Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 75 of 163
Found at i:24312379 original size:22 final size:22
Alignment explanation
Indices: 24312146--24312369 Score: 261
Period size: 22 Copynumber: 10.2 Consensus size: 22
24312136 AAGTAAAAAT
24312146 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * *
24312168 TATTGATTGAATGCAGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
24312190 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* ** *
24312212 TGTTGATTTAATGCAATCCAAT
1 TGTTGATTAAATGCTGTCCAAA
* *
24312234 TGTTGATTAAATGTTGTCTAAA
1 TGTTGATTAAATGCTGTCCAAA
* * * *
24312256 TATTGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
24312278 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
* *
24312300 TGTTGATTTAATGCTGTCCAAT
1 TGTTGATTAAATGCTGTCCAAA
*
24312322 TG-TGATTGAATGCTGTCCAAA
1 TGTTGATTAAATGCTGTCCAAA
**
24312343 TGTTGATTAAATGCTGTCTGAA
1 TGTTGATTAAATGCTGTCCAAA
24312365 TGTTG
1 TGTTG
24312370 GATAATTGCT
Statistics
Matches: 168, Mismatches: 33, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
21 19 0.11
22 149 0.89
ACGTcount: A:0.29, C:0.11, G:0.19, T:0.41
Consensus pattern (22 bp):
TGTTGATTAAATGCTGTCCAAA
Found at i:24316966 original size:21 final size:18
Alignment explanation
Indices: 24316926--24316969 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
24316916 AAATTGCAAA
*
24316926 AAAAATATAAAATTTATT
1 AAAAATATAAAACTTATT
24316944 AAAAATAATAGAAACTTATT
1 AAAAAT-ATA-AAACTTATT
*
24316964 TAAAAT
1 AAAAAT
24316970 TTATGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 3 0.14
20 13 0.59
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATATAAAACTTATT
Found at i:24317881 original size:166 final size:167
Alignment explanation
Indices: 24317607--24317939 Score: 659
Period size: 166 Copynumber: 2.0 Consensus size: 167
24317597 AGGTTTCGCC
24317607 ATCTCTACCTAAACCTCTCCCCTTTTACCTTAACCCAATTTTGGTTCTTTTTCTTGATGTTTAAC
1 ATCTCTACCTAAACCTCTCCCCTTTTACCTTAACCCAATTTTGGTTCTTTTTCTTGATGTTTAAC
24317672 TCTTTATGTGGAATGTTAGCAAACCATACAAACTCTTCATAATTTTATATAAAATTTCAATATTT
66 TCTTTATGTGGAATGTTAGCAAACCATACAAACTCTTCATAATTTTATATAAAATTTCAATATTT
24317737 TTTTCTATTTTTAATAACTTTTTTGC-ATTATTATAA
131 TTTTCTATTTTTAATAACTTTTTTGCAATTATTATAA
24317773 ATCTCTACCTAAACCTCTCCCCTTTTACCTTAACCCAATTTTGGTTCTTTTTCTTGATGTTTAAC
1 ATCTCTACCTAAACCTCTCCCCTTTTACCTTAACCCAATTTTGGTTCTTTTTCTTGATGTTTAAC
24317838 TCTTTATGTGGAATGTTAGCAAACCATACAAACTCTTCATAATTTTATATAAAATTTCAATATTT
66 TCTTTATGTGGAATGTTAGCAAACCATACAAACTCTTCATAATTTTATATAAAATTTCAATATTT
24317903 TTTTCTATTTTTAATAACTTTTTTGCAATTATTATAA
131 TTTTCTATTTTTAATAACTTTTTTGCAATTATTATAA
24317940 TTTTTAATAT
Statistics
Matches: 166, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
166 156 0.94
167 10 0.06
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.47
Consensus pattern (167 bp):
ATCTCTACCTAAACCTCTCCCCTTTTACCTTAACCCAATTTTGGTTCTTTTTCTTGATGTTTAAC
TCTTTATGTGGAATGTTAGCAAACCATACAAACTCTTCATAATTTTATATAAAATTTCAATATTT
TTTTCTATTTTTAATAACTTTTTTGCAATTATTATAA
Found at i:24317943 original size:30 final size:30
Alignment explanation
Indices: 24317909--24317968 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
24317899 ATTTTTTTCT
24317909 ATTTTTAATA-ACTTTTTTGCAATTATTATA
1 ATTTTTAATATACTTTTTTGCAATT-TTATA
*
24317939 ATTTTTAATATATTTTTTTGCAATTTTATA
1 ATTTTTAATATACTTTTTTGCAATTTTATA
24317969 TTAAATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (30 bp):
ATTTTTAATATACTTTTTTGCAATTTTATA
Found at i:24317959 original size:31 final size:33
Alignment explanation
