Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 52 of 295
Found at i:14975424 original size:3 final size:3
Alignment explanation
Indices: 14975418--14975468 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
14975408 AATAGGGGTG
*
14975418 ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA ATA
14975466 ATA
1 ATA
14975469 GTAGTCAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 31 0.72
4 11 0.26
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14975565 original size:12 final size:12
Alignment explanation
Indices: 14975541--14975614 Score: 62
Period size: 12 Copynumber: 6.1 Consensus size: 12
14975531 GAGAGGGTAT
14975541 ATATAATATAATA
1 ATATAA-ATAATA
14975554 ATATAAATAATA
1 ATATAAATAATA
* *
14975566 ATATATACATGAGA
1 ATATA-A-ATAATA
14975580 A-AT-AATAATA
1 ATATAAATAATA
*
14975590 GTATAAATAATA
1 ATATAAATAATA
* *
14975602 GTAAAAATAATA
1 ATATAAATAATA
14975614 A
1 A
14975615 AAAAAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
10 4 0.08
11 3 0.06
12 29 0.58
13 9 0.18
14 5 0.10
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:14976154 original size:30 final size:30
Alignment explanation
Indices: 14976120--14976205 Score: 154
Period size: 30 Copynumber: 2.9 Consensus size: 30
14976110 ATTTGATGGT
*
14976120 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
*
14976150 GTAGGTGCAAGTGGGAGGCAAAGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
14976180 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
14976206 CTAGGGTTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.26, C:0.07, G:0.51, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:14976707 original size:68 final size:68
Alignment explanation
Indices: 14976597--14976899 Score: 355
Period size: 68 Copynumber: 4.5 Consensus size: 68
14976587 ATCTTCTTCT
** * *
14976597 GCTGAAACTTCAAGGAGATCTG-CTGTGGCTTTTAGCTTCTCCAACGCCAATTCA-GGAAGGAGA
1 GCTGAAACTTCAAGGAGATCTGTC-GTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AAGA
14976660 AATCC
64 AATCC
* * * *
14976665 ACTGAAACTTCAAGGAGATCAGTCGTGGCTTTTAGCCACTCCAACGCCATTTCA-GGAAGAAGAG
1 GCTGAAACTTCAAGGAGATCTGTCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA-AAGAA
* *
14976729 GTTC
65 ATCC
* * * *
14976733 GCTTAAACTTCAAGGAGATCTG-CTATGGCTTTTAACCGCTCCAATGCCATTTCAGGGAAAA-AA
1 GCTGAAACTTCAAGGAGATCTGTC-GTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAA
*
14976796 GTTCC
65 -ATCC
* * *
14976801 GCTGAAACTTCAAGGAGATCTATTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAGA
1 GCTGAAACTTCAAGGAGATCTGTCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAAA
14976866 TCC
66 TCC
*
14976869 GCTGAAACTTCAAGGAGATCTGTTGTGGCTT
1 GCTGAAACTTCAAGGAGATCTGTCGTGGCTT
14976900 CAAGAAGATA
Statistics
Matches: 201, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
67 2 0.01
68 193 0.96
69 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (68 bp):
GCTGAAACTTCAAGGAGATCTGTCGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAAAAGAAA
TCC
Found at i:14976845 original size:136 final size:135
Alignment explanation
Indices: 14976597--14976899 Score: 407
Period size: 136 Copynumber: 2.2 Consensus size: 135
14976587 ATCTTCTTCT
* **
14976597 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCTTCTCCAACGCCAATTCAGGAAGGAGAAA
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCCAACGCCAATTCAGGAA-GAGAAA
14976662 TCCACTGAAACTTCAAGGAGATCAGTCGTGGCTTTTAGCCACTCCAACGCCATTTCA-GGAAGAA
65 TCCACTGAAACTTCAAGGAGATCAGTCGTGGCTTTTAGCCACTCCAACGCCATTTCAGGGAA-AA
* *
14976726 GAGGTTC
129 GAGATCC
* * * *
14976733 GCTTAAACTTCAAGGAGATCTGCTATGGCTTTTAACCGCTCCAATGCCATTTCAGGGAA-A-AAA
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCCAACGCCAATTCA-GGAAGAGAAA
* * *
14976796 GTTCCGCTGAAACTTCAAGGAGATCTA-TTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGGAA
65 --TCCACTGAAACTTCAAGGAGATC-AGTCGTGGCTTTTAGCCACTCCAACGCCATTTCAGGGAA
14976860 AAGAGATCC
127 AAGAGATCC
*
14976869 GCTGAAACTTCAAGGAGATCTGTTGTGGCTT
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTT
14976900 CAAGAAGATA
Statistics
Matches: 147, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
134 3 0.02
135 1 0.01
136 134 0.91
137 9 0.06
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (135 bp):
GCTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAACCGCTCCAACGCCAATTCAGGAAGAGAAAT
CCACTGAAACTTCAAGGAGATCAGTCGTGGCTTTTAGCCACTCCAACGCCATTTCAGGGAAAAGA
GATCC
Found at i:14977219 original size:87 final size:87
Alignment explanation
Indices: 14977017--14977959 Score: 1355
Period size: 87 Copynumber: 10.9 Consensus size: 87
14977007 TTTCAGCCTA
* * * * *
14977017 TTACCCTATTGCTTAGGGGTTTAAGGCCCATCACCTTCAATCTATTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
14977082 TAAGATCTTGTAAA-TCCAGCCTG
66 TAAGATC-TGTAAATTCCA-CCTG
* * *
14977105 TTACCCTACTACTTAGGGGTTTAAGGTCTATCGCCTTCGATCTGTTTCCCTACTACTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
* *
14977170 TAAGATCTGTAAACTCCACCTA
66 TAAGATCTGTAAATTCCACCTG
* *
14977192 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCACCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
**
14977257 TAAGATCTGTAAATTTAACCTG
66 TAAGATCTGTAAATTCCACCTG
* * *
14977279 TTACCCTACTGTTTAGGGGTTTAAAGG-CCATCTCCTTCGATCTGTTTCCCTACTACTTAGGGGG
1 TTACCCTACTGCTTAGGGGTTT-AAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGG
14977343 TTAAGATCTGTAAATTCCACCTG
65 TTAAGATCTGTAAATTCCACCTG
* * * *
14977366 TTACCCTACTGCTTAGGTGTTTAAGGTTCATCACCTTCGATCTATTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
14977431 TAAGATCTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
* * *
14977453 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGATTCCCTACTACTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
14977518 TAAGATCTGTAAATTCCACCTG
66 TAAGATCTGTAAATTCCACCTG
*
14977540 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTTGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
14977605 TAAGATCTGTAAA-TCCAACCTG
66 TAAGATCTGTAAATTCC-ACCTG
*
14977627 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
14977692 TAAGATCTGTAAATT-TAGCCTG
66 TAAGATCTGTAAATTCCA-CCTG
* * * * * * *
14977714 TTACCCTACTAC-TAGGGAG-TTAAGGCCCGTCGCTTTCGATTTGTTTCCCTACTACTTTGGGGG
1 TTACCCTACTGCTTAGGG-GTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGG
* *
14977777 TTAAGATCTGTAAATTCAACCTA
65 TTAAGATCTGTAAATTCCACCTG
*
14977800 TTACCCTACTGCTTAGGGGTTTAAGGTTCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
1 TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
*
14977865 TAAGATCTGTAAATT-TAGCCTG
66 TAAGATCTGTAAATTCCA-CCTG
* * * * *
14977887 TTACCCTACTACTTAGGGAG-TTAAGGCCCGTCGCTTTCGATCTATTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGG-GTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
14977951 TCAA-ATCTG
65 TTAAGATCTG
14977960 CTATCTTCAA
Statistics
Matches: 774, Mismatches: 69, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
86 87 0.11
87 613 0.79
88 74 0.10
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (87 bp):
TTACCCTACTGCTTAGGGGTTTAAGGTCCATCGCCTTCGATCTGTTTCCCTACTGCTTAGGGGGT
TAAGATCTGTAAATTCCACCTG
Found at i:14978189 original size:132 final size:132
Alignment explanation
Indices: 14977952--14978884 Score: 1418
Period size: 132 Copynumber: 7.1 Consensus size: 132
14977942 CTTAGGGGGT
* * * * *
14977952 CAAATCTGCTATCTTCAACTTGTTCCCTATAAACACATGGATGCCATACTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
14978017 CTTCACTGTAAGCACAGTAATGTCAGATCAT-CTATCTTCGATCTGTTCCCTATAAACACAGGGA
66 CTTCACTGTAAGCACAGGAATGTCAGATC-TGTTATCTTCGATCTGTTCCCTATAAACACAGGGA
14978081 TGC
130 TGC
* * * *
14978084 CAAATCTGCTATTTTCAACTTGTTCCTTATAAGTACAGGGGTGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
14978149 CTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACCCAGGAAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
14978214 GC
131 GC
* * *
14978216 CAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATACTGAAATCTTCAATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
14978281 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCAATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
*
14978346 GT
131 GC
* * * *
14978348 TAAATCTGTTATTTTCAACTTGTTCCCTATAAGCACAAGGATGCCATGCTGAAATCTTTGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* *
14978413 CTTCACTATAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAGCACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
*
14978478 AC
131 GC
* * *
14978480 CAAATATGCTATTTTCAACTTGTTCCCTATAAGCACAGGAATGCCATGCTGAAATATTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
14978545 CTTCACTGTAAGTACAGGAATGTTAGATCTGTTATCTTCGATATGTTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
14978610 GC
131 GC
** * *
14978612 CAAATCTATTATTTTCAACTTGTTCCCTATAAGCACAGGGATGTCATGCTGAAACCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * *
14978677 TTTCACTGTAAGCATAGGAATGTCAGATCTGTTATCTTCGATCTATTCCCTATAAACACAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
14978742 GC
131 GC
14978744 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
1 CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
* * * * * * * *
14978809 CTTCATTGTAAGTACGGGAATGTCAGATCTGCTATCTTTGATATGTTCCCTACAAACATAGGGAT
66 CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
14978874 GC
131 GC
14978876 CAAATCTGC
1 CAAATCTGC
14978885 AATCTTCGAT
Statistics
Matches: 725, Mismatches: 75, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
131 1 0.00
132 724 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
CAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTG
CTTCACTGTAAGCACAGGAATGTCAGATCTGTTATCTTCGATCTGTTCCCTATAAACACAGGGAT
GC
Found at i:14979012 original size:88 final size:88
Alignment explanation
Indices: 14978887--14979118 Score: 369
Period size: 88 Copynumber: 2.6 Consensus size: 88
14978877 AAATCTGCAA
* * * *
14978887 TCTTCGATCTACTCTCCGCC--GCTACAGAGACGCCAAATCATCTTGGATTTGCTTCAACGTAAA
1 TCTTCGATCTGCTCCCCGCCTAG-TACAGAGACGCCAAATCATCTTGGATCTGCTTCAACATAAA
*
14978950 CACGTGAAATCCAAATCAGCTATG
65 CACGTGAAAGCCAAATCAGCTATG
*
14978974 TCTTCGATCTGCTCCCCGCCTAGTACAGAGATGCCAAATCATCTTGGATCTGCTTCAACATAAAC
1 TCTTCGATCTGCTCCCCGCCTAGTACAGAGACGCCAAATCATCTTGGATCTGCTTCAACATAAAC
14979039 ACGTGAAAGCCAAATCAGCTATG
66 ACGTGAAAGCCAAATCAGCTATG
* *
14979062 TCTTCGATCTGCTCCCCGCCTAATACAGAGACGCCAAATCATCTTAGATCTGCTTCA
1 TCTTCGATCTGCTCCCCGCCTAGTACAGAGACGCCAAATCATCTTGGATCTGCTTCA
14979119 GCAAAGGTCA
Statistics
Matches: 134, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
87 18 0.13
88 115 0.86
89 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (88 bp):
TCTTCGATCTGCTCCCCGCCTAGTACAGAGACGCCAAATCATCTTGGATCTGCTTCAACATAAAC
ACGTGAAAGCCAAATCAGCTATG
Found at i:14979098 original size:47 final size:47
Alignment explanation
Indices: 14978960--14979102 Score: 131
Period size: 47 Copynumber: 3.2 Consensus size: 47
14978950 CACGTGAAAT
* *
14978960 CCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTAGTACAGAGATG
1 CCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGAAG
* * ** * *
14979007 CCAAAT---C-A--TCTTGGATCTGCT-TCAACATAA-ACACGTGAAAG
1 CCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTAATACA-GAG-AAG
*
14979048 CCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGACG
1 CCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGAAG
14979095 CCAAATCA
1 CCAAATCA
14979103 TCTTAGATCT
Statistics
Matches: 71, Mismatches: 15, Indels: 20
0.67 0.14 0.19
Matches are distributed among these distances:
39 3 0.04
40 6 0.08
41 20 0.28
43 1 0.01
44 2 0.03
45 1 0.01
47 28 0.39
48 7 0.10
49 3 0.04
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (47 bp):
CCAAATCAGCTATGTCTTCGATCTGCTCCCCGCCTAATACAGAGAAG
Found at i:14980987 original size:8 final size:8
Alignment explanation
Indices: 14980976--14981055 Score: 72
Period size: 8 Copynumber: 9.9 Consensus size: 8
14980966 CTTTTTGGCA
14980976 TTTTTTTG
1 TTTTTTTG
14980984 TTTTTTTG
1 TTTTTTTG
14980992 TTTTTTTTG
1 -TTTTTTTG
*
14981001 TTGTTTTG
1 TTTTTTTG
* *
14981009 TTTTCTTC
1 TTTTTTTG
* *
14981017 TTCTTCT-
1 TTTTTTTG
*
14981024 TTTTTGTG
1 TTTTTTTG
14981032 TTTTTTTTG
1 -TTTTTTTG
*
14981041 TTTTTTTA
1 TTTTTTTG
14981049 TTTTTTT
1 TTTTTTT
14981056 AAAATTTTGA
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
7 5 0.09
8 38 0.66
9 15 0.26
ACGTcount: A:0.01, C:0.05, G:0.10, T:0.84
Consensus pattern (8 bp):
TTTTTTTG
Found at i:14981055 original size:9 final size:9
Alignment explanation
Indices: 14980976--14981047 Score: 67
Period size: 9 Copynumber: 7.7 Consensus size: 9
14980966 CTTTTTGGCA
14980976 TTTTTTTG-
1 TTTTTTTGT
14980984 TTTTTTTGT
1 TTTTTTTGT
14980993 TTTTTTTGT
1 TTTTTTTGT
14981002 TGTTTTGTT-T
1 T-TTTT-TTGT
*
14981012 TCTTCTTCTTCT
1 T-TT-TT-TTGT
*
14981024 TTTTTGTGT
1 TTTTTTTGT
14981033 TTTTTTTGT
1 TTTTTTTGT
14981042 TTTTTT
1 TTTTTT
14981048 ATTTTTTTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
8 8 0.15
9 26 0.48
10 10 0.19
11 8 0.15
12 2 0.04
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:14986020 original size:3 final size:3
Alignment explanation
Indices: 14986007--14986084 Score: 56
Period size: 3 Copynumber: 25.3 Consensus size: 3
14985997 GAGGGTATAT
14986007 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
14986051 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
14986085 AAAATAAAAC
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
2 7 0.11
3 43 0.70
4 9 0.15
5 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14986031 original size:12 final size:12
Alignment explanation
Indices: 14986007--14986084 Score: 72
Period size: 12 Copynumber: 6.3 Consensus size: 12
14985997 GAGGGTATAT
14986007 ATAATAT-AATA
1 ATAATATAAATA
14986018 ATAATATAAATA
1 ATAATATAAATA
14986030 ATAATATATACATGA
1 ATAATATA-A-AT-A
14986045 GA-AATA-ATAATA
1 -ATAATATA-AATA
14986057 ATAATATAAATA
1 ATAATATAAATA
* *
14986069 ATAGTAAAAATA
1 ATAATATAAATA
14986081 ATAA
1 ATAA
14986085 AAAATAAAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
11 8 0.14
12 34 0.60
13 4 0.07
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:14986051 original size:21 final size:18
Alignment explanation
Indices: 14986012--14986071 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
14986002 TATATATAAT
*
14986012 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
14986030 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
14986051 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
14986069 ATA
1 ATA
14986072 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:14986080 original size:27 final size:27
Alignment explanation
Indices: 14986007--14986092 Score: 76
Period size: 25 Copynumber: 3.4 Consensus size: 27
14985997 GAGGGTATAT
* *
14986007 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
14986033 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
14986057 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
*
14986084 A-AAAATAAA
1 ATAATATAAA
14986093 ACAAAGCTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 11 0.23
27 10 0.21
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:14986607 original size:30 final size:30
Alignment explanation
Indices: 14986573--14986658 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
14986563 ATTTGATGGT
*
14986573 GTAGGTGCAAGTGGGAGACAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
14986603 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
1 GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
14986633 GTAGGTGCAAGTGGGAGGCAAGGTGG
1 GTAGGTGCAAGTGGGAGGCAAGGTGG
14986659 CTAGGGTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.24, C:0.07, G:0.52, T:0.16
Consensus pattern (30 bp):
GTAGGTGCAAGTGGGAGGCAAGGTGGTGGA
Found at i:14986656 original size:18 final size:18
Alignment explanation
Indices: 14986605--14986657 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
14986595 GTGGTGGAGT
14986605 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
*
14986623 AGGTG---GT-GGA-G-T
1 AGGTGCAAGTGGGAGGCA
14986635 AGGTGCAAGTGGGAGGCA
1 AGGTGCAAGTGGGAGGCA
14986653 AGGTG
1 AGGTG
14986658 GCTAGGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 5 0.19
13 1 0.04
14 3 0.11
15 4 0.15
16 3 0.11
17 1 0.04
18 10 0.37
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.15
Consensus pattern (18 bp):
AGGTGCAAGTGGGAGGCA
Found at i:14987701 original size:18 final size:18
Alignment explanation
Indices: 14987678--14987713 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14987668 TAATTGAGAT
14987678 CATTTTTGAAATCGAGGC
1 CATTTTTGAAATCGAGGC
14987696 CATTTTTGAAATCGAGGC
1 CATTTTTGAAATCGAGGC
14987714 TCAAATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
CATTTTTGAAATCGAGGC
Found at i:14987724 original size:19 final size:18
Alignment explanation
Indices: 14987682--14987725 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14987672 TGAGATCATT
**
14987682 TTTGAAATCGAGGCCATT
1 TTTGAAATCGAGGCCAAA
14987700 TTTGAAATCGAGGCTCAAA
1 TTTGAAATCGAGGC-CAAA
14987719 TTTGAAA
1 TTTGAAA
14987726 GATATTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (18 bp):
TTTGAAATCGAGGCCAAA
Found at i:14995042 original size:23 final size:24
Alignment explanation
Indices: 14995013--14995062 Score: 75
Period size: 23 Copynumber: 2.1 Consensus size: 24
14995003 TAATCACTTT
14995013 AATATTAAATCTAATATAATA-TA
1 AATATTAAATCTAATATAATATTA
* *
14995036 AATATTAAATTTAATTTAATATTA
1 AATATTAAATCTAATATAATATTA
14995060 AAT
1 AAT
14995063 CTTGTTAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AATATTAAATCTAATATAATATTA
Found at i:14996222 original size:61 final size:61
Alignment explanation
Indices: 14996152--14996267 Score: 232
Period size: 61 Copynumber: 1.9 Consensus size: 61
14996142 TTAATTATTA
14996152 ATATAATCACTGTCTACAAATGACTATGATAAATTGCTTGTTTGAAAACAAGCAATTTATC
1 ATATAATCACTGTCTACAAATGACTATGATAAATTGCTTGTTTGAAAACAAGCAATTTATC
14996213 ATATAATCACTGTCTACAAATGACTATGATAAATTGCTTGTTTGAAAACAAGCAA
1 ATATAATCACTGTCTACAAATGACTATGATAAATTGCTTGTTTGAAAACAAGCAA
14996268 CCCGTGGCCA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (61 bp):
ATATAATCACTGTCTACAAATGACTATGATAAATTGCTTGTTTGAAAACAAGCAATTTATC
Found at i:15002390 original size:37 final size:37
Alignment explanation
Indices: 15002339--15002414 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
15002329 TTTGGGTCAA
*
15002339 TTAATAAATGCATGAATCACAAAAACATATAATCATC
1 TTAATAAATACATGAATCACAAAAACATATAATCATC
15002376 TTAATAAATACATGAATCACAAAAACATATAATCATC
1 TTAATAAATACATGAATCACAAAAACATATAATCATC
15002413 TT
1 TT
15002415 GATATTTCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (37 bp):
TTAATAAATACATGAATCACAAAAACATATAATCATC
Found at i:15006120 original size:5 final size:5
Alignment explanation
Indices: 15006110--15006136 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15006100 TTCTAATGTA
15006110 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
15006137 TATATACTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:15007111 original size:16 final size:16
Alignment explanation
Indices: 15007075--15007127 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
15007065 GACTCGAGAT
15007075 TTTTTA-ATTTTGTAA
1 TTTTTATATTTTGTAA
*
15007090 TATTTTATATTTTGTTA
1 T-TTTTATATTTTGTAA
15007107 TTTTTATATATTATGTAA
1 TTTTTATAT-TT-TGTAA
15007125 TTT
1 TTT
15007128 GTAACGTATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 1 0.03
16 13 0.41
17 11 0.34
18 7 0.22
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTTTTATATTTTGTAA
Found at i:15007118 original size:18 final size:17
Alignment explanation
Indices: 15007073--15007127 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
15007063 AAGACTCGAG
15007073 ATTTTTTA-ATTTTGTA
1 ATTTTTTATATTTTGTA
* *
15007089 ATATTTTATATTTTGTT
1 ATTTTTTATATTTTGTA
*
15007106 ATTTTTATATATTATGTA
1 ATTTTT-TATATTTTGTA
15007124 ATTT
1 ATTT
15007128 GTAACGTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 7 0.22
17 12 0.38
18 13 0.41
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.67
Consensus pattern (17 bp):
ATTTTTTATATTTTGTA
Found at i:15007225 original size:17 final size:17
Alignment explanation
Indices: 15007204--15007250 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
15007194 TAGAATTATT
15007204 AAATATTAAAT-TAAAA
1 AAATATTAAATATAAAA
15007220 ATAATA-TAAATATAAAA
1 A-AATATTAAATATAAAA
*
15007237 AAAT-TTAAAAATAA
1 AAATATTAAATATAA
15007251 TATGAGTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATATTAAATATAAAA
Found at i:15007672 original size:22 final size:22
Alignment explanation
Indices: 15007622--15007664 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
15007612 ACAAAAATAA
15007622 AATAAAAGCCCACTGTTAAAAT
1 AATAAAAGCCCACTGTTAAAAT
* *
15007644 AATAAAAGCCTAGTGTTAAAA
1 AATAAAAGCCCACTGTTAAAA
15007665 ACTTAAAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.51, C:0.14, G:0.12, T:0.23
Consensus pattern (22 bp):
AATAAAAGCCCACTGTTAAAAT
Found at i:15013294 original size:12 final size:11
Alignment explanation
Indices: 15013268--15013294 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
15013258 TTGTTTTCAG
15013268 TTTTTTTTTTC
1 TTTTTTTTTTC
15013279 TTTTTTTTTTC
1 TTTTTTTTTTC
15013290 TTTTT
1 TTTTT
15013295 GGGACATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTTTC
Found at i:15019032 original size:21 final size:21
Alignment explanation
Indices: 15018989--15019032 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
15018979 TTGTTATATA
* * *
15018989 ATTAATATTTTAATAATTCTT
1 ATTAAAATATTAATAATTATT
*
15019010 ATTAAAATATTAATATTTATT
1 ATTAAAATATTAATAATTATT
15019031 AT
1 AT
15019033 GCTTGTAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTAAAATATTAATAATTATT
Found at i:15027833 original size:15 final size:15
Alignment explanation
Indices: 15027815--15027859 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
15027805 AAAAAAATAA
*
15027815 ATTTTCTATCTTTTT
1 ATTTTCTATCTTTTG
*
15027830 ATTTTTCATTTCTTTTG
1 A-TTTTC-TATCTTTTG
15027847 ATTTTCTATCTTT
1 ATTTTCTATCTTT
15027860 ACATTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 7 0.28
16 10 0.40
17 8 0.32
ACGTcount: A:0.13, C:0.13, G:0.02, T:0.71
Consensus pattern (15 bp):
ATTTTCTATCTTTTG
Found at i:15027865 original size:15 final size:15
Alignment explanation
Indices: 15027815--15027868 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
15027805 AAAAAAATAA
*
15027815 ATTTTCTATCTTTTT
1 ATTTTCTATCTTTTC
* *
15027830 ATTTTTCATTTCTTTTG
1 A-TTTTC-TATCTTTTC
*
15027847 ATTTTCTATCTTTAC
1 ATTTTCTATCTTTTC
15027862 ATTTTCT
1 ATTTTCT
15027869 TCTATTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 14 0.44
16 10 0.31
17 8 0.25
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.69
Consensus pattern (15 bp):
ATTTTCTATCTTTTC
Found at i:15035541 original size:18 final size:17
Alignment explanation
Indices: 15035482--15035541 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
15035472 AAAGGGTGAG
15035482 AAGTAAAAGTTTAGGGAA
1 AAGTAAAAGTTTAGGG-A
* *
15035500 AAATAAAAAGTTT-TGGA
1 AAGT-AAAAGTTTAGGGA
*
15035517 GAGTAAAAGTTTGAGGGA
1 AAGTAAAAGTTT-AGGGA
15035535 AAGTAAA
1 AAGTAAA
15035542 TAGGGGGAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
16 8 0.24
17 3 0.09
18 14 0.42
19 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (17 bp):
AAGTAAAAGTTTAGGGA
Found at i:15044375 original size:59 final size:59
Alignment explanation
Indices: 15044309--15044426 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
15044299 ACCTCTCAGA
15044309 TAACATCCCTTACCTTACATCCTATCGTTGCCCATGAGCCCTACAAGTGATATGGAATG
1 TAACATCCCTTACCTTACATCCTATCGTTGCCCATGAGCCCTACAAGTGATATGGAATG
15044368 TAACATCCCTTACCTTACATCCTATCGTTGCCCATGAGCCCTACAAGTGATATGGAATG
1 TAACATCCCTTACCTTACATCCTATCGTTGCCCATGAGCCCTACAAGTGATATGGAATG
15044427 AGGTGGAAGC
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (59 bp):
TAACATCCCTTACCTTACATCCTATCGTTGCCCATGAGCCCTACAAGTGATATGGAATG
Found at i:15047611 original size:16 final size:17
Alignment explanation
Indices: 15047581--15047622 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
15047571 ATTTTTTAAA
15047581 ATTTTTCTTTATTTTT-C
1 ATTTTT-TTTATTTTTGC
*
15047598 ATTTTTTTTGTTTTTGC
1 ATTTTTTTTATTTTTGC
15047615 ATTTTTTT
1 ATTTTTTT
15047623 AATCACTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.79
Consensus pattern (17 bp):
ATTTTTTTTATTTTTGC
Found at i:15050688 original size:25 final size:25
Alignment explanation
Indices: 15050660--15050716 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
15050650 GTTACCGATT
* *
15050660 TCAGCTCTTATAAACTTCTCGATAC
1 TCAGCTCGTATAAACTTCCCGATAC
* * *
15050685 TCAGCTCGTATAAGCTTCCCGTTAT
1 TCAGCTCGTATAAACTTCCCGATAC
15050710 TCAGCTC
1 TCAGCTC
15050717 ACTTGAGCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (25 bp):
TCAGCTCGTATAAACTTCCCGATAC
Found at i:15057478 original size:23 final size:23
Alignment explanation
Indices: 15057452--15057498 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15057442 TTGTTTAGTG
*
15057452 TAAAGGTGGTTACTCGTTTCGAT
1 TAAAAGTGGTTACTCGTTTCGAT
*
15057475 TAAAAGTGGTTGCTCGTTTCGAT
1 TAAAAGTGGTTACTCGTTTCGAT
15057498 T
1 T
15057499 CAATAGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (23 bp):
TAAAAGTGGTTACTCGTTTCGAT
Found at i:15058381 original size:24 final size:25
Alignment explanation
Indices: 15058354--15058400 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15058344 TTTTTTTTTC
15058354 TTGGGCTAG-TTTGGGATTTTTAAT
1 TTGGGCTAGTTTTGGGATTTTTAAT
* *
15058378 TTGGGTTTGTTTTGGGATTTTTA
1 TTGGGCTAGTTTTGGGATTTTTA
15058401 TTTTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.13, C:0.02, G:0.30, T:0.55
Consensus pattern (25 bp):
TTGGGCTAGTTTTGGGATTTTTAAT
Found at i:15058382 original size:14 final size:13
Alignment explanation
Indices: 15058363--15058403 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
15058353 CTTGGGCTAG
15058363 TTTGGGATTTTTAA
1 TTTGGGATTTTT-A
*
15058377 TTTGGG-TTTGT-
1 TTTGGGATTTTTA
15058388 TTTGGGATTTTTA
1 TTTGGGATTTTTA
15058401 TTT
1 TTT
15058404 TATTTTGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
11 6 0.26
12 4 0.17
13 7 0.30
14 6 0.26
ACGTcount: A:0.12, C:0.00, G:0.24, T:0.63
Consensus pattern (13 bp):
TTTGGGATTTTTA
Found at i:15062488 original size:18 final size:19
Alignment explanation
Indices: 15062462--15062497 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15062452 AACAGAAAGG
*
15062462 AAAGGAAGAAAAA-GAAAA
1 AAAGAAAGAAAAACGAAAA
15062480 AAAGAAAGAAAAACGAAA
1 AAAGAAAGAAAAACGAAA
15062498 GACTAAGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAAAACGAAAA
Found at i:15064989 original size:40 final size:40
Alignment explanation
Indices: 15064934--15065017 Score: 125
Period size: 40 Copynumber: 2.1 Consensus size: 40
15064924 AAAATCAAAT
* *
15064934 AGATCGAGTATTAGCGGCGTTTCTAGAA-AAGCGCCGCTAA
1 AGATCGAGAATTAGCGGCATTTCTA-AAGAAGCGCCGCTAA
*
15064974 AGATCGAGAATTAGCGGCATTTTTAAAGAAGCGCCGCTAA
1 AGATCGAGAATTAGCGGCATTTCTAAAGAAGCGCCGCTAA
15065014 AGAT
1 AGAT
15065018 TAACCTAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.05
40 38 0.95
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (40 bp):
AGATCGAGAATTAGCGGCATTTCTAAAGAAGCGCCGCTAA
Found at i:15065921 original size:21 final size:21
Alignment explanation
Indices: 15065897--15065939 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15065887 TCTATAGTCA
*
15065897 TAAATCATAAACTA-TAAACCT
1 TAAACCATAAA-TATTAAACCT
*
15065918 TAAACCCTAAATATTAAACCT
1 TAAACCATAAATATTAAACCT
15065939 T
1 T
15065940 GGATCCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAACCATAAATATTAAACCT
Found at i:15066096 original size:21 final size:22
Alignment explanation
Indices: 15066061--15066106 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
15066051 ATTATAAAAC
*
15066061 ATCTTAAAACTATAAACCCTAA
1 ATCTTAAAACCATAAACCCTAA
15066083 ATCTT-AAACCATAAACCCTAA
1 ATCTTAAAACCATAAACCCTAA
15066104 ATC
1 ATC
15066107 CAAAACAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (22 bp):
ATCTTAAAACCATAAACCCTAA
Found at i:15066112 original size:21 final size:21
Alignment explanation
Indices: 15066066--15066118 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
15066056 AAAACATCTT
* *
15066066 AAAACTATAAACCCTAAATCT
1 AAAACAATAAACCCTAAATCC
* *
15066087 TAAACCATAAACCCTAAATCC
1 AAAACAATAAACCCTAAATCC
15066108 AAAACAATAAA
1 AAAACAATAAA
15066119 ACCTTAAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.19
Consensus pattern (21 bp):
AAAACAATAAACCCTAAATCC
Found at i:15070539 original size:60 final size:59
Alignment explanation
Indices: 15070419--15070555 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
15070409 CAGTGTTAAC
* *
15070419 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTTTCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAG-TTCAGAGTATAT
* **
15070480 TGGGCCTAGCCCATATCAGTATCAATCTGGGCTGTAGCCCTATTACAAG-TCA-AGATATAT
1 TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCC-ATTAC-AGTTCAGAG-TATAT
* *
15070540 TGGGCCTTGGCCATAT
1 TGGGCCTAGCCCATAT
15070556 TAACACAGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
59 2 0.03
60 52 0.79
61 10 0.15
62 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGTTCAGAGTATAT
Found at i:15072573 original size:15 final size:15
Alignment explanation
Indices: 15072553--15072585 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15072543 TTTCCCCATC
15072553 TAATAATAATAATTA
1 TAATAATAATAATTA
15072568 TAATAATAATAATTA
1 TAATAATAATAATTA
15072583 TAA
1 TAA
15072586 ATATATCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:15072596 original size:25 final size:23
Alignment explanation
Indices: 15072568--15072622 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
15072558 ATAATAATTA
*
15072568 TAATAATAATAATTATAAATATATC
1 TAATAATAAAAATT-TAAA-ATATC
*
15072593 TAATAATAAAAATTTCAAATATC
1 TAATAATAAAAATTTAAAATATC
15072616 -AATAATA
1 TAATAATA
15072623 CAGTAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 7 0.25
23 5 0.18
24 3 0.11
25 13 0.46
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.36
Consensus pattern (23 bp):
TAATAATAAAAATTTAAAATATC
Found at i:15072708 original size:19 final size:18
Alignment explanation
Indices: 15072671--15072714 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
15072661 ATACATGCAG
15072671 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
15072688 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
15072707 TACTAATT
1 TAATAATT
15072715 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:15080396 original size:20 final size:21
Alignment explanation
Indices: 15080357--15080401 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
15080347 AACTTAGAGC
*
15080357 GGAGGTAGCAGCGCGGGAGGA
1 GGAGGTAGCAGCGAGGGAGGA
* *
15080378 GGAGGTAG-AGTGAGGGAGGC
1 GGAGGTAGCAGCGAGGGAGGA
15080398 GGAG
1 GGAG
15080402 CAAAACAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.24, C:0.09, G:0.60, T:0.07
Consensus pattern (21 bp):
GGAGGTAGCAGCGAGGGAGGA
Found at i:15086057 original size:7 final size:6
Alignment explanation
Indices: 15086041--15086116 Score: 54
Period size: 7 Copynumber: 12.7 Consensus size: 6
15086031 AAAATTATAC
*
15086041 ATAATA ATAATTA ATAAATA ATTAT- ATAAT- ATAA-A ATAAT- ATAATGA
1 ATAATA ATAA-TA AT-AATA ATAATA ATAATA ATAATA ATAATA ATAAT-A
*
15086088 ATAATA TATAATA A-AATG ATATATA ATAA
1 ATAATA -ATAATA ATAATA ATA-ATA ATAA
15086117 AATGTATAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
5 21 0.37
6 10 0.18
7 24 0.42
8 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (6 bp):
ATAATA
Found at i:15086078 original size:22 final size:22
Alignment explanation
Indices: 15086053--15086115 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
15086043 AATAATAATT
15086053 AATAAATAATTATATAATATAA
1 AATAAATAATTATATAATATAA
* *
15086075 AATAATATAATGA-ATAATATAT
1 AATAA-ATAATTATATAATATAA
*
15086097 AATAAAATGA-TATATAATA
1 AAT-AAATAATTATATAATA
15086116 AAATGTATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.03
22 25 0.74
23 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (22 bp):
AATAAATAATTATATAATATAA
Found at i:15086082 original size:15 final size:15
Alignment explanation
Indices: 15086041--15086139 Score: 56
Period size: 15 Copynumber: 7.0 Consensus size: 15
15086031 AAAATTATAC
15086041 ATAATAATAAT-TAAT
1 ATAA-AATAATATAAT
*
15086056 A-AATAATTATATAAT
1 ATAA-AATAATATAAT
15086071 ATAAAATAATAT-A-
1 ATAAAATAATATAAT
*
15086084 AT-GAATAATAT-AT
1 ATAAAATAATATAAT
*
15086097 AATAAAATGATAT-AT
1 -ATAAAATAATATAAT
*
15086112 AATAAAAT-GTATAA-
1 -ATAAAATAATATAAT
15086126 ATAAAAT-ATATAAT
1 ATAAAATAATATAAT
15086140 TAGAGGTGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
12 9 0.13
13 14 0.20
14 14 0.20
15 31 0.44
16 2 0.03
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
ATAAAATAATATAAT
Found at i:15086113 original size:12 final size:12
Alignment explanation
Indices: 15086071--15086139 Score: 66
Period size: 13 Copynumber: 5.2 Consensus size: 12
15086061 ATTATATAAT
15086071 ATAAAATAATATA
1 ATAAAAT-ATATA
15086084 ATGAATAATATATA
1 AT-AA-AATATATA
15086098 ATAAAATGATATATA
1 AT-AAA--ATATATA
*
15086113 ATAAAATGTATAA
1 ATAAAATATAT-A
15086126 ATAAAATATATA
1 ATAAAATATATA
15086138 AT
1 AT
15086140 TAGAGGTGTG
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
12 8 0.17
13 14 0.29
14 14 0.29
15 12 0.25
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (12 bp):
ATAAAATATATA
Found at i:15086124 original size:27 final size:29
Alignment explanation
Indices: 15086036--15086137 Score: 99
Period size: 29 Copynumber: 3.6 Consensus size: 29
15086026 TTTAAAAAAT
* *
15086036 TATACATAATAATA-AT-TAATAAATAATTA
1 TATAAATAA-AATATATATAATGAATAA-TA
15086065 TATAATATAAAATA-ATATAATGAATAATA
1 TATAA-ATAAAATATATATAATGAATAATA
*
15086094 TAT-AATAAAATGATATATAAT-AA-AATG
1 TATAAATAAAAT-ATATATAATGAATAATA
15086121 TATAAATAAAATATATA
1 TATAAATAAAATATATA
15086138 ATTAGAGGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
27 18 0.28
28 12 0.18
29 22 0.34
30 13 0.20
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (29 bp):
TATAAATAAAATATATATAATGAATAATA
Found at i:15086355 original size:23 final size:23
Alignment explanation
Indices: 15086329--15086384 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
15086319 ATATAATAAA
** *
15086329 TATATATATTTTTTATTTTTAAT
1 TATATATAAATTTTAATTTTAAT
*
15086352 TATATTTAAATTTTAATTTTAAT
1 TATATATAAATTTTAATTTTAAT
*
15086375 TTTAATATAA
1 TAT-ATATAA
15086385 TCAATTTTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
TATATATAAATTTTAATTTTAAT
Found at i:15086366 original size:7 final size:6
Alignment explanation
Indices: 15086339--15086380 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
15086329 TATATATATT
* * *
15086339 TTTTAT TTTTAA TTAT-A TTTAAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
15086381 ATAATCAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 3 0.10
6 27 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTAA
Found at i:15086441 original size:40 final size:40
Alignment explanation
Indices: 15086397--15086477 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
15086387 AATTTTTATT
15086397 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
** * * * *
15086437 ATATATTTTTTATTTGTTTCTTGTTTTAATATTTGTTTTA
1 ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
15086477 A
1 A
15086478 ATGTATTTGA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (40 bp):
ATATATTTTCAATTTGTGTATTGTTTTAAGAATTGTTTTA
Found at i:15086856 original size:25 final size:25
Alignment explanation
Indices: 15086796--15086849 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
15086786 ATTTATAATA
* *
15086796 AAAATAAATAATATATAAAATATTT
1 AAAATAAATTATATATAAAAAATTT
15086821 AAAATAAATTATATATAAAAAATTT
1 AAAATAAATTATATATAAAAAATTT
15086846 AAAA
1 AAAA
15086850 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAATAAATTATATATAAAAAATTT
Found at i:15088432 original size:45 final size:45
Alignment explanation
Indices: 15088390--15089267 Score: 326
Period size: 45 Copynumber: 20.0 Consensus size: 45
15088380 CAGATCTATT
* * *
15088390 ATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* * *
15088435 ATCTTCGA--T-CT----G-C--ATACA-A-ATGTCAGATCTGTT
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* *
15088468 ATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* * * * * *
15088513 ATATTCGATCTGCT--TCGATGTAA-ACACACGAATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGTCAAATCTGTC
* * *
15088557 TATCTTCAATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTATC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* * * ** *
15088603 ATCTTCGATCTGCT--TCGATGTAA-ACATATGAATATCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGTCAAATCTGTC
* * *
15088647 TATCTTTGACCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
*** * * * *
15088693 ATCTTCGATCTG-T-TTTGATGTAA-ACACACGAATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGTCAAATCTGTC
* * * * *
15088737 TGTCTTCGATTTGCTCCCCATCTAATATAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* * * * *
15088783 ATCTTCGATCTACT--TCGATGTAA-ACACACGAATGTC---TGCTGT-
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGTCAAAT-CTGTC
* * * *
15088825 A--TTCGATTTGTTCCCTGTCTAATACAGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* * * * *
15088868 ATCTTCGATCTGCT--TCGATGTAA-ACACACGAATGTCAGATCTG-C
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGTCAAATCTGTC
* *
15088912 TATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* ** * * * *
15088958 ATCTTCGATCTGCTTCGAGT-AAACACACGA-ATG-CTAGATCTG-C
1 ATCTTCGATCTGCTCCCCGTCTAATACA-GAGACGTC-AAATCTGTC
* *
15089001 TATCTTCGATATGCTCCCCGTCTAATACAGAGACGCCAAATCTGTC
1 -ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* ** * * * * * *
15089047 ATCTTCGATCTACT--TTGATGTAA-ACACACGAATGCCAGATCTGTT
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGTCAAATCTGTC
* *
15089092 ATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* * * * *
15089137 ATCTTCGATCTGCT--TCGATGTAA-ACACACGAATGTCAGATCTGAT-
1 ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGTCAAATCTG-TC
* * * * * *
15089182 ATCTTCGATCTACTCCCTGCCTAATACAGAGATGCCAAATCT-AC
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
* * * * *
15089226 TTCTTCGATTTGTTCCCCGTC-AATACAGAGATGCCAAATCTG
1 ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTG
15089268 CTATCTACAT
Statistics
Matches: 595, Mismatches: 159, Indels: 159
0.65 0.17 0.17
Matches are distributed among these distances:
33 16 0.03
34 1 0.00
35 6 0.01
36 2 0.00
37 1 0.00
38 1 0.00
40 12 0.02
41 6 0.01
42 13 0.02
43 69 0.12
44 87 0.15
45 315 0.53
46 37 0.06
47 29 0.05
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTTCGATCTGCTCCCCGTCTAATACAGAGACGTCAAATCTGTC
Found at i:15088501 original size:78 final size:81
Alignment explanation
Indices: 15088372--15089234 Score: 588
Period size: 90 Copynumber: 9.9 Consensus size: 81
15088362 ATGTAACAAC
*
15088372 ACAAATGTCAGATCTATTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCAT
1 ACAAATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCAT
15088437 CTTCGATCTGC-A-T-
66 CTTCGATCTGCGAGTA
*
15088450 ACAAATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCAT
1 ACAAATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCAT
*
15088515 ATTCGATCTGCTTCGATGTAAA
66 CTTCGATCTG---CGA-GT--A
* ** * *
15088537 CACACGAATGTCAGATCTGCTATCTTCAATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTAT
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
15088602 CATCTTCGATCTGCTTCGATGTAA
63 CATCTTCGATCTG---CGA-GT-A
* * * *
15088626 ACATATGAATATCAGATCTGCTATCTTTGACCTGCTCCCCGTCTAATACAGAGACGCCAAATCTG
1 AC--A--AATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTA
*
15088691 TCATCTTCGATCTGTTTTGATGTAAA
62 TCATCTTCGATCTG---CGA-GT--A
* * * * * * *
15088717 CACACGAATGTCAGATCTGCTGTCTTCGATTTGCTCCCCATCTAATATAGAGACGCCAAATCTGT
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
*
15088782 CATCTTCGATCTACTTCGATGTAA
63 CATCTTCGA--T-CTGCGA-GT-A
* * * * * * * * * * *
15088806 ACACACG-AATG-TCTGCTGTATTCGATTTGTTCCCTGTCTAATACAGAGACGCCAAATCTGTCA
1 ACAAATGTCA-GATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCA
15088869 TCTTCGATCTGCTTCGATGTAAA
65 TCTTCGATCTG---CGA-GT--A
* * * *
15088892 CACACGAATGTCAGATCTGCTATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
15088957 CATCTTCGATCTGCTTCGAGTAAA
63 CATCTTCGATCTG---CGAGT--A
* * * *
15088981 CACACGAATG-CTAGATCTGCTATCTTCGATATGCTCCCCGTCTAATACAGAGACGCCAAATCTG
1 -ACA--AATGTC-AGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTA
*
15089045 TCATCTTCGATCTACTTTGATGTAAA
62 TCATCTTCGATCTGC---GA-GT--A
* * * *
15089071 CACACGAATGCCAGATCTGTTATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGT
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
15089136 CATCTTCGATCTGCTTCGATGTAAA
63 CATCTTCGATCTG---CGA-GT--A
* * * * * *
15089161 CACACGAATGTCAGATCTGATATCTTCGATCTACTCCCTGCCTAATACAGAGATGCCAAATCTA-
1 -ACA--AATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTAT
*
15089225 CTTCTTCGAT
63 CATCTTCGAT
15089235 TTGTTCCCCG
Statistics
Matches: 686, Mismatches: 61, Indels: 65
0.84 0.08 0.08
Matches are distributed among these distances:
78 72 0.10
81 1 0.00
82 3 0.00
83 1 0.00
84 1 0.00
85 61 0.09
86 6 0.01
87 3 0.00
88 9 0.01
89 97 0.14
90 423 0.62
91 3 0.00
92 3 0.00
93 3 0.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (81 bp):
ACAAATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATCAT
CTTCGATCTGCGAGTA
Found at i:15088610 original size:90 final size:90
Alignment explanation
Indices: 15088453--15089223 Score: 1169
Period size: 90 Copynumber: 8.6 Consensus size: 90
15088443 TCTGCATACA
* * *
15088453 AATGTCAGATCTGTTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATATT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
15088518 CGATCTGCTTCGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* * * *
15088543 AATGTCAGATCTGCTATCTTCAATCTGCTCCCTGTCTAATACAGAGACGTCAAATCTATCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
* *
15088608 CGATCTGCTTCGATGTAAACATATG
66 CGATCTGCTTCGATGTAAACACACG
* * *
15088633 AATATCAGATCTGCTATCTTTGACCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
* *
15088698 CGATCTGTTTTGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* * * *
15088723 AATGTCAGATCTGCTGTCTTCGATTTGCTCCCCATCTAATATAGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
*
15088788 CGATCTACTTCGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* * * *
15088813 AATGTCTG--CTG-TA--TTCGATTTGTTCCCTGTCTAATACAGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
15088873 CGATCTGCTTCGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
*
15088898 AATGTCAGATCTGCTATCTTCGATTTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
15088963 CGATCTGCTTCGA-GTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
*
15088987 AATG-CTAGATCTGCTATCTTCGATATGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
1 AATGTC-AGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCT
* *
15089051 TCGATCTACTTTGATGTAAACACACG
65 TCGATCTGCTTCGATGTAAACACACG
* * *
15089077 AATGCCAGATCTGTTATCTTCGATCTGCTCCCCGTCTAATACGGAGACGCCAAATCTGTCATCTT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
15089142 CGATCTGCTTCGATGTAAACACACG
66 CGATCTGCTTCGATGTAAACACACG
* * * * *
15089167 AATGTCAGATCTGATATCTTCGATCTACTCCCTGCCTAATACAGAGATGCCAAATCT
1 AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCT
15089224 ACTTCTTCGA
Statistics
Matches: 618, Mismatches: 55, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
85 74 0.12
87 4 0.01
88 6 0.01
89 84 0.14
90 449 0.73
91 1 0.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (90 bp):
AATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTCATCTT
CGATCTGCTTCGATGTAAACACACG
Found at i:15100992 original size:14 final size:14
Alignment explanation
Indices: 15100973--15101002 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15100963 AAATACAAAT
15100973 AATTTACAAAATAA
1 AATTTACAAAATAA
*
15100987 AATTTACATAATAA
1 AATTTACAAAATAA
15101001 AA
1 AA
15101003 CAATATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATTTACAAAATAA
Found at i:15101353 original size:10 final size:10
Alignment explanation
Indices: 15101338--15101398 Score: 52
Period size: 10 Copynumber: 5.7 Consensus size: 10
15101328 AAAATTATAC
15101338 ATAATAATAA
1 ATAATAATAA
15101348 ATAATAAATAA
1 ATAAT-AATAA
*
15101359 TTATATAATATA
1 ATA-ATAATA-A
15101371 A-AATAATATA
1 ATAATAATA-A
*
15101381 ATGAATAATAT
1 AT-AATAATAA
15101392 ATAATAA
1 ATAATAA
15101399 AATGATATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
10 19 0.44
11 14 0.33
12 10 0.23
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (10 bp):
ATAATAATAA
Found at i:15101368 original size:15 final size:14
Alignment explanation
Indices: 15101340--15101439 Score: 84
Period size: 15 Copynumber: 7.1 Consensus size: 14
15101330 AATTATACAT
*
15101340 AATAATAAATAATA
1 AATAATATATAATA
15101354 AATAATTATATAATA
1 AATAA-TATATAATA
*
15101369 TAA-AATAATATAATG
1 -AATAAT-ATATAATA
15101384 AATAATATATAATAA
1 AATAATATATAAT-A
*
15101399 AATGATATATAAT-
1 AATAATATATAATA
*
15101412 AA-AATGTATAA-A
1 AATAATATATAATA
15101424 TAA-AATATATAATA
1 -AATAATATATAATA
15101438 AA
1 AA
15101440 ATATGAACAA
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
12 7 0.10
13 14 0.20
14 16 0.23
15 32 0.45
16 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AATAATATATAATA
Found at i:15101399 original size:27 final size:27
Alignment explanation
Indices: 15101328--15101443 Score: 93
Period size: 29 Copynumber: 4.3 Consensus size: 27
15101318 ATTTTTTTAA
15101328 AAAAT-TAT-ACATAATAATAA-ATAAT
1 AAAATATATAACATAA-AATAATATAAT
*
15101353 AAATAATTATATAATATAAAATAATATAAT
1 -AA-AA-TATATAACATAAAATAATATAAT
15101383 GAATAATATAT-A-ATAAAATGATATATAAT
1 -AA-AATATATAACATAAAAT-A-ATATAAT
*
15101412 AAAATGTATAA-ATAAAAT-ATATAAT
1 AAAATATATAACATAAAATAATATAAT
15101437 AAAATAT
1 AAAATAT
15101444 GAACAATACA
Statistics
Matches: 78, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
25 13 0.17
26 2 0.03
27 15 0.19
28 13 0.17
29 20 0.26
30 15 0.19
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
AAAATATATAACATAAAATAATATAAT
Found at i:15101410 original size:12 final size:12
Alignment explanation
Indices: 15101328--15101443 Score: 81
Period size: 14 Copynumber: 8.6 Consensus size: 12
15101318 ATTTTTTTAA
15101328 AAAAT-TATACAT
1 AAAATATATA-AT
*
15101340 AATAATAAATAAT
1 AA-AATATATAAT
15101353 AAATAATTATATAATAT
1 -AA-AA-TATAT-A-AT
15101370 AAAATAATATAAT
1 AAAAT-ATATAAT
15101383 GAATAATATATAAT
1 -AA-AATATATAAT
15101397 AAAATGATATATAAT
1 -AAA--ATATATAAT
*
15101412 AAAATGTATAAAT
1 AAAATATAT-AAT
15101425 AAAATATATAAT
1 AAAATATATAAT
15101437 AAAATAT
1 AAAATAT
15101444 GAACAATACA
Statistics
Matches: 87, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
12 17 0.20
13 19 0.22
14 24 0.28
15 22 0.25
16 3 0.03
17 2 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (12 bp):
AAAATATATAAT
Found at i:15101541 original size:25 final size:25
Alignment explanation
Indices: 15101513--15101561 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
15101503 ATAGTAAAAA
* *
15101513 TAAATAATATTTAAAATATTTAAAG
1 TAAATAATATATAAAAAATTTAAAG
*
15101538 TAAATTATATATAAAAAATTTAAA
1 TAAATAATATATAAAAAATTTAAA
15101562 AAGGATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (25 bp):
TAAATAATATATAAAAAATTTAAAG
Found at i:15110367 original size:27 final size:27
Alignment explanation
Indices: 15110329--15110380 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
15110319 CCTCTGCACC
15110329 AGACATCATTACTGGTACATTTTCTCT
1 AGACATCATTACTGGTACATTTTCTCT
15110356 AGACATCATTACTGGTACATTTTCT
1 AGACATCATTACTGGTACATTTTCT
15110381 TTACTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (27 bp):
AGACATCATTACTGGTACATTTTCTCT
Found at i:15110501 original size:35 final size:35
Alignment explanation
Indices: 15110455--15110532 Score: 120
Period size: 35 Copynumber: 2.2 Consensus size: 35
15110445 ATTTAGTGTT
*
15110455 TGTTAAAAATTTACCTATTGAATTCACTGAATTTC
1 TGTTAAAAATTTACCTATAGAATTCACTGAATTTC
* *
15110490 TGTTAAAAATTTACTTATAGAATTCACTGAATTTG
1 TGTTAAAAATTTACCTATAGAATTCACTGAATTTC
15110525 TGGTTAAA
1 T-GTTAAA
15110533 GTTTTAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 33 0.85
36 6 0.15
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (35 bp):
TGTTAAAAATTTACCTATAGAATTCACTGAATTTC
Found at i:15112288 original size:30 final size:30
Alignment explanation
Indices: 15112252--15112312 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
15112242 CATCATGCTC
*
15112252 ATAGTACTAAAGTA-GCCATAAGCACAACTT
1 ATAGTACTAAAGTACG-CATAAACACAACTT
15112282 ATAGTACTAAAGTACGCATAAACACAACTT
1 ATAGTACTAAAGTACGCATAAACACAACTT
15112312 A
1 A
15112313 CTCATCAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (30 bp):
ATAGTACTAAAGTACGCATAAACACAACTT
Found at i:15120958 original size:57 final size:56
Alignment explanation
Indices: 15120865--15120991 Score: 131
Period size: 57 Copynumber: 2.3 Consensus size: 56
15120855 ATATTTTATT
* * **
15120865 ATAAATATTTTAATTA-A-TTATATAATCAATTTAAATTAT-TTATTAGATAAAATG
1 ATAATTATTTTAATTATATTTATATAATAAATAAAAATTATATTATTA-ATAAAATG
* * *
15120919 ATAATTATTTTAATTATATTTTATATAATAAATAAAAATTGTATTGTTAATAATATG
1 ATAATTATTTTAATTATA-TTTATATAATAAATAAAAATTATATTATTAATAAAATG
15120976 -T-ATTATTTT-ATTATAT
1 ATAATTATTTTAATTATAT
15120992 AATAAATACA
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
53 1 0.02
54 21 0.34
55 9 0.15
56 1 0.02
57 25 0.40
58 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (56 bp):
ATAATTATTTTAATTATATTTATATAATAAATAAAAATTATATTATTAATAAAATG
Found at i:15122228 original size:43 final size:43
Alignment explanation
Indices: 15122167--15122253 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
15122157 TAGCTTTCAA
15122167 GTCACTTTTTTAGAGTGTTAACTCCATTTCGAGAACGTAAGTT
1 GTCACTTTTTTAGAGTGTTAACTCCATTTCGAGAACGTAAGTT
15122210 GTCACTTTTTTAGAGTGTTAACTCCATTTCGAGAACGTAAGTT
1 GTCACTTTTTTAGAGTGTTAACTCCATTTCGAGAACGTAAGTT
15122253 G
1 G
15122254 GTAATCTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (43 bp):
GTCACTTTTTTAGAGTGTTAACTCCATTTCGAGAACGTAAGTT
Found at i:15127647 original size:28 final size:28
Alignment explanation
Indices: 15127592--15127649 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
15127582 TTACCATAAA
15127592 TTTAAATTAATTTTTAAATTTTAAAATAT
1 TTTAAATTAATTTTTAAATTTT-AAATAT
* *
15127621 TTTAATTTTATTTTTAAATTATT-AATAT
1 TTTAAATTAATTTTTAAATT-TTAAATAT
15127649 T
1 T
15127650 ATATCAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 18 0.69
30 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTTAAATTAATTTTTAAATTTTAAATAT
Found at i:15137388 original size:48 final size:45
Alignment explanation
Indices: 15137290--15137415 Score: 139
Period size: 48 Copynumber: 2.7 Consensus size: 45
15137280 CAAGAGCTAG
* * * *
15137290 TGTAAGA-CATGTTTGGGACATGCATCGGCTAC-AGGATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGCATCGGC-ACGAAGAGGTGTCAA
15137334 TGTAAGACCATGTCTGGGACATAGCATCGGCACGTATAGAGGTGTCAA
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCACG-A-AGAGGTGTCAA
* *
15137382 TGTAAGACCATGTCTGTGATATTGCATCGGCACG
1 TGTAAGACCATGTCTGGGACA-TGCATCGGCACG
15137416 GATATATGAA
Statistics
Matches: 70, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
44 7 0.10
45 15 0.21
46 8 0.11
47 1 0.01
48 38 0.54
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCACGAAGAGGTGTCAA
Found at i:15137733 original size:28 final size:28
Alignment explanation
Indices: 15137693--15137752 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
15137683 TTGAAATGTA
15137693 TGAGAGACACGGGC-GTGTCATGGCCGTG
1 TGAGAGACACGGGCAGTGTCA-GGCCGTG
15137721 TGAGAGACACGGGCATGTGTCAGGCCGTG
1 TGAGAGACACGGGCA-GTGTCAGGCCGTG
15137750 TGA
1 TGA
15137753 AAACCCTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
28 14 0.47
29 10 0.33
30 6 0.20
ACGTcount: A:0.20, C:0.20, G:0.42, T:0.18
Consensus pattern (28 bp):
TGAGAGACACGGGCAGTGTCAGGCCGTG
Found at i:15140741 original size:43 final size:43
Alignment explanation
Indices: 15140693--15140778 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
15140683 ATCACATGTA
* **
15140693 TTGCATCCATTATGAACTTGGACCACTCAACAAGCTCGGATGC
1 TTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGGATGC
*
15140736 TTGCATCCATAATGAACTCAGACCACTCAACGAGCTCGGATGC
1 TTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGGATGC
15140779 CACGTATATC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (43 bp):
TTGCATCCATAATGAACTCAGACCACTCAACAAGCTCGGATGC
Found at i:15146979 original size:21 final size:19
Alignment explanation
Indices: 15146953--15146995 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
15146943 TTTAACTAGT
15146953 TCAAAACAAGATCAAATACAA
1 TCAAAACAAG-TCAAA-ACAA
*
15146974 TCAAAACATGTCAAAACAA
1 TCAAAACAAGTCAAAACAA
15146993 TCA
1 TCA
15146996 TCCTAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 5 0.24
21 9 0.43
ACGTcount: A:0.58, C:0.21, G:0.05, T:0.16
Consensus pattern (19 bp):
TCAAAACAAGTCAAAACAA
Found at i:15149118 original size:5 final size:5
Alignment explanation
Indices: 15149101--15149132 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
15149091 TTATGTTTTA
*
15149101 ATTAT ATTGT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
15149133 AAACTAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:15150424 original size:15 final size:15
Alignment explanation
Indices: 15150404--15150460 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
15150394 CGATGAATTT
15150404 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
15150419 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
15150434 ATTGAATTTATATTG
1 ATTGAATTTATATTG
15150449 ATTGAA-TTATAT
1 ATTGAATTTATAT
15150461 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:15150862 original size:23 final size:23
Alignment explanation
Indices: 15150832--15150918 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
15150822 GCTTTATCGA
* *
15150832 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
15150855 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
15150876 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
15150898 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
15150919 AATGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:15152041 original size:12 final size:12
Alignment explanation
Indices: 15152024--15152053 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15152014 ACAGTTCTCA
15152024 TTCTTTTCTTCT
1 TTCTTTTCTTCT
*
15152036 TTCTTTTTTTCT
1 TTCTTTTCTTCT
15152048 TTCTTT
1 TTCTTT
15152054 CTTTTCTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTCTTTTCTTCT
Found at i:15152053 original size:16 final size:15
Alignment explanation
Indices: 15152027--15152058 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
15152017 GTTCTCATTC
15152027 TTTTCTTCTTTCTTT
1 TTTTCTTCTTTCTTT
15152042 TTTTCTTTCTTTCTTT
1 TTTTC-TTCTTTCTTT
15152058 T
1 T
15152059 CTTAATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTCTTCTTTCTTT
Found at i:15154869 original size:131 final size:135
Alignment explanation
Indices: 15154633--15154880 Score: 459
Period size: 131 Copynumber: 1.9 Consensus size: 135
15154623 TTCATAGCAC
15154633 GAGTTAATGCGATAATAGGGGTTTAAACTAGAAAGAAATTTTAATTAATCAACCTAGAGTCAGTT
1 GAGTTAATGCGATAATAGGGGTTTAAACTAGAAAGAAATTTTAATTAATCAACCTAGAGTCAGTT
15154698 GCTCTTACTCTTGAAAAAGATATTAGCATAATTTAAGGA-TT-TATGGATCATATTAGCATAATT
66 GCTCTTACTCTTGAAAAAGATATTAGCATAATTTAAGGATTTCTATGGATCATATTAGCATAATT
15154761 TATAG
131 TATAG
*
15154766 GAGTTAATGCGATAATAGGGGTTTTAA-TAGAAAGAAA-TTTAATTAATCAACCTAGAGTCAGTT
1 GAGTTAATGCGATAATAGGGGTTTAAACTAGAAAGAAATTTTAATTAATCAACCTAGAGTCAGTT
15154829 GCTCTTACTCTTGAAAAAGATATTAGCATAATTTAAGGATTTCTATGGATCA
66 GCTCTTACTCTTGAAAAAGATATTAGCATAATTTAAGGATTTCTATGGATCA
15154881 AGTTATTAAG
Statistics
Matches: 112, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
131 65 0.58
132 12 0.11
133 35 0.31
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.34
Consensus pattern (135 bp):
GAGTTAATGCGATAATAGGGGTTTAAACTAGAAAGAAATTTTAATTAATCAACCTAGAGTCAGTT
GCTCTTACTCTTGAAAAAGATATTAGCATAATTTAAGGATTTCTATGGATCATATTAGCATAATT
TATAG
Found at i:15156785 original size:15 final size:15
Alignment explanation
Indices: 15156765--15156797 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
15156755 TTAATTATTG
15156765 AAAAATAAATATTA-A
1 AAAAATAAA-ATTATA
15156780 AAAAATAAAATTATA
1 AAAAATAAAATTATA
15156795 AAA
1 AAA
15156798 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATAAAATTATA
Found at i:15156930 original size:23 final size:24
Alignment explanation
Indices: 15156903--15156949 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15156893 TTCATTTTGG
15156903 ATATAATT-TTAAAATTATAAAAA
1 ATATAATTATTAAAATTATAAAAA
* *
15156926 ATATACTTATTAAAATTGTAAAAA
1 ATATAATTATTAAAATTATAAAAA
15156950 TATTATGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATAATTATTAAAATTATAAAAA
Found at i:15169288 original size:36 final size:36
Alignment explanation
Indices: 15169241--15169357 Score: 162
Period size: 36 Copynumber: 3.2 Consensus size: 36
15169231 ATTCCAACCA
*
15169241 AAACACACCAGATGCTCATAAAAGCTAATCCATCCG
1 AAACACACCAGATGCTCATAAGAGCTAATCCATCCG
* *
15169277 AAACACACCAGATGCTCATAAGAGTTAATCTATCCG
1 AAACACACCAGATGCTCATAAGAGCTAATCCATCCG
* * * *
15169313 AAACACACCAAATGCTCATACGAGCCAGTCCATCCG
1 AAACACACCAGATGCTCATAAGAGCTAATCCATCCG
15169349 ATAACACAC
1 A-AACACAC
15169358 TAATGGATCT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
36 64 0.90
37 7 0.10
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (36 bp):
AAACACACCAGATGCTCATAAGAGCTAATCCATCCG
Found at i:15170044 original size:20 final size:20
Alignment explanation
Indices: 15170021--15170067 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
15170011 CATATAATTA
15170021 TCATCAAAAACAATCGAAAT
1 TCATCAAAAACAATCGAAAT
15170041 TCATCAAAAACAATCGAAAT
1 TCATCAAAAACAATCGAAAT
15170061 TCATCAA
1 TCATCAA
15170068 TGGTAACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.21
Consensus pattern (20 bp):
TCATCAAAAACAATCGAAAT
Found at i:15173568 original size:22 final size:22
Alignment explanation
Indices: 15173540--15173661 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
15173530 TTCCACATCC
15173540 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
15173562 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
15173586 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
15173609 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
15173633 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
15173656 ATCACA
1 ATCACA
15173662 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:15173575 original size:47 final size:47
Alignment explanation
Indices: 15173512--15174246 Score: 1029
Period size: 47 Copynumber: 15.6 Consensus size: 47
15173502 CCCTTCGGGA
* * *
15173512 CTTATCACATTTATACACT-TCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
15173559 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
15173606 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
15173653 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
15173700 CTTATCACACATACACATGTT-ACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
15173746 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* ** *
15173793 CTTATCACACATGCACATGTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
15173840 CTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* *
15173887 CTTATCTCATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
* * *
15173934 CTTATCACACATACACATGTTTACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
15173981 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* * *
15174030 CTTATCACATATATACACT-TTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
15174077 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
* *
15174124 CTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
*
15174171 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACA-TGTTCACATTCATCACATTGGCCATTCGGC
15174220 CTTATCACATATATACACT-TTCACATT
1 CTTATCACATATATACA-TGTTCACATT
15174247 TATTCAAATA
Statistics
Matches: 643, Mismatches: 38, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
46 43 0.07
47 511 0.79
49 88 0.14
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACATGTTCACATTCATCACATTGGCCATTCGGC
Found at i:15175638 original size:85 final size:85
Alignment explanation
Indices: 15175509--15175687 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
15175499 TATTTTATTG
*
15175509 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
*
15175574 TAGCCATAACATCTTGTTCA
66 TAGCCATAACATCTTGTCCA
15175594 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
15175659 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
15175679 CCCATGCTC
1 CCCATGCTC
15175688 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:15179963 original size:21 final size:21
Alignment explanation
Indices: 15179939--15179979 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15179929 AAAATATTAA
15179939 TTATAGGTTATAATAATTTTT
1 TTATAGGTTATAATAATTTTT
** *
15179960 TTATATTTTATTATAATTTT
1 TTATAGGTTATAATAATTTT
15179980 CATAAATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (21 bp):
TTATAGGTTATAATAATTTTT
Found at i:15180151 original size:26 final size:25
Alignment explanation
Indices: 15180122--15180181 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
15180112 TTAAATCAAG
15180122 CTTTTCAAAATCA-TTTTTAATAAGCA
1 CTTTTCAAAAT-ATTTTTTAA-AAGCA
*
15180148 CTTTTTCATAATATTTTTTAAAAGCA
1 C-TTTTCAAAATATTTTTTAAAAGCA
*
15180174 CTTATCAA
1 CTTTTCAA
15180182 CAACAATGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 5 0.17
26 8 0.28
27 16 0.55
ACGTcount: A:0.37, C:0.15, G:0.03, T:0.45
Consensus pattern (25 bp):
CTTTTCAAAATATTTTTTAAAAGCA
Found at i:15180424 original size:21 final size:21
Alignment explanation
Indices: 15180394--15180433 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
15180384 ACACTAAATA
*
15180394 CTAAACCTTAATATAAAAATCC
1 CTAAACCTTAA-AAAAAAATCC
15180416 CTAAA-CTTAAAAAAAAAT
1 CTAAACCTTAAAAAAAAAT
15180434 AAAAAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 5 0.29
22 5 0.29
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.25
Consensus pattern (21 bp):
CTAAACCTTAAAAAAAAATCC
Found at i:15189906 original size:21 final size:21
Alignment explanation
Indices: 15189882--15189934 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
15189872 CCTACAGCCA
*
15189882 CTGTTATTCCTGTTTTGGAAC
1 CTGTTTTTCCTGTTTTGGAAC
15189903 CTGTTTTTCCTGTTTTGGAAC
1 CTGTTTTTCCTGTTTTGGAAC
15189924 CTGTTTTTCCT
1 CTGTTTTTCCT
15189935 ATCTCCACTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.09, C:0.21, G:0.17, T:0.53
Consensus pattern (21 bp):
CTGTTTTTCCTGTTTTGGAAC
Found at i:15189907 original size:12 final size:12
Alignment explanation
Indices: 15189890--15189930 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
15189880 CACTGTTATT
15189890 CCTGTTTTGGAA
1 CCTGTTTTGGAA
*
15189902 CCTGTTTT---T
1 CCTGTTTTGGAA
15189911 CCTGTTTTGGAA
1 CCTGTTTTGGAA
15189923 CCTGTTTT
1 CCTGTTTT
15189931 TCCTATCTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
9 8 0.33
12 16 0.67
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.51
Consensus pattern (12 bp):
CCTGTTTTGGAA
Found at i:15193127 original size:24 final size:24
Alignment explanation
Indices: 15193100--15193149 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15193090 AAAAATAAAA
15193100 AATCTTGATTGAACTTAGCATTCT
1 AATCTTGATTGAACTTAGCATTCT
15193124 AATCTTGATTGAACTTAGCATTCT
1 AATCTTGATTGAACTTAGCATTCT
15193148 AA
1 AA
15193150 AAGAACTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (24 bp):
AATCTTGATTGAACTTAGCATTCT
Found at i:15197594 original size:9 final size:9
Alignment explanation
Indices: 15197580--15197608 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
15197570 GTTTTAAATA
15197580 TTAATGGGT
1 TTAATGGGT
15197589 TTAATGGGT
1 TTAATGGGT
15197598 TTAATGGGT
1 TTAATGGGT
15197607 TT
1 TT
15197609 GGGCTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (9 bp):
TTAATGGGT
Found at i:15197726 original size:26 final size:26
Alignment explanation
Indices: 15197697--15197749 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
15197687 GAGCTTATTG
15197697 TCTTAATCAATTTATCCAGTTTAAAA
1 TCTTAATCAATTTATCCAGTTTAAAA
* *
15197723 TCTTAATCAGTTTATTCAGTTTAAAA
1 TCTTAATCAATTTATCCAGTTTAAAA
15197749 T
1 T
15197750 GTCAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.06, T:0.45
Consensus pattern (26 bp):
TCTTAATCAATTTATCCAGTTTAAAA
Found at i:15201291 original size:20 final size:21
Alignment explanation
Indices: 15201252--15201291 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15201242 GTCATATTGA
*
15201252 CCACACGGGCATGTTGCCCTT
1 CCACACGAGCATGTTGCCCTT
*
15201273 CCACACGAGCGTG-TGCCCT
1 CCACACGAGCATGTTGCCCT
15201292 GTTTCAAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCATGTTGCCCTT
Found at i:15202830 original size:30 final size:30
Alignment explanation
Indices: 15202794--15202853 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
15202784 CTGTTTCAGG
15202794 CCATAAAGAGACTTTTTTAGCAAGCAAACA
1 CCATAAAGAGACTTTTTTAGCAAGCAAACA
15202824 CCATAAAGAGACTTTTTTAGCAAGCAAACA
1 CCATAAAGAGACTTTTTTAGCAAGCAAACA
15202854 TATTCCTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (30 bp):
CCATAAAGAGACTTTTTTAGCAAGCAAACA
Found at i:15209628 original size:49 final size:47
Alignment explanation
Indices: 15209383--15209648 Score: 165
Period size: 46 Copynumber: 5.7 Consensus size: 47
15209373 GGTGGTATGT
* * * * *
15209383 GAGCGAGTGTAAGACATGTCTGGGACATGCATGGCCAC--AACATGA
1 GAGCCAGTGTAAGACCTGTCTGGGACATGCATCGACACTGAAAATGA
* * * * * *
15209428 GTGCCAGTGTAAGACATGTCTGGGACGTGCATCGACATTG-AGACGA
1 GAGCCAGTGTAAGACCTGTCTGGGACATGCATCGACACTGAAAATGA
* * * *
15209474 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGC-CTCAAGATAT-A
1 GAGCCAGTGTAAGACCTGTCTGGGACATGCATCGACACTGAA-A-ATGA
* * * * * **
15209521 CAAGCTAGTGTAAGACCTGTTTGGGACATG-GT-GTCAGCATG-TTA-G-
1 -GAGCCAGTGTAAGACCTGTCTGGGACATGCATCGACA-C-TGAAAATGA
* *
15209566 GTGTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAAATGA
1 GAGCCAGTGTAAGACCTGTCTGGGACAT-GCATCGACACTGA-AAATGA
*
15209615 GAGCCAGTGTAAGACCTATCTGGGACATGGCATC
1 GAGCCAGTGTAAGACCTGTCTGGGACAT-GCATC
15209649 AGCTTCGATA
Statistics
Matches: 168, Mismatches: 36, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
44 23 0.14
45 36 0.21
46 42 0.25
47 6 0.04
48 29 0.17
49 32 0.19
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCTGTCTGGGACATGCATCGACACTGAAAATGA
Found at i:15209672 original size:49 final size:49
Alignment explanation
Indices: 15209568--15209690 Score: 169
Period size: 49 Copynumber: 2.5 Consensus size: 49
15209558 CATGTTAGGT
* *
15209568 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAAATGAGA
1 GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACTGATAAATGAAA
* * *
15209617 GCCAGTGTAAGACCTATCTGGGACATGGCATC-AGC-TTCGATATATGAAA
1 GTCAGTGTAAGACCTATCTGGGACATGGCATCGA-CACT-GATAAATGAAA
15209666 GTCAGTGTAAGACCTATCTGGGACA
1 GTCAGTGTAAGACCTATCTGGGACA
15209691 CGTCATTGAC
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 2 0.03
49 64 0.97
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACTGATAAATGAAA
Found at i:15214563 original size:52 final size:52
Alignment explanation
Indices: 15214500--15214601 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
15214490 GATGTCACAT
* * * *
15214500 GCCACTAGAATTAGAACAAATGACATAGCATCAACAATCAACATATCAAATA
1 GCCACGAGAATTAGAAAAAATCACATAGAATCAACAATCAACATATCAAATA
*
15214552 GCCACGAGAATTAGAAAAAATCACGTAGAATCAACAATCAACATATCAAA
1 GCCACGAGAATTAGAAAAAATCACATAGAATCAACAATCAACATATCAAA
15214602 CAGTAAGGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.51, C:0.21, G:0.11, T:0.18
Consensus pattern (52 bp):
GCCACGAGAATTAGAAAAAATCACATAGAATCAACAATCAACATATCAAATA
Found at i:15214861 original size:7 final size:7
Alignment explanation
Indices: 15214849--15214873 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
15214839 TAATGTAACC
15214849 AAATTAG
1 AAATTAG
15214856 AAATTAG
1 AAATTAG
15214863 AAATTAG
1 AAATTAG
15214870 AAAT
1 AAAT
15214874 CACTTTCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (7 bp):
AAATTAG
Found at i:15215270 original size:7 final size:7
Alignment explanation
Indices: 15215245--15215383 Score: 239
Period size: 7 Copynumber: 20.1 Consensus size: 7
15215235 TTAAAATAAT
15215245 AAGATGAA
1 AAGA-GAA
15215253 AAGAG--
1 AAGAGAA
15215258 AAGAGAA
1 AAGAGAA
15215265 AAGAGAA
1 AAGAGAA
15215272 AAGAGAA
1 AAGAGAA
15215279 AAGAGAA
1 AAGAGAA
15215286 AAGAGAA
1 AAGAGAA
15215293 AAGAGAA
1 AAGAGAA
15215300 AAGAGAA
1 AAGAGAA
15215307 AAGAGAA
1 AAGAGAA
15215314 AAGAGAA
1 AAGAGAA
15215321 AAGAGAA
1 AAGAGAA
15215328 AAGAGAA
1 AAGAGAA
15215335 AAGAGAA
1 AAGAGAA
15215342 AAGAG-A
1 AAGAGAA
15215348 AAGAGAA
1 AAGAGAA
15215355 AAGAGAA
1 AAGAGAA
15215362 AAGAGAA
1 AAGAGAA
*
15215369 AGGAGAA
1 AAGAGAA
15215376 AAGAGAA
1 AAGAGAA
15215383 A
1 A
15215384 GAGTGATTAA
Statistics
Matches: 126, Mismatches: 2, Indels: 7
0.93 0.01 0.05
Matches are distributed among these distances:
5 5 0.04
6 6 0.05
7 111 0.88
8 4 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (7 bp):
AAGAGAA
Found at i:15216448 original size:27 final size:28
Alignment explanation
Indices: 15216381--15216450 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
15216371 ATTTAGTTTT
*
15216381 CTCACACAAGCTGTGATATTTGTATTTG
1 CTCACACAAGCTGTGATATTTGTAGTTG
*
15216409 CTCACACAAGCTGTGATATTTG-GGTTG
1 CTCACACAAGCTGTGATATTTGTAGTTG
*
15216436 TTCACACAAGCTGTG
1 CTCACACAAGCTGTG
15216451 GGTCAGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 17 0.44
28 22 0.56
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (28 bp):
CTCACACAAGCTGTGATATTTGTAGTTG
Found at i:15222619 original size:8 final size:8
Alignment explanation
Indices: 15222586--15222621 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
15222576 TAAATAAGAA
15222586 ATAATAATT
1 ATAATAA-T
15222595 ATAATAAT
1 ATAATAAT
*
15222603 TTAATAAT
1 ATAATAAT
15222611 ATAATAAT
1 ATAATAAT
15222619 ATA
1 ATA
15222622 TGTGTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 18 0.72
9 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
ATAATAAT
Found at i:15224462 original size:20 final size:20
Alignment explanation
Indices: 15224439--15224479 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
15224429 GCCCCATGGC
15224439 CATGTCCCAGGCCACACGGG
1 CATGTCCCAGGCCACACGGG
* *
15224459 CATGTCCCAGGGCACATGGG
1 CATGTCCCAGGCCACACGGG
15224479 C
1 C
15224480 GTGTGCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.37, G:0.32, T:0.12
Consensus pattern (20 bp):
CATGTCCCAGGCCACACGGG
Found at i:15224676 original size:24 final size:24
Alignment explanation
Indices: 15224644--15224689 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
15224634 AGTATATATG
15224644 TTAGTGTATAAGTTTGGTAATGGC
1 TTAGTGTATAAGTTTGGTAATGGC
15224668 TTAGTGTATAAGTTTGGTAATG
1 TTAGTGTATAAGTTTGGTAATG
15224690 CCTCTTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.43
Consensus pattern (24 bp):
TTAGTGTATAAGTTTGGTAATGGC
Found at i:15229878 original size:16 final size:17
Alignment explanation
Indices: 15229852--15229883 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15229842 AAATAAGAAA
15229852 TAATAATTATAATAATT
1 TAATAATTATAATAATT
15229869 TAATAA-TATAATAAT
1 TAATAATTATAATAAT
15229884 ATATATGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATAATT
Found at i:15232070 original size:26 final size:26
Alignment explanation
Indices: 15232038--15232090 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
15232028 CGTGTATACT
15232038 TAGGATTCATTTTATTGTTGATAGTG
1 TAGGATTCATTTTATTGTTGATAGTG
15232064 TAGGATTCATTTTATTGTTGATAGTG
1 TAGGATTCATTTTATTGTTGATAGTG
15232090 T
1 T
15232091 TGTTTTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.51
Consensus pattern (26 bp):
TAGGATTCATTTTATTGTTGATAGTG
Found at i:15232986 original size:23 final size:23
Alignment explanation
Indices: 15232956--15233010 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
15232946 ATTCTGTCAT
* *
15232956 TAAAAATGCAAGCAAGTTGCTAG
1 TAAAAATGCAAACAAGCTGCTAG
15232979 TAAAAATGCAAACAAGCTGCTAG
1 TAAAAATGCAAACAAGCTGCTAG
15233002 TAAAAATGC
1 TAAAAATGC
15233011 GATAAATTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (23 bp):
TAAAAATGCAAACAAGCTGCTAG
Found at i:15240378 original size:25 final size:26
Alignment explanation
Indices: 15240311--15240385 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 26
15240301 ACATATTTTC
* *
15240311 TCAAAATTTTAT-TAGGGACAAAATTG
1 TCAAAATTTT-TCTAGGGATAAAATCG
* * *
15240337 TCAAAATGTTCCAAGGG-TAAAATCG
1 TCAAAATTTTTCTAGGGATAAAATCG
*
15240362 TCAAAATTTTTCTAGGGTTAAAAT
1 TCAAAATTTTTCTAGGGATAAAAT
15240386 AGGGATGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 20 0.51
26 19 0.49
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTTCTAGGGATAAAATCG
Found at i:15242727 original size:26 final size:26
Alignment explanation
Indices: 15242696--15242747 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
15242686 CATAGGTATT
15242696 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
* *
15242722 TACATGATATATAGATACATGATTTG
1 TACATGAGATATAGATAAATGATTTG
15242748 GAAATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:15244120 original size:17 final size:17
Alignment explanation
Indices: 15244098--15244149 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
15244088 TAGAATTATA
15244098 GGCCCATATGCCCGTGT
1 GGCCCATATGCCCGTGT
*
15244115 GGCCCACATGCCCAGT-T
1 GGCCCATATGCCC-GTGT
15244132 GG-CC-T-TGCCCGTGT
1 GGCCCATATGCCCGTGT
15244146 GGCC
1 GGCC
15244150 TACACGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 2 0.07
14 8 0.27
15 1 0.03
16 2 0.07
17 15 0.50
18 2 0.07
ACGTcount: A:0.10, C:0.38, G:0.31, T:0.21
Consensus pattern (17 bp):
GGCCCATATGCCCGTGT
Found at i:15247117 original size:26 final size:26
Alignment explanation
Indices: 15247080--15247140 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
15247070 CCCAATATAT
* *
15247080 GGCTCTTCGTGAACTTCCTGATTAAA
1 GGCTCTTTGTGAACTTCCCGATTAAA
* * *
15247106 GGCTTTTTGTGAGCTTCCCGATTAAT
1 GGCTCTTTGTGAACTTCCCGATTAAA
15247132 GGCTCTTTG
1 GGCTCTTTG
15247141 GAGATTTCTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (26 bp):
GGCTCTTTGTGAACTTCCCGATTAAA
Found at i:15247297 original size:25 final size:25
Alignment explanation
Indices: 15247263--15247322 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
15247253 GTCTCTTATG
* *
15247263 AGCTTCCCGTTATATAGCCTAGATA
1 AGCTTCCCGTTACATAGCCTACATA
* * *
15247288 AGCTTCCCGTTACATGGCTTACATG
1 AGCTTCCCGTTACATAGCCTACATA
15247313 AGCTTCCCGT
1 AGCTTCCCGT
15247323 CTATGGCTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGTTACATAGCCTACATA
Found at i:15253842 original size:30 final size:30
Alignment explanation
Indices: 15253808--15253897 Score: 121
Period size: 30 Copynumber: 3.0 Consensus size: 30
15253798 GATTCATCCA
*
15253808 TGGAAA-ATTAAATAAAGAAA-ATGATCAAAT
1 TGGAAAGA-TAAAAAAAGAAAGATGAT-AAAT
*
15253838 TGGAAAGATAAAAAAATAAAGATGATAAAT
1 TGGAAAGATAAAAAAAGAAAGATGATAAAT
*
15253868 TGGAAAGATAAAAAAATAAAGATGATAAAT
1 TGGAAAGATAAAAAAAGAAAGATGATAAAT
15253898 GGATTAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
30 50 0.89
31 6 0.11
ACGTcount: A:0.62, C:0.01, G:0.16, T:0.21
Consensus pattern (30 bp):
TGGAAAGATAAAAAAAGAAAGATGATAAAT
Found at i:15253854 original size:17 final size:17
Alignment explanation
Indices: 15253834--15253884 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
15253824 GAAAATGATC
15253834 AAATTGGAAAGATAAAA
1 AAATTGGAAAGATAAAA
* *
15253851 AAA-T--AAAGAT-GAT
1 AAATTGGAAAGATAAAA
15253864 AAATTGGAAAGATAAAA
1 AAATTGGAAAGATAAAA
15253881 AAAT
1 AAAT
15253885 AAAGATGATA
Statistics
Matches: 26, Mismatches: 4, Indels: 8
0.68 0.11 0.21
Matches are distributed among these distances:
13 4 0.15
14 7 0.27
16 7 0.27
17 8 0.31
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.20
Consensus pattern (17 bp):
AAATTGGAAAGATAAAA
Found at i:15253860 original size:14 final size:14
Alignment explanation
Indices: 15253841--15253890 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
15253831 ATCAAATTGG
15253841 AAAGATAAAAAAAT
1 AAAGATAAAAAAAT
* * *
15253855 AAAGATGATAAATT
1 AAAGATAAAAAAAT
15253869 GGAAAGATAAAAAAAT
1 --AAAGATAAAAAAAT
15253885 AAAGAT
1 AAAGAT
15253891 GATAAATGGA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 17 0.61
16 11 0.39
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.18
Consensus pattern (14 bp):
AAAGATAAAAAAAT
Found at i:15254929 original size:25 final size:25
Alignment explanation
Indices: 15254901--15254957 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
15254891 CTCACTTGAA
15254901 CTTCCCAATAAATGGCTATTCGGAG
1 CTTCCCAATAAATGGCTATTCGGAG
* * * *
15254926 CTTCTCGATTAATGGCTCTTCGGAG
1 CTTCCCAATAAATGGCTATTCGGAG
*
15254951 CTACCCA
1 CTTCCCA
15254958 TTATTGGCTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (25 bp):
CTTCCCAATAAATGGCTATTCGGAG
Done.