Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 119 of 199
Found at i:39481238 original size:524 final size:524
Alignment explanation
Indices: 39480250--39481818 Score: 2888
Period size: 524 Copynumber: 3.0 Consensus size: 524
39480240 GAGACCGGGG
*
39480250 AAAATTGTATTTGGGTCCCGAAGCTCAAGCTACGTCCGTATCAAGTGTGGGTAGTGTGAAGCCTA
1 AAAATTGTATTTGGGTCCCGAAGCTCAAGCTACGTCGGTATCAAGTGTGGGTAGTGTGAAGCCTA
*
39480315 GTAAACCAGAGTGTCAGCATTGTGGCAGGCAACATCCTGGTGAATGCTGGTTAATTAGCCGAGCT
66 GTAAACCAGAGTGTCAGCATTGTGGTAGGCAACATCCTGGTGAATGCTGGTTAATTAGCCGAGCT
* * * * *
39480380 TGTTTTAAGTGTGGATCTCGACAACATTGTATTAAAGATTTCCCTGAGAAAATTGAAGAAGAAAA
131 TGTTTCAAGTGTGGCTCTCGACAACATTATATTAAAGATTGCCTTGAGAAAATTGAAGAAGAAAA
*
39480445 ATTTCAGAATGTTAGATCGAGTGATACTGTCAGCAGAGGTAGACCACCGAGAAACACCAGAACTA
196 ATTTCAGAATGTTAGATCGAGTGATACTGTCAGCAGAGGTAGACCACCGAGAAACACCGGAACTA
* *
39480510 GAGATAGTGGTAAAAGTGTAATGAAGGGTACAGTTGCAAGACCAGAACCTCGAACACCTGCCAGA
261 GAGATAGTGGTAAAAGTATAATGAAGGGTACAGTTGCAAGACCAGAACCTCAAACACCTGCCAGA
**
39480575 GCTTATGCCATACGTGCTCGTGAGGATGCATCATCACCTAATGTGATTACTGGTACATTCTCTCT
326 GCTTATGCCATACGTGCTCGTGAGGATGCATCATCACCCGATGTGATTACTGGTACATTCTCTCT
*
39480640 CTATGATATTGATGTTGTTGCTTTGATTGACCCTGGGTCTACTCATTCACATGTATGTGTGAATT
391 CTATGATATTGATGTTGTTGCTTTGATTGACCCTGGGTCTACTCATTCATATGTATGTGTGAATT
* *
39480705 TAGTATCTAATAAAAATTTTCCTCTTGAAAACACTGAATTTGTGGTAAAAGTATCAAACCCTTTA
456 TAGTATCTAATAAAAATTTGCCTATTGAAAACACTGAATTTGTGGTAAAAGTATCAAACCCTTTA
39480770 GGTA
521 GGTA
39480774 AAAATTGTATTTGGGTCCCGAAGCTCAAGCTACGTCGGTATCAAGTGTGGGTAGTGTGAAGCCTA
1 AAAATTGTATTTGGGTCCCGAAGCTCAAGCTACGTCGGTATCAAGTGTGGGTAGTGTGAAGCCTA
39480839 GTAAACCAGAGTGTCAGCATTGTGGTAGGCAACATCCTGGTGAATGCTGGTTAATTAGCCGAGCT
66 GTAAACCAGAGTGTCAGCATTGTGGTAGGCAACATCCTGGTGAATGCTGGTTAATTAGCCGAGCT
39480904 TGTTTCAAGTGTGGCTCTCGACAACATTATATTAAAGATTGCCTTGAGAAAATTGAAGAAGAAAA
131 TGTTTCAAGTGTGGCTCTCGACAACATTATATTAAAGATTGCCTTGAGAAAATTGAAGAAGAAAA
*
39480969 ATTTCAGAATGTTAGATCGAGTGATACTGTCAGCAGAGATAGACCACCGAGAAACACCGGAACTA
196 ATTTCAGAATGTTAGATCGAGTGATACTGTCAGCAGAGGTAGACCACCGAGAAACACCGGAACTA
*
39481034 GAGATAGTGGTAAAAGTATAATGAAGGGTACAGTTGCAAGACCAAAACCTCAAACACCTGCCAGA
261 GAGATAGTGGTAAAAGTATAATGAAGGGTACAGTTGCAAGACCAGAACCTCAAACACCTGCCAGA
* *
39481099 GCTTATGCCATACGTGCTCGTGAGGATGCATCATCACCCGACGTGATTACTAGTACATTCTCTCT
326 GCTTATGCCATACGTGCTCGTGAGGATGCATCATCACCCGATGTGATTACTGGTACATTCTCTCT
39481164 CTATGATATTGATGTTGTTGCTTTGATTGACCCTGGGTCTACTCATTCATATGTATGTGTGAATT
391 CTATGATATTGATGTTGTTGCTTTGATTGACCCTGGGTCTACTCATTCATATGTATGTGTGAATT
39481229 TAGTATCTAATAAAAATTTGCCTATTGAAAACACTGAATTTGTGGTAAAAGTATCAAACCCTTTA
456 TAGTATCTAATAAAAATTTGCCTATTGAAAACACTGAATTTGTGGTAAAAGTATCAAACCCTTTA
39481294 GGTA
521 GGTA
*
39481298 AAAATTGTATTTGTGTCCCGAAGCTCAAGCTACGTCGGTATCAAGTGTGGGTAGTGTGAAGCCTA
1 AAAATTGTATTTGGGTCCCGAAGCTCAAGCTACGTCGGTATCAAGTGTGGGTAGTGTGAAGCCTA
39481363 GTAAACCAGAGTGTCAGCATTGTGGTAGGCAACATCCTGGTGAATGCTGGTTAATTAGCCGAGCT
66 GTAAACCAGAGTGTCAGCATTGTGGTAGGCAACATCCTGGTGAATGCTGGTTAATTAGCCGAGCT
39481428 TGTTTCAAGTGTGGCTCTCGACAACATTATATTAAAGATTGCCTTGAGAAAATTGAAGAAGAAAA
131 TGTTTCAAGTGTGGCTCTCGACAACATTATATTAAAGATTGCCTTGAGAAAATTGAAGAAGAAAA
* *
39481493 ATTTCAGAATGTTAGATCGAGTGACACTGTCAGCAAAGGTAGACCACCGAGAAACACCGGAACTA
196 ATTTCAGAATGTTAGATCGAGTGATACTGTCAGCAGAGGTAGACCACCGAGAAACACCGGAACTA
*
39481558 GAGATAGTGGTAAAAGTATAATGAAAGGTACAGTTGCAAGACCAGAACCTCAAACACCTGCCAGA
261 GAGATAGTGGTAAAAGTATAATGAAGGGTACAGTTGCAAGACCAGAACCTCAAACACCTGCCAGA
*
39481623 GCTTATGCCATACGTGCTCGTGAGGATGCATCATCTCCCGATGTGATTACTGGTACATTCTCTCT
326 GCTTATGCCATACGTGCTCGTGAGGATGCATCATCACCCGATGTGATTACTGGTACATTCTCTCT
*
39481688 CTATGATATTGATGTTGTTGCTTTGATTGATCCTGGGTCTACTCATTCATATGTATGTGTGAATT
391 CTATGATATTGATGTTGTTGCTTTGATTGACCCTGGGTCTACTCATTCATATGTATGTGTGAATT
* *
39481753 TAGTATCTAA-AAAAAATTGCCTGTTGAAAACACTGAATTTGTGGTAAAAGTATCAAACCCTTTA
456 TAGTATCTAATAAAAATTTGCCTATTGAAAACACTGAATTTGTGGTAAAAGTATCAAACCCTTTA
39481817 GG
521 GG
39481819 CAAATATGTT
Statistics
Matches: 1014, Mismatches: 31, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
523 54 0.05
524 960 0.95
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (524 bp):
AAAATTGTATTTGGGTCCCGAAGCTCAAGCTACGTCGGTATCAAGTGTGGGTAGTGTGAAGCCTA
GTAAACCAGAGTGTCAGCATTGTGGTAGGCAACATCCTGGTGAATGCTGGTTAATTAGCCGAGCT
TGTTTCAAGTGTGGCTCTCGACAACATTATATTAAAGATTGCCTTGAGAAAATTGAAGAAGAAAA
ATTTCAGAATGTTAGATCGAGTGATACTGTCAGCAGAGGTAGACCACCGAGAAACACCGGAACTA
GAGATAGTGGTAAAAGTATAATGAAGGGTACAGTTGCAAGACCAGAACCTCAAACACCTGCCAGA
GCTTATGCCATACGTGCTCGTGAGGATGCATCATCACCCGATGTGATTACTGGTACATTCTCTCT
CTATGATATTGATGTTGTTGCTTTGATTGACCCTGGGTCTACTCATTCATATGTATGTGTGAATT
TAGTATCTAATAAAAATTTGCCTATTGAAAACACTGAATTTGTGGTAAAAGTATCAAACCCTTTA
GGTA
Found at i:39485574 original size:11 final size:12
Alignment explanation
Indices: 39485558--39485590 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
39485548 ATTTGACGGA
39485558 AAAATTTCG-TG
1 AAAATTTCGTTG
39485569 AAAATTTCGTTTG
1 AAAATTTCG-TTG
39485582 AAAATTTCG
1 AAAATTTCG
39485591 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
13 11 0.55
ACGTcount: A:0.36, C:0.09, G:0.15, T:0.39
Consensus pattern (12 bp):
AAAATTTCGTTG
Found at i:39486855 original size:51 final size:50
Alignment explanation
Indices: 39486795--39487130 Score: 305
Period size: 51 Copynumber: 6.6 Consensus size: 50
39486785 GATGAACACG
* *
39486795 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * * * *
39486846 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGTTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATGGTCACA
* ** *
39486897 TGTGTAGTACTGTGTGAAGGCTACTACACGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * * *
39486948 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAA-ATATGGTCACA
* * *
39486999 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * * * *
39487050 TTTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCAAAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAA--TATGGTCACA
39487101 TGTGTAGTACTATGTGAAGGCTACTACGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
39487131 AACCGTAAAA
Statistics
Matches: 219, Mismatches: 60, Indels: 12
0.75 0.21 0.04
Matches are distributed among these distances:
50 6 0.03
51 210 0.96
52 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATATGGTCACA
Found at i:39486967 original size:102 final size:102
Alignment explanation
Indices: 39486791--39487132 Score: 585
Period size: 102 Copynumber: 3.4 Consensus size: 102
39486781 TATCGATGAA
* *
39486791 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATTGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTAC
*
39486856 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGTT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
** *
39486893 CACGTGTGTAGTACTGTGTGAAGGCTACTACACGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTAC
39486958 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
*
39486995 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATTTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTAC
* * *
39487060 TAAGTGAAGGCTACTATGTGTACCAAAAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
*
39487097 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAA
39487133 CCGTAAAACT
Statistics
Matches: 226, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 226 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
Found at i:39493972 original size:21 final size:21
Alignment explanation
Indices: 39493939--39493978 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
39493929 ACTTATTTGT
* * *
39493939 AAAAGTTGTAAAATATGTGTA
1 AAAAATTGAAAAAAATGTGTA
39493960 AAAAATTGAAAAAAATGTG
1 AAAAATTGAAAAAAATGTG
39493979 ATTTAGTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (21 bp):
AAAAATTGAAAAAAATGTGTA
Found at i:39503085 original size:49 final size:49
Alignment explanation
Indices: 39502951--39503086 Score: 159
Period size: 49 Copynumber: 2.8 Consensus size: 49
39502941 TTATGAGAGG
* * *
39502951 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAAGAGAAC
* * * *
39503001 TCCCATGTAAGACCATATCTGAGATATGCCATTGGCA-GTACAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAAGAGAAC
*
39503049 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
39503087 TGTTATTATC
Statistics
Matches: 72, Mismatches: 12, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 4 0.06
49 36 0.50
50 32 0.44
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGACAAGAGAAC
Found at i:39532275 original size:23 final size:23
Alignment explanation
Indices: 39532238--39532300 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
39532228 AATTTGGTTA
**
39532238 ATTTCGTACCAAAAATTCCATACC
1 ATTTCGTACC-AAAACCCCATACC
39532262 ATTTCGTACCAAAACCCCATACC
1 ATTTCGTACCAAAACCCCATACC
*
39532285 ATTTCATACCAAAACC
1 ATTTCGTACCAAAACC
39532301 AACTCCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
23 26 0.72
24 10 0.28
ACGTcount: A:0.38, C:0.33, G:0.03, T:0.25
Consensus pattern (23 bp):
ATTTCGTACCAAAACCCCATACC
Found at i:39537094 original size:208 final size:209
Alignment explanation
Indices: 39536719--39537133 Score: 708
Period size: 208 Copynumber: 2.0 Consensus size: 209
39536709 GTGCCTAACT
*
39536719 CGTTGTCAAATTTATCTTACTTCAAATATTTCCCTTCACATTCTAAACAAAGTCTCTCTCTACCA
1 CGTTCTCAAATTTATCTTACTTCAAATATTTCCCTTCACATTCTAAACAAAGTCTCTCTCTACCA
* *
39536784 TAAATCAAGGTTTCCCTAAAAATTTTGTATGAAGAACAAAGCAATAGCATAACAATATCATAGTC
66 TAAATCAAGGTTTCCCTAAAAATTTTGTATGAAGAACAAAGCAATAACATAACAATAACATAGTC
*
39536849 TCTTTCTATGATGGCCTCAACATTCGTTAGATCATTGAGAAGAGTGAAATATTCACTAATATGGG
131 TCTTTCTATGATGGCCTCAACATTCGATAGATCATTGAGAAGAGTGAAATATTCACTAATATGGG
39536914 CCCTAATAGACTTA
196 CCCTAATAGACTTA
* * * *
39536928 CGTTCTCAAATTTATCCTTACTTCAAATATTTCCCTTCACGTTCTCAA-AAAG-GTCTCTCTATC
1 CGTTCTCAAATTTAT-CTTACTTCAAATATTTCCCTTCACATTCTAAACAAAGTCTCTCTCTACC
*
39536991 ATAAATCAGGGTTTCCCTAAAAATTTTGTATGAAGAACAAAGCAATAACATAACAATAACATAGT
65 ATAAATCAAGGTTTCCCTAAAAATTTTGTATGAAGAACAAAGCAATAACATAACAATAACATAGT
* *
39537056 CTCTTTCTGTGATGGCCTCAACATTTGATAGATCATTGAGAAGAGTGAAATATTCACTAATATGG
130 CTCTTTCTATGATGGCCTCAACATTCGATAGATCATTGAGAAGAGTGAAATATTCACTAATATGG
39537121 GCCCTAATAGACT
195 GCCCTAATAGACT
39537134 CACCTTCTTC
Statistics
Matches: 194, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
208 146 0.75
209 18 0.09
210 30 0.15
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (209 bp):
CGTTCTCAAATTTATCTTACTTCAAATATTTCCCTTCACATTCTAAACAAAGTCTCTCTCTACCA
TAAATCAAGGTTTCCCTAAAAATTTTGTATGAAGAACAAAGCAATAACATAACAATAACATAGTC
TCTTTCTATGATGGCCTCAACATTCGATAGATCATTGAGAAGAGTGAAATATTCACTAATATGGG
CCCTAATAGACTTA
Found at i:39549683 original size:30 final size:30
Alignment explanation
Indices: 39549647--39549708 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
39549637 TCCAGAATTA
*
39549647 TGCATGGTACATTTCCTTTGTAAGAGGCCT
1 TGCATGGTACATTTCCTTTGCAAGAGGCCT
* *
39549677 TGCATGGTACATTTCGTTTGCAAGAGGTCT
1 TGCATGGTACATTTCCTTTGCAAGAGGCCT
39549707 TG
1 TG
39549709 GTAGACAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (30 bp):
TGCATGGTACATTTCCTTTGCAAGAGGCCT
Found at i:39549878 original size:37 final size:37
Alignment explanation
Indices: 39549823--39549894 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
39549813 CACATCACGG
*
39549823 GTGTACTATAATTCTAGTACAGTATATATATGGATGA
1 GTGTACTATAAATCTAGTACAGTATATATATGGATGA
* **
39549860 GTGTGCTATAAATCTAGTATGGTATATATATGGAT
1 GTGTACTATAAATCTAGTACAGTATATATATGGAT
39549895 AGAATTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (37 bp):
GTGTACTATAAATCTAGTACAGTATATATATGGATGA
Found at i:39552585 original size:66 final size:65
Alignment explanation
Indices: 39552509--39552637 Score: 197
Period size: 66 Copynumber: 2.0 Consensus size: 65
39552499 ATAGTTACAA
* *
39552509 GTGAAATATTATAATAAATCTAAAA-TTATAATTTAAAAAATTATAAATAATGCCTCCTTAATTA
1 GTGAAATATTATAATAAATCCAAAAGTTATAA-TTAAAAAATGATAAATAATGCCT-CTTAATTA
39552573 TT
64 TT
* *
39552575 GTGAAATATTATAATAAATCCAAAAGTTATAATTGAAAAATGATAAATTATGCCTCTTAATTA
1 GTGAAATATTATAATAAATCCAAAAGTTATAATTAAAAAATGATAAATAATGCCTCTTAATTA
39552638 AGGAGACTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
65 8 0.14
66 44 0.76
67 6 0.10
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (65 bp):
GTGAAATATTATAATAAATCCAAAAGTTATAATTAAAAAATGATAAATAATGCCTCTTAATTATT
Found at i:39554845 original size:50 final size:50
Alignment explanation
Indices: 39554736--39554983 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
39554726 ATTTGGATAA
*
39554736 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--AAGA-C--G
* *
39554792 AGAGGTCTCATGTAAGA-CATGGTCTGGGACATGGCATTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCACCAAGACG
* * *
39554842 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
** * * *
39554892 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGAGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCACCAAGACG
** * *
39554942 AGAACTCCCATGTAAGACCATTTCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
39554984 GTACAAGAAA
Statistics
Matches: 168, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
49 2 0.01
50 116 0.69
51 5 0.03
52 1 0.01
53 3 0.02
55 5 0.03
56 36 0.21
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGACG
Found at i:39563837 original size:56 final size:52
Alignment explanation
Indices: 39563765--39564011 Score: 274
Period size: 50 Copynumber: 4.8 Consensus size: 52
39563755 ACAAATGTAA
*
39563765 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAGA-CATG
* *
39563821 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCATCGGCACCGAGAC--G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACATG
*
39563871 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG--ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACATG
* * * * * *
39563921 AAAGGTTCCC-CGTAACACCATGTCTAGGACATGGCATGGGCACC--TACATG
1 AGAGG-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACATG
** * *
39563971 AGAATTCCCATGTAAGACCATATCTGGGATATGGCATTGGC
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGC
39564012 GGTACAAGAA
Statistics
Matches: 163, Mismatches: 22, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.02
50 109 0.67
51 4 0.02
52 1 0.01
53 4 0.02
55 2 0.01
56 39 0.24
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (52 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGACATG
Found at i:39566914 original size:45 final size:45
Alignment explanation
Indices: 39566850--39566938 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
39566840 TAGAAAACCG
* * *
39566850 TTGATTTTTCGTAATTGACACTGCCCCGAGCAACTTTTGTATTCA
1 TTGATTTTTCATAATTGACACTACCCCGAGCAACTTTCGTATTCA
*
39566895 TTGATTTTTCATAATTGACACTACCTCGAGCAACTTTCGTATTC
1 TTGATTTTTCATAATTGACACTACCCCGAGCAACTTTCGTATTC
39566939 CCTAAGGATT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (45 bp):
TTGATTTTTCATAATTGACACTACCCCGAGCAACTTTCGTATTCA
Found at i:39570367 original size:761 final size:762
Alignment explanation
Indices: 39568010--39571799 Score: 5411
Period size: 760 Copynumber: 5.0 Consensus size: 762
39568000 AAGAAAGTCA
* * * * * *
39568010 TATTTTTGTCCTCTAATTTCAACCAGTTCACCCTAACCCTTTGCTCCCAATAAATTTCATCTTTA
1 TATTTTTGTCCCCTAATTTCAACCAGTTTACCCGAGCCCTTTGCTCCCAATACATTTCGTCTTTA
* * * *
39568075 TTAATCTCTAAATTAAGATGTACTCCAGTATCAAT-CAAATCAGCCATAATTTCATTAGTTCTGT
66 TCAATCTCTAAATTAAGATGTACTCTAGTATCAATCCAAATCAGCCATACTTTCATCAGTTCTGT
* * *
39568139 CATGATCTAAGAGAAATTTTATTTTTTCTATCTGCTTCTTCTTTTGCCCTTCCC-TTTTTTGTCT
131 CTTGATCTAAGAGAAATTTTATTTTTTCTATCAGCTTCTTCTTTCGCCCTTCCCTTTTTTTGTCT
* * *
39568203 AATTCTAGTAGCCCATCTTACGAGCCCAATTTGTAAAAAATTGATTTTTTCAAAAATATCACCGT
196 AATTCCAGTAGCCCATCTTACGAGCCCAATCTGTAAAAAATTGAATTTTTCAAAAATATCACCGT
*
39568268 GATCAACTTGCCACAATCATCTGATCTCATCCACACAATTTTCTTCCTTCACCCACCATGCCTCA
261 GATCAACTTGCCACAATCATCTGATCTCATCCACACAATTTTCTTCCTTCACCCACCACGCCTCA
* * * *
39568333 AATTGAAATATCTTACTATACATGTTCTTTGATTCAATATCAATACCAAGCAGTATGGGATAGTG
326 AATCGAAATACCTTCCTATACATGTTCTTTGATTCAATATCAATATCAAGCAGTATGGGATAGTG
* * * * *
39568398 ATATG-AAAAA-AATTCGGTAAATGGTG-AAAACTGCTATTGGAAAAATATCCCTCCGCTCTAAG
391 AT-CGAAAAAAGAATGCGGTAAATGGTGAAAAACTGCTGTTGGAAACATATCCCTCCACTCTAAG
* *
39568460 TTCGCCACACCCCTATCAAGCCTTTCATGTATATTAGTCTCCGGCAAATTCCCTCTTTCCCAAGC
455 TTCGCCACACCCCTATCAAGCCTTTCATGTATATTAGTCTCTGGCAAATTCCCTCTTTCCCAAGT
** *
39568525 AAACCAAGTACCTAAGAAGCCAATATCTGTCAGTTGACATTCCTCCAAAACTTCCATAAACTCCG
520 AAACCAAGTACCTAAGAAGCCAATATCCATCAGTTGACATTCCTCCAAAACTTCCCTAAACTCCG
* ** * *
39568590 CCATCCTGCTCTCTTCTCTTGGTTCACCACCCACATTCTCGAAGGAATAAAGT-ATCTCATTAAA
585 CCATCCTGCTCTCCTCTCTTGGCGCACCACCCACCTTCTCGAAGGAATAAA-TAATCTCGTTAAA
* * * *
39568654 ATCTCCACAAACCATCCTAGGTAGGCCTTGGATTCGATTTAGGTCTTTTAGTATGCCCCAAGTAT
649 ATCTCCACAAACCATCCAAGGTAAGCCTTGGATTCGATTTAGATTTTTTAGTATGCCCCAAGTAT
*
39568719 TTCCTCTATTCTGCGCATAATGGGAGCCATAAAAACCCTTAAACCTATG
714 TTCCTCTATTCTGCGCATAAAGGGAGCCATAAAAACCCTTAAACCTATG
* * * * * *
39568768 TATTTTTGTCCCATAATTTCAACCAGTTTACCCTA-CCCTTTTACACCCAATACATTTTGCCTTT
1 TATTTTTGTCCCCTAATTTCAACCAGTTTACCCGAGCCC-TTTGCTCCCAATACATTTCGTCTTT
* *
39568832 ATCAATCTCTAAATTAAGATGTACTCTAGTATCAA-CCAACTCAGCCATACTTTCATTAGTTCTG
65 ATCAATCTCTAAATTAAGATGTACTCTAGTATCAATCCAAATCAGCCATACTTTCATCAGTTCTG
* *
39568896 TCTTGATCTAAGAGAAATTTTATTTTTTCTGTCAGCTTCTTCTTTCGCCCTTCCTTTTTTTTTGT
130 TCTTGATCTAAGAGAAATTTTATTTTTTCTATCAGCTTCTTCTTTCGCCCTTCC-CTTTTTTTGT
* * * *
39568961 CTAATTCTAGTAGCCTATCTTACGAGCCCAATCTATAAAAATTTGAATTTTTCAAAAATATCACC
194 CTAATTCCAGTAGCCCATCTTACGAGCCCAATCTGTAAAAAATTGAATTTTTCAAAAATATCACC
* * * * *
39569026 GCGATCAACTTGCCACAATCTTCTCATCTCATCCACATAA-ATTCTTCCTTCACCCACCACGCCT
259 GTGATCAACTTGCCACAATCATCTGATCTCATCCACACAATTTTCTTCCTTCACCCACCACGCCT
* *
39569090 CAAATCGAAAGACCTTCCTATACATGTTCTTTGATTCAATATCAATATCAAGCAATATGGGATAG
324 CAAATCGAAATACCTTCCTATACATGTTCTTTGATTCAATATCAATATCAAGCAGTATGGGATAG
* * * *
39569155 TGATCGGAAAAA-AATGCGGTAAATGGTGAAAAACTGCTGTCGGGAACGTATCCCTCCACTCTAA
389 TGATCGAAAAAAGAATGCGGTAAATGGTGAAAAACTGCTGTTGGAAACATATCCCTCCACTCTAA
**
39569219 GTTTTCCACACCCCTATCAAGCCTTTCATGTATATTAGTCTCTGGCAAATTCCCTCTTTCCCAAG
454 GTTCGCCACACCCCTATCAAGCCTTTCATGTATATTAGTCTCTGGCAAATTCCCTCTTTCCCAAG
* *
39569284 TAAACCAAGTACTTAAGAAGCTAATATCCATC-GTTGACATTCCTCCAAAACTTCCCTAAACTCC
519 TAAACCAAGTACCTAAGAAGCCAATATCCATCAGTTGACATTCCTCCAAAACTTCCCTAAACTCC
*
39569348 GCCATCCTGCTCTCCTCTCTTGGCGCACCACCCACCTTCTCGAAGGAATAAAGAATCTCGTTAAA
584 GCCATCCTGCTCTCCTCTCTTGGCGCACCACCCACCTTCTCGAAGGAATAAATAATCTCGTTAAA
* * *
39569413 ATCTTCACAAACTATCCAAGGTAAGCCTTGGATTTGATTTAGATTTTTTAGTATGCCCCAAGTAT
649 ATCTCCACAAACCATCCAAGGTAAGCCTTGGATTCGATTTAGATTTTTTAGTATGCCCCAAGTAT
* *
39569478 TTCATCTATTCTGCGCATAAAGGGAGACATAAAAA-CCTGTAAACCTATG
714 TTCCTCTATTCTGCGCATAAAGGGAGCCATAAAAACCCT-TAAACCTATG
* * ** *
39569527 TATTTTTTTCCCCTAATTTTAACCAGTTTACTTGAGCCCTTTGCTCCCAATAGATTTCGTCTTTA
1 TATTTTTGTCCCCTAATTTCAACCAGTTTACCCGAGCCCTTTGCTCCCAATACATTTCGTCTTTA
*
39569592 TCAATCTCTAAATTAAGTTGTACTCTAGTAT-AATCCAAATCAGCCATACTTTCATCAGTTCTGT
66 TCAATCTCTAAATTAAGATGTACTCTAGTATCAATCCAAATCAGCCATACTTTCATCAGTTCTGT
* *
39569656 CTTGATCTAAGAGAAATTTTATTTTTTCTATCAGCTTCTTCTTTCACCCTTCCCTTTTTTTATCT
131 CTTGATCTAAGAGAAATTTTATTTTTTCTATCAGCTTCTTCTTTCGCCCTTCCCTTTTTTTGTCT
* * *
39569721 AATTCCAGTAGCCCATCTTATGAGCCCAATCTGTAAAAAAATGAATTTTTCAAAAATATCACTGT
196 AATTCCAGTAGCCCATCTTACGAGCCCAATCTGTAAAAAATTGAATTTTTCAAAAATATCACCGT
* *
39569786 GATCAACTTGCCACAATCATCTGATCTCATCCACACAATTTTCTTCCTTCACGCACCACACCTCA
261 GATCAACTTGCCACAATCATCTGATCTCATCCACACAATTTTCTTCCTTCACCCACCACGCCTCA
39569851 AATCGAAATACCTTCCTATACATGTTCTTTGATTCAATATCAATATCAAGCAGTATGGGATAGTG
326 AATCGAAATACCTTCCTATACATGTTCTTTGATTCAATATCAATATCAAGCAGTATGGGATAGTG
* * ** * *
39569916 ATCGAAAAAAGAATGCAGTGAATGGTGAAAAACTATTGTTGGTAACATATCCTTCCACTCTAAGT
391 ATCGAAAAAAGAATGCGGTAAATGGTGAAAAACTGCTGTTGGAAACATATCCCTCCACTCTAAGT
* * *
39569981 TCGCCACACCCCTATCAAGCCTTTCATGTATATTCGTCTCTAGCAAATTCCCTCTTGCCCAAGTA
456 TCGCCACACCCCTATCAAGCCTTTCATGTATATTAGTCTCTGGCAAATTCCCTCTTTCCCAAGTA
* * *
39570046 AACCAAGTACCTGAGAAGCCAATATCCATCAATTGACATTCCTCCAAAATTTCCCTAAACTCCGC
521 AACCAAGTACCTAAGAAGCCAATATCCATCAGTTGACATTCCTCCAAAACTTCCCTAAACTCCGC
* *
39570111 AATCCTGCTCTCCTCTCTTGGCGCACCACCCACCTTTTCGAAGGAATAAATAATCTCGTTAAAAT
586 CATCCTGCTCTCCTCTCTTGGCGCACCACCCACCTTCTCGAAGGAATAAATAATCTCGTTAAAAT
* * * *
39570176 CTCCATAAACCATCCAAGGTAAGCCTTAGATTCGATTTATATTTTTTTCGTATGCCCCAAGTATT
651 CTCCACAAACCATCCAAGGTAAGCCTTGGATTCGATTTAGA-TTTTTTAGTATGCCCCAAGTATT
*
39570241 TCCTCTATTCTGCACATAAAGGGAGCCATAAAAACCCTT-AACCTATG
715 TCCTCTATTCTGCGCATAAAGGGAGCCATAAAAACCCTTAAACCTATG
* * * * *
39570288 TACTTTTGTCCCCTAATTTCAACCAGTTTACCCGAGCCCTTTGTTCCCACTTCATTTTGTCTTTA
1 TATTTTTGTCCCCTAATTTCAACCAGTTTACCCGAGCCCTTTGCTCCCAATACATTTCGTCTTTA
* * * *
39570353 TTAATCTCTAAATTAAGATGTACTCTAGTATCAA-CCAAATCAACCATATTTTCATCAGTTCAGT
66 TCAATCTCTAAATTAAGATGTACTCTAGTATCAATCCAAATCAGCCATACTTTCATCAGTTCTGT
* * * * *
39570417 CTTGATCTAAGAGAAATTTTATTTTTACTGTCAACTTCTTCTTTCACCCTTCCCTTTTTTTCTCT
131 CTTGATCTAAGAGAAATTTTATTTTTTCTATCAGCTTCTTCTTTCGCCCTTCCCTTTTTTTGTCT
* * * **
39570482 AATTCCAGTAGCCCATCTTACGAGCCCAATCTATACAAAATTGAATTTTTCAAAAAT-GCACCAC
196 AATTCCAGTAGCCCATCTTACGAGCCCAATCTGTAAAAAATTGAATTTTTCAAAAATATCACCGT
* * * *
39570546 GATCAACTTGCCACAATCGTCTGATCTCATCCACACAATTTTTTTCCTTCACCCACCATGCCTTA
261 GATCAACTTGCCACAATCATCTGATCTCATCCACACAATTTTCTTCCTTCACCCACCACGCCTCA
* *
39570611 AATCGAAATACCTCCCTATACATGTTCTTTGATTCAATATCAATATCAAGTAGTATGGGATAGTG
326 AATCGAAATACCTTCCTATACATGTTCTTTGATTCAATATCAATATCAAGCAGTATGGGATAGTG
* * ** * * *
39570676 ACCGGAAAAAGAATGTTGTAAATGGTGAAAAACTACTGTTTGAAACATATCCGTCCACTCTAAGT
391 ATCGAAAAAAGAATGCGGTAAATGGTGAAAAACTGCTGTTGGAAACATATCCCTCCACTCTAAGT
* * * * * * *
39570741 TTGCCACACCCCTTTCAAGCCCTTCTTGTACATTAGTCTCTGGAAAATTCCTTCTTTCCCAAGTA
456 TCGCCACACCCCTATCAAGCCTTTCATGTATATTAGTCTCTGGCAAATTCCCTCTTTCCCAAGTA
* * * *
39570806 AATCAAGTACCTAAGAAGCCAATATCCGTCAGTTGACATTCCTCCCAAACTTTCCTAAACTCCGC
521 AACCAAGTACCTAAGAAGCCAATATCCATCAGTTGACATTCCTCCAAAACTTCCCTAAACTCCGC
* * * * * * *
39570871 CATCCTGCTCTGCTCTCTTGGTGCACCACCCACTTTCTCAAAGGGATGAATAATCTCATTAAAAT
586 CATCCTGCTCTCCTCTCTTGGCGCACCACCCACCTTCTCGAAGGAATAAATAATCTCGTTAAAAT
* *
39570936 CTCTACAAACCATCCAAGGTAAGCCTTGGATTCAATTTAGATTTTTTAGTATGCCCCAAGTATTT
651 CTCCACAAACCATCCAAGGTAAGCCTTGGATTCGATTTAGATTTTTTAGTATGCCCCAAGTATTT
* * *
39571001 CCTCTATTCTGCGCATAAGGGGAGCCATAAAAACTCATAAACCTATG
716 CCTCTATTCTGCGCATAAAGGGAGCCATAAAAACCCTTAAACCTATG
**
39571048 TATTTTTGTCCCCTAATTTCAACCAGTTTACTTGAGCCCTATT-CTCCCAATACATTTCGTCTTT
1 TATTTTTGTCCCCTAATTTCAACCAGTTTACCCGAGCCCT-TTGCTCCCAATACATTTCGTCTTT
* * * *
39571112 ATAAATCTCTAAATTAAAATGTACTCTAGTGTCAAT-CAAATCAGCCATACTTTCATCAGTTTTG
65 ATCAATCTCTAAATTAAGATGTACTCTAGTATCAATCCAAATCAGCCATACTTTCATCAGTTCTG
39571176 TCTTGATCTAAGAGAAATTTTATTTTTTCTATCAGC-T-TT-TTTCGCCCTT-CCTTTTTTTGTC
130 TCTTGATCTAAGAGAAATTTTATTTTTTCTATCAGCTTCTTCTTTCGCCCTTCCCTTTTTTTGTC
** * * * * * *
39571237 TAATTCCAACAGCACATCTTATGATCCCAAACTGTAAAAATTTGAATTTTTCAAAAATATCACTG
195 TAATTCCAGTAGCCCATCTTACGAGCCCAATCTGTAAAAAATTGAATTTTTCAAAAATATCACCG
* *
39571302 TGATCAACTTGCCACAATCCTTCT-ATCTCATCCACACAATTTTCTTCCTTCACCTACCACGCCT
260 TGATCAACTTGCCACAAT-CATCTGATCTCATCCACACAATTTTCTTCCTTCACCCACCACGCCT
* * * *
39571366 CAAATTGAAATACCTTCCTACACATGTCCTTTGATTCAATATTAATATCAAGCAGTATGGGATAG
324 CAAATCGAAATACCTTCCTATACATGTTCTTTGATTCAATATCAATATCAAGCAGTATGGGATAG
* * * * *
39571431 TGATC-AGAAAAAGATTGCGGTAAATGGTG-AAAATTGTTGTTGGAAACATATCCGTCCACTTTA
389 TGATCGA-AAAAAGAATGCGGTAAATGGTGAAAAACTGCTGTTGGAAACATATCCCTCCACTCTA
** * * * *
39571494 AGTTCGCCACACCTTTATCAAGCTTTTCATGTATTTTAGTCTCCGACAAATTCCCTCTTTCCCAA
453 AGTTCGCCACACCCCTATCAAGCCTTTCATGTATATTAGTCTCTGGCAAATTCCCTCTTTCCCAA
* * * *
39571559 GTAAACCAAGTACCTAAGAAACAAATTTCCATCAGTTGAAATTCCTCCAAAACTTCCCTAAACTC
518 GTAAACCAAGTACCTAAGAAGCCAATATCCATCAGTTGACATTCCTCCAAAACTTCCCTAAACTC
* ** * *
39571624 CTCCATCCTGCTCTGTTCTCTTGGCGTACCACCCACCTTCTCGAAGGAATAAAGAATCTCGTTAA
583 CGCCATCCTGCTCTCCTCTCTTGGCGCACCACCCACCTTCTCGAAGGAATAAATAATCTCGTTAA
* * * *
39571689 AATCTCTATAAACTAT-CAAGGTAAGCCTTGGATTCGATTTAGATTTTTTAGTATTCCCCAAGTA
648 AATCTCCACAAACCATCCAAGGTAAGCCTTGGATTCGATTTAGATTTTTTAGTATGCCCCAAGTA
* * *
39571753 TTTCCTCTATTCTGTGCA-AAAGGGGAGTCATAAAAACCCGTAAACCT
713 TTTCCTCTATTCTGCGCATAAA-GGGAGCCATAAAAACCCTTAAACCT
39571800 TAATTCCTTT
Statistics
Matches: 2702, Mismatches: 307, Indels: 49
0.88 0.10 0.02
Matches are distributed among these distances:
754 2 0.00
755 85 0.03
756 267 0.10
757 150 0.06
758 274 0.10
759 606 0.22
760 895 0.33
761 364 0.13
762 56 0.02
763 3 0.00
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.34
Consensus pattern (762 bp):
TATTTTTGTCCCCTAATTTCAACCAGTTTACCCGAGCCCTTTGCTCCCAATACATTTCGTCTTTA
TCAATCTCTAAATTAAGATGTACTCTAGTATCAATCCAAATCAGCCATACTTTCATCAGTTCTGT
CTTGATCTAAGAGAAATTTTATTTTTTCTATCAGCTTCTTCTTTCGCCCTTCCCTTTTTTTGTCT
AATTCCAGTAGCCCATCTTACGAGCCCAATCTGTAAAAAATTGAATTTTTCAAAAATATCACCGT
GATCAACTTGCCACAATCATCTGATCTCATCCACACAATTTTCTTCCTTCACCCACCACGCCTCA
AATCGAAATACCTTCCTATACATGTTCTTTGATTCAATATCAATATCAAGCAGTATGGGATAGTG
ATCGAAAAAAGAATGCGGTAAATGGTGAAAAACTGCTGTTGGAAACATATCCCTCCACTCTAAGT
TCGCCACACCCCTATCAAGCCTTTCATGTATATTAGTCTCTGGCAAATTCCCTCTTTCCCAAGTA
AACCAAGTACCTAAGAAGCCAATATCCATCAGTTGACATTCCTCCAAAACTTCCCTAAACTCCGC
CATCCTGCTCTCCTCTCTTGGCGCACCACCCACCTTCTCGAAGGAATAAATAATCTCGTTAAAAT
CTCCACAAACCATCCAAGGTAAGCCTTGGATTCGATTTAGATTTTTTAGTATGCCCCAAGTATTT
CCTCTATTCTGCGCATAAAGGGAGCCATAAAAACCCTTAAACCTATG
Found at i:39574803 original size:78 final size:78
Alignment explanation
Indices: 39574719--39574868 Score: 246
Period size: 78 Copynumber: 1.9 Consensus size: 78
39574709 GCATTTTCTG
* *
39574719 TAGAGCATTTTTCAAGATAGGGTGAGAAAGCTTTAGTCCAAAGGTTTCTTGTTGTTTTTTAGCTA
1 TAGAGCATTTTTCAAGATAGAGTGAAAAAGCTTTAGTCCAAAGGTTTCTTGTTGTTTTTTAGCTA
*
39574784 TGTTCTTTTCTAC
66 GGTTCTTTTCTAC
* * *
39574797 TAGAGCATTTTTTAAGGTAGAGTGAAAAAGCTTTAGTCTAAAGGTTTCTTGTTGTTTTTTAGCTA
1 TAGAGCATTTTTCAAGATAGAGTGAAAAAGCTTTAGTCCAAAGGTTTCTTGTTGTTTTTTAGCTA
39574862 GGTTCTT
66 GGTTCTT
39574869 GTTAGATTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.44
Consensus pattern (78 bp):
TAGAGCATTTTTCAAGATAGAGTGAAAAAGCTTTAGTCCAAAGGTTTCTTGTTGTTTTTTAGCTA
GGTTCTTTTCTAC
Found at i:39581225 original size:30 final size:31
Alignment explanation
Indices: 39581186--39581245 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
39581176 GGAGGTGGGA
39581186 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
* *
39581217 TGGG-AGGGAGTAAAAGTTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAGTTTTAGGGGAAAA
39581246 CAAAAGCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.42, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
Found at i:39581452 original size:9 final size:9
Alignment explanation
Indices: 39581434--39581470 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
39581424 TATAGTTTGA
39581434 TATTCGAAT
1 TATTCGAAT
*
39581443 TATTCAAAT
1 TATTCGAAT
*
39581452 TATTCGAGT
1 TATTCGAAT
39581461 TATTCGAAT
1 TATTCGAAT
39581470 T
1 T
39581471 TGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:39582314 original size:20 final size:20
Alignment explanation
Indices: 39582289--39582340 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
39582279 AAGTTTATGT
39582289 TAAGTAAATGAAATGGAAAG
1 TAAGTAAATGAAATGGAAAG
* *
39582309 TAAGTAAATGGAATGGTAAG
1 TAAGTAAATGAAATGGAAAG
*
39582329 AAAGTAAATGAA
1 TAAGTAAATGAA
39582341 GTGGTACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.54, C:0.00, G:0.25, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGAAATGGAAAG
Found at i:39582345 original size:20 final size:19
Alignment explanation
Indices: 39582290--39582346 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 19
39582280 AGTTTATGTT
* *
39582290 AAGTAAATGAAATGGAAAGT
1 AAGTAAATG-AATGGTAAGA
39582310 AAGTAAATGGAATGGTAAGA
1 AAGTAAAT-GAATGGTAAGA
39582330 AAGTAAATGAAGTGGTA
1 AAGTAAATGAA-TGGTA
39582347 CATAGTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.09
20 29 0.88
21 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.28, T:0.21
Consensus pattern (19 bp):
AAGTAAATGAATGGTAAGA
Found at i:39596925 original size:71 final size:71
Alignment explanation
Indices: 39596806--39596954 Score: 208
Period size: 71 Copynumber: 2.1 Consensus size: 71
39596796 TTACTTATTC
* * * * * * * *
39596806 ATAATTTGATGATGCTCACTCAAGCTGTCGGGAATTCGCAATACATGTTGGATCTCAGTCATCGA
1 ATAATTTAATGATGCTCACTCAAGCTATCGAGAATCCACAACACATGTTGGATCCCAGCCATCGA
39596871 TAAAGA
66 TAAAGA
* *
39596877 ATAATTTAATGTTGCTCACTCAAGCTATCGAGAATCCACAACATATGTTGGATCCCAGCCATCGA
1 ATAATTTAATGATGCTCACTCAAGCTATCGAGAATCCACAACACATGTTGGATCCCAGCCATCGA
39596942 TAAAGA
66 TAAAGA
39596948 ATAATTT
1 ATAATTT
39596955 CTATTCAAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (71 bp):
ATAATTTAATGATGCTCACTCAAGCTATCGAGAATCCACAACACATGTTGGATCCCAGCCATCGA
TAAAGA
Found at i:39597993 original size:11 final size:11
Alignment explanation
Indices: 39597977--39598005 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39597967 AATCTTAACT
39597977 TAGTTAACTAA
1 TAGTTAACTAA
39597988 TAGTTAACTAA
1 TAGTTAACTAA
39597999 TA-TTAAC
1 TAGTTAAC
39598006 CTTGATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (11 bp):
TAGTTAACTAA
Found at i:39602940 original size:13 final size:13
Alignment explanation
Indices: 39602922--39602946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39602912 GACGAGGCTC
39602922 CTTTGCTCCTTTA
1 CTTTGCTCCTTTA
39602935 CTTTGCTCCTTT
1 CTTTGCTCCTTT
39602947 GCTGATGGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.32, G:0.08, T:0.56
Consensus pattern (13 bp):
CTTTGCTCCTTTA
Found at i:39605485 original size:33 final size:35
Alignment explanation
Indices: 39605448--39605544 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
39605438 ATGGTTATAT
39605448 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
39605481 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
39605516 --AAATATTTAAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
39605545 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 8 0.16
35 11 0.22
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:39605743 original size:13 final size:13
Alignment explanation
Indices: 39605727--39605779 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
39605717 TTTAAACCAA
*
39605727 ACTTTTCGAAAGC
1 ACTTTTCAAAAGC
* *
39605740 ACTTATCAAAAGT
1 ACTTTTCAAAAGC
* * *
39605753 ACTTTTCCACATC
1 ACTTTTCAAAAGC
39605766 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
39605779 A
1 A
39605780 ATGAAGAATT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:39606148 original size:11 final size:11
Alignment explanation
Indices: 39606132--39606157 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
39606122 GTACCTCCAT
39606132 AATTTTCGTAC
1 AATTTTCGTAC
39606143 AATTTTCGTAC
1 AATTTTCGTAC
39606154 AATT
1 AATT
39606158 CTCCACATAA
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:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (11 bp):
AATTTTCGTAC
Found at i:39626966 original size:42 final size:43
Alignment explanation
Indices: 39626920--39627005 Score: 140
Period size: 42 Copynumber: 2.0 Consensus size: 43
39626910 GGTAAACCCA
*
39626920 ACAACCCAAGTTTATCTTC-TCT-TTTTTAAAATTCTTTTTTCT
1 ACAACCCAAGATTATCTTCTTCTCTTTTT-AAATTCTTTTTTCT
39626962 ACAACCCAAGATTATCTTCTTCTCTTTTTAAATTCTTTTTTCT
1 ACAACCCAAGATTATCTTCTTCTCTTTTTAAATTCTTTTTTCT
39627005 A
1 A
39627006 GGATAAAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
42 18 0.44
43 18 0.44
44 5 0.12
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.51
Consensus pattern (43 bp):
ACAACCCAAGATTATCTTCTTCTCTTTTTAAATTCTTTTTTCT
Found at i:39627559 original size:68 final size:68
Alignment explanation
Indices: 39627482--39627686 Score: 349
Period size: 68 Copynumber: 3.0 Consensus size: 68
39627472 GAAGGTAATT
* * *
39627482 TCTCACTTTCTCTATTCTCCTCTCTATGTTGCGACATTTGATCCCCCATGTTGCGACATAACATC
1 TCTCACTTTCTCTATTCTGCTCTCTATGTTGCGACATTGGATCCCCCATGTTGCGACATAGCATC
39627547 CAG
66 CAG
*
39627550 TCTCACTTTCTCTATTCTGCTCTCTATGTTGCGACATTGGATCCCCCATGTTGCGACATAGTATC
1 TCTCACTTTCTCTATTCTGCTCTCTATGTTGCGACATTGGATCCCCCATGTTGCGACATAGCATC
39627615 CAG
66 CAG
*
39627618 TCTCACTTTCTCTATTCTGCTCCCTATGTTGCGACATTGGATCCCCCATGTT-CTGACATAGCAT
1 TCTCACTTTCTCTATTCTGCTCTCTATGTTGCGACATTGGATCCCCCATGTTGC-GACATAGCAT
39627682 CCAG
65 CCAG
39627686 T
1 T
39627687 ATTGACCCAA
Statistics
Matches: 130, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
67 1 0.01
68 129 0.99
ACGTcount: A:0.18, C:0.31, G:0.14, T:0.37
Consensus pattern (68 bp):
TCTCACTTTCTCTATTCTGCTCTCTATGTTGCGACATTGGATCCCCCATGTTGCGACATAGCATC
CAG
Found at i:39631596 original size:39 final size:39
Alignment explanation
Indices: 39631553--39631651 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 39
39631543 AACATGTTTC
*
39631553 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTAAA
1 TGAGTATTGTGATATATGCTTCAATGTTATGTGATTAAA
*
39631592 TGAGTATTGTGATATATGCTTCAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTCAATGTTATGTGATTAAA
* *
39631631 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
39631652 AAAAGTGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTCAATGTTATGTGATTAAA
Found at i:39646537 original size:7 final size:7
Alignment explanation
Indices: 39646525--39646549 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
39646515 ACTGATTTTC
39646525 TTTCTCT
1 TTTCTCT
39646532 TTTCTCT
1 TTTCTCT
39646539 TTTCTCT
1 TTTCTCT
39646546 TTTC
1 TTTC
39646550 AACTCAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCTCT
Found at i:39647245 original size:13 final size:13
Alignment explanation
Indices: 39647229--39647259 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
39647219 CAGAGCACTG
*
39647229 TTTCTCTTCCCGA
1 TTTCTCTTCCCAA
39647242 TTTCTCTTCCCAA
1 TTTCTCTTCCCAA
39647255 TTTCT
1 TTTCT
39647260 TGCACCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.35, G:0.03, T:0.52
Consensus pattern (13 bp):
TTTCTCTTCCCAA
Found at i:39649405 original size:20 final size:20
Alignment explanation
Indices: 39649369--39649407 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39649359 AATTTTTTAA
*
39649369 AAATATATTTATAATATAAT
1 AAATATATTAATAATATAAT
39649389 AAATATA-TAATACATATAA
1 AAATATATTAATA-ATATAA
39649408 ATTTAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATATTAATAATATAAT
Found at i:39649479 original size:85 final size:84
Alignment explanation
Indices: 39649389--39649656 Score: 192
Period size: 85 Copynumber: 3.1 Consensus size: 84
39649379 ATAATATAAT
39649389 AAATATATAATACATATAAATTTAAATCAAAAAGTCAAATATATTGCAGTATTGTATTAAACAAA
1 AAATATATAATACATATAAATTTAAATCAAAAAGTCAAATATATTGCAGTATTGTATTAAA-AAA
39649454 GTTAAGTTGGTCAGTTATCA
65 GTTAAGTTGGTCAGTTATCA
* * * * ** * ***
39649474 AAATATA-AATTTTCATAACCAAATTGATGAACTTAAATGACTTTTAATATATATTATTTGTAAT
1 AAATATATAA--TACAT-A-TAAATT--T-AAATCAAA--A-AGTCAA-ATATATT-GCAGT-AT
* ** * *
39649538 T-T-TTTAAAAA--TATA-TTTAT-A-ATATAA
53 TGTATTAAAAAAGTTA-AGTTGGTCAGTTATCA
39649564 TAAATATATAATACATATAAATTTAAATCAAAAAGTCAAATATATTGCAGTATTGTATTAAAAAA
1 -AAATATATAATACATATAAATTTAAATCAAAAAGTCAAATATATTGCAGTATTGTATT-AAAAA
39649629 AGTTAAGTTGGTCAGTTATCA
64 AGTTAAGTTGGTCAGTTATCA
39649650 AAATATA
1 AAATATA
39649657 AATTTTCATA
Statistics
Matches: 129, Mismatches: 30, Indels: 48
0.62 0.14 0.23
Matches are distributed among these distances:
79 3 0.02
80 3 0.02
81 9 0.07
82 8 0.06
83 2 0.02
84 7 0.05
85 21 0.16
86 9 0.07
87 1 0.01
88 10 0.08
89 1 0.01
90 9 0.07
91 14 0.11
92 7 0.05
93 2 0.02
94 6 0.05
95 11 0.09
96 3 0.02
97 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (84 bp):
AAATATATAATACATATAAATTTAAATCAAAAAGTCAAATATATTGCAGTATTGTATTAAAAAAG
TTAAGTTGGTCAGTTATCA
Found at i:39649544 original size:176 final size:176
Alignment explanation
Indices: 39649250--39649785 Score: 1063
Period size: 176 Copynumber: 3.0 Consensus size: 176
39649240 GAAAGGTTTT
39649250 AATATATTGCAGTATTGTATTAAAAAAAGTTAAGTTGGTCAGTTATCAAAATATAAATTTTCATA
1 AATATATTGCAGTATTGTATTAAAAAAAGTTAAGTTGGTCAGTTATCAAAATATAAATTTTCATA
39649315 ACCAAATTGATGAACTTAAATGACTTTTAATATATATTATTTGTAATTTTTTAAAAATATATTTA
66 ACCAAATTGATGAACTTAAATGACTTTTAATATATATTATTTGTAATTTTTTAAAAATATATTTA
39649380 TAATATAATAAATATATAATACATATAAATTTAAATCAAAAAGTCA
131 TAATATAATAAATATATAATACATATAAATTTAAATCAAAAAGTCA
*
39649426 AATATATTGCAGTATTGTATTAAACAAAGTTAAGTTGGTCAGTTATCAAAATATAAATTTTCATA
1 AATATATTGCAGTATTGTATTAAAAAAAGTTAAGTTGGTCAGTTATCAAAATATAAATTTTCATA
39649491 ACCAAATTGATGAACTTAAATGACTTTTAATATATATTATTTGTAATTTTTTAAAAATATATTTA
66 ACCAAATTGATGAACTTAAATGACTTTTAATATATATTATTTGTAATTTTTTAAAAATATATTTA
39649556 TAATATAATAAATATATAATACATATAAATTTAAATCAAAAAGTCA
131 TAATATAATAAATATATAATACATATAAATTTAAATCAAAAAGTCA
39649602 AATATATTGCAGTATTGTATTAAAAAAAGTTAAGTTGGTCAGTTATCAAAATATAAATTTTCATA
1 AATATATTGCAGTATTGTATTAAAAAAAGTTAAGTTGGTCAGTTATCAAAATATAAATTTTCATA
39649667 ACCAAATTGATGAACTTAAATGACTTTTAATATATATTATTTGTAATTTTTTAAAAATATATTTA
66 ACCAAATTGATGAACTTAAATGACTTTTAATATATATTATTTGTAATTTTTTAAAAATATATTTA
39649732 TAATATAATAAATATATAATACATATAAATTTAAATCAAAAAGTCA
131 TAATATAATAAATATATAATACATATAAATTTAAATCAAAAAGTCA
39649778 AATATATT
1 AATATATT
39649786 TCTATACATA
Statistics
Matches: 358, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 358 1.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (176 bp):
AATATATTGCAGTATTGTATTAAAAAAAGTTAAGTTGGTCAGTTATCAAAATATAAATTTTCATA
ACCAAATTGATGAACTTAAATGACTTTTAATATATATTATTTGTAATTTTTTAAAAATATATTTA
TAATATAATAAATATATAATACATATAAATTTAAATCAAAAAGTCA
Found at i:39649581 original size:20 final size:20
Alignment explanation
Indices: 39649545--39649583 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39649535 AATTTTTTAA
*
39649545 AAATATATTTATAATATAAT
1 AAATATATTAATAATATAAT
39649565 AAATATA-TAATACATATAA
1 AAATATATTAATA-ATATAA
39649584 ATTTAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATATTAATAATATAAT
Found at i:39649757 original size:20 final size:20
Alignment explanation
Indices: 39649721--39649759 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39649711 AATTTTTTAA
*
39649721 AAATATATTTATAATATAAT
1 AAATATATTAATAATATAAT
39649741 AAATATA-TAATACATATAA
1 AAATATATTAATA-ATATAA
39649760 ATTTAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATATATTAATAATATAAT
Found at i:39653456 original size:26 final size:24
Alignment explanation
Indices: 39653421--39653472 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
39653411 ACATTTTATG
39653421 AAATTATATTTAATAATAATTATTTT
1 AAATTATATTTAATAAT-A-TATTTT
* *
39653447 AAATTGTATTTAATCATATATTTT
1 AAATTATATTTAATAATATATTTT
39653471 AA
1 AA
39653473 TTAAAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 8 0.33
25 1 0.04
26 15 0.62
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (24 bp):
AAATTATATTTAATAATATATTTT
Found at i:39653579 original size:18 final size:17
Alignment explanation
Indices: 39653551--39653585 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39653541 ATTATTAAGA
*
39653551 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
39653568 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
39653586 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:39653585 original size:16 final size:16
Alignment explanation
Indices: 39653551--39653605 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
39653541 ATTATTAAGA
39653551 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
39653568 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
39653584 A-TTTAA-TAAAAAAT
1 ATTTTAATTAAAATAT
39653598 ATGTTTAA
1 AT-TTTAA
39653606 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 8 0.24
15 5 0.15
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:39653735 original size:18 final size:17
Alignment explanation
Indices: 39653707--39653741 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39653697 AATTATAAGA
*
39653707 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
39653724 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
39653742 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:39653849 original size:156 final size:157
Alignment explanation
Indices: 39653539--39653854 Score: 580
Period size: 156 Copynumber: 2.0 Consensus size: 157
39653529 ATAAGAATAT
39653539 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAAATATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAAATATGTTT
* *
39653604 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
39653669 TAATCATTTACCAAAACAAATTTATGC
131 TAATCATTTACCAAAACAAATTTATGC
* *
39653696 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAAATATGTTT
39653760 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
39653825 TAATCATTTACCAAAACAATTTTATGC
131 TAATCATTTACCAAAACAAATTTATGC
39653852 TAA
1 TAA
39653855 AGATATTCTA
Statistics
Matches: 154, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 148 0.96
157 6 0.04
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAAAAATATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATCATTTACCAAAACAAATTTATGC
Found at i:39654001 original size:16 final size:16
Alignment explanation
Indices: 39653980--39654012 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
39653970 TAGCTATTAT
39653980 ACCTCTAATCCAATAC
1 ACCTCTAATCCAATAC
39653996 ACCTCTAATCCAATAC
1 ACCTCTAATCCAATAC
39654012 A
1 A
39654013 GCGAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.24
Consensus pattern (16 bp):
ACCTCTAATCCAATAC
Found at i:39662376 original size:16 final size:17
Alignment explanation
Indices: 39662340--39662377 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
39662330 CTTGAATTTT
39662340 TTTTAATTTCTCTATAA
1 TTTTAATTTCTCTATAA
39662357 TTTTATATTT-TCTA-AA
1 TTTTA-ATTTCTCTATAA
39662373 TTTTA
1 TTTTA
39662378 CATAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTAATTTCTCTATAA
Found at i:39663205 original size:27 final size:27
Alignment explanation
Indices: 39663157--39663208 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
39663147 TTAACTATTG
* *
39663157 TAATTAAAAATATAATATTTAAAATAT
1 TAATTAAAAATATAACACTTAAAATAT
* *
39663184 TAATTAAATATTTAACACTTAAAAT
1 TAATTAAAAATATAACACTTAAAAT
39663209 CATGTATAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (27 bp):
TAATTAAAAATATAACACTTAAAATAT
Found at i:39663433 original size:31 final size:31
Alignment explanation
Indices: 39663395--39663494 Score: 132
Period size: 31 Copynumber: 3.3 Consensus size: 31
39663385 ACTATTAAAA
*
39663395 TAGTCACTTTTGTTTCTTTGGTGTTACATTT
1 TAGTCACTTTTGTTTCTTTGATGTTACATTT
*
39663426 TAGTCACTTTTGTTTTTTTGATGTTACATTT
1 TAGTCACTTTTGTTTCTTTGATGTTACATTT
* ***
39663457 TAGTCACTTATG-TT-TGAAATGTTACATTT
1 TAGTCACTTTTGTTTCTTTGATGTTACATTT
39663486 TAGTCACTT
1 TAGTCACTT
39663495 ACGTTGTCGT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
29 21 0.33
30 2 0.03
31 40 0.63
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.55
Consensus pattern (31 bp):
TAGTCACTTTTGTTTCTTTGATGTTACATTT
Found at i:39663488 original size:29 final size:30
Alignment explanation
Indices: 39663416--39663495 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 30
39663406 GTTTCTTTGG
* ***
39663416 TGTTACATTTTAGTCACTTTTGTTTTTTTGA
1 TGTTACATTTTAGTCACTTATG-TTTTGAAA
39663447 TGTTACATTTTAGTCACTTATG-TTTGAAA
1 TGTTACATTTTAGTCACTTATGTTTTGAAA
39663476 TGTTACATTTTAGTCACTTA
1 TGTTACATTTTAGTCACTTA
39663496 CGTTGTCGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 24 0.53
31 21 0.47
ACGTcount: A:0.23, C:0.11, G:0.12, T:0.54
Consensus pattern (30 bp):
TGTTACATTTTAGTCACTTATGTTTTGAAA
Found at i:39665914 original size:13 final size:13
Alignment explanation
Indices: 39665896--39665920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39665886 TCTCGATTTA
39665896 ATCAATCTAATCC
1 ATCAATCTAATCC
39665909 ATCAATCTAATC
1 ATCAATCTAATC
39665921 AAATTCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (13 bp):
ATCAATCTAATCC
Found at i:39669808 original size:29 final size:30
Alignment explanation
Indices: 39669756--39669815 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
39669746 GGACTTAGAA
*
39669756 AATATAAAAATATAATATTTTAAATATTTT
1 AATATAAAAATATAATATATTAAATATTTT
* *
39669786 AATATAAAAATA-ATTATATTAAATTTTTT
1 AATATAAAAATATAATATATTAAATATTTT
39669815 A
1 A
39669816 TTAAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
AATATAAAAATATAATATATTAAATATTTT
Found at i:39669867 original size:37 final size:37
Alignment explanation
Indices: 39669794--39669885 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
39669784 TTAATATAAA
* * *
39669794 AATAATTATATTAAATTTTTTATTAAATTATATTTAAT
1 AATAATTATATTAAA-ATATGATTAAATTATATTTAAT
*
39669832 AATAATTATATTAAAATATGATTAAATTATTTTTAAT
1 AATAATTATATTAAAATATGATTAAATTATATTTAAT
**
39669869 AATAATCCTATTAAAAT
1 AATAATTATATTAAAAT
39669886 TTAATAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
37 33 0.69
38 15 0.31
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (37 bp):
AATAATTATATTAAAATATGATTAAATTATATTTAAT
Found at i:39670023 original size:16 final size:16
Alignment explanation
Indices: 39670002--39670055 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
39669992 TGAATTATTG
*
39670002 ATTACAACTCTATTCC
1 ATTACAACTCTATTCT
** *
39670018 ATTACAGTTCTATTAT
1 ATTACAACTCTATTCT
*
39670034 ATTATAACTCTATTCT
1 ATTACAACTCTATTCT
39670050 ATTACA
1 ATTACA
39670056 TTTCAAAATC
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTACAACTCTATTCT
Found at i:39670169 original size:14 final size:14
Alignment explanation
Indices: 39670150--39670184 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
39670140 TAACACTTAT
39670150 AAAATTTTATACTA
1 AAAATTTTATACTA
* *
39670164 AAAATTCTATACTT
1 AAAATTTTATACTA
39670178 AAAATTT
1 AAAATTT
39670185 CAATTTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATTTTATACTA
Found at i:39670306 original size:25 final size:27
Alignment explanation
Indices: 39670260--39670312 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 27
39670250 ACATTTACCT
* * *
39670260 AAAAAAAGGTAAAAGATGAAAAGGAAC
1 AAAAAAAGGAAAAAGATAAAAAGAAAC
39670287 AAAAAAA-GAAAAAGA-AAAAAGAAAC
1 AAAAAAAGGAAAAAGATAAAAAGAAAC
39670312 A
1 A
39670313 GTAGTTATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 7 0.30
27 7 0.30
ACGTcount: A:0.75, C:0.04, G:0.17, T:0.04
Consensus pattern (27 bp):
AAAAAAAGGAAAAAGATAAAAAGAAAC
Found at i:39671943 original size:15 final size:15
Alignment explanation
Indices: 39671923--39671951 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39671913 ACATCAACAT
39671923 TTAAAAAAATAAATA
1 TTAAAAAAATAAATA
39671938 TTAAAAAAATAAAT
1 TTAAAAAAATAAAT
39671952 TAATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAAAAAATAAATA
Found at i:39671959 original size:15 final size:15
Alignment explanation
Indices: 39671924--39671960 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
39671914 CATCAACATT
*
39671924 TAAAAAAATAAATAT
1 TAAAAAAATAAATAA
39671939 TAAAAAAATAAATTAA
1 TAAAAAAATAAA-TAA
39671955 TAAAAA
1 TAAAAA
39671961 TATATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
TAAAAAAATAAATAA
Found at i:39672131 original size:19 final size:18
Alignment explanation
Indices: 39672118--39672175 Score: 59
Period size: 17 Copynumber: 3.3 Consensus size: 18
39672108 CTAAAAAATT
39672118 TAATAATTTA-T-AAAAA
1 TAATAATTTATTAAAAAA
*
39672134 TAATAATTTATTAAAACA
1 TAATAATTTATTAAAAAA
* *
39672152 TAA-AAATTAATAAAAAA
1 TAATAATTTATTAAAAAA
39672169 TATATAA
1 TA-ATAA
39672176 CACCCTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 10 0.29
17 14 0.41
18 8 0.24
19 2 0.06
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
TAATAATTTATTAAAAAA
Found at i:39672139 original size:16 final size:16
Alignment explanation
Indices: 39672118--39672167 Score: 64
Period size: 16 Copynumber: 3.0 Consensus size: 16
39672108 CTAAAAAATT
39672118 TAATAATTTATAAAAA
1 TAATAATTTATAAAAA
39672134 TAATAATTTATTAAAACA
1 TAATAATTTA-TAAAA-A
* *
39672152 TAAAAATTAATAAAAA
1 TAATAATTTATAAAAA
39672168 ATATATAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.37
17 10 0.33
18 9 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
TAATAATTTATAAAAA
Found at i:39673046 original size:40 final size:41
Alignment explanation
Indices: 39673002--39673092 Score: 148
Period size: 41 Copynumber: 2.2 Consensus size: 41
39672992 AAAAATTTGC
* *
39673002 CACAAGTTTTGTAC-TTTTTGAAAATTTAACCCTCCATATT
1 CACAAATTCTGTACTTTTTTGAAAATTTAACCCTCCATATT
39673042 CACAAATTCTGTACTTTTTTGAAAATTTAACCCTCCATATT
1 CACAAATTCTGTACTTTTTTGAAAATTTAACCCTCCATATT
*
39673083 TACAAATTCT
1 CACAAATTCT
39673093 ATCAATTTGA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
40 12 0.26
41 35 0.74
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (41 bp):
CACAAATTCTGTACTTTTTTGAAAATTTAACCCTCCATATT
Found at i:39681123 original size:12 final size:12
Alignment explanation
Indices: 39681092--39681129 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
39681082 CAATAAAATT
*
39681092 ATTTCACA-AAA
1 ATTTCACACATA
*
39681103 ATTTTACACATA
1 ATTTCACACATA
39681115 ATTTCACACATA
1 ATTTCACACATA
39681127 ATT
1 ATT
39681130 AACACAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTTCACACATA
Found at i:39693019 original size:21 final size:22
Alignment explanation
Indices: 39692964--39693039 Score: 102
Period size: 21 Copynumber: 3.5 Consensus size: 22
39692954 GGTAGTTATA
*
39692964 AAATGTTC-GGTGATTTGAAAC
1 AAATGTACTGGTGATTTGAAAC
* *
39692985 ATATGTATTGGTGATTTGAAAC
1 AAATGTACTGGTGATTTGAAAC
*
39693007 AGATGTA-TGGTGATTTGAAAC
1 AAATGTACTGGTGATTTGAAAC
39693028 AAATGTACTGGT
1 AAATGTACTGGT
39693040 AGTCAGAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 25 0.52
22 23 0.48
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.36
Consensus pattern (22 bp):
AAATGTACTGGTGATTTGAAAC
Found at i:39695749 original size:26 final size:27
Alignment explanation
Indices: 39695706--39695757 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
39695696 CAAACAGATC
*
39695706 CCAAATACCCACTCAACCTAGCCCAAA
1 CCAAATACCCAATCAACCTAGCCCAAA
*
39695733 CCAAA-ACCCAATTAACCTAGCCCAA
1 CCAAATACCCAATCAACCTAGCCCAA
39695758 CTAATGTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.42, C:0.42, G:0.04, T:0.12
Consensus pattern (27 bp):
CCAAATACCCAATCAACCTAGCCCAAA
Found at i:39696926 original size:24 final size:24
Alignment explanation
Indices: 39696890--39696935 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
39696880 AATATTATAT
* *
39696890 AAATTTACCATGTTTTATTATTCA
1 AAATTTACCATGTATCATTATTCA
**
39696914 AAATTTATTATGTATCATTATT
1 AAATTTACCATGTATCATTATT
39696936 TAAATTTCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTTACCATGTATCATTATTCA
Found at i:39697254 original size:29 final size:29
Alignment explanation
Indices: 39697200--39697278 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 29
39697190 CTTTTTCCAA
39697200 TATTTTAACATTTTAATTTATCTC-AACT
1 TATTTTAACATTTTAATTTATCTCAAACT
*
39697228 TATTTTCAACATTGTTAATTTAT-TCAAATT
1 TATTTT-AACATT-TTAATTTATCTCAAACT
*
39697258 TATTTTAACCTTTTAATTTAT
1 TATTTTAACATTTTAATTTAT
39697279 ACATATTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
28 15 0.33
29 13 0.28
30 18 0.39
ACGTcount: A:0.32, C:0.11, G:0.01, T:0.56
Consensus pattern (29 bp):
TATTTTAACATTTTAATTTATCTCAAACT
Found at i:39710001 original size:44 final size:44
Alignment explanation
Indices: 39709769--39710003 Score: 135
Period size: 44 Copynumber: 5.4 Consensus size: 44
39709759 TAGTCCTATT
*
39709769 TCCCTG-AGATTACAGTGGAACGGATTAAAATAAAGGATCTTATC
1 TCCCTGAAG-TTACAGTGGAACAGATTAAAATAAAGGATCTTATC
* * ** *** *
39709813 TCTCTGAAGTTACAGTAGAGTAGA-TCGCAT-CAGG-TCTTATC
1 TCCCTGAAGTTACAGTGGAACAGATTAAAATAAAGGATCTTATC
* * ** *
39709854 TCCCTG-AGATTACAATGGAATAGACCGAAGAATTATA-GATCTTATC
1 TCCCTGAAG-TTACAGTGGAACAGA-TTAA-AA-TAAAGGATCTTATC
* * * * *** * *
39709900 TCCCTGAAATTACAGCGGAACAAATT-GAAGCCAGTGATCCTATT
1 TCCCTGAAGTTACAGTGGAACAGATTAAAATAAAG-GATCTTATC
39709944 TCCCTG-AGATTACAGTGGAACAGATTAAAATAAAGGATCTTATC
1 TCCCTGAAG-TTACAGTGGAACAGATTAAAATAAAGGATCTTATC
*
39709988 TCTCTGAAGTTACAGT
1 TCCCTGAAGTTACAGT
39710004 AGAGTAGATC
Statistics
Matches: 136, Mismatches: 41, Indels: 28
0.66 0.20 0.14
Matches are distributed among these distances:
40 2 0.01
41 24 0.18
42 4 0.03
43 6 0.04
44 64 0.47
45 10 0.07
46 25 0.18
47 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
TCCCTGAAGTTACAGTGGAACAGATTAAAATAAAGGATCTTATC
Found at i:39710013 original size:175 final size:174
Alignment explanation
Indices: 39709717--39710254 Score: 864
Period size: 175 Copynumber: 3.1 Consensus size: 174
39709707 AAAATGGTGA
* * *
39709717 ATCTGATCTCCCTGAGATTGCAGCGGAGCAGATTGAAGCCAGTAGTCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCCAGTA-TCCTATTTCCCTGAGATTAC
39709782 AGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
65 AGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
* *
39709847 TCTTATCTCCCTGAGATTACAATGGAATAGACCGAAGAATTATAG
130 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
* *
39709892 ATCTTATCTCCCTGAAATTACAGCGGAACAAATTGAAGCCAGTGATCCTATTTCCCTGAGATTAC
1 ATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCCAGT-ATCCTATTTCCCTGAGATTAC
*
39709957 AGTGGAACAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
65 AGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
* * *
39710022 TCTTATCTTCCTGAGATTATAGTAGAATAGACCGAAGAATTACAG
130 TCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
* *
39710067 ATCTTATCTCCCT-AAGATTACATCTGAGCAGATTGAAGCCAGTAATCCTATTTCCCTGAGATTA
1 ATCTTATCTCCCTGAA-ATTACAGCGGAGCAGATTGAAGCCAGT-ATCCTATTTCCCTGAGATTA
* *
39710131 CAGT-GAAGCGGATCAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCA
64 CAGTGGAA-CGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
*
39710195 GGTCTTATCTCTCTGAGATTACAGTGGAATAGACCGAAGAAATTACAG
128 GGTCTTATCTCCCTGAGATTACAGTGGAATAGACCGAAG-AATTACAG
39710243 ATCTTATCTCCC
1 ATCTTATCTCCC
39710255 AAGCAGTGTA
Statistics
Matches: 336, Mismatches: 23, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
174 5 0.01
175 310 0.92
176 21 0.06
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (174 bp):
ATCTTATCTCCCTGAAATTACAGCGGAGCAGATTGAAGCCAGTATCCTATTTCCCTGAGATTACA
GTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGT
CTTATCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTACAG
Found at i:39710415 original size:50 final size:50
Alignment explanation
Indices: 39710271--39710426 Score: 129
Period size: 50 Copynumber: 3.1 Consensus size: 50
39710261 TGTAGTGAAG
* * ** *
39710271 CAGATTAAAGCCACAACGGCGAATCTTACTTCCCCA-ACATTGTAGTTAGAA
1 CAGATTGAAGCTACAACAACGAATCTTACTT-CCCAGACATTGCAG-TAGAA
* * * * * ** *
39710322 -AGATTGAAGCTGCAATAATGAATCTTACTGCCCAGTCGGTGCAGTGGAA
1 CAGATTGAAGCTACAACAACGAATCTTACTTCCCAGACATTGCAGTAGAA
* *
39710371 CAGATTGAAGCTACAACAACGAATCTTGCTTCCCTGACATTGCAGTTA-AA
1 CAGATTGAAGCTACAACAACGAATCTTACTTCCCAGACATTGCAG-TAGAA
39710421 CAGATT
1 CAGATT
39710427 AAAGTTCGAG
Statistics
Matches: 79, Mismatches: 23, Indels: 7
0.72 0.21 0.06
Matches are distributed among these distances:
49 8 0.10
50 70 0.89
51 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.25
Consensus pattern (50 bp):
CAGATTGAAGCTACAACAACGAATCTTACTTCCCAGACATTGCAGTAGAA
Found at i:39710678 original size:16 final size:17
Alignment explanation
Indices: 39710638--39710678 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
39710628 TTGCCCAGCC
*
39710638 CAAATCAAATAAATAAA
1 CAAATAAAATAAATAAA
*
39710655 CAAA-AAAATATATAAA
1 CAAATAAAATAAATAAA
39710671 -AAATAAAA
1 CAAATAAAA
39710679 ACAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 3 0.14
16 14 0.67
17 4 0.19
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (17 bp):
CAAATAAAATAAATAAA
Found at i:39710692 original size:22 final size:23
Alignment explanation
Indices: 39710648--39710693 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
39710638 CAAATCAAAT
39710648 AAATAAACAAAAAAATATATAAA
1 AAATAAACAAAAAAATATATAAA
* *
39710671 AAATAAA-AACAAAAT-TATTAA
1 AAATAAACAAAAAAATATATAAA
39710692 AA
1 AA
39710694 GTCCATCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 7 0.33
23 7 0.33
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (23 bp):
AAATAAACAAAAAAATATATAAA
Found at i:39710806 original size:26 final size:27
Alignment explanation
Indices: 39710765--39710815 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
39710755 CAAACAGATC
*
39710765 CCAAATACCCACTTAACCTAGCCCAAA
1 CCAAATACCCAATTAACCTAGCCCAAA
39710792 CCAAA-ACCCAATTAACCTAGCCCA
1 CCAAATACCCAATTAACCTAGCCCA
39710816 GCTAATGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.41, C:0.41, G:0.04, T:0.14
Consensus pattern (27 bp):
CCAAATACCCAATTAACCTAGCCCAAA
Found at i:39711234 original size:20 final size:18
Alignment explanation
Indices: 39711197--39711264 Score: 75
Period size: 20 Copynumber: 3.6 Consensus size: 18
39711187 TTAAAGGTGG
39711197 TTCTCTTTTCTT-TTTCT
1 TTCTCTTTTCTTGTTTCT
39711214 TTCTCTTTCTCTGTGTTTCT
1 TTCTCTTT-TCT-TGTTTCT
*
39711234 TTACTTTTTTCTTTGTTTCT
1 TT-CTCTTTTC-TTGTTTCT
*
39711254 TTCTATTTTCT
1 TTCTCTTTTCT
39711265 ATATGAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
17 8 0.18
18 4 0.09
19 8 0.18
20 18 0.41
21 6 0.14
ACGTcount: A:0.03, C:0.21, G:0.04, T:0.72
Consensus pattern (18 bp):
TTCTCTTTTCTTGTTTCT
Found at i:39711984 original size:24 final size:24
Alignment explanation
Indices: 39711948--39711993 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
39711938 AATATTATAT
* *
39711948 AAATTTACCATGTTTTATTATTCA
1 AAATTTACCATGTATCATTATTCA
**
39711972 AAATTTATTATGTATCATTATT
1 AAATTTACCATGTATCATTATT
39711994 TAAATTTCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (24 bp):
AAATTTACCATGTATCATTATTCA
Found at i:39712295 original size:28 final size:28
Alignment explanation
Indices: 39712258--39712335 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
39712248 CTCTTTCCAA
39712258 TATTTTAACATTTTAATTTATCTC-AACT
1 TATTTTAACATTTTAATTTAT-TCAAACT
* *
39712286 TATTTCAACATTGTTAATTTATTCAAATT
1 TATTTTAACATT-TTAATTTATTCAAACT
* *
39712315 TATTTTAGCCTTTTAATTTAT
1 TATTTTAACATTTTAATTTAT
39712336 ACATATTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 22 0.51
29 21 0.49
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.55
Consensus pattern (28 bp):
TATTTTAACATTTTAATTTATTCAAACT
Found at i:39716682 original size:12 final size:12
Alignment explanation
Indices: 39716661--39716710 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
39716651 AAAAACGAAA
*
39716661 TGATTAAAAACT
1 TGATGAAAAACT
* *
39716673 TGATGGAAAATT
1 TGATGAAAAACT
*
39716685 TTATGAAAAGACT
1 TGATGAAAA-ACT
39716698 TGATGAAAAACT
1 TGATGAAAAACT
39716710 T
1 T
39716711 AAAAAGAACT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:39716800 original size:18 final size:18
Alignment explanation
Indices: 39716777--39716814 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
39716767 AGAACTAAAT
*
39716777 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
39716795 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
39716813 GA
1 GA
39716815 CTTAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:39718173 original size:18 final size:17
Alignment explanation
Indices: 39718140--39718194 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
39718130 GTTTTCTTGC
*
39718140 AAAAATAAAA-ATGAAA
1 AAAAATAAAATAGGAAA
39718156 ATAAAATAAAATAGGAAA
1 A-AAAATAAAATAGGAAA
39718174 AATAAATAATAATAGGAAA
1 AA-AAATAA-AATAGGAAA
39718193 AA
1 AA
39718195 TATTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 1 0.03
17 10 0.29
18 12 0.35
19 11 0.32
ACGTcount: A:0.75, C:0.00, G:0.09, T:0.16
Consensus pattern (17 bp):
AAAAATAAAATAGGAAA
Found at i:39718177 original size:19 final size:19
Alignment explanation
Indices: 39718141--39718196 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
39718131 TTTTCTTGCA
*
39718141 AAAATAAAA-ATG-AAAAT
1 AAAATAAAATAGGAAAAAT
39718158 AAAATAAAATAGGAAAAAT
1 AAAATAAAATAGGAAAAAT
39718177 -AAATAATAATAGGAAAAAT
1 AAAATAA-AATAGGAAAAAT
39718196 A
1 A
39718197 TTTTTTTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 9 0.26
18 8 0.24
19 17 0.50
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (19 bp):
AAAATAAAATAGGAAAAAT
Found at i:39719920 original size:73 final size:73
Alignment explanation
Indices: 39719834--39719978 Score: 254
Period size: 73 Copynumber: 2.0 Consensus size: 73
39719824 TTGGTCCTTG
*
39719834 TATTTGGGTGGAACTTTCTTTTGCAGTACTGCAGAGACATTTTCTCCTACATGTACTCTTTCGTT
1 TATTTGGGCGGAACTTTCTTTTGCAGTACTGCAGAGACATTTTCTCCTACATGTACTCTTTCGTT
39719899 ACCTATTT
66 ACCTATTT
** *
39719907 TATTTGGGCGGAACTTTCTTTTGCAGTACTGTGGAGACATTTTCTCCTACATGTGCTCTTTCGTT
1 TATTTGGGCGGAACTTTCTTTTGCAGTACTGCAGAGACATTTTCTCCTACATGTACTCTTTCGTT
39719972 ACCTATT
66 ACCTATT
39719979 AACCTCCTCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (73 bp):
TATTTGGGCGGAACTTTCTTTTGCAGTACTGCAGAGACATTTTCTCCTACATGTACTCTTTCGTT
ACCTATTT
Found at i:39722825 original size:12 final size:12
Alignment explanation
Indices: 39722804--39722853 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
39722794 AAAAACGAAA
*
39722804 TGATTAAAAACT
1 TGATGAAAAACT
* *
39722816 TGATGGAAAATT
1 TGATGAAAAACT
*
39722828 TTATGAAAAGACT
1 TGATGAAAA-ACT
39722841 TGATGAAAAACT
1 TGATGAAAAACT
39722853 T
1 T
39722854 AAAAAGAACT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.46, C:0.06, G:0.16, T:0.32
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:39722943 original size:18 final size:18
Alignment explanation
Indices: 39722920--39722957 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
39722910 AGAACTAAAT
*
39722920 GAAAAATACTTGAA-GAAA
1 GAAAAACACTT-AATGAAA
39722938 GAAAAACACTTAATGAAA
1 GAAAAACACTTAATGAAA
39722956 GA
1 GA
39722958 CTTAATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.61, C:0.08, G:0.16, T:0.16
Consensus pattern (18 bp):
GAAAAACACTTAATGAAA
Found at i:39725589 original size:30 final size:29
Alignment explanation
Indices: 39725547--39725674 Score: 136
Period size: 30 Copynumber: 4.3 Consensus size: 29
39725537 TGGAAATTCA
* *
39725547 ACCCTATAATCATTCATAGTTACACATCAT
1 ACCCTGTAATCATTCATA-TTACATATCAT
*
39725577 ACCTTGTAATCATTC-TCAATTACATATCAT
1 ACCCTGTAATCATTCAT--ATTACATATCAT
*
39725607 ACCCTATAATCATTTTCA-ATTACATATCAT
1 ACCCTGTAATCA--TTCATATTACATATCAT
39725637 ACCCTGTAATCATTTTCA-ATTACATATCAT
1 ACCCTGTAATCA--TTCATATTACATATCAT
39725667 ACCCTGTA
1 ACCCTGTA
39725675 CAATGTGTTA
Statistics
Matches: 87, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
29 1 0.01
30 82 0.94
31 1 0.01
32 3 0.03
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (29 bp):
ACCCTGTAATCATTCATATTACATATCAT
Found at i:39725620 original size:60 final size:59
Alignment explanation
Indices: 39725547--39725671 Score: 189
Period size: 60 Copynumber: 2.1 Consensus size: 59
39725537 TGGAAATTCA
*
39725547 ACCCTATAATCA-TTCATAGTTACACATCATACCTTGTAATCATTCTCAATTACATATCAT
1 ACCCTATAATCATTTCA-A-TTACACATCATACCCTGTAATCATTCTCAATTACATATCAT
* *
39725607 ACCCTATAATCATTTTCAATTACATATCATACCCTGTAATCATTTTCAATTACATATCAT
1 ACCCTATAATCA-TTTCAATTACACATCATACCCTGTAATCATTCTCAATTACATATCAT
39725667 ACCCT
1 ACCCT
39725672 GTACAATGTG
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
60 55 0.92
61 1 0.02
62 4 0.07
ACGTcount: A:0.34, C:0.26, G:0.02, T:0.38
Consensus pattern (59 bp):
ACCCTATAATCATTTCAATTACACATCATACCCTGTAATCATTCTCAATTACATATCAT
Found at i:39730499 original size:4 final size:4
Alignment explanation
Indices: 39730490--39730540 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
39730480 TTATTAAATC
39730490 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
39730538 TGT
1 TGT
39730541 CTATTGTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:39732662 original size:16 final size:16
Alignment explanation
Indices: 39732636--39732684 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
39732626 AATGAAAATG
**
39732636 AAAATGAAAAACAATCA
1 AAAAT-AAAAACAAAAA
* *
39732653 AAAATCAAAATAAAAA
1 AAAATAAAAACAAAAA
39732669 AAAATAAAAACAAAAA
1 AAAATAAAAACAAAAA
39732685 GAAGAAAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.80, C:0.08, G:0.02, T:0.10
Consensus pattern (16 bp):
AAAATAAAAACAAAAA
Found at i:39732662 original size:23 final size:22
Alignment explanation
Indices: 39732594--39732709 Score: 74
Period size: 24 Copynumber: 5.0 Consensus size: 22
39732584 GCTAAGATCA
*
39732594 AAAAAGAAAAGAAAAATCAAAAT
1 AAAAA-AAAATAAAAATCAAAAT
** * *
39732617 CAAAGTCAAAATGAAAATGAAAAT
1 -AAA-AAAAAATAAAAATCAAAAT
* *
39732641 GAAAAACAATCAAAAATCAAAAT
1 AAAAAAAAAT-AAAAATCAAAAT
39732664 AAAAAAAAATAAAAA-CAAAA-
1 AAAAAAAAATAAAAATCAAAAT
*
39732684 AGAAGAAAGAAGAAAAAAATCAAAAT
1 A-AA-AAA-AA-ATAAAAATCAAAAT
39732710 CAAGATCAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.01
21 7 0.10
22 12 0.17
23 22 0.31
24 23 0.33
25 5 0.07
ACGTcount: A:0.74, C:0.07, G:0.09, T:0.10
Consensus pattern (22 bp):
AAAAAAAAATAAAAATCAAAAT
Found at i:39733673 original size:7 final size:7
Alignment explanation
Indices: 39733661--39733698 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
39733651 CTGAGTCAAA
39733661 AAAAATG
1 AAAAATG
39733668 AAAAATG
1 AAAAATG
*
39733675 -AGAATG
1 AAAAATG
39733681 AAAAATG
1 AAAAATG
39733688 AAAAATG
1 AAAAATG
39733695 AAAA
1 AAAA
39733699 TGGAGAGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:39733686 original size:20 final size:20
Alignment explanation
Indices: 39733661--39733700 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
39733651 CTGAGTCAAA
*
39733661 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAATGAAAATG
39733681 AAAAATGAAAAATGAAAATG
1 AAAAATGAAAAATGAAAATG
39733701 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAAATGAAAAATGAAAATG
Found at i:39733700 original size:13 final size:14
Alignment explanation
Indices: 39733661--39733698 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
39733651 CTGAGTCAAA
39733661 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
39733675 -AGAATGAAAAATG
1 AAAAATGAAAAATG
39733688 AAAAATGAAAA
1 AAAAATGAAAA
39733699 TGGAGAGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:39733889 original size:9 final size:9
Alignment explanation
Indices: 39733875--39733905 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39733865 GTTAAACGAA
39733875 TCGAGTTAT
1 TCGAGTTAT
*
39733884 TCGAGTTAA
1 TCGAGTTAT
39733893 TCGAGTTAT
1 TCGAGTTAT
39733902 TCGA
1 TCGA
39733906 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:39733977 original size:9 final size:9
Alignment explanation
Indices: 39733960--39733996 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
39733950 TGAGTTTTCG
39733960 AATTCGAAT
1 AATTCGAAT
*
39733969 AACTCGAAT
1 AATTCGAAT
*
39733978 AATTTGAAT
1 AATTCGAAT
39733987 AATTCGAAT
1 AATTCGAAT
39733996 A
1 A
39733997 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:39736555 original size:100 final size:99
Alignment explanation
Indices: 39736274--39736561 Score: 312
Period size: 100 Copynumber: 2.9 Consensus size: 99
39736264 CCAGATAGTT
*
39736274 CAGTGGAGCAGATTAAAGCCATAATGGTGAATCTTGCTTTC-CCTGACATTGCGGTTAAAAAGAT
1 CAGTGGAACAGATTAAAGCCA-AATGGTGAATCTTG-TTTCTCC-GACATTGCGGTTAAAAAGAT
* ** * * *
39736338 TAAAGCTAC-ATCAGCAAATCTTACCTCTTAGGTGGTG
63 TAAAGCTACAAT-AGCGAATCTTACCTCCCAAGCGATG
* * *** *
39736375 CAGTGGAATAGATTAAA-CCAACAACGGTGAATCTTACCTCTCTGACATTGCGGTTAAAAAGATT
1 CAGTGGAACAGATTAAAGCC-A-AATGGTGAATCTTGTTTCTCCGACATTGCGGTTAAAAAGATT
**
39736439 AAAGCTACAGCAGCGAATCTTACCTCCCAAGCGATG
64 AAAGCTACAATAGCGAATCTTACCTCCCAAGCGATG
* * *
39736475 CAGTGGAACAGATTAAAGCCAAATTAGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAATATTA
1 CAGTGGAACAGATTAAAGCCAAA-TGGTGAATCTTGTTTCTCCGACATTGCGGTTAAAAAGATTA
* *
39736540 AAGCCACAATGGCGAATCTTAC
65 AAGCTACAATAGCGAATCTTAC
39736562 TTTCCAAAAG
Statistics
Matches: 153, Mismatches: 29, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
99 2 0.01
100 120 0.78
101 31 0.20
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (99 bp):
CAGTGGAACAGATTAAAGCCAAATGGTGAATCTTGTTTCTCCGACATTGCGGTTAAAAAGATTAA
AGCTACAATAGCGAATCTTACCTCCCAAGCGATG
Found at i:39736827 original size:44 final size:43
Alignment explanation
Indices: 39736581--39737056 Score: 172
Period size: 44 Copynumber: 10.9 Consensus size: 43
39736571 GTTACGAGTT
* * ** *
39736581 ACAA-ATCCTATCTCCCTGATATTACAGTGGAGTGGATCGAAG
1 ACAAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
* * *
39736623 AACCAA-AGTCTTATCCCCCTGAAGA-TACAGTGG-GACAAATTGAAA
1 -A-CAAGA-TCTTATCTCCCTG-AGATTACAGTGGAG-CAGATTGAAG
* * * * * * *
39736668 ATAAAGGATCTCATCTCTCTGA-AGTTACAGTAGAGCAGATCGCAT
1 A-CAA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAG
* * * ***
39736713 AC-AG-TCTTATCTCCCTGAGGTTACAGTGGAGTAAACCAAAG
1 ACAAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
*
39736754 A-ATTTTAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAG
1 ACA----AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
* * *
39736800 CCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG
1 ACA-AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
** * * * *
39736844 ACACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAA
1 ACAAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAG
* * * * ** * * *
39736887 AAAAGGATATTATCTCTCT-AAAGTTACAGCAGAGTAGATCGCA-
1 ACAA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAG
* * * * ***
39736930 TC-AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAG
1 ACAAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
* * *
39736972 A-ATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAG
1 ACA----AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
* * *
39737018 ACACA-ATCCTATCTCCCTGA-AGTTACTGTGGAGCGGATT
1 ACA-AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT
39737057 AAAATAATAC
Statistics
Matches: 319, Mismatches: 85, Indels: 58
0.69 0.18 0.13
Matches are distributed among these distances:
41 53 0.17
42 4 0.01
43 63 0.20
44 75 0.24
45 50 0.16
46 72 0.23
47 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
ACAAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG
Found at i:39736971 original size:218 final size:220
Alignment explanation
Indices: 39736584--39737037 Score: 623
Period size: 218 Copynumber: 2.1 Consensus size: 220
39736574 ACGAGTTACA
* * ** *
39736584 AATCCTATCTCCCTGATATTACAGTGGAGTGGATCGAAGAACCAAAGTCTTATCCCCCTGAAGAT
1 AATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAACCAAAGTCCTATCCCCCTGAAGAT
* * * *
39736649 ACAGTGGGACAAATTGAAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAGAGCAGATCGCATA
66 ACAGTGGGACAAATTGAAAAAAAAGGATATCATCTCTCTAAAGTTACAGCAGAGCAGATCGCATA
*
39736714 CAGTCTTATCTCCCTGAGGTTACAGTGGAGTAAACCAAAGAATTTTAGATCTTATCTCCCTGAGG
131 CAGTCTTATCTCCCTGAGGTTACAGTGGAGTAAACCAAAGAATTTCAGATCTTATCTCCCTGAGG
* * * *
39736779 TTACAGTGGAGCAGATTGAAGCCAG
196 TTACAGCGGAGCAGATCGAAGACAC
* * *
39736804 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A-CACTA-TCCTATCTCCCTGAAG
1 A-ATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAACCA-AAGTCCTATCCCCCTGAAG
* ** * *
39736866 TTACAGT-GGAGCGGATT-AAAAAAAAGGATATTATCTCTCTAAAGTTACAGCAGAGTAGATCGC
64 ATACAGTGGGA-CAAATTGAAAAAAAAGGATATCATCTCTCTAAAGTTACAGCAGAGCAGATCGC
*
39736929 AT-CAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTCAGATCTTATCTCCCT
128 ATACA-GTCTTATCTCCCTGAGGTTACAGTGGAGTAAACCAAAGAATTTCAGATCTTATCTCCCT
39736993 GAGGTTACAGCGGAGCAGATCGAAGACAC
192 GAGGTTACAGCGGAGCAGATCGAAGACAC
39737022 AATCCTATCTCCCTGA
1 AATCCTATCTCCCTGA
39737038 AGTTACTGTG
Statistics
Matches: 206, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
217 16 0.08
218 128 0.62
219 26 0.13
220 3 0.01
221 33 0.16
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (220 bp):
AATCCTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAACCAAAGTCCTATCCCCCTGAAGAT
ACAGTGGGACAAATTGAAAAAAAAGGATATCATCTCTCTAAAGTTACAGCAGAGCAGATCGCATA
CAGTCTTATCTCCCTGAGGTTACAGTGGAGTAAACCAAAGAATTTCAGATCTTATCTCCCTGAGG
TTACAGCGGAGCAGATCGAAGACAC
Found at i:39736991 original size:174 final size:174
Alignment explanation
Indices: 39736804--39737147 Score: 521
Period size: 174 Copynumber: 2.0 Consensus size: 174
39736794 TTGAAGCCAG
*
39736804 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTA
* * *
39736869 CAGTGGAGCGGATTAAAA-AAAAGGATATTATCTCTCTAAAGTTACAGCAGAGTAGATCGCAT-C
66 CAGTGGAGCGGATTAAAATAAAA-CATATTATCTCTCTAAAGTTACAGCAGAGCAGAGCGCATCC
* *
39736932 AGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTC
130 A-GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCAAAGAATTTC
*
39736978 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTA
* * * * * *
39737043 CTGTGGAGCGGATTAAAATAATACATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCATCCA
66 CAGTGGAGCGGATTAAAATAAAACATATTATCTCTCTAAAGTTACAGCAGAGCAGAGCGCATCCA
* *
39737108 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAA
131 GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCAAAGAA
39737148 ACCTATCCTA
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
174 148 0.97
175 5 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (174 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACAATCCTATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAATAAAACATATTATCTCTCTAAAGTTACAGCAGAGCAGAGCGCATCCA
GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACCAAAGAATTTC
Found at i:39737084 original size:218 final size:218
Alignment explanation
Indices: 39736665--39737095 Score: 582
Period size: 218 Copynumber: 2.0 Consensus size: 218
39736655 GGACAAATTG
* * * *
39736665 AAAATAAAGGATCTCATCTCTCTGAAGTTACAGTAGAGCAGATCGCATACAGTCTTATCTCCCTG
1 AAAAAAAAGGATATCATCTCTCTAAAGTTACAGCAGAGCAGATCGCATACAGTCTTATCTCCCTG
* *
39736730 AGGTTACAGTGGAGTAAACCAAAGAATTTTAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGAT
66 AGGTTACAGTGGAGTAAACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGAT
* * * * ** *
39736795 TGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCC
131 CGAAGACACAGATCCTATCTCCCTGAGATTACAGCGGAGCAGATAAAAAACACTATCCTATCTCC
*
39736860 CTGAAGTTACAGTGGAGCGGATT
196 CTGAAGTTACAGTAGAGCGGATT
* *
39736883 AAAAAAAAGGATATTATCTCTCTAAAGTTACAGCAGAGTAGATCGCAT-CAGGTCTTATCTCCCT
1 AAAAAAAAGGATATCATCTCTCTAAAGTTACAGCAGAGCAGATCGCATACA-GTCTTATCTCCCT
*
39736947 GAGGTTACAGTGGAGTAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGA
65 GAGGTTACAGTGGAGTAAACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGA
* * * * *
39737012 TCGAAGACACA-ATCCTATCTCCCTGA-AGTTACTGTGGAGCGGATTAAAATAATAC-ATCTTAT
130 TCGAAGACACAGATCCTATCTCCCTGAGA-TTACAGCGGAGCAGA-TAAAA-AACACTATCCTAT
* *
39737074 CTCTCTGAAGTTGCAGTAGAGC
192 CTCCCTGAAGTTACAGTAGAGC
39737096 AGAGCGCATC
Statistics
Matches: 185, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
216 1 0.01
217 28 0.15
218 153 0.83
219 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (218 bp):
AAAAAAAAGGATATCATCTCTCTAAAGTTACAGCAGAGCAGATCGCATACAGTCTTATCTCCCTG
AGGTTACAGTGGAGTAAACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGAT
CGAAGACACAGATCCTATCTCCCTGAGATTACAGCGGAGCAGATAAAAAACACTATCCTATCTCC
CTGAAGTTACAGTAGAGCGGATT
Found at i:39737134 original size:85 final size:84
Alignment explanation
Indices: 39736763--39737174 Score: 308
Period size: 87 Copynumber: 4.8 Consensus size: 84
39736753 GAATTTTAGA
* * *** * *
39736763 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTG-AGATTAC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAAAATAGATCTTATCTCTCTGAAG-TTAC
* * *
39736827 AGCGGAGCAGATCGAAGACACTA-
64 AGCAGAGCAGATCGCA-TC-C-AG
* * * *
39736850 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAAAAGGATATTATCTCTCTAAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAATA-GATCTTATCTCTCTGAAGTTACA
*
39736915 GCAGAGTAGATCGCAT-CAGG
65 GCAGAGCAGATCGCATCCA-G
* ** ** * * *
39736935 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA-AA-AT-AGATCTTATCTCTCTGAAGTTA
* * * *
39737000 CAGCGGAGCAGATCGAAGACACAA
63 CAGCAGAGCAGATCGCA-TC-CAG
* * * *
39737024 TCCTATCTCCCTGAAGTTACTGTGGAGCGGATTAAAATAATACATCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA-AATAGATCTTATCTCTCTGAAGTTACA
* *
39737089 GTAGAGCAGAGCGCATCCAG
65 GCAGAGCAGATCGCATCCAG
* * ** *** *
39737109 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACCTATCCTATCTCTCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAA-AAATAGATCTTATCTCTCTGAAGTTACA
39737174 G
65 G
39737175 TGGAGCGGAT
Statistics
Matches: 253, Mismatches: 60, Indels: 26
0.75 0.18 0.08
Matches are distributed among these distances:
83 1 0.00
84 1 0.00
85 85 0.34
86 8 0.03
87 121 0.48
88 5 0.02
89 30 0.12
90 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (84 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAATAGATCTTATCTCTCTGAAGTTACAG
CAGAGCAGATCGCATCCAG
Found at i:39737181 original size:129 final size:128
Alignment explanation
Indices: 39736980--39737357 Score: 474
Period size: 129 Copynumber: 2.9 Consensus size: 128
39736970 AGAATTTCAG
* * * * *
39736980 ATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCG-AAGACACAATCCTATCTCCCTGAAGTTAC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAGAAACAATCCTATCTCTCTGAAGTTAC
* *
39737044 TGTGGAGCGGATTAAAATAATACATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCATCCA
66 AGTGGAGCGGATTAAAAT-ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCATCCA
* *
39737108 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAGAAACCTATCCTATCTCTCTGAAGTTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAGAAA-CAATCCTATCTCTCTGAAGTTA
* * *
39737172 CAGTGGAGCGGATTAAAACTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCCA
65 CAGTGGAGCGGATTAAAA-TATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCATCCA
* * ** * *
39737237 ATCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAAAAAATCAATCCTATCT-TCCTAAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAGAAA-CAATCCTATCTCT-CTGAAGTT
* * * * *
39737301 GCAGTGAAGTGGATTAAAATGGTGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
64 ACAGTGGAGCGGATTAAAAT-ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
39737358 TCGCGTCAGA
Statistics
Matches: 216, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
127 2 0.01
128 33 0.15
129 109 0.50
130 72 0.33
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (128 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAGAAACAATCCTATCTCTCTGAAGTTAC
AGTGGAGCGGATTAAAATATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAGCGCATCCA
Found at i:39737204 original size:44 final size:43
Alignment explanation
Indices: 39736631--39737274 Score: 295
Period size: 44 Copynumber: 14.9 Consensus size: 43
39736621 AGAACCAAAG
* * * *
39736631 TCTTATCCCCCTGAAGATACAGTGG-GACAAATTGAAAATAAAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAG-CAGATT-AAAATACA-GA
* * * ***
39736676 TCTCATCTCTCTGAAGTTACAGTAGAGCAGA-TCGCATACAG-
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGA
* * * ** **
39736717 TCTTATCTCCCTGAGGTTACAGTGGAGTAAACCAAAGAATTTTAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TACAGA
* *** *
39736763 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATT-AAAATACAGA
* ** * *
39736807 TCTTATCTCCCTG-AGATTACAGCGGAGCAGA-TCGAAGACACTA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTAAAATACA-GA
* * * *
39736850 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAAAAAAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACA-GA
* * * ** * *** *
39736894 TATTATCTCTCTAAAGTTACAGCAGAGTAGA-TCGCAT-CAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGA
* * ** *
39736935 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGA-TTAA-AA-TACAGA
* * * * *
39736981 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACACA-A
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGAT-TAAAATACAGA
* * * * *
39737024 TCCTATCTCCCTGAAGTTACTGTGGAGCGGATTAAAATAATACA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAT-ACAGA
* * * **** *
39737068 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-GCGCATCCAG-
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGA
* ** * **
39737109 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACCTA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAA-ATACAGA
* * *
39737153 TCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAACTACAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA-TACAGA
* * * * *** *
39737197 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCGCATCCA-A
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGA
* * *
39737238 TCTTATCTCCCTAAAGTTGCAATGGAGCAGATTAAAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA
39737275 AAAATCAATC
Statistics
Matches: 437, Mismatches: 138, Indels: 51
0.70 0.22 0.08
Matches are distributed among these distances:
41 107 0.24
42 14 0.03
43 71 0.16
44 151 0.35
45 28 0.06
46 66 0.15
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAATACAGA
Found at i:39739326 original size:13 final size:13
Alignment explanation
Indices: 39739308--39739333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39739298 TTTTTAAAAC
39739308 ATGTATTTTATAT
1 ATGTATTTTATAT
39739321 ATGTATTTTATAT
1 ATGTATTTTATAT
39739334 TTTATGATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATGTATTTTATAT
Found at i:39739573 original size:16 final size:16
Alignment explanation
Indices: 39739552--39739590 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
39739542 AACGTATACA
39739552 TATATATACATACTTT
1 TATATATACATACTTT
*
39739568 TATATATACATGCTTT
1 TATATATACATACTTT
*
39739584 CATATAT
1 TATATAT
39739591 CTCCATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:39739590 original size:34 final size:34
Alignment explanation
Indices: 39739550--39739614 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
39739540 ATAACGTATA
*
39739550 CATATATATACATACTTTTATATATACATGCTTT
1 CATATATATACATAATTTTATATATACATGCTTT
* * * *
39739584 CATATATCTCCATAATTTTATGTATATATGC
1 CATATATATACATAATTTTATATATACATGC
39739615 ATATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (34 bp):
CATATATATACATAATTTTATATATACATGCTTT
Found at i:39743414 original size:21 final size:21
Alignment explanation
Indices: 39743388--39743458 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
39743378 AAAATCAAAG
*
39743388 TCAAAATGAAAATGAAAAAAA
1 TCAAAATAAAAATGAAAAAAA
39743409 TCAAAATAAAAAAAT-AAAAAAA
1 TCAAAAT--AAAAATGAAAAAAA
* *
39743431 T-AAAAAAAAAGAAGAAAAAAA
1 TCAAAATAAAA-ATGAAAAAAA
39743452 TCAAAAT
1 TCAAAAT
39743459 CAAGATCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
19 4 0.10
20 1 0.02
21 19 0.46
22 12 0.29
23 5 0.12
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (21 bp):
TCAAAATAAAAATGAAAAAAA
Found at i:39743457 original size:8 final size:8
Alignment explanation
Indices: 39743411--39743438 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
39743401 GAAAAAAATC
39743411 AAAATAAA
1 AAAATAAA
39743419 AAAATAAA
1 AAAATAAA
39743427 AAAATAAA
1 AAAATAAA
39743435 AAAA
1 AAAA
39743439 AAGAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATAAA
Found at i:39743546 original size:11 final size:11
Alignment explanation
Indices: 39743530--39743554 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39743520 ATATCAGAAT
39743530 GAAAAAGAAAA
1 GAAAAAGAAAA
39743541 GAAAAAGAAAA
1 GAAAAAGAAAA
39743552 GAA
1 GAA
39743555 GAGGCCAAAG
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:39744427 original size:6 final size:7
Alignment explanation
Indices: 39744410--39744451 Score: 70
Period size: 7 Copynumber: 6.3 Consensus size: 7
39744400 CTGAGTAAAA
39744410 AAAAATG
1 AAAAATG
39744417 AAAAATG
1 AAAAATG
39744424 AAAAATG
1 AAAAATG
39744431 -AAAATG
1 AAAAATG
39744437 AAAAATG
1 AAAAATG
39744444 -AAAATG
1 AAAAATG
39744450 AA
1 AA
39744452 GAGGCTAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.36
7 21 0.64
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:39744434 original size:13 final size:13
Alignment explanation
Indices: 39744410--39744451 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
39744400 CTGAGTAAAA
39744410 AAAAATGAAAAATG
1 AAAAATG-AAAATG
39744424 AAAAATGAAAATG
1 AAAAATGAAAATG
39744437 AAAAATGAAAATG
1 AAAAATGAAAATG
39744450 AA
1 AA
39744452 GAGGCTAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 21 0.75
14 7 0.25
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAAATGAAAATG
Found at i:39745933 original size:50 final size:50
Alignment explanation
Indices: 39745775--39746251 Score: 259
Period size: 50 Copynumber: 9.6 Consensus size: 50
39745765 GCAGTGAAGC
* * * *
39745775 AGATTAAAGCCATAATGGTGAATCTTACTTTCTCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTAC-CTCTCTGACATTGCAGTTAAAA
* * * * * **** ** *
39745826 AGATTAAAGCTACATCAGTAAATCTTACCTCTCAGGTGGTGCAGTGGAAT
1 AGATTAAAGCCACAACGGTGAATCTTACCTCTCTGACATTGCAGTTAAAA
* *
39745876 AGTTTAAAGCCACAACGGTGAATCTTACCTCTCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACCTCTCTGACATTGCAGTTAAAA
* * * * * ** *
39745926 AGATTAAAGCTACAACAGCGTATCTTATCTC-CCAAGCAGTGCAG-TAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACCTCTCTGA-CATTGCAGTTAAAA
* * * * *
39745975 AGATTCAAGCCACAACGGTGAATCTTGCTTTTCTGGCATTGC-GATTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACCTCTCTGACATTGCAG-TTAAAA
* * * * * * * ****
39746025 AGATTAAAGCTACAGCAGCGAATCTTATCTCCCAGGTGGTGCAG-TAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACCTCTCTGACATTGCAGTTAAAA
* * * *
39746074 AGATTAAAGCCACAACGATGAATCTTGCCTCCCTGACATTGC-GATCAAAA
1 AGATTAAAGCCACAACGGTGAATCTTACCTCTCTGACATTGCAG-TTAAAA
* * * * ** ** *
39746124 AGATTAAAGCTACAGCAGCGAATCTTACCTC-CCAAGCGA-TGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTACCTCTCTGA-C-ATTGCAGTTAAAA
* * *** *
39746174 AGATTAAATCCA-AATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAA-CGGTGAATCTTACCTCTCTGACATTGCAGTTAAAA
* * *
39746224 ATATTAAAGCCACAATGGCGAATCTTAC
1 AGATTAAAGCCACAACGGTGAATCTTAC
39746252 TTTCCAAAAG
Statistics
Matches: 303, Mismatches: 109, Indels: 29
0.69 0.25 0.07
Matches are distributed among these distances:
48 2 0.01
49 73 0.24
50 198 0.65
51 30 0.10
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTACCTCTCTGACATTGCAGTTAAAA
Found at i:39745951 original size:100 final size:99
Alignment explanation
Indices: 39745775--39746251 Score: 524
Period size: 99 Copynumber: 4.8 Consensus size: 99
39745765 GCAGTGAAGC
* * *
39745775 AGATTAAAGCCATAATGGTGAATCTTACTTTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACA
1 AGATTAAAGCCACAACGGTGAATCTTGC-TTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACA
* ** * * * * *
39745840 TCAGTAAATCTTACCTCTCAGGTGGTGCAGTGGAAT
65 ACAGCGAATCTTACCTCCCAAGCGGTGCAGT-AAAA
* * *
39745876 AGTTTAAAGCCACAACGGTGAATCTTACCTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACAA
* * *
39745941 CAGCGTATCTTATCTCCCAAGCAGTGCAGTAAAA
66 CAGCGAATCTTACCTCCCAAGCGGTGCAGTAAAA
* * * * *
39745975 AGATTCAAGCCACAACGGTGAATCTTGCTTTTCTGGCATTGCGATTAAAAAGATTAAAGCTACAG
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACAA
* * *
39746040 CAGCGAATCTTATCTCCCAGGTGGTGCAGTAAAA
66 CAGCGAATCTTACCTCCCAAGCGGTGCAGTAAAA
* * * * * *
39746074 AGATTAAAGCCACAACGATGAATCTTGCCTCCCTGACATTGCGATCAAAAAGATTAAAGCTACAG
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACAA
* * *
39746139 CAGCGAATCTTACCTCCCAAGCGATGCAGTGGAAC
66 CAGCGAATCTTACCTCCCAAGCGGTGCAGT-AAAA
* * * * * * *
39746174 AGATTAAATCCA-AATTGGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAATATTAAAGCCACA
1 AGATTAAAGCCACAA-CGGTGAATCTTGCTTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACA
**
39746238 ATGGCGAATCTTAC
65 ACAGCGAATCTTAC
39746252 TTTCCAAAAG
Statistics
Matches: 319, Mismatches: 55, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
99 175 0.55
100 119 0.37
101 25 0.08
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (99 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTTCTCTGACATTGCGGTTAAAAAGATTAAAGCTACAA
CAGCGAATCTTACCTCCCAAGCGGTGCAGTAAAA
Found at i:39746457 original size:46 final size:44
Alignment explanation
Indices: 39746364--39746741 Score: 188
Period size: 44 Copynumber: 8.8 Consensus size: 44
39746354 GAAAATAAAG
* * * * *
39746364 GATCTCATCTCTCTGAAGTTACAGTAGAGCAGATC---GCATACA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCA-ACA
*
39746406 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCAAAG-AATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCAA---CA
*** * *
39746451 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCAACA
* ** ** *
39746495 GATCTTATCTCCCTGAGGTTACAGTGGAGCGGATTAAAATAATA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCAACA
* * * * ** *
39746539 GATCTTATCTCTCTGAAGTTGCAGTAGAGCA-A--AGCGCATCCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCA-ACA
* * * * *
39746581 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACGAAAGAAACC
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCAACA
* * * * * ** * *
39746624 TATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAACTACA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCAACA
* * * * * *
39746668 GATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATC---GCATCCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCA-ACA
* * *
39746710 -ATCTTATCTCCCTGAAGTTGCAATGGAGCAGA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGA
39746742 TTAAAAAAAA
Statistics
Matches: 263, Mismatches: 59, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
41 86 0.33
42 7 0.03
43 3 0.01
44 130 0.49
45 3 0.01
46 33 0.13
47 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGCAGACCAAAGCAACA
Found at i:39746513 original size:44 final size:43
Alignment explanation
Indices: 39746450--39746743 Score: 220
Period size: 44 Copynumber: 6.8 Consensus size: 43
39746440 AAAGAATTTC
* * *
39746450 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCA
* * * * **
39746493 GAGATCTTATCTCCCTGAGGTTACAGTGGAGCGGATTAAAATAA
1 -AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCA
* * * ** * *
39746537 TAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAGCGCATCC-
1 -AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCA
* **
39746580 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAGAA
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCA
* * * * * * *
39746621 ACCTATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAACTA
1 A--GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCA
* * * * *
39746666 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC-
1 -AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCA
*
39746709 A-ATCTTATCTCCCTGAAGTTGCAATGGAGCAGATT
1 AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
39746744 AAAAAAAATC
Statistics
Matches: 195, Mismatches: 49, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
40 3 0.02
41 59 0.30
42 3 0.02
44 125 0.64
45 4 0.02
46 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACCA
Found at i:39746591 original size:129 final size:128
Alignment explanation
Indices: 39746452--39746828 Score: 443
Period size: 129 Copynumber: 2.9 Consensus size: 128
39746442 AGAATTTCAG
* * ** * * * *
39746452 ATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCTGAGGTTAC
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAAAAATCCTATCTCCCTGAAGTTAC
39746517 AGTGGAGCGGATTAAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAGCGCATCCA
66 AGTGGAGCGGATTAAAAT-ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAGCGCATCCA
* * *** *
39746581 GTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CGAAAGAAACCTATCCTATCTCTCTGAAGTTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGAAAAAAATCCTATCTCCCTGAAGTTA
* * *
39746645 CAGTGGAGCGGATTAAAACTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
65 CAGTGGAGCGGATTAAAA-TATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAGCGCATCCA
* * * *
39746710 ATCTTATCTCCCTGAAGTTGCAATGGAGCAGATT-AAAAAAAATCAATCCTATCTTCCTAAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAAA--AATCCTATCTCCCTGAAGTT
** * * * *
39746774 GTAGTGAAGTGGATTAAAATGGTGGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
64 ACAGTGGAGCGGATTAAAAT-ATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
39746829 GATCGCGTCA
Statistics
Matches: 210, Mismatches: 32, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
128 6 0.03
129 141 0.67
130 63 0.30
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (128 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAAAAATCCTATCTCCCTGAAGTTAC
AGTGGAGCGGATTAAAATATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAAAGCGCATCCA
Found at i:39748816 original size:13 final size:13
Alignment explanation
Indices: 39748798--39748823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39748788 TTTTTAAAAC
39748798 ATGTATTTTATAT
1 ATGTATTTTATAT
39748811 ATGTATTTTATAT
1 ATGTATTTTATAT
39748824 TTTATGATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATGTATTTTATAT
Found at i:39749064 original size:16 final size:16
Alignment explanation
Indices: 39749043--39749081 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
39749033 AACGTATACA
39749043 TATATATACATACTTT
1 TATATATACATACTTT
*
39749059 TATATATACATGCTTT
1 TATATATACATACTTT
*
39749075 CATATAT
1 TATATAT
39749082 CTCCATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (16 bp):
TATATATACATACTTT
Found at i:39749081 original size:34 final size:34
Alignment explanation
Indices: 39749041--39749105 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
39749031 ATAACGTATA
*
39749041 CATATATATACATACTTTTATATATACATGCTTT
1 CATATATATACATAATTTTATATATACATGCTTT
* * * *
39749075 CATATATCTCCATAATTTTATGTATATATGC
1 CATATATATACATAATTTTATATATACATGC
39749106 ATATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (34 bp):
CATATATATACATAATTTTATATATACATGCTTT
Found at i:39757174 original size:146 final size:147
Alignment explanation
Indices: 39756866--39757176 Score: 356
Period size: 147 Copynumber: 2.1 Consensus size: 147
39756856 GTTTTACGCC
** * *
39756866 CAGCGCTAGTCGGATAAATTGACAATAGGTGTGCCCAGCACTGGTCGGGTAAACCGACAATATTT
1 CAGCGCTAGTCGGATAAATCAACAATAGATGTGCCCAGCACTGGTCGAGTAAACCGACAATATTT
* * ** * *
39756931 TATGGCCAGTGCTAGTCGAATAAACTGACGATATTAAATCTGTGCCCAGCACTAGTAGGATAAAC
66 TACGCCCAACGCAAGTCGAATAAACTGACGATATTAAATCTGTGCCCAACACTAGTAGGATAAAC
* *
39756996 CAATATTGTTTTGCGTT
131 CAATATTGCTTTGCGCT
* * * *
39757013 CAGCGCTAGTTGGATAAATCAACAATAGATGTTCCCAGCACTGGTCGAGTAAATCGACAATGTTT
1 CAGCGCTAGTCGGATAAATCAACAATAGATGTGCCCAGCACTGGTCGAGTAAACCGACAATATTT
* * * * ** * *
39757078 TGCGCCCAACGCAATTCGGAT-AATTGATTATATTAAATGTGTGCCCAACACTAGTCGGATAAAC
66 TACGCCCAACGCAAGTCGAATAAACTGACGATATTAAATCTGTGCCCAACACTAGTAGGATAAAC
**
39757142 TGATATTGCTTTGCGC-
131 CAATATTGCTTTGCGCT
*
39757158 CTAGTGCTAGTCGGATAAA
1 C-AGCGCTAGTCGGATAAA
39757177 CTGATGATAT
Statistics
Matches: 135, Mismatches: 28, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
145 1 0.01
146 64 0.47
147 70 0.52
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (147 bp):
CAGCGCTAGTCGGATAAATCAACAATAGATGTGCCCAGCACTGGTCGAGTAAACCGACAATATTT
TACGCCCAACGCAAGTCGAATAAACTGACGATATTAAATCTGTGCCCAACACTAGTAGGATAAAC
CAATATTGCTTTGCGCT
Found at i:39769832 original size:17 final size:17
Alignment explanation
Indices: 39769796--39769833 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
39769786 CATCTTCCCA
*
39769796 TTAGTTTTAAATGTTAT
1 TTAGTTTTAAAGGTTAT
39769813 TTAGTATTTAAAGGTT-T
1 TTAGT-TTTAAAGGTTAT
39769830 TTAG
1 TTAG
39769834 CCATTAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (17 bp):
TTAGTTTTAAAGGTTAT
Found at i:39777161 original size:95 final size:94
Alignment explanation
Indices: 39776987--39777164 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 94
39776977 CATAATCGCT
* * **
39776987 CACTTGTTGTGAAATATAATTGGTGTAGTTCAAAAGATCATGAGGGTTCTGATGTCCAATTAAAT
1 CACTTGTTGTGAAATATAATTGGTGCAGTTCAAAAGATCATAAGGGTTCCAATGTCCAATTAAAT
39777052 ATCCAAATAAAGAGAATACGATTGAGCTAC
66 ATCCAAAT-AAGAGAATACGATTGAGCTAC
* * * *
39777082 CACTTTTTGTGCAATGTTATTGGTGCAGTTCAAAAGATCATAAGGGTTTCCAATGTCCAATTAAA
1 CACTTGTTGTGAAATATAATTGGTGCAGTTCAAAAGATCATAAGGG-TTCCAATGTCCAATTAAA
*
39777147 TTATCCAACT-AGAGAATA
65 -TATCCAAATAAGAGAATA
39777165 AAGTAACTAC
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
95 48 0.67
96 16 0.22
97 8 0.11
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (94 bp):
CACTTGTTGTGAAATATAATTGGTGCAGTTCAAAAGATCATAAGGGTTCCAATGTCCAATTAAAT
ATCCAAATAAGAGAATACGATTGAGCTAC
Found at i:39779079 original size:28 final size:26
Alignment explanation
Indices: 39779048--39779102 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
39779038 TTCTTTTGAG
*
39779048 TTAATAAATTCTCTTTGAGTTTTTCTTT
1 TTAAGAAATTCTCTTT-AG-TTTTCTTT
* *
39779076 TTAAGAATTTTTCTTTAGTTTTCTTT
1 TTAAGAAATTCTCTTTAGTTTTCTTT
39779102 T
1 T
39779103 AGAAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 9 0.38
27 2 0.08
28 13 0.54
ACGTcount: A:0.20, C:0.09, G:0.07, T:0.64
Consensus pattern (26 bp):
TTAAGAAATTCTCTTTAGTTTTCTTT
Found at i:39779110 original size:26 final size:28
Alignment explanation
Indices: 39779059--39779113 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 28
39779049 TAATAAATTC
*
39779059 TCTTTGAGTTTTTCTTTTTAAGAATTTT
1 TCTTTGAGTTTTTCTTTTTAAAAATTTT
39779087 TCTTT-AG-TTTTC-TTTTAGAAAATTTT
1 TCTTTGAGTTTTTCTTTTTA-AAAATTTT
39779113 T
1 T
39779114 AACAATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 13 0.52
27 2 0.08
28 5 0.20
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (28 bp):
TCTTTGAGTTTTTCTTTTTAAAAATTTT
Found at i:39779357 original size:12 final size:13
Alignment explanation
Indices: 39779334--39779358 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39779324 AATTATTTAT
39779334 TTTAATTTTTTTC
1 TTTAATTTTTTTC
39779347 TTTAATTTTTTT
1 TTTAATTTTTTT
39779359 ATTTGACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTAATTTTTTTC
Found at i:39781539 original size:20 final size:20
Alignment explanation
Indices: 39781516--39781553 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39781506 AAAAGCATAC
*
39781516 AAAATTTTAAAATTATATTA
1 AAAATTATAAAATTATATTA
39781536 AAAATTATAAAATTATAT
1 AAAATTATAAAATTATAT
39781554 AGAATTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTATAAAATTATATTA
Found at i:39781565 original size:18 final size:20
Alignment explanation
Indices: 39781524--39781565 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
39781514 ACAAAATTTT
*
39781524 AAAATTATATTAAAAATTAT
1 AAAATTATATTAAAAATTAC
*
39781544 AAAATTATA-T-AGAATTAC
1 AAAATTATATTAAAAATTAC
39781562 AAAA
1 AAAA
39781566 ATCTTGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 1 0.05
20 9 0.45
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAATTATATTAAAAATTAC
Done.