Indices: 24317909--24317986 Score: 101
Period size: 31 Copynumber: 2.5 Consensus size: 33
24317899 ATTTTTTTCT
*
24317909 ATTTTTAATA-ACTTTTTTGCAATTAT-TA-TA
1 ATTTTTAATATATTTTTTTGCAATTATATATTA
*
24317939 ATTTTTAATATATTTTTTTGCAATTTTATATTA
1 ATTTTTAATATATTTTTTTGCAATTATATATTA
*
24317972 AATTTTAATAT-TTTT
1 ATTTTTAATATATTTT
24317987 ATAATTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
30 10 0.24
31 14 0.33
32 6 0.14
33 12 0.29
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (33 bp):
ATTTTTAATATATTTTTTTGCAATTATATATTA
Found at i:24318040 original size:26 final size:27
Alignment explanation
Indices: 24318011--24318070 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 27
24318001 GTTCTTATAA
* *
24318011 TTTTTATTATTTTTAAAAATTCT-ACT
1 TTTTTATAATTTTTAAAAATTCTAAAT
*
24318037 TTTTTATAATTTTTGAAAATTCTAAAT
1 TTTTTATAATTTTTAAAAATTCTAAAT
24318064 TTTTTAT
1 TTTTTAT
24318071 GACTTTAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTTATAATTTTTAAAAATTCTAAAT
Found at i:24320871 original size:27 final size:28
Alignment explanation
Indices: 24320823--24320885 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
24320813 TATACGGAAT
** * *
24320823 GAAT-CCTTCCATGGAAGGCTCTGAAGG
1 GAATGCCTTCCATGGAAAACTCTAAAAG
24320850 GAATGCCTT-CATGGAAAACTCTAAAAG
1 GAATGCCTTCCATGGAAAACTCTAAAAG
24320877 GAATGCCTT
1 GAATGCCTT
24320886 GACAGCGTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (28 bp):
GAATGCCTTCCATGGAAAACTCTAAAAG
Found at i:24321793 original size:20 final size:22
Alignment explanation
Indices: 24321760--24321799 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
24321750 GGTGAGAAGT
24321760 AAAAGTTTAGGGGAA-AAATAA
1 AAAAGTTTAGGGGAATAAATAA
*
24321781 AAAAGTTT-TGGGAATAAAT
1 AAAAGTTTAGGGGAATAAAT
24321800 GTTCGAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (22 bp):
AAAAGTTTAGGGGAATAAATAA
Found at i:24321933 original size:30 final size:31
Alignment explanation
Indices: 24321894--24321953 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
24321884 AGAGGTGAGA
*
24321894 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
24321925 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
24321954 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:24326713 original size:44 final size:44
Alignment explanation
Indices: 24326650--24326744 Score: 136
Period size: 44 Copynumber: 2.2 Consensus size: 44
24326640 CCTATTAGCT
* ** *
24326650 AATACCATACACAAGCAGACTTTATACCTTTCGCACATTGGTGA
1 AATACTATACACAAGCAGACTTTATACAATTCACACATTGGTGA
* *
24326694 AATACTATACACAAGCAGACTTTATGCAATTCACCCATTGGTGA
1 AATACTATACACAAGCAGACTTTATACAATTCACACATTGGTGA
24326738 AATACTA
1 AATACTA
24326745 AACTTACACA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (44 bp):
AATACTATACACAAGCAGACTTTATACAATTCACACATTGGTGA
Found at i:24332309 original size:7 final size:7
Alignment explanation
Indices: 24332297--24332321 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
24332287 AAGTTTTATA
24332297 GGTTTAG
1 GGTTTAG
24332304 GGTTTAG
1 GGTTTAG
24332311 GGTTTAG
1 GGTTTAG
24332318 GGTT
1 GGTT
24332322 CAAAATAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.44, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:24342724 original size:501 final size:499
Alignment explanation
Indices: 24341775--24342752 Score: 1393
Period size: 501 Copynumber: 1.9 Consensus size: 499
24341765 CCAGTCAGGC
* * *
24341775 TCATCTTCTTCCCCTCTTTCCTGGTCTTTTGATCCAACTTTGGCAACAGTGTCCATGGTCAGAAA
