Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 58 of 208
Found at i:16527010 original size:25 final size:25
Alignment explanation
Indices: 16526982--16527122 Score: 90
Period size: 25 Copynumber: 5.6 Consensus size: 25
16526972 ATCCATGTAA
*
16526982 TATAACGGGAAGCTCACAAAAAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
* *
16527007 TATAACGGGAAGCAC-CAAATAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
* * * *** *
16527031 ATATAATGGGATGTTCA-AGTTAGCA
1 -TATAACGGGAAGCTCACAAAGAGCC
* *
16527056 T-TAATGGGAACCTCACAAAGAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
* * *
16527080 TTTAATCAGGAAGCTCACGAAGAGCC
1 TATAA-CGGGAAGCTCACAAAGAGCC
*
16527106 ATATAACGGGACGCTCA
1 -TATAACGGGAAGCTCA
16527123 TAAGAGCTGC
Statistics
Matches: 87, Mismatches: 23, Indels: 11
0.72 0.19 0.09
Matches are distributed among these distances:
23 11 0.13
24 14 0.16
25 33 0.38
26 25 0.29
27 4 0.05
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.18
Consensus pattern (25 bp):
TATAACGGGAAGCTCACAAAGAGCC
Found at i:16533650 original size:26 final size:25
Alignment explanation
Indices: 16533467--16533650 Score: 112
Period size: 24 Copynumber: 7.4 Consensus size: 25
16533457 CTCTCAAGCA
**
16533467 CTATAACGGGAAGCT--CATTGAGC
1 CTATAACGGGAAGCTCACAAAGAGC
*
16533490 CTTGTAACGGGAAGCTCACAAAGAGC
1 C-TATAACGGGAAGCTCACAAAGAGC
*
16533516 CTATAACGGGTAGCTC-CAAAGAGC
1 CTATAACGGGAAGCTCACAAAGAGC
* * ** *
16533540 ACT-TAATGGGAAGCAC-CGGATAGC
1 -CTATAACGGGAAGCTCACAAAGAGC
** * **
16533564 CATATAACACGAAGTTCA-AGTGAGC
1 C-TATAACGGGAAGCTCACAAAGAGC
*
16533589 C-CTAACGGGAAGCTCACAAAGAGC
1 CTATAACGGGAAGCTCACAAAGAGC
* * *
16533613 CTTTAATTGGGAAGCTCATAAAGAGC
1 CTATAA-CGGGAAGCTCACAAAGAGC
16533639 CATATAACGGGA
1 C-TATAACGGGA
16533651 CGCTTATAAG
Statistics
Matches: 120, Mismatches: 30, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
23 13 0.11
24 43 0.36
25 31 0.26
26 29 0.24
27 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (25 bp):
CTATAACGGGAAGCTCACAAAGAGC
Found at i:16535416 original size:29 final size:28
Alignment explanation
Indices: 16535334--16535515 Score: 106
Period size: 29 Copynumber: 6.2 Consensus size: 28
16535324 GTGTGCTAAA
*
16535334 CGATGGTTGAAACCATCC-CTTTTCATTAATT
1 CGATGGTCG-AACCATCCAC-TTTCA-T-ATT
*
16535365 -GATGGTCGAAACTATCC-CTTTTCATATT
1 CGATGGTCG-AACCATCCAC-TTTCATATT
*
16535393 CGATAGTCGAAGCCATCCACTTTCATATT
1 CGATGGTCGAA-CCATCCACTTTCATATT
* *
16535422 CGATGGTCGTCACCATCC-CTTTTCGTATT
1 CGATGGTCG-AACCATCCAC-TTTCATATT
* * * *
16535451 CGATGGTCAAAACCATCCATTTTCTTTAAT
1 CGATGGTC-GAACCATCCACTTTC-ATATT
*
16535481 CGATGG-CTGTCACCATCC-CTTTTCATATT
1 CGATGGTC-G-AACCATCCAC-TTTCATATT
16535510 CGATGG
1 CGATGG
16535516 GTGTCGATAC
Statistics
Matches: 123, Mismatches: 18, Indels: 22
0.75 0.11 0.13
Matches are distributed among these distances:
28 6 0.05
29 73 0.59
30 44 0.36
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (28 bp):
CGATGGTCGAACCATCCACTTTCATATT
Found at i:16535440 original size:58 final size:59
Alignment explanation
Indices: 16535378--16535513 Score: 186
Period size: 58 Copynumber: 2.3 Consensus size: 59
16535368 GGTCGAAACT
* * *
16535378 ATCCCTTTTCATATTCGATAGTCGAAGCCATCCACTTTC-ATATTCGATGG-TCGTCACC
1 ATCCCTTTTCATATTCGATAGTCAAAACCATCCACTTTCTATAATCGATGGCT-GTCACC
* * * *
16535436 ATCCCTTTTCGTATTCGATGGTCAAAACCATCCATTTTCTTTAATCGATGGCTGTCACC
1 ATCCCTTTTCATATTCGATAGTCAAAACCATCCACTTTCTATAATCGATGGCTGTCACC
16535495 ATCCCTTTTCATATTCGAT
1 ATCCCTTTTCATATTCGAT
16535514 GGGTGTCGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
58 34 0.50
59 33 0.49
60 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (59 bp):
ATCCCTTTTCATATTCGATAGTCAAAACCATCCACTTTCTATAATCGATGGCTGTCACC
Found at i:16535503 original size:59 final size:58
Alignment explanation
Indices: 16535334--16535515 Score: 213
Period size: 59 Copynumber: 3.1 Consensus size: 58
16535324 GTGTGCTAAA
* * * ** *
16535334 CGATGGTTGAAACCATCCCTTTTCATTAATTGATGGTCGAAACTATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCATTTTC-TTAATCGATGGTCGTCACCATCCCTTTTCATATT
* * * * * *
16535393 CGATAGTCGAAGCCATCCACTTTCATATTCGATGGTCGTCACCATCCCTTTTCGTATT
1 CGATGGTCGAAACCATCCATTTTCTTAATCGATGGTCGTCACCATCCCTTTTCATATT
*
16535451 CGATGGTCAAAACCATCCATTTTCTTTAATCGATGG-CTGTCACCATCCCTTTTCATATT
1 CGATGGTCGAAACCATCCATTTTC-TTAATCGATGGTC-GTCACCATCCCTTTTCATATT
16535510 CGATGG
1 CGATGG
16535516 GTGTCGATAC
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
58 48 0.47
59 54 0.53
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (58 bp):
CGATGGTCGAAACCATCCATTTTCTTAATCGATGGTCGTCACCATCCCTTTTCATATT
Found at i:16538707 original size:362 final size:363
Alignment explanation
Indices: 16538041--16538753 Score: 1270
Period size: 362 Copynumber: 2.0 Consensus size: 363
16538031 GGGATGGTAT
*
16538041 TTAAAGAACGGGTTAACTGGGATTTCTTTTGAATTAATTTCTTTAGTGGAACGAGATAATTTGGG
1 TTAAAGAACGGGTTAACTGAGATTTCTTTTGAATTAATTTCTTTAGTGGAACGAGATAATTTGGG
16538106 ATCATCGATGACTTTAGTAGTTAGTGGGATAGTGTTCGATCTACAAATATATCTAAATGCAACTG
66 ATCATCGATGACTTTAGTAGTTAGTGGGATAGTGTTCGATCTACAAATATATCTAAATGCAACTG
16538171 TTATGTCTGAGTATCTTACAACGATCTTGTAACACCCCTTACCCGAGACCGTAGCCAGAGTCGAG
131 TTATGTCTGAGTATCTTACAACGATCTTGTAACACCCCTTACCCGAGACCGTAGCCAGAGTCGAG
16538236 CTCGAGGAATAAAAATTTGCTTTTAAAATTTATCTCACTATTTATGATAAAGTTGTCCACTCGCA
196 CTCGAGGAATAAAAATTTGCTTTTAAAATTTATCTCACTATTTATGATAAAGTTGTCCACTCGCA
* * *
16538301 TAGCAGTCACTAAACCATTTATAACTCGGGCTACGGAACTCAAAATTTAAATCTGTAAATTTTCC
261 TAGCAGTCACTAAACCATTTATAACTCGGGATACGAAACTCAAAATTGAAATCTGTAAATTTTCC
16538366 CTGAAACTAGACTCATATATCTTCTTTAAATCTGCAAA
326 CTGAAACTAGACTCATATATCTTCTTTAAATCTGCAAA
*
16538404 TTAAAGAACGGTTTAACTGAGATTTCTTTTGAATTAATTTCTTTAGTGGAACG-GTATAATTTGG
1 TTAAAGAACGGGTTAACTGAGATTTCTTTTGAATTAATTTCTTTAGTGGAACGAG-ATAATTTGG
16538468 GATCATCGATGACTTTAGTAGTT-GTGGGATAGTGTTCGATCTACAAATATATCTAAATGCAACT
65 GATCATCGATGACTTTAGTAGTTAGTGGGATAGTGTTCGATCTACAAATATATCTAAATGCAACT
* * * *
16538532 GTTATGTTTGAGTATCTTACAATGATCTTGTAACAGCCCTTACCTGAGACCGTAGCC-GAAGTCG
130 GTTATGTCTGAGTATCTTACAACGATCTTGTAACACCCCTTACCCGAGACCGTAGCCAG-AGTCG
* *
16538596 AGCTCGAGGCATAAAAATTTGCTTTTAAAATTTATCTCACTATTTATGATACAGTTGTCCACTCG
194 AGCTCGAGGAATAAAAATTTGCTTTTAAAATTTATCTCACTATTTATGATAAAGTTGTCCACTCG
16538661 CATAGCAGTCACTAAACCATTTATAACTCGGGATACGAAACTCAAAATTGAAATCTGTAAATTTT
259 CATAGCAGTCACTAAACCATTTATAACTCGGGATACGAAACTCAAAATTGAAATCTGTAAATTTT
* *
16538726 TCCTGAAACTAGACTTATATATCTTCTT
324 CCCTGAAACTAGACTCATATATCTTCTT
16538754 ACCATAAATT
Statistics
Matches: 335, Mismatches: 13, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
361 1 0.00
362 251 0.75
363 83 0.25
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (363 bp):
TTAAAGAACGGGTTAACTGAGATTTCTTTTGAATTAATTTCTTTAGTGGAACGAGATAATTTGGG
ATCATCGATGACTTTAGTAGTTAGTGGGATAGTGTTCGATCTACAAATATATCTAAATGCAACTG
TTATGTCTGAGTATCTTACAACGATCTTGTAACACCCCTTACCCGAGACCGTAGCCAGAGTCGAG
CTCGAGGAATAAAAATTTGCTTTTAAAATTTATCTCACTATTTATGATAAAGTTGTCCACTCGCA
TAGCAGTCACTAAACCATTTATAACTCGGGATACGAAACTCAAAATTGAAATCTGTAAATTTTCC
CTGAAACTAGACTCATATATCTTCTTTAAATCTGCAAA
Found at i:16546465 original size:40 final size:40
Alignment explanation
Indices: 16546410--16546549 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
16546400 TTATTGAATA
* *
16546410 ATTGCACTTACGTGCCCCTGTTTGTACTTCAGTACCTCTG
1 ATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCCTG
* *
16546450 AATGCACTTATGTGCCCCTATTTGTACTTC-GATACCCCTG
1 ATTGCACTTACGTGCCCCTATTTGTACTTCAG-TACCCCTG
* *
16546490 ATTGCACTTACGTGCCACTATTTGCACTTCAGTACCCCTG
1 ATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCCTG
* *
16546530 GTTGCACTTTCGTGCCCCTA
1 ATTGCACTTACGTGCCCCTA
16546550 GTTATAATCT
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 85 0.98
41 1 0.01
ACGTcount: A:0.17, C:0.31, G:0.16, T:0.35
Consensus pattern (40 bp):
ATTGCACTTACGTGCCCCTATTTGTACTTCAGTACCCCTG
Found at i:16546547 original size:20 final size:20
Alignment explanation
Indices: 16546410--16546548 Score: 74
Period size: 20 Copynumber: 7.0 Consensus size: 20
16546400 TTATTGAATA
*
16546410 ATTGCACTTACGTGCCCCTG
1 ATTGCACTTTCGTGCCCCTG
* * * *
16546430 TTTGTAC-TTCAGTACCTCTG
1 ATTGCACTTTC-GTGCCCCTG
*
16546450 AATGCACTTAT-GTGCCCCT-
1 ATTGCACTT-TCGTGCCCCTG
* *
16546469 ATTTGTAC-TTCGATACCCCTG
1 A-TTGCACTTTCG-TGCCCCTG
* *
16546490 ATTGCACTTACGTGCCACT-
1 ATTGCACTTTCGTGCCCCTG
*
16546509 ATTTGCAC-TTCAGTACCCCTG
1 A-TTGCACTTTC-GTGCCCCTG
*
16546530 GTTGCACTTTCGTGCCCCT
1 ATTGCACTTTCGTGCCCCT
16546549 AGTTATAATC
Statistics
Matches: 85, Mismatches: 22, Indels: 24
0.65 0.17 0.18
Matches are distributed among these distances:
18 1 0.01
19 8 0.09
20 67 0.79
21 8 0.09
22 1 0.01
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (20 bp):
ATTGCACTTTCGTGCCCCTG
Found at i:16551461 original size:13 final size:13
Alignment explanation
Indices: 16551423--16551505 Score: 60
Period size: 13 Copynumber: 6.1 Consensus size: 13
16551413 ATATAGTAAG
16551423 ATGAAATGTTTA-
1 ATGAAATGTTTAT
*
16551435 AGTGAAATGGTTAT
1 A-TGAAATGTTTAT
16551449 ATGAAATGTTTAT
1 ATGAAATGTTTAT
**
16551462 ATGGAAAAATTATAT
1 AT-GAAATGTT-TAT
* *
16551477 ACATGAAATGGTTAA
1 --ATGAAATGTTTAT
*
16551492 ATGAATTGTTTAT
1 ATGAAATGTTTAT
16551505 A
1 A
16551506 CAAAAATATT
Statistics
Matches: 54, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
12 1 0.02
13 34 0.63
14 7 0.13
15 5 0.09
16 5 0.09
17 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.18, T:0.39
Consensus pattern (13 bp):
ATGAAATGTTTAT
Found at i:16556040 original size:14 final size:15
Alignment explanation
Indices: 16556016--16556046 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
16556006 TCAAGCTATG
16556016 TTTACAAGTTATGTT
1 TTTACAAGTTATGTT
16556031 TTTA-AAGTTATGTT
1 TTTACAAGTTATGTT
16556045 TT
1 TT
16556047 ACGCGTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTACAAGTTATGTT
Found at i:16556046 original size:13 final size:14
Alignment explanation
Indices: 16556003--16556048 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 14
16555993 TAAGACTCTA
*
16556003 TTTT-CAAGCTATG
1 TTTTACAAGTTATG
16556016 -TTTACAAGTTATG
1 TTTTACAAGTTATG
16556029 TTTTTA-AAGTTATG
1 -TTTTACAAGTTATG
16556043 TTTTAC
1 TTTTAC
16556049 GCGTCCTCCT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 8 0.29
15 4 0.14
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (14 bp):
TTTTACAAGTTATG
Found at i:16559225 original size:38 final size:38
Alignment explanation
Indices: 16559173--16559249 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
16559163 TTTGTGTTTT
*
16559173 TCTTTGCTAGTTTCTTAACGCGTCTTTTATAAAATAAC
1 TCTTTGCCAGTTTCTTAACGCGTCTTTTATAAAATAAC
* *
16559211 TCTTTGCCATTTTCTTATCGCGTCTTTTATAAAATAAC
1 TCTTTGCCAGTTTCTTAACGCGTCTTTTATAAAATAAC
16559249 T
1 T
16559250 AAATTATAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (38 bp):
TCTTTGCCAGTTTCTTAACGCGTCTTTTATAAAATAAC
Found at i:16560435 original size:13 final size:13
Alignment explanation
Indices: 16560417--16560441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16560407 CTACAAATGC
16560417 TTGTTTAGTGAAA
