Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 163 of 378
Found at i:47608654 original size:2 final size:2
Alignment explanation
Indices: 47608647--47608672 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47608637 GTGTTATCAC
47608647 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47608673 CATAAACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47610283 original size:46 final size:46
Alignment explanation
Indices: 47610215--47610381 Score: 153
Period size: 46 Copynumber: 3.6 Consensus size: 46
47610205 TGTAACCCGC
* *
47610215 CCATAAGCGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * * *
47610261 CCATAAGTGAACTCGGATTCAACTCAACGAGGTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
47610311 --TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
47610354 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGCGAACTCGGACTCAACTCAAC
47610382 AAGTTCGGAT
Statistics
Matches: 95, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
44 1 0.01
45 2 0.02
46 51 0.54
47 25 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:47610331 original size:93 final size:93
Alignment explanation
Indices: 47610222--47610394 Score: 274
Period size: 93 Copynumber: 1.9 Consensus size: 93
47610212 CGCCCATAAG
* * * *
47610222 CGAACTTGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGATTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
47610287 ACGAGGTCGGATGCCTAGTTACATTTCA
66 ACAAGGTCGGATGCCTAGTTACATTTCA
* *
47610315 CGAACTCGGACTCAACTCAACGAGTTTGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
47610380 ACAAGTTCGGATGCC
66 ACAAGGTCGGATGCC
47610395 CAAATATCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGGTCGGATGCCTAGTTACATTTCA
Found at i:47615965 original size:29 final size:29
Alignment explanation
Indices: 47615932--47616091 Score: 223
Period size: 29 Copynumber: 5.5 Consensus size: 29
47615922 GTGACGAGAT
*
47615932 TGGCACTAAGTGTGCATGCTGAAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
47615961 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47615990 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
47616019 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
47616048 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
47616077 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
47616092 GGGTTTAAAA
Statistics
Matches: 117, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
29 116 0.99
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:47616148 original size:28 final size:28
Alignment explanation
Indices: 47616079--47616179 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
47616069 GAAGGGTATG
* * * *
47616079 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
47616109 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
47616137 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
47616166 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
47616180 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:47619153 original size:40 final size:40
Alignment explanation
Indices: 47619106--47619225 Score: 199
Period size: 40 Copynumber: 3.0 Consensus size: 40
47619096 TATATATCTA
47619106 GGTCAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCG
1 GGTCAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCG
47619146 GGTCAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCG
1 GGTCAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCG
* * *
47619186 GGTTAAATCTCGCAGGCTTAGTGCTGGT-AT-TATATCCG
1 GGTCAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCG
47619224 GG
1 GG
47619226 CTTAAAGTTC
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 10 0.13
39 2 0.03
40 65 0.84
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (40 bp):
GGTCAAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCG
Found at i:47619240 original size:40 final size:40
Alignment explanation
Indices: 47619110--47619240 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 40
47619100 TATCTAGGTC
* *
47619110 AAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCGGGTC
1 AAATTCCGCAGGCTTCGTGCTGGTAATGTATATCCGGGTT
*
47619150 AAATCCCGCAGGCTTCGTGCTGGTAATGTATATCCGGGTT
1 AAATTCCGCAGGCTTCGTGCTGGTAATGTATATCCGGGTT
*
47619190 AAA-TCTCGCAGGCTTAGTGCTGGT-AT-TATATCCGGGCTT
1 AAATTC-CGCAGGCTTCGTGCTGGTAATGTATATCCGGG-TT
47619229 AAAGTTCCGCAG
1 AAA-TTCCGCAG
47619241 ACTTTGAGCT
Statistics
Matches: 84, Mismatches: 3, Indels: 8
0.88 0.03 0.08
Matches are distributed among these distances:
38 10 0.12
39 8 0.10
40 64 0.76
41 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (40 bp):
AAATTCCGCAGGCTTCGTGCTGGTAATGTATATCCGGGTT
Found at i:47623462 original size:66 final size:65
Alignment explanation
Indices: 47623378--47623507 Score: 199
Period size: 66 Copynumber: 2.0 Consensus size: 65
47623368 GTGGCTGGCC
* *
47623378 GTGTGACCCAAGTTAGTAACCCCTCCAGTTTTCC-CGCAGCCATGGCATACGGGCGTGTTCTCGG
1 GTGTGACCCAAGTCAGTAACCCCTCCAGTTTTCCACG-A-CCATGACATACGGGCGTGTTCTCGG
47623442 CG
64 CG
* *
47623444 GTGTGACCTAAGTCAGTAACCCCTCTAGTTTTCCACGACCATGACATACGGGCGTGTTCTCGGC
1 GTGTGACCCAAGTCAGTAACCCCTCCAGTTTTCCACGACCATGACATACGGGCGTGTTCTCGGC
47623508 CCTATTTTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
65 25 0.42
66 32 0.54
67 2 0.03
ACGTcount: A:0.18, C:0.31, G:0.25, T:0.25
Consensus pattern (65 bp):
GTGTGACCCAAGTCAGTAACCCCTCCAGTTTTCCACGACCATGACATACGGGCGTGTTCTCGGCG
Found at i:47627586 original size:42 final size:41
Alignment explanation
Indices: 47627527--47627690 Score: 186
Period size: 42 Copynumber: 3.9 Consensus size: 41
47627517 TTAGGGTTAT
*
47627527 TGAGATTAT-GTGTAAGACCACATCTGGGATATGGCATCATTA
1 TGAGATT-TCGTGTAAGACCATATCTGGGATATGGCATCA-TA
* *
47627569 TGAGATTTCGTGTAAGACCATATCTGGGGTATGGCATTGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCA-TCATA
* * * *
47627611 TGAGATTTTGTGTAAGTCCATAGCTGGGCTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATC-ATA
** *
47627654 TGAGATCCCATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
47627691 TGGAGTGGTA
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 68 0.66
43 34 0.33
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (41 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCATA
Found at i:47627669 original size:85 final size:84
Alignment explanation
Indices: 47627527--47627692 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 84
47627517 TTAGGGTTAT
* ** *
47627527 TGAGATTATGTGTAAGACCACATCTGGGATATGGCATCATTATGAGATTTCGTGTAAGACCATAT
1 TGAGATTATGTGTAAGACCACAGCTGGGATATGGCATCATTATGAGATCCCATGTAAGACCATAT
*
47627592 CTGGGGTATGGCATTGATA
66 CTGGGATATGGCATTGATA
* * * *
47627611 TGAGATTTTGTGTAAGTCCATAGCTGGGCTATTGGCATCGA-TATGAGATCCCATGTAAGACCAT
1 TGAGATTATGTGTAAGACCACAGCTGGGATA-TGGCATC-ATTATGAGATCCCATGTAAGACCAT
47627675 ATCTGGGATATGGCATTG
64 ATCTGGGATATGGCATTG
47627693 GAGTGGTACT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 26 0.37
85 44 0.62
86 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (84 bp):
TGAGATTATGTGTAAGACCACAGCTGGGATATGGCATCATTATGAGATCCCATGTAAGACCATAT
CTGGGATATGGCATTGATA
Found at i:47635526 original size:42 final size:42
Alignment explanation
Indices: 47635398--47635507 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
47635388 GAGACCATGC
* *
47635398 GTAAGACCATATCTGGGATATGACATCAATATGAGACTTCGT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGT
*
47635440 GTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCGT
1 GTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGT
47635482 GTAAGACCATATCTGGGATATGGCAT
1 GTAAGACCATATCTGGGATATGGCAT
47635508 TGGTATGGTA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
GTAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGT
Found at i:47635668 original size:16 final size:15
Alignment explanation
Indices: 47635643--47635672 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47635633 GCACGAAAAA
47635643 CTCATATGTGATGAG
1 CTCATATGTGATGAG
47635658 CTCATTATGTGATGA
1 CTCA-TATGTGATGA
47635673 ACCCTCGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (15 bp):
CTCATATGTGATGAG
Found at i:47637086 original size:2 final size:2
Alignment explanation
Indices: 47637079--47637121 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
47637069 TGCGTGAATC
* *
47637079 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47637121 T
1 T
47637122 GCATGAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47644094 original size:7 final size:7
Alignment explanation
Indices: 47644082--47644115 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
47644072 AAATCAAATG
47644082 AGAAAAA
1 AGAAAAA
47644089 AGAAAAA
1 AGAAAAA
47644096 AGAAAAA
1 AGAAAAA
*
47644103 AAATAAAA
1 AGA-AAAA
47644111 AGAAA
1 AGAAA
47644116 GAAAAGGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (7 bp):
AGAAAAA
Found at i:47644104 original size:15 final size:16
Alignment explanation
Indices: 47644084--47644121 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
47644074 ATCAAATGAG
47644084 AAAAAAGA-AAAAAGA
1 AAAAAAGATAAAAAGA
47644099 AAAAAA-ATAAAAAGA
1 AAAAAAGATAAAAAGA
47644114 AAGAAAAG
1 AA-AAAAG
47644122 GGAAGTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 1 0.05
15 15 0.75
16 4 0.20
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AAAAAAGATAAAAAGA
Found at i:47646664 original size:25 final size:24
Alignment explanation
Indices: 47646636--47646683 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
47646626 GCAAGGCAAT
47646636 AAGGGAAGGAA-ATGAAGAAAAATGG
1 AAGGGAAGGAAGA--AAGAAAAATGG
*
47646661 AAGGGAATGAAGAAAGAAAAATG
1 AAGGGAAGGAAGAAAGAAAAATG
47646684 AGAGAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 10 0.48
26 1 0.05
ACGTcount: A:0.58, C:0.00, G:0.33, T:0.08
Consensus pattern (24 bp):
AAGGGAAGGAAGAAAGAAAAATGG
Found at i:47651081 original size:48 final size:48
Alignment explanation
Indices: 47651009--47651331 Score: 202
