Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 176 of 345
Found at i:49616696 original size:29 final size:29
Alignment explanation
Indices: 49616662--49616764 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 29
49616652 TACTCGATTT
* * *
49616662 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
49616691 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
49616720 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
49616749 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
49616765 ATCTCGTCAC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:49622264 original size:46 final size:45
Alignment explanation
Indices: 49622214--49622339 Score: 198
Period size: 46 Copynumber: 2.8 Consensus size: 45
49622204 TGGTTGAGCA
*
49622214 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-C
*
49622260 TCCGAACTCGTTGAGTTGAGTCCGAGATCACTTATGGATGCGAAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
* *
49622305 ACCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
49622340 GCGGCGGGTT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
45 4 0.05
46 70 0.95
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC
Found at i:49624724 original size:44 final size:43
Alignment explanation
Indices: 49624657--49624806 Score: 157
Period size: 44 Copynumber: 3.5 Consensus size: 43
49624647 TATGTCTTAT
* *
49624657 CGTGTAAGACCACATCTGTGATGTTGGCATCAACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGATGTTGGCATCAACTT-TGATTTA
49624701 CGTGTAAGACCACGTCTGGGATGTTGGCATCATAC-TTGATTT-
1 CGTGTAAGACCACGTCTGGGATGTTGGCATCA-ACTTTGATTTA
* *
49624743 CGTGTAAAACC-CTGTCTGGGATAG-TGGCATCAATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGAT-GTTGGCATCAA-CTTTGATTTA
* * *
49624786 CATGTATGACCATGTCTGGGA
1 CGTGTAAGACCACGTCTGGGA
49624807 CATTGGCACT
Statistics
Matches: 91, Mismatches: 8, Indels: 15
0.80 0.07 0.13
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 27 0.30
44 31 0.34
45 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGATGTTGGCATCAACTTTGATTTA
Found at i:49624814 original size:43 final size:43
Alignment explanation
Indices: 49624657--49624814 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
49624647 TATGTCTTAT
** * * *
49624657 CGTGTAAGACCACATCTGTGATGTTGGCATCAACT-TATGATTTA
1 CGTGTAAGACCATGTCTGGGATATTGGCATCAA-TATTTGA-TTA
* * * *
49624701 CGTGTAAGACCACGTCTGGGATGTTGGCATC-ATACTTGATTT
1 CGTGTAAGACCATGTCTGGGATATTGGCATCAATATTTGATTA
* * *
49624743 CGTGTAAAACCCTGTCTGGGATAGTGGCATCAATATTTGATTA
1 CGTGTAAGACCATGTCTGGGATATTGGCATCAATATTTGATTA
* * *
49624786 CATGTATGACCATGTCTGGGACATTGGCA
1 CGTGTAAGACCATGTCTGGGATATTGGCA
49624815 CTATACGAGC
Statistics
Matches: 94, Mismatches: 18, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
42 29 0.31
43 36 0.38
44 29 0.31
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGATATTGGCATCAATATTTGATTA
Found at i:49627875 original size:45 final size:45
Alignment explanation
Indices: 49627825--49627912 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
49627815 AAACATGTGT
* * *
49627825 CACATACATCATGAATTCAGACCATAACTCAATGAGTTCAGATGC
1 CACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGATGC
*
49627870 CACATATATCATGAACTCAAACCACAACTCAATGAGTTCAGAT
1 CACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGAT
49627913 CACATAGTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.40, C:0.25, G:0.11, T:0.24
Consensus pattern (45 bp):
CACATACATCATGAACTCAAACCACAACTCAATGAGTTCAGATGC
Found at i:49629599 original size:39 final size:39
Alignment explanation
Indices: 49629554--49629661 Score: 189
Period size: 39 Copynumber: 2.8 Consensus size: 39
49629544 AAGCAAGACA
* *
49629554 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATG
49629593 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATG
*
49629632 CTGGAAATGTATCTGGGCTAAAGTCCCGCA
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCA
49629662 AGCCAAGTAC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 66 1.00
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATG
Found at i:49636235 original size:39 final size:39
Alignment explanation
Indices: 49636190--49636349 Score: 284
Period size: 39 Copynumber: 4.1 Consensus size: 39
49636180 AAGCAAGACA
*
49636190 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
49636229 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
49636268 CTGGAAATGTATCTGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
49636307 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
49636346 CTGG
1 CTGG
49636350 TAACATAATT
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:49658694 original size:34 final size:34
Alignment explanation
Indices: 49658640--49658708 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
49658630 CTGTTACCGA
* *
49658640 TACTAAAATAGGCTAAGGCCCACACTGATATTGG
1 TACTAAAATAGGCTAAGGCCCACACTAATACTGG
* * *
49658674 TACTGAAATGGGCTATGGCCCACACTAATACTGG
1 TACTAAAATAGGCTAAGGCCCACACTAATACTGG
49658708 T
1 T
49658709 TTGTCACTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (34 bp):
TACTAAAATAGGCTAAGGCCCACACTAATACTGG
Found at i:49660031 original size:43 final size:42
Alignment explanation
Indices: 49659934--49660053 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 42
49659924 GGGGTTACTA
* * * *
49659934 AGATTACATGTAAAACCATATCTGGGATATGGCATCGATATG
1 AGATTACATGTAAGACCATAGCTAGGATATGGCATCGATACG
* * *
49659976 AGACTT-CGTGTAAGACCATAGCTAGGCTATTGGCATGGATACG
1 AGA-TTACATGTAAGACCATAGCTAGGATA-TGGCATCGATACG
* *
49660019 AGATTACATGTAAGACCATATCTGGGATATGGCAT
1 AGATTACATGTAAGACCATAGCTAGGATATGGCAT
49660054 TGGTACAGTA
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 29 0.45
43 35 0.55
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
AGATTACATGTAAGACCATAGCTAGGATATGGCATCGATACG
Found at i:49668185 original size:27 final size:26
Alignment explanation
Indices: 49668132--49668218 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
49668122 AGCATGGCTG
* *
49668132 CCAGAACAGATATT-TGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
49668157 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
49668184 CCAGAAACAGATATTTGTGGCAGACCCA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
49668212 CCAGAAC
1 CCAGAAC
49668219 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
25 5 0.09
26 9 0.16
27 23 0.42
28 18 0.33
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:49674842 original size:10 final size:10
Alignment explanation
Indices: 49674827--49674856 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
49674817 TATAGCTGAT
49674827 TATTCAGAAA
1 TATTCAGAAA
49674837 TATTCAGAAA
1 TATTCAGAAA
49674847 TATTCA-AAA
1 TATTCAGAAA
49674856 T
1 T
49674857 GATACTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (10 bp):
TATTCAGAAA
Found at i:49675969 original size:27 final size:28
Alignment explanation
Indices: 49675932--49676044 Score: 171
Period size: 27 Copynumber: 4.2 Consensus size: 28
49675922 AGCATGGCTG
*
49675932 CCAGA-ACAGATA-TTGTGACAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
49675958 CCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
* *
49675985 CCAGAAACAAATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
49676013 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATTTGTGGCAGAGCCA
49676040 CCAGA
1 CCAGA
49676045 ATGCTTCCTC
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
26 5 0.06
27 56 0.70
28 19 0.24
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATTTGTGGCAGAGCCA
Found at i:49676014 original size:55 final size:54
Alignment explanation
Indices: 49675932--49676045 Score: 178
Period size: 55 Copynumber: 2.1 Consensus size: 54
49675922 AGCATGGCTG
*
49675932 CCAG-AACAGATATTGTGACAGAGCCACCAGATACAGATA-TTGTGGCAGAGCCA
1 CCAGAAACAAATATTGTGACAGAGCCACCAGAT-CAGATATTTGTGGCAGAGCCA
*
49675985 CCAGAAACAAATATTTGTGGCAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAAACAAATA-TTGTGACAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
49676040 CCAGAA
1 CCAGAA
49676046 TGCTTCCTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
53 4 0.07
54 13 0.23
55 39 0.70
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAAACAAATATTGTGACAGAGCCACCAGATCAGATATTTGTGGCAGAGCCA
Found at i:49686598 original size:72 final size:71
Alignment explanation
Indices: 49686444--49686617 Score: 217
Period size: 72 Copynumber: 2.4 Consensus size: 71
49686434 TGTGATCAGG
* * * * * *
49686444 CCCGTGAGTAACTCACTGAGCGAGCA-TATCATGTTAATGCTTTGGGTTCCGGGTACTGACTTTG
1 CCCGTGAGTAGCTCAATGA-CGGGCATTA-CATGATAATGCTTTGGGGTCCGGGTACTAACTTTG
49686508 TGTATAAA
64 TGTATAAA
*
49686516 CCCGTGAGTAGCTCAATGAACGGGCATTACATGATAATGTTTTGGGGTCCGGGTACTAACTTTGT
1 CCCGTGAGTAGCTCAATG-ACGGGCATTACATGATAATGCTTTGGGGTCCGGGTACTAACTTTGT
*
49686581 GTATAGA
65 GTATAAA
*
49686588 CCCGTGAGTAGTTCAAATG-CGGGCATTACA
1 CCCGTGAGTAGCTC-AATGACGGGCATTACA
49686618 AAATATGTGG
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
71 11 0.12
72 72 0.80
73 7 0.08
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (71 bp):
CCCGTGAGTAGCTCAATGACGGGCATTACATGATAATGCTTTGGGGTCCGGGTACTAACTTTGTG
TATAAA
Found at i:49688781 original size:43 final size:43
Alignment explanation
Indices: 49688722--49688803 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
49688712 GATATATGTG
* *
49688722 GCATCCGAGCTCGTTGAGAGCTTCGAGTTCATTATGGATACGA
1 GCATCCGAGCTCGTTGAGAGCTCCGAGTTCATAATGGATACGA
* * *
49688765 GCATCCGAGCTTGTTGAGAGGTCCGGGTTCATAATGGAT
1 GCATCCGAGCTCGTTGAGAGCTCCGAGTTCATAATGGAT
49688804 GCAATTCATG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCGTTGAGAGCTCCGAGTTCATAATGGATACGA
Found at i:49702504 original size:27 final size:27
Alignment explanation
Indices: 49702473--49702777 Score: 153
Period size: 27 Copynumber: 11.6 Consensus size: 27
49702463 TTAGTTTACC
* *
49702473 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
49702500 AAATTACCAAAGTACCC-CGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
49702526 ATATTACCCAAATATCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
49702553 AAATTACCGAAATA----AGA----TA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** * *
49702572 GAATTACCATTTTACCCCCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** **
49702599 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *** * *
49702626 GAATTACCATTTTACTCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
** * * **
49702653 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
***
49702680 AAATTACCAAAATACCCTCGATCAATA
1 AAATTACCAAAATACCCTCGATTTGTA
**
49702707 AAATTACCAAAATACCCTCGATTAATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
49702734 AAATTACCAAAATACCC-CTAATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
49702761 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
49702778 CTGTAGGGTA
Statistics
Matches: 222, Mismatches: 46, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
19 11 0.05
23 4 0.02
26 21 0.09
27 186 0.84
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:49702792 original size:27 final size:27
Alignment explanation
Indices: 49702762--49702903 Score: 176
Period size: 27 Copynumber: 5.3 Consensus size: 27
49702752 TAATTTGTGA
*
49702762 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49702789 AATTACCAAAATACTCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
49702816 AATTGCTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
49702843 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
49702870 AATTACTGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
49702897 AATTACC
1 AATTACC
49702904 ATTTTGCCCC
Statistics
Matches: 96, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:49703336 original size:6 final size:6
Alignment explanation
Indices: 49703327--49703379 Score: 63
Period size: 6 Copynumber: 8.7 Consensus size: 6
49703317 TACCTGATAT
**
49703327 TGATTC TGATTC TGATTC TGTAACC TGATTC TGATTC TGATTC T-AGTTC
1 TGATTC TGATTC TGATTC TG-ATTC TGATTC TGATTC TGATTC TGA-TTC
49703376 TGAT
1 TGAT
49703380 AATGTTTCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 1 0.03
6 34 0.85
7 5 0.12
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (6 bp):
TGATTC
Found at i:49703377 original size:31 final size:31
Alignment explanation
Indices: 49703299--49703370 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
49703289 TGAATTCACT
* * * *
49703299 TTCTGGTTTTGATTCTATTACCTGATATTGA
1 TTCTGATTCTGATTCTGTAACCTGATATTGA
49703330 TTCTGATTCTGATTCTGTAACCTGAT-TCTGA
1 TTCTGATTCTGATTCTGTAACCTGATAT-TGA
49703361 TTCTGATTCT
1 TTCTGATTCT
49703371 AGTTCTGATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 35 0.97
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.50
Consensus pattern (31 bp):
TTCTGATTCTGATTCTGTAACCTGATATTGA
Found at i:49707764 original size:40 final size:39
Alignment explanation
Indices: 49707727--49707909 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 39
49707717 GCTACTCGTT
*
49707727 CAAATGCCTTCGGGACATAGCCCGATTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
49707767 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
*
49707807 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAACTCGCA
* * * *
49707847 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
49707888 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
49707910 AGACATCATT
Statistics
Matches: 130, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
39 5 0.04
40 108 0.83
41 17 0.13
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:49714644 original size:29 final size:29
Alignment explanation
Indices: 49714604--49714706 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
49714594 GTTGAGAGAT
*
49714604 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
49714633 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
49714662 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
49714691 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49714707 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:49718288 original size:40 final size:40
Alignment explanation
Indices: 49718244--49718469 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
49718234 GCTACTCATT
* *
49718244 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGTA
1 CAAATGCCTTC-GGATCTTAGCCCGGATT-TAGTAACTCGCA
* *
49718284 CAAATGCATTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGATCTTAGCCCGGATTTAGTAACTCGCA
*
49718324 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
*
49718364 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
* * * *
49718404 CAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAAC-TCGCA
49718445 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTC-GGATCTTAGCCCGGA
49718470 CATCATTCGA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGATCTTAGCCCGGATTTAGTAACTCGCA
Found at i:49719877 original size:30 final size:30
Alignment explanation
Indices: 49719843--49719902 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
49719833 TTCCCGAGCC
49719843 TAGGGGCAAAACT-ATAATTATGCAAAAGTT
1 TAGGGGCAAAA-TGATAATTATGCAAAAGTT
* *
49719873 TAGGGGCAAAATGATAATTTTGCCAAAGTT
1 TAGGGGCAAAATGATAATTATGCAAAAGTT
49719903 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGATAATTATGCAAAAGTT
Found at i:49720629 original size:49 final size:49
Alignment explanation
Indices: 49720557--49720743 Score: 275
Period size: 49 Copynumber: 3.8 Consensus size: 49
49720547 TGAGGTCACG
*
49720557 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * * * *
49720606 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-TT-GGTCGCA
* *
49720657 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
*
49720706 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT
49720744 TATGTCCAGG
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 76 0.63
50 4 0.03
51 41 0.34
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:49720725 original size:100 final size:100
Alignment explanation
Indices: 49720552--49720739 Score: 367
Period size: 100 Copynumber: 1.9 Consensus size: 100
49720542 TATTGTGAGG
49720552 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
49720617 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
*
49720652 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
49720717 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
49720740 AGATTATGTC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 87 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCTGATAACTTCGA
Found at i:49723492 original size:16 final size:15
Alignment explanation
Indices: 49723461--49723492 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49723451 TCGTATCATA
49723461 GATTTCTTTATCTTG
1 GATTTCTTTATCTTG
49723476 GATTTCTTTATTCTTG
1 GATTTCTTTA-TCTTG
49723492 G
1 G
49723493 CTTCTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (15 bp):
GATTTCTTTATCTTG
Found at i:49725566 original size:29 final size:30
Alignment explanation
Indices: 49725529--49725587 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
49725519 TTCCCGAGCC
49725529 TAGGGGCAAAA-GTGTAATTATG-CAAAGTT
1 TAGGGGCAAAATG-GTAATTATGCCAAAGTT
*
49725558 TAGGGGCAAAATGGTAATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTAATTATGCCAAAGTT
49725588 CGTATTAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.36, C:0.08, G:0.27, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTAATTATGCCAAAGTT
Found at i:49728171 original size:15 final size:15
Alignment explanation
Indices: 49728147--49728176 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49728137 TAACGCCCCA
*
49728147 AAAATGCCGAAATCC
1 AAAATCCCGAAATCC
49728162 AAAATCCCGAAATCC
1 AAAATCCCGAAATCC
49728177 TGAATTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.30, G:0.10, T:0.13
Consensus pattern (15 bp):
AAAATCCCGAAATCC
Found at i:49729302 original size:8 final size:8
Alignment explanation
Indices: 49729285--49729319 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
49729275 ATGTATCAGT
49729285 AAAAGCCG
1 AAAAGCCG
*
49729293 AAATGCCG
1 AAAAGCCG
49729301 AAAAGCCG
1 AAAAGCCG
*
49729309 AAAAGCAG
1 AAAAGCCG
49729317 AAA
1 AAA
49729320 GTTTGGATAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.54, C:0.20, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:49729628 original size:29 final size:28
Alignment explanation
Indices: 49729530--49729644 Score: 106
Period size: 29 Copynumber: 4.0 Consensus size: 28
49729520 GTGAGCATGA
* * * *
49729530 ATATGAATGTGACTGGGCCTAACGTGCT
1 ATATGAATGTGATTGGGCCTAATGGGCC
* *
49729558 ATATAAATGTGGTTTGGGCCTAATGGGCC
1 ATATGAATGT-GATTGGGCCTAATGGGCC
*
49729587 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGA-TTGGGCCTAATGGGCC
* * *
49729616 ATATGAATATGATTGGGCTTAGTGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
49729644 A
1 A
49729645 GATACATGTA
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
28 26 0.37
29 44 0.62
30 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:49731503 original size:9 final size:9
Alignment explanation
Indices: 49731489--49731515 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
49731479 GATCTTTAAA
49731489 GGCATGGCT
1 GGCATGGCT
49731498 GGCATGGCT
1 GGCATGGCT
49731507 GGCATGGCT
1 GGCATGGCT
49731516 CTTAATGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.44, T:0.22
Consensus pattern (9 bp):
GGCATGGCT
Found at i:49734436 original size:46 final size:46
Alignment explanation
Indices: 49734384--49734558 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
49734374 ATTTGGGCAT
* *
49734384 CCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * *
49734430 CCGAACTCGTTGAGTTGTGTCCAAG-T---TTGTGAGATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ACGC
*
49734475 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * *
49734523 CCGAGCTCATTGAGTTGAGTTCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49734559 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 4 0.04
46 54 0.52
47 23 0.22
48 4 0.04
50 5 0.05
51 4 0.04
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:49738486 original size:40 final size:40
Alignment explanation
Indices: 49738408--49738571 Score: 193
Period size: 40 Copynumber: 4.1 Consensus size: 40
49738398 TGAATGATAC
* * * * **
49738408 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTAATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
49738448 CCGAGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
49738488 CCGGGCTAAGACCCGAAGGCATTTGTACGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* ** *
49738528 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
49738568 CCGG
1 CCGG
49738572 CTAAATTCCG
Statistics
Matches: 104, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 104 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:49740265 original size:93 final size:92
Alignment explanation
Indices: 49740107--49740276 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 92
49740097 AGGATATTTG
* * *
49740107 GGCATCCGAACTCGTTGAGTTGATCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGATCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
49740172 TGAGTCCAAGTTTGTGAGATGTAACTA
66 TGAGTCCAAGTTTGTGAGATGTAACTA
* *
49740199 GGCATCTGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGA-TCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
49740264 TTGAGTCCGAGTT
65 TTGAGTCCAAGTT
49740277 CGCTTATGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 22 0.31
93 49 0.69
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGATCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCAAGTTTGTGAGATGTAACTA
Found at i:49740283 original size:46 final size:46
Alignment explanation
Indices: 49740112--49740285 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
49740102 ATTTGGGCAT
* *
49740112 CCGAACTCGTTGAGTTGA-TCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
* *
49740157 CCGAACTCGTTGAGTTGAGTCCAAG-T---TTGTGAGATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATG-GATGCGAAC---GC
*
49740202 ATCTGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
* * * *
49740250 CCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGG
49740286 CCGGGTTACA
Statistics
Matches: 105, Mismatches: 12, Indels: 23
0.75 0.09 0.16
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
45 21 0.20
46 36 0.34
47 24 0.23
48 3 0.03
50 4 0.04
51 7 0.07
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
Found at i:49742943 original size:93 final size:92
Alignment explanation
Indices: 49742785--49742953 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 92
49742775 GGATATTTGG
* * * **
49742785 GCATCCGTACTCGTTGAGTTGATCCGAGTTCACTTATGGATGCGAATGCCTGAACTTGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTT
49742850 GAGTCCAAGTTTGTGAGATGTAACTAA
66 GAGTCCAAGTTTGTGAGATGTAACTAA
*
49742877 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGA-TCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
49742942 TGAGTCCGAGTT
65 TGAGTCCAAGTT
49742954 CGCTTATGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 21 0.30
93 48 0.70
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGATCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGTT
GAGTCCAAGTTTGTGAGATGTAACTAA
Found at i:49747669 original size:52 final size:52
Alignment explanation
Indices: 49747566--49747666 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 52
49747556 CACTTTGTGC
*
49747566 CAGAAGCCCTTTTCTCTAAAAAGCCGAAAACCCTTTTTTTTCTTTTCTTTCT
1 CAGAAGCCCTTTTCTCTAAAAAGCCAAAAACCCTTTTTTTTCTTTTCTTTCT
49747618 CAGAAGCCCTTTTCTCTAAAAAGCCAAAAACCCTTTTTTTT-TTTTCTTT
1 CAGAAGCCCTTTTCTCTAAAAAGCCAAAAACCCTTTTTTTTCTTTTCTTT
49747667 TCTTTCTTTG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 8 0.17
52 40 0.83
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.43
Consensus pattern (52 bp):
CAGAAGCCCTTTTCTCTAAAAAGCCAAAAACCCTTTTTTTTCTTTTCTTTCT
Found at i:49748345 original size:18 final size:19
Alignment explanation
Indices: 49748312--49748347 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
49748302 ATTTGACCAT
49748312 ATGGGCCAGAATGGGCTAA
1 ATGGGCCAGAATGGGCTAA
*
49748331 ATGGGCCCG-ATGGGCTA
1 ATGGGCCAGAATGGGCTA
49748348 TTAGGACCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.25, C:0.19, G:0.39, T:0.17
Consensus pattern (19 bp):
ATGGGCCAGAATGGGCTAA
Found at i:49748483 original size:29 final size:28
Alignment explanation
Indices: 49748414--49748499 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
49748404 GTGAGCATGA
* *
49748414 ATATGAATGTGACTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
49748442 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGA-TTGGGCCTAATGGGCC
* * *
49748471 ATATGAATATGATTGGGCTTAGTGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
49748499 A
1 A
49748500 GATACAGGTA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
27 1 0.02
28 24 0.50
29 22 0.46
30 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:49750096 original size:10 final size:10
Alignment explanation
Indices: 49750081--49750108 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
49750071 AATAAAAAGT
49750081 AAGATAAATA
1 AAGATAAATA
49750091 AAGATAAATA
1 AAGATAAATA
49750101 AAGATAAA
1 AAGATAAA
49750109 AGTACAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (10 bp):
AAGATAAATA
Found at i:49766500 original size:25 final size:25
Alignment explanation
Indices: 49766448--49766530 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
49766438 ATAAAACCTA
*
49766448 AAAATGAAATAGTATTAAATGAAAAT
1 AAAAT-AAAAAGTATTAAATGAAAAT
*
49766474 AAAATAAAAAGTACTTAAA-GAAGAT
1 AAAATAAAAAGTA-TTAAATGAAAAT
* *
49766499 -AAAT--AAAG-ATAAAAGTGAAAAA
1 AAAATAAAAAGTATTAAA-TGAAAAT
49766521 AAAATAAAAA
1 AAAATAAAAA
49766531 TAAAAAGTCT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
20 4 0.09
21 1 0.02
22 8 0.17
23 4 0.09
24 4 0.09
25 15 0.33
26 10 0.22
ACGTcount: A:0.69, C:0.01, G:0.11, T:0.19
Consensus pattern (25 bp):
AAAATAAAAAGTATTAAATGAAAAT
Found at i:49771360 original size:29 final size:29
Alignment explanation
Indices: 49771318--49771402 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 29
49771308 GCATGACTAG
*
49771318 GAATTTGATTTGGGCCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * * *
49771347 GAATGTGATTTGGGACTAAAGGACCATAT
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* * *
49771376 GAATGAGA-TTGGGCGTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
49771403 TGCATGTATG
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 14 0.31
29 31 0.69
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:49772562 original size:17 final size:18
Alignment explanation
Indices: 49772529--49772562 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49772519 TGCAAGGAAG
49772529 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
49772547 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
49772563 CTTCAATGTG
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:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:49773081 original size:32 final size:31
Alignment explanation
Indices: 49773017--49773096 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 31
49773007 GTATACAATT
* *
49773017 GTAAAGTAAATATTTAATTACTTTTTATTTAA-
1 GTAAA-TAGATATTT-ATTACTTATTATTTAAG
49773049 GTAAATAGATATTTATTACTTATTATTATTAAG
1 GTAAATAGATATTTATTACTTATTA-T-TTAAG
49773082 GTAAA-AGATATTTAT
1 GTAAATAGATATTTAT
49773097 AAATTAAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 10 0.23
31 9 0.21
32 19 0.44
33 5 0.12
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (31 bp):
GTAAATAGATATTTATTACTTATTATTTAAG
Found at i:49773372 original size:20 final size:20
Alignment explanation
Indices: 49773347--49773385 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49773337 TAGCAAACAA
**
49773347 GAAAGAAAGGAAGAAAAGGG
1 GAAAGAAAAAAAGAAAAGGG
49773367 GAAAGAAAAAAAGAAAAGG
1 GAAAGAAAAAAAGAAAAGG
49773386 AAAAACTTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GAAAGAAAAAAAGAAAAGGG
Found at i:49777153 original size:20 final size:20
Alignment explanation
Indices: 49777128--49777167 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
49777118 AAACTTCTTC
*
49777128 ACTTACTCACTTAATTAAAT
1 ACTTACTCACTTAATCAAAT
*
49777148 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
49777168 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:49777428 original size:49 final size:51
Alignment explanation
Indices: 49777354--49777498 Score: 168
Period size: 53 Copynumber: 2.8 Consensus size: 51
49777344 ACACGGGTAC
* * **
49777354 CTTACCATTGCCATGACTTGTCATGGTCTTATGTGGTATCCTT-TTA-AAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTCTTATAAA
*
49777403 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT--CTTATAAA
* * * * *
49777456 CTCACAAATGCCATGTTTTGACATGGTCTTACATGATATCCTT
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTT
49777499 TAGTCAACAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
49 39 0.48
52 3 0.04
53 40 0.49
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.39
Consensus pattern (51 bp):
CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTCTTATAAA
Found at i:49778508 original size:31 final size:31
Alignment explanation
Indices: 49778465--49778535 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
49778455 CCTCTTCATA
49778465 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
49778496 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
49778527 TTTCTATAA
1 TTTC-ATAA
49778536 ACGGTATGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
31 32 0.91
32 3 0.09
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.37
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:49778802 original size:23 final size:23
Alignment explanation
Indices: 49778743--49778909 Score: 244
Period size: 23 Copynumber: 7.1 Consensus size: 23
49778733 CCTAGCCTCT
* *
49778743 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
**
49778766 TTTTTGTAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
49778790 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
49778813 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
49778837 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
49778861 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49778884 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49778907 TTT
1 TTT
49778910 TGCACTTCCT
Statistics
Matches: 134, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
23 67 0.50
24 67 0.50
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:49778802 original size:47 final size:46
Alignment explanation
Indices: 49778743--49778911 Score: 257
Period size: 47 Copynumber: 3.6 Consensus size: 46
49778733 CCTAGCCTCT
* *
49778743 TTTAGTAACTGGGGCAAAAGCCCTTTTTGTAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTGTAACTGGGGCATAAGCCC
49778790 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTG-TAACTGGGGCATAAGCCC
* ** *
49778837 TTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGTAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTGTAACTGGGGCATAAGCCC
49778884 TTTAATAACTGGGGCATAAGCCCTTTTG
1 TTTAATAACTGGGGCATAAGCCCTTTTG
49778912 CACTTCCTCC
Statistics
Matches: 111, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
46 30 0.27
47 56 0.50
48 25 0.23
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (46 bp):
TTTAATAACTGGGGCATAAGCCCTTTTGTAACTGGGGCATAAGCCC
Found at i:49778984 original size:20 final size:20
Alignment explanation
Indices: 49778956--49779006 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
49778946 CCATTTATGA
*
49778956 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
49778976 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
49778996 ACATATCATGT
1 ACATATCATGT
49779007 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:49779071 original size:25 final size:25
Alignment explanation
Indices: 49779043--49779090 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
49779033 ATATATAAAC
* *
49779043 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
49779068 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
49779091 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:49780307 original size:27 final size:27
Alignment explanation
Indices: 49780240--49780319 Score: 79
Period size: 27 Copynumber: 3.0 Consensus size: 27
49780230 CGGAACATAA
* * *
49780240 GGGCATATTCGTCATTTTACCATACAG
1 GGGCATTTTAGTCATTTTACCCTACAG
* ***
49780267 GGGTATTACGGTCATTTTACCCTACAG
1 GGGCATTTTAGTCATTTTACCCTACAG
* *
49780294 GGGCATTTTAGTCATTTCATCCTACA
1 GGGCATTTTAGTCATTTTACCCTACA
49780320 AGGGTGTTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
GGGCATTTTAGTCATTTTACCCTACAG
Found at i:49780371 original size:27 final size:27
Alignment explanation
Indices: 49780341--49780392 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
49780331 GTAAATCAAC
49780341 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
49780368 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
49780393 TAGAAAGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:49780488 original size:27 final size:27
Alignment explanation
Indices: 49780349--49780570 Score: 124
Period size: 27 Copynumber: 8.1 Consensus size: 27
49780339 ACAAACCAAA
* * *
49780349 GGTATTTCAGTAATTTTGTAAACCAAT
1 GGTATTTTAGTAATTTTGTAAATCAAG
*
49780376 GGTATTTCTA-TAATTTT-TAGAAAGTTAAG
1 GGTATTT-TAGTAATTTTGT--AAA-TCAAG
* * * *
49780405 GGTATTTTTGTAACTTTATAAATCAGG
1 GGTATTTTAGTAATTTTGTAAATCAAG
* ** *
49780432 GGTATTTTGGTAATTTTACAAATTAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
*
49780459 GGTATTTTAGTAATTTTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
**** *
49780486 GGTAAAACAGTAATTCTGTAAATCAAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
*** * * *
49780513 GGTAAAATAGTAATTCTATAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
**** * *
49780540 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTATTTTAGTAATTTTGTAAATCAAG
49780567 GGTA
1 GGTA
49780571 AAACGGTAAT
Statistics
Matches: 160, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 135 0.84
28 8 0.05
29 15 0.09
30 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTATTTTAGTAATTTTGTAAATCAAG
Found at i:49780499 original size:54 final size:54
Alignment explanation
Indices: 49780441--49780665 Score: 191
Period size: 54 Copynumber: 4.1 Consensus size: 54
49780431 GGGTATTTTG
* * *** * *
49780441 GTAATTTTACAAATTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTACAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
**
49780495 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTACAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
** * ** * *
49780549 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAAC-
1 GTAATTCTACAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
* ** * ** * * * *
49780602 GATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATCGGGGGGTAAAACG
1 G-TAATTCTACAAATCAAGGGTAAAATAGTAATTCTATAAATC-GAGGGTAAAACA
49780658 GTAATTCT
1 GTAATTCT
49780666 GTAAATCGGG
Statistics
Matches: 147, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 129 0.88
55 16 0.11
56 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (54 bp):
GTAATTCTACAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:49780526 original size:81 final size:81
Alignment explanation
Indices: 49780441--49780733 Score: 266
Period size: 81 Copynumber: 3.6 Consensus size: 81
49780431 GGGTATTTTG
* **** *
49780441 GTAATTTTACAAATTAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTA
1 GTAATTTTACAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
*
49780506 AATCAAGGGTAAAATA
66 AATCGAGGGTAAAATA
* * * *
49780522 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTA
1 GTAATTTTACAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
* *
49780587 AGTCGAGGGTAAAA-C
66 AATCGAGGGTAAAATA
* ** * * * *
49780602 GATAATTATGTAAATCAGGGGTAAAACGGTAATTATGTAAATCGGGGGGTAAAACGGTAATTCTG
1 G-TAATTTTACAAATCAAGGGTAAAACAGTAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTG
* *** *
49780667 TAAATCGGGGGTACTTTG
64 TAAATCGAGGGTAAAATA
* *** **
49780685 GTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTACAAATCGAGGGTA
1 GTAATTTTACAAATC-AAGGGTAAAACAGTAATTTTGTAAATCGAGGGTA
49780734 TTTCAGTAAT
Statistics
Matches: 169, Mismatches: 39, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
80 1 0.01
81 108 0.64
82 58 0.34
83 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (81 bp):
GTAATTTTACAAATCAAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTA
AATCGAGGGTAAAATA
Found at i:49780571 original size:27 final size:27
Alignment explanation
Indices: 49780467--49780679 Score: 277
Period size: 27 Copynumber: 7.9 Consensus size: 27
49780457 AGGGTATTTT
*
49780467 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49780494 AGTAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49780521 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
49780548 AGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
49780575 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
49780602 -GATAATTATGTAAATC-AGGGGTAAAAC
1 AG-TAATTCTGTAAATCGA-GGGTAAAAC
* * *
49780629 GGTAATTATGTAAATCGGGGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
* *
49780657 GGTAATTCTGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
49780680 CTTTGGTAAT
Statistics
Matches: 168, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
26 2 0.01
27 141 0.84
28 25 0.15
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:49780706 original size:27 final size:27
Alignment explanation
Indices: 49780685--49780774 Score: 128
Period size: 27 Copynumber: 3.3 Consensus size: 27
49780675 GGGTACTTTG
*
49780685 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
49780712 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* *
49780739 GTAATTTTACAAA-CTAAGGGTATTTCG
1 GTAATTTTACAAATCGAA-GGTATTTCA
49780766 GTAATTTTA
1 GTAATTTTA
49780775 GTAAACTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 2 0.04
27 55 0.96
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:49780733 original size:54 final size:54
Alignment explanation
Indices: 49780668--49780774 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
49780658 GTAATTCTGT
* * *
49780668 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAGTAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAA-ACGAAGGGTATTTCAGTAATTTTAC
* *
49780722 AAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTA
49780775 GTAAACTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 6 0.13
54 40 0.87
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAACGAAGGGTATTTCAGTAATTTTAC
Found at i:49780788 original size:27 final size:27
Alignment explanation
Indices: 49780685--49780789 Score: 99
Period size: 27 Copynumber: 3.9 Consensus size: 27
49780675 GGGTACTTTG
* *
49780685 GTAATTTTACAAGTCGAAG-GTATTTCA
1 GTAATTTTACAA-ACTAAGAGTATTTCA
* *
49780712 GTAATTTTACAAA-TCGAGGGTATTTCA
1 GTAATTTTACAAACT-AAGAGTATTTCA
* *
49780739 GTAATTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAAACTAAGAGTATTTCA
*
49780766 GTAATTTTAGTAAACTAA-AGTATT
1 GTAATTTTA-CAAACTAAGAGTATT
49780790 CTAAACATGG
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
26 2 0.03
27 57 0.85
28 8 0.12
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAACTAAGAGTATTTCA
Found at i:49784908 original size:33 final size:34
Alignment explanation
Indices: 49784848--49784911 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
49784838 GCATTTTGTA
49784848 CTGATACTGTTACTGAATTGGGCTAAGGCCCACG
1 CTGATACTGTTACTGAATTGGGCTAAGGCCCACG
*
49784882 CTGATGCTGTTACTGAA-TGGGCTAAGGCCC
1 CTGATACTGTTACTGAATTGGGCTAAGGCCC
49784912 TAACTGAGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (34 bp):
CTGATACTGTTACTGAATTGGGCTAAGGCCCACG
Found at i:49785059 original size:26 final size:26
Alignment explanation
Indices: 49785026--49785078 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
49785016 AAACTCACCC
49785026 TTCTACTTATCTACACAGGTAATCCT
1 TTCTACTTATCTACACAGGTAATCCT
*
49785052 TTCTACTTATCTACGCAGGTAATCCT
1 TTCTACTTATCTACACAGGTAATCCT
49785078 T
1 T
49785079 AGGCGAATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.25, C:0.26, G:0.09, T:0.40
Consensus pattern (26 bp):
TTCTACTTATCTACACAGGTAATCCT
Found at i:49792191 original size:31 final size:29
Alignment explanation
Indices: 49792105--49792236 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
49792095 GTGACGAGAT
49792105 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
49792134 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** * *
49792163 TGGCACTAAAAGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* ** * * ***
49792192 CGGCACTGGGTGTGCGAGCTCGAAGGGTA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49792221 TGGCACTATGTGTGCG
1 TGGCACTAAGTGTGCG
49792237 GGCTTAAATT
Statistics
Matches: 85, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 85 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49800092 original size:29 final size:29
Alignment explanation
Indices: 49799999--49800081 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
49799989 GTGACGAGAT
49799999 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
49800028 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
49800057 TGGCACTAAAAGTGCATGCTGGAAA
1 TGGCACTAAGTGTGCGTGCTGGAAA
49800082 AATACAGCAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49801639 original size:44 final size:43
Alignment explanation
Indices: 49801551--49801672 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 43
49801541 GGGTGTTACA
* * *
49801551 GCCACTGTCCCAGACA-GGATCTTACAC-AAA-CTCAAATACGAT
1 GCCAATGTCCCAGACATGG-TCTTACACGAAATCACAAAT-TGAT
* * * *
49801593 GCCGATGTCTCAGACATGGTCTTCCATGTAAATCACAAATTGAT
1 GCCAATGTCCCAGACATGGTCTTACACG-AAATCACAAATTGAT
*
49801637 GCCAATGTCCCAGACGTGGTCTTACACGAAATCACA
1 GCCAATGTCCCAGACATGGTCTTACACGAAATCACA
49801673 TATCGGAATC
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
42 19 0.30
43 10 0.16
44 29 0.45
45 6 0.09
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGAAATCACAAATTGAT
Found at i:49803573 original size:47 final size:46
Alignment explanation
Indices: 49803416--49803770 Score: 140
Period size: 47 Copynumber: 7.6 Consensus size: 46
49803406 TGATTTGTGT
* * * * *
49803416 GCCAGTGTAAGACGTGTCTGGGACATGCT-TCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATG-TATCAGCCATACTATGATA
* * *
49803462 GCCAGTGTAAGACCATGTCTGGGGCATGGCATCA-ACAT-CTA-GATGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GTATCAGCCATACTATGAT-A
* *
49803508 GGGCTAGGGTAAGACATGTCTGGGACATGTATCAGCCATACTATGATA
1 --GCCAGTGTAAGACATGTCTGGGACATGTATCAGCCATACTATGATA
* * * * * * * *
49803556 GCCAATGTAAGACCATGTTTGGGACATGGCACCGGCACAGA-GACGAGT-
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GTATCAGC-CATACTATGA-TA
* * * * *
49803604 GTCAGTGTAAGACATGTCTAGGACATGGATCGGCC-TCGAC-AGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGTATCAGCCAT--ACTA-TGATA
* * * * ** * *
49803651 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGTTAAGAGT-TG-TA
1 GCCAGTGTAAGACATGTCTGGGACATGTATCAG-CCATACTATGATA
* * * * *
49803696 -CTAGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTA-TATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGTATCAG--C-CATACTATGATA
49803743 GCCAGTGTAAGACCATGTCTGGGACATG
1 GCCAGTGTAAGA-CATGTCTGGGACATG
49803771 GCATCGGCAA
Statistics
Matches: 228, Mismatches: 54, Indels: 51
0.68 0.16 0.15
Matches are distributed among these distances:
44 27 0.12
45 6 0.03
46 42 0.18
47 87 0.38
48 45 0.20
49 21 0.09
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGTATCAGCCATACTATGATA
Found at i:49803614 original size:94 final size:93
Alignment explanation
Indices: 49803419--49803779 Score: 303
Period size: 94 Copynumber: 3.9 Consensus size: 93
49803409 TTTGTGTGCC
* * * * *
49803419 AGTGTAAGACGTGTCTGGGACATGCT-TCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATG-TATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTG
* ** * *
49803483 GGGCATGGCATCAACATCTAGATGAG-GGCT
65 GGACATGGCATCGGCA-CAAGA-GAGTGTCT
* * * * *
49803513 AGGGTAAGACATGTCTGGGACATGTATCAGCCATACTATGATAGCCAATGTAAGACCATGTTTGG
1 AGTGTAAGACATGTCTAGGACATGTATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
*
49803578 GACATGGCACCGGCACAGAGACGAGTGTC-
66 GACATGGCATCGGCACA-AGA-GAGTGTCT
* * *
49803607 AGTGTAAGACATGTCTAGGACATGGATCGGCC-TCGAC-A-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTAGGACATGTATCAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGT
* ** *
49803668 CTGGGACA-CGCATCGG-TTAAGAG-TTGTACT
62 CTGGGACATGGCATCGGCACAAGAGAGTGT-CT
* *
49803698 AGTGTAAGACATGTCTAGGACATGCATCAGCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTAGGACATGTATCAG--C-CATACTATGAGAGCCAGTGTAAGACCATGTC
49803762 TGGGACATGGCATCGGCA
63 TGGGACATGGCATCGGCA
49803780 ATATATCCCA
Statistics
Matches: 216, Mismatches: 33, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
89 3 0.01
90 2 0.01
91 31 0.14
92 14 0.06
93 26 0.12
94 123 0.57
95 17 0.08
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTAGGACATGTATCAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGGCACAAGAGAGTGTCT
Found at i:49808200 original size:7 final size:7
Alignment explanation
Indices: 49808188--49808215 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
49808178 TAGATCGAGA
49808188 AAAGTCG
1 AAAGTCG
49808195 AAAGTCG
1 AAAGTCG
49808202 AAAGTCG
1 AAAGTCG
49808209 AAAGTCG
1 AAAGTCG
49808216 TCATATAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (7 bp):
AAAGTCG
Found at i:49808522 original size:44 final size:44
Alignment explanation
Indices: 49808459--49808615 Score: 166
Period size: 43 Copynumber: 3.6 Consensus size: 44
49808449 TGTGTTATCG
49808459 TGTAAGACCATGTCTGGGACGTTGGCATC-AACTTATGATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGAACTT-TGATTTACA
* * *
49808503 TGTAAGACCATGTCTGGGACATTGGCATCGTA-TTTGATTT-CG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGAACTTTGATTTACA
* *
49808545 TGTAAGACCATG-CATGAGACAG-AGGCATCGATAC-TTGA-TTACA
1 TGTAAGACCATGTC-TGGGAC-GTTGGCATCGA-ACTTTGATTTACA
* *
49808588 TGTAAGACCACGTTTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
49808616 TGTATGAGCT
Statistics
Matches: 93, Mismatches: 12, Indels: 17
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.01
42 28 0.30
43 33 0.35
44 30 0.32
45 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGAACTTTGATTTACA
Found at i:49808572 original size:42 final size:43
Alignment explanation
Indices: 49808459--49808597 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 43
49808449 TGTGTTATCG
* *
49808459 TGTAAGACCATGTCTGGGAC-GTTGGCATC-A-ACTTATGATTTACA
1 TGTAAGACCATGTCTGAGACAG-AGGCATCGATAC-T-TGATTT-CA
* ** * *
49808503 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTCTGAGACAGAGGCATCGATACTTGATTTCA
*
49808545 TGTAAGACCATG-CATGAGACAGAGGCATCGATACTTGATTACA
1 TGTAAGACCATGTC-TGAGACAGAGGCATCGATACTTGATTTCA
49808588 TGTAAGACCA
1 TGTAAGACCA
49808598 CGTTTGGGAC
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 26 0.32
43 25 0.31
44 28 0.35
45 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACAGAGGCATCGATACTTGATTTCA
Found at i:49810561 original size:21 final size:20
Alignment explanation
Indices: 49810536--49810574 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49810526 ATTTGTAACA
49810536 TTATATAAATTTTATTATATG
1 TTATAT-AATTTTATTATATG
*
49810557 TTATATATTTTTATTATA
1 TTATATAATTTTATTATA
49810575 GTACTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
TTATATAATTTTATTATATG
Found at i:49818358 original size:40 final size:40
Alignment explanation
Indices: 49818293--49818474 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
49818283 TATTCGAATG
*
49818293 ATATCCGGGGTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
49818333 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
49818373 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
49818413 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
49818453 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
49818475 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.10
40 113 0.88
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:49823513 original size:27 final size:27
Alignment explanation
Indices: 49823497--49823743 Score: 321
Period size: 27 Copynumber: 9.3 Consensus size: 27
49823487 CGACTTGTAA
49823497 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49823524 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
49823551 AATTA-C-TGTTTACCCTCGATTTACAG
1 AATTACCAT-TTTACCCTCGATTTACAG
*
49823577 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49823604 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49823631 AATTACCATTTTACCCTC-ATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
* *
49823657 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
49823684 AATTACC-TTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * * *
49823710 AATTACC-GTTTACCTTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
49823736 AATTACCA
1 AATTACCA
49823744 AAATACCCTT
Statistics
Matches: 197, Mismatches: 12, Indels: 22
0.85 0.05 0.10
Matches are distributed among these distances:
25 2 0.01
26 93 0.47
27 100 0.51
28 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:49823569 original size:53 final size:54
Alignment explanation
Indices: 49823497--49823743 Score: 367
Period size: 53 Copynumber: 4.6 Consensus size: 54
49823487 CGACTTGTAA
* *
49823497 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTAGTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
*
49823551 AATTACT-GTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTAGTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* *
49823604 AATTACTATTTTATCCTCGATTTACAGAATTACCATTTTACCCTCA-TTTACAG
1 AATTACTAGTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* *
49823657 AATTACTATTTTACCCTCGATTTATAGAATTACC-TTTTACCCTCAGTTTACAG
1 AATTACTAGTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* * * *
49823710 AATTAC-CGTTTACCTTCAATTTATAGAATTACCA
1 AATTACTAGTTTACCCTCGATTTACAGAATTACCA
49823744 AAATACCCTT
Statistics
Matches: 178, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
52 34 0.19
53 103 0.58
54 41 0.23
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
AATTACTAGTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
Found at i:49823573 original size:26 final size:24
Alignment explanation
Indices: 49823505--49823741 Score: 240
Period size: 26 Copynumber: 9.0 Consensus size: 24
49823495 AAAATTACCA
49823505 TTTTACCCTCGATTTACAGAATTACC
1 TTTTACCCTC-ATTTACAGAATTA-C
49823531 ATTTTACCCTCAGTTTACAGAATTAC
1 -TTTTACCCTCA-TTTACAGAATTAC
49823557 TGTTTACCCTCGATTTACAGAATTACC
1 T-TTTACCCTC-ATTTACAGAATTA-C
49823584 GTTTTACCCTCAGTTTACAGAATTAC
1 -TTTTACCCTCA-TTTACAGAATTAC
*
49823610 TATTTTATCCTCGATTTACAGAATTACC
1 --TTTTACCCTC-ATTTACAGAATTA-C
49823638 ATTTTACCCTCATTTACAGAATTAC
1 -TTTTACCCTCATTTACAGAATTAC
*
49823663 TATTTTACCCTCGATTTATAGAATTACC
1 --TTTTACCCTC-ATTTACAGAATTA-C
49823691 TTTTACCCTCAGTTTACAGAATTACC
1 TTTTACCCTCA-TTTACAGAATTA-C
* * *
49823717 GTTTACCTTCAATTTATAGAATTAC
1 TTTTACCCTC-ATTTACAGAATTAC
49823742 CAAAATACCC
Statistics
Matches: 188, Mismatches: 8, Indels: 30
0.83 0.04 0.13
Matches are distributed among these distances:
25 4 0.02
26 91 0.48
27 89 0.47
28 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (24 bp):
TTTTACCCTCATTTACAGAATTAC
Found at i:49823759 original size:27 final size:27
Alignment explanation
Indices: 49823729--49823835 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
49823719 TTACCTTCAA
*
49823729 TTTATAGAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
49823756 TTTATAAAATCACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
49823783 TTTGTAAAATTACTAAAATACCCTTTG
1 TTTATAAAATTACCAAAATACCCTTGG
*
49823810 TTTATAAAATTACCGAAATACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
49823836 TAGGGTAGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGG
Found at i:49823848 original size:54 final size:54
Alignment explanation
Indices: 49823733--49823851 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
49823723 CTTCAATTTA
**
49823733 TAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTG
1 TAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTGGG
* * * * * *
49823787 TAAAATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATA-CCCTTGTAGGG
1 TAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGT-GGG
49823841 TAGAATTACCA
1 TAGAATTACCA
49823852 TTTTGCCCCT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 6 0.11
54 48 0.89
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
TAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTGGG
Found at i:49824502 original size:28 final size:28
Alignment explanation
Indices: 49824470--49824538 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49824460 GCGTAGATCA
49824470 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49824498 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
49824526 CGATA-TACCCCTA
1 CGAAATTACCCCTA
49824539 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:49827384 original size:27 final size:27
Alignment explanation
Indices: 49827368--49827564 Score: 265
Period size: 27 Copynumber: 7.3 Consensus size: 27
49827358 CGACTTGTAA
49827368 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49827395 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49827422 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
49827449 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
49827476 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
49827503 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * * *
49827530 AATTACCGTTTTACCTTCAATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
49827557 AATTACCA
1 AATTACCA
49827565 AAATACCCTT
Statistics
Matches: 152, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.02
27 146 0.96
28 3 0.02
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:49827580 original size:54 final size:54
Alignment explanation
Indices: 49827368--49827564 Score: 313
Period size: 54 Copynumber: 3.6 Consensus size: 54
49827358 CGACTTGTAA
49827368 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* *
49827422 AATTACTATTTTATCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* * *
49827476 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
* * * *
49827530 AATTACCGTTTTACCTTCAATTTATAGAATTACCA
1 AATTACCATTTTACCCTCGATTTACAGAATTACCA
49827565 AAATACCCTT
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 133 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
Found at i:49827581 original size:81 final size:81
Alignment explanation
Indices: 49827368--49827591 Score: 270
Period size: 81 Copynumber: 2.8 Consensus size: 81
49827358 CGACTTGTAA
* * * *
49827368 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTT
1 AATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGGTTTATAGAATTACCATTT
*
49827433 TATCCTCGATTTACAG
66 TACCCTCGATTTACAG
* * * *
49827449 AATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
1 AATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGGTTTATAGAATTACCATTT
49827514 TACCCTC-AGTTTACAG
66 TACCCTCGA-TTTACAG
* * * *** * * *
49827530 AATTACCGTTTTACCTTCAATTTATAGAATTACCAAAATACCCTTGGTTTATAAAATCACCA
1 AATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGGTTTATAGAATTACCA
49827592 AAATACCCCT
Statistics
Matches: 120, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
80 1 0.01
81 119 0.99
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (81 bp):
AATTACCATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGGTTTATAGAATTACCATTT
TACCCTCGATTTACAG
Found at i:49827653 original size:27 final size:27
Alignment explanation
Indices: 49827550--49827656 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
49827540 TTACCTTCAA
*
49827550 TTTATAGAATTACCAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* *
49827577 TTTATAAAATCACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCTTGG
* * *
49827604 TTTGTAAAATTACTAAAATACCCTTTG
1 TTTATAAAATTACCAAAATACCCTTGG
*
49827631 TTTATAAAATTACCGAAATACCCTTG
1 TTTATAAAATTACCAAAATACCCTTG
49827657 TAGGGTAGAA
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.38, C:0.20, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCTTGG
Found at i:49827669 original size:54 final size:54
Alignment explanation
Indices: 49827554--49827672 Score: 150
Period size: 54 Copynumber: 2.2 Consensus size: 54
49827544 CTTCAATTTA
**
49827554 TAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTG
1 TAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTGGG
* * * * * *
49827608 TAAAATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATA-CCCTTGTAGGG
1 TAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGT-GGG
49827662 TAGAATTACCA
1 TAGAATTACCA
49827673 TTTTGCCCCT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
53 6 0.11
54 48 0.89
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (54 bp):
TAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTGGG
Found at i:49828323 original size:28 final size:28
Alignment explanation
Indices: 49828291--49828359 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
49828281 GCGTAGATCA
49828291 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
49828319 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
49828347 CGATA-TACCCCTA
1 CGAAATTACCCCTA
49828360 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:49831563 original size:87 final size:87
Alignment explanation
Indices: 49831472--49831738 Score: 247
Period size: 87 Copynumber: 3.0 Consensus size: 87
49831462 GAGGGCAGAC
* *
49831472 ACATAGTAAATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGT
1 ACATAGTAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
49831537 GTTTACAAGGAACAAATCGAAG
66 GTTTACAAGGAACAAATCGAAG
* * * * * * **
49831559 ACATAGCAGATTTGACTTTCAGATGTTTTTCACATCAAAGCAGATCCAAGATGA--CAG-A-TCT
1 ACATAGTAGATCTAACCTTCAGATGTTTAT-AC-T-GAAGCAGATCCAAGATGATTTGGCATTCT
* * * * * * ** *
49831620 GGCGTCTCCATATTCG-ACAGAGGGCAGAC
63 TGTGTTTACA-A--GGAACAAATCG-A-AG
49831649 ACATAGTAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
1 ACATAGTAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
*
49831714 GTTTACAAGGAACAAATTGAAG
66 GTTTACAAGGAACAAATCGAAG
49831736 ACA
1 ACA
49831739 AGTTGAAGAT
Statistics
Matches: 131, Mismatches: 36, Indels: 26
0.68 0.19 0.13
Matches are distributed among these distances:
86 9 0.07
87 47 0.36
88 11 0.08
89 11 0.08
90 44 0.34
91 9 0.07
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (87 bp):
ACATAGTAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGT
GTTTACAAGGAACAAATCGAAG
Found at i:49831654 original size:90 final size:87
Alignment explanation
Indices: 49831418--49831699 Score: 250
Period size: 87 Copynumber: 3.2 Consensus size: 87
49831408 TTTTCACATC
* * * *
49831418 AAAGCAGATCCAAGATAACAGATCTGGTGTCTCCATATTCGACGGAGGGCAGACACATAGTAAAT
1 AAAGCAGATCCAAGATGACAGATCTGGTGTCTCCATATTCGACAGAGGGCAGACACATAGCAGAT
49831483 CTAACCTTCAGATGTTTATACT
66 CTAACCTTCAGATGTTTATACT
* * ** * * * * * ** *
49831505 GAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACA-A--GGAACAAATCG-A-AGACATAG
1 AAAGCAGATCCAAGATGA--CAG-A-TCTGGTGTCTCCATATTCG-ACAGAGGGCAGACACATAG
* * * *
49831565 CAGATTTGACTTTCAGATGTTTTTCACAT
61 CAGATCTAACCTTCAGATGTTTAT-AC-T
* *
49831594 CAAAGCAGATCCAAGATGACAGATCTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGTAGA
1 -AAAGCAGATCCAAGATGACAGATCTGGTGTCTCCATATTCGACAGAGGGCAGACACATAGCAGA
49831659 TCTAACCTTCAGATGTTTATACT
65 TCTAACCTTCAGATGTTTATACT
*
49831682 GAAGCAGATCCAAGATGA
1 AAAGCAGATCCAAGATGA
49831700 TTTGGCATTC
Statistics
Matches: 143, Mismatches: 39, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
86 9 0.06
87 59 0.41
88 11 0.08
89 10 0.07
90 44 0.31
91 10 0.07
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (87 bp):
AAAGCAGATCCAAGATGACAGATCTGGTGTCTCCATATTCGACAGAGGGCAGACACATAGCAGAT
CTAACCTTCAGATGTTTATACT
Found at i:49831674 original size:177 final size:177
Alignment explanation
Indices: 49831367--49831738 Score: 663
Period size: 177 Copynumber: 2.1 Consensus size: 177
49831357 ATCTTCGACG
* *
49831367 AGGAGCAAATTGAAGACATAGCAGATTTGGCTTTCAGATATTTTTCACATCAAAGCAGATCCAAG
1 AGGAACAAATTGAAGACATAGCAGATTTGACTTTCAGATATTTTTCACATCAAAGCAGATCCAAG
* *
49831432 ATAACAGATCTGGTGTCTCCATATTCGACGGAGGGCAGACACATAGTAAATCTAACCTTCAGATG
66 ATAACAGATCTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGTAAATCTAACCTTCAGATG
49831497 TTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACA
131 TTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACA
* *
49831544 AGGAACAAATCGAAGACATAGCAGATTTGACTTTCAGATGTTTTTCACATCAAAGCAGATCCAAG
1 AGGAACAAATTGAAGACATAGCAGATTTGACTTTCAGATATTTTTCACATCAAAGCAGATCCAAG
* *
49831609 ATGACAGATCTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGTAGATCTAACCTTCAGATG
66 ATAACAGATCTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGTAAATCTAACCTTCAGATG
*
49831674 TTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACA
131 TTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACA
49831721 AGGAACAAATTGAAGACA
1 AGGAACAAATTGAAGACA
49831739 AGTTGAAGAT
Statistics
Matches: 185, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
177 185 1.00
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (177 bp):
AGGAACAAATTGAAGACATAGCAGATTTGACTTTCAGATATTTTTCACATCAAAGCAGATCCAAG
ATAACAGATCTGGCGTCTCCATATTCGACAGAGGGCAGACACATAGTAAATCTAACCTTCAGATG
TTTATACTGAAGCAGATCCAAAATGATTTGGCATTCTTGTGTTTACA
Found at i:49834146 original size:2 final size:2
Alignment explanation
Indices: 49834139--49834167 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
49834129 TGTTTATTAA
49834139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49834168 AAGTATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49837874 original size:29 final size:29
Alignment explanation
Indices: 49837800--49837859 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
49837790 TGTTGGGCCC
49837800 ATAATAGGCAAAATTTGATAAGTGATGCT
1 ATAATAGGCAAAATTTGATAAGTGATGCT
49837829 ATAATAGGCAAAATTTGATAAGTGATGCT
1 ATAATAGGCAAAATTTGATAAGTGATGCT
49837858 AT
1 AT
49837860 GTGATAGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.32
Consensus pattern (29 bp):
ATAATAGGCAAAATTTGATAAGTGATGCT
Found at i:49837966 original size:58 final size:58
Alignment explanation
Indices: 49837897--49838011 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
49837887 AATATAAAGG
* *
49837897 TGATTTGGGCCTAATTGGTCATATGAAAATGAATTGGGCCTAATGGGCTATATGAATA
1 TGATTTGGGCCTAATGGGCCATATGAAAATGAATTGGGCCTAATGGGCTATATGAATA
* ** **
49837955 TGATTTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCTGGTGGGCTATATGAAT
1 TGATTTGGGCCTAATGGGCCATATGAAAATGAATTGGGCCTAATGGGCTATATGAAT
49838012 GAGATGGGCC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.26, C:0.11, G:0.30, T:0.32
Consensus pattern (58 bp):
TGATTTGGGCCTAATGGGCCATATGAAAATGAATTGGGCCTAATGGGCTATATGAATA
Found at i:49837996 original size:29 final size:29
Alignment explanation
Indices: 49837896--49838012 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
49837886 GAATATAAAG
* * * *
49837896 GTGATTTGGGCCTAATTGGTCATATGAAA
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* *
49837925 ATGAATTGGGCCTAATGGGCTATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
* * *
49837954 ATGATTTGGGCCTGATGGGCCATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
** *
49837983 GTGAATTGGGCCTGGTGGGCTATATGAAT
1 GTGAATTGGGCCTAATGGGCCATATGAAT
49838012 G
1 G
49838013 AGATGGGCCA
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (29 bp):
GTGAATTGGGCCTAATGGGCCATATGAAT
Found at i:49846472 original size:58 final size:58
Alignment explanation
Indices: 49846354--49846477 Score: 185
Period size: 58 Copynumber: 2.1 Consensus size: 58
49846344 GTGAGCATGA
* * * *
49846354 ATATAAATATGATTTGGGCCTAATGGGTCATATGAATATGAATTGGGCCTAACGGGCC
1 ATATGAATATGATTTGGGCCTAATGGGCCATATGAATATGAATTGGGCCTAACAGACC
* * *
49846412 ATATGAATATGATTTGGGCCTAATGGGCCATATGAATGTGAATTGGGCCTGATAGACC
1 ATATGAATATGATTTGGGCCTAATGGGCCATATGAATATGAATTGGGCCTAACAGACC
49846470 ATATGAAT
1 ATATGAAT
49846478 GAGATGGGCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (58 bp):
ATATGAATATGATTTGGGCCTAATGGGCCATATGAATATGAATTGGGCCTAACAGACC
Found at i:49846478 original size:29 final size:29
Alignment explanation
Indices: 49846354--49846477 Score: 167
Period size: 29 Copynumber: 4.3 Consensus size: 29
49846344 GTGAGCATGA
* * *
49846354 ATATAAATATGATTTGGGCCTAATGGGTC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
49846383 ATATGAATATGAATTGGGCCTAACGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
*
49846412 ATATGAATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* * * *
49846441 ATATGAATGTGAATTGGGCCTGATAGACC
1 ATATGAATATGAATTGGGCCTAATGGGCC
49846470 ATATGAAT
1 ATATGAAT
49846478 GAGATGGGCC
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 84 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:49847990 original size:40 final size:39
Alignment explanation
Indices: 49847945--49848152 Score: 200
Period size: 40 Copynumber: 5.2 Consensus size: 39
49847935 CGGAATACAA
*
49847945 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
49847985 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
49848025 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
49848065 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTCAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* ** * * *
49848105 CCAGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
49848145 CCGGATAT
1 CCGGATAT
49848153 CATTCAATTG
Statistics
Matches: 138, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 1 0.01
40 137 0.99
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:49848085 original size:80 final size:80
Alignment explanation
Indices: 49847945--49848151 Score: 222
Period size: 80 Copynumber: 2.6 Consensus size: 80
49847935 CGGAATACAA
* *
49847945 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
49848010 CCTTCGGGTATTAGC
66 CCTTCGGGTATTAGC
* * * *
49848025 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCACTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG--ACTAGCACAAA
* * *
49848088 TGCCTTCGGGTCTCAAC
64 TGCCTTCGGGTATTAGC
* ** ** * *
49848105 CCAGATATAATTAC-TAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAACAACAT-GCACGAATGCCTTCGGGTCTTAGCCCGGATA
49848152 TCATTCAATT
Statistics
Matches: 106, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
78 1 0.01
79 3 0.03
80 102 0.96
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACTAGCACAAATG
CCTTCGGGTATTAGC
Found at i:49856348 original size:25 final size:25
Alignment explanation
Indices: 49856318--49856373 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
49856308 CTATGTCCTA
49856318 AAATAAAATTTAATATTTACATATT
1 AAATAAAATTTAATATTTACATATT
49856343 AAATAAAATTTAATATTTACATATT
1 AAATAAAATTTAATATTTACATATT
49856368 AAATAA
1 AAATAA
49856374 TTTTCTCATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
AAATAAAATTTAATATTTACATATT
Found at i:49868981 original size:31 final size:31
Alignment explanation
Indices: 49868943--49869023 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
49868933 CTCAGCATAT
**
49868943 ACTGGGCCGAAGCCTTTACATTATCCATGTC
1 ACTGGGCCGAAGCCTTTACATTATCCATACC
* *
49868974 ACTGGGCCGAAGCCTTTTCATTATTCATACC
1 ACTGGGCCGAAGCCTTTACATTATCCATACC
49869005 ACTGGGCCGAAGCCTTTAC
1 ACTGGGCCGAAGCCTTTAC
49869024 TGCAAATGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTACATTATCCATACC
Found at i:49869275 original size:25 final size:25
Alignment explanation
Indices: 49869243--49869312 Score: 131
Period size: 25 Copynumber: 2.8 Consensus size: 25
49869233 CTCTTTTAAT
49869243 AACTGGGGCAAAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
49869268 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
49869293 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
49869313 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:49869376 original size:11 final size:11
Alignment explanation
Indices: 49869360--49869408 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
49869350 TATATGAATT
49869360 TATCATGTGCA
1 TATCATGTGCA
*
49869371 TATCA--TACA
1 TATCATGTGCA
49869380 TATCATGTGCA
1 TATCATGTGCA
49869391 TATCATGT-CA
1 TATCATGTGCA
*
49869401 AATCATGT
1 TATCATGT
49869409 ATATCAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 8 0.24
10 9 0.27
11 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:49871454 original size:3 final size:3
Alignment explanation
Indices: 49871448--49871487 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
49871438 CTACTACTAC
49871448 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
49871488 TTCATAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:49877720 original size:40 final size:40
Alignment explanation
Indices: 49877621--49877806 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
49877611 TGAATGATAC
* * * *
49877621 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
49877661 CC-GGCTAAGA-CCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
49877699 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
49877739 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
49877779 CCAGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
49877807 TTGTGGTTAT
Statistics
Matches: 131, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
38 24 0.18
39 16 0.12
40 91 0.69
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:49877786 original size:80 final size:78
Alignment explanation
Indices: 49877617--49877826 Score: 305
Period size: 80 Copynumber: 2.7 Consensus size: 78
49877607 CATTTGAATG
* * *
49877617 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGCTAAGACCGAAGGCAT
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGCTAAGACCGAAGGCAT
49877681 TTGTGCGAGTTGCT
65 TTGTGCGAGTTGCT
* *
49877695 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCC-GGCTAAGA-CCGAAGGCA
49877760 TTTGTGCGAGTTGCT
64 TTTGTGCGAGTTGCT
* * * *
49877775 ATACCCAGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGCTAA
49877827 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
78 38 0.32
79 16 0.14
80 64 0.54
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGCTAAGACCGAAGGCATT
TGTGCGAGTTGCT
Found at i:49883830 original size:28 final size:27
Alignment explanation
Indices: 49883767--49883836 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
49883757 ATAGTGAGTC
*
49883767 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
49883794 CGCACACTTAGTGCTACATGATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
49883822 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49883837 GTACAAGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:49888906 original size:40 final size:40
Alignment explanation
Indices: 49888847--49889013 Score: 223
Period size: 40 Copynumber: 4.2 Consensus size: 40
49888837 TGAATGATAC
* *
49888847 CCGGGCTAAG-CCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
49888886 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
49888926 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
49888966 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
49889006 CC-GGCTAA
1 CCGGGCTAA
49889014 ATTCCGAAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 15 0.13
40 97 0.85
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:49894863 original size:64 final size:64
Alignment explanation
Indices: 49894786--49894913 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
49894776 TGGATGTGTA
49894786 TGATTATTGATTATGTGTGTATGAGTATTTGAATTCCACCCGGGCTAAGTCCGAAGGCGAATAT
1 TGATTATTGATTATGTGTGTATGAGTATTTGAATTCCACCCGGGCTAAGTCCGAAGGCGAATAT
49894850 TGATTATTGATTATGTGTGTATGAGTATTTGAATTCCACCCGGGCTAAGTCCGAAGGCGAATAT
1 TGATTATTGATTATGTGTGTATGAGTATTTGAATTCCACCCGGGCTAAGTCCGAAGGCGAATAT
49894914 GCTAATGATT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (64 bp):
TGATTATTGATTATGTGTGTATGAGTATTTGAATTCCACCCGGGCTAAGTCCGAAGGCGAATAT
Found at i:49895173 original size:40 final size:38
Alignment explanation
Indices: 49895004--49895190 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
49894994 TGAGAAATTG
* *
49895004 AATG-ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGAA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
49895043 AAT-TATATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
49895080 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
49895120 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTCCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
49895160 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
49895191 CTTGGTGCGG
Statistics
Matches: 120, Mismatches: 20, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
37 4 0.03
38 2 0.02
39 20 0.17
40 93 0.77
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.24
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:49897331 original size:28 final size:28
Alignment explanation
Indices: 49897300--49897391 Score: 121
Period size: 28 Copynumber: 3.3 Consensus size: 28
49897290 GCAATCAAAT
* *
49897300 ATGGTACTCAGTGTACGAAATATTGATA
1 ATGGCACTCAGTGTACGAAATATTGAGA
*
49897328 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTCAGTGTACGAAATATTGAGA
** *
49897356 ATGGCACTCAGTGTGTGAGATATTGAGA
1 ATGGCACTCAGTGTACGAAATATTGAGA
*
49897384 ATGACACT
1 ATGGCACT
49897392 TCGTGTGCAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTCAGTGTACGAAATATTGAGA
Found at i:49897366 original size:56 final size:56
Alignment explanation
Indices: 49897300--49897406 Score: 133
Period size: 56 Copynumber: 1.9 Consensus size: 56
49897290 GCAATCAAAT
* * * *
49897300 ATGGTACTCAGTGTACGAAATATTGATAATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTCAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
** * * *
49897356 ATGGCACTCAGTGTGTGAGATATTGAGAATGACACTTCGTGTGCAAAATAT
1 ATGGCACTCAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATAT
49897407 CGAATGATTC
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
56 42 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (56 bp):
ATGGCACTCAGTGTACGAAATATTGAGAATGACACTTAGTGTACAAAATATTGAGA
Found at i:49897397 original size:28 final size:28
Alignment explanation
Indices: 49897310--49897406 Score: 106
Period size: 28 Copynumber: 3.5 Consensus size: 28
49897300 ATGGTACTCA
* * *
49897310 GTGTACGAAATATTGATAATGGCACTTA
1 GTGTGCGAAATATTGAGAATGGCACTTC
*
49897338 GTGTACGAAATATTGAGAATGGCAC-TC
1 GTGTGCGAAATATTGAGAATGGCACTTC
* * *
49897365 AGTGTGTGAGATATTGAGAATGACACTTC
1 -GTGTGCGAAATATTGAGAATGGCACTTC
*
49897394 GTGTGCAAAATAT
1 GTGTGCGAAATAT
49897407 CGAATGATTC
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
27 1 0.02
28 55 0.95
29 2 0.03
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (28 bp):
GTGTGCGAAATATTGAGAATGGCACTTC
Found at i:49899589 original size:28 final size:27
Alignment explanation
Indices: 49899549--49899635 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
49899539 GGAGGAAGCC
49899549 TTCTGGTGGCTCTGCGACAAATATCTGT
1 TTCTGGTGGCTCTGCGAC-AATATCTGT
*
49899577 TTCTGGTGGCTCTGCCACAATATCTGT
1 TTCTGGTGGCTCTGCGACAATATCTGT
* *
49899604 ATCTGGTGACTCTGTCG-CAATATCTG-
1 TTCTGGTGGCTCTG-CGACAATATCTGT
49899630 TTCTGG
1 TTCTGG
49899636 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 5 0.09
27 30 0.57
28 18 0.34
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCGACAATATCTGT
Found at i:49907660 original size:46 final size:46
Alignment explanation
Indices: 49907517--49907660 Score: 127
Period size: 46 Copynumber: 3.1 Consensus size: 46
49907507 CCCGCCCATA
49907517 AGTGAACTCGGACTCAACTCAACGAGCTT-GGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCCTA--TACATC-CT
* * * * * *
49907566 --CGAACTCGGACTCAACTCAACAAGTTC-GA-ACATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
49907609 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
49907656 AGTGA
1 AGTGA
49907661 CATGTCACTT
Statistics
Matches: 74, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 34 0.46
47 25 0.34
48 6 0.08
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:49910119 original size:27 final size:26
Alignment explanation
Indices: 49910081--49910193 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
49910071 GAGGAAGCCT
49910081 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCAC-AATATCTGA
*
49910108 TCTGGTGGCTCTACCACAAATATCT-A
1 TCTGGTGGCTCTGCCAC-AATATCTGA
49910134 TTTCTGGTGGCTCTGCCACAATATCTGTA
1 --TCTGGTGGCTCTGCCACAATATCTG-A
* * * *
49910163 TCTGGTGACTCTGTCGCAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGA
49910189 TCTGG
1 TCTGG
49910194 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 16 0.21
29 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCTCTGCCACAATATCTGA
Found at i:49911123 original size:13 final size:13
Alignment explanation
Indices: 49911105--49911129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49911095 ACACCGTGTA
49911105 AGGGACACAGGCC
1 AGGGACACAGGCC
49911118 AGGGACACAGGC
1 AGGGACACAGGC
49911130 GTGTGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AGGGACACAGGCC
Found at i:49921793 original size:23 final size:23
Alignment explanation
Indices: 49921726--49921806 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
49921716 TAGCTTGTAT
*
49921726 GAGCTTACCGATATATCAGCTCCTAA
1 GAGCTTACCG-T-T-TCAGCTCATAA
** *
49921752 GAGCTTACTATTTTCAGCTCATTA
1 GAGCTTAC-CGTTTCAGCTCATAA
* *
49921776 GAGCTTACCGTTTCAGCTCGTAT
1 GAGCTTACCGTTTCAGCTCATAA
49921799 GAGCTTAC
1 GAGCTTAC
49921807 TGCTCGATAG
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
23 18 0.40
24 17 0.38
25 1 0.02
26 9 0.20
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCATAA
Found at i:49927893 original size:48 final size:47
Alignment explanation
Indices: 49927836--49927957 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 47
49927826 GTGTCCACAC
* * **
49927836 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTTGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCT-TATCTCAAGGCCAATG
* * * *
49927884 CATGTCCCAGACATGTCTTATACTAGC-TCTTGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTTATCTCAAGGCCAATG
*
49927930 CATGTCCCGGACATGTCTTACACTAGCT
1 CATGTCCCAGACATGTCTTACACTAGCT
49927958 CACTTTCCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 36 0.57
47 2 0.03
48 25 0.40
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTTATCTCAAGGCCAATG
Found at i:49937491 original size:49 final size:49
Alignment explanation
Indices: 49937406--49937525 Score: 125
Period size: 49 Copynumber: 2.4 Consensus size: 49
49937396 GTTAATGTCG
* * * *
49937406 TGTCCCAGATAAGTCTTACATTGACTTTCATATATCGAG-GACGATGCTA
1 TGTCCCAGATAGGTCTTACACTGACTCTCATATATCG-GTGACGATGCCA
* * * **
49937455 TGTCCCAGATAGGTCTTACACTGGCTCTCGTCTATCGGTGTTGATGCCA
1 TGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGTGACGATGCCA
* *
49937504 TGTCCTAGACAGGTCTTACACT
1 TGTCCCAGATAGGTCTTACACT
49937526 AGCTTGTATA
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 58 0.98
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (49 bp):
TGTCCCAGATAGGTCTTACACTGACTCTCATATATCGGTGACGATGCCA
Found at i:49937609 original size:46 final size:47
Alignment explanation
Indices: 49937447--49937665 Score: 162
Period size: 46 Copynumber: 4.6 Consensus size: 47
49937437 ATATCGAGGA
* * * * **
49937447 CGATGCTATGTCCCAGATAGGTCTTACACTGGCTCTCGTCTATCGGTGT
1 CGATGC-ATGTCCCAGACATGTCTTACACTAGCTCTTGTC-ATCAATGT
* * * * * *
49937496 TGATGCCATGTCCTAGACAGGTCTTACACTAG--CTTGTATATCCCAAAGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCTTGT-CAT--CAATGT
49937545 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTC-TCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCATCAATGT
* ** * *
49937591 CGATGCATGTCCCAGACATGTCATACACCGGCAC---TCATGATATGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCATCA-AT-GT
*
49937637 CGATGCATGTCCCATACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
49937666 GCCTCACATA
Statistics
Matches: 137, Mismatches: 24, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 2 0.01
46 62 0.45
47 6 0.04
48 25 0.18
49 32 0.23
50 6 0.04
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTTGTCATCAATGT
Found at i:49939602 original size:8 final size:8
Alignment explanation
Indices: 49939589--49939626 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
49939579 ATTTCATTTC
49939589 TTTTATTA
1 TTTTATTA
49939597 TTTTATTA
1 TTTTATTA
49939605 TTTTATTA
1 TTTTATTA
49939613 -TTTATTA
1 TTTTATTA
*
49939620 ATTTATT
1 TTTTATT
49939627 TTCCCTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATTA
Found at i:49939610 original size:16 final size:15
Alignment explanation
Indices: 49939589--49939626 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
49939579 ATTTCATTTC
49939589 TTTTATTATTTTATTA
1 TTTTATTA-TTTATTA
49939605 TTTTATTATTTATTA
1 TTTTATTATTTATTA
*
49939620 ATTTATT
1 TTTTATT
49939627 TTCCCTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTTATTATTTATTA
Done.