Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 72 of 196
Found at i:20586230 original size:23 final size:23
Alignment explanation
Indices: 20586204--20586249 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20586194 GCGTAACTGC
20586204 TGTATAGTAATAGGGTGCCCGAA
1 TGTATAGTAATAGGGTGCCCGAA
* *
20586227 TGTATAGTTATAGGGTGCGCGAA
1 TGTATAGTAATAGGGTGCCCGAA
20586250 ACCCACCTCC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (23 bp):
TGTATAGTAATAGGGTGCCCGAA
Found at i:20586429 original size:25 final size:25
Alignment explanation
Indices: 20586401--20586450 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
20586391 ACTAATTACT
*
20586401 TTATTGTCCGGTAAGCCTGCCCGAG
1 TTATTGTCCGGTAAGCCTCCCCGAG
20586426 TTATTGTCCGGTAAGCCTCCCCGAG
1 TTATTGTCCGGTAAGCCTCCCCGAG
20586451 GGAGGTATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.30, G:0.26, T:0.28
Consensus pattern (25 bp):
TTATTGTCCGGTAAGCCTCCCCGAG
Found at i:20589169 original size:16 final size:16
Alignment explanation
Indices: 20589148--20589191 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
20589138 AAAAGAAGGA
20589148 AAAATAAAATAAAAAT
1 AAAATAAAATAAAAAT
*
20589164 AAAATAAGATAACAAAT
1 AAAATAAAATAA-AAAT
20589181 -AAAT-AAATAAA
1 AAAATAAAATAAA
20589192 TAATGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 5 0.20
16 15 0.60
17 4 0.16
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
AAAATAAAATAAAAAT
Found at i:20597264 original size:103 final size:103
Alignment explanation
Indices: 20597140--20597345 Score: 317
Period size: 103 Copynumber: 2.0 Consensus size: 103
20597130 CATACGTTGG
* * *
20597140 CAAATATCTACAATCTAAATAAATATTGATTTCATTGACTTCGCTTGCA-CTTTTGTGCTATTGA
1 CAAATATCTACAATCTAAATAAATATTGATTTCATTGAATTCACTTGCATC-TTTATGCTATTGA
*
20597204 GATTCATC-ACCTTTATACCTTAAATAACTACTCAAGTTC
65 GATTCA-CAACCTTTATACCTTAAATAACAACTCAAGTTC
* * *
20597243 CAAATATCTACAATCTAAATAAGTATTTATTTCATTGAATTTACTTGCATCTTTATGCTATTGAG
1 CAAATATCTACAATCTAAATAAATATTGATTTCATTGAATTCACTTGCATCTTTATGCTATTGAG
20597308 ATTCACAACCTTTATACCTTAAATAACAACTCAAGTTC
66 ATTCACAACCTTTATACCTTAAATAACAACTCAAGTTC
20597346 TGTCCAGTTC
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
102 1 0.01
103 92 0.98
104 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (103 bp):
CAAATATCTACAATCTAAATAAATATTGATTTCATTGAATTCACTTGCATCTTTATGCTATTGAG
ATTCACAACCTTTATACCTTAAATAACAACTCAAGTTC
Found at i:20604888 original size:40 final size:40
Alignment explanation
Indices: 20604830--20604966 Score: 204
Period size: 40 Copynumber: 3.4 Consensus size: 40
20604820 TCAGAACATT
* *
20604830 GGCATTAAGCCTACTAGACATTAAGTCTGTAAAGTTCACC
1 GGCACTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
* * *
20604870 GGCATTAAGCCTGTTAGACATTAAGTCTGTAAAGTTCACT
1 GGCACTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
20604910 GGCACTAAGCCTGCT-GAACATTAAGTCTGTAAAGTTCACC
1 GGCACTAAGCCTGCTAG-ACATTAAGTCTGTAAAGTTCACC
*
20604950 GGCACTAATCCTGCTAG
1 GGCACTAAGCCTGCTAG
20604967 GCATAGGACC
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 1 0.01
40 86 0.98
41 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (40 bp):
GGCACTAAGCCTGCTAGACATTAAGTCTGTAAAGTTCACC
Found at i:20606638 original size:20 final size:20
Alignment explanation
Indices: 20606613--20606651 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
20606603 TTTCGACTCA
20606613 GTTTCATGGTCCCAAAACCT
1 GTTTCATGGTCCCAAAACCT
20606633 GTTTCATGGTCCCAAAACC
1 GTTTCATGGTCCCAAAACC
20606652 ACTATGTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (20 bp):
GTTTCATGGTCCCAAAACCT
Found at i:20612914 original size:40 final size:40
Alignment explanation
Indices: 20612854--20612983 Score: 233
Period size: 40 Copynumber: 3.2 Consensus size: 40
20612844 ACTGGTATTC
* *
20612854 AGCCTGCTAGACATTAAGTCTGTAAAATTCACCGGCATTA
1 AGCCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCACTA
*
20612894 AGCCTGCTAGACATTTAGTCTGTAAAGTTCACCGGCACTA
1 AGCCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCACTA
20612934 AGCCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCACTA
1 AGCCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCACTA
20612974 AGCCTGCTAG
1 AGCCTGCTAG
20612984 GAACAGGACC
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCCTGCTAGACATTAAGTCTGTAAAGTTCACCGGCACTA
Found at i:20616541 original size:29 final size:29
Alignment explanation
Indices: 20616507--20616755 Score: 206
Period size: 29 Copynumber: 8.6 Consensus size: 29
20616497 GATGGTTGCA
*
20616507 ACCATCCCTTTTCATATTCGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGAC
* *
20616536 ATCATCCCTTTTCATTAATCGATGGTC-ATC
1 ACCATCCCTTTTCA-TATTCGATGGTCGA-C
20616566 ACCATCCCTTTTCATAGTT-GATGGTC-ATC
1 ACCATCCCTTTTCATA-TTCGATGGTCGA-C
* * * *
20616595 ACCATCCCTTTTCATAATCGATAG-CCAA
1 ACCATCCCTTTTCATATTCGATGGTCGAC
* * *
20616623 AGCTATCCCTTTTCATATTCGATAGCCGA-
1 A-CCATCCCTTTTCATATTCGATGGTCGAC
* * * * *
20616652 AGCTATCGCTTTTCATATTTGATGGCCGTC
1 A-CCATCCCTTTTCATATTCGATGGTCGAC
* *
20616682 ACCATCCCTTTACATATTCGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGAC
**
20616711 ACCATCCCTTTTCATAGTT-GATTATC-ATC
1 ACCATCCCTTTTCATA-TTCGATGGTCGA-C
20616740 ACCATCCCTTTTCATA
1 ACCATCCCTTTTCATA
20616756 ATCGTTAGCC
Statistics
Matches: 186, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
28 3 0.02
29 153 0.82
30 30 0.16
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.37
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGAC
Found at i:20616689 original size:58 final size:58
Alignment explanation
Indices: 20616507--20616792 Score: 181
Period size: 58 Copynumber: 4.9 Consensus size: 58
20616497 GATGGTTGCA
* * * * * **
20616507 ACCATCCCTTTTCATATTCGATGGTCGAA-ATCATCCCTTTTCATTAATCGATGGTCATC
1 ACCATCCCTTTTCATATTCGATAGCCGAAGCT-ATCCCTTTTCA-TATTTGATGACCATC
* * * * * *
20616566 ACCATCCCTTTTCATAGTT-GATGGTC-ATCA-CCATCCCTTTTCATAATCGAT-AGCCA-A
1 ACCATCCCTTTTCATA-TTCGATAGCCGA--AGCTATCCCTTTTCATATTTGATGA-CCATC
* * * *
20616623 AGCTATCCCTTTTCATATTCGATAGCCGAAGCTATCGCTTTTCATATTTGATGGCCGTC
1 A-CCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGACCATC
* * * * * * * *
20616682 ACCATCCCTTTACATATTCGATGGTCGTCA-CCATCCCTTTTCATAGTTGATTATCATC
1 ACCATCCCTTTTCATATTCGATAGCCG-AAGCTATCCCTTTTCATATTTGATGACCATC
* * * * *
20616740 ACCATCCCTTTTCATAATCGTTAGCCAAAGCTATCCCTTTTCAAATTCGATGA
1 ACCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGA
20616793 TCGCCGATAC
Statistics
Matches: 176, Mismatches: 39, Indels: 25
0.73 0.16 0.10
Matches are distributed among these distances:
57 5 0.03
58 131 0.74
59 37 0.21
60 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (58 bp):
ACCATCCCTTTTCATATTCGATAGCCGAAGCTATCCCTTTTCATATTTGATGACCATC
Found at i:20616718 original size:87 final size:86
Alignment explanation
Indices: 20616507--20616755 Score: 243
Period size: 87 Copynumber: 2.8 Consensus size: 86
20616497 GATGGTTGCA
* * *
20616507 ACCATCCCTTTTCATATTCGATGGTCGAAATCATCCCTTTTCATTAATCGATGGTCATCACCATC
1 ACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCA-TAATCGATAGCCA-CACCATC
*
20616572 CCTTTTCATAGTTGATGGTCATC
64 CCTTTTCATAGTTGATGGCCATC
* * * * * *
20616595 ACCATCCCTTTTCATAATCGATAG-CCAAAGCTATCCCTTTTCATATTCGATAGCCGA-AGCTAT
1 ACCATCCCTTTTCATATTCGATGGTCGAAA-CCATCCCTTTTCATAATCGATAGCC-ACA-CCAT
* * *
20616658 CGCTTTTCATATTTGATGGCCGTC
63 CCCTTTTCATAGTTGATGGCCATC
* ** * * *
20616682 ACCATCCCTTTACATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATTA-TCATCACCATC
1 ACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATAATCGA-TAGCCA-CACCATC
20616746 CCTTTTCATA
64 CCTTTTCATA
20616756 ATCGTTAGCC
Statistics
Matches: 129, Mismatches: 25, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
86 2 0.02
87 88 0.68
88 39 0.30
ACGTcount: A:0.23, C:0.29, G:0.12, T:0.37
Consensus pattern (86 bp):
ACCATCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATAATCGATAGCCACACCATCCC
TTTTCATAGTTGATGGCCATC
Found at i:20616778 original size:145 final size:146
Alignment explanation
Indices: 20616514--20616790 Score: 439
Period size: 145 Copynumber: 1.9 Consensus size: 146
20616504 GCAACCATCC
* * *
20616514 CTTTTCATATTCGATGGTCGAAATCATCCCTTTTCATTAATCGATGGTCATCACCATCCCTTTTC
1 CTTTTCATATTCGATGGCCGAAACCATCCCTTTACATTAATCGATGGTCATCACCATCCCTTTTC
* *
20616579 ATAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATATTCG
66 ATAGTTGATGATCATCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCAAATTCG
20616644 ATAGCCGAAGCTATCG
131 ATAGCCGAAGCTATCG
* ** * *
20616660 CTTTTCATATTTGATGGCCGTCACCATCCCTTTACA-TATTCGATGGTCGTCACCATCCCTTTTC
1 CTTTTCATATTCGATGGCCGAAACCATCCCTTTACATTAATCGATGGTCATCACCATCCCTTTTC
* *
20616724 ATAGTTGATTATCATCACCATCCCTTTTCATAATCGTTAGCCAAAGCTATCCCTTTTCAAATTCG
66 ATAGTTGATGATCATCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCAAATTCG
20616789 AT
131 AT
20616791 GATCGCCGAT
Statistics
Matches: 119, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
145 89 0.75
146 30 0.25
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (146 bp):
CTTTTCATATTCGATGGCCGAAACCATCCCTTTACATTAATCGATGGTCATCACCATCCCTTTTC
ATAGTTGATGATCATCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCAAATTCG
ATAGCCGAAGCTATCG
Found at i:20626088 original size:45 final size:45
Alignment explanation
Indices: 20625963--20626090 Score: 211
Period size: 45 Copynumber: 2.8 Consensus size: 45
20625953 TACCGGAATT
*
20625963 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCACGATTCTATC
1 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGATTCTATC
*
20626008 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGATTCTTTC
1 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGATTCTATC
** *
20626053 GAGTAAGACCATACCTAAAAGACGCTATGGCATCATGA
1 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGA
20626091 ATCAAAGAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 78 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (45 bp):
GAGTAAGACCATGGCTAAAAGACGTTATGGCATCATGATTCTATC
Found at i:20626119 original size:90 final size:90
Alignment explanation
Indices: 20625963--20626129 Score: 201
Period size: 90 Copynumber: 1.9 Consensus size: 90
20625953 TACCGGAATT
** * * ** * *
20625963 GAGTAAGACCATGGCTAAAAGACGTTATGGCATCACGATTCTATCGAGTAAGACCATGGCTAAAA
1 GAGTAAGACCATACCTAAAAGACGCTATGGCATCACGAATCTAAAGAATAAGACCATAGCTAAAA
**
20626028 GACGTTATGGCATCATGATTCTTTC
66 GACACTATGGCATCATGATTCTTTC
* * *
20626053 GAGTAAGACCATACCTAAAAGACGCTATGGCATCATGAATC-AAAGAAATAAGACCATAGTTGAA
1 GAGTAAGACCATACCTAAAAGACGCTATGGCATCACGAATCTAAAG-AATAAGACCATAGCTAAA
20626117 AGACACTATGGCA
65 AGACACTATGGCA
20626130 ATACAACGAA
Statistics
Matches: 63, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
89 2 0.03
90 61 0.97
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.23
Consensus pattern (90 bp):
GAGTAAGACCATACCTAAAAGACGCTATGGCATCACGAATCTAAAGAATAAGACCATAGCTAAAA
GACACTATGGCATCATGATTCTTTC
Found at i:20637825 original size:96 final size:96
Alignment explanation
Indices: 20637661--20637845 Score: 280
Period size: 96 Copynumber: 1.9 Consensus size: 96
20637651 CTTACTTTCT
* * * * *
20637661 TCTCTAGTTGGATATTTAATTGGATATTGGAAATCCTTATGATCTTCTGAACTACACTAATAACA
1 TCTCTAGTTGGATATTTAAGTGGACATTGGAAACCCTTATGACCTTCTGAACTACACCAATAACA
*
20637726 TTGCACAAAAGGTGATATCTCAATTGTCTTC
66 TTGCACAAAAGGTGATAGCTCAATTGTCTTC
* * *
20637757 TCTCTATTTGGATATTTAAGTGGGCATTGGAAACCCTTATGACCTTTTGAACTACACCAATAACA
1 TCTCTAGTTGGATATTTAAGTGGACATTGGAAACCCTTATGACCTTCTGAACTACACCAATAACA
*
20637822 TTGCACAAAATGTGATAGCTCAAT
66 TTGCACAAAAGGTGATAGCTCAAT
20637846 CGTATTCCTC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 79 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (96 bp):
TCTCTAGTTGGATATTTAAGTGGACATTGGAAACCCTTATGACCTTCTGAACTACACCAATAACA
TTGCACAAAAGGTGATAGCTCAATTGTCTTC
Found at i:20640155 original size:30 final size:30
Alignment explanation
Indices: 20640114--20640186 Score: 130
Period size: 30 Copynumber: 2.5 Consensus size: 30
20640104 TATTCATAAC
*
20640114 AACAA-ATAATTTATTTTAGAATTGAAAGT
1 AACAATATAATTTATTTTAGAATTGAAAAT
20640143 AACAATATAATTTATTTTAGAATTGAAAAT
1 AACAATATAATTTATTTTAGAATTGAAAAT
20640173 AACAATATAATTTA
1 AACAATATAATTTA
20640187 ATACATGATT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 5 0.12
30 37 0.88
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (30 bp):
AACAATATAATTTATTTTAGAATTGAAAAT
Found at i:20651971 original size:28 final size:28
Alignment explanation
Indices: 20651908--20652061 Score: 229
Period size: 28 Copynumber: 5.5 Consensus size: 28
20651898 ATATTAAGTC
*
20651908 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20651935 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
20651963 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
20651991 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
20652019 CGCACACTTAGTGCTGTACAATTTAAACG
1 CGCACACTTAGTGCTATATAA-TCAAACT
*
20652048 CGTACACTTAGTGC
1 CGCACACTTAGTGC
20652062 CAATCTCATG
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.66
29 18 0.15
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20659897 original size:28 final size:28
Alignment explanation
Indices: 20659834--20659987 Score: 238
Period size: 28 Copynumber: 5.5 Consensus size: 28
20659824 ATATTAAGTC
*
20659834 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20659861 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
20659889 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
20659917 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
20659945 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20659974 CGCACACTTAGTGC
1 CGCACACTTAGTGC
20659988 CAATCTCATG
Statistics
Matches: 118, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.65
29 19 0.16
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20680254 original size:40 final size:39
Alignment explanation
Indices: 20680197--20680440 Score: 269
Period size: 40 Copynumber: 6.1 Consensus size: 39
20680187 TCGAATGATG
* * *
20680197 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTATA
*
20680237 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * *
20680276 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
*
20680316 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
* *
20680356 ACCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTATA
* * **
20680396 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTA-CTATA
20680436 TCCGG
1 TCCGG
20680441 TTAAATTCCG
Statistics
Matches: 177, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
39 38 0.21
40 130 0.73
41 9 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:20680443 original size:119 final size:119
Alignment explanation
Indices: 20680197--20680454 Score: 335
Period size: 119 Copynumber: 2.2 Consensus size: 119
20680187 TCGAATGATG
* *
20680197 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* **
20680262 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * *
20680316 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATT
* * *
20680380 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
65 TGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
20680436 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20680455 TACGTGATTT
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
118 2 0.02
119 89 0.73
120 31 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:20686527 original size:96 final size:96
Alignment explanation
Indices: 20686351--20686528 Score: 248
Period size: 96 Copynumber: 1.9 Consensus size: 96
20686341 AAGCCCCTAG
* * * * * *
20686351 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCACACCGAAGATAGCAAATCTTATCTCCCTAAAGTTGC
*
20686416 AGTGGAATAGATTGAAGCTATAAATTACAGA
66 AGTGGAACAGATTGAAGCTATAAATTACAGA
* * *
20686447 TCTTATCTCTCTGAAGTTGTAGTAGAGCACACCGAAGATAGCAAATCTTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCACACCGAAGATAGCAAATCTTATCTCCCTAAAGTTGC
* *
20686512 AGTGGAGCAGGTTGAAG
66 AGTGGAACAGATTGAAG
20686529 ATACCAATCT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 70 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (96 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCACACCGAAGATAGCAAATCTTATCTCCCTAAAGTTGC
AGTGGAACAGATTGAAGCTATAAATTACAGA
Found at i:20686553 original size:44 final size:44
Alignment explanation
Indices: 20686446--20686966 Score: 393
Period size: 44 Copynumber: 11.6 Consensus size: 44
20686436 TAAATTACAG
* * * * ** *
20686446 ATCTTATCTCTCTGAAGTTGTAGTAGAGCACACCGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CCA
*
20686491 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
* * * **
20686535 ATCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTGAAGCTATTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
* * * * **
20686579 ATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATGATGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCA
* * * * * * **
20686623 ATCCTATAC-CTCTAAAGTTACAGTAGG-TCAGATTAAATCTACCATGACA
1 ATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGATA-C----CA
* * ** *
20686672 AGTCTTATCTCCCTGAAGTTGTAGTGAAATAGATTGAAGATAACAA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACCA
* * * *
20686718 ACCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACGA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
* * * *
20686762 GTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CCA
* ** * *
20686807 ACCTTATCTTGCTGAAGTTGCAGTGGAGCAGGTTGAAAATA-CA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
* *
20686850 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCA
1 A-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
** * * * **
20686895 ATCTTATCTTACTAAAGCTGCAGTGGAGCAGATTGAAGCTATTA
1 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
* *
20686939 ATCCTATCACCCTGAAGTTGCAGTGGAG
1 ATCTTATCTCCCTGAAGTTGCAGTGGAG
20686967 TGGATTAAAA
Statistics
Matches: 376, Mismatches: 84, Indels: 33
0.76 0.17 0.07
Matches are distributed among these distances:
43 5 0.01
44 229 0.61
45 110 0.29
46 2 0.01
49 4 0.01
50 25 0.07
51 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACCA
Found at i:20686775 original size:89 final size:89
Alignment explanation
Indices: 20686669--20686966 Score: 375
Period size: 89 Copynumber: 3.4 Consensus size: 89
20686659 ATCTACCATG
* ** *
20686669 ACAAGTCTTATCTCCCTGAAGTTGTAGTGAAATAGATTGAAGATAACAAACCTTATCTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAACAAACCTTATCTTACTGAA
20686734 GTTGCAGTGGAGCAGGTTGAAGAT
66 GTTGCAGTGGAGCAGGTTGAAGAT
* * * *
20686758 ACGAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCAAACCTTATCTTGCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAACAAACCTTATCTTACTGAA
*
20686823 GTTGCAGTGGAGCAGGTTGAAAAT
66 GTTGCAGTGGAGCAGGTTGAAGAT
* * * * * *
20686847 ACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGAT-ACCAATCTTATCTTACTAAA
1 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAACAAACCTTATCTTACTGAA
* * *
20686911 GCTGCAGTGGAGCAGATTGAAGCT
66 GTTGCAGTGGAGCAGGTTGAAGAT
* * * *
20686935 ATTAA-TCCTATCACCCTGAAGTTGCAGTGGAG
1 A-CAAGTCTTATCTCCCTGAAGTTGTAGTGGAG
20686967 TGGATTAAAA
Statistics
Matches: 182, Mismatches: 26, Indels: 3
0.86 0.12 0.01
Matches are distributed among these distances:
88 60 0.33
89 122 0.67
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (89 bp):
ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAACAAACCTTATCTTACTGAA
GTTGCAGTGGAGCAGGTTGAAGAT
Found at i:20686975 original size:316 final size:318
Alignment explanation
Indices: 20686349--20686928 Score: 756
Period size: 316 Copynumber: 1.8 Consensus size: 318
20686339 CGAAGCCCCT
* * * * *
20686349 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAATAGACTGAAGATAACAAACCTTATTTCCCTAAAGTT
* *
20686414 GCAGTGGAATAGATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCACAC
66 GCAGTGGAACAGATTGAAG-----AATTACAGATCTTATCTCCCTGAAGTTGTAGTAGAGCACAC
* * *
20686479 CGAAGATAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCT
126 CGAAGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATACCAACCTTATCT
* ** * * * *
20686544 CCCTAAAGTTGCAGCGGAGCAGATTGAAGCTATTAATCCTATCTCCCTGAAGTTACAGTGGAGCG
191 CCCTAAAGTTGCAGCGGAGCAGATTGAAGATACCAATCCTATCTCACTAAAGCTACAGTGGAGCA
20686609 GATTAAAATGATGAATCCTATACCTCTAAAGTTACAGTAGGTCAGATTAAATCTACCATGACA
256 GATTAAAATGATGAATCCTATACCTCTAAAGTTACAGTAGGTCAGATTAAATCTACCATGACA
* * *
20686672 AGTCTTATCTCCCTGAAGTTGTAGTGAAATAGATTGAAGATAACAAACCTTATCTT-CCTGAAGT
1 AGTCTTATCTCCCTGAAGTTGCAGTGAAATAGACTGAAGATAACAAACCTTAT-TTCCCTAAAGT
* * * * *
20686736 TGCAGTGGAGCAGGTTGAAG-A-TAC-GAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGA
65 TGCAGTGGAACAGATTGAAGAATTACAGA-TCTTATCTCCCTGAAGTTGTAGTAGAGCACACCGA
**
20686798 AGATAGCAAACCTTATCTTGCTGAAGTTGCAGTGGAGCAGGTTGAAAATA-CAAGCCTTATCTCC
129 AGATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATACCAA-CCTTATCTCC
* * * * * *
20686862 CTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTTACTAAAGCTGCAGTGGAGCAGA
193 CTAAAGTTGCAGCGGAGCAGATTGAAGATACCAATCCTATCTCACTAAAGCTACAGTGGAGCAGA
20686927 TT
258 TT
20686929 GAAGCTATTA
Statistics
Matches: 221, Mismatches: 33, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
315 5 0.02
316 143 0.65
317 1 0.00
323 70 0.32
324 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (318 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGAAATAGACTGAAGATAACAAACCTTATTTCCCTAAAGTT
GCAGTGGAACAGATTGAAGAATTACAGATCTTATCTCCCTGAAGTTGTAGTAGAGCACACCGAAG
ATAGCAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAATACCAACCTTATCTCCCTA
AAGTTGCAGCGGAGCAGATTGAAGATACCAATCCTATCTCACTAAAGCTACAGTGGAGCAGATTA
AAATGATGAATCCTATACCTCTAAAGTTACAGTAGGTCAGATTAAATCTACCATGACA
Found at i:20687469 original size:26 final size:26
Alignment explanation
Indices: 20687440--20687495 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
20687430 AATAATAGTT
20687440 CAATTACAAAGGAAAAATAACAGGCC
1 CAATTACAAAGGAAAAATAACAGGCC
20687466 CAATTACAAAGGAAAAATAACAGGCC
1 CAATTACAAAGGAAAAATAACAGGCC
20687492 CAAT
1 CAAT
20687496 GTAGGCCATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.54, C:0.20, G:0.14, T:0.12
Consensus pattern (26 bp):
CAATTACAAAGGAAAAATAACAGGCC
Found at i:20688920 original size:20 final size:23
Alignment explanation
Indices: 20688895--20688941 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 23
20688885 GATACATTAG
*
20688895 TATTATTTTG-TTGTT-G-TTGT
1 TATTATTGTGATTGTTAGATTGT
20688915 TATTATTGTGATTGTTAGATTGT
1 TATTATTGTGATTGTTAGATTGT
20688938 TATT
1 TATT
20688942 TGCATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 5 0.22
22 1 0.04
23 8 0.35
ACGTcount: A:0.17, C:0.00, G:0.19, T:0.64
Consensus pattern (23 bp):
TATTATTGTGATTGTTAGATTGT
Found at i:20691266 original size:26 final size:27
Alignment explanation
Indices: 20691212--20691268 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 27
20691202 CCAGTTCTTC
20691212 ACCAAATCACAACCACAAAACCACTAAA
1 ACCAAATCACAACCAC-AAACCACTAAA
20691240 ACCAAATCACAACCAC-AACCACTAAA
1 ACCAAATCACAACCACAAACCACTAAA
20691266 ACC
1 ACC
20691269 TTCTCTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 13 0.45
28 16 0.55
ACGTcount: A:0.54, C:0.39, G:0.00, T:0.07
Consensus pattern (27 bp):
ACCAAATCACAACCACAAACCACTAAA
Found at i:20691843 original size:6 final size:6
Alignment explanation
Indices: 20691832--20691868 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
20691822 ATTTCTTCCC
*
20691832 TTGGAA TTGGAA TTGAAA TTGGAA TTGGAA TTGGAA T
1 TTGGAA TTGGAA TTGGAA TTGGAA TTGGAA TTGGAA T
20691869 CGAGTTATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (6 bp):
TTGGAA
Found at i:20694315 original size:12 final size:12
Alignment explanation
Indices: 20694298--20694342 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
20694288 TAAGATCTAT
20694298 TTTTTAATATCC
1 TTTTTAATATCC
*
20694310 TTTTTACTATCC
1 TTTTTAATATCC
20694322 TTTTTACTAATATCC
1 -TTTT--TAATATCC
20694337 TTTTTA
1 TTTTTA
20694343 CTAATCCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 13 0.46
13 4 0.14
14 4 0.14
15 7 0.25
ACGTcount: A:0.22, C:0.18, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTTTAATATCC
Found at i:20694334 original size:27 final size:29
Alignment explanation
Indices: 20694302--20694355 Score: 94
Period size: 27 Copynumber: 1.9 Consensus size: 29
20694292 ATCTATTTTT
20694302 TAATATCCTTTTTACT-ATCC-TTTTTAC
1 TAATATCCTTTTTACTAATCCATTTTTAC
20694329 TAATATCCTTTTTACTAATCCATTTTT
1 TAATATCCTTTTTACTAATCCATTTTT
20694356 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.64
28 4 0.16
29 5 0.20
ACGTcount: A:0.24, C:0.20, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATATCCTTTTTACTAATCCATTTTTAC
Found at i:20694337 original size:15 final size:15
Alignment explanation
Indices: 20694302--20694347 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
20694292 ATCTATTTTT
20694302 TAATATCCTTTTTAC
1 TAATATCCTTTTTAC
20694317 ---TATCCTTTTTAC
1 TAATATCCTTTTTAC
20694329 TAATATCCTTTTTAC
1 TAATATCCTTTTTAC
20694344 TAAT
1 TAAT
20694348 CCATTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 12 0.43
15 16 0.57
ACGTcount: A:0.26, C:0.20, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATATCCTTTTTAC
Found at i:20694948 original size:14 final size:14
Alignment explanation
Indices: 20694913--20694949 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
20694903 AACACAAGTA
*
20694913 ACTATTTCGAATTG
1 ACTATTTTGAATTG
20694927 ACTATTTTGAATTG
1 ACTATTTTGAATTG
20694941 ACTATTTTG
1 ACTATTTTG
20694950 GTGAATGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.49
Consensus pattern (14 bp):
ACTATTTTGAATTG
Found at i:20695101 original size:42 final size:42
Alignment explanation
Indices: 20695042--20695154 Score: 147
Period size: 42 Copynumber: 2.7 Consensus size: 42
20695032 ATGGTGAAAG
* * *
20695042 TGAGATTTGATTTGCATGCTATGCATGCCGACTATGATAAAC
1 TGAGATTTGAGTTGCATGTTAAGCATGCCGACTATGATAAAC
* * *
20695084 TGAGATTTGAGTTGCATGTTAAGCATGCCGACTATGTTGATC
1 TGAGATTTGAGTTGCATGTTAAGCATGCCGACTATGATAAAC
*
20695126 TTAGATTTG-GTTCGCATGTTAAGCATGCC
1 TGAGATTTGAGTT-GCATGTTAAGCATGCC
20695155 TACTGAAGAC
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 3 0.05
42 60 0.95
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (42 bp):
TGAGATTTGAGTTGCATGTTAAGCATGCCGACTATGATAAAC
Found at i:20699690 original size:6 final size:6
Alignment explanation
Indices: 20699681--20699714 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
20699671 AGAACAACTA
* *
20699681 AAAAAG AAAAAG AAAAAG AAAATG GAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
20699715 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:20699715 original size:12 final size:12
Alignment explanation
Indices: 20699657--20699715 Score: 55
Period size: 12 Copynumber: 4.7 Consensus size: 12
20699647 AAAACAATCT
*
20699657 AAGAAAATAAAA
1 AAGAAAATGAAA
*
20699669 ATAGAACAACTAAAA
1 A-AGAA-AA-TGAAA
*
20699684 AAGAAAAAGAAA
1 AAGAAAATGAAA
*
20699696 AAGAAAATGGAA
1 AAGAAAATGAAA
20699708 AAGAAAAT
1 AAGAAAAT
20699716 AAATAAAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
12 22 0.55
13 6 0.15
14 6 0.15
15 6 0.15
ACGTcount: A:0.75, C:0.03, G:0.14, T:0.08
Consensus pattern (12 bp):
AAGAAAATGAAA
Found at i:20704081 original size:29 final size:29
Alignment explanation
Indices: 20704039--20704298 Score: 367
Period size: 29 Copynumber: 9.0 Consensus size: 29
20704029 GATAGTTGAA
*
20704039 ACCATCCCTTTTCATATTCAATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
20704068 ACCATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
****
20704097 ACCATCCCTTTTCATATTCGATGGTTAAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
20704126 ACCATCCCTTTTCATATTCGATGGTCTTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* * * * *
20704155 GCCATCCCTCTTAATATTCGATGTTCATC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
20704184 ACCATCCCTTTTCATATTCGATGGCCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
**
20704213 ACCATCCCTTTTCATATTCGATGGTCGAA
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
20704242 ACCATCCCTTTTCATATTCGATGGTCCTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
20704271 ACCATCTCTTTTCATATTCGATGGTCGT
1 ACCATCCCTTTTCATATTCGATGGTCGT
20704299 TTGTAACGCC
Statistics
Matches: 201, Mismatches: 30, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 201 1.00
ACGTcount: A:0.20, C:0.30, G:0.12, T:0.38
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:20706403 original size:15 final size:16
Alignment explanation
Indices: 20706383--20706413 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20706373 CAACTATTTT
20706383 GAAAAA-AAAAAGGAA
1 GAAAAACAAAAAGGAA
20706398 GAAAAACAAAAAGGAA
1 GAAAAACAAAAAGGAA
20706414 AACAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.77, C:0.03, G:0.19, T:0.00
Consensus pattern (16 bp):
GAAAAACAAAAAGGAA
Found at i:20710049 original size:16 final size:16
Alignment explanation
Indices: 20710028--20710060 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20710018 ACCATTTTTG
20710028 AGAAAAA-AAGAAAAGA
1 AGAAAAACAA-AAAAGA
20710044 AGAAAAACAAAAAAGA
1 AGAAAAACAAAAAAGA
20710060 A
1 A
20710061 AACAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (16 bp):
AGAAAAACAAAAAAGA
Found at i:20710411 original size:29 final size:29
Alignment explanation
Indices: 20710363--20710483 Score: 134
Period size: 29 Copynumber: 4.2 Consensus size: 29
20710353 GGGTGTTATA
* *
20710363 TCGTCACCATTCCTTTTCATATTCGATGG
1 TCGTCGCCATCCCTTTTCATATTCGATGG
* *
20710392 CCATCGCCATCCCTTTTCATATTCGATGG
1 TCGTCGCCATCCCTTTTCATATTCGATGG
** * *
20710421 TCGTCATCATTCTTTTTCATATTCGATGG
1 TCGTCGCCATCCCTTTTCATATTCGATGG
* * * *
20710450 TCGTTGCCATCCCCTTTCATACTCTATGG
1 TCGTCGCCATCCCTTTTCATATTCGATGG
20710479 TCGTC
1 TCGTC
20710484 ATTCAATGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.16, C:0.30, G:0.14, T:0.40
Consensus pattern (29 bp):
TCGTCGCCATCCCTTTTCATATTCGATGG
Found at i:20710459 original size:58 final size:58
Alignment explanation
Indices: 20710363--20710485 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 58
20710353 GGGTGTTATA
* * *
20710363 TCGTCACCATTCCTTTTCATATTCGATGGCCATCGCCATCCCTTTTCATATTCGATGG
1 TCGTCATCATTCCTTTTCATATTCGATGGCCATCGCCATCCCCTTTCATACTCGATGG
* * * * *
20710421 TCGTCATCATTCTTTTTCATATTCGATGGTCGTTGCCATCCCCTTTCATACTCTATGG
1 TCGTCATCATTCCTTTTCATATTCGATGGCCATCGCCATCCCCTTTCATACTCGATGG
20710479 TCGTCAT
1 TCGTCAT
20710486 TCAATGGTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.16, C:0.29, G:0.14, T:0.41
Consensus pattern (58 bp):
TCGTCATCATTCCTTTTCATATTCGATGGCCATCGCCATCCCCTTTCATACTCGATGG
Found at i:20710530 original size:29 final size:29
Alignment explanation
Indices: 20710498--20710603 Score: 167
Period size: 29 Copynumber: 3.7 Consensus size: 29
20710488 AATGGTCAAA
* *
20710498 ACCATCCCTTTTCATATTCGATGCTTGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
*
20710527 ACCATCCCTTTTCATATTTGATGGTCGTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
* *
20710556 ACCGTCCCTTTTCATATTCGATGGTCCTC
1 ACCATCCCTTTTCATATTCGATGGTCGTC
20710585 ACCATCCCTTTTCATATTC
1 ACCATCCCTTTTCATATTC
20710604 AATAGTTAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.17, C:0.32, G:0.10, T:0.41
Consensus pattern (29 bp):
ACCATCCCTTTTCATATTCGATGGTCGTC
Found at i:20710580 original size:101 final size:101
Alignment explanation
Indices: 20710398--20710581 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 101
20710388 ATGGCCATCG
* * * * **
20710398 CCATCCCTTTTCATATTCGATGGTCGTCATCATTCTTTTTCATATTCGATGGTCGTTGCCATCCC
1 CCATCCCTTTTCATATTCGATGCTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCCC
*
20710463 CTTTCATACTCTATGGTCGTCATTCAATGGTCAAAA
66 CTTTCATACTCGATGGTCGTCATTCAATGGTCAAAA
* * *
20710499 CCATCCCTTTTCATATTCGATGCTTGTCACCATCCCTTTTCATATTTGATGGTCGTCACCGTCCC
1 CCATCCCTTTTCATATTCGATGCTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCCC
* *
20710564 TTTTCATATTCGATGGTC
66 CTTTCATACTCGATGGTC
20710582 CTCACCATCC
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (101 bp):
CCATCCCTTTTCATATTCGATGCTCGTCACCATCCCTTTTCATATTCGATGGTCGTCACCATCCC
CTTTCATACTCGATGGTCGTCATTCAATGGTCAAAA
Found at i:20710622 original size:58 final size:58
Alignment explanation
Indices: 20710484--20710637 Score: 191
Period size: 58 Copynumber: 2.7 Consensus size: 58
20710474 TATGGTCGTC
* **
20710484 ATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGCTTGTCACCATCCCTTTTCAT
1 ATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGGTCCTCACCATCCCTTTTCAT
** *** *
20710542 ATTTGATGGTCGTCACCGTCCCTTTTCATATTCGATGGTCCTCACCATCCCTTTTCAT
1 ATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGGTCCTCACCATCCCTTTTCAT
* * * *
20710600 ATTCAATAGTTAAAATCATCCCTTTTCATATTTGATGG
1 ATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGG
20710638 GCGTCAATAC
Statistics
Matches: 77, Mismatches: 19, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
58 77 1.00
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.40
Consensus pattern (58 bp):
ATTCAATGGTCAAAACCATCCCTTTTCATATTCGATGGTCCTCACCATCCCTTTTCAT
Found at i:20718644 original size:20 final size:20
Alignment explanation
Indices: 20718599--20718666 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
20718589 CACATTAGTG
* *
20718599 CCCCTGTTTGTACTTTGCTA
1 CCCCTGTTTGTACTTCGGTA
**
20718619 GTCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* *
20718639 CCCCTGTTTGCACTTCGGTG
1 CCCCTGTTTGTACTTCGGTA
20718659 CCCCTGTT
1 CCCCTGTT
20718667 CGCACATATG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.07, C:0.31, G:0.21, T:0.41
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:20718671 original size:20 final size:20
Alignment explanation
Indices: 20718621--20718704 Score: 96
Period size: 20 Copynumber: 4.2 Consensus size: 20
20718611 CTTTGCTAGT
* *
20718621 CCTGTTTGTACTTCGGTACC
1 CCTGTTTGCACTTCGGTGCC
20718641 CCTGTTTGCACTTCGGTGCC
1 CCTGTTTGCACTTCGGTGCC
* * **
20718661 CCTGTTCGCACATATGTGCC
1 CCTGTTTGCACTTCGGTGCC
* *
20718681 CCTATTTGCACTTCAGTGCC
1 CCTGTTTGCACTTCGGTGCC
20718701 CCTG
1 CCTG
20718705 ACTGCACGTA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.11, C:0.35, G:0.20, T:0.35
Consensus pattern (20 bp):
CCTGTTTGCACTTCGGTGCC
Found at i:20718717 original size:40 final size:40
Alignment explanation
Indices: 20718639--20718727 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
20718629 TACTTCGGTA
* * *
20718639 CCCCTGTTTGCACTTCGGTGCCCCTGTTCGCACATATGTG
1 CCCCTATTTGCACTTCAGTGCCCCTGCTCGCACATATGTG
*
20718679 CCCCTATTTGCACTTCAGTGCCCCTGACT-GCACGTATGTG
1 CCCCTATTTGCACTTCAGTGCCCCTG-CTCGCACATATGTG
20718719 CCCCTATTT
1 CCCCTATTT
20718728 TGCATTTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 43 0.98
41 1 0.02
ACGTcount: A:0.12, C:0.36, G:0.19, T:0.33
Consensus pattern (40 bp):
CCCCTATTTGCACTTCAGTGCCCCTGCTCGCACATATGTG
Found at i:20721037 original size:21 final size:18
Alignment explanation
Indices: 20720969--20721044 Score: 91
Period size: 18 Copynumber: 4.2 Consensus size: 18
20720959 ACTGTAAGGG
*
20720969 AACCCATGTT-TCTATCCA
1 AACCCATGTTAT-TATGCA
*
20720987 AACCTATGTTATTATGCA
1 AACCCATGTTATTATGCA
*
20721005 AACCCATGTTATTATGCC
1 AACCCATGTTATTATGCA
* *
20721023 AACCCATGATATTATGTA
1 AACCCATGTTATTATGCA
20721041 AACC
1 AACC
20721045 TATGATTGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
18 49 0.98
19 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (18 bp):
AACCCATGTTATTATGCA
Found at i:20721771 original size:19 final size:17
Alignment explanation
Indices: 20721747--20721799 Score: 54
Period size: 19 Copynumber: 2.9 Consensus size: 17
20721737 TGGATTATTT
20721747 TTATTTAATATTAATATCA
1 TTATTTAATATTAA-AT-A
*
20721766 TTATTT-TTATTAAATA
1 TTATTTAATATTAAATA
20721782 TTAATATTAATATTAAAT
1 TT-AT-TTAATATTAAAT
20721800 TTAAATTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 3 0.10
17 4 0.14
18 8 0.28
19 14 0.48
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATTTAATATTAAATA
Found at i:20721774 original size:25 final size:25
Alignment explanation
Indices: 20721740--20721788 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
20721730 AGGGAGATGG
*
20721740 ATTATTTTTATTTAATATTAATATC
1 ATTATTTTTATTAAATATTAATATC
20721765 ATTATTTTTATTAAATATTAATAT
1 ATTATTTTTATTAAATATTAATAT
20721789 TAATATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
ATTATTTTTATTAAATATTAATATC
Found at i:20721795 original size:25 final size:25
Alignment explanation
Indices: 20721742--20721795 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
20721732 GGAGATGGAT
* *
20721742 TATTTTTATTTAATATTAATATCAT
1 TATTTTTATTAAATATTAATATCAA
*
20721767 TATTTTTATTAAATATTAATATTAA
1 TATTTTTATTAAATATTAATATCAA
20721792 TATT
1 TATT
20721796 AAATTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
TATTTTTATTAAATATTAATATCAA
Found at i:20721828 original size:18 final size:18
Alignment explanation
Indices: 20721784--20721840 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
20721774 ATTAAATATT
**
20721784 AATATTAATATTAAATTTA
1 AATATTAATA-TATTTTTA
20721803 AATTTATTAATATATTTTTA
1 AA--TATTAATATATTTTTA
* *
20721823 AATATTTATGTATTTTTA
1 AATATTAATATATTTTTA
20721841 TATCTTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 14 0.44
19 2 0.06
20 8 0.25
21 8 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
AATATTAATATATTTTTA
Found at i:20726698 original size:20 final size:21
Alignment explanation
Indices: 20726673--20726730 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
20726663 AAGTACACCC
*
20726673 CAAAGGCT-TTTAGAATGCCA
1 CAAAGGCTAATTAGAATGCCA
20726693 CAAAGGCTAGATTAGAATGCCA
1 CAAAGGCTA-ATTAGAATGCCA
* *
20726715 TAAAGGCCAAATTAGA
1 CAAAGG-CTAATTAGA
20726731 TTACGCCACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (21 bp):
CAAAGGCTAATTAGAATGCCA
Found at i:20726710 original size:22 final size:22
Alignment explanation
Indices: 20726682--20726730 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
20726672 CCAAAGGCTT
* *
20726682 TTAGAATGCCACAAAGGCTAGA
1 TTAGAATGCCACAAAGGCCAAA
*
20726704 TTAGAATGCCATAAAGGCCAAA
1 TTAGAATGCCACAAAGGCCAAA
20726726 TTAGA
1 TTAGA
20726731 TTACGCCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (22 bp):
TTAGAATGCCACAAAGGCCAAA
Found at i:20730033 original size:28 final size:28
Alignment explanation
Indices: 20729970--20730148 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
20729960 ATATTAAGTC
*
20729970 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20729997 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
20730025 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
20730053 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
20730081 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
20730109 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20730138 CGCACACTTAG
1 CGCACACTTAG
20730149 CGCCAATCTC
Statistics
Matches: 143, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 22 0.15
28 105 0.73
29 16 0.11
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20738061 original size:28 final size:28
Alignment explanation
Indices: 20737998--20738176 Score: 288
Period size: 28 Copynumber: 6.4 Consensus size: 28
20737988 ATATTAAGTC
*
20737998 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
20738025 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
20738053 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
20738081 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
20738109 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
20738137 CGCACACTTAGTGCTGTAAAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
20738166 CGCACACTTAG
1 CGCACACTTAG
20738177 CGCCAATCTC
Statistics
Matches: 143, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 22 0.15
28 105 0.73
29 16 0.11
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:20739977 original size:43 final size:43
Alignment explanation
Indices: 20739937--20740028 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
20739927 GCAATCTCGT
*
20739937 ATCGATGCCAATAGCCTAGCTATGGTCTTACACAAAATCTCAA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
**
20739980 ATCGATGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCAA
1 ATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
20740023 ATCGAT
1 ATCGAT
20740029 ATTGGAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
ATCGATGCCAATAGCCCAGCTATGGTCTTACACAAAATCTCAA
Found at i:20761234 original size:12 final size:12
Alignment explanation
Indices: 20761217--20761243 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20761207 CACACCCGTG
20761217 TTTTATAATTAA
1 TTTTATAATTAA
20761229 TTTTATAATTAA
1 TTTTATAATTAA
20761241 TTT
1 TTT
20761244 AATTCAAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTTATAATTAA
Found at i:20768472 original size:17 final size:16
Alignment explanation
Indices: 20768446--20768478 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
20768436 TGATAGGTCT
20768446 CTGACGAGCTTCCAAA
1 CTGACGAGCTTCCAAA
20768462 CTGATCGAGCTTCCAAA
1 CTGA-CGAGCTTCCAAA
20768479 AATCTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (16 bp):
CTGACGAGCTTCCAAA
Found at i:20768593 original size:29 final size:30
Alignment explanation
Indices: 20768537--20768593 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
20768527 CAACTTTTAT
**
20768537 TTTAGAAAAAAACAAAAATTAGTTGTCGAC
1 TTTAGAAAAAAACAAAAATTAGGAGTCGAC
* *
20768567 TTTA-AAAAAAATAAAAATTGGGAGTCG
1 TTTAGAAAAAAACAAAAATTAGGAGTCG
20768594 CCACCAATCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.51, C:0.07, G:0.16, T:0.26
Consensus pattern (30 bp):
TTTAGAAAAAAACAAAAATTAGGAGTCGAC
Found at i:20769891 original size:13 final size:13
Alignment explanation
Indices: 20769868--20769899 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
20769858 CATGCGCATG
20769868 AATATAAAAATAAT
1 AATA-AAAAATAAT
20769882 AATAAAAAATAAT
1 AATAAAAAATAAT
20769895 AATAA
1 AATAA
20769900 TAATAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.78
14 4 0.22
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AATAAAAAATAAT
Found at i:20770367 original size:22 final size:21
Alignment explanation
Indices: 20770332--20770446 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 21
20770322 AAAAGGTATC
* *
20770332 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
20770353 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
20770376 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
20770395 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
** *
20770414 TGTATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
20770433 TACATATCATATCT
1 TACAAATCATATCT
20770447 AAGATTGCAT
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
19 54 0.65
21 4 0.05
22 15 0.18
23 10 0.12
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:20770375 original size:23 final size:22
Alignment explanation
Indices: 20770332--20770389 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
20770322 AAAAGGTATC
* *
20770332 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
20770353 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
20770376 TGCATATCATATCT
1 TACAAATCATATCT
20770390 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:20770414 original size:38 final size:38
Alignment explanation
Indices: 20770345--20770459 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 38
20770335 AAATTAAATC
*
20770345 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATCATA---TCTAAGATTGCATATCATA
* *
20770387 TCTAAGATTGCATATCATATCTAAGATTGTATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
20770425 TCTAAGATTACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
20770460 CTTGAGGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 51 0.75
41 7 0.10
42 10 0.15
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:20770424 original size:24 final size:19
Alignment explanation
Indices: 20770368--20770459 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
20770358 AATCATATCT
20770368 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
20770387 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
20770406 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
20770425 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
20770444 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
20770460 CTTGAGGATT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 69 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:20770592 original size:15 final size:14
Alignment explanation
Indices: 20770561--20770591 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20770551 AATTTTGGAC
*
20770561 TTTGTTTTATTATT
1 TTTGGTTTATTATT
20770575 TTTGGTTTATTATT
1 TTTGGTTTATTATT
20770589 TTT
1 TTT
20770592 TATGAGTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTGGTTTATTATT
Found at i:20771088 original size:51 final size:51
Alignment explanation
Indices: 20771025--20771125 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
20771015 CCACTACAAT
* * *
20771025 TTCAGGGGGATAAAACTTGATTTCTTGAGTCTGCTCCACTGCAACTTCAAC
1 TTCAGGGAGATAAAACTCGATTTCTTGAGTCTGCTCCACTACAACTTCAAC
* * *
20771076 TTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTACAACTTCAA
1 TTCAGGGAGATAAAACTCGATTTCTTGAGTCTGCTCCACTACAACTTCAA
20771126 GGAGATAAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (51 bp):
TTCAGGGAGATAAAACTCGATTTCTTGAGTCTGCTCCACTACAACTTCAAC
Found at i:20771208 original size:44 final size:44
Alignment explanation
Indices: 20771145--20771392 Score: 183
Period size: 44 Copynumber: 5.8 Consensus size: 44
20771135 GCCCGATGCG
* *
20771145 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTTTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTTTGACTTTA
** * * * *
20771188 ATCCACTCTACTACAACTTCAG-GAAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCT-TTGACTTTA
* ***
20771232 ATCTGCTCCACTGCAACTTCA-AGGAGATAAGA-C-TAGA-TGCG
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCTTTGACTTTA
** * *
20771273 ATCTGCT-TTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTTTGACTTTA
* * * * *
20771316 ATCCGCTCCACTACGACTTCA-AGGAGATAGGAT-TATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAGA-GAGATAAGATCT-TTGACTTTA
*
20771360 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
20771393 TCGCCATCTT
Statistics
Matches: 152, Mismatches: 39, Indels: 27
0.70 0.18 0.12
Matches are distributed among these distances:
40 20 0.13
41 10 0.07
42 4 0.03
43 16 0.11
44 101 0.66
45 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCTTTGACTTTA
Found at i:20771261 original size:128 final size:128
Alignment explanation
Indices: 20771105--20771391 Score: 468
Period size: 128 Copynumber: 2.2 Consensus size: 128
20771095 CTTTCTTGGG
* * *
20771105 TCTGCTCCACTACAACTTCAAGGAGATAAGGCCCGATGCGATCTGCTCTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* *
20771170 ATAAGATCTTTGATTTTAATCCACTCTACTACAACTTC-AGGAAGATAGGATTATTGGCTTTAA
66 ATAAGATCTGTGATTTTAATCCACTCCACTACAACTTCAAGG-AGATAGGATTATTGGCTTTAA
* *
20771233 TCTGCTCCACTGCAACTTCAAGGAGATAAGACTAGATGCGATCTGCTTTCTGCAACTTCAGAGAG
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
* *
20771298 ATAAGATCTGTGATTTTAATCCGCTCCACTACGACTTCAAGGAGATAGGATTATTGGCTTTAA
66 ATAAGATCTGTGATTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAA
*
20771361 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TCTGCTCCACTGCAACTTCAAGGAGATAAGA
20771392 TTCGCCATCT
Statistics
Matches: 148, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
128 145 0.98
129 3 0.02
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (128 bp):
TCTGCTCCACTGCAACTTCAAGGAGATAAGACCAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
ATAAGATCTGTGATTTTAATCCACTCCACTACAACTTCAAGGAGATAGGATTATTGGCTTTAA
Found at i:20771689 original size:50 final size:50
Alignment explanation
Indices: 20771586--20771703 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 50
20771576 TCCAAGCCTT
* *
20771586 AACGTCAGGGAGATAAGATTCACCGTCGTGGCTTCAATCTACTCCGCTAC
1 AACGTCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTACTCCACTAC
* * * * ** * *
20771636 AACGCCAGGGAAATAAGATTCGCTGTTGTGGCTTCAATCTTTTCCATTGC
1 AACGTCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTACTCCACTAC
*
20771686 AACGTCAAGGAAATAAGA
1 AACGTCAGGGAAATAAGA
20771704 CTGATGTCTT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (50 bp):
AACGTCAGGGAAATAAGATTCACCGTCGTGGCTTCAATCTACTCCACTAC
Found at i:20771807 original size:44 final size:44
Alignment explanation
Indices: 20771757--20771878 Score: 151
Period size: 44 Copynumber: 2.8 Consensus size: 44
20771747 ATCTACTATT
* *
20771757 TTCAACCTACTCCACTGTTGCTCAGGGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTT-ACAATC
* *
20771801 TTCAACCTGTTCCACTGCTGAC-CATGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGGGAGATAGGACTTACAATC
*
20771845 TTCAACCTATTTCACTGCTG-TCCAGGGAGATAGG
1 TTCAACCTATTCCACTGCTGCT-CAGGGAGATAGG
20771879 GCTAGGGTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
44 64 0.96
45 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTTACAATC
Found at i:20772020 original size:88 final size:88
Alignment explanation
Indices: 20771891--20772454 Score: 777
Period size: 88 Copynumber: 6.4 Consensus size: 88
20771881 TAGGGTCATT
* * * ** *
20771891 GATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTACTATTTTTAAAGTGCTCCGCTGCAACCC
1 GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
*
20771956 AGGGAGGCAAGGCTAGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * * *
20771979 GATCTGCTTCGCTATCGGTGCAGGAAAGTAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
*
20772044 AGGGAGGCAAGGTTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* *
20772067 GATCTGCTTCTCTGTCGGTGTAGGAAGGCAAGATCTGTTATTTTTAACCTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
* * *
20772132 AAGGAGGCAAAGTTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * * * * *
20772155 GATCTGCTTCGTTGTCGGTGTAGGAAGGCAAGATCTGCAATTTATAACCTGCTCCACTGCAGCCC
1 GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
20772220 AGGGAGGCAAGGCTGGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * * * * * *
20772243 AATCTGCTTTGCAGTCGGTGTAAGAAGGCAAGATTTGCTATTTTTAAACTGCTCCACTACAACCC
1 GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
*
20772308 AGGGAGGCAAGGCTAGTGTCTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
* * * * *
20772331 GATCTGCTTCGCTGTCGGTGCAAGAAGGCAAGATTTGTTATTTTTAACTTGCTCCGCTACAACCC
1 GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
* * *
20772396 AGGGAAGCAAGGTTGGTGACTTC
66 AGGGAGGCAAGGCTGGTGTCTTC
20772419 GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCT
1 GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCT
20772455 ATTATCTTCA
Statistics
Matches: 420, Mismatches: 56, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 420 1.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (88 bp):
GATCTGCTTCGCTGTCGGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCC
AGGGAGGCAAGGCTGGTGTCTTC
Found at i:20773684 original size:25 final size:25
Alignment explanation
Indices: 20773655--20773702 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
20773645 TCACCTTGGC
20773655 CTCTC-CATTTTCTTTCTTCTTTTCT
1 CTCTCTCATTTTCTTT-TTCTTTTCT
**
20773680 CTCTCTTTTTTTCTTTTTCTTTT
1 CTCTCTCATTTTCTTTTTCTTTT
20773703 TTTTATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (25 bp):
CTCTCTCATTTTCTTTTTCTTTTCT
Found at i:20774697 original size:25 final size:26
Alignment explanation
Indices: 20774646--20774706 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
20774636 AAGAAAATCC
* **
20774646 AAAAGAATGAAAGAATAATTATTTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
*
20774672 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTAGCTCA
20774697 AAAATGAATG
1 AAAA-GAATG
20774707 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTAGCTCA
Found at i:20779011 original size:19 final size:19
Alignment explanation
Indices: 20778987--20779078 Score: 150
Period size: 19 Copynumber: 4.8 Consensus size: 19
20778977 AATCATATCT
20778987 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
20779006 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
20779025 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
20779044 TCTAAGA-TGACATATCATA
1 TCTAAGATTG-CATATCATA
20779063 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
20779079 CTTGAGAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
18 2 0.03
19 63 0.94
20 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:20779040 original size:38 final size:38
Alignment explanation
Indices: 20778964--20779078 Score: 167
Period size: 38 Copynumber: 2.9 Consensus size: 38
20778954 AAATTAAATC
*
20778964 TCTAAGATTACAGAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACA-TATCATA---TCTAAGATTGCATATCATA
*
20779006 TCTAAGATTACATATCATATCTAAGATTGTATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
*
20779044 TCTAAGATGACATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
20779079 CTTGAGAATT
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
38 51 0.74
41 6 0.09
42 12 0.17
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:20779043 original size:24 final size:19
Alignment explanation
Indices: 20778964--20779078 Score: 140
Period size: 19 Copynumber: 5.8 Consensus size: 19
20778954 AAATTAAATC
*
20778964 TCTAAGATTACAGAATCATA
1 TCTAAGATTACA-TATCATA
*
20778984 TCTTCTAAGATTGCATATCATA
1 ---TCTAAGATTACATATCATA
20779006 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
**
20779025 TCTAAGATTGTATATCATA
1 TCTAAGATTACATATCATA
*
20779044 TCTAAGATGACATATCATA
1 TCTAAGATTACATATCATA
*
20779063 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
20779079 CTTGAGAATT
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 65 0.79
22 6 0.07
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:20781984 original size:37 final size:38
Alignment explanation
Indices: 20781943--20782027 Score: 100
Period size: 38 Copynumber: 2.3 Consensus size: 38
20781933 TAACATAAAG
* * *
20781943 AAATTGAAAAAATA-TTTTTAAACGGTTACGATTTGAC
1 AAATTCAAAAAATAGCTTCTAAACGGTTACGATTTGAC
* **
20781980 AAATTCAGAATGTAGCTTCTAAACGGTTACGATTTGAC
1 AAATTCAAAAAATAGCTTCTAAACGGTTACGATTTGAC
*
20782018 AAAATCAAAA
1 AAATTCAAAA
20782028 TCTAGCTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 10 0.26
38 29 0.74
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (38 bp):
AAATTCAAAAAATAGCTTCTAAACGGTTACGATTTGAC
Found at i:20782003 original size:38 final size:38
Alignment explanation
Indices: 20781961--20782034 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
20781951 AAAATATTTT
* * *
20781961 TAAACGGTTACGATTTGACAAATTCAGAATGTAGCTTC
1 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCTTC
20781999 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCT
1 TAAACGGTTACGATTTGACAAAATCAAAATCTAGCT
20782035 ATTGAGATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (38 bp):
TAAACGGTTACGATTTGACAAAATCAAAATCTAGCTTC
Found at i:20785046 original size:24 final size:23
Alignment explanation
Indices: 20785019--20785096 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 23
20785009 TATAACTTAA
20785019 TATAATCAGCACACACATACTTTG
1 TATAAT-AGCACACACATACTTTG
*
20785043 TATAGATAGCTCACACATAGAACTTT-
1 TATA-ATAGCACACACAT---ACTTTG
* * *
20785069 TATAATTAGTACACATATGCTTTG
1 TATAA-TAGCACACACATACTTTG
20785093 TATA
1 TATA
20785097 GACAGTTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
23 4 0.09
24 18 0.42
25 3 0.07
26 13 0.30
27 5 0.12
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (23 bp):
TATAATAGCACACACATACTTTG
Found at i:20785072 original size:26 final size:26
Alignment explanation
Indices: 20785037--20785117 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 26
20785027 GCACACACAT
20785037 ACTTTGTATAGATAGCTCACACATAGA
1 ACTTTGTATAGATAG-TCACACATAGA
20785064 ACTTT-TATA-ATTAGT-ACACATATG-
1 ACTTTGTATAGA-TAGTCACACATA-GA
* *
20785088 -CTTTGTATAGACAGTTCATACATAGA
1 ACTTTGTATAGATAG-TCACACATAGA
20785114 ACTT
1 ACTT
20785118 ATATAATCCA
Statistics
Matches: 44, Mismatches: 2, Indels: 16
0.71 0.03 0.26
Matches are distributed among these distances:
23 4 0.09
24 13 0.30
25 6 0.14
26 13 0.30
27 8 0.18
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (26 bp):
ACTTTGTATAGATAGTCACACATAGA
Found at i:20785083 original size:50 final size:50
Alignment explanation
Indices: 20785012--20785255 Score: 292
Period size: 50 Copynumber: 4.9 Consensus size: 50
20785002 TCGCATATAT
* *
20785012 AACTTAATATAATCAGCACACACATACTTTGTATAGATAGCTCACACATAG
1 AACTT-ATATAATCAGCACACACATACTTTGTATAGACAGTTCACACATAG
* * * * * *
20785063 AACTTTTATAATTAGTACACATATGCTTTGTATAGACAGTTCATACATAG
1 AACTTATATAATCAGCACACACATACTTTGTATAGACAGTTCACACATAG
* * * **
20785113 AACTTATATAATCCA-CACACACATACTTCGTATAAACAATTTGCACATAG
1 AACTTATATAAT-CAGCACACACATACTTTGTATAGACAGTTCACACATAG
* * *
20785163 AACTTATATAATAAGCACGCACATGCTTTGTATAGACAGTTCACACATAG
1 AACTTATATAATCAGCACACACATACTTTGTATAGACAGTTCACACATAG
* * *
20785213 AACTTATATAATTAGCTCACACATACTTTGTATAGATAGTTCA
1 AACTTATATAATCAGCACACACATACTTTGTATAGACAGTTCA
20785256 TGGACCCTTT
Statistics
Matches: 159, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 1 0.01
50 152 0.96
51 6 0.04
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (50 bp):
AACTTATATAATCAGCACACACATACTTTGTATAGACAGTTCACACATAG
Found at i:20785854 original size:22 final size:20
Alignment explanation
Indices: 20785829--20785871 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
20785819 AAAATTCTTC
20785829 CACGGTACTTCTAGTTATTCAA
1 CACGGTACTTCTA-TT-TTCAA
* *
20785851 CACGTTCCTTCTATTTTCAA
1 CACGGTACTTCTATTTTCAA
20785871 C
1 C
20785872 CATGACCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 2 0.11
22 11 0.58
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (20 bp):
CACGGTACTTCTATTTTCAA
Found at i:20808755 original size:29 final size:29
Alignment explanation
Indices: 20808654--20808929 Score: 175
Period size: 28 Copynumber: 9.9 Consensus size: 29
20808644 CACGTAGGTG
* * *
20808654 TCCTTTTAACAGAGTTTGCCAC-AAGACA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* *
20808682 T-CATTTAACTGAGATAGCCACAAAGGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
*
20808710 TCCTTTTAATATG-GATAGCCACAAAGGCA
1 TCCTTTTAACA-GAGATAGCCACAAAGGCA
* ** *
20808739 TCCTTTTAACAGAGATAACCACAAACACG
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * **
20808768 TCC-TTT--CAGATATAGTCACAAAGGTT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * * **
20808794 TCC-TTTAATAGATATAGGCACAAAGGTT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * * *
20808822 TTC-TTTAATAGAGATCGCCACAAAGGCT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
*
20808850 TCCTTTT---AGAGATAACCACAAAGGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * *
20808876 CTTCCTTATAACAGAGATCGCCACAAAGGCT
1 --TCCTTTTAACAGAGATAGCCACAAAGGCA
*
20808907 TCC-TTT--CAGAGATAGCCATAAAG
1 TCCTTTTAACAGAGATAGCCACAAAG
20808930 ACACTTCTTT
Statistics
Matches: 198, Mismatches: 38, Indels: 26
0.76 0.15 0.10
Matches are distributed among these distances:
26 50 0.25
27 16 0.08
28 62 0.31
29 53 0.27
30 1 0.01
31 16 0.08
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (29 bp):
TCCTTTTAACAGAGATAGCCACAAAGGCA
Found at i:20808903 original size:57 final size:56
Alignment explanation
Indices: 20808692--20808940 Score: 194
Period size: 57 Copynumber: 4.5 Consensus size: 56
20808682 TCATTTAACT
* *
20808692 GAGATAGCCACAAAGGCA--TCCTTTTAATATG-GATAGCCACAAAGGCATCCTTTTAACA
1 GAGATAGCCACAAAGGCACTTCC-TTTAACA-GAGATAGCCACAAAGGCTTCCTTTT---A
* * * * *
20808750 GAGATAACCACAAA--CACGTCCTTT--CAGATATAGTCACAAAGGTTTCCTTTAATA
1 GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATAGCCACAAAGGCTTCCTTT--TA
* * * * * *
20808804 GATATAGGCACAAAGG--TTTTCTTTAATAGAGATCGCCACAAAGGCTTCCTTTTA
1 GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATAGCCACAAAGGCTTCCTTTTA
* * *
20808858 GAGATAACCACAAAGGCACTTCCTTATAACAGAGATCGCCACAAAGGCTTCCTTTCA
1 GAGATAGCCACAAAGGCACTTCCTT-TAACAGAGATAGCCACAAAGGCTTCCTTTTA
* *
20808915 GAGATAGCCATAAAGACACTT-CTTTA
1 GAGATAGCCACAAAGGCACTTCCTTTA
20808941 GATTGTTCAA
Statistics
Matches: 152, Mismatches: 27, Indels: 27
0.74 0.13 0.13
Matches are distributed among these distances:
54 33 0.22
55 21 0.14
56 31 0.20
57 51 0.34
58 16 0.11
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.26
Consensus pattern (56 bp):
GAGATAGCCACAAAGGCACTTCCTTTAACAGAGATAGCCACAAAGGCTTCCTTTTA
Found at i:20817311 original size:25 final size:23
Alignment explanation
Indices: 20817276--20817321 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
20817266 AAACTAGACT
*
20817276 CTGTATGATGCCTGTGTAGTGCAAG
1 CTGTATCATGCCT-T-TAGTGCAAG
20817301 CTGTATCATGCCTTTAGTGCA
1 CTGTATCATGCCTTTAGTGCA
20817322 TGTTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 1 0.05
25 12 0.60
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.35
Consensus pattern (23 bp):
CTGTATCATGCCTTTAGTGCAAG
Found at i:20820980 original size:33 final size:33
Alignment explanation
Indices: 20820937--20821248 Score: 179
Period size: 33 Copynumber: 8.8 Consensus size: 33
20820927 ATATAAAGGG
*
20820937 GGTTGATAAGTGCTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* *
20820970 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-T---GGT
*
20821012 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
20821039 GGTTGCTAAGTGCTGATTCCCCGATTCTTTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
* * *
20821072 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--TT-CAT-TG---GT
*
20821114 GGTTGCTAAGTGCTGATTCCTCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
20821147 GGTTGCTAAGTGTTGATTCCACCG-TATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CCGAT-TCATTG---GT
** *
20821184 GAAAGGGGTTGCTAAGTGCTGATTCCCCGAACCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
*
20821223 GGTTGCTAAGTGCTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
20821249 AACGAATAAC
Statistics
Matches: 219, Mismatches: 23, Indels: 73
0.70 0.07 0.23
Matches are distributed among these distances:
27 22 0.10
28 2 0.01
31 1 0.00
32 2 0.01
33 79 0.36
34 18 0.08
35 2 0.01
36 2 0.01
37 8 0.04
38 5 0.02
39 5 0.02
40 1 0.00
41 4 0.02
42 49 0.22
43 19 0.09
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGATTCATTGGT
Found at i:20821116 original size:102 final size:102
Alignment explanation
Indices: 20820935--20821133 Score: 353
Period size: 102 Copynumber: 2.0 Consensus size: 102
20820925 GAATATAAAG
* *
20820935 GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
*
20821000 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAA
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
* *
20821037 GGGGTTGCTAAGTGCTGATTCCCCGATTCTTTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
1 GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
20821102 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCC
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCC
20821134 TCGATTCATT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (102 bp):
GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAA
Found at i:20821223 original size:76 final size:75
Alignment explanation
Indices: 20821035--20821246 Score: 334
Period size: 76 Copynumber: 2.8 Consensus size: 75
20821025 TGATTCCCCC
* *
20821035 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCTTTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
20821100 TTAAATGTGA
66 TTAAATGTGA
* *
20821110 AAGGGGTTGCTAAGTGCTGATTCCTCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
*
20821175 ATTGAATGTGA
66 -TTAAATGTGA
** * *
20821186 AAGGGGTTGCTAAGTGCTGATTCCCCGAACCACTGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCG
20821247 ATAACGAATA
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
75 61 0.49
76 64 0.51
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:20821290 original size:177 final size:173
Alignment explanation
Indices: 20820935--20821268 Score: 375
Period size: 177 Copynumber: 1.9 Consensus size: 173
20820925 GAATATAAAG
*
20820935 GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATATT
* * *
20821000 AAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGATT
66 AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGAATCCCCGATA
** **** * *
20821065 CTTTGGTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAA
131 CAATGAACATTGCTAAGTGCT-ATCCAACCGGA---TAAATGTGAAA
* * *
20821112 GGGGTTGCTAAGTGCTGATTCCTCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACCGTATCAT
1 GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT-AT
* *
20821177 TGAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCGAACCACTGGTGGTTGCTAAGTGCTGAATC
65 TAAATGTGAAAGGGGTTGCTAAGTGCTGATT-CCC---CCA-AGG-GGTTGCTAAGTGCTGAATC
20821242 CACCGATAACGAAT-AACATT-CTAAGTG
124 C-CCGAT-AC-AATGAACATTGCTAAGTG
20821269 TTCAACGGGA
Statistics
Matches: 132, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
177 59 0.45
178 30 0.23
179 3 0.02
182 3 0.02
183 2 0.02
184 19 0.14
185 12 0.09
186 3 0.02
187 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (173 bp):
GGGGTTGATAAGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATATT
AAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGAATCCCCGATA
CAATGAACATTGCTAAGTGCTATCCAACCGGATAAATGTGAAA
Found at i:20836452 original size:23 final size:23
Alignment explanation
Indices: 20836372--20836473 Score: 105
Period size: 23 Copynumber: 4.4 Consensus size: 23
20836362 TATTTGTGAA
* *
20836372 GCCTTTGTGGCATATTCTGTGAT
1 GCCTTTGTGGCATATTCTATAAT
** * * *
20836395 GTATTTGTGGTATATTTTGTAAT
1 GCCTTTGTGGCATATTCTATAAT
*
20836418 GCCTTTGTGGCGTATTCTATAAT
1 GCCTTTGTGGCATATTCTATAAT
* * *
20836441 GCCTTTGTGGCGTACTCTATAGT
1 GCCTTTGTGGCATATTCTATAAT
20836464 GCCTTTGTGG
1 GCCTTTGTGG
20836474 TAAGTCATGT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.15, C:0.15, G:0.25, T:0.45
Consensus pattern (23 bp):
GCCTTTGTGGCATATTCTATAAT
Found at i:20838119 original size:10 final size:10
Alignment explanation
Indices: 20838094--20838135 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
20838084 AATTTTGGGG
20838094 AAAACAAAAT
1 AAAACAAAAT
*
20838104 --AACAAAAC
1 AAAACAAAAT
20838112 AAAACAAAAT
1 AAAACAAAAT
*
20838122 AAAATAAAAT
1 AAAACAAAAT
20838132 AAAA
1 AAAA
20838136 TAATATCCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
8 7 0.26
10 20 0.74
ACGTcount: A:0.81, C:0.10, G:0.00, T:0.10
Consensus pattern (10 bp):
AAAACAAAAT
Found at i:20842097 original size:27 final size:27
Alignment explanation
Indices: 20842067--20842145 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 27
20842057 TGTCATTTTT
*
20842067 TGAATGGACTACCTTTGTGGCATACAG
1 TGAATGGACTACCTTTGTGGCATACAC
** * * *
20842094 TGAATGTTCTGCCTTTATGGCATAAAC
1 TGAATGGACTACCTTTGTGGCATACAC
**
20842121 TGAATGGA-TCACCTGGGTGGCATAC
1 TGAATGGACT-ACCTTTGTGGCATAC
20842146 TTGATATGAT
Statistics
Matches: 38, Mismatches: 13, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (27 bp):
TGAATGGACTACCTTTGTGGCATACAC
Found at i:20843799 original size:63 final size:63
Alignment explanation
Indices: 20843731--20843856 Score: 182
Period size: 63 Copynumber: 2.0 Consensus size: 63
20843721 ATGACATACC
* *
20843731 ACGTTGTGGCCAAGCTACTCAATATTGCAGACA-AGTTGCACGTGGTGGACAAACCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGA-AGAGTTGCACGTGGTGGACAAACCACTCAATA
* * * *
20843794 ACGTTGTGGCCAAGCCACTTAATATCGTAGAAGAGTTGCACGTTGTGGACAAGCCACTCAATA
1 ACGTTGTGGCCAAGCCACTCAATATCGCAGAAGAGTTGCACGTGGTGGACAAACCACTCAATA
20843857 TCGCAGTCAA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 1 0.02
63 55 0.98
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (63 bp):
ACGTTGTGGCCAAGCCACTCAATATCGCAGAAGAGTTGCACGTGGTGGACAAACCACTCAATA
Found at i:20843802 original size:24 final size:24
Alignment explanation
Indices: 20843770--20843817 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
20843760 GACAAGTTGC
20843770 ACGTGGTGGACAAACCACTCAATA
1 ACGTGGTGGACAAACCACTCAATA
* * * *
20843794 ACGTTGTGGCCAAGCCACTTAATA
1 ACGTGGTGGACAAACCACTCAATA
20843818 TCGTAGAAGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (24 bp):
ACGTGGTGGACAAACCACTCAATA
Found at i:20843848 original size:39 final size:39
Alignment explanation
Indices: 20843794--20843895 Score: 125
Period size: 39 Copynumber: 2.6 Consensus size: 39
20843784 CCACTCAATA
* * * * *
20843794 ACGTTGTGGCCAAGCCACTTAATATCGTAG-AAGAGTTGC
1 ACGTTGTGGACAAGCCACTCAATATCGCAGTAA-AGCTAC
*
20843833 ACGTTGTGGACAAGCCACTCAATATCGCAGTCAAGCTAC
1 ACGTTGTGGACAAGCCACTCAATATCGCAGTAAAGCTAC
*
20843872 ATGTTGTGGACAAGCCACTCAATA
1 ACGTTGTGGACAAGCCACTCAATA
20843896 ACATTGTGGT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 54 0.98
40 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (39 bp):
ACGTTGTGGACAAGCCACTCAATATCGCAGTAAAGCTAC
Found at i:20843910 original size:102 final size:102
Alignment explanation
Indices: 20843730--20843925 Score: 284
Period size: 102 Copynumber: 1.9 Consensus size: 102
20843720 AATGACATAC
* * * * *
20843730 CACGTTGTGGCCAAGCTACTCAATATTGCAGACAAGTTGCACGTGGTGGACAAACCACTCAATAA
1 CACGTTGTGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
*
20843795 CGTTGTGGCCAAGCCACTTAATATCGTAGAAGAGTTG
66 CATTGTGGCCAAGCCACTTAATATCGTAGAAGAGTTG
* * * *
20843832 CACGTTGTGGACAAGCCACTCAATATCGCAGTCAAGCTACATGTTGTGGACAAGCCACTCAATAA
1 CACGTTGTGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
* *
20843897 CATTGTGGTCAAGCCACTTAATATTGTAG
66 CATTGTGGCCAAGCCACTTAATATCGTAG
20843926 TAAAACTGCC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
102 82 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (102 bp):
CACGTTGTGGACAAGCCACTCAATATCGCAGACAAGCTACACGTGGTGGACAAACCACTCAATAA
CATTGTGGCCAAGCCACTTAATATCGTAGAAGAGTTG
Found at i:20850733 original size:15 final size:16
Alignment explanation
Indices: 20850706--20850735 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
20850696 AATAAAAATT
20850706 AATATATATTATATAA
1 AATATATATTATATAA
20850722 AATATA-ATTATATA
1 AATATATATTATATA
20850736 TTAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATATTATATAA
Found at i:20857083 original size:23 final size:23
Alignment explanation
Indices: 20857045--20857095 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
20857035 ATGAAACATA
*
20857045 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
20857068 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
20857091 AGTAA
1 TGTAA
20857096 AAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:20865796 original size:29 final size:29
Alignment explanation
Indices: 20865764--20865841 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
20865754 ATCTTTAAGT
*
20865764 CAAGAGTCTGGAAGTGACTATCCT-CCAAC
1 CAAGAGTCTGGAAGTGACTAT-CTGCCAAA
* *
20865793 CAAGAGTCTAGTAGTGACTATCTGCCAAA
1 CAAGAGTCTGGAAGTGACTATCTGCCAAA
*
20865822 CAAGAGT-TGGGCAGTGACTA
1 CAAGAGTCT-GGAAGTGACTA
20865842 ACATTTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.07
29 39 0.93
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (29 bp):
CAAGAGTCTGGAAGTGACTATCTGCCAAA
Found at i:20873079 original size:20 final size:20
Alignment explanation
Indices: 20873045--20873086 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
20873035 AACTATTTAA
** *
20873045 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
20873065 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
20873085 AT
1 AT
20873087 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:20875495 original size:33 final size:33
Alignment explanation
Indices: 20875423--20875495 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 33
20875413 TTAAAATACT
* *
20875423 CAAGAAATATATAAAAATACATAAATGTTTTTA
1 CAAGAAATATATAAAAATACATAAATATTTTGA
20875456 -AA-AAATATATAAAAATA-A-AAATAATTATTGA
1 CAAGAAATATATAAAAATACATAAAT-ATT-TTGA
20875487 CAAGAAATA
1 CAAGAAATA
20875496 ATAGTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
29 4 0.12
30 3 0.09
31 18 0.53
32 4 0.12
33 5 0.15
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (33 bp):
CAAGAAATATATAAAAATACATAAATATTTTGA
Found at i:20876330 original size:23 final size:24
Alignment explanation
Indices: 20876300--20876345 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
20876290 ATAATTTATC
*
20876300 TTAAAAAA-ATTTTAAACGTAATG
1 TTAAAAAACATTTAAAACGTAATG
*
20876323 TTAAAAAACATTTAAAACTTAAT
1 TTAAAAAACATTTAAAACGTAAT
20876346 TTCCCACCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (24 bp):
TTAAAAAACATTTAAAACGTAATG
Found at i:20878194 original size:23 final size:23
Alignment explanation
Indices: 20878131--20878197 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
20878121 GCATTCTGTT
* * *
20878131 ATGCCTGTGTGGCATATTTTGTA
1 ATGCCTTTGTGGCATATTCTGCA
* * *
20878154 ACGCATTTGTGAG-GTATTCTGCA
1 ATGCCTTTGTG-GCATATTCTGCA
20878177 ATGCCTTTGTGGCATATTCTG
1 ATGCCTTTGTGGCATATTCTG
20878198 TGATCTCTCT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
22 1 0.03
23 31 0.94
24 1 0.03
ACGTcount: A:0.18, C:0.16, G:0.25, T:0.40
Consensus pattern (23 bp):
ATGCCTTTGTGGCATATTCTGCA
Found at i:20897080 original size:21 final size:21
Alignment explanation
Indices: 20897036--20897080 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
20897026 TTTCATCTTT
* * *
20897036 AACAACTTTTTCTTCTTCAGC
1 AACAACTTTCTCTTCTGCAAC
20897057 AACAACTTTCTCTTCTGCAAC
1 AACAACTTTCTCTTCTGCAAC
20897078 AAC
1 AAC
20897081 TTCCTTCTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.31, G:0.04, T:0.36
Consensus pattern (21 bp):
AACAACTTTCTCTTCTGCAAC
Found at i:20897089 original size:21 final size:19
Alignment explanation
Indices: 20897036--20897082 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 19
20897026 TTTCATCTTT
20897036 AACAACTTTTTCTTCTTCAGC
1 AACAAC-TTTTC-TCTTCAGC
*
20897057 AACAAC-TTTCTCTTCTGC
1 AACAACTTTTCTCTTCAGC
20897075 AACAACTT
1 AACAACTT
20897083 CCTTCTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 13 0.54
19 5 0.21
21 6 0.25
ACGTcount: A:0.28, C:0.30, G:0.04, T:0.38
Consensus pattern (19 bp):
AACAACTTTTCTCTTCAGC
Found at i:20903983 original size:50 final size:50
Alignment explanation
Indices: 20903911--20904098 Score: 236
Period size: 50 Copynumber: 3.8 Consensus size: 50
20903901 CATTGAGATT
* *
20903911 ATGAGATGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
20903961 ATAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CTAGG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-G
* * * *
20904011 ATGATAGGTCTCC-CGTAAGACCATGTCTGGGACATGGCGTGGGCACCGAT
1 ATGAGAGGTC-CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
** * *
20904061 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC
20904099 ATTCACAGTA
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 4 0.03
50 110 0.93
51 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:20904369 original size:20 final size:20
Alignment explanation
Indices: 20904344--20904383 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20904334 ATGAGTTATT
20904344 CAAGTAAGCA-AGTAAGTAAA
1 CAAGTAAG-AGAGTAAGTAAA
20904364 CAAGTAAGAGAGTAAGTAAA
1 CAAGTAAGAGAGTAAGTAAA
20904384 GAAAAAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.55, C:0.07, G:0.23, T:0.15
Consensus pattern (20 bp):
CAAGTAAGAGAGTAAGTAAA
Found at i:20908699 original size:6 final size:6
Alignment explanation
Indices: 20908690--20908718 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
20908680 ACTAGAGATA
20908690 GAAATG GAAATG GAAATG GAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAAT
20908719 AATTCATTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.31, T:0.17
Consensus pattern (6 bp):
GAAATG
Found at i:20914051 original size:125 final size:125
Alignment explanation
Indices: 20913829--20914206 Score: 569
Period size: 125 Copynumber: 3.0 Consensus size: 125
20913819 TTAGGGTTTT
* * *
20913829 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCTTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
* * * * *
20913894 AGAATGCTGTTTGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
*
20913954 TAGGTCTTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGATTCTAGC
1 TAGGTCTTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
* * *
20914019 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCTCTCGTAGACGCTCTTTTTCTACAG
66 AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
* * * *
20914079 CAGGTCATGGAAGAAATAATTTTGAGTTGACGTTTCTAAGCAAATAATATAAAATCA-CTTCTAG
1 TAGGTCTTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAT-AGCTTCTAG
* * *
20914143 CAGGATGCTATTTGAGAAGAATTTGTGAAAGCGCGCCCTCGTGGACGTACTTTTTCTACAG
65 CAGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
20914204 TAG
1 TAG
20914207 CATGTTTGGG
Statistics
Matches: 229, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 228 1.00
126 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.32
Consensus pattern (125 bp):
TAGGTCTTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATAGCTTCTAGC
AGGATGCTATTTGAAAAGAATTTGTGAAATCGCGCCCTCGTGGACGCACTTTTTCTACAG
Found at i:20917405 original size:21 final size:21
Alignment explanation
Indices: 20917381--20917989 Score: 276
Period size: 22 Copynumber: 27.7 Consensus size: 21
20917371 ATCAAATAAA
*
20917381 TTTAAGTTAAGGGTTACGATT
1 TTTAAGTTAAGGGTTAGGATT
* * * *
20917402 TTTAAGTTCTA-GTTTA-AAGTC
1 TTTAAGTT-AAGGGTTAGGA-TT
* *
20917423 TTAAAGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
*
20917445 TTTAAGTTAAGGGTTAAGATT
1 TTTAAGTTAAGGGTTAGGATT
* *
20917466 TTTAAGTTGAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGATT
*
20917487 TTTAAGTTAAGGGTTTAAGGTTT
1 TTTAAGTTAAGGG-TT-AGGATT
** *
20917510 TTTAA-TTAAATTAGTTAGGGTT
1 TTTAAGTT-AA-GGGTTAGGATT
* *
20917532 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* *
20917555 TTTAA-TTAA--ATTAAGGGTT
1 TTTAAGTTAAGGGTT-AGGATT
20917574 TTTAAGTTAATGGGTTAAGG-TT
1 TTTAAGTTAA-GGGTT-AGGATT
* *
20917596 TTTAAATTTAAGGGTTTAGGGTT
1 TTT-AAGTTAAGGG-TTAGGATT
* * *
20917619 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA--GGGTTAGGATT
*
20917642 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGATT
* *
20917664 TTTAATTTTAAGGGTTTAGGGTT
1 TTTAA-GTTAAGGG-TTAGGATT
* *
20917687 TTTAA-TTAAATTAGTTTAAGG-TT
1 TTTAAGTT-AA--GGGTT-AGGATT
**
20917710 TTTAAGTTAAGGGATTAGGGGT
1 TTTAAGTTAAGGG-TTAGGATT
* *
20917732 TTTAATTTTAAAGGTTTTAGG-TT
1 TTTAA-GTT-AAGG-GTTAGGATT
* * *
20917755 TTTAATTTAAAGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGATT
* *
20917776 TATAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGATT
* * * *
20917798 TTTAATTTTAAAGGTCAGGGTT
1 TTTAA-GTTAAGGGTTAGGATT
*
20917820 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGATT
* *
20917842 TTTAATTTTAAGGGTTAGGGTT
1 TTTAA-GTTAAGGGTTAGGATT
*
20917864 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGATT
* * *
20917886 TTTAA-TTAAATTAGTTTAGGGTT
1 TTTAAGTT-AA--GGGTTAGGATT
20917909 TTTAAGTTAAGGGTTTAGTG-TT
1 TTTAAGTTAAGGG-TTAG-GATT
* *
20917931 TTTAA-TTAAATTGGTTTAGG-GT
1 TTTAAGTT-AA--GGGTTAGGATT
*
20917953 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGATT
20917974 TTTAAGCTTAAGGGTT
1 TTTAAG-TTAAGGGTT
20917990 TAAGGTTTTA
Statistics
Matches: 472, Mismatches: 62, Indels: 107
0.74 0.10 0.17
Matches are distributed among these distances:
18 2 0.00
19 11 0.02
20 18 0.04
21 109 0.23
22 172 0.36
23 134 0.28
24 26 0.06
ACGTcount: A:0.27, C:0.01, G:0.25, T:0.47
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGATT
Found at i:20917451 original size:22 final size:22
Alignment explanation
Indices: 20917426--20918259 Score: 643
Period size: 23 Copynumber: 37.2 Consensus size: 22
20917416 TAAAGTCTTA
*
20917426 AAGTTAAGGGTTAAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* *
20917448 AAGTTAAGGG-TTAAGATTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20917469 AAGTTGAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20917490 AAGTTAAGGGTTTAAGGTTTTTT
1 AAGTTAAGGGTTT-AGGGTTTTT
**
20917513 AA-TTAA-ATTAGTTAGGGTTTTT
1 AAGTTAAGGGT--TTAGGGTTTTT
*
20917535 AAATTTAAGGGTTTAGGGTTTTT
1 -AAGTTAAGGGTTTAGGGTTTTT
* *
20917558 AA-TTAA--ATTAAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20917577 AAGTTAATGGG-TTAAGGTTTTT
1 AAGTTAA-GGGTTTAGGGTTTTT
*
20917599 AAATTTAAGGGTTTAGGGTTTTT
1 -AAGTTAAGGGTTTAGGGTTTTT
**
20917622 AA-TTAAATTAGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
*
20917645 AAGTTAAGGGGTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20917667 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
** *
20917690 AA-TTAAATTAGTTTAAGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
* *
20917713 AAGTTAAGGGATTAGGGGTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* *
20917735 AATTTTAAAGGTTTTA-GGTTTTT
1 AA-GTT-AAGGGTTTAGGGTTTTT
* * *
20917758 AATTTAAAGG-TTAGGGTTTAT
1 AAGTTAAGGGTTTAGGGTTTTT
20917779 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
* * *
20917801 AATTTTAAAGG-TCAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
20917823 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20917845 AATTTTAAGGG-TTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
20917867 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
**
20917889 AA-TTAAATTAGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
*
20917912 AAGTTAAGGGTTTAGTGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20917934 AA-TTAAATTGGTTTAGGG-TTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
20917956 AAGTTAAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20917977 AAGCTTAAGGGTTTAAGG-TTTT
1 AAG-TTAAGGGTTTAGGGTTTTT
* ** *
20917999 AAATTAAATTAGTTAAGGGTTTATGGTTTTT
1 AAGTT-AA-GGGTT-------TAGGGTTTTT
** * * *
20918030 ATTTTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGT-TTAGGGTTTTT
**
20918053 AA-TTAAATTAGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
20918076 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20918098 AATTTTAAGGGTTTAGGGTTTTTT
1 AA-GTTAAGGGTTTAGGG-TTTTT
** *
20918122 ATTTTAAGGG-TTAAGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTT
*
20918143 AAGTTAAGGGTTTAGGGTTTTA
1 AAGTTAAGGGTTTAGGGTTTTT
*
20918165 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
**
20918188 AA-TTGAATTAGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTT
* *
20918211 AAGTTGAA-TGTTTAGAGTTTTT
1 AAGTT-AAGGGTTTAGGGTTTTT
*
20918233 AATTTTAAGGGTTTAGGGTTTTT
1 AA-GTTAAGGGTTTAGGGTTTTT
20918256 AAGT
1 AAGT
20918260 AATAACTCAA
Statistics
Matches: 655, Mismatches: 97, Indels: 120
0.75 0.11 0.14
Matches are distributed among these distances:
19 13 0.02
20 13 0.02
21 104 0.16
22 228 0.35
23 251 0.38
24 31 0.05
25 1 0.00
29 1 0.00
30 6 0.01
31 7 0.01
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (22 bp):
AAGTTAAGGGTTTAGGGTTTTT
Found at i:20917557 original size:45 final size:44
Alignment explanation
Indices: 20917426--20918257 Score: 739
Period size: 45 Copynumber: 18.5 Consensus size: 44
20917416 TAAAGTCTTA
* * * *
20917426 AAGTTAAGGGTTAAGGGTTTTTAAGTTAAGGG-TTAAGATTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
* * *
20917469 AAGTTGAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTT-AGGGTTTTT
**
20917513 AA-TTAA-ATTAGTTAGGGTTTTTAAATTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGT--TTAGGGTTTTT-AATTTAAGGGTTTAGGGTTTTT
* * * *
20917558 AA-TTAA--ATTAAGGGTTTTTAAGTTAATGGG-TTAAGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
* * **
20917599 AAATTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTT
1 -AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
*
20917645 AAGTTAAGGGGTTAGGGTTTTTAATTTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
** * * * *
20917690 AA-TTAAATTAGTTTAAGGTTTTTAAGTTAAGGGATTAGGGGTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
* * * *
20917735 AATTTTAAAGGTTTTA-GGTTTTTAATTTAAAGG-TTAGGGTTTAT
1 AA-GTT-AAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
* *
20917779 AAGTTAAGGGTTTAGGGTTTTTAATTTTAAAGG-TCAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
20917823 AAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
* **
20917867 AAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
* * *
20917912 AAGTTAAGGGTTTAGTGTTTTTAATTAAATTGGTTTAGGG-TTTT
1 AAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTTTTT
* *
20917956 AAGTTAAGGG-TTAGGGTTTTTAAGCTTAAGGGTTTAAGGTTTTAAATT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTT-AGGGTTT---TT
* *
20918004 AAATTAGTTAAGGGTTTATGGTTTTTATTTTTAAGGGTTTAGGGTTTTT
1 --A--AGTTAAGGGTTTAGGGTTTTTA-ATTTAAGGGTTTAGGGTTTTT
** *
20918053 AA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
* * *
20918098 AATTTTAAGGGTTTAGGGTTTTTTATTTTAAGGG-TTAAGGTTTTT
1 AA-GTTAAGGGTTTAGGG-TTTTTAATTTAAGGGTTTAGGGTTTTT
*
20918143 AAGTTAAGGGTTTAGGGTTTTAAATTTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
** * * *
20918188 AA-TTGAATTAGTTTAGGGTTTTTAAGTTGAA-TGTTTAGAGTTTTT
1 AAGTT-AA-GGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTTTTT
*
20918233 AATTTTAAGGGTTTAGGGTTTTTAA
1 AA-GTTAAGGGTTTAGGGTTTTTAA
20918258 GTAATAACTC
Statistics
Matches: 663, Mismatches: 82, Indels: 86
0.80 0.10 0.10
Matches are distributed among these distances:
41 16 0.02
42 43 0.06
43 55 0.08
44 153 0.23
45 254 0.38
46 91 0.14
47 10 0.02
48 2 0.00
49 2 0.00
50 1 0.00
52 15 0.02
53 21 0.03
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.48
Consensus pattern (44 bp):
AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTTTTT
Found at i:20918015 original size:30 final size:29
Alignment explanation
Indices: 20917981--20918073 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 29
20917971 GTTTTTAAGC
20917981 TTAAGGGTTTAAGGTTTTAAATTAAATTAG
1 TTAAGGGTTTAAGGTTTT-AATTAAATTAG
* *
20918011 TTAAGGGTTTATGG-TTT--TT--ATT-T
1 TTAAGGGTTTAAGGTTTTAATTAAATTAG
*
20918034 TTAAGGGTTTAGGGTTTTTAATTAAATTAG
1 TTAAGGGTTTAAGG-TTTTAATTAAATTAG
*
20918064 TTTAGGGTTT
1 TTAAGGGTTT
20918074 TTAAGTTAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
23 13 0.25
24 3 0.06
25 3 0.06
26 2 0.04
27 2 0.04
29 6 0.12
30 22 0.43
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.51
Consensus pattern (29 bp):
TTAAGGGTTTAAGGTTTTAATTAAATTAG
Found at i:20918038 original size:53 final size:53
Alignment explanation
Indices: 20917957--20918208 Score: 176
Period size: 53 Copynumber: 5.2 Consensus size: 53
20917947 TAGGGTTTTA
20917957 AGTTAAGGG-TTAGGGTTTTTAAGCTTAAGGGTTTAAGGTTTTAAATTAAATT
1 AGTTAAGGGTTTAGGGTTTTTAAGCTTAAGGGTTTAAGGTTTTAAATTAAATT
* *** * *
20918009 AGTTAAGGGTTTATGGTTTTTATTTTTAAGGGTTTAGGGTTTTTAATT-AA--
1 AGTTAAGGGTTTAGGGTTTTTAAGCTTAAGGGTTTAAGGTTTTAAATTAAATT
*
20918059 A-TT-A--GTTTAGGGTTTTTAAG-TTAAGGGTTT-AGGGTTT---TT-AATT
1 AGTTAAGGGTTTAGGGTTTTTAAGCTTAAGGGTTTAAGGTTTTAAATTAAATT
* **
20918102 --TTAAGGGTTTAGGGTTTTTTATTTTAAGGG-TTAAGG-TTT---TT--A--
1 AGTTAAGGGTTTAGGGTTTTTAAGCTTAAGGGTTTAAGGTTTTAAATTAAATT
* ** * * *
20918144 AGTTAAGGGTTTAGGGTTTTAAATTTTAAGGGTTTAGGGTTTTTAATTGAATT
1 AGTTAAGGGTTTAGGGTTTTTAAGCTTAAGGGTTTAAGGTTTTAAATTAAATT
*
20918197 AGTTTAGGGTTT
1 AGTTAAGGGTTT
20918209 TTAAGTTGAA
Statistics
Matches: 164, Mismatches: 17, Indels: 37
0.75 0.08 0.17
Matches are distributed among these distances:
41 4 0.02
42 2 0.01
43 1 0.01
44 34 0.21
45 36 0.22
46 26 0.16
48 1 0.01
49 4 0.02
50 1 0.01
51 1 0.01
52 11 0.07
53 43 0.26
ACGTcount: A:0.25, C:0.00, G:0.26, T:0.49
Consensus pattern (53 bp):
AGTTAAGGGTTTAGGGTTTTTAAGCTTAAGGGTTTAAGGTTTTAAATTAAATT
Found at i:20918759 original size:18 final size:18
Alignment explanation
Indices: 20918732--20918766 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20918722 AGAAAAGTAA
* *
20918732 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
20918750 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
20918767 AATGCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:20919424 original size:7 final size:7
Alignment explanation
Indices: 20919414--20919442 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
20919404 TTATATACAT
20919414 AATACTA
1 AATACTA
20919421 AATACTA
1 AATACTA
20919428 AATACTA
1 AATACTA
20919435 AATACTA
1 AATACTA
20919442 A
1 A
20919443 TCGACTAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:20919646 original size:20 final size:20
Alignment explanation
Indices: 20919609--20919646 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20919599 TTTATTTTTA
*
20919609 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
20919629 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
20919647 TACCTTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:20920565 original size:21 final size:20
Alignment explanation
Indices: 20920539--20920578 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
20920529 ATTTTTACAG
20920539 TTTAAAAAATTTTAAAAAAAA
1 TTTAAAAAA-TTTAAAAAAAA
**
20920560 TTTAAACTATTTAAAAAAA
1 TTTAAAAAATTTAAAAAAA
20920579 GAGAGTTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTAAAAAATTTAAAAAAAA
Found at i:20920647 original size:11 final size:11
Alignment explanation
Indices: 20920633--20920687 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
20920623 TTAAATATAG
20920633 ATTTGAGAGAA
1 ATTTGAGAGAA
*
20920644 ATTTG-GAAGGA
1 ATTTGAG-AGAA
20920655 ATTTGAGAGGAA
1 ATTTGAGA-GAA
20920667 A-TTGAGAGGAA
1 ATTTGAGA-GAA
20920678 ATTTGAGAGA
1 ATTTGAGAGA
20920688 GGATTAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
10 1 0.03
11 27 0.71
12 10 0.26
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:20920658 original size:22 final size:22
Alignment explanation
Indices: 20920633--20920687 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
20920623 TTAAATATAG
20920633 ATTTGAGAGAAATTTG-GAAGG-A
1 ATTTGAGAGAAA-TTGAG-AGGAA
20920655 ATTTGAGAGGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTGAGAGGAA
20920678 ATTTGAGAGA
1 ATTTGAGAGA
20920688 GGATTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 16 0.53
23 14 0.47
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:20920680 original size:23 final size:23
Alignment explanation
Indices: 20920633--20920686 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
20920623 TTAAATATAG
20920633 ATTTGAGA-GAAATTTGGAAGGA
1 ATTTGAGAGGAAATTTGGAAGGA
20920655 ATTTGAGAGGAAA-TT-GAGAGGAA
1 ATTTGAGAGGAAATTTGGA-AGG-A
20920678 ATTTGAGAG
1 ATTTGAGAG
20920687 AGGATTAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 2 0.07
22 13 0.45
23 14 0.48
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (23 bp):
ATTTGAGAGGAAATTTGGAAGGA
Done.