1 TTGTTTAGTGAAA
16560430 TTGTTTAGTGAA
1 TTGTTTAGTGAA
16560442 CTAAGCAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (13 bp):
TTGTTTAGTGAAA
Found at i:16561183 original size:15 final size:15
Alignment explanation
Indices: 16561160--16561202 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
16561150 GTCGAGTTCT
*
16561160 ATTTCTATTTTT-ATG
1 ATTTATATTTTTCA-G
16561175 ATTTATATTTTTCAG
1 ATTTATATTTTTCAG
16561190 ATTTATATATTTT
1 ATTTATAT-TTTT
16561203 TCTTTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (15 bp):
ATTTATATTTTTCAG
Found at i:16561216 original size:20 final size:18
Alignment explanation
Indices: 16561191--16561240 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
16561181 ATTTTTCAGA
16561191 TTTATATATTTTTCTTTATT
1 TTTATATATTTTT-TTTA-T
*
16561211 TTTATATATTTATTTTAT
1 TTTATATATTTTTTTTAT
16561229 TTTATAT-TTTTT
1 TTTATATATTTTT
16561241 AATGTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 8 0.29
19 4 0.14
20 12 0.43
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTATATATTTTTTTTAT
Found at i:16561252 original size:18 final size:17
Alignment explanation
Indices: 16561178--16561252 Score: 55
Period size: 17 Copynumber: 4.2 Consensus size: 17
16561168 TTTTATGATT
* *
16561178 TATATTTTTCAGATTTA
1 TATATTTTTTATATTTA
*
16561195 TATATTTTTCTTTATTTTTA
1 TATA--TTT-TTTATATTTA
16561215 TATATTTATTT-TATTT-
1 TATATTT-TTTATATTTA
*
16561231 TATATTTTTTAATGTTTA
1 TATATTTTTT-ATATTTA
16561249 TATA
1 TATA
16561253 CATTTTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
15 3 0.07
16 7 0.15
17 12 0.26
18 10 0.22
19 3 0.07
20 11 0.24
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATATTTTTTATATTTA
Found at i:16562185 original size:17 final size:18
Alignment explanation
Indices: 16562149--16562186 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
16562139 GTCTTTTATG
* *
16562149 TATATTCTTGTATGTTTT
1 TATATTCTTGGATATTTT
16562167 TATATT-TTGGATATTTT
1 TATATTCTTGGATATTTT
16562184 TAT
1 TAT
16562187 GTAAATTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.21, C:0.03, G:0.11, T:0.66
Consensus pattern (18 bp):
TATATTCTTGGATATTTT
Found at i:16562194 original size:21 final size:21
Alignment explanation
Indices: 16562170--16562209 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
16562160 ATGTTTTTAT
*
16562170 ATTTTGGATATTTTTATGTAA
1 ATTTTGGATAATTTTATGTAA
*
16562191 ATTTTGTATAATTTTATGT
1 ATTTTGGATAATTTTATGT
16562210 GTTTTCCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (21 bp):
ATTTTGGATAATTTTATGTAA
Found at i:16568462 original size:25 final size:25
Alignment explanation
Indices: 16568433--16568494 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
16568423 TCTTGTACAT
* *
16568433 GTATGCTCACACGATCTGTGAATC-
1 GTATGCTCACACGAGCTGTAAATCA
*
16568457 GATATGCTCACATGAGCTGTAAATCA
1 G-TATGCTCACACGAGCTGTAAATCA
16568483 GTATGCTCACAC
1 GTATGCTCACAC
16568495 AAATTGTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.27
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTAAATCA
Found at i:16569004 original size:65 final size:65
Alignment explanation
Indices: 16568900--16569027 Score: 220
Period size: 65 Copynumber: 2.0 Consensus size: 65
16568890 GATCTGTACG
* * *
16568900 GATAAATTGAACTTAATTCAATATATATTTCATTCAATTTAACCCAAATAAATTTTTGGAAAACT
1 GATAAATTCAACTCAATTCAATAGATATTTCATTCAATTTAACCCAAATAAATTTTTGGAAAACT
*
16568965 GATAAATTCAACTCAATTCAATAGATATTTCATTCAATTTAACCCAAATCAATTTTTGGAAAA
1 GATAAATTCAACTCAATTCAATAGATATTTCATTCAATTTAACCCAAATAAATTTTTGGAAAA
16569028 ATTATTATTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (65 bp):
GATAAATTCAACTCAATTCAATAGATATTTCATTCAATTTAACCCAAATAAATTTTTGGAAAACT
Found at i:16573730 original size:30 final size:29
Alignment explanation
Indices: 16573663--16573755 Score: 118
Period size: 29 Copynumber: 3.2 Consensus size: 29
16573653 TCGATTATGA
*
16573663 AAAGGGATGGTGACGACCATCAATTAGTG
1 AAAGGGATGGTGACGACCATCAATTAATG
*
16573692 AAAGGGATGTTGACGACCATCAATTAATG
1 AAAGGGATGGTGACGACCATCAATTAATG
**
16573721 AAGAGGGATGGTTTCGACCATCGAA-T-ATG
1 AA-AGGGATGGTGACGACCATC-AATTAATG
16573750 AAAGGG
1 AAAGGG
16573756 GACAGTTACA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
28 4 0.07
29 34 0.60
30 17 0.30
31 2 0.04
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (29 bp):
AAAGGGATGGTGACGACCATCAATTAATG
Found at i:16573770 original size:59 final size:59
Alignment explanation
Indices: 16573659--16573772 Score: 135
Period size: 59 Copynumber: 1.9 Consensus size: 59
16573649 GCTATCGATT
* *
16573659 ATGAAAAGGGATGGTGACGACCATCAATTAGTGAAAGGGATGTTGACGACCATCAATTA
1 ATGAAAAGGGATGGTGACGACCATCAATTAGTGAAAGGGAAGTTGACAACCATCAATTA
* **
16573718 ATGAAGAGGGATGGTTTCGACCATCGAA-TA-TGAAAGGGGACAGTT-ACAACCATCA
1 ATGAAAAGGGATGGTGACGACCATC-AATTAGTGAAA-GGGA-AGTTGACAACCATCA
16573773 TTTAGCACAC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
58 5 0.11
59 37 0.79
60 5 0.11
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (59 bp):
ATGAAAAGGGATGGTGACGACCATCAATTAGTGAAAGGGAAGTTGACAACCATCAATTA
Found at i:16580322 original size:4 final size:4
Alignment explanation
Indices: 16580305--16580343 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
16580295 ACTCGCTTCT
* * *
16580305 TTAC TTAC TCAC TTAC TTGC TTAC TTAC TTGC TTAC TTA
1 TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTAC TTA
16580344 AATAACTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.49
Consensus pattern (4 bp):
TTAC
Found at i:16580335 original size:12 final size:12
Alignment explanation
Indices: 16580305--16580343 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
16580295 ACTCGCTTCT
* *
16580305 TTACTTACTCAC
1 TTACTTGCTTAC
16580317 TTACTTGCTTAC
1 TTACTTGCTTAC
16580329 TTACTTGCTTAC
1 TTACTTGCTTAC
16580341 TTA
1 TTA
16580344 AATAACTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.49
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:16580672 original size:50 final size:50
Alignment explanation
Indices: 16580613--16580834 Score: 255
Period size: 50 Copynumber: 4.3 Consensus size: 50
16580603 TATCCTAGAT
** * *
16580613 ATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
** * *
16580663 ATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * *
16580713 ATAGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCTAGAC
1 ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
* * * *
16580763 ATGGTCTTACATGGGACTTCTCATAATCTCAATGATGTCAATGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAACGCCATGTCCCAGAC
16580819 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
16580835 TCTAATTCCC
Statistics
Matches: 146, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 109 0.75
53 2 0.01
56 35 0.24
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATCGGTGCCAACGCCATGTCCCAGAC
Found at i:16590094 original size:21 final size:22
Alignment explanation
Indices: 16590070--16590114 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
16590060 TATTTAAACC
*
16590070 AAAATAAATTGGATTA-AAATT
1 AAAATAAATTAGATTATAAATT
* *
16590091 AAAATTAATTATATTATAAATT
1 AAAATAAATTAGATTATAAATT
16590113 AA
1 AA
16590115 TATTCATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
AAAATAAATTAGATTATAAATT
Found at i:16591439 original size:26 final size:26
Alignment explanation
Indices: 16591408--16591459 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16591398 AAAATGTACC
16591408 AACCATAA-TAACACATATACATGCCA
1 AACCATAAGT-ACACATATACATGCCA
* *
16591434 AACCATAAGTCCACCTATACATGCCA
1 AACCATAAGTACACATATACATGCCA
16591460 TTATAACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.44, C:0.31, G:0.06, T:0.19
Consensus pattern (26 bp):
AACCATAAGTACACATATACATGCCA
Found at i:16595834 original size:20 final size:20
Alignment explanation
Indices: 16595806--16595843 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16595796 TACAGAATAA
16595806 AATAAAC-AACACATTTCATC
1 AATAAACAAACA-ATTTCATC
*
16595826 AATACACAAACAATTTCA
1 AATAAACAAACAATTTCA
16595844 CATTCAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.53, C:0.24, G:0.00, T:0.24
Consensus pattern (20 bp):
AATAAACAAACAATTTCATC
Found at i:16600294 original size:28 final size:28
Alignment explanation
Indices: 16600252--16600312 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
16600242 CTATTCAGTA
* * *
16600252 ACAGT-ACAGTGTGGGTCTTAGCCCAAT
1 ACAGTAACAATGTGGGCCTTAGCCAAAT
16600279 ACAGTAACAATGTGGGCCTTAGCCAAAT
1 ACAGTAACAATGTGGGCCTTAGCCAAAT
16600307 ACAGTA
1 ACAGTA
16600313 TCGGTGCAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (28 bp):
ACAGTAACAATGTGGGCCTTAGCCAAAT
Found at i:16600449 original size:26 final size:26
Alignment explanation
Indices: 16600420--16600487 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
16600410 AACACACCAA
* *
16600420 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCGCAGCAAAGCTACCAGTAACAG
*
16600446 TATCGCAGCGAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
*
16600472 TATCGTAGCAAAGCTA
1 TATCGCAGCAAAGCTA
16600488 GTAACAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTAACAG
Found at i:16600693 original size:27 final size:27
Alignment explanation
Indices: 16600663--16600800 Score: 159
Period size: 27 Copynumber: 5.1 Consensus size: 27
16600653 GTATAATAAC
* *
16600663 CATTTTACCCTATGGGGGTATTTTAGT
1 CATTTTACCCTATGGGGGTAATTCAGT
* * * *
16600690 CATTTTAACCTATGGAGGTAGTTCGGT
1 CATTTTACCCTATGGGGGTAATTCAGT
* * *
16600717 CATTTTACCTTATAGGGGTAATTCGGT
1 CATTTTACCCTATGGGGGTAATTCAGT
* *
16600744 CATTTTACCTTATAGGGGTAATTCAGT
1 CATTTTACCCTATGGGGGTAATTCAGT
* *
16600771 CATTTTACCCTATGAGGGTAATTCGGT
1 CATTTTACCCTATGGGGGTAATTCAGT
16600798 CAT
1 CAT
16600801 AATAGTGTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTAATTCAGT
Found at i:16601683 original size:18 final size:18
Alignment explanation
Indices: 16601660--16601701 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
16601650 TTCGGTAATC
*
16601660 AAAGAAG-AGAGAAAGTAA
1 AAAGAAGAAGAAAAAG-AA
16601678 AAAGAAAGAAGAAAAAGAA
1 AAAG-AAGAAGAAAAAGAA
16601697 AAAGA
1 AAAGA
16601702 TGAGGAAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.02
Consensus pattern (18 bp):
AAAGAAGAAGAAAAAGAA
Found at i:16613139 original size:29 final size:29
Alignment explanation
Indices: 16613097--16613172 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
16613087 TAAACTACGG
*
16613097 GAAGCGAAAATCAAGGAACCACTTCAATA
1 GAAGAGAAAATCAAGGAACCACTTCAATA
*
16613126 GAAGAGGAAATCAAGGAACCACTTCAATA
1 GAAGAGAAAATCAAGGAACCACTTCAATA
* *
16613155 TAAGATAAAATCAAGGAA
1 GAAGAGAAAATCAAGGAA
16613173 TCGCTACACC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.51, C:0.16, G:0.18, T:0.14
Consensus pattern (29 bp):
GAAGAGAAAATCAAGGAACCACTTCAATA
Found at i:16623606 original size:13 final size:13
Alignment explanation
Indices: 16623588--16623629 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
16623578 CGCGGCCTGA
16623588 GACACGAGTGTTT
1 GACACGAGTGTTT
16623601 GACACGAGTGTTT
1 GACACGAGTGTTT
* *
16623614 GACACGGGTGTGT
1 GACACGAGTGTTT
16623627 GAC
1 GAC
16623630 CCTACTCAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (13 bp):