1 TCATCTTCTTCCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCATGGTCAGAAA
* * * *
24341840 AGGAGTTTGCTTGTCAACTTTGTCTTCTGCTATCAGGTCTTCATATTTCTCCAAAGGCTTAGAAG
66 AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACATTTCTCCAAAGGCTTAGAAG
*
24341905 TTTCATGATGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTTTGCATCCTCC
131 TTTCATGATGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCATCCTCC
* *
24341970 TCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGATTCATCTTCTTG
196 TCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGATGCATCTTCTAG
*
24342035 CCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCATCCACTGTCAGCAAAGGAGCTTGCT
261 CCCTCTTTCCTGATCTTTCGATCCAACTTTGACAACAGCATCCACTGTCAGCAAAGGAGCTTGCT
* * ** * *
24342100 TATCAACTTCGTCTTCGGCTACCTGGTCTTCATGTTTCTCTGAAGGCTCAGAAGTTTCATGGTGA
326 TATCAACTTCGTCTTCGACTACCAGGTCTTCACATTTCTCCGAAGGCTCAGAAATTTCATGGTGA
* *
24342165 ACACCTCCTTCATTTGCAGAAGTTCTAACAGAATCAAGTTCTTTTGCATCCTCCTCCTCTTCTAG
391 ACACCTCCTTCATCTGCAGAAGTTCTAACAGAATCAAGTTC-TTTGCAT-CGCCTCCTCTTCTAG
24342230 TTTTAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
454 TTTTAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
* *
24342276 TCATCTTCTTGCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCACT-GTCAGCA
1 TCATCTTCTTCCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCA-TGGTCAGAA
* **
24342340 AAGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACGTTTCTCTGAAGGCTTAGAA
65 AAGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACATTTCTCCAAAGGCTTAGAA
* *
24342405 GTTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCCTCCTC
130 GTTTCATGATGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCATCCT-
*
24342470 CCTCTCTTCTCGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGATGCATCTT
194 -C-CTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGATGCATCTT
* * * * * * **
24342535 CTAGCCTTCTTTCCTGTTCTTTTGATTCAACTTTTACAAGAGTGTTGTCCACTGTCAGCAAAGGA
257 CTAGCCCTCTTTCCTGATCTTTCGATCCAACTTTGACAACA--G-CATCCACTGTCAGCAAAGGA
* * * *
24342600 GCTTGCTTATCAACTTTGT-TCTCTACTATCAGGTCTTCACATTTCTCCGAAGGCTTAGAAATTT
319 GCTTGCTTATCAACTTCGTCT-TCGACTACCAGGTCTTCACATTTCTCCGAAGGCTCAGAAATTT
** * * * * * *
24342664 CATGGTGAATGCCTCCTTTATCTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCCTCCTCCCCC
383 CATGGTGAACACCTCCTTCATCTGCAGAAGTTCTAACAGAATCAAGTTCTT-TGCAT-CGCCTCC
* *
24342729 TTTTCTAGTTTCAGATCCTCCCTT
446 TCTTCTAGTTTTAGATCCTCCCTT
24342753 ACTTCTGATT
Statistics
Matches: 421, Mismatches: 47, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
501 176 0.42
502 1 0.00
503 1 0.00
504 93 0.22
506 4 0.01
507 146 0.35
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (499 bp):
TCATCTTCTTCCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCATGGTCAGAAA
AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACATTTCTCCAAAGGCTTAGAAG
TTTCATGATGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCATCCTCC
TCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGATGCATCTTCTAG
CCCTCTTTCCTGATCTTTCGATCCAACTTTGACAACAGCATCCACTGTCAGCAAAGGAGCTTGCT
TATCAACTTCGTCTTCGACTACCAGGTCTTCACATTTCTCCGAAGGCTCAGAAATTTCATGGTGA
ACACCTCCTTCATCTGCAGAAGTTCTAACAGAATCAAGTTCTTTGCATCGCCTCCTCTTCTAGTT
TTAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
Found at i:24342778 original size:255 final size:252
Alignment explanation
Indices: 24341775--24342752 Score: 1435
Period size: 252 Copynumber: 3.9 Consensus size: 252
24341765 CCAGTCAGGC
* * * * *
24341775 TCATCTTCTTCCCCTCTTTCCTGGTCTTTTGATCCAACTTTGGCAACAGTGTCCA-TGGTCAGAA
1 TCATCTTCTTGCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCACT-GTCAGCA
* * * * *
24341839 AAGGAGTTTGCTTGTCAACTTTGTCTTCTGCTATCAGGTCTTCATATTTCTCCAAAGGCTTAGAA
65 AAGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACATTTCTCCGAAGGCTTAGAA
* *
24341904 GTTTCATGATGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTTTGCATCCT-
130 GTTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCATCCTC
24341968 --CCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
195 CCCCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
*
24342024 TCATCTTCTTGCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCATCCACTGTCAGCAA
1 TCATCTTCTTGCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCACTGTCAGCAA
* * * ** * *
24342089 AGGAGCTTGCTTATCAACTTCGTCTTCGGCTACCTGGTCTTCATGTTTCTCTGAAGGCTCAGAAG
66 AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACATTTCTCCGAAGGCTTAGAAG
* * *
24342154 TTTCATGGTGAACACCTCCTTCATTTGCAGAAGTTCTAACAGAATCAAGTTCTTTTGCATCCTCC
131 TTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCATCCTCC
* *
24342219 TCCTCTTCTAGTTTTAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
196 CCCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
24342276 TCATCTTCTTGCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCACTGTCAGCAA
1 TCATCTTCTTGCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCACTGTCAGCAA
* *
24342341 AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACGTTTCTCTGAAGGCTTAGAAG
66 AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACATTTCTCCGAAGGCTTAGAAG
*
24342406 TTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCCTCCTCC
131 TTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCATCCTCC
* *
24342471 CTCTCTTCTCGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
196 CCCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
* * * * * * ** * *
24342528 GCATCTTCTAGCCTTCTTTCCTGTTCTTTTGATTCAACTTTTACAAGAGTGTTGTCCACTGTCAG
1 TCATCTTCTTGCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACA--G-CGTCCACTGTCAG
* *
24342593 CAAAGGAGCTTGCTTATCAACTTTGT-TCTCTACTATCAGGTCTTCACATTTCTCCGAAGGCTTA
63 CAAAGGAGCTTGCTTATCAACTTTGTCT-TCTGCTACCAGGTCTTCACATTTCTCCGAAGGCTTA
* ** * * *
24342657 GAAATTTCATGGTGAATGCCTCCTTTATCTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCCTC
127 GAAGTTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCATC
*
24342722 CTCCCCCTTTTCTAGTTTCAGATCCTCCCTT
192 CTCCCCCTCTTCTAGTTTCAGATCCTCCCTT
24342753 ACTTCTGATT
Statistics
Matches: 665, Mismatches: 56, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
249 172 0.26
250 1 0.00
252 332 0.50
254 2 0.00
255 158 0.24
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.38
Consensus pattern (252 bp):
TCATCTTCTTGCCCTCTTTCCTGATCTTTCGATCCAACTTTGGCAACAGCGTCCACTGTCAGCAA
AGGAGCTTGCTTATCAACTTTGTCTTCTGCTACCAGGTCTTCACATTTCTCCGAAGGCTTAGAAG
TTTCATGGTGAACACCTCCTTCATTTGTAGAAGTTCTAACAGAATCATGTTCTTCTGCATCCTCC
CCCTCTTCTAGTTTCAGATCCTCCCTTGCTTTTGGTTCTGTATCCCCACCCTTTGAT
Found at i:24346591 original size:21 final size:20
Alignment explanation
Indices: 24346557--24346597 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
24346547 TTCACAAATT
*
24346557 AAATAAATATATTTATATTC
1 AAATAAATAAATTTATATTC
*
24346577 AAATAAAATAAATTTGTATTC
1 AAAT-AAATAAATTTATATTC
24346598 TTTATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATAAATAAATTTATATTC
Found at i:24350769 original size:29 final size:29
Alignment explanation
Indices: 24350727--24350783 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
24350717 AGATGACATA
24350727 TTAGTCTTTTAATTGGTTTGCTCATTTCC
1 TTAGTCTTTTAATTGGTTTGCTCATTTCC
24350756 TTAGTCTTTTAATTGGTTTGCTCATTTC
1 TTAGTCTTTTAATTGGTTTGCTCATTTC
24350784 TGATTAGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (29 bp):
TTAGTCTTTTAATTGGTTTGCTCATTTCC
Found at i:24353108 original size:2 final size:2
Alignment explanation
Indices: 24353101--24353126 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24353091 CATCTTATGC
24353101 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
24353127 TGGTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24355211 original size:2 final size:2
Alignment explanation
Indices: 24355204--24355241 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
24355194 TTTGTAAGTG
24355204 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24355242 AAAAAGTAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24359688 original size:231 final size:231
Alignment explanation
Indices: 24359416--24360124 Score: 1330
Period size: 231 Copynumber: 3.1 Consensus size: 231
24359406 GTTAAGCAGA
* *
24359416 GTTGAATCATTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTAAGAGGTATAA
1 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
*
24359481 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
*
24359546 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
*
24359611 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGG
196 AAAGAACGAGAGAGGGCAGTGTCTTTGACGAAAAGG
24359647 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
1 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
*
24359712 AGAAAGGCTTGAGGAGGCATCTAGGTATCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
24359777 CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
* *
24359842 AAAGAACGAGAGAGGGCAGTGTCTTTGATGGAAAGG
196 AAAGAACGAGAGAGGGCAGTGTCTTTGACGAAAAGG
24359878 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
1 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
24359943 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
24360008 CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
24360073 AAAGAACGAGAGAGGGCAGTGTCTTTGAC-AGAAAGG
196 AAAGAACGAGAGAGGGCAGTGTCTTTGACGA-AAAGG
24360109 GTTGAATCTTTGGATC
1 GTTGAATCTTTGGATC
24360125 ACCTTGAAGA
Statistics
Matches: 466, Mismatches: 11, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
231 466 1.00
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.23
Consensus pattern (231 bp):
GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
AAAGAACGAGAGAGGGCAGTGTCTTTGACGAAAAGG
Found at i:24360295 original size:462 final size:460
Alignment explanation
Indices: 24359416--24360345 Score: 1238
Period size: 462 Copynumber: 2.0 Consensus size: 460
24359406 GTTAAGCAGA
24359416 GTTGAATCATTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTAAGAGGTATAA
1 GTTGAATCATTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTAAGAGGTATAA
24359481 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
24359546 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
**
24359611 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGGGTTGAATCTTTGGATCTTATTGAAGGACA
196 AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGGGTTGAATCTTTGGATCACATTGAAGGACA
* * ** *
24359676 GCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAAAGAAAGGCTTGAGGAGGCATCTAGGTATC
261 GCGACTCCAGAAACAGAAAGAGCTTGAGAGGTATAAAGAAAGGCTTGAGGAAGCATCTAGGTATC
* * * *** *
24359741 AAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAGCTGAATCCAAAGAGAAGCTTAGCGAAGTT
326 AAATