Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 69 of 185
Found at i:20593091 original size:123 final size:124
Alignment explanation
Indices: 20592882--20593139 Score: 281
Period size: 123 Copynumber: 2.1 Consensus size: 124
20592872 AAAATGTCGG
* * * * * * *
20592882 TAAAGCCCCGATCATTAGCGGCGCTTTTTGGAAAACGCCGGTAAAGCCCCGAGCATTAGTGTCGC
1 TAAAGCCCCGACCATTAGCGACGCTTCTTGAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGC
* * * * *
20592947 ATCTTGAAATACACCGTTAAAGGCA-C-GAGCATTAGCGGCGC-TTCTTGAAAAACGCCAC
66 ATCTTCAAAAACACCGCTAAA-G-ATCTAAGCATTAGCGGCACTTTCTTGAAAAACGCCAC
*
20593005 TAAAGCCCCGACCATTAGCGACGCTTCTTGAAAAACGTCGCTAAAGCCCCGAGCATTAGCGGCG-
1 TAAAGCCCCGACCATTAGCGACGCTTCTTGAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGC
* ** * * * *
20593069 ATTTTTCAAAAATGCCGCTAAAGATCTAAGCATTAGCGGCACTTTTTTTAAAAATGCCTC
66 A-TCTTCAAAAACACCGCTAAAGATCTAAGCATTAGCGGCACTTTCTTGAAAAACGCCAC
20593129 TAAAGCCCCGA
1 TAAAGCCCCGA
20593140 AAGGTACAAA
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
121 1 0.01
122 3 0.03
123 83 0.75
124 24 0.22
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (124 bp):
TAAAGCCCCGACCATTAGCGACGCTTCTTGAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGCGC
ATCTTCAAAAACACCGCTAAAGATCTAAGCATTAGCGGCACTTTCTTGAAAAACGCCAC
Found at i:20593106 original size:82 final size:82
Alignment explanation
Indices: 20592861--20593091 Score: 264
Period size: 82 Copynumber: 2.8 Consensus size: 82
20592851 TTTTTCAAAA
* * * * * * *
20592861 ACGCTTTTTGGAAAATGTCGGTAAAGCCCCGATCATTAGCGGCGCTTTTTGGAAAACGCCGGTAA
1 ACGCTTCTTGAAAAACGTCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTAA
*
20592926 AGCCCCGAGCATTAGTG
66 AGCCCCGAGCATTAGCG
* * * ** * * * * *
20592943 TCGCATCTTGAAATACACCGTTAAAGGCACGAGCATTAGCGGCGCTTCTTGAAAAACGCCACTAA
1 ACGCTTCTTGAAAAACGTCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTAA
*
20593008 AGCCCCGACCATTAGCG
66 AGCCCCGAGCATTAGCG
* * *
20593025 ACGCTTCTTGAAAAACGTCGCTAAAGCCCCGAGCATTAGCGGCGATTTTTCAAAAATGCCGCTAA
1 ACGCTTCTTGAAAAACGTCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTAA
20593090 AG
66 AG
20593092 ATCTAAGCAT
Statistics
Matches: 118, Mismatches: 31, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
82 118 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (82 bp):
ACGCTTCTTGAAAAACGTCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTAA
AGCCCCGAGCATTAGCG
Found at i:20605207 original size:54 final size:54
Alignment explanation
Indices: 20605120--20605228 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
20605110 AATCGCTATA
*
20605120 AACCGCCTCTTCACTGTGCCGATTGGAATACATACAAAACAACCATTTTTATTC
1 AACCCCCTCTTCACTGTGCCGATTGGAATACATACAAAACAACCATTTTTATTC
*
20605174 AACCCCCTCTTCGCTGTGCCGATTGGAATACATACAAAACAACCATTTTTATTC
1 AACCCCCTCTTCACTGTGCCGATTGGAATACATACAAAACAACCATTTTTATTC
20605228 A
1 A
20605229 CTTTCTCTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.29
Consensus pattern (54 bp):
AACCCCCTCTTCACTGTGCCGATTGGAATACATACAAAACAACCATTTTTATTC
Found at i:20624176 original size:51 final size:49
Alignment explanation
Indices: 20624109--20624239 Score: 138
Period size: 51 Copynumber: 2.6 Consensus size: 49
20624099 TGATAGGTCG
20624109 CATGTGTAGTACTATGTGCAGGCTACTATACGTACCAGATAGCT-TCGATCA
1 CATGTGTAGTACTATGT-CAGGCTACTATACGTACCAGATAG-TAT-GATCA
*** * * *
20624160 CATGTGTAGTACTATGTCTAGGCTACTACGTGTATCATATAGTGATGGTCA
1 CATGTGTAGTACTATGTC-AGGCTACTATACGTACCAGATAGT-ATGATCA
*
20624211 CATGTGTAGTAATATGTACAGGCTACTAT
1 CATGTGTAGTACTATGT-CAGGCTACTAT
20624240 CTGAATCGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
50 2 0.03
51 64 0.94
52 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (49 bp):
CATGTGTAGTACTATGTCAGGCTACTATACGTACCAGATAGTATGATCA
Found at i:20624182 original size:101 final size:102
Alignment explanation
Indices: 20624056--20624239 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 102
20624046 AAAGTGATGG
* * *
20624056 TCACGTGTGTAATACTATGTGTAGGCTACTAAGTGTACCATA-A-TGATAGGTCGCATGTGTAGT
1 TCACATGTGTAATACTATGTCTAGGCTACTAAGTGTACCATATAGTGAT-GGTCACATGTGTAGT
* *
20624119 ACTATGTGCAGGCTACTATACGTACCAGATAGCTTCGA
65 AATATGTACAGGCTACTATACGTACCAGATAGCTTCGA
* * *
20624157 TCACATGTGTAGTACTATGTCTAGGCTACTACGTGTATCATATAGTGATGGTCACATGTGTAGTA
1 TCACATGTGTAATACTATGTCTAGGCTACTAAGTGTACCATATAGTGATGGTCACATGTGTAGTA
20624222 ATATGTACAGGCTACTAT
66 ATATGTACAGGCTACTAT
20624240 CTGAATCGAT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
101 37 0.51
102 32 0.44
103 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (102 bp):
TCACATGTGTAATACTATGTCTAGGCTACTAAGTGTACCATATAGTGATGGTCACATGTGTAGTA
ATATGTACAGGCTACTATACGTACCAGATAGCTTCGA
Found at i:20624486 original size:16 final size:16
Alignment explanation
Indices: 20624465--20624496 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20624455 TGATTGAAAG
*
20624465 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
20624481 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
20624497 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:20644771 original size:18 final size:19
Alignment explanation
Indices: 20644740--20644775 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
20644730 TTATTCTGCA
20644740 AAAATAAATAAAAATAAAG
1 AAAATAAATAAAAATAAAG
*
20644759 AAAA-AAATTAAAATAAA
1 AAAATAAATAAAAATAAA
20644776 CTTGAACAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAAATAAAAATAAAG
Found at i:20647860 original size:27 final size:27
Alignment explanation
Indices: 20647830--20648081 Score: 253
Period size: 27 Copynumber: 9.3 Consensus size: 27
20647820 AATTCGTGGC
*
20647830 AAATGACTGAAATACCCTCGATGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
*
20647857 AAATGACTGAAATACCCCCGAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* *
20647884 AAATGACAGAAATACCC-CCAATGGGTA
1 AAATGACTGAAATACCCTCGAA-GGGTA
** * * *
20647911 AAATGACCAAAATAACTTCAAAGGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
* * *
20647938 AAATGA-TAGAAATAACTTCAAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
*
20647965 AAATGA-TAGAAATACCTTCGAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
*
20647992 AAATGA-TAGAAATACCCTTGAAGGGTA
1 AAATGACT-GAAATACCCTCGAAGGGTA
* *
20648019 AAATGACCGAAATATCCCT-GATGGGTA
1 AAATGACTGAAATA-CCCTCGAAGGGTA
* * *
20648046 AAATGACTAAAATACCCCCGAAAGGTA
1 AAATGACTGAAATACCCTCGAAGGGTA
20648073 AAATGACTG
1 AAATGACTG
20648082 TTATACCCCT
Statistics
Matches: 196, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.03
27 183 0.93
28 7 0.04
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.19
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGAAGGGTA
Found at i:20648285 original size:26 final size:26
Alignment explanation
Indices: 20648256--20648327 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 26
20648246 TTGCCACATA
20648256 TACTGTTACTGGAAGCTTTGTTGCAT
1 TACTGTTACTGGAAGCTTTGTTGCAT
* * * **
20648282 TACTGTTATTCGTAGCTTTGTTGTGT
1 TACTGTTACTGGAAGCTTTGTTGCAT
*
20648308 TACTGTTACTGGCAGCTTTG
1 TACTGTTACTGGAAGCTTTG
20648328 CTACGTTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.15, C:0.15, G:0.24, T:0.46
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGTTGCAT
Found at i:20648335 original size:26 final size:26
Alignment explanation
Indices: 20648230--20648351 Score: 77
Period size: 26 Copynumber: 4.7 Consensus size: 26
20648220 AGGGGAAGTA
** *
20648230 TACTG-TACTGGTGGCTTTGCCACAT
1 TACTGTTACTGGCAGCTTTGCTACAT
* * *
20648255 ATACTGTTACTGGAAGCTTTGTTGCAT
1 -TACTGTTACTGGCAGCTTTGCTACAT
* * * * ***
20648282 TACTGTTATTCGTAGCTTTGTTGTGT
1 TACTGTTACTGGCAGCTTTGCTACAT
*
20648308 TACTGTTACTGGCAGCTTTGCTACGT
1 TACTGTTACTGGCAGCTTTGCTACAT
* *
20648334 TATTATT-CTGGCAGCTTT
1 TACTGTTACTGGCAGCTTT
20648352 ACTGCGATAT
Statistics
Matches: 77, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
25 11 0.14
26 51 0.66
27 15 0.19
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.43
Consensus pattern (26 bp):
TACTGTTACTGGCAGCTTTGCTACAT
Found at i:20655484 original size:27 final size:27
Alignment explanation
Indices: 20655452--20655725 Score: 291
Period size: 27 Copynumber: 10.1 Consensus size: 27
20655442 AATTTATGGG
* *
20655452 AAAATAACCGAAATACCCCCGATGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* *
20655479 AAAAT-ACCTAAAATACCCTCGAAGGGT
1 AAAATGACC-GAAATACCCCCGAAGGGT
*
20655506 AAAATGATCGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* **
20655533 AAAATGACTGAAATACCCTAGATA-GGT
1 AAAATGACCGAAATACCCCCGA-AGGGT
** *
20655560 AAAATGAATGAAAGACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* ** * **
20655587 AAAATAATTGAAATACCCTCGAAGTTT
1 AAAATGACCGAAATACCCCCGAAGGGT
* * *
20655614 AAAATGACCAAAATACCCTCGATGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
*
20655641 AAAATGACTGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* *
20655668 AAAATAACCGAAATACCCCCGATGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* *
20655695 AAAATGATCGAAATACCCCAGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
20655722 AAAA
1 AAAA
20655726 CGACTGTTAT
Statistics
Matches: 205, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.02
27 198 0.97
28 3 0.01
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCGAAGGGT
Found at i:20655519 original size:54 final size:54
Alignment explanation
Indices: 20655452--20655725 Score: 331
Period size: 54 Copynumber: 5.1 Consensus size: 54
20655442 AATTTATGGG
* *
20655452 AAAATAACCGAAATACCCCCGATGGGTAAAAT-ACCTAAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCCCGATGGGTAAAATGA-CTGAAATACCCTCGAAGGGT
* * *
20655506 AAAATGATCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCTAGATA-GGT
1 AAAATGACCGAAATACCCCCGATGGGTAAAATGACTGAAATACCCTCGA-AGGGT
** * * * * **
20655560 AAAATGAATGAAAGACCCCCGAAGGGTAAAATAATTGAAATACCCTCGAAGTTT
1 AAAATGACCGAAATACCCCCGATGGGTAAAATGACTGAAATACCCTCGAAGGGT
* * *
20655614 AAAATGACCAAAATACCCTCGATGGGTAAAATGACTGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGATGGGTAAAATGACTGAAATACCCTCGAAGGGT
*
20655668 AAAATAACCGAAATACCCCCGATGGGTAAAATGA-TCGAAATACCC-CAGAAGGGT
1 AAAATGACCGAAATACCCCCGATGGGTAAAATGACT-GAAATACCCTC-GAAGGGT
20655722 AAAA
1 AAAA
20655726 CGACTGTTAT
Statistics
Matches: 188, Mismatches: 27, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.02
54 183 0.97
55 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.17
Consensus pattern (54 bp):
AAAATGACCGAAATACCCCCGATGGGTAAAATGACTGAAATACCCTCGAAGGGT
Found at i:20655561 original size:81 final size:81
Alignment explanation
Indices: 20655452--20655731 Score: 332
Period size: 81 Copynumber: 3.5 Consensus size: 81
20655442 AATTTATGGG
* * * * * *
20655452 AAAATAACCGAAATACCCCCGATGGGTAAAAT-ACCTAAAATACCCTCGAAGGGTAAAATGATCG
1 AAAATGACCGAAATACCCCAGATAGGTAAAATGA-CTGAAATACCCCCGAAGGGTAAAATAATCG
20655516 AAATACCCCCGAAGGGT
65 AAATACCCCCGAAGGGT
* * * * *
20655533 AAAATGACTGAAATACCCTAGATAGGTAAAATGAATGAAAGACCCCCGAAGGGTAAAATAATTGA
1 AAAATGACCGAAATACCCCAGATAGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATAATCGA
* **
20655598 AATACCCTCGAAGTTT
66 AATACCCCCGAAGGGT
* * *
20655614 AAAATGACCAAAATACCCTC-GATGGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATAACCG
1 AAAATGACCGAAATACCC-CAGATAGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATAATCG
*
20655678 AAATACCCCCGATGGGT
65 AAATACCCCCGAAGGGT
* *
20655695 AAAATGATCGAAATACCCCAGA-AGGGTAAAACGACTG
1 AAAATGACCGAAATACCCCAGATA-GGTAAAATGACTG
20655732 TTATACCCTT
Statistics
Matches: 165, Mismatches: 30, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
80 1 0.01
81 163 0.99
82 1 0.01
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (81 bp):
AAAATGACCGAAATACCCCAGATAGGTAAAATGACTGAAATACCCCCGAAGGGTAAAATAATCGA
AATACCCCCGAAGGGT
Found at i:20655951 original size:26 final size:25
Alignment explanation
Indices: 20655922--20655970 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
20655912 TACTAGCAGC
20655922 TTTGCTACGTTACTATTACTGGCAAT
1 TTTGCTACGTTACTATT-CTGGCAAT
* * *
20655948 TTTGTTGCGTTATTATTCTGGCA
1 TTTGCTACGTTACTATTCTGGCA
20655971 GCTTTACTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.47
Consensus pattern (25 bp):
TTTGCTACGTTACTATTCTGGCAAT
Found at i:20673814 original size:79 final size:81
Alignment explanation
Indices: 20673670--20673887 Score: 243
Period size: 79 Copynumber: 2.7 Consensus size: 81
20673660 AAATCACGTA
* * * ** * *
20673670 CCTTCGGAATTTAAC-CGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATA
1 CCTTCGGGACTTAACTCGGATATAGTTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
20673733 GTAACTCGCACAAATG
66 GTAACTCGCACAAATG
*
20673749 CCTTCGGGACTTAACTCGGATTTAGTTACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAACTCGGATATAGTTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
*
20673812 GTATCTCGCACAAATG
66 GTAACTCGCACAAATG
* * * *
20673828 CCTTC-GGATCTT-AGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACT-CGGATATAGTTAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
20673888 CATCATTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
78 5 0.04
79 66 0.55
80 48 0.40
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (81 bp):
CCTTCGGGACTTAACTCGGATATAGTTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
GTAACTCGCACAAATG
Found at i:20673887 original size:40 final size:39
Alignment explanation
Indices: 20673684--20673887 Score: 218
Period size: 40 Copynumber: 5.1 Consensus size: 39
20673674 CGGAATTTAA
** *
20673684 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
20673724 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
* *
20673764 TCGGATTTAGTTACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
*
20673803 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* *
20673843 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
20673883 CCGGA
1 CCGGA
20673888 CATCATTCAA
Statistics
Matches: 139, Mismatches: 15, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
38 4 0.03
39 30 0.22
40 91 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20680242 original size:40 final size:39
Alignment explanation
Indices: 20680193--20680395 Score: 191
Period size: 40 Copynumber: 5.1 Consensus size: 39
20680183 CAGAATTCAG
* ** *
20680193 CCGGATATAGCTACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
*
20680233 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGT-ACTCGCACAAATGCCTTCGGGACTTAGC
*
20680273 CCGGATT-TAGTTACTCACACAAATGCCTTCGGG-CTTAGC
1 CCGG-TTATAG-TACTCGCACAAATGCCTTCGGGACTTAGC
* *
20680312 CCGG-AATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGTTA-TAGTA-CTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
20680352 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGTTATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGC
20680392 CCGG
1 CCGG
20680396 ACATCATTCA
Statistics
Matches: 137, Mismatches: 14, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
38 4 0.03
39 29 0.21
40 88 0.64
41 16 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGTTATAGTACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:20680331 original size:79 final size:82
Alignment explanation
Indices: 20680212--20680396 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
20680202 GCTACTCGTT
* *
20680212 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
20680275 GGATTTAGTTACTCA-CA
65 GGATATAGTCACTCAGCA
* **
20680292 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
20680355 GATATGGTCACTTAGCA
66 GATATAGTCACTCAGCA
20680372 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
20680397 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.62
80 32 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTCACTCAGCA
Found at i:20697204 original size:88 final size:87
Alignment explanation
Indices: 20697101--20697826 Score: 718
Period size: 88 Copynumber: 8.3 Consensus size: 87
20697091 CTGTCGATAA
* * * * *
20697101 AGGAAAGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACTGA-GAGAGGCAAGGCTGGTGTC
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATG-GAGGCAAGGCTGGGGTC
*
20697165 TTCGATCTACTTTGCTGTCAGCG
65 TTCGATCTGCTTTGCTGTCAGCG
* * * * * **
20697188 TAGGAGGGCCAGATCTGCTATCTTTAACCTGTTCCACTGTAACCGAAGGAGGCAAGGCTGGTATC
1 -AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATGGAGGCAAGGCTGGGGTC
* * *
20697253 TTCGATCTACTTCGCTGTCAGTG
65 TTCGATCTGCTTTGCTGTCAGCG
* * *
20697276 TAGGAAGGCAAGATCTGCTATCTTTAACCCGCTTCACTGTAACCGATGGAGGCAAGGCTGGGGTC
1 -AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATGGAGGCAAGGCTGGGGTC
* *
20697341 TTTGATCTGCTTTACTGTCAGCG
65 TTCGATCTGCTTTGCTGTCAGCG
* * * ***
20697364 CAGGAGGGCAAGATCTGCTATCTTTAACCCGCTCCACTACAACCGATGGAGGC-AGGACT-TTAT
1 -AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATGGAGGCAAGG-CTGGGGT
* *
20697427 TTTCGATTTGCTTTGCTGTCAATGC-
64 CTTCGATCTGCTTTGCTGTC-A-GCG
* *
20697452 AGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCAATGGAGGCAAGGCTGGGGTCT
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATGGAGGCAAGGCTGGGGTCT
* * *
20697517 TCGATCTG-TTTCACTATTTATGC-
66 TCGATCTGCTTT-GCT-GTCA-GCG
* * * *
20697540 AGAAAGGCAAGATCTGCCATCTTTAACCTGCTCCACTGAAACCAATGGAGGCAAGGCTGGGGTCT
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATGGAGGCAAGGCTGGGGTCT
*
20697605 TCGATCTGCTTCGCTGTCTATGC-
66 TCGATCTGCTTTGCTGTC-A-GCG
* * ** *
20697628 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGTAAGGCT-TCGTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATGGAGGCAAGGCTGGGGTCT
** * * *
20697692 TTTATCTGCTTCGCTGTGAATAC-
66 TCGATCTGCTTTGCTGT-CA-GCG
* * ** *
20697715 AGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCGTTGGAGGCAAGGCTTTGCT-T
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATGGAGGCAAGGCTGGGGTCT
*
20697779 TCGATCTGCTTCGCTGTCAATGC-
66 TCGATCTGCTTTGCTGTC-A-GCG
* *
20697802 AGGATGGTAAGATCTGCTATCTTTA
1 AGGAAGGCAAGATCTGCTATCTTTA
20697827 CTGATCTGTT
Statistics
Matches: 545, Mismatches: 80, Indels: 27
0.84 0.12 0.04
Matches are distributed among these distances:
87 192 0.35
88 347 0.64
89 6 0.01
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (87 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGATGGAGGCAAGGCTGGGGTCT
TCGATCTGCTTTGCTGTCAGCG
Found at i:20697504 original size:263 final size:259
Alignment explanation
Indices: 20697101--20697826 Score: 848
Period size: 263 Copynumber: 2.8 Consensus size: 259
20697091 CTGTCGATAA
* * * * * *
20697101 AGGAAAGCAAGATCTGCTATCTTCAACCTACTCCACTGCAACTGAGAGAGGCAAGGCTGGTGTCT
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGAG-GAGGC-AGGCT-TTGTTT
* ** * * * * * *
20697166 TCGATCTACTTTGCTGTCAGCGTAGGAGGGCCAGATCTGCTATCTTTAACCTGTTCCACTGTAAC
63 TCGATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAAC
* *
20697231 CGAA-GGAGGCAAGGCTGGTATCTTCGATCTACTTCGCTGTCAGTGTAGGAAGGCAAGATCTGCT
128 C-AATGGAGGCAAGGCTGGT-TCTTCGATCTGCTTCGCTGTCA-TGCAGGAAGGCAAGATCTGCT
* * * * *
20697295 ATCTTTAACCCGCTTCACTGTAACCGATGGAGGCAAGGCTGGGGTCTTTGATCTGCTTTACTGTC
190 ATCTTTAACCCGCTCCACTGAAACCAATGGAGGCAAGGCTGGGGTCTTCGATCTGCTTCACTGTC
20697360 -AGCGC
255 TA-CGC
* * * *
20697365 AGGAGGGCAAGATCTGCTATCTTTAACCCGCTCCACTACAACCGATGGAGGCAGGACTTTATTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGA-GGAGGCAGG-CTTTGTTTT
*
20697430 CGATTTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAACC
64 CGATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAACC
* * * * * * *
20697495 AATGGAGGCAAGGCTGGGGTCTTCGATCTGTTTCACTATTTATGCAGAAAGGCAAGATCTGCCAT
129 AATGGAGGCAAGGCT-GGTTCTTCGATCTGCTTCGCT-GTCATGCAGGAAGGCAAGATCTGCTAT
* *
20697560 CTTTAACCTGCTCCACTGAAACCAATGGAGGCAAGGCTGGGGTCTTCGATCTGCTTCGCTGTCTA
192 CTTTAACCCGCTCCACTGAAACCAATGGAGGCAAGGCTGGGGTCTTCGATCTGCTTCACTGTCTA
*
20697625 TGC
257 CGC
* *
20697628 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGGAGGTAAGGCTTCGTTTT
1 AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGA-GGAGG-CAGGCTTTGTTTT
** * * *
20697693 TTATCTGCTTCGCTGTGAATACAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAACC
64 CGATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAACC
** * *
20697758 GTTGGAGGCAAGGCT--TTGCTTTCGATCTGCTTCGCTGTCAATGCAGGATGGTAAGATCTGCTA
129 AATGGAGGCAAGGCTGGTT-C-TTCGATCTGCTTCGCTGTC-ATGCAGGAAGGCAAGATCTGCTA
20697821 TCTTTA
191 TCTTTA
20697827 CTGATCTGTT
Statistics
Matches: 391, Mismatches: 61, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
260 1 0.00
261 2 0.01
262 41 0.10
263 293 0.75
264 53 0.14
265 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (259 bp):
AGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCGAGGAGGCAGGCTTTGTTTTCG
ATCTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTGCAACCAA
TGGAGGCAAGGCTGGTTCTTCGATCTGCTTCGCTGTCATGCAGGAAGGCAAGATCTGCTATCTTT
AACCCGCTCCACTGAAACCAATGGAGGCAAGGCTGGGGTCTTCGATCTGCTTCACTGTCTACGC
Found at i:20697512 original size:175 final size:176
Alignment explanation
Indices: 20697074--20697826 Score: 815
Period size: 176 Copynumber: 4.3 Consensus size: 176
20697064 AGGACTTGTA
* * * * ** * * **
20697074 ATCTTTGATCTACTTCACTGTCGATAAAGGAAAGCAAGATCTGCTATCTTCAACCTACTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTG
* * * * * * *
20697139 CAACTGA-GAGAGGCAAGGCTGGTGTCTTCGATCTACTTTGCTGTCAGCGTAGGAGGGCCAGATC
66 CAACCGATG-GAGGCAAGGCTGGGGTCTTCGATCTGCTTTACTGTCAGCGCAGGAAGGCAAGATC
* * ** *
20697203 TGCTATCTTTAACCTGTTCCACTGTAACCGAAGGAGGCAAGGCTGGT
130 TGCTATCTTTAACCCGCTCCACTACAACCGATGGAGGCAAGGCTGGT
* * * *
20697250 ATCTTCGATCTACTTCGCTGTCAGTGTAGGAAGGCAAGATCTGCTATCTTTAACCCGCTTCACTG
1 ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTG
* * *
20697315 TAACCGATGGAGGCAAGGCTGGGGTCTTTGATCTGCTTTACTGTCAGCGCAGGAGGGCAAGATCT
66 CAACCGATGGAGGCAAGGCTGGGGTCTTCGATCTGCTTTACTGTCAGCGCAGGAAGGCAAGATCT
*
20697380 GCTATCTTTAACCCGCTCCACTACAACCGATGGAGGC-AGGACT-TT
131 GCTATCTTTAACCCGCTCCACTACAACCGATGGAGGCAAGG-CTGGT
* * *
20697425 ATTTTCGATTTGCTTTGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTG
* * * * *
20697490 CAACCAATGGAGGCAAGGCTGGGGTCTTCGATCTG-TTTCACTATTTA-TGCAGAAAGGCAAGAT
66 CAACCGATGGAGGCAAGGCTGGGGTCTTCGATCTGCTTT-ACT-GTCAGCGCAGGAAGGCAAGAT
* * * *
20697553 CTGCCATCTTTAACCTGCTCCACTGA-AACCAATGGAGGCAAGGCTGGG
129 CTGCTATCTTTAACCCGCTCCACT-ACAACCGATGGAGGCAAGGCTGGT
* * *
20697601 GTCTTCGATCTGCTTCGCTGTCTATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTG
1 ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTG
* * ** * ** ** * ***
20697666 CAACCGAGGGAGGTAAGGCT-TCGTTTTTTATCTGCTTCGCTGTGAATACAGGAAGGCAAGATCT
66 CAACCGATGGAGGCAAGGCTGGGGTCTTCGATCTGCTTTACTGTCAGCGCAGGAAGGCAAGATCT
* *
20697730 GCTATCTTTAACCCGCTCCACTGCAACCGTTGGAGGCAAGGCT--T
131 GCTATCTTTAACCCGCTCCACTACAACCGATGGAGGCAAGGCTGGT
* *
20697774 -TGCTTTCGATCTGCTTCGCTGTCAATGCAGGATGGTAAGATCTGCTATCTTTA
1 AT-C-TTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTA
20697827 CTGATCTGTT
Statistics
Matches: 491, Mismatches: 74, Indels: 26
0.83 0.13 0.04
Matches are distributed among these distances:
172 1 0.00
173 1 0.00
174 51 0.10
175 210 0.43
176 227 0.46
177 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.28
Consensus pattern (176 bp):
ATCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGCTATCTTTAACCCGCTCCACTG
CAACCGATGGAGGCAAGGCTGGGGTCTTCGATCTGCTTTACTGTCAGCGCAGGAAGGCAAGATCT
GCTATCTTTAACCCGCTCCACTACAACCGATGGAGGCAAGGCTGGT
Found at i:20699045 original size:13 final size:13
Alignment explanation
Indices: 20699009--20699036 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
20698999 CCGTCATTAC
20699009 TTTTCATTTTCAT
1 TTTTCATTTTCAT
20699022 TTTTCATTTTCAT
1 TTTTCATTTTCAT
20699035 TT
1 TT
20699037 CTTTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCATTTTCAT
Found at i:20699911 original size:12 final size:12
Alignment explanation
Indices: 20699894--20699958 Score: 55
Period size: 12 Copynumber: 5.6 Consensus size: 12
20699884 CCTTGGCCTC
20699894 TCCTTTTCTTTT
1 TCCTTTTCTTTT
20699906 TCCTTTTTCTTTT
1 TCC-TTTTCTTTT
*
20699919 T-CTTCTCTTTT
1 TCCTTTTCTTTT
*
20699930 T--TTTTCATTT
1 TCCTTTTCTTTT
* *
20699940 TCATTTTCATTT
1 TCCTTTTCTTTT
*
20699952 TCATTTT
1 TCCTTTT
20699959 GACTTTGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
10 8 0.17
11 9 0.19
12 20 0.43
13 10 0.21
ACGTcount: A:0.06, C:0.20, G:0.00, T:0.74
Consensus pattern (12 bp):
TCCTTTTCTTTT
Found at i:20699969 original size:18 final size:18
Alignment explanation
Indices: 20699931--20699976 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
20699921 TTCTCTTTTT
*
20699931 TTTTCATTTTCATTTTCA
1 TTTTCATTTTCACTTTCA
* *
20699949 TTTTCATTTTGACTTTGA
1 TTTTCATTTTCACTTTCA
*
20699967 TTTTGATTTT
1 TTTTCATTTT
20699977 TCTTTTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.15, C:0.11, G:0.07, T:0.67
Consensus pattern (18 bp):
TTTTCATTTTCACTTTCA
Found at i:20699976 original size:6 final size:6
Alignment explanation
Indices: 20699931--20699958 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
20699921 TTCTCTTTTT
20699931 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTT
20699959 GACTTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (6 bp):
TTTTCA
Found at i:20706464 original size:14 final size:14
Alignment explanation
Indices: 20706445--20706489 Score: 65
Period size: 14 Copynumber: 3.1 Consensus size: 14
20706435 TTGAACTTGG
20706445 TTTTATTTATTTAT
1 TTTTATTTATTTAT
20706459 TTTTATTTATTT-T
1 TTTTATTTATTTAT
20706472 TGTTTATTTATTTGAT
1 T-TTTATTTATTT-AT
20706488 TT
1 TT
20706490 GGGCCGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.07
14 23 0.82
15 1 0.04
16 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:20706465 original size:10 final size:10
Alignment explanation
Indices: 20706450--20706480 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
20706440 CTTGGTTTTA
20706450 TTTATTTATT
1 TTTATTTATT
20706460 TTTATTTATT
1 TTTATTTATT
*
20706470 TTTGTTTATT
1 TTTATTTATT
20706480 T
1 T
20706481 ATTTGATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.81
Consensus pattern (10 bp):
TTTATTTATT
Found at i:20716816 original size:927 final size:926
Alignment explanation
Indices: 20715023--20716872 Score: 3091
Period size: 927 Copynumber: 2.0 Consensus size: 926
20715013 CAAATTAACG
** * *
20715023 ATTTACTCCCTGTAGACCCTAAAATTGAGGGAACTTTCAGACAAAGAAGACGTGAACGAACAGCT
1 ATTTACTCCCTACAGACCCTAAAATTGAGCGAACTTTCAGACAAAGAAGACATGAACGAACAGCT
20715088 CAAAGACAAGTCGAGATGGACCTTGGAAATCAGAATCAAGACCAAGGTAATGAAGTCGATTATGT
66 CAAAGACAAGTCGAGATGGACCTTGGAAATCAGAATCAAGACCAAGGTAATGAAGTCGATTATGT
* *
20715153 ACGAAATCCTATCCTCATTGCTGATGATAGGGATCGATGCATCAGACAATATGCTGTGCCACTTT
131 ACGAAATCCTATCCTCATTGCCGATGATAGGGATCGATGCATCAGACAATATGCTATGCCACTTT
* * *
20715218 TTAGTGAGTTAAACCCAGGAATTAGAAGGCCAGATATTGAGGCAACTCAGCTTGAATTGAAACCA
196 TCAGTGAGTTAAACCCAGGAATTAGAAGGCCAGATAATGAGGCAACTCAACTTGAATTGAAACCA
* *
20715283 ATGATGTTTCAAATGCTACAAACGGTGGGCCAATTTAGTGGTATGCCACGGAAGGTCCACATCTC
261 ATGATGTTTCAAATGCTACAAACGGTGGGCCAATTTAGTGGTATCCCACGGAAGATCCACATCTC
* * * * * *
20715348 TACCTTCGATTGTTTATGGAGGTGAGTGATTCTTTCAAGATAGCTGGTGTTACTGAAGGCACGCT
326 CACCTTCGATTGTTTATGGAGGTGAGTGATTCATTAAAGATAGCCGATGTGACTGAAGGCAC-CT
* *
20715413 GAGGTTGAAGTTGTTTCTGTACTCTTTGTGAGATCGAGCATGAGCATGGCTCAATTCATTGCCAC
390 GAGGTTAAAGTTGTTTCTGTACTCTTTGCGAGATCGAGCATGAGCATGGCTCAATTCATTGCCAC
20715478 CAAGTTCCATATCTATATGGCAAGAATTACTAGAGAGATTTTTGGTTAAGTATTTCCCACCTAGC
455 CAAGTTCCATATCTATATGGCAAGAATTACTAGAGAGATTTTTGGTTAAGTATTTCCCACCTAGC
* * ** * *
20715543 AAAAATGCTAAGTTGAGGAATGAGATCACAACTTTTTAATAATTGGATGATGAGTCTTTGTATGA
520 AAAAATGCTAAGTTAAGGAACGAGATCACAACTTTCCAACAATTGGATGACGAGTCTTTGTATGA
*
20715608 GGCTTGGGAACGATTCAAGGAGTTACTTCGTAAGTGTCCTCATCATGGGATTCCCTACTGTATCT
585 GGCTTGAGAACGATTCAAGGAGTTACTTCGTAAGTGTCCTCATCATGGGATTCCCTACTGTATCT
20715673 AGTTGGAGACAATCTATAATGGTCTTAATGCACATACAAGATTGATGCTAGATGCTTCCGCGAAT
650 AGTTGGAGACAATCTATAATGGTCTTAATGCACATACAAGATTGATGCTAGATGCTTCCGCGAAT
20715738 GGTGCAATTTTGTCTAAGTCTTATAATGAGGTTGATGAGATCATCGAGAGGATCGCGAGTAATAA
715 GGTGCAATTTTGTCTAAGTCTTATAATGAGGTTGATGAGATCATCGAGAGGATCGCGAGTAATAA
*
20715803 CTACCAATGGCCAACAAATCGAACAGTTTCAAGAAGACACTTAGCCGGAGTTCATGAAGTTGACT
780 CTACCAATGGCCAACAAATCGAACAGCTTCAAGAAGACACTTAGCCGGAGTTCATGAAGTTGACT
*
20715868 CCCTCACTTCATTATCAGCTCAGGTATTGACTATTT-CCTCTATGTTAAAACAGTTAACTGCTAA
845 CCCTCACTTCATTATCAGCTCAGGTATCGACTATTTCCCT-TATGTTAAAACAGTTAACTGCTAA
20715932 TACTACTAACAATTATCA
909 TACTACTAACAATTATCA
* *
20715950 ATTTACTCCCTACAGACCCTGAAATTGAGCGAACTTTCAGACAAAGAAGACATGAATGAACAGCT
1 ATTTACTCCCTACAGACCCTAAAATTGAGCGAACTTTCAGACAAAGAAGACATGAACGAACAGCT
*
20716015 CAAAGACAAGTCGAGATGGACCTTGGAAATCAGAATCAAGACCTAGGTAATGAA-TCTGATTATG
66 CAAAGACAAGTCGAGATGGACCTTGGAAATCAGAATCAAGACCAAGGTAATGAAGTC-GATTATG
* * *
20716079 TACGAAATCCTATCCTCATTGCCGATGATAGGGATCGATGCATTAGACAATATGTTATGCCTCTT
130 TACGAAATCCTATCCTCATTGCCGATGATAGGGATCGATGCATCAGACAATATGCTATGCCACTT
* *
20716144 TTCAGTGAGTTAAACCCAGGAATTAGAAGGCCAGATAATGAGGCAACTCAATTTGAATTGAAACT
195 TTCAGTGAGTTAAACCCAGGAATTAGAAGGCCAGATAATGAGGCAACTCAACTTGAATTGAAACC
* *
20716209 AGTGATGTTTCAAATGCTACAAACGGTGGGCCAATTTAGTGTTATACCCACGGAAGATCCACATC
260 AATGATGTTTCAAATGCTACAAACGGTGGGCCAATTTAGTGGTAT-CCCACGGAAGATCCACATC
*
20716274 TCCACCTTCGATTGTTTATGGAGGTGAGTGATTCATTAAAGATAGCCGATGTGACTGAAAATGCA
324 TCCACCTTCGATTGTTTATGGAGGTGAGTGATTCATTAAAGATAGCCGATGTGACTG--AAGGCA
* * *
20716339 -TTGTGGTTAAAGTTTTTTCTGTACTCTTTGCGAGATCGAGCATGAGCATGGCTCAATTCATTGC
387 CCTGAGGTTAAAGTTGTTTCTGTACTCTTTGCGAGATCGAGCATGAGCATGGCTCAATTCATTGC
*
20716403 CACCAAGTTTCATATCTATATGGCAAGAATTACTAGAGAGATTTTTGGTTAAGTATTTCCCACCT
452 CACCAAGTTCCATATCTATATGGCAAGAATTACTAGAGAGATTTTTGGTTAAGTATTTCCCACCT
* *
20716468 AGCAAAAATGCTAAGTTAAGGAACGAGATCACAACTTTCCAACAATTTGATGACGTGTCTTTGTA
517 AGCAAAAATGCTAAGTTAAGGAACGAGATCACAACTTTCCAACAATTGGATGACGAGTCTTTGTA
*
20716533 TGAGGCTTGAGAGCGATTCAA-GAGTTACTTCGTAAGTGTCCTCATCATGGGATT-CCTCACTGT
582 TGAGGCTTGAGAACGATTCAAGGAGTTACTTCGTAAGTGTCCTCATCATGGGATTCCCT-ACTGT
* * *
20716596 ATCTATTTGGAGACATTCTATAATGGTCTTAATGCACATACAAGATTGATGCTAGATGCTTTCGC
646 ATCTAGTTGGAGACAATCTATAATGGTCTTAATGCACATACAAGATTGATGCTAGATGCTTCCGC
20716661 GAATGGTGCAATTTTGTCTAAGTCTTATAATGAGGCTT-ATGAGATCATCGAGAGGATCGCGAGT
711 GAATGGTGCAATTTTGTCTAAGTCTTATAATGAGG-TTGATGAGATCATCGAGAGGATCGCGAGT
* * *
20716725 AATAACTACCAATGGCCAACAAATCGAATAGCTTCAGGAAGACGCTTAGCCGGAGTTCATGAAGT
775 AATAACTACCAATGGCCAACAAATCGAACAGCTTCAAGAAGACACTTAGCCGGAGTTCATGAAGT
* *
20716790 TGACTCCCTCACTTCATTATCAGCTCAGGTATCGTCTATTTCCCTTATGTTAAAATAGTTAACTG
840 TGACTCCCTCACTTCATTATCAGCTCAGGTATCGACTATTTCCCTTATGTTAAAACAGTTAACTG
*
20716855 CTAATACTACTAATAATT
905 CTAATACTACTAACAATT
20716873 TGACAGCTCA
Statistics
Matches: 861, Mismatches: 55, Indels: 14
0.93 0.06 0.02
Matches are distributed among these distances:
926 5 0.01
927 579 0.67
928 272 0.32
930 5 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (926 bp):
ATTTACTCCCTACAGACCCTAAAATTGAGCGAACTTTCAGACAAAGAAGACATGAACGAACAGCT
CAAAGACAAGTCGAGATGGACCTTGGAAATCAGAATCAAGACCAAGGTAATGAAGTCGATTATGT
ACGAAATCCTATCCTCATTGCCGATGATAGGGATCGATGCATCAGACAATATGCTATGCCACTTT
TCAGTGAGTTAAACCCAGGAATTAGAAGGCCAGATAATGAGGCAACTCAACTTGAATTGAAACCA
ATGATGTTTCAAATGCTACAAACGGTGGGCCAATTTAGTGGTATCCCACGGAAGATCCACATCTC
CACCTTCGATTGTTTATGGAGGTGAGTGATTCATTAAAGATAGCCGATGTGACTGAAGGCACCTG
AGGTTAAAGTTGTTTCTGTACTCTTTGCGAGATCGAGCATGAGCATGGCTCAATTCATTGCCACC
AAGTTCCATATCTATATGGCAAGAATTACTAGAGAGATTTTTGGTTAAGTATTTCCCACCTAGCA
AAAATGCTAAGTTAAGGAACGAGATCACAACTTTCCAACAATTGGATGACGAGTCTTTGTATGAG
GCTTGAGAACGATTCAAGGAGTTACTTCGTAAGTGTCCTCATCATGGGATTCCCTACTGTATCTA
GTTGGAGACAATCTATAATGGTCTTAATGCACATACAAGATTGATGCTAGATGCTTCCGCGAATG
GTGCAATTTTGTCTAAGTCTTATAATGAGGTTGATGAGATCATCGAGAGGATCGCGAGTAATAAC
TACCAATGGCCAACAAATCGAACAGCTTCAAGAAGACACTTAGCCGGAGTTCATGAAGTTGACTC
CCTCACTTCATTATCAGCTCAGGTATCGACTATTTCCCTTATGTTAAAACAGTTAACTGCTAATA
CTACTAACAATTATCA
Found at i:20730235 original size:27 final size:27
Alignment explanation
Indices: 20730195--20730372 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
20730185 TAAAATGTAC
*
20730195 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
20730222 TGCACTCAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20730248 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
20730276 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20730304 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
20730331 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20730358 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20730373 GGCTCAATAT
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 100 0.82
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20730309 original size:82 final size:81
Alignment explanation
Indices: 20730196--20730351 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
20730186 AAAATGTACA
* * * *
20730196 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
20730260 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
20730277 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
20730342 TGCGAGTTGA
65 TGCGAATTGA
20730352 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20730363 original size:82 final size:81
Alignment explanation
Indices: 20730192--20730372 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
20730182 AATTAAAATG
* * * * *
20730192 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20730257 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20730273 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20730337 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20730355 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20730373 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20751144 original size:27 final size:27
Alignment explanation
Indices: 20751113--20751289 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
20751103 TAAATGTACA
* *
20751113 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
20751140 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
20751167 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
20751194 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
20751222 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
20751249 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
20751276 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
20751290 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:20751226 original size:82 final size:81
Alignment explanation
Indices: 20751113--20751268 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
20751103 TAAATGTACA
* * * *
20751113 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
20751177 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
20751194 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
20751259 TGCGAGTTGA
65 TGCGAATTGA
20751269 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20751280 original size:82 final size:81
Alignment explanation
Indices: 20751109--20751289 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
20751099 GGATTAAATG
* * * * *
20751109 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20751174 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20751190 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20751254 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20751272 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20751290 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20759136 original size:27 final size:27
Alignment explanation
Indices: 20759096--20759273 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
20759086 TTAAATGTAC
*
20759096 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
20759123 TGCACTCAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20759149 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
20759177 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20759205 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
20759232 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20759259 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20759274 GGCTCAATAT
Statistics
Matches: 122, Mismatches: 26, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
27 100 0.82
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20759210 original size:82 final size:81
Alignment explanation
Indices: 20759097--20759252 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
20759087 TAAATGTACA
* * * *
20759097 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
20759161 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
20759178 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
20759243 TGCGAGTTGA
65 TGCGAATTGA
20759253 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20759264 original size:82 final size:81
Alignment explanation
Indices: 20759093--20759273 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
20759083 GAATTAAATG
* * * * *
20759093 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
20759158 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
20759174 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
20759238 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20759256 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20759274 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20760706 original size:38 final size:39
Alignment explanation
Indices: 20760628--20760714 Score: 117
Period size: 38 Copynumber: 2.3 Consensus size: 39
20760618 GTTACAGCTT
*
20760628 TTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
1 TTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCA
*
20760667 TTGTGCGAGTTACTATAA-CC-GGCTATGTCCCGAAGGCA
1 TTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCA
20760705 TT-TGACGAGT
1 TTGTG-CGAGT
20760715 AGCTATATCT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
37 2 0.05
38 23 0.52
39 17 0.39
40 2 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (39 bp):
TTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCA
Found at i:20767771 original size:79 final size:79
Alignment explanation
Indices: 20767635--20767854 Score: 225
Period size: 79 Copynumber: 2.8 Consensus size: 79
20767625 TTGAATGATG
* * * * **
20767635 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGTATT
20767699 TGTGCGAGATACTA-A
64 TGTGCGAGATACTATA
* *
20767714 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGTATT
*
20767778 TGTGCGAGTTACTATA
64 TGTGCGAGATACTATA
* * ** *
20767794 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGGTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGGTA
20767855 CGTGATTTGG
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
78 1 0.01
79 70 0.59
80 47 0.40
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGTATTTG
TGCGAGATACTATA
Found at i:20767826 original size:40 final size:40
Alignment explanation
Indices: 20767635--20767819 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
20767625 TTGAATGATG
* * * * *
20767635 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
20767675 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
20767715 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
20767754 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20767795 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20767820 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20774649 original size:48 final size:48
Alignment explanation
Indices: 20774593--20774693 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
20774583 CTATTTGTGA
* *
20774593 ACAAGCCACCACACAGATA-CTGATAAATAGTCAAATAACACATCGTGG
1 ACAAGCCACCACACAGATATC-GATAAACAGTCAAATAACACATCGCGG
* * **
20774641 ACAAGCCACCACATAGATATCGATAAACGGTCGTATAACACATCGCGG
1 ACAAGCCACCACACAGATATCGATAAACAGTCAAATAACACATCGCGG
20774689 ACAAG
1 ACAAG
20774694 AAACCACATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 45 0.98
49 1 0.02
ACGTcount: A:0.42, C:0.26, G:0.17, T:0.16
Consensus pattern (48 bp):
ACAAGCCACCACACAGATATCGATAAACAGTCAAATAACACATCGCGG
Found at i:20780798 original size:41 final size:41
Alignment explanation
Indices: 20780752--20780832 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
20780742 AAAGAAAGAA
** * *
20780752 AAAAGACAATTTTTTGTGTTTAGTAGAAGAGAAAATAAAAC
1 AAAAGACAACATTTTGTGTTTACTAGAAGAGAAAACAAAAC
* *
20780793 AAAAGAGAACATTTTGTGTTTACTAGGAGAGAAAACAAAA
1 AAAAGACAACATTTTGTGTTTACTAGAAGAGAAAACAAAA
20780833 ATTGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (41 bp):
AAAAGACAACATTTTGTGTTTACTAGAAGAGAAAACAAAAC
Found at i:20784180 original size:27 final size:27
Alignment explanation
Indices: 20784149--20784326 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
20784139 TAAATTGTAC
20784149 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *** *
20784176 TGCACTAAGTGTACGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20784202 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
20784230 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
20784258 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
20784285 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
20784312 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
20784327 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 102 0.82
28 23 0.18
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:20784290 original size:82 final size:81
Alignment explanation
Indices: 20784150--20784305 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
20784140 AAATTGTACA
* *
20784150 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAACGAATACGATGCACTAAGTGT
20784215 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *** *
20784231 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAACGAATACGAT-GCACTAAGT
*
20784295 GTGCGAGTTGA
64 GTGCGAATTGA
20784306 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:20784317 original size:82 final size:81
Alignment explanation
Indices: 20784146--20784326 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
20784136 GATTAAATTG
* *
20784146 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTACGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAACGAATACGATGCACTAA
20784211 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *** *
20784227 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTACGAAACGAATACGAT-GCACT
* **
20784291 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
20784309 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
20784327 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTACGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:20789204 original size:22 final size:23
Alignment explanation
Indices: 20789170--20789214 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
20789160 CATATAAGCA
20789170 TTCAACTAAACAT-CATTATAAG
1 TTCAACTAAACATCCATTATAAG
* *
20789192 TTCACCTATACATGCCATTATAA
1 TTCAACTAAACAT-CCATTATAA
20789215 CCTTGGCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
TTCAACTAAACATCCATTATAAG
Found at i:20790356 original size:17 final size:17
Alignment explanation
Indices: 20790334--20790388 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
20790324 TCTAATTGCC
20790334 AATTGATACCTTTAACT
1 AATTGATACCTTTAACT
*
20790351 AATTGA-A-CTTCATAGCT
1 AATTGATACCTT--TAACT
20790368 AATTGATACCTTTAACT
1 AATTGATACCTTTAACT
20790385 AATT
1 AATT
20790389 TTATGCCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 3 0.09
16 1 0.03
17 24 0.75
18 1 0.03
19 3 0.09
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.40
Consensus pattern (17 bp):
AATTGATACCTTTAACT
Found at i:20793373 original size:8 final size:8
Alignment explanation
Indices: 20793360--20793385 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
20793350 AGGAAAGGTC
20793360 TTGATATT
1 TTGATATT
20793368 TTGATATT
1 TTGATATT
20793376 TTGATATT
1 TTGATATT
20793384 TT
1 TT
20793386 ATGCTTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (8 bp):
TTGATATT
Found at i:20808357 original size:29 final size:29
Alignment explanation
Indices: 20808325--20808564 Score: 173
Period size: 29 Copynumber: 8.3 Consensus size: 29
20808315 GGTCGTCACC
20808325 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * ** * *
20808354 ATCCCTTTTAATAATCAATTTCGGAAACT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
*
20808383 ATCCTTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * * * * *
20808412 ATCCTTTTTTATATTCGATGGTCGTCA-CC
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
* * * * * * *
20808441 GTCCCTTTTCATAGTTGATGGTCGTCA-CC
1 ATCCCTTTTCATAATCGATAGCCG-AAGCT
*
20808470 ATCCCTTTTCATAATCGATAGCCAAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* *
20808499 ATCCCTTTTCATATTCGATAACCGAAGCT
1 ATCCCTTTTCATAATCGATAGCCGAAGCT
* * * *
20808528 ACCCCTTTTTATATTTGATA-CTCGAAGCT
1 ATCCCTTTTCATAATCGATAGC-CGAAGCT
20808557 A-CCCTTTT
1 ATCCCTTTT
20808565 TCATTGGTCA
Statistics
Matches: 170, Mismatches: 38, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
28 9 0.05
29 160 0.94
30 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGCCGAAGCT
Found at i:20808448 original size:87 final size:87
Alignment explanation
Indices: 20808263--20808517 Score: 210
Period size: 87 Copynumber: 2.9 Consensus size: 87
20808253 GATAATCATA
* * * * * *** *
20808263 ACCGTCCCTTTTCATATTCAATGGTCAAAACCATCCATTTTCATTAATCGATGGTCGTCA-CCAT
1 ACCGTCCCTTTTAATAATCAATGGTCGAAACCATCCCTTTTCA-TAATCGATAG-CCAAAGCTAT
* * * *
20808327 CCCTTTTCATAATCGATAGCCG-A
64 CCCTTTTCATATTCGATGGTCGTC
** * * * *
20808350 AGCTATCCCTTTTAATAATCAAT-TTCGGAAACTATCCTTTTTCATAATCGATAGCCGAAGCTAT
1 A-CCGTCCCTTTTAATAATCAATGGTC-GAAACCATCCCTTTTCATAATCGATAGCCAAAGCTAT
* *
20808414 CCTTTTTTATATTCGATGGTCGTC
64 CCCTTTTCATATTCGATGGTCGTC
* * ** **
20808438 ACCGTCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCC
1 ACCGTCCCTTTTAATAATCAATGGTCGAAACCATCCCTTTTCATAATCGATAGCCAAAGCTATCC
20808503 CTTTTCATATTCGAT
66 CTTTTCATATTCGAT
20808518 AACCGAAGCT
Statistics
Matches: 130, Mismatches: 33, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
86 2 0.02
87 94 0.72
88 34 0.26
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.36
Consensus pattern (87 bp):
ACCGTCCCTTTTAATAATCAATGGTCGAAACCATCCCTTTTCATAATCGATAGCCAAAGCTATCC
CTTTTCATATTCGATGGTCGTC
Found at i:20808450 original size:58 final size:58
Alignment explanation
Indices: 20808307--20808453 Score: 188
Period size: 58 Copynumber: 2.5 Consensus size: 58
20808297 CCATTTTCAT
20808307 TAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAA
1 TAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAA
* * ** * * * *
20808365 TAATCAAT-TTCGGAAACTATCCTTTTTCATAATCGATAGCCGAAGCTATCCTTTTTTA
1 TAATCGATGGTC-GTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAA
* *
20808423 TATTCGATGGTCGTCACCGTCCCTTTTCATA
1 TAATCGATGGTCGTCACCATCCCTTTTCATA
20808454 GTTGATGGTC
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
57 2 0.03
58 67 0.94
59 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (58 bp):
TAATCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAA
Found at i:20808474 original size:116 final size:116
Alignment explanation
Indices: 20808310--20808542 Score: 281
Period size: 116 Copynumber: 2.0 Consensus size: 116
20808300 TTTTCATTAA
* **
20808310 TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAATAATCAATTT
1 TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCCATCCCTTTTAATAATCAATAG
* * * * *
20808375 CGGAAA-CTATCCTTTTTCATAATCGATAGCCGAAGCTATCCTTTTTTATAT
66 C-CAAAGCTATCCCTTTTCATAATCGATAACCGAAGCTACCCCTTTTTATAT
* * * * * * * *
20808426 TCGATGGTCGTCACCGTCCCTTTTCATAGTTGATGGTCGTCA-CCATCCCTTTTCATAATCGATA
1 TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCG-AAGCCATCCCTTTTAATAATCAATA
*
20808490 GCCAAAGCTATCCCTTTTCATATTCGATAACCGAAGCTACCCCTTTTTATAT
65 GCCAAAGCTATCCCTTTTCATAATCGATAACCGAAGCTACCCCTTTTTATAT
20808542 T
1 T
20808543 TGATACTCGA
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
115 3 0.03
116 94 0.96
117 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.36
Consensus pattern (116 bp):
TCGATGGTCGTCACCATCCCTTTTCATAATCGATAGCCGAAGCCATCCCTTTTAATAATCAATAG
CCAAAGCTATCCCTTTTCATAATCGATAACCGAAGCTACCCCTTTTTATAT
Found at i:20808534 original size:87 final size:86
Alignment explanation
Indices: 20808325--20808546 Score: 205
Period size: 87 Copynumber: 2.5 Consensus size: 86
20808315 GGTCGTCACC
* ** * * *
20808325 ATCCCTTTTCATAATCGATAGCCGAAGCTATCCCTTTTAATAATCAATTTCGGAAACTATCCTTT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTA-CCCTTTTAATAATTGATGTCGGAAACCATCCCTT
*
20808390 TTCATAATCGATAGCCGAAGCT
65 TTCATAATCGATAGCCAAAGCT
* * * * * * * * **
20808412 ATCCTTTTTTATATTCGATGGTCGTCACCGT-CCCTTTTCATAGTTGATGGTC-GTCACCATCCC
1 ATCCCTTTTCATATTCGATAGCCG-AAGC-TACCCTTTTAATAATTGAT-GTCGGAAACCATCCC
20808475 TTTTCATAATCGATAGCCAAAGCT
63 TTTTCATAATCGATAGCCAAAGCT
* * *
20808499 ATCCCTTTTCATATTCGATAACCGAAGCTACCCCTTTTTATATTTGAT
1 ATCCCTTTTCATATTCGATAGCCGAAGCTA-CCCTTTTAATAATTGAT
20808547 ACTCGAAGCT
Statistics
Matches: 104, Mismatches: 26, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
85 1 0.01
86 2 0.02
87 96 0.92
88 4 0.04
89 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.37
Consensus pattern (86 bp):
ATCCCTTTTCATATTCGATAGCCGAAGCTACCCTTTTAATAATTGATGTCGGAAACCATCCCTTT
TCATAATCGATAGCCAAAGCT
Found at i:20816189 original size:18 final size:19
Alignment explanation
Indices: 20816156--20816194 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
20816146 TTTTATAAAT
20816156 TGTGAATTATATTTG-ATA
1 TGTGAATTATATTTGAATA
20816174 TGTGAATTA-ATATTGAATA
1 TGTGAATTATAT-TTGAATA
20816193 TG
1 TG
20816195 GAACAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 12 0.63
19 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (19 bp):
TGTGAATTATATTTGAATA
Found at i:20816447 original size:23 final size:23
Alignment explanation
Indices: 20816420--20816501 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
20816410 AGTGTTATTG
** *
20816420 ATCAGTGGTAGCTTTGCCTACAT
1 ATCAGTGGTAGCTACGACTACAT
*
20816443 CTCAGTGGTAGCTACGACTACAT
1 ATCAGTGGTAGCTACGACTACAT
* *
20816466 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGACTACAT
20816489 ATCAGTGGTAGCT
1 ATCAGTGGTAGCT
20816502 TCAGTTAGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGACTACAT
Found at i:20816533 original size:16 final size:17
Alignment explanation
Indices: 20816512--20816545 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
20816502 TCAGTTAGGG
*
20816512 GCAAAAGT-TTAATTTT
1 GCAAAAGTATGAATTTT
20816528 GCAAAAGTATGAATTTT
1 GCAAAAGTATGAATTTT
20816545 G
1 G
20816546 GACTAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.06, G:0.18, T:0.38
Consensus pattern (17 bp):
GCAAAAGTATGAATTTT
Found at i:20817763 original size:219 final size:220
Alignment explanation
Indices: 20817376--20817808 Score: 674
Period size: 219 Copynumber: 2.0 Consensus size: 220
20817366 CATTGAAATG
20817376 TTAAGGTATATTCATGATTTACGTACATACTAAGCATTATATGCTTACATAGTCTTCTTTCTCAT
1 TTAAGGTATATTCATGATTTACGTACATACTAAGCATTATATGCTTACATAGTCTTCTTTCTCAT
* * *
20817441 GTTTTTTTTATAATCGGAAGCTCAATTGGTTTGGAAGTTTGTCGAAGATCTATCACACTATCCAG
66 G-TTTTTTTATAATCGGAAGCTCAATTAGTTTGGAAGCTCGTCGAAGATCTATCACACTATCCAG
* * *
20817506 TGAATATATTGTTAGGTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTGTG
130 TGAATACATTGGTAGGTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTATG
*
20817571 TTTAATGGTCTTGTTGATAGGTGGAC
195 TTTAATGATCTTGTTGATAGGTGGAC
* * * * *
20817597 TTAAGTTATATTCATGATTTAC-TAACTTACTAATCATTATATGCTTACGTAGTTTTCTTTCTCA
1 TTAAGGTATATTCATGATTTACGT-ACATACTAAGCATTATATGCTTACATAGTCTTCTTTCTCA
* * * *
20817661 TG-TTTTTTATAATCGGAAGCTCGATTAGTTTTGATGCTCGTCGGAGATCTATCACACTATCCAG
65 TGTTTTTTTATAATCGGAAGCTCAATTAGTTTGGAAGCTCGTCGAAGATCTATCACACTATCCAG
20817725 TGAATACATTGGTA-GTTTTTGATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTAT
130 TGAATACATTGGTAGGTTTTT-ATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTAT
20817789 GTTTAATGATCTTGTTGATA
194 GTTTAATGATCTTGTTGATA
20817809 TGGTTAGCAT
Statistics
Matches: 194, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
218 6 0.03
219 128 0.66
220 1 0.01
221 59 0.30
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (220 bp):
TTAAGGTATATTCATGATTTACGTACATACTAAGCATTATATGCTTACATAGTCTTCTTTCTCAT
GTTTTTTTATAATCGGAAGCTCAATTAGTTTGGAAGCTCGTCGAAGATCTATCACACTATCCAGT
GAATACATTGGTAGGTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTATGT
TTAATGATCTTGTTGATAGGTGGAC
Found at i:20823260 original size:15 final size:15
Alignment explanation
Indices: 20823240--20823273 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
20823230 AAAAGTGTCA
20823240 TCTTCTTCAAACTG-T
1 TCTTCTTC-AACTGAT
20823255 TCTTCTTCAACTGAT
1 TCTTCTTCAACTGAT
20823270 TCTT
1 TCTT
20823274 TAAGAGAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.18, C:0.26, G:0.06, T:0.50
Consensus pattern (15 bp):
TCTTCTTCAACTGAT
Found at i:20824968 original size:220 final size:220
Alignment explanation
Indices: 20824572--20824999 Score: 655
Period size: 220 Copynumber: 1.9 Consensus size: 220
20824562 ATTGAAATGG
20824572 TAAGTTATATTCATAATTTACGAACTTACTAAGCATTATATGCTTACGTAGTTTTCTTTCTCATG
1 TAAGTTATATTCATAATTTACGAACTTACTAAGCATTATATGCTTACGTAGTTTTCTTTCTCATG
** * *
20824637 TTTTTTTAAAATCAGAAGCTCGATAGGTTTGGAAGCTTGTTGGAGATCTATCACACTATCCAACG
66 TTTTTGCAAAATCAGAAGCTCGATAGGTTTGGAAGCTCGTCGGAGATCTATCACACTATCCAACG
20824702 AATATATCGATAGTTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTCTATT
131 AATATATCGATAGTTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTCTATT
20824767 TAATGATCTTGTTTATAGGTGGAAT
196 TAATGATCTTGTTTATAGGTGGAAT
* * * *
20824792 TAAGTTGTATTCATGATTTATGAACTTACTAAGCATTATATGCTTATGTAGTTTTCTTTCGT-AT
1 TAAGTTATATTCATAATTTACGAACTTACTAAGCATTATATGCTTACGTAGTTTTCTTTC-TCAT
* ** *
20824856 -TTTTTGCATAATTGGAAGCTCGATCA-GTTTGGAAGCTCGTCGGAGATCTATCACACTATCCAG
65 GTTTTTGCAAAATCAGAAGCTCGAT-AGGTTTGGAAGCTCGTCGGAGATCTATCACACTATCCAA
* * * *
20824919 CGAATATATGGGTAGTTTTTTTATGTTTTGGCCAAGGTTATAGTGGCATGTATAGGTGGACTTGT
129 CGAATATATCGATAG-TTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTCT
*
20824984 GTTTAATGATCTTGTT
193 ATTTAATGATCTTGTT
20825000 GATATGGTTG
Statistics
Matches: 188, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
219 66 0.35
220 121 0.64
221 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.41
Consensus pattern (220 bp):
TAAGTTATATTCATAATTTACGAACTTACTAAGCATTATATGCTTACGTAGTTTTCTTTCTCATG
TTTTTGCAAAATCAGAAGCTCGATAGGTTTGGAAGCTCGTCGGAGATCTATCACACTATCCAACG
AATATATCGATAGTTTTTTATGTTTTGGCCAAGGTTATAATGGCATGTATAGGTGGACTTCTATT
TAATGATCTTGTTTATAGGTGGAAT
Found at i:20831637 original size:14 final size:15
Alignment explanation
Indices: 20831612--20831640 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
20831602 AAAATGGTAA
20831612 CTTGGTATGTTTGTG
1 CTTGGTATGTTTGTG
20831627 CTTGG-ATGTTTGTG
1 CTTGGTATGTTTGTG
20831641 GATTGTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.07, G:0.34, T:0.52
Consensus pattern (15 bp):
CTTGGTATGTTTGTG
Found at i:20839543 original size:46 final size:46
Alignment explanation
Indices: 20839473--20839649 Score: 248
Period size: 46 Copynumber: 3.8 Consensus size: 46
20839463 ACAATGCTAT
* * *
20839473 AACTCAGTATGGTTTTCTTCACTGAAGTACCATACCTACTTTTCAC
1 AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* * * *
20839519 AACTCAGTACGGTTTCCGTTACTGAAATACCATACCTAATTCTCAC
1 AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
*
20839565 AACTCAGTACGGTTTTCTTTTCTGAAATACCATACCT-CATTTTCAC
1 AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTAC-TTTTCAC
* *
20839611 AACTCAGTATGGTTTTCTTTACTAAAATACCATACCTAC
1 AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTAC
20839650 GTTCGACACT
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
46 113 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTACGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
Found at i:20840392 original size:17 final size:18
Alignment explanation
Indices: 20840346--20840399 Score: 58
Period size: 17 Copynumber: 3.0 Consensus size: 18
20840336 TTTACCTATT
*
20840346 AAATTCTTTCTAAATCACA
1 AAATTC-TTCTAATTCACA
*
20840365 AAATTC-ACTAATTCA-A
1 AAATTCTTCTAATTCACA
20840381 AAATTCTTCTAAATTCACA
1 AAATTCTTCT-AATTCACA
20840400 CTTGACCCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 7 0.24
17 9 0.31
18 6 0.21
19 7 0.24
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTCTTCTAATTCACA
Found at i:20842489 original size:80 final size:79
Alignment explanation
Indices: 20842352--20842609 Score: 252
Period size: 80 Copynumber: 3.3 Consensus size: 79
20842342 TTGAATGCTG
* * * * * * *
20842352 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
20842416 TGTGCGAGATACTAAA
64 TGTACGAGATACTAAA
* * *
20842432 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
20842497 GTACGAGTTGTTAAA
65 GTACGAGATACTAAA
* * * * *
20842512 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
20842577 AACGAGGA-GCTATA
66 TACGA-GATACTAAA
*
20842591 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
20842610 TACGTGATTT
Statistics
Matches: 148, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
78 14 0.09
79 47 0.32
80 83 0.56
81 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TACGAGATACTAAA
Found at i:20842556 original size:39 final size:40
Alignment explanation
Indices: 20842352--20842574 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
20842342 TTGAATGCTG
* * * * * *
20842352 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
20842392 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
20842432 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
20842472 TCCGGGTTAAGTCCCGAAGGCATTCGTACGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
20842512 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
20842551 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
20842575 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 117 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:20842582 original size:79 final size:80
Alignment explanation
Indices: 20842428--20842609 Score: 233
Period size: 79 Copynumber: 2.3 Consensus size: 80
20842418 TGCGAGATAC
* * *
20842428 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
*
20842493 ATTCGTACGAGTTGT
66 ATTCGAACGAGTTGT
* * *
20842508 TAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
* ** *
20842572 ATTTGAACGAGGAGC
66 ATTCGAACGAGTTGT
* *
20842587 TATATCC-GGTTAAATCCCGAAGG
1 TAAATCCGGGTTAAGTCCCGAAGG
20842610 TACGTGATTT
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
78 14 0.16
79 47 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGTTGT
Found at i:20849579 original size:34 final size:36
Alignment explanation
Indices: 20849526--20849592 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
20849516 TAACAGAATT
20849526 GATACATAACAACCATACC-ATTTTGGCCATTTAAA
1 GATACATAACAACCATACCAATTTTGGCCATTTAAA
*
20849561 GATACATTAAC-A-CATACCAATTTTGGTCATTT
1 GATACA-TAACAACCATACCAATTTTGGCCATTT
20849593 CAAAACATAC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 6 0.21
35 19 0.66
36 4 0.14
ACGTcount: A:0.37, C:0.21, G:0.09, T:0.33
Consensus pattern (36 bp):
GATACATAACAACCATACCAATTTTGGCCATTTAAA
Found at i:20866935 original size:37 final size:37
Alignment explanation
Indices: 20866885--20866963 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
20866875 TTATTACGAA
* * *
20866885 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
20866922 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
20866959 GTCTT
1 GTCTT
20866964 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:20867160 original size:47 final size:47
Alignment explanation
Indices: 20867082--20867243 Score: 243
Period size: 47 Copynumber: 3.4 Consensus size: 47
20867072 CCCTTCGGGA
* * * * * *
20867082 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20867129 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20867176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20867223 CTTATCACATATATACACTTT
1 CTTATCACATATATACACTTT
20867244 TGTACAATTT
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 104 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20868359 original size:56 final size:56
Alignment explanation
Indices: 20868292--20868492 Score: 309
Period size: 56 Copynumber: 3.8 Consensus size: 56
20868282 TATTAGTTTA
*
20868292 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
20868348 TTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----CA--ACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
20868392 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
20868448 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
20868493 TGCCCATCAT
Statistics
Matches: 132, Mismatches: 1, Indels: 24
0.84 0.01 0.15
Matches are distributed among these distances:
44 38 0.29
46 2 0.02
49 4 0.03
51 4 0.03
54 2 0.02
56 82 0.62
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.47
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:20868391 original size:44 final size:44
Alignment explanation
Indices: 20868341--20868499 Score: 210
Period size: 44 Copynumber: 3.3 Consensus size: 44
20868331 ATGTTTCATG
20868341 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
20868385 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----CA
20868439 TGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 --ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
20868485 ACATGTTTTGCCCAT
1 ACATGTTTTGCCCAT
20868500 CATCCCTTGT
Statistics
Matches: 103, Mismatches: 0, Indels: 24
0.81 0.00 0.19
Matches are distributed among these distances:
44 53 0.51
46 2 0.02
49 4 0.04
51 4 0.04
54 2 0.02
56 38 0.37
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.47
Consensus pattern (44 bp):
ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
Found at i:20868401 original size:100 final size:100
Alignment explanation
Indices: 20868292--20868499 Score: 407
Period size: 100 Copynumber: 2.1 Consensus size: 100
20868282 TATTAGTTTA
20868292 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
20868357 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
66 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
*
20868392 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
20868457 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
66 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
20868492 TTGCCCAT
1 TTGCCCAT
20868500 CATCCCTTGT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 107 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (100 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
CTTCTTATTTTATTTTTCCATTAACACAACATGTT
Found at i:20869721 original size:40 final size:40
Alignment explanation
Indices: 20869677--20869793 Score: 128
Period size: 40 Copynumber: 2.9 Consensus size: 40
20869667 GAATACACGT
* *
20869677 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGATTGCTCTTCGGGACTTAGCCCGGATATAA
* ** * *
20869717 CACCAGCACGAATT-TTCTTCGGGGTTTAGCACGGATATAT
1 CACCAGCACG-ATTGCTCTTCGGGACTTAGCCCGGATATAA
* * *
20869757 CACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 CACCAGCACGATTGCTCTTCGGGACTTAGCCCGGATA
20869794 CATCACTTGT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.03
40 56 0.92
41 3 0.05
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CACCAGCACGATTGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:20869799 original size:40 final size:40
Alignment explanation
Indices: 20869689--20869800 Score: 134
Period size: 40 Copynumber: 2.8 Consensus size: 40
20869679 CCAGCATGAT
* * *
20869689 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** ** *
20869729 TTTTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
20869769 TGCTCTTCGGAACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
20869801 TGTAACACCC
Statistics
Matches: 57, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:20871367 original size:80 final size:80
Alignment explanation
Indices: 20871215--20871407 Score: 221
Period size: 80 Copynumber: 2.4 Consensus size: 80
20871205 CGGTTTTAGT
* * *
20871215 AACTCACACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTT
1 AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
*
20871280 AACCCGGATTTA-AC
66 AACCCGGATATATAC
** *
20871294 AACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATC
1 AACTCGCAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-C
** *
20871358 TTAGTCCGGATATATTC
64 TTAACCCGGATATATAC
* * *
20871375 -ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AAC-TCGCACAATGCCTTCGGGACTTAACCCGGA
20871408 CAGCATTCAA
Statistics
Matches: 97, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
79 11 0.11
80 80 0.82
81 6 0.06
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (80 bp):
AACTCGCACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTT
AACCCGGATATATAC
Found at i:20871368 original size:40 final size:40
Alignment explanation
Indices: 20871185--20871354 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
20871175 TCCTCGTTCA
* * * ** *
20871185 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
20871224 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
20871264 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
20871304 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
20871344 AAGGCCTTCGG
1 AATGCCTTCGG
20871355 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 33 0.28
40 86 0.72
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:20871407 original size:120 final size:119
Alignment explanation
Indices: 20871185--20871407 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
20871175 TCCTCGTTCA
* * * *
20871185 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
* *
20871250 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * **
20871304 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CTTAACCCGGA
* *
20871368 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
20871408 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:20871416 original size:41 final size:41
Alignment explanation
Indices: 20871339--20871416 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
20871329 TTAGTATCTC
* * *
20871339 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
20871380 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
20871417 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:20872960 original size:40 final size:40
Alignment explanation
Indices: 20872903--20873180 Score: 230
Period size: 40 Copynumber: 7.0 Consensus size: 40
20872893 TTGGGCTGTC
* *
20872903 ACATCACTAGCATGAATGCTCTTCAGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
20872943 ACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* *
20872983 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * * *
20873023 ATAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGAT
1 ACA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
** * * *
20873063 TTAGTAACTCGCACCAATGC-CTTCGGG-CTTAGCCCGGAATT
1 ACA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGG-A-T
* * * * *
20873104 A-GTAACTCGCACAAATGC-CTTC-GGATCTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGA-CTTAGCCCGGAT
** *
20873142 ATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 A-CATCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGGA
20873181 CATCATTCGA
Statistics
Matches: 205, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
38 4 0.02
39 29 0.14
40 151 0.74
41 21 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:20873047 original size:80 final size:78
Alignment explanation
Indices: 20872903--20873179 Score: 272
Period size: 80 Copynumber: 3.5 Consensus size: 78
20872893 TTGGGCTGTC
* * * * * *
20872903 ACATCACTAGCATGAATGCTCTTCAGGACTTAGCCCGG-ATACATCACTAGCACGAATGCTCTTC
1 ACATCACTAGCATCAATGC-CTTCGGGACTTAGCCCGGTATA-GTAACTCGCACAAATGC-CTTC
20872967 GGAACTTAGCCCGGAT
63 GGAACTTAGCCCGGAT
*
20872983 ACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCG
1 ACATCACTAGCATCAATGC-CTTCGGGACTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCG
* *
20873048 GGACTTAACCCGGAT
64 GAACTTAGCCCGGAT
** * * * *
20873063 TTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCG
1 ACA-TCACTAGCATCAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCG
* *
20873127 GATCTTAGTCCGGAT
64 GAACTTAGCCCGGAT
** *
20873142 ATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGG
1 A-CATCAC-TAGCATCAATGCCTTCGGGACTTAGCCCGG
20873180 ACATCATTCG
Statistics
Matches: 166, Mismatches: 24, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 60 0.36
80 77 0.46
81 25 0.15
82 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
ACATCACTAGCATCAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGA
ACTTAGCCCGGAT
Found at i:20875087 original size:37 final size:37
Alignment explanation
Indices: 20875037--20875115 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
20875027 TTATTACGAA
* *
20875037 GTCTTACCCGGACATAAT-CTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCT-CACACGAAGTCATCGG
*
20875074 GTCTTACCCGGACAAAATCCTCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
20875111 GTCTT
1 GTCTT
20875116 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCTCACACGAAGTCATCGG
Found at i:20875312 original size:47 final size:47
Alignment explanation
Indices: 20875234--20875456 Score: 322
Period size: 47 Copynumber: 4.7 Consensus size: 47
20875224 CCCTTCGGGA
* * * * * *
20875234 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20875281 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20875328 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20875375 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
20875422 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
20875457 AGAATCCTAA
Statistics
Matches: 161, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 1 0.01
47 160 0.99
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20877114 original size:56 final size:56
Alignment explanation
Indices: 20877047--20877346 Score: 416
Period size: 56 Copynumber: 5.8 Consensus size: 56
20877037 TATTAGTTTA
*
20877047 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
20877103 TTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----CA--ACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
20877147 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
20877203 TTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----CA--ACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
20877247 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
20877303 TT-CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
20877347 TGCCCATCAT
Statistics
Matches: 219, Mismatches: 1, Indels: 49
0.81 0.00 0.18
Matches are distributed among these distances:
44 76 0.35
46 4 0.02
49 8 0.04
51 8 0.04
54 4 0.02
55 42 0.19
56 77 0.35
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.47
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:20877146 original size:44 final size:44
Alignment explanation
Indices: 20877096--20877353 Score: 309
Period size: 44 Copynumber: 5.3 Consensus size: 44
20877086 ATGTTTCATG
20877096 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
20877140 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATT-----AACA-----CA
20877194 TGACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 --ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
20877240 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
20877284 ACATGTTTCATGACATGTTTTCCCATGCTTCTTATTTTATTTTTCCATTAACACA
1 ACATG-TT--T----TG----CCCATGCTTCTTATTTTATTTTTCCATTAACACA
20877339 ACATGTTTTGCCCAT
1 ACATGTTTTGCCCAT
20877354 CATCCCTTGT
Statistics
Matches: 191, Mismatches: 0, Indels: 46
0.81 0.00 0.19
Matches are distributed among these distances:
44 92 0.48
45 2 0.01
46 2 0.01
47 1 0.01
48 2 0.01
49 4 0.02
51 6 0.03
52 1 0.01
54 4 0.02
55 39 0.20
56 38 0.20
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.47
Consensus pattern (44 bp):
ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACA
Found at i:20877165 original size:100 final size:100
Alignment explanation
Indices: 20877047--20877353 Score: 598
Period size: 100 Copynumber: 3.1 Consensus size: 100
20877037 TATTAGTTTA
*
20877047 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
20877112 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
66 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
20877147 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
20877212 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
66 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
20877247 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTT-CCCATG
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
20877311 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
66 CTTCTTATTTTATTTTTCCATTAACACAACATGTT
20877346 TTGCCCAT
1 TTGCCCAT
20877354 CATCCCTTGT
Statistics
Matches: 206, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
99 49 0.24
100 157 0.76
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.47
Consensus pattern (100 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGCCCATG
CTTCTTATTTTATTTTTCCATTAACACAACATGTT
Found at i:20877325 original size:55 final size:56
Alignment explanation
Indices: 20877240--20877346 Score: 207
Period size: 55 Copynumber: 1.9 Consensus size: 56
20877230 CATTAACACA
20877240 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATG
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATG
20877296 ACATGTTTT-CCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
1 ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTT
20877347 TGCCCATCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 42 0.82
56 9 0.18
ACGTcount: A:0.23, C:0.21, G:0.07, T:0.48
Consensus pattern (56 bp):
ACATGTTTTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATG
Found at i:20877783 original size:49 final size:50
Alignment explanation
Indices: 20877693--20877794 Score: 136
Period size: 49 Copynumber: 2.1 Consensus size: 50
20877683 CACACAACCA
* * * *
20877693 TGTGGGGCCACATGGGCATGTGGGATTACATGGCAAAATTAGGTAGGTCG
1 TGTGGGGCCACACGGGCATGTGCGATTACAGGGCAAAATTAGGTAGGCCG
*
20877743 TGTGGGG-CACACGGGCCTGTGCGATTACACGGGC-AAATTAGGTAGGCCG
1 TGTGGGGCCACACGGGCATGTGCGATTACA-GGGCAAAATTAGGTAGGCCG
20877792 TGT
1 TGT
20877795 AGGCTAGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
49 36 0.78
50 10 0.22
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.23
Consensus pattern (50 bp):
TGTGGGGCCACACGGGCATGTGCGATTACAGGGCAAAATTAGGTAGGCCG
Found at i:20879405 original size:42 final size:42
Alignment explanation
Indices: 20879341--20879521 Score: 182
Period size: 42 Copynumber: 4.5 Consensus size: 42
20879331 ATTCATTGGT
*
20879341 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* * *
20879383 GGTTGCTAAGTGCTGATCCCACCATATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* * * * *
20879425 GGTTTCTAGGTGTTGATTCC-CCG-A--TT-CAT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
* *
20879458 GGTTTCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTA-TTTTAAATGTG-AAAGG
20879502 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
20879522 CCGAATCATT
Statistics
Matches: 112, Mismatches: 16, Indels: 20
0.76 0.11 0.14
Matches are distributed among these distances:
33 19 0.17
34 3 0.03
35 1 0.01
36 2 0.02
37 2 0.02
38 4 0.04
39 2 0.02
40 3 0.03
41 2 0.02
42 54 0.48
44 20 0.18
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGG
Found at i:20879522 original size:77 final size:75
Alignment explanation
Indices: 20879383--20879558 Score: 235
Period size: 77 Copynumber: 2.3 Consensus size: 75
20879373 ATGTGAAGGG
* * * * *
20879383 GGTTGCTAAGTGCTGATCCCACCATATCTTAAATGTGAAAGGGGTTTCTAGGTGTTGATTCCCCG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
*
20879448 ATTCATTGGT
66 AATCATTGGT
* * *
20879458 GGTTTCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAAGGGGTTGCTAAGTGCTGATTCCC
1 GGTTGCTAAGTGCTGATTCCACCGTA-TCTTAAATGTG-AAAGGGGTTGCTAAGTGCTGATTCCC
20879523 CGAATCATTGGT
64 CGAATCATTGGT
* *
20879535 GGTTGCTAAGTGATGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
20879559 ATAACGGATA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 23 0.26
76 9 0.10
77 55 0.63
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (75 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
AATCATTGGT
Found at i:20882642 original size:26 final size:29
Alignment explanation
Indices: 20882549--20882675 Score: 86
Period size: 31 Copynumber: 4.3 Consensus size: 29
20882539 TGTATACATT
*
20882549 ATATATAT-T-AGTGGGTGTTATATATATA
1 ATATATATGTGAGTGGTTG-TATATATATA
* * *
20882577 ATATATAAATGGGAG-AGTTGGTAATATACATAA
1 ATATAT--ATGTGAGTGGTT-GT-ATATATAT-A
*
20882610 ATATATATGTGCGT-G-TGT-TATATATA
1 ATATATATGTGAGTGGTTGTATATATATA
*
20882636 ATATATATATGAGTGGGTTGTATATATATA
1 ATATATATGTGAGT-GGTTGTATATATATA
20882666 CATATATATG
1 -ATATATATG
20882676 CGTGAGAGAT
Statistics
Matches: 76, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
26 13 0.17
27 6 0.08
28 7 0.09
29 5 0.07
30 11 0.14
31 17 0.22
32 10 0.13
33 7 0.09
ACGTcount: A:0.38, C:0.02, G:0.19, T:0.41
Consensus pattern (29 bp):
ATATATATGTGAGTGGTTGTATATATATA
Found at i:20890975 original size:50 final size:51
Alignment explanation
Indices: 20890853--20890992 Score: 158
Period size: 50 Copynumber: 2.8 Consensus size: 51
20890843 GATAATAACA
* ** *
20890853 TGCCAAAGTCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGC
* * * * * *
20890904 TGCCCATGCCATGTTCAAGACATGGTCTTATGA-GGGA-CCTCTCATCTCGC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTA-CATGGGATCCTCTCATATCGC
*
20890954 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
20890993 TCTTTACCCA
Statistics
Matches: 71, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
49 1 0.01
50 39 0.55
51 30 0.42
52 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (51 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCATATCGC
Found at i:20897471 original size:28 final size:29
Alignment explanation
Indices: 20897440--20897529 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 29
20897430 AATTGAAAAA
20897440 AAAAAGAAT-TGAGAGA-AAAAGAGAAAT
1 AAAAAGAATGTGAGAGAGAAAAGAGAAAT
*
20897467 AAAAAGAATGTGAGCGAGAAAAGA-AAAT
1 AAAAAGAATGTGAGAGAGAAAAGAGAAAT
** * * * *
20897495 TGAAAGAGTTTGAGAAAGAAAA-AGAAAA
1 AAAAAGAATGTGAGAGAGAAAAGAGAAAT
20897523 AAAAAGA
1 AAAAAGA
20897530 GAAAATGGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
27 10 0.20
28 34 0.68
29 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.23, T:0.11
Consensus pattern (29 bp):
AAAAAGAATGTGAGAGAGAAAAGAGAAAT
Found at i:20901602 original size:3 final size:3
Alignment explanation
Indices: 20901594--20901628 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
20901584 AAATATTTGA
*
20901594 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
20901629 ATGGAGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20901825 original size:12 final size:12
Alignment explanation
Indices: 20901804--20901841 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20901794 TCTTCTTCTT
20901804 CTCCTCCCCCTC
1 CTCCTCCCCCTC
*
20901816 CTCCTTCCCCTC
1 CTCCTCCCCCTC
20901828 C-CGCTCCCCCTC
1 CTC-CTCCCCCTC
20901840 CT
1 CT
20901842 GTTCTTCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 1 0.05
12 21 0.95
ACGTcount: A:0.00, C:0.71, G:0.03, T:0.26
Consensus pattern (12 bp):
CTCCTCCCCCTC
Found at i:20903727 original size:14 final size:15
Alignment explanation
Indices: 20903708--20903737 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20903698 ATTAAAAGAC
20903708 ATAATATTT-TTATA
1 ATAATATTTATTATA
20903722 ATAATATTTATTATA
1 ATAATATTTATTATA
20903737 A
1 A
20903738 AAATGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATAATATTTATTATA
Found at i:20905870 original size:124 final size:124
Alignment explanation
Indices: 20905742--20906006 Score: 354
Period size: 124 Copynumber: 2.1 Consensus size: 124
20905732 GTTTCTGGTT
** ** * * * *
20905742 AAATAGTGGGAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGT
1 AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
* * *
20905807 GGACGCGATTTCGCTACAG-TGGTCATGT-GAGAAATATTTTTTTTTGACGTTTTCTGAGG
66 GGACGCGATTTCGCTACAGTTGGTCATGTAG-GAAATAATTTTTTTTGAC-ATTTCTGAGC
* * *
20905866 AAATAGTATAAAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGT
1 AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
20905931 GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACATTTCTGAGC
66 GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACATTTCTGAGC
* *
20905990 AAACAGTGTCAAATCGC
1 AAATAGTGTAAAATCGC
20906007 GCCCTCGTGG
Statistics
Matches: 122, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
124 95 0.78
125 26 0.21
126 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (124 bp):
AAATAGTGTAAAATCGCTGATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGT
GGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTTTTTTTGACATTTCTGAGC
Found at i:20908477 original size:33 final size:32
Alignment explanation
Indices: 20908420--20908819 Score: 379
Period size: 33 Copynumber: 12.9 Consensus size: 32
20908410 AGAGAATGCA
*
20908420 TAAATTAGGTTAGGGTTAGAGTTTTTAATTTAGT
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTA-T
20908454 TAAATTAGGTTAGGTTAGGGTTTTTAATTTATT
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTTA-T
*
20908487 TAAA-TAGGTTAGGGTTTGGG-TTTTAA---AT
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTAT
20908515 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAAT
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTT-AT
*
20908548 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAAT
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTT-AT
*
20908581 T-AATTAGGTTAGGGTTTGGGTTTTT-A---AT
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTAT
20908609 TAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATT
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTA-T
*
20908642 TAAATTAAGTTAGGTTAGGGTTTTTAATTTAAT
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTT-AT
*
20908675 T-AATTAGGTTAGGGTTTGGGTTTTT-A---AT
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTAT
20908703 T-AA--A--TTAGGTTAGGG-TTTT-A---AT
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAT
20908725 TAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATT
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTA-T
* *
20908758 TAAATTAAGTTAGGTTACGGTTTTTAATTTAAT
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTT-AT
* *
20908791 T-AATTAGGTTTGGGTTTGGGTTTTTAATT
1 TAAATTAGG-TTAGGTTAGGGTTTTTAATT
20908820 AAATTAGGTT
Statistics
Matches: 318, Mismatches: 18, Indels: 61
0.80 0.05 0.15
Matches are distributed among these distances:
22 8 0.03
23 9 0.03
24 3 0.01
25 1 0.00
26 1 0.00
27 3 0.01
28 28 0.09
29 41 0.13
30 2 0.01
32 70 0.22
33 138 0.43
34 14 0.04
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (32 bp):
TAAATTAGGTTAGGTTAGGGTTTTTAATTTAT
Found at i:20908541 original size:94 final size:94
Alignment explanation
Indices: 20908420--20908832 Score: 500
Period size: 94 Copynumber: 4.5 Consensus size: 94
20908410 AGAGAATGCA
* *
20908420 TAAATTAGGTTAGGGTTAGAGTTTTTAATTTAGTTAAATTAGGTTAGGTTAGGGTTTTTAATTTA
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTA
* *
20908485 TTTAAATAGGTTAGGGTTTGGGTTTTAAAT
65 ATTAAATAGGTTAGGGTTTGGGTTTTTAAT
*
20908515 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTTAA
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAA
*
20908580 TTAATTAGGTTAGGGTTTGGGTTTTTAAT
66 TTAAATAGGTTAGGGTTTGGGTTTTTAAT
* *
20908609 TAAATTAGGTTAGGGTTAGGGTTTTTAA-TTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTTA
1 TAAATTAGGTTA-GGTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTA
*
20908673 ATTAATTAGGTTAGGGTTTGGGTTTTTAAT
65 ATTAAATAGGTTAGGGTTTGGGTTTTTAAT
20908703 T-AA--A--TTAGGTTAGGG----T--TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTA
1 TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTA-GGTTAGGGTTTTTAATTTA
* * **
20908756 TTTAAATTAAGTTA-GGTTACGGTTTTTAAT
65 ATTAAA-TAGGTTAGGGTTTGGGTTTTTAAT
* * *
20908786 TTAATTA-ATTAGGTTTGGGTTTGGGTT--TTTAATTAAATTAGGTTAGG
1 TAAATTAGGTTAGGTTAGGGTTT---TTAATTTAATTAAATTAGGTTAGG
20908833 GTTTTTAATT
Statistics
Matches: 288, Mismatches: 15, Indels: 32
0.86 0.04 0.10
Matches are distributed among these distances:
83 37 0.13
84 24 0.08
86 1 0.00
87 10 0.03
88 8 0.03
89 3 0.01
91 1 0.00
93 4 0.01
94 173 0.60
95 27 0.09
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.48
Consensus pattern (94 bp):
TAAATTAGGTTAGGTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAA
TTAAATAGGTTAGGGTTTGGGTTTTTAAT
Found at i:20908638 original size:24 final size:26
Alignment explanation
Indices: 20908579--20908749 Score: 96
Period size: 29 Copynumber: 6.0 Consensus size: 26
20908569 TTTTAATTTA
*
20908579 ATTAATTAGGTTAGGGTTTGGGTTTTT
1 ATTAATTAGGTTAGGGTTAGGG-TTTT
20908606 AATTAAATTAGGTTAGGGTTAGGGTTTTT
1 -ATT-AATTAGGTTAGGGTTAGGG-TTTT
* **
20908635 AATTATTTAAATTAAGTTAGGTTAGGGTTTTTAATTT
1 -ATTAATTAGGTT-AG---GGTTAGGG----T--TTT
*
20908672 AATTAATTAGGTTAGGGTTTGGG-TTT
1 -ATTAATTAGGTTAGGGTTAGGGTTTT
**
20908698 -TTAATTAAATTA-GGTTAGGGTTTT
1 ATTAATTAGGTTAGGGTTAGGGTTTT
20908722 AATTAAATTAGGTTAGGGTTAGGGTTTT
1 -ATT-AATTAGGTTAGGGTTAGGGTTTT
20908750 TAATTATTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
23 7 0.06
24 13 0.11
26 5 0.04
27 8 0.07
28 21 0.18
29 29 0.25
32 8 0.07
33 7 0.06
35 2 0.02
36 2 0.02
37 13 0.11
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (26 bp):
ATTAATTAGGTTAGGGTTAGGGTTTT
Found at i:20908724 original size:22 final size:22
Alignment explanation
Indices: 20908687--20908741 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
20908677 ATTAGGTTAG
*
20908687 GGTTTGGGTTTTTAATTAAATTA
1 GGTTAGGG-TTTTAATTAAATTA
20908710 GGTTAGGGTTTTAATTAAATTA
1 GGTTAGGGTTTTAATTAAATTA
20908732 GGTTAGGGTT
1 GGTTAGGGTT
20908742 AGGGTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 24 0.77
23 7 0.23
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.47
Consensus pattern (22 bp):
GGTTAGGGTTTTAATTAAATTA
Found at i:20908750 original size:116 final size:117
Alignment explanation
Indices: 20908463--20908844 Score: 524
Period size: 116 Copynumber: 3.2 Consensus size: 117
20908453 TTAAATTAGG
* * *
20908463 TTAGGTTAGGGTTTTTAATTTATTTAAATAGGTTAGGGTTTGGG-TTTTAA--A-TTAAATTAGG
1 TTAGGTTAGGGTTTTTAA-TTA---AATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAG
* *
20908524 TTAGGTTAGGGTTTTTAATTTAATTAAATTAAGTTA-GGTTAGGGTTTTTAATTTAATTAA
62 TTAGGTTAGGGTTTTTAATTTAATT-AATTAGGTTAGGGTTTGGGTTTTTAA-TT-A--AA
20908584 TTAGGTTAGGGTTTGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTA
1 TTAGGTTA------GGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTA
20908649 AGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
60 AGTTAGGTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
20908707 TTAGGTTAGGG-TTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAG
1 TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAG
* *
20908771 GTTACGGTTTTTAATTTAATTAATTAGGTTTGGGTTTGGGTTTTTAATTAAA
66 GTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
20908823 TTAGGTTAGGGTTTTTAATTAA
1 TTAGGTTAGGGTTTTTAATTAA
20908845 GTAGGGTTAG
Statistics
Matches: 242, Mismatches: 7, Indels: 28
0.87 0.03 0.10
Matches are distributed among these distances:
116 114 0.47
117 13 0.05
121 8 0.03
123 27 0.11
124 6 0.02
125 1 0.00
126 15 0.06
127 58 0.24
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (117 bp):
TTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTATTTAAATTAAGTTAG
GTTAGGGTTTTTAATTTAATTAATTAGGTTAGGGTTTGGGTTTTTAATTAAA
Found at i:20908834 original size:23 final size:24
Alignment explanation
Indices: 20908802--20908869 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 24
20908792 AATTAGGTTT
*
20908802 GGGTTTGGGTTTTTAATTAAATTA
1 GGGTTAGGGTTTTTAATTAAATTA
*
20908826 -GGTTAGGGTTTTTAATT-AAGTA
1 GGGTTAGGGTTTTTAATTAAATTA
* *
20908848 GGGTTAGGGATTTTAATCAAAT
1 GGGTTAGGGTTTTTAATTAAAT
20908870 AATGTCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 4 0.11
23 31 0.84
24 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.44
Consensus pattern (24 bp):
GGGTTAGGGTTTTTAATTAAATTA
Found at i:20911159 original size:28 final size:29
Alignment explanation
Indices: 20911127--20911182 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
20911117 TGAAAATATT
20911127 AAAAACTTTAAAATTAT-TTAAAAAAATA
1 AAAAACTTTAAAATTATCTTAAAAAAATA
* *
20911155 AAAAATTTTAAAATTTTCTTAAAAAAAT
1 AAAAACTTTAAAATTATCTTAAAAAAAT
20911183 GAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAAACTTTAAAATTATCTTAAAAAAATA
Found at i:20911254 original size:22 final size:22
Alignment explanation
Indices: 20911224--20911265 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
20911214 ATTTGGAGAT
*
20911224 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
20911246 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
20911266 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:20911273 original size:30 final size:30
Alignment explanation
Indices: 20911237--20911295 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
20911227 TTGAAGGAAA
* *
20911237 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
20911267 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
20911296 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:20911286 original size:52 final size:51
Alignment explanation
Indices: 20911215--20911317 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 51
20911205 TTAATATGGA
* * *
20911215 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
20911266 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
20911318 AATTTTTGAA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
51 4 0.09
52 33 0.72
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.32
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:20911333 original size:22 final size:21
Alignment explanation
Indices: 20911267--20911334 Score: 91
Period size: 22 Copynumber: 3.1 Consensus size: 21
20911257 ATTTGAGAGT
*
20911267 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGAAAGG-AA
*
20911289 TTGAGAGAAATTTTGAAGGGAA
1 TTGAGAG-AATTTTGAAAGGAA
20911311 TTGAGAGAATTTTTGAAAGGAA
1 TTGAGAGAA-TTTTGAAAGGAA
20911333 TT
1 TT
20911335 TGTTTGTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 2 0.05
22 29 0.71
23 10 0.24
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAGAGAATTTTGAAAGGAA
Found at i:20912096 original size:20 final size:19
Alignment explanation
Indices: 20912071--20912161 Score: 85
Period size: 20 Copynumber: 4.6 Consensus size: 19
20912061 TTTAAAAATA
20912071 AATTTTACTTAAATTATTT
1 AATTTTACTTAAATTATTT
* *
20912090 GAATTTTACTTAAATTGTTC
1 -AATTTTACTTAAATTATTT
* ** *
20912110 AATATAGTAGATAGATTATTT
1 AAT-T-TTACTTAAATTATTT
20912131 AA-TTTACTTAAATTATTT
1 AATTTTACTTAAATTATTT
20912149 AAGTTTTACTTAA
1 AA-TTTTACTTAA
20912162 TAGATAAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
18 13 0.24
19 4 0.07
20 27 0.49
21 11 0.20
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (19 bp):
AATTTTACTTAAATTATTT
Found at i:20916498 original size:15 final size:15
Alignment explanation
Indices: 20916452--20916497 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
20916442 TCGTTTTAAT
*
20916452 AAATTTTAAATTTTATA
1 AAATTTTATA-TTT-TA
20916469 AAATTTTATATTTTA
1 AAATTTTATATTTTA
20916484 AAATTTTGATATTT
1 AAATTTT-ATATTT
20916498 ATCAAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.33
16 9 0.33
17 9 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
AAATTTTATATTTTA
Found at i:20917359 original size:2 final size:2
Alignment explanation
Indices: 20917348--20917384 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
20917338 ATGTGAAAAC
20917348 AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
20917385 GGGCAGAGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20917574 original size:14 final size:16
Alignment explanation
Indices: 20917550--20917582 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20917540 GACGAGAAGT
20917550 AAAAAATAAT-AATAC
1 AAAAAATAATAAATAC
20917565 AAAAAA-AATAAATAC
1 AAAAAATAATAAATAC
20917580 AAA
1 AAA
20917583 CTCTTCTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAATAATAAATAC
Found at i:20919711 original size:18 final size:20
Alignment explanation
Indices: 20919677--20919713 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
20919667 TTTTATGTAA
20919677 TATTTTATTTAAAATATTAG
1 TATTTTATTTAAAATATTAG
20919697 TATTTTA-TT-AAATATTA
1 TATTTTATTTAAAATATTA
20919714 TTATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TATTTTATTTAAAATATTAG
Found at i:20923135 original size:91 final size:91
Alignment explanation
Indices: 20922937--20923141 Score: 214
Period size: 91 Copynumber: 2.3 Consensus size: 91
20922927 ATTAATCATT
* * * *
20922937 TGCAAACACTGGTTGTTTATCCACAAACTTACTGGCAACTTTTATCTACAAATAGGTTGTGCATT
1 TGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATT
* * *
20923002 CACAACCCACTAGCAGTGTATTAACT
66 CACAACCCAATAGCAGCGTATTAACC
* * * * ** * **
20923028 TGTAAAAATTGATGGTTCATTTAGAAACTTACTGGCAGTTTTTATCTACAAACACGTTGTGCATT
1 TGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATT
** *
20923093 CAGTACCTAAT-GTCAGCGTATTAACC
66 CACAACCCAATAG-CAGCGTATTAACC
*
20923119 TGCAAACACTGGTGGTTTATCCA
1 TGCAAACACTGGTGGTTCATCCA
20923142 AAAATTGGAG
Statistics
Matches: 87, Mismatches: 26, Indels: 2
0.76 0.23 0.02
Matches are distributed among these distances:
90 1 0.01
91 86 0.99
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.33
Consensus pattern (91 bp):
TGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAACTTTTATCTACAAACACGTTGTGCATT
CACAACCCAATAGCAGCGTATTAACC
Found at i:20947858 original size:30 final size:30
Alignment explanation
Indices: 20947822--20947890 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
20947812 ACTTGAAGCT
***
20947822 CAAATAGCTAAATGGGTGGATGTTATGGCC
1 CAAATAGCTAAATGCCCGGATGTTATGGCC
20947852 CAAATAGCTAAATGCCCGGATGTTATGGCC
1 CAAATAGCTAAATGCCCGGATGTTATGGCC
*
20947882 TAAATAGCT
1 CAAATAGCT
20947891 GTGTCTAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (30 bp):
CAAATAGCTAAATGCCCGGATGTTATGGCC
Found at i:20949170 original size:8 final size:8
Alignment explanation
Indices: 20949157--20949186 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
20949147 AAATCGGCTC
20949157 AATTTTAA
1 AATTTTAA
20949165 AATTTTAA
1 AATTTTAA
20949173 AATTTTAA
1 AATTTTAA
20949181 AATTTT
1 AATTTT
20949187 TGTTGTGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
AATTTTAA
Found at i:20951483 original size:18 final size:18
Alignment explanation
Indices: 20951449--20951485 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20951439 AGAGAGTTAA
*
20951449 TAAGTCTAAAGGCTTATT
1 TAAGTCTAAAGGATTATT
*
20951467 TAAGTCTAAATGATTATT
1 TAAGTCTAAAGGATTATT
20951485 T
1 T
20951486 TACAGCACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (18 bp):
TAAGTCTAAAGGATTATT
Found at i:20954007 original size:25 final size:26
Alignment explanation
Indices: 20953947--20954014 Score: 86
Period size: 25 Copynumber: 2.6 Consensus size: 26
20953937 AAGTTTCGAC
* *
20953947 TCACAGCTTGTGTGAGCAGTCCCATTT
1 TCACAGCTCGTGTGAGCAG-CACATTT
20953974 TCACAGCTCGTGTGAGCA-CAC-TTAT
1 TCACAGCTCGTGTGAGCAGCACATT-T
20953999 TCACAGCTCGTGTGAG
1 TCACAGCTCGTGTGAG
20954015 TATATATGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 2 0.05
25 19 0.50
27 17 0.45
ACGTcount: A:0.21, C:0.26, G:0.24, T:0.29
Consensus pattern (26 bp):
TCACAGCTCGTGTGAGCAGCACATTT
Found at i:20963579 original size:13 final size:13
Alignment explanation
Indices: 20963558--20963595 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
20963548 TAACTCATTG
*
20963558 CACATAAAACAAA
1 CACAAAAAACAAA
20963571 CACACAAAAACAAA
1 CACA-AAAAACAAA
20963585 -ACAAAAAACAA
1 CACAAAAAACAA
20963596 CCAAAATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 8 0.35
13 7 0.30
14 8 0.35
ACGTcount: A:0.74, C:0.24, G:0.00, T:0.03
Consensus pattern (13 bp):
CACAAAAAACAAA
Found at i:20970726 original size:27 final size:27
Alignment explanation
Indices: 20970696--20970873 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20970686 ATATTGAGTC
* * * *
20970696 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
20970723 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20970750 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
20970778 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
20970805 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
20970832 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20970859 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20970874 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:20970835 original size:82 final size:81
Alignment explanation
Indices: 20970717--20970872 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
20970707 TGCTATATAA
* *
20970717 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
20970782 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
20970799 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
20970863 CACTTAGTGC
65 CACTTAGTGC
20970873 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:20993555 original size:27 final size:27
Alignment explanation
Indices: 20993525--20993702 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
20993515 ATATTGAGTC
* * * *
20993525 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
20993552 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20993579 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
20993607 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
20993634 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
20993661 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
20993688 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
20993703 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Done.