GACACGAGTGTTT
Found at i:16624443 original size:61 final size:61
Alignment explanation
Indices: 16624348--16624469 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
16624338 GCCTTGGAAC
*
16624348 TTGGGAGTGGTTCCAAAAGGACTTCAAAGAGTAGTTTTACCCCCGATATGTTGAGAAGAGG
1 TTGGGAGTGGTTCCAAAAGGACTTCAAAGAGTAGTTTTACCCCCAATATGTTGAGAAGAGG
*
16624409 TTGGGAG-GAGTTCCAAAAGGACTTTAAAGAGTAGTTTTACCCCCAATATGTTGAGAAGAGG
1 TTGGGAGTG-GTTCCAAAAGGACTTCAAAGAGTAGTTTTACCCCCAATATGTTGAGAAGAGG
16624470 CTTGAGCTAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (61 bp):
TTGGGAGTGGTTCCAAAAGGACTTCAAAGAGTAGTTTTACCCCCAATATGTTGAGAAGAGG
Found at i:16627396 original size:18 final size:18
Alignment explanation
Indices: 16627373--16627411 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
16627363 GTAGTAAAGT
16627373 ATGTAT-AATAAAATTAAA
1 ATGTATAAATAAAA-TAAA
16627391 ATGTATAAAATAAAATAAA
1 ATGTAT-AAATAAAATAAA
16627410 AT
1 AT
16627412 ACAAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 6 0.32
20 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
ATGTATAAATAAAATAAA
Found at i:16632389 original size:13 final size:13
Alignment explanation
Indices: 16632371--16632395 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16632361 AACTATATAC
16632371 AGTAAAAATTTAG
1 AGTAAAAATTTAG
16632384 AGTAAAAATTTA
1 AGTAAAAATTTA
16632396 AAGATGATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (13 bp):
AGTAAAAATTTAG
Found at i:16636543 original size:27 final size:27
Alignment explanation
Indices: 16636513--16636720 Score: 258
Period size: 27 Copynumber: 7.7 Consensus size: 27
16636503 GCAGGGTTTA
* *
16636513 CCACAAAGGCATTCCTTTCATAATTT-T
1 CCACAAAGGCTTTCCTTTCAT-ATTTCG
* *
16636540 CCACAAAGGCTTTCTTTTCATGA-TTCT
1 CCACAAAGGCTTTCCTTTCAT-ATTTCG
*
16636567 CCATAAAGGCTTTCCTTTCATATTTCG
1 CCACAAAGGCTTTCCTTTCATATTTCG
* *
16636594 CCATAAAGGATTTCCTTTCATATTTCG
1 CCACAAAGGCTTTCCTTTCATATTTCG
* * *
16636621 CCATAAAGGATTTCCTTTTATATTTCG
1 CCACAAAGGCTTTCCTTTCATATTTCG
16636648 CCACAAAGGCTTTCCTTTCATATTTCG
1 CCACAAAGGCTTTCCTTTCATATTTCG
* *
16636675 CCACAAAGGTTTTCCTTTCATATTTTG
1 CCACAAAGGCTTTCCTTTCATATTTCG
* *
16636702 CCACAAAGGTTTTTCTTTC
1 CCACAAAGGCTTTCCTTTC
16636721 TTAATGTGTT
Statistics
Matches: 165, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 3 0.02
27 162 0.98
ACGTcount: A:0.24, C:0.25, G:0.11, T:0.41
Consensus pattern (27 bp):
CCACAAAGGCTTTCCTTTCATATTTCG
Found at i:16637554 original size:17 final size:18
Alignment explanation
Indices: 16637515--16637555 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
16637505 AATTTTGCTG
16637515 TTTCAAAAAAATTCAAGA
1 TTTCAAAAAAATTCAAGA
* *
16637533 -ATCAAGAAAA-TCAAGA
1 TTTCAAAAAAATTCAAGA
16637549 TTTCAAA
1 TTTCAAA
16637556 TCTTTGTCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 3
0.72 0.16 0.12
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.56, C:0.12, G:0.07, T:0.24
Consensus pattern (18 bp):
TTTCAAAAAAATTCAAGA
Found at i:16638643 original size:8 final size:8
Alignment explanation
Indices: 16638630--16638664 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
16638620 AATTATGTGG
16638630 TGAAATTA
1 TGAAATTA
16638638 TGAAATTA
1 TGAAATTA
*
16638646 TAAAATTA
1 TGAAATTA
16638654 TGAAATATA
1 TGAAAT-TA
16638663 TG
1 TG
16638665 GGTTGCTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 20 0.83
9 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.37
Consensus pattern (8 bp):
TGAAATTA
Found at i:16638931 original size:28 final size:28
Alignment explanation
Indices: 16638891--16638945 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
16638881 GTTAGATCGG
16638891 GGCAAAGATAAAGTCTCAGAAGAATCAA
1 GGCAAAGATAAAGTCTCAGAAGAATCAA
16638919 GGCAAAGATAAAGTCTCAGAAGAATCA
1 GGCAAAGATAAAGTCTCAGAAGAATCA
16638946 CCTCCTTATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.15, G:0.22, T:0.15
Consensus pattern (28 bp):
GGCAAAGATAAAGTCTCAGAAGAATCAA
Found at i:16639211 original size:25 final size:25
Alignment explanation
Indices: 16639183--16639267 Score: 88
Period size: 25 Copynumber: 3.4 Consensus size: 25
16639173 CAATTCTCAA
16639183 CTCGTATGAGCTTACCATTATTCAG
1 CTCGTATGAGCTTACCATTATTCAG
* *
16639208 CTCGCACGAGCTTA-CAGTTACTT-AG
1 CTCGTATGAGCTTACCA-TTA-TTCAG
*
16639233 CTCGTATGAGCTTATCGATTA--CAG
1 CTCGTATGAGCTTA-CCATTATTCAG
16639257 CTCGTATGAGC
1 CTCGTATGAGC
16639268 ATACATGTAC
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
24 15 0.30
25 29 0.58
26 5 0.10
27 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.32
Consensus pattern (25 bp):
CTCGTATGAGCTTACCATTATTCAG
Found at i:16639261 original size:24 final size:22
Alignment explanation
Indices: 16639183--16639279 Score: 86
Period size: 25 Copynumber: 4.0 Consensus size: 22
16639173 CAATTCTCAA
16639183 CTCGTATGAGCTTACCATTATTCAG
1 CTCGTATGAGCTTA-CATTA--CAG
* *
16639208 CTCGCACGAGCTTACAGTTACTTAG
1 CTCGTATGAGCTTACA-TTAC--AG
16639233 CTCGTATGAGCTTATCGATTACAG
1 CTCGTATGAGCTTA-C-ATTACAG
*
16639257 CTCGTATGAGCATACATGTACAG
1 CTCGTATGAGCTTACAT-TACAG
16639280 GAATTGACGG
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
22 2 0.03
23 7 0.11
24 17 0.28
25 29 0.48
26 5 0.08
27 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (22 bp):
CTCGTATGAGCTTACATTACAG
Found at i:16647003 original size:44 final size:44
Alignment explanation
Indices: 16646887--16647658 Score: 236
Period size: 44 Copynumber: 17.8 Consensus size: 44
16646877 TGTTGGCTTT
* * * ** * *
16646887 AATCTACTCCACAACTGCTTAGGGAGATAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCCGTCTTC
*
16646931 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGCCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCCGTCTTC
* * * **
16646975 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCCACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGTCTTC
* * * * ** * *
16647019 AATCTTCTCCACTACTGCTCAGGGAGACAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCCGTCTTC
*
16647063 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGCCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCCGTCTTC
* **
16647107 AATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCCGTCTTC
* * * * * * ** * *
16647151 AACCTTCTCCACTGCTGCTCAGGGAGACAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCCGTCTTC
*
16647195 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGA-------T-TTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCCGTCTTC
* * **
16647231 GATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACAATCTTC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGATTC-GCCGTCTTC
* * * * * * * ** * *
16647275 AACCTTCT-CACTGCTGCTCAGGGAAACAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCCGTCTTC
* *
16647318 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCACCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCCGTCTTC
* *
16647362 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC-AC-TCTAC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT-T-CGCCGTCTTC
* * * * * * * ** * *
16647406 AACCTTCTCCACTGCTGCTCAGGAAGACAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCCGTCTTC
*
16647450 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGCCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCCGTCTTC
* * * * *
16647494 GATCTGCTCCACTACTGCATAGGGAGATAAGACCTAC-AC-TCTAC
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGA--TTCGCCGTCTTC
* * * * * ** * *
16647538 AACCTTCTCCACTGCTGCTTAGGGAGACAAGGCTT-GGTGGCTTA
1 AATCTGCTCCACTACTGCTTAGGGAGATAA-GATTCGCCGTCTTC
*
16647582 AATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTCGCCGTCTTC
1 AATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATTCGCCGTCTTC
* * *
16647626 GATCTGCTACACTACTACTTAGGGAGATAAGAT
1 AATCTGCTCCACTACTGCTTAGGGAGATAAGAT
16647659 CTACACTCTA
Statistics
Matches: 516, Mismatches: 146, Indels: 132
0.65 0.18 0.17
Matches are distributed among these distances:
34 6 0.01
35 2 0.00
36 19 0.04
37 2 0.00
42 29 0.06
43 67 0.13
44 326 0.63
45 31 0.06
46 34 0.07
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTACTGCTTAGGGAGATAAGATTCGCCGTCTTC
Found at i:16647075 original size:132 final size:132
Alignment explanation
Indices: 16646901--16647770 Score: 1470
Period size: 132 Copynumber: 6.7 Consensus size: 132
16646891 TACTCCACAA
* *
16646901 CTGCTTAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* * *
16646966 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCACAATCTTCAATCTTCTCCAC
66 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCAC
*
16647031 TA
131 TG
16647033 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* *
16647098 GCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCAC
66 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCAC
16647163 TG
131 TG
16647165 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGA---
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
*
16647227 ----T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCT-CAC
66 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCAC
16647286 TG
131 TG
*
16647288 CTGCTCAGGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* * *
16647353 ACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACACTCTACAACCTTCTCCAC
66 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCAC
16647418 TG
131 TG
*
16647420 CTGCTCAGGAAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* * *
16647485 GCCGTCTTCGATCTGCTCCACTACTGCATAGGGAGATAAGACCTACACTCTACAACCTTCTCCAC
66 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCAC
16647550 TG
131 TG
*
16647552 CTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* * *
16647617 GCCGTCTTCGATCTGCTACACTACTACTTAGGGAGATAAGATCTACACTCTACAACCTTCTCCAC
66 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCAC
16647682 TG
131 TG
*
16647684 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
*
16647749 GCCGTCTTCGATCTACTCCACT
66 GCCGTCTTCGATCTGCTCCACT
16647771 GTCAATGCAG
Statistics
Matches: 702, Mismatches: 27, Indels: 18
0.94 0.04 0.02
Matches are distributed among these distances:
123 66 0.09
124 54 0.08
125 1 0.00
130 1 0.00
131 52 0.07
132 528 0.75
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCAC
TG
Found at i:16647578 original size:387 final size:390
Alignment explanation
Indices: 16646901--16647770 Score: 1458
Period size: 387 Copynumber: 2.2 Consensus size: 390
16646891 TACTCCACAA
* *
16646901 CTGCTTAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* *
16646966 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCACAATCTTCAATCTTCTCCAC
66 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCACAATCTACAACCTTCTCCAC
*
16647031 TACTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
131 TACTGCTCAGGAAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
* * *
16647096 TCGCCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCC
196 TCGCCGTCTTCAATCTGCTCCACTACTGCATAGGGAGATAAGACCTACAATCTACAACCTTCTCC
16647161 ACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAG
261 ACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAG
* * *
16647226 A-T-TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCT-CACTG
326 ACTCTTCGATCTGCTACACTACTACTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCACTG
*
16647288 CTGCTCAGGGAAACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
* * * *
16647353 ACCGTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACACTCTACAACCTTCTCCAC
66 GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCACAATCTACAACCTTCTCCAC
*
16647418 TGCTGCTCAGGAAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
131 TACTGCTCAGGAAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
* *
16647483 TCGCCGTCTTCGATCTGCTCCACTACTGCATAGGGAGATAAGACCTACACTCTACAACCTTCTCC
196 TCGCCGTCTTCAATCTGCTCCACTACTGCATAGGGAGATAAGACCTACAATCTACAACCTTCTCC
*
16647548 ACTGCTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAG
261 ACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAG
*
16647613 ATTCGCCGTCTTCGATCTGCTACACTACTACTTAGGGAGATAAGATCTACACTCTACAACCTTCT
326 A-----C-TCTTCGATCTGCTACACTACTACTTAGGGAGATAAGATCTACAATCTACAACCTTCT
16647678 CCACTG
385 CCACTG
*
16647684 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
1 CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
*
16647749 GCCGTCTTCGATCTACTCCACT
66 GCCGTCTTCGATCTGCTCCACT
16647771 GTCAATGCAG
Statistics
Matches: 448, Mismatches: 26, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
387 309 0.69
394 1 0.00
395 51 0.11
396 87 0.19
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (390 bp):
CTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTC
GCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCCACAATCTACAACCTTCTCCAC
TACTGCTCAGGAAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGAT
TCGCCGTCTTCAATCTGCTCCACTACTGCATAGGGAGATAAGACCTACAATCTACAACCTTCTCC
ACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAG
ACTCTTCGATCTGCTACACTACTACTTAGGGAGATAAGATCTACAATCTACAACCTTCTCCACTG
Found at i:16668893 original size:22 final size:22
Alignment explanation
Indices: 16668830--16668895 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
16668820 TATTGTTCAA
* *
16668830 ACATGAGAGCTTAGTACGTGAA
1 ACATGAGAGCTTAGTACGTTAG
16668852 ACATGAGAGCTTAGTACGTTAG
1 ACATGAGAGCTTAGTACGTTAG
*
16668874 CCATGAGAGCTTAGTACGTTAG
1 ACATGAGAGCTTAGTACGTTAG
16668896 GGTGACATCC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (22 bp):
ACATGAGAGCTTAGTACGTTAG
Found at i:16675757 original size:19 final size:20
Alignment explanation
Indices: 16675713--16675757 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
16675703 ATCATGTTCA
16675713 TATTTTTAACATAATTTAAT
1 TATTTTTAACATAATTTAAT
*
16675733 CA-TTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
16675751 TATTTTT
1 TATTTTT
16675758 TGACAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 8 0.38
19 11 0.52
20 2 0.10
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:16693643 original size:12 final size:12
Alignment explanation
Indices: 16693628--16693652 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16693618 ATGTTTTTCT
16693628 TAGTTGTTTTTG
1 TAGTTGTTTTTG
16693640 TAGTTGTTTTTG
1 TAGTTGTTTTTG
16693652 T
1 T
16693653 TTTTATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (12 bp):
TAGTTGTTTTTG
Found at i:16694904 original size:11 final size:11
Alignment explanation
Indices: 16694843--16694896 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
16694833 AAAATTGAAG
16694843 CACCACCATAC
1 CACCACCATAC
* *
16694854 AACCACCATAT
1 CACCACCATAC
*
16694865 CACCACCACAC
1 CACCACCATAC
*
16694876 CACTACCATAC
1 CACCACCATAC
16694887 CACCACCATA
1 CACCACCATA
16694897 TCGCCACCCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 35 1.00
ACGTcount: A:0.39, C:0.50, G:0.00, T:0.11
Consensus pattern (11 bp):
CACCACCATAC
Found at i:16695790 original size:47 final size:47
Alignment explanation
Indices: 16695682--16695792 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 47
16695672 AATTTAATAA
* * *
16695682 TCTACAAATATTGGTGGTTTATCCACAACTATGTGTATTGGTAGTTTG
1 TCTACAAA-ATTGGTGGCTTATCAACAACTATGTGTATTGGTAGCTTG
*** ** * *
16695730 TCTGTGATTTTGGTGGCTTGTCAACAACTATTTGTATTGGTAGCTTG
1 TCTACAAAATTGGTGGCTTATCAACAACTATGTGTATTGGTAGCTTG
16695777 TCTACAAAATTGGTGG
1 TCTACAAAATTGGTGG
16695793 TTTTTCCACA
Statistics
Matches: 48, Mismatches: 15, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
47 44 0.92
48 4 0.08
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (47 bp):
TCTACAAAATTGGTGGCTTATCAACAACTATGTGTATTGGTAGCTTG
Found at i:16697010 original size:43 final size:42
Alignment explanation
Indices: 16696945--16697059 Score: 119
Period size: 41 Copynumber: 2.7 Consensus size: 42
16696935 AACTCGTACA
* *
16696945 ATGCCATATCCCAGATATGGTCTTACATGTTAATGCATAT-CG
1 ATGCCATGTCCCAGACATGGTCTTACATGTTAAT-CATATACG
* * * *
16696987 ATGCCACTGTCCCAGACAGGGTCTTATACG--AATCATATATG
1 ATGCCA-TGTCCCAGACATGGTCTTACATGTTAATCATATACG
*
16697028 ATGCTGATGTCCCAGACATGGTCTTACATGTT
1 ATGC-CATGTCCCAGACATGGTCTTACATGTT
16697060 TTCTAACTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
40 5 0.09
41 28 0.48
42 7 0.12
43 18 0.31
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (42 bp):
ATGCCATGTCCCAGACATGGTCTTACATGTTAATCATATACG
Found at i:16712352 original size:16 final size:17
Alignment explanation
Indices: 16712321--16712354 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
16712311 CATTATAAGT
*
16712321 AAAATTCATATGTTATA
1 AAAATTCATATATTATA
16712338 AAAATTC-TATATTATA
1 AAAATTCATATATTATA
16712354 A
1 A
16712355 TATTTATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (17 bp):
AAAATTCATATATTATA
Found at i:16712550 original size:27 final size:26
Alignment explanation
Indices: 16712520--16712578 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
16712510 ATAACCGCAA
16712520 ATATATTATATATAATAAAACCCACAC
1 ATATATTATATATAATAAAA-CCACAC
* * * *
16712547 ATATATTATGTATAGTAGAACCACTC
1 ATATATTATATATAATAAAACCACAC
16712573 ATATAT
1 ATATAT
16712579 ATGTACTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.46, C:0.15, G:0.05, T:0.34
Consensus pattern (26 bp):
ATATATTATATATAATAAAACCACAC
Found at i:16715765 original size:22 final size:21
Alignment explanation
Indices: 16715716--16715767 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
16715706 TGGTTGCTCT
*
16715716 ACGGTGATTGAATGGTGGTGG
1 ACGGTGGTTGAATGGTGGTGG
*
16715737 ACTGGTGGTTGTATGGTGGTGG
1 AC-GGTGGTTGAATGGTGGTGG
*
16715759 TTCGGTGGT
1 -ACGGTGGT
16715768 GGTAGAGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.08
22 23 0.88
23 1 0.04
ACGTcount: A:0.12, C:0.06, G:0.48, T:0.35
Consensus pattern (21 bp):
ACGGTGGTTGAATGGTGGTGG
Found at i:16716753 original size:13 final size:13
Alignment explanation
Indices: 16716735--16716759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16716725 TAGTTTACCG
16716735 AAATTATTATAAT
1 AAATTATTATAAT
16716748 AAATTATTATAA
1 AAATTATTATAA
16716760 ATATGATTTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:16718424 original size:41 final size:41
Alignment explanation
Indices: 16718375--16718463 Score: 153
Period size: 41 Copynumber: 2.2 Consensus size: 41
16718365 TTTATTCATC
*
16718375 GAACCTTAGTACTTA-TTTTAAGCCAAAAAATACTTCTTGAT
1 GAACCTTAGTACTTATTTTTAA-CCAAAAAATACTTCTTAAT
16718416 GAACCTTAGTACTTATTTTTAACCAAAAAATACTTCTTAAT
1 GAACCTTAGTACTTATTTTTAACCAAAAAATACTTCTTAAT
16718457 GAACCTT
1 GAACCTT
16718464 CATACAAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 40 0.87
42 6 0.13
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (41 bp):
GAACCTTAGTACTTATTTTTAACCAAAAAATACTTCTTAAT
Found at i:16719425 original size:19 final size:19
Alignment explanation
Indices: 16719398--16719434 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
16719388 AAATCTAAGT
16719398 AAAAACTAAGAAT-AAAAG
1 AAAAACTAAGAATCAAAAG
16719416 AAAAACCTAAGAATCAAAA
1 AAAAA-CTAAGAATCAAAA
16719435 CCCTAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.70, C:0.11, G:0.08, T:0.11
Consensus pattern (19 bp):
AAAAACTAAGAATCAAAAG
Found at i:16720343 original size:23 final size:23
Alignment explanation
Indices: 16720298--16720362 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
16720288 CTTCTTACGG
*
16720298 GGAGAAATAAGGAAGGTGAAAGAA
1 GGAGAAATAAGGCA-GTGAAAGAA
16720322 GGAGAAATAAGGCAGTGAAAGAA
1 GGAGAAATAAGGCAGTGAAAGAA
*
16720345 GGAGAAATAAGGCGGTGA
1 GGAGAAATAAGGCAGTGA
16720363 GTAGGCAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 26 0.67
24 13 0.33
ACGTcount: A:0.49, C:0.03, G:0.38, T:0.09
Consensus pattern (23 bp):
GGAGAAATAAGGCAGTGAAAGAA
Found at i:16721420 original size:7 final size:7
Alignment explanation
Indices: 16721408--16721435 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
16721398 TTCCTTCTAA
16721408 TTTAGTT
1 TTTAGTT
16721415 TTTAGTT
1 TTTAGTT
16721422 TTTAGTT
1 TTTAGTT
16721429 TTTAGTT
1 TTTAGTT
16721436 CTTTTTAGAC
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:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (7 bp):
TTTAGTT
Found at i:16730025 original size:21 final size:18
Alignment explanation
Indices: 16729973--16730015 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
16729963 ATGTTCAAAT
*
16729973 TTTTAATAAAATTTAATTA
1 TTTT-ATAAAAATTAATTA
16729992 TTTTATAAAAATTAATTA
1 TTTTATAAAAATTAATTA
16730010 TTTTAT
1 TTTTAT
16730016 GACAAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTATAAAAATTAATTA
Found at i:16733543 original size:37 final size:40
Alignment explanation
Indices: 16733471--16733562 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 40
16733461 AATCTTGTCG
* * *
16733471 AATAAAAATAAA-ATAAATTAGAAATAAGTAGAACAAA-A
1 AATAAATATAAATATAAATTAGAAATAACTAAAACAAATA
*
16733509 AATAAATATAAATATAAA-TA-AAATTACTAAAACAAATA
1 AATAAATATAAATATAAATTAGAAATAACTAAAACAAATA
16733547 AGA-AAATA-AAATATAA
1 A-ATAAATATAAATATAA
16733563 TTGGGTTGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
37 21 0.45
38 20 0.43
39 6 0.13
ACGTcount: A:0.71, C:0.03, G:0.04, T:0.22
Consensus pattern (40 bp):
AATAAATATAAATATAAATTAGAAATAACTAAAACAAATA
Found at i:16734372 original size:11 final size:11
Alignment explanation
Indices: 16734356--16734390 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
16734346 GAACAGTAAT
16734356 TTACCCATTCA
1 TTACCCATTCA
16734367 TTACCCATTCA
1 TTACCCATTCA
*
16734378 TTACCCATACA
1 TTACCCATTCA
16734389 TT
1 TT
16734391 TGGATGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.29, C:0.34, G:0.00, T:0.37
Consensus pattern (11 bp):
TTACCCATTCA
Found at i:16743588 original size:20 final size:21
Alignment explanation
Indices: 16743563--16743602 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16743553 TTTTTAGGAA
*
16743563 TTAAAT-AAATATAATAATTT
1 TTAAATCAAAAATAATAATTT
*
16743583 TTAAATCAAAAATTATAATT
1 TTAAATCAAAAATAATAATT
16743603 ACATTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAATCAAAAATAATAATTT
Found at i:16748819 original size:26 final size:26
Alignment explanation
Indices: 16748753--16748830 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
16748743 CCATCATGCT
* *
16748753 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAC
* * *
16748779 AATAACACAGAAAAGCTGTCAGTAAC
1 AATAACGCAGCAAAGCTGCCAGTAAC
* * *
16748805 AGTAATGCAGCAAAGTTGCCAGTAAC
1 AATAACGCAGCAAAGCTGCCAGTAAC
16748831 GGTATATGTG
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAC
Found at i:16749041 original size:27 final size:27
Alignment explanation
Indices: 16749011--16749127 Score: 121
Period size: 27 Copynumber: 4.3 Consensus size: 27
16749001 AGGGTTATAA
* *
16749011 CAGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTTTAGGGGTAATT
*
16749038 CAGTCATTTTACCC-TTCGAGGGTAATT
1 CAGTCATTTTACCCTTTAG-GGGTAATT
* * * *
16749065 CGGTCATTTTATCTTTTGGGGGTAATT
1 CAGTCATTTTACCCTTTAGGGGTAATT
*
16749092 C-GATCATTTTACCCTTTTGGGGTAATT
1 CAG-TCATTTTACCCTTTAGGGGTAATT
*
16749119 CGGTCATTT
1 CAGTCATTT
16749128 GTGGCCCATT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
26 3 0.04
27 69 0.91
28 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTTTAGGGGTAATT
Found at i:16756072 original size:26 final size:26
Alignment explanation
Indices: 16756030--16756080 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
16756020 ACACCAATAT
* *
16756030 CGCAGCAAAGTTTCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAACAGTAA
16756056 CGCAGCAAAGCTGCCAGTAACAGTA
1 CGCAGCAAAGCTGCCAGTAACAGTA
16756081 TATGTGACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.16
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAACAGTAA
Found at i:16757344 original size:25 final size:25
Alignment explanation
Indices: 16757310--16757450 Score: 110
Period size: 25 Copynumber: 5.6 Consensus size: 25
16757300 GGTTGTTACA
16757310 CTTTTCATAAGATTAGCCACAAAGG
1 CTTTTCATAAGATTAGCCACAAAGG
* *
16757335 CTTTTCATAATATTAGCTACAAAGG
1 CTTTTCATAAGATTAGCCACAAAGG
* *
16757360 CTTTCCAGATA-A-TATGCCACAAAGG
1 CTTTTCATA-AGATTA-GCCACAAAGG
* ** *
16757385 ATTTTCATAAGATTAATCATAAAGG
1 CTTTTCATAAGATTAGCCACAAAGG
* * * *
16757410 CTTTCCA-AATAATACTCCACCAAA-G
1 CTTTTCATAAGATTA-GCCA-CAAAGG
16757435 CTTTTCATAAGATTAG
1 CTTTTCATAAGATTAG
16757451 GGTTCAGTTT
Statistics
Matches: 87, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
24 8 0.09
25 68 0.78
26 11 0.13
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (25 bp):
CTTTTCATAAGATTAGCCACAAAGG
Found at i:16757409 original size:50 final size:52
Alignment explanation
Indices: 16757325--16757449 Score: 161
Period size: 50 Copynumber: 2.5 Consensus size: 52
16757315 CATAAGATTA
* *
16757325 GCCACAAAGGCTTTTCATAATATT-AGCTACAAAGGCTTTCCAGATAATA-T
1 GCCACAAAGGCTTTTCATAAGATTAAGCTACAAAGGCTTTCCAAATAATACT
* * *
16757375 GCCACAAAGGATTTTCATAAGATTAATC-ATAAAGGCTTTCCAAATAATACT
1 GCCACAAAGGCTTTTCATAAGATTAAGCTACAAAGGCTTTCCAAATAATACT
16757426 -CCACCAAA-GCTTTTCATAAGATTA
1 GCCA-CAAAGGCTTTTCATAAGATTA
16757450 GGGTTCAGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
50 59 0.89
51 7 0.11
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (52 bp):
GCCACAAAGGCTTTTCATAAGATTAAGCTACAAAGGCTTTCCAAATAATACT
Found at i:16757575 original size:5 final size:5
Alignment explanation
Indices: 16757565--16757591 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16757555 AGATACGAGT
16757565 TTTAA TTTAA TTTAA TTTAA TTTAA TT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT
16757592 CATATTAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:16761954 original size:25 final size:24
Alignment explanation
Indices: 16761926--16761997 Score: 65
Period size: 24 Copynumber: 3.0 Consensus size: 24
16761916 ATCCAGGAAA
*
16761926 TATAACATGAAGCTCACAAAGAGCC
1 TATAACAGGAAGCTC-CAAAGAGCC
* *
16761951 TATAACGGGTAGCTCCAAAGAGCAC
1 TATAACAGGAAGCTCCAAAGAGC-C
* * *
16761976 T-TAACGGGTAGCTCTAAAGAGC
1 TATAACAGGAAGCTCCAAAGAGC
16761998 ACTTAACGGG
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 28 0.67
25 14 0.33
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (24 bp):
TATAACAGGAAGCTCCAAAGAGCC
Found at i:16761980 original size:24 final size:24
Alignment explanation
Indices: 16761936--16762011 Score: 118
Period size: 24 Copynumber: 3.1 Consensus size: 24
16761926 TATAACATGA
16761936 AGCTCACAAAGAGC-CTATAACGGGT
1 AGCTC-CAAAGAGCACT-TAACGGGT
16761961 AGCTCCAAAGAGCACTTAACGGGT
1 AGCTCCAAAGAGCACTTAACGGGT
*
16761985 AGCTCTAAAGAGCACTTAACGGGT
1 AGCTCCAAAGAGCACTTAACGGGT
16762009 AGC
1 AGC
16762012 ACCGGATAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
24 42 0.86
25 7 0.14
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (24 bp):
AGCTCCAAAGAGCACTTAACGGGT
Found at i:16768044 original size:51 final size:51
Alignment explanation
Indices: 16767909--16768044 Score: 195
Period size: 50 Copynumber: 2.7 Consensus size: 51
16767899 AGTGAAAGTG
*
16767909 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGAT
* * * *
16767960 A-GGTCGCACGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGAT
*
16768009 AATGGCCACATGTGTAGTACTATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
16768045 TGTGAACCGA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 7 0.09
50 37 0.49
51 31 0.41
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACATGTACCGGAATGAT
Found at i:16768048 original size:26 final size:26
Alignment explanation
Indices: 16767969--16768048 Score: 69
Period size: 26 Copynumber: 3.1 Consensus size: 26
16767959 TAGGTCGCAC
*
16767969 GTGTAGTACTATGTGCAGGCTACTAC
1 GTGTAGTACTATGTGCAGGCTACTAT
* * *
16767995 GTGTA-T-CGAATGAT-AATGGCCAC-AT
1 GTGTAGTAC-TATG-TGCA-GGCTACTAT
16768020 GTGTAGTACTATGTGCAGGCTACTAT
1 GTGTAGTACTATGTGCAGGCTACTAT
16768046 GTG
1 GTG
16768049 AACCGAACAT
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.03
25 17 0.43
26 21 0.52
27 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (26 bp):
GTGTAGTACTATGTGCAGGCTACTAT
Found at i:16768106 original size:45 final size:45
Alignment explanation
Indices: 16768055--16768140 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
16768045 TGTGAACCGA
* * * *
16768055 ACATCATTAATTAGTATGGTGGTTGCTATGTGTTGATTCCATCAG
1 ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCATCAG
*
16768100 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCA
1 ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCA
16768141 CCGAGTATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (45 bp):
ACATCATTAATTAATAAGGTGGTTGCTATGTGCTGAATCCATCAG
Found at i:16772292 original size:75 final size:75
Alignment explanation
Indices: 16772164--16772863 Score: 532
Period size: 75 Copynumber: 9.3 Consensus size: 75
16772154 CAATTTGCTA
* ** * *
16772164 ACCTATGTTCACAGTTGATATTTTTATGGT-TCGTTGATTTAAGATCGCAACCCTTAGTTTTCTA
1 ACCTACGTTCACAACTGATATTTTTATGGTCT-ATTGATTTAAGATCGCAACCCTCAGTTTTCTA
* * *
16772228 TCATCTCACTG
65 ACAGCTCGCTG
* * * * * *
16772239 ACCTACATTCATAGCTGATATTTTT-TCGGTCTATTGATTTAAGACCGCGACCCTCAATTTTCTA
1 ACCTACGTTCACAACTGATATTTTTAT-GGTCTATTGATTTAAGATCGCAACCCTCAGTTTTCTA
*
16772303 ACAGCTCGCTA
65 ACAGCTCGCTG
* * * * ** * ** *
16772314 ACCTATGTTCACAATTGATATTTTTACGATCTGCTAATTTAAGATCGTGACCCTCAATTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTATGGTCTATTGATTTAAGATCGCAACCCTCAGTTTTCTAA
16772379 CAGCTCGCTG
66 CAGCTCGCTG
* * * * *
16772389 ACTTATGTTCACAACTGATATTTTTATGGT-TCATTGATTTAAGATTGCAATCCTC-GACTTTCT
1 ACCTACGTTCACAACTGATATTTTTATGGTCT-ATTGATTTAAGATCGCAACCCTCAG-TTTTCT
16772452 AACAGCTCGCTG
64 AACAGCTCGCTG
** *
16772464 ACCTACGTTCACAACTGATATTTTTATGGTCTGCTGATTTAAGATCGTAACCCTCAGTTTTCTAA
1 ACCTACGTTCACAACTGATATTTTTATGGTCTATTGATTTAAGATCGCAACCCTCAGTTTTCTAA
*
16772529 TAGCTCGCTG
66 CAGCTCGCTG
* ** * * *** * **
16772539 ACCTACATTCACAGTTGACATTTTTAAGGTCCGCTGATTTAAGATTGTGACCCTC-GATTTTCTA
1 ACCTACGTTCACAACTGATATTTTTATGGTCTATTGATTTAAGATCGCAACCCTCAG-TTTTCTA
*
16772603 ACAGCTGGCTG
65 ACAGCTCGCTG
* * ** * * ** *
16772614 ACCTACGTTCACAACTAATATTTTTACGGTCTGCTAATTTCAA-ATTGCGCCCCTTAGTTTTCTA
1 ACCTACGTTCACAACTGATATTTTTATGGTCTATTGATTT-AAGATCGCAACCCTCAGTTTTCTA
16772678 ACAGCTCGCTG
65 ACAGCTCGCTG
* * * ** ** * *
16772689 ACCTACGTTCACAACTAAAACTTTTT-CGGTCCGTTGATTTAAGATCGTGACCCTCAATTTGCTA
1 ACCTACGTTCACAACTGATA-TTTTTATGGTCTATTGATTTAAGATCGCAACCCTCAGTTTTCTA
* **
16772753 ACTGCTCATTG
65 ACAGCTCGCTG
** ** * ** * * * * * *
16772764 ACCTACGTTCACATTTGATATTTTTACCGTTTGCTAATTTATGATTGCAGCCCTCAATTTTTTAA
1 ACCTACGTTCACAACTGATATTTTTATGGTCTATTGATTTAAGATCGCAACCCTCAGTTTTCTAA
*
16772829 CAGCTCGTTG
66 CAGCTCGCTG
16772839 ACCTACTACGTTCACAACTGATATT
1 A-C--CTACGTTCACAACTGATATT
16772864 ATTAAGGTTT
Statistics
Matches: 506, Mismatches: 103, Indels: 29
0.79 0.16 0.05
Matches are distributed among these distances:
74 10 0.02
75 466 0.92
76 12 0.02
78 18 0.04
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (75 bp):
ACCTACGTTCACAACTGATATTTTTATGGTCTATTGATTTAAGATCGCAACCCTCAGTTTTCTAA
CAGCTCGCTG
Found at i:16772431 original size:150 final size:150
Alignment explanation
Indices: 16772164--16772916 Score: 674
Period size: 150 Copynumber: 5.0 Consensus size: 150
16772154 CAATTTGCTA
* * * * * ** *
16772164 ACCTATGTTCACAGTTGATATTTTTATGGT-TCGTTGATTTAAGATCGCAACCCTTAGTTTTCTA
1 ACCTACGTTCACAATTGATATTTTTACGGTCT-GCTAATTTAAGATCGTGACCCTCAGTTTTCTA
* * * * * * ** *
16772228 TCATCTCACTGACCTACATTCATAGCTGATATTTTTTCGG-TCTATTGATTTAAGACCGCGACCC
65 ACAGCTCGCTGACCTACGTTCACAACTGATATTTTTAAGGTTC-ATTGATTTAAGATCGCGACCC
*
16772292 TCAATTTTCTAACAGCTCGCTA
129 TCAATTTTCTAACAGCTCGCTG
* * *
16772314 ACCTATGTTCACAATTGATATTTTTACGATCTGCTAATTTAAGATCGTGACCCTCAATTTTCTAA
1 ACCTACGTTCACAATTGATATTTTTACGGTCTGCTAATTTAAGATCGTGACCCTCAGTTTTCTAA
* * * * * *
16772379 CAGCTCGCTGACTTATGTTCACAACTGATATTTTTATGGTTCATTGATTTAAGATTGCAATCCTC
66 CAGCTCGCTGACCTACGTTCACAACTGATATTTTTAAGGTTCATTGATTTAAGATCGCGACCCTC
* *
16772444 GACTTTCTAACAGCTCGCTG
131 AATTTTCTAACAGCTCGCTG
* * * *
16772464 ACCTACGTTCACAACTGATATTTTTATGGTCTGCTGATTTAAGATCGTAACCCTCAGTTTTCTAA
1 ACCTACGTTCACAATTGATATTTTTACGGTCTGCTAATTTAAGATCGTGACCCTCAGTTTTCTAA
* * ** * * ** * *
16772529 TAGCTCGCTGACCTACATTCACAGTTGACATTTTTAAGGTCCGCTGATTTAAGATTGTGACCCTC
66 CAGCTCGCTGACCTACGTTCACAACTGATATTTTTAAGGTTCATTGATTTAAGATCGCGACCCTC
* *
16772594 GATTTTCTAACAGCTGGCTG
131 AATTTTCTAACAGCTCGCTG
* * * * * *
16772614 ACCTACGTTCACAACTAATATTTTTACGGTCTGCTAATTTCAA-ATTGCGCCCCTTAGTTTTCTA
1 ACCTACGTTCACAATTGATATTTTTACGGTCTGCTAATTT-AAGATCGTGACCCTCAGTTTTCTA
* * * * * *
16772678 ACAGCTCGCTGACCTACGTTCACAACTAAAACTTTTT-CGGTCCGTTGATTTAAGATCGTGACCC
65 ACAGCTCGCTGACCTACGTTCACAACTGATA-TTTTTAAGGTTCATTGATTTAAGATCGCGACCC
* * **
16772742 TCAATTTGCTAACTGCTCATTG
129 TCAATTTTCTAACAGCTCGCTG
* * * * * *
16772764 ACCTACGTTCACATTTGATATTTTTACCGTTTGCTAATTTATGAT--TGCAGCCCTCAATTTTTT
1 ACCTACGTTCACAATTGATATTTTTACGGTCTGCTAATTTAAGATCGTG-A-CCCTCAGTTTTCT
* * * * * * *
16772827 AACAGCTCGTTGACCTACTACGTTCACAACTGATATTATTAAGGTTTACTCGATTGAAGATTGTG
64 AACAGCTCGCTGA-C--CTACGTTCACAACTGATATTTTTAAGGTTCA-TTGATTTAAGATCGCG
* *
16772892 ACCTTCAATATTT-TAACAGTTCGCT
125 ACCCTCAAT-TTTCTAACAGCTCGCT
16772917 CGATTTCATA
Statistics
Matches: 490, Mismatches: 100, Indels: 22
0.80 0.16 0.04
Matches are distributed among these distances:
148 1 0.00
149 1 0.00
150 423 0.86
151 11 0.02
152 4 0.01
153 19 0.04
154 29 0.06
155 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (150 bp):
ACCTACGTTCACAATTGATATTTTTACGGTCTGCTAATTTAAGATCGTGACCCTCAGTTTTCTAA
CAGCTCGCTGACCTACGTTCACAACTGATATTTTTAAGGTTCATTGATTTAAGATCGCGACCCTC
AATTTTCTAACAGCTCGCTG
Found at i:16772564 original size:225 final size:221
Alignment explanation
Indices: 16772170--16772872 Score: 741
Period size: 225 Copynumber: 3.1 Consensus size: 221
16772160 GCTAACCTAT
** * * *
16772170 GTTCACAGTTGATATTTTTATGGTTCGTTGATTTAAGATCGCAACCCTTAGTTTTCTATCATCTC
1 GTTCACAACTGATATTTTTATGGTTC-TTGATTTAAGATTGCAACCCTTAGTTTTCTAACAGCTC
* * * * * * *
16772235 ACTGACCTACATTCATAGCTGATATTTTTTCGGTCTATTGATTTAAGACCGCGACCCTCAATTTT
65 GCTGACCTACGTTCACAACTGATATTTTTT-GGTCTGTTGATTTAAGATCGTGACCCTCAATTTT
* * *
16772300 CTAACAGCTCGCTAACCTATGTTCACAATTGATATTTTTACGATCTGCTAATTTAAGATCGTGAC
129 CTAATAGCTCGCTGACCTACGTTCACAATTGATATTTTTACG-TCTGCTAATTTAAGAT-GTGAC
*
16772365 CCTCAATTTTCTAACAGCTCGCTGACTTAT
192 CCTCAATTTTCTAACAGCTCGCTGACTTAC
* * *
16772395 GTTCACAACTGATATTTTTATGGTTCATTGATTTAAGATTGCAATCC-TCGACTTTCTAACAGCT
1 GTTCACAACTGATATTTTTATGGTTC-TTGATTTAAGATTGCAACCCTTAG-TTTTCTAACAGCT
* * *
16772459 CGCTGACCTACGTTCACAACTGATATTTTTATGGTCTGCTGATTTAAGATCGTAACCCTCAGTTT
64 CGCTGACCTACGTTCACAACTGATATTTTT-TGGTCTGTTGATTTAAGATCGTGACCCTCAATTT
* * * * * *
16772524 TCTAATAGCTCGCTGACCTACATTCACAGTTGACATTTTTAAGGTCCGCTGATTTAAGATTGTGA
128 TCTAATAGCTCGCTGACCTACGTTCACAATTGATATTTTT-ACGTCTGCTAATTTAAGA-TGTGA
* * *
16772589 CCCTCGATTTTCTAACAGCTGGCTGACCTAC
191 CCCTCAATTTTCTAACAGCTCGCTGACTTAC
* * * **
16772620 GTTCACAACTAATATTTTTACGG-TCTGCTAATTTCAA-ATTGCGCCCCTTAGTTTTCTAACAGC
1 GTTCACAACTGATATTTTTATGGTTCT--TGATTT-AAGATTGCAACCCTTAGTTTTCTAACAGC
* * * *
16772683 TCGCTGACCTACGTTCACAACTAAAACTTTTTCGGTCCGTTGATTTAAGATCGTGACCCTCAATT
63 TCGCTGACCTACGTTCACAACTGATA-TTTTTTGGTCTGTTGATTTAAGATCGTGACCCTCAATT
* ** * * *
16772748 TGCTAACT-GCTCATTGACCTACGTTCACATTTGATATTTTTACCGTTTGCTAATTTATGAT-TG
127 TTCTAA-TAGCTCGCTGACCTACGTTCACAATTGATATTTTTA-CGTCTGCTAATTTAAGATGTG
* *
16772811 CAGCCCTCAATTTTTTAACAGCTCGTTGACCTACTAC
190 -A-CCCTCAATTTTCTAACAGCTCGCTGA-CT--TAC
* *
16772848 GTTCACAACTGATATTATTAAGGTT
1 GTTCACAACTGATATTTTTATGGTT
16772873 TACTCGATTG
Statistics
Matches: 395, Mismatches: 66, Indels: 30
0.80 0.13 0.06
Matches are distributed among these distances:
223 3 0.01
224 7 0.02
225 346 0.88
226 15 0.04
228 23 0.06
229 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.38
Consensus pattern (221 bp):
GTTCACAACTGATATTTTTATGGTTCTTGATTTAAGATTGCAACCCTTAGTTTTCTAACAGCTCG
CTGACCTACGTTCACAACTGATATTTTTTGGTCTGTTGATTTAAGATCGTGACCCTCAATTTTCT
AATAGCTCGCTGACCTACGTTCACAATTGATATTTTTACGTCTGCTAATTTAAGATGTGACCCTC
AATTTTCTAACAGCTCGCTGACTTAC
Found at i:16774454 original size:30 final size:30
Alignment explanation
Indices: 16774418--16774491 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
16774408 ATAAATAAAA
16774418 TTTTTAATAAAAATA-ACTAATTTATTT-T
1 TTTTTAATAAAAATAGACTAATTTATTTAT
** *
16774446 TTAATTTAATATTAATAGATTAATTTATTTAT
1 TT--TTTAATAAAAATAGACTAATTTATTTAT
16774478 TTTTTAAGTAAAAA
1 TTTTTAA-TAAAAA
16774492 AATTAAAACA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
28 2 0.06
30 16 0.44
31 15 0.42
32 3 0.08
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (30 bp):
TTTTTAATAAAAATAGACTAATTTATTTAT
Found at i:16774710 original size:3 final size:3
Alignment explanation
Indices: 16774702--16774742 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
16774692 TATTTCCCCC
16774702 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
16774743 GTTTTTCTCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:16781097 original size:41 final size:41
Alignment explanation
Indices: 16781044--16781266 Score: 306
Period size: 41 Copynumber: 5.5 Consensus size: 41
16781034 TTCAAAATTA
* * * *
16781044 GGGCACATATGTGCAACTCAAGGGTATCGAAGTACAAACAG
1 GGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAG
* * *
16781085 GAGCACGTATGTGCAATTCAAGGGTACCGAAGCACAAACAG
1 GGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAG
* * *
16781126 GGGCACGTATGTGTAATTTAGGGGTACCGAAGCACAAACAG
1 GGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAG
* **
16781167 GGGCACATATGTGCAATTCAGGGGTAGTGAAGTACAAACAG
1 GGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAG
16781208 GGGCAC-TATGTGCAATTCAGGGGTACCGAAGTACAAACAG
1 GGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAG
*
16781248 GGGCACG-CTGTGCAATTCA
1 GGGCACGTATGTGCAATTCA
16781267 TACTATAATT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
40 49 0.30
41 114 0.70
ACGTcount: A:0.33, C:0.19, G:0.30, T:0.18
Consensus pattern (41 bp):
GGGCACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAG
Found at i:16781190 original size:21 final size:20
Alignment explanation
Indices: 16781164--16781230 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
16781154 GAAGCACAAA
16781164 CAGGGGCACATATGTGCAATT
1 CAGGGGCAC-TATGTGCAATT
* * * * *
16781185 CAGGGGTAGTGAAGTACAA-A
1 CAGGGGCACT-ATGTGCAATT
16781205 CAGGGGCACTATGTGCAATT
1 CAGGGGCACTATGTGCAATT
16781225 CAGGGG
1 CAGGGG
16781231 TACCGAAGTA
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
19 6 0.18
20 15 0.44
21 13 0.38
ACGTcount: A:0.30, C:0.16, G:0.34, T:0.19
Consensus pattern (20 bp):
CAGGGGCACTATGTGCAATT
Found at i:16781210 original size:20 final size:20
Alignment explanation
Indices: 16781145--16781250 Score: 63
Period size: 20 Copynumber: 5.2 Consensus size: 20
16781135 TGTGTAATTT
* *
16781145 AGGGGTACCGAAGCACAAAC
1 AGGGGTACTGAAGTACAAAC
* * * *
16781165 AGGGGCACAT-ATGTGCAATTC
1 AGGGGTAC-TGAAGTACAA-AC
*
16781186 AGGGGTAGTGAAGTACAAAC
1 AGGGGTACTGAAGTACAAAC
* * * *
16781206 AGGGGCACT-ATGTGCAATTC
1 AGGGGTACTGAAGTACAA-AC
*
16781226 AGGGGTACCGAAGTACAAAC
1 AGGGGTACTGAAGTACAAAC
16781246 AGGGG
1 AGGGG
16781251 CACGCTGTGC
Statistics
Matches: 60, Mismatches: 21, Indels: 10
0.66 0.23 0.11
Matches are distributed among these distances:
19 6 0.10
20 35 0.58
21 19 0.32
ACGTcount: A:0.34, C:0.18, G:0.33, T:0.15
Consensus pattern (20 bp):
AGGGGTACTGAAGTACAAAC
Found at i:16783908 original size:37 final size:37
Alignment explanation
Indices: 16783800--16783925 Score: 155
Period size: 37 Copynumber: 3.4 Consensus size: 37
16783790 AGCTCTTCGT
*
16783800 AGCATTTGGCGTGTAATCGGTTGGATTAGCTCTT-TGG
1 AGCATTTGGCGTGTTATCGGTTGGATTAGCTCTTAT-G
* * **
16783837 AGCACTTGGAGTCCTATCGGTTGGATTAGCTCTTATG
1 AGCATTTGGCGTGTTATCGGTTGGATTAGCTCTTATG
* *
16783874 AGCGTTTGGCGTGTTATCGGTTGGATTAACTCTTATG
1 AGCATTTGGCGTGTTATCGGTTGGATTAGCTCTTATG
* *
16783911 AACATTTGGCCTGTT
1 AGCATTTGGCGTGTT
16783926 TTGATTTGAT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
37 73 0.99
38 1 0.01
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (37 bp):
AGCATTTGGCGTGTTATCGGTTGGATTAGCTCTTATG
Found at i:16789551 original size:21 final size:21
Alignment explanation
Indices: 16789518--16789574 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
16789508 GTACTATTGT
* *
16789518 TGTGGCTGCATCTGA-TTCTGG
1 TGTGGATGTATCTGACTT-TGG
*
16789539 TGTGGATGTATCTGACTTTGT
1 TGTGGATGTATCTGACTTTGG
*
16789560 TGTTGATGTATCTGA
1 TGTGGATGTATCTGA
16789575 GTGTGCTGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.14, C:0.12, G:0.30, T:0.44
Consensus pattern (21 bp):
TGTGGATGTATCTGACTTTGG
Found at i:16795358 original size:53 final size:54
Alignment explanation
Indices: 16795257--16795381 Score: 123
Period size: 53 Copynumber: 2.3 Consensus size: 54
16795247 ACAACCCAAG
**
16795257 ATTATCTTCTCCTCATTTTAAATTTCTTTTCTAGGACAAAAATTAACATCTCAGT
1 ATTATCTTCTCCT-ATTTTAAATTTCTTTTCTAGGACAAAAACCAACATCTCAGT
* * * * *
16795312 ATTATCTTCT-CT-TTTTATATTCTTTTTTTTAGGATAAAAACCAACATC-CTAGG
1 ATTATCTTCTCCTATTTTAAATT-TCTTTTCTAGGACAAAAACCAACATCTC-AGT
*
16795365 ATTAT-TTCTCCTCTTTT
1 ATTATCTTCTCCTATTTT
16795382 TTTTGGCAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
52 13 0.22
53 30 0.51
54 6 0.10
55 10 0.17
ACGTcount: A:0.27, C:0.19, G:0.06, T:0.48
Consensus pattern (54 bp):
ATTATCTTCTCCTATTTTAAATTTCTTTTCTAGGACAAAAACCAACATCTCAGT
Found at i:16800480 original size:13 final size:13
Alignment explanation
Indices: 16800445--16800482 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
16800435 GAGATATTTG
16800445 TAATTTGAAAACT
1 TAATTTGAAAACT
16800458 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
16800472 TAATTTGAAAA
1 TAATTTGAAAA
16800483 TTTGGAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:16804930 original size:14 final size:14
Alignment explanation
Indices: 16804911--16804944 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16804901 AACCTTAAAT
16804911 CCCTAAC-TCTTAAC
1 CCCTAACGTC-TAAC
16804925 CCCTAACGTCTAAC
1 CCCTAACGTCTAAC
16804939 CCCTAA
1 CCCTAA
16804945 ACCTTAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.29, C:0.44, G:0.03, T:0.24
Consensus pattern (14 bp):
CCCTAACGTCTAAC
Found at i:16804998 original size:15 final size:15
Alignment explanation
Indices: 16804963--16805000 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
16804953 TCCCAACCCT
16804963 TAAA-CCATAATCTC
1 TAAATCCATAATCTC
16804977 T-AATCCATAATCTC
1 TAAATCCATAATCTC
16804991 TAAATCCATA
1 TAAATCCATA
16805001 CTCCCTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAATCCATAATCTC
Found at i:16805008 original size:15 final size:15
Alignment explanation
Indices: 16804963--16805009 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
16804953 TCCCAACCCT
*
16804963 TAAA-CCATAATCTC
1 TAAATCCATAATCCC
*
16804977 T-AATCCATAATCTC
1 TAAATCCATAATCCC
*
16804991 TAAATCCATACTCCC
1 TAAATCCATAATCCC
16805006 TAAA
1 TAAA
16805010 CCTTAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 2 0.07
14 12 0.41
15 15 0.52
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:16805220 original size:22 final size:22
Alignment explanation
Indices: 16805195--16805238 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
16805185 CCTAACTCTT
*
16805195 AACCCCTAA-TGTCTAACCCCTA
1 AACCCCTAACTCT-TAACCCCTA
16805217 AACCCCTAACTCTTAACCCCTA
1 AACCCCTAACTCTTAACCCCTA
16805239 CACCTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.32, C:0.43, G:0.02, T:0.23
Consensus pattern (22 bp):
AACCCCTAACTCTTAACCCCTA
Found at i:16805305 original size:295 final size:284
Alignment explanation
Indices: 16804800--16805377 Score: 797
Period size: 295 Copynumber: 2.0 Consensus size: 284
16804790 CAATATATTT
* * *
16804800 AATTTATTATTATCTCTTTTAGAATTATATAAGAACATATTTAAAATATAAATTAAAAATTAATT
1 AATTTATTATTATCTCCTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATT
* * * *
16804865 TAAACCCAAAACCCTAACCCGAACCCTGAATTCCTAAACCTTAAATCCCTAACTCTTAACCCCTA
66 TAAACCCAAAACCCTAACCCGAACCCTAAATCCCTAAACCTTAAACCCCTAACTCTAAACCCCTA
* * *
16804930 ACGTCTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAATCTCTAATCCATAATCTCTAAA
131 ACGTCTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAACCCCTAATCCATAATCCCTAAA
*
16804995 TCCATACTCCCTAAACCTTAAAATA-TGAACTCCTAAAC-CGCTCTTAAATCTTAAATTAATCAT
196 TCCATACTCCCTAAACCTTAAAATAGT-AACTCCTAAACTCGC-CTTAAATCTTAAATAAATCAT
*
16805058 ATACCCTAAACTAAAAACCCTAAACA
259 ATACCCTAAACCAAAAACCCTAAACA
16805084 AATTTATTATTATCTCCTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATT
1 AATTTATTATTATCTCCTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATT
*
16805149 AAGGTAAACCCAAAACCCTAACCCGACCCCTAAATCCCT-AACTCTT-AACCCCTAATGTCTAAC
66 ----TAAACCCAAAACCCTAACCCGAACCCTAAATCCCTAAAC-CTTAAACCCCTAA---CT---
*
16805212 CCCTAAACCCCTAAC-TCTTAACCCCTACACCTTAAATCCCAACCCTTAAACCATAACCCCTAAT
120 --CTAAACCCCTAACGTC-TAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAACCCCTAAT
* * *
16805276 CTATAATCCCTAAATTCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTGGCCTTAAATCT
182 CCATAATCCCTAAATCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTCGCCTTAAATCT
* * *
16805341 TAAATAAATTATATACCTTAAACCAAAAATCCTAAAC
247 TAAATAAATCATATACCCTAAACCAAAAACCCTAAAC
16805378 TATAGTGATA
Statistics
Matches: 258, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
284 62 0.24
287 11 0.04
288 35 0.14
290 2 0.01
294 2 0.01
295 143 0.55
296 3 0.01
ACGTcount: A:0.41, C:0.27, G:0.03, T:0.29
Consensus pattern (284 bp):
AATTTATTATTATCTCCTTTACAATTATATAAGAACATATTTAAAATATAAATTAAAAAATAATT
TAAACCCAAAACCCTAACCCGAACCCTAAATCCCTAAACCTTAAACCCCTAACTCTAAACCCCTA
ACGTCTAACCCCTAAACCTTAAATCCCAACCCTTAAACCATAACCCCTAATCCATAATCCCTAAA
TCCATACTCCCTAAACCTTAAAATAGTAACTCCTAAACTCGCCTTAAATCTTAAATAAATCATAT
ACCCTAAACCAAAAACCCTAAACA
Found at i:16805807 original size:41 final size:41
Alignment explanation
Indices: 16805634--16805815 Score: 170
Period size: 41 Copynumber: 4.4 Consensus size: 41
16805624 TAAATAAACC
*
16805634 AAACGCCGCTAAAGCCCTC-AGCATTAGCGGCGATTTTTAAA
1 AAACGCCGCTAAAGCCC-CAAGCATTAGCGGCGCTTTTTAAA
** * * * * *
16805675 AAACAACGCTAAAACACCGAGCATTAGTGGCGCTTTTTCAA
1 AAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTTTTAAA
* * * * * * *
16805716 AAATGTCGCGAAAACCCCAAGCATTAGCGGTGCATTTTCAA
1 AAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTTTTAAA
* *
16805757 AAACACCGCTAAAGCCCCAAGCATTAGCGGCGCTTTCTT-GA
1 AAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTT-TTAAA
*
16805798 AAGCGCCGCTAAAGCCCC
1 AAACGCCGCTAAAGCCCC
16805816 TAAAGGTAAG
Statistics
Matches: 113, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
40 1 0.01
41 110 0.97
42 2 0.02
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (41 bp):
AAACGCCGCTAAAGCCCCAAGCATTAGCGGCGCTTTTTAAA
Found at i:16808888 original size:50 final size:50
Alignment explanation
Indices: 16808786--16808956 Score: 168
Period size: 50 Copynumber: 3.4 Consensus size: 50
16808776 GGTCCCAAGA
* * * ** **
16808786 AAGACCATGTCTGGGACATGGCGTTGGTACCGAGATGTGAGGTCCCCCGT
1 AAGACCATGTCTGGGACATGGCGTTGGCACCGACATGAGAACTCCCATGT
* * *
16808836 AAGACCATGTCTGGGACATGGCGTGGGCACCGATATGAGAACTCTCATGT
1 AAGACCATGTCTGGGACATGGCGTTGGCACCGACATGAGAACTCCCATGT
* * * * *
16808886 AAGACCATATCTGGGATATGGCATTTGCA--GTACAGGA-AACATCCCATGT
1 AAGACCATGTCTGGGACATGGCGTTGGCACCG-ACATGAGAAC-TCCCATGT
16808935 AAGACCATGTCTGGGACATGGC
1 AAGACCATGTCTGGGACATGGC
16808957 TTTGACATGT
Statistics
Matches: 100, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 4 0.04
49 31 0.31
50 65 0.65
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AAGACCATGTCTGGGACATGGCGTTGGCACCGACATGAGAACTCCCATGT
Found at i:16815111 original size:51 final size:51
Alignment explanation
Indices: 16815042--16815139 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
16815032 AAACATCATG
*
16815042 TCAATTTGATATTAATTTAATAAATCTAATCT-GTAACATTTACACATTTTA
1 TCAATTTGATATTAATTTAATAAAT-TAAGCTAGTAACATTTACACATTTTA
* *
16815093 TCAATTTGATTATT-ATTTAATAAATTTAGCTATTAACATTTACACAT
1 TCAATTTGA-TATTAATTTAATAAATTAAGCTAGTAACATTTACACAT
16815140 CCCATCAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 4 0.10
51 34 0.81
52 4 0.10
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (51 bp):
TCAATTTGATATTAATTTAATAAATTAAGCTAGTAACATTTACACATTTTA
Found at i:16815417 original size:13 final size:12
Alignment explanation
Indices: 16815377--16815414 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
16815367 GTTTAGAAAA
16815377 TTATTTTTATCTT
1 TTATTTTT-TCTT
*
16815390 ATATTTTTTCTT
1 TTATTTTTTCTT
16815402 TTA-TTTTTCTT
1 TTATTTTTTCTT
16815413 TT
1 TT
16815415 TTAACGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
11 10 0.43
12 6 0.26
13 7 0.30
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTTCTT
Found at i:16815925 original size:16 final size:16
Alignment explanation
Indices: 16815906--16815954 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
16815896 CATATTGCTT
16815906 TTATTTAATTTCTCAA
1 TTATTTAATTTCTCAA
*
16815922 TTATTT--TTT-TGAA
1 TTATTTAATTTCTCAA
*
16815935 GT-TTTAATTTCTCAA
1 TTATTTAATTTCTCAA
16815950 TTATT
1 TTATT
16815955 AATACCATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 8
0.68 0.11 0.22
Matches are distributed among these distances:
12 3 0.12
13 4 0.16
14 6 0.24
15 4 0.16
16 8 0.32
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (16 bp):
TTATTTAATTTCTCAA
Found at i:16816580 original size:20 final size:18
Alignment explanation
Indices: 16816554--16816590 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
16816544 TAATAAACAT
*
16816554 TAAAAAATTATTTTCAAAA
1 TAAAAAAATATTTT-AAAA
16816573 TAAAAAAATATTTTAAAA
1 TAAAAAAATATTTTAAAA
16816591 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAAAAAATATTTTAAAA
Found at i:16821385 original size:26 final size:25
Alignment explanation
Indices: 16821354--16821403 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
16821344 ACGAATTTTC
*
16821354 TCAAAATTTTATCGGGGGTAAAATTG
1 TCAAAATTTTATC-GAGGTAAAATTG
16821380 TCAAAATTTTATCGAGGTAAAATT
1 TCAAAATTTTATCGAGGTAAAATT
16821404 AAGGTGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (25 bp):
TCAAAATTTTATCGAGGTAAAATTG
Found at i:16821443 original size:21 final size:22
Alignment explanation
Indices: 16821419--16821460 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16821409 GAGAAAATTA
*
16821419 TTTAATATG-TAGATATTAAAG
1 TTTAATATGAGAGATATTAAAG
*
16821440 TTTAATTTGAGAGATATTAAA
1 TTTAATATGAGAGATATTAAA
16821461 ACTGAATCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (22 bp):
TTTAATATGAGAGATATTAAAG
Found at i:16826088 original size:39 final size:39
Alignment explanation
Indices: 16826041--16826172 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
16826031 GTGCTCGTGT
* *
16826041 TTGTACTTCGGTACCCCTAAATGCACAAATGTGCCCCTA
1 TTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTA
*
16826080 TTGTACTTCGGTACCCCTGAATGCACATATGTACCCCTA
1 TTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTA
* * *
16826119 TTGTACTTTGGTACCCCTGAATGCATATATATGCCCCTA
1 TTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTA
*
16826158 TTTTTACTTCGGTAC
1 -TTGTACTTCGGTAC
16826173 TGTAACACCC
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 71 0.86
40 12 0.14
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (39 bp):
TTGTACTTCGGTACCCCTGAATGCACATATGTGCCCCTA
Found at i:16826115 original size:20 final size:21
Alignment explanation
Indices: 16826089--16826148 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
16826079 ATTGTACTTC
16826089 GGTACCCCTGAATGCACATAT
1 GGTACCCCTGAATGCACATAT
* * *
16826110 -GTACCCCT-ATTGTAC-TTT
1 GGTACCCCTGAATGCACATAT
*
16826128 GGTACCCCTGAATGCATATAT
1 GGTACCCCTGAATGCACATAT
16826149 ATGCCCCTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
18 2 0.07
19 13 0.45
20 12 0.41
21 2 0.07
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.32
Consensus pattern (21 bp):
GGTACCCCTGAATGCACATAT
Found at i:16826134 original size:19 final size:19
Alignment explanation
Indices: 16826074--16826136 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
16826064 CACAAATGTG
*
16826074 CCCCTATTGTACTTCGGTA
1 CCCCTATTGTACTTTGGTA
* * *
16826093 CCCCTGAATGCACATAT-GTA
1 CCCCT-ATTGTAC-TTTGGTA
16826113 CCCCTATTGTACTTTGGTA
1 CCCCTATTGTACTTTGGTA
16826132 CCCCT
1 CCCCT
16826137 GAATGCATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.06
19 18 0.53
20 13 0.38
21 1 0.03
ACGTcount: A:0.19, C:0.33, G:0.14, T:0.33
Consensus pattern (19 bp):
CCCCTATTGTACTTTGGTA
Found at i:16827753 original size:27 final size:27
Alignment explanation
Indices: 16827712--16828232 Score: 594
Period size: 27 Copynumber: 19.3 Consensus size: 27
16827702 AATGGGCCTC
16827712 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
16827739 TAAAATGATCAAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
16827766 TAAAATAATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
16827793 TAAAATGACCGAAATACCCTCGATA-GG
1 TAAAATGATCGAAATACCCTCGA-AGGG
*
16827820 TAAAATGACCGAAATACCCTCGATA-GG
1 TAAAATGATCGAAATACCCTCGA-AGGG
* *
16827847 TAAAATGATCGAAATACCTTCGATGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
16827874 TAAAATGATCGAAATACCCTTGATGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
16827901 TAAAATGATCGAAATACCCTCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
16827928 TAAAATGA-CTGAAATACACTCGATGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* *
16827955 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
16827982 TAAAATGACCGAAATACCCTCGATA-GG
1 TAAAATGATCGAAATACCCTCGA-AGGG
* * * *
16828009 TAAAATGACCGAAATATCTTCGATGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
16828036 TAAAATGA-CTGAAATACCCTTGATGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* * *
16828063 TAAAATGACCAAAATACCCTTGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
* *
16828090 TAAAATGA-CTGAAATACACTCGATGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
*
16828117 TAAAATGA-CAGAAATACCCTCGATGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* * *
16828144 TGAAATGA-CAAAAATACCCCCGAAGGG
1 TAAAATGATC-GAAATACCCTCGAAGGG
* * *
16828171 AAAAATGATCAAAATACCCCCGAAGGG
1 TAAAATGATCGAAATACCCTCGAAGGG
*
16828198 TAAAATGA-CTGAAATA-CCTCCATAGGG
1 TAAAATGATC-GAAATACCCTCGA-AGGG
16828225 TAAAATGA
1 TAAAATGA
16828233 CTATTATACC
Statistics
Matches: 442, Mismatches: 40, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
26 8 0.02
27 430 0.97
28 4 0.01
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (27 bp):
TAAAATGATCGAAATACCCTCGAAGGG
Found at i:16827849 original size:81 final size:81
Alignment explanation
Indices: 16827712--16828233 Score: 685
Period size: 81 Copynumber: 6.4 Consensus size: 81
16827702 AATGGGCCTC
* * * *
16827712 TAAAATGATCGAAATACCCTCGAAGGGTAAAATGATCAAAATACCCTCGAAGGGTAAAATAATCG
1 TAAAATGACCGAAATACCCTCGATGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGATCG
*
16827777 AAATACCCTCGAAGGG
66 AAATACCCTCGATGGG
* *
16827793 TAAAATGACCGAAATACCCTCGATAGGTAAAATGACCGAAATACCCTCGATA-GGTAAAATGATC
1 TAAAATGACCGAAATACCCTCGATGGGTAAAATGACCAAAATACCCTCGA-AGGGTAAAATGATC
*
16827857 GAAATACCTTCGATGGG
65 GAAATACCCTCGATGGG
* * * *
16827874 TAAAATGATCGAAATACCCTTGATGGGTAAAATGATCGAAATACCCTCGAAGGGTAAAATGA-CT
1 TAAAATGACCGAAATACCCTCGATGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGATC-
*
16827938 GAAATACACTCGATGGG
65 GAAATACCCTCGATGGG
* *
16827955 TAAAATGACCGAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCGATA-GGTAAAATGACC
1 TAAAATGACCGAAATACCCTCGATGGGTAAAATGACCAAAATACCCTCGA-AGGGTAAAATGATC
* *
16828019 GAAATATCTTCGATGGG
65 GAAATACCCTCGATGGG
* * *
16828036 TAAAATGACTGAAATACCCTTGATGGGTAAAATGACCAAAATACCCTTGAAGGGTAAAATGA-CT
1 TAAAATGACCGAAATACCCTCGATGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGATC-
*
16828100 GAAATACACTCGATGGG
65 GAAATACCCTCGATGGG
* * * * * *
16828117 TAAAATGACAGAAATACCCTCGATGGGTGAAATGACAAAAATACCCCCGAAGGGAAAAATGATCA
1 TAAAATGACCGAAATACCCTCGATGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGATCG
* *
16828182 AAATACCCCCGAAGGG
66 AAATACCCTCGATGGG
* *
16828198 TAAAATGACTGAAATA-CCTCCATAGGGTAAAATGAC
1 TAAAATGACCGAAATACCCTCGAT-GGGTAAAATGAC
16828234 TATTATACCC
Statistics
Matches: 391, Mismatches: 41, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
80 10 0.03
81 377 0.96
82 4 0.01
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (81 bp):
TAAAATGACCGAAATACCCTCGATGGGTAAAATGACCAAAATACCCTCGAAGGGTAAAATGATCG
AAATACCCTCGATGGG
Found at i:16828437 original size:26 final size:26
Alignment explanation
Indices: 16828408--16828509 Score: 107
Period size: 26 Copynumber: 3.9 Consensus size: 26
16828398 TTGCCACAAA
* *
16828408 TACTGTTACTGGAAGCTTTGCTACGT
1 TACTGTTACTGGAAGCTTTGCTGCAT
* * * *
16828434 TACTGATACTGGCAGCTCTACTGCAT
1 TACTGTTACTGGAAGCTTTGCTGCAT
*
16828460 TACTGTTACTGGCAGCTTTGCTGCAT
1 TACTGTTACTGGAAGCTTTGCTGCAT
* *
16828486 TACTATTGCTGGCAA-CTTTGCTGC
1 TACTGTTACTGG-AAGCTTTGCTGC
16828510 TATATTGGTG
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
26 62 0.98
27 1 0.02
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCTGCAT
Found at i:16828653 original size:30 final size:31
Alignment explanation
Indices: 16828617--16828702 Score: 122
Period size: 30 Copynumber: 2.8 Consensus size: 31
16828607 CTGCATTTGC
*
16828617 CTGTTACTGCATTGGGCTAAGGCCCACAC-T
1 CTGTTACTGTATTGGGCTAAGGCCCACACAT
16828647 CTGTTACTGTATTGGGCTAAGGCCCACACAT
1 CTGTTACTGTATTGGGCTAAGGCCCACACAT
* * *
16828678 -TGCTACTGTATAGGGCTCAGGCCCA
1 CTGTTACTGTATTGGGCTAAGGCCCA
16828703 GACTGATTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 50 0.98
31 1 0.02
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (31 bp):
CTGTTACTGTATTGGGCTAAGGCCCACACAT
Found at i:16834952 original size:23 final size:22
Alignment explanation
Indices: 16834922--16834988 Score: 64
Period size: 23 Copynumber: 3.0 Consensus size: 22
16834912 GCCCTTGGGA
*
16834922 TAAT-CATGTGAGCCTAAATTAT
1 TAATACATGTGAACCTAAATT-T
**
16834944 TAATACATGCAAACCTAAACTTT
1 TAATACATGTGAACCTAAA-TTT
*
16834967 TAATACATGTGGACCCTAAATT
1 TAATACATGT-GAACCTAAATT
16834989 GAATATTACC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
22 4 0.11
23 23 0.64
24 9 0.25
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.33
Consensus pattern (22 bp):
TAATACATGTGAACCTAAATTT
Found at i:16835193 original size:9 final size:9
Alignment explanation
Indices: 16835181--16835232 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
16835171 TGTTTAGGGG
16835181 TTTTTTATA
1 TTTTTTATA
16835190 TTTTTTAT-
1 TTTTTTATA
16835198 TTTTTTATA
1 TTTTTTATA
*
16835207 TATTCTTTAGA
1 T-TT-TTTATA
*
16835218 CTTTTTATA
1 TTTTTTATA
16835227 TTTTTT
1 TTTTTT
16835233 GAGTTGTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 8 0.22
9 19 0.53
10 4 0.11
11 5 0.14
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTTTATA
Found at i:16840399 original size:10 final size:10
Alignment explanation
Indices: 16840384--16840419 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
16840374 GATTTAATTC
16840384 TTTTTTTTTG
1 TTTTTTTTTG
16840394 TTTTTTTTTG
1 TTTTTTTTTG
16840404 TTTTTTTTTG
1 TTTTTTTTTG
16840414 TTTTTT
1 TTTTTT
16840420 CATTAATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:16840715 original size:21 final size:20
Alignment explanation
Indices: 16840681--16840719 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16840671 AAATTAACTC
16840681 ATATACATTATTTTATATAT
1 ATATACATTATTTTATATAT
*
16840701 ATATATATATATTTTATAT
1 ATATACAT-TATTTTATAT
16840720 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATACATTATTTTATATAT
Found at i:16842276 original size:33 final size:32
Alignment explanation
Indices: 16842239--16842302 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
16842229 ATTGTCCAAA
*
16842239 TACATACTC-TTAATAAAATACTTAAATTTCAAC
1 TACATACTCATT-ATAAAA-ACTTAAAGTTCAAC
* *
16842272 TACATATTCATTATATAAACTTAAAGTTCAA
1 TACATACTCATTATAAAAACTTAAAGTTCAA
16842303 ATTCTACTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 12 0.44
33 13 0.48
34 2 0.07
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.38
Consensus pattern (32 bp):
TACATACTCATTATAAAAACTTAAAGTTCAAC
Found at i:16844849 original size:19 final size:19
Alignment explanation
Indices: 16844827--16844869 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
16844817 TCCACCCCCA
* **
16844827 CCTCTTCTTTTCTTTTTCT
1 CCTCTTCTTTACGGTTTCT
*
16844846 CCTCATCTTTACGGTTTCT
1 CCTCTTCTTTACGGTTTCT
16844865 CCTCT
1 CCTCT
16844870 AGTCAAGTCT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.35, G:0.05, T:0.56
Consensus pattern (19 bp):
CCTCTTCTTTACGGTTTCT
Found at i:16845403 original size:27 final size:27
Alignment explanation
Indices: 16845372--16845851 Score: 569
Period size: 27 Copynumber: 17.9 Consensus size: 27
16845362 GCAAATGATA
*
16845372 GAAATACCCCCGATGGGTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* * *
16845399 AAAATACCTTCGATGGCTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
* *
16845426 GAAGTACCCTCGATGGGTAAAATGACA
1 GAAATACCCTCGATGGGTAAAATGACC
* *
16845453 GAAGTACCCTCGATGGGTAAAATGACT
1 GAAATACCCTCGATGGGTAAAATGACC
* *
16845480 GAAATACCCTCAATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
* * * *
16845507 GAAACACCCTCAATGGATAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
*
16845534 GAAATACCCTCGATGGGTAAAACGACC
1 GAAATACCCTCGATGGGTAAAATGACC
16845561 -ACAATACCCTCGATGGGTAAAATGACC
1 GA-AATACCCTCGATGGGTAAAATGACC
* * *
16845588 AAAATACCCCCGATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
*
16845615 GAAATACCC-CTAATGGGTAAAATGACC
1 GAAATACCCTC-GATGGGTAAAATGACC
* *
16845642 AAAATACCCTCGATGGGTAAAATAACC
1 GAAATACCCTCGATGGGTAAAATGACC
*
16845669 GAAATACCCTCGATGGGTAAAATGATC
1 GAAATACCCTCGATGGGTAAAATGACC
* *
16845696 GAAATACCC-CTAATGGGTAAAATGACT
1 GAAATACCCTC-GATGGGTAAAATGACC
* * *
16845723 AAAATACCCTCGATGGGTAAAATAACT
1 GAAATACCCTCGATGGGTAAAATGACC
*
16845750 GAAATATCCC-CGATGGGTAAAAT-AAC
1 GAAATA-CCCTCGATGGGTAAAATGACC
* * *
16845776 GAAATACCCCCGATGAGTAAAATAACC
1 GAAATACCCTCGATGGGTAAAATGACC
*
16845803 GAAATACCCTCGAAGGGTAAAATGACC
1 GAAATACCCTCGATGGGTAAAATGACC
*
16845830 AAAATACCCT--ATAGGGTAAAAT
1 GAAATACCCTCGAT-GGGTAAAAT
16845852 TATTGTTATA
Statistics
Matches: 393, Mismatches: 50, Indels: 21
0.85 0.11 0.05
Matches are distributed among these distances:
25 4 0.01
26 31 0.08
27 352 0.90
28 6 0.02
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GAAATACCCTCGATGGGTAAAATGACC
Found at i:16846051 original size:27 final size:26
Alignment explanation
Indices: 16846018--16846077 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
16846008 TGTACTAGTG
*
16846018 GCTTTGCCACATATACAGTTAGTGGCA
1 GCTTTGCCACAT-TACAGTTACTGGCA
** *
16846045 GCTTTGCTGCATTACTGTTACTGGCA
1 GCTTTGCCACATTACAGTTACTGGCA
16846071 GCTTTGC
1 GCTTTGC
16846078 TGCGTCATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
GCTTTGCCACATTACAGTTACTGGCA
Found at i:16846069 original size:26 final size:26
Alignment explanation
Indices: 16846035--16846107 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
16846025 CACATATACA
* *
16846035 GTTAGTGGCAGCTTTGCTGCATTACT
1 GTTACTGGCAGCTTTGCTGCATCACT
* *
16846061 GTTACTGGCAGCTTTGCTGCGTCATT
1 GTTACTGGCAGCTTTGCTGCATCACT
* *
16846087 ATTACTGGCAACTTTGCTGCA
1 GTTACTGGCAGCTTTGCTGCA
16846108 ATATTGGTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (26 bp):
GTTACTGGCAGCTTTGCTGCATCACT
Found at i:16846260 original size:28 final size:27
Alignment explanation
Indices: 16846220--16846278 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 27
16846210 TGTATTGATA
*
16846220 ACTGTATTGGGCTAAGGCCCACACTGTT
1 ACTGTAATGGGCTAAGGCCCACACTG-T
16846248 ACTGTAATGGGCTAAGGCCCACACTGT
1 ACTGTAATGGGCTAAGGCCCACACTGT
16846275 ACTG
1 ACTG
16846279 ATACTATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.25
Consensus pattern (27 bp):
ACTGTAATGGGCTAAGGCCCACACTGT
Found at i:16851515 original size:18 final size:18
Alignment explanation
Indices: 16851481--16851515 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16851471 TAAGTCAGTT
16851481 TCATTTATGAAATCATTC
1 TCATTTATGAAATCATTC
16851499 TCATTGTATGAAA-CATT
1 TCATT-TATGAAATCATT
16851516 ATAAAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (18 bp):
TCATTTATGAAATCATTC
Found at i:16853580 original size:12 final size:12
Alignment explanation
Indices: 16853563--16853592 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16853553 TTAGGTAGTT
16853563 ACACGGCCTAGC
1 ACACGGCCTAGC
*
16853575 ACACGGCCTGGC
1 ACACGGCCTAGC
16853587 ACACGG
1 ACACGG
16853593 GCATGTAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:16854723 original size:299 final size:298
Alignment explanation
Indices: 16854186--16854775 Score: 993
Period size: 299 Copynumber: 2.0 Consensus size: 298
16854176 AAGCCTCCAT
* *
16854186 TCATGGAGCAGTGTCAAGTGGTTCAAGGCCCATATCTGAGGGCCGGAGAGGGGAAGATAAGGAAG
1 TCATGGAGCAGTGTCAAGTGGTTCAAGGCCCATATCTGAGGGCCAGAGAGGGGAAGATAAGAAAG
* *
16854251 CTTTCTTTCAAATTATAAGTGAGTGGTTTACGAAGTTTGTATGAACGAACCCAACGGCTCAACAA
66 CTTTCTTTCAAATGATAAGTGAGTGGTTTACGAAGTTTGTACGAACGAACCCAACGGCTCAACAA
* *
16854316 CCTCCATCCCCACTTGTTCCTCAACCGGTTCCCATTGTCCATAAGGCGTGGAAAAAGTGCGAGCT
131 CCTCCATCCCCACTTGTTCCTCAACCGGTTCCCATTGTCCACAAGGCGTGGAAAAAGTGAGAGCT
*
16854381 AATAAGCAGCCAATCAACAGAATTCACAAATACGGGGCTGAAGAATTTTGAGCTACAGTCGATGA
196 AATAAGCAGCCAATCAACAGAATTCACAAATACGGGGCTGAAGAATATTGAGCTACAGTCGATGA
*
16854446 TGATCCTGAGAGAGCTAAATTTTGGTTAGAGCACTAAA
261 TGATCCTAAGAGAGCTAAATTTTGGTTAGAGCACTAAA
* *
16854484 TCATGGAGCAGTGTCAAGTGGTTCGAGG-CCAGTATCTGAGGGTCAGAGAGGGGAAGATAAGAAA
1 TCATGGAGCAGTGTCAAGTGGTTCAAGGCCCA-TATCTGAGGGCCAGAGAGGGGAAGATAAGAAA
* *
16854548 GCTTTTGTTTCAAATGATAAGTGAGTGGTTTACGAAGTTTGTACGAACGAACCCAATGGCTCAAC
65 GC-TTTCTTTCAAATGATAAGTGAGTGGTTTACGAAGTTTGTACGAACGAACCCAACGGCTCAAC
* *
16854613 AACCTCCATCCCCACTTGTTCCTCAACCGGTTCCCGTTGTCCACAAGGCGTGGAAATAGTGAGAG
129 AACCTCCATCCCCACTTGTTCCTCAACCGGTTCCCATTGTCCACAAGGCGTGGAAAAAGTGAGAG
* * * *
16854678 CTAATAAGCCGCCACTCAACAGATTTCACAAATATGGGGCTGAAGAATATTGAGCTACAGTCGAT
194 CTAATAAGCAGCCAATCAACAGAATTCACAAATACGGGGCTGAAGAATATTGAGCTACAGTCGAT
16854743 GATGATCCTAAGAGAGCTAAATTTTGGTTAGAG
259 GATGATCCTAAGAGAGCTAAATTTTGGTTAGAG
16854776 AATACTATTC
Statistics
Matches: 272, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
297 3 0.01
298 58 0.21
299 211 0.78
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (298 bp):
TCATGGAGCAGTGTCAAGTGGTTCAAGGCCCATATCTGAGGGCCAGAGAGGGGAAGATAAGAAAG
CTTTCTTTCAAATGATAAGTGAGTGGTTTACGAAGTTTGTACGAACGAACCCAACGGCTCAACAA
CCTCCATCCCCACTTGTTCCTCAACCGGTTCCCATTGTCCACAAGGCGTGGAAAAAGTGAGAGCT
AATAAGCAGCCAATCAACAGAATTCACAAATACGGGGCTGAAGAATATTGAGCTACAGTCGATGA
TGATCCTAAGAGAGCTAAATTTTGGTTAGAGCACTAAA
Done.