Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 81 of 185
Found at i:25330225 original size:18 final size:18
Alignment explanation
Indices: 25330204--25330249 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
25330194 CACTTTTTCG
25330204 ATTTCTTTTTCTTTTGCA
1 ATTTCTTTTTCTTTTGCA
* *
25330222 ATTT-TTTTTCTTTTTCG
1 ATTTCTTTTTCTTTTGCA
*
25330239 TTTTCTTTTTC
1 ATTTCTTTTTC
25330250 AATTTCATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.07, C:0.15, G:0.04, T:0.74
Consensus pattern (18 bp):
ATTTCTTTTTCTTTTGCA
Found at i:25330242 original size:12 final size:11
Alignment explanation
Indices: 25330182--25330249 Score: 50
Period size: 12 Copynumber: 6.0 Consensus size: 11
25330172 TTTTTCTTCA
25330182 TTTTCTTTTTC
1 TTTTCTTTTTC
**
25330193 -TCACTTTTTC
1 TTTTCTTTTTC
*
25330203 GATTTCTTTTTC
1 -TTTTCTTTTTC
*
25330215 TTTTGCAATTTT-
1 TTTT-C-TTTTTC
25330227 TTTTCTTTTTC
1 TTTTCTTTTTC
25330238 GTTTTCTTTTTC
1 -TTTTCTTTTTC
25330250 AATTTCATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
10 12 0.27
11 4 0.09
12 24 0.55
13 4 0.09
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:25331073 original size:14 final size:14
Alignment explanation
Indices: 25331042--25331075 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25331032 TTCAACTCTT
*
25331042 TTTTTTGCTCAATT
1 TTTTTTGCTCAATA
*
25331056 TTTTTTGCTCACTA
1 TTTTTTGCTCAATA
25331070 TTTTTT
1 TTTTTT
25331076 CGAATTTCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTTTGCTCAATA
Found at i:25331075 original size:16 final size:14
Alignment explanation
Indices: 25331040--25331066 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25331030 CTTTCAACTC
25331040 TTTTTTTTGCTCAA
1 TTTTTTTTGCTCAA
25331054 TTTTTTTTGCTCA
1 TTTTTTTTGCTCA
25331067 CTATTTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.15, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTTTTTGCTCAA
Found at i:25332316 original size:20 final size:20
Alignment explanation
Indices: 25332291--25332335 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25332281 TAAATACACA
25332291 TAATTAAAACT-AGACACAAT
1 TAATT-AAACTAAGACACAAT
**
25332311 TAATTAAGTTAAGACACAAT
1 TAATTAAACTAAGACACAAT
25332331 TAATT
1 TAATT
25332336 CGGTTGGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAACTAAGACACAAT
Found at i:25334601 original size:15 final size:15
Alignment explanation
Indices: 25334581--25334611 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25334571 GGCTTCCGCC
25334581 AAATGTTTTATCTAG
1 AAATGTTTTATCTAG
*
25334596 AAATGTTTTATTTAG
1 AAATGTTTTATCTAG
25334611 A
1 A
25334612 GTAACATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.13, T:0.48
Consensus pattern (15 bp):
AAATGTTTTATCTAG
Found at i:25347459 original size:18 final size:18
Alignment explanation
Indices: 25347433--25347468 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25347423 CTATTTTCAA
25347433 AAATCGATCTTAAGAGCG
1 AAATCGATCTTAAGAGCG
*
25347451 AAATTGATCTTAAGAGCG
1 AAATCGATCTTAAGAGCG
25347469 GTTATCACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (18 bp):
AAATCGATCTTAAGAGCG
Found at i:25352164 original size:25 final size:24
Alignment explanation
Indices: 25352088--25352164 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
25352078 CAGCTTGTAT
* *
25352088 GAGCTTACTAATTTTAGCTCATGA
1 GAGCTTACCAATTTTAGCTCGTGA
*
25352112 GAGCTTACCAAATTTAGCTCGT-A
1 GAGCTTACCAATTTTAGCTCGTGA
*
25352135 CGAGCTTACCGATTTATAGCTCGTGA
1 -GAGCTTACCAATTT-TAGCTCGTGA
25352161 GAGC
1 GAGC
25352165 ATATTGATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.02
24 31 0.69
25 12 0.27
26 1 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (24 bp):
GAGCTTACCAATTTTAGCTCGTGA
Found at i:25352173 original size:25 final size:25
Alignment explanation
Indices: 25352126--25352192 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
25352116 TTACCAAATT
* * ** *
25352126 TAGCTCGTACGAGCTTACCGATTTA
1 TAGCTCGTAAGAGCATATTGATTCA
*
25352151 TAGCTCGTGAGAGCATATTGATTCA
1 TAGCTCGTAAGAGCATATTGATTCA
*
25352176 TAGCTTGTAAGAGCATA
1 TAGCTCGTAAGAGCATA
25352193 CATGTACAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.31
Consensus pattern (25 bp):
TAGCTCGTAAGAGCATATTGATTCA
Found at i:25361235 original size:8 final size:8
Alignment explanation
Indices: 25361224--25361248 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25361214 TATAACATTA
25361224 TATTATAT
1 TATTATAT
25361232 TATTATAT
1 TATTATAT
25361240 TATTATAT
1 TATTATAT
25361248 T
1 T
25361249 TGAACTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTATAT
Found at i:25362802 original size:20 final size:20
Alignment explanation
Indices: 25362777--25362839 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
25362767 ATAATCAGTA
25362777 CCCTTGATTGCACTTACGTG
1 CCCTTGATTGCACTTACGTG
* ** *
25362797 CCCTTGTTTGTGCTT-CGATA
1 CCCTTGATTGCACTTACG-TG
* *
25362817 CCCCTGATTGCACTTATGTG
1 CCCTTGATTGCACTTACGTG
25362837 CCC
1 CCC
25362840 CTGTTTATAC
Statistics
Matches: 31, Mismatches: 10, Indels: 4
0.69 0.22 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.90
21 1 0.03
ACGTcount: A:0.13, C:0.32, G:0.19, T:0.37
Consensus pattern (20 bp):
CCCTTGATTGCACTTACGTG
Found at i:25362853 original size:40 final size:40
Alignment explanation
Indices: 25362775--25362853 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
25362765 TCATAATCAG
* * * *
25362775 TACCCTTGATTGCACTTACGTGCCCTTGTTTGTGCTTCGA
1 TACCCCTGATTGCACTTACGTGCCCCTGTTTATACTTCGA
*
25362815 TACCCCTGATTGCACTTATGTGCCCCTGTTTATACTTCG
1 TACCCCTGATTGCACTTACGTGCCCCTGTTTATACTTCG
25362854 GTAATTTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (40 bp):
TACCCCTGATTGCACTTACGTGCCCCTGTTTATACTTCGA
Found at i:25363402 original size:12 final size:12
Alignment explanation
Indices: 25363380--25363413 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
25363370 GCAAGTCAGG
25363380 TAGCTACACGGCC
1 TAGC-ACACGGCC
25363393 TAGCACACGGCC
1 TAGCACACGGCC
25363405 TAGCACACG
1 TAGCACACG
25363414 AGCGTGTGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.26, C:0.38, G:0.24, T:0.12
Consensus pattern (12 bp):
TAGCACACGGCC
Found at i:25364405 original size:23 final size:21
Alignment explanation
Indices: 25364375--25364418 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
25364365 CATGAGAATG
25364375 TCAATGCAAAGCTTTTTCAAAAA
1 TCAATGC-AAG-TTTTTCAAAAA
*
25364398 TCAATGCATGTTTTTCAAAAA
1 TCAATGCAAGTTTTTCAAAAA
25364419 CATTCCTACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (21 bp):
TCAATGCAAGTTTTTCAAAAA
Found at i:25364695 original size:42 final size:42
Alignment explanation
Indices: 25364636--25364728 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
25364626 ATATTTTTAG
* *
25364636 TGGCATGCTTAACATGTGAATCAAATTTATAATCAACATAGT
1 TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
* *
25364678 TGGCATGCTAAACATGTGAATCAAATTTATAATTAATACAGT
1 TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
25364720 TGGCATGCT
1 TGGCATGCT
25364729 TAATATGGGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (42 bp):
TGGCATGCTAAACATGTGAATCAAATTTATAATCAACACAGT
Found at i:25366584 original size:52 final size:52
Alignment explanation
Indices: 25366501--25366601 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
25366491 TAAGGAAACG
* *
25366501 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCAGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCAGTTGAAGCTCAAACAA
*
25366553 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCAGTTGAAGCTCAAA
25366602 TATGTGCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCAGTTGAAGCTCAAACAA
Found at i:25375279 original size:39 final size:40
Alignment explanation
Indices: 25375174--25375316 Score: 158
Period size: 39 Copynumber: 3.6 Consensus size: 40
25375164 TTGAATGATG
25375174 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTG-GTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAATA
*
25375212 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAATA
25375252 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATA
* *
25375291 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25375317 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 5, Indels: 16
0.81 0.04 0.14
Matches are distributed among these distances:
38 20 0.22
39 34 0.37
40 33 0.36
41 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATA
Found at i:25375330 original size:40 final size:39
Alignment explanation
Indices: 25375253--25375335 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
25375243 GATACTAATT
** *
25375253 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
25375292 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
25375332 CCGG
1 CCGG
25375336 TTAAATTCCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 10 0.27
40 27 0.73
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.22
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:25382851 original size:40 final size:40
Alignment explanation
Indices: 25382663--25382886 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
25382653 TTGAATGATG
* * * *
25382663 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
25382703 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
25382743 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
25382783 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25382822 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
25382862 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25382887 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 57 0.35
40 100 0.61
41 8 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:25382893 original size:79 final size:78
Alignment explanation
Indices: 25382663--25382905 Score: 269
Period size: 79 Copynumber: 3.1 Consensus size: 78
25382653 TTGAATGATG
* * * *
25382663 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA-CCGGGCTAAG-TCCCGAAGGCAT
25382726 TTGTGCGAGATACTAAA
63 TTGTGCGAG-TACTAAA
* * *
25382743 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-ATACCGGGCTAAGTCCCGAAGGCATT
25382806 TGTGCGAGTTACTAAA
64 TGTGCGAG-TACTAAA
* * *
25382822 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCGGGCTAAGTCCCGAAGGCATTTG
** *
25382887 AACGAGTAGCTATA
66 TGCGAGTA-CTAAA
25382901 TCCGG
1 TCCGG
25382906 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 17, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
78 14 0.10
79 84 0.60
80 31 0.22
81 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTACTAAA
Found at i:25387355 original size:227 final size:227
Alignment explanation
Indices: 25386960--25387411 Score: 697
Period size: 227 Copynumber: 2.0 Consensus size: 227
25386950 TTAGTGTCTA
* * *
25386960 AAGTGTATCAATGTGTGTATTGAGGAAATGAACAAGTCTATTGTGAAAGAGTCTATTATGAGTAA
1 AAGTGTATCAATGTGTGTATGGAAGAAATGAACAAGTCTATTGTGAAAGAGTCTATCATGAGTAA
* *
25387025 GTCATATGTGAATAAGTCTGTCAAGTATAAGTCTGCATGAAGTGTTTATGTCGTCTAAAAGGGTC
66 GTCATATGTGAATAAGTCTGTCAAGTATAAGTCTGCATGAACTATTTATGTCGTCTAAAAGGGTC
* * * *
25387090 CGTCAAGAATAAAAACATGAATCTCTTAAAGGAAAAGTCCATGGCATTCTGAAGACCATATAGTC
131 CGTCAAGAACAAAAACATGAATCTCTAAAAGGAAAAGTCCATGGCACTCTAAAGACCATATAGTC
*
25387155 TAAGACCATGGCTGGGCTATGGCATCATATGG
196 TAAGACCATGGCTAGGCTATGGCATCATATGG
* *
25387187 AAGTGTATCAATGTGTGTATGGAAGATATGAACAAGTCTATTGTGAAAGAGTCTATCATGTGTAA
1 AAGTGTATCAATGTGTGTATGGAAGAAATGAACAAGTCTATTGTGAAAGAGTCTATCATGAGTAA
* * * * * * * * *
25387252 GTCATATGTGGATGAGTTTGTTAAGTATGAGTCTGCATGAACTATTTGTGTTGTCTAAAGGGGTT
66 GTCATATGTGAATAAGTCTGTCAAGTATAAGTCTGCATGAACTATTTATGTCGTCTAAAAGGGTC
* *
25387317 CTTCGAGAACAAAAACATGAATCTCTAAAAGGAAAAGTCCATGGCACTCTAAAGACCATATAGTC
131 CGTCAAGAACAAAAACATGAATCTCTAAAAGGAAAAGTCCATGGCACTCTAAAGACCATATAGTC
25387382 TAAGACCATGGCTAGGCTATGGCATCATAT
196 TAAGACCATGGCTAGGCTATGGCATCATAT
25387412 TTTAAAAATT
Statistics
Matches: 202, Mismatches: 23, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
227 202 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (227 bp):
AAGTGTATCAATGTGTGTATGGAAGAAATGAACAAGTCTATTGTGAAAGAGTCTATCATGAGTAA
GTCATATGTGAATAAGTCTGTCAAGTATAAGTCTGCATGAACTATTTATGTCGTCTAAAAGGGTC
CGTCAAGAACAAAAACATGAATCTCTAAAAGGAAAAGTCCATGGCACTCTAAAGACCATATAGTC
TAAGACCATGGCTAGGCTATGGCATCATATGG
Found at i:25387552 original size:29 final size:29
Alignment explanation
Indices: 25387511--25387674 Score: 154
Period size: 29 Copynumber: 5.7 Consensus size: 29
25387501 AACACCAATT
* *
25387511 TCTG-TAAAAGGAATCTTTTGTGGCTATC
1 TCTGTTAAAAGGAAGCCTTTGTGGCTATC
* *
25387539 TCTGTTAACAGGAAGCCTTTGTGGCTATT
1 TCTGTTAAAAGGAAGCCTTTGTGGCTATC
* ** * *
25387568 TCTATTAAAAGGATTCCCTTGTGGCAATC
1 TCTGTTAAAAGGAAGCCTTTGTGGCTATC
25387597 TCTGTTAAAAGGAAGCCTTTGTGG-TGATC
1 TCTGTTAAAAGGAAGCCTTTGTGGCT-ATC
* * * *
25387626 TTTGTTAAAGGGAAGCCTTTATAG-TGATC
1 TCTGTTAAAAGGAAGCCTTTGTGGCT-ATC
* *
25387655 TCTGTTAAAATGATGCCTTT
1 TCTGTTAAAAGGAAGCCTTT
25387675 ATGGTGAGAC
Statistics
Matches: 110, Mismatches: 24, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
28 4 0.04
29 106 0.96
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (29 bp):
TCTGTTAAAAGGAAGCCTTTGTGGCTATC
Found at i:25387663 original size:87 final size:86
Alignment explanation
Indices: 25387506--25387664 Score: 189
Period size: 87 Copynumber: 1.8 Consensus size: 86
25387496 TCAAAAACAC
* * * * * *
25387506 CAATTTCTGTAAAAGGAATCTTTTGTGGCTATCTCTGTTAACAGGAAGCCTTTGTGGCTATTTCT
1 CAATCTCTGTAAAAGGAAGCCTTTGTGGCTATCTCTGTTAACAGGAAGCCTTTATAGCTATCTCT
25387571 ATTAAAAGGATTCCCTTGTGG
66 ATTAAAAGGATTCCCTTGTGG
*
25387592 CAATCTCTGTTAAAAGGAAGCCTTTGTGG-TGATCTTTGTTAA-AGGGAAGCCTTTATAG-TGAT
1 CAATCTCTG-TAAAAGGAAGCCTTTGTGGCT-ATCTCTGTTAACA-GGAAGCCTTTATAGCT-AT
*
25387654 CTCTGTTAAAA
62 CTCTATTAAAA
25387665 TGATGCCTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
86 11 0.18
87 50 0.82
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.37
Consensus pattern (86 bp):
CAATCTCTGTAAAAGGAAGCCTTTGTGGCTATCTCTGTTAACAGGAAGCCTTTATAGCTATCTCT
ATTAAAAGGATTCCCTTGTGG
Found at i:25388874 original size:21 final size:23
Alignment explanation
Indices: 25388829--25388875 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
25388819 TCACCTGCAA
* *
25388829 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
25388852 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
25388873 TAA
1 TAA
25388876 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:25399852 original size:70 final size:70
Alignment explanation
Indices: 25399739--25399877 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
25399729 CTTCGGGTTC
25399739 CTAGATCGCTATCTAGAGGGTCCAAGTCCTTTTGACATTGAACAGATTCGATTCGGGTTTGCTCA
1 CTAGATCGCTATCTAGAGGGTCCAAGTCCTTTTGACATTGAACAGATTCGATTCGGGTTTGCTCA
25399804 GTAGG
66 GTAGG
*
25399809 CTAGATCGCTATCTAGAGGGTCCAAGTCCTTTTGACGTTGAACAGATTCGATTCGGGTTTGCTCA
1 CTAGATCGCTATCTAGAGGGTCCAAGTCCTTTTGACATTGAACAGATTCGATTCGGGTTTGCTCA
25399874 GTAG
66 GTAG
25399878 ATTGTGCAGG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (70 bp):
CTAGATCGCTATCTAGAGGGTCCAAGTCCTTTTGACATTGAACAGATTCGATTCGGGTTTGCTCA
GTAGG
Found at i:25400078 original size:85 final size:84
Alignment explanation
Indices: 25399935--25400102 Score: 318
Period size: 85 Copynumber: 2.0 Consensus size: 84
25399925 ACTTTTGCCA
*
25399935 TTGTTGAACACTCAAGTTGCTGCCTTGGCCGTTTCATGAAGCGTTCGACTTCACCGATTGAATTT
1 TTGTTGAACACTCAAGTTGCTGCCTTGGCCGTTTCATGAAGCGTTCGACTTCACCGATTGAA-CT
25400000 TTTTTTGTTTTAATCCCCAG
65 TTTTTTGTTTTAATCCCCAG
25400020 TTGTTGAACACTCAAGTTGCTGCCTTGGCCGTTTCATGAAGCGTTCGACTTCACCGATTGAACTT
1 TTGTTGAACACTCAAGTTGCTGCCTTGGCCGTTTCATGAAGCGTTCGACTTCACCGATTGAACTT
25400085 TTTTTGTTTTAATCCCCA
66 TTTTTGTTTTAATCCCCA
25400103 ACAACTTTAT
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
84 20 0.24
85 62 0.76
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (84 bp):
TTGTTGAACACTCAAGTTGCTGCCTTGGCCGTTTCATGAAGCGTTCGACTTCACCGATTGAACTT
TTTTTGTTTTAATCCCCAG
Found at i:25401963 original size:27 final size:27
Alignment explanation
Indices: 25401907--25401979 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
25401897 TAGATGTTTG
* * * *
25401907 CCACAAAGGC-ATTCCTTCATGTTATG
1 CCACAAAGGCTTTTCTTTCATATTATA
25401933 CCACAAAGGCTTTTCTTTCATATTATA
1 CCACAAAGGCTTTTCTTTCATATTATA
25401960 CCACAAAGGCTTTTTCTTTC
1 CCACAAAGGC-TTTTCTTTC
25401980 CTAACGTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 10 0.24
27 22 0.54
28 9 0.22
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (27 bp):
CCACAAAGGCTTTTCTTTCATATTATA
Found at i:25402627 original size:23 final size:23
Alignment explanation
Indices: 25402597--25402645 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
25402587 AAAAGAACAA
25402597 AGAGAGTTGAATAACTCACAAAT
1 AGAGAGTTGAATAACTCACAAAT
25402620 AGAGAGTTGAATAACTCACAAAT
1 AGAGAGTTGAATAACTCACAAAT
25402643 AGA
1 AGA
25402646 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.20
Consensus pattern (23 bp):
AGAGAGTTGAATAACTCACAAAT
Found at i:25404922 original size:23 final size:23
Alignment explanation
Indices: 25404870--25404922 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
25404860 AACCTGGACA
* **
25404870 ACATTAAGACAATGTTTAAATGC
1 ACATTAAGACAAGGTTTAAACAC
25404893 ACATTAAGACAAGGTTTAAACAC
1 ACATTAAGACAAGGTTTAAACAC
*
25404916 ACTTTAA
1 ACATTAA
25404923 TTTGTAGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.28
Consensus pattern (23 bp):
ACATTAAGACAAGGTTTAAACAC
Found at i:25405071 original size:38 final size:39
Alignment explanation
Indices: 25404990--25405098 Score: 157
Period size: 38 Copynumber: 2.8 Consensus size: 39
25404980 AAGTATTGAA
* * *
25404990 GATGTTCAAACTATGACATAATTAAAGACCCATATTAAT
1 GATGTTCAAATTATGACATAATTAAATACTCATATTAAT
*
25405029 GATGTTCAGATTATGACATAATT-AATACTCATATTAAT
1 GATGTTCAAATTATGACATAATTAAATACTCATATTAAT
* *
25405067 GATGTTAAAATTATGGCATAATTAAATACTCA
1 GATGTTCAAATTATGACATAATTAAATACTCA
25405099 AACTATAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 33 0.53
39 29 0.47
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (39 bp):
GATGTTCAAATTATGACATAATTAAATACTCATATTAAT
Found at i:25406952 original size:15 final size:15
Alignment explanation
Indices: 25406889--25406957 Score: 52
Period size: 15 Copynumber: 4.4 Consensus size: 15
25406879 CCTTTTTCTC
25406889 TTTTTCAATTTCATTTT
1 TTTTTCAATTTC--TTT
25406906 ATTTTTC--TTTCTCTT
1 -TTTTTCAATTTCT-TT
** *
25406921 TTCTTTCAAGCTATTT
1 TT-TTTCAATTTCTTT
25406937 TTTTTCAATTTCTTT
1 TTTTTCAATTTCTTT
25406952 TTTTTC
1 TTTTTC
25406958 TCGCTCATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
14 3 0.07
15 22 0.54
16 8 0.20
17 2 0.05
18 6 0.15
ACGTcount: A:0.13, C:0.16, G:0.01, T:0.70
Consensus pattern (15 bp):
TTTTTCAATTTCTTT
Found at i:25409475 original size:30 final size:31
Alignment explanation
Indices: 25409441--25409500 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
25409431 AAACCTTTTA
*
25409441 TTTTTCCCCAAAATTTTTACTCCC-TCTCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCTCAC
* *
25409471 TTTTTCCCTAAAACTTTTATTCCCTTCTCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCTCA
25409501 TCCTAGCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCTCAC
Found at i:25418125 original size:61 final size:58
Alignment explanation
Indices: 25418018--25418129 Score: 143
Period size: 61 Copynumber: 1.9 Consensus size: 58
25418008 ATCACTTTAA
* * *
25418018 TATTAAATTAATATAATACTTATTCAGATAAATATTAGATGAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATGAAATTTAATATTAAATC
* **
25418076 TATTAAATTAATAGAATATTTATCTATAAGATAAATATTAAATTTAATTTAATA
1 TATTAAATTAATAGAATACTTA--T-TAAGATAAATATTAAATGAAATTTAATA
25418130 CTAATAGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 20 0.44
60 1 0.02
61 24 0.53
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATTAAGATAAATATTAAATGAAATTTAATATTAAATC
Found at i:25425089 original size:50 final size:50
Alignment explanation
Indices: 25425025--25425396 Score: 494
Period size: 50 Copynumber: 7.6 Consensus size: 50
25425015 TCTGTACTGT
* * * * ** *
25425025 CAATGCCATATCCCAGATATTGTCTTGCATGGGAGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
* ** *
25425075 CCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
*
25425125 CAACGCCATGT-CC---CA------TACATGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
* *
25425165 CAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCTGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
* *
25425215 CAATGTCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
*
25425265 CAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
* *
25425315 CAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
*
25425365 CAACGCCATGTCCCAGACATGGTCTTACATGG
1 CAATGCCATGTCCCAGACATGGTCTTACATGG
25425397 CTCACATATT
Statistics
Matches: 286, Mismatches: 26, Indels: 20
0.86 0.08 0.06
Matches are distributed among these distances:
40 31 0.11
41 2 0.01
44 2 0.01
46 2 0.01
49 2 0.01
50 247 0.86
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
Found at i:25425150 original size:40 final size:40
Alignment explanation
Indices: 25425105--25425186 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 40
25425095 GGTCTTACGG
*
25425105 GGGACCTCTCATCTCGATGCCAACGCCATGTCCCATACAT
1 GGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGACAT
* * *
25425145 GGGACCTCTCATCTCGGTGCCAATGTCATGTCCCAGACAT
1 GGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGACAT
25425185 GG
1 GG
25425187 TCTTACATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.21, C:0.34, G:0.22, T:0.23
Consensus pattern (40 bp):
GGGACCTCTCATCTCGATGCCAACGCCATGTCCCAGACAT
Found at i:25425304 original size:190 final size:193
Alignment explanation
Indices: 25425025--25425396 Score: 516
Period size: 190 Copynumber: 1.9 Consensus size: 193
25425015 TCTGTACTGT
* * * * ** *
25425025 CAATGCCATATCCCAGATATTGTCTTGCATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCA
1 CAATGCCATATCCCAGACATGGTCTTACACGGGACCTCTCATATCGGTGCCAATGCCATGTCCCA
*
25425090 GACATGGTCTTACGGGGGACCTCTCATCTCGATGCCAACGCCATGT-CC-CA-TACATGGGACCT
66 GACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAACGCCATGTCCCACATTACATGGGACCT
* *
25425152 CTCATCTCGGTGCCAATGTCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCTGTGC
131 CTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCTGTGC
* * * *
25425215 CAATGTCATGTCCCAGACATGGTCTTACACGGGACCTCTCATCTCGGTGCCAATGTCATGTCCCA
1 CAATGCCATATCCCAGACATGGTCTTACACGGGACCTCTCATATCGGTGCCAATGCCATGTCCCA
* *
25425280 GACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTACAT
66 GACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAACGCCATGTCCC--ACA-----TTACAT
25425345 GGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGG
124 GGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGG
25425397 CTCACATATT
Statistics
Matches: 156, Mismatches: 16, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
190 97 0.62
191 2 0.01
194 2 0.01
200 55 0.35
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (193 bp):
CAATGCCATATCCCAGACATGGTCTTACACGGGACCTCTCATATCGGTGCCAATGCCATGTCCCA
GACATGGTCTTACAGGGGACCTCTCATCTCGATGCCAACGCCATGTCCCACATTACATGGGACCT
CTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCTGTGC
Found at i:25425867 original size:18 final size:18
Alignment explanation
Indices: 25425844--25425880 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
25425834 TTTCTATTCA
*
25425844 TACCTTTTTAAATTTTGT
1 TACCTTTCTAAATTTTGT
*
25425862 TACCTTTCTATATTTTGT
1 TACCTTTCTAAATTTTGT
25425880 T
1 T
25425881 TCATCATAAA
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:0.19, C:0.14, G:0.05, T:0.62
Consensus pattern (18 bp):
TACCTTTCTAAATTTTGT
Found at i:25435297 original size:21 final size:22
Alignment explanation
Indices: 25435273--25435318 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
25435263 TTAAAAACAA
25435273 ATTAAACACTT-AACTAAATTT
1 ATTAAACACTTAAACTAAATTT
* *
25435294 ATTAAATACTTAAACTAATTTT
1 ATTAAACACTTAAACTAAATTT
25435316 ATT
1 ATT
25435319 CCAGCAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTAAACACTTAAACTAAATTT
Found at i:25439287 original size:18 final size:18
Alignment explanation
Indices: 25439266--25439300 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
25439256 TTTTTCTTTT
25439266 TCAATTT-TTTTCTCAATC
1 TCAATTTATTTT-TCAATC
25439284 TCAATTTATTTTTCAAT
1 TCAATTTATTTTTCAAT
25439301 TTTTTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTATTTTTCAATC
Found at i:25439362 original size:29 final size:29
Alignment explanation
Indices: 25439330--25439387 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
25439320 TTTCTCTCAC
*
25439330 TTTTTCGATTTCTTTTTCTTTTGCAATTT
1 TTTTTCGATTTCGTTTTCTTTTGCAATTT
** *
25439359 TTTTTCTTTTTCGTTTTCTTTTTCAATTT
1 TTTTTCGATTTCGTTTTCTTTTGCAATTT
25439388 CATTACAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.09, C:0.14, G:0.05, T:0.72
Consensus pattern (29 bp):
TTTTTCGATTTCGTTTTCTTTTGCAATTT
Found at i:25439375 original size:7 final size:6
Alignment explanation
Indices: 25439300--25439382 Score: 53
Period size: 6 Copynumber: 14.0 Consensus size: 6
25439290 TATTTTTCAA
* * ** **
25439300 TTTTT- TTTCTTC ATTTTC TTTTTC TCTCAC TTTTTC GATTTC TTTTTC
1 TTTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
* ** *
25439348 TTTTGC AATTT- TTTTTC TTTTTC GTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
25439383 AATTTCATTA
Statistics
Matches: 55, Mismatches: 20, Indels: 5
0.69 0.25 0.06
Matches are distributed among these distances:
5 6 0.11
6 47 0.85
7 2 0.04
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (6 bp):
TTTTTC
Found at i:25440193 original size:14 final size:14
Alignment explanation
Indices: 25440174--25440209 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
25440164 TTTCAACTCT
25440174 TTTTTTTTGCTCGA-
1 TTTTTTTTGCTC-AC
25440188 TTTTTTTTGCTCAC
1 TTTTTTTTGCTCAC
25440202 TTTTTTTT
1 TTTTTTTT
25440210 CGAATTTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 1 0.05
14 20 0.95
ACGTcount: A:0.06, C:0.14, G:0.08, T:0.72
Consensus pattern (14 bp):
TTTTTTTTGCTCAC
Found at i:25441447 original size:20 final size:20
Alignment explanation
Indices: 25441422--25441466 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
25441412 TAAATACACA
25441422 TAATTAAAACT-AGACACAAT
1 TAATT-AAACTAAGACACAAT
**
25441442 TAATTAAGTTAAGACACAAT
1 TAATTAAACTAAGACACAAT
25441462 TAATT
1 TAATT
25441467 CGGTTGGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.31
Consensus pattern (20 bp):
TAATTAAACTAAGACACAAT
Found at i:25447642 original size:126 final size:126
Alignment explanation
Indices: 25447498--25447755 Score: 489
Period size: 126 Copynumber: 2.0 Consensus size: 126
25447488 ATATCTGACT
25447498 ACATAGATTGTGGTATATCCAACATCAGTCTTTATAGTAAAACCTTTTACGGTAGACGTTTGACT
1 ACATAGATTGTGGTATATCCAACATCAGTCTTTATAGTAAAACCTTTTACGGTAGACGTTTGACT
* *
25447563 ATATCAAAATATATGGCTTATGATTTTGGGACAATGATGATCTTAAGTCTGAGGATCGTAC
66 ATATCAAAATATATGACTTACGATTTTGGGACAATGATGATCTTAAGTCTGAGGATCGTAC
25447624 ACATAGATTGTGGTATATCCAACATCAGTCTTTATAGTAAAACCTTTTACGGTAGACGTTTGACT
1 ACATAGATTGTGGTATATCCAACATCAGTCTTTATAGTAAAACCTTTTACGGTAGACGTTTGACT
*
25447689 ATATCAAAATATATGACTTACGATTTTGGGACAATGATGATCTTAAGTCTGAGGATCGTAT
66 ATATCAAAATATATGACTTACGATTTTGGGACAATGATGATCTTAAGTCTGAGGATCGTAC
25447750 ACATAG
1 ACATAG
25447756 TTATCACTAT
Statistics
Matches: 129, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
126 129 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (126 bp):
ACATAGATTGTGGTATATCCAACATCAGTCTTTATAGTAAAACCTTTTACGGTAGACGTTTGACT
ATATCAAAATATATGACTTACGATTTTGGGACAATGATGATCTTAAGTCTGAGGATCGTAC
Found at i:25451040 original size:40 final size:40
Alignment explanation
Indices: 25450983--25451172 Score: 265
Period size: 40 Copynumber: 4.8 Consensus size: 40
25450973 ATTTGAATAC
* * * * *
25450983 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TAATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGA-TAT
25451023 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
25451063 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
25451103 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
* * *
25451143 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
25451173 TTGTGGTTAT
Statistics
Matches: 137, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 135 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:25454328 original size:24 final size:24
Alignment explanation
Indices: 25454301--25454348 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
25454291 GGCCTGCGAG
*
25454301 AGACCCTCCCACTCCGATGAAGTT
1 AGACCCTCCCACTCAGATGAAGTT
25454325 AGACCCTCCCACTCAGATGAAGTT
1 AGACCCTCCCACTCAGATGAAGTT
25454349 GCCTATGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.21
Consensus pattern (24 bp):
AGACCCTCCCACTCAGATGAAGTT
Found at i:25465069 original size:25 final size:24
Alignment explanation
Indices: 25464993--25465069 Score: 93
Period size: 24 Copynumber: 3.2 Consensus size: 24
25464983 CAGCTTGTAT
* *
25464993 GAGCTTACTAATTTTAGCTCATGA
1 GAGCTTACCAATTTTAGCTCGTGA
*
25465017 GAGCTTACCAAATTTAGCTCGT-A
1 GAGCTTACCAATTTTAGCTCGTGA
*
25465040 TGAGCTTACCGATTTATAGCTCGTGA
1 -GAGCTTACCAATTT-TAGCTCGTGA
25465066 GAGC
1 GAGC
25465070 ATATCGATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.02
24 31 0.69
25 12 0.27
26 1 0.02
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (24 bp):
GAGCTTACCAATTTTAGCTCGTGA
Found at i:25465077 original size:25 final size:24
Alignment explanation
Indices: 25465031--25465098 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
25465021 TTACCAAATT
* *
25465031 TAGCTCGTATGAGCTTACCGATTTA
1 TAGCTCGTA-GAGCATACCGATTCA
*
25465056 TAGCTCGTGAGAGCATATCGATTCA
1 TAGCTCGT-AGAGCATACCGATTCA
*
25465081 TAGCTTGTAAGAGCATAC
1 TAGCTCGT-AGAGCATAC
25465099 ATGTACAGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
25 35 0.97
26 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (24 bp):
TAGCTCGTAGAGCATACCGATTCA
Found at i:25474150 original size:8 final size:8
Alignment explanation
Indices: 25474139--25474163 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25474129 TATAACATTA
25474139 TATTATAT
1 TATTATAT
25474147 TATTATAT
1 TATTATAT
25474155 TATTATAT
1 TATTATAT
25474163 T
1 T
25474164 TTAACTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTATAT
Found at i:25481251 original size:43 final size:43
Alignment explanation
Indices: 25481183--25481297 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
25481173 AGCTCGTACA
* * * * *
25481183 ATGCCAACGTCCCAGACGTGATCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAAACGTGGTCTTACACGTAAACACAAATCG
*
25481226 ATGCC-ACTGTCCCAAACAG-GGTCTTACACGTAAACACAAATTG
1 ATGCCAAC-GTCCCAAAC-GTGGTCTTACACGTAAACACAAATCG
*
25481269 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAAACGTGGTCTTACAC
25481298 AAAAAACACA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
42 3 0.05
43 55 0.90
44 3 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAAACGTGGTCTTACACGTAAACACAAATCG
Found at i:25484140 original size:24 final size:25
Alignment explanation
Indices: 25484111--25484172 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
25484101 TAACTCACAT
*
25484111 GAGCTTACCAATTT-CAGCTCGTGA
1 GAGCTTACCAATTTACAGCTCATGA
* *
25484135 GAGCTTACCGATTTACAGCTTATGA
1 GAGCTTACCAATTTACAGCTCATGA
*
25484160 GAGCATACCAATT
1 GAGCTTACCAATT
25484173 CATAGCTCGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 13 0.41
25 19 0.59
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (25 bp):
GAGCTTACCAATTTACAGCTCATGA
Found at i:25484179 original size:25 final size:25
Alignment explanation
Indices: 25484132--25484179 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
25484122 TTTCAGCTCG
* * *
25484132 TGAGAGCTTACCGATTTACAGCTTA
1 TGAGAGCATACCAATTCACAGCTTA
*
25484157 TGAGAGCATACCAATTCATAGCT
1 TGAGAGCATACCAATTCACAGCT
25484180 CGTATGAACA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (25 bp):
TGAGAGCATACCAATTCACAGCTTA
Found at i:25485381 original size:12 final size:12
Alignment explanation
Indices: 25485364--25485393 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
25485354 TCAGGCTACT
25485364 ACACGGCCTAGC
1 ACACGGCCTAGC
*
25485376 ACACGGCTTAGC
1 ACACGGCCTAGC
25485388 ACACGG
1 ACACGG
25485394 GCGTGTGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.37, G:0.27, T:0.10
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:25490321 original size:51 final size:51
Alignment explanation
Indices: 25490242--25490377 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
25490232 GATACCTGTT
* *
25490242 CACATAGTAGTCTGCACATAGTACTACACATGTGA-CCATCAG-TATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGATCCA--AGCTATCCGATA
* * *
25490293 CACGTAGTAGCCTGTACATAGTACTACACACGTGATCGAAGCTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGATCCAAGCTATCCGATA
*
25490344 CGCATAGTAGCCTGCACATAGTACTACACACGTG
1 CACATAGTAGCCTGCACATAGTACTACACACGTG
25490378 GCCGTCACTT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 2 0.03
51 71 0.95
52 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGATCCAAGCTATCCGATA
Found at i:25498058 original size:15 final size:15
Alignment explanation
Indices: 25498038--25498089 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
25498028 ACTACAAAAA
25498038 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
25498053 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
25498072 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
25498087 ATT
1 ATT
25498090 AATATTCAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:25502529 original size:91 final size:91
Alignment explanation
Indices: 25502370--25502548 Score: 225
Period size: 91 Copynumber: 2.0 Consensus size: 91
25502360 GTCAGGGATT
* **
25502370 TCTTTATCAATGGATGAGATCTAACATGTGTTGCGAATTCTCGACAACTTGAGTGAGCAAAATCG
1 TCTTTATCAATGGATGAGATCCAACACATGTTGCGAATTCTCGACAACTTGAGTGAGCAAAATCG
*
25502435 AATAAAGTTTGCAAAAGTAAACCCGA
66 AATAAAGCTTGCAAAAGTAAACCCGA
* * * * ** *
25502461 TCTTTATCGATGGCTGAGATCCAACACATGTTGCTAATTCTCGA-AAGCTTGAGTGAGTAGCATT
1 TCTTTATCAATGGATGAGATCCAACACATGTTGCGAATTCTCGACAA-CTTGAGTGAGCAAAATC
* *
25502525 GAATAAAGCTTGTATAAGTAAACC
65 GAATAAAGCTTGCAAAAGTAAACC
25502549 AACTATACAA
Statistics
Matches: 74, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
90 2 0.03
91 72 0.97
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (91 bp):
TCTTTATCAATGGATGAGATCCAACACATGTTGCGAATTCTCGACAACTTGAGTGAGCAAAATCG
AATAAAGCTTGCAAAAGTAAACCCGA
Found at i:25519627 original size:65 final size:65
Alignment explanation
Indices: 25519523--25519653 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
25519513 AACCTTTATT
* *
25519523 TAGCCTCGATTACATTTATGAATTTTTATGTATTATGTTTAAGGTAAGATGGACAAGCAAGCCTA
1 TAGCCTCGATTACATTTATGAAATTTTATGTATTATGTTTAAGGTAAGATGGACAAGCAACCCTA
*
25519588 TAGCCTCGATTATATTTATGAAATTTTATGTATTATGTTTAAGGTAAGATGGACAAGCAACCCTA
1 TAGCCTCGATTACATTTATGAAATTTTATGTATTATGTTTAAGGTAAGATGGACAAGCAACCCTA
25519653 T
1 T
25519654 GGTGGTTAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (65 bp):
TAGCCTCGATTACATTTATGAAATTTTATGTATTATGTTTAAGGTAAGATGGACAAGCAACCCTA
Found at i:25528806 original size:45 final size:45
Alignment explanation
Indices: 25528737--25528822 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
25528727 AGAGACTTGG
* * *
25528737 TGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGA
1 TGGAATCAGCACATAGCAAACACCTTACTAATCAATGATGTCCGA
25528782 TGGAATCAGCACATAGCAAACACCTTACTAATCAATGATGT
1 TGGAATCAGCACATAGCAAACACCTTACTAATCAATGATGT
25528823 TCAGTTCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAAACACCTTACTAATCAATGATGTCCGA
Found at i:25529005 original size:50 final size:51
Alignment explanation
Indices: 25528844--25529023 Score: 195
Period size: 51 Copynumber: 3.5 Consensus size: 51
25528834 AGTAGTCTGT
* * * *
25528844 ACATAGTACTATACATGTGACCATTACCATACGATACACGTAGTAGCCTAC
1 ACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTAC
* * * * * *
25528895 ACATAGTACTACACACGTGATCGA-AACTATCCGATACGCATAGTAGCCTGC
1 ACATAGTACTACACATGTGA-CCATCACTATCCGATACACGTAGTAGCCTAC
* * *
25528946 ATATAGTACTACACATGCGACCTATCA-T-TCCGGTACACGTAGTAGCCTAC
1 ACATAGTACTACACATGTGACC-ATCACTATCCGATACACGTAGTAGCCTAC
*
25528996 ACATCGTACTACACATGTGACCATCACT
1 ACATAGTACTACACATGTGACCATCACT
25529024 TTCACTTTTA
Statistics
Matches: 104, Mismatches: 21, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
49 4 0.04
50 39 0.38
51 58 0.56
52 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (51 bp):
ACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTAC
Found at i:25531817 original size:42 final size:42
Alignment explanation
Indices: 25531737--25531818 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
25531727 CATTTTCTCT
* **
25531737 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATATTG
1 ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
*
25531779 ATGCCATAGCCCAGCTATGGTCTTACACAGTA-GCACATAT
1 ATGCCATAGCCCAACTATGGTCTTACACA-TATGCACATAT
25531819 CACACTGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGGTCTTACACATATGCACATATTG
Found at i:25534890 original size:20 final size:20
Alignment explanation
Indices: 25534862--25534910 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
25534852 ATATTTATAG
*
25534862 TTCCGATGGAACATGAAGTT
1 TTCCAATGGAACATGAAGTT
25534882 TTCCAATGGAACATGAAGTT
1 TTCCAATGGAACATGAAGTT
25534902 TTCCAATGG
1 TTCCAATGG
25534911 GTGGTTCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (20 bp):
TTCCAATGGAACATGAAGTT
Found at i:25537243 original size:17 final size:17
Alignment explanation
Indices: 25537223--25537265 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
25537213 ATCATATCTC
25537223 GCATATAAACAAAG-TT
1 GCATATAAACAAAGCTT
* *
25537239 AGCATATATACACAGCTT
1 -GCATATAAACAAAGCTT
25537257 GCATATAAA
1 GCATATAAA
25537266 AATAGTTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.26
Consensus pattern (17 bp):
GCATATAAACAAAGCTT
Found at i:25539910 original size:18 final size:20
Alignment explanation
Indices: 25539887--25539925 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
25539877 ATGAAACCAA
25539887 AGTTAAAT-AT-AATATTAT
1 AGTTAAATCATAAATATTAT
*
25539905 AGTTAACTCATAAATATTAT
1 AGTTAAATCATAAATATTAT
25539925 A
1 A
25539926 TAATAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
AGTTAAATCATAAATATTAT
Found at i:25542814 original size:71 final size:70
Alignment explanation
Indices: 25542693--25542843 Score: 176
Period size: 71 Copynumber: 2.1 Consensus size: 70
25542683 ATAAACCGTA
** * * * * *
25542693 ACAATGTTTTGTGCCCAGCGCTAGTCAGATTAAGCGACAATAGATGTGCCCAGCACTGGTCGGGT
1 ACAATGTTTTGCACCCAGCGCTAGTCAGATAAAGCGACAATAGATCTGCCCAGCA-TAGTCAGAT
25542758 AAACTG
65 AAACTG
* * * * *
25542764 ACAATGTTTTGCACCCAGCGCTATTCGGATAAATCGACAATAGGTCTGCCCTGCATAGTCAGATA
1 ACAATGTTTTGCACCCAGCGCTAGTCAGATAAAGCGACAATAGATCTGCCCAGCATAGTCAGATA
*
25542829 AATTG
66 AACTG
25542834 ACAATGTTTT
1 ACAATGTTTT
25542844 ACACTGGATA
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
70 21 0.31
71 46 0.69
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (70 bp):
ACAATGTTTTGCACCCAGCGCTAGTCAGATAAAGCGACAATAGATCTGCCCAGCATAGTCAGATA
AACTG
Found at i:25546093 original size:17 final size:17
Alignment explanation
Indices: 25546073--25546112 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
25546063 TTGTAGTTTC
25546073 AAAAAAATTC-AAAGAA
1 AAAAAAATTCAAAAGAA
25546089 AAAAAAA-TCGAAAAGAA
1 AAAAAAATTC-AAAAGAA
25546106 AAAAAAA
1 AAAAAAA
25546113 ATATTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 7 0.32
17 13 0.59
ACGTcount: A:0.80, C:0.05, G:0.07, T:0.07
Consensus pattern (17 bp):
AAAAAAATTCAAAAGAA
Found at i:25547543 original size:24 final size:23
Alignment explanation
Indices: 25547511--25547557 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 23
25547501 ACGTCTCGTT
25547511 CTTTCCCTAACACTTCTTCGATG
1 CTTTCCCTAACACTTCTTCGATG
25547534 NCTTTCCCTAACACTTCTTCGATG
1 -CTTTCCCTAACACTTCTTCGATG
25547558 TCTAGGTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.09, T:0.38
Consensus pattern (23 bp):
CTTTCCCTAACACTTCTTCGATG
Found at i:25559498 original size:33 final size:32
Alignment explanation
Indices: 25559447--25559520 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 32
25559437 AAGTTTTTAT
* *
25559447 AAAATATTTTTAAGAAATTTATT-AAATAAGAAA
1 AAAATA-TTTTAAGAAATTCATTCAAA-AACAAA
* *
25559480 AAAATATTTTACATAAATTCATTCAAAAACTAA
1 AAAATATTTTA-AGAAATTCATTCAAAAACAAA
25559513 AAAATATT
1 AAAATATT
25559521 AACTTAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 5 0.14
33 27 0.77
34 3 0.09
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (32 bp):
AAAATATTTTAAGAAATTCATTCAAAAACAAA
Found at i:25560364 original size:28 final size:28
Alignment explanation
Indices: 25560324--25560378 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
25560314 GAATTCCTCG
25560324 TAATCATCATCATCAAGAAAATGAGTCA
1 TAATCATCATCATCAAGAAAATGAGTCA
25560352 TAATCATCATCATCAAGAAAATGAGTC
1 TAATCATCATCATCAAGAAAATGAGTC
25560379 TTCCCCTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.18, G:0.11, T:0.25
Consensus pattern (28 bp):
TAATCATCATCATCAAGAAAATGAGTCA
Found at i:25563261 original size:28 final size:28
Alignment explanation
Indices: 25563228--25563315 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
25563218 GTATCAGTAT
*
25563228 AGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
*
25563256 AGTGTGGGCCCTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
25563284 AATGTGGGCCTTAGCTCAATACAGTAATC
1 AGTGTGGGCCTTAGCCCAATACAGTAA-C
25563313 AGT
1 AGT
25563316 ACAATACAGT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 50 0.94
29 3 0.06
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:25563679 original size:27 final size:27
Alignment explanation
Indices: 25563649--25563711 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
25563639 TTTCATCTCC
* *
25563649 TAGGGGTATAACGGTCATTTTACCCTA
1 TAGGGGTATAACAGACATTTTACCCTA
** *
25563676 TAGGGGTATTTCAGACATTTTACCCTT
1 TAGGGGTATAACAGACATTTTACCCTA
*
25563703 TGGGGGTAT
1 TAGGGGTAT
25563712 TTTGGTCCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (27 bp):
TAGGGGTATAACAGACATTTTACCCTA
Found at i:25563712 original size:27 final size:27
Alignment explanation
Indices: 25563664--25563878 Score: 188
Period size: 27 Copynumber: 8.0 Consensus size: 27
25563654 GTATAACGGT
* *
25563664 CATTTTACCCTAT-AGGGGTATTTCAGA
1 CATTTTACCCTTTGA-GGGTATTTCGGA
* * *
25563691 CATTTTACCCTTTGGGGGTATTTTGGT
1 CATTTTACCCTTTGAGGGTATTTCGGA
* * * *
25563718 CCTTTTACCATTCGAGGGTATTTTGGTA
1 CATTTTACCCTTTGAGGGTATTTCGG-A
*
25563746 -ATTTTACCCTTTGAGGGTATTTCGGT
1 CATTTTACCCTTTGAGGGTATTTCGGA
* * *
25563772 CATTTTACCCTTCGGGGGTATTTCAGTA
1 CATTTTACCCTTTGAGGGTATTTC-GGA
*
25563800 -ATTTTACCTTTTGAGGGTATTTC-GA
1 CATTTTACCCTTTGAGGGTATTTCGGA
*
25563825 TAATTTTACCCTTTGAGGGTATTTC-GA
1 -CATTTTACCCTTTGAGGGTATTTCGGA
* * *
25563852 TAATTTTACCCTTCGAGCGTATTTCGG
1 -CATTTTACCCTTTGAGGGTATTTCGG
25563879 TCCCATTACG
Statistics
Matches: 155, Mismatches: 26, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
25 1 0.01
27 152 0.98
28 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTTTGAGGGTATTTCGGA
Found at i:25563737 original size:54 final size:54
Alignment explanation
Indices: 25563660--25563880 Score: 268
Period size: 54 Copynumber: 4.1 Consensus size: 54
25563650 AGGGGTATAA
* *
25563660 CGGTCATTTTACCCTATAG-GGGTATTTCAG-ACATTTTACCCTTTGGGGGTATTT
1 CGGTCATTTTACCCT-TCGAGGGTATTTCAGTA-ATTTTACCCTTTGAGGGTATTT
* * * **
25563714 TGGTCCTTTTACCATTCGAGGGTATTTTGGTAATTTTACCCTTTGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTT
* *
25563768 CGGTCATTTTACCCTTCGGGGGTATTTCAGTAATTTTACCTTTTGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTT
* * * * *
25563822 CGATAATTTTACCCTTTGAGGGTATTTC-GATAATTTTACCCTTCGAGCGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTTCAG-TAATTTTACCCTTTGAGGGTATTT
25563876 CGGTC
1 CGGTC
25563881 CCATTACGGC
Statistics
Matches: 141, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
53 3 0.02
54 137 0.97
55 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (54 bp):
CGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTT
Found at i:25563789 original size:81 final size:81
Alignment explanation
Indices: 25563665--25563881 Score: 274
Period size: 81 Copynumber: 2.7 Consensus size: 81
25563655 TATAACGGTC
* * * * *
25563665 ATTTTACCCTAT-AGGGGTATTTCAGACATTTTACCCTTTGGGGGTATTTTGGTCCTTTTACCAT
1 ATTTTACCCTTTGA-GGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCGGTCCTTTTACCAT
* *
25563729 TCGAGGGTATTTTGGTA
65 TCGAGGGTATTTCGATA
* ** *
25563746 ATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCAGTAATTTTACCTTT
1 ATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCGGTCCTTTTACCATT
*
25563811 TGAGGGTATTTCGATA
66 CGAGGGTATTTCGATA
* * * *
25563827 ATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTCGAGCGTATTTCGGTCC
1 ATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCGGTCC
25563882 CATTACGGCC
Statistics
Matches: 116, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
81 115 0.99
82 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (81 bp):
ATTTTACCCTTTGAGGGTATTTCGGTCATTTTACCCTTCGGGGGTATTTCGGTCCTTTTACCATT
CGAGGGTATTTCGATA
Found at i:25564572 original size:35 final size:35
Alignment explanation
Indices: 25564532--25564600 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
25564522 AAAAAGATTA
*
25564532 TTCGGCCA-AAGAAGAAAA-AAAGAAGAGAAGAAAGG
1 TTCGGCCAGAAGAA-AAAAGAAA-AAGAAAAGAAAGG
25564567 TTCGGCCAGAAGAAAAAAGAAAAAGAAAAGAAAG
1 TTCGGCCAGAAGAAAAAAGAAAAAGAAAAGAAAG
25564601 TAAAATGAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 23 0.74
36 8 0.26
ACGTcount: A:0.59, C:0.09, G:0.26, T:0.06
Consensus pattern (35 bp):
TTCGGCCAGAAGAAAAAAGAAAAAGAAAAGAAAGG
Found at i:25570081 original size:17 final size:16
Alignment explanation
Indices: 25570059--25570091 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
25570049 TCAAAGTCTC
25570059 CCTACAGTTTCCAGTTT
1 CCTACAGTTT-CAGTTT
25570076 CCTACAGTTTCAGTTT
1 CCTACAGTTTCAGTTT
25570092 ACTCTAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.18, C:0.27, G:0.12, T:0.42
Consensus pattern (16 bp):
CCTACAGTTTCAGTTT
Found at i:25570918 original size:28 final size:28
Alignment explanation
Indices: 25570879--25570967 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
25570869 TATCCAGTAC
*
25570879 CAGT-ACAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* *
25570906 CAGTAACAGTGTGGGACTTAGCTCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* * * * *
25570934 TAGTAATAATGTGGGCCTTAGTCCAGTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
25570962 CAGTAA
1 CAGTAA
25570968 TTAGTACAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
27 4 0.08
28 46 0.92
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:25571110 original size:26 final size:26
Alignment explanation
Indices: 25571081--25571151 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
25571071 CTAATATCGT
* * *
25571081 AGCAACGCTGCTAGTAATAATAATGC
1 AGCAAAGCTGCGAGTAACAATAATGC
*
25571107 AGCAAAGCTGCGAGTAACAGTAATGC
1 AGCAAAGCTGCGAGTAACAATAATGC
* * *
25571133 AACAAAGCTACCAGTAACA
1 AGCAAAGCTGCGAGTAACA
25571152 GTATATGTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.17
Consensus pattern (26 bp):
AGCAAAGCTGCGAGTAACAATAATGC
Found at i:25571152 original size:26 final size:26
Alignment explanation
Indices: 25571101--25571154 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
25571091 CTAGTAATAA
* * *
25571101 TAATGCAGCAAAGCTGCGAGTAACAG
1 TAATGCAACAAAGCTACCAGTAACAG
25571127 TAATGCAACAAAGCTACCAGTAACAG
1 TAATGCAACAAAGCTACCAGTAACAG
25571153 TA
1 TA
25571155 TATGTGGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (26 bp):
TAATGCAACAAAGCTACCAGTAACAG
Found at i:25571243 original size:32 final size:32
Alignment explanation
Indices: 25571202--25571269 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
25571192 TATCAGAATC
*
25571202 TCATGTCATAAATCATACGTGTATCTAGTATG
1 TCATGTCATAAACCATACGTGTATCTAGTATG
*
25571234 TCATGTCATAAACCATACGTGTATGTAGTATG
1 TCATGTCATAAACCATACGTGTATCTAGTATG
25571266 TCAT
1 TCAT
25571270 ACTCAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (32 bp):
TCATGTCATAAACCATACGTGTATCTAGTATG
Found at i:25571524 original size:108 final size:107
Alignment explanation
Indices: 25571362--25571642 Score: 379
Period size: 108 Copynumber: 2.6 Consensus size: 107
25571352 TATAACAGTC
* * * *
25571362 ATTTTACCCTATAGGGGTATTTCGGTCATTTTATCCTTCGGGGGTATTTCAGACATTTTACCCTT
1 ATTTTACCCTATAAGGGTATTTC-GTCATTTTACCCTTCGAGGGTATTTTAGACATTTTACCCTT
** * * *
25571427 TGGGGGTATTTTGGTCATTTTACCATTTAGGGATATTTTGGTA
65 CAGGGGTATTTTGATCATTTTACCATTCAGGGATATTTTGATA
25571470 ATTTTACCCTATAAGGGTATTTCAGTCATTTTACCCTTCGAGGGTATTTTAGACATTTTACCCTT
1 ATTTTACCCTATAAGGGTATTTC-GTCATTTTACCCTTCGAGGGTATTTTAGACATTTTACCCTT
25571535 CAGGGGTATTTTGATCATTTTACCATTCAGGGATATTTTGATA
65 CAGGGGTATTTTGATCATTTTACCATTCAGGGATATTTTGATA
* * * *
25571578 ATTTTACCCT-TCGAGGGTATTTCGATAATTTTAGCTTTC-AGGGTATTTTAGTA-ATTTTACCC
1 ATTTTACCCTAT-AAGGGTATTTCG-TCATTTTACCCTTCGAGGGTATTTTAG-ACATTTTACCC
25571640 TTC
63 TTC
25571643 GAGAGTTTTC
Statistics
Matches: 156, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
107 26 0.17
108 130 0.83
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (107 bp):
ATTTTACCCTATAAGGGTATTTCGTCATTTTACCCTTCGAGGGTATTTTAGACATTTTACCCTTC
AGGGGTATTTTGATCATTTTACCATTCAGGGATATTTTGATA
Found at i:25571687 original size:27 final size:27
Alignment explanation
Indices: 25571362--25571709 Score: 273
Period size: 27 Copynumber: 13.0 Consensus size: 27
25571352 TATAACAGTC
* *
25571362 ATTTTACCCTATAG-GGGTATTTCGGTC
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
* * *
25571389 ATTTTATCCTTCGGGGGTATTTCAG-A
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * * *
25571415 CATTTTACCCTTTGGGGGTATTTTGGTC
1 -ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
25571443 ATTTTACCATT-TAGGGATATTTTGGTA
1 ATTTTACCCTTCGAGGG-TATTTCGGTA
* * *
25571470 ATTTTACCCTAT-AAGGGTATTTCAGTC
1 ATTTTACCCT-TCGAGGGTATTTCGGTA
**
25571497 ATTTTACCCTTCGAGGGTATTTTAG-A
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * *
25571523 CATTTTACCCTTC-AGGGGTATTTTGATC
1 -ATTTTACCCTTCGA-GGGTATTTCGGTA
* * *
25571551 ATTTTACCATTC-AGGGATATTTTGATA
1 ATTTTACCCTTCGAGGG-TATTTCGGTA
*
25571578 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* * **
25571605 ATTTTAGCTTTC-AGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* *
25571631 ATTTTACCCTTCGAGAGT-TTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
25571657 ATTTTACCCTTCGAGGGTATTTCGGTA
1 ATTTTACCCTTCGAGGGTATTTCGGTA
* **
25571684 ATTTTACCATTCGTTGGTATTTCGGT
1 ATTTTACCCTTCGAGGGTATTTCGGT
25571710 CCCATTATAG
Statistics
Matches: 266, Mismatches: 42, Indels: 26
0.80 0.13 0.08
Matches are distributed among these distances:
26 55 0.21
27 202 0.76
28 9 0.03
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGGTA
Found at i:25575186 original size:21 final size:23
Alignment explanation
Indices: 25575143--25575188 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 23
25575133 GCTGCCGAAA
**
25575143 TTAAATAGATGATATAATGCTCC
1 TTAAATAGATGATATAAACCTCC
25575166 TTAAAT-GATG-TATAAACCTCC
1 TTAAATAGATGATATAAACCTCC
25575187 TT
1 TT
25575189 TGTAACAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 4 0.19
23 6 0.29
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (23 bp):
TTAAATAGATGATATAAACCTCC
Found at i:25575743 original size:50 final size:52
Alignment explanation
Indices: 25575617--25575748 Score: 144
Period size: 50 Copynumber: 2.6 Consensus size: 52
25575607 AAACTAAATG
* *
25575617 AGTTACTTAATGCA-AAGGCTTAATTTAATGATGCAGACTTAAACTAACATGGG
1 AGTTACTTAATGCATAA--CTTTATTTAATGATGCAGACTTAAACTAACATGGA
* ** * * *
25575670 AGTTACATAATGCATGTCATTATTT-ATGATGCATACTT-AACTAGCATGGA
1 AGTTACTTAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
*
25575720 AGTTACTTAATGCATAACTTTATTAAATG
1 AGTTACTTAATGCATAACTTTATTTAATG
25575749 CAAAACACAC
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
50 30 0.47
51 15 0.23
52 6 0.09
53 13 0.20
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (52 bp):
AGTTACTTAATGCATAACTTTATTTAATGATGCAGACTTAAACTAACATGGA
Found at i:25581314 original size:23 final size:23
Alignment explanation
Indices: 25581288--25581347 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
25581278 ACAGAATGCG
25581288 ATTTTTATAAAACAATCATGCAA
1 ATTTTTATAAAACAATCATGCAA
25581311 ATTTTTATAAAACAATCATGCAA
1 ATTTTTATAAAACAATCATGCAA
25581334 ATTTTTATAAAACA
1 ATTTTTATAAAACA
25581348 TCCTACCCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.37
Consensus pattern (23 bp):
ATTTTTATAAAACAATCATGCAA
Found at i:25581449 original size:20 final size:20
Alignment explanation
Indices: 25581417--25581478 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 20
25581407 CCAATTTGTG
*
25581417 GACAAACCACCAATAATGCA
1 GACAAGCCACCAATAATGCA
** * **
25581437 GACAAGCTTCCAATTATGTG
1 GACAAGCCACCAATAATGCA
*
25581457 GACAAGCCACCAGTAATGCA
1 GACAAGCCACCAATAATGCA
25581477 GA
1 GA
25581479 TATGCTTCTA
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.18, T:0.16
Consensus pattern (20 bp):
GACAAGCCACCAATAATGCA
Found at i:25581461 original size:40 final size:40
Alignment explanation
Indices: 25581407--25581513 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
25581397 CATCCAAACA
*
25581407 CCAATT-TGTGGACAAACCACCAATAATGCAGACAAGCTT
1 CCAATTATGTGGACAAGCCACCAATAATGCAGACAAGCTT
* * *
25581446 CCAATTATGTGGACAAGCCACCAGTAATGCAGATATGCTT
1 CCAATTATGTGGACAAGCCACCAATAATGCAGACAAGCTT
* * *
25581486 -CTAGTATTGTGCACAAGCCACCAATAAT
1 CCAATTA-TGTGGACAAGCCACCAATAAT
25581514 ACAAATAAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 10 0.17
40 48 0.83
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.23
Consensus pattern (40 bp):
CCAATTATGTGGACAAGCCACCAATAATGCAGACAAGCTT
Found at i:25585574 original size:15 final size:14
Alignment explanation
Indices: 25585542--25585588 Score: 69
Period size: 15 Copynumber: 3.4 Consensus size: 14
25585532 GTCTCTTTAG
*
25585542 GCATT-CATTTCAT
1 GCATTGCATTACAT
25585555 GCATTGCATTACATT
1 GCATTGCATTACA-T
25585570 GCATTGCATTACAT
1 GCATTGCATTACAT
25585584 GCATT
1 GCATT
25585589 AAAATCCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
13 5 0.16
14 12 0.39
15 14 0.45
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.40
Consensus pattern (14 bp):
GCATTGCATTACAT
Found at i:25587576 original size:18 final size:18
Alignment explanation
Indices: 25587553--25587590 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
25587543 CTATGAGCTC
25587553 AAAAAAATCAA-AAAATAA
1 AAAAAAATCAATAAAA-AA
25587571 AAAAAAATCAATAAAAAA
1 AAAAAAATCAATAAAAAA
25587589 AA
1 AA
25587591 CAAAGAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAAAATCAATAAAAAA
Found at i:25587586 original size:13 final size:12
Alignment explanation
Indices: 25587569--25587619 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
25587559 ATCAAAAAAT
25587569 AAAAAAAAATCA
1 AAAAAAAAATCA
25587581 ATAAAAAAAA-CA
1 A-AAAAAAAATCA
25587593 AAGAAGAAAAATCA
1 AA-AA-AAAAATCA
**
25587607 AAATCAAAATCA
1 AAAAAAAAATCA
25587619 A
1 A
25587620 GGTCAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 1 0.03
12 14 0.42
13 14 0.42
14 4 0.12
ACGTcount: A:0.76, C:0.10, G:0.04, T:0.10
Consensus pattern (12 bp):
AAAAAAAAATCA
Found at i:25587610 original size:32 final size:30
Alignment explanation
Indices: 25587553--25587613 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
25587543 CTATGAGCTC
* *
25587553 AAAAAAATCAAAAAATAAAAAAAAATCAAT
1 AAAAAAAACAAAAAAGAAAAAAAAATCAAT
*
25587583 AAAAAAAACAAAGAAGAAAAATCAAAATCAA
1 AAAAAAAACAAAAAAGAAAAA--AAAATCAA
25587614 AATCAAGGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 18 0.69
32 8 0.31
ACGTcount: A:0.79, C:0.08, G:0.03, T:0.10
Consensus pattern (30 bp):
AAAAAAAACAAAAAAGAAAAAAAAATCAAT
Found at i:25588565 original size:6 final size:7
Alignment explanation
Indices: 25588546--25588588 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
25588536 AAAAAAATGG
25588546 TGAAAAA
1 TGAAAAA
25588553 TGAAAAA
1 TGAAAAA
25588560 TGAAAAA
1 TGAAAAA
25588567 TG-AAAA
1 TGAAAAA
25588573 TGAAAAA
1 TGAAAAA
25588580 -GTAAAAA
1 TG-AAAAA
25588587 TG
1 TG
25588589 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 7 0.21
7 25 0.76
8 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:25588572 original size:20 final size:20
Alignment explanation
Indices: 25588549--25588588 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25588539 AAAATGGTGA
25588549 AAAATGAAAAA-TGAAAAATG
1 AAAATGAAAAAGT-AAAAATG
25588569 AAAATGAAAAAGTAAAAATG
1 AAAATGAAAAAGTAAAAATG
25588589 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATGAAAAAGTAAAAATG
Found at i:25590067 original size:44 final size:44
Alignment explanation
Indices: 25589970--25590310 Score: 136
Period size: 44 Copynumber: 7.3 Consensus size: 44
25589960 GGAGATGGTG
**
25589970 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGT
* * * *
25590014 AATCCTATCTGCTTGAGATTACAGTGGAGCGGATT-AAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT--AGT
* * * *** *
25590058 GATCTTATCTCTCTGA-AGTTATAGTAGAGTAGATCTCATCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGATTGAAAATAGT
* * * **
25590112 AATCTTATCTCCCTGATATTACAGCGGAGTAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGT
* *
25590156 AATCCTATCTCCCTGAGATTACAGTGCAGCAGATT-AAAATAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAAT--AGT
* * * ** *
25590200 GATCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGA
1 AATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAAATAGT
* **
25590254 AATCTTATCTCCTTGAGATTACAGTGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGT
*
25590298 AATCCTATCTCCC
1 AATCTTATCTCCC
25590311 AAGTGGTGCA
Statistics
Matches: 221, Mismatches: 44, Indels: 64
0.67 0.13 0.19
Matches are distributed among these distances:
43 9 0.04
44 133 0.60
45 5 0.02
46 1 0.00
47 4 0.02
49 3 0.01
51 4 0.02
52 1 0.00
53 5 0.02
54 48 0.22
55 8 0.04
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAAATAGT
Found at i:25590226 original size:142 final size:142
Alignment explanation
Indices: 25589970--25590310 Score: 574
Period size: 142 Copynumber: 2.4 Consensus size: 142
25589960 GGAGATGGTG
* *
25589970 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTGCTTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
* * * * *
25590035 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCTCATCAG
66 CAGTGCAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
25590100 ATTGAAGCCAGA
131 ATTGAAGCCAGA
* * *
25590112 AATCTTATCTCCCTGATATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
25590177 CAGTGCAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
66 CAGTGCAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
*
25590242 ATTGAAGCTAGA
131 ATTGAAGCCAGA
*
25590254 AATCTTATCTCCTTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCC
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCC
25590311 AAGTGGTGCA
Statistics
Matches: 184, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 184 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (142 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
CAGTGCAGCAGATTAAAATAAAGGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAG
ATTGAAGCCAGA
Found at i:25590401 original size:50 final size:50
Alignment explanation
Indices: 25590328--25590686 Score: 292
Period size: 50 Copynumber: 7.2 Consensus size: 50
25590318 GCAGTAGAGT
* *
25590328 AGATTAAAGCGACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * *
25590378 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGAAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCC-GAC-ATTGCAGTTAAAA
* * * *
25590428 AGATTAAAGCCACATCGGTGAATCTTGCTTTCTCGACATTGCAGCTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * * * ** *
25590478 GGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
25590528 AGATTAAAGCCACAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCT-TCCCCGACATTGCAGTTAAAA
* * * * * * ** * * * **
25590578 AGACTAAAGCCACAACTGTGAGTGTTACTTCCCTGGTAATCCAGTGAAGT
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
25590628 AGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTCCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
25590678 GGATTAAAG
1 AGATTAAAG
25590687 TGACCACGAC
Statistics
Matches: 231, Mismatches: 72, Indels: 12
0.73 0.23 0.04
Matches are distributed among these distances:
49 7 0.03
50 219 0.95
51 5 0.02
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:25590443 original size:100 final size:100
Alignment explanation
Indices: 25590328--25590837 Score: 494
Period size: 100 Copynumber: 5.1 Consensus size: 100
25590318 GCAGTAGAGT
* * *
25590328 AGATTAAAGCGACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
25590393 CAGCGAATCTTACTCCCCAGGC-GATGCAGTGAAAC
66 CAGCGAATCTTACTCCCCAGGCAG-TGCAGTGAAAC
* * * *
25590428 AGATTAAAGCCACATCGGTGAATCTTGCTTTCTCGACATTGCAGCTAAAAGGATTAAAGCTACAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
* *
25590493 CAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAAC
66 CAGCGAATCTTACTCCCCAGGCAGTGCAGTGAAAC
* * *
25590528 AGATTAAAGCCACAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTAAAAAGACTAAAGCCACA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACA
* * * * * * * * * **
25590592 ACTGTGAGTGTTACTTCCCTGGTAATCCAGTGAAGT
65 ACAGCGAATCTTACTCCCCAGGCAGTGCAGTGAAAC
* * * *
25590628 AGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTCCAGTTAAAAGGATTAAAG-TGACC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCT-ACA
* * ** *
25590692 AC-GACGAATCTCACTCTCTCAACCAGTGCAGT-AGAGC
65 ACAG-CGAATCTTACTC-CCCAGGCAGTGCAGTGA-AAC
* * * ** **
25590729 AGATTAAAGCCATAACAGTGAATCTTGCTTTTCCGACATTGCAGCGAAGCAGATTAAAG-TCACA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCT-ACA
* * * * *
25590793 A-TGACAAATATTACTTTCCCAGGCAGTGCAGTGGAAC
65 ACAG-CGAATCTTAC-TCCCCAGGCAGTGCAGTGAAAC
25590830 AGATTAAA
1 AGATTAAA
25590838 ACTACAACAG
Statistics
Matches: 334, Mismatches: 66, Indels: 19
0.80 0.16 0.05
Matches are distributed among these distances:
99 5 0.01
100 228 0.68
101 100 0.30
102 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
CAGCGAATCTTACTCCCCAGGCAGTGCAGTGAAAC
Found at i:25594916 original size:15 final size:14
Alignment explanation
Indices: 25594881--25594928 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
25594871 GTCTCTTTAG
*
25594881 GCATT-CATTTCAT
1 GCATTGCATTACAT
25594894 GCATTTGCATTACATT
1 GCA-TTGCATTACA-T
25594910 GCATTGCATTACAT
1 GCATTGCATTACAT
25594924 GCATT
1 GCATT
25594929 AAAATCCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
13 3 0.10
14 8 0.26
15 16 0.52
16 4 0.13
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (14 bp):
GCATTGCATTACAT
Found at i:25596916 original size:18 final size:18
Alignment explanation
Indices: 25596893--25596931 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
25596883 CTATGAGCTC
25596893 AAAAAAATCAA-AAAATAA
1 AAAAAAATCAATAAAA-AA
25596911 AAAAAAATCAATAAAAAA
1 AAAAAAATCAATAAAAAA
25596929 AAA
1 AAA
25596932 CAAAGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.85, C:0.05, G:0.00, T:0.10
Consensus pattern (18 bp):
AAAAAAATCAATAAAAAA
Found at i:25596923 original size:14 final size:14
Alignment explanation
Indices: 25596906--25596948 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
25596896 AAAATCAAAA
25596906 AATAAAAAAAAATC
1 AATAAAAAAAAATC
25596920 AATAAAAAAAAA-C
1 AATAAAAAAAAATC
*
25596933 AA-AGAAGAAAAATC
1 AATA-AAAAAAAATC
25596947 AA
1 AA
25596949 AATCAAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 10 0.38
14 15 0.58
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.09
Consensus pattern (14 bp):
AATAAAAAAAAATC
Found at i:25596949 original size:14 final size:12
Alignment explanation
Indices: 25596909--25596960 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 12
25596899 ATCAAAAAAT
25596909 AAAAAAAAATCA
1 AAAAAAAAATCA
*
25596921 ATAAAAAAAAACA
1 A-AAAAAAAATCA
25596934 AAGAAGAAAAATCA
1 AA-AA-AAAAATCA
**
25596948 AAATCAAAATCA
1 AAAAAAAAATCA
25596960 A
1 A
25596961 GGTCAAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 10 0.30
13 14 0.42
14 9 0.27
ACGTcount: A:0.77, C:0.10, G:0.04, T:0.10
Consensus pattern (12 bp):
AAAAAAAAATCA
Found at i:25597906 original size:6 final size:7
Alignment explanation
Indices: 25597887--25597929 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
25597877 AAAAAAATGG
25597887 TGAAAAA
1 TGAAAAA
25597894 TGAAAAA
1 TGAAAAA
25597901 TGAAAAA
1 TGAAAAA
25597908 TG-AAAA
1 TGAAAAA
25597914 TGAAAAA
1 TGAAAAA
25597921 -GTAAAAA
1 TG-AAAAA
25597928 TG
1 TG
25597930 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 7 0.21
7 25 0.76
8 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:25597913 original size:20 final size:20
Alignment explanation
Indices: 25597890--25597929 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
25597880 AAAATGGTGA
25597890 AAAATGAAAAA-TGAAAAATG
1 AAAATGAAAAAGT-AAAAATG
25597910 AAAATGAAAAAGTAAAAATG
1 AAAATGAAAAAGTAAAAATG
25597930 GAGAGGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATGAAAAAGTAAAAATG
Found at i:25599384 original size:44 final size:44
Alignment explanation
Indices: 25599311--25599701 Score: 200
Period size: 44 Copynumber: 8.3 Consensus size: 44
25599301 AGAGATGGTG
* *
25599311 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT
* * * * **
25599355 CATCCTATCTGCTTGAGATTACAGTGGAGCGGATT-AAAATAAAG-
1 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGT
* * * * *
25599399 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCTCATCAGATTGAAGCCAGA
1 AATCCTATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGATTGAAGCTAGT
* * *
25599453 AATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGT
1 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT
25599497 AATCCTATCTCCCTGAGATTACAGTGCAAGTGGAGCAGATTGAAGCTAGT
1 AATCCTATCTCCCTGAGATT--A---C-AGTGGAGCAGATTGAAGCTAGT
* **
25599547 AATCCTATCTCCCTGAGATTACAGTGCAGCAGATT-AAAATAAAG-
1 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCT--AGT
* * ** * *
25599591 GATCTTATCTCTAT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGA
1 AATCCTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGATTGAAGCTAGT
* * *
25599645 AATCTTTTCTCCTTGAGATTACAGTGGAGCAGATTGAAGCTAGT
1 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT
25599689 AATCCTATCTCCC
1 AATCCTATCTCCC
25599702 AAGTGGTGCA
Statistics
Matches: 263, Mismatches: 46, Indels: 76
0.68 0.12 0.20
Matches are distributed among these distances:
43 9 0.03
44 131 0.50
45 6 0.02
46 2 0.01
47 4 0.02
48 1 0.00
49 4 0.02
50 40 0.15
51 4 0.02
52 1 0.00
53 5 0.02
54 48 0.18
55 8 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGT
Found at i:25599473 original size:98 final size:98
Alignment explanation
Indices: 25599340--25599679 Score: 372
Period size: 98 Copynumber: 3.5 Consensus size: 98
25599330 TACAGCGGAG
** * * *
25599340 CAGATTGAAGCTAGTCATCCTATCTGCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
*
25599405 ATCTCTCTGAAGTTACAGTAGAGTAGATCTCAT
66 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * * * ** *
25599438 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT--AGTAATC
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAAG-GATC
* * * *
25599501 CTATCTCCCTG-AGATTACAGT-GCA--AG-T-GGAG
64 TTATCTCTCTGAAG-TTACAGTAG-AGTAGATCGCAT
* *
25599532 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAGCAGATTAAAATAAAGGATCTT
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
* *
25599597 ATCTCTATAAAGTTACAGTAGAGTAGATCGCAT
66 ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* * *
25599630 CAGATTGAAGCTAGAAATCTTTTCTCCTTGAGATTACAGTGGAGCAGATT
1 CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGTGGAGCAGATT
25599680 GAAGCTAGTA
Statistics
Matches: 193, Mismatches: 37, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
93 3 0.02
94 63 0.33
95 6 0.03
96 4 0.02
97 6 0.03
98 108 0.56
99 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (98 bp):
CAGATTGAAGCTAGAAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTT
ATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
Found at i:25599555 original size:192 final size:192
Alignment explanation
Indices: 25599336--25599701 Score: 615
Period size: 192 Copynumber: 1.9 Consensus size: 192
25599326 AGATTACAGC
* * * * *
25599336 GGAGCAGATTGAAGCTAGTCATCCTATCTGCTTGAGATTACAGTGGAGCGGATTAAAATAAAGGA
1 GGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAGCAGATTAAAATAAAGGA
* * *
25599401 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCTCATCAGATTGAAGCCAGAAATCTTATCTCCC
66 TCTTATCTCTATAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
*
25599466 TGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAAGT
131 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAAGT
25599528 GGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAGCAGATTAAAATAAAGGA
1 GGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAGCAGATTAAAATAAAGGA
* * *
25599593 TCTTATCTCTATAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTTTCTCCT
66 TCTTATCTCTATAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
*
25599658 TGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCTATCTCCC
131 TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCC
25599702 AAGTGGTGCA
Statistics
Matches: 161, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
192 161 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (192 bp):
GGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAGCAGATTAAAATAAAGGA
TCTTATCTCTATAAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCC
TGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAAGT
Found at i:25599558 original size:50 final size:47
Alignment explanation
Indices: 25599438--25599575 Score: 192
Period size: 50 Copynumber: 2.9 Consensus size: 47
25599428 TAGATCTCAT
* * *
25599438 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACA--GC-GGAG
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAGGAG
*
25599482 TAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAAGTGGAG
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGC-A--GGAG
25599532 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAG
1 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAG
25599576 CAGATTAAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
44 34 0.41
46 2 0.02
47 1 0.01
49 1 0.01
50 45 0.54
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (47 bp):
CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGCAGGAG
Found at i:25599714 original size:98 final size:96
Alignment explanation
Indices: 25599414--25599722 Score: 317
Period size: 98 Copynumber: 3.2 Consensus size: 96
25599404 TATCTCTCTG
* * *
25599414 AAGTTACAGTAGAGTAGATCTCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCG
1 AAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
*
25599479 GAGTAGATTGAAGCTAGTAATCCTATCTCCC
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCC
* * * * *
25599510 TGAGATTACAGT-GCA--AG-T-GGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACA
1 -AAG-TTACAGTAG-AGTAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACA
* ** * * **
25599570 GTGCAGCAGATT-AAAATAAAG-GATCTTATCTCTATA
63 GTGGAGCAGATTGAAGCT--AGTAATCCTATCTC--CC
* *
25599606 AAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTTTCTCCTTGAGATTACAGTG
1 AAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
25599671 GAGCAGATTGAAGCTAGTAATCCTATCTCCC
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCC
*
25599702 AAGTGGTGCAGTAGAGTAGAT
1 AAGT--TACAGTAGAGTAGAT
25599723 TAAAGCGACA
Statistics
Matches: 166, Mismatches: 31, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
93 3 0.02
94 62 0.37
95 6 0.04
96 8 0.05
97 6 0.04
98 78 0.47
99 3 0.02
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (96 bp):
AAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTG
GAGCAGATTGAAGCTAGTAATCCTATCTCCC
Found at i:25599792 original size:50 final size:50
Alignment explanation
Indices: 25599719--25600184 Score: 301
Period size: 50 Copynumber: 9.3 Consensus size: 50
25599709 GCAGTAGAGT
* *
25599719 AGATTAAAGCGACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * *
25599769 AGATTAAAGCTACAACAGCGAATCTTAC-TCCCCAGGCGA-TGCAGTGAAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCC-GAC-ATTGCAGTTAAAA
* * * *
25599819 AGATTAAAGCCACATCGGTGAATCTTGCTTTCTCGACATTGCAGCTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * * * ** *
25599869 GGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
*
25599919 AGATTAAAGCCACAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCT-TCCCCGACATTGCAGTTAAAA
* * * * * * ** * * * **
25599969 AGACTAAAGCCACAACTGTGAGTGTTACTTCCCTGGTAATCCAGTGAAGT
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
25600019 AGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTCCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
** * ** ** * * * * **
25600069 AGATTAAAGTGACCACGACGAATCTCACTCTCTCAGCCAGTGCAG-TAGAGC
1 AGATTAAAGCCACAACGGTGAATCTTGCT-TCCCCGACATTGCAGTTA-AAA
* * * ** *
25600120 AGATTAAAGTCATAACAGTGAATCTTGCTTTTCCGACATTGCAGCTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* *
25600170 GGATTAAAGTCACAA
1 AGATTAAAGCCACAA
25600185 TGACAAATCT
Statistics
Matches: 304, Mismatches: 103, Indels: 18
0.72 0.24 0.04
Matches are distributed among these distances:
49 7 0.02
50 259 0.85
51 38 0.12
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:25599834 original size:100 final size:100
Alignment explanation
Indices: 25599719--25600228 Score: 523
Period size: 100 Copynumber: 5.1 Consensus size: 100
25599709 GCAGTAGAGT
* * *
25599719 AGATTAAAGCGACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
*
25599784 CAGCGAATCTTACTCCCCAGGCGATGCAGTGAAAC
66 CAGCGAATCTTACTTCCCAGGCGATGCAGTGAAAC
* * * *
25599819 AGATTAAAGCCACATCGGTGAATCTTGCTTTCTCGACATTGCAGCTAAAAGGATTAAAGCTACAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
*
25599884 CAGCGAATCTTACTTCCCAGGC-AGTGCAGTGGAAC
66 CAGCGAATCTTACTTCCCAGGCGA-TGCAGTGAAAC
* * *
25599919 AGATTAAAGCCACAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTAAAAAGACTAAAGCCACA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAAGATTAAAGCTACA
* * * * * ** * **
25599983 ACTGTGAGTGTTACTTCCCTGGTAATCCAGTGAAGT
65 ACAGCGAATCTTACTTCCCAGGCGATGCAGTGAAAC
* * *
25600019 AGATTAAAGCCACAACGGTAAATCTTGCTTTCCCGACATTCCAGTTAAAAAGATTAAAG-TGACC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCT-ACA
* * * *
25600083 AC-GACGAATCTCACTCTCTCA-GCCAGTGCAGT-AGAGC
65 ACAG-CGAATCTTACT-TCCCAGGCGA-TGCAGTGA-AAC
* * * * * *
25600120 AGATTAAAGTCATAACAGTGAATCTTGCTTTTCCGACATTGCAGCTAAAAGGATTAAAG-TCACA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCT-ACA
* * * *
25600184 A-TGACAAATCTTACTTTCCCAGGCGGTGCAGTGGAAC
65 ACAG-CGAATCTTAC-TTCCCAGGCGATGCAGTGAAAC
25600221 AGATTAAA
1 AGATTAAA
25600229 ACTACGACAG
Statistics
Matches: 340, Mismatches: 57, Indels: 25
0.81 0.14 0.06
Matches are distributed among these distances:
99 6 0.02
100 230 0.68
101 101 0.30
102 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAA
CAGCGAATCTTACTTCCCAGGCGATGCAGTGAAAC
Found at i:25606266 original size:9 final size:9
Alignment explanation
Indices: 25606252--25606285 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
25606242 GGCTCCTACT
25606252 GAGTTGAAA
1 GAGTTGAAA
25606261 GAGTTGAAA
1 GAGTTGAAA
25606270 GAGTT-ACAA
1 GAGTTGA-AA
25606279 GAGTTGA
1 GAGTTGA
25606286 CAGAAATGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.41, C:0.03, G:0.32, T:0.24
Consensus pattern (9 bp):
GAGTTGAAA
Found at i:25609963 original size:51 final size:50
Alignment explanation
Indices: 25609841--25609975 Score: 153
Period size: 51 Copynumber: 2.7 Consensus size: 50
25609831 ATGTTCGGTT
* * ** *
25609841 CACATAGCAGCCTGCACATAGTGCTACACATGTGACCCTACCATCTGATA
1 CACATAGCAGCCTGCACATAGTACTACACACGTGACCAAACCATCCGATA
* * * * * *
25609891 CACGTAGTAGCCTGCATATAGTACTACACACGTGATCGAAACTATCCGGTA
1 CACATAGCAGCCTGCACATAGTACTACACACGTGA-CCAAACCATCCGATA
*
25609942 CGCATAGCAGCCTGCACATAGTACTACACACGTG
1 CACATAGCAGCCTGCACATAGTACTACACACGTG
25609976 GCCATCACTT
Statistics
Matches: 69, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
50 30 0.43
51 39 0.57
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (50 bp):
CACATAGCAGCCTGCACATAGTACTACACACGTGACCAAACCATCCGATA
Found at i:25626922 original size:25 final size:25
Alignment explanation
Indices: 25626894--25626962 Score: 84
Period size: 27 Copynumber: 2.7 Consensus size: 25
25626884 CCTGATATAT
25626894 GGCTCTTCGGAGCTTCCTAATTAAA
1 GGCTCTTCGGAGCTTCCTAATTAAA
* *
25626919 GGCTCTTTCAAGAGCTTCCTAATTAAT
1 GGCTC-TTC-GGAGCTTCCTAATTAAA
* *
25626946 GGCTCTCCGGACCTTCC
1 GGCTCTTCGGAGCTTCC
25626963 CAATAATTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.32
26 5 0.14
27 20 0.54
ACGTcount: A:0.20, C:0.29, G:0.19, T:0.32
Consensus pattern (25 bp):
GGCTCTTCGGAGCTTCCTAATTAAA
Found at i:25637893 original size:14 final size:14
Alignment explanation
Indices: 25637874--25637933 Score: 68
Period size: 14 Copynumber: 4.1 Consensus size: 14
25637864 AGCCTCTAAC
25637874 TTACACAATGAATT
1 TTACACAATGAATT
25637888 TTACACAATGAATTT
1 TTACACAATGAA-TT
*
25637903 TCTATCACCCAT-AATT
1 T-TA-CA-CAATGAATT
25637919 TTACACAATGAATT
1 TTACACAATGAATT
25637933 T
1 T
25637934 ACTTACTCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 3 0.08
14 19 0.49
15 5 0.13
16 5 0.13
17 4 0.10
18 3 0.08
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (14 bp):
TTACACAATGAATT
Found at i:25640623 original size:23 final size:22
Alignment explanation
Indices: 25640580--25640623 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
25640570 TTCTAAGTCG
25640580 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
25640603 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
25640624 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:25640732 original size:45 final size:45
Alignment explanation
Indices: 25640668--25640761 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
25640658 AACAGATACT
* * *
25640668 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
*
25640713 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
25640758 CGGT
1 CGGT
25640762 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATAATGTC
Found at i:25640824 original size:50 final size:50
Alignment explanation
Indices: 25640763--25640950 Score: 207
Period size: 50 Copynumber: 3.7 Consensus size: 50
25640753 ATGTTCGGTT
* * * *
25640763 CACATAGTAGCCTGCACATAGTGCTACACATGTGACCCTACCATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCCTATCATCTGGTA
* *** * *
25640813 CACTTAGTAGCCTGCACATAGTACTACACACGTGATCGAAATTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCCTATCATCTGGTA
* * * *
25640864 CGCATAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCATTTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCCTATCATCT-GGTA
* *
25640914 CACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
25640951 ATCACTTTCA
Statistics
Matches: 110, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
49 4 0.04
50 66 0.60
51 40 0.36
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCCTATCATCTGGTA
Found at i:25640940 original size:101 final size:101
Alignment explanation
Indices: 25640765--25640948 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 101
25640755 GTTCGGTTCA
* * *
25640765 CATAGTAGCCTGCACATAGTGCTACACATGTGACCCTACCATCTGATACACTTAGTAGCCTGCAC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCCTACCATCTGATACACGTAGTAGCCTGCAC
25640830 ATAGTACTACACACGTGATCGAAATTATCCGGTACG
66 ATAGTACTACACACGTGATCGAAATTATCCGGTACG
* * *
25640866 CATAGTAGCCTGCACATAGTACTACACATGCGA-CCTATCATTTCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCCTACCATCT-GATACACGTAGTAGCCTGCA
*
25640930 CTTAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
25640949 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 8 0.11
101 67 0.89
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCCTACCATCTGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAATTATCCGGTACG
Found at i:25643392 original size:20 final size:21
Alignment explanation
Indices: 25643339--25643394 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
25643329 TATGATCTTC
25643339 ATAGATATTTAGTA-TTGTACA
1 ATAGA-ATTTAGTATTTGTACA
*
25643360 ATA-AATGTT-GTATTTGTA-G
1 ATAGAAT-TTAGTATTTGTACA
25643379 ATAGAATTTAGTATTT
1 ATAGAATTTAGTATTT
25643395 AAAGCATGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
19 10 0.33
20 17 0.57
21 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.46
Consensus pattern (21 bp):
ATAGAATTTAGTATTTGTACA
Found at i:25645632 original size:29 final size:30
Alignment explanation
Indices: 25645591--25645652 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
25645581 ATTTATGAGC
25645591 TTTAGGGAAAAAG-TGTAAATATGCAAAAG
1 TTTAGGGAAAAAGTTGTAAATATGCAAAAG
** * * *
25645620 TTTAGGGGCAAAGTTGTAATTTTGCCAAAG
1 TTTAGGGAAAAAGTTGTAAATATGCAAAAG
25645650 TTT
1 TTT
25645653 GAGTCAAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.32
Consensus pattern (30 bp):
TTTAGGGAAAAAGTTGTAAATATGCAAAAG
Found at i:25645870 original size:18 final size:17
Alignment explanation
Indices: 25645837--25645875 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
25645827 TTTTATAATT
25645837 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
25645855 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
25645872 TGTG
1 TGTG
25645876 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Done.