Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 32 of 332
Found at i:9764300 original size:37 final size:37
Alignment explanation
Indices: 9764257--9764332 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
9764247 CAAGTGAGGA
*
9764257 AAAAAGGGTAGGAGATGCAATTGACGGGGAGGAGTCG
1 AAAAAGGGTAGGAAATGCAATTGACGGGGAGGAGTCG
* *
9764294 AAAAAGGGTAGGAAATGTAGTTGACGGGGAGGAGTCG
1 AAAAAGGGTAGGAAATGCAATTGACGGGGAGGAGTCG
9764331 AA
1 AA
9764333 TCCTAAGCCA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.42, T:0.14
Consensus pattern (37 bp):
AAAAAGGGTAGGAAATGCAATTGACGGGGAGGAGTCG
Found at i:9767200 original size:46 final size:46
Alignment explanation
Indices: 9767148--9767452 Score: 367
Period size: 46 Copynumber: 6.6 Consensus size: 46
9767138 TGTCATAGTG
* ** * * *
9767148 TCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCAATTGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
** *
9767194 TCTTTCAACCATGGTCTTGTTCATTTCATGTCACGTTGCCATGGCA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* *** *
9767240 TCTTTCAACCATGGTCTTATTCATTTCCCATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * *
9767286 TCTTTCAACTATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* **
9767332 TCTTTCAACCATGGTCTTATTTTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * * *
9767378 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGTCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * *
9767424 TCTTTTAACTATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
9767453 TTCAGAAAGC
Statistics
Matches: 227, Mismatches: 32, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 227 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
Found at i:9767451 original size:138 final size:138
Alignment explanation
Indices: 9767133--9767452 Score: 451
Period size: 138 Copynumber: 2.3 Consensus size: 138
9767123 TTATCTTTGA
* * * ** * *
9767133 CATGATGTCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCAATTGTATCTT
1 CATGTTGTCATGGTATCTTTCAACTATGGTCTTACTCATTTCATGTCACGTTGCAATGGTATCTT
* **
9767198 TCAACCATGGTCTTGTTCATTTCATGTCACGTTGCCATGGCATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGCATCTTTCAACCATGGTCTTACACA
*
9767263 TTTCCCAT
131 TTTCACAT
* * * *
9767271 CATGTTGCCATGGTATCTTTCAACTATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTT
1 CATGTTGTCATGGTATCTTTCAACTATGGTCTTACTCATTTCATGTCACGTTGCAATGGTATCTT
** *
9767336 TCAACCATGGTCTTATTTTTTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGCATCTTTCAACCATGGTCTTACACA
*
9767401 TTTCATAT
131 TTTCACAT
* *
9767409 CATGTTGTCATGGTATCTTTTAACTATGGTCTTACACATTTCAT
1 CATGTTGTCATGGTATCTTTCAACTATGGTCTTACTCATTTCAT
9767453 TTCAGAAAGC
Statistics
Matches: 158, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
138 158 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (138 bp):
CATGTTGTCATGGTATCTTTCAACTATGGTCTTACTCATTTCATGTCACGTTGCAATGGTATCTT
TCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGCATCTTTCAACCATGGTCTTACACA
TTTCACAT
Found at i:9769309 original size:11 final size:11
Alignment explanation
Indices: 9769293--9769340 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
9769283 CTTTATATAC
9769293 TAATAAAATAA
1 TAATAAAATAA
*
9769304 TAATAAAATATCT
1 TAATAAAATA--A
* *
9769317 TATTAAAATAT
1 TAATAAAATAA
9769328 TAATAAAATAA
1 TAATAAAATAA
9769339 TA
1 TA
9769341 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:9775302 original size:6 final size:6
Alignment explanation
Indices: 9775291--9775329 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
9775281 ACTCCAATAT
*
9775291 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC ATCTTC CTC
1 CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTCTTC CTC
9775330 CGATTCTGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (6 bp):
CTCTTC
Found at i:9788219 original size:64 final size:64
Alignment explanation
Indices: 9788128--9788304 Score: 239
Period size: 64 Copynumber: 2.8 Consensus size: 64
9788118 AGCCAAAAAA
* * *
9788128 AAAAAAACTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATACATTATCAGCGTT
1 AAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATACATTACCAGC-AT
* * *
9788193 AAAAAACCTTAATTTCTACGAT-CTTCCTTATTGAGGAATTACTCTATAATACATTACCAGCAT
1 AAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATACATTACCAGCAT
** * *
9788256 AAAAAACCCTTACGGTCTATGATACTTCCTCATCAAGGAATTACTCTAT
1 AAAAAA-CCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTAT
9788305 GCTCTTACCT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 7 0.07
64 49 0.51
65 41 0.42
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (64 bp):
AAAAAACCTTACTTTCTATGATACTTCCTTATCGAGGAATTACTCTATAATACATTACCAGCAT
Found at i:9789660 original size:21 final size:21
Alignment explanation
Indices: 9789619--9789661 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
9789609 TGAACTCATG
*
9789619 AAAAATAAATGTAAGATATAT
1 AAAAATAAATGTAAGAAATAT
*
9789640 AAAAACTAAATG-AATAAATAT
1 AAAAA-TAAATGTAAGAAATAT
9789661 A
1 A
9789662 CAAGTTCAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAAATAAATGTAAGAAATAT
Found at i:9794771 original size:11 final size:10
Alignment explanation
Indices: 9794755--9794789 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9794745 TTACTGTTAT
9794755 TTTTTTTTTC
1 TTTTTTTTTC
*
9794765 CTTTTTTTTC
1 TTTTTTTTTC
9794775 TTTTTCTTTTC
1 TTTTT-TTTTC
9794786 TTTT
1 TTTT
9794790 CGAATACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:9795879 original size:52 final size:52
Alignment explanation
Indices: 9795782--9795880 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
9795772 TACGTTAAAT
*
9795782 TTATTATTATTACTTTTATTCTTTAGTTACTATTATTATTCTTACTAATGCA
1 TTATTATTATTACTTTTATTCTTTAGTTACTATTATTATTATTACTAATGCA
*
9795834 TTATTATTATT-CTTTTATTCTACTTTA-TTATTATTA-TATTATTACTA
1 TTATTATTATTACTTTTA-T-T-CTTTAGTTACTATTATTATTATTACTA
9795881 TTGTTATCAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
51 6 0.14
52 22 0.52
53 9 0.21
54 5 0.12
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (52 bp):
TTATTATTATTACTTTTATTCTTTAGTTACTATTATTATTATTACTAATGCA
Found at i:9796234 original size:22 final size:22
Alignment explanation
Indices: 9796195--9796238 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9796185 ATGATTGTGT
* *
9796195 TAAATTCTTTTTATTACTTATTA
1 TAAATTCTTTCTACTAC-TATTA
9796218 TAAA-TCTTTCTACTACTATTA
1 TAAATTCTTTCTACTACTATTA
9796239 ATTTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 10 0.53
23 4 0.21
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.55
Consensus pattern (22 bp):
TAAATTCTTTCTACTACTATTA
Found at i:9797258 original size:129 final size:130
Alignment explanation
Indices: 9796936--9797243 Score: 383
Period size: 130 Copynumber: 2.4 Consensus size: 130
9796926 AACAAAAGCG
* *
9796936 ATGTTTGATGTTTAGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTAAAATTTCTCGTTTGT
1 ATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTAAAATTTCTCGTTTGT
* * *
9797001 TCAAAATTATCGAATATTCCTTTGGAATTTCACTCATGTTTTAAAAATTCTTTAAAATGAAGGCA
66 TCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTAAAAATTCTTAAAAATGAAGGCA
* * * * ** *
9797066 ATGTTCGAAGTTTGGAAATTCGGGGAATCGTGCCTTATCGTGCTAGGTTGCAATTTCCCGTTTGT
1 ATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTAAAATTTCTCGTTTGT
* **
9797131 TC-AAATAATCGAATATTCCTTTAGAATTTTACTCATGTTTTCTAAATT-TTAAAAAAAT-AAGG
66 TCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTAAAAATTCTT--AAAAATGAAGG
9797193 CA
129 CA
* * *
9797195 ATATTTCG-TGTTTGGAAATTTCGAGAAATTGTGCCCTA-CGTGCTGGGTT
1 AT-GTTCGATGTTTGGAAA-TTCGAGGAATCGTGCCCTATCGTGCTGGGTT
9797244 TTGATTTATC
Statistics
Matches: 152, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
128 2 0.01
129 68 0.45
130 82 0.54
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (130 bp):
ATGTTCGATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTAAAATTTCTCGTTTGT
TCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGTTTTAAAAATTCTTAAAAATGAAGGCA
Found at i:9798328 original size:5 final size:5
Alignment explanation
Indices: 9798318--9798345 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
9798308 AATCTGTGTG
9798318 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
9798346 CCACAAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:9803674 original size:63 final size:63
Alignment explanation
Indices: 9803574--9803693 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
9803564 TATCCCTAGA
* *
9803574 GAATGTGTTGATGCAGGGAATGATGGGGCCTATTGTGGTGCTTGTGTAAAATAAACTAGTGCT
1 GAATGTGTTGATGCAGGAAATGATGGGGCATATTGTGGTGCTTGTGTAAAATAAACTAGTGCT
* * *
9803637 GAATGTGTTGATGCAGGAAATGATTGTGCATGA-TGTGGTGGTTGTGTAAAATAAACT
1 GAATGTGTTGATGCAGGAAATGATGGGGCAT-ATTGTGGTGCTTGTGTAAAATAAACT
9803694 GAAACTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 50 0.98
64 1 0.02
ACGTcount: A:0.28, C:0.07, G:0.33, T:0.33
Consensus pattern (63 bp):
GAATGTGTTGATGCAGGAAATGATGGGGCATATTGTGGTGCTTGTGTAAAATAAACTAGTGCT
Found at i:9803817 original size:28 final size:28
Alignment explanation
Indices: 9803782--9803839 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
9803772 AAAACAAATG
9803782 AACCACATTGATCGGGAGGTTGCATGAC
1 AACCACATTGATCGGGAGGTTGCATGAC
*
9803810 AACCACATTGATCGGGAGGTTGCTTGAC
1 AACCACATTGATCGGGAGGTTGCATGAC
9803838 AA
1 AA
9803840 TCAGGTCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (28 bp):
AACCACATTGATCGGGAGGTTGCATGAC
Found at i:9811313 original size:39 final size:40
Alignment explanation
Indices: 9811229--9811314 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 40
9811219 ACTTAATTCA
* * *
9811229 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9811269 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9811308 TCAGCAT
1 CCAGCAT
9811315 AATTCATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 21 0.51
40 20 0.49
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:9811483 original size:47 final size:46
Alignment explanation
Indices: 9811384--9811539 Score: 199
Period size: 47 Copynumber: 3.3 Consensus size: 46
9811374 TGCACACTTT
* * *
9811384 TCACAATTGGTCATTCGGCCTTATCACA-TATTCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATTATACACTTTCACAT-TCA
** *
9811430 TCACATTAACCATTCGGCCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
*
9811477 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACAT-TATACACTTTCACATTCA
9811524 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
9811540 ATCTTAAGCT
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
45 20 0.21
46 5 0.05
47 72 0.74
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATTATACACTTTCACATTCA
Found at i:9815484 original size:21 final size:21
Alignment explanation
Indices: 9815458--9815499 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
9815448 TTGCCTAAAG
*
9815458 ATATGAATTGGATTGAATTGA
1 ATATGAATTGGATTAAATTGA
*
9815479 ATATGAATTGTATTAAATTGA
1 ATATGAATTGGATTAAATTGA
9815500 GTTAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (21 bp):
ATATGAATTGGATTAAATTGA
Found at i:9815530 original size:24 final size:24
Alignment explanation
Indices: 9815502--9815573 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
9815492 TAAATTGAGT
9815502 TAAATTTACTCGTATTGATCTGGA
1 TAAATTTACTCGTATTGATCTGGA
* *
9815526 TAAA--T--T-GTATTAAAT-TGAGT
1 TAAATTTACTCGTATT-GATCTG-GA
9815546 TAAATTTACTCGTATTGATCTGGA
1 TAAATTTACTCGTATTGATCTGGA
9815570 TAAA
1 TAAA
9815574 CTAAATACGG
Statistics
Matches: 36, Mismatches: 4, Indels: 16
0.64 0.07 0.29
Matches are distributed among these distances:
19 7 0.19
20 8 0.22
22 2 0.06
24 12 0.33
25 7 0.19
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (24 bp):
TAAATTTACTCGTATTGATCTGGA
Found at i:9815534 original size:44 final size:44
Alignment explanation
Indices: 9815484--9815573 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
9815474 ATTGAATATG
9815484 AATTGTATTAAATTGAGTTAAATTTACTCGTATTGATCTGGATA
1 AATTGTATTAAATTGAGTTAAATTTACTCGTATTGATCTGGATA
9815528 AATTGTATTAAATTGAGTTAAATTTACTCGTATTGATCTGGATA
1 AATTGTATTAAATTGAGTTAAATTTACTCGTATTGATCTGGATA
9815572 AA
1 AA
9815574 CTAAATACGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.42
Consensus pattern (44 bp):
AATTGTATTAAATTGAGTTAAATTTACTCGTATTGATCTGGATA
Found at i:9815936 original size:24 final size:25
Alignment explanation
Indices: 9815884--9815930 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
9815874 TAGCCTTCTC
**
9815884 GAGCTTCCCGTTATATAGTTCTTGT
1 GAGCTTCCCGTTATATAACTCTTGT
9815909 GAGCTTCCCGTTA-ATAACTCTT
1 GAGCTTCCCGTTATATAACTCTT
9815931 TGGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.40
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAACTCTTGT
Found at i:9816034 original size:26 final size:26
Alignment explanation
Indices: 9816005--9816062 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
9815995 TGCGATATAT
*
9816005 GGCTTTTTGTGAACTTCCCGATTAAA
1 GGCTCTTTGTGAACTTCCCGATTAAA
* *
9816031 GGCTCTTTGTGAACTTCCTGATTAAT
1 GGCTCTTTGTGAACTTCCCGATTAAA
9816057 GGCTCT
1 GGCTCT
9816063 CTAGAGTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (26 bp):
GGCTCTTTGTGAACTTCCCGATTAAA
Found at i:9816130 original size:25 final size:24
Alignment explanation
Indices: 9816044--9816142 Score: 62
Period size: 25 Copynumber: 4.1 Consensus size: 24
9816034 TCTTTGTGAA
*
9816044 CTTCCTGATTAATGGCTCTCTAGAG
1 CTTCCTGA-TAATGGCTATCTAGAG
* ** * *
9816069 -TTTCTGAT-ATGGCTCGCTTGAA
1 CTTCCTGATAATGGCTATCTAGAG
*
9816091 CTT-CTCGATATATGGCTATCTGGAG
1 CTTCCT-GATA-ATGGCTATCTAGAG
9816116 CTTCCTGATTAATGGCTAT-TCAGAG
1 CTTCCTGA-TAATGGCTATCT-AGAG
9816141 CT
1 CT
9816143 ACCCGTTATT
Statistics
Matches: 58, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
22 13 0.22
23 6 0.10
24 7 0.12
25 28 0.48
26 4 0.07
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.37
Consensus pattern (24 bp):
CTTCCTGATAATGGCTATCTAGAG
Found at i:9818266 original size:13 final size:13
Alignment explanation
Indices: 9818245--9818274 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9818235 CATCAAATAA
9818245 AATTCAAAAAAAT
1 AATTCAAAAAAAT
*
9818258 AATTTAAAAAAAT
1 AATTCAAAAAAAT
9818271 AATT
1 AATT
9818275 GAAGATTGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
AATTCAAAAAAAT
Found at i:9818337 original size:35 final size:34
Alignment explanation
Indices: 9818271--9818379 Score: 94
Period size: 35 Copynumber: 3.1 Consensus size: 34
9818261 TTAAAAAAAT
* * * *
9818271 AATTGAAGATTGAGGTTTAAAAATTTGAAATTGAA
1 AATTGAAAATTGAAGATTAAAAA-TTAAAATTGAA
*
9818306 AATT-AAAATTTGAAGATTAAAAATATAAAATTGAG
1 AATTGAAAA-TTGAAGATTAAAAAT-TAAAATTGAA
* * * *
9818341 AATTGAGAATTGAGGATTGAAGATTGAAAATTGAA
1 AATTGAAAATTGAAGATTAAAAATT-AAAATTGAA
9818376 AATT
1 AATT
9818380 TAGAATAGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
34 5 0.08
35 52 0.87
36 3 0.05
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (34 bp):
AATTGAAAATTGAAGATTAAAAATTAAAATTGAA
Found at i:9818344 original size:7 final size:7
Alignment explanation
Indices: 9818334--9818385 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
9818324 AAAAATATAA
9818334 AATTGAG
1 AATTGAG
9818341 AATTGAG
1 AATTGAG
9818348 AATTGAG
1 AATTGAG
*
9818355 GATTGA-
1 AATTGAG
*
9818361 AGATTGAA
1 A-ATTGAG
*
9818369 AATTGAA
1 AATTGAG
*
9818376 AATTTAG
1 AATTGAG
9818383 AAT
1 AAT
9818386 AGAAGAATGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 38 0.97
8 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (7 bp):
AATTGAG
Found at i:9818385 original size:35 final size:35
Alignment explanation
Indices: 9818287--9818391 Score: 97
Period size: 35 Copynumber: 3.0 Consensus size: 35
9818277 AGATTGAGGT
* * *
9818287 TTAAAAATTTGAAATTGAAAA-TTAAAATTTGAAGA
1 TTAAAAATATAAAATTGAAAATTTAGAA-TTGAAGA
* * *
9818322 TTAAAAATATAAAATTGAGAATTGAGAATTGAGGA
1 TTAAAAATATAAAATTGAAAATTTAGAATTGAAGA
* * *
9818357 TTGAAGAT-TGAAAATTGAAAATTTAGAATAGAAGA
1 TTAAAAATAT-AAAATTGAAAATTTAGAATTGAAGA
9818392 ATGAGTACGG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
34 1 0.02
35 51 0.91
36 4 0.07
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.30
Consensus pattern (35 bp):
TTAAAAATATAAAATTGAAAATTTAGAATTGAAGA
Found at i:9818390 original size:28 final size:28
Alignment explanation
Indices: 9818335--9818391 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
9818325 AAAATATAAA
* * * *
9818335 ATTGAGAATTGAGAATTGAGGATTGAAG
1 ATTGAAAATTGAAAATTGAGAATAGAAG
*
9818363 ATTGAAAATTGAAAATTTAGAATAGAAG
1 ATTGAAAATTGAAAATTGAGAATAGAAG
9818391 A
1 A
9818392 ATGAGTACGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (28 bp):
ATTGAAAATTGAAAATTGAGAATAGAAG
Found at i:9833134 original size:54 final size:55
Alignment explanation
Indices: 9833076--9833261 Score: 166
Period size: 54 Copynumber: 3.4 Consensus size: 55
9833066 CTATCATGCA
* * * *
9833076 CCTTCTCTCTTCTCCTTTCACCATCT-AGATCCCTGTCCCGGCTCTTCCCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
** * * *
9833130 CCTTCTCCCTTCTCCTTTC-CC-TCTCCATTTCTCTCTCCCTACTCCTCTCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCT-CAGATCCCTCTCCCGACTCCTCCCTCGCT
* * * * **
9833184 CCTTCTCCCTTCTCCTTTCACCA-CTCATG-TCTCTATCTCTACTCCTTGCTCGCT
1 CCTTCTCCCTTCTCCTTTCACCATCTCA-GATCCCTCTCCCGACTCCTCCCTCGCT
* *
9833238 CCCTCTCCCTTCTCCTCTCACCAT
1 CCTTCTCCCTTCTCCTTTCACCAT
9833262 AAATCTCCCT
Statistics
Matches: 110, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.03
53 2 0.02
54 101 0.92
55 4 0.04
ACGTcount: A:0.07, C:0.49, G:0.05, T:0.39
Consensus pattern (55 bp):
CCTTCTCCCTTCTCCTTTCACCATCTCAGATCCCTCTCCCGACTCCTCCCTCGCT
Found at i:9833155 original size:24 final size:24
Alignment explanation
Indices: 9833126--9833202 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 24
9833116 GCTCTTCCCT
9833126 CGCTCCTTCTCCCTTCTCCTTTCC
1 CGCTCCTTCTCCCTTCTCCTTTCC
* * * *
9833150 CTCTCCATTTCTCTCTCCCTACTCCTCTCT
1 CGCT-C----CT-TCTCCCTTCTCCTTTCC
9833180 CGCTCCTTCTCCCTTCTCCTTTC
1 CGCTCCTTCTCCCTTCTCCTTTC
9833203 ACCACTCATG
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
24 17 0.43
25 3 0.08
29 3 0.08
30 17 0.43
ACGTcount: A:0.03, C:0.52, G:0.03, T:0.43
Consensus pattern (24 bp):
CGCTCCTTCTCCCTTCTCCTTTCC
Found at i:9834755 original size:15 final size:15
Alignment explanation
Indices: 9834735--9834768 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9834725 TGCGGTGGCG
*
9834735 GTGGTGACGATGTTT
1 GTGGTGACGATGCTT
*
9834750 GTGGTGGCGATGCTT
1 GTGGTGACGATGCTT
9834765 GTGG
1 GTGG
9834769 CGTTTGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.09, G:0.47, T:0.35
Consensus pattern (15 bp):
GTGGTGACGATGCTT
Found at i:9851614 original size:46 final size:46
Alignment explanation
Indices: 9851518--9851630 Score: 131
Period size: 46 Copynumber: 2.4 Consensus size: 46
9851508 AGTGCTAGTG
* *
9851518 TAAGACATGTCTGGGACATGCTTCGGCCTCGAGACGTAAGCCAATG
1 TAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAATA
* * *
9851564 TAAGACATGTCTGGGACATGCATCGG-CTACGAGA-GGATAGTCAGTA
1 TAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTA-AGCCAATA
*
9851610 TAAGACAATGTCCGGGACATG
1 TAAGAC-ATGTCTGGGACATG
9851631 GCATTGACTT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
45 4 0.07
46 41 0.71
47 13 0.22
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAGCCAATA
Found at i:9852835 original size:22 final size:22
Alignment explanation
Indices: 9852820--9852871 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
9852810 TGTTGGACTG
*
9852820 CTCACACGGGCGTGTTGCCCCT
1 CTCACACGGGCGTGTTGCCACT
9852842 CTCACACGGGCGTGTTGTCC-CT
1 CTCACACGGGCGTGTTG-CCACT
*
9852864 CCCACACG
1 CTCACACG
9852872 AACATGTGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.12, C:0.42, G:0.25, T:0.21
Consensus pattern (22 bp):
CTCACACGGGCGTGTTGCCACT
Found at i:9859796 original size:30 final size:30
Alignment explanation
Indices: 9859762--9859822 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
9859752 TCATTAACTC
9859762 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
9859792 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
9859822 A
1 A
9859823 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:9861351 original size:13 final size:13
Alignment explanation
Indices: 9861333--9861362 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9861323 TTCTTGTAAA
9861333 CATTTCATACAAC
1 CATTTCATACAAC
*
9861346 CATTTCATATAAC
1 CATTTCATACAAC
9861359 CATT
1 CATT
9861363 CGTCATCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (13 bp):
CATTTCATACAAC
Found at i:9861511 original size:46 final size:46
Alignment explanation
Indices: 9861451--9861724 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
9861441 TTTGACATGA
* * * * *
9861451 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
9861497 TGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
***
9861543 TGCCATGGTATCTTTCAACCATGGTCTTTTTCATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
9861589 TACCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
9861635 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
9861681 TGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
9861725 AGAGCACACT
Statistics
Matches: 214, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 210 0.98
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:9863832 original size:3 final size:3
Alignment explanation
Indices: 9863818--9863866 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
9863808 TTTTATACTA
9863818 AAT AATT AAT AAT AA- AAT AAT AAT AA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9863861 AA- AAT A
1 AAT AAT A
9863867 TCTCATTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
2 8 0.20
3 30 0.73
4 3 0.07
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9863838 original size:8 final size:8
Alignment explanation
Indices: 9863825--9863866 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
9863815 CTAAATAATT
9863825 AATAATAA
1 AATAATAA
9863833 AATAAT--
1 AATAATAA
9863839 AATAA-AA
1 AATAATAA
9863846 TAATAATAA
1 -AATAATAA
9863855 AATAATAA
1 AATAATAA
9863863 AATA
1 AATA
9863867 TCTCATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
6 5 0.17
8 23 0.77
9 2 0.07
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AATAATAA
Found at i:9863840 original size:11 final size:11
Alignment explanation
Indices: 9863824--9863862 Score: 78
Period size: 11 Copynumber: 3.5 Consensus size: 11
9863814 ACTAAATAAT
9863824 TAATAATAAAA
1 TAATAATAAAA
9863835 TAATAATAAAA
1 TAATAATAAAA
9863846 TAATAATAAAA
1 TAATAATAAAA
9863857 TAATAA
1 TAATAA
9863863 AATATCTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:9863849 original size:19 final size:19
Alignment explanation
Indices: 9863825--9863866 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
9863815 CTAAATAATT
9863825 AATAATAAAATAATAATAA
1 AATAATAAAATAATAATAA
9863844 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
9863863 AATA
1 AATA
9863867 TCTCATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:9863889 original size:20 final size:21
Alignment explanation
Indices: 9863836--9863911 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 21
9863826 ATAATAAAAT
*
9863836 AATAATAAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
9863855 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
9863876 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
9863897 TAATCATAAAATATC
1 -AATAATAAAATATC
9863912 ATCAACATCA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.26
20 12 0.26
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:9865902 original size:47 final size:48
Alignment explanation
Indices: 9865788--9865908 Score: 135
Period size: 47 Copynumber: 2.6 Consensus size: 48
9865778 ACTTGTGTGA
**
9865788 GCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCCACATTTTGAGAGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATTGG-CACATTGAGAGAGT
*
9865836 -C-AGTGTAAGACCATATCTGGGACATGGCATT-G-ACATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATTGGCACATTGAGA-GAGT
* *
9865882 GCTAGTGTAAGGCATGTCTGGTACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
9865909 CTTCAGCCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
45 7 0.11
46 13 0.21
47 29 0.47
48 13 0.21
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATTGGCACATTGAGAGAGT
Found at i:9866027 original size:47 final size:47
Alignment explanation
Indices: 9865836--9866056 Score: 157
Period size: 47 Copynumber: 4.7 Consensus size: 47
9865826 TTTTGAGAGT
* * *
9865836 CAGTGTAAGACCATATCTGGGACATGGCATTGACATTGAGACGA-GTGC
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGAC-TTGAGACGATGAGC
* * * * * *
9865884 TAGTGTAAG-GCATGTCTGGTACATGCTTCAGCCTTGAGACG-TAAGC
1 CAGTGTAAGACCATGTCTGGGACATGCATC-GACTTGAGACGATGAGC
* * * * * * *
9865930 CAGTGTAAGA-TATGTCTGGGACATGTATCGGCTACGAAAGGAT-AGT
1 CAGTGTAAGACCATGTCTGGGACATGCATCGACT-TGAGACGATGAGC
* *
9865976 CAGTGTAAGATCATGTCTGGGACATGACATCGACTTGAGA-TATGAGC
1 CAGTGTAAGACCATGTCTGGGACATG-CATCGACTTGAGACGATGAGC
* * *
9866023 CAGTGTAACACCGTGTCTAGGACATGGCATCGAC
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGAC
9866057 ACCTTACCCT
Statistics
Matches: 134, Mismatches: 30, Indels: 19
0.73 0.16 0.10
Matches are distributed among these distances:
45 3 0.02
46 54 0.40
47 62 0.46
48 15 0.11
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGACTTGAGACGATGAGC
Found at i:9875468 original size:20 final size:20
Alignment explanation
Indices: 9875432--9875484 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
9875422 ACCTAACATA
9875432 CCTAAACC-AAAAA-AAAAC
1 CCTAAACCTAAAAACAAAAC
9875450 CCTAAACCTAAAAACAAAAC
1 CCTAAACCTAAAAACAAAAC
*
9875470 CCTAACCCTAAAAAC
1 CCTAAACCTAAAAAC
9875485 CCTTAAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 8 0.25
19 5 0.16
20 19 0.59
ACGTcount: A:0.58, C:0.32, G:0.00, T:0.09
Consensus pattern (20 bp):
CCTAAACCTAAAAACAAAAC
Found at i:9875708 original size:21 final size:21
Alignment explanation
Indices: 9875663--9875713 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 21
9875653 CACATTTACC
9875663 ATTTAAATAAAATTTAAATACT
1 ATTTAAATAAAATTT-AATACT
9875685 ATTT-AATATAAATTT-ATACTT
1 ATTTAAATA-AAATTTAATAC-T
9875706 ATTATAAA
1 ATT-TAAA
9875714 ATTTTTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
20 4 0.16
21 8 0.32
22 11 0.44
23 2 0.08
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTAAATAAAATTTAATACT
Found at i:9877159 original size:18 final size:18
Alignment explanation
Indices: 9877113--9877165 Score: 67
Period size: 17 Copynumber: 3.1 Consensus size: 18
9877103 GAAAATTGAG
9877113 AATAA-AAATAAATAA-A
1 AATAAGAAATAAATAAGA
9877129 AATAAGAAATAAATAAGA
1 AATAAGAAATAAATAAGA
*
9877147 AAT-AGAAATTAAAAAAGA
1 AATAAGAAA-TAAATAAGA
9877165 A
1 A
9877166 GAAAGTGGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
16 5 0.15
17 15 0.45
18 13 0.39
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (18 bp):
AATAAGAAATAAATAAGA
Found at i:9877858 original size:43 final size:43
Alignment explanation
Indices: 9877809--9877903 Score: 163
Period size: 43 Copynumber: 2.2 Consensus size: 43
9877799 AAAAACGCCA
* **
9877809 CTAAAAGTCATGGCTTTTAGCGGCGTTTGTTGGAAAAGCGTCG
1 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTTGGAAAAGCACCG
9877852 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTTGGAAAAGCACCG
1 CTAAAAGTCACGGCTTTTAGCGGCGTTTGTTGGAAAAGCACCG
9877895 CTAAAAGTC
1 CTAAAAGTC
9877904 GTTTGTTGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (43 bp):
CTAAAAGTCACGGCTTTTAGCGGCGTTTGTTGGAAAAGCACCG
Found at i:9877907 original size:28 final size:28
Alignment explanation
Indices: 9877875--9877929 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
9877865 CTTTTAGCGG
9877875 CGTTTGTTGGAAAAGCACCGCTAAAAGT
1 CGTTTGTTGGAAAAGCACCGCTAAAAGT
*
9877903 CGTTTGTTGGAAAAGCGCCGCTAAAAG
1 CGTTTGTTGGAAAAGCACCGCTAAAAG
9877930 CCACGGCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (28 bp):
CGTTTGTTGGAAAAGCACCGCTAAAAGT
Found at i:9878100 original size:33 final size:31
Alignment explanation
Indices: 9878022--9878104 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
9878012 CTTCCTGCAT
* *
9878022 TAAAATCCAACCAAATACAACAAATATAGTA
1 TAAAATACAACCAAAAACAACAAATATAGTA
* * * *
9878053 TAAAATGCAGCCAAAAACAGCAAATTTAGTA
1 TAAAATACAACCAAAAACAACAAATATAGTA
9878084 TAAAAAATACAACCAAAAACA
1 T--AAAATACAACCAAAAACA
9878105 TTAATTCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 27 0.63
33 16 0.37
ACGTcount: A:0.59, C:0.18, G:0.06, T:0.17
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAGTA
Found at i:9878345 original size:21 final size:20
Alignment explanation
Indices: 9878321--9878433 Score: 95
Period size: 21 Copynumber: 5.4 Consensus size: 20
9878311 TTTTGCTCTG
*
9878321 CTCTGCTACCATCGCTGCTGC
1 CTCTGCT-CCCTCGCTGCTGC
9878342 CTCTGCCTCCCTCGCT-CATGC
1 CTCTG-CTCCCTCGCTGC-TGC
9878363 CTCTGCGTCCCTCGCTGCTGC
1 CTCTGC-TCCCTCGCTGCTGC
* *
9878384 CGCTGCCTCTCTCGCTGCTG-
1 CTCTG-CTCCCTCGCTGCTGC
* *
9878404 CTGCTGCCTCCCTCTCTGTTGC
1 CT-CTG-CTCCCTCGCTGCTGC
*
9878426 CTCCGCTC
1 CTCTGCTC
9878434 TAAGTTGTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.08
21 65 0.84
22 6 0.08
ACGTcount: A:0.03, C:0.48, G:0.19, T:0.30
Consensus pattern (20 bp):
CTCTGCTCCCTCGCTGCTGC
Found at i:9878416 original size:42 final size:42
Alignment explanation
Indices: 9878332--9878426 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 42
9878322 TCTGCTACCA
* *
9878332 TCGCTGCTGCCTCTGCCTCCCTCGCTCATGCCTCTGCGTCCC
1 TCGCTGCTGCCGCTGCCTCCCTCGCTCATGCCTCTGCCTCCC
*
9878374 TCGCTGCTGCCGCTGCCTCTCTCGCTGC-TG-CTGCTGCCTCCC
1 TCGCTGCTGCCGCTGCCTCCCTCGCT-CATGCCT-CTGCCTCCC
* *
9878416 TCTCTGTTGCC
1 TCGCTGCTGCC
9878427 TCCGCTCTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 2 0.04
42 43 0.93
43 1 0.02
ACGTcount: A:0.01, C:0.47, G:0.21, T:0.31
Consensus pattern (42 bp):
TCGCTGCTGCCGCTGCCTCCCTCGCTCATGCCTCTGCCTCCC
Found at i:9882203 original size:12 final size:12
Alignment explanation
Indices: 9882188--9882213 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9882178 ATCATCCTCT
9882188 TCATCAGATTCA
1 TCATCAGATTCA
9882200 TCATCAGATTCA
1 TCATCAGATTCA
9882212 TC
1 TC
9882214 CCTCGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (12 bp):
TCATCAGATTCA
Found at i:9884055 original size:20 final size:20
Alignment explanation
Indices: 9884030--9884070 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9884020 TTATATAAGT
9884030 TATGTTGTGATATACATTTA
1 TATGTTGTGATATACATTTA
9884050 TATGTTGTGATATACATTTA
1 TATGTTGTGATATACATTTA
9884070 T
1 T
9884071 GTAAGGCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (20 bp):
TATGTTGTGATATACATTTA
Found at i:9884115 original size:43 final size:43
Alignment explanation
Indices: 9884067--9884150 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
9884057 TGATATACAT
*
9884067 TTATGTAAGGCATGTAAGTTATGATATGATATATATTTATGTA
1 TTATGTAAGGCATGTAAGTTATGATAAGATATATATTTATGTA
***
9884110 TTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATG
1 TTATGTAAGGCATGTAAGTTATGATAAGATATATATTTATG
9884151 ATATATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.45
Consensus pattern (43 bp):
TTATGTAAGGCATGTAAGTTATGATAAGATATATATTTATGTA
Found at i:9884151 original size:56 final size:56
Alignment explanation
Indices: 9884091--9884309 Score: 313
Period size: 56 Copynumber: 4.0 Consensus size: 56
9884081 TAAGTTATGA
*
9884091 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
*
9884147 TATGATATATATTTGGA-GTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
1 TATGATATATATTT--ATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
* *
9884204 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
* * * *
9884260 TATG-TAT-TATGTAAGT-TT-TGTAAGTTATGTAAGTTATTATATGATATATA
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATA
9884310 ATAAACATTA
Statistics
Matches: 149, Mismatches: 11, Indels: 10
0.88 0.06 0.06
Matches are distributed among these distances:
52 29 0.19
53 2 0.01
54 7 0.05
55 3 0.02
56 56 0.38
57 51 0.34
58 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATATATATT
Found at i:9884265 original size:43 final size:43
Alignment explanation
Indices: 9884204--9884288 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
9884194 GATACATATT
*
9884204 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGA
* *
9884247 TATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATG
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATG
9884289 TAAGTTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.51
Consensus pattern (43 bp):
TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGA
Found at i:9884283 original size:9 final size:9
Alignment explanation
Indices: 9884223--9884296 Score: 55
Period size: 9 Copynumber: 8.4 Consensus size: 9
9884213 TATTTATGTA
*
9884223 TTATGTTAG
1 TTATGTAAG
*
9884232 TTGTGTAAG
1 TTATGTAAG
*
9884241 TTATGATATG
1 TTATG-TAAG
* * *
9884251 ATATAT-AT
1 TTATGTAAG
9884259 TTATGT-A-
1 TTATGTAAG
9884266 TTATGTAAG
1 TTATGTAAG
*
9884275 TTTTGTAAG
1 TTATGTAAG
9884284 TTATGTAAG
1 TTATGTAAG
9884293 TTAT
1 TTAT
9884297 TATATGATAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
7 6 0.12
8 6 0.12
9 32 0.64
10 6 0.12
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (9 bp):
TTATGTAAG
Found at i:9884301 original size:43 final size:43
Alignment explanation
Indices: 9884210--9884301 Score: 132
Period size: 43 Copynumber: 2.1 Consensus size: 43
9884200 TATTTATGAA
* *
9884210 ATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGAT
1 ATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGAT
* *
9884253 ATATATTTATGTATTATGTAAGTTTTGTAAGTTATG-TAAGTT
1 ATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGAT
9884295 ATTATAT
1 A-TATAT
9884302 GATATATAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 5 0.11
43 39 0.89
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (43 bp):
ATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGAT
Found at i:9884306 original size:113 final size:113
Alignment explanation
Indices: 9884091--9884305 Score: 332
Period size: 113 Copynumber: 1.9 Consensus size: 113
9884081 TAAGTTATGA
*
9884091 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
* * *
9884156 TATTTGGAGTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
66 TATGTGAAGTATTATGTAAGTTATGTAAGTTATGATATGATACATATT
* *
9884204 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATG-TAT-
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
*
9884267 TATGT-AAGT-TT-TGTAAGTTATGTAAGTTATTATATGATA
66 TATGTGAAGTATTATGTAAGTTATGTAAGTTATGATATGATA
9884306 TATAATAAAC
Statistics
Matches: 95, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
108 26 0.27
109 2 0.02
110 3 0.03
111 4 0.04
112 3 0.03
113 57 0.60
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (113 bp):
TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
TATGTGAAGTATTATGTAAGTTATGTAAGTTATGATATGATACATATT
Found at i:9884747 original size:37 final size:37
Alignment explanation
Indices: 9884703--9884793 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 37
9884693 AAATTATATT
*
9884703 AATTGATAAATATTGAAATAT-TG-AAAT-ATATTTAA
1 AATTGATAAATATTGAAATATAAGCAAATCAT-TTTAA
9884738 AATGTTGAT-AA-A-TGAAATATAAGCAAATCATTTTAA
1 AA--TTGATAAATATTGAAATATAAGCAAATCATTTTAA
9884774 AATTGATAAATATTGAAATA
1 AATTGATAAATATTGAAATA
9884794 CATTAAAGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
34 13 0.28
35 6 0.13
36 14 0.30
37 14 0.30
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (37 bp):
AATTGATAAATATTGAAATATAAGCAAATCATTTTAA
Found at i:9887661 original size:60 final size:59
Alignment explanation
Indices: 9887568--9887690 Score: 174
Period size: 60 Copynumber: 2.1 Consensus size: 59
9887558 TGGGGAAAAA
* ** * *
9887568 GGGGTAATTATTTTAGGGTTTCGAATTAGGGAAAATAGGGGGAAATAAACTAGGGAGAAT
1 GGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAAT-GGGGGAAATAAACCAGGGAGAAG
* *
9887628 GGGGTGATTATTTTAGGGATTCGAAGAAGGGAAAATGGGGGAAATAAACCATGGAGAAG
1 GGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAATGGGGGAAATAAACCAGGGAGAAG
9887687 GGGG
1 GGGG
9887691 AAAATGAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
59 24 0.43
60 32 0.57
ACGTcount: A:0.36, C:0.04, G:0.37, T:0.23
Consensus pattern (59 bp):
GGGGTAATTATTTTAGGGATTCGAAGAAGGGAAAATGGGGGAAATAAACCAGGGAGAAG
Found at i:9888170 original size:232 final size:228
Alignment explanation
Indices: 9887781--9888295 Score: 567
Period size: 232 Copynumber: 2.2 Consensus size: 228
9887771 GTTTTCCCCT
* * * * *
9887781 AGCGCCGCTAAAGGCAAACCAATTGTGGC-ATTTAACAT-AAACGTCACTAAAAAACAAACAAAA
1 AGCGCCGCTAAAGGCAAA-CTATTGTGGCGTTTTAACCTAAAACGCCACTAAAAATCAAACAAAA
* *
9887844 CGACACCGTTTTGATATAAACAGAATAAAATTTAGTGGCGTTTTCCCATAGCGCTGCTAAAGGCA
65 CGACACCGTTTTGATATAAACAAAATAAAATTTAGTGGCGTTTTCCCATAGCGCCGCTAAAGGCA
* * * * *
9887909 AATCAATTGTGGTGTTTCACCCTAAAACGCCACTAAAAATCCA-AAAAAAAACAACGTCGTTTTC
130 AACCAATTGTGGCGTTTAAACCAAAAACGCCACTAAAAATCCATAAAAAAAAC-AC--CGTTTTC
* * * *
9887973 ATATGAACATAATAACATTTAGTGGCGTTTTATATCCA
192 ATATAAACAAAATAACACTTAGTGGCG-TTTATAACCA
* * * *
9888011 AGCGCCGCTAAAGGCGAAACTATTGTGGCGTTTTACCCTAAAACGCCACTAAGAATCGAATAAAA
1 AGCGCCGCTAAAGGC-AAACTATTGTGGCGTTTTAACCTAAAACGCCACTAAAAATCAAACAAAA
* ** *
9888076 CTACATTGTTTTGATATAAACAAAATAACCA-TTAGTGGCGTTTATACCC-TAGCGCCGCTAAA-
65 CGACACCGTTTTGATATAAACAAAATAA-AATTTAGTGGCGTTT-T-CCCATAGCGCCGCTAAAG
* * * ** *
9888138 TCAAACCTATTGTGGCGTTTAAACCAAAAACGCCATTAAAAATCCATAAAAACTACACCGTTTTG
127 GCAAACCAATTGTGGCGTTTAAACCAAAAACGCCACTAAAAATCCATAAAAAAAACACCGTTTTC
* * *
9888203 ATCTAAACAAAATAACCCTTAGTGGCGTTTATAACCT
192 ATATAAACAAAATAACACTTAGTGGCGTTTATAACCA
* * *
9888240 TGCGCCGCTAAA-TCAACCCTATTGTGGCGTTTTAACCTAAAACGCCACTAAAAATC
1 AGCGCCGCTAAAGGCAA-ACTATTGTGGCGTTTTAACCTAAAACGCCACTAAAAATC
9888296 CAAAGAAACG
Statistics
Matches: 239, Mismatches: 38, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
227 2 0.01
228 37 0.15
229 19 0.08
230 52 0.22
231 9 0.04
232 96 0.40
233 21 0.09
234 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.26
Consensus pattern (228 bp):
AGCGCCGCTAAAGGCAAACTATTGTGGCGTTTTAACCTAAAACGCCACTAAAAATCAAACAAAAC
GACACCGTTTTGATATAAACAAAATAAAATTTAGTGGCGTTTTCCCATAGCGCCGCTAAAGGCAA
ACCAATTGTGGCGTTTAAACCAAAAACGCCACTAAAAATCCATAAAAAAAACACCGTTTTCATAT
AAACAAAATAACACTTAGTGGCGTTTATAACCA
Found at i:9888190 original size:114 final size:116
Alignment explanation
Indices: 9887769--9888299 Score: 555
Period size: 114 Copynumber: 4.6 Consensus size: 116
9887759 AACATTTGCT
* * * * *
9887769 GCGTTT-TCCCCTAGCGCCGCTAAAGGCAAACCAATTGTGGC-ATTTAACAT-AAACGTCACTAA
1 GCGTTTATACCCTAGCGCCGCTAAAGGCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACTAA
* * * *
9887831 AAA-ACAAACAAAACGACACCGTTTTGATATAAACAGAATAAAATTTAGTG
66 AAATCCAAACAAAACTACACCGTTTTGATATAAACAAAATAACATTTAGTG
* * * * * *
9887881 GCGTTT-T-CCCATAGCGCTGCTAAAGGCAAATCAATTGTGGTGTTTCACCCTAAAACGCCACTA
1 GCGTTTATACCC-TAGCGCCGCTAAAGGCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACTA
* * ** * * *
9887944 AAAATCCAAAAAAAAACAACGTCGTTTTCATATGAACATAATAACATTTAGTG
65 AAAATCC-AAACAAAACTACACCGTTTTGATATAAACAAAATAACATTTAGTG
* * *
9887997 GCGTTTTATATCCAAGCGCCGCTAAAGGCGAAA-CTATTGTGGCGTTTTACCCTAAAACGCCACT
1 GCG-TTTATACCCTAGCGCCGCTAAAGGC-AAACCTATTGTGGCGTTTTAACCTAAAACGCCACT
* * * **
9888061 AAGAAT-CGAATAAAACTACATTGTTTTGATATAAACAAAATAACCA-TTAGTG
64 AAAAATCCAAACAAAACTACACCGTTTTGATATAAACAAAATAA-CATTTAGTG
* * * *
9888113 GCGTTTATACCCTAGCGCCGCTAAA-TCAAACCTATTGTGGCGTTTAAACCAAAAACGCCATTAA
1 GCGTTTATACCCTAGCGCCGCTAAAGGCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACTAA
* * **
9888177 AAATCCATA-AAAACTACACCGTTTTGATCTAAACAAAATAACCCTTAGTG
66 AAATCCAAACAAAACTACACCGTTTTGATATAAACAAAATAACATTTAGTG
* * * *
9888227 GCGTTTATAACCTTGCGCCGCTAAA-TCAACCCTATTGTGGCGTTTTAACCTAAAACGCCACTAA
1 GCGTTTATACCCTAGCGCCGCTAAAGGCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACTAA
9888291 AAATCCAAA
66 AAATCCAAA
9888300 GAAACGGTGT
Statistics
Matches: 353, Mismatches: 53, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
111 3 0.01
112 34 0.10
113 9 0.03
114 148 0.42
115 23 0.07
116 77 0.22
117 6 0.02
118 48 0.14
119 5 0.01
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.26
Consensus pattern (116 bp):
GCGTTTATACCCTAGCGCCGCTAAAGGCAAACCTATTGTGGCGTTTTAACCTAAAACGCCACTAA
AAATCCAAACAAAACTACACCGTTTTGATATAAACAAAATAACATTTAGTG
Found at i:9888670 original size:8 final size:7
Alignment explanation
Indices: 9888639--9888666 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9888629 AATCAATCTT
9888639 TAAACCC
1 TAAACCC
9888646 TAAACCC
1 TAAACCC
9888653 TAAACCC
1 TAAACCC
9888660 TAAACCC
1 TAAACCC
9888667 CTAACACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:9888998 original size:14 final size:14
Alignment explanation
Indices: 9888976--9889034 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
9888966 ATACCCATGG
*
9888976 CCATTAAACTTAAA
1 CCATAAAACTTAAA
9888990 CCATAAAACCTTAAA
1 CCATAAAA-CTTAAA
* *
9889005 CCATACATCTTAAA
1 CCATAAAACTTAAA
*
9889019 CCTTAAATA-TTAAA
1 CCATAAA-ACTTAAA
9889033 CC
1 CC
9889035 CTCAACCCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 25 0.68
15 12 0.32
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (14 bp):
CCATAAAACTTAAA
Found at i:9889340 original size:41 final size:41
Alignment explanation
Indices: 9889276--9889535 Score: 199
Period size: 41 Copynumber: 6.4 Consensus size: 41
9889266 GTTATATGAC
* *
9889276 TTTTAGCGGCGTTTTATC-GAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTA-CATAAAACGCCGCTAATGCTCTGGT
* * *
9889317 TTTTAGCGGCGTTTTACATAAAGCGCCGCTAATTCTTTGGT
1 TTTTAGCGGCGTTTTACATAAAACGCCGCTAATGCTCTGGT
* * * * *
9889358 TTTTAGTGGCGTTTTACCA-AAAGCGCCACTAATGCTTTGGC
1 TTTTAGCGGCGTTTTA-CATAAAACGCCGCTAATGCTCTGGT
*** * * * *
9889399 TTTTAGCGGCGTTTTTGGTAAAACGCCACTATTGCTATGTT
1 TTTTAGCGGCGTTTTACATAAAACGCCGCTAATGCTCTGGT
* * * * *
9889440 TTTTGGCGGTGTTTT-CGGTAAAACGCCGCT-AT-TTCTGTAT
1 TTTTAGCGGCGTTTTAC-ATAAAACGCCGCTAATGCTCTG-GT
* * * *
9889480 TTTTAGCGTCGTTTTAACAAAAAACACCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTT-ACATAAAACGCCGCTAATGCTCTGGT
9889521 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
9889536 TTGTAAAACG
Statistics
Matches: 176, Mismatches: 34, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
39 3 0.02
40 15 0.09
41 151 0.86
42 4 0.02
43 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACATAAAACGCCGCTAATGCTCTGGT
Found at i:9893173 original size:67 final size:68
Alignment explanation
Indices: 9892920--9893248 Score: 346
Period size: 68 Copynumber: 4.9 Consensus size: 68
9892910 TTAGAATTGA
* * * *
9892920 AAGTCTGCCAGGATAATAAAGATGTGGTTACATTGTGTAAGACCATAGCTC-AGCTATGGCAACA
1 AAGTCTGCCAGGACAATAAACATGGGGTTACATTGTGTAAGACCATAGCTCGA-CTATGGAAACA
*
9892984 TATA
65 TATG
* ** * * * * * *
9892988 AAATCCCCCAGGACAGTAAACATGGGGTTACATTATATAAGACCATAGCTTG-GTAATGGCAACA
1 AAGTCTGCCAGGACAATAAACATGGGGTTACATTGTGTAAGACCATAGCTCGACT-ATGGAAACA
9893052 TATG
65 TATG
* * * **
9893056 AACTCTGCTAGGACAATAAACATGGGGTTACATTGTGTAAGATCATAGCTCGACTATGGAAATTT
1 AAGTCTGCCAGGACAATAAACATGGGGTTACATTGTGTAAGACCATAGCTCGACTATGGAAACAT
9893121 ATG
66 ATG
**
9893124 AAGTCTGTTAGGACAATAAACAT-GGGTTACATTGTGTAAGACCATAGCTCGACTATGGAAACAT
1 AAGTCTGCCAGGACAATAAACATGGGGTTACATTGTGTAAGACCATAGCTCGACTATGGAAACAT
9893188 ATG
66 ATG
* * * * *
9893191 AAGTCCT-CAAGGAAAATAAACATGGGGTGTAC-TT-TGTAAAACCATAGCTAGGCTATGG
1 AAGT-CTGCCAGGACAATAAACATGGGGT-TACATTGTGTAAGACCATAGCTCGACTATGG
9893249 CGTCAGATAA
Statistics
Matches: 219, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
67 80 0.37
68 135 0.62
69 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (68 bp):
AAGTCTGCCAGGACAATAAACATGGGGTTACATTGTGTAAGACCATAGCTCGACTATGGAAACAT
ATG
Found at i:9896117 original size:29 final size:29
Alignment explanation
Indices: 9896043--9896251 Score: 233
Period size: 29 Copynumber: 7.2 Consensus size: 29
9896033 GTGTTCTAAA
* *
9896043 CGATGGTCGAAACCATCCGTTTTCTTTAATT
1 CGATGGTCGAAACCATCCCTTTTC-AT-ATT
* *
9896074 -GATGGTCGAAACCATCCCTTTTAATAGT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
9896102 CGATGGTCGAAGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
***
9896131 CGATGGTCGTCGCCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* ** **
9896160 TGATGGTCGCTACCATCATTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
*
9896189 TGATGGTCGAAACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCCTTTTCATATT
* *
9896218 CGATGGTC-ATTACCATCTCTTTTCATATT
1 CGATGGTCGA-AACCATCCCTTTTCATATT
9896247 CGATG
1 CGATG
9896252 CTCATCGATA
Statistics
Matches: 154, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
28 3 0.02
29 130 0.84
30 21 0.14
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (29 bp):
CGATGGTCGAAACCATCCCTTTTCATATT
Found at i:9904589 original size:25 final size:26
Alignment explanation
Indices: 9904532--9904589 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
9904522 GTAACTGAAA
9904532 ATCAGGCTTTGTGCCAATGGTTATCT
1 ATCAGGCTTTGTGCCAATGGTTATCT
*
9904558 ATCAGGCTTTGTGCCGAT-GTTATCT
1 ATCAGGCTTTGTGCCAATGGTTATCT
*
9904583 ATTAGGC
1 ATCAGGC
9904590 CCTGTATCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (26 bp):
ATCAGGCTTTGTGCCAATGGTTATCT
Found at i:9904626 original size:25 final size:24
Alignment explanation
Indices: 9904554--9904626 Score: 56
Period size: 25 Copynumber: 2.9 Consensus size: 24
9904544 GCCAATGGTT
* * *
9904554 ATCTATCAGGCTTTGTGCCGATGTT
1 ATCTATCAGGCTTTGAG-CGGTGTC
* ** *
9904579 ATCTATTAGGCCCTGTATCGGTGTC
1 ATCTATCAGGCTTTG-AGCGGTGTC
9904604 ATCTATCAGGCTTTGAGCTGGTG
1 ATCTATCAGGCTTTGAGC-GGTG
9904627 ATACAAATCG
Statistics
Matches: 35, Mismatches: 11, Indels: 4
0.70 0.22 0.08
Matches are distributed among these distances:
24 2 0.06
25 33 0.94
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (24 bp):
ATCTATCAGGCTTTGAGCGGTGTC
Found at i:9908015 original size:16 final size:16
Alignment explanation
Indices: 9907967--9908015 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
9907957 ACCTAGGGGT
9907967 AAAATGGTCATTTTGC
1 AAAATGGTCATTTTGC
***
9907983 AAAA--GTC-TAGAGC
1 AAAATGGTCATTTTGC
9907996 AAAATGGTCATTTTGC
1 AAAATGGTCATTTTGC
9908012 AAAA
1 AAAA
9908016 GTCTAGGGGC
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
13 7 0.29
14 3 0.12
15 3 0.12
16 11 0.46
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (16 bp):
AAAATGGTCATTTTGC
Found at i:9908030 original size:30 final size:30
Alignment explanation
Indices: 9907959--9908041 Score: 141
Period size: 29 Copynumber: 2.8 Consensus size: 30
9907949 ATTTTCGAAC
*
9907959 CTAGGGGTAAAATGGTCATTTTGCAAAAGT
1 CTAGGGGCAAAATGGTCATTTTGCAAAAGT
*
9907989 CTA-GAGCAAAATGGTCATTTTGCAAAAGT
1 CTAGGGGCAAAATGGTCATTTTGCAAAAGT
9908018 CTAGGGGCAAAATGGTCATTTTGC
1 CTAGGGGCAAAATGGTCATTTTGC
9908042 CCAATTTTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
29 27 0.55
30 22 0.45
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTGCAAAAGT
Found at i:9908569 original size:94 final size:93
Alignment explanation
Indices: 9908375--9908553 Score: 234
Period size: 94 Copynumber: 1.9 Consensus size: 93
9908365 ATATTTGTGT
*
9908375 GCTAGTGTAAGACATGTCGAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCGAGGACATGCATCGGCCACATGAT-AGAGCCAGTGTAAGACCATGTC
* **
9908440 TGGGACATGGCATCGATATTGAGACGAGA
65 TGGGACATGGCATCGACACGGAGACGAGA
* ** * *
9908469 GCTAGTGTAAGACATGTCTAGGACATGCATCGGTGACATGAT-GTGTCAGTGTAAGACCATGTCT
1 GCTAGTGTAAGACATGTCGAGGACATGCATCGGCCACATGATAGAGCCAGTGTAAGACCATGTCT
* * *
9908533 GGGATATGGCATGGGCACGGA
66 GGGACATGGCATCGACACGGA
9908554 TACGTGAGAG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 35 0.48
94 38 0.52
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCGAGGACATGCATCGGCCACATGATAGAGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGACACGGAGACGAGA
Found at i:9911232 original size:24 final size:27
Alignment explanation
Indices: 9911175--9911232 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 27
9911165 AGGATGTGAG
9911175 GGATGATTTGAAAGGTGAAAGGTGTGT
1 GGATGATTTGAAAGGTGAAAGGTGTGT
* *
9911202 GG-T-ATTT-ATAGGTG-AAGTTG-GT
1 GGATGATTTGAAAGGTGAAAGGTGTGT
9911224 GGATGATTT
1 GGATGATTT
9911233 TGCTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
22 4 0.15
23 6 0.22
24 10 0.37
25 4 0.15
26 1 0.04
27 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (27 bp):
GGATGATTTGAAAGGTGAAAGGTGTGT
Found at i:9912165 original size:18 final size:19
Alignment explanation
Indices: 9912142--9912183 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
9912132 TGTTTTAAAG
9912142 TTTATAG-T-TTAATTTTAT
1 TTTATAGTTATTAATTTT-T
9912160 TTTATAGTTATTAATTTTT
1 TTTATAGTTATTAATTTTT
9912179 TTTAT
1 TTTAT
9912184 CTTTTAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTATAGTTATTAATTTTT
Found at i:9912690 original size:15 final size:15
Alignment explanation
Indices: 9912661--9912691 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
9912651 TTTACTCATA
9912661 GTGGCTTTAGTAATT
1 GTGGCTTTAGTAATT
9912676 GTGGCTTTAGTAATT
1 GTGGCTTTAGTAATT
9912691 G
1 G
9912692 GAAAAAGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (15 bp):
GTGGCTTTAGTAATT
Found at i:9914706 original size:18 final size:18
Alignment explanation
Indices: 9914669--9914731 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 18
9914659 TCTTTCTAGT
*
9914669 TTATTTTTATTT-ATTAAA
1 TTATTTTTCTTTAATT-AA
9914687 TTATTTTTCTTTAATTAA
1 TTATTTTTCTTTAATTAA
*
9914705 TT-TTTATT-TTTAAATTTA
1 TTATTT-TTCTTT-AATTAA
9914723 TTATTTTTC
1 TTATTTTTC
9914732 ATTATCTCGG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 6 0.16
18 26 0.68
19 6 0.16
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTTCTTTAATTAA
Found at i:9914726 original size:15 final size:14
Alignment explanation
Indices: 9914671--9914730 Score: 50
Period size: 15 Copynumber: 3.9 Consensus size: 14
9914661 TTTCTAGTTT
9914671 ATTTTTATTTATTAA
1 ATTTTTATTT-TTAA
9914686 ATTATTT-TTCTTTAATTA
1 ATT-TTTATT-TTT-A--A
9914704 ATTTTTATTTTTAA
1 ATTTTTATTTTTAA
9914718 ATTTATTATTTTT
1 ATTT-TTATTTTT
9914731 CATTATCTCG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
14 5 0.13
15 15 0.39
16 6 0.16
17 6 0.16
18 6 0.16
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTATTTTTAA
Found at i:9915234 original size:21 final size:22
Alignment explanation
Indices: 9915208--9915266 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
9915198 GTTTTAAGAA
*
9915208 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
9915229 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
9915251 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
9915267 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:9915281 original size:26 final size:24
Alignment explanation
Indices: 9915237--9915286 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
9915227 ATTTGTTTTA
*
9915237 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
9915261 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
9915287 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:9921677 original size:3 final size:3
Alignment explanation
Indices: 9921662--9921704 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
9921652 GAGATAAGCC
*
9921662 TAT TAT T-T CTAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT T
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9921705 GTTGTTGTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
2 1 0.03
3 34 0.94
4 1 0.03
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:9923056 original size:20 final size:20
Alignment explanation
Indices: 9923008--9923081 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
9922998 GACTTGTTCG
* *
9923008 AAAATCATTTTGA-TGTGTT
1 AAAATCATTTTAACTGGGTT
*
9923027 AAAATGATTTTAACTGGGTT
1 AAAATCATTTTAACTGGGTT
* * *
9923047 GAAATCATTTTGACTTGGTT
1 AAAATCATTTTAACTGGGTT
*
9923067 AAAATCATTCTAACT
1 AAAATCATTTTAACT
9923082 TGAATTTAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
19 11 0.25
20 33 0.75
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (20 bp):
AAAATCATTTTAACTGGGTT
Found at i:9925185 original size:20 final size:20
Alignment explanation
Indices: 9925160--9925220 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
9925150 CAAGTTTAGT
9925160 AAAAGTGAGTTTTGGCTTCG
1 AAAAGTGAGTTTTGGCTTCG
*
9925180 AAAAGTTG-GATTT---TT-G
1 AAAAG-TGAGTTTTGGCTTCG
*
9925196 -GAAGTGAGTTTTGGCTTCG
1 AAAAGTGAGTTTTGGCTTCG
9925215 AAAAGT
1 AAAAGT
9925221 TGGATTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 14
0.62 0.08 0.29
Matches are distributed among these distances:
14 2 0.07
15 7 0.23
16 1 0.03
17 2 0.07
18 2 0.07
19 1 0.03
20 13 0.43
21 2 0.07
ACGTcount: A:0.28, C:0.07, G:0.30, T:0.36
Consensus pattern (20 bp):
AAAAGTGAGTTTTGGCTTCG
Found at i:9925201 original size:35 final size:35
Alignment explanation
Indices: 9925162--9925229 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
9925152 AGTTTAGTAA
9925162 AAGTGAGTTTTGGCTTCGAAAAGTTGGATTTTTGG
1 AAGTGAGTTTTGGCTTCGAAAAGTTGGATTTTTGG
9925197 AAGTGAGTTTTGGCTTCGAAAAGTTGGATTTTT
1 AAGTGAGTTTTGGCTTCGAAAAGTTGGATTTTT
9925230 AGGGCACATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.24, C:0.06, G:0.29, T:0.41
Consensus pattern (35 bp):
AAGTGAGTTTTGGCTTCGAAAAGTTGGATTTTTGG
Found at i:9928656 original size:42 final size:43
Alignment explanation
Indices: 9928592--9928683 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
9928582 GACATTAGGG
* *
9928592 TTATGAG-TTTACATGTAAGACCATATCTAGGATATGGCATCT
1 TTATGAGATTTACATGTAAGACCATATCTAGGACATGGCATCA
* * *
9928634 TTATGAGATTT-CGTGTAGGACCATGTCTAGGACATGGCATCA
1 TTATGAGATTTACATGTAAGACCATATCTAGGACATGGCATCA
*
9928676 ATATGAGA
1 TTATGAGA
9928684 ATCTTAAAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 40 0.93
43 3 0.07
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (43 bp):
TTATGAGATTTACATGTAAGACCATATCTAGGACATGGCATCA
Found at i:9928756 original size:42 final size:40
Alignment explanation
Indices: 9928603--9928757 Score: 121
Period size: 42 Copynumber: 3.7 Consensus size: 40
9928593 TATGAGTTTA
**
9928603 CATGTAAGACCATATCTAGGATATGGCATCTTTATGAGATTT
1 CATGTAAGACCATATCTAGGATATGGCATCAATATGAGA--T
* * * *
9928645 CGTGTAGGACCATGTCTAGGACATGGCATCAATATGAGAAT
1 CATGTAAGACCATATCTAGGATATGGCATCAATATGAG-AT
* ** * * * *
9928686 CTTAAAAGACCATAGCTGGGCTATTGGCATCGATATGAGAT
1 CATGTAAGACCATATCTAGGATA-TGGCATCAATATGAGAT
* *
9928727 CCCATGTAAGACCATTTCTGGGATATGGCAT
1 --CATGTAAGACCATATCTAGGATATGGCAT
9928758 TGGTATGATT
Statistics
Matches: 87, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
41 17 0.20
42 52 0.60
43 18 0.21
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (40 bp):
CATGTAAGACCATATCTAGGATATGGCATCAATATGAGAT
Found at i:9935100 original size:84 final size:84
Alignment explanation
Indices: 9934959--9935127 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
9934949 GCTCCAATGG
9934959 AATTAAAAGAGTTGAAAGTACAGTTGCAAGAACTAACTGATAAGGGTTTTGCAAGATCGAGTTTT
1 AATTAAAAGAGTTGAAAGTACAGTTGCAAGAACTAACTGATAAGGGTTTTGCAAGATCGAGTTTT
9935024 CCTTGTGGGGTGCTTCGGT
66 CCTTGTGGGGTGCTTCGGT
9935043 AATTAAAAGAGTTGAAAGTACAGTTGCAAGAACTAACTGATAAGGGTTTTGCAAGATCGAGTTTT
1 AATTAAAAGAGTTGAAAGTACAGTTGCAAGAACTAACTGATAAGGGTTTTGCAAGATCGAGTTTT
9935108 CCTTGTGGGGTGCTTCGGT
66 CCTTGTGGGGTGCTTCGGT
9935127 A
1 A
9935128 CTTTTTGTGA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.30, C:0.12, G:0.27, T:0.31
Consensus pattern (84 bp):
AATTAAAAGAGTTGAAAGTACAGTTGCAAGAACTAACTGATAAGGGTTTTGCAAGATCGAGTTTT
CCTTGTGGGGTGCTTCGGT
Found at i:9938909 original size:50 final size:50
Alignment explanation
Indices: 9938850--9938980 Score: 253
Period size: 50 Copynumber: 2.6 Consensus size: 50
9938840 CTACATTGTT
*
9938850 ATTATATGTGTTTAAATTGATATAGCATAAATTGCTTGTTTGTGGAAATG
1 ATTATATGTGTTTGAATTGATATAGCATAAATTGCTTGTTTGTGGAAATG
9938900 ATTATATGTGTTTGAATTGATATAGCATAAATTGCTTGTTTGTGGAAATG
1 ATTATATGTGTTTGAATTGATATAGCATAAATTGCTTGTTTGTGGAAATG
9938950 ATTATATGTGTTTGAATTGATATAGCATAAA
1 ATTATATGTGTTTGAATTGATATAGCATAAA
9938981 CACGGGTTGA
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.44
Consensus pattern (50 bp):
ATTATATGTGTTTGAATTGATATAGCATAAATTGCTTGTTTGTGGAAATG
Found at i:9942555 original size:24 final size:23
Alignment explanation
Indices: 9942527--9942613 Score: 111
Period size: 24 Copynumber: 3.7 Consensus size: 23
9942517 CATTTAAATC
* *
9942527 CGCACACATAGTGCTATACAAGT
1 CGCACACATAGTGCCATACAATT
*
9942550 CTGCACACATAGTGCGATACAATTT
1 C-GCACACATAGTGCCATACAA-TT
*
9942575 CGCACACATAGTGCCATTCAACTT
1 CGCACACATAGTGCCATACAA-TT
9942599 CGCACACATAGTGCC
1 CGCACACATAGTGCC
9942614 GAAGTCAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
23 1 0.02
24 54 0.95
25 2 0.04
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (23 bp):
CGCACACATAGTGCCATACAATT
Found at i:9942621 original size:26 final size:23
Alignment explanation
Indices: 9942527--9942625 Score: 87
Period size: 24 Copynumber: 4.1 Consensus size: 23
9942517 CATTTAAATC
* *
9942527 CGCACACATAGTG-CTATACAAGT
1 CGCACACATAGTGCCGAT-CAATT
9942550 CTGCACACATAGTG-CGATACAATTT
1 C-GCACACATAGTGCCGAT-CAA-TT
9942575 CGCACACATAGTGCC-ATTCAACTT
1 CGCACACATAGTGCCGA-TCAA-TT
9942599 CGCACACATAGTGCCGAAGTCAATT
1 CGCACACATAGTGCCG-A-TCAATT
9942624 CG
1 CG
9942626 TTTTTAACAA
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
23 1 0.02
24 52 0.79
25 8 0.12
26 5 0.08
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.23
Consensus pattern (23 bp):
CGCACACATAGTGCCGATCAATT
Found at i:9948279 original size:94 final size:94
Alignment explanation
Indices: 9948009--9948289 Score: 406
Period size: 94 Copynumber: 3.0 Consensus size: 94
9947999 GATTTTATGA
*
9948009 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-ATGTA
9948074 TATATGT-GATAAGGCCGAATGGCCAATGT
65 TATATGTGGATAAGGCCGAATGGCCAATGT
* * **
9948103 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACT-TGC
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTAT
9948167 ATATGTGTGATAAGGCCGAATGGCCAATGT
66 ATATGTG-GATAAGGCCGAATGGCCAATGT
** * *
9948197 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGTGATGAACGTGGAAGTGTA
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAAATGTA
** *
9948262 TATATGTGGCGAA-GCCGAATGGCTAATG
65 TATATGTGGATAAGGCCGAATGGCCAATG
9948290 CGAAATGTGT
Statistics
Matches: 168, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
92 6 0.04
93 1 0.01
94 146 0.87
95 7 0.04
96 8 0.05
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (94 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAATGTAT
ATATGTGGATAAGGCCGAATGGCCAATGT
Found at i:9948284 original size:47 final size:47
Alignment explanation
Indices: 9948009--9948249 Score: 437
Period size: 47 Copynumber: 5.1 Consensus size: 47
9947999 GATTTTATGA
9948009 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
9948056 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
9948103 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
9948150 GATGAATGTGAACTTGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
9948197 GATGAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
9948244 GATGAA
1 GATGAA
9948250 CGTGGAAGTG
Statistics
Matches: 186, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 186 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:9948327 original size:46 final size:46
Alignment explanation
Indices: 9948273--9948445 Score: 274
Period size: 46 Copynumber: 3.8 Consensus size: 46
9948263 ATATGTGGCG
*
9948273 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
**
9948319 AATTCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
*
9948365 AAGCCGAATGGCTAATGCAAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* * **
9948411 AAGCCGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
9948446 TGTATATATA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 116 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:9956598 original size:40 final size:39
Alignment explanation
Indices: 9956561--9956693 Score: 194
Period size: 40 Copynumber: 3.3 Consensus size: 39
9956551 GCTACTCGTT
* *
9956561 CAAATGCCTTCGGGACATAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAGTT-TAGTAACTCGCA
*
9956601 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCC-AGTTTAGTAACTCGCA
*
9956641 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCAG-TTTAGTAACTCGCA
*
9956681 TAAATGCCTTCGG
1 CAAATGCCTTCGG
9956694 ATCTTAGTCC
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
40 82 0.96
41 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCAGTTTAGTAACTCGCA
Found at i:9956673 original size:80 final size:82
Alignment explanation
Indices: 9956561--9956746 Score: 238
Period size: 80 Copynumber: 2.3 Consensus size: 82
9956551 GCTACTCGTT
* *
9956561 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
9956624 GAATTTAGTAAC-TCGCA
65 GAATATAGTAACTTAGCA
* * **
9956641 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCATAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
9956705 AATATGGTCACTTAGCA
66 AATATAGTAACTTAGCA
9956722 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
9956747 CATCATTCAA
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 3 0.03
80 79 0.86
81 10 0.11
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
AATATAGTAACTTAGCA
Found at i:9963527 original size:24 final size:24
Alignment explanation
Indices: 9963473--9963562 Score: 69
Period size: 25 Copynumber: 3.6 Consensus size: 24
9963463 TATATATATC
9963473 ATTTAT-TTATT-TTAAAAAAACT
1 ATTTATATTATTATTAAAAAAACT
* *
9963495 ATACATATATTATTATTAAAAATACT
1 AT--TTATATTATTATTAAAAAAACT
**
9963521 ATTTATA-TATTTATATAAAAAATTT
1 ATTTATATTA-TTAT-TAAAAAAACT
9963546 ATTTATCATATATTATT
1 ATTTAT-AT-TATTATT
9963563 TTCCTATATA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
22 2 0.04
23 2 0.04
24 11 0.21
25 18 0.34
26 14 0.26
27 4 0.08
28 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTTATATTATTATTAAAAAAACT
Found at i:9963541 original size:26 final size:27
Alignment explanation
Indices: 9963476--9963562 Score: 83
Period size: 26 Copynumber: 3.3 Consensus size: 27
9963466 ATATATCATT
* **
9963476 TATTTATTTTAAAAAA-ACTATACATA
1 TATTTATTATAAAAAATACTATTTATA
*
9963502 TA-TTATTATTAAAAATACTATTTATA
1 TATTTATTATAAAAAATACTATTTATA
*
9963528 TATTTA-TATAAAAAAT-TTATTTATCA
1 TATTTATTATAAAAAATACTATTTAT-A
9963554 TATATTATT
1 TAT-TTATT
9963563 TTCCTATATA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
25 18 0.36
26 25 0.50
27 6 0.12
28 1 0.02
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (27 bp):
TATTTATTATAAAAAATACTATTTATA
Found at i:9963575 original size:17 final size:16
Alignment explanation
Indices: 9963547--9963603 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
9963537 AAAAAATTTA
*
9963547 TTTATCATATATTATT
1 TTTATTATATATTATT
9963563 TTCCTA-TATATATTATAT
1 TT--TATTATATATTAT-T
9963581 TTTATTATATATTACTT
1 TTTATTATATATTA-TT
9963598 TTTATT
1 TTTATT
9963604 TTTATATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 4 0.11
17 25 0.71
18 6 0.17
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTATTATATATTATT
Found at i:9963899 original size:23 final size:23
Alignment explanation
Indices: 9963863--9963916 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
9963853 TTTTAAACCA
*
9963863 ATATATTTTATTTTTATATATAATT
1 ATATATTCT-TTTTTATATAT-ATT
*
9963888 AT-TATTCTTTTTTTTATATATT
1 ATATATTCTTTTTTATATATATT
9963910 ATATATT
1 ATATATT
9963917 ATATATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 14 0.54
24 5 0.19
25 2 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (23 bp):
ATATATTCTTTTTTATATATATT
Found at i:9963950 original size:12 final size:13
Alignment explanation
Indices: 9963901--9963954 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 13
9963891 ATTCTTTTTT
*
9963901 TTATATATTATATA
1 TTAT-TATTAAATA
9963915 TTATATATTAAATA
1 TTAT-TATTAAATA
* *
9963929 CTATTTTTAAA-A
1 TTATTATTAAATA
9963941 TTATTATTAAATA
1 TTATTATTAAATA
9963954 T
1 T
9963955 CATGTTTTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
12 10 0.29
13 8 0.24
14 16 0.47
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATTATTAAATA
Found at i:9964240 original size:16 final size:15
Alignment explanation
Indices: 9964215--9964244 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
9964205 TTCATCTTCA
9964215 ATATATGCTATGTAT
1 ATATATGCTATGTAT
9964230 ATATGATGCTATGTA
1 ATAT-ATGCTATGTA
9964245 ATTTTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (15 bp):
ATATATGCTATGTAT
Found at i:9965094 original size:40 final size:40
Alignment explanation
Indices: 9965017--9965274 Score: 220
Period size: 40 Copynumber: 6.5 Consensus size: 40
9965007 AAATCACATA
* * **
9965017 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGAACTTAACCCGGATTTAG-TAACTCGCACAAATG
* * * * *
9965056 CCTTCGGTACATAGCTCGG-TTATAGTAACTAGCACAAATG
1 CCTTCGGAACTTAACCCGGATT-TAGTAACTCGCACAAATG
*
9965096 CCTTCGAAACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
* *
9965136 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
* * * * *
9965176 CCTTCGG-GCTTAGCCCAGAATTAGTATCTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
* ** * * * *
9965215 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGAACTTAACCCGGATTTAGTAAC-TCGCACAAATG
* *
9965255 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTAACCCGGA
9965275 CATCATTCGA
Statistics
Matches: 177, Mismatches: 36, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
39 45 0.25
40 122 0.69
41 10 0.06
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:9965234 original size:79 final size:79
Alignment explanation
Indices: 9965050--9965271 Score: 223
Period size: 79 Copynumber: 2.8 Consensus size: 79
9965040 GCTACTCGTT
* * * * * * ** * *
9965050 CAAATGCCTTCGGTACATAGCTCGGTTATAGTAACTAGCACAAATGCCTTCGAAACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAATGCCTTCG-GGCTTAGCCCAG
*
9965115 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
9965130 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGGCTTAGCCCAGA
1 CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAATGCCTTCGGGCTTAGCCCAGA
*
9965195 ATTAGTATCTCGCA
66 ATTAGTAACTCGCA
** * * *
9965209 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCACCAATGCCTTCGGG-CTTAGCCC
9965272 GGACATCATT
Statistics
Matches: 118, Mismatches: 21, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
78 3 0.03
79 59 0.50
80 56 0.47
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCACCAATGCCTTCGGGCTTAGCCCAGA
ATTAGTAACTCGCA
Found at i:9966472 original size:56 final size:57
Alignment explanation
Indices: 9966406--9966526 Score: 226
Period size: 57 Copynumber: 2.1 Consensus size: 57
9966396 TATTAGTTTA
9966406 TTGCCCATGCTTCTTATTTTA-TTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTACTTCTTCCATTAACACAACATGTTTCATGACATGTT
*
9966462 TTGCCCATGCTTCTTATTTTACTTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTACTTCTTCCATTAACACAACATGTTTCATGACATGTT
9966519 TTGCCCAT
1 TTGCCCAT
9966527 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 21 0.33
57 42 0.67
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (57 bp):
TTGCCCATGCTTCTTATTTTACTTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:9968993 original size:40 final size:40
Alignment explanation
Indices: 9968932--9969212 Score: 386
Period size: 40 Copynumber: 7.0 Consensus size: 40
9968922 AGGTCTCGAC
9968932 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
9968971 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* **
9969011 GATGTATCCGGGCTAAGTCCCAAAGAGCATTTGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
9969051 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
9969091 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
9969131 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
9969171 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
9969211 GA
1 GA
9969213 CGTGTATTCG
Statistics
Matches: 215, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.02
40 208 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:9971564 original size:47 final size:47
Alignment explanation
Indices: 9971486--9971987 Score: 779
Period size: 47 Copynumber: 10.6 Consensus size: 47
9971476 CCCTTCGGGA
* * * * * *
9971486 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9971533 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9971580 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9971627 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9971674 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9971723 CTTATCACATATATACACATTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9971770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9971817 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9971866 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9971915 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9971962 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
9971988 CACAATTATC
Statistics
Matches: 422, Mismatches: 29, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 283 0.67
49 139 0.33
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9971724 original size:96 final size:96
Alignment explanation
Indices: 9971486--9971987 Score: 804
Period size: 96 Copynumber: 5.3 Consensus size: 96
9971476 CCCTTCGGGA
* * * * *
9971486 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
9971549 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
9971580 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
9971643 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9971674 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
* *
9971739 ACATTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
9971770 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
9971833 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
9971866 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
9971931 ACTTTCACATTCATCACATCAGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9971962 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
9971988 CACAATTATC
Statistics
Matches: 378, Mismatches: 22, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
93 1 0.00
94 141 0.37
96 191 0.51
98 45 0.12
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9971746 original size:143 final size:143
Alignment explanation
Indices: 9971486--9971987 Score: 814
Period size: 143 Copynumber: 3.5 Consensus size: 143
9971476 CCCTTCGGGA
* * * * * * * *
9971486 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
9971549 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
9971614 TCGGCTATTAGGC
131 TCGGCTATTAGGC
9971627 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
9971692 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACATTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
9971757 TCGGCTATTAGGC
131 TCGGCTATTAGGC
9971770 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
9971835 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* * *
9971900 CATTGGCCATTCGGC
129 CATCGGCTATTAGGC
*
9971915 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
9971980 A--TTCACAT
66 ACTTTCACAT
9971988 CACAATTATC
Statistics
Matches: 338, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
141 47 0.14
143 191 0.57
145 100 0.30
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCTATTAGGC
Found at i:9974182 original size:79 final size:81
Alignment explanation
Indices: 9974073--9974255 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
9974063 TACTCGTTCA
* *
9974073 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
9974136 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
9974153 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
9974216 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
9974232 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
9974256 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:9974255 original size:40 final size:40
Alignment explanation
Indices: 9974052--9974255 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
9974042 CGGAATTTAA
** *
9974052 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
9974092 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
9974132 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
9974171 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
9974211 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
9974251 CCGGA
1 CCGGA
9974256 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:9975450 original size:56 final size:56
Alignment explanation
Indices: 9975383--9975502 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
9975373 TATTAGTTTA
9975383 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
9975439 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
9975495 TTGCCCAT
1 TTGCCCAT
9975503 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:9981908 original size:40 final size:40
Alignment explanation
Indices: 9981859--9982062 Score: 166
Period size: 40 Copynumber: 5.1 Consensus size: 40
9981849 CAGAATTTAA
** *
9981859 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
9981899 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * * *
9981939 CCGGATTTAGTAACTCACACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * **
9981978 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CATAAC
* * * * *
9982018 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACATAAC
9982058 CCGGA
1 CCGGA
9982063 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:9981980 original size:79 final size:80
Alignment explanation
Indices: 9981880--9982062 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
9981870 TACTCGTTCA
* *
9981880 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
*
9981943 ATTTAGTAACTCA-CACC
64 ATATAGTAACTCAGCA-C
* **
9981960 AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* * *
9982024 ATGGTCACTTAGCAC
66 ATAGTAACTCAGCAC
*
9982039 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
9982063 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 60 0.67
80 26 0.29
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTCAGCAC
Found at i:9983260 original size:56 final size:56
Alignment explanation
Indices: 9983193--9983312 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
9983183 TATTAGTTTA
9983193 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
9983249 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
9983305 TTGCCCAT
1 TTGCCCAT
9983313 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:9991469 original size:6 final size:6
Alignment explanation
Indices: 9991437--9991617 Score: 122
Period size: 6 Copynumber: 29.3 Consensus size: 6
9991427 AAGAAACATT
* * * * *
9991437 ATCAGA A-CTAGA ATCAAA ATGAAA ATCAGA ATCAGGTA A-CAAA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
9991486 ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
9991537 A-CAGA ATCAGA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
9991585 ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
9991618 GTGAATGCAA
Statistics
Matches: 140, Mismatches: 18, Indels: 34
0.73 0.09 0.18
Matches are distributed among these distances:
5 11 0.08
6 107 0.76
7 14 0.10
8 8 0.06
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:9991535 original size:62 final size:62
Alignment explanation
Indices: 9991460--9991617 Score: 271
Period size: 62 Copynumber: 2.5 Consensus size: 62
9991450 TCAAAATGAA
* * *
9991460 AATCAGAATCAGGTAACAAAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAG
1 AATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAG
*
9991522 AATCAGTATCAGGTAACAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACAGAATCAG
1 AATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAG
*
9991584 AATCAGTATCAGGTAACAGAATTAGAATCAGAAT
1 AATCAGTATCAGGTAACAGAATCAGAATCAGAAT
9991618 GTGAATGCAA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 90 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (62 bp):
AATCAGTATCAGGTAACAGAATCAGAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAG
Found at i:9991554 original size:37 final size:37
Alignment explanation
Indices: 9991480--9991617 Score: 92
Period size: 37 Copynumber: 3.7 Consensus size: 37
9991470 AGGTAACAAA
* *
9991480 ATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGA
1 ATCAGAATCAGAATCAGAATCAGAATCAGGTAACAGA
*
9991517 ATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AATCAGA
1 ATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-CAGA
* * *
9991554 ACCAGAATCAGAATTAGGTAA-CAGAATCA-G-AATCAGT
1 ATCAGAATCAGAATCA-G-AATCAGAATCAGGTAA-CAGA
*
9991591 ATCAGGTAA-CAGAATTAGAATCAGAAT
1 ATCA-G-AATCAGAATCAGAATCAGAAT
9991618 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 8, Indels: 12
0.81 0.07 0.11
Matches are distributed among these distances:
36 4 0.05
37 62 0.71
38 17 0.20
39 4 0.05
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (37 bp):
ATCAGAATCAGAATCAGAATCAGAATCAGGTAACAGA
Found at i:9991584 original size:25 final size:25
Alignment explanation
Indices: 9991460--9991617 Score: 125
Period size: 25 Copynumber: 6.4 Consensus size: 25
9991450 TCAAAATGAA
* *
9991460 AATCAGAATCAGGTAACAAAATCAA
1 AATCAGAATCAGGTAACAGAATCAG
*
9991485 AATCAGAATCA-G-AATCAGAATTAGG
1 AATCAGAATCAGGTAA-CAGAATCA-G
*
9991510 TAA-CAGAATCA-G-AATCAGTATCAGG
1 -AATCAGAATCAGGTAA-CAGAATCA-G
*
9991535 TAA-CAGAATCA-G-AATCAGAACCAG
1 -AATCAGAATCAGGTAA-CAGAATCAG
*
9991559 AATCAGAATTAGGTAACAGAATCAG
1 AATCAGAATCAGGTAACAGAATCAG
* *
9991584 AATCAGTATCAGGTAACAGAATTAG
1 AATCAGAATCAGGTAACAGAATCAG
9991609 AATCAGAAT
1 AATCAGAAT
9991618 GTGAATGCAA
Statistics
Matches: 114, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.04
24 15 0.13
25 91 0.80
26 4 0.04
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGGTAACAGAATCAG
Found at i:9991611 original size:31 final size:31
Alignment explanation
Indices: 9991421--9991617 Score: 140
Period size: 31 Copynumber: 6.4 Consensus size: 31
9991411 TAGCCTATTA
* * *
9991421 CAGAATAAGAAACATTATCA-G-AACTAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAAT
* * * * *
9991451 CAAAATGAAAATCAGAATCAGGTAACAAAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
* * *
9991482 CAAAATCAGAATCAGAATCA-G-AATTAGGTAA-
1 CAGAATCAGAATCAGTATCAGGTAA-CA-G-AAT
9991513 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
* * *
9991544 CAGAATCAGAACCAGAATCA-G-AATTAGGTAA-
1 CAGAATCAGAATCAGTATCAGGTAA-CA-G-AAT
9991575 CAGAATCAGAATCAGTATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
9991606 TAGAATCAGAAT
1 CAGAATCAGAAT
9991618 GTGAATGCAA
Statistics
Matches: 132, Mismatches: 21, Indels: 27
0.73 0.12 0.15
Matches are distributed among these distances:
29 4 0.03
30 22 0.17
31 91 0.69
32 11 0.08
33 4 0.03
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:9991614 original size:19 final size:19
Alignment explanation
Indices: 9991460--9991589 Score: 124
Period size: 19 Copynumber: 6.6 Consensus size: 19
9991450 TCAAAATGAA
*
9991460 AATCAGAATCAGGTAACAA
1 AATCAGAATCAGGTAACAG
*
9991479 AATCAAAATCA-G-AATCAG
1 AATCAGAATCAGGTAA-CAG
*
9991497 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
9991516 AATCAGAATCAGTATCAGGTAACAG
1 AATCAG----A--ATCAGGTAACAG
9991541 AATCAGAATCA-G-AACCAG
1 AATCAGAATCAGGTAA-CAG
*
9991559 AATCAGAATTAGGTAACAG
1 AATCAGAATCAGGTAACAG
9991578 AATCAGAATCAG
1 AATCAGAATCAG
9991590 TATCAGGTAA
Statistics
Matches: 92, Mismatches: 7, Indels: 24
0.75 0.06 0.20
Matches are distributed among these distances:
17 4 0.04
18 26 0.28
19 39 0.42
20 4 0.04
21 1 0.01
23 1 0.01
25 17 0.18
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (19 bp):
AATCAGAATCAGGTAACAG
Found at i:9991996 original size:22 final size:22
Alignment explanation
Indices: 9991968--9992032 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
9991958 GCAAATACGT
*
9991968 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
9991990 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
9992012 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
9992033 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Done.