Period size: 48 Copynumber: 6.7 Consensus size: 48
47650999 TATGTGTGCT
* * *
47651009 AGTGTAAGACCATGTCTGGGACATGG-AGTCAACCACATTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCA-TCAACAACATTATGAGAGCC
* ** **
47651057 AGTGTAAAACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAACAACATTATGAGAGCC
* * ** ** *
47651105 AGTGTAAGACTATGTTTGGAACATAGCATCGGCAATGTTGTGAGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAACAACATTATGAGAGCC
* * *** ** * * *
47651153 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATT-TGTGCGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCAACA-ACATTATGAGAGCC
* * ** ** * *
47651201 AGTGTAAGACCATGTCTAGG-ACATGGCATCGACATTAAGACGAGAGCT
1 AGTGTAAGACCATGT-TTGGAACATGGCATCAACAACATTATGAGAGCC
* * * ** ** ** *
47651249 AGTGTCAGACCATGTCTGGGACATGGCATCGGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCAACAACATTATGAGAGCC
*
47651297 AGTGTAAGACCATGTTTGGAACATGGCATCGACAA
1 AGTGTAAGACCATGTTTGGAACATGGCATCAACAA
47651332 TTCACCCTCT
Statistics
Matches: 221, Mismatches: 49, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.02
48 212 0.96
49 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCAACAACATTATGAGAGCC
Found at i:47651177 original size:96 final size:97
Alignment explanation
Indices: 47651048--47651333 Score: 314
Period size: 96 Copynumber: 3.0 Consensus size: 97
47651038 CAACCACATT
* * * *
47651048 ATGAGAGCCAGTGTAAAACCATGTTTGGAACATGGCATCGGCAATGTTATGAGAGCCAGTGTAAG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGTGAGCCAGTGTAAG
* * * *
47651113 ACTATGTTTGGAACATAGCATCGGCAATGT-TG
66 ACCATGTTTGGAACATGGCATCGACAAT-TAAG
* * * *
47651145 -TGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGATT-TGTGCGCTAGTGTAA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATG-TTATGTGAGCCAGTGTAA
*
47651208 GACCATGTCTAGG-ACATGGCATCGAC-ATTAAG
65 GACCATGT-TTGGAACATGGCATCGACAATTAAG
* * * * ***
47651240 ACGAGAGCTAGTGTCAGACCATGTCTGGGACATGGCATCGGC-CTCAACATGTGAGCCAGTGTAA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAAT-GTTATGTGAGCCAGTGTAA
47651304 GACCATGTTTGGAACATGGCATCGACAATT
65 GACCATGTTTGGAACATGGCATCGACAATT
47651334 CACCCTCTTG
Statistics
Matches: 157, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
94 1 0.01
95 7 0.04
96 141 0.90
97 8 0.05
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (97 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAATGTTATGTGAGCCAGTGTAAG
ACCATGTTTGGAACATGGCATCGACAATTAAG
Found at i:47657650 original size:92 final size:92
Alignment explanation
Indices: 47657493--47657675 Score: 330
Period size: 92 Copynumber: 2.0 Consensus size: 92
47657483 CTTTGAATAA
*
47657493 ACCAATATGTCATCAATAAATACCACCACAAATCTATCCAAATAAGGCTGAAAAATCCAATTCAT
1 ACCAATATGTCATCAATAAATACCACCACAAATCTATCCAAATAAGGATGAAAAATCCAATTCAT
47657558 TAAATCCATAAATACAGCAGGGGCATG
66 TAAATCCATAAATACAGCAGGGGCATG
47657585 ACCAATATGTCATCAATAAATACCACCACAAATCTATCCAAATAAGGATGAAAAATCCAATTCAT
1 ACCAATATGTCATCAATAAATACCACCACAAATCTATCCAAATAAGGATGAAAAATCCAATTCAT
* * *
47657650 TAAATCTATAAATGCCGCAGGGGCAT
66 TAAATCCATAAATACAGCAGGGGCAT
47657676 TTGTTAAACC
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (92 bp):
ACCAATATGTCATCAATAAATACCACCACAAATCTATCCAAATAAGGATGAAAAATCCAATTCAT
TAAATCCATAAATACAGCAGGGGCATG
Found at i:47659093 original size:13 final size:13
Alignment explanation
Indices: 47659075--47659105 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
47659065 ACTAGAATCA
47659075 TCTTTTGTATACC
1 TCTTTTGTATACC
47659088 TCTTTTGTATACC
1 TCTTTTGTATACC
47659101 TCTTT
1 TCTTT
47659106 ACCTCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.06, T:0.58
Consensus pattern (13 bp):
TCTTTTGTATACC
Found at i:47661275 original size:35 final size:35
Alignment explanation
Indices: 47661195--47661359 Score: 179
Period size: 35 Copynumber: 4.7 Consensus size: 35
47661185 TTCTCATTGA
** *
47661195 AATACCATACCTATATTTTACAACTCAATATGGGA-
1 AATACCATACCTACGTTTCACAACTCAATAT-GGAT
*** **
47661230 AATGTTATACCTACGTTTCTTAACTCAATATGGAT
1 AATACCATACCTACGTTTCACAACTCAATATGGAT
* * *
47661265 AATACCATACCTACGTTGCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAATATGGAT
* *
47661300 AATAGCATACCTATGTTTCACAACTCAATATGGAT
1 AATACCATACCTACGTTTCACAACTCAATATGGAT
* *
47661335 GATACCATACCTATGTTTCACAACT
1 AATACCATACCTACGTTTCACAACT
47661360 TTACCATGGA
Statistics
Matches: 106, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
34 3 0.03
35 103 0.97
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.33
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAATATGGAT
Found at i:47666152 original size:30 final size:30
Alignment explanation
Indices: 47666096--47666154 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47666086 GCCTTTTAAA
*
47666096 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCAACTAATTTTT
47666126 AATATTTACAAAAAGA-GCAACATAATTTT
1 AATATTTACAAAAAGAGGCAAC-TAATTTT
47666155 GGAAATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCAACTAATTTTT
Found at i:47666739 original size:19 final size:18
Alignment explanation
Indices: 47666715--47666751 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
47666705 TGGACACAGG
47666715 GACACGCCCGTGTGCTCCA
1 GACACGCCCGTGT-CTCCA
*
47666734 GACACGCCTGTGTCTCCA
1 GACACGCCCGTGTCTCCA
47666752 AGCCGTGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.16, C:0.41, G:0.24, T:0.19
Consensus pattern (18 bp):
GACACGCCCGTGTCTCCA
Found at i:47669122 original size:27 final size:27
Alignment explanation
Indices: 47668819--47669121 Score: 387
Period size: 27 Copynumber: 11.2 Consensus size: 27
47668809 AGTTTACTAA
** *
47668819 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
*
47668846 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
47668873 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
* * *
47668900 AATT-CCTATTTTATCCTCGATTTATAG
1 AATTACC-GTTTTACCCTCGATTTACAG
* *
47668927 AATTACCGTTTTACCC-CTAATTTACAT
1 AATTACCGTTTTACCCTC-GATTTACAG
* * *
47668954 AATTACCATTTTACCCCCGATTTACAT
1 AATTACCGTTTTACCCTCGATTTACAG
* *
47668981 AATTATCGTTTTACCCTCGACTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
47669008 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
47669035 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
47669062 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
47669089 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
47669116 AATTAC
1 AATTAC
47669122 TAAAATACCC
Statistics
Matches: 244, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
26 4 0.02
27 236 0.97
28 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:47669158 original size:81 final size:81
Alignment explanation
Indices: 47668846--47669160 Score: 215
Period size: 81 Copynumber: 3.9 Consensus size: 81
47668836 CGATTTGTAA
**** * * ***
47668846 AATTACCGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTC-AGTTTACAGAATTCCTATT
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGA-TTTATAGAATTACTGCA
* * * *
47668910 TTATCCTCGATTTATAG
65 ATACCCTCGACTTACAG
* * *** * * * *
47668927 AATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCCCCGATTTACATAATTA-TCGT
1 AATTACCGTTTTACCCTC-GATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACT-GC
**
47668990 TTTACCCTCGACTTACAG
64 AATACCCTCGACTTACAG
* **** ***
47669008 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTGCAA
* *
47669073 TACCCTTGATTTACAG
66 TACCCTCGACTTACAG
* * * * *
47669089 AATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGT-GAAATTACTGCA
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAG-AATTACTGCA
47669153 ATACCCTC
65 ATACCCTC
47669161 AATTTGTAAA
Statistics
Matches: 196, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.02
81 190 0.97
82 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTGCAA
TACCCTCGACTTACAG
Found at i:47670384 original size:25 final size:25
Alignment explanation
Indices: 47670354--47670401 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
47670344 TTATAATATT
* *
47670354 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
47670379 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
47670402 GTTTATACAT
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:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:47670468 original size:20 final size:20
Alignment explanation
Indices: 47670445--47670528 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
47670435 TAAACATGGT
47670445 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
47670465 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
47670485 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
47670505 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
47670525 ATGT
1 ATGT
47670529 TCATAAATGC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:47670485 original size:11 final size:11
Alignment explanation
Indices: 47670449--47670523 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
47670439 CATGGTATGT
47670449 ATGATATGCAC
1 ATGATATGCAC
* *
47670460 ATGACATG--T
1 ATGATATGCAC
47670469 ATGATATGCAC
1 ATGATATGCAC
*
47670480 ATGATATG--T
1 ATGATATGCAC
47670489 ATGATATGCAC
1 ATGATATGCAC
* *
47670500 ATGACATG--T
1 ATGATATGCAC
47670509 ATGATATGCAC
1 ATGATATGCAC
47670520 ATGA
1 ATGA
47670524 GATGTTCATA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:47670631 original size:24 final size:24
Alignment explanation
Indices: 47670575--47670716 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
47670565 GAGGAAGTGA
47670575 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
47670598 TAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
47670622 AAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
47670646 -AAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
47670669 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
47670693 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
47670717 ATGATAAAGC
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
23 43 0.41
24 52 0.49
25 11 0.10
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:47670650 original size:47 final size:47
Alignment explanation
Indices: 47670574--47670717 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 47
47670564 GGAGGAAGTG
*
47670574 AAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTAT
* *
47670621 CAAAAGGGCTTATGCCCCAATTATCAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTAT
* * *
47670668 AAAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTA-TCAAAG-GGCTTATGCC-CCAGTTAT
47670717 A
1 A
47670718 TGATAAAGCA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
47 64 0.74
48 10 0.12
49 12 0.14
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (47 bp):
AAAAAGGGCTTATGCCCCAGTTATCAAAGGGCTTATGCCCCAGTTAT
Found at i:47670964 original size:31 final size:31
Alignment explanation
Indices: 47670913--47670973 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
47670903 TTACAGTAAA
*
47670913 GGCTTCGGCCCAGTAATATGAAATTTGAAAG
1 GGCTTCGGCCCAGTAATATGAAATATGAAAG
** *
47670944 GGCTTCGGCCCAGTGTTATGAGATATGAAA
1 GGCTTCGGCCCAGTAATATGAAATATGAAA
47670974 TATGAAAAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (31 bp):
GGCTTCGGCCCAGTAATATGAAATATGAAAG
Found at i:47674041 original size:27 final size:27
Alignment explanation
Indices: 47673766--47674040 Score: 369
Period size: 27 Copynumber: 10.2 Consensus size: 27
47673756 AGTTTACTAA
** *
47673766 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTACAG
*
47673793 AATTACCG-TTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
47673819 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTACAG
* *
47673846 AATT-CCTATTTTACCCTCGATTTATAG
1 AATTACC-GTTTTACCCTCGATTTACAG
* *
47673873 AATTACCGTTTTACCC-CTAATTTACAT
1 AATTACCGTTTTACCCTC-GATTTACAG
*
47673900 AATTACCGTTTTACCCTCGACTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
47673927 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
*
47673954 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
47673981 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAG
* *
47674008 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAG
47674035 AATTAC
1 AATTAC
47674041 TAAAATACCC
Statistics
Matches: 222, Mismatches: 19, Indels: 14
0.87 0.07 0.05
Matches are distributed among these distances:
26 28 0.13
27 190 0.86
28 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAG
Found at i:47674077 original size:81 final size:81
Alignment explanation
Indices: 47673766--47674079 Score: 188
Period size: 81 Copynumber: 3.9 Consensus size: 81
47673756 AGTTTACTAA
** *** * * * ***
47673766 AATTACCGTTTTACCCTCGATTTGTAAAATTACC-GTTTACCCTCGATTTACAAAATTACCGTTT
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTGCAA
*
47673830 TACCCTC-AGTTTACAG
66 TACCCTCGA-CTTACAG
* * * **** * * * * *
47673846 AATT-CCTATTTTACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCGT
1 AATTACC-GTTTTACCCTCGATTTACAAAATTACCAAAATACCCTC-GATTTATAGAATTACTGC
**
47673909 TTTACCCTCGACTTACAG
64 AATACCCTCGACTTACAG
* **** ***
47673927 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTGCAA
* *
47673992 TACCCTTGATTTACAG
66 TACCCTCGACTTACAG
* * * * *
47674008 AATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGT-GAAATTACTGCA
1 AATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAG-AATTACTGCA
47674072 ATACCCTC
65 ATACCCTC
47674080 AATTTGTAAA
Statistics
Matches: 198, Mismatches: 29, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
79 2 0.01
80 30 0.15
81 162 0.82
82 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.39
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCGATTTACAAAATTACCAAAATACCCTCGATTTATAGAATTACTGCAA
TACCCTCGACTTACAG
Found at i:47674842 original size:8 final size:8
Alignment explanation
Indices: 47674831--47674858 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
47674821 TTAAAGCGAT
47674831 AAATGCCG
1 AAATGCCG
47674839 AAATGCCG
1 AAATGCCG
47674847 AAATGCCG
1 AAATGCCG
47674855 AAAT
1 AAAT
47674859 TCTGGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.14
Consensus pattern (8 bp):
AAATGCCG
Found at i:47675320 original size:24 final size:25
Alignment explanation
Indices: 47675277--47675323 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
47675267 TTATAATATT
* *
47675277 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATGACCCTAGGTA
47675302 AAAATGACCATTAT-ACCCTAGG
1 AAAATGACCATTATGACCCTAGG
47675324 GTTTATACAT
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:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
AAAATGACCATTATGACCCTAGGTA
Found at i:47675390 original size:20 final size:20
Alignment explanation
Indices: 47675367--47675450 Score: 141
Period size: 20 Copynumber: 4.2 Consensus size: 20
47675357 TAAACATGGT
47675367 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
47675387 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
*
47675407 ATGTATGATATGTACATGAC
1 ATGTATGATATGCACATGAC
*
47675427 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
47675447 ATGT
1 ATGT
47675451 TCATAAATGC
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:47675394 original size:9 final size:9
Alignment explanation
Indices: 47675366--47675438 Score: 56
Period size: 9 Copynumber: 7.4 Consensus size: 9
47675356 ATAAACATGG
47675366 TATGTATGA
1 TATGTATGA
*
47675375 TATGCACATGA
1 TATG--TATGA
*
47675386 CATGTATGA
1 TATGTATGA
*
47675395 TATGCACATGA
1 TATG--TATGA
47675406 TATGTATGA
1 TATGTATGA
47675415 TATGTACATGA
1 TATGT--ATGA
*
47675426 CATGTATGA
1 TATGTATGA
47675435 TATG
1 TATG
47675439 CACATGAGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
9 27 0.54
11 23 0.46
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (9 bp):
TATGTATGA
Found at i:47675575 original size:24 final size:24
Alignment explanation
Indices: 47675495--47675614 Score: 156
Period size: 23 Copynumber: 5.0 Consensus size: 24
47675485 GGAGGAAGTG
47675495 AAAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
47675519 -TAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
47675542 -CAAAGGGCTTATGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
*
47675565 AAAAAGGGCTTTTGCCCCAGTTAT
1 AAAAAGGGCTTATGCCCCAGTTAT
* *
47675589 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAAG-GGCTTATGCC-CCAGTTAT
47675614 A
1 A
47675615 TGATAAAGCA
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
23 44 0.52
24 30 0.35
25 11 0.13
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAAGGGCTTATGCCCCAGTTAT
Found at i:47683758 original size:40 final size:40
Alignment explanation
Indices: 47683699--47683906 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
47683689 CAATTGAATG
* * * *
47683699 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
47683739 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
47683779 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
47683819 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
47683859 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
47683899 ATATCCGG
1 ATATCCGG
47683907 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:47683837 original size:80 final size:80
Alignment explanation
Indices: 47683700--47683906 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
47683690 AATTGAATGA
* * ** * * *
47683700 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
47683765 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
47683778 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
47683843 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
47683860 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
47683907 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:47691803 original size:123 final size:123
Alignment explanation
Indices: 47691570--47691803 Score: 314
Period size: 123 Copynumber: 1.9 Consensus size: 123
47691560 GAATTATGTG
* * * *
47691570 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTATGAGCAATTGAATGATACCCGG
* * * * *
47691635 GCTAAGTCCCGAAGGCGATTATGCTAGTGATATGTTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGACGATTATGCTAGTAATATGATCGTGGTTGAGCCTTAGTAACGA
*
47691693 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTGCATGAGCAATTGAATGATATCC
1 AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGT--ATGAGCAATTGAATGATACCC
47691758 GGGCTAAGTCCCGAA-AC-ATTTATGCTAGTAATTAT-ATCG-GGTTGAG
64 GGGCTAAGTCCCGAAGACGA-TTATGCTAGTAA-TATGATCGTGGTTGAG
47691804 ACCCGAAGGC
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
123 47 0.48
124 14 0.14
125 36 0.37
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (123 bp):
AAATGAAACATGGATGTGTAATGATTATTGATGTATGTGTGTATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGACGATTATGCTAGTAATATGATCGTGGTTGAGCCTTAGTAACGA
Found at i:47691955 original size:40 final size:40
Alignment explanation
Indices: 47691752--47691957 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
47691742 CAATTGAATG
* * ** * **
47691752 ATATCCGGGCTAAGTCCCGAA-ACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
* * * **
47691791 ATAT-CGGGTTGAGACCCGAAGGCAATT-GTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTGGTT
* *
47691830 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
* * * *
47691870 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
* *
47691910 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
47691950 ATATCCGG
1 ATATCCGG
47691958 TTGTATTCCG
Statistics
Matches: 138, Mismatches: 25, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
38 13 0.09
39 20 0.14
40 105 0.76
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTGGTT
Found at i:47701165 original size:27 final size:26
Alignment explanation
Indices: 47701135--47701234 Score: 85
Period size: 27 Copynumber: 3.7 Consensus size: 26
47701125 GGTGGCTATG
47701135 CCACAATTATCTGATCTGGTGGCTCCA
1 CCAC-ATTATCTGATCTGGTGGCTCCA
**
47701162 CCACATATATCT-ATTCTGGTGGCTCTG
1 CCACAT-TATCTGA-TCTGGTGGCTCCA
* **
47701189 CCACGATTATCTGTATCTGGTGACTCTG
1 CCAC-ATTATCTG-ATCTGGTGGCTCCA
* *
47701217 TCACATTATCTGTTCTGG
1 CCACATTATCTGATCTGG
47701235 CAGTCATGCT
Statistics
Matches: 63, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
26 8 0.13
27 37 0.59
28 17 0.27
29 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (26 bp):
CCACATTATCTGATCTGGTGGCTCCA
Found at i:47709014 original size:27 final size:27
Alignment explanation
Indices: 47708958--47709069 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
47708948 AGGAAACGTC
47708958 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAATTATCTGAT
* * * *
47708985 CTGGTGGCTTTGCTAC-ATATATTTGTT
1 CTGGTGGCTATGCCACAAT-TATCTGAT
* *
47709012 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-AT
* * * *
47709040 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGAT
47709066 CTGG
1 CTGG
47709070 AAGCCATGCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 47 0.66
28 17 0.24
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTGAT
Found at i:47709066 original size:54 final size:54
Alignment explanation
Indices: 47708958--47709069 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
47708948 AGGAAACGTC
* * *
47708958 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTGCTACATATATTTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCTACATATATCTGTT
* *
47709012 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTG-TCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCT-ACATATATCTGTT
47709066 CTGG
1 CTGG
47709070 AAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 35 0.69
55 16 0.31
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCTACATATATCTGTT
Found at i:47712225 original size:2 final size:2
Alignment explanation
Indices: 47712218--47712254 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
47712208 TGAAAGTTGA
47712218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47712255 TTTGAAAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:47713324 original size:38 final size:38
Alignment explanation
Indices: 47713227--47713329 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
47713217 GGCTTAAAGA
** *
47713227 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
*
47713265 CCCGTAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* *
47713303 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
47713330 TCGAGCCTTC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 58 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.29
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:47713423 original size:42 final size:43
Alignment explanation
Indices: 47713327--47713453 Score: 229
Period size: 42 Copynumber: 3.0 Consensus size: 43
47713317 GCTGGTATTA
47713327 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
47713370 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTG-CGGTGATGTG
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
47713412 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGAGATGT
1 TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGT
47713454 ATAATTATAT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
42 41 0.51
43 39 0.49
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:47716630 original size:15 final size:16
Alignment explanation
Indices: 47716605--47716652 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
47716595 TCAAAGGAGT
47716605 AAAAAGAAGAAAGAAA
1 AAAAAGAAGAAAGAAA
47716621 AAAAAG-AGAAAGAAA
1 AAAAAGAAGAAAGAAA
47716636 AAGGAAAGAAG-AAGAAA
1 AA--AAAGAAGAAAGAAA
47716653 GAGTATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.38
16 6 0.21
17 10 0.34
18 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAAGAAGAAAGAAA
Found at i:47716636 original size:11 final size:10
Alignment explanation
Indices: 47716607--47716654 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
47716597 AAAGGAGTAA
47716607 AAAGAAGAAAG
1 AAAGAA-AAAG
*
47716618 AAAAAAAAGAG
1 AAAGAAAA-AG
47716629 AAAGAAAAAGG
1 AAAGAAAAA-G
*
47716640 AAAGAAGAAG
1 AAAGAAAAAG
47716650 AAAGA
1 AAAGA
47716655 GTATAGAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.28
11 23 0.72
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:47718057 original size:11 final size:12
Alignment explanation
Indices: 47718033--47718057 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47718023 TAAAATGATC
47718033 TTTTATGAATTT
1 TTTTATGAATTT
47718045 TTTTATGAATTT
1 TTTTATGAATTT
47718057 T
1 T
47718058 CTCAAAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTATGAATTT
Found at i:47718697 original size:83 final size:83
Alignment explanation
Indices: 47718606--47718771 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
47718596 GATATGAGAT
47718606 ATGTTTGAATCCATGATTGAACGATTCAATGTGATATTTATTTGTATTTACATAAATTATGAATA
1 ATGTTTGAATCCATGATTGAACGATTCAATGTGATATTTATTTGTATTTACATAAATTATGAATA
47718671 GTATCTGTTACCTTTGTA
66 GTATCTGTTACCTTTGTA
47718689 ATGTTTGAATCCATGATTGAACGATTCAATGTGATATTTATTTGTATTTACATAAATTATGAATA
1 ATGTTTGAATCCATGATTGAACGATTCAATGTGATATTTATTTGTATTTACATAAATTATGAATA
47718754 GTATCTGTTACCTTTGTA
66 GTATCTGTTACCTTTGTA
47718772 TCTATATACT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.31, C:0.10, G:0.14, T:0.45
Consensus pattern (83 bp):
ATGTTTGAATCCATGATTGAACGATTCAATGTGATATTTATTTGTATTTACATAAATTATGAATA
GTATCTGTTACCTTTGTA
Found at i:47725461 original size:21 final size:21
Alignment explanation
Indices: 47725437--47725481 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
47725427 TTTTATTAAC
47725437 CAATCTATTCGAAAAAAATTA
1 CAATCTATTCGAAAAAAATTA
47725458 CAATCTATTCGAAAAAAATTA
1 CAATCTATTCGAAAAAAATTA
47725479 CAA
1 CAA
47725482 GTGTACAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.53, C:0.16, G:0.04, T:0.27
Consensus pattern (21 bp):
CAATCTATTCGAAAAAAATTA
Found at i:47725865 original size:2 final size:2
Alignment explanation
Indices: 47725858--47725887 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
47725848 ATGCCTTTTA
47725858 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47725888 TAGCTGGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47733978 original size:15 final size:15
Alignment explanation
Indices: 47733958--47733989 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
47733948 AAATTTAGCC
47733958 TTCAATGGTTATATA
1 TTCAATGGTTATATA
47733973 TTCAATGGTTATATA
1 TTCAATGGTTATATA
47733988 TT
1 TT
47733990 TTGTCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (15 bp):
TTCAATGGTTATATA
Found at i:47736519 original size:37 final size:37
Alignment explanation
Indices: 47736469--47736554 Score: 145
Period size: 37 Copynumber: 2.3 Consensus size: 37
47736459 TTATTACGAA
*
47736469 GTCTTACCCGGACATAATCTCTACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
47736506 GTCTTACGCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
47736543 GTCTCACCCGGA
1 GTCTTACCCGGA
47736555 ATATATTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:47736663 original size:48 final size:48
Alignment explanation
Indices: 47736599--47736870 Score: 490
Period size: 48 Copynumber: 5.6 Consensus size: 48
47736589 TGTTACAACA
*
47736599 TTCACATTAGCCATTCGGCTTTACCCCATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
47736647 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
47736695 TTCACATTAGCCATTCGGCTTTACCCCATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
47736743 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
*
47736791 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACAC--ATGTAT
*
47736841 TTCACATTAGCCATTCGGATTTACCACATA
1 TTCACATTAGCCATTCGGCTTTACCACATA
47736871 ATTACACTTT
Statistics
Matches: 217, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
48 183 0.84
50 34 0.16
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTAT
Found at i:47736916 original size:47 final size:47
Alignment explanation
Indices: 47736865--47736972 Score: 200
Period size: 47 Copynumber: 2.3 Consensus size: 47
47736855 TCGGATTTAC
47736865 CACATA-ATTACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
47736912 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
47736959 CACATATATACACT
1 CACATATATACACT
47736973 ACAAGCTGTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
47 59 0.98
48 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.31
Consensus pattern (47 bp):
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
Found at i:47736932 original size:98 final size:97
Alignment explanation
Indices: 47736598--47736932 Score: 330
Period size: 96 Copynumber: 3.5 Consensus size: 97
47736588 ATGTTACAAC
* * * * * *
47736598 ATTCACATTAGCCATTCGGCTTTACC-C-CATATACATATCACACATGTATTTCACATTAGCCAT
1 ATTCACATCAGCCATTAGGCCTTACCACATATATACATATCACATATATATTTCACATTAGCCAT
*
47736661 TCGGCTTTACCACATATACATATCACACATGT
66 TCGGATTTACCACATATACATATCACACATGT
* * * * * *
47736693 ATTTCACATTAGCCATTCGGCTTTACC-C-CATATACATATCACACATGTATTTCACATTAGCCA
1 A-TTCACATCAGCCATTAGGCCTTACCACATATATACATATCACATATATATTTCACATTAGCCA
*
47736756 TTCGGCTTTACCACATATACATATCACACATGT
65 TTCGGATTTACCACATATACATATCACACATGT
* * *
47736789 ATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATCACACATATATATTTCACATTAGC
1 A-TTCACATCAGCCATTAGGCCTTACCACATATATACATAT--CACATATATATTTCACATTAGC
*
47736852 CATTCGGATTTACCACATAATTACACT-T-TCACAT-T
63 CATTCGGATTTACCACAT-A-TACA-TATCACACATGT
* * *
47736887 CA-TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACAT
1 -ATTCACATCAGCCATTAGGCCTTACCACATATATACA-TATCACAT
47736933 TCATCACATC
Statistics
Matches: 219, Mismatches: 10, Indels: 19
0.88 0.04 0.08
Matches are distributed among these distances:
95 1 0.00
96 131 0.60
97 22 0.10
98 43 0.20
99 14 0.06
100 7 0.03
101 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (97 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATATACATATCACATATATATTTCACATTAGCCAT
TCGGATTTACCACATATACATATCACACATGT
Found at i:47736941 original size:144 final size:142
Alignment explanation
Indices: 47736598--47736919 Score: 400
Period size: 144 Copynumber: 2.2 Consensus size: 142
47736588 ATGTTACAAC
* * * * *
47736598 ATTCACATTAGCCATTCGGCTTTACCCCATATACATATCACACATGTATTTCACATTAGCCATTC
1 ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTA-TTCACATTAGCCATTC
* * *
47736663 GGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATTCGGCTTTACCCCATATAC
65 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGATTTACCACATATAC
47736728 ATATCACACATGT
130 ATATCACACATGT
* * * *
47736741 ATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATGTATTTCACATTAGCCATT
1 A-TTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTA-TTCACATTAGCCATT
47736806 CGGCTTTACCACATATACATATCACACATATATATTTCACATTAGCCATTCGGATTTACCACATA
64 CGGCTTTACCACATATACATATCACAC--ATATATTTCACATTAGCCATTCGGATTTACCACAT-
*
47736871 ATTACACT-T-TCACAT-T
126 A-TACA-TATCACACATGT
* *
47736887 CA-TCACATCGGCCATTAGGCCTTATCACATATA
1 -ATTCACATCAGCCATTAGGCCTTACCACATATA
47736920 TACACTTTCA
Statistics
Matches: 162, Mismatches: 10, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
143 1 0.01
144 89 0.55
145 26 0.16
146 33 0.20
147 7 0.04
148 5 0.03
149 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (142 bp):
ATTCACATCAGCCATTAGGCCTTACCACATATACACATCACACATGTATTCACATTAGCCATTCG
GCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGATTTACCACATATACA
TATCACACATGT
Found at i:47738247 original size:13 final size:13
Alignment explanation
Indices: 47738229--47738253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47738219 CACTAGATTT
47738229 TCATGGATTCAAA
1 TCATGGATTCAAA
47738242 TCATGGATTCAA
1 TCATGGATTCAA
47738254 TATACCATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:47741770 original size:41 final size:41
Alignment explanation
Indices: 47741674--47741862 Score: 197
Period size: 41 Copynumber: 4.7 Consensus size: 41
47741664 GACAAATCAG
* * * * *
47741674 CTATATGTGGCACTTAGTGTGCGA-TTCGACATA-ACTTCAA
1 CTATATATGGCACTTAGTGTGCGAGATCAAGATAGA-TTCGA
47741714 CTATATATGGCACTTAGTGTGCGAGATCAAGATAGATTCGA
1 CTATATATGGCACTTAGTGTGCGAGATCAAGATAGATTCGA
* *
47741755 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGA
1 CTATATATGGCACTTAGTGTGCGAGATCAAGATAGATTCGA
* * * *
47741796 TTATATATGGCACTTAGTGTGC-A-ATTTAAGATAGCTTCGG
1 CTATATATGGCACTTAGTGTGCGAGA-TCAAGATAGATTCGA
* ***
47741836 CTATGTACAACACTTAGTGTGCGAGAT
1 CTATATATGGCACTTAGTGTGCGAGAT
47741863 ATTGAGTATT
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.01
40 53 0.41
41 72 0.56
42 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (41 bp):
CTATATATGGCACTTAGTGTGCGAGATCAAGATAGATTCGA
Found at i:47741827 original size:81 final size:82
Alignment explanation
Indices: 47741674--47741862 Score: 231
Period size: 81 Copynumber: 2.3 Consensus size: 82
47741664 GACAAATCAG
* *
47741674 CTATATGTGGCACTTAGTGTGCGA-TTCGACATAACTTCAACTATATATGGCACTTAGTGTGCGA
1 CTATATATGGCACTTAGTGTGCGAGATCGACATAACTTCAACTATATATGGCACTTAGTGTGCGA
47741738 GATCAAGATAGATTCGA
66 GATCAAGATAGATTCGA
* * * *
47741755 CTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCGATTATATATGGCACTTAGTGTGC-A
1 CTATATATGGCACTTAGTGTGCGAGATCGACATAACTTCAACTATATATGGCACTTAGTGTGCGA
* * *
47741819 -ATTTAAGATAGCTTCGG
66 GA-TCAAGATAGATTCGA
* ***
47741836 CTATGTACAACACTTAGTGTGCGAGAT
1 CTATATATGGCACTTAGTGTGCGAGAT
47741863 ATTGAGTATT
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
80 1 0.01
81 59 0.63
82 33 0.35
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (82 bp):
CTATATATGGCACTTAGTGTGCGAGATCGACATAACTTCAACTATATATGGCACTTAGTGTGCGA
GATCAAGATAGATTCGA
Found at i:47742794 original size:2 final size:2
Alignment explanation
Indices: 47742781--47742816 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
47742771 GTTGATTTAG
47742781 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47742817 GTGTGTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47750499 original size:93 final size:93
Alignment explanation
Indices: 47750392--47750562 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47750382 GCCCCTAAGT
* *
47750392 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47750457 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
47750485 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47750550 CGAGTTCGGATGC
66 CGAGTTCGGATGC
47750563 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:47750559 original size:46 final size:46
Alignment explanation
Indices: 47750387--47750559 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
47750377 AACCCGCCCC
* * *
47750387 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
47750433 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
47750481 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
47750526 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
47750560 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47754140 original size:5 final size:5
Alignment explanation
Indices: 47754132--47754178 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
47754122 TTAGTTTAGT
47754132 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TA
47754179 ATATTCTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:47756601 original size:180 final size:181
Alignment explanation
Indices: 47756327--47756655 Score: 489
Period size: 180 Copynumber: 1.8 Consensus size: 181
47756317 TTAATTTTTT
* * * * *
47756327 ATAAAACTATACTCATATATCTTATTACCATAAAATTTTCATAATTTTTGGTTTAGCCAATTAGT
1 ATAAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTTTAGCCAATTAGT
* ** *
47756392 ACAGTCTATTCATTAAAGATATCCCTATTTCACTGTCTGACAGTTCCGACTTCTCTTCACTAAAA
66 ACAGTCTATTCATTAAAGATACCCCTATTTCACTGTCCAACAGTTCCGACCTCTCTTCACTAAAA
*
47756457 ATTATTTATTTCATGGTACGGGACTCCAAATTGAGAACAACTAATTTTACC
131 ATTATTTATCTCATGGTACGGGACTCCAAATTGAGAACAACTAATTTTACC
* * *
47756508 ATAAAA-TAGACTCACATATATTCTTACCATAAATTTTTTAGAATTTTTAGTTTAGCCAATTAGT
1 ATAAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTTTAGCCAATTAGT
* * * * *
47756572 ATAGTTTATTCATTAAATATACCCCTATTTCACTGTCCAATAGTTTCGACCTCTCTTCACTAAAA
66 ACAGTCTATTCATTAAAGATACCCCTATTTCACTGTCCAACAGTTCCGACCTCTCTTCACTAAAA
47756637 ATTATTTATCTCATGGTAC
131 ATTATTTATCTCATGGTAC
47756656 AACTCTCGGA
Statistics
Matches: 130, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
180 124 0.95
181 6 0.05
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (181 bp):
ATAAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTTTAGCCAATTAGT
ACAGTCTATTCATTAAAGATACCCCTATTTCACTGTCCAACAGTTCCGACCTCTCTTCACTAAAA
ATTATTTATCTCATGGTACGGGACTCCAAATTGAGAACAACTAATTTTACC
Found at i:47757312 original size:50 final size:50
Alignment explanation
Indices: 47757235--47757524 Score: 260
Period size: 50 Copynumber: 5.7 Consensus size: 50
47757225 ACCGAAGCTC
* *
47757235 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAACAA
* ** * ** * *
47757285 TTTGGTACATGTAGTAGCCTACACTTAGTACTACACACGTAACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAACAA
* * ** * *
47757335 TC-GGATACACATAGTAGCTTGCACTTAGTACTACACACGTGATTGAAGCTA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACACGCGA-CCAAACAA
* * *
47757386 TCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAACAA
* * * **
47757436 TCTGGTACA-AGTAGTAGCCTACACTTAGTACTACACACGTGATCTAAAACCG
1 TCTGGTACACA-TAGTAGCCTGCACTTAGTACTACACACGCGA-C-CAAACAA
*** * *
47757488 TCTTAAACACATAGTAGCCTGCACATAGTACTGCACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
47757525 TGTGTTCTCA
Statistics
Matches: 190, Mismatches: 43, Indels: 12
0.78 0.18 0.05
Matches are distributed among these distances:
49 3 0.02
50 112 0.59
51 40 0.21
52 34 0.18
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAACAA
Found at i:47757412 original size:101 final size:101
Alignment explanation
Indices: 47757296--47757478 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 101
47757286 TTGGTACATG
* * * *
47757296 TAGTAGCCTACACTTAGTACTACACACGTAACCTAACCATC-GGATACACA-TAGTAGCTTGCAC
1 TAGTAGCCTACACTTAGTACTACACACGCAACCTAACAATCTGG-TACA-AGTAGTAGCCTACAC
47757359 TTAGTACTACACACGTGATTGAAGCTATCGGGTACACA
64 TTAGTACTACACACGTGATTGAAGCTATCGGGTACACA
* * *
47757397 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACAAGTAGTAGCCTACACTT
1 TAGTAGCCTACACTTAGTACTACACACGCAACCTAACAATCTGGTACAAGTAGTAGCCTACACTT
47757462 AGTACTACACACGTGAT
66 AGTACTACACACGTGAT
47757479 CTAAAACCGT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 1 0.01
101 70 0.96
102 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (101 bp):
TAGTAGCCTACACTTAGTACTACACACGCAACCTAACAATCTGGTACAAGTAGTAGCCTACACTT
AGTACTACACACGTGATTGAAGCTATCGGGTACACA
Found at i:47760449 original size:26 final size:26
Alignment explanation
Indices: 47760420--47760472 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
47760410 TCAAACATGC
47760420 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
47760446 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
47760472 A
1 A
47760473 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:47761980 original size:26 final size:26
Alignment explanation
Indices: 47761944--47762053 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
47761934 CATGAAATTC
47761944 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
47761970 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
47761996 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
47762022 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
47762048 TTATCA
1 TTATCA
47762054 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:47764590 original size:20 final size:19
Alignment explanation
Indices: 47764544--47764590 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
47764534 ACATTTCATG
*
47764544 TATA-ATTAATTTTATAAA
1 TATATATTAATTTTAAAAA
*
47764562 TAAATTATTAATTATTAAAAA
1 TATA-TATTAATT-TTAAAAA
47764583 TATATATT
1 TATATATT
47764591 TTATGTACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 3 0.13
20 11 0.48
21 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATATTAATTTTAAAAA
Found at i:47766497 original size:11 final size:10
Alignment explanation
Indices: 47766465--47766498 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
47766455 AATATTTACG
47766465 ATTTTTATAT
1 ATTTTTATAT
47766475 ATTTTTA-AT
1 ATTTTTATAT
47766484 ATTTTTATATT
1 ATTTTTATA-T
47766495 ATTT
1 ATTT
47766499 ATTGATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 8 0.36
11 5 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:47767006 original size:15 final size:16
Alignment explanation
Indices: 47766988--47767022 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
47766978 AAAATGTGAT
*
47766988 TTTTTTAAATAA-TTA
1 TTTTTAAAATAATTTA
47767003 TTTTTAAAATAATTTA
1 TTTTTAAAATAATTTA
47767019 TTTT
1 TTTT
47767023 AGGATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTAAAATAATTTA
Found at i:47768988 original size:2 final size:2
Alignment explanation
Indices: 47768981--47769026 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
47768971 TAAATGTATT
*
47768981 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47769023 TA TA
1 TA TA
47769027 GGTCTTCTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47769144 original size:15 final size:15
Alignment explanation
Indices: 47769107--47769149 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
47769097 TATTTATATG
*
47769107 CATATATTATTTTGA
1 CATATATTATTTTTA
47769122 -ATATATTATTTTTA
1 CATATATTATTTTTA
*
47769136 CATACATTATTTTT
1 CATATATTATTTTT
47769150 TCCATGCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (15 bp):
CATATATTATTTTTA
Found at i:47769852 original size:119 final size:120
Alignment explanation
Indices: 47769641--47769866 Score: 310
Period size: 119 Copynumber: 1.9 Consensus size: 120
47769631 AAAGTTTTTC
* * ** *
47769641 AAAATAAGACAATATTTCGTGTTTGGAAGTTCGAGAAATCGTGCCTTACCGTGCTGGGTTCCGAT
1 AAAATAAGACAATATTTCGTGTTTGGAAATTCGAGAAATCATGCCCAACCGTGCTGGATTCCGAT
* * * *
47769706 TTTCCGTTCAACCGAATAACTGAATATCC-TTTGAAATTTCATCCATGTTTTCTT
66 TTACCATTCAACCAAATAACTAAATATCCTTTTGAAATTTCATCCATGTTTTCTT
* * * *
47769760 AAAATGAGGCAATATTTCGTGTTTGGAAATTCGAGAAATCATGCCCAATCGTGCTGGATTTCGAT
1 AAAATAAGACAATATTTCGTGTTTGGAAATTCGAGAAATCATGCCCAACCGTGCTGGATTCCGAT
* *
47769825 TTACCATTTAACCAAATAGCTAAATATCCTTTTGAAATTTCA
66 TTACCATTCAACCAAATAACTAAATATCCTTTTGAAATTTCA
47769867 AATGCATAAG
Statistics
Matches: 91, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
119 79 0.87
120 12 0.13
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (120 bp):
AAAATAAGACAATATTTCGTGTTTGGAAATTCGAGAAATCATGCCCAACCGTGCTGGATTCCGAT
TTACCATTCAACCAAATAACTAAATATCCTTTTGAAATTTCATCCATGTTTTCTT
Found at i:47773484 original size:19 final size:19
Alignment explanation
Indices: 47773427--47773484 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
47773417 AAAATATAAA
*
47773427 AAATTATATTAATTATTTAG
1 AAATTATA-AAATTATTTAG
* *
47773447 AAATTTTAAATTTATTTTA-
1 AAATTATAAAATTA-TTTAG
47773466 AAATATATAAAATTATTTA
1 AAAT-TATAAAATTATTTA
47773485 TGCTCCAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
AAATTATAAAATTATTTAG
Found at i:47773700 original size:25 final size:24
Alignment explanation
Indices: 47773650--47773700 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 24
47773640 ACTATACACA
* *
47773650 TTTTTTTATTTTGGTACCTAATTT
1 TTTTTTTATGTTGGTACCTAAATT
**
47773674 TTTTTCTTATGTTGGTATTTAAATT
1 TTTTT-TTATGTTGGTACCTAAATT
47773699 TT
1 TT
47773701 GCATTATTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.18, C:0.06, G:0.10, T:0.67
Consensus pattern (24 bp):
TTTTTTTATGTTGGTACCTAAATT
Found at i:47774231 original size:10 final size:9
Alignment explanation
Indices: 47774199--47774245 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
47774189 ATATGTACAC
47774199 TTAAAAATT
1 TTAAAAATT
*
47774208 TTAAAAGTT
1 TTAAAAATT
*
47774217 ATAAAAATT
1 TTAAAAATT
47774226 CTTAAAAATT
1 -TTAAAAATT
47774236 TGTAAAAATT
1 T-TAAAAATT
47774246 GTTTAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (9 bp):
TTAAAAATT
Found at i:47774335 original size:19 final size:19
Alignment explanation
Indices: 47774290--47774336 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
47774280 ATTGCAAATT
47774290 TTTTAAAAA-CATAAAAAA
1 TTTTAAAAATCATAAAAAA
* * * *
47774308 TTATGAAAATCATTAATAA
1 TTTTAAAAATCATAAAAAA
47774327 TTTTAAAAAT
1 TTTTAAAAAT
47774337 TGCTATCATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (19 bp):
TTTTAAAAATCATAAAAAA
Found at i:47774409 original size:14 final size:15
Alignment explanation
Indices: 47774390--47774418 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47774380 GAAATTGTAA
47774390 AAATTATAAT-TTTT
1 AAATTATAATGTTTT
47774404 AAATTATAATGTTTT
1 AAATTATAATGTTTT
47774419 TTACAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
AAATTATAATGTTTT
Found at i:47774674 original size:20 final size:19
Alignment explanation
Indices: 47774650--47774705 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
47774640 AAATCTTATT
47774650 ATTTTTACAATTTTTAATC
1 ATTTTTACAATTTTTAATC
** * *
47774669 ATTTTTTTATTTTTTAATG
1 ATTTTTACAATTTTTAATC
*
47774688 ATTTTCACAATATTTTAA
1 ATTTTTACAAT-TTTTAA
47774706 ATTATTTAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTTACAATTTTTAATC
Found at i:47774784 original size:9 final size:9
Alignment explanation
Indices: 47774770--47774799 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
47774760 ACAAAATTTC
47774770 AAAATTTTT
1 AAAATTTTT
47774779 AAAATTTTT
1 AAAATTTTT
47774788 AAAATTTTT
1 AAAATTTTT
47774797 AAA
1 AAA
47774800 TAATTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AAAATTTTT
Found at i:47776658 original size:9 final size:9
Alignment explanation
Indices: 47776644--47776676 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
47776634 GAATATGAGT
47776644 AAATAAAAC
1 AAATAAAAC
47776653 AAATAAAAC
1 AAATAAAAC
47776662 AAA-AGAAAC
1 AAATA-AAAC
47776671 AAATAA
1 AAATAA
47776677 TATTAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.05
9 20 0.91
10 1 0.05
ACGTcount: A:0.79, C:0.09, G:0.03, T:0.09
Consensus pattern (9 bp):
AAATAAAAC
Found at i:47778472 original size:30 final size:30
Alignment explanation
Indices: 47778436--47778495 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
47778426 TAATTAGTTA
47778436 AGTTAGTTTTTACTGTAGCTTAGGTTTATT
1 AGTTAGTTTTTACTGTAGCTTAGGTTTATT
47778466 AGTTAGTTTTTACTGTAGCTTAGGTTTATT
1 AGTTAGTTTTTACTGTAGCTTAGGTTTATT
47778496 TACATGTCTA
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:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (30 bp):
AGTTAGTTTTTACTGTAGCTTAGGTTTATT
Found at i:47782468 original size:271 final size:271
Alignment explanation
Indices: 47781985--47782526 Score: 985
Period size: 271 Copynumber: 2.0 Consensus size: 271
47781975 GAACATCGCC
47781985 GCCTCCAAAACCCTTTCTATCATCGTCAAACGAAGCCCCGATCTTGTGTCCAAACCAAATAGTAA
1 GCCTCCAAAACCCTTTCTATCATCGTCAAACGAAGCCCCGATCTTGTGTCCAAACCAAATAGTAA
* * *
47782050 CCACTAACCACCACATTGTCACTACCTCGAGCACCATTGTTGCTCGACCGAAATCAATAATCCGA
66 CCACCAACCACCACATTGTCACTACCCCGAGCACCATTATTGCTCGACCGAAATCAATAATCCGA
* *
47782115 CGATAGTTGAATACCTTCGGCCATCCCTTTTACGCTCATTGATGAGCAAAACTACCTCCGACACT
131 CGATAGTTGAATACCTTCGGCCATCCCTTTTACACTCATTGATGAGAAAAACTACCTCCGACACT
*
47782180 CTGAAAACACACACCAAAGTCGCTCATATGAGCCTTGCTGATAATGCTCTAGAATAACATATTTT
196 CTGAAAACACACACCAAAGTCGCTCATATGAGCCTTGCTGATAATACTCTAGAATAACATATTTT
47782245 TATGTATTAAT
261 TATGTATTAAT
*
47782256 GCCTCCAAAACCCTTTCTATCATCGTCAAATGAAGCCCCGATCTTGTGTCCAAACCAAATAGTAA
1 GCCTCCAAAACCCTTTCTATCATCGTCAAACGAAGCCCCGATCTTGTGTCCAAACCAAATAGTAA
*
47782321 CCACCAACCACCACATTGTCACTACCCCGAGCACTATTATTGCTCGACCGAAATCAATAATCCGA
66 CCACCAACCACCACATTGTCACTACCCCGAGCACCATTATTGCTCGACCGAAATCAATAATCCGA
*
47782386 CGATAGTTGAATACCTTCGGCCATCCCTTTTACACTCATTGATGAGAAAAACTACCTCTGACACT
131 CGATAGTTGAATACCTTCGGCCATCCCTTTTACACTCATTGATGAGAAAAACTACCTCCGACACT
**
47782451 CTGAAAATGCACACCAAAGTCGCTCATATGAGCCTTGCTGATAATACTCTAGAATAACATATTTT
196 CTGAAAACACACACCAAAGTCGCTCATATGAGCCTTGCTGATAATACTCTAGAATAACATATTTT
47782516 TATGTATTAAT
261 TATGTATTAAT
47782527 CATGTGTTTA
Statistics
Matches: 260, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
271 260 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (271 bp):
GCCTCCAAAACCCTTTCTATCATCGTCAAACGAAGCCCCGATCTTGTGTCCAAACCAAATAGTAA
CCACCAACCACCACATTGTCACTACCCCGAGCACCATTATTGCTCGACCGAAATCAATAATCCGA
CGATAGTTGAATACCTTCGGCCATCCCTTTTACACTCATTGATGAGAAAAACTACCTCCGACACT
CTGAAAACACACACCAAAGTCGCTCATATGAGCCTTGCTGATAATACTCTAGAATAACATATTTT
TATGTATTAAT
Found at i:47782780 original size:15 final size:15
Alignment explanation
Indices: 47782760--47782789 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
47782750 CATTTTATTT
47782760 ATATTAAGATAATTA
1 ATATTAAGATAATTA
47782775 ATATTAAGATAATTA
1 ATATTAAGATAATTA
47782790 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:47789242 original size:12 final size:11
Alignment explanation
Indices: 47789227--47789307 Score: 55
Period size: 12 Copynumber: 7.5 Consensus size: 11
47789217 TAATTTTAAA
47789227 TTTTATTTCTAT
1 TTTTATTT-TAT
*
47789239 TTTT-TATTA-
1 TTTTATTTTAT
47789248 TTTTA-TTTATT
1 TTTTATTTTA-T
47789259 TATTTATTTTAT
1 T-TTTATTTTAT
*
47789271 TTCTTATTGTA-
1 TT-TTATTTTAT
*
47789282 TTTTATTTCA-
1 TTTTATTTTAT
*
47789292 TTTTGTTTTAT
1 TTTTATTTTAT
47789303 TTTTA
1 TTTTA
47789308 AATATTTTAT
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
9 7 0.13
10 16 0.30
11 10 0.19
12 17 0.31
13 4 0.07
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:47789250 original size:16 final size:15
Alignment explanation
Indices: 47789229--47789318 Score: 74
Period size: 15 Copynumber: 5.7 Consensus size: 15
47789219 ATTTTAAATT
47789229 TTATTTCTATTTTTTA
1 TTATTT-TATTTTTTA
47789245 TTATTTTATTTATTTA
1 TTATTTTATTT-TTTA
*
47789261 TTTATTTTATTTCTTA
1 -TTATTTTATTTTTTA
*
47789277 TTGTATTTTATTTCATT-
1 -T-TATTTTATTT-TTTA
* *
47789294 TTGTTTTATTTTTAA
1 TTATTTTATTTTTTA
*
47789309 ATATTTTATT
1 TTATTTTATT
47789319 ATATTTATAA
Statistics
Matches: 62, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.02
15 22 0.35
16 16 0.26
17 21 0.34
18 2 0.03
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.73
Consensus pattern (15 bp):
TTATTTTATTTTTTA
Found at i:47789267 original size:17 final size:16
Alignment explanation
Indices: 47789228--47789289 Score: 81
Period size: 17 Copynumber: 3.8 Consensus size: 16
47789218 AATTTTAAAT
47789228 TTTATTTCTATTTTTTA
1 TTTATTT-TATTTTTTA
47789245 -TTATTTTATTTATTTA
1 TTTATTTTATTT-TTTA
*
47789261 TTTATTTTATTTCTTA
1 TTTATTTTATTTTTTA
47789277 TTGTATTTTATTT
1 TT-TATTTTATTT
47789290 CATTTTGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
15 5 0.12
16 15 0.37
17 21 0.51
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTTTTTA
Found at i:47789290 original size:17 final size:16
Alignment explanation
Indices: 47789228--47789318 Score: 80
Period size: 17 Copynumber: 5.7 Consensus size: 16
47789218 AATTTTAAAT
*
47789228 TTTATTTCTATTTTTTA
1 TTTATTT-TATTTCTTA
*
47789245 -TTATTTTATTTATTTA
1 TTTATTTTATTT-CTTA
47789261 TTTATTTTATTTCTTA
1 TTTATTTTATTTCTTA
*
47789277 TTGTATTTTATTTCAT-
1 TT-TATTTTATTTCTTA
*
47789293 TTTGTTTTATTT-TTA
1 TTTATTTTATTTCTTA
**
47789308 AATATTTTATT
1 TTTATTTTATT
47789319 ATATTTATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
14 1 0.02
15 22 0.35
16 17 0.27
17 23 0.37
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.74
Consensus pattern (16 bp):
TTTATTTTATTTCTTA
Found at i:47789318 original size:5 final size:5
Alignment explanation
Indices: 47789226--47789305 Score: 69
Period size: 5 Copynumber: 16.0 Consensus size: 5
47789216 TTAATTTTAA
47789226 ATTTT ATTTCT ATTTT -TTATT ATTTT A-TTT A-TTT A-TTT ATTTT ATTTCTT
1 ATTTT ATTT-T ATTTT ATT-TT ATTTT ATTTT ATTTT ATTTT ATTTT A-TT-TT
* * *
47789276 ATTGT ATTTT ATTTC ATTTT GTTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
47789306 TAAATATTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
4 14 0.22
5 35 0.56
6 11 0.17
7 3 0.05
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:47792056 original size:98 final size:98
Alignment explanation
Indices: 47791880--47792057 Score: 295
Period size: 98 Copynumber: 1.8 Consensus size: 98
47791870 TAATTTCTAA
*
47791880 GAATGTGTTGGGCCGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
1 GAATGTGCTGGGCCGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
* *
47791945 TTCGATATGTTCCTAGGAATAATAAAAAATTAG
66 TGCGATATATTCCTAGGAATAATAAAAAATTAG
* *
47791978 GAATGTGCTGGGCTGAGTAACCGGGGTGGGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
1 GAATGTGCTGGGCCGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
47792043 TGC-AGTATATTCCTA
66 TGCGA-TATATTCCTA
47792058 AGTAAAAATA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
97 1 0.01
98 73 0.99
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (98 bp):
GAATGTGCTGGGCCGAGTAACCGGGGTGAGGTGCTTGGGTTGTCATCTCTCTTCGCGTCAAAAGG
TGCGATATATTCCTAGGAATAATAAAAAATTAG
Found at i:47792706 original size:15 final size:15
Alignment explanation
Indices: 47792686--47792715 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47792676 CATTTTATTT
*
47792686 ATATTAGGATAATTA
1 ATATTAAGATAATTA
47792701 ATATTAAGATAATTA
1 ATATTAAGATAATTA
47792716 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:47795046 original size:37 final size:37
Alignment explanation
Indices: 47795005--47795087 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
47794995 TTCTACTTGT
* *
47795005 TTGAGTTTCACTCTGTATAACAATAGGATTTGCTAGA
1 TTGAGCTTCACTCAGTATAACAATAGGATTTGCTAGA
* * *
47795042 TTGAGCTTCATTCAGTATAACAGTAGGATTTGCTCGA
1 TTGAGCTTCACTCAGTATAACAATAGGATTTGCTAGA
*
47795079 TTAAGCTTC
1 TTGAGCTTC
47795088 TTTTCGTAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (37 bp):
TTGAGCTTCACTCAGTATAACAATAGGATTTGCTAGA
Found at i:47797532 original size:12 final size:12
Alignment explanation
Indices: 47797515--47797547 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
47797505 CGCCCAGCCC
47797515 ATATTAATTTTT
1 ATATTAATTTTT
47797527 ATATT-ATTTTT
1 ATATTAATTTTT
47797538 ATA-TAATTTT
1 ATATTAATTTT
47797548 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:47800512 original size:104 final size:104
Alignment explanation
Indices: 47800332--47800531 Score: 312
Period size: 104 Copynumber: 1.9 Consensus size: 104
47800322 TTTAAGGTCC
* * *
47800332 AAGCAATTTGAAATGGTAAACTTGTGTTTTAAGGTTCATTTTAAGGCCAAATGGCCTAAGACACT
1 AAGCAATTTGAAATGGTAAACTTGAGTTTTAAAGTTCATTTTAAGGCCAAATGGCCTAAGACACG
47800397 GGCGTGTGTCTCAG-CAGTGTGTAGCACACGGTCGTGTTG
66 GGCGTGTGTCTCAGTC-GTGTGTAGCACACGGTCGTGTTG
* * *
47800436 AAGCAATTTGAAATGGTAAACTTGAGTTTTAAAGTTCATTTTGAGGCCACATGGCCTGAGACACG
1 AAGCAATTTGAAATGGTAAACTTGAGTTTTAAAGTTCATTTTAAGGCCAAATGGCCTAAGACACG
* *
47800501 GGTGTTTGTCTCAGTCGTGTGTAGCACACGG
66 GGCGTGTGTCTCAGTCGTGTGTAGCACACGG
47800532 CCTGGCACGC
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 86 0.99
105 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (104 bp):
AAGCAATTTGAAATGGTAAACTTGAGTTTTAAAGTTCATTTTAAGGCCAAATGGCCTAAGACACG
GGCGTGTGTCTCAGTCGTGTGTAGCACACGGTCGTGTTG
Found at i:47805724 original size:19 final size:19
Alignment explanation
Indices: 47805671--47805724 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 19
47805661 ATCGAATTCA
47805671 ATTTATTTCTAGTATTT-ATT
1 ATTTATTT-TA-TATTTAATT
*
47805691 -TTTATTTGA-ATTTTAATT
1 ATTTATTTTATA-TTTAATT
47805709 ATTTATTTTATATTTA
1 ATTTATTTTATATTTA
47805725 GATTTAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
16 1 0.04
17 3 0.11
18 4 0.14
19 19 0.68
20 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTATTTTATATTTAATT
Found at i:47807827 original size:24 final size:22
Alignment explanation
Indices: 47807799--47807844 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
47807789 ATTGTAAAAA
47807799 AATTAAAAATATTAAAAAATAATT
1 AATTAAAAATA-T-AAAAATAATT
**
47807823 AATTAATTATATAAAAATAATT
1 AATTAAAAATATAAAAATAATT
47807845 GCAGCAAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 1 0.05
24 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTAAAAATATAAAAATAATT
Found at i:47819052 original size:29 final size:29
Alignment explanation
Indices: 47819027--47819081 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
47819017 TCGCTCAATT
* *
47819027 ATAAAATATTTT-ATTTTAAACACTCAAA
1 ATAAAAAATTTTCAATTTAAACACTCAAA
*
47819055 ATAAAAAATTTTCAATTTAGACACTCA
1 ATAAAAAATTTTCAATTTAAACACTCA
47819082 TGTTATATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (29 bp):
ATAAAAAATTTTCAATTTAAACACTCAAA
Found at i:47820674 original size:344 final size:344
Alignment explanation
Indices: 47820047--47820675 Score: 1186
Period size: 344 Copynumber: 1.8 Consensus size: 344
47820037 GTATTCCATA
*
47820047 TTACTCATAAATGCAAACAGTGAGAATGGTAAGTACAAAACGTATCTATGGGTATTATGGTAAGG
1 TTACTCATAAATGCAAACAGTGAGAATGGTAAGTACAAAACGTATCTACGGGTATTATGGTAAGG
* *
47820112 TATTCAATATGGGATTTGTGTAGAGATGAAAATTCCAAGAGATATAGCGAGGTAATGAGAATTTA
66 TAATCAATATGGGATTTGTGTAGAGATGAAAATTCCAAGAGATATAGCGAGGTAATAAGAATTTA
47820177 TTCTGAAAATGAACATAAACATGACATGCTCGAAAAGAAGTATTGATCACTTGTGTATGAGTCTC
131 TTCTGAAAATGAACATAAACATGACATGCTCGAAAAGAAGTATTGATCACTTGTGTATGAGTCTC
*
47820242 TTCCTGAGTTTGAGAAAGTTATAGCTTGGTGAACGGAGAATATAGGTAAGGTCTCAAGGCACTAA
196 TTCCTGAATTTGAGAAAGTTATAGCTTGGTGAACGGAGAATATAGGTAAGGTCTCAAGGCACTAA
47820307 AAAGAAATAAATGAAATCAGAGTAAGGGTTCAATATTTATGTGAGAACTTTTTTATTTGTTTACA
261 AAAGAAATAAATGAAATCAGAGTAAGGGTTCAATATTTATGTGAGAACTTTTTTATTTGTTTACA
47820372 GATTCTGCCCGTCGAATAT
326 GATTCTGCCCGTCGAATAT
*
47820391 TTACTCATAAATGCAAACAGTGAGAATGGTGAGTACAAAACGTATCTACGGGTATTATGGTAAGG
1 TTACTCATAAATGCAAACAGTGAGAATGGTAAGTACAAAACGTATCTACGGGTATTATGGTAAGG
*
47820456 TAATCAATATGGGATTTGTGTAGAGATGAAAATTCCAAGAGATATGGCGAGGTAATAAGAATTTA
66 TAATCAATATGGGATTTGTGTAGAGATGAAAATTCCAAGAGATATAGCGAGGTAATAAGAATTTA
*
47820521 TTCTGAAAATGAACATAAACATGACATGGTCGAAAAGAAGTATTGATCACTTGTGTATGAGTCTC
131 TTCTGAAAATGAACATAAACATGACATGCTCGAAAAGAAGTATTGATCACTTGTGTATGAGTCTC
*
47820586 TTCCTGAATTTGAGAAAGTTATAGCTTGGTGAACGGAGAATGTAGGTAAGGTCTCAAGGCACTAA
196 TTCCTGAATTTGAGAAAGTTATAGCTTGGTGAACGGAGAATATAGGTAAGGTCTCAAGGCACTAA
47820651 AAAGAAATAAATGAAATCAGAGTAA
261 AAAGAAATAAATGAAATCAGAGTAA
47820676 TGTATGGTAA
Statistics
Matches: 277, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
344 277 1.00
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (344 bp):
TTACTCATAAATGCAAACAGTGAGAATGGTAAGTACAAAACGTATCTACGGGTATTATGGTAAGG
TAATCAATATGGGATTTGTGTAGAGATGAAAATTCCAAGAGATATAGCGAGGTAATAAGAATTTA
TTCTGAAAATGAACATAAACATGACATGCTCGAAAAGAAGTATTGATCACTTGTGTATGAGTCTC
TTCCTGAATTTGAGAAAGTTATAGCTTGGTGAACGGAGAATATAGGTAAGGTCTCAAGGCACTAA
AAAGAAATAAATGAAATCAGAGTAAGGGTTCAATATTTATGTGAGAACTTTTTTATTTGTTTACA
GATTCTGCCCGTCGAATAT
Found at i:47824300 original size:14 final size:14
Alignment explanation
Indices: 47824281--47824340 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
47824271 AAATTAATGA
47824281 ATTTTTATTTTTAT
1 ATTTTTATTTTTAT
47824295 ATTTTTATTATTATAT
1 ATTTTTATT-TT-TAT
47824311 ATTTTGTAAAATTTTTAT
1 ATTTT-T---ATTTTTAT
*
47824329 ATATTTATTTTT
1 ATTTTTATTTTT
47824341 TAAAAATTGA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
14 15 0.38
15 2 0.05
16 8 0.21
17 2 0.05
18 7 0.18
19 2 0.05
20 3 0.08
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
ATTTTTATTTTTAT
Found at i:47824344 original size:24 final size:26
Alignment explanation
Indices: 47824295--47824345 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
47824285 TTATTTTTAT
47824295 ATTTTTATTATTATATATTTTGTAAA
1 ATTTTTATTATTATATATTTTGTAAA
47824321 ATTTTTATATATT-TAT-TTTT-TAAA
1 ATTTTTAT-TATTATATATTTTGTAAA
47824345 A
1 A
47824346 ATTGATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 5 0.21
25 4 0.17
26 11 0.46
27 4 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTTTATTATTATATATTTTGTAAA
Found at i:47824535 original size:2 final size:2
Alignment explanation
Indices: 47824524--47824567 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
47824514 GAAATTTATG
47824524 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47824565 AT A
1 AT A
47824568 AATTAAGAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47828188 original size:18 final size:17
Alignment explanation
Indices: 47828156--47828189 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47828146 TCGGTAATAT
*
47828156 AATTTTAATTTTTTATG
1 AATTTTAAATTTTTATG
47828173 AATTTTAAAATTTTTAT
1 AATTTT-AAATTTTTAT
47828190 TTAATTGAAA
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:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
AATTTTAAATTTTTATG
Found at i:47837387 original size:6 final size:7
Alignment explanation
Indices: 47837362--47837386 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
47837352 CATACGTTGG
47837362 AAAAAGA
1 AAAAAGA
47837369 AAAAAGA
1 AAAAAGA
47837376 AAAAAGA
1 AAAAAGA
47837383 AAAA
1 AAAA
47837387 GGCATCCATT
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:47846962 original size:39 final size:39
Alignment explanation
Indices: 47846908--47847070 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
47846898 TGTGAATGAA
47846908 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
47846947 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
47846986 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
47847025 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
47847065 TGTGCG
1 TGTGCG
47847071 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:47847086 original size:40 final size:39
Alignment explanation
Indices: 47846908--47847100 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
47846898 TGTGAATGAA
* *
47846908 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
47846947 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
47846986 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
47847025 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
47847065 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
47847101 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:47854928 original size:39 final size:39
Alignment explanation
Indices: 47854874--47855036 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
47854864 TGTGAATGAA
47854874 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
47854913 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
** *
47854952 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
47854991 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCAAT
47855031 TGTGCG
1 TGTGCG
47855037 GGTTACCATA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (39 bp):
TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:47855052 original size:40 final size:39
Alignment explanation
Indices: 47854874--47855066 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
47854864 TGTGAATGAA
* *
47854874 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* *
47854913 TGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
*
47854952 TGTGCGAGCTATGATATCCGGGCTAAGCCCGAAGGCAAT
1 TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
* * *
47854991 TGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATT
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGGCAAT
* ** * *
47855031 TGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGG
1 TGTGCGAGTTATGATATCCGGGCTAAG-CCCGAAGG
47855067 TGTTTTGAAC
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
TGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAAT
Found at i:47865965 original size:14 final size:14
Alignment explanation
Indices: 47865946--47865978 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
47865936 TAAAAATCAA
47865946 ACATAGAAATTCAT
1 ACATAGAAATTCAT
47865960 ACATAGAAATTCAT
1 ACATAGAAATTCAT
47865974 ACATA
1 ACATA
47865979 AATAAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.27
Consensus pattern (14 bp):
ACATAGAAATTCAT
Found at i:47867508 original size:67 final size:66
Alignment explanation
Indices: 47867394--47867578 Score: 221
Period size: 67 Copynumber: 2.8 Consensus size: 66
47867384 AGAACAATTT
** * *
47867394 CTTT-ACTATTTTCATTAAAAAGTTAATTTTAATCACACACCGACTAGATAATACTCTCATAGTT
1 CTTTCACTATTTTCATT-AAAAGTTAATTTTAATCACACATTGGCTAGAGAATACTCTCATAGTT
47867458 AA
65 AA
*
47867460 CTTTCACTATTTTCATTGAAAAGTTAATTTTAATCTCACATTGGCTAGAGAATACTCTCATAGTT
1 CTTTCACTATTTTCATT-AAAAGTTAATTTTAATCACACATTGGCTAGAGAATACTCTCATAGTT
*
47867525 CA
65 AA
** * * *
47867527 CTTTTTCACTA-TTTCATTAAAAAATATTTTTAATCCCACATTAGCTAGAGAA
1 C--TTTCACTATTTTCATTAAAAGTTAATTTTAATCACACATTGGCTAGAGAA
47867579 CATTCACATG
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
66 4 0.04
67 85 0.82
68 7 0.07
69 8 0.08
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (66 bp):
CTTTCACTATTTTCATTAAAAGTTAATTTTAATCACACATTGGCTAGAGAATACTCTCATAGTTA
A
Found at i:47883406 original size:48 final size:48
Alignment explanation
Indices: 47883329--47883510 Score: 251
Period size: 48 Copynumber: 3.8 Consensus size: 48
47883319 AGGGTTATGA
47883329 GAGCTAGTGTAAGACCATGTCT-GAGACATGGCATCGGCCTCGATATAT
1 GAGCTAGTGTAAGACCATGTCTGGA-ACATGGCATCGGCCTCGATATAT
* * * * *
47883377 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTGATA-AGA
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATATA-T
* *
47883425 GAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATAT
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATATAT
* *
47883473 GAGCTAGTGTATGACCATGTTTGGAACATGGCATCGGC
1 GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGC
47883511 ACCGGCACCG
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
47 1 0.01
48 111 0.97
49 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGAACATGGCATCGGCCTCGATATAT
Found at i:47883491 original size:96 final size:96
Alignment explanation
Indices: 47883327--47883507 Score: 335
Period size: 96 Copynumber: 1.9 Consensus size: 96
47883317 CTAGGGTTAT
*
47883327 GAGAGCTAGTGTAAGACCATGTCTGAGACATGGCATCGGCCTCGATATATGAGCTAGTGTAAGAC
1 GAGAGCTAATGTAAGACCATGTCTGAGACATGGCATCGGCCTCGATATATGAGCTAGTGTAAGAC
47883392 CATGTTTGGAACATGGCATCAGCATTGATAA
66 CATGTTTGGAACATGGCATCAGCATTGATAA
* *
47883423 GAGAGCTAATGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATATGAGCTAGTGTATGAC
1 GAGAGCTAATGTAAGACCATGTCTGAGACATGGCATCGGCCTCGATATATGAGCTAGTGTAAGAC
47883488 CATGTTTGGAACATGGCATC
66 CATGTTTGGAACATGGCATC
47883508 GGCACCGGCA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 82 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (96 bp):
GAGAGCTAATGTAAGACCATGTCTGAGACATGGCATCGGCCTCGATATATGAGCTAGTGTAAGAC
CATGTTTGGAACATGGCATCAGCATTGATAA
Found at i:47884334 original size:30 final size:30
Alignment explanation
Indices: 47884279--47884349 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
47884269 TTGTCTACAC
*
47884279 GTGTAGACACACGGGCGTGTGTCTAGACCGT
1 GTGT-GACACACGGGCATGTGTCTAGACCGT
* * *
47884310 GTGTGACACATGGGCATGTTTCTAGACTGT
1 GTGTGACACACGGGCATGTGTCTAGACCGT
47884340 GTGTGACACA
1 GTGTGACACA
47884350 GGGTTTGCCC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 32 0.89
31 4 0.11
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (30 bp):
GTGTGACACACGGGCATGTGTCTAGACCGT
Found at i:47885909 original size:44 final size:43
Alignment explanation
Indices: 47885854--47886003 Score: 121
Period size: 42 Copynumber: 3.5 Consensus size: 43
47885844 CCGATATGTG
* *
47885854 TTATCGTGTAAGACCACGTCTAGGACATTAGCATCG-ACTTATGAT
1 TTAT-GTGTAAGACCAAGTCTAGGACATCAGCATCGTA-TT-TGAT
* * *
47885899 TTATGTGTAAGACCAAGTCTGGGACATCGGCATTGTATTTGAT
1 TTATGTGTAAGACCAAGTCTAGGACATCAGCATCGTATTTGAT
* * *
47885942 TT-TGTGTAAGACCCTA-TCTGGGACAGT-GGCATCGATATTTGA-
1 TTATGTGTAAGA-CCAAGTCTAGGACA-TCAGCATCG-TATTTGAT
**
47885984 TTACATGTAAGACCAAGTCT
1 TTATGTGTAAGACCAAGTCT
47886004 GGGATGTTGG
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
42 29 0.33
43 27 0.30
44 28 0.31
45 5 0.06
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (43 bp):
TTATGTGTAAGACCAAGTCTAGGACATCAGCATCGTATTTGAT
Found at i:47885962 original size:42 final size:44
Alignment explanation
Indices: 47885854--47886007 Score: 149
Period size: 43 Copynumber: 3.5 Consensus size: 44
47885844 CCGATATGTG
* * * * *
47885854 TTATCGTGTAAGACCACGTCTAGGACATTAGCATCGACT-TATGAT
1 TTAT-GTGTAAGACCAAGTCTGGGACAGTGGCATCGA-TATTTGAT
*
47885899 TTATGTGTAAGACCAAGTCTGGGACA-TCGGCATTG-TATTTGAT
1 TTATGTGTAAGACCAAGTCTGGGACAGT-GGCATCGATATTTGAT
*
47885942 TT-TGTGTAAGACCCTA-TCTGGGACAGTGGCATCGATATTTGA-
1 TTATGTGTAAGA-CCAAGTCTGGGACAGTGGCATCGATATTTGAT
**
47885984 TTACATGTAAGACCAAGTCTGGGA
1 TTATGTGTAAGACCAAGTCTGGGA
47886008 TGTTGGCATT
Statistics
Matches: 92, Mismatches: 10, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
42 30 0.33
43 33 0.36
44 25 0.27
45 4 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
TTATGTGTAAGACCAAGTCTGGGACAGTGGCATCGATATTTGAT
Found at i:47887279 original size:42 final size:42
Alignment explanation
Indices: 47887228--47887324 Score: 194
Period size: 42 Copynumber: 2.3 Consensus size: 42
47887218 ATAGCCTAGA
47887228 CACACGGGCGTGTCTAATGTCGTGTGAGGCATACAGCCTGTT
1 CACACGGGCGTGTCTAATGTCGTGTGAGGCATACAGCCTGTT
47887270 CACACGGGCGTGTCTAATGTCGTGTGAGGCATACAGCCTGTT
1 CACACGGGCGTGTCTAATGTCGTGTGAGGCATACAGCCTGTT
47887312 CACACGGGCGTGT
1 CACACGGGCGTGT
47887325 AACCTGTATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.25
Consensus pattern (42 bp):
CACACGGGCGTGTCTAATGTCGTGTGAGGCATACAGCCTGTT
Done.