Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 45 of 193
Found at i:13730517 original size:15 final size:15
Alignment explanation
Indices: 13730497--13730526 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
13730487 AATAACAATT
13730497 AACATATAATATAAA
1 AACATATAATATAAA
13730512 AACATATAATATAAA
1 AACATATAATATAAA
13730527 GTATATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (15 bp):
AACATATAATATAAA
Found at i:13738473 original size:20 final size:20
Alignment explanation
Indices: 13738450--13738513 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 20
13738440 TTTAATTTTT
13738450 AAAAATCTAATTTTTTTTAAA
1 AAAAATCTAATTTTTTTT-AA
* *
13738471 AAAAATACT-A-CTTTTCTAA
1 AAAAAT-CTAATTTTTTTTAA
* *
13738490 AAAAATCACAATTTTTCTTAA
1 AAAAATC-TAATTTTTTTTAA
13738511 AAA
1 AAA
13738514 TTAAAGTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 1 0.03
19 8 0.24
20 6 0.18
21 16 0.48
22 2 0.06
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATCTAATTTTTTTTAA
Found at i:13738649 original size:164 final size:160
Alignment explanation
Indices: 13738331--13738667 Score: 466
Period size: 164 Copynumber: 2.1 Consensus size: 160
13738321 TAAAAAAAAT
* * * * *
13738331 AAAATCACTACTTTTCTTAAAAATTAAAATTTTTATTTTGAAATGATTAAAAAAGTCATTTTGTT
1 AAAATCACAACTTTTCTTAAAAATTAAAATTTTTATTTCGAAATGATTAAAAAAATAACTTTGTT
*
13738396 TAAAAAATTTAAACCTTTTTCATTAAAATGACTAAAAAACATATTTTAATTTTTAAAAATCTAAT
66 TAAAAAATTTAAACCTTTTTCATTAAAATGACTAAAAAACATATTTTAATTTTTAAAAATCTAAA
13738461 TTTTTTTAAAAAAAATACTACTTTTCTAAA
131 TTTTTTTAAAAAAAATACTACTTTTCTAAA
* *
13738491 AAAATCACAATTTTTCTTAAAAATTAAAGTTTTTATTTCGAAAT-AGTTAAAAACAATAAAACTT
1 AAAATCACAACTTTTCTTAAAAATTAAAATTTTTATTTCGAAATGA-TTAAAAA-AAT--AACTT
*
13738555 TGTTTAAAAAATTTTAAA-CTTTTTCATTTAAAATGACTAAAAAACA-ATTTTTTATTTTTAAAA
62 TGTTTAAAAAA-TTTAAACCTTTTTCA-TTAAAATGACTAAAAAACATA-TTTTAATTTTTAAAA
* * *
13738618 ATCTAAATTTTTTTAAAAAAATTATTACTTTTCT-TA
124 ATCTAAATTTTTTTAAAAAAAATACTACTTTTCTAAA
*
13738654 AAAATCAAAACTTT
1 AAAATCACAACTTT
13738668 ATTTCGGAAT
Statistics
Matches: 156, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
159 1 0.01
160 47 0.30
161 2 0.01
163 36 0.23
164 70 0.45
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (160 bp):
AAAATCACAACTTTTCTTAAAAATTAAAATTTTTATTTCGAAATGATTAAAAAAATAACTTTGTT
TAAAAAATTTAAACCTTTTTCATTAAAATGACTAAAAAACATATTTTAATTTTTAAAAATCTAAA
TTTTTTTAAAAAAAATACTACTTTTCTAAA
Found at i:13738816 original size:24 final size:24
Alignment explanation
Indices: 13738750--13738817 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 24
13738740 ATTTTTATTT
* * *
13738750 TTAAAAATCTAAATTTTGTTTTTT
1 TTAAAAATCAAAATTTTATTTTTC
**
13738774 TTCAAAAA--AAAATACTATTTTTC
1 TT-AAAAATCAAAATTTTATTTTTC
13738797 TTAAAAATCAAAATTTTATTT
1 TTAAAAATCAAAATTTTATTT
13738818 CGAAATAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
22 5 0.15
23 12 0.35
24 12 0.35
25 5 0.15
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (24 bp):
TTAAAAATCAAAATTTTATTTTTC
Found at i:13738851 original size:49 final size:48
Alignment explanation
Indices: 13738651--13738862 Score: 128
Period size: 49 Copynumber: 4.4 Consensus size: 48
13738641 ATTACTTTTC
* * * *
13738651 TTAAAAATCAAAACTTTATTTCGGAATAATTAAAAAATAAAAATTTGT
1 TTAAAAATCAAAATTTTATTTCGAAATAATTAAAAAATAAAATTTTAT
* * * * * *
13738699 TTAAAAATTTAAACTTTT-TCCTTCAAAAT-ATTAAAAAACAGATTTTTATTT
1 TTAAAAA-TCAAAATTTTAT--TTCGAAATAATTAAAAAATAAAATTTTA--T
* * **** * **
13738750 TTAAAAATCTAAATTTTGTTT-TTTTTCAA-AAAAAAATACTATTTT-T
1 TTAAAAATCAAAATTTTATTTCGAAAT-AATTAAAAAATAAAATTTTAT
13738796 CTTAAAAATCAAAATTTTATTTCGAAATAATTAAAAAATCAAAATTTTAT
1 -TTAAAAATCAAAATTTTATTTCGAAATAATTAAAAAAT-AAAATTTTAT
**
13738846 TTAAAAATTTAAATTTT
1 TTAAAAATCAAAATTTT
13738863 TTCCTTTAAA
Statistics
Matches: 118, Mismatches: 33, Indels: 25
0.67 0.19 0.14
Matches are distributed among these distances:
46 1 0.01
47 21 0.18
48 17 0.14
49 55 0.47
50 15 0.13
51 9 0.08
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (48 bp):
TTAAAAATCAAAATTTTATTTCGAAATAATTAAAAAATAAAATTTTAT
Found at i:13738906 original size:147 final size:141
Alignment explanation
Indices: 13738488--13738927 Score: 530
Period size: 147 Copynumber: 3.0 Consensus size: 141
13738478 CTACTTTTCT
* * * * *
13738488 AAAAAAATCACAATTTTTCTTAAAAATTAAAGTTTTTATTTCGAAATAGTTAAAAACAATAAAAC
1 AAAAAAAT-ACTATTTTTCTTAAAAATCAAA-ATTTTATTTCGAAATAATT-AAAA-AATAAAAA
*
13738553 TTTGTTTAAAAAATTTTAAACTTTTTCATTTAAAATGACTAAAAAACAATTTTTTATTTTTAAAA
62 TTTGTTT-AAAAA-TTTAAACTTTTTCCTTTAAAA-GACTAAAAAACAA-TTTTTATTTTTAAAA
13738618 ATCTAAA----TTTTTTTA
123 ATCTAAATTTTTTTTTTTA
* * * * *
13738633 AAAAAATTATTACTTTTCTTAAAAATCAAAACTTTATTTCGGAATAATTAAAAAATAAAAATTTG
1 AAAAAAATACTATTTTTCTTAAAAATCAAAATTTTATTTCGAAATAATTAAAAAATAAAAATTTG
* * *
13738698 TTTAAAAATTTAAACTTTTTCCTTCAAAATATTAAAAAACAGATTTTTATTTTTAAAAATCTAAA
66 TTTAAAAATTTAAACTTTTTCCTTTAAAAGACTAAAAAACA-ATTTTTATTTTTAAAAATCTAAA
13738763 TTTTGTTTTTTTTCAA
130 -TTT-TTTTTTTT--A
*
13738779 AAAAAAATACTATTTTTCTTAAAAATCAAAATTTTATTTCGAAATAATTAAAAAATCAAAATTTT
1 AAAAAAATACTATTTTTCTTAAAAATCAAAATTTTATTTCGAAATAATTAAAAAAT-AAAAATTT
* *
13738844 ATTTAAAAATTTAAATTTTTTCCTTTAAAAGGACT-AAAAACATATTTTTATTTTTAAAAATCTA
65 GTTTAAAAATTTAAACTTTTTCCTTTAAAA-GACTAAAAAACA-ATTTTTATTTTTAAAAATCTA
* *
13738908 AATATTTTTTTCTA
128 AATTTTTTTTTTTA
13738922 AAAAAA
1 AAAAAA
13738928 TTTATTTTCC
Statistics
Matches: 256, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
138 32 0.12
139 20 0.08
140 5 0.02
141 14 0.05
142 4 0.02
143 22 0.09
144 25 0.10
145 14 0.05
146 54 0.21
147 64 0.25
148 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (141 bp):
AAAAAAATACTATTTTTCTTAAAAATCAAAATTTTATTTCGAAATAATTAAAAAATAAAAATTTG
TTTAAAAATTTAAACTTTTTCCTTTAAAAGACTAAAAAACAATTTTTATTTTTAAAAATCTAAAT
TTTTTTTTTTA
Found at i:13763069 original size:15 final size:15
Alignment explanation
Indices: 13763051--13763111 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
13763041 CCTTCTCCCC
* *
13763051 CTTCTTCATCTTCTT
1 CTTCTTCATCATCAT
13763066 CTTCTTCATCATCAT
1 CTTCTTCATCATCAT
*
13763081 CTTCTTCTTC-TACAT
1 CTTCTTCATCAT-CAT
* *
13763096 CGTCGTCATCATCAT
1 CTTCTTCATCATCAT
13763111 C
1 C
13763112 GGACGGATCA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
14 1 0.03
15 36 0.95
16 1 0.03
ACGTcount: A:0.15, C:0.34, G:0.03, T:0.48
Consensus pattern (15 bp):
CTTCTTCATCATCAT
Found at i:13763080 original size:21 final size:21
Alignment explanation
Indices: 13763056--13763096 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13763046 TCCCCCTTCT
*
13763056 TCATCTTCTTCTTCTTCATCA
1 TCATCTTCTTCTTCTACATCA
13763077 TCATCTTCTTCTTCTACATC
1 TCATCTTCTTCTTCTACATC
13763097 GTCGTCATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.34, G:0.00, T:0.51
Consensus pattern (21 bp):
TCATCTTCTTCTTCTACATCA
Found at i:13763734 original size:12 final size:13
Alignment explanation
Indices: 13763717--13763746 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
13763707 CCACGACAGG
13763717 AAGCTAAA-GCTA
1 AAGCTAAAGGCTA
13763729 AAGCTAAAGGCTA
1 AAGCTAAAGGCTA
13763742 AAGCT
1 AAGCT
13763747 TTTACTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.47
13 9 0.53
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (13 bp):
AAGCTAAAGGCTA
Found at i:13763743 original size:7 final size:6
Alignment explanation
Indices: 13763717--13763746 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
13763707 CCACGACAGG
13763717 AAGCTA AAGCTA AAGCTA AAGGCTA AAGCT
1 AAGCTA AAGCTA AAGCTA AA-GCTA AAGCT
13763747 TTTACTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.17
Consensus pattern (6 bp):
AAGCTA
Found at i:13765271 original size:18 final size:18
Alignment explanation
Indices: 13765248--13765305 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
13765238 TTAAAAAATA
13765248 TTATTTGAATAGTTATAT
1 TTATTTGAATAGTTATAT
*
13765266 TTATTT-AAGAG--ATA-
1 TTATTTGAATAGTTATAT
* *
13765280 TTACTTGAATAATTATAT
1 TTATTTGAATAGTTATAT
*
13765298 CTATTTGA
1 TTATTTGA
13765306 GAGATATTAG
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 5 0.17
15 6 0.20
17 7 0.23
18 12 0.40
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (18 bp):
TTATTTGAATAGTTATAT
Found at i:13765272 original size:32 final size:32
Alignment explanation
Indices: 13765234--13765342 Score: 137
Period size: 32 Copynumber: 3.4 Consensus size: 32
13765224 AAAAAAATAA
* * *
13765234 CTATTTAAAAAATATTATTTGAATAGTTATAT
1 CTATTTAAAAGATATTACTTGAATAATTATAT
* *
13765266 TTATTTAAGAGATATTACTTGAATAATTATAT
1 CTATTTAAAAGATATTACTTGAATAATTATAT
* * * *
13765298 CTATTTGAGAGATATTAGTTGAATAATTATGT
1 CTATTTAAAAGATATTACTTGAATAATTATAT
13765330 CTATTTAAAAGAT
1 CTATTTAAAAGAT
13765343 GTGATTATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (32 bp):
CTATTTAAAAGATATTACTTGAATAATTATAT
Found at i:13775719 original size:13 final size:13
Alignment explanation
Indices: 13775685--13775730 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
13775675 AAATTAAATA
13775685 TAAATAAT-ATCC
1 TAAATAATAATCC
13775697 T-AATAATAATCC
1 TAAATAATAATCC
*
13775709 TAAATATTAATCC
1 TAAATAATAATCC
*
13775722 TAAAAAATA
1 TAAATAATA
13775731 GAGTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
11 6 0.21
12 6 0.21
13 17 0.59
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAATAATAATCC
Found at i:13777721 original size:24 final size:24
Alignment explanation
Indices: 13777671--13777722 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
13777661 AATAAAAAAG
* * * **
13777671 GATGATCAAGGAAGAATAATTTTA
1 GATGAACAAGAAAGAAAAATTCAA
13777695 GATGAACAAGAAAGAAAAATTCAA
1 GATGAACAAGAAAGAAAAATTCAA
13777719 GATG
1 GATG
13777723 CAGTAGCAAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.21, T:0.21
Consensus pattern (24 bp):
GATGAACAAGAAAGAAAAATTCAA
Found at i:13782378 original size:22 final size:22
Alignment explanation
Indices: 13782350--13782391 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
13782340 AAAAAACAAA
13782350 ATGAACAGTGAGATTCTCTGAC
1 ATGAACAGTGAGATTCTCTGAC
13782372 ATGAACAGTGAGATTCTCTG
1 ATGAACAGTGAGATTCTCTG
13782392 GCAATATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.29
Consensus pattern (22 bp):
ATGAACAGTGAGATTCTCTGAC
Found at i:13782398 original size:69 final size:69
Alignment explanation
Indices: 13782325--13782457 Score: 221
Period size: 69 Copynumber: 1.9 Consensus size: 69
13782315 CTGAACTAGA
* * *
13782325 AATATTTTTTGCAAGAAAAAACAAAATGAACAGTGAGATTCTCTGACATGAACAGTGAGATTCTC
1 AATATTCTTTGCAAGAAAAAACAAAATGAACAGTGAGATTCTCTGACATGAAAAATGAGATTCTC
13782390 TGGC
66 TGGC
* *
13782394 AATATTCTTTGCAAGAAAAAATAAAATGAACAGTGAGATTCTCTGACGTGAAAAATGAGATTCT
1 AATATTCTTTGCAAGAAAAAACAAAATGAACAGTGAGATTCTCTGACATGAAAAATGAGATTCT
13782458 TTGACAAGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (69 bp):
AATATTCTTTGCAAGAAAAAACAAAATGAACAGTGAGATTCTCTGACATGAAAAATGAGATTCTC
TGGC
Found at i:13782734 original size:22 final size:22
Alignment explanation
Indices: 13782709--13782752 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13782699 CAAATTTAAG
* *
13782709 TTTTCAAATTTTAATTACATTA
1 TTTTCAAATTTGAATTAAATTA
13782731 TTTTCAAATTTGAATTAAATTA
1 TTTTCAAATTTGAATTAAATTA
13782753 CAACTTTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTCAAATTTGAATTAAATTA
Found at i:13783278 original size:103 final size:103
Alignment explanation
Indices: 13783146--13783332 Score: 286
Period size: 103 Copynumber: 1.8 Consensus size: 103
13783136 TGTCAATTTT
* * * *
13783146 TTTTTTGCTTAAGAATATATTGGCCCTTTTGACACGAAATAGAATGATAACACAAGCAC-CCTAT
1 TTTTTTACTTAAGAATATATTGACCCTTTTGACACGAAATAAAATGACAACACAAGCACTCC-AT
13783210 CCCGGTTACTCAGCCCAACATACGTCCAATTTATTATCA
65 CCCGGTTACTCAGCCCAACATACGTCCAATTTATTATCA
* * *
13783249 TTTTTTACTTAAGAATGTATTGACCCTTTTGACGCGAAATAAAATGACAACCCAAGCACTCCATC
1 TTTTTTACTTAAGAATATATTGACCCTTTTGACACGAAATAAAATGACAACACAAGCACTCCATC
*
13783314 CCGGTTACTCAGTCCAACA
66 CCGGTTACTCAGCCCAACA
13783333 CACTCCTAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
103 73 0.97
104 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (103 bp):
TTTTTTACTTAAGAATATATTGACCCTTTTGACACGAAATAAAATGACAACACAAGCACTCCATC
CCGGTTACTCAGCCCAACATACGTCCAATTTATTATCA
Found at i:13786074 original size:5 final size:6
Alignment explanation
Indices: 13786049--13786082 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
13786039 ATAAATACAT
* *
13786049 AAATAA ATAGAA AAATAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
13786083 TGGGTTTCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:13788915 original size:21 final size:21
Alignment explanation
Indices: 13788891--13788944 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
13788881 AGAGTTTTAA
*
13788891 GTATCGATAGAAGCA-TGACTT
1 GTATCGATAGAAG-AGTCACTT
* *
13788912 GTATCGGTAGAAGAGTCTCTT
1 GTATCGATAGAAGAGTCACTT
13788933 GTATCGATAGAA
1 GTATCGATAGAA
13788945 CTATCACTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATCGATAGAAGAGTCACTT
Found at i:13791277 original size:28 final size:28
Alignment explanation
Indices: 13791246--13791325 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 28
13791236 GTTATTACAT
* * * *
13791246 AACAAAGAGCACACAAAGCGTTAATTAG
1 AACAGAGAGCACACAAAGCGCTAATCAA
* *
13791274 AACAGAGAGCACATAAAGTGCTAATCAA
1 AACAGAGAGCACACAAAGCGCTAATCAA
*
13791302 AACAGAGAGCACACAAAGTGCTAA
1 AACAGAGAGCACACAAAGCGCTAA
13791326 ATACACGTAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.50, C:0.19, G:0.19, T:0.12
Consensus pattern (28 bp):
AACAGAGAGCACACAAAGCGCTAATCAA
Found at i:13800926 original size:52 final size:52
Alignment explanation
Indices: 13800843--13801079 Score: 300
Period size: 52 Copynumber: 4.6 Consensus size: 52
13800833 AAATGCAAAA
* * *
13800843 AGGTCCAATGACTATG--TCATCGTGAGTATATGAATCCTTTAGGGATTTTG
1 AGGTCCGATGACTATGTTTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
13800893 AGGTTCGATGACTATGTTTCATCATGAGTATATGAATCCTTTACGGATTATA
1 AGGTCCGATGACTATGTTTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
13800945 AGGTCCGATGATTATGTGTT-ATCGTGAGTATACGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGT-TTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
13800997 AGATCCAATGACTATGTATCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTTTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
13801049 AGGTCCGATAACTTTGTGTCATTGTGAGTAT
1 AGGTCCGATGACTATGTTTCATCGTGAGTAT
13801080 TAAATGGGAA
Statistics
Matches: 159, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
50 14 0.09
51 1 0.01
52 142 0.89
53 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTTTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:13805027 original size:12 final size:12
Alignment explanation
Indices: 13805010--13805037 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13805000 TACACTATAC
13805010 TAGGAGAATTGT
1 TAGGAGAATTGT
13805022 TAGGAGAATTGT
1 TAGGAGAATTGT
13805034 TAGG
1 TAGG
13805038 CTCAATGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (12 bp):
TAGGAGAATTGT
Found at i:13805477 original size:14 final size:13
Alignment explanation
Indices: 13805444--13805477 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
13805434 TTTATTTGTC
13805444 TTACAAATCTATA
1 TTACAAATCTATA
*
13805457 TTTCAAATCTATTA
1 TTACAAATCTA-TA
13805471 TTACAAA
1 TTACAAA
13805478 CCACTCTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (13 bp):
TTACAAATCTATA
Found at i:13806704 original size:4 final size:4
Alignment explanation
Indices: 13806695--13806728 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
13806685 ATCAATGTAA
13806695 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
13806729 TTGACTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:13811538 original size:13 final size:13
Alignment explanation
Indices: 13811512--13811549 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
13811502 TATAAACAAT
13811512 ATCCT-AATAATA
1 ATCCTAAATAATA
*
13811524 ATCCTAAATATTA
1 ATCCTAAATAATA
*
13811537 ATCCTAAAAAATA
1 ATCCTAAATAATA
13811550 GAATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
ATCCTAAATAATA
Found at i:13815146 original size:20 final size:21
Alignment explanation
Indices: 13815096--13815146 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
13815086 TTAGTAAAAA
13815096 ATTTAAGAGATAATTTGAGAG
1 ATTTAAGAGATAATTTGAGAG
* *
13815117 -TTGATCGAGA-AATTTGAGAG
1 ATTTA-AGAGATAATTTGAGAG
13815137 ATTTAAGAGA
1 ATTTAAGAGA
13815147 GAAATGTGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.31
Consensus pattern (21 bp):
ATTTAAGAGATAATTTGAGAG
Found at i:13817388 original size:39 final size:39
Alignment explanation
Indices: 13817274--13817389 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
13817264 ACATCGAAAA
*
13817274 TATACTGAACTGGCAGTGACACTGTAAACACTGCAACGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTGCAATGC
* ** * * *
13817313 TATACTGAACCGATAATGACACTATAAACACTGCAATGT
1 TATACTGAACTGGCAGTGACACTGTAAACACTGCAATGC
13817352 TATACTGAACTGGCAGTGACACTGTAAACACTGCAATG
1 TATACTGAACTGGCAGTGACACTGTAAACACTGCAATG
13817390 ATACTGTAAA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.23
Consensus pattern (39 bp):
TATACTGAACTGGCAGTGACACTGTAAACACTGCAATGC
Found at i:13817397 original size:20 final size:20
Alignment explanation
Indices: 13817372--13817409 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13817362 TGGCAGTGAC
13817372 ACTGTAAACACTGCAATGAT
1 ACTGTAAACACTGCAATGAT
*
13817392 ACTGTAAATACTGCAATG
1 ACTGTAAACACTGCAATG
13817410 CTATACTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (20 bp):
ACTGTAAACACTGCAATGAT
Found at i:13817452 original size:39 final size:40
Alignment explanation
Indices: 13817387--13817480 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 40
13817377 AAACACTGCA
* * * *
13817387 ATGATACTGTAAATACTGCAATGCTATACTGAACT-GGAG
1 ATGACACTGTAAACACCGCAACGCTATACTGAACTAGGAG
* *
13817426 ATGACACTGTAAACACCGCAACGCTATACTGAAGTAGTAG
1 ATGACACTGTAAACACCGCAACGCTATACTGAACTAGGAG
13817466 -TGACACTGTAAACAC
1 ATGACACTGTAAACAC
13817481 TATCAGACTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 45 0.94
40 3 0.06
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (40 bp):
ATGACACTGTAAACACCGCAACGCTATACTGAACTAGGAG
Found at i:13817468 original size:98 final size:98
Alignment explanation
Indices: 13817294--13817481 Score: 261
Period size: 98 Copynumber: 1.9 Consensus size: 98
13817284 TGGCAGTGAC
* * *
13817294 ACTGTAAACACTGCAACGCTATACTGAACCGATAATGACACTATAAACACTGCAATGTTATACTG
1 ACTGTAAACACTGCAACGCTATACTGAACCGATAATGACACTATAAACACCGCAACGCTATACTG
*
13817359 AACTGGCAGTGACACTGTAAACACTGCAATGAT
66 AACTAGCAGTGACACTGTAAACACTGCAATGAT
* * * * *
13817392 ACTGTAAATACTGCAATGCTATACTGAACTGGA-GATGACACTGTAAACACCGCAACGCTATACT
1 ACTGTAAACACTGCAACGCTATACTGAAC-CGATAATGACACTATAAACACCGCAACGCTATACT
* *
13817456 GAAGTAGTAGTGACACTGTAAACACT
65 GAACTAGCAGTGACACTGTAAACACT
13817482 ATCAGACTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 76 0.97
99 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (98 bp):
ACTGTAAACACTGCAACGCTATACTGAACCGATAATGACACTATAAACACCGCAACGCTATACTG
AACTAGCAGTGACACTGTAAACACTGCAATGAT
Found at i:13819569 original size:14 final size:14
Alignment explanation
Indices: 13819550--13819577 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13819540 ATACATGCAT
13819550 GGTTGGGAAGATAA
1 GGTTGGGAAGATAA
13819564 GGTTGGGAAGATAA
1 GGTTGGGAAGATAA
13819578 AACAACTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (14 bp):
GGTTGGGAAGATAA
Found at i:13821464 original size:15 final size:15
Alignment explanation
Indices: 13821444--13821480 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
13821434 ACAATCTTAA
13821444 AAGCAATTTTGCCCT
1 AAGCAATTTTGCCCT
13821459 AAGCAATTTTGCCCT
1 AAGCAATTTTGCCCT
13821474 AAGCAAT
1 AAGCAAT
13821481 GTAATCGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (15 bp):
AAGCAATTTTGCCCT
Found at i:13826595 original size:6 final size:6
Alignment explanation
Indices: 13826577--13826684 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
13826567 TTAAATTGAT
* *
13826577 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** *
13826624 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
*
13826673 TTAAAA TTTAAA
1 TTTAAA TTTAAA
13826685 AGTCCAAATA
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:13826607 original size:17 final size:15
Alignment explanation
Indices: 13826581--13826645 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
13826571 ATTGATTTTA
13826581 AATTTATTTAAATTT
1 AATTTATTTAAATTT
13826596 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
13826613 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
13826627 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
13826644 AA
1 AA
13826646 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:13826623 original size:31 final size:31
Alignment explanation
Indices: 13826585--13826648 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
13826575 ATTTTAAATT
*
13826585 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
13826616 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
13826647 TA
1 TA
13826649 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:13826631 original size:11 final size:11
Alignment explanation
Indices: 13826567--13826647 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
13826557 GACTTTTGAA
* *
13826567 TTAAATTGATT
1 TTAAATTTAAT
13826578 TTAAATTT-AT
1 TTAAATTTAAT
13826588 TTAAATTTAGAT
1 TTAAATTTA-AT
*
13826600 TT-ATTTTAAAT
1 TTAAATTT-AAT
13826611 TTAAA--T-AT
1 TTAAATTTAAT
13826619 TTAAATTTAAT
1 TTAAATTTAAT
*
13826630 TTGAATTTAAAT
1 TTAAATTT-AAT
13826642 TTAAAT
1 TTAAAT
13826648 AAAAATTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
8 7 0.12
10 11 0.20
11 24 0.43
12 14 0.25
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:13826644 original size:42 final size:41
Alignment explanation
Indices: 13826577--13826684 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
13826567 TTAAATTGAT
* ** * *
13826577 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
13826618 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
*
13826659 TATTAAATTTAACATTAAAATTTAAA
1 T-TTAAATTT-A-ATTTAAATTTAAA
13826685 AGTCCAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 11 0.20
42 32 0.58
43 1 0.02
44 11 0.20
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:13826780 original size:14 final size:14
Alignment explanation
Indices: 13826761--13826799 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
13826751 TTTGGCCCAC
13826761 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
13826775 GGCCCAATT--AAG
1 GGCCCAATTACAAA
13826787 GGCCCAATTACAA
1 GGCCCAATTACAA
13826800 TAGTCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:13828461 original size:30 final size:30
Alignment explanation
Indices: 13828420--13828670 Score: 405
Period size: 30 Copynumber: 8.4 Consensus size: 30
13828410 CCCCAAACAA
13828420 TCCAGAAATTATATTTTGACCCCAAAACTTT
1 TCCA-AAATTATATTTTGACCCCAAAACTTT
*
13828451 TCCAAAATTATATTTTGACCCTAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
13828481 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * *
13828511 TCCAAAATTATGTCTTGACCCCAAAATTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
13828541 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
13828571 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
13828601 TCCAAAATTACATTTTGACCCCAAAACATT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
13828631 TCCAAAATTACATTTTGAGCCCAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
13828660 TCAAAAATTAT
1 TCCAAAATTAT
13828671 CCTTTTTCCC
Statistics
Matches: 207, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
29 11 0.05
30 192 0.93
31 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.35
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:13828707 original size:30 final size:30
Alignment explanation
Indices: 13828662--13828743 Score: 78
Period size: 30 Copynumber: 2.7 Consensus size: 30
13828652 CAAAACTTTC
**
13828662 AAAAATTATCC-TTTTTCCCCCGAATTTCTTA
1 AAAAATTA-CCATTTTTCCCCCG-ATTTCACA
* *
13828693 AAAAATT-CCATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTT-CCCCCGATTTCACA
*
13828723 AAAAATTACCATTTTACCCCC
1 AAAAATTACCATTTTTCCCCC
13828744 CAAAGCTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
29 2 0.05
30 21 0.50
31 19 0.45
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.35
Consensus pattern (30 bp):
AAAAATTACCATTTTTCCCCCGATTTCACA
Found at i:13828769 original size:59 final size:59
Alignment explanation
Indices: 13828694--13828978 Score: 385
Period size: 59 Copynumber: 4.8 Consensus size: 59
13828684 AATTTCTTAA
13828694 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCCAAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA-CCCCCAAAGCTTCT
** * * *
13828754 -AAATTCTGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAAGCTTCT
* *
13828812 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAAGCTTCT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAAGCTTCT
* * * * * * *
13828871 AAAATTTCATTTTTAACCCTGATTTCACCGAAAATTGCCATTTTACCCCCGAATCTTTT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAAGCTTCT
* * * *
13828930 AAGATTCCATTTTTAATCCCGATTACACC-AAAATTACCATTTTGCCCCC
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
13828979 GAGTATCCAT
Statistics
Matches: 198, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
58 29 0.15
59 169 0.85
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.35
Consensus pattern (59 bp):
AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAAGCTTCT
Found at i:13828797 original size:30 final size:29
Alignment explanation
Indices: 13828693--13828922 Score: 117
Period size: 30 Copynumber: 7.8 Consensus size: 29
13828683 GAATTTCTTA
13828693 AAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTCCA-TTTTAACCCCGATTTCACC
* * *** **
13828723 AAAAATTACCATTTTACCCCCCAAAGCTTC
1 AAAAATT-CCATTTTAACCCCGATTTCACC
* **
13828753 -TAAATTCTGTTTTTAACCCCGATTTCACC
1 AAAAATTC-CATTTTAACCCCGATTTCACC
* ** ***
13828782 AAAAATTACCATTTT-ACCCCTAAATCTTT
1 AAAAATT-CCATTTTAACCCCGATTTCACC
*
13828811 TAAAATTCCATTTTTAACCCCGATTTCACC
1 AAAAATTCCA-TTTTAACCCCGATTTCACC
** **
13828841 AAAAATTACCATTTT-ACCCTCGA-AGCTTC
1 AAAAATT-CCATTTTAACCC-CGATTTCACC
* * *
13828870 TAAAATTTCATTTTTAACCCTGATTTCACC
1 AAAAATTCCA-TTTTAACCCCGATTTCACC
* *
13828900 GAAAATTGCCATTTTACCCCCGA
1 AAAAATT-CCATTTTAACCCCGA
13828923 ATCTTTTAAG
Statistics
Matches: 139, Mismatches: 49, Indels: 24
0.66 0.23 0.11
Matches are distributed among these distances:
28 6 0.04
29 53 0.38
30 71 0.51
31 9 0.06
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (29 bp):
AAAAATTCCATTTTAACCCCGATTTCACC
Found at i:13828839 original size:118 final size:119
Alignment explanation
Indices: 13828694--13828978 Score: 425
Period size: 118 Copynumber: 2.4 Consensus size: 119
13828684 AATTTCTTAA
13828694 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCCAAAGCTTCT-AAA-
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCCAAAGCTTCTAAAAT
* *
13828757 TTCTGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAATCTTTT
66 TTC-ATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
* *
13828812 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA-CCCTCGAAGCTTCTAAAAT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCCAAAGCTTCTAAAAT
* * * *
13828876 TTCATTTTTAACCCTGATTTCACCGAAAATTGCCATTTTACCCCCGAATCTTTT
66 TTCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
* * * *
13828930 AAGATTCCATTTTTAATCCCGATTACACC-AAAATTACCATTTTGCCCCC
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
13828979 GAGTATCCAT
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
117 26 0.17
118 122 0.81
119 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.35
Consensus pattern (119 bp):
AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCCAAAGCTTCTAAAAT
TTCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
Found at i:13829002 original size:118 final size:117
Alignment explanation
Indices: 13828694--13829014 Score: 423
Period size: 118 Copynumber: 2.7 Consensus size: 117
13828684 AATTTCTTAA
* *
13828694 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCCAAAGCTTCTAAATT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTA-CCCCC-GAGCTTCTAAAAT
*
13828759 CT-GTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCTAAATCTTTT
64 CTCGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
* *
13828812 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAAGCTTCTAAAATT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCG-AGCTTCTAAAATC
* * * * *
13828877 TCATTTTTAACCCTGATTTCACCGAAAATTGCCATTTTACCCCCGAATCTTTT
65 TCGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
* * * * * *
13828930 AAGATTCCATTTTTAATCCCGATTACACC-AAAATTACCATTTTGCCCCCGAG-TATCCATAAGT
1 AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAGCT-TCTA-AAAT
*
13828993 CTCGTTTTTTACCCCGATTTCA
64 CTCGTTTTTAACCCCGATTTCA
13829015 TCATTTGTCA
Statistics
Matches: 178, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
115 1 0.01
116 5 0.03
117 56 0.31
118 116 0.65
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (117 bp):
AAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAGCTTCTAAAATCT
CGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCAAATCTTTT
Found at i:13840996 original size:68 final size:68
Alignment explanation
Indices: 13840887--13841193 Score: 472
Period size: 68 Copynumber: 4.4 Consensus size: 68
13840877 GCAGGTCTCA
13840887 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
13840952 AAC
66 AAC
13840955 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
13841020 AAC
66 AAC
* * * *
13841023 ACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTA
1 ACGTCTTCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-GTCATC--CCCTTGAAATTGAAGTA
13841088 GAGTGGATAAC
58 GAGTGGATAAC
*
13841099 GCGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCAT-CCCTTGAAATTGAAGTAGAGTGGAT
1 ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
13841163 AAC
66 AAC
*
13841166 ACGTCTTCATCCCTTGAAATTGAAGTAA
1 ACGTCTTCATCTC-TGAAATTGAAGTAA
13841194 AGTGGATAAC
Statistics
Matches: 219, Mismatches: 11, Indels: 18
0.88 0.04 0.07
Matches are distributed among these distances:
67 39 0.18
68 94 0.43
69 13 0.06
70 6 0.03
71 2 0.01
72 4 0.02
73 2 0.01
74 7 0.03
75 13 0.06
76 39 0.18
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (68 bp):
ACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGAT
AAC
Found at i:13841042 original size:38 final size:38
Alignment explanation
Indices: 13840990--13841503 Score: 482
Period size: 38 Copynumber: 14.6 Consensus size: 38
13840980 AAGAGCAAAG
13840990 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
13841029 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
13841067 TCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * *
13841105 TCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-G---
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
13841134 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* *
13841172 TCATCCCTTGAAATTGAAGTAAAGTGGATAACGCGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * * *
13841210 TCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-GTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
13841242 TC--CCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* * * *
13841278 TCATCTC-TGAAATTGAAGTA-AG-AG-CAA-A-GTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
13841310 TC--CCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
* ** *
13841346 TCATCTC-TGAAATTGAAGTA-A---GAGCA-ACGTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
13841378 TC--CCCTTTGAAATTGAAGTAGAGTGGATAACGCGTCT
1 TCATCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCT
* ** *
13841415 TCATCTC-TGAAATTGAAGTA-A---GAGCA-ACGTCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
*
13841447 TC--CCCTTTGAAATTGAAGTAGAGTGGATAACACGTCA
1 TCATCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCT
*
13841484 TCATCTC-TGAAATTGAAGTA
1 TCATCCCTTGAAATTGAAGTA
13841504 AGAGCAACGT
Statistics
Matches: 387, Mismatches: 45, Indels: 88
0.74 0.09 0.17
Matches are distributed among these distances:
29 6 0.02
30 21 0.05
31 28 0.07
32 55 0.14
33 13 0.03
34 11 0.03
35 6 0.02
36 24 0.06
37 92 0.24
38 123 0.32
39 8 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (38 bp):
TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCT
Found at i:13841172 original size:105 final size:104
Alignment explanation
Indices: 13840888--13841505 Score: 687
Period size: 105 Copynumber: 5.9 Consensus size: 104
13840878 CAGGTCTCAA
13840888 CGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
1 CGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
* * *
13840953 ACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA-AA--
66 ACACGTCTTCATCCCTGAAATTGAAGTAAGTGGATAACG
* ** * * *
13840989 -GTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGA
1 CGTCTTCATCTCTGAAATTGAAGTA-AG-AG-CAA-A-GTCATC--CCCTTGAAATTGAAGTAGA
13841052 GTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGAGTGGATAACG
59 GTGGATAACACGTCTTCATCCC-TGAAATTGAAGTA-AGTGGATAACG
13841100 CGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCAT-CCCTTGAAATTGAAGTAGAGTGGATA
1 CGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
13841164 ACACGTCTTCATCCCTTGAAATTGAAGTAAAGTGGATAACG
66 ACACGTCTTCATCCC-TGAAATTGAAGT-AAGTGGATAACG
13841205 CGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
1 CGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
* * *
13841270 ACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA-AA--
66 ACACGTCTTCATCCCTGAAATTGAAGTAAGTGGATAACG
* ** * * * **
13841306 -GTCATCCCCT-TGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTA-A-
1 CGTCTTCATCTCTGAAATTGAAGTA-AG-AG-CAA-A-GTCATCCCCT-TGAAATTGAAGTAGAG
** *
13841367 --GAGCA-ACGTCATC--CCCTTTGAAATTGAAGTAGAGTGGATAACG
60 TGGATAACACGTCTTCATCCC--TGAAATTGAAGTA-AGTGGATAACG
*
13841410 CGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCCCCTTTGAAATTGAAGTAGAGTGGAT
1 CGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCC-TTGAAATTGAAGTAGAGTGGAT
* *
13841475 AACACGTCATCATCTCTGAAATTGAAGTAAG
65 AACACGTCTTCATCCCTGAAATTGAAGTAAG
13841506 AGCAACGTCA
Statistics
Matches: 435, Mismatches: 44, Indels: 72
0.79 0.08 0.13
Matches are distributed among these distances:
98 2 0.00
99 26 0.06
100 38 0.09
101 28 0.06
102 8 0.02
103 6 0.01
104 19 0.04
105 142 0.33
106 115 0.26
107 13 0.03
108 10 0.02
109 3 0.01
110 2 0.00
111 1 0.00
112 9 0.02
113 13 0.03
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (104 bp):
CGTCTTCATCTCTGAAATTGAAGTAAGAGCAAAGTCATCCCCTTGAAATTGAAGTAGAGTGGATA
ACACGTCTTCATCCCTGAAATTGAAGTAAGTGGATAACG
Found at i:13841175 original size:67 final size:68
Alignment explanation
Indices: 13841067--13841193 Score: 229
Period size: 67 Copynumber: 1.9 Consensus size: 68
13841057 TAACACGTCT
* *
13841067 TCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTC-TGAAATTGAAGTAAGAGCA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAAGAGCA
13841131 AAG
66 AAG
13841134 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAA
13841194 AGTGGATAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
67 43 0.75
68 14 0.25
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (68 bp):
TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAAGAGCA
AAG
Found at i:13841209 original size:143 final size:144
Alignment explanation
Indices: 13840922--13841229 Score: 557
Period size: 143 Copynumber: 2.1 Consensus size: 144
13840912 AAGAGCAAAG
13840922 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCA
*
13840987 AAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAGA
65 AAGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAAA
13841052 GTGGATAACACGTCT
130 GTGGATAACACGTCT
*
13841067 TCATCCCTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
13841132 AGTCAT-CCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAAAG
66 AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAAAG
*
13841196 TGGATAACGCGTCT
131 TGGATAACACGTCT
*
13841210 TCATCTC-TGAAATTGAAGTA
1 TCATCCCTTGAAATTGAAGTA
13841230 AGAGCAAAGT
Statistics
Matches: 159, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
142 13 0.08
143 76 0.48
144 66 0.42
145 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (144 bp):
TCATCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
AGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCCCTTGAAATTGAAGTAAAG
TGGATAACACGTCT
Found at i:13841248 original size:68 final size:69
Alignment explanation
Indices: 13841172--13841535 Score: 646
Period size: 69 Copynumber: 5.3 Consensus size: 69
13841162 TAACACGTCT
* *
13841172 TCAT-CCC-TTGAAATTGAAGTAAAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
13841235 AAAG
66 AACG
13841239 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
*
13841303 AAAG
66 AACG
13841307 TCATCCCC-TTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
13841371 AACG
66 AACG
*
13841375 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACGCGTCTTCATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
13841440 AACG
66 AACG
*
13841444 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCATCATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
13841509 AACG
66 AACG
13841513 TCATCCCCTTTGAAATTGAAGTA
1 TCATCCCCTTTGAAATTGAAGTA
13841536 AAGTTGGACA
Statistics
Matches: 289, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
67 4 0.01
68 136 0.47
69 149 0.52
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (69 bp):
TCATCCCCTTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGC
AACG
Found at i:13841849 original size:6 final size:6
Alignment explanation
Indices: 13841831--13841938 Score: 89
Period size: 6 Copynumber: 18.0 Consensus size: 6
13841821 TTAAATTGAT
* *
13841831 TTTAAA TTT--A TTTAAA TTTAGA TTT-AT TTTAAA TTTAAATA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AA-A TTTAAA
* ** *
13841878 TTT-AA TTTGAA TTTAAA TTTAAA TAAAAA TTAAAA TATTAAA TTTAACA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAA-A
*
13841927 TTAAAA TTTAAA
1 TTTAAA TTTAAA
13841939 AGTCCAAATA
Statistics
Matches: 83, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.05
5 8 0.10
6 53 0.64
7 14 0.17
8 4 0.05
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:13841861 original size:17 final size:15
Alignment explanation
Indices: 13841835--13841899 Score: 78
Period size: 17 Copynumber: 4.1 Consensus size: 15
13841825 ATTGATTTTA
13841835 AATTTATTTAAATTT
1 AATTTATTTAAATTT
13841850 AGATTTATTTTAAATTT
1 A-ATTTA-TTTAAATTT
*
13841867 AA-ATATTTAAATTT
1 AATTTATTTAAATTT
13841881 AATTTGAATTTAAATTT
1 AATTT--ATTTAAATTT
13841898 AA
1 AA
13841900 ATAAAAATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 11 0.26
15 4 0.09
16 6 0.14
17 22 0.51
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTATTTAAATTT
Found at i:13841877 original size:31 final size:31
Alignment explanation
Indices: 13841839--13841902 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
13841829 ATTTTAAATT
*
13841839 TATTTAAATTTAGATTT-ATTTTAAATTTAAA
1 TATTTAAATTTA-ATTTGAATTTAAATTTAAA
13841870 TATTTAAATTTAATTTGAATTTAAATTTAAA
1 TATTTAAATTTAATTTGAATTTAAATTTAAA
13841901 TA
1 TA
13841903 AAAATTAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TATTTAAATTTAATTTGAATTTAAATTTAAA
Found at i:13841885 original size:11 final size:11
Alignment explanation
Indices: 13841821--13841901 Score: 64
Period size: 11 Copynumber: 7.5 Consensus size: 11
13841811 GACTTTTGAG
* *
13841821 TTAAATTGATT
1 TTAAATTTAAT
13841832 TTAAATTT-AT
1 TTAAATTTAAT
13841842 TTAAATTTAGAT
1 TTAAATTTA-AT
*
13841854 TT-ATTTTAAAT
1 TTAAATTT-AAT
13841865 TTAAA--T-AT
1 TTAAATTTAAT
13841873 TTAAATTTAAT
1 TTAAATTTAAT
*
13841884 TTGAATTTAAAT
1 TTAAATTT-AAT
13841896 TTAAAT
1 TTAAAT
13841902 AAAAATTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
8 7 0.12
10 11 0.20
11 24 0.43
12 14 0.25
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:13841898 original size:42 final size:41
Alignment explanation
Indices: 13841831--13841938 Score: 110
Period size: 42 Copynumber: 2.6 Consensus size: 41
13841821 TTAAATTGAT
* ** * *
13841831 TTTAAATTT-ATTTAAATTTAGATTTATTTTAAATTTAAATA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAA-A
*
13841872 TTTAAATTTAATTTGAATTTAAATTTAAATAAAAATTAAAA
1 TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
*
13841913 TATTAAATTTAACATTAAAATTTAAA
1 T-TTAAATTT-A-ATTTAAATTTAAA
13841939 AGTCCAAATA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 11 0.20
42 32 0.58
43 1 0.02
44 11 0.20
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (41 bp):
TTTAAATTTAATTTAAATTTAAATTTAAATAAAAATTAAAA
Found at i:13842035 original size:14 final size:14
Alignment explanation
Indices: 13842016--13842054 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
13842006 TTTGGCCCAC
13842016 GGCCCAATTACAAA
1 GGCCCAATTACAAA
*
13842030 GGCCCAATT--AAG
1 GGCCCAATTACAAA
13842042 GGCCCAATTACAA
1 GGCCCAATTACAA
13842055 TAGTCTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.38, C:0.28, G:0.18, T:0.15
Consensus pattern (14 bp):
GGCCCAATTACAAA
Found at i:13843716 original size:30 final size:30
Alignment explanation
Indices: 13843675--13843865 Score: 294
Period size: 30 Copynumber: 6.4 Consensus size: 30
13843665 CCCCAAACAA
13843675 TCCAGAAATTATATTTTGACCCCAAAACTTT
1 TCCA-AAATTATATTTTGACCCCAAAACTTT
13843706 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* * *
13843736 TCCAAAATTATGTCTTGACCCCAAAATTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
13843766 TCCAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
13843796 TCCAAAATTACATTTTGACCCCAAAACATT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
13843826 TCCAAAATTACATTTTGACCCCAAAAC-TT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
13843855 TCAAAAATTAT
1 TCCAAAATTAT
13843866 CCTTTTTCCC
Statistics
Matches: 148, Mismatches: 12, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
29 11 0.07
30 133 0.90
31 4 0.03
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:13843821 original size:19 final size:19
Alignment explanation
Indices: 13843797--13843851 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
13843787 CAAAACTTTT
13843797 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
13843816 CC-AAA--ACA-TTT----
1 CCAAAATTACATTTTGACC
13843827 CCAAAATTACATTTTGACC
1 CCAAAATTACATTTTGACC
13843846 CCAAAA
1 CCAAAA
13843852 CTTTCAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 16
0.64 0.00 0.36
Matches are distributed among these distances:
11 2 0.07
12 3 0.11
14 3 0.11
15 6 0.21
16 3 0.11
18 3 0.11
19 8 0.29
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (19 bp):
CCAAAATTACATTTTGACC
Found at i:13843932 original size:30 final size:30
Alignment explanation
Indices: 13843898--13844050 Score: 100
Period size: 30 Copynumber: 5.2 Consensus size: 30
13843888 AAAATTCTGT
*
13843898 TTTTAACCTCGATTTCACCAAAAATTACCA
1 TTTTAACCCCGATTTCACCAAAAATTACCA
* ** ** * *
13843928 TTTTACCCCCCGA-AGCTTC-TAAATT-CCGT
1 TTTTA-ACCCCGATTTCACCAAAAATTACC-A
*
13843957 TTTTAACCCCAATTTCACCAAAAATTACCA
1 TTTTAACCCCGATTTCACCAAAAATTACCA
* ** ****
13843987 TTTT-ACCCCTAAATCTTTTAAAATT-CCA
1 TTTTAACCCCGATTTCACCAAAAATTACCA
13844015 TTTTTAACCCCGATTTCACCAAAAATTACCA
1 -TTTTAACCCCGATTTCACCAAAAATTACCA
13844046 TTTTA
1 TTTTA
13844051 CCCTCGAAGC
Statistics
Matches: 85, Mismatches: 30, Indels: 16
0.65 0.23 0.12
Matches are distributed among these distances:
28 10 0.12
29 30 0.35
30 35 0.41
31 10 0.12
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (30 bp):
TTTTAACCCCGATTTCACCAAAAATTACCA
Found at i:13843959 original size:59 final size:59
Alignment explanation
Indices: 13843883--13844173 Score: 379
Period size: 59 Copynumber: 4.9 Consensus size: 59
13843873 CCCTTGAATT
* *
13843883 TTTTAAAAATTCTGTTTTTAACCTCGATTTCACCAAAAATTACCATTTTACCCCCCGAAGC
1 TTTT-AAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTA-CCCCCGAAGC
* * ** *
13843944 TTCT-AAATTCCGTTTTTAACCCCAATTTCACCAAAAATTACCATTTTACCCCTAAATC
1 TTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGC
* *
13844002 TTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCTCGAAGC
1 TTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGC
** * * *
13844061 TTTTAAAATTTTGTTTTTAACCCCGATTTCACCGAAAATTGCCATTTTACCCCCGAATC
1 TTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGC
* * * * *
13844120 TTTTAAGATTCCATTTTTAATCCCGATTACACC-AAAATTACCATTTTGCCCCCG
1 TTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCG
13844174 GGTATCCATA
Statistics
Matches: 200, Mismatches: 29, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
58 29 0.14
59 168 0.84
61 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.37
Consensus pattern (59 bp):
TTTTAAAATTCCGTTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGC
Found at i:13844034 original size:118 final size:119
Alignment explanation
Indices: 13843856--13844172 Score: 417
Period size: 118 Copynumber: 2.7 Consensus size: 119
13843846 CCAAAACTTT
* * * ** *
13843856 CAAAAATTATCC-TTTTTCCCTTGAATTTTTTAAAAATTCTGTTTTTAACCTCGATTTCACCAAA
1 CAAAAATTA-CCATTTTACCCCTGAATCTTTT-AAAATTCCATTTTTAACCCCGATTTCACCAAA
13843920 AATTACCATTTTACCCCCCGAAGCTTCT-AAATTCCGTTTTTAACCCCAATTTCAC
64 AATTACCATTTTACCCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCAATTTCAC
*
13843975 CAAAAATTACCATTTTACCCCTAAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
* * ** *
13844040 TTACCATTTTA-CCCTCGAAGCTTTTAAAATTTTGTTTTTAACCCCGATTTCAC
66 TTACCATTTTACCCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCAATTTCAC
* * * * * *
13844093 CGAAAATTGCCATTTTACCCCCGAATCTTTTAAGATTCCATTTTTAATCCCGATTACACC-AAAA
1 CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
*
13844157 TTACCATTTTGCCCCC
66 TTACCATTTTACCCCC
13844173 GGGTATCCAT
Statistics
Matches: 174, Mismatches: 21, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
117 26 0.15
118 124 0.71
119 24 0.14
ACGTcount: A:0.30, C:0.27, G:0.05, T:0.38
Consensus pattern (119 bp):
CAAAAATTACCATTTTACCCCTGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
TTACCATTTTACCCCCCGAAGCTTCTAAAATTCCGTTTTTAACCCCAATTTCAC
Found at i:13848825 original size:25 final size:25
Alignment explanation
Indices: 13848797--13848846 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13848787 AAGCTCATTA
* * *
13848797 ATTTGTCTTTCAGTTTCTCTTCAAC
1 ATTTATCTTTCAATTGCTCTTCAAC
13848822 ATTTATCTTTCAATTGCTCTTCAAC
1 ATTTATCTTTCAATTGCTCTTCAAC
13848847 TGTTCGGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.24, G:0.06, T:0.50
Consensus pattern (25 bp):
ATTTATCTTTCAATTGCTCTTCAAC
Found at i:13853585 original size:8 final size:8
Alignment explanation
Indices: 13853570--13853744 Score: 56
Period size: 9 Copynumber: 20.1 Consensus size: 8
13853560 TTTTATTTTT
13853570 ATTA-AAA
1 ATTATAAA
13853577 ATTATAAA
1 ATTATAAA
*
13853585 ATCATTAAA
1 ATTA-TAAA
* *
13853594 AATAT-AT
1 ATTATAAA
*
13853601 TTTA-AAA
1 ATTATAAA
13853608 ATTATAAA
1 ATTATAAA
13853616 A-TATTAAA
1 ATTA-TAAA
13853624 ATTTTATATAA
1 A--TTATA-AA
*
13853635 ACTTCTAAA
1 A-TTATAAA
13853644 ATTATAAA
1 ATTATAAA
*
13853652 TAATATAAA
1 -ATTATAAA
*
13853661 ACTTAAAAA
1 A-TTATAAA
13853670 ATCCTA-AAA
1 AT--TATAAA
*
13853679 ATTCTCAAAA
1 ATTAT--AAA
13853689 ATTATAAAAAA
1 ATTAT---AAA
13853700 ATTATAAA
1 ATTATAAA
13853708 ATTATTTACAA
1 ATTA--TA-AA
13853719 ATTATATAA
1 ATTATA-AA
13853728 ACTTATAAA
1 A-TTATAAA
13853737 A-TATAAA
1 ATTATAAA
13853744 A
1 A
13853745 CATTCAAAAA
Statistics
Matches: 129, Mismatches: 18, Indels: 42
0.68 0.10 0.22
Matches are distributed among these distances:
7 21 0.16
8 31 0.24
9 35 0.27
10 22 0.17
11 20 0.16
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (8 bp):
ATTATAAA
Found at i:13853708 original size:19 final size:19
Alignment explanation
Indices: 13853686--13853737 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
13853676 AAAATTCTCA
13853686 AAAATTATAAAAAAATTAT
1 AAAATTATAAAAAAATTAT
** *
13853705 AAAATTATTTACAAATTAT
1 AAAATTATAAAAAAATTAT
13853724 ATAAACTTATAAAA
1 A-AAA-TTATAAAA
13853738 TATAAAACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 17 0.68
20 3 0.12
21 5 0.20
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATTATAAAAAAATTAT
Found at i:13853982 original size:6 final size:6
Alignment explanation
Indices: 13853966--13854002 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
13853956 TTTATTGATA
13853966 ATTTATT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTT-TT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
13854003 CTAGTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:13854392 original size:41 final size:40
Alignment explanation
Indices: 13854315--13854393 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
13854305 AATGTTCATA
* *
13854315 ATTTTTTTTATAATTTATTAGAATTTTATGAGTTTTTTAG
1 ATTTTTTTTATAATTTATTAGAATTTTATAAATTTTTTAG
* *
13854355 ATTTTCTTTTATAATTTA-TATAATTTTTTAATATTTTTT
1 ATTTT-TTTTATAATTTATTAGAATTTTATAA-ATTTTTT
13854394 GATAATGTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 15 0.45
41 18 0.55
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (40 bp):
ATTTTTTTTATAATTTATTAGAATTTTATAAATTTTTTAG
Found at i:13854399 original size:30 final size:32
Alignment explanation
Indices: 13854347--13854414 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
13854337 ATTTTATGAG
* * *
13854347 TTTTTTAGATTTTCTTTTATAATTTA-TATAA
1 TTTTTTAGATTTTCTTTGATAATGTATTAGAA
13854378 TTTTTTA-ATATTT-TTTGATAATGTATTAGAA
1 TTTTTTAGAT-TTTCTTTGATAATGTATTAGAA
13854409 TTTTTT
1 TTTTTT
13854415 TTTATAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (32 bp):
TTTTTTAGATTTTCTTTGATAATGTATTAGAA
Found at i:13854430 original size:2 final size:2
Alignment explanation
Indices: 13854425--13854454 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
13854415 TTTATAAGTT
13854425 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13854455 TTTTATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13854551 original size:19 final size:19
Alignment explanation
Indices: 13854451--13854565 Score: 67
Period size: 19 Copynumber: 5.9 Consensus size: 19
13854441 TATATATATT
*
13854451 ATATTTTTATAATTTACTAGA
1 ATATTTTTATAATTT--TAAA
13854472 AT-TTATTT-TAACTTTTATAA
1 ATATT-TTTATAA-TTTTA-AA
* * * *
13854492 TTTTTTTTATAAATTCTATA
1 ATATTTTTAT-AATTTTAAA
* *
13854512 AT-TTTATATAAATTTT-TA
1 ATATTTTTAT-AATTTTAAA
13854530 ATATTTTTATAATTTTAAA
1 ATATTTTTATAATTTTAAA
*
13854549 ATATTATTATAATTTTA
1 ATATTTTTATAATTTTA
13854566 TGATTTTAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
18 10 0.13
19 37 0.49
20 12 0.16
21 15 0.20
22 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (19 bp):
ATATTTTTATAATTTTAAA
Found at i:13857544 original size:21 final size:21
Alignment explanation
Indices: 13857520--13857649 Score: 107
Period size: 21 Copynumber: 6.2 Consensus size: 21
13857510 GCATTACGGG
*
13857520 GGCATCGGAGTGCGATACAAA
1 GGCATCGTAGTGCGATACAAA
* * * *
13857541 GGCACCGAAGTGCGATATAAG
1 GGCATCGTAGTGCGATACAAA
* *
13857562 GGCATCGTAGTGCAATACAGA
1 GGCATCGTAGTGCGATACAAA
*
13857583 GGCATCGTAGTGCGATACAAG
1 GGCATCGTAGTGCGATACAAA
* * ** **
13857604 GGCACCATAGTATGATACAGG
1 GGCATCGTAGTGCGATACAAA
* * *
13857625 GGCATCGTAATGTGATACAGA
1 GGCATCGTAGTGCGATACAAA
13857646 GGCA
1 GGCA
13857650 CCATAGTACG
Statistics
Matches: 86, Mismatches: 23, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 86 1.00
ACGTcount: A:0.32, C:0.18, G:0.32, T:0.18
Consensus pattern (21 bp):
GGCATCGTAGTGCGATACAAA
Found at i:13857565 original size:42 final size:42
Alignment explanation
Indices: 13857519--13857607 Score: 124
Period size: 42 Copynumber: 2.1 Consensus size: 42
13857509 TGCATTACGG
* *
13857519 GGGCATCGGAGTGCGATACAAAGGCACCGAAGTGCGATATAA
1 GGGCATCGGAGTGCAATACAAAGGCACCGAAGTGCGATACAA
* * * *
13857561 GGGCATCGTAGTGCAATACAGAGGCATCGTAGTGCGATACAA
1 GGGCATCGGAGTGCAATACAAAGGCACCGAAGTGCGATACAA
13857603 GGGCA
1 GGGCA
13857608 CCATAGTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.19, G:0.34, T:0.16
Consensus pattern (42 bp):
GGGCATCGGAGTGCAATACAAAGGCACCGAAGTGCGATACAA
Found at i:13857608 original size:63 final size:63
Alignment explanation
Indices: 13857528--13857733 Score: 184
Period size: 63 Copynumber: 3.3 Consensus size: 63
13857518 GGGGCATCGG
* * *
13857528 AGTGCGATACAAAGGCACCGAAGTGCGATATAAGGGCATCGTAGTGCAATACAGAGGCATCGT
1 AGTGCGATACAAGGGCACCGAAGTGCGATACAAGGGCATCGTAGTGCAATACAGAGGCACCGT
** * * ** *
13857591 AGTGCGATACAAGGGCACC-ATAGTATGATACAGGGGCATCGTAATGTGATACAGAGGCACCAT
1 AGTGCGATACAAGGGCACCGA-AGTGCGATACAAGGGCATCGTAGTGCAATACAGAGGCACCGT
* * * * * * * *
13857654 AGTACGATA-TAGGAGCACTGTAGTGCGAGACAAGGGCACCATAGTGCAATGCA-AGGGCACCGT
1 AGTGCGATACAAGG-GCACCGAAGTGCGATACAAGGGCATCGTAGTGCAATACAGA-GGCACCGT
* *
13857717 AGTGCAATACAGGGGCA
1 AGTGCGATACAAGGGCA
13857734 ATTTCAAGAG
Statistics
Matches: 109, Mismatches: 29, Indels: 10
0.74 0.20 0.07
Matches are distributed among these distances:
62 5 0.05
63 102 0.94
64 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.31, T:0.17
Consensus pattern (63 bp):
AGTGCGATACAAGGGCACCGAAGTGCGATACAAGGGCATCGTAGTGCAATACAGAGGCACCGT
Found at i:13857622 original size:42 final size:42
Alignment explanation
Indices: 13857532--13857733 Score: 160
Period size: 42 Copynumber: 4.8 Consensus size: 42
13857522 CATCGGAGTG
* * * * * * *
13857532 CGATACAAAGGCACCGAAGTGCGATATAAGGGCATCGTAGTG
1 CGATACAGAGGCATCGTAGTGCGATACAAGGGCACCATAGTA
*
13857574 CAATACAGAGGCATCGTAGTGCGATACAAGGGCACCATAGTA
1 CGATACAGAGGCATCGTAGTGCGATACAAGGGCACCATAGTA
* * * *
13857616 TGATACAGGGGCATCGTAATGTGATAC-AGAGGCACCATAGTA
1 CGATACAGAGGCATCGTAGTGCGATACAAG-GGCACCATAGTA
* * *
13857658 CGATATAG-GAGCA-CTGTAGTGCGAGACAAGGGCACCATAGTG
1 CGATACAGAG-GCATC-GTAGTGCGATACAAGGGCACCATAGTA
* * * * *
13857700 CAATGCA-AGGGCACCGTAGTGCAATACAGGGGCA
1 CGATACAGA-GGCATCGTAGTGCGATACAAGGGCA
13857734 ATTTCAAGAG
Statistics
Matches: 128, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.03
42 120 0.94
43 4 0.03
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (42 bp):
CGATACAGAGGCATCGTAGTGCGATACAAGGGCACCATAGTA
Found at i:13857662 original size:21 final size:21
Alignment explanation
Indices: 13857576--13857662 Score: 68
Period size: 21 Copynumber: 4.1 Consensus size: 21
13857566 TCGTAGTGCA
* * *
13857576 ATACAGAGGCATCGTAGTGCG
1 ATACAGAGGCACCATAGTACG
*
13857597 ATACA-AGGGCACCATAGTATG
1 ATACAGA-GGCACCATAGTACG
* * * * **
13857618 ATACAGGGGCATCGTAATGTG
1 ATACAGAGGCACCATAGTACG
13857639 ATACAGAGGCACCATAGTACG
1 ATACAGAGGCACCATAGTACG
13857660 ATA
1 ATA
13857663 TAGGAGCACT
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 1 0.02
21 48 0.98
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (21 bp):
ATACAGAGGCACCATAGTACG
Found at i:13857692 original size:21 final size:21
Alignment explanation
Indices: 13857684--13857733 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
13857674 TAGTGCGAGA
*
13857684 CAAGGGCACCATAGTGCAATG
1 CAAGGGCACCGTAGTGCAATG
*
13857705 CAAGGGCACCGTAGTGCAATA
1 CAAGGGCACCGTAGTGCAATG
*
13857726 CAGGGGCA
1 CAAGGGCA
13857734 ATTTCAAGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.32, C:0.24, G:0.32, T:0.12
Consensus pattern (21 bp):
CAAGGGCACCGTAGTGCAATG
Found at i:13866238 original size:9 final size:9
Alignment explanation
Indices: 13866221--13866258 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
13866211 TTAGTTTTCG
13866221 AATTCGAAT
1 AATTCGAAT
*
13866230 AACTCGAAT
1 AATTCGAAT
13866239 AATTCGAAT
1 AATTCGAAT
13866248 AATTCGAAT
1 AATTCGAAT
13866257 AA
1 AA
13866259 ACCGAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13866264 original size:18 final size:18
Alignment explanation
Indices: 13866225--13866266 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
13866215 TTTTCGAATT
**
13866225 CGAATAACTCGAATAATT
1 CGAATAACTCGAATAAAC
*
13866243 CGAATAATTCGAATAAAC
1 CGAATAACTCGAATAAAC
13866261 CGAATA
1 CGAATA
13866267 TTAAACTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.17, G:0.12, T:0.24
Consensus pattern (18 bp):
CGAATAACTCGAATAAAC
Found at i:13866465 original size:5 final size:5
Alignment explanation
Indices: 13866458--13866489 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
13866448 TTACTCCCCT
*
13866458 CCCAT CCCAC CCCAC CCCAC CCCAC CCCAC CC
1 CCCAC CCCAC CCCAC CCCAC CCCAC CCCAC CC
13866490 TAATCTACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.78, G:0.00, T:0.03
Consensus pattern (5 bp):
CCCAC
Found at i:13869585 original size:42 final size:43
Alignment explanation
Indices: 13869521--13869610 Score: 173
Period size: 42 Copynumber: 2.1 Consensus size: 43
13869511 GTTGGTCAAA
13869521 ACAAGTTAGTGAACACATATAAATATAAATATTTATATTAAAT
1 ACAAGTTAGTGAACACATATAAATATAAATATTTATATTAAAT
13869564 ACAA-TTAGTGAACACATATAAATATAAATATTTATATTAAAT
1 ACAAGTTAGTGAACACATATAAATATAAATATTTATATTAAAT
13869606 ACAAG
1 ACAAG
13869611 ATCTCAACAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 42 0.91
43 4 0.09
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.33
Consensus pattern (43 bp):
ACAAGTTAGTGAACACATATAAATATAAATATTTATATTAAAT
Found at i:13872369 original size:30 final size:30
Alignment explanation
Indices: 13872330--13872395 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
13872320 AAATTTTAAA
13872330 TTAATAAAT-ATAAAATTAT-ATTTTAATTCTT
1 TTAA-AAATAATAAAATTATGA-TTTAA-TCTT
*
13872361 TTAAAAATAATAAAATTTTGATTTAATCTT
1 TTAAAAATAATAAAATTATGATTTAATCTT
13872391 TTAAA
1 TTAAA
13872396 TATTATATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 13 0.41
31 18 0.56
32 1 0.03
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (30 bp):
TTAAAAATAATAAAATTATGATTTAATCTT
Found at i:13872418 original size:23 final size:23
Alignment explanation
Indices: 13872382--13872425 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
13872372 AAAATTTTGA
* * *
13872382 TTTAATCTTTTAAATATTATATT
1 TTTAATATTGTAAAAATTATATT
13872405 TTTAATATTGTAAAAATTATA
1 TTTAATATTGTAAAAATTATA
13872426 ATTTAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTAATATTGTAAAAATTATATT
Found at i:13873493 original size:23 final size:23
Alignment explanation
Indices: 13873438--13873507 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
13873428 TTATTAACAT
* * *
13873438 TATTCGTGAACATGTTCCATTATA
1 TATTCATGAACATATTCGATTA-A
* *
13873462 TGTTCATGAACATATTCGTTTAA
1 TATTCATGAACATATTCGATTAA
13873485 TATTCATGAACATATTCGATTAA
1 TATTCATGAACATATTCGATTAA
13873508 GTTAAATGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 22 0.56
24 17 0.44
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.41
Consensus pattern (23 bp):
TATTCATGAACATATTCGATTAA
Found at i:13873516 original size:23 final size:23
Alignment explanation
Indices: 13873467--13873525 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
13873457 TTATATGTTC
* **
13873467 ATGAACATATTCGTTTAATATTC
1 ATGAACATATTCGATTAATATAA
13873490 ATGAACATATTCGATTAAGT-TAA
1 ATGAACATATTCGATTAA-TATAA
*
13873513 ATGAACATGTTCG
1 ATGAACATATTCG
13873526 TAAACATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 30 0.97
24 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (23 bp):
ATGAACATATTCGATTAATATAA
Found at i:13897770 original size:19 final size:19
Alignment explanation
Indices: 13897748--13897789 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13897738 CTGGCTTGCA
*
13897748 AGAGCGATACTGGCTCGTG
1 AGAGCAATACTGGCTCGTG
*
13897767 AGAGCAATATTGGCTCGTG
1 AGAGCAATACTGGCTCGTG
13897786 AGAG
1 AGAG
13897790 TTGTAACACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.17, G:0.36, T:0.21
Consensus pattern (19 bp):
AGAGCAATACTGGCTCGTG
Found at i:13898234 original size:25 final size:25
Alignment explanation
Indices: 13898183--13898236 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
13898173 CTACTGATAC
**
13898183 AAGTACACAAACTACCGATACTTCT
1 AAGTACACAAACTACCGATACACCT
*
13898208 AAGTACA-GAACTACCGATACAACCT
1 AAGTACACAAACTACCGATAC-ACCT
13898233 AAGT
1 AAGT
13898237 CAGTGAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 12 0.48
25 13 0.52
ACGTcount: A:0.43, C:0.26, G:0.11, T:0.20
Consensus pattern (25 bp):
AAGTACACAAACTACCGATACACCT
Found at i:13900354 original size:35 final size:35
Alignment explanation
Indices: 13900272--13900362 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
13900262 CTAGGCTCGC
* * *
13900272 ATGAGCTAAATTTTATTAGGAGACTTGAAAGGCTCGT
1 ATGAGCTAAA--TTACTAGGAAACTTGAAAGGCTAGT
* *
13900309 ATAAGTTAAATTACTAGGAAACTT-AAAGGGCTAGT
1 ATGAGCTAAATTACTAGGAAACTTGAAA-GGCTAGT
13900344 ATGAGCTAAATTACT-GGAA
1 ATGAGCTAAATTACTAGGAA
13900363 GAGTGACGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
34 7 0.15
35 31 0.67
37 8 0.17
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (35 bp):
ATGAGCTAAATTACTAGGAAACTTGAAAGGCTAGT
Found at i:13904106 original size:5 final size:6
Alignment explanation
Indices: 13904090--13904114 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
13904080 ATCAGAACAC
13904090 CAAAAA CAAAAA CAAAAA CAAAAA C
1 CAAAAA CAAAAA CAAAAA CAAAAA C
13904115 TAATATCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:13908579 original size:18 final size:16
Alignment explanation
Indices: 13908553--13908596 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
13908543 GAATGAATTG
13908553 ATTTCCTCTCTCTCTCT
1 ATTTCCTCTCT-TCTCT
*
13908570 CATTTTCTCTCTTCTCT
1 -ATTTCCTCTCTTCTCT
*
13908587 ATTTCTTCTC
1 ATTTCCTCTC
13908597 CTCTTTGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 8 0.35
17 5 0.22
18 10 0.43
ACGTcount: A:0.07, C:0.36, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTCCTCTCTTCTCT
Found at i:13908596 original size:16 final size:18
Alignment explanation
Indices: 13908553--13908600 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 18
13908543 GAATGAATTG
*
13908553 ATTTCCTCTCTCTCTCTC
1 ATTTCTTCTCTCTCTCTC
13908571 A-TT-TTCTCTCT-TCTC
1 ATTTCTTCTCTCTCTCTC
13908586 TATTTCTTCTC-CTCT
1 -ATTTCTTCTCTCTCT
13908601 TTGGAATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 6 0.24
18 7 0.28
ACGTcount: A:0.06, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTCTTCTCTCTCTCTC
Found at i:13917449 original size:22 final size:22
Alignment explanation
Indices: 13917423--13917469 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
13917413 TAATCGAATC
13917423 GAATTTTTTTAAAAAAATAATA
1 GAATTTTTTTAAAAAAATAATA
*
13917445 GAA-TTTTTTAAAAAAATAATC
1 GAATTTTTTTAAAAAAATAATA
13917466 GAAT
1 GAAT
13917470 CGAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (22 bp):
GAATTTTTTTAAAAAAATAATA
Found at i:13917973 original size:4 final size:4
Alignment explanation
Indices: 13917966--13918019 Score: 53
Period size: 4 Copynumber: 14.0 Consensus size: 4
13917956 GGGACCAACG
*
13917966 AGAA AG-A AG-A AG-A AGAA AGAA AGAA AGAA AGAA A-AA AGGAGA GGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA
13918012 AGAA AGAA
1 AGAA AGAA
13918020 TAAGAGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 12 0.27
4 28 0.64
5 3 0.07
6 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:13917992 original size:21 final size:21
Alignment explanation
Indices: 13917966--13918043 Score: 63
Period size: 25 Copynumber: 3.7 Consensus size: 21
13917956 GGGACCAACG
13917966 AGAAAGAAGAAGAAGAAAGAA
1 AGAAAGAAGAAGAAGAAAGAA
* *
13917987 AGAAAGAAAGAAAAAAGGAGAGGAA
1 AGAAAG-AAG-AAGAA-GA-AAGAA
*
13918012 AGAAAGAATAAG-AGAAA-AA
1 AGAAAGAAGAAGAAGAAAGAA
*
13918031 A-AAAGGAGAAGAA
1 AGAAAGAAGAAGAA
13918044 TGTTATTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
18 8 0.18
19 4 0.09
20 1 0.02
21 8 0.18
22 4 0.09
23 6 0.13
24 4 0.09
25 10 0.22
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (21 bp):
AGAAAGAAGAAGAAGAAAGAA
Found at i:13918027 original size:29 final size:29
Alignment explanation
Indices: 13917965--13918040 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
13917955 AGGGACCAAC
*
13917965 GAGAAAGAAGAAGAAGAAAGAAAGAAAGA
1 GAGAAAAAAGAAGAAGAAAGAAAGAAAGA
* * *
13917994 AAGAAAAAAGGAGAGGAAAGAAAGAATA-A
1 GAGAAAAAAGAAGAAGAAAGAAAGAA-AGA
* *
13918023 GAGAAAAAAAAAGGAGAA
1 GAGAAAAAAGAAGAAGAA
13918041 GAATGTTATT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 36 0.97
30 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (29 bp):
GAGAAAAAAGAAGAAGAAAGAAAGAAAGA
Found at i:13918028 original size:33 final size:32
Alignment explanation
Indices: 13917978--13918039 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
13917968 AAAGAAGAAG
13917978 AAGAAAGAAAGAAAGAAAGAAAAAAGGAGAGGA
1 AAGAAAGAAAGAAAGAAA-AAAAAAGGAGAGGA
*
13918011 AAGAAAGAATA-AGAGAAAAAAAAAGGAGA
1 AAGAAAGAA-AGAAAGAAAAAAAAAGGAGA
13918040 AGAATGTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 11 0.41
33 15 0.56
34 1 0.04
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (32 bp):
AAGAAAGAAAGAAAGAAAAAAAAAGGAGAGGA
Found at i:13918294 original size:35 final size:33
Alignment explanation
Indices: 13918255--13918329 Score: 87
Period size: 35 Copynumber: 2.2 Consensus size: 33
13918245 TGTAAATGTT
*
13918255 TTATTGTTAATTTAAAGTTATATTTGGTTTAGTAA
1 TTATTGTTAAGTT--AGTTATATTTGGTTTAGTAA
* *
13918290 TTATTATTTTAAGTTATTTATATTTGGTTTAGTAA
1 TTA-T-TGTTAAGTTAGTTATATTTGGTTTAGTAA
13918325 TTATT
1 TTATT
13918330 ATTTTAAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
33 1 0.03
34 1 0.03
35 25 0.71
36 1 0.03
37 7 0.20
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (33 bp):
TTATTGTTAAGTTAGTTATATTTGGTTTAGTAA
Found at i:13918297 original size:19 final size:19
Alignment explanation
Indices: 13918275--13918333 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
13918265 TTTAAAGTTA
13918275 TATTTGGTTTAGTAATTAT
1 TATTTGGTTTAGTAATTAT
* *
13918294 TA-TT--TTAAGTTATT-T
1 TATTTGGTTTAGTAATTAT
13918309 ATATTTGGTTTAGTAATTAT
1 -TATTTGGTTTAGTAATTAT
13918329 TATTT
1 TATTT
13918334 TAAGTTATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
15 1 0.03
16 10 0.32
17 2 0.06
18 2 0.06
19 15 0.48
20 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.12, T:0.61
Consensus pattern (19 bp):
TATTTGGTTTAGTAATTAT
Found at i:13918368 original size:35 final size:35
Alignment explanation
Indices: 13918272--13918343 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
13918262 TAATTTAAAG
13918272 TTATATTTGGTTTAGTAATTATTATTTTAAGTTAT
1 TTATATTTGGTTTAGTAATTATTATTTTAAGTTAT
13918307 TTATATTTGGTTTAGTAATTATTATTTTAAGTTAT
1 TTATATTTGGTTTAGTAATTATTATTTTAAGTTAT
13918342 TT
1 TT
13918344 GTTTTGTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (35 bp):
TTATATTTGGTTTAGTAATTATTATTTTAAGTTAT
Found at i:13918371 original size:16 final size:16
Alignment explanation
Indices: 13918350--13918381 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13918340 ATTTGTTTTG
13918350 TTTAATTTAATATTTA
1 TTTAATTTAATATTTA
*
13918366 TTTAATTTATTATTTA
1 TTTAATTTAATATTTA
13918382 ATTTTTTTTT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAATTTAATATTTA
Found at i:13918378 original size:12 final size:11
Alignment explanation
Indices: 13918354--13918387 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
13918344 GTTTTGTTTA
*
13918354 ATTTAATATTT
1 ATTTAATTTTT
13918365 ATTTAATTTATT
1 ATTTAATTT-TT
13918377 ATTTAATTTTT
1 ATTTAATTTTT
13918388 TTTTTAGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTAATTTTT
Found at i:13918453 original size:5 final size:5
Alignment explanation
Indices: 13918438--13918467 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
13918428 ATTTCGTTAT
13918438 TTTTAA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
13918468 GTTAATAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:13918482 original size:21 final size:21
Alignment explanation
Indices: 13918458--13918520 Score: 101
Period size: 21 Copynumber: 3.0 Consensus size: 21
13918448 ATTTTATTTT
13918458 ATTTTATTTTGTTAATAAGTA
1 ATTTTATTTTGTTAATAAGTA
*
13918479 ATTTTATTTTGTTAGTAAGTA
1 ATTTTATTTTGTTAATAAGTA
*
13918500 ATTTTATTTTGTCAAT-AGTA
1 ATTTTATTTTGTTAATAAGTA
13918520 A
1 A
13918521 GTAAGTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 5 0.13
21 34 0.87
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.56
Consensus pattern (21 bp):
ATTTTATTTTGTTAATAAGTA
Found at i:13918508 original size:26 final size:25
Alignment explanation
Indices: 13918452--13918509 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 25
13918442 AATTTTATTT
13918452 TATTTTATTTTATTTTGTTAATAAG
1 TATTTTATTTTATTTTGTTAATAAG
*
13918477 TA----ATTTTATTTTGTTAGTAAG
1 TATTTTATTTTATTTTGTTAATAAG
13918498 TAATTTTATTTT
1 T-ATTTTATTTT
13918510 GTCAATAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 9
0.73 0.03 0.24
Matches are distributed among these distances:
21 19 0.70
22 1 0.04
25 2 0.07
26 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (25 bp):
TATTTTATTTTATTTTGTTAATAAG
Found at i:13919939 original size:43 final size:43
Alignment explanation
Indices: 13919888--13919987 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
13919878 TGTTATTCAT
13919888 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCA
1 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCA
* * ** *
13919931 TGGCATGTTATTAAGTTATATTACTTGATTCTTGTTAATATCA
1 TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCA
13919974 TGACATGTTATTAA
1 TGACATGTTATTAA
13919988 TTGTGCAGGT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.45
Consensus pattern (43 bp):
TGACATGTTATTAAATTATATTACTTGACCCGTGTTAATATCA
Found at i:13920455 original size:6 final size:6
Alignment explanation
Indices: 13920441--13920481 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
13920431 CTCCTACCTT
* * *
13920441 AGAGCA AGAGGA AGAAGA AGAGGA AAAGGA AGAGGA AGAGG
1 AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAGGA AGAGG
13920482 CATCGGATGA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.54, C:0.02, G:0.44, T:0.00
Consensus pattern (6 bp):
AGAGGA
Found at i:13926653 original size:23 final size:23
Alignment explanation
Indices: 13926627--13926671 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13926617 TATTTCGAAT
**
13926627 TTCGAATTATTCGAATCGAGTTA
1 TTCGAATTAAACGAATCGAGTTA
*
13926650 TTCGAGTTAAACGAATCGAGTT
1 TTCGAATTAAACGAATCGAGTT
13926672 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (23 bp):
TTCGAATTAAACGAATCGAGTTA
Found at i:13926969 original size:57 final size:58
Alignment explanation
Indices: 13926895--13927007 Score: 158
Period size: 57 Copynumber: 2.0 Consensus size: 58
13926885 ATCAACAAAC
* *
13926895 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCTTCAAA-AACACTTATAAGT
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCT-AAATAACACTCATAAGT
** *
13926953 TAAACCC-AATATTTTTAAATTCAAATATAATTTTATTCCTAAATAACACTCATAA
1 TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCATAA
13927008 ACAACTCCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
56 3 0.06
57 39 0.80
58 7 0.14
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (58 bp):
TAAACCCAAATATTTTTAAACCCAAATATAATTTCATTCCTAAATAACACTCATAAGT
Found at i:13928286 original size:2 final size:2
Alignment explanation
Indices: 13928281--13928309 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
13928271 TATATGGTTA
13928281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13928310 AATTAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13934019 original size:79 final size:79
Alignment explanation
Indices: 13933885--13934040 Score: 197
Period size: 79 Copynumber: 2.0 Consensus size: 79
13933875 TTGATTTATG
* * *
13933885 TTGTCAATTTAATTGACTAGAGCTAGGCTCACTTTCGCGGTTTATCCGCTAGGCACTAGGTGCCA
1 TTGTCAATTTAACTGACTAGAGCTAGGCTCACTTTCGCAGTTTATCCACTAGGCACTAGGTGCCA
13933950 AGACTTGACGGACA
66 AGACTTGACGGACA
* * * * * *
13933964 TTGTCAGTTTAACTGACTATAGTTGGGCTCACATTT-GCAGTTTATCCACTTGGCACTGGGTGCC
1 TTGTCAATTTAACTGACTAGAGCTAGGCTCAC-TTTCGCAGTTTATCCACTAGGCACTAGGTGCC
* *
13934028 AGGATTTGACGGA
65 AAGACTTGACGGA
13934041 TATTTGTTGG
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 62 0.95
80 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (79 bp):
TTGTCAATTTAACTGACTAGAGCTAGGCTCACTTTCGCAGTTTATCCACTAGGCACTAGGTGCCA
AGACTTGACGGACA
Found at i:13934100 original size:80 final size:79
Alignment explanation
Indices: 13933903--13934113 Score: 219
Period size: 80 Copynumber: 2.7 Consensus size: 79
13933893 TTAATTGACT
* * *
13933903 AGAGCTAGGCTCAC-TTTCGCGGTTTATCCGCTAGGCACTAGGTGCCAAGACTTGACGGACATTG
1 AGAGCTGGGCTCACATTT-GCGGTTTATCCGCTAGGCACTGGGTGCCAAGATTTGACGGACATTG
* ** *
13933967 TCAGTTTAACTGACT
65 TCAGGTTAACCAACC
* * * * * * *
13933982 ATAGTTGGGCTCACATTTGCAGTTTATCCACTTGGCACTGGGTGCCAGGATTTGACGGATATTTG
1 AGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTGCCAAGATTTGACGGACA-TTG
*
13934047 T-TGGTTAATCCAACC
65 TCAGGTTAA-CCAACC
* * *
13934062 AGAGCTGGGCTCACATCTGCGGTTTATCCGCTAAGCACTGGGTGCCATGATT
1 AGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTGCCAAGATT
13934114 ATCGGTTTAT
Statistics
Matches: 106, Mismatches: 23, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
79 52 0.49
80 54 0.51
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (79 bp):
AGAGCTGGGCTCACATTTGCGGTTTATCCGCTAGGCACTGGGTGCCAAGATTTGACGGACATTGT
CAGGTTAACCAACC
Found at i:13944612 original size:42 final size:42
Alignment explanation
Indices: 13944548--13944732 Score: 280
Period size: 42 Copynumber: 4.4 Consensus size: 42
13944538 GAATCACTTG
* *
13944548 ATGTATAAAGGAAGACTCATGTCTGGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTTGGGATGAGCATGAGATT
* * *
13944590 ATGTTTAAAGGAAGACCCATGTCTTAGGATGAGCAAGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTTGGGATGAGCATGAGATT
**
13944632 ATGTTTAAAGGAAGACTTGTGTCTTGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTTGGGATGAGCATGAGATT
* * *
13944674 ATGTTTAAAGGAAGACTCGTGGCTCGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTCATGTCTTGGGATGAGCATGAGATT
13944716 ATGTTTAAAGGAAGACT
1 ATGTTTAAAGGAAGACT
13944733 TATATCTCGG
Statistics
Matches: 130, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 130 1.00
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (42 bp):
ATGTTTAAAGGAAGACTCATGTCTTGGGATGAGCATGAGATT
Found at i:13944751 original size:42 final size:42
Alignment explanation
Indices: 13944548--13944784 Score: 271
Period size: 42 Copynumber: 5.6 Consensus size: 42
13944538 GAATCACTTG
* * *
13944548 ATGTATAAAGGAAGACTCATGTCTGGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTTATGTCTCGGGATGAGCATGAGATT
** ** *
13944590 ATGTTTAAAGGAAGACCCATGTCTTAGGATGAGCAAGAGATT
1 ATGTTTAAAGGAAGACTTATGTCTCGGGATGAGCATGAGATT
* *
13944632 ATGTTTAAAGGAAGACTTGTGTCTTGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTTATGTCTCGGGATGAGCATGAGATT
** *
13944674 ATGTTTAAAGGAAGACTCGTGGCTCGGGATGAGCATGAGATT
1 ATGTTTAAAGGAAGACTTATGTCTCGGGATGAGCATGAGATT
* * *
13944716 ATGTTTAAAGGAAGACTTATATCTCGGCTAT-AGCATAAGATT
1 ATGTTTAAAGGAAGACTTATGTCTCGG-GATGAGCATGAGATT
* *
13944758 GT-TTATAAATGGAACACTTATGTCTCG
1 ATGTT-TAAA-GGAAGACTTATGTCTCG
13944785 ACTAGAGCAT
Statistics
Matches: 170, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
41 2 0.01
42 151 0.89
43 17 0.10
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (42 bp):
ATGTTTAAAGGAAGACTTATGTCTCGGGATGAGCATGAGATT
Found at i:13944784 original size:43 final size:43
Alignment explanation
Indices: 13944704--13944841 Score: 136
Period size: 43 Copynumber: 3.2 Consensus size: 43
13944694 GGCTCGGGAT
* * * *
13944704 GAGCATGAGATTATGTT-TAAA-GGAAGACTTATATCTCGGCTA
1 GAGCATAAGATCAT-TTATAAATGGAAAACTTATGTCTCGGCTA
* ** * *
13944746 TAGCATAAGATTGTTTATAAATGGAACACTTATGTCTCGACTA
1 GAGCATAAGATCATTTATAAATGGAAAACTTATGTCTCGGCTA
* * *
13944789 GAGCATAAGATCATTTGTAAATGGAAGAACTTATGACTCGGGTA
1 GAGCATAAGATCATTTATAAATGGAA-AACTTATGTCTCGGCTA
13944833 GAGCATAAG
1 GAGCATAAG
13944842 GTTAATTTAG
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
41 2 0.03
42 15 0.19
43 40 0.51
44 22 0.28
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (43 bp):
GAGCATAAGATCATTTATAAATGGAAAACTTATGTCTCGGCTA
Found at i:13944836 original size:44 final size:42
Alignment explanation
Indices: 13944627--13944850 Score: 154
Period size: 42 Copynumber: 5.3 Consensus size: 42
13944617 GATGAGCAAG
* * * * *
13944627 AGATTATGTTTAAA-GGAAGACTTGTGTCTTGG-GATGAGCATG
1 AGATTAT-TTTAAATGGAAGACTTATGACTCGGCTA-GAGCATA
** * * *
13944669 AGATTATGTTTAAA-GGAAGACTCGTGGCTCGG-GATGAGCATG
1 AGATTAT-TTTAAATGGAAGACTTATGACTCGGCTA-GAGCATA
*
13944711 AGATTATGTTTAAA-GGAAGACTTAT-ATCTCGGCTATAGCATA
1 AGATTAT-TTTAAATGGAAGACTTATGA-CTCGGCTAGAGCATA
* * * *
13944753 AGATTGTTTATAAATGGAACACTTATGTCTCGACTAGAGCATA
1 AGATTATTT-TAAATGGAAGACTTATGACTCGGCTAGAGCATA
* *
13944796 AGATCATTTGTAAATGGAAGAACTTATGACTCGGGTAGAGCATA
1 AGATTATTT-TAAATGGAAG-ACTTATGACTCGGCTAGAGCATA
* *
13944840 AGGTTAATTTA
1 AGATTATTTTA
13944851 GCTCAAGAGG
Statistics
Matches: 152, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
41 2 0.01
42 82 0.54
43 42 0.28
44 26 0.17
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (42 bp):
AGATTATTTTAAATGGAAGACTTATGACTCGGCTAGAGCATA
Found at i:13947804 original size:39 final size:37
Alignment explanation
Indices: 13947703--13947814 Score: 93
Period size: 38 Copynumber: 2.9 Consensus size: 37
13947693 TGTATTTTTC
13947703 TCATAATTTTTGGTATTCAC-ACATATTTTTTGGTACCCCT
1 TCATAA-TTTTGGTATT-ACTA-ATATTTTTT-GTACCCCT
* ** *
13947743 T-AGAATTTGTGGTATTTTTAATATTTTTTGTACTCCT
1 TCATAATTT-TGGTATTACTAATATTTTTTGTACCCCT
*
13947780 TCATAATTATTGGTAATTACTAATAATATTTTGTA
1 TCATAATT-TTGGT-ATTACTAAT-ATTTTTTGTA
13947815 TTCTCTCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
37 8 0.14
38 21 0.36
39 19 0.33
40 10 0.17
ACGTcount: A:0.27, C:0.12, G:0.11, T:0.51
Consensus pattern (37 bp):
TCATAATTTTGGTATTACTAATATTTTTTGTACCCCT
Found at i:13948395 original size:20 final size:20
Alignment explanation
Indices: 13948372--13948437 Score: 71
Period size: 20 Copynumber: 3.3 Consensus size: 20
13948362 TTGAGGATGC
13948372 ACCAAAAATTATAAGGGAGT
1 ACCAAAAATTATAAGGGAGT
* * * *
13948392 ACCAAAAAATATGAGGAAGC
1 ACCAAAAATTATAAGGGAGT
*
13948412 A-CAAGAAATTATAAGGGATT
1 ACCAA-AAATTATAAGGGAGT
13948432 ACCAAA
1 ACCAAA
13948438 TGTAACACCA
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 3 0.09
20 29 0.83
21 3 0.09
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.17
Consensus pattern (20 bp):
ACCAAAAATTATAAGGGAGT
Found at i:13948399 original size:40 final size:40
Alignment explanation
Indices: 13948354--13948437 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
13948344 GCAAGCATAT
* *
13948354 AAAAAATTTTGAGGATGCACCAA-AAATTATAAGGGAGTACC
1 AAAAAA-TATGAGGAAGCA-CAAGAAATTATAAGGGAGTACC
*
13948395 AAAAAATATGAGGAAGCACAAGAAATTATAAGGGATTACC
1 AAAAAATATGAGGAAGCACAAGAAATTATAAGGGAGTACC
13948435 AAA
1 AAA
13948438 TGTAACACCA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
39 3 0.08
40 30 0.77
41 6 0.15
ACGTcount: A:0.51, C:0.11, G:0.19, T:0.19
Consensus pattern (40 bp):
AAAAAATATGAGGAAGCACAAGAAATTATAAGGGAGTACC
Found at i:13952475 original size:23 final size:23
Alignment explanation
Indices: 13952449--13952493 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13952439 TTCTAGCATG
* *
13952449 CTTTTCCTTTGTCTTGTGGCACA
1 CTTTTCCTCTGCCTTGTGGCACA
13952472 CTTTTCCTCTGCCTTGTGGCAC
1 CTTTTCCTCTGCCTTGTGGCAC
13952494 GCTTCTGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.07, C:0.31, G:0.18, T:0.44
Consensus pattern (23 bp):
CTTTTCCTCTGCCTTGTGGCACA
Found at i:13955356 original size:16 final size:17
Alignment explanation
Indices: 13955331--13955371 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
13955321 AAAATAACAG
*
13955331 AAAT-TTGT-AAATTAT
1 AAATATTGTAAAATTAC
13955346 AAATATTGTAAAAATTAC
1 AAATATTGT-AAAATTAC
13955364 AAATATTG
1 AAATATTG
13955372 ATAATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 4 0.18
18 14 0.64
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (17 bp):
AAATATTGTAAAATTAC
Found at i:13955891 original size:21 final size:20
Alignment explanation
Indices: 13955846--13955890 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
13955836 GAGTTAAATA
13955846 TAAAATAGATTAAGAAATTT
1 TAAAATAGATTAAGAAATTT
*
13955866 TAAAATCAGATT-ATAAATTT
1 TAAAAT-AGATTAAGAAATTT
13955886 TAAAA
1 TAAAA
13955891 AGTTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (20 bp):
TAAAATAGATTAAGAAATTT
Done.