAAGACTGGGATAGTCA
AGTGTGCAAGTCAGATTT
Found at i:86558545 original size:84 final size:83
Alignment explanation
Indices: 86558380--86558534 Score: 256
Period size: 83 Copynumber: 1.9 Consensus size: 83
86558370 GTCAACCGAG
* * *
86558380 GCTATGAAGGAGGAGAAGACTCCATTTGATGAGCAAATGTTTGGCACAAAAGACTGGGATAGTCA
1 GCTATGAAGGAGGAGAAGACTCCATTTGATCAACAAATATTTGGCACAAAAGACTGGGATAGTCA
86558445 AGTGTGCAAGTCAGATTT
66 AGTGTGCAAGTCAGATTT
* *
86558463 GCTATGAAGGAGGAGAAGACTCCATTTGATCAACGAATATTTAGGCACAAAAGACTTGGATAGTC
1 GCTATGAAGGAGGAGAAGACTCCATTTGATCAACAAATATTT-GGCACAAAAGACTGGGATAGTC
86558528 AAGTGTG
65 AAGTGTG
86558535 TGAGTGAGAT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 38 0.58
84 28 0.42
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (83 bp):
GCTATGAAGGAGGAGAAGACTCCATTTGATCAACAAATATTTGGCACAAAAGACTGGGATAGTCA
AGTGTGCAAGTCAGATTT
Found at i:86559981 original size:84 final size:83
Alignment explanation
Indices: 86559816--86559970 Score: 256
Period size: 83 Copynumber: 1.9 Consensus size: 83
86559806 GTCAACCGAG
* * *
86559816 GCTATGAAGGAGGAGAAGACTCCATTTGATGAGCAAATGTTTGGCACAAAAGACTGGGATAGTCA
1 GCTATGAAGGAGGAGAAGACTCCATTTGATCAACAAATATTTGGCACAAAAGACTGGGATAGTCA
86559881 AGTGTGCAAGTCAGATTT
66 AGTGTGCAAGTCAGATTT
* *
86559899 GCTATGAAGGAGGAGAAGACTCCATTTGATCAACGAATATTTAGGCACAAAAGACTTGGATAGTC
1 GCTATGAAGGAGGAGAAGACTCCATTTGATCAACAAATATTT-GGCACAAAAGACTGGGATAGTC
86559964 AAGTGTG
65 AAGTGTG
86559971 TGAGTGAGAT
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 38 0.58
84 28 0.42
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (83 bp):
GCTATGAAGGAGGAGAAGACTCCATTTGATCAACAAATATTTGGCACAAAAGACTGGGATAGTCA
AGTGTGCAAGTCAGATTT
Found at i:86560750 original size:21 final size:21
Alignment explanation
Indices: 86560725--86560764 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
86560715 CAAATTTCAT
*
86560725 TTTGTAACCAATATATTATTA
1 TTTGTAACCAAAATATTATTA
*
86560746 TTTGTAACTAAAATATTAT
1 TTTGTAACCAAAATATTAT
86560765 CGTTATGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTGTAACCAAAATATTATTA
Found at i:86561723 original size:29 final size:29
Alignment explanation
Indices: 86561681--86561738 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
86561671 AGTCATAGCA
86561681 GTCACATATGTACTCTATAAATACTACAT
1 GTCACATATGTACTCTATAAATACTACAT
86561710 GTCACATATGTACTCTATAAATACTACAT
1 GTCACATATGTACTCTATAAATACTACAT
86561739 CTGTAATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (29 bp):
GTCACATATGTACTCTATAAATACTACAT
Found at i:86565698 original size:20 final size:20
Alignment explanation
Indices: 86565673--86565711 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
86565663 ATACATCAGA
86565673 GATTTACTTGAACGGAGTTT
1 GATTTACTTGAACGGAGTTT
86565693 GATTTACTTGAACGGAGTT
1 GATTTACTTGAACGGAGTT
86565712 CTATGTCGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.38
Consensus pattern (20 bp):
GATTTACTTGAACGGAGTTT
Found at i:86572236 original size:42 final size:42
Alignment explanation
Indices: 86572173--86572348 Score: 205
Period size: 42 Copynumber: 4.0 Consensus size: 42
86572163 CTTCGTTTTC
* * *
86572173 TCGATGCCATAGTCCAACTATGGTCTTACACATGTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
86572216 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
86572257 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT---AT-TCACATA
*
86572306 TCGATGCCGTAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
86572347 TC
1 TC
86572349 TCACTGATGC
Statistics
Matches: 118, Mismatches: 7, Indels: 18
0.83 0.05 0.13
Matches are distributed among these distances:
41 11 0.09
42 64 0.54
43 2 0.02
45 2 0.02
47 1 0.01
48 2 0.02
49 36 0.31
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.28
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:86572319 original size:49 final size:48
Alignment explanation
Indices: 86572243--86572432 Score: 181
Period size: 47 Copynumber: 4.0 Consensus size: 48
86572233 TATGGTCTTA
*
86572243 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
*
86572293 CACATATCACATATCGATGCCGTAGCCCAGCTATGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * * * * *
86572341 CACATATCTCA-CT-GATGCCATATCTCAGATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
* * * * * *
86572388 CATATATCAC--ACCGATGTCATATCCCAGATATGGTCTTATACGAA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAA
86572433 AATCACTTGT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
46 26 0.22
47 38 0.32
48 13 0.11
49 37 0.31
50 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:86572483 original size:31 final size:31
Alignment explanation
Indices: 86572448--86572596 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
86572438 CTTGTCACTT
*
86572448 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
86572479 GTAGCCGGAGCTACCATTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
86572510 GTAGTCGAAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
86572541 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
86572572 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
86572597 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:86572672 original size:50 final size:50
Alignment explanation
Indices: 86572572--86572748 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
86572562 CACTAATCAG
* *
86572572 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
86572623 GTAGCCGAAGCTATTACTTATCACTTTCACTTGTCCTTGATTAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
86572673 GTAGCCGAAGCTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
86572723 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
86572749 GTTGCCATGG
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 95 0.81
51 23 0.19
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:86578614 original size:24 final size:24
Alignment explanation
Indices: 86578587--86578632 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
86578577 GAAAAATCTC
86578587 TACTTACAGTGTTGAGGTCATTCG
1 TACTTACAGTGTTGAGGTCATTCG
86578611 TACTTACAGTGTTGAGGTCATT
1 TACTTACAGTGTTGAGGTCATT
86578633 GGGATTGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (24 bp):
TACTTACAGTGTTGAGGTCATTCG
Found at i:86582000 original size:20 final size:19
Alignment explanation
Indices: 86581977--86582119 Score: 78
Period size: 20 Copynumber: 7.3 Consensus size: 19
86581967 TAAAAATATT
86581977 AAAATTGATATAAACTTATA
1 AAAATT-ATATAAACTTATA
* *
86581997 AAAATTATAATAAAATAATA
1 AAAATTAT-ATAAACTTATA
*
86582017 AAAATT-TATAAATATTATA
1 AAAATTATATAAA-CTTATA
* *
86582036 AAAGTT-TAATAAAATTA-A
1 AAAATTAT-ATAAACTTATA
*
86582054 TAAAATTA-ATAAACATATTTA
1 -AAAATTATATAAAC-T-TATA
* *
86582075 AAATTTTATAAAAACTTATAA
1 AAA-ATTATATAAACTTAT-A
* * *
86582096 AAAATCATAAAAACTTATC
1 AAAATTATATAAACTTATA
86582115 AAAAT
1 AAAAT
86582120 CATAAAAAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 23
0.73 0.10 0.17
Matches are distributed among these distances:
18 11 0.11
19 29 0.29
20 45 0.45
21 9 0.09
22 5 0.05
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAATTATATAAACTTATA
Found at i:86582028 original size:30 final size:29
Alignment explanation
Indices: 86581992--86582159 Score: 119
Period size: 30 Copynumber: 5.7 Consensus size: 29
86581982 TGATATAAAC
86581992 TTATAAAAATTATAATAAAATAATAAAAAT
1 TTATAAAAATTATAA-AAAATAATAAAAAT
* **
86582022 TTATAAATATTATAAAAGTTTAAT-AAAAT
1 TTATAAAAATTATAAAA-AATAATAAAAAT
* * * *
86582051 TAAT-AAAATTA-ATAAACATATTTAAAATT
1 TTATAAAAATTATA-AAAAATA-ATAAAAAT
* *
86582080 TTATAAAAACTTATAAAAAATCATAAAAAC
1 TTATAAAAA-TTATAAAAAATAATAAAAAT
* * *
86582110 TTATCAAAATCATAAAAAA-AATCTTAAAAAC
1 TTATAAAAATTATAAAAAATAA---TAAAAAT
*
86582141 TTATAAATATTATAAAAAA
1 TTATAAAAATTATAAAAAA
86582160 GTTCAGTTGA
Statistics
Matches: 107, Mismatches: 21, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
27 3 0.03
28 11 0.10
29 26 0.24
30 35 0.33
31 31 0.29
32 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (29 bp):
TTATAAAAATTATAAAAAATAATAAAAAT
Found at i:86582046 original size:38 final size:39
Alignment explanation
Indices: 86581956--86582087 Score: 111
Period size: 38 Copynumber: 3.5 Consensus size: 39
86581946 TATTATTGAA
* * *
86581956 ATTATTAAATTT-A-AAAA-TATTAAAATTGATATAAACTT
1 ATTATAAAATTTAATAAAATTAATAAAATT-A-ATAAACAT
*
86581994 A-TA-AAAATTATAATAAAA-TAATAAAAATTTAT-AA-AT
1 ATTATAAAATT-TAATAAAATTAAT-AAAATTAATAAACAT
86582030 ATTATAAAAGTTTAATAAAATTAATAAAATTAATAAACAT
1 ATTATAAAA-TTTAATAAAATTAATAAAATTAATAAACAT
*
86582070 ATT-TAAAATTTTATAAAA
1 ATTATAAAATTTAATAAAA
86582088 ACTTATAAAA
Statistics
Matches: 78, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
36 7 0.09
37 7 0.09
38 33 0.42
39 20 0.26
40 11 0.14
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (39 bp):
ATTATAAAATTTAATAAAATTAATAAAATTAATAAACAT
Found at i:86582053 original size:9 final size:9
Alignment explanation
Indices: 86582004--86582066 Score: 67
Period size: 9 Copynumber: 6.8 Consensus size: 9
86581994 ATAAAAATTA
86582004 TAATAAAA-
1 TAATAAAAT
86582012 TAATAAAAAT
1 TAAT-AAAAT
*
86582022 TTATAAATAT
1 TAATAAA-AT
86582032 T-ATAAAAGTT
1 TAATAAAA--T
86582042 TAATAAAAT
1 TAATAAAAT
86582051 TAATAAAAT
1 TAATAAAAT
86582060 TAATAAA
1 TAATAAA
86582067 CATATTTAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
8 5 0.10
9 29 0.60
10 8 0.17
11 6 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (9 bp):
TAATAAAAT
Found at i:86582086 original size:10 final size:10
Alignment explanation
Indices: 86582014--86582097 Score: 50
Period size: 9 Copynumber: 8.6 Consensus size: 10
86582004 TAATAAAATA
*
86582014 ATAAAAATTT
1 ATAAAATTTT
*
86582024 AT-AAATATT
1 ATAAAATTTT
*
86582033 ATAAAAGTTTA
1 ATAAAA-TTTT
*
86582044 ATAAAA-TTA
1 ATAAAATTTT
*
86582053 ATAAAA-TTA
1 ATAAAATTTT
*
86582062 ATAAACATATT
1 ATAAA-ATTTT
86582073 -TAAAATTTT
1 ATAAAATTTT
**
86582082 ATAAAAACTT
1 ATAAAATTTT
86582092 ATAAAA
1 ATAAAA
86582098 AATCATAAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
9 28 0.47
10 23 0.38
11 9 0.15
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (10 bp):
ATAAAATTTT
Found at i:86582128 original size:20 final size:20
Alignment explanation
Indices: 86582082--86582127 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
86582072 TTAAAATTTT
86582082 ATAAAAACTTATAAAAAATC
1 ATAAAAACTTATAAAAAATC
*
86582102 ATAAAAACTTAT-CAAAATC
1 ATAAAAACTTATAAAAAATC
86582121 ATAAAAA
1 ATAAAAA
86582128 AAATCTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAAAAACTTATAAAAAATC
Found at i:86582132 original size:31 final size:31
Alignment explanation
Indices: 86582094--86582159 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 31
86582084 AAAAACTTAT
86582094 AAAAAATCATAAAAACTTATCAAA-ATCATAA
1 AAAAAATCATAAAAACTTAT-AAATATCATAA
* *
86582125 AAAAAATCTTAAAAACTTATAAATATTATAA
1 AAAAAATCATAAAAACTTATAAATATCATAA
86582156 AAAA
1 AAAA
86582160 GTTCAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (31 bp):
AAAAAATCATAAAAACTTATAAATATCATAA
Found at i:86584480 original size:27 final size:26
Alignment explanation
Indices: 86584441--86584558 Score: 79
Period size: 24 Copynumber: 4.7 Consensus size: 26
86584431 ATACTCATAC
*
86584441 GAGCACATA-AACGGAAAGCTCTCTCT
1 GAGC-CATATAACGGAAAGCTCTATCT
* * *
86584467 CTAGCCATATAACGGGAAGCTC-ATGT
1 -GAGCCATATAACGGAAAGCTCTATCT
* ***
86584493 GAGCCATGTAACGGAAAGCTCT-GGA
1 GAGCCATATAACGGAAAGCTCTATCT
86584518 GAGCCA-ATAACGGAAAGCTC-ATAC-
1 GAGCCATATAACGGAAAGCTCTAT-CT
*
86584542 GAGCCA-ATATCGGAAAG
1 GAGCCATATAACGGAAAG
86584559 GTTCAAGCGA
Statistics
Matches: 74, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
24 29 0.39
25 25 0.34
26 6 0.08
27 14 0.19
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
GAGCCATATAACGGAAAGCTCTATCT
Found at i:86584504 original size:25 final size:26
Alignment explanation
Indices: 86584469--86584539 Score: 94
Period size: 25 Copynumber: 2.8 Consensus size: 26
86584459 CTCTCTCTCT
* *
86584469 AGCCATATAACGGGAAGCTCAT-GTG
1 AGCCATATAACGGAAAGCTCATGGAG
*
86584494 AGCCATGTAACGGAAAGCTC-TGGAG
1 AGCCATATAACGGAAAGCTCATGGAG
86584519 AGCCA-ATAACGGAAAGCTCAT
1 AGCCATATAACGGAAAGCTCAT
86584540 ACGAGCCAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.35
25 26 0.65
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
AGCCATATAACGGAAAGCTCATGGAG
Found at i:86584528 original size:24 final size:25
Alignment explanation
Indices: 86584469--86584558 Score: 98
Period size: 24 Copynumber: 3.7 Consensus size: 25
86584459 CTCTCTCTCT
* *
86584469 AGCCATATAACGGGAAGCTCATGTG
1 AGCCATATAACGGAAAGCTCATGAG
*
86584494 AGCCATGTAACGGAAAGCTC-TGGAG
1 AGCCATATAACGGAAAGCTCAT-GAG
86584519 AGCCA-ATAACGGAAAGCTCAT-ACG
1 AGCCATATAACGGAAAGCTCATGA-G
*
86584543 AGCCA-ATATCGGAAAG
1 AGCCATATAACGGAAAG
86584559 GTTCAAGCGA
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.02
24 30 0.53
25 26 0.46
ACGTcount: A:0.37, C:0.21, G:0.27, T:0.16
Consensus pattern (25 bp):
AGCCATATAACGGAAAGCTCATGAG
Found at i:86584574 original size:25 final size:24
Alignment explanation
Indices: 86584518--86584577 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
86584508 AAGCTCTGGA
*
86584518 GAGCCAATAACGGAAAGCTCATAC
1 GAGCCAATATCGGAAAGCTCATAC
*
86584542 GAGCCAATATCGGAAAGGTTCA-AGC
1 GAGCCAATATCGGAAA-GCTCATA-C
86584567 GAGCCAATATC
1 GAGCCAATATC
86584578 AAGAAGCTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (24 bp):
GAGCCAATATCGGAAAGCTCATAC
Done.