Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 242 of 320
Found at i:79433109 original size:19 final size:21
Alignment explanation
Indices: 79433074--79433124 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
79433064 TTTGTTGTTG
79433074 TGTTTTGCTA-TGTTTTC-AC
1 TGTTTTGCTATTGTTTTCTAC
*
79433093 TGTTTTGCTATTG-TTTCTAT
1 TGTTTTGCTATTGTTTTCTAC
*
79433113 TGTTTTGTTATT
1 TGTTTTGCTATT
79433125 ACTTTGCCGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.10, C:0.10, G:0.16, T:0.65
Consensus pattern (21 bp):
TGTTTTGCTATTGTTTTCTAC
Found at i:79434580 original size:22 final size:22
Alignment explanation
Indices: 79434552--79434597 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
79434542 CAAGAATAAG
79434552 TCAGAAGCCTTGAGGTTTTTCA
1 TCAGAAGCCTTGAGGTTTTTCA
79434574 TCAGAAGCCTTGAGGTTTTTCA
1 TCAGAAGCCTTGAGGTTTTTCA
79434596 TC
1 TC
79434598 CATTTTCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (22 bp):
TCAGAAGCCTTGAGGTTTTTCA
Found at i:79440006 original size:11 final size:11
Alignment explanation
Indices: 79439990--79440015 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
79439980 TTTAATCTAA
79439990 CAAACAGGAAT
1 CAAACAGGAAT
79440001 CAAACAGGAAT
1 CAAACAGGAAT
79440012 CAAA
1 CAAA
79440016 TTGCTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.15, T:0.08
Consensus pattern (11 bp):
CAAACAGGAAT
Found at i:79441488 original size:40 final size:39
Alignment explanation
Indices: 79441444--79441542 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 39
79441434 GTTAGATATT
*
79441444 TTGATTAATTCATATAAATGTTGGTAAGTCC-ATAGAAATA
1 TTGATAAATTCATATAAATGTTGGTAA-TCCTA-AGAAATA
* * *
79441484 TTGATAAAATTTC-TAGATATTTTGGTAATCCTAAGAAATA
1 TTGAT-AAA-TTCATATAAATGTTGGTAATCCTAAGAAATA
79441524 TTGATAAATTCATATAAAT
1 TTGATAAATTCATATAAAT
79441543 TTTGCTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
38 3 0.06
39 8 0.16
40 20 0.41
41 15 0.31
42 3 0.06
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (39 bp):
TTGATAAATTCATATAAATGTTGGTAATCCTAAGAAATA
Found at i:79441563 original size:21 final size:20
Alignment explanation
Indices: 79441420--79441567 Score: 61
Period size: 20 Copynumber: 7.3 Consensus size: 20
79441410 TAGTTTTAAG
* **
79441420 AATTTTGGTAAAATGTTAGA
1 AATTTTGATAAAATCATAGA
* * * *
79441440 TATTTTGATTAATTCATATA
1 AATTTTGATAAAATCATAGA
* * *
79441460 AATGTTGGT-AAGTCCATAGA
1 AATTTTGATAAAAT-CATAGA
*
79441480 AATATTGATAAAATTTC-TAGA
1 AATTTTGATAAAA--TCATAGA
* * *
79441501 TATTTTGGT--AATCCTAAGA
1 AATTTTGATAAAATCAT-AGA
* * *
79441520 AATATTGATAAATTCATATA
1 AATTTTGATAAAATCATAGA
*
79441540 AATTTTGCTAAAATCATTAGA
1 AATTTTGATAAAATCA-TAGA
79441561 AATTTTG
1 AATTTTG
79441568 GTGAAGTTAA
Statistics
Matches: 91, Mismatches: 28, Indels: 17
0.67 0.21 0.12
Matches are distributed among these distances:
17 2 0.02
18 1 0.01
19 14 0.15
20 46 0.51
21 26 0.29
22 1 0.01
23 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (20 bp):
AATTTTGATAAAATCATAGA
Found at i:79441716 original size:60 final size:59
Alignment explanation
Indices: 79441623--79441796 Score: 152
Period size: 60 Copynumber: 2.9 Consensus size: 59
79441613 AGAAATTTTG
* * * * *
79441623 GAAATATTGGTAATATC-TTATAAATTTTGGTAAAGTCTCATAAATATTGATAAATCGATA
1 GAAATATTGGTAA-ATCGTTAGATATTTTAGTAAA-TCTTAAAAATATTGATAAATCGATA
* * * * * * ** *
79441683 GAAATTTTGGTAAATCGTTAGATATTTTAGTAAATAATTAGATACATTGGTAAATCTTTG
1 GAAATATTGGTAAATCGTTAGATATTTTAGTAAAT-CTTAAAAATATTGATAAATCGATA
* * *
79441743 GAAATATTGGAAAATCGTTAGATATTTTACTAAATTCTTAAAAATTTTGATAAA
1 GAAATATTGGTAAATCGTTAGATATTTTAGTAAA-TCTTAAAAATATTGATAAA
79441797 CCGTTAGATA
Statistics
Matches: 89, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
59 4 0.04
60 84 0.94
61 1 0.01
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.40
Consensus pattern (59 bp):
GAAATATTGGTAAATCGTTAGATATTTTAGTAAATCTTAAAAATATTGATAAATCGATA
Found at i:79441751 original size:20 final size:20
Alignment explanation
Indices: 79441623--79441764 Score: 81
Period size: 20 Copynumber: 7.1 Consensus size: 20
79441613 AGAAATTTTG
79441623 GAAATATTGGTAATATC-TTA
1 GAAATATTGGTAA-ATCTTTA
* * *
79441643 TAAATTTTGGTAAAGTC-TCA
1 GAAATATTGGTAAA-TCTTTA
* * **
79441663 TAAATATTGATAAATCGATA
1 GAAATATTGGTAAATCTTTA
* *
79441683 GAAATTTTGGTAAATCGTTA
1 GAAATATTGGTAAATCTTTA
* * * **
79441703 GATATTTTAGTAAATAATTA
1 GAAATATTGGTAAATCTTTA
* * *
79441723 GATACATTGGTAAATCTTTG
1 GAAATATTGGTAAATCTTTA
* *
79441743 GAAATATTGGAAAATCGTTA
1 GAAATATTGGTAAATCTTTA
79441763 GA
1 GA
79441765 TATTTTACTA
Statistics
Matches: 94, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
19 3 0.03
20 91 0.97
ACGTcount: A:0.40, C:0.06, G:0.16, T:0.38
Consensus pattern (20 bp):
GAAATATTGGTAAATCTTTA
Found at i:79441777 original size:20 final size:20
Alignment explanation
Indices: 79441754--79441850 Score: 70
Period size: 20 Copynumber: 4.8 Consensus size: 20
79441744 AAATATTGGA
*
79441754 AAATCGTTAGATATTTTACT
1 AAATCGTTAGATATTTTAAT
* * *
79441774 AAATTC-TTAAAAATTTTGAT
1 AAA-TCGTTAGATATTTTAAT
* **
79441794 AAACCGTTAGATACATTAAT
1 AAATCGTTAGATATTTTAAT
* * *
79441814 AAATCATTAAATATATTAAT
1 AAATCGTTAGATATTTTAAT
* *
79441834 AAGTCCTTAGATATTTT
1 AAATCGTTAGATATTTT
79441851 GGTAAAGTCA
Statistics
Matches: 57, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
19 1 0.02
20 54 0.95
21 2 0.04
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.41
Consensus pattern (20 bp):
AAATCGTTAGATATTTTAAT
Found at i:79441930 original size:20 final size:20
Alignment explanation
Indices: 79441902--79441943 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
79441892 TAAGGTTTAG
*
79441902 AAAATTTGGAAATATTT-GTA
1 AAAACTTGGAAAT-TTTGGTA
79441922 AAAACTTGGAAATTTTGGTA
1 AAAACTTGGAAATTTTGGTA
79441942 AA
1 AA
79441944 GTCTCATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (20 bp):
AAAACTTGGAAATTTTGGTA
Found at i:79441991 original size:20 final size:20
Alignment explanation
Indices: 79441968--79442303 Score: 105
Period size: 20 Copynumber: 16.8 Consensus size: 20
79441958 GGTAAATTGA
*
79441968 TAGAAATTTTAGTAAAACAT
1 TAGAAATTTTGGTAAAACAT
* *
79441988 TAGAAATTTTGATAAATCAT
1 TAGAAATTTTGGTAAAACAT
* * *
79442008 TTGATATTTCGGT-AAACAT
1 TAGAAATTTTGGTAAAACAT
***
79442027 TAGAAATTTTGGTAAATTGT
1 TAGAAATTTTGGTAAAACAT
* * * * *
79442047 TAGATATCTTGATAAATCTT
1 TAGAAATTTTGGTAAAACAT
***
79442067 TAGAAATTTTGGTAAATTGT
1 TAGAAATTTTGGTAAAACAT
* ** * *
79442087 TAGATATTTTTATAAATCCTT
1 TAGAAATTTTGGTAAA-ACAT
* * *
79442108 TA-AAATATTGGTAAACCGT
1 TAGAAATTTTGGTAAAACAT
* * *
79442127 TAGATATATATTGTTAAATCAT
1 TAGA-A-ATTTTGGTAAAACAT
* *
79442149 TAGATATTTTGGTAAACCGA-
1 TAGAAATTTTGGTAAAAC-AT
* *
79442169 TAG--ATTTACTCG-AAAA-TT
1 TAGAAATTT--TGGTAAAACAT
* * * *
79442187 GATAGATATTTTGATAAATCCT
1 --TAGAAATTTTGGTAAAACAT
* * * **
79442209 TAGAAATGTTAGCAAGTCAT
1 TAGAAATTTTGGTAAAACAT
* * *
79442229 TAGATATATTGGTAAATCAT
1 TAGAAATTTTGGTAAAACAT
*
79442249 TAGAAATTTTGGTAAATCAT
1 TAGAAATTTTGGTAAAACAT
*
79442269 T-GAATATTTTGGTAAAGTCA-
1 TAGAA-ATTTTGGTAAA-ACAT
79442289 TAGAAATTTTGGTAA
1 TAGAAATTTTGGTAA
79442304 TTGTTAAGAC
Statistics
Matches: 235, Mismatches: 63, Indels: 36
0.70 0.19 0.11
Matches are distributed among these distances:
18 4 0.02
19 26 0.11
20 170 0.72
21 14 0.06
22 21 0.09
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (20 bp):
TAGAAATTTTGGTAAAACAT
Found at i:79442042 original size:59 final size:59
Alignment explanation
Indices: 79441968--79442082 Score: 142
Period size: 59 Copynumber: 1.9 Consensus size: 59
79441958 GGTAAATTGA
* *
79441968 TAGAAATTTTAGTAAAACATTAGAAATTTTGATAAATCATTT-GATATTTCGGTAAACAT
1 TAGAAATTTTAGTAAAACATTAGAAATCTTGATAAATC-TTTAGAAATTTCGGTAAACAT
* *** * *
79442027 TAGAAATTTTGGTAAATTGTTAGATATCTTGATAAATCTTTAGAAATTTTGGTAAA
1 TAGAAATTTTAGTAAAACATTAGAAATCTTGATAAATCTTTAGAAATTTCGGTAAA
79442083 TTGTTAGATA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
58 3 0.06
59 44 0.94
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.41
Consensus pattern (59 bp):
TAGAAATTTTAGTAAAACATTAGAAATCTTGATAAATCTTTAGAAATTTCGGTAAACAT
Found at i:79442137 original size:22 final size:22
Alignment explanation
Indices: 79442112--79442173 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
79442102 ATCCTTTAAA
79442112 ATATTGGTAAACCGTTAGATAT
1 ATATTGGTAAACCGTTAGATAT
* * *
79442134 ATATTGTTAAATCATTAGATAT
1 ATATTGGTAAACCGTTAGATAT
*
79442156 -T-TTGGTAAACCGATAGAT
1 ATATTGGTAAACCGTTAGAT
79442174 TTACTCGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
20 13 0.39
21 1 0.03
22 19 0.58
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATTGGTAAACCGTTAGATAT
Found at i:79442193 original size:102 final size:100
Alignment explanation
Indices: 79442080--79442264 Score: 246
Period size: 102 Copynumber: 1.8 Consensus size: 100
79442070 AAATTTTGGT
* * * * * *
79442080 AAATTGTTAGATATTTTTATAAATCCTTTA-AAATATTGGTAAACCGTTAGATATATATTGTTAA
1 AAATTGATAGATATTTTGATAAATCC-TTAGAAATATTAGCAAACCATTAG--ATATATTGGTAA
*
79442144 ATCATTAGATATTTTGGTAAACCGATAGATTTACTCGA
63 ATCATTAGAAATTTTGGTAAACCGATAGATTTACTCGA
* **
79442182 AAATTGATAGATATTTTGATAAATCCTTAGAAATGTTAGCAAGTCATTAGATATATTGGTAAATC
1 AAATTGATAGATATTTTGATAAATCCTTAGAAATATTAGCAAACCATTAGATATATTGGTAAATC
79442247 ATTAGAAATTTTGGTAAA
66 ATTAGAAATTTTGGTAAA
79442265 TCATTGAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
100 31 0.43
101 3 0.04
102 38 0.53
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (100 bp):
AAATTGATAGATATTTTGATAAATCCTTAGAAATATTAGCAAACCATTAGATATATTGGTAAATC
ATTAGAAATTTTGGTAAACCGATAGATTTACTCGA
Found at i:79442269 original size:40 final size:40
Alignment explanation
Indices: 79441968--79442303 Score: 202
Period size: 40 Copynumber: 8.4 Consensus size: 40
79441958 GGTAAATTGA
* * *
79441968 TAGAAATTTTAGTAAAACATTAGAAATTTTGATAAATCAT
1 TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
* * * **
79442008 TTGATATTTCGGTAAA-CATTAGAAATTTTGGTAAATTGT
1 TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
* * * * **
79442047 TAGATATCTTGATAAATCTTTAGAAATTTTGGTAAATTGT
1 TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
* ** * * * *
79442087 TAGATATTTTTATAAATCCTTTA-AAATATTGGTAAACCGT
1 TAGAAATTTTGGTAAAT-CATTAGAAATTTTGGTAAATCAT
* * * *
79442127 TAGATATATATTGTTAAATCATTAGATATTTTGGTAAACCGA-
1 TAGA-A-ATTTTGGTAAATCATTAGAAATTTTGGTAAATC-AT
* * * * * *
79442169 TAG--ATTTACTCGAAAATTGA-TAGATATTTTGATAAATCCT
1 TAGAAATTT--TGGTAAA-TCATTAGAAATTTTGGTAAATCAT
* * * * * *
79442209 TAGAAATGTTAGCAAGTCATTAGATATATTGGTAAATCAT
1 TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
79442249 TAGAAATTTTGGTAAATCATT-GAATATTTTGGTAAAGTCA-
1 TAGAAATTTTGGTAAATCATTAGAA-ATTTTGGTAAA-TCAT
79442289 TAGAAATTTTGGTAA
1 TAGAAATTTTGGTAA
79442304 TTGTTAAGAC
Statistics
Matches: 234, Mismatches: 47, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
38 3 0.01
39 36 0.15
40 153 0.65
41 14 0.06
42 28 0.12
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (40 bp):
TAGAAATTTTGGTAAATCATTAGAAATTTTGGTAAATCAT
Found at i:79442390 original size:20 final size:20
Alignment explanation
Indices: 79442339--79442470 Score: 65
Period size: 20 Copynumber: 6.6 Consensus size: 20
79442329 GAAATTTTGA
* * *
79442339 AAATATTGGTAAAATCTTAT
1 AAATTTTGGTAAAATCATAG
* * *
79442359 AAATATTAGTAAAATGATAG
1 AAATTTTGGTAAAATCATAG
*
79442379 AAATTTTGGT-AACTCATCAG
1 AAATTTTGGTAAAATCAT-AG
* *
79442399 ACATTTTGGT-AAATCTTTA-
1 AAATTTTGGTAAAATC-ATAG
* **
79442418 AAATTTTTGGTAAATTGTTAG
1 AAA-TTTTGGTAAAATCATAG
* * *
79442439 ATATATTGGTAAGA-CAATAG
1 AAATTTTGGTAAAATC-ATAG
79442459 AAATTTTGGTAA
1 AAATTTTGGTAA
79442471 TTGTCAAGAC
Statistics
Matches: 84, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
19 7 0.08
20 71 0.85
21 6 0.07
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (20 bp):
AAATTTTGGTAAAATCATAG
Found at i:79443278 original size:16 final size:16
Alignment explanation
Indices: 79443239--79443278 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
79443229 CAACTCTTCC
79443239 CTTAAAGTTAACTTGA
1 CTTAAAGTTAACTTGA
*
79443255 GTTAAAGTTAACTTGA
1 CTTAAAGTTAACTTGA
*
79443271 CTTCAAGT
1 CTTAAAGT
79443279 CAAAAAGTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (16 bp):
CTTAAAGTTAACTTGA
Found at i:79446111 original size:24 final size:24
Alignment explanation
Indices: 79446046--79446136 Score: 89
Period size: 23 Copynumber: 3.8 Consensus size: 24
79446036 TTCCCATTAC
*
79446046 ATGGCTCTTTGTGAGCTTCCTAAT
1 ATGGTTCTTTGTGAGCTTCCTAAT
*
79446070 A-GGCTT-TTTGTGAGCTTCCTTAT
1 ATGG-TTCTTTGTGAGCTTCCTAAT
* * *
79446093 ATGGTTCTTTGTGAACTTCCCGATT
1 ATGGTTCTTTGTGAGCTT-CCTAAT
*
79446118 ATGGCTC-TTGTGAGCTTCC
1 ATGGTTCTTTGTGAGCTTCC
79446137 CGTTATATAG
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
23 23 0.42
24 23 0.42
25 9 0.16
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (24 bp):
ATGGTTCTTTGTGAGCTTCCTAAT
Found at i:79446137 original size:24 final size:23
Alignment explanation
Indices: 79446046--79446208 Score: 98
Period size: 24 Copynumber: 6.8 Consensus size: 23
79446036 TTCCCATTAC
**
79446046 ATGGCTCTTTGTGAGCTTCCTAAT
1 ATGGCTC-TTGTGAGCTTCCCGAT
* **
79446070 A-GGCTTTTTGTGAGCTTCCTTAT
1 ATGGC-TCTTGTGAGCTTCCCGAT
* *
79446093 ATGGTTCTTTGTGAACTTCCCGATT
1 ATGGCTC-TTGTGAGCTTCCCGA-T
79446118 ATGGCTCTTGTGAGCTTCCCGTTAT
1 ATGGCTCTTGTGAGCTTCCCG--AT
* ** * *
79446143 ATAGC-CCGGATAAGCTTCCCTAT
1 ATGGCTCTTG-TGAGCTTCCCGAT
* *
79446166 A-GGCTCTTTGTGGGCTTCCCGAA
1 ATGGCTC-TTGTGAGCTTCCCGAT
79446189 ATGGCTCTATGTGAGCTTCC
1 ATGGCTCT-TGTGAGCTTCC
79446209 TATGATAAGG
Statistics
Matches: 106, Mismatches: 22, Indels: 22
0.71 0.15 0.15
Matches are distributed among these distances:
22 2 0.02
23 35 0.33
24 47 0.44
25 21 0.20
26 1 0.01
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (23 bp):
ATGGCTCTTGTGAGCTTCCCGAT
Found at i:79454788 original size:69 final size:70
Alignment explanation
Indices: 79454656--79454788 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
79454646 TAGTTTATTA
* * * * *
79454656 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
79454721 CTTAG
66 CTTAG
79454726 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
79454789 GTTATGTACT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:79456229 original size:47 final size:47
Alignment explanation
Indices: 79456175--79456497 Score: 421
Period size: 47 Copynumber: 6.6 Consensus size: 47
79456165 TATTTGAATA
*
79456175 AATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
79456222 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
79456269 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
79456318 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCC---T-----A----ATGGCCGATGTGATG
79456377 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
79456424 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
79456471 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
79456498 TCTCGAAGGG
Statistics
Matches: 247, Mismatches: 15, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
47 155 0.63
49 44 0.18
50 1 0.00
51 1 0.00
55 1 0.00
56 1 0.00
59 44 0.18
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:79456374 original size:59 final size:59
Alignment explanation
Indices: 79456303--79456423 Score: 224
Period size: 59 Copynumber: 2.1 Consensus size: 59
79456293 ATAAGGCCTA
*
79456303 ATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
*
79456362 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
79456421 ATG
1 ATG
79456424 AATGTGAAAG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (59 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
Found at i:79456437 original size:155 final size:153
Alignment explanation
Indices: 79456207--79456497 Score: 474
Period size: 155 Copynumber: 1.9 Consensus size: 153
79456197 ATAAGACCTA
79456207 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* ** * *
79456272 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATAT
66 GTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAAT
79456337 GTGATAAGGCCTAATAGCCGATGTG
129 GTGATAAGGCCTAATAGCCGATGTG
* *
79456362 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
* * *
79456427 GTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGT
66 GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGT
79456492 GATAAG
131 GATAAG
79456498 TCTCGAAGGG
Statistics
Matches: 126, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
153 54 0.43
155 72 0.57
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (153 bp):
ATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAAT
GTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGT
GATAAGGCCTAATAGCCGATGTG
Found at i:79456440 original size:106 final size:107
Alignment explanation
Indices: 79456254--79456453 Score: 357
Period size: 106 Copynumber: 1.9 Consensus size: 107
79456244 ATAAGGCCGA
*
79456254 ATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATGA
1 ATGGCCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
79456319 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
65 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
*
79456362 ATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 ATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
79456426 TGTGAAAGTGTATATATGTGATAGGGCC
66 TGTGAAAGTGTATATATGTGATAAGGCC
79456454 GAGTGGCCAA
Statistics
Matches: 89, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
106 63 0.71
108 26 0.29
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (107 bp):
ATGGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
Found at i:79460639 original size:29 final size:29
Alignment explanation
Indices: 79460597--79460672 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
79460587 GAAATCAAAA
*
79460597 ACTTAGTGCTCGATAGTTTTACTTCGCAC
1 ACTTAGTGCTCGATAATTTTACTTCGCAC
79460626 ACTTAGTGCTCGATAATTTTACTTCGCAC
1 ACTTAGTGCTCGATAATTTTACTTCGCAC
79460655 ACTTAGTGCTCGATAATT
1 ACTTAGTGCTCGATAATT
79460673 CATATATATA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (29 bp):
ACTTAGTGCTCGATAATTTTACTTCGCAC
Found at i:79477479 original size:48 final size:48
Alignment explanation
Indices: 79477404--79477720 Score: 291
Period size: 48 Copynumber: 6.6 Consensus size: 48
79477394 ATGGTAAATT
*
79477404 GCCGATGCCATGTCCCTA-ACATGGTCTTACACTGGCTCACATATCGAG
1 GCCGATGCCATGTCCC-AGACATGGTCTTACACTGGCTCTCATATCGAG
* * * * * *
79477452 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTTTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
** *
79477500 GCCGATGCCATGTCTGAGACATGGTCTTACACTGGCTCTCATAAT-GCG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCGAG
* * * * * ** *
79477548 GTCGATGCCATGTCCGAGACATGGTTTTACACTAG-TGCACATATTAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCATATCGAG
* * * * * *
79477596 ACCGATGCCATGTCCCAGACATGGTCTTTCACTGCCTCTCAAAAC-ATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGA-G
* * * *
79477644 GCCAATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
* * *
79477692 GCCGACGCCATGTCCCAAATATGGTCTTA
1 GCCGATGCCATGTCCCAGACATGGTCTTA
79477721 TATTAGCACA
Statistics
Matches: 213, Mismatches: 49, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
47 5 0.02
48 206 0.97
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCGAG
Found at i:79477733 original size:144 final size:144
Alignment explanation
Indices: 79477404--79477735 Score: 355
Period size: 144 Copynumber: 2.3 Consensus size: 144
79477394 ATGGTAAATT
* * * * ** ** *
79477404 GCCGATGCCATGTCCCTAACATGGTCTTACACTGGCTCACATATCGAGGCCAATGCCATGTCCCA
1 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCACACATATTAATACCGATGCCATGTCCCA
**** * * *
79477469 GACATGGTCTTACACTAGCTCTCGTTTCAATGCCGATGCCATGTCTGAGACATGGTCTTACACTG
66 GACATGGTCTTACACTAGCTCTCAAAACAATGCCAATGCCATGTCTCAAACATGGTCTTACACTG
79477534 GCTCTCATAATGCG
131 GCTCTCATAATGCG
* * * * * **
79477548 GTCGATGCCATGTCCGAGACATGGTTTTACACTAGTGCACATATTAATACCGATGCCATGTCCCA
1 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCACACATATTAATACCGATGCCATGTCCCA
* *
79477613 GACATGGTCTTTCACT-GCCTCTCAAAACATTGCCAATGCCATGT-TCCAAACATGGTCTTACAC
66 GACATGGTCTTACACTAG-CTCTCAAAACAATGCCAATGCCATGTCT-CAAACATGGTCTTACAC
*
79477676 TGGCTCTCAT-ATCGTG
129 TGGCTCTCATAAT-GCG
* * *
79477692 GCCGACGCCATGTCCCAAATATGGTCTTATATTAGCACACATAT
1 GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCACACATAT
79477736 CACCCAAATG
Statistics
Matches: 152, Mismatches: 33, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
143 4 0.03
144 148 0.97
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (144 bp):
GCCGACGCCATGTCCCAAACATGGTCTTACACTAGCACACATATTAATACCGATGCCATGTCCCA
GACATGGTCTTACACTAGCTCTCAAAACAATGCCAATGCCATGTCTCAAACATGGTCTTACACTG
GCTCTCATAATGCG
Found at i:79485165 original size:5 final size:5
Alignment explanation
Indices: 79485155--79485180 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
79485145 TAACTTGTTC
79485155 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
79485181 GTATACATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:79489517 original size:31 final size:31
Alignment explanation
Indices: 79489476--79489540 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
79489466 GACCAATCAT
79489476 ATGTGAGGGATCAGATCTATATCGGTGCAAC
1 ATGTGAGGGATCAGATCTATATCGGTGCAAC
* *
79489507 ATGTGTGGGATCAGATCTATATCGGTGTAAC
1 ATGTGAGGGATCAGATCTATATCGGTGCAAC
79489538 ATG
1 ATG
79489541 GACACGTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (31 bp):
ATGTGAGGGATCAGATCTATATCGGTGCAAC
Found at i:79491806 original size:17 final size:17
Alignment explanation
Indices: 79491786--79491825 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
79491776 GTTGACCCAT
79491786 TTTTTCCGTTTTTAGTC
1 TTTTTCCGTTTTTAGTC
79491803 TTTTTCCGTTTTTAGTC
1 TTTTTCCGTTTTTAGTC
*
79491820 TGTTTC
1 TTTTTC
79491826 TCGCTCTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.05, C:0.17, G:0.12, T:0.65
Consensus pattern (17 bp):
TTTTTCCGTTTTTAGTC
Found at i:79503545 original size:17 final size:17
Alignment explanation
Indices: 79503519--79503559 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
79503509 AATAAACAAT
79503519 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
79503534 TACAATTAAATTGGGAAA
1 TA-AATTAAATTGGGAAA
79503552 TAAATTAA
1 TAAATTAA
79503560 GATTTTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 2 0.09
16 2 0.09
17 12 0.52
18 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.12, T:0.29
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:79505251 original size:80 final size:80
Alignment explanation
Indices: 79505118--79505278 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
79505108 GAAAAATTGG
79505118 AATAAGAACTAAGATAAAAAATAGTAAGAGTTAACATCCATAATTAGACAAAGACTAAGATTTTA
1 AATAAGAACTAAGATAAAAAATAGTAAGAGTTAACATCCATAATTAGACAAAGACTAAGATTTTA
79505183 CATCAATAATTAGAC
66 CATCAATAATTAGAC
79505198 AATAAGAACTAAGATAAAAAATAGTAAGAGTTAACATCCATAATTAGACAAAGACTAAGATTTTA
1 AATAAGAACTAAGATAAAAAATAGTAAGAGTTAACATCCATAATTAGACAAAGACTAAGATTTTA
79505263 CATCAATAATTAGAC
66 CATCAATAATTAGAC
79505278 A
1 A
79505279 GTGGGTTTAG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.25
Consensus pattern (80 bp):
AATAAGAACTAAGATAAAAAATAGTAAGAGTTAACATCCATAATTAGACAAAGACTAAGATTTTA
CATCAATAATTAGAC
Found at i:79505747 original size:154 final size:154
Alignment explanation
Indices: 79505539--79505851 Score: 599
Period size: 154 Copynumber: 2.0 Consensus size: 154
79505529 TTTCAAATTT
*
79505539 AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTTGAATTTCAACCTCAACCACACAGTAATT
1 AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTCGAATTTCAACCTCAACCACACAGTAATT
*
79505604 CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAACTCATAGATCATAAATTTTAAATCTA
66 CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTTAAATCTA
79505669 AAAGTGCCAAGTATACCATATGAA
131 AAAGTGCCAAGTATACCATATGAA
*
79505693 AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTCGACTTTCAACCTCAACCACACAGTAATT
1 AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTCGAATTTCAACCTCAACCACACAGTAATT
79505758 CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTTAAATCTA
66 CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTTAAATCTA
79505823 AAAGTGCCAAGTATACCATATGAA
131 AAAGTGCCAAGTATACCATATGAA
79505847 AAATT
1 AAATT
79505852 GCTTATTTAT
Statistics
Matches: 156, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 156 1.00
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (154 bp):
AAATTAAATCAAATGTGTTCTTTTGCCCAATATTTTCGAATTTCAACCTCAACCACACAGTAATT
CATACCCAATTAGCAAGTAACAATATCAGCATAATTCAAATCATAGATCATAAATTTTAAATCTA
AAAGTGCCAAGTATACCATATGAA
Found at i:79506388 original size:23 final size:23
Alignment explanation
Indices: 79506362--79506406 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
79506352 CATTTGCAAA
*
79506362 TTGGAATCACCAACATTCATTTT
1 TTGGAATCACCAACATCCATTTT
*
79506385 TTGGAATCCCCAACATCCATTT
1 TTGGAATCACCAACATCCATTT
79506407 GCATTGCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (23 bp):
TTGGAATCACCAACATCCATTTT
Found at i:79506808 original size:27 final size:27
Alignment explanation
Indices: 79506757--79506835 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
79506747 AGTTTTCATA
79506757 TATATTAAATAATAAAAAAAT-TATTT
1 TATATTAAATAATAAAAAAATATATTT
79506783 TATATTAAATAATAAAAAAATATATTT
1 TATATTAAATAATAAAAAAATATATTT
*
79506810 TATATTAAATAA-ATAAAATATATATT
1 TATATTAAATAATA-AAAAAATATATT
79506836 AATTTTGCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
26 22 0.44
27 28 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (27 bp):
TATATTAAATAATAAAAAAATATATTT
Found at i:79509632 original size:12 final size:12
Alignment explanation
Indices: 79509614--79509669 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 12
79509604 TTTCTATTGA
79509614 AAAAAAAAGTTTC
1 AAAAAAAA-TTTC
79509627 AAAAAAAATTT-
1 AAAAAAAATTTC
* *
79509638 GAAAAAAATTCTG
1 AAAAAAAATT-TC
*
79509651 AAAAAAAAGTT-
1 AAAAAAAATTTC
79509662 AAAAAAAA
1 AAAAAAAA
79509670 GAAGGAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 17 0.45
12 5 0.13
13 16 0.42
ACGTcount: A:0.70, C:0.04, G:0.07, T:0.20
Consensus pattern (12 bp):
AAAAAAAATTTC
Found at i:79513922 original size:49 final size:48
Alignment explanation
Indices: 79513811--79513923 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 48
79513801 ACACGGGTAG
* *
79513811 ACCACATGCCCGTGTCTACTTAACAGATTATAACACGGCCTAAGCCAC
1 ACCACACGGCCGTGTCTACTTAACAGATTATAACACGGCCTAAGCCAC
* * * *
79513859 ACCACATGGCCGTGTCTATTTAGCAGACTCTA-AACACGGCCTAAGCTAC
1 ACCACACGGCCGTGTCTACTTAACAGA-T-TATAACACGGCCTAAGCCAC
*
79513908 -CTCACACGGGCGTGTC
1 AC-CACACGGCCGTGTC
79513924 CCTGTCGAGC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
48 25 0.45
49 29 0.52
50 2 0.04
ACGTcount: A:0.27, C:0.33, G:0.19, T:0.21
Consensus pattern (48 bp):
ACCACACGGCCGTGTCTACTTAACAGATTATAACACGGCCTAAGCCAC
Found at i:79518342 original size:13 final size:13
Alignment explanation
Indices: 79518324--79518359 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
79518314 AATAAGGGCA
79518324 CACAGGCGTGCCC
1 CACAGGCGTGCCC
79518337 CACAGGCGTGCCC
1 CACAGGCGTGCCC
*
79518350 CACAGTCGTG
1 CACAGGCGTG
79518360 TGCACCAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.42, G:0.31, T:0.11
Consensus pattern (13 bp):
CACAGGCGTGCCC
Found at i:79522105 original size:48 final size:49
Alignment explanation
Indices: 79522038--79522142 Score: 133
Period size: 48 Copynumber: 2.2 Consensus size: 49
79522028 ACACAGGTAG
* * * * *
79522038 ACCACACGCCCGTGTCTATTTAATAGATTGT-AACACTGCCTAAGCCAC
1 ACCACACGACCGTGTCTATTTAACAGACTCTAAACACGGCCTAAGCCAC
*
79522086 ACCACACGACCGTGTCTATTTAGCAGACTCTAAACACGGCCTAAGCCAC
1 ACCACACGACCGTGTCTATTTAACAGACTCTAAACACGGCCTAAGCCAC
79522135 -CTCACACG
1 AC-CACACG
79522143 GGCGTGTCCC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
48 27 0.55
49 22 0.45
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.21
Consensus pattern (49 bp):
ACCACACGACCGTGTCTATTTAACAGACTCTAAACACGGCCTAAGCCAC
Found at i:79523637 original size:37 final size:37
Alignment explanation
Indices: 79523580--79523664 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
79523570 TGTGAGTATG
* * * *
79523580 TGTAAGACCACAGTTGGGCTATGGCGTCGTAATGA-CA
1 TGTAAGACCATAGCTAGGCTATGGCATCGTAAT-ACCA
* *
79523617 TGTAAGACCATAGCTAGGCTATGGCATTGTGATACCA
1 TGTAAGACCATAGCTAGGCTATGGCATCGTAATACCA
79523654 TGTAAGACCAT
1 TGTAAGACCAT
79523665 GTCTGGCATT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
36 1 0.02
37 40 0.98
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (37 bp):
TGTAAGACCATAGCTAGGCTATGGCATCGTAATACCA
Found at i:79523739 original size:48 final size:48
Alignment explanation
Indices: 79523668--79523865 Score: 290
Period size: 48 Copynumber: 4.1 Consensus size: 48
79523658 AGACCATGTC
* *
79523668 TGGCATTGCCATCAATATGTGATCCCATGTAAGACCAAGTCTGGGACA
1 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCAAGTCTGGGACA
*
79523716 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCATGTCTGGGACA
1 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCAAGTCTGGGACA
* *
79523764 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCATA-TCTAGGATA
1 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCA-AGTCTGGGACA
* * ** *
79523812 CGGAATTGGCATCGATATGTGATTTCATGTAAGACCATGTCTGGGACA
1 TGGCATTGGCATCGATATGTGATCCCATGTAAGACCAAGTCTGGGACA
79523860 TGGCAT
1 TGGCAT
79523866 CGATATGAGA
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
48 133 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
TGGCATTGGCATCGATATGTGATCCCATGTAAGACCAAGTCTGGGACA
Found at i:79523885 original size:42 final size:42
Alignment explanation
Indices: 79523818--79523908 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
79523808 GATACGGAAT
* *
79523818 TGGCATCGATATGTGATTTCATGTAAGACCATGTCTGGGAC-A
1 TGGCATCGATATGAGACTTCATGTAAGACCATGT-TGGGACTA
* *
79523860 TGGCATCGATATGAGACTTCGTGTAAGACCATGTTTGGACTA
1 TGGCATCGATATGAGACTTCATGTAAGACCATGTTGGGACTA
79523902 TGGCATC
1 TGGCATC
79523909 AAGTAAACGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
41 5 0.11
42 39 0.89
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGAGACTTCATGTAAGACCATGTTGGGACTA
Found at i:79530438 original size:12 final size:12
Alignment explanation
Indices: 79530421--79530495 Score: 64
Period size: 12 Copynumber: 6.2 Consensus size: 12
79530411 AAGAAACATT
79530421 ATCAAAA-CTAGA
1 ATCAAAATC-AGA
*
79530433 ATCAAAATGAGA
1 ATCAAAATCAGA
*
79530445 ATCAGAATCAGA
1 ATCAAAATCAGA
*
79530457 ATC-AAGTGACAGA
1 ATCAAAAT--CAGA
*
79530470 ATCAGAATCAGA
1 ATCAAAATCAGA
*
79530482 ATCAGAATCAGA
1 ATCAAAATCAGA
79530494 AT
1 AT
79530496 TAGGTGACAG
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
11 2 0.04
12 41 0.79
13 7 0.13
14 2 0.04
ACGTcount: A:0.52, C:0.15, G:0.16, T:0.17
Consensus pattern (12 bp):
ATCAAAATCAGA
Found at i:79530453 original size:6 final size:6
Alignment explanation
Indices: 79530430--79530551 Score: 97
Period size: 6 Copynumber: 19.8 Consensus size: 6
79530420 TATCAAAACT
* * *
79530430 AGAATC AAAATG AGAATC AGAATC AGAATC A-AGTGAC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * * *
79530479 AGAATC AGAATC AGAATT AG-GTGAC AGAATT AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
*
79530528 AGGTAA-C AGAATC AAAATC AGAAT
1 A-G-AATC AGAATC AGAATC AGAAT
79530552 GTGAACGCAA
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 7 0.08
8 4 0.04
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:79530480 original size:31 final size:31
Alignment explanation
Indices: 79530442--79530551 Score: 121
Period size: 31 Copynumber: 3.4 Consensus size: 31
79530432 AATCAAAATG
79530442 AGAATCAGAATCAGAATCAAGTGACAGAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
*
79530473 AGAATCAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATC---A--A-GTGACAGAATC
* * *
79530510 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAAGTGACAGAATC
*
79530541 AAAATCAGAAT
1 AGAATCAGAAT
79530552 GTGAACGCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
31 37 0.55
34 2 0.03
36 1 0.01
37 27 0.40
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAGTGACAGAATC
Found at i:79530551 original size:37 final size:37
Alignment explanation
Indices: 79530430--79530551 Score: 148
Period size: 37 Copynumber: 3.5 Consensus size: 37
79530420 TATCAAAACT
* *
79530430 AGAATCAAAATGAGAATCAGAATCAGAATCAAGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
79530467 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* *
79530504 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
79530535 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
79530552 GTGAACGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
31 27 0.38
32 1 0.01
36 1 0.01
37 43 0.60
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:79530718 original size:27 final size:26
Alignment explanation
Indices: 79530670--79530729 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
79530660 GCGAGGCTGC
*
79530670 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
79530697 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
79530723 CAGATAT
1 CAGATAT
79530730 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:79530774 original size:71 final size:67
Alignment explanation
Indices: 79530697--79530838 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
79530687 TCACCAGATA
* * * * *
79530697 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGTAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAACGA
79530762 GGCTGC
62 GGCTGC
* *
79530768 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGCAACGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
79530833 GC
66 GC
79530835 CAGA
1 CAGA
79530839 ACGCTTCCCC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAACGAGGCT
GC
Found at i:79530816 original size:27 final size:26
Alignment explanation
Indices: 79530768--79530819 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
79530758 GCGAGGCTGC
*
79530768 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
79530794 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
79530820 TTGCAACGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:79531086 original size:27 final size:27
Alignment explanation
Indices: 79531056--79531248 Score: 226
Period size: 27 Copynumber: 7.2 Consensus size: 27
79531046 AACACCCTAG
** *
79531056 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
79531083 GGGTAAAACGGTAATTCTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
79531110 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
79531137 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
** * * * *
79531164 ACGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
79531191 GGGTAAAATAGTAATTTTTTAAGTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
79531218 GGGTAAAACGGTAATTCTGTAAATC-A
1 GGGTAAAACAGTAATTTTGTAAATCGA
79531244 GGGTA
1 GGGTA
79531249 CTTTGGTAAT
Statistics
Matches: 142, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 6 0.04
27 136 0.96
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:79531285 original size:27 final size:27
Alignment explanation
Indices: 79531255--79531319 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
79531245 GGTACTTTGG
79531255 TAATTTTACAAGTCGAGGGTAGTTCAA
1 TAATTTTACAAGTCGAGGGTAGTTCAA
* * *
79531282 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTAGTTCAA
*
79531309 TAATTTCACAA
1 TAATTTTACAA
79531320 ATTAGGGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTAGTTCAA
Found at i:79531356 original size:81 final size:81
Alignment explanation
Indices: 79531244--79531503 Score: 281
Period size: 81 Copynumber: 3.2 Consensus size: 81
79531234 CTGTAAATCA
* * * * * ***
79531244 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTAGTTCAATAATTTTACAGGTC-GAGGGTATTTC
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTAATAATTTTACAAACCAG-GGGTATTTC
**
79531307 AGTAATTTCACAAATTAG
64 AGTAATTTCACAAACCAG
* **
79531325 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCAGGGGTATTTCAG
*
79531390 TAATTTTACAAACCAG
66 TAATTTCACAAACCAG
* * * * **
79531406 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCAGGGGTATTTCAG
* * *
79531471 TAATTTTATAAACCAA
66 TAATTTCACAAACCAG
79531487 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
79531504 GGTAAACTAA
Statistics
Matches: 156, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
81 151 0.97
82 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAATAATTTTACAAACCAGGGGTATTTCAG
TAATTTCACAAACCAG
Found at i:79531510 original size:27 final size:27
Alignment explanation
Indices: 79531298--79531503 Score: 295
Period size: 27 Copynumber: 7.6 Consensus size: 27
79531288 TACAGGTCGA
** * **
79531298 GGGTATTTCAGTAATTTCACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
79531325 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
79531352 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
79531379 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
79531406 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
79531433 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
79531460 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
79531487 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
79531504 GGTAAACTAA
Statistics
Matches: 162, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 162 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:79532397 original size:21 final size:21
Alignment explanation
Indices: 79532371--79532468 Score: 58
Period size: 21 Copynumber: 4.5 Consensus size: 21
79532361 AACTCGAGTG
79532371 AAAAAGAAAATGAAAGAAGAA
1 AAAAAGAAAATGAAAGAAGAA
* ** *
79532392 TAAAAGAATTTGAGAGAAGAA
1 AAAAAGAAAATGAAAGAAGAA
79532413 AAAAA-ATTGAAA-GAAAGAA-AA
1 AAAAAGA---AAATGAAAGAAGAA
* *
79532434 AAAAAGATATTGGAAATGAAGAA
1 AAAAAGAAAAT-GAAA-GAAGAA
*
79532457 ATAAAATAAAAT
1 A-AAAAGAAAAT
79532469 TTAGGTGATG
Statistics
Matches: 55, Mismatches: 13, Indels: 15
0.66 0.16 0.18
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 32 0.58
22 10 0.18
23 4 0.07
24 7 0.13
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.14
Consensus pattern (21 bp):
AAAAAGAAAATGAAAGAAGAA
Found at i:79532420 original size:19 final size:18
Alignment explanation
Indices: 79532370--79532437 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 18
79532360 AAACTCGAGT
*
79532370 GAAAAAGAAAATGAAAGAA
1 GAAAAA-AAATTGAAAGAA
*
79532389 GAATAAAAGAATTTGAGAGAA
1 GAA-AAAA-AA-TTGAAAGAA
79532410 GAAAAAAAATTGAAAGAAA
1 GAAAAAAAATTGAAAG-AA
79532429 GAAAAAAAA
1 GAAAAAAAA
79532438 AGATATTGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.14
19 17 0.40
20 9 0.21
21 10 0.24
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (18 bp):
GAAAAAAAATTGAAAGAA
Found at i:79536084 original size:48 final size:48
Alignment explanation
Indices: 79535941--79536103 Score: 140
Period size: 48 Copynumber: 3.5 Consensus size: 48
79535931 ACACTCTAGT
* * * * * *
79535941 TTGTGGATGAACCACCTATGTTTACAGGTTAATATGTTGCCAGT-AGG
1 TTGTGAATGAACCACCTGTGTTTGCAAGTTAATAAGTTGCCAGTAAGC
* * * * *
79535988 TTGTGAAT--A-CACAATGTGTTTG-TAGATAA-AAGTTGCCACTAAGT
1 TTGTGAATGAACCAC-CTGTGTTTGCAAGTTAATAAGTTGCCAGTAAGC
*
79536032 TTGTGAATGAACCACCTGTGTTTGCAAGTTAATACGTTGCCAGTAAGC
1 TTGTGAATGAACCACCTGTGTTTGCAAGTTAATAAGTTGCCAGTAAGC
* * *
79536080 TTGTGGATAAACCACCAGTGTTTG
1 TTGTGAATGAACCACCTGTGTTTG
79536104 TAGATTATTA
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
43 9 0.10
44 17 0.19
45 7 0.08
46 9 0.10
47 15 0.17
48 33 0.37
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (48 bp):
TTGTGAATGAACCACCTGTGTTTGCAAGTTAATAAGTTGCCAGTAAGC
Found at i:79536264 original size:38 final size:38
Alignment explanation
Indices: 79536195--79536321 Score: 121
Period size: 38 Copynumber: 3.3 Consensus size: 38
79536185 ATACATAAAA
* * *
79536195 CAGTAGACATGTTTTAACATATATTTAGTTCAACAGTAG
1 CAGTAGACATG-CTTAACATGTATCTAGTTCAACAGTAG
* *
79536234 TAGTAGACATGCTTAACATGTATCTGGTTCAACAGTAG
1 CAGTAGACATGCTTAACATGTATCTAGTTCAACAGTAG
* * * * * *
79536272 CAATAGAAATACTTAACTTGTAT-TCAGTTCAACGGTAA
1 CAGTAGACATGCTTAACATGTATCT-AGTTCAACAGTAG
*
79536310 CAGTAGGCATGC
1 CAGTAGACATGC
79536322 AATCAGTAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
37 1 0.01
38 59 0.84
39 10 0.14
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (38 bp):
CAGTAGACATGCTTAACATGTATCTAGTTCAACAGTAG
Found at i:79539125 original size:47 final size:48
Alignment explanation
Indices: 79539064--79539156 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 48
79539054 TTCAGACCTC
* *
79539064 AATATGATAATAATTATCAAGTTTAATGATTAATTTGAA-AAAAAATT
1 AATATGATAATAATTATCAAATTTAATGATTAACTTGAACAAAAAATT
79539111 AATATGA-AATTAATTATCAAATTTAATGATTAACTTGAACAAAAAA
1 AATATGATAA-TAATTATCAAATTTAATGATTAACTTGAACAAAAAA
79539157 AACTCAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
46 2 0.05
47 34 0.81
48 6 0.14
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (48 bp):
AATATGATAATAATTATCAAATTTAATGATTAACTTGAACAAAAAATT
Found at i:79539849 original size:24 final size:24
Alignment explanation
Indices: 79539817--79539865 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
79539807 GCAGACAGTT
79539817 AATACATTCTACTTATTAAACAAG
1 AATACATTCTACTTATTAAACAAG
79539841 AATACATTCTACTTATTAAACAAG
1 AATACATTCTACTTATTAAACAAG
79539865 A
1 A
79539866 TTTTATGGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.04, T:0.33
Consensus pattern (24 bp):
AATACATTCTACTTATTAAACAAG
Found at i:79541308 original size:27 final size:28
Alignment explanation
Indices: 79541278--79541333 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
79541268 TTCTTAATAT
*
79541278 TTACAT-AACATTTTATTTCAAAA-AAAA
1 TTACATCAACATTTTA-ATCAAAATAAAA
*
79541305 TTACATCAATATTTTAATCAAAATAAAA
1 TTACATCAACATTTTAATCAAAATAAAA
79541333 T
1 T
79541334 ATTTGAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 12 0.48
28 13 0.52
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (28 bp):
TTACATCAACATTTTAATCAAAATAAAA
Found at i:79542775 original size:31 final size:31
Alignment explanation
Indices: 79542740--79542809 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
79542730 GTTTGGATTA
* *
79542740 GGACTAAAATT-TCAAATTTTGAAAAGTATAG
1 GGACTAAAATTGACAAA-TTTAAAAAGTATAG
* *
79542771 GGACTAAAATTGACCAATTTAAAAAGTATAT
1 GGACTAAAATTGACAAATTTAAAAAGTATAG
79542802 GGACTAAA
1 GGACTAAA
79542810 TTTACAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.47, C:0.09, G:0.16, T:0.29
Consensus pattern (31 bp):
GGACTAAAATTGACAAATTTAAAAAGTATAG
Found at i:79547781 original size:38 final size:37
Alignment explanation
Indices: 79547424--79547994 Score: 216
Period size: 38 Copynumber: 15.6 Consensus size: 37
79547414 GTCAATGACG
* * * * * *
79547424 ACCTTAAAAAAATGTCGCGGTAGACCTAGTTAAGGGCA
1 ACCTT-AAAAAAGGTTGCGATAGACCTTGTTTACGGCA
* ** * *
79547462 ACCTTTGAAAAAGGTTGCGATAGACC-AATTTAAGACA
1 ACC-TTAAAAAAGGTTGCGATAGACCTTGTTTACGGCA
* * *
79547499 ACTGTTAAAAATGGTTGCGATAGA-CTCGTTTA-GAGCA
1 AC-CTTAAAAAAGGTTGCGATAGACCTTGTTTACG-GCA
* * * *
79547536 ACGTT-AAAAAGATTG-GTATAGA--TTCGTTTTCGACA
1 ACCTTAAAAAAGGTTGCG-ATAGACCTT-GTTTACGGCA
*
79547571 ACCTT-AAAAAGGTTGCGAGA-AGCCTTGTTTACGGCA
1 ACCTTAAAAAAGGTTGCGATAGA-CCTTGTTTACGGCA
* * * * *
79547607 ACCCTTAATAAAA-ATTGCTATAGACCTTATCTACAGCA
1 A-CCTTAA-AAAAGGTTGCGATAGACCTTGTTTACGGCA
* * * *
79547645 ACCTTTTAAAAAA-GTTGTGGTATATCTTGTTTACGGCA
1 ACC--TTAAAAAAGGTTGCGATAGACCTTGTTTACGGCA
* * *
79547683 ACCTTGAAAAAAGGTTGCGATAGGCC-TGTCTACGGAA
1 ACCTT-AAAAAAGGTTGCGATAGACCTTGTTTACGGCA
* * * * * *
79547720 ACATTTTAAAAATGTTACTATAGACCTTGTTTATGGCA
1 AC-CTTAAAAAAGGTTGCGATAGACCTTGTTTACGGCA
* * **
79547758 ACCTTAAAAAAAGGTTGGGATAGA-CTTGTCTAAAGCA
1 ACCTT-AAAAAAGGTTGCGATAGACCTTGTTTACGGCA
* * *
79547795 ACCTT-AAAAAGGTTGGTGATAGA--TTCGTTTAAGGTA
1 ACCTTAAAAAAGGTT-GCGATAGACCTT-GTTTACGGCA
* * * *
79547831 ACCCT-AAAAAGGTTGCGATAGATCTTGTTTAAGGAA
1 ACCTTAAAAAAGGTTGCGATAGACCTTGTTTACGGCA
** * * * * * *
79547867 AGTTTTAGAAAAGGTTGCAATTGACC-TGTCTAAGACA
1 A-CCTTAAAAAAGGTTGCGATAGACCTTGTTTACGGCA
* ** ** *
79547904 ACGTT-AAAAATTTTGCGATAGACC-CATTTACAGCA
1 ACCTTAAAAAAGGTTGCGATAGACCTTGTTTACGGCA
* * *
79547939 ACCCT-AAAAAGGTTGCGATAGACCTT-TTCCAAGGCA
1 ACCTTAAAAAAGGTTGCGATAGACCTTGTT-TACGGCA
* *
79547975 A-CTTAAAAAAAGTTGGGATA
1 ACCTTAAAAAAGGTTGCGATA
79547995 AACTCGTCTA
Statistics
Matches: 397, Mismatches: 105, Indels: 64
0.70 0.19 0.11
Matches are distributed among these distances:
34 3 0.01
35 95 0.24
36 75 0.19
37 104 0.26
38 109 0.27
39 11 0.03
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (37 bp):
ACCTTAAAAAAGGTTGCGATAGACCTTGTTTACGGCA
Found at i:79547816 original size:36 final size:35
Alignment explanation
Indices: 79547755--79548064 Score: 153
Period size: 35 Copynumber: 8.7 Consensus size: 35
79547745 CTTGTTTATG
79547755 GCAACCTTAAAAAAAGGTTGGGATAGACTTGTCTAAA
1 GCAACCTT--AAAAAGGTTGGGATAGACTTGTCTAAA
* *
79547792 GCAACCTTAAAAAGGTTGGTGATAGA-TTCGTTTAAG
1 GCAACCTTAAAAAGGTTGG-GATAGACTT-GTCTAAA
* * * * *
79547828 GTAACCCTAAAAAGGTTGCGATAGATCTTGTTTAAG
1 GCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAA
* ** ** * *
79547864 GAAAGTTTTAGAAAAGGTTGCAATTGACCTGTCT-AA
1 GCAA-CCTTA-AAAAGGTTGGGATAGACTTGTCTAAA
* ** * *** * *
79547900 GACAACGTTAAAAATTTTGCGATAGACCCATTTACA
1 G-CAACCTTAAAAAGGTTGGGATAGACTTGTCTAAA
* * * * *
79547936 GCAACCCTAAAAAGGTTGCGATAGACCTTTTCCAAG
1 GCAACCTTAAAAAGGTTGGGATAGA-CTTGTCTAAA
* * *
79547972 GCAA-CTTAAAAAAAGTTGGGATAAACTCGTCTAAA
1 GCAACCTT-AAAAAGGTTGGGATAGACTTGTCTAAA
* * ** *
79548007 GCAACCTTAAAATGGTTAGGG-TAAACCCGTCTAAG
1 GCAACCTTAAAAAGGTT-GGGATAGACTTGTCTAAA
79548042 GC-ACACTTAAAAAGGTTGGGATA
1 GCAAC-CTTAAAAAGGTTGGGATA
79548065 AATCTTTGTC
Statistics
Matches: 210, Mismatches: 49, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
34 5 0.02
35 101 0.48
36 71 0.34
37 19 0.09
38 14 0.07
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (35 bp):
GCAACCTTAAAAAGGTTGGGATAGACTTGTCTAAA
Found at i:79547982 original size:35 final size:36
Alignment explanation
Indices: 79547458--79548023 Score: 154
Period size: 35 Copynumber: 15.5 Consensus size: 36
79547448 CCTAGTTAAG
**
79547458 GGCAACCTTTGAAAAAGGTTGCGATAGACCAATT-TAA
1 GGCAACC-TT-AAAAAGGTTGCGATAGACCTTTTCTAA
* * *
79547495 GACAACTGTTAAAAATGGTTGCGATAGA-CTCGTT-T-A
1 GGCAAC-CTTAAAAA-GGTTGCGATAGACCT-TTTCTAA
* * *
79547531 GAGCAACGTTAAAAAGATTG-GTATAGATTCGTTTTC---
1 G-GCAACCTTAAAAAGGTTGCG-ATAGA--CCTTTTCTAA
* * *
79547567 GACAACCTTAAAAAGGTTGCGAGA-AGCCTTGTT-TAC
1 GGCAACCTTAAAAAGGTTGCGATAGA-CCTT-TTCTAA
** * *
79547603 GGCAACCCTTAATAAAAATTGCTATAGACCTTATCTACA
1 GGCAA-CCTTAA-AAAGGTTGCGATAGACCTTTTCTA-A
* * * * * *
79547642 -GCAACCTTTTAAAAAAGTTGTGGTATATCTTGTT-TAC
1 GGCAACC--TTAAAAAGGTTGCGATAGACCTT-TTCTAA
* * *
79547679 GGCAACCTTGAAAAAAGGTTGCGATAGGCC-TGTCTAC
1 GGCAACCTT--AAAAAGGTTGCGATAGACCTTTTCTAA
* * * * * *
79547716 GGAAACATTTTAAAAATGTTACTATAGACCTTGTT-TAT
1 GGCAAC--CTTAAAAAGGTTGCGATAGACCTT-TTCTAA
* *
79547754 GGCAACCTTAAAAAAAGGTTGGGATAGA-CTTGTCTAA
1 GGCAACCTT--AAAAAGGTTGCGATAGACCTTTTCTAA
* *
79547791 AGCAACCTTAAAAAGGTTGGTGATAGA--TTCGTT-TAA
1 GGCAACCTTAAAAAGGTT-GCGATAGACCTT--TTCTAA
* * *
79547827 GGTAACCCTAAAAAGGTTGCGATAGATCTTGTT-TAA
1 GGCAACCTTAAAAAGGTTGCGATAGACCTT-TTCTAA
* ** * * *
79547863 GGAAAGTTTTAGAAAAGGTTGCAATTGACC-TGTCTAA
1 GGCAA-CCTTA-AAAAGGTTGCGATAGACCTTTTCTAA
* * ** **
79547900 GACAACGTTAAAAATTTTGCGATAGACCCATT-TACA
1 GGCAACCTTAAAAAGGTTGCGATAGACCTTTTCTA-A
* *
79547936 -GCAACCCTAAAAAGGTTGCGATAGACCTTTTCCAA
1 GGCAACCTTAAAAAGGTTGCGATAGACCTTTTCTAA
* * * **
79547971 GGCAA-CTTAAAAAAAGTTGGGATA-AACTCGTCTAA
1 GGCAACCTT-AAAAAGGTTGCGATAGACCTTTTCTAA
* *
79548006 AGCAACCTTAAAATGGTT
1 GGCAACCTTAAAAAGGTT
79548024 AGGGTAAACC
Statistics
Matches: 387, Mismatches: 95, Indels: 96
0.67 0.16 0.17
Matches are distributed among these distances:
33 3 0.01
34 4 0.01
35 105 0.27
36 90 0.23
37 86 0.22
38 90 0.23
39 9 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.29
Consensus pattern (36 bp):
GGCAACCTTAAAAAGGTTGCGATAGACCTTTTCTAA
Found at i:79548395 original size:74 final size:75
Alignment explanation
Indices: 79548258--79548409 Score: 195
Period size: 74 Copynumber: 2.0 Consensus size: 75
79548248 TAGTAATTTA
* * * *
79548258 TATACAAAATCCTAATAGAAGTAGTCGACAAGTTGCGAACATGTTGTCAACCTATTTCACATGAC
1 TATACAAAATCCTAATAAAAGCAATCAACAAGTTGCGAACATGTTGTCAACCTATTTCACATGAC
79548323 ATC-AAAAAAT
66 A-CAAAAAAAT
* *
79548333 TATACAAAATCCTAATAAAAGCAATCAACACA-TTGC-AACATGTTGTCAACTTGA-TTCCCATG
1 TATACAAAATCCTAATAAAAGCAATCAACA-AGTTGCGAACATGTTGTCAACCT-ATTTCACATG
79548395 ACACAAAAAAAT
64 ACACAAAAAAAT
79548407 TAT
1 TAT
79548410 GAGACAATTG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
73 1 0.01
74 35 0.51
75 31 0.46
76 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.11, T:0.26
Consensus pattern (75 bp):
TATACAAAATCCTAATAAAAGCAATCAACAAGTTGCGAACATGTTGTCAACCTATTTCACATGAC
ACAAAAAAAT
Found at i:79549203 original size:104 final size:104
Alignment explanation
Indices: 79549085--79549295 Score: 422
Period size: 104 Copynumber: 2.0 Consensus size: 104
79549075 CGCTCATCTC
79549085 TTCAATCAATGTAGTGATGGCCGATGTAGTTTGGCTTTCTCGGGTAACTGACCCATAGCCAAACA
1 TTCAATCAATGTAGTGATGGCCGATGTAGTTTGGCTTTCTCGGGTAACTGACCCATAGCCAAACA
79549150 ACCTAGATTTGGTCATCCCACGTCCATATCCCAACATTT
66 ACCTAGATTTGGTCATCCCACGTCCATATCCCAACATTT
79549189 TTCAATCAATGTAGTGATGGCCGATGTAGTTTGGCTTTCTCGGGTAACTGACCCATAGCCAAACA
1 TTCAATCAATGTAGTGATGGCCGATGTAGTTTGGCTTTCTCGGGTAACTGACCCATAGCCAAACA
79549254 ACCTAGATTTGGTCATCCCACGTCCATATCCCAACATTT
66 ACCTAGATTTGGTCATCCCACGTCCATATCCCAACATTT
79549293 TTC
1 TTC
79549296 CATCCTTGTC
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 107 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (104 bp):
TTCAATCAATGTAGTGATGGCCGATGTAGTTTGGCTTTCTCGGGTAACTGACCCATAGCCAAACA
ACCTAGATTTGGTCATCCCACGTCCATATCCCAACATTT
Found at i:79560755 original size:35 final size:35
Alignment explanation
Indices: 79560723--79560843 Score: 179
Period size: 35 Copynumber: 3.5 Consensus size: 35
79560713 GGAGCAGGTG
* *
79560723 GTGGACGGCAGATGCACCGGTGGCTAGGGCAGGCA
1 GTGGACAGCAGATGCACCAGTGGCTAGGGCAGGCA
* *
79560758 GTGGACAGCAGATGCACCCGTGGCTTGGGCAGGCA
1 GTGGACAGCAGATGCACCAGTGGCTAGGGCAGGCA
* *
79560793 GTGGACAACAGATGCACCAGTGGCTGGGGCAGGCA
1 GTGGACAGCAGATGCACCAGTGGCTAGGGCAGGCA
*
79560828 GTGGACGGCAGATGCA
1 GTGGACAGCAGATGCA
79560844 ATAGGTTTGC
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 78 1.00
ACGTcount: A:0.22, C:0.23, G:0.42, T:0.12
Consensus pattern (35 bp):
GTGGACAGCAGATGCACCAGTGGCTAGGGCAGGCA
Found at i:79561481 original size:22 final size:21
Alignment explanation
Indices: 79561425--79561488 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
79561415 TACTGAAAAG
* *
79561425 TTTTTGTTTTAATTTTTTTTCT
1 TTTTTATTTT-ATATTTTTTCT
***
79561447 TTTTTAACATATATTTTTTCT
1 TTTTTATTTTATATTTTTTCT
79561468 ATTTTTATTTTATAATTTTTT
1 -TTTTTATTTTAT-ATTTTTT
79561489 TGAATATTGA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 10 0.31
22 15 0.47
23 7 0.22
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (21 bp):
TTTTTATTTTATATTTTTTCT
Found at i:79561539 original size:8 final size:8
Alignment explanation
Indices: 79561528--79561578 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 8
79561518 GACTAAAATA
79561528 TTAAATTT
1 TTAAATTT
79561536 TT-AATTT
1 TTAAATTT
79561543 TTAAATATTT
1 TT-AA-ATTT
79561553 TTGAAGATTT
1 TT-AA-ATTT
79561563 TTATAATTT
1 TTA-AATTT
79561572 TTAAATT
1 TTAAATT
79561579 AACATATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 7 0.19
8 6 0.16
9 9 0.24
10 15 0.41
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (8 bp):
TTAAATTT
Found at i:79562165 original size:7 final size:7
Alignment explanation
Indices: 79562153--79562225 Score: 74
Period size: 7 Copynumber: 10.3 Consensus size: 7
79562143 TATGTCAAAA
79562153 AAACCCT
1 AAACCCT
79562160 AAACCCT
1 AAACCCT
79562167 AAACCCT
1 AAACCCT
*
79562174 AAACTCT
1 AAACCCT
*
79562181 AAAACCT
1 AAACCCT
* *
79562188 AAAATCTT
1 -AAACCCT
*
79562196 AAACTCT
1 AAACCCT
*
79562203 AAACACT
1 AAACCCT
*
79562210 AAACCTT
1 AAACCCT
79562217 AAACCCT
1 AAACCCT
79562224 AA
1 AA
79562226 CCTAAATTGA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
7 48 0.91
8 5 0.09
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.21
Consensus pattern (7 bp):
AAACCCT
Found at i:79562177 original size:21 final size:21
Alignment explanation
Indices: 79562153--79562225 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
79562143 TATGTCAAAA
*
79562153 AAACCCTAAACCCTAAACCCT
1 AAACCCTAAACCCTAAACCTT
* * *
79562174 AAACTCTAAAACCTAAAATCTT
1 AAACCCTAAACCCT-AAACCTT
* *
79562196 AAACTCTAAACACTAAACCTT
1 AAACCCTAAACCCTAAACCTT
79562217 AAACCCTAA
1 AAACCCTAA
79562226 CCTAAATTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
21 26 0.60
22 17 0.40
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.21
Consensus pattern (21 bp):
AAACCCTAAACCCTAAACCTT
Found at i:79562794 original size:131 final size:131
Alignment explanation
Indices: 79562460--79563249 Score: 932
Period size: 131 Copynumber: 6.0 Consensus size: 131
79562450 TATGTTGACA
* * * * *
79562460 AGTCTATCTG-AACACTTAGGAAAGTGCCGCCCCAAAACTGTAGTCTTAGGACTAGACAAAAGCC
1 AGTCTATC-GCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAA-CC
** *
79562524 AACTCTTGCTCAAGCGTTGCCTTAGGCATACATATTGCAACCCTTATACAAAGAGTTGCCGAAAG
64 AACTCTTATTCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAG
* *
79562589 CGC
129 AGT
* *
79562592 AGTTTATCGCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAACCA
1 AGTCTATCGCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACAC-AAAACCA
* * * *
79562657 ACTCTTATTCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATATAAAGAGTTGACGAAAGA
65 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAGA
79562722 GT
130 GT
* *
79562724 AGTCTAT-GCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCCTAGGACTACACAAACTCCA
1 AGTCTATCGCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAA-ACCA
* *
79562788 ACTCTTATGCAAGCGTTGCCGTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCC-AAAGC
65 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAG-
79562852 A-T
129 AGT
* * * * * *
79562854 AGTTTATCCCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTATGACTACACAAATGCTA
1 AGTCTATCGCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAA-ACCA
* * * *
79562919 ACTC--ATTCAAGCGTTGCCATAGGCATACATATCGCAACCCTTATACAAATAGTTGGCGAAAGC
65 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAGA
79562982 GT
130 GT
* * * *
79562984 AGTATATTC-CAACACTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTACACAACACCA
1 AGTCTA-TCGCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAACCA
* * * * * *
79563048 ACTCTTATTTAAGCGTTGCTTTAGACATGCTTATCCCAACCCTTATACAAAGAGTTGCCGAAAGC
65 ACTCTTATTCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAA--
79563113 GTATGTT
128 G-A-G-T
* * * *
79563120 GGCCAGTCTATCGCAACACTTAGAAAAGTGTTGCCTCATAAA-TGTCGTCTTAGGACTAGACAAA
1 ----AGTCTATCGCAACACTTAGGAAAGTGTCGCCACA-AAAGTGTCGTCTTAGGACTACACAAA
* * * *
79563184 GCCAACTCTTATTTAAGCGTTGCTTTAGGCATGCATATCGCAACCCTTATACAAA-AGTTGCCGA
61 ACCAACTCTTATTCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGA
79563248 AA
126 AA
79563250 ATGTATGTTG
Statistics
Matches: 571, Mismatches: 66, Indels: 35
0.85 0.10 0.05
Matches are distributed among these distances:
129 55 0.10
130 70 0.12
131 209 0.37
132 115 0.20
133 5 0.01
135 1 0.00
136 1 0.00
139 13 0.02
140 99 0.17
141 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (131 bp):
AGTCTATCGCAACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCTTAGGACTACACAAAACCAA
CTCTTATTCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAGAG
T
Found at i:79563090 original size:260 final size:259
Alignment explanation
Indices: 79562470--79563249 Score: 972
Period size: 260 Copynumber: 2.9 Consensus size: 259
79562460 AGTCTATCTG
* * * * * **
79562470 AACACTTAGGAAAGTGCCGCCCCAAAACTGTAGTCTTAGGACTAGACAAAAGCCAACTCTTGCTC
1 AACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACACAACA-CCAACTCTTATTC
* **
79562535 AAGCGTTGCCTTAGGCATACATATTGCAACCCTTATACAAAGAGTTGCCGAAAGCGCAGTTTATC
65 AAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAGCATAGTTTATC
*
79562600 GCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAAACCAACTCTTAT
130 GCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACAC-AAAGCCAACTC-TAT
* * * *
79562665 TCAAGCATTGCCTTAGGCATACATATCCCAACCCTTATATAAAGAGTTGACGAAAGAGTAGTCTA
193 TCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAA-AGTTGACGAAAGAGTAGTATA
*
79562730 TGC
257 TCC
* * * *
79562733 AACACTTAGGAAAGTGTCGCCACAAAAGTGTCGTCCTAGGACTACACAAACTCCAACTCTTATGC
1 AACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACAC-AACACCAACTCTTATTC
*
79562798 AAGCGTTGCCGTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCC-AAAGCATAGTTTATC
65 AAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAGCATAGTTTATC
* * *
79562862 CCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTATGACTACACAAATGCTAACTC-ATT
130 GCAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAA-GCCAACTCTATT
* * *
79562926 CAAGCGTTGCCATAGGCATACATATCGCAACCCTTATACAAATAGTTGGCGAAAGCGTAGTATAT
194 CAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAA-AGTTGACGAAAGAGTAGTATA-
79562991 TCC
257 TCC
* *
79562994 AACACTTAGGAAAGTGTTGCCCCAAAAGTGTCGTCTTAGGACTACACAACACCAACTCTTATTTA
1 AACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACACAACACCAACTCTTATTCA
* * * * *
79563059 AGCGTTGCTTTAGACATGCTTATCCCAACCCTTATACAAAGAGTTGCCGAAAGCGTATGTTGGCC
66 AGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAGC--A---T----
* * ** * *
79563124 AGTCTATCGCAACACTTAGAAAAGTGTTGCCTCATAAA-TGTCGTCTTAGGACTAGACAAAGCCA
122 AGTTTATCGCAACACTTAGGAAAGTGTCACCACA-AAAGTGTCGTCTTAGGACTACACAAAGCCA
* * * *
79563188 ACTCTTATTTAAGCGTTGCTTTAGGCATGCATATCGCAACCCTTATACAAAAGTTGCCGAAA
186 ACTC-TATTCAAGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAAGTTGACGAAA
79563250 ATGTATGTTG
Statistics
Matches: 447, Mismatches: 54, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
260 116 0.26
261 54 0.12
262 66 0.15
263 99 0.22
264 2 0.00
266 1 0.00
269 7 0.02
270 58 0.13
271 44 0.10
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (259 bp):
AACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTAGGACTACACAACACCAACTCTTATTCA
AGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAGAGTTGCCGAAAGCATAGTTTATCG
CAACACTTAGGAAAGTGTCACCACAAAAGTGTCGTCTTAGGACTACACAAAGCCAACTCTATTCA
AGCGTTGCCTTAGGCATACATATCGCAACCCTTATACAAAAGTTGACGAAAGAGTAGTATATCC
Found at i:79563307 original size:139 final size:140
Alignment explanation
Indices: 79562993--79563311 Score: 509
Period size: 140 Copynumber: 2.3 Consensus size: 140
79562983 TAGTATATTC
*
79562993 CAACACTTAGGAAAGTGTTGCCCCA-AAAGTGTCGTCTTAGGACTACACAACACCAACTCTTATT
1 CAACACTTAGAAAAGTGTTGCCCCATAAA-TGTCGTCTTAGGACTACACAACACCAACTCTTATT
* *
79563057 TAAGCGTTGCTTTAGACATGCTTATCCCAACCCTTATACAAAGAGTTGCCGAAAGCGTATGTTGG
65 TAAGCGTTGCTTTAGACATGCATATCCCAACCCTTATACAAAGAGTTGCCGAAAACGTATGTTGG
79563122 CCAGTCTATCG
130 CCAGTCTATCG
* *
79563133 CAACACTTAGAAAAGTGTTGCCTCATAAATGTCGTCTTAGGACTAGACAA-AGCCAACTCTTATT
1 CAACACTTAGAAAAGTGTTGCCCCATAAATGTCGTCTTAGGACTACACAACA-CCAACTCTTATT
* * *
79563197 TAAGCGTTGCTTTAGGCATGCATATCGCAACCCTTATACAAA-AGTTGCCGAAAATGTATGTTGG
65 TAAGCGTTGCTTTAGACATGCATATCCCAACCCTTATACAAAGAGTTGCCGAAAACGTATGTTGG
79563261 CCAGTCTATCG
130 CCAGTCTATCG
* *
79563272 CAACACTTAGAAAAGTGTTGCCCCATAACTATCGTCTTAG
1 CAACACTTAGAAAAGTGTTGCCCCATAAATGTCGTCTTAG
79563312 CACTGTTTTG
Statistics
Matches: 166, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
139 69 0.42
140 94 0.57
141 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (140 bp):
CAACACTTAGAAAAGTGTTGCCCCATAAATGTCGTCTTAGGACTACACAACACCAACTCTTATTT
AAGCGTTGCTTTAGACATGCATATCCCAACCCTTATACAAAGAGTTGCCGAAAACGTATGTTGGC
CAGTCTATCG
Found at i:79564178 original size:27 final size:28
Alignment explanation
Indices: 79564148--79564206 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
79564138 ATTTTAATAA
*
79564148 ATTTCTA-TATATTTTT-AAGATTTTAAG
1 ATTTCTATTA-ATTTTTGAAAATTTTAAG
* *
79564175 ATTTGTATTAATTTTTGAAAATTTTATG
1 ATTTCTATTAATTTTTGAAAATTTTAAG
79564203 ATTT
1 ATTT
79564207 TTTAAACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 12 0.44
28 15 0.56
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (28 bp):
ATTTCTATTAATTTTTGAAAATTTTAAG
Found at i:79564237 original size:30 final size:28
Alignment explanation
Indices: 79564203--79564268 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 28
79564193 AAATTTTATG
*
79564203 ATTTTTTAAACAATTTTAAAATAAAATATT
1 ATTTTTTAAA-AA-TTTAAAATAAAATATC
*
79564233 ATTTTTCTAAATATTTAAAATAAAATATC
1 ATTTTT-TAAAAATTTAAAATAAAATATC
79564262 ATTTTTT
1 ATTTTTT
79564269 TTTCACATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 1 0.03
29 21 0.64
30 7 0.21
31 4 0.12
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTTTTAAAAATTTAAAATAAAATATC
Found at i:79566721 original size:3 final size:3
Alignment explanation
Indices: 79566655--79566702 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
79566645 TTATGGAATG
79566655 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
79566703 CAAGTAACGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:79567000 original size:39 final size:40
Alignment explanation
Indices: 79566922--79567000 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
79566912 AAATATAATA
*
79566922 GAATAACAAACAAAACAGTTTATAAAAAAAATTTGAAATT
1 GAATAACAAACAAAACAATTTATAAAAAAAATTTGAAATT
* *
79566962 GAATAACAAACAAAACAATTTGT-AAAAAATTTTGAAATT
1 GAATAACAAACAAAACAATTTATAAAAAAAATTTGAAATT
79567001 AAATGAACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 15 0.42
40 21 0.58
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (40 bp):
GAATAACAAACAAAACAATTTATAAAAAAAATTTGAAATT
Found at i:79577241 original size:29 final size:30
Alignment explanation
Indices: 79577198--79577257 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
79577188 CAAGAATTTG
* *
79577198 ATAAAACTAAAATTTTGTATATAAAATTAC
1 ATAAAACTAAAATTTTATATACAAAATTAC
79577228 ATAAAA-TAAAATTTTATATACAAAATTAC
1 ATAAAACTAAAATTTTATATACAAAATTAC
79577257 A
1 A
79577258 CTGAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 22 0.79
30 6 0.21
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.35
Consensus pattern (30 bp):
ATAAAACTAAAATTTTATATACAAAATTAC
Found at i:79579509 original size:3 final size:3
Alignment explanation
Indices: 79579501--79579525 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
79579491 TATACTTCGC
79579501 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
79579526 TACTTATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:79582404 original size:15 final size:15
Alignment explanation
Indices: 79582376--79582427 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
79582366 CTTTTTTATA
79582376 TATTATTTAAATTTT
1 TATTATTTAAATTTT
79582391 TATT-TTTAATATTTT
1 TATTATTTAA-ATTTT
*
79582406 TATAAAATTTAAATTATT
1 TAT--TATTTAAATT-TT
79582424 TATT
1 TATT
79582428 GAGGTATCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 5 0.17
15 12 0.40
17 3 0.10
18 10 0.33
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTATTTAAATTTT
Found at i:79590019 original size:13 final size:14
Alignment explanation
Indices: 79589995--79590027 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
79589985 CCCTCTTTCT
*
79589995 ATTTTTTATTTATA
1 ATTTTTTATTTAAA
79590009 ATTTTTT-TTTAAA
1 ATTTTTTATTTAAA
79590022 ATTTTT
1 ATTTTT
79590028 GGAAAGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
ATTTTTTATTTAAA
Found at i:79598078 original size:22 final size:22
Alignment explanation
Indices: 79598053--79598096 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
79598043 TTATTTTGCA
*
79598053 GTCATTTCACTATTATTTTATT
1 GTCATTTCACTATTATATTATT
**
79598075 GTCATTTTGCTATTATATTATT
1 GTCATTTCACTATTATATTATT
79598097 ACTATTTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.11, G:0.07, T:0.59
Consensus pattern (22 bp):
GTCATTTCACTATTATATTATT
Found at i:79598855 original size:29 final size:30
Alignment explanation
Indices: 79598785--79598856 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 30
79598775 GTTACAATTT
* * *
79598785 AGATTTATTTGATTCTTTTTAATAATATAA
1 AGATTAATTTGATTCTATTTAATAATAGAA
* * *
79598815 AGACTAAATTGATTC-ATTTAATAATAGAT
1 AGATTAATTTGATTCTATTTAATAATAGAA
*
79598844 GGATTAATTTGAT
1 AGATTAATTTGAT
79598857 GTAATCCCTA
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (30 bp):
AGATTAATTTGATTCTATTTAATAATAGAA
Found at i:79601742 original size:11 final size:11
Alignment explanation
Indices: 79601726--79601750 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
79601716 CTAAAAATGA
79601726 TTTTTTTAATT
1 TTTTTTTAATT
79601737 TTTTTTTAATT
1 TTTTTTTAATT
79601748 TTT
1 TTT
79601751 AGAGTTAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTTTAATT
Found at i:79601792 original size:31 final size:31
Alignment explanation
Indices: 79601757--79601855 Score: 80
Period size: 31 Copynumber: 3.3 Consensus size: 31
79601747 TTTTAGAGTT
79601757 AGGACTAAATTGACAGATTTTGTAAATATTG
1 AGGACTAAATTGACAGATTTTGTAAATATTG
* * ** *
79601788 AGGACCAAATTTATTGCATTTT-TATA-ATT-
1 AGGACTAAATTGACAG-ATTTTGTAAATATTG
* *
79601817 A-GAGCTAAAATGACAAATTTTGTAAATATTG
1 AGGA-CTAAATTGACAGATTTTGTAAATATTG
*
79601848 AGGGCTAA
1 AGGACTAA
79601856 TTTTGTTGAT
Statistics
Matches: 49, Mismatches: 13, Indels: 12
0.66 0.18 0.16
Matches are distributed among these distances:
28 7 0.14
29 10 0.20
30 6 0.12
31 20 0.41
32 6 0.12
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.35
Consensus pattern (31 bp):
AGGACTAAATTGACAGATTTTGTAAATATTG
Found at i:79604921 original size:26 final size:26
Alignment explanation
Indices: 79604890--79604997 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
79604880 TGAAATGCCC
*
79604890 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
79604916 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
79604942 ATTATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
79604968 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79604994 ATCA
1 ATCA
79604998 ATTTGTATCA
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:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79609888 original size:12 final size:12
Alignment explanation
Indices: 79609871--79609901 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
79609861 AGTACTACCT
79609871 CGGCCTCGACCA
1 CGGCCTCGACCA
79609883 CGGCCTCGACCA
1 CGGCCTCGACCA
79609895 CGGCCTC
1 CGGCCTC
79609902 TTCCCCGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.13, C:0.52, G:0.26, T:0.10
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:79611551 original size:26 final size:26
Alignment explanation
Indices: 79611505--79611557 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
79611495 TCAAACATGC
*
79611505 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
79611531 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
79611557 A
1 A
79611558 AAACTGTAAA
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:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:79613073 original size:26 final size:26
Alignment explanation
Indices: 79613042--79613123 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
79613032 TGAAATACCC
79613042 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
79613068 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
79613094 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
79613120 ATCA
1 ATCA
79613124 ATTTGTATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:79618150 original size:14 final size:14
Alignment explanation
Indices: 79618131--79618161 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
79618121 CTGAAGTAGA
79618131 AAAATCATTATCAG
1 AAAATCATTATCAG
79618145 AAAATCATTATCAG
1 AAAATCATTATCAG
79618159 AAA
1 AAA
79618162 GAGAAATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (14 bp):
AAAATCATTATCAG
Found at i:79619650 original size:19 final size:19
Alignment explanation
Indices: 79619604--79619651 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
79619594 GTATATATTT
79619604 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
79619622 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
79619641 TAAGTTTTATT
1 TAAATTTTATT
79619652 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:79619720 original size:43 final size:43
Alignment explanation
Indices: 79619673--79619757 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
79619663 AATAATTTTA
79619673 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
1 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
* *
79619716 TTTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
1 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTC
79619758 CCAATTAAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.49
Consensus pattern (43 bp):
TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
Found at i:79624380 original size:19 final size:19
Alignment explanation
Indices: 79624334--79624381 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
79624324 GTATATATTT
*
79624334 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGATAGA
*
79624352 TAAATCTTATTTAGATAGA
1 TAAATTTTATTTAGATAGA
*
79624371 TAAGTTTTATT
1 TAAATTTTATT
79624382 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATAGA
Found at i:79624443 original size:43 final size:43
Alignment explanation
Indices: 79624395--79624487 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 43
79624385 ATTCTAGAAA
*
79624395 TATTTT-TATTTTATCTTTTAGTAGTTTACTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
* *
79624438 TATTTTCTTTTTATGTTTTAATAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
79624481 TATTTTC
1 TATTTTC
79624488 CCAATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAATAGTTTACTAGAATAAGGGAAC
Found at i:79629894 original size:32 final size:32
Alignment explanation
Indices: 79629850--79629913 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
79629840 TCAATACTAG
* *
79629850 TCAGAACGATAAAGTGAAGTTGATAGATGCTA
1 TCAGAACAATAAAGTGAAGTTGACAGATGCTA
*
79629882 TCAGAACAATAAAGTGAAGTTGGCAGATGCTA
1 TCAGAACAATAAAGTGAAGTTGACAGATGCTA
79629914 ACTCTGAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (32 bp):
TCAGAACAATAAAGTGAAGTTGACAGATGCTA
Found at i:79638792 original size:46 final size:46
Alignment explanation
Indices: 79638740--79638921 Score: 242
Period size: 46 Copynumber: 4.0 Consensus size: 46
79638730 AGTGTGCTCT
* *
79638740 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
79638786 CTGATATGAAA-CATGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGGCAAC
**
79638832 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
79638878 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
79638922 TCATGTCAAA
Statistics
Matches: 120, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
45 1 0.01
46 118 0.98
47 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:79641209 original size:21 final size:23
Alignment explanation
Indices: 79641183--79641230 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
79641173 AATTTGTTGC
79641183 TTTTTGCTGTTG-CTT-TCACTA
1 TTTTTGCTGTTGACTTGTCACTA
* *
79641204 TTTTTGTTGTTGATTTGTCACTA
1 TTTTTGCTGTTGACTTGTCACTA
79641227 TTTT
1 TTTT
79641231 GATATCGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
23 10 0.43
ACGTcount: A:0.10, C:0.12, G:0.15, T:0.62
Consensus pattern (23 bp):
TTTTTGCTGTTGACTTGTCACTA
Found at i:79644253 original size:24 final size:24
Alignment explanation
Indices: 79644219--79644264 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
79644209 TATATGAAAT
* *
79644219 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
79644243 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
79644265 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:79650056 original size:18 final size:18
Alignment explanation
Indices: 79650002--79650061 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
79649992 AATTCAAAGT
*
79650002 ATTTAAAAATTTTAT-AA
1 ATTTAAAAATATTATAAA
* *
79650019 TTTTAAAAA-GTTATAGAA
1 ATTTAAAAATATTATA-AA
79650037 ATTTAAAAATATTATAAA
1 ATTTAAAAATATTATAAA
*
79650055 ATCTAAA
1 ATTTAAA
79650062 CTAAATATAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.11
17 8 0.23
18 18 0.51
19 5 0.14
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (18 bp):
ATTTAAAAATATTATAAA
Found at i:79651230 original size:13 final size:14
Alignment explanation
Indices: 79651194--79651244 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
79651184 CTCAAAGGGA
*
79651194 GTTTCAGGTTTGG-
1 GTTTGAGGTTTGGT
*
79651207 GTTTGATGTTTGGT
1 GTTTGAGGTTTGGT
79651221 GTTTG-GGTTTGGT
1 GTTTGAGGTTTGGT
* *
79651234 ATTTAAGGTTT
1 GTTTGAGGTTT
79651245 ATGGTTCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 21 0.68
14 10 0.32
ACGTcount: A:0.10, C:0.02, G:0.35, T:0.53
Consensus pattern (14 bp):
GTTTGAGGTTTGGT
Found at i:79652578 original size:29 final size:31
Alignment explanation
Indices: 79652533--79652593 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
79652523 CTAATAGTTT
*
79652533 AAGTATCACATTGGACAT-TT-TCAAAGTAC
1 AAGTATCACATTAGACATGTTATCAAAGTAC
*
79652562 AAGTATCACATTAGACATGTTATGAAAGTAC
1 AAGTATCACATTAGACATGTTATCAAAGTAC
79652593 A
1 A
79652594 TGTACCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 17 0.61
30 2 0.07
31 9 0.32
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (31 bp):
AAGTATCACATTAGACATGTTATCAAAGTAC
Found at i:79652587 original size:91 final size:89
Alignment explanation
Indices: 79652414--79652682 Score: 265
Period size: 91 Copynumber: 3.0 Consensus size: 89
79652404 AACTCCAAAT
* * * * *
79652414 ACCATAATAATACACAGATTGATAGTTCGAGTACCACATTGAATATTTTCAAAGTATAAGTATCA
1 ACCA-AATAATACACAAATTGATAGTTCAAGTACCACATTGGACATTTTCAAAGTACAAGTATCA
** *
79652479 TGTTGGGCATTTCATGAAAGTACA-A
65 CATTGGACATTT-ATGAAAGTACAGA
* * * *
79652504 ACCTTAAATAATACACAAACTAATAGTTTAAGTATCACATTGGACATTTTCAAAGTACAAGTATC
1 ACC--AAATAATACACAAATTGATAGTTCAAGTACCACATTGGACATTTTCAAAGTACAAGTATC
* *
79652569 ACATTAGACATGTTATGAAAGTACATGT
64 ACATTGGACAT-TTATGAAAGTACA-GA
* * * *
79652597 ACCAAATAATACACAAATTGATGGTTCAAGTACCACATTAGACACTTTT-AAGGTACATA-TACC
1 ACCAAATAATACACAAATTGATAGTTCAAGTACCACATTGGACA-TTTTCAAAGTACA-AGTATC
*
79652660 ACATTGGATATTTTATGAAAGTA
64 ACATTGGACA-TTTATGAAAGTA
79652683 TAGGTACCAA
Statistics
Matches: 147, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
90 3 0.02
91 132 0.90
92 9 0.06
93 3 0.02
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (89 bp):
ACCAAATAATACACAAATTGATAGTTCAAGTACCACATTGGACATTTTCAAAGTACAAGTATCAC
ATTGGACATTTATGAAAGTACAGA
Found at i:79655497 original size:18 final size:18
Alignment explanation
Indices: 79655474--79655516 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
79655464 TGCCAGGTGC
*
79655474 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
79655492 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
79655510 GTTTCCT
1 GTATCCT
79655517 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:79659300 original size:126 final size:126
Alignment explanation
Indices: 79659006--79659384 Score: 618
Period size: 126 Copynumber: 3.0 Consensus size: 126
79658996 TATAGCCTCG
* * * * *
79659006 TTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACATGAGAGCTTTTTCCAGAAATTTTACTGA
1 TTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTGA
* *
79659071 CATTGCATCCTGCTTGAAGCGTTTTCAGCACTATTTGTTCAG-AACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATTA
* * *
79659131 TTTTTCCATGAACTACTGTAGCAAAAGAGTGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTAA
1 TTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTGA
79659196 CAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATTA
79659257 TTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTGA
1 TTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTGA
* *
79659322 CAGTGCATCCTGCTTGAAGCGTTTTCCGACACTATTT-TTCCAGAAACGTCTGCTCAGAATTA
66 CAGTGCATCCTGCTTGAAGCGTTTT-CGGCACTATTTGTT-CAGAAACGTCTACTCAGAATTA
79659384 T
1 T
79659385 ACTTGCAGAA
Statistics
Matches: 236, Mismatches: 15, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
125 97 0.41
126 107 0.45
127 32 0.14
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (126 bp):
TTTTTCCACGAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTGA
CAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATTA
Found at i:79659515 original size:26 final size:26
Alignment explanation
Indices: 79659485--79659572 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
79659475 TAAAAAACTA
79659485 AACCCTAATCCTTAATTTAATGAATT
1 AACCCTAATCCTTAATTTAATGAATT
* *
79659511 AACCCTAATACACTCTAATTTAGT-ATTT
1 AACCCTAAT-C-CT-TAATTTAATGAATT
*** **
79659539 AAAATTAATAGTTAATTTAATGAATT
1 AACCCTAATCCTTAATTTAATGAATT
*
79659565 AGCCCTAA
1 AACCCTAA
79659573 AACCTTAAAT
Statistics
Matches: 45, Mismatches: 13, Indels: 8
0.68 0.20 0.12
Matches are distributed among these distances:
25 8 0.18
26 17 0.38
27 1 0.02
28 11 0.24
29 8 0.18
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (26 bp):
AACCCTAATCCTTAATTTAATGAATT
Found at i:79659874 original size:21 final size:22
Alignment explanation
Indices: 79659837--79659889 Score: 81
Period size: 21 Copynumber: 2.4 Consensus size: 22
79659827 TTTTTTCTAA
79659837 AACCCTAAACCCTTAAAAACACT
1 AACCCTAAA-CCTTAAAAACACT
79659860 AACCCTAAA-CTTAAAAACACT
1 AACCCTAAACCTTAAAAACACT
*
79659881 AACCATAAA
1 AACCCTAAA
79659890 TCAATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 20 0.69
23 9 0.31
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (22 bp):
AACCCTAAACCTTAAAAACACT
Found at i:79664095 original size:29 final size:29
Alignment explanation
Indices: 79664053--79664111 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
79664043 TTCTCAAGCC
79664053 TTCAACAAACTTGGGATGGGCTAGGCAAT
1 TTCAACAAACTTGGGATGGGCTAGGCAAT
79664082 TTCAACAAACTTGGGATGGGCTAGGCAAT
1 TTCAACAAACTTGGGATGGGCTAGGCAAT
79664111 T
1 T
79664112 ATCTACTATA
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:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (29 bp):
TTCAACAAACTTGGGATGGGCTAGGCAAT
Found at i:79665614 original size:16 final size:15
Alignment explanation
Indices: 79665592--79665628 Score: 65
Period size: 16 Copynumber: 2.4 Consensus size: 15
79665582 ATCGAATTAA
79665592 TTGATTGAATTTATT
1 TTGATTGAATTTATT
79665607 TGTGATTGAATTTATT
1 T-TGATTGAATTTATT
79665623 TTGATT
1 TTGATT
79665629 AGAGGTCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.59
Consensus pattern (15 bp):
TTGATTGAATTTATT
Found at i:79665654 original size:12 final size:12
Alignment explanation
Indices: 79665637--79665671 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
79665627 TTAGAGGTCA
79665637 GTTAATGATTTT
1 GTTAATGATTTT
79665649 GTTAATGATTTT
1 GTTAATGATTTT
* *
79665661 TTTAATAATTT
1 GTTAATGATTT
79665672 AAAAAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (12 bp):
GTTAATGATTTT
Found at i:79666358 original size:5 final size:5
Alignment explanation
Indices: 79666348--79666379 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
79666338 AGATAACCTC
79666348 AAAA- AAAA- AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
79666380 AGGGATAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:79669073 original size:23 final size:23
Alignment explanation
Indices: 79669023--79669073 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
79669013 TCATGTCGAT
*
79669023 AAATAATTTAAAAATTAAAAAAA
1 AAATAATTCAAAAATTAAAAAAA
* *
79669046 TAATAA-TCAAAATTTAAAATAAA
1 AAATAATTCAAAAATTAAAA-AAA
79669069 AAATA
1 AAATA
79669074 GTTTATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AAATAATTCAAAAATTAAAAAAA
Found at i:79679235 original size:19 final size:19
Alignment explanation
Indices: 79679211--79679251 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
79679201 AAAAATAAAA
* * *
79679211 TTTTTATATTTTTATACTT
1 TTTTTATAATTTAATAATT
79679230 TTTTTATAATTTAATAATT
1 TTTTTATAATTTAATAATT
79679249 TTT
1 TTT
79679252 AATTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTTATAATTTAATAATT
Found at i:79680765 original size:104 final size:105
Alignment explanation
Indices: 79680634--79680853 Score: 322
Period size: 106 Copynumber: 2.1 Consensus size: 105
79680624 AATGGCCGAC
* *
79680634 AAAAAATTTAAATTTTTTGGTGCTGGCCTGTCAATAG-CAGGCACCAGGTACGAG-ATTTAA-TT
1 AAAAAATTCAAATTTCTTGGTGCTGGCCTGTCAATAGCCA-GCACCAGGTACGAGTATTTAATTT
*
79680696 TTTTTTTGTTTTGGCCTTCTAATGGCC-GACACCAGCACGAA
65 TTTTTTTGTTTTGGCCTTCTAATGGCCTG-CACCAGCACAAA
* * *
79680737 AAAAAATTCAAATATTCTTGGTGTTGGCCTGTCAATGGCCAGCACCAGGTACGAGTTTTTAATTT
1 AAAAAATTCAAAT-TTCTTGGTGCTGGCCTGTCAATAGCCAGCACCAGGTACGAGTATTTAATTT
*
79680802 TTTTTTTGTTTTGGCCTTCTAATGGCCTGCACCAGTACAAA
65 TTTTTTTGTTTTGGCCTTCTAATGGCCTGCACCAGCACAAA
79680843 AAAAAATTCAA
1 AAAAAATTCAA
79680854 TTTTTTTTTC
Statistics
Matches: 105, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
103 12 0.11
104 35 0.33
105 7 0.07
106 50 0.48
107 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (105 bp):
AAAAAATTCAAATTTCTTGGTGCTGGCCTGTCAATAGCCAGCACCAGGTACGAGTATTTAATTTT
TTTTTTGTTTTGGCCTTCTAATGGCCTGCACCAGCACAAA
Found at i:79691344 original size:10 final size:10
Alignment explanation
Indices: 79691329--79691356 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
79691319 ACGATTCAAA
79691329 GAAGAAGATG
1 GAAGAAGATG
79691339 GAAGAAGATG
1 GAAGAAGATG
79691349 GAAGAAGA
1 GAAGAAGA
79691357 AAAATGAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.39, T:0.07
Consensus pattern (10 bp):
GAAGAAGATG
Found at i:79696954 original size:20 final size:19
Alignment explanation
Indices: 79696915--79696955 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
79696905 AATTTGTTTG
* *
79696915 TTTAGTTAATTAACCTTAA
1 TTTAGTTAAATAAACTTAA
79696934 TTTAGTTAAATAATACTTAA
1 TTTAGTTAAATAA-ACTTAA
79696954 TT
1 TT
79696956 AATTAAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (19 bp):
TTTAGTTAAATAAACTTAA
Found at i:79696983 original size:14 final size:14
Alignment explanation
Indices: 79696964--79696996 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
79696954 TTAATTAAGT
79696964 TAATAACCATATGA
1 TAATAACCATATGA
*
79696978 TAATAACCATGTGA
1 TAATAACCATATGA
79696992 TAATA
1 TAATA
79696997 CTGTCCACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.30
Consensus pattern (14 bp):
TAATAACCATATGA
Found at i:79698928 original size:30 final size:30
Alignment explanation
Indices: 79698892--79698951 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
79698882 AATTACATTC
*
79698892 AATTCAATGAGACCTACTAATTACAATGAT
1 AATTCAATGAGACATACTAATTACAATGAT
79698922 AATTCAATGAGACATACTAATTACAATGAT
1 AATTCAATGAGACATACTAATTACAATGAT
79698952 TATTGATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (30 bp):
AATTCAATGAGACATACTAATTACAATGAT
Found at i:79707928 original size:20 final size:20
Alignment explanation
Indices: 79707896--79707933 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
79707886 TGTTTCACAT
79707896 TCATATAACTAATATTTATA
1 TCATATAACTAATATTTATA
*
79707916 TCAT-TAACATAATTTTTA
1 TCATATAAC-TAATATTTA
79707934 AATTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (20 bp):
TCATATAACTAATATTTATA
Found at i:79708444 original size:18 final size:18
Alignment explanation
Indices: 79708421--79708459 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
79708411 TACTTTTCTC
79708421 TTTCTA-TCACAATTCCAA
1 TTTCTATTCACAATT-CAA
*
79708439 TTTCTATTCATAATTCAA
1 TTTCTATTCACAATTCAA
79708457 TTT
1 TTT
79708460 TTTTTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCTATTCACAATTCAA
Found at i:79708628 original size:39 final size:38
Alignment explanation
Indices: 79708561--79708654 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 38
79708551 ACCAATATGG
*
79708561 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAA-AGTTGA
* * *
79708600 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAAAGTTGA
* * *
79708638 TACCTAGTACCTCATCG
1 CACCCAGTGCCTCATCG
79708655 AATCTATCCG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 18 0.39
39 25 0.54
40 3 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAAAGTTGA
Done.