Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 62
Found at i:9074685 original size:22 final size:22
Alignment explanation
Indices: 9074660--9074717 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
9074650 AATATTATTT
*
9074660 AAAATGTTATTTTTTTTTACTG
1 AAAATGTTATTTTTTATTACTG
* * *
9074682 AAAATATTA-ATTTTATTACTT
1 AAAATGTTATTTTTTATTACTG
*
9074703 AAAATGAATATTTTT
1 AAAATG-TTATTTTT
9074718 GATATTTATA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
21 14 0.52
22 10 0.37
23 3 0.11
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (22 bp):
AAAATGTTATTTTTTATTACTG
Found at i:9075461 original size:50 final size:50
Alignment explanation
Indices: 9075398--9075533 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
9075388 CCACGTTAAC
* * *
9075398 AAAACCCTGGAAAGCTCGTCTCCTGAAACGCA-CATTTCATCCACATCAAT
1 AAAACCATGGAAAGCTCGTCCCCTAAAACGCATC-TTTCATCCACATCAAT
* *
9075448 AAAACCATGGAAAGCTCGTCCCCTAAAACTCATCTTTCATCCACATCAGT
1 AAAACCATGGAAAGCTCGTCCCCTAAAACGCATCTTTCATCCACATCAAT
* * * * *
9075498 AAAACTCCTGAAAAGTTCG-CCCCTGAAACACATCTT
1 AAAAC-CATGGAAAGCTCGTCCCCTAAAACGCATCTT
9075534 ATAAAATATT
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 63 0.85
51 11 0.15
ACGTcount: A:0.35, C:0.32, G:0.11, T:0.23
Consensus pattern (50 bp):
AAAACCATGGAAAGCTCGTCCCCTAAAACGCATCTTTCATCCACATCAAT
Found at i:9075812 original size:31 final size:32
Alignment explanation
Indices: 9075737--9075812 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 32
9075727 AAAATTTAGG
* * * *
9075737 TACTAAAATGAAACAAGAAGTTAACAATGGGG
1 TACTAAAATGAAACAAAAAATAAACAATGGGA
* * *
9075769 TACTTAAATGAAACAAAAAATAAAC-GTTGGA
1 TACTAAAATGAAACAAAAAATAAACAATGGGA
9075800 TACTAAAATGAAA
1 TACTAAAATGAAA
9075813 TGAGAAGTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
31 15 0.42
32 21 0.58
ACGTcount: A:0.54, C:0.09, G:0.16, T:0.21
Consensus pattern (32 bp):
TACTAAAATGAAACAAAAAATAAACAATGGGA
Found at i:9078208 original size:24 final size:24
Alignment explanation
Indices: 9078181--9078233 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
9078171 GGTTTTAAAA
*
9078181 GGCGCACTGCCAGGTACTGAAGAT
1 GGCGCACCGCCAGGTACTGAAGAT
9078205 GGCGCACCGCCAGGTACTGAAGAT
1 GGCGCACCGCCAGGTACTGAAGAT
9078229 GGCGC
1 GGCGC
9078234 CAGCCTCGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.23, C:0.28, G:0.36, T:0.13
Consensus pattern (24 bp):
GGCGCACCGCCAGGTACTGAAGAT
Found at i:9078646 original size:24 final size:24
Alignment explanation
Indices: 9078614--9078662 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9078604 GATGGATTGT
9078614 GACCCTCTAACTATATATGAGTTA
1 GACCCTCTAACTATATATGAGTTA
9078638 GACCCTCTAACTATATATGAGTTA
1 GACCCTCTAACTATATATGAGTTA
9078662 G
1 G
9078663 GAACCAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (24 bp):
GACCCTCTAACTATATATGAGTTA
Found at i:9079805 original size:17 final size:17
Alignment explanation
Indices: 9079783--9079854 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
9079773 AATTAAGAGT
9079783 TAGTTT-ATTAAATGAAC
1 TAGTTTAATT-AATGAAC
* *
9079800 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
*
9079817 TACTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
9079834 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
9079852 TAG
1 TAG
9079855 ATGCATGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
17 32 0.68
18 15 0.32
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:9079841 original size:18 final size:18
Alignment explanation
Indices: 9079810--9079853 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
9079800 TAGTTTGATG
9079810 AATGAACT-ACTTTAATT-
1 AATGAACTAACTTT-ATTC
9079827 AATGAACTAACTTTATTC
1 AATGAACTAACTTTATTC
9079845 AATGAACTA
1 AATGAACTA
9079854 GATGCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTATTC
Found at i:9081039 original size:186 final size:185
Alignment explanation
Indices: 9080714--9081083 Score: 713
Period size: 186 Copynumber: 2.0 Consensus size: 185
9080704 CCATGGAGGA
9080714 TGCTTGATGATTTATTGGACACTGGTTCCTTGGTGATAGAAAACTTCATTGGATCCTCATTTGAA
1 TGCTTGATGATTTATTGGACACTGGTTCCTTGGTGATAGAAAACTTCATTGGATCCTCATTTGAA
9080779 ACATGATTAAAAGTATGGACGATGTTCGATCATCATTAGAATTGGCAATGTGTTTGATATGTCTC
66 ACATGATTAAAAGTATGGACGATGTTCGATCATCATTAGAATTGGCAATGTGTTTGATATGTCTC
*
9080844 TTGAAGTGCTCTTCTCGTCATCCTGCAATAATGAAAATTCAAAAATATAAGAAGT
131 TTGAAGTGCTCTTCTCGTCATCCTGCAACAATGAAAATTCAAAAATATAAGAAGT
*
9080899 TGCTTGATGATATTATTGGACACTGGTTCCTTGGTGATAGAAAACTTCATTGGATCCTCCTTTGA
1 TGCTTGATGAT-TTATTGGACACTGGTTCCTTGGTGATAGAAAACTTCATTGGATCCTCATTTGA
9080964 AACATGATTAAAAGTATGGACGATGTTCGATCATCATTAGAATTGGCAATGTGTTTGATATGTCT
65 AACATGATTAAAAGTATGGACGATGTTCGATCATCATTAGAATTGGCAATGTGTTTGATATGTCT
9081029 CTTGAAGTGCTCTTCTCGTCATCCTGCAACAATGAAAATTCAAAAATATAAGAAG
130 CTTGAAGTGCTCTTCTCGTCATCCTGCAACAATGAAAATTCAAAAATATAAGAAG
9081084 AATGGTTAAG
Statistics
Matches: 182, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
185 11 0.06
186 171 0.94
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (185 bp):
TGCTTGATGATTTATTGGACACTGGTTCCTTGGTGATAGAAAACTTCATTGGATCCTCATTTGAA
ACATGATTAAAAGTATGGACGATGTTCGATCATCATTAGAATTGGCAATGTGTTTGATATGTCTC
TTGAAGTGCTCTTCTCGTCATCCTGCAACAATGAAAATTCAAAAATATAAGAAGT
Found at i:9081166 original size:15 final size:15
Alignment explanation
Indices: 9081146--9081179 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
9081136 ACAAACAATT
9081146 TCTTTTTCAAACTCA
1 TCTTTTTCAAACTCA
**
9081161 TCTTTTTCACTCTCA
1 TCTTTTTCAAACTCA
9081176 TCTT
1 TCTT
9081180 CTTTTTGAAT
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:0.18, C:0.29, G:0.00, T:0.53
Consensus pattern (15 bp):
TCTTTTTCAAACTCA
Found at i:9083698 original size:17 final size:16
Alignment explanation
Indices: 9083676--9083743 Score: 52
Period size: 17 Copynumber: 4.2 Consensus size: 16
9083666 AATTAAGAGT
9083676 TAGTTTATTAAATGAAC
1 TAGTTTATT-AATGAAC
*
9083693 TAG--T-TTGATGAAC
1 TAGTTTATTAATGAAC
*
9083706 TACTTTAATTAATGAAC
1 TAGTTT-ATTAATGAAC
*
9083723 TAACTTTATTCAATGAAC
1 T-AGTTTATT-AATGAAC
9083741 TAG
1 TAG
9083744 ATGCATGAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 8 0.20
14 2 0.05
15 2 0.05
17 16 0.39
18 13 0.32
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (16 bp):
TAGTTTATTAATGAAC
Found at i:9083730 original size:18 final size:18
Alignment explanation
Indices: 9083700--9083742 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
9083690 AACTAGTTTG
9083700 ATGAACT-ACTTTAATT-A
1 ATGAACTAACTTT-ATTCA
9083717 ATGAACTAACTTTATTCA
1 ATGAACTAACTTTATTCA
9083735 ATGAACTA
1 ATGAACTA
9083743 GATGCATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (18 bp):
ATGAACTAACTTTATTCA
Found at i:9092557 original size:55 final size:55
Alignment explanation
Indices: 9092498--9092621 Score: 203
Period size: 55 Copynumber: 2.3 Consensus size: 55
9092488 TATCGATATG
9092498 CTCCGAGCAATCTGTTATTTCTCAGAGCCAAATCTTACAAGGGGGTATCGGTACC
1 CTCCGAGCAATCTGTTATTTCTCAGAGCCAAATCTTACAAGGGGGTATCGGTACC
** *
9092553 CTCCGAGCAATCTGTTATTTCTTGGAGCCAAATCTTACAATGGGGTATCGGTACC
1 CTCCGAGCAATCTGTTATTTCTCAGAGCCAAATCTTACAAGGGGGTATCGGTACC
* *
9092608 CTCTGGGCAATCTG
1 CTCCGAGCAATCTG
9092622 CCTTATAAGG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (55 bp):
CTCCGAGCAATCTGTTATTTCTCAGAGCCAAATCTTACAAGGGGGTATCGGTACC
Found at i:9093327 original size:14 final size:15
Alignment explanation
Indices: 9093295--9093327 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
9093285 TTAACAATTC
9093295 AAAGTTCTAAATCCG
1 AAAGTTCTAAATCCG
9093310 -AAGTTCTAAAT-CG
1 AAAGTTCTAAATCCG
9093323 AAAGT
1 AAAGT
9093328 AGGCAAGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 2 0.12
14 15 0.88
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (15 bp):
AAAGTTCTAAATCCG
Found at i:9094862 original size:19 final size:20
Alignment explanation
Indices: 9094817--9094859 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
9094807 TTTTTTCATG
9094817 AAAACAACATAATTAAATCA
1 AAAACAACATAATTAAATCA
*
9094837 AAAACAACA-ATTTAGAATCA
1 AAAACAACATAATTA-AATCA
9094857 AAA
1 AAA
9094860 CAATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.65, C:0.14, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAACAACATAATTAAATCA
Found at i:9095310 original size:21 final size:23
Alignment explanation
Indices: 9095259--9095315 Score: 73
Period size: 21 Copynumber: 2.6 Consensus size: 23
9095249 ACCTCGTGGA
9095259 GGGTATCGGTACCCACTCAAAGG
1 GGGTATCGGTACCCACTCAAAGG
* *
9095282 GGGGATCGGTACCC-TTC-AAGG
1 GGGTATCGGTACCCACTCAAAGG
*
9095303 GGGTATCGATACC
1 GGGTATCGGTACC
9095316 TCCTGCACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 15 0.50
22 2 0.07
23 13 0.43
ACGTcount: A:0.23, C:0.25, G:0.33, T:0.19
Consensus pattern (23 bp):
GGGTATCGGTACCCACTCAAAGG
Found at i:9096293 original size:155 final size:159
Alignment explanation
Indices: 9096082--9096393 Score: 587
Period size: 155 Copynumber: 2.0 Consensus size: 159
9096072 GATACCAAAG
9096082 TCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATCCTCTTAACAACTAGTAAATGTGATTCCT
1 TCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATCCTCTTAACAACTAGTAAATGTGATTCCT
9096147 TATGACATGATTGAAATCTAGCACATAAGCAAACACT-AACATAATGTCCGACCTAC-TATTGTT
66 TATGACATGATTGAAATCTAGCACATAAGCAAACACTAAACATAATGTCCGACCTACTTATTGTT
9096210 AGATAGA-CAAAGAGCCAATC-TTGACTA
131 AGATAGATCAAAGAGCCAATCATTGACTA
9096237 TCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATCCTCTTAACAACTAGTAAATGTGATTCCT
1 TCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATCCTCTTAACAACTAGTAAATGTGATTCCT
9096302 TATGACATGATTGAAATCTAGCACATAAGCAAACACTAAACATAATGTCCGACCTACTTATTGTT
66 TATGACATGATTGAAATCTAGCACATAAGCAAACACTAAACATAATGTCCGACCTACTTATTGTT
*
9096367 AGATAGATCCAAGAGCCAATCATTGAC
131 AGATAGATCAAAGAGCCAATCATTGAC
9096394 CTATACAATT
Statistics
Matches: 152, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
155 102 0.67
156 19 0.12
157 14 0.09
158 12 0.08
159 5 0.03
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (159 bp):
TCCTAAACTAGGAGTGTCCTTAAGGTATCTAAAGATCCTCTTAACAACTAGTAAATGTGATTCCT
TATGACATGATTGAAATCTAGCACATAAGCAAACACTAAACATAATGTCCGACCTACTTATTGTT
AGATAGATCAAAGAGCCAATCATTGACTA
Found at i:9096485 original size:60 final size:59
Alignment explanation
Indices: 9096392--9096503 Score: 199
Period size: 60 Copynumber: 1.9 Consensus size: 59
9096382 CCAATCATTG
9096392 ACCTATACAATTAACATCCACAATTTACCTCCTTCATC-TTGTCAAGCTTTGATGAGCT
1 ACCTATACAATTAACATCCACAATTTACCTCCTTCATCTTTGTCAAGCTTTGATGAGCT
9096450 ACCTATACAATTTAACATCCACACATTTACCTCCTTCATCTTTGTCAAGCTTTG
1 ACCTATACAA-TTAACATCCACA-ATTTACCTCCTTCATCTTTGTCAAGCTTTG
9096504 TTGATGAGCT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
58 10 0.20
59 12 0.24
60 16 0.31
61 13 0.25
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (59 bp):
ACCTATACAATTAACATCCACAATTTACCTCCTTCATCTTTGTCAAGCTTTGATGAGCT
Found at i:9099380 original size:22 final size:21
Alignment explanation
Indices: 9099338--9099377 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9099328 GAGATTATTT
*
9099338 TCATTTTTCAATTTTGAAATA
1 TCATTTTTCAATTTTAAAATA
9099359 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
9099378 ATAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:9108992 original size:20 final size:20
Alignment explanation
Indices: 9108949--9108995 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
9108939 TATAAGATGA
*
9108949 GGGTATCGGTACCCTCTGAT
1 GGGTATCGGTACCCTCTGAG
*
9108969 GGGTATCGGTACCCTCTGGG
1 GGGTATCGGTACCCTCTGAG
9108989 GGGTATC
1 GGGTATC
9108996 ATTACCCTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.36, T:0.28
Consensus pattern (20 bp):
GGGTATCGGTACCCTCTGAG
Found at i:9109001 original size:20 final size:20
Alignment explanation
Indices: 9108949--9109004 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
9108939 TATAAGATGA
* *
9108949 GGGTATCGGTACCCTCTGAT
1 GGGTATCAGTACCCTCTGAG
* *
9108969 GGGTATCGGTACCCTCTGGG
1 GGGTATCAGTACCCTCTGAG
*
9108989 GGGTATCATTACCCTC
1 GGGTATCAGTACCCTC
9109005 CGAGTAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.29
Consensus pattern (20 bp):
GGGTATCAGTACCCTCTGAG
Found at i:9109097 original size:73 final size:74
Alignment explanation
Indices: 9108967--9109149 Score: 237
Period size: 73 Copynumber: 2.5 Consensus size: 74
9108957 GTACCCTCTG
* * * *
9108967 ATGGG-TATCGGTACCCTCTGGGGGGTATCATTACCCTCCGAGTAATCTATTATTTCTCAGAGCC
1 ATGGGCTATCGGTACCCTCT-AGGGGTATCAGTACCCTCCGAGCAATCTATTAGTTCTCAGAGCC
9109031 AAATCTTACA
65 AAATCTTACA
* *
9109041 A-GGTGCTATCGGTACCCTCT-GGGGTATCAGTACCCTCCGAGCAATCTGTTAGTTCTCGGAGCC
1 ATGG-GCTATCGGTACCCTCTAGGGGTATCAGTACCCTCCGAGCAATCTATTAGTTCTCAGAGCC
9109104 AAATCTTACA
65 AAATCTTACA
* * *
9109114 ATGGGGTATCGATACCCTCTAAGGGGTATCGGTACC
1 ATGGGCTATCGGTACCCTCT-AGGGGTATCAGTACC
9109150 ATATGGGCAA
Statistics
Matches: 96, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
73 65 0.68
74 4 0.04
75 27 0.28
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (74 bp):
ATGGGCTATCGGTACCCTCTAGGGGTATCAGTACCCTCCGAGCAATCTATTAGTTCTCAGAGCCA
AATCTTACA
Found at i:9110878 original size:21 final size:20
Alignment explanation
Indices: 9110854--9110894 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9110844 ATCTTACCTT
9110854 ATAATGATCTAATGTTATCAC
1 ATAATGAT-TAATGTTATCAC
* *
9110875 ATAATTATTAATGTTCTCAC
1 ATAATGATTAATGTTATCAC
9110895 TTTTAAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (20 bp):
ATAATGATTAATGTTATCAC
Found at i:9115423 original size:14 final size:15
Alignment explanation
Indices: 9115390--9115424 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
9115380 CAATATATAG
9115390 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
9115405 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
9115420 -ATTTT
1 AATTTT
9115425 AGAATTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:9115612 original size:20 final size:20
Alignment explanation
Indices: 9115576--9115613 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9115566 ATCCTATTCC
**
9115576 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
9115596 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
9115614 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:9121866 original size:3 final size:3
Alignment explanation
Indices: 9121858--9121909 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
9121848 GATTTGGTGT
9121858 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9121906 TAA T
1 TAA T
9121910 TTGTACATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:9122564 original size:20 final size:20
Alignment explanation
Indices: 9122539--9122580 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
9122529 ATAAGAGGAT
9122539 ATAAAAAGAGAGAAAATGAC
1 ATAAAAAGAGAGAAAATGAC
9122559 ATAAAAAGAGAGAAAATGAC
1 ATAAAAAGAGAGAAAATGAC
9122579 AT
1 AT
9122581 GGATAACACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (20 bp):
ATAAAAAGAGAGAAAATGAC
Found at i:9124016 original size:2 final size:2
Alignment explanation
Indices: 9124009--9124050 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
9123999 ATCCAACCCC
9124009 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9124051 GTATGTATGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9124361 original size:23 final size:24
Alignment explanation
Indices: 9124311--9124362 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
9124301 AGAATATATT
*
9124311 ATATTTTAAAAATTATTAATTAAT
1 ATATTTTAAAAATTATTAATTAAA
*
9124335 ATATTTTAAATATCT-TT-ATTAAA
1 ATATTTTAAAAAT-TATTAATTAAA
9124358 ATATT
1 ATATT
9124363 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 14 0.56
25 1 0.04
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
ATATTTTAAAAATTATTAATTAAA
Found at i:9124462 original size:17 final size:17
Alignment explanation
Indices: 9124394--9124467 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
9124384 TAAATGCATA
9124394 AATAATATT-ATTTAA-T
1 AATAAT-TTAATTTAATT
9124410 AATAATTTAATATT-ATT
1 AATAATTTAAT-TTAATT
* *
9124427 --T-ATTTGAAATTAATA
1 AATAATTT-AATTTAATT
9124442 AATAATTTAATTTAATT
1 AATAATTTAATTTAATT
9124459 AATAATTTA
1 AATAATTTA
9124468 TTATGTATTA
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
14 6 0.13
15 7 0.15
16 9 0.20
17 20 0.43
18 4 0.09
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (17 bp):
AATAATTTAATTTAATT
Found at i:9125507 original size:3 final size:3
Alignment explanation
Indices: 9125493--9125524 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9125483 CACCATTTAC
*
9125493 TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9125525 CATATTAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9130407 original size:9 final size:9
Alignment explanation
Indices: 9130368--9130504 Score: 67
Period size: 9 Copynumber: 15.3 Consensus size: 9
9130358 GTCAGATTGT
9130368 AAATAAA-A
1 AAATAAATA
*
9130376 AAATTAATA
1 AAATAAATA
*
9130385 TAAT-AATA
1 AAATAAATA
*
9130393 ATAATAAACA
1 A-AATAAATA
9130403 AAATAAA-A
1 AAATAAATA
9130411 TAAATAAATA
1 -AAATAAATA
*
9130421 GAGATAAATA
1 -AAATAAATA
* *
9130431 AAATTTAGTA
1 AAA-TAAATA
*
9130441 CAAAGAAA-A
1 -AAATAAATA
9130450 ATAATATAA-A
1 A-AATA-AATA
9130460 AAATAAAT-
1 AAATAAATA
9130468 AAA-AAAT-
1 AAATAAATA
9130475 AAA-AAATA
1 AAATAAATA
9130483 AAATAAAATA
1 AAAT-AAATA
*
9130493 AAATAAAGA
1 AAATAAATA
9130502 AAA
1 AAA
9130505 AGGTTAAATA
Statistics
Matches: 102, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
7 11 0.11
8 20 0.20
9 37 0.36
10 31 0.30
11 3 0.03
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (9 bp):
AAATAAATA
Found at i:9130412 original size:5 final size:5
Alignment explanation
Indices: 9130368--9130499 Score: 62
Period size: 5 Copynumber: 26.4 Consensus size: 5
9130358 GTCAGATTGT
* * *
9130368 AAATA AAA-A AATTA ATATA ATAATA ATAAT- AAACA AAATA AAAT- AAAT-
1 AAATA AAATA AAATA AAATA A-AATA A-AATA AAATA AAATA AAATA AAATA
* * * * * * *
9130416 AAATA GAGAT- AAATA AAATT TAGTA CAAAGAA AAATA ATATA AAAAA
1 AAATA -AAATA AAATA AAATA AAATA -AAA-TA AAATA AAATA AAATA
9130463 TAAATA AAA-A ATAA-A AAATA AAATA AAATA AAATA AA
1 -AAATA AAATA A-AATA AAATA AAATA AAATA AAATA AA
9130500 GAAAAAGGTT
Statistics
Matches: 96, Mismatches: 20, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
4 20 0.21
5 56 0.58
6 19 0.20
7 1 0.01
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:9130469 original size:11 final size:11
Alignment explanation
Indices: 9130446--9130505 Score: 68
Period size: 11 Copynumber: 5.4 Consensus size: 11
9130436 TAGTACAAAG
9130446 AAAAATAATATA
1 AAAAATAA-ATA
9130458 AAAAATAAATA
1 AAAAATAAATA
*
9130469 AAAAATAAAAA
1 AAAAATAAATA
9130480 ATAAAATAAA-A
1 A-AAAATAAATA
* *
9130491 TAAAATAAAGA
1 AAAAATAAATA
9130502 AAAA
1 AAAA
9130506 GGTTAAATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
10 8 0.19
11 19 0.44
12 16 0.37
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.17
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:9130475 original size:23 final size:24
Alignment explanation
Indices: 9130446--9130495 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
9130436 TAGTACAAAG
*
9130446 AAAAATAATATAA-AAAAT-AAATA
1 AAAAATAA-AAAATAAAATAAAATA
9130469 AAAAATAAAAAATAAAATAAAATA
1 AAAAATAAAAAATAAAATAAAATA
9130493 AAA
1 AAA
9130496 TAAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 3 0.12
23 13 0.54
24 8 0.33
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAAATAAAAAATAAAATAAAATA
Found at i:9131479 original size:4 final size:4
Alignment explanation
Indices: 9131470--9131495 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
9131460 CTAAAAAAGA
9131470 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
9131496 TATATAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9131604 original size:39 final size:39
Alignment explanation
Indices: 9131543--9131649 Score: 119
Period size: 39 Copynumber: 2.7 Consensus size: 39
9131533 TTCAATTTTT
* * *
9131543 TTTTTAAAATTATATA-ATATATATGTTTTTCAAAAATAA
1 TTTTCAAAACTATATATATATATATATTTTT-AAAAATAA
* * **
9131582 TTTTCAAAACTATATATA-ATATATATTTTTGAAATTTG
1 TTTTCAAAACTATATATATATATATATTTTTAAAAATAA
9131620 TTTTCAAAACTATAATATATATATATATTT
1 TTTTCAAAACTAT-ATATATATATATATTT
9131650 GAAAACTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
38 17 0.29
39 30 0.52
40 11 0.19
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.50
Consensus pattern (39 bp):
TTTTCAAAACTATATATATATATATATTTTTAAAAATAA
Found at i:9131618 original size:34 final size:35
Alignment explanation
Indices: 9131582--9131653 Score: 92
Period size: 38 Copynumber: 2.0 Consensus size: 35
9131572 TCAAAAATAA
*
9131582 TTTTCAAAACTAT-ATATAATATATATTTTTGAAATTT
1 TTTTCAAAACTATAATAT-ATATATATATTTGAAA--T
9131619 GTTTTCAAAACTATAATATATATATATATTTGAAA
1 -TTTTCAAAACTATAATATATATATATATTTGAAA
9131654 ACTATATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
38 28 0.88
39 4 0.12
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (35 bp):
TTTTCAAAACTATAATATATATATATATTTGAAAT
Found at i:9131654 original size:26 final size:26
Alignment explanation
Indices: 9131625--9131727 Score: 113
Period size: 26 Copynumber: 3.9 Consensus size: 26
9131615 ATTTGTTTTC
9131625 AAAACTATA-ATATATATATATATTT
1 AAAACTATATATATATATATATATTT
*
9131650 GAAAACTATATAT-TATATAAATATTTT
1 -AAAACTATATATATATATATATA-TTT
* *
9131677 AAAAACCATATATATATATATATATAT
1 -AAAACTATATATATATATATATATTT
*
9131704 ATATA-TATATATATATATATATAT
1 A-AAACTATATATATATATATATAT
9131728 ATATATATAT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
26 37 0.56
27 20 0.30
28 9 0.14
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (26 bp):
AAAACTATATATATATATATATATTT
Found at i:9131691 original size:2 final size:2
Alignment explanation
Indices: 9131684--9131741 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
9131674 TTTAAAAACC
9131684 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9131726 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
9131742 GTTTTCAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9131831 original size:41 final size:42
Alignment explanation
Indices: 9131725--9131831 Score: 116
Period size: 39 Copynumber: 2.6 Consensus size: 42
9131715 TATATATATA
*
9131725 TATATATATATATATATGTTTTC-AAAATGTTTTTCAAAAAAC
1 TATATAT-TATATATATGTTTTCAAAAACGTTTTTCAAAAAAC
*** *
9131767 TATATA--ATATATAAAATTCCAAAAACCG-TTTTC-AAAAAC
1 TATATATTATATATATGTTTTCAAAAA-CGTTTTTCAAAAAAC
9131806 TATATATTATATATATGTTTTCAAAA
1 TATATATTATATATATGTTTTCAAAA
9131832 CTCTATATTA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
39 22 0.42
40 9 0.17
41 15 0.29
42 6 0.12
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (42 bp):
TATATATTATATATATGTTTTCAAAAACGTTTTTCAAAAAAC
Found at i:9131838 original size:27 final size:28
Alignment explanation
Indices: 9131794--9131846 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
9131784 TCCAAAAACC
9131794 GTTTTCAAAAACTATATATTATATATAT
1 GTTTTCAAAAACTATATATTATATATAT
*
9131822 GTTTTC-AAAACTCTATATTATATAT
1 GTTTTCAAAAACTATATATTATATAT
9131847 TTTCAAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 18 0.75
28 6 0.25
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (28 bp):
GTTTTCAAAAACTATATATTATATATAT
Found at i:9131875 original size:36 final size:37
Alignment explanation
Indices: 9131822--9131905 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
9131812 TTATATATAT
* *
9131822 GTTTTC-AAAACTCTATATTATAT-ATTTTCAAAAACC
1 GTTTTCTAAAA-TGTATATTAAATGATTTTCAAAAACC
* *
9131858 GATTTT-TAAAATGTATATTAAATGTTTTTCGAAAACC
1 G-TTTTCTAAAATGTATATTAAATGATTTTCAAAAACC
9131895 GTTTTCTAAAA
1 GTTTTCTAAAA
9131906 AATATTTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
36 15 0.38
37 25 0.62
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (37 bp):
GTTTTCTAAAATGTATATTAAATGATTTTCAAAAACC
Found at i:9133153 original size:10 final size:10
Alignment explanation
Indices: 9133138--9133164 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9133128 TACAATATCA
9133138 TTTTTTTTAT
1 TTTTTTTTAT
9133148 TTTTTTTTAT
1 TTTTTTTTAT
9133158 TTTTTTT
1 TTTTTTT
9133165 CAATTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:9135465 original size:19 final size:19
Alignment explanation
Indices: 9135412--9135467 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
9135402 TATTTTTTTC
9135412 AAAAAAAA-AAAAAAA-C-
1 AAAAAAAACAAAAAAACCA
*
9135428 -AAAAAACCAAAAAAACCA
1 AAAAAAAACAAAAAAACCA
*
9135446 AAAAAAAACAAAAAAGCCA
1 AAAAAAAACAAAAAAACCA
9135465 AAA
1 AAA
9135468 TTTCAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 6 0.18
16 7 0.21
17 1 0.03
19 19 0.58
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAACCA
Found at i:9135466 original size:9 final size:9
Alignment explanation
Indices: 9135411--9135467 Score: 57
Period size: 9 Copynumber: 6.6 Consensus size: 9
9135401 CTATTTTTTT
9135411 CAAAAAAA-
1 CAAAAAAAC
*
9135419 -AAAAAAAA
1 CAAAAAAAC
9135427 C-AAAAAAC
1 CAAAAAAAC
9135435 CAAAAAAAC
1 CAAAAAAAC
*
9135444 CAAAAAAAAA
1 C-AAAAAAAC
*
9135454 CAAAAAAGC
1 CAAAAAAAC
9135463 CAAAA
1 CAAAA
9135468 TTTCAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
7 7 0.17
8 7 0.17
9 19 0.46
10 8 0.20
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (9 bp):
CAAAAAAAC
Found at i:9140592 original size:2 final size:2
Alignment explanation
Indices: 9140581--9140616 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
9140571 TGTGCTAATC
9140581 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9140617 CCGTGGGCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9141673 original size:40 final size:40
Alignment explanation
Indices: 9141629--9141745 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 40
9141619 ATTATTCAAG
9141629 AAATAAATCCAA-TGATTTATTTTCTTTTACAAAACAGGAA
1 AAATAAATCCAACT-ATTTATTTTCTTTTACAAAACAGGAA
* * *
9141669 AAATAAAAGCTAACTATTTATTTTCTTTTACAAAATAGGAA
1 AAAT-AAATCCAACTATTTATTTTCTTTTACAAAACAGGAA
* * *
9141710 ACATAAATGCAACTATTTATTTCCTTTTACAAAACA
1 AAATAAATCCAACTATTTATTTTCTTTTACAAAACA
9141746 AAATCATATA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
40 31 0.47
41 34 0.52
42 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (40 bp):
AAATAAATCCAACTATTTATTTTCTTTTACAAAACAGGAA
Found at i:9141690 original size:41 final size:40
Alignment explanation
Indices: 9141643--9141745 Score: 161
Period size: 41 Copynumber: 2.5 Consensus size: 40
9141633 AAATCCAATG
9141643 ATTTATTTTCTTTTACAAAACAGGAAAAATAAAAGCTAACT
1 ATTTATTTTCTTTTACAAAACAGGAAAAATAAAAGC-AACT
* * *
9141684 ATTTATTTTCTTTTACAAAATAGGAAACATAAATGCAACT
1 ATTTATTTTCTTTTACAAAACAGGAAAAATAAAAGCAACT
*
9141724 ATTTATTTCCTTTTACAAAACA
1 ATTTATTTTCTTTTACAAAACA
9141746 AAATCATATA
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 24 0.42
41 33 0.58
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.38
Consensus pattern (40 bp):
ATTTATTTTCTTTTACAAAACAGGAAAAATAAAAGCAACT
Found at i:9141830 original size:39 final size:39
Alignment explanation
Indices: 9141785--9141890 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 39
9141775 TCAATGATTG
*
9141785 ATTTCCTTTTACAAAACATGAAAATAAATCCGACAATTT
1 ATTTCCTTTTACAAAACATGAAAATAAATCCAACAATTT
* * *
9141824 ATTTCCTTTTACAAAATA-GAAAAATAAATCTAACGATTT
1 ATTTCCTTTTACAAAACATG-AAAATAAATCCAACAATTT
** * *
9141863 ATTTTATTTCACAAACCATGAAAATAAA
1 ATTTCCTTTTACAAAACATGAAAATAAA
9141891 ATTTAATGAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
38 1 0.02
39 54 0.96
40 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (39 bp):
ATTTCCTTTTACAAAACATGAAAATAAATCCAACAATTT
Found at i:9141971 original size:175 final size:176
Alignment explanation
Indices: 9141629--9141974 Score: 387
Period size: 175 Copynumber: 2.0 Consensus size: 176
9141619 ATTATTCAAG
** * * *
9141629 AAATAAATCCAATGATTTATTTTCTTTTACAAAACAGGAAAAATAAAAGCTAACTATTTATTTTC
1 AAATAAATCCAACAATTTATTTCCTTTTACAAAACAGGAAAAATAAAAGCTAACGATTTATTTTA
* * *
9141694 TTTTACAAAATAGGAAACATAAATGCAACTATTTATTTCCTTTTACAAAACAAAATCATATAAGA
66 TTTCACAAAACAGGAAACATAAATGCAACTATTTATTTCATTTTA-AAAACAAAATCATATAAGA
* *
9141759 TTATCAACAACATAAATCAATGATTGATTTCCTTTTACAAAACATGA
130 TTATCAACAAAATAAATCAATGATTGATTTACTTTTACAAAACATGA
* * *
9141806 AAATAAATCCGACAATTTATTTCCTTTTACAAAATA-GAAAAAT-AAATCTAACGATTTATTTTA
1 AAATAAATCCAACAATTTATTTCCTTTTACAAAACAGGAAAAATAAAAGCTAACGATTTATTTTA
* * ** * * *
9141869 TTTCACAAACCATGAAA-ATAAAATTTAA-TGATTTATTTTCATTTT-AAAATAGAATCATTTAA
66 TTTCACAAAACAGGAAACAT-AAATGCAACT-ATTTA-TTTCATTTTAAAAACAAAATCATATAA
* * * * *
9141931 TATTCTCAAGAAAATAAATTTAATGATTTATTTACTTTTACAAA
128 GATTATCAACAAAATAAA-TCAATGATTGATTTACTTTTACAAA
9141975 CCAAAACCAT
Statistics
Matches: 140, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
174 31 0.22
175 63 0.45
176 15 0.11
177 31 0.22
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.37
Consensus pattern (176 bp):
AAATAAATCCAACAATTTATTTCCTTTTACAAAACAGGAAAAATAAAAGCTAACGATTTATTTTA
TTTCACAAAACAGGAAACATAAATGCAACTATTTATTTCATTTTAAAAACAAAATCATATAAGAT
TATCAACAAAATAAATCAATGATTGATTTACTTTTACAAAACATGA
Found at i:9142016 original size:58 final size:56
Alignment explanation
Indices: 9141879--9142078 Score: 163
Period size: 57 Copynumber: 3.5 Consensus size: 56
9141869 TTTCACAAAC
* * * * * *
9141879 CATGAAAATAAAATTTAATGATTTATTTTCATTTTAAAATAGAATCATTTAATATTCT
1 CATGAAAAT-AAATTTAATGATTTATTTAC-TTTTAAAACAAAACCATATAAGATTCT
*
9141937 CAAGAAAATAAATTTAATGATTTATTTACTTTTACAAACCAAAACCATATAAGATTCAT
1 CATGAAAATAAATTTAATGATTTATTTACTTTTA-AAA-CAAAACCATATAAGATTC-T
* * * *** * *
9141996 -ATGAAAATAAATTCAATGATTTTTTTCCTTTTATAGTTAGAATCAT-TCAAGATTCT
1 CATGAAAATAAATTTAATGATTTATTTACTTTTA-AAACAAAACCATAT-AAGATTCT
*
9142052 CCAAG-AAATAAATTTAATGATTTATTT
1 -CATGAAAATAAATTTAATGATTTATTT
9142079 TCCTTACAAA
Statistics
Matches: 116, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
56 7 0.06
57 55 0.47
58 53 0.46
59 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (56 bp):
CATGAAAATAAATTTAATGATTTATTTACTTTTAAAACAAAACCATATAAGATTCT
Found at i:9142071 original size:57 final size:57
Alignment explanation
Indices: 9141882--9142139 Score: 211
Period size: 58 Copynumber: 4.4 Consensus size: 57
9141872 CACAAACCAT
* * *
9141882 GAAAATAAAATTTAATGATTTATTTTCATTTTAAAA-TAGAATCATTTAATATTCTCAA
1 GAAAAT-AAATTTAATGATTT-TTTTCCTTTTAAAATTAGAATCATTCAAGATTCTCAA
* * ** * * *
9141940 GAAAATAAATTTAATGATTTATTTACTTTTACAAACCAAAACCATAT-AAGATTCAT-AT
1 GAAAATAAATTTAATGATTTTTTTCCTTTTA-AAATTAGAATCAT-TCAAGATTC-TCAA
* * *
9141998 GAAAATAAATTCAATGATTTTTTTCCTTTTATAGTTAGAATCATTCAAGATTCTCCAA
1 GAAAATAAATTTAATGATTTTTTTCCTTTTAAAATTAGAATCATTCAAGATTCT-CAA
** * **
9142056 G-AAATAAATTTAATGATTTATTTTCCTTACAAAGTTAGAATCAACGCAAGATTCT-AA
1 GAAAATAAATTTAATGATTT-TTTTCCTTTTAAAATTAGAATC-ATTCAAGATTCTCAA
*
9142113 TGATGAAATAAATTCAATGATTTTTTT
1 -GA--AAATAAATTTAATGATTTTTTT
9142140 AAGGTTAGAT
Statistics
Matches: 162, Mismatches: 25, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
56 10 0.06
57 50 0.31
58 69 0.43
59 12 0.07
60 4 0.02
61 17 0.10
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (57 bp):
GAAAATAAATTTAATGATTTTTTTCCTTTTAAAATTAGAATCATTCAAGATTCTCAA
Found at i:9142301 original size:45 final size:45
Alignment explanation
Indices: 9142250--9142439 Score: 149
Period size: 45 Copynumber: 4.2 Consensus size: 45
9142240 AAAATAATCC
*
9142250 TTTAATTTTAGCATATTAATTAAT-AAAAGGAACTAATCTTTTTAT
1 TTTAATTTTAGCA-ACTAATTAATCAAAAGGAACTAATCTTTTTAT
* * * * * * *
9142295 TTTAATTTTCGTAACTAAATAATCAAAATGAATTAATCATTTGAT
1 TTTAATTTTAGCAACTAATTAATCAAAAGGAACTAATCTTTTTAT
** *
9142340 TTTAATTTCCGCAA-TAGAGTT-ATCAAAAGGAAGTAAT-TCTTTTAT
1 TTTAATTTTAGCAACTA-A-TTAATCAAAAGGAACTAATCT-TTTTAT
* * * *
9142385 TTTAATTTTGGTAACCCAA-TAATCAAAA-GAACTAATCCTTTTAT
1 TTTAATTTTAGCAA-CTAATTAATCAAAAGGAACTAATCTTTTTAT
*
9142429 TTTACTTTTAG
1 TTTAATTTTAG
9142440 ATATACAATT
Statistics
Matches: 114, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
44 33 0.29
45 78 0.68
46 2 0.02
47 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (45 bp):
TTTAATTTTAGCAACTAATTAATCAAAAGGAACTAATCTTTTTAT
Found at i:9142458 original size:90 final size:90
Alignment explanation
Indices: 9142274--9142463 Score: 215
Period size: 90 Copynumber: 2.1 Consensus size: 90
9142264 ATTAATTAAT
* *
9142274 AAAAGGAACTAATCTTTTTATTTTAATTTTCGTAACTAAATAATCAAAATGAATTAATCATTTGA
1 AAAAGGAACTAATCTTTTTATTTTAATTTTCGTAACCAAATAATCAAAATGAACTAATCATTTGA
* * * *
9142339 TTTTAATTTCCGCAATAGAGTTATC
66 TTTTAATTTCAGCAATACAATTATA
* * * * *
9142364 AAAAGGAAGTAAT-TCTTTTATTTTAATTTTGGTAACCCAATAATCAAAA-GAACTAATCCTTTT
1 AAAAGGAACTAATCT-TTTTATTTTAATTTTCGTAACCAAATAATCAAAATGAACTAATCATTTG
* *
9142427 ATTTTACTTTTAG-ATATACAATTATA
65 ATTTTAATTTCAGCA-ATACAATTATA
*
9142453 AAAAAGAACTA
1 AAAAGGAACTA
9142464 TTCCGTTGAT
Statistics
Matches: 83, Mismatches: 15, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
88 1 0.01
89 39 0.47
90 43 0.52
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.39
Consensus pattern (90 bp):
AAAAGGAACTAATCTTTTTATTTTAATTTTCGTAACCAAATAATCAAAATGAACTAATCATTTGA
TTTTAATTTCAGCAATACAATTATA
Found at i:9142476 original size:45 final size:45
Alignment explanation
Indices: 9142409--9142521 Score: 199
Period size: 45 Copynumber: 2.5 Consensus size: 45
9142399 CCCAATAATC
* *
9142409 AAAAGAACTAATCCTTTTATTTTACTTTTAGATATACAATTATAA
1 AAAAGAACTAATCCGTTGATTTTACTTTTAGATATACAATTATAA
*
9142454 AAAAGAACTATTCCGTTGATTTTACTTTTAGATATACAATTATAA
1 AAAAGAACTAATCCGTTGATTTTACTTTTAGATATACAATTATAA
9142499 AAAAGAACTAATCCGTTGATTTT
1 AAAAGAACTAATCCGTTGATTTT
9142522 GATTTTGACA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.40
Consensus pattern (45 bp):
AAAAGAACTAATCCGTTGATTTTACTTTTAGATATACAATTATAA
Found at i:9142777 original size:12 final size:12
Alignment explanation
Indices: 9142746--9142789 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
9142736 GTTATATTAT
*
9142746 AATAATGTCATAG
1 AATAATATCAT-G
9142759 CAATAATATCATG
1 -AATAATATCATG
9142772 AATAATATCATG
1 AATAATATCATG
*
9142784 ATTAAT
1 AATAAT
9142790 GCTTACATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 17 0.61
13 1 0.04
14 10 0.36
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (12 bp):
AATAATATCATG
Found at i:9169239 original size:21 final size:21
Alignment explanation
Indices: 9169215--9169256 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
9169205 TATGAGAAAT
*
9169215 TGTTTTAAAATAT-AAAAATGA
1 TGTTTCAAAAT-TGAAAAATGA
9169236 TGTTTCAAAATTGAAAAATGA
1 TGTTTCAAAATTGAAAAATGA
9169257 AAATAAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTTTCAAAATTGAAAAATGA
Found at i:9169724 original size:23 final size:24
Alignment explanation
Indices: 9169687--9169744 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
9169677 CAAGTGAATA
*
9169687 TTTTTTTTTC-ATCTC-TTTTC-T
1 TTTTTTTTTCTTTCTCGTTTTCAT
9169708 CTTTTTTTTTCTTTCTCGTTTTCAT
1 -TTTTTTTTTCTTTCTCGTTTTCAT
*
9169733 TTTTTTCTTCTT
1 TTTTTTTTTCTT
9169745 CGATTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 10 0.32
23 4 0.13
24 16 0.52
25 1 0.03
ACGTcount: A:0.03, C:0.19, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTTTTTTTCTTTCTCGTTTTCAT
Found at i:9169729 original size:17 final size:18
Alignment explanation
Indices: 9169689--9169811 Score: 64
Period size: 17 Copynumber: 6.7 Consensus size: 18
9169679 AGTGAATATT
9169689 TTTTTTTCATCTCTTTTCTC-
1 TTTTTTTC-T-TC-TTTCTCG
9169709 TTTTTTT-TTCTTTCTCG
1 TTTTTTTCTTCTTTCTCG
*
9169726 TTTTCATTT-TTTTCTTCTTCG
1 TTTT--TTTCTTCT-TTC-TCG
**
9169747 ATTTCATTTTCTTC-TTCTAT
1 -TTT--TTTTCTTCTTTCTCG
*
9169767 TTTTTTTCTTCTTT-TGG
1 TTTTTTTCTTCTTTCTCG
9169784 TTTTTTTCTTC-TTCT-G
1 TTTTTTTCTTCTTTCTCG
9169800 -TTTTTTCTTCTT
1 TTTTTTTCTTCTT
9169812 CTTATAATAT
Statistics
Matches: 85, Mismatches: 6, Indels: 28
0.71 0.05 0.24
Matches are distributed among these distances:
15 10 0.12
16 10 0.12
17 27 0.32
18 3 0.04
19 9 0.11
20 11 0.13
21 6 0.07
22 6 0.07
23 2 0.02
24 1 0.01
ACGTcount: A:0.04, C:0.19, G:0.04, T:0.73
Consensus pattern (18 bp):
TTTTTTTCTTCTTTCTCG
Found at i:9169735 original size:21 final size:22
Alignment explanation
Indices: 9169711--9169762 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
9169701 CTTTTCTCTT
*
9169711 TTTTTTTCTTTC-TCGTTTTCA
1 TTTTTTTCTTTCTTCGATTTCA
9169732 TTTTTTTC-TTCTTCGATTTCA
1 TTTTTTTCTTTCTTCGATTTCA
*
9169753 TTTTCTTCTT
1 TTTTTTTCTT
9169763 CTATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 3 0.11
21 23 0.85
22 1 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (22 bp):
TTTTTTTCTTTCTTCGATTTCA
Found at i:9169735 original size:22 final size:21
Alignment explanation
Indices: 9169688--9169764 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
9169678 AAGTGAATAT
* * *
9169688 TTTTTTTTCATCTCTTTTCTCT
1 TTTTTTTTCTTCTCGTTT-TCA
9169710 TTTTTTTTCTTTCTCGTTTTCA
1 TTTTTTTTC-TTCTCGTTTTCA
*
9169732 -TTTTTTTCTTCTTCGATTTCA
1 TTTTTTTTCTTC-TCGTTTTCA
*
9169753 -TTTTCTTCTTCT
1 TTTTTTTTCTTCT
9169765 ATTTTTTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
20 4 0.08
21 26 0.54
22 11 0.23
23 7 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.71
Consensus pattern (21 bp):
TTTTTTTTCTTCTCGTTTTCA
Found at i:9169758 original size:18 final size:17
Alignment explanation
Indices: 9169731--9169797 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 17
9169721 TCTCGTTTTC
9169731 ATTT-TTTTCTTCTTCG
1 ATTTATTTTCTTCTTCG
*
9169747 ATTTCATTTTCTTCTTCT
1 ATTT-ATTTTCTTCTTCG
* *
9169765 ATTTTTTTTCTTCTTTTG
1 ATTTATTTTCTTC-TTCG
*
9169783 GTTT-TTTTCTTCTTC
1 ATTTATTTTCTTCTTC
9169798 TGTTTTTTCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.14
17 16 0.38
18 20 0.48
ACGTcount: A:0.06, C:0.18, G:0.04, T:0.72
Consensus pattern (17 bp):
ATTTATTTTCTTCTTCG
Found at i:9169805 original size:18 final size:18
Alignment explanation
Indices: 9169732--9169814 Score: 82
Period size: 17 Copynumber: 4.7 Consensus size: 18
9169722 CTCGTTTTCA
9169732 TTTTTTTCTTCTTC-GATT
1 TTTTTTTCTTCTTCTG-TT
** *
9169750 TCATTTTCTTCTTCT-AT
1 TTTTTTTCTTCTTCTGTT
* *
9169767 TTTTTTTCTTCTTTTG-G
1 TTTTTTTCTTCTTCTGTT
9169784 TTTTTTTCTTCTTCTGTT
1 TTTTTTTCTTCTTCTGTT
*
9169802 TTTTCTTCTTCTT
1 TTTTTTTCTTCTT
9169815 ATAATATATA
Statistics
Matches: 52, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
17 28 0.54
18 24 0.46
ACGTcount: A:0.04, C:0.18, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTTTTTCTTCTTCTGTT
Found at i:9170914 original size:6 final size:6
Alignment explanation
Indices: 9170903--9170939 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
9170893 ACACTTGTAT
9170903 CATGAC CATGAC CATGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC CATGAC CATGAC C
9170940 TATGGGTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.32, C:0.35, G:0.16, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:9171977 original size:21 final size:21
Alignment explanation
Indices: 9171953--9171997 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
9171943 TGTAACACCC
*
9171953 ATAACCCGTATAATTATACCT
1 ATAACCCATATAATTATACCT
9171974 ATAACCCATATAATTATACCT
1 ATAACCCATATAATTATACCT
9171995 ATA
1 ATA
9171998 CAGATTATAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.33
Consensus pattern (21 bp):
ATAACCCATATAATTATACCT
Found at i:9172915 original size:486 final size:469
Alignment explanation
Indices: 9172002--9172961 Score: 1476
Period size: 486 Copynumber: 2.0 Consensus size: 469
9171992 CCTATACAGA
*
9172002 TTATAGATGTTATCCAAATTTATAAAACCATTTTACGATTCGAAAGCAATTTAAAATTTATTTTC
1 TTATAGATGTTATCCAAATTTATAAAACCATTTTACGATTCAAAAGCAATTTAAAATTTATTTTC
9172067 TTAAAATAGTAAATGATATTATAAAAATATCATATCAAATAAAATTACGTTTCATTATAATAATT
66 TTAAAATAGTAAATGATATTATAAAAATATCATATCAAATAAAATTACGTTTCATTATAATAATT
* *
9172132 TAATTCAAAATATTTTTTAATTATGAATAGTTAATAGTACCCGAATAGTGAACAGTGGGGGAATC
131 TAATTCAAAATATTTTTTAAGTATGAATAGTGAATAGTACCCGAATAGTGAACAGTGGGGGAATC
*** *
9172197 GATTCCCTGTAGCAGGGGAATCGGTATCCCTTTATCAATCTGGAAATTTTGCTTAAAAAACCGTG
196 GATTCCCTGTAGCAGGGGAATCGGTATCCCCAAATCAATCTGGAAAATTT-CTTAAAAAACCGTG
* *
9172262 GTTACTGTTCATGCTACAGTAACTTCTGAAAATTTACATATAAATTCATAAAAATTAACCTTTCA
260 GTTACTGTTCATGCTACAGTAACTTCTAAAAAATTACATATAAATTCATAAAAATTAACCTTTCA
* * *
9172327 TCGCTATAAAAATTTCCAAAATTAATTCAACAAATAAAGTGAACATTTTCAAATTACATGTCACT
325 TCACTAGAAAAATTTCCAAAATTAATTCAACAAATAAAGTGAACATTTTCAAATTACATGCCACT
9172392 ATCTAAAATCAAATTTCACAATAGGATGTCTTACTGATATTGAAATATACCTCTCGATGCGTGAT
390 ATCTAAAATCAAATTTCACAATAGGATGTCTTACTGATATTGAAATATACCTCTCGATGCGTGAT
9172457 GTCATTCTGAACTCT
455 GTCATTCTGAACTCT
* *
9172472 TTATAGATGTTATCCGAATTTCTAAAACCATTTTACGATTCAAAAGCAATTTAAAATTTATTTTC
1 TTATAGATGTTATCCAAATTTATAAAACCATTTTACGATTCAAAAGCAATTTAAAATTTATTTTC
* *
9172537 TTAAAATAGTAAATGATATTATAAAAATATCATATCATATAAAATTATGTTTCATTATAATAATT
66 TTAAAATAGTAAATGATATTATAAAAATATCATATCAAATAAAATTACGTTTCATTATAATAATT
*
9172602 TAATTCAAAATA-TTTTTAAGTATGAATAGTGAATAGTACTCGAATAGTGAACAGTGAACAGTGG
131 TAATTCAAAATATTTTTTAAGTATGAATAGTGAATAGTACCCG-A-A-T----AGTGAACAGTGG
* * * *
9172666 GGGAATCGATTCCCTGTAGCAGGGGAATCGGTA-CCCCAAATGTATTCTGGAAAATTT-TTCATA
189 GGGAATCGATTCCCTGTAGCAGGGGAATCGGTATCCCCAAAT-CAATCTGGAAAATTTCTTAAAA
**
9172729 ATTCGTGGTTACTGTTCATGCTACAGTAACTACTACAGTAAATTCCAAAAAATTACATATAAATT
253 AACCGTGGTTACTGTTCATGCTACAGTAACT--T-C-------T--AAAAAATTACATATAAATT
*
9172794 CATAAAAATTAACCTTTCATCACTAGAAAAATTTCCAAAATTAATTCAACAAATAAATTGAACAT
306 CATAAAAATTAACCTTTCATCACTAGAAAAATTTCCAAAATTAATTCAACAAATAAAGTGAACAT
9172859 TTTCAAATTACATGCCACTATCTAAAATCAAATTTCACAATAGGATGTCTTACTGATATTGAAAT
371 TTTCAAATTACATGCCACTATCTAAAATCAAATTTCACAATAGGATGTCTTACTGATATTGAAAT
* *
9172924 ATACCTCTCGATGCTTGATGTCGTTCTGAACTCT
436 ATACCTCTCGATGCGTGATGTCATTCTGAACTCT
9172958 TTAT
1 TTAT
9172962 TCTTATTCTT
Statistics
Matches: 444, Mismatches: 26, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
469 27 0.06
470 138 0.31
471 1 0.00
472 1 0.00
474 33 0.07
475 5 0.01
476 58 0.13
477 1 0.00
484 1 0.00
486 179 0.40
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (469 bp):
TTATAGATGTTATCCAAATTTATAAAACCATTTTACGATTCAAAAGCAATTTAAAATTTATTTTC
TTAAAATAGTAAATGATATTATAAAAATATCATATCAAATAAAATTACGTTTCATTATAATAATT
TAATTCAAAATATTTTTTAAGTATGAATAGTGAATAGTACCCGAATAGTGAACAGTGGGGGAATC
GATTCCCTGTAGCAGGGGAATCGGTATCCCCAAATCAATCTGGAAAATTTCTTAAAAAACCGTGG
TTACTGTTCATGCTACAGTAACTTCTAAAAAATTACATATAAATTCATAAAAATTAACCTTTCAT
CACTAGAAAAATTTCCAAAATTAATTCAACAAATAAAGTGAACATTTTCAAATTACATGCCACTA
TCTAAAATCAAATTTCACAATAGGATGTCTTACTGATATTGAAATATACCTCTCGATGCGTGATG
TCATTCTGAACTCT
Found at i:9173272 original size:44 final size:46
Alignment explanation
Indices: 9173145--9173277 Score: 146
Period size: 47 Copynumber: 2.9 Consensus size: 46
9173135 AAAATAATAT
* *
9173145 AAAATATCTTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACC
1 AAAATA-CATACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACC
*
9173191 AAAATACATACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTTCC
1 AAAATACATACCATTT-AATTCCATAAGCTCGTAAGCTTATTTTACC
* * * * * *
9173238 TATATACTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 AAAATACATACCATTTAATTCCATAAGCTCGTAAGCTTATTT
9173278 GCATGGTTAC
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
44 23 0.30
45 9 0.12
46 8 0.11
47 36 0.47
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (46 bp):
AAAATACATACCATTTAATTCCATAAGCTCGTAAGCTTATTTTACC
Found at i:9180784 original size:21 final size:21
Alignment explanation
Indices: 9180742--9180785 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
9180732 ACTCCGGGAG
* *
9180742 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
9180763 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
9180784 CT
1 CT
9180786 CTTCCGGCTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:9182012 original size:46 final size:44
Alignment explanation
Indices: 9181956--9182062 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 44
9181946 TGCACATACC
* * *
9181956 ATGCACCGATGCACTGAGG-ATTTTATGAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTCAGGCATTTT-T--AAACATCGAATGCACTTG
*
9182002 ATGCATCGATGCACTCTGGCTATTTTTAAACATCGAATGCACTTG
1 ATGCATCGATGCACTCAGGC-ATTTTTAAACATCGAATGCACTTG
9182047 ATGCATCGATGCACTC
1 ATGCATCGATGCACTC
9182063 TTAGTGCACC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
45 33 0.60
46 16 0.29
47 1 0.02
48 5 0.09
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
ATGCATCGATGCACTCAGGCATTTTTAAACATCGAATGCACTTG
Found at i:9182060 original size:17 final size:19
Alignment explanation
Indices: 9182032--9182080 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
9182022 TATTTTTAAA
9182032 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
9182050 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
9182069 CACCGATGCACT
1 CATCGATGCACT
9182081 GAGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:9184364 original size:53 final size:53
Alignment explanation
Indices: 9184293--9184406 Score: 192
Period size: 53 Copynumber: 2.2 Consensus size: 53
9184283 GTTGCACCTA
* *
9184293 AGTGTCGAAATGGTAATTCACATACTCATTATGAATTCCATGGATGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACAT
*
9184346 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGTTGCACACAT
1 AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACAT
*
9184399 AATGCCGA
1 AGTGCCGA
9184407 TAGTACTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (53 bp):
AGTGCCGAAATGGTAATTCACAAACTCATTATGAATTCCATGGATGCACACAT
Found at i:9187592 original size:20 final size:20
Alignment explanation
Indices: 9187526--9187596 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
9187516 TTTTTGGCTC
* * * *
9187526 AAAGGATTGATCCTCTAGCA
1 AAAGGATCGATCCCCTTGAA
* * *
9187546 AAATGATCGATCCCTTTGACC
1 AAAGGATCGATCCCCTTGA-A
9187567 AAAGGATCGATCCCCTTGAA
1 AAAGGATCGATCCCCTTGAA
9187587 AAAGGATCGA
1 AAAGGATCGA
9187597 CCACTTGGAT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (20 bp):
AAAGGATCGATCCCCTTGAA
Found at i:9187651 original size:20 final size:21
Alignment explanation
Indices: 9187626--9187682 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
9187616 TTTTAGAATG
9187626 ATCCCTTCA-CAAAAGGATCA
1 ATCCCTTCAGCAAAAGGATCA
* *
9187646 ATCCC-TCGAGGAAAAGGATCG
1 ATCCCTTC-AGCAAAAGGATCA
*
9187667 ATCCCTTCATCAAAAG
1 ATCCCTTCAGCAAAAG
9187683 AATTGATCTC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 2 0.07
20 6 0.20
21 20 0.67
22 2 0.07
ACGTcount: A:0.37, C:0.28, G:0.16, T:0.19
Consensus pattern (21 bp):
ATCCCTTCAGCAAAAGGATCA
Found at i:9187696 original size:42 final size:41
Alignment explanation
Indices: 9187625--9187712 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 41
9187615 GTTTTAGAAT
* *
9187625 GATCCCTTCACAAAAGGATCAATCCCTCGAGGAAAAGGATC
1 GATCCCTTCACAAAAGAATCAATCCCTCGAGGAAAAAGATC
** * * *
9187666 GATCCCTTCATCAAAAGAATTGATCTCTCGATGAAAAATATC
1 GATCCCTTCA-CAAAAGAATCAATCCCTCGAGGAAAAAGATC
9187708 GATCC
1 GATCC
9187713 TTTCCCCTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 10 0.26
42 29 0.74
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
GATCCCTTCACAAAAGAATCAATCCCTCGAGGAAAAAGATC
Found at i:9191750 original size:15 final size:15
Alignment explanation
Indices: 9191730--9191785 Score: 103
Period size: 15 Copynumber: 3.7 Consensus size: 15
9191720 CTGAGAACGC
9191730 TTTGAGTTCAAATTT
1 TTTGAGTTCAAATTT
9191745 TTTGAGTTCAAATTT
1 TTTGAGTTCAAATTT
9191760 TTTGAGTTCAAATTT
1 TTTGAGTTCAAATTT
*
9191775 TTTGAGCTCAA
1 TTTGAGTTCAA
9191786 GTCGAGTTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (15 bp):
TTTGAGTTCAAATTT
Found at i:9192030 original size:7 final size:7
Alignment explanation
Indices: 9192014--9192059 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
9192004 TGATTATATT
9192014 ATTT-GA
1 ATTTAGA
9192020 ATTTAGA
1 ATTTAGA
*
9192027 ATTTATA
1 ATTTAGA
9192034 ATTTA-A
1 ATTTAGA
9192040 GATTTAGA
1 -ATTTAGA
*
9192048 GTTTAGA
1 ATTTAGA
9192055 ATTTA
1 ATTTA
9192060 AGATTCAAAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
6 5 0.15
7 28 0.82
8 1 0.03
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (7 bp):
ATTTAGA
Found at i:9192045 original size:21 final size:21
Alignment explanation
Indices: 9192020--9192064 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
9192010 TATTATTTGA
*
9192020 ATTTAGAATTTATAATTTAAG
1 ATTTAGAATTTAGAATTTAAG
*
9192041 ATTTAGAGTTTAGAATTTAAG
1 ATTTAGAATTTAGAATTTAAG
9192062 ATT
1 ATT
9192065 CAAAGTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (21 bp):
ATTTAGAATTTAGAATTTAAG
Found at i:9192490 original size:30 final size:31
Alignment explanation
Indices: 9192437--9192512 Score: 100
Period size: 30 Copynumber: 2.5 Consensus size: 31
9192427 AGTTACTTCG
9192437 GGGACCATATTGCAAATAGACTAAATCTTGA
1 GGGACCATATTGCAAATAGACTAAATCTTGA
* * *
9192468 GGGACCATATTGTAAA-AGACTAAATGTTGG
1 GGGACCATATTGCAAATAGACTAAATCTTGA
**
9192498 GGGATTATATTGCAA
1 GGGACCATATTGCAA
9192513 GTTTTAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 24 0.62
31 15 0.38
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.28
Consensus pattern (31 bp):
GGGACCATATTGCAAATAGACTAAATCTTGA
Found at i:9194563 original size:31 final size:31
Alignment explanation
Indices: 9194512--9194586 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
9194502 ACTTTAAAAC
** *
9194512 TTGCAATATAATCCCCCAACATTTAGTCTAT
1 TTGCAATATGGTCCCCCAACATTTAGTCCAT
* * *
9194543 TTTCAATATGGTCCCTCAACATTTAGTCCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCAT
9194574 TTGCAATATGGTC
1 TTGCAATATGGTC
9194587 TCCGACGTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTCCAT
Found at i:9206374 original size:17 final size:17
Alignment explanation
Indices: 9206333--9206404 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
9206323 TTTCATGCAT
9206333 CTAGTTCATTGAA-TAAA
1 CTAGTTCATT-AATTAAA
*
9206350 GTTAGTTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
9206368 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
* * *
9206385 CTGGTTAATTTATTAAA
1 CTAGTTCATTAATTAAA
9206402 CTA
1 CTA
9206405 ACTCTTAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
17 31 0.70
18 13 0.30
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:9215967 original size:29 final size:28
Alignment explanation
Indices: 9215934--9216027 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 28
9215924 AAAATTTTGG
9215934 TTAGTGAACAAAATGTAAACTTTAAAAGT
1 TTAGTG-ACAAAATGTAAACTTTAAAAGT
* * * * *
9215963 TTAGTGGCCAAAGTATAAAGTTTGGAAAGT
1 TTAGT-GACAAAATGTAAACTTT-AAAAGT
* *
9215993 TTAGTGACTAAAATGGTAAATTTCTAAAATT
1 TTAGTGAC-AAAAT-GTAAACTT-TAAAAGT
9216024 TTAG
1 TTAG
9216028 AAACTAAAAG
Statistics
Matches: 49, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
29 19 0.39
30 15 0.31
31 14 0.29
32 1 0.02
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.34
Consensus pattern (28 bp):
TTAGTGACAAAATGTAAACTTTAAAAGT
Found at i:9217955 original size:20 final size:21
Alignment explanation
Indices: 9217930--9217972 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
9217920 ATTGATCGTT
*
9217930 ACATATA-ATGTTTATCATGA
1 ACATATAGATATTTATCATGA
9217950 ACATATATGATATTTATCATGA
1 ACATATA-GATATTTATCATGA
9217972 A
1 A
9217973 TGATATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (21 bp):
ACATATAGATATTTATCATGA
Found at i:9218174 original size:30 final size:30
Alignment explanation
Indices: 9218138--9218299 Score: 103
Period size: 30 Copynumber: 5.3 Consensus size: 30
9218128 CACTATAGTC
9218138 TGTAAGGATACTTAGTGCAACATTATGGTG
1 TGTAAGGATACTTAGTGCAACATTATGGTG
* * * * * * *
9218168 TGTAAGGACACCTACTGTATATGGTACTATAGTG
1 TGTAAGGATACTTAGTGCA-A---CATTATGGTG
* * ***
9218202 TGTAAGGACACTTAGTACAACATTGCAGTG
1 TGTAAGGATACTTAGTGCAACATTATGGTG
*
9218232 TGTAAGGATGCTTAGTGCAACACTT-TGGTG
1 TGTAAGGATACTTAGTGCAACA-TTATGGTG
* * * *
9218262 TGTAAGGACT-CTTAGTGTATCACTGTGGTG
1 TGTAAGGA-TACTTAGTGCAACATTATGGTG
9218292 TGTAAGGA
1 TGTAAGGA
9218300 CATTCAGTGC
Statistics
Matches: 102, Mismatches: 23, Indels: 14
0.73 0.17 0.10
Matches are distributed among these distances:
29 1 0.01
30 74 0.73
31 4 0.04
33 1 0.01
34 22 0.22
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (30 bp):
TGTAAGGATACTTAGTGCAACATTATGGTG
Found at i:9218300 original size:30 final size:31
Alignment explanation
Indices: 9218199--9218300 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 31
9218189 TGGTACTATA
* * * **
9218199 GTGTGTAAGGAC-ACTTAGTACAACATTGCA
1 GTGTGTAAGGACTGCTTAGTGCAACACTGTG
*
9218229 GTGTGTAAGGA-TGCTTAGTGCAACACTTTG
1 GTGTGTAAGGACTGCTTAGTGCAACACTGTG
* *
9218259 GTGTGTAAGGACT-CTTAGTGTATCACTGTG
1 GTGTGTAAGGACTGCTTAGTGCAACACTGTG
9218289 GTGTGTAAGGAC
1 GTGTGTAAGGAC
9218301 ATTCAGTGCA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
30 60 0.98
31 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.31
Consensus pattern (31 bp):
GTGTGTAAGGACTGCTTAGTGCAACACTGTG
Found at i:9237564 original size:15 final size:15
Alignment explanation
Indices: 9237544--9237573 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9237534 AACTAATTTA
*
9237544 TTTGTTTTGTTTTTC
1 TTTGTTTTATTTTTC
9237559 TTTGTTTTATTTTTC
1 TTTGTTTTATTTTTC
9237574 GTATGTTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.07, G:0.10, T:0.80
Consensus pattern (15 bp):
TTTGTTTTATTTTTC
Found at i:9242927 original size:3 final size:3
Alignment explanation
Indices: 9242919--9242948 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9242909 CATAAATAAG
9242919 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9242949 AAATAGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9245411 original size:19 final size:19
Alignment explanation
Indices: 9245375--9245413 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
9245365 TATTATTATG
*
9245375 AATATATGTATTTTATATT
1 AATATATGTATTTAATATT
9245394 AATATATGT-TTTAAATATT
1 AATATATGTATTT-AATATT
9245413 A
1 A
9245414 TGTGATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
AATATATGTATTTAATATT
Found at i:9259410 original size:54 final size:54
Alignment explanation
Indices: 9259341--9260054 Score: 1083
Period size: 54 Copynumber: 13.3 Consensus size: 54
9259331 TTACCAAATA
* * *
9259341 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGAATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
9259395 GGCACTAAGTATGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * * * *
9259449 GACACTAAGAGTACATTTCACGGAATTCATCCTCTGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
9259503 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
*
9259557 GGCACTAAGTGTGCATTTCATGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
9259611 GGCACTAAGTGTGTATTTCACGGAATTTAACCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
9259665 GGCACTAAGTGTGAATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
9259719 GACACTAAGTGCGCATTTCACAGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
9259773 AGCACTAAGTGTGCATTT--CGGAATTCAACCTATGTGGATGAATAACCATTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* * *
9259825 GACACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCTTTTCC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTT-C
*
9259880 AG-ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* ** *
9259933 GACACTAAGTGTGCATTTCACATAATTCATCCTATGTGGATGAATAACCGTTTT
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
** *
9259987 GGCACTAAGTGTATATTTCACGGAATTCATCCTATGTGGATGAATAACCTTTTC
1 GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
* *
9260041 GACACTATGTGTGC
1 GGCACTAAGTGTGC
9260055 TACAATGTTA
Statistics
Matches: 596, Mismatches: 60, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
52 47 0.08
53 1 0.00
54 547 0.92
55 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (54 bp):
GGCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTC
Found at i:9278556 original size:65 final size:64
Alignment explanation
Indices: 9278487--9278666 Score: 195
Period size: 65 Copynumber: 2.8 Consensus size: 64
9278477 AATTAAATTG
* * *
9278487 AACATCGAATGTATTTCATGCATCGATGCACATTCCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACATTCCATGCACCGATGCACTCAGGATATTT-TG-
9278551 A
64 A
* * * * *
9278552 AACATCGAATGCATTTGATACATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CATTCCATGCACCGATGCACTCAGGATATTTTGA
* * **
9278616 AACATCGAATGCACTTGATGCATCGATGTAC-TCTTAATGCACCGATGCACT
1 AACATCGAATGCATTTGATGCATCGATGCACAT-TCCATGCACCGATGCACT
9278667 AAGGGTCTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
63 1 0.01
64 42 0.44
65 48 0.50
66 5 0.05
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACATTCCATGCACCGATGCACTCAGGATATTTTGA
Found at i:9287192 original size:65 final size:63
Alignment explanation
Indices: 9287115--9287274 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 63
9287105 GAATTAATTG
* * * *
9287115 AACATCGAATGCATTTCATGCATCGATGCACATTCCATGCACCGATACATTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-GCCATGCACCGATACACTCAGGATATTT-TG-
9287179 A
63 A
* * * *
9287180 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAGCCATGCACCGATACACTCAGGATATTTTGA
*
9287244 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
9287275 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.36
65 48 0.57
66 5 0.06
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAGCCATGCACCGATACACTCAGGATATTTTGA
Found at i:9287269 original size:64 final size:63
Alignment explanation
Indices: 9287066--9287274 Score: 214
Period size: 64 Copynumber: 3.3 Consensus size: 63
9287056 TTTTTCAGAG
* *
9287066 TGATGCACCGATGCACCAATCCATGCATCGATGCAC-CAT-GAATTAATTG-AACATCGAATGCA
1 TGATGCATCGATGCACC-ATCCATGCATCGATGCACTC-TGGTATT--TTGAAACATCGAATGCA
9287128 TT
62 TT
* * * *
9287130 TCATGCATCGATGCA-CATTCCATGCACCGATACA-T-TGAGGATTTTATGAAAACATCGAATGC
1 TGATGCATCGATGCACCA-TCCATGCATCGATGCACTCTG-GTA-TTT-TG-AAACATCGAATGC
9287192 ATT
61 ATT
* *
9287195 TGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCACCATCCATGCATCGATGCACTCTGG-TATTTTGAAACATCGAATGCATT
9287259 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
9287275 TCTTAGTGCA
Statistics
Matches: 122, Mismatches: 11, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
61 1 0.01
62 2 0.02
63 19 0.16
64 46 0.38
65 44 0.36
66 7 0.06
67 3 0.02
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (63 bp):
TGATGCATCGATGCACCATCCATGCATCGATGCACTCTGGTATTTTGAAACATCGAATGCATT
Found at i:9287274 original size:17 final size:17
Alignment explanation
Indices: 9287246--9287311 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
9287236 TATTTTGAAA
9287246 CATCGAATGCACTTGATG
1 CATCG-ATGCACTTGATG
*
9287264 CATCGATGCACTCTTAGTG
1 CATCGATGCACT-TGA-TG
* * *
9287283 CACCAATACACTTGATG
1 CATCGATGCACTTGATG
9287300 CATCGATGCACT
1 CATCGATGCACT
9287312 CTTAGTGCAC
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
17 18 0.47
18 9 0.24
19 11 0.29
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (17 bp):
CATCGATGCACTTGATG
Found at i:9287294 original size:19 final size:19
Alignment explanation
Indices: 9287269--9287330 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
9287259 TGATGCATCG
9287269 ATGCACTCTTAGTGCACCA
1 ATGCACTCTTAGTGCACCA
* * * *
9287288 ATACACT-TGA-TGCATCG
1 ATGCACTCTTAGTGCACCA
9287305 ATGCACTCTTAGTGCACCA
1 ATGCACTCTTAGTGCACCA
9287324 ATGCACT
1 ATGCACT
9287331 AAGGGTCCAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
17 11 0.33
18 4 0.12
19 18 0.55
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (19 bp):
ATGCACTCTTAGTGCACCA
Found at i:9287296 original size:36 final size:36
Alignment explanation
Indices: 9287255--9287330 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
9287245 ACATCGAATG
9287255 CACTTGATGCATCGATGCACTCTTAGTGCACCAATA
1 CACTTGATGCATCGATGCACTCTTAGTGCACCAATA
*
9287291 CACTTGATGCATCGATGCACTCTTAGTGCACCAATG
1 CACTTGATGCATCGATGCACTCTTAGTGCACCAATA
9287327 CACT
1 CACT
9287331 AAGGGTCCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (36 bp):
CACTTGATGCATCGATGCACTCTTAGTGCACCAATA
Found at i:9290677 original size:40 final size:40
Alignment explanation
Indices: 9290631--9290711 Score: 117
Period size: 40 Copynumber: 2.0 Consensus size: 40
9290621 TAACTTATAT
*
9290631 TTAAACATTAAATATAAAAAAATTTTGTGACGAAAATACA
1 TTAAACATCAAATATAAAAAAATTTTGTGACGAAAATACA
* ***
9290671 TTAAACATCAAATATAGAAGTTTTTTGTGACGAAAATACA
1 TTAAACATCAAATATAAAAAAATTTTGTGACGAAAATACA
9290711 T
1 T
9290712 CAAGGAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (40 bp):
TTAAACATCAAATATAAAAAAATTTTGTGACGAAAATACA
Found at i:9290961 original size:30 final size:31
Alignment explanation
Indices: 9290925--9290986 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
9290915 TTATTTCGTC
* * **
9290925 ACTAAAT-ATTTTTTATAATTTTTTATTGTG
1 ACTAAATAATTTGTTACAATTTGATATTGTG
9290955 ACTAAATAATTTGTTACAATTTGATATTGTG
1 ACTAAATAATTTGTTACAATTTGATATTGTG
9290986 A
1 A
9290987 AAAAACATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.52
Consensus pattern (31 bp):
ACTAAATAATTTGTTACAATTTGATATTGTG
Found at i:9291231 original size:200 final size:197
Alignment explanation
Indices: 9290947--9291322 Score: 535
Period size: 200 Copynumber: 1.9 Consensus size: 197
9290937 TTATAATTTT
9290947 TTATTGTGACTAAATAATTTGTTACAATTTGATATTGTGAAAAAACATTATGTCACAAATTTTTA
1 TTATTGTGACTAAATAATTTGTTACAATTTGATATTGTGAAAAAACATTATGTCACAAATTTTTA
* * *
9291012 TAATGAGAAATTAATATTTGTTATAAATTGTTATTTT-TATTAAATAAATTTGTCACAATTTTTT
66 TAATGAGAAATTAATATTTGTTATAAATTATTATTTTGT-TTAAATAAATTTATCAAAATTTTTT
*
9291076 ATTTTGAC-AAAATATTATGACGATATAAATTTTGACATAACTTTTTAATTTGATTAAAACTTAA
130 ACTTTGACAAAAATATTATGACGATATAAA-TTTGACATAACTTTTTAATTTGATTAAAACTTAA
9291140 TGTG
194 TGTG
* * * *
9291144 TTATTGTGACTAAATCATTTTGTTACAATTTGTTATTG-GAAAATAATATTACTTGTCA-TAATT
1 TTATTGTGACTAAAT-AATTTGTTACAATTTGATATTGTGAAAA-AACATTA--TGTCACAAATT
* * *
9291207 TTTAATATTTAGAAATTAATATTTGTTATACATTATTATTTTGTTTAAATAAATTTATCAAAATT
62 TTT-ATAATGAGAAATTAATATTTGTTATAAATTATTATTTTGTTTAAATAAATTTATCAAAATT
* * *
9291272 TTTTACTTTGACAAAAATATTTTGACTATATAAATTTGACATAATTTTTTA
126 TTTTACTTTGACAAAAATATTATGACGATATAAATTTGACATAACTTTTTA
9291323 TTTTAACTAA
Statistics
Matches: 158, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
197 20 0.13
198 26 0.16
199 7 0.04
200 85 0.54
201 20 0.13
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.48
Consensus pattern (197 bp):
TTATTGTGACTAAATAATTTGTTACAATTTGATATTGTGAAAAAACATTATGTCACAAATTTTTA
TAATGAGAAATTAATATTTGTTATAAATTATTATTTTGTTTAAATAAATTTATCAAAATTTTTTA
CTTTGACAAAAATATTATGACGATATAAATTTGACATAACTTTTTAATTTGATTAAAACTTAATG
TG
Found at i:9291340 original size:23 final size:23
Alignment explanation
Indices: 9291313--9291357 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
9291303 AAATTTGACA
*
9291313 TAATTTTTTATTTTAACTAAATT
1 TAATTTGTTATTTTAACTAAATT
*
9291336 TAATTTGTTATTTTATCTAAAT
1 TAATTTGTTATTTTAACTAAAT
9291358 AAATTATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TAATTTGTTATTTTAACTAAATT
Found at i:9291427 original size:22 final size:22
Alignment explanation
Indices: 9291402--9291444 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9291392 ATTTTATTTA
*
9291402 AATTTGTTATTATAACTAAAAT
1 AATTTGTTATGATAACTAAAAT
9291424 AATTTGTTATGATAACTAAAA
1 AATTTGTTATGATAACTAAAA
9291445 ACATATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (22 bp):
AATTTGTTATGATAACTAAAAT
Found at i:9295527 original size:19 final size:19
Alignment explanation
Indices: 9295503--9295545 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
9295493 GTCACAAAAA
*
9295503 TGTGAATACCATTATTTTT
1 TGTGAATACCATTATTCTT
*
9295522 TGTGAATACTATTATTCTT
1 TGTGAATACCATTATTCTT
9295541 TGTGA
1 TGTGA
9295546 CAATGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (19 bp):
TGTGAATACCATTATTCTT
Found at i:9296157 original size:14 final size:14
Alignment explanation
Indices: 9296138--9296175 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
9296128 TCATTATTTG
9296138 TTGTGACAATTTTT
1 TTGTGACAATTTTT
9296152 TTGTGACAATTTTT
1 TTGTGACAATTTTT
*
9296166 TTGTAACAAT
1 TTGTGACAAT
9296176 AATTATAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (14 bp):
TTGTGACAATTTTT
Found at i:9296164 original size:13 final size:13
Alignment explanation
Indices: 9296133--9296166 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
9296123 GAATCTCATT
*
9296133 ATTTGTTGTGACA
1 ATTTTTTGTGACA
9296146 ATTTTTTTGTGACA
1 A-TTTTTTGTGACA
9296160 ATTTTTT
1 ATTTTTT
9296167 TGTAACAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.21, C:0.06, G:0.15, T:0.59
Consensus pattern (13 bp):
ATTTTTTGTGACA
Found at i:9301623 original size:25 final size:24
Alignment explanation
Indices: 9301590--9301637 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
9301580 ATAAGTATTT
9301590 AATATATATTTAATTTGAATTAATTA
1 AATATATATTTAATTT--ATTAATTA
*
9301616 AATA-ATATTTTATTTATTAATT
1 AATATATATTTAATTTATTAATT
9301638 TGAAATAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
25 10 0.48
26 4 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
AATATATATTTAATTTATTAATTA
Found at i:9303927 original size:12 final size:12
Alignment explanation
Indices: 9303910--9303935 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9303900 TTGTTGTGCT
9303910 TGCTCCTCGGGC
1 TGCTCCTCGGGC
9303922 TGCTCCTCGGGC
1 TGCTCCTCGGGC
9303934 TG
1 TG
9303936 TTCAGGCTCA
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:0.00, C:0.38, G:0.35, T:0.27
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:9304863 original size:21 final size:21
Alignment explanation
Indices: 9304839--9304878 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9304829 CAATGAGATT
* *
9304839 AGGATTAGGAATTGGATTTTC
1 AGGAATAGGAAGTGGATTTTC
*
9304860 AGGAATAGGAGGTGGATTT
1 AGGAATAGGAAGTGGATTT
9304879 GGTTGACAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.35, T:0.33
Consensus pattern (21 bp):
AGGAATAGGAAGTGGATTTTC
Found at i:9305637 original size:20 final size:19
Alignment explanation
Indices: 9305602--9305640 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
9305592 TCCCCTTCAA
*
9305602 ATGGGGAATCGGTTCCCTC
1 ATGGGGAATCGATTCCCTC
9305621 ATGGGGTAATCGATTCCCTC
1 ATGGGG-AATCGATTCCCTC
9305641 TGTACCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.18, C:0.26, G:0.28, T:0.28
Consensus pattern (19 bp):
ATGGGGAATCGATTCCCTC
Found at i:9310242 original size:269 final size:266
Alignment explanation
Indices: 9309659--9310160 Score: 807
Period size: 269 Copynumber: 1.9 Consensus size: 266
9309649 TTTGGGAGGT
* * * *
9309659 AGTAGACTAACTTCCTCACAAGCTTTTCATTTGAAATGGTCTCTCCATATTATTTGAGACCATTG
1 AGTAGACAAAATTCATCACAAGCTTTGCATTTGAAATGGTCTCTCCATATTATTTGAGACCATTG
9309724 AAAATCATTGAGAATATATCCGTCATAGCTTTGATATCTTCATTTGGTTTCATCCTGAAATTTTC
66 AAAATCATTGAGAATATATCCGTCATAGCTTTGATATCTTCATTTGGTTTCATCCTGAAATTTTC
9309789 ATAGCTATGCGTTAGAATACTAATTTTAGATTTATTTACCTCATCGGTACCTTCATGAGTGACTG
131 ATAGCTATGCGTTAGAATACTAATTTTAGATTTATTTACCTCATCGGTACCTTCATGAGTGACTG
**
9309854 AAGTTTGTCCCATATTTTCTTTGGCAGTTGTACAAGATGAAACTGTCTCTTTGATTACCACGATT
196 AAGTTTGTCCCATATTTTCTTTGGCAGTTGTACAAGATGAAAC-GTCTCTCCGA-TA-CACGATT
* ***
9309919 TTGGGAGGT
258 CTGGGACCA
* * * *
9309928 AGTAGACTAACTTCCTCACAAGCTTTTCATTTGAAATGGTCTCTCCATATTATTTGAGACCATTG
1 AGTAGACAAAATTCATCACAAGCTTTGCATTTGAAATGGTCTCTCCATATTATTTGAGACCATTG
9309993 AAAATCATTGAGAATATATCCGTCATAGCTTTGATATCTTCATTTGGTTTCATCCTGAAATTTTC
66 AAAATCATTGAGAATATATCCGTCATAGCTTTGATATCTTCATTTGGTTTCATCCTGAAATTTTC
9310058 ATAGCTATGCGTTAGAATACTAATTTTAGA-TTA-TTA-CTCATCGGTACCTTCATGAGTGACTT
131 ATAGCTATGCGTTAGAATACTAATTTTAGATTTATTTACCTCATCGGTACCTTCATGAGTGAC-T
9310120 GAAGTTTGT-CCATA-TTTCTTTGGCAGTTGTACAAGATGAAA
195 GAAGTTTGTCCCATATTTTCTTTGGCAGTTGTACAAGATGAAA
9310161 ACTCTTCCGT
Statistics
Matches: 232, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
265 27 0.12
266 29 0.12
267 13 0.06
268 3 0.01
269 160 0.69
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.39
Consensus pattern (266 bp):
AGTAGACAAAATTCATCACAAGCTTTGCATTTGAAATGGTCTCTCCATATTATTTGAGACCATTG
AAAATCATTGAGAATATATCCGTCATAGCTTTGATATCTTCATTTGGTTTCATCCTGAAATTTTC
ATAGCTATGCGTTAGAATACTAATTTTAGATTTATTTACCTCATCGGTACCTTCATGAGTGACTG
AAGTTTGTCCCATATTTTCTTTGGCAGTTGTACAAGATGAAACGTCTCTCCGATACACGATTCTG
GGACCA
Found at i:9321793 original size:20 final size:20
Alignment explanation
Indices: 9321770--9321843 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
9321760 CTGCTATAGT
9321770 AATATCGATACTGGATGAAC
1 AATATCGATACTGGATGAAC
*
9321790 AATATCGATACTAGGCAAGAAC
1 AATATCGATACT-GG-ATGAAC
* **
9321812 AATATCAATACTATATGAAC
1 AATATCGATACTGGATGAAC
* *
9321832 AGTGTCGATACT
1 AATATCGATACT
9321844 AAGTGCATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 26 0.59
21 2 0.05
22 16 0.36
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
AATATCGATACTGGATGAAC
Found at i:9321814 original size:22 final size:21
Alignment explanation
Indices: 9321770--9321824 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
9321760 CTGCTATAGT
*
9321770 AATATCGATACT-GGATGAAC
1 AATATCGATACTAGGAAGAAC
9321790 AATATCGATACTAGGCAAGAAC
1 AATATCGATACTAGG-AAGAAC
*
9321812 AATATCAATACTA
1 AATATCGATACTA
9321825 TATGAACAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 12 0.39
21 2 0.06
22 17 0.55
ACGTcount: A:0.45, C:0.16, G:0.15, T:0.24
Consensus pattern (21 bp):
AATATCGATACTAGGAAGAAC
Found at i:9330246 original size:25 final size:27
Alignment explanation
Indices: 9330208--9330285 Score: 88
Period size: 29 Copynumber: 2.9 Consensus size: 27
9330198 CTTAGAAGAA
*
9330208 AAAGAGAAAGAAAGAAAA-AAAATAGG
1 AAAGAGAAAAAAAGAAAAGAAAATAGG
**
9330234 AAAG-GAAAAAAAGAAAAGAAAATAACA
1 AAAGAGAAAAAAAGAAAAGAAAAT-AGG
*
9330261 AAAAAGAAAATAAAGAAAAGAAAAT
1 AAAGAGAAAA-AAAGAAAAGAAAAT
9330286 TTGAAAATGG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
25 12 0.27
26 9 0.20
27 4 0.09
28 5 0.11
29 14 0.32
ACGTcount: A:0.77, C:0.01, G:0.17, T:0.05
Consensus pattern (27 bp):
AAAGAGAAAAAAAGAAAAGAAAATAGG
Found at i:9330267 original size:15 final size:14
Alignment explanation
Indices: 9330238--9330285 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
9330228 AATAGGAAAG
*
9330238 GAAAA-AAAGAAAA
1 GAAAATAAAAAAAA
9330251 GAAAATAACAAAAAA
1 GAAAATAA-AAAAAA
*
9330266 GAAAATAAAGAAAA
1 GAAAATAAAAAAAA
9330280 GAAAAT
1 GAAAAT
9330286 TTGAAAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
13 5 0.16
14 13 0.42
15 13 0.42
ACGTcount: A:0.79, C:0.02, G:0.12, T:0.06
Consensus pattern (14 bp):
GAAAATAAAAAAAA
Found at i:9331697 original size:77 final size:77
Alignment explanation
Indices: 9331359--9331699 Score: 409
Period size: 77 Copynumber: 4.4 Consensus size: 77
9331349 CCTATTTGAT
* * *
9331359 TCCATCACAGAAGGAGGTGGATCAATATTT-TCGATGAAGAAGTTCCTAACGAGAAGAACTTGTT
1 TCCATCATAGAAGGAGGTGGATCAACATTTCT-AATGAAGAAGTTCCTAACGAGAAGAACTTGTT
9331423 CAACTTTGACTTA
65 CAACTTTGACTTA
* * * * *
9331436 TCCATCATAAAAGGAGGTGGATCAACATTTCTGATGAAGAAGTTTCTAATGAAAAGAACTTGTTC
1 TCCATCATAGAAGGAGGTGGATCAACATTTCTAATGAAGAAGTTCCTAACGAGAAGAACTTGTTC
9331501 AACTTTGACTTA
66 AACTTTGACTTA
* * * * * * * * *
9331513 TCCATTACAAAATGAGGTGGATCAACATTTTTTATGAATAAGTTCCTAATGAGAAGAACTTGTTT
1 TCCATCATAGAAGGAGGTGGATCAACATTTCTAATGAAGAAGTTCCTAACGAGAAGAACTTGTTC
* *
9331578 GAC-TT-ATTTGA
66 AACTTTGACTT-A
* * * *
9331589 TTCCATCATAGAAGAAGGTGGATCAGCATTTCTAATGAAAAAGTTCCTAACGATAAGAACTTGTT
1 -TCCATCATAGAAGGAGGTGGATCAACATTTCTAATGAAGAAGTTCCTAACGAGAAGAACTTGTT
9331654 CAACTTTGACTTA
65 CAACTTTGACTTA
* *
9331667 TCCATCATAGAAGGAGATGGGTCAACATTTCTA
1 TCCATCATAGAAGGAGGTGGATCAACATTTCTA
9331700 GCAAAAAAGT
Statistics
Matches: 224, Mismatches: 35, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
75 3 0.01
76 3 0.01
77 211 0.94
78 4 0.02
79 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.31
Consensus pattern (77 bp):
TCCATCATAGAAGGAGGTGGATCAACATTTCTAATGAAGAAGTTCCTAACGAGAAGAACTTGTTC
AACTTTGACTTA
Found at i:9332739 original size:42 final size:42
Alignment explanation
Indices: 9332693--9332790 Score: 137
Period size: 42 Copynumber: 2.3 Consensus size: 42
9332683 TCCTTTAAAG
* *
9332693 GAAGGGATCGATCC-TTTTCATCGAGGGATCGA-TCATTTTGGT
1 GAAGGGATCGATCCTTTTTC-TCAAGGGACCGATTCATTTT-GT
9332735 GAAGGGATCGATCCTTTTTCTCAAGGGACCGATTCATTTTGT
1 GAAGGGATCGATCCTTTTTCTCAAGGGACCGATTCATTTTGT
*
9332777 AAAGGGATCGATCC
1 GAAGGGATCGATCC
9332791 AAACTCACTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 39 0.76
43 12 0.24
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
GAAGGGATCGATCCTTTTTCTCAAGGGACCGATTCATTTTGT
Found at i:9332760 original size:21 final size:21
Alignment explanation
Indices: 9332694--9332790 Score: 88
Period size: 21 Copynumber: 4.6 Consensus size: 21
9332684 CCTTTAAAGG
9332694 AAGGGATCGATCC-TTTTCATC
1 AAGGGATCGATCCTTTTTC-TC
* * ** *
9332715 GAGGGATCGATCATTTTGGTG
1 AAGGGATCGATCCTTTTTCTC
9332736 AAGGGATCGATCCTTTTTCTC
1 AAGGGATCGATCCTTTTTCTC
* * * * *
9332757 AAGGGACCGATTCATTTTGTA
1 AAGGGATCGATCCTTTTTCTC
9332778 AAGGGATCGATCC
1 AAGGGATCGATCC
9332791 AAACTCACTA
Statistics
Matches: 58, Mismatches: 17, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
21 55 0.95
22 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.32
Consensus pattern (21 bp):
AAGGGATCGATCCTTTTTCTC
Found at i:9338136 original size:21 final size:20
Alignment explanation
Indices: 9338088--9338139 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
9338078 ACTGGAATCC
* *
9338088 AAGGGATCGATTCTTTTTTA
1 AAGGGATCGATTCTTTGTCA
*
9338108 AGGGGATCGATTCTTTGGTCA
1 AAGGGATCGATTCTTT-GTCA
9338129 AAGGGATCGAT
1 AAGGGATCGAT
9338140 CATTTTGCTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (20 bp):
AAGGGATCGATTCTTTGTCA
Found at i:9340180 original size:20 final size:20
Alignment explanation
Indices: 9340157--9340227 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 20
9340147 GCATCGGTTA
9340157 ATGCCTTTATGCATCCTTTC
1 ATGCCTTTATGCATCCTTTC
* *
9340177 ATGCATTTTCAATTATGGCATCCGTTC
1 ATGC-----C-TTTAT-GCATCCTTTC
*
9340204 ATGCCTTTATGTATCCTTTC
1 ATGCCTTTATGCATCCTTTC
9340224 ATGC
1 ATGC
9340228 ATTTTATGTT
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
20 16 0.41
21 4 0.10
22 1 0.03
25 1 0.03
26 4 0.10
27 13 0.33
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (20 bp):
ATGCCTTTATGCATCCTTTC
Found at i:9340195 original size:47 final size:47
Alignment explanation
Indices: 9340135--9340232 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
9340125 TTTCAAGTAT
*
9340135 TTTTCAATTATGGCATCGGTTAATGCCTTTATGCATCCTTTCATGCA
1 TTTTCAATTATGGCATCCGTTAATGCCTTTATGCATCCTTTCATGCA
* *
9340182 TTTTCAATTATGGCATCCGTTCATGCCTTTATGTATCCTTTCATGCA
1 TTTTCAATTATGGCATCCGTTAATGCCTTTATGCATCCTTTCATGCA
9340229 TTTT
1 TTTT
9340233 ATGTTCTGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.46
Consensus pattern (47 bp):
TTTTCAATTATGGCATCCGTTAATGCCTTTATGCATCCTTTCATGCA
Found at i:9340296 original size:20 final size:22
Alignment explanation
Indices: 9340257--9340298 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
9340247 TTTTTTTTCT
9340257 TTATAGCATCCATTCATATCAC
1 TTATAGCATCCATTCATATCAC
*
9340279 TTAT-GCAT-CATTCTTATCAC
1 TTATAGCATCCATTCATATCAC
9340299 AATACATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.29, C:0.26, G:0.05, T:0.40
Consensus pattern (22 bp):
TTATAGCATCCATTCATATCAC
Found at i:9341585 original size:45 final size:45
Alignment explanation
Indices: 9341533--9341985 Score: 434
Period size: 45 Copynumber: 10.3 Consensus size: 45
9341523 AATACATCAT
* **
9341533 TATGCATTTTAAGCTCTAACAT-CTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAA-CTCTAGTATACTTTTCTGTTGATAATGCACCCA
* * * *
9341578 TATGCATTTTAACTATAGTATACTTTTATGTTGATAATGTACCCA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
* * * **
9341623 TATACATCTCAAC-CATAGTATACTTTTCTATTGATAATGTTCCCA
1 TATGCATTTCAACTC-TAGTATACTTTTCTGTTGATAATGCACCCA
* * *
9341668 TATACATTTGAACTCCAGTATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
* * *
9341713 TATACATTTCAACTCTAGTATACTTTTCTATTGATAATGCACCGA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
** * * **
9341758 TATGCATTTCAACTCGGGCAT-CCTTTCATG-CCACTAATGCACCCA
1 TATGCATTTCAACTCTAGTATACTTTTC-TGTTGA-TAATGCACCCA
* *
9341803 TATGCA-TT--ATTCT-GT-TA------TGTTGATAATGTACCCA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
* * * *
9341837 TATACATCTCAAC-CATAGTATACTTTTCTATTGATAATGTACCCA
1 TATGCATTTCAACTC-TAGTATACTTTTCTGTTGATAATGCACCCA
* * * *
9341882 TATACATTTGAACTCCAGTATACTTTTCTGTTGATAATGCACCTA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
*
9341927 TATGCATTTCATCTCTAGTATACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
9341972 TATGCATTTCAACT
1 TATGCATTTCAACT
9341986 TGGGCATCAT
Statistics
Matches: 335, Mismatches: 53, Indels: 40
0.78 0.12 0.09
Matches are distributed among these distances:
34 17 0.05
35 2 0.01
36 1 0.00
37 2 0.01
38 2 0.01
39 2 0.01
40 1 0.00
41 1 0.00
42 3 0.01
44 14 0.04
45 288 0.86
46 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (45 bp):
TATGCATTTCAACTCTAGTATACTTTTCTGTTGATAATGCACCCA
Found at i:9341977 original size:214 final size:214
Alignment explanation
Indices: 9341603--9342057 Score: 802
Period size: 214 Copynumber: 2.1 Consensus size: 214
9341593 TAGTATACTT
*
9341603 TTATGTTGATAATGTACCCATATACATCTCAACCATAGTATACTTTTCTATTGATAATGTTCCCA
1 TTATGTTGATAATGTACCCATATACATCTCAACCATAGTATACTTTTCTATTGATAATGTACCCA
9341668 TATACATTTGAACTCCAGTATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGTA
66 TATACATTTGAACTCCAGTATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGTA
* *
9341733 TACTTTTCTATTGATAATGCACCGATATGCATTTCAACTCGGGCATCCTTTCATGCCACTAATGC
131 TACTTTTCTATTGATAATGCACCCATATGCATTTCAACTCGGGCATCATTTCATGCCACTAATGC
9341798 ACCCATATGCATTATTCTG
196 ACCCATATGCATTATTCTG
9341817 TTATGTTGATAATGTACCCATATACATCTCAACCATAGTATACTTTTCTATTGATAATGTACCCA
1 TTATGTTGATAATGTACCCATATACATCTCAACCATAGTATACTTTTCTATTGATAATGTACCCA
* * *
9341882 TATACATTTGAACTCCAGTATACTTTTCTGTTGATAATGCACCTATATGCATTTCATCTCTAGTA
66 TATACATTTGAACTCCAGTATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGTA
* *
9341947 TACTTTTCTGTTGATAATGCACCCATATGCATTTCAACTTGGGCATCATTTCATGCCACTAATGC
131 TACTTTTCTATTGATAATGCACCCATATGCATTTCAACTCGGGCATCATTTCATGCCACTAATGC
*
9342012 ACCCATATGCATTATTTTG
196 ACCCATATGCATTATTCTG
** *
9342031 TTATGCCGATAATGTATCCATATACAT
1 TTATGTTGATAATGTACCCATATACAT
9342058 ACAGCTAAGG
Statistics
Matches: 229, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
214 229 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (214 bp):
TTATGTTGATAATGTACCCATATACATCTCAACCATAGTATACTTTTCTATTGATAATGTACCCA
TATACATTTGAACTCCAGTATACTTTTCTGTTGATAATGCACCCATATACATTTCAACTCTAGTA
TACTTTTCTATTGATAATGCACCCATATGCATTTCAACTCGGGCATCATTTCATGCCACTAATGC
ACCCATATGCATTATTCTG
Done.