Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 161 of 310
Found at i:52761514 original size:98 final size:95
Alignment explanation
Indices: 52761392--52761613 Score: 234
Period size: 98 Copynumber: 2.3 Consensus size: 95
52761382 CATTAGAATC
* * * *
52761392 GATGTCATGTCCCAGAAAGATCTTACACTGA-CTT-TCATATATCGAGGCCGATGCTATGTCCCA
1 GATG-CATGTCCCAGACAGGTCTTACACTGAGCTTGT-ATATATCGAGGCCGATG-AATGCCCCA
* * *
52761455 AACAGGTCTTACACTGGCTCTCATTTATCGATATT
63 AACAGGTCTTACACTAGCTCTC--GTATCAATATT
* * *
52761490 GATGCCATGTCCCAGACAGGTCTTACACT-AGCTTGTATATCTCGAGGTCGATGAATGCCCCAGA
1 GATG-CATGTCCCAGACAGGTCTTACACTGAGCTTGTATATATCGAGGCCGATGAATGCCCCAAA
* * *
52761554 CATGTCTTACACTAGCTCTCGTCTCAATGTT
65 CAGGTCTTACACTAGCTCTCGTATCAATATT
* *
52761585 GATGCATGTCCCAGACATGTGTTACACTG
1 GATGCATGTCCCAGACAGGTCTTACACTG
52761614 GCTCGCATAC
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
94 22 0.21
95 11 0.10
97 27 0.26
98 44 0.42
99 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (95 bp):
GATGCATGTCCCAGACAGGTCTTACACTGAGCTTGTATATATCGAGGCCGATGAATGCCCCAAAC
AGGTCTTACACTAGCTCTCGTATCAATATT
Found at i:52761610 original size:46 final size:47
Alignment explanation
Indices: 52761488--52761617 Score: 136
Period size: 46 Copynumber: 2.7 Consensus size: 47
52761478 TTTATCGATA
* * * *
52761488 TTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGG
1 TTGATG-CATGTCCCAGACATGTCTTACACTAGC-TCTACATCTCAAGG
* * * * *
52761537 TCGATGAATGCCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATG
1 TTGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCAAGG
* *
52761583 TTGATGCATGTCCCAGACATGTGTTACACTGGCTC
1 TTGATGCATGTCCCAGACATGTCTTACACTAGCTC
52761618 GCATACCATC
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
46 36 0.54
47 2 0.03
48 24 0.36
49 5 0.07
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (47 bp):
TTGATGCATGTCCCAGACATGTCTTACACTAGCTCTACATCTCAAGG
Found at i:52772973 original size:28 final size:27
Alignment explanation
Indices: 52772933--52773002 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
52772923 TAAATTGTTC
52772933 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAG-TTGATCATAT
* *
52772961 AGCACTAAGTGTGAGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATCATAT
*
52772988 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52773003 GACTTAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATCATAT
Found at i:52773013 original size:27 final size:27
Alignment explanation
Indices: 52772933--52773015 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
52772923 TAAATTGTTC
* *
52772933 AGCACTAAGTGTGCGAGTTTG-ATCATAT
1 AGCACTAAGTGTGAGA-CTTGAAT-ATAT
* *
52772961 AGCACTAAGTGTGAGAGTTGATTATAT
1 AGCACTAAGTGTGAGACTTGAATATAT
* *
52772988 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTG-AGACTTGAATATAT
52773015 A
1 A
52773016 TATTTTTGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 26 0.57
28 20 0.43
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGAGACTTGAATATAT
Found at i:52773358 original size:45 final size:45
Alignment explanation
Indices: 52773298--52773395 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
52773288 GAATGTGAAT
* * *
52773298 GCATGATTTGGTATGAGATTGAACCGATAGGTCT-GAGGAACTATG
1 GCATGGTTTGATATGAAATTGAACCGATAGGT-TGGAGGAACTATG
*
52773343 GCATGGTTTGATATGAAATTGAATCGATAGGTTGGAGGAACTATG
1 GCATGGTTTGATATGAAATTGAACCGATAGGTTGGAGGAACTATG
*
52773388 GTATGGTT
1 GCATGGTT
52773396 CGGTATGGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.02
45 46 0.98
ACGTcount: A:0.29, C:0.08, G:0.32, T:0.32
Consensus pattern (45 bp):
GCATGGTTTGATATGAAATTGAACCGATAGGTTGGAGGAACTATG
Found at i:52781037 original size:30 final size:30
Alignment explanation
Indices: 52781003--52781060 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
52780993 GTTCACTATA
52781003 TATAAGAAGCATATGGCATATGTACATGAG
1 TATAAGAAGCATATGGCATATGTACATGAG
*
52781033 TATAAGAAGTATATGGCATATGTACATG
1 TATAAGAAGCATATGGCATATGTACATG
52781061 GTGAGTGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (30 bp):
TATAAGAAGCATATGGCATATGTACATGAG
Found at i:52788918 original size:29 final size:29
Alignment explanation
Indices: 52788876--52789039 Score: 100
Period size: 29 Copynumber: 5.7 Consensus size: 29
52788866 ATCAACGATA
*
52788876 ATCGAATATGAAAAGGGATAGCTTTGGCT
1 ATCGAATATGAAAAGGGATAGCTTTGGCC
* * * *
52788905 ATCGATTATGAAAAGGGAT-GGTGATGACC
1 ATCGAATATGAAAAGGGATAGCT-TTGGCC
* * ** *
52788934 GTC-AATTATGAAAAGGGAT-GGTGACGACC
1 ATCGAA-TATGAAAAGGGATAGCT-TTGGCC
** * * ** *
52788963 ATAAAAAATGAAAAAGGATAGCTTCAGCA
1 ATCGAATATGAAAAGGGATAGCTTTGGCC
*
52788992 ATCGAATATGAAAAGGGATAGCTTTGGCT
1 ATCGAATATGAAAAGGGATAGCTTTGGCC
* *
52789021 ATCGATTGTGAAAAGGGAT
1 ATCGAATATGAAAAGGGAT
52789040 GGAGATGACC
Statistics
Matches: 105, Mismatches: 26, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
28 3 0.03
29 98 0.93
30 4 0.04
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.24
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATAGCTTTGGCC
Found at i:52789060 original size:116 final size:117
Alignment explanation
Indices: 52788875--52789096 Score: 365
Period size: 116 Copynumber: 1.9 Consensus size: 117
52788865 TATCAACGAT
* * *
52788875 AATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGTGATGACCGTCAAT
1 AATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGAGATGACCATCAAC
*
52788940 TATGAAAAGGGATGGTGACGACCAT-AAAAAATGAAAAAGGATAGCTTCAGC
66 TATGAAAAGGAATGGTGACGACCATCAAAAAATGAAAAAGGATAGCTTCAGC
*
52788991 AATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTGTGAAAAGGGATGGAGATGACCATCAAC
1 AATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGAGATGACCATCAAC
* **
52789056 TATGAAAAGGAATGGTGACGACTATCAATTAATGAAAAAGG
66 TATGAAAAGGAATGGTGACGACCATCAAAAAATGAAAAAGG
52789097 GATGGTTTCA
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
116 84 0.87
117 13 0.13
ACGTcount: A:0.40, C:0.11, G:0.27, T:0.23
Consensus pattern (117 bp):
AATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGAGATGACCATCAAC
TATGAAAAGGAATGGTGACGACCATCAAAAAATGAAAAAGGATAGCTTCAGC
Found at i:52789102 original size:31 final size:29
Alignment explanation
Indices: 52788911--52789140 Score: 101
Period size: 29 Copynumber: 7.9 Consensus size: 29
52788901 GGCTATCGAT
* * *
52788911 TATGAAAAGGGATGGTGATGACCGTCAAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
* *
52788940 TATGAAAAGGGATGGTGACGACCATAAAA
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * * * *
52788969 AATGAAAAAGGATAGCT-TC-AGCAATCGAA-
1 TATGAAAAGGGAT-GGTGACGA-CCATC-AAC
* ** * * * *
52788998 TATGAAAAGGGATAGCT-TTGGCTATCGAT
1 TATGAAAAGGGAT-GGTGACGACCATCAAC
* * *
52789027 TGTGAAAAGGGATGGAGATGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * *
52789056 TATGAAAAGGAATGGTGACGACTATCAAT
1 TATGAAAAGGGATGGTGACGACCATCAAC
** * *
52789085 TAATGAAAAAGGGATGGTTTCAACCATCAAA
1 T-ATG-AAAAGGGATGGTGACGACCATCAAC
* * *
52789116 TATG-AAAGGGACGGTTACAACCATC
1 TATGAAAAGGGATGGTGACGACCATC
52789141 GTTTAGCACA
Statistics
Matches: 155, Mismatches: 38, Indels: 17
0.74 0.18 0.08
Matches are distributed among these distances:
28 22 0.14
29 103 0.66
30 10 0.06
31 20 0.13
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:52793053 original size:26 final size:26
Alignment explanation
Indices: 52793024--52793078 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
52793014 AACACACCAA
* *
52793024 TATCGCAGCAAGGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
* *
52793050 TATCATAGCAAAGCTGCCAGTATCAG
1 TATCACAGCAAAGCTGCCAGTAACAG
52793076 TAT
1 TAT
52793079 ATGTGGCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:52800669 original size:43 final size:43
Alignment explanation
Indices: 52800598--52800732 Score: 155
Period size: 43 Copynumber: 3.1 Consensus size: 43
52800588 TATCGAAATG
* * *
52800598 TGATAATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGAT-ATCGGGCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
* * *
52800642 TGATATCGGGCTTTGAGCTTAGTAGGCTATGATGCCAGTGAAA
1 TGATATCGGGCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
* *
52800685 T-ATTATTCAAGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
1 TGA-TA-TC-GGGCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
52800730 TGA
1 TGA
52800733 AATGTTATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 1 0.01
43 36 0.47
44 6 0.08
45 32 0.42
46 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (43 bp):
TGATATCGGGCTTTGAGCTTAGCAGGCTATAATGCCGGTGAAA
Found at i:52800714 original size:45 final size:43
Alignment explanation
Indices: 52800618--52800732 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 43
52800608 GCTTCGGGCC
* *
52800618 TAGCAGGCTATAATGCCGGTGAAATGATATCGGGCTTTGAGCT
1 TAGCAGGCTATAATGCCGGTGAAATGATATCAGCCTTTGAGCT
* * *
52800661 TAGTAGGCTATGATGCCAGTGAAAT-ATTATTCAAGCCTTTGAGCT
1 TAGCAGGCTATAATGCCGGTGAAATGA-TA-TC-AGCCTTTGAGCT
52800706 TAGCAGGCTATAATGCCGGTGAAATGA
1 TAGCAGGCTATAATGCCGGTGAAATGA
52800733 AATGTTATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
42 1 0.02
43 24 0.40
44 2 0.03
45 32 0.53
46 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (43 bp):
TAGCAGGCTATAATGCCGGTGAAATGATATCAGCCTTTGAGCT
Found at i:52801045 original size:38 final size:38
Alignment explanation
Indices: 52801002--52801199 Score: 247
Period size: 38 Copynumber: 5.2 Consensus size: 38
52800992 ACGATATTTG
* ** *
52801002 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGTAA-TA
*
52801040 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
52801078 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* *
52801116 TATCCGGGTTAATTCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * * * *
52801154 TATCCTGGTTAAATCCCGCATGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
52801192 TATTCGGG
1 TATCCGGG
52801200 CCTTTGAGCC
Statistics
Matches: 143, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
37 1 0.01
38 140 0.98
39 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:52807720 original size:32 final size:31
Alignment explanation
Indices: 52807675--52807737 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 31
52807665 GAAATCGAGT
52807675 GAACCGCTAACGAGCCCAAAGTCCATATTCC
1 GAACCGCTAACGAGCCCAAAGTCCATATTCC
*
52807706 NGAACCGCTCACGAGCCCAAAGTCCATATTCC
1 -GAACCGCTAACGAGCCCAAAGTCCATATTCC
52807738 AATAAAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.37, G:0.16, T:0.16
Consensus pattern (31 bp):
GAACCGCTAACGAGCCCAAAGTCCATATTCC
Found at i:52816453 original size:23 final size:23
Alignment explanation
Indices: 52816427--52816471 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
52816417 AGGGTTCTCC
52816427 ATAGTAAGTGATTCCAAGCCCCA
1 ATAGTAAGTGATTCCAAGCCCCA
52816450 ATAGTAAGTGATTCCAAGCCCC
1 ATAGTAAGTGATTCCAAGCCCC
52816472 GTTTTTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (23 bp):
ATAGTAAGTGATTCCAAGCCCCA
Found at i:52817334 original size:46 final size:45
Alignment explanation
Indices: 52817284--52817456 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
52817274 TGGTTGAGCA
52817284 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * *
52817330 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAA-T--G
* * *
52817375 CATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT-GATGCGAATG
* * *
52817423 CCCGAGCTCCTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
52817457 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 58 0.56
47 27 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGATGCGAATG
Found at i:52817440 original size:93 final size:93
Alignment explanation
Indices: 52817281--52817451 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
52817271 GGATGGTTGA
* * * * *
52817281 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCCTTGAGT
52817346 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
52817374 GCATCCAAACTCGTTGAGTTGAGTCTGAGTTCACTTATAGATGCGAACGCCCGAGCTCCTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCCTTGAGT
52817439 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
52817452 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAACTCCTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:52836200 original size:36 final size:36
Alignment explanation
Indices: 52836153--52836224 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
52836143 CAATTTGACC
52836153 AATTTCTAAGTCTATGGACAAAAATTGGACATTGAT
1 AATTTCTAAGTCTATGGACAAAAATTGGACATTGAT
52836189 AATTTCTAAGTCTATGGACAAAAATTGGACATTGAT
1 AATTTCTAAGTCTATGGACAAAAATTGGACATTGAT
52836225 GGAATTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (36 bp):
AATTTCTAAGTCTATGGACAAAAATTGGACATTGAT
Found at i:52837132 original size:31 final size:31
Alignment explanation
Indices: 52837094--52837155 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
52837084 TGTATAATTT
52837094 CACATAACCTTTCACACTGATCCGATGCCAC
1 CACATAACCTTTCACACTGATCCGATGCCAC
*
52837125 CACATAACCTTTCACACTGATCTGATGCCAC
1 CACATAACCTTTCACACTGATCCGATGCCAC
52837156 ATAATTATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.29, C:0.37, G:0.10, T:0.24
Consensus pattern (31 bp):
CACATAACCTTTCACACTGATCCGATGCCAC
Found at i:52841863 original size:37 final size:37
Alignment explanation
Indices: 52841813--52841891 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
52841803 TTATTACGAA
* * *
52841813 GTCTTACCTGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
52841850 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
52841887 GTCTT
1 GTCTT
52841892 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:52842088 original size:47 final size:47
Alignment explanation
Indices: 52842010--52843176 Score: 2181
Period size: 47 Copynumber: 24.8 Consensus size: 47
52842000 CCCTTCGGGA
* * * * * * * *
52842010 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
* * *
52842057 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
52842104 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
52842151 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
52842198 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
*
52842247 CTTATCACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842294 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842341 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842388 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842435 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842482 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842529 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842576 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842623 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842670 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842717 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842764 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842811 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842858 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842905 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842952 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52842999 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52843046 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52843093 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
52843140 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
52843177 AATCCTAAAT
Statistics
Matches: 1101, Mismatches: 17, Indels: 4
0.98 0.02 0.00
Matches are distributed among these distances:
47 1054 0.96
49 47 0.04
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
Found at i:52845751 original size:19 final size:20
Alignment explanation
Indices: 52845719--52845759 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
52845709 GAATGAAATC
52845719 GAGAGAAGAAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
52845739 GAGAGAA-AAACAAAGAAAA
1 GAGAGAAGAAACAAAGAAAA
52845758 GA
1 GA
52845760 AAATGAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.71, C:0.05, G:0.24, T:0.00
Consensus pattern (20 bp):
GAGAGAAGAAACAAAGAAAA
Found at i:52855469 original size:46 final size:44
Alignment explanation
Indices: 52855382--52855502 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 44
52855372 TATGTGTGCT
* *
52855382 AGTGTAAGACATGTCTGGGACATGCATCAACCACAGTATGAGAGCC
1 AGTGTAAGACATGTCT-GGACATGCATC-GCCAAAGTATGAGAGCC
* * *
52855428 AGTGTAAGACATGTCTAGGACATGCATCGGCATTAAG-ATGAGATCT
1 AGTGTAAGACATGTCT-GGACATGCATCGCCA--AAGTATGAGAGCC
*
52855474 AGTGTAAGAGATGTCTGGAACATGCATCG
1 AGTGTAAGACATGTCTGG-ACATGCATCG
52855503 ATCTTGCGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
45 4 0.06
46 59 0.91
47 2 0.03
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGACATGCATCGCCAAAGTATGAGAGCC
Found at i:52855633 original size:49 final size:49
Alignment explanation
Indices: 52855565--52855695 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 49
52855555 TGTGGTGTGT
* *
52855565 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGGTAGATAAAGGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATAAAAGC
* * * *
52855614 CAGTGTAAGACCTGTCTGGGGCAT-GCTATCGGCCTCGATATATAAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGC-ATCGACCTCGATAGATAAAAGC
*
52855663 CAGTGTAAGACCTGTCTGGGACACGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
52855696 TTTAAACTGC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.04
49 65 0.93
50 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATAAAAGC
Found at i:52857134 original size:36 final size:37
Alignment explanation
Indices: 52857062--52857134 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
52857052 TTGTTGTGAG
* *
52857062 ATAGATTTGCCATAGATTTCGTGTTGGAATGGTCGTT
1 ATAGATTTGCCATAGAGTTCGTGTCGGAATGGTCGTT
52857099 ATAGATTTGCCATAGAGTTCG-GTCGGAATGGTCGTT
1 ATAGATTTGCCATAGAGTTCGTGTCGGAATGGTCGTT
52857135 TTCTCTGGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 14 0.41
37 20 0.59
ACGTcount: A:0.22, C:0.12, G:0.29, T:0.37
Consensus pattern (37 bp):
ATAGATTTGCCATAGAGTTCGTGTCGGAATGGTCGTT
Found at i:52859591 original size:24 final size:24
Alignment explanation
Indices: 52859564--52859664 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
52859554 AAGGCTGTCA
*
52859564 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
52859588 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
52859612 GGAGAGGATGTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
52859636 GGAGAGGATTTAGGAGCTAATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
52859660 GGAGA
1 GGAGA
52859665 ACAGTGTTGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.35, C:0.03, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:52861139 original size:27 final size:27
Alignment explanation
Indices: 52861099--52861209 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
52861089 AGGAAGCGTC
*
52861099 CTGGTGGCTA-TGCCACAATTATCTAAT
1 CTGGTGGC-ACTGCCACAATTATCTATT
52861126 CTGGTGGCACTGCCACATATT-TCTATT
1 CTGGTGGCACTGCCACA-ATTATCTATT
* *
52861153 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCACTGCCACAATTATCTATT
* * * *
52861180 CTGATGACACTGTCAC-ATTATCTGTT
1 CTGGTGGCACTGCCACAATTATCTATT
52861206 CTGG
1 CTGG
52861210 CAGCCATGCG
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 17 0.23
27 53 0.73
28 3 0.04
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAATTATCTATT
Found at i:52870947 original size:30 final size:30
Alignment explanation
Indices: 52870888--52870948 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52870878 TCCTTAACTA
*
52870888 AAACTTTTGCAAAATTACAATTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * * *
52870918 AAACTTTTGCATATTTATACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
52870948 A
1 A
52870949 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:52875626 original size:46 final size:46
Alignment explanation
Indices: 52875576--52875751 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
52875566 TGATTGAGCA
52875576 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
52875622 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
* *
52875666 TCATCATAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TC--C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
52875715 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52875752 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 3 0.03
45 2 0.02
46 61 0.56
47 26 0.24
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:52883199 original size:46 final size:46
Alignment explanation
Indices: 52883149--52883325 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
52883139 ATGATTGAGC
52883149 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
* * *
52883195 GTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACT
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T
* * *
52883238 AGGCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
1 --G--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
* * *
52883288 GCCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
52883326 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAT
Found at i:52895988 original size:27 final size:27
Alignment explanation
Indices: 52895940--52895991 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
52895930 ACGAGGCTAC
*
52895940 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGATA
* * *
52895967 CAGATATTGTGGCTAGGCCACCAGA
1 CAGATATTGTGACGAAGCCACCAGA
52895992 ACGAATATAT
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:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGACGAAGCCACCAGATA
Found at i:52902989 original size:29 final size:27
Alignment explanation
Indices: 52902917--52902995 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
52902907 AGGCTGCCAG
* *
52902917 ATATTGTGACGAAGTCACCAGATACAT
1 ATATTGTGGCGAAGCCACCAGATACAT
* *
52902944 ATATTGTGGCTAGGCCACCAGA-ACGGAT
1 ATATTGTGGCGAAGCCACCAGATAC--AT
52902972 ATATATGTGGCGAAGCCACCAGAT
1 ATAT-TGTGGCGAAGCCACCAGAT
52902996 TGCAGCGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
26 2 0.05
27 18 0.43
28 6 0.14
29 16 0.38
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (27 bp):
ATATTGTGGCGAAGCCACCAGATACAT
Found at i:52903333 original size:8 final size:8
Alignment explanation
Indices: 52903316--52903347 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
52903306 TACCAAAGTG
*
52903316 GGCCCGTT
1 GGCCCATT
52903324 GGCCCATT
1 GGCCCATT
52903332 GGCCCATT
1 GGCCCATT
52903340 GGCCCATT
1 GGCCCATT
52903348 TTCGGCCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.09, C:0.38, G:0.28, T:0.25
Consensus pattern (8 bp):
GGCCCATT
Found at i:52907091 original size:41 final size:41
Alignment explanation
Indices: 52907046--52907146 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
52907036 TTTGGTTACT
*
52907046 TGACAGCTTGTGTGAGTAGCACCGTGTAGCTACGTCTTGAC
1 TGACAGCTTGTGTGAGTAGCACCATGTAGCTACGTCTTGAC
** *
52907087 TGACAGCTTGTGTGAACAGCATCATGTAGCTACGTCTTGAC
1 TGACAGCTTGTGTGAGTAGCACCATGTAGCTACGTCTTGAC
*
52907128 TGACAGCTTATGTGAGTAG
1 TGACAGCTTGTGTGAGTAG
52907147 GCCCGTTGAT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGTAGCACCATGTAGCTACGTCTTGAC
Found at i:52909550 original size:26 final size:26
Alignment explanation
Indices: 52909472--52909627 Score: 228
Period size: 26 Copynumber: 6.1 Consensus size: 26
52909462 GCCTAGCCTC
52909472 TTTCAAT-AACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
**
52909496 TTTCGGTAAACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
52909521 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
** *
52909547 TTTCGGTAAATTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
* *
52909573 TTTCAACAAACTAGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
52909599 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
52909625 TTT
1 TTT
52909628 GCACTTCCTC
Statistics
Matches: 116, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
24 5 0.04
25 33 0.28
26 78 0.67
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (26 bp):
TTTCAATAAACTGGGGCATAAGCCCT
Found at i:52909702 original size:20 final size:20
Alignment explanation
Indices: 52909677--52909739 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
52909667 TTATGAATTG
*
52909677 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
52909697 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
52909717 GTCATGTGCATATCATACCAT
1 ATCATGTGCATATCATA-CAT
52909738 AT
1 AT
52909740 ATTAGGGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 35 0.90
21 4 0.10
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:52916700 original size:47 final size:47
Alignment explanation
Indices: 52916631--52916723 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 47
52916621 TAGCCGAATG
* *
52916631 TCAATTCACCCGGGGAGTACGAAAATGTACAACGATTTGAAACGTCA
1 TCAATTCACCCGGGGAGCACGAAAATGTACAACGACTTGAAACGTCA
52916678 TCAATTCACCCGGGGAGCACGAAAATGTACAACGACTTGAAACGTC
1 TCAATTCACCCGGGGAGCACGAAAATGTACAACGACTTGAAACGTC
52916724 GGTTTTGGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (47 bp):
TCAATTCACCCGGGGAGCACGAAAATGTACAACGACTTGAAACGTCA
Found at i:52917789 original size:54 final size:54
Alignment explanation
Indices: 52917707--52917812 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
52917697 TCCTTCGCAC
52917707 ATAATTAGTCCGTCGGAGGTTGAAATTCAAGCCGATATGAGTTAAGAAGAAGAG
1 ATAATTAGTCCGTCGGAGGTTGAAATTCAAGCCGATATGAGTTAAGAAGAAGAG
* * *
52917761 ATAATTAGTCCGTCGGAGGTTGAAATTCAGGCTGATATGAGTTATGAAGAAG
1 ATAATTAGTCCGTCGGAGGTTGAAATTCAAGCCGATATGAGTTAAGAAGAAG
52917813 CCCCGATGCG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.26
Consensus pattern (54 bp):
ATAATTAGTCCGTCGGAGGTTGAAATTCAAGCCGATATGAGTTAAGAAGAAGAG
Found at i:52927974 original size:26 final size:26
Alignment explanation
Indices: 52927896--52928077 Score: 255
Period size: 26 Copynumber: 7.1 Consensus size: 26
52927886 GCCTAGCCTC
52927896 TTTCAAT-AACTAGGGG-A-AAGCCCT
1 TTTCAATAAACT-GGGGCATAAGCCCT
52927920 TTTCAATAAACTGGGGCA-AAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
* *
52927945 TTTCAATAACCTGAGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
** *
52927971 TTTCGGTAAACTGTGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
*
52927997 TTTCAATAAACTGGGACATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
**
52928023 TTTCGGTAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
52928049 TTTCAATAAACTGGGGCATAAGCCCT
1 TTTCAATAAACTGGGGCATAAGCCCT
52928075 TTT
1 TTT
52928078 GCACTTCCTC
Statistics
Matches: 140, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
24 11 0.08
25 28 0.20
26 101 0.72
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
TTTCAATAAACTGGGGCATAAGCCCT
Found at i:52928152 original size:20 final size:20
Alignment explanation
Indices: 52928127--52928201 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
52928117 TTATGAATTC
* *
52928127 ATCATGTGCTTTTCATACAT
1 ATCATGTGCATATCATACAT
52928147 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
52928167 GTCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
52928187 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
52928202 TCCCACGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.16
20 40 0.80
21 2 0.04
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:52932158 original size:21 final size:20
Alignment explanation
Indices: 52932134--52932173 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
52932124 CATGTATTTT
52932134 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
52932155 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
52932174 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:52932181 original size:20 final size:21
Alignment explanation
Indices: 52932139--52932181 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
52932129 ATTTTAATGA
*
52932139 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
52932160 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
52932180 TT
1 TT
52932182 TGTTAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:52940107 original size:41 final size:40
Alignment explanation
Indices: 52940008--52940107 Score: 101
Period size: 40 Copynumber: 2.5 Consensus size: 40
52939998 CTTTTATCAA
** *
52940008 ATCACCGGCATTTAGCCTGCTAGGTTTTAAACCCGAATTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
*** ** *
52940048 ATCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTC
1 ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
*
52940088 ATTCACCGGCATTTCGCCTG
1 A-TCACCGGCATTTAGCCTG
52940108 GTAGGCTTGA
Statistics
Matches: 46, Mismatches: 13, Indels: 1
0.77 0.22 0.02
Matches are distributed among these distances:
40 32 0.70
41 14 0.30
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (40 bp):
ATCACCGGCATTTAGCCTGCTAGACTTTAAACCCGAACTC
Found at i:52940150 original size:43 final size:43
Alignment explanation
Indices: 52940086--52940259 Score: 126
Period size: 43 Copynumber: 4.1 Consensus size: 43
52940076 AAGTCTGAAC
* * * *
52940086 TCAT-TCACCGGCATT-TCGCCTGGTAGGCTTGAAGCCCAATA
1 TCATGTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCCAATA
* ** * *
52940127 TCATTTCACTGGTATTATAGCCTGCTAGG-TCCGAAGCCCGATA
1 TCATGTCACCAGCATTATAGCCTGCTAGGCT-CGAAGCCCAATA
* *
52940170 TTATGTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCTTATAATA
1 TCATGTCACCAGCATTATAGCCTGCTAGGCTCGAAGCC---CAATA
* * * *
52940216 TTAT-TCACCAGC-TTAAAGCTTGCTAGGC-CGAGGCCCAAATA
1 TCATGTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCC-AATA
52940257 TCA
1 TCA
52940260 CATTTCGATA
Statistics
Matches: 107, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
41 10 0.09
42 10 0.09
43 57 0.53
44 15 0.14
45 8 0.07
46 7 0.07
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (43 bp):
TCATGTCACCAGCATTATAGCCTGCTAGGCTCGAAGCCCAATA
Found at i:52943967 original size:27 final size:27
Alignment explanation
Indices: 52943934--52944148 Score: 214
Period size: 27 Copynumber: 8.0 Consensus size: 27
52943924 TAGAATACTT
** *
52943934 TAGTTTACCAAATTACCAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
* *
52943961 TGGTTTACAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * * *
52943988 TAGTTTGTAAAGTTACTACAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
*
52944015 TTGTTTATAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
*
52944042 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * *
52944069 TGGTTTGTAAAATTATCAAAATACCCA
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
52944096 TAATTTGTAAATTTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * **
52944123 TAATTTGTGAAATTACTGAAATACCC
1 TAGTTTATAAAATTACCAAAATACCC
52944149 TCGACCTGTA
Statistics
Matches: 158, Mismatches: 30, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (27 bp):
TAGTTTATAAAATTACCAAAATACCCC
Found at i:52944011 original size:54 final size:54
Alignment explanation
Indices: 52943943--52944121 Score: 259
Period size: 54 Copynumber: 3.3 Consensus size: 54
52943933 TTAGTTTACC
*
52943943 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * *
52943997 AAGTTACTACAATACCCTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
* * * * *
52944051 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCATAATTTGTA
1 AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
*
52944105 AATTTACCAAAATACCC
1 AAATTACCAAAATACCC
52944122 CTAATTTGTG
Statistics
Matches: 110, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 110 1.00
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:52944075 original size:81 final size:81
Alignment explanation
Indices: 52943943--52944148 Score: 252
Period size: 81 Copynumber: 2.5 Consensus size: 81
52943933 TTAGTTTACC
* * ** * *
52943943 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAGTTA-CTAC
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATC-AA
* **
52944007 AATACCCTTTGTTTATA
65 AATACCCATAATTTATA
*
52944024 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
*
52944089 ATACCCATAATTTGTA
66 ATACCCATAATTTATA
* * * **
52944105 AATTTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
52944149 TCGACCTGTA
Statistics
Matches: 108, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
81 107 0.99
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAA
ATACCCATAATTTATA
Found at i:52944136 original size:54 final size:54
Alignment explanation
Indices: 52943943--52944148 Score: 241
Period size: 54 Copynumber: 3.8 Consensus size: 54
52943933 TTAGTTTACC
* * **
52943943 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * * * *
52943997 AAGTTACTACAATACCCTTTGTTTATAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * *
52944051 AAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCATAATTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * **
52944105 AATTTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCC
52944149 TCGACCTGTA
Statistics
Matches: 131, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 131 1.00
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:52944159 original size:81 final size:81
Alignment explanation
Indices: 52944022--52944219 Score: 222
Period size: 81 Copynumber: 2.5 Consensus size: 81
52944012 CCTTTGTTTA
* ***
52944022 TAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCA
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGACCTGTAAAATTATCA
**
52944087 AAATACCCAT-AATTTG
66 AAATACCC-TCAACGTG
* * ** *
52944103 TAAATTTACCAAAATACCCCTAATTTGTGAAATTACTGAAATA-CCCTCGACCTGTAAAATTATT
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCT-GACCTGTAAAATTATC
*
52944167 GAAATACCCTCAACGTG
65 AAAATACCCTCAACGTG
* * *
52944184 TAAAATTACCAAAGTA-CCCTAATTTATAGAATTACC
1 TAAAATTACCAAAATACCCCTAATTTGTAAAATTACC
52944220 GTTTTACCCT
Statistics
Matches: 97, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
80 21 0.22
81 76 0.78
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTGACCTGTAAAATTATCA
AAATACCCTCAACGTG
Found at i:52944162 original size:27 final size:27
Alignment explanation
Indices: 52944132--52944192 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 27
52944122 CTAATTTGTG
*
52944132 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCAACCTGTA
* *
52944159 AAATTATTGAAATACCCTCAACGTGTA
1 AAATTACTGAAATACCCTCAACCTGTA
52944186 AAATTAC
1 AAATTAC
52944193 CAAAGTACCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAACCTGTA
Found at i:52944201 original size:27 final size:26
Alignment explanation
Indices: 52944022--52944203 Score: 93
Period size: 27 Copynumber: 6.7 Consensus size: 26
52944012 CCTTTGTTTA
**
52944022 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACC-AAATACCCTC-AACTTG
***
52944049 TAAAATTACCAAAATACCC-CTGGTTTG
1 TAAAATTACC-AAATACCCTC-AACTTG
* *
52944076 TAAAATTATCAAAATACCCAT-AATTTG
1 TAAAATTA-CCAAATACCC-TCAACTTG
* *
52944103 TAAATTTACCAAAATACCC-CTAATTTG
1 TAAAATTACC-AAATACCCTC-AACTTG
* * * *
52944130 TGAAATTACTGAAATACCCTCGACCTG
1 TAAAATTAC-CAAATACCCTCAACTTG
** *
52944157 TAAAATTATTGAAATACCCTCAACGTG
1 TAAAATTA-CCAAATACCCTCAACTTG
52944184 TAAAATTACCAAAGTACCCT
1 TAAAATTACCAAA-TACCCT
52944204 AATTTATAGA
Statistics
Matches: 127, Mismatches: 18, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
26 4 0.03
27 121 0.95
28 2 0.02
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (26 bp):
TAAAATTACCAAATACCCTCAACTTG
Found at i:52944245 original size:27 final size:27
Alignment explanation
Indices: 52944213--52944391 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
52944203 TAATTTATAG
* * *
52944213 AATTACCGTTTTACCCTTGACTTACAA
1 AATTACTGTTTTACCCTCGATTTACAA
* * *
52944240 AATTACTGTTTTACCCTCGATTGATAG
1 AATTACTGTTTTACCCTCGATTTACAA
* *
52944267 AATTACTATTTTACCCTTGATTTACAA
1 AATTACTGTTTTACCCTCGATTTACAA
* *
52944294 AATTACTGTTTTACCCTCAATTTACAG
1 AATTACTGTTTTACCCTCGATTTACAA
* *
52944321 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTACAA
*
52944348 AATTACTGTTTTACCCTCGATTTATAA
1 AATTACTGTTTTACCCTCGATTTACAA
**
52944375 AATTACCATTTTACCCT
1 AATTACTGTTTTACCCT
52944392 TAAGGTGTTA
Statistics
Matches: 132, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 132 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTACAA
Found at i:52944282 original size:54 final size:54
Alignment explanation
Indices: 52944205--52944392 Score: 268
Period size: 54 Copynumber: 3.5 Consensus size: 54
52944195 AAGTACCCTA
* *
52944205 ATTTATAGAATTACCGTTTTACCCTTGACTTACAAAATTACTGTTTTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCG
* * *
52944259 ATTGATAGAATTACTATTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCA
1 ATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCG
* ** * * *
52944313 ATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCG
1 ATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCG
*
52944367 ATTTATAAAATTACCATTTTACCCTT
1 ATTTATAGAATTACCATTTTACCCTT
52944393 AAGGTGTTAA
Statistics
Matches: 117, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (54 bp):
ATTTATAGAATTACCATTTTACCCTTGATTTACAAAATTACTGTTTTACCCTCG
Found at i:52944319 original size:81 final size:81
Alignment explanation
Indices: 52944213--52944391 Score: 268
Period size: 81 Copynumber: 2.2 Consensus size: 81
52944203 TAATTTATAG
**
52944213 AATTACCGTTTTACCCTTGACTTACAAAATTACTGTTTTACCCTCGATTGATAGAATTACTATTT
1 AATTACCGTTTTACCCTCAACTTACAAAATTACTGTTTTACCCTCGATTGATAGAATTACTATTT
*
52944278 TACCCTTGATTTACAA
66 TACCCTCGATTTACAA
* * * * *
52944294 AATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACTGTTT
1 AATTACCGTTTTACCCTCAACTTACAAAATTACTGTTTTACCCTCGATTGATAGAATTACTATTT
*
52944359 TACCCTCGATTTATAA
66 TACCCTCGATTTACAA
*
52944375 AATTACCATTTTACCCT
1 AATTACCGTTTTACCCT
52944392 TAAGGTGTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 87 1.00
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCAACTTACAAAATTACTGTTTTACCCTCGATTGATAGAATTACTATTT
TACCCTCGATTTACAA
Found at i:52944671 original size:27 final size:26
Alignment explanation
Indices: 52944627--52944678 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
52944617 CTCGCTGCAA
*
52944627 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
52944654 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
52944679 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:52944976 original size:6 final size:6
Alignment explanation
Indices: 52944947--52945012 Score: 71
Period size: 6 Copynumber: 10.8 Consensus size: 6
52944937 CTATCACCTA
* *
52944947 ATTCTA ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
52944996 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
52945013 AGTTTTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
5 1 0.02
6 45 0.90
7 3 0.06
8 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:52945010 original size:37 final size:37
Alignment explanation
Indices: 52944913--52945013 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
52944903 ATTTTGTTAC
* *
52944913 CTGATACTGATTCTAATTCTAATTCTATCACCTAATT
1 CTGATTCTGATTCTAATTCTGATTCTATCACCTAATT
* * * *
52944950 CTAATTCTGATTCTGATTCTGATTCTGTCACCTGATT
1 CTGATTCTGATTCTAATTCTGATTCTATCACCTAATT
* *
52944987 CTGATTCTGATTCTCATTTTGATTCTA
1 CTGATTCTGATTCTAATTCTGATTCTA
52945014 GTTTTGATAA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.23, C:0.21, G:0.10, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTAATTCTGATTCTATCACCTAATT
Found at i:52947694 original size:55 final size:52
Alignment explanation
Indices: 52947607--52947861 Score: 203
Period size: 55 Copynumber: 4.8 Consensus size: 52
52947597 ATTAGGGTTT
* *
52947607 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * ** * *
52947662 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAGTTGCTATAAGGC
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* * * *
52947717 AAAGGTCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAG-TTCATAAGGC
1 -AAGGTACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTC-TAAGGC
* * * **
52947770 AAGGCTACCATGTAAGACCATGTCAAGACATGCCAATGGTAAG-TT-TAA-AA
1 AAGG-TACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
* * * * *
52947820 AAGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGTACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
52947862 GTACCCGTGT
Statistics
Matches: 164, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
49 34 0.21
50 3 0.02
51 3 0.02
52 5 0.03
53 43 0.26
54 8 0.05
55 64 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (52 bp):
AAGGTACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:52947813 original size:108 final size:110
Alignment explanation
Indices: 52947617--52947814 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 110
52947607 AAGGATACCG
* *
52947617 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
* * *
52947682 TGTTAAGACATGGCATTGATAAGTTGCTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGCCAATGATAAGTTGCTATAAGGCAAAGGTCCCA
* **
52947727 TGTAAGACCATGCCAAGGCATGAC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
52947789 ATGTCAAGACATGCCAATGGTAAGTT
65 ATGTCAAGACATGCCAATGATAAGTT
52947815 TAAAAAAGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 45 0.58
109 7 0.09
110 23 0.29
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGCCAATGATAAGTTGCTATAAGGCAAAGGTCCCA
Found at i:52948074 original size:16 final size:16
Alignment explanation
Indices: 52948053--52948083 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52948043 ATAAATTTGA
52948053 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
52948069 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
52948084 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:52951225 original size:53 final size:53
Alignment explanation
Indices: 52951042--52951298 Score: 235
Period size: 55 Copynumber: 4.8 Consensus size: 53
52951032 ATTAGGGTTT
* *
52951042 AAGGATACCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGG-CATTGGTAA-G-TTCATAAGGC
* * * * *
52951097 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-C-ATAAGGC
* *
52951152 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
* *
52951205 AAGGATACCATGTAAGACCATGTCAAGAG-ATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGCCAAG-GCATGGCATTGGTAAGTTCAT-AAGGC
* ** *
52951254 AAGGATACCACT-TAAGACCATGACAAGTTATGGCAATGGTAAGTT
1 AAGGATACCA-TGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT
52951299 ACCCGTGTAT
Statistics
Matches: 173, Mismatches: 20, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
49 40 0.23
50 1 0.01
51 1 0.01
52 8 0.05
53 43 0.25
54 9 0.05
55 67 0.39
56 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCATAAGGC
Found at i:52951248 original size:108 final size:110
Alignment explanation
Indices: 52951049--52951249 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
52951039 TTTAAGGATA
*
52951049 CCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
52951114 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * * *
52951159 CCATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
* *
52951221 ACCATGTCAAGAGATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
52951250 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.57
109 7 0.09
110 25 0.30
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATATAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:52951287 original size:49 final size:49
Alignment explanation
Indices: 52951205--52951298 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
52951195 TTCATAAGGC
*
52951205 AAGGATACCATGTAAGACCATGTCAAGAGATGGCAATGGTAAGTTTCAA
1 AAGGATACCATGTAAGACCATGACAAGAGATGGCAATGGTAAGTTTCAA
**
52951254 AAGGATACCACT-TAAGACCATGACAAGTTATGGCAATGGTAAGTT
1 AAGGATACCA-TGTAAGACCATGACAAGAGATGGCAATGGTAAGTT
52951299 ACCCGTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 40 0.98
50 1 0.02
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (49 bp):
AAGGATACCATGTAAGACCATGACAAGAGATGGCAATGGTAAGTTTCAA
Found at i:52951509 original size:16 final size:16
Alignment explanation
Indices: 52951488--52951518 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52951478 ATAAATTTGA
52951488 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
52951504 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
52951519 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:52958882 original size:55 final size:52
Alignment explanation
Indices: 52958774--52958980 Score: 220
Period size: 55 Copynumber: 3.8 Consensus size: 52
52958764 ATTAGGGTTT
* **
52958774 AAGGATACCATGTAAGACTATGCCAAGACATGAAAATTGGTAAGGTTTC-TAAGGC
1 AAGGATACCATGTAAGACCATG-CAAGACATG-GCATTGGTAA-G-TTCATAAGGC
* * * *
52958829 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATG-CAAGACATGGCATTGGTAAGTT-C-ATAAGGC
* * *
52958884 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATG-CAAGACATGGCATTGGTAAGTTCATAAGGC
*
52958937 AAGGATACCATGTAAGACCATGCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCAAGACATGGCATTGGTAAGTT
52958981 TCAAAAGGAT
Statistics
Matches: 127, Mismatches: 20, Indels: 13
0.79 0.12 0.08
Matches are distributed among these distances:
52 25 0.20
53 25 0.20
54 8 0.06
55 65 0.51
56 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.23
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCAAGACATGGCATTGGTAAGTTCATAAGGC
Found at i:52959122 original size:23 final size:24
Alignment explanation
Indices: 52959096--52959143 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
52959086 AAGGTAAGGT
*
52959096 AAGGTAAGACGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
52959119 AAGGTAAGACAAGTTCATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
52959143 A
1 A
52959144 GAGCAAAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.10, G:0.23, T:0.21
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:52963827 original size:47 final size:48
Alignment explanation
Indices: 52963721--52963845 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 48
52963711 CAGTTAACAT
** * *
52963721 GTGCTAACCGGATACACCACGATTACACATACTGATACATGTAACGTG
1 GTGCTAAGTGGATATACCACGGTTACACATACTGATACATGTAACGTG
* * * * *
52963769 GTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT-TAATGTG
1 GTGCTAAGTGGATATACCACGGTTACACATACTGATACATGTAACGTG
*
52963816 GTGCTAAGTGGATATACCACGGTTAAACAT
1 GTGCTAAGTGGATATACCACGGTTACACAT
52963846 GTAACGTAGT
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
47 33 0.51
48 32 0.49
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (48 bp):
GTGCTAAGTGGATATACCACGGTTACACATACTGATACATGTAACGTG
Found at i:52966196 original size:13 final size:13
Alignment explanation
Indices: 52966178--52966204 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
52966168 AACCAAAGAG
52966178 TTCAATGATGGAA
1 TTCAATGATGGAA
52966191 TTCAATGATGGAA
1 TTCAATGATGGAA
52966204 T
1 T
52966205 GGTTATAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (13 bp):
TTCAATGATGGAA
Found at i:52969928 original size:43 final size:39
Alignment explanation
Indices: 52969831--52969994 Score: 240
Period size: 39 Copynumber: 4.1 Consensus size: 39
52969821 ATTCAAGACA
*
52969831 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
52969870 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCACGATTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGG--C--TTCGTG
52969913 CTGGAAATGCT-TCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATG-TATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
52969952 TTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
52969991 CTGG
1 CTGG
52969995 TAATATAATT
Statistics
Matches: 114, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
38 1 0.01
39 74 0.65
41 2 0.02
43 36 0.32
44 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:52969972 original size:82 final size:82
Alignment explanation
Indices: 52969831--52969984 Score: 265
Period size: 82 Copynumber: 1.9 Consensus size: 82
52969821 ATTCAAGACA
* *
52969831 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCC
52969896 CGCAGGCACGATTCGTG
66 CGCAGGCACGATTCGTG
*
52969913 CTGGAAATGCT-TCCGGGCTAAAGTCCCGCAGGCTTCGTGTTGGAAATGTATCCGAGCTAAAGTC
1 CTGGAAATG-TATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTC
52969977 CCGCAGGC
65 CCGCAGGC
52969985 TTTGTGCTGG
Statistics
Matches: 68, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
82 67 0.99
83 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (82 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGAGCTAAAGTCC
CGCAGGCACGATTCGTG
Found at i:52972388 original size:29 final size:29
Alignment explanation
Indices: 52972321--52972422 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
52972311 AAGTCTACAT
* * *
52972321 ACATACATATCGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
52972349 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
52972378 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
52972407 ACACTCATATGGCCCA
1 ACATTCATATGGCCCA
52972423 AATCACATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
28 20 0.31
29 45 0.69
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:52975563 original size:17 final size:18
Alignment explanation
Indices: 52975541--52975574 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52975531 CACATTGAAG
52975541 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
52975558 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
52975575 ATTCTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:52976746 original size:28 final size:28
Alignment explanation
Indices: 52976691--52976814 Score: 142
Period size: 29 Copynumber: 4.4 Consensus size: 28
52976681 CTACATACAT
* *
52976691 ACATACATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTA-GCCCAAATC
* * **
52976719 TCATTCATATAGCCCATTAGTACAAATC
1 ACATTCATATGGCCCATTAGCCCAAATC
*
52976747 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTA-GCCCAAATC
*
52976776 ACATTCAGATGGCCCATTAAGCCCAAATC
1 ACATTCATATGGCCCATT-AGCCCAAATC
52976805 ACATTCATAT
1 ACATTCATAT
52976815 TCATGCTTTC
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
27 2 0.03
28 35 0.44
29 41 0.52
30 1 0.01
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.25
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGCCCAAATC
Found at i:52976894 original size:17 final size:18
Alignment explanation
Indices: 52976872--52976905 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52976862 TGCCTATTAT
52976872 GGGCCCA-ATAGCCCATC
1 GGGCCCACATAGCCCATC
*
52976889 GGGCCCACTTAGCCCAT
1 GGGCCCACATAGCCCAT
52976906 TCTGGCCTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.21, C:0.41, G:0.24, T:0.15
Consensus pattern (18 bp):
GGGCCCACATAGCCCATC
Found at i:52977829 original size:43 final size:43
Alignment explanation
Indices: 52977768--52977854 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
52977758 TTCTTTTGAG
52977768 CAAGGAGGGATTTGAACCCTAGATCGCCTTGTCATGCATGTGA
1 CAAGGAGGGATTTGAACCCTAGATCGCCTTGTCATGCATGTGA
52977811 CAAGGAGGGATTTGAACCCTAGATCGCCTTGTCATGCATGTGA
1 CAAGGAGGGATTTGAACCCTAGATCGCCTTGTCATGCATGTGA
52977854 C
1 C
52977855 GCCACTTTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (43 bp):
CAAGGAGGGATTTGAACCCTAGATCGCCTTGTCATGCATGTGA
Found at i:52978361 original size:15 final size:15
Alignment explanation
Indices: 52978337--52978376 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
52978327 TGTAAATGCA
52978337 ATTTCCTTATCATGG
1 ATTTCCTTATCATGG
* *
52978352 ATTTCTTTATCTTGG
1 ATTTCCTTATCATGG
52978367 ATTTCCTTAT
1 ATTTCCTTAT
52978377 TCTGGGCTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTCCTTATCATGG
Found at i:52981560 original size:27 final size:27
Alignment explanation
Indices: 52981460--52981543 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
52981450 GGGCATATTC
* *
52981460 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
52981487 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
52981514 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
52981541 GTC
1 GTC
52981544 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:52981753 original size:54 final size:54
Alignment explanation
Indices: 52981582--52981834 Score: 238
Period size: 54 Copynumber: 4.6 Consensus size: 54
52981572 TTTCATCCTA
* * * * * * * *
52981582 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAC
* *** * * * * * *
52981636 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTATAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-TCGAGGGTATTTCGGTAATTTTACAAAC
* * *
52981692 CAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAC
* *
52981746 CAAGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTCGGTAATTTTACAAAC
* **
52981800 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTA
52981835 AAACAATAAT
Statistics
Matches: 160, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
53 1 0.01
54 108 0.68
55 16 0.10
56 35 0.22
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAAC
Found at i:52981806 original size:81 final size:82
Alignment explanation
Indices: 52981582--52981819 Score: 232
Period size: 81 Copynumber: 2.9 Consensus size: 82
52981572 TTTCATCCTA
* * * ** ** * *
52981582 CAAGGGTGTTTTGGTAAATCTACAAACCAAAGGTATTTCAGTAATTTTATAAACCAATGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
* * *
52981647 CCA-TAATTTTTAGAAAGT
66 -CAGTAA-TTTCACAAAGC
* * ***
52981665 CAAGGGTATTTCT-GTAACTTTATAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTAT
1 CAAGGGTATTT-TGGTAAATTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAGGGTAT
*
52981728 TTCGGTAATTTCACAAA-C
64 TTCAGTAATTTCACAAAGC
*
52981746 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
1 CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
52981811 TAGTAATTT
66 CAGTAATTT
52981820 TGTAAATCGA
Statistics
Matches: 125, Mismatches: 25, Indels: 12
0.77 0.15 0.07
Matches are distributed among these distances:
80 1 0.01
81 63 0.50
82 9 0.07
83 51 0.41
84 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (82 bp):
CAAGGGTATTTTGGTAAATTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
CAGTAATTTCACAAAGC
Found at i:52981832 original size:27 final size:27
Alignment explanation
Indices: 52981582--52981834 Score: 204
Period size: 27 Copynumber: 9.3 Consensus size: 27
52981572 TTTCATCCTA
* * * *
52981582 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ** * *
52981609 CAAAGGTATTTCAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *** *
52981636 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-T
* *
52981665 CAAGGGTATTTCT-GTAACTTTATAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
52981692 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * * *
52981719 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
52981746 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
52981772 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTGGTAATTTTACAAAT
* **
52981800 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
52981827 CGAGGGTA
1 CAAGGGTA
52981835 AAACAATAAT
Statistics
Matches: 183, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
26 2 0.01
27 152 0.83
28 16 0.09
29 13 0.07
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:52982050 original size:27 final size:27
Alignment explanation
Indices: 52981813--52982036 Score: 261
Period size: 27 Copynumber: 8.3 Consensus size: 27
52981803 GGGTATTTTA
* **
52981813 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * * *
52981840 ATAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAATG
* **
52981867 ATAATTCCATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* *
52981894 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAATG
* * **
52981921 GTAATTCTGTAAATCAATGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAATG
*
52981948 GTAATTATGTAAATC-AGGGTTAAAATG
1 GTAATTCTGTAAATCGAGGG-TAAAATG
* *
52981975 GTAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
52982002 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAATG
52982029 GTAATTCT
1 GTAATTCT
52982037 ACAAGTCGAA
Statistics
Matches: 171, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.02
27 165 0.96
28 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAATG
Found at i:52982059 original size:27 final size:27
Alignment explanation
Indices: 52982029--52982118 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
52982019 GGGTAAAATG
* *
52982029 GTAATTCTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
52982056 GTAATTTTACAAATTGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
52982083 GTATTTTTACAAA-CTAAGCGTATTTCG
1 GTAATTTTACAAATCGAAG-GTATTTCA
52982110 GTAATTTTA
1 GTAATTTTA
52982119 GTAAACTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:52982060 original size:54 final size:54
Alignment explanation
Indices: 52981813--52982061 Score: 209
Period size: 54 Copynumber: 4.6 Consensus size: 54
52981803 GGGTATTTTA
* * * * * * *
52981813 GTAATTTTGTAAATCGAGGGTAAAACAATAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAAGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAATG
* ** * * * *
52981867 ATAATTCCATAAATCGAGGGTAAAAT-GGTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAAGGT-AAATCAGTAATTCTGTAAATCGAGGGTAAAATG
* *
52981921 GTAATTCTGTAAATC-AATGGTAAAACAGTAATTATGTAAATC-AGGGTTAAAATG
1 GTAATTCTGTAAATCGAA-GGTAAATCAGTAATTCTGTAAATCGAGGG-TAAAATG
* ** *
52981975 GTAATTATGTAAATCGGGGGTAAAAT-GGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAAGGT-AAATCAGTAATTCTGTAAATCGAGGGTAAAATG
** * **
52982029 GTAATTCTACAAGTCGAAGGTATTTCAGTAATT
1 GTAATTCTGTAAATCGAAGGTAAATCAGTAATT
52982062 TTACAAATTG
Statistics
Matches: 151, Mismatches: 36, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
53 10 0.07
54 131 0.87
55 10 0.07
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATCGAAGGTAAATCAGTAATTCTGTAAATCGAGGGTAAAATG
Found at i:52982125 original size:28 final size:27
Alignment explanation
Indices: 52982048--52982127 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
52982038 CAAGTCGAAG
* * *
52982048 GTATTTCAGTAATTTTACAAATTGAGG
1 GTATTTCAGTAATTTTACAAACTAAGC
*
52982075 GTATTTCAGTATTTTTACAAACTAAGC
1 GTATTTCAGTAATTTTACAAACTAAGC
* *
52982102 GTATTTCGGTAATTTTAGTAAACTAA
1 GTATTTCAGTAATTTTA-CAAACTAA
52982128 AGTATTCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 38 0.84
28 7 0.16
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAACTAAGC
Found at i:52983549 original size:28 final size:28
Alignment explanation
Indices: 52983477--52983541 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
52983467 TTTGAATCAT
* *
52983477 TCAATATTTTGCACACTAAGTTTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
*
52983505 TCAATATCTCGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGTCATTC
52983533 TCAATATTT
1 TCAATATTT
52983542 GGTACACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGTCATTC
Found at i:52987090 original size:47 final size:48
Alignment explanation
Indices: 52986969--52987099 Score: 174
Period size: 48 Copynumber: 2.8 Consensus size: 48
52986959 GAATGAAAAA
* * *
52986969 AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATAGATACATGT
* ** * *
52987017 AACGTGGTGCTAAGTGGATATGCCACGGTTACATGTGTAGATTCAT-T
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACATATAGATACATGT
*
52987064 AACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 AACGTGGTGCTAAGTGGATATACCACGGTTACACAT
52987100 GTAACATGGT
Statistics
Matches: 71, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 33 0.46
48 38 0.54
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (48 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTACACATATAGATACATGT
Found at i:52987119 original size:38 final size:38
Alignment explanation
Indices: 52987063--52987139 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
52987053 GTAGATTCAT
*
52987063 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
52987101 TAACATGGTGCTAAGTGGATATGCCATGGTTATACATG
1 TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
52987139 T
1 T
52987140 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (38 bp):
TAACATGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:52994744 original size:26 final size:26
Alignment explanation
Indices: 52994715--52994825 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
52994705 AGCATTGCTG
* *
52994715 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
52994741 CCAGAACAGATAATTGTGGC-GAAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
52994768 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
52994795 CCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGAT-AATGTGGCAGAGCCA
52994822 CCAG
1 CCAG
52994826 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 9
0.85 0.04 0.10
Matches are distributed among these distances:
26 14 0.18
27 59 0.78
28 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:52994797 original size:54 final size:53
Alignment explanation
Indices: 52994715--52994825 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 53
52994705 AGCATTGCTG
* *
52994715 CCAGAACAGATAATGTGACAGAGTCACCAGAACAGATAATTGTGGCGA-AGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGC-ATAGCCA
* *
52994768 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAAATGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGAACAGATAAATGTGGCATAGCCA
52994822 CCAG
1 CCAG
52994826 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
53 13 0.25
54 39 0.75
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGAACAGATAAATGTGGCATAGCCA
Found at i:53001732 original size:79 final size:78
Alignment explanation
Indices: 53001630--53001852 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
53001620 GCTCCTCGTT
* *
53001630 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
53001695 ATTTAGTAACTAGCA
64 AATTAGTAACTAGCA
*
53001710 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
53001773 AATTAGTATCTCGCA
64 AATTAGTAACTAGCA
* * * * *
53001788 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
53001851 GA
63 GA
53001853 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
78 46 0.37
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTAGCA
Found at i:53001750 original size:39 final size:40
Alignment explanation
Indices: 53001630--53001852 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
53001620 GCTCCTCGTT
* *
53001630 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
53001670 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
53001710 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
53001749 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
53001788 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
53001829 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
53001853 CATCATTCAA
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 88 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:53008504 original size:27 final size:27
Alignment explanation
Indices: 53008450--53008531 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
53008440 TATTCTGTTA
* *
53008450 GGTGGGTTTGCCACATTATCTGATTCT
1 GGTGGCTTTGCCACAATATCTGATTCT
*
53008477 GGTGGCTTTGCCACAATATTTG-TATCT
1 GGTGGCTTTGCCACAATATCTGAT-TCT
* * * *
53008504 GGTGACTCTGTCACAATATCAG-TTCT
1 GGTGGCTTTGCCACAATATCTGATTCT
53008530 GG
1 GG
53008532 CAGCCATACT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.13
27 40 0.87
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (27 bp):
GGTGGCTTTGCCACAATATCTGATTCT
Found at i:53011221 original size:27 final size:27
Alignment explanation
Indices: 53010739--53011213 Score: 578
Period size: 27 Copynumber: 17.6 Consensus size: 27
53010729 AAAGTACTCC
53010739 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
53010766 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
53010793 CGATTGACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * * *
53010820 CGATTTTTAAAATTATCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
53010847 CAATTTACAGAATTACCATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCT
53010874 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
53010901 CGATTTACAAAATTTTCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
53010928 C-AGTTTATAGAATTACTGCTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
53010955 CGATTTATATAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
53010982 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
53011009 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
53011036 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
53011063 CGATTTACAGAATTACTGCTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
53011090 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
53011117 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
53011144 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
53011171 CAATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
53011198 CGATTTATAGAATTAC
1 CGATTTACAGAATTAC
53011214 TATTTTACTC
Statistics
Matches: 381, Mismatches: 61, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
26 3 0.01
27 375 0.98
28 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:53011286 original size:27 final size:27
Alignment explanation
Indices: 53011235--53011483 Score: 293
Period size: 27 Copynumber: 9.2 Consensus size: 27
53011225 TGATTGTGCG
* *
53011235 ATTACTGAAATACCCCTGTAAGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
53011262 ATTTCCGAAATACCCCTATAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * * * *
53011289 ATTACTGAAATACCCTTATAGGATGGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
*
53011316 ATTACCAAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * *
53011343 ATTATCGAAATACCCTTATAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* *
53011370 AATACCAAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
*
53011397 ATTACC-AAGATACCCTTGTAGGGTAGA
1 ATTACCGAA-ATACCCCTGTAGGGTAGA
*
53011424 AATACCGAAATACCCCTGTAGGGTAGA
1 ATTACCGAAATACCCCTGTAGGGTAGA
* * * *
53011451 ATTACCGAGATACCCTTGTGGGGTAAA
1 ATTACCGAAATACCCCTGTAGGGTAGA
53011478 ATTACC
1 ATTACC
53011484 ATTTTGCCCC
Statistics
Matches: 187, Mismatches: 33, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 2 0.01
27 183 0.98
28 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
ATTACCGAAATACCCCTGTAGGGTAGA
Found at i:53011475 original size:81 final size:81
Alignment explanation
Indices: 53011242--53011484 Score: 324
Period size: 81 Copynumber: 3.0 Consensus size: 81
53011232 GCGATTACTG
* * * *
53011242 AAATACCCCTGTAAGGTAGAATTTCCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTG
* *
53011307 TAGGATGGAATTACCA
66 TAGGGTAGAATTACCA
* * * * *
53011323 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTATAGGGTAGAAATACCAAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTG
53011388 TAGGGTAGAATTACCA
66 TAGGGTAGAATTACCA
* * * * *
53011404 AGATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTG
* *
53011469 TGGGGTAAAATTACCA
66 TAGGGTAGAATTACCA
53011485 TTTTGCCCCT
Statistics
Matches: 139, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 139 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTG
TAGGGTAGAATTACCA
Found at i:53011720 original size:27 final size:26
Alignment explanation
Indices: 53011682--53011764 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
53011672 CGGAGGAAGC
*
53011682 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
53011709 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
53011735 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
53011762 GTT
1 GTT
53011765 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:53011884 original size:22 final size:22
Alignment explanation
Indices: 53011852--53011910 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
53011842 CCCGTTATTA
*
53011852 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
53011874 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
53011896 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
53011911 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:53017379 original size:27 final size:27
Alignment explanation
Indices: 53017349--53018057 Score: 795
Period size: 27 Copynumber: 26.2 Consensus size: 27
53017339 AAAGTACTCC
* *
53017349 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
53017376 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
53017403 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
53017430 C-AGTTTATGGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
53017457 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
53017484 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
53017511 CGATTTACAGAATTGCTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
53017538 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
53017565 TGATTTACAGAATTACTAG-TTTACCTT
1 CGATTTACAGAATTAC-CGTTTTACCCT
* *
53017592 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
53017619 CGATTTATAGAAAATTACCGTTTTACCCT
1 CGATTTACAG--AATTACCGTTTTACCCT
* *
53017648 CGGTTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
53017675 CGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
53017702 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
53017729 CAATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
53017756 CGATTTATATAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
53017783 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
53017810 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
53017837 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
53017864 CAATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
****
53017891 C-AGTTTACAGAATTACTACCTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
53017918 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
53017945 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
53017972 TGATTTACAAAATTACTAG-TTTACCCT
1 CGATTTACAGAATTAC-CGTTTTACCCT
* *
53017999 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
53018026 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
53018053 TGATT
1 CGATT
53018058 GTGAAATTAC
Statistics
Matches: 580, Mismatches: 86, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.01
27 542 0.93
28 7 0.01
29 24 0.04
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:53018092 original size:27 final size:27
Alignment explanation
Indices: 53018062--53018257 Score: 239
Period size: 27 Copynumber: 7.3 Consensus size: 27
53018052 TTGATTGTGA
*
53018062 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53018089 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
53018116 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
53018143 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
53018170 AATTGTCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
53018197 AAATAACGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
53018224 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
53018251 AATTACC
1 AATTACC
53018258 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:53018494 original size:27 final size:26
Alignment explanation
Indices: 53018456--53018538 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
53018446 CGGAGGAAGC
*
53018456 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
53018483 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
53018509 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
53018536 GTT
1 GTT
53018539 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:53018658 original size:22 final size:22
Alignment explanation
Indices: 53018626--53018684 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
53018616 CCCGTTATTA
*
53018626 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
53018648 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
53018670 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
53018685 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:53018871 original size:27 final size:27
Alignment explanation
Indices: 53018849--53018922 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
53018839 TAGGTGGGTT
*
53018849 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
53018876 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
53018903 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
53018923 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:53019049 original size:6 final size:6
Alignment explanation
Indices: 53019040--53019226 Score: 181
Period size: 6 Copynumber: 30.8 Consensus size: 6
53019030 TTGCATTCAC
* *
53019040 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
53019089 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
53019137 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
53019186 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
53019227 CATTTTGGTT
Statistics
Matches: 151, Mismatches: 14, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
5 11 0.07
6 127 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:53019180 original size:85 final size:85
Alignment explanation
Indices: 53019040--53019226 Score: 356
Period size: 85 Copynumber: 2.2 Consensus size: 85
53019030 TTGCATTCAC
*
53019040 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
53019105 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
53019125 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
53019190 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
53019210 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
53019227 CATTTTGGTT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:53019247 original size:30 final size:30
Alignment explanation
Indices: 53019040--53019226 Score: 262
Period size: 30 Copynumber: 6.4 Consensus size: 30
53019030 TTGCATTCAC
*
53019040 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
53019071 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
53019101 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
53019125 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
53019156 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
53019186 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
53019216 ATTCTGATTCT
1 ATTCTGATTCT
53019227 CATTTTGGTT
Statistics
Matches: 142, Mismatches: 5, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
24 21 0.15
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 70 0.49
31 45 0.32
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:53029827 original size:40 final size:40
Alignment explanation
Indices: 53029772--53029856 Score: 170
Period size: 40 Copynumber: 2.1 Consensus size: 40
53029762 TAGTTAAGTT
53029772 TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
1 TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
53029812 TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
1 TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
53029852 TTCAT
1 TTCAT
53029857 TTAGTTTACA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.41
Consensus pattern (40 bp):
TTCATCATTAAATTAAGTCATGCATTAAGTAACTCATTTG
Found at i:53031929 original size:27 final size:27
Alignment explanation
Indices: 53031898--53032075 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53031888 TAAATTGTAC
53031898 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
53031925 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53031951 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
53031979 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
53032007 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
53032034 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
53032061 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
53032076 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:53032012 original size:82 final size:81
Alignment explanation
Indices: 53031899--53032054 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53031889 AAATTGTACA
* *
53031899 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
53031963 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
53031980 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
53032045 TGCGAGTTGA
65 TGCGAATTGA
53032055 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:53032066 original size:82 final size:81
Alignment explanation
Indices: 53031895--53032075 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
53031885 GATTAAATTG
* *
53031895 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
53031960 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
53031976 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
53032040 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
53032058 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
53032076 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:53036842 original size:31 final size:31
Alignment explanation
Indices: 53036804--53037037 Score: 227
Period size: 31 Copynumber: 7.8 Consensus size: 31
53036794 ACAAATGACA
53036804 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
53036835 AGTGAAAAGT--CAGCTAC-G----C-GATT
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * *
53036858 AGTGAAAAGTGGTAGCTTCAGCTACGC-GATT
1 AGTGAAAAGTGGTAGCTCCGGCTAC-CTGATC
* * *
53036889 AGTGAAAAGTGGTAGCTTCAGCTACGTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* * * * *
53036920 AGTGAAAAGTGGTAGGTTCTGCTACGTGATT
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
53036951 AGTGAAAAGTGGTAGCTCCGGCTACTTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
53036982 AGTGAAAAGTGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
53037013 AGTGAATAGTGGTAGCAT-CGGCTAC
1 AGTGAAAAGTGGTAGC-TCCGGCTAC
53037038 AAGTGACAAG
Statistics
Matches: 174, Mismatches: 19, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
23 13 0.07
24 1 0.01
25 5 0.03
26 1 0.01
28 1 0.01
29 5 0.03
31 147 0.84
32 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:53037006 original size:93 final size:93
Alignment explanation
Indices: 53036847--53037027 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
53036837 TGAAAAGTCA
* *
53036847 GCTACGCGATTAGTGAAAAGTGGTAGCTTCAGCTACGCGATTAGTGAAAAGTGGTAGCTTCAGCT
1 GCTACGCGATTAGTGAAAAGTGGTAGCTCCAGCTACGCGATCAGTGAAAAGTGGTAGCTTCAGCT
*
53036912 ACGTGATCAGTGAAAAGTGGTAGGTTCT
66 ACCTGATCAGTGAAAAGTGGTAGGTTCT
* * ** *
53036940 GCTACGTGATTAGTGAAAAGTGGTAGCTCCGGCTACTTGATCAGTGAAAAGTGGTAGC-TCTGGC
1 GCTACGCGATTAGTGAAAAGTGGTAGCTCCAGCTACGCGATCAGTGAAAAGTGGTAGCTTC-AGC
*
53037004 TACCTGATCAGTGAATAGTGGTAG
65 TACCTGATCAGTGAAAAGTGGTAG
53037028 CATCGGCTAC
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 2 0.03
93 76 0.97
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (93 bp):
GCTACGCGATTAGTGAAAAGTGGTAGCTCCAGCTACGCGATCAGTGAAAAGTGGTAGCTTCAGCT
ACCTGATCAGTGAAAAGTGGTAGGTTCT
Found at i:53037211 original size:42 final size:44
Alignment explanation
Indices: 53037145--53037269 Score: 175
Period size: 49 Copynumber: 2.8 Consensus size: 44
53037135 CATCAGTGAA
*
53037145 ATATGTGATT-CGTGTAAGACCATAGCTGGGCTA-CGGTAT-TG
1 ATATGTGATTACGTGTAAGACCATAGCTGGGCTATCGATATGTG
53037186 ATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGATATGTG
1 ATATGTGATTACGTGTAAGACCATAGCTGGGC--T---ATCGATATGTG
53037235 ATATGTGATTACGTGTAAGACCATAGCTGGGCTAT
1 ATATGTGATTACGTGTAAGACCATAGCTGGGCTAT
53037270 GGCATCATTA
Statistics
Matches: 75, Mismatches: 1, Indels: 13
0.84 0.01 0.15
Matches are distributed among these distances:
41 10 0.13
42 21 0.28
44 3 0.04
47 2 0.03
48 5 0.07
49 34 0.45
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (44 bp):
ATATGTGATTACGTGTAAGACCATAGCTGGGCTATCGATATGTG
Found at i:53037256 original size:49 final size:49
Alignment explanation
Indices: 53037184--53037284 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
53037174 GCTACGGTAT
53037184 TGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGA-TATG
1 TGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATC-ATTATG
53037233 TGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCATTATG
1 TGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCATTATG
53037282 TGA
1 TGA
53037285 AGATGTGTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 1 0.02
49 50 0.98
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (49 bp):
TGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCATTATG
Found at i:53037282 original size:91 final size:89
Alignment explanation
Indices: 53037113--53037319 Score: 247
Period size: 91 Copynumber: 2.3 Consensus size: 89
53037103 TGCTACTGTA
* * *
53037113 TAAGACCATATCTGGGATATGGCATC-AGTGAAATATGTGATTCGTGTAAGACCATAGCTGGGCT
1 TAAGACCATAGCTGGGCTATGGCATCGAATGAAATATGTGATTCGTGTAAGACCATAGCTGGGCT
* * **
53037177 ACGGTATTGATATGTGATTACGTG
66 ACGGCATTCATATGTGAAGACGTG
**
53037201 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTGTAAGACCATAGCTGGG
1 TAAGACCATAGCTGGGCTATGGCATCGA-ATGAAATATGTGATT-CGTGTAAGACCATAGCTGGG
* *
53037266 CTATGGCA-TCATTATGTGAAGATGTG
64 CTACGGCATTCA-TATGTGAAGACGTG
* **
53037292 TAAGACCATAGTTGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
53037320 GAAAACGAAG
Statistics
Matches: 101, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
88 24 0.24
89 1 0.01
90 14 0.14
91 62 0.61
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (89 bp):
TAAGACCATAGCTGGGCTATGGCATCGAATGAAATATGTGATTCGTGTAAGACCATAGCTGGGCT
ACGGCATTCATATGTGAAGACGTG
Found at i:53043391 original size:15 final size:15
Alignment explanation
Indices: 53043371--53043401 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
53043361 TGATCAGGTG
53043371 AAAGCCCTTTTGACC
1 AAAGCCCTTTTGACC
53043386 AAAGCCCTTTTGACC
1 AAAGCCCTTTTGACC
53043401 A
1 A
53043402 GAATCAGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.13, T:0.26
Consensus pattern (15 bp):
AAAGCCCTTTTGACC
Found at i:53045343 original size:27 final size:27
Alignment explanation
Indices: 53045313--53045420 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 27
53045303 AATCTCATAT
* *
53045313 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
*
53045340 CTGTAGGGTAGAATTACTGAAATGCCC
1 CTGTAGGGTAGAATTACTGAAATACCC
* * * *
53045367 TTGTAGGATAGATTTACT-AAATTGCCC
1 CTGTAGGGTAGAATTACTGAAA-TACCC
* *
53045394 CTGTAGGGTGGAATTACTAAAATACCC
1 CTGTAGGGTAGAATTACTGAAATACCC
53045421 TTGGTTTACA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 3 0.04
27 62 0.91
28 3 0.04
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTGAAATACCC
Found at i:53045435 original size:27 final size:27
Alignment explanation
Indices: 53045405--53045746 Score: 293
Period size: 27 Copynumber: 12.7 Consensus size: 27
53045395 TGTAGGGTGG
* **
53045405 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * **
53045432 AATTACT-GAATACCCTTGGTTTACAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * * *
53045458 AATTACCAAAGTACCCTT-ATTAGCAA
1 AATTACTAAAATACCCTTGATTTGTAA
* * *
53045484 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
53045511 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACTAAAATACCCTTGA-TTTGTAA
* *
53045538 AATTA-TCAAAATACCCCTGATTTGTGA
1 AATTACT-AAAATACCCTTGATTTGTAA
* * *
53045565 AATTA-TCGAAATACCCTCGACTTGTAA
1 AATTACT-AAAATACCCTTGATTTGTAA
* *
53045592 AATTACTAAAATACCTTTGACTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
* *
53045619 AATTACTGAAATACCCTCGATTTGTAA
1 AATTACTAAAATACCCTTGATTTGTAA
** * *
53045646 AATTACCCATATACCCTTGATTTGGAA
1 AATTACTAAAATACCCTTGATTTGTAA
53045673 AATTACTAAAATACCCTTGACTTT-TAAA
1 AATTACTAAAATACCCTTGA-TTTGT-AA
*
53045701 AATTAC-AGAAATACCCTTGGTTTGTAA
1 AATTACTA-AAATACCCTTGATTTGTAA
* *
53045728 AATTACCAAAACACCCTTG
1 AATTACTAAAATACCCTTG
53045747 TAGGATGAAA
Statistics
Matches: 266, Mismatches: 38, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
26 45 0.17
27 195 0.73
28 26 0.10
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AATTACTAAAATACCCTTGATTTGTAA
Found at i:53045783 original size:82 final size:81
Alignment explanation
Indices: 53045536--53045784 Score: 184
Period size: 81 Copynumber: 3.0 Consensus size: 81
53045526 CCTAGTTTGT
* * * * * * * *
53045536 AAAATTATCA-AAATACCC-CTGATTTGTGAAATTATCGAAATACCCTCGACTTGTAAAATTACT
1 AAAATTA-CAGAAATACCCTC-GATTTGTAAAATTACCAAAACACCCTTGA-TAGGAAAATGACT
** * *
53045599 AAAATACCTTTGACTTGT-
63 AAAATACCCCTGAATGGTA
* * * * * *
53045617 AAAATTACTGAAATACCCTCGATTTGTAAAATTACCCATATACCCTTGATTTGGAAAATTACTAA
1 AAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTTGA-TAGGAAAATGACTAA
* * **
53045682 AATACCCTTGACTTTTA
65 AATACCCCTGAATGGTA
* *
53045699 AAAATTACAGAAATACCCTTGGTTTGTAAAATTACCAAAACACCCTTG-TAGGATGAAATGACTA
1 AAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTTGATAGGA--AAATGACTA
53045763 AAATACCCCT-AATAGGTA
64 AAATACCCCTGAAT-GGTA
53045781 AAAA
1 AAAA
53045785 GACCATTCTG
Statistics
Matches: 140, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
80 5 0.04
81 69 0.49
82 66 0.47
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (81 bp):
AAAATTACAGAAATACCCTCGATTTGTAAAATTACCAAAACACCCTTGATAGGAAAATGACTAAA
ATACCCCTGAATGGTA
Found at i:53060132 original size:21 final size:20
Alignment explanation
Indices: 53060098--53060141 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
53060088 TCTTTTTCAG
*
53060098 TCTCAATCTCTTTTTGTTGTT
1 TCTCAATCTCTTTTTCTT-TT
* *
53060119 TCTCACTCTTTTTTTCTTTT
1 TCTCAATCTCTTTTTCTTTT
53060139 TCT
1 TCT
53060142 ATTTTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.07, C:0.23, G:0.05, T:0.66
Consensus pattern (20 bp):
TCTCAATCTCTTTTTCTTTT
Found at i:53064870 original size:15 final size:15
Alignment explanation
Indices: 53064850--53064897 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
53064840 TCAAAGATGG
53064850 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
53064865 GTTTATGTAGATG-G
1 GTTTATGGATATGAA
*
53064879 GTTTATGGATATAAA
1 GTTTATGGATATGAA
53064894 GTTT
1 GTTT
53064898 TTATAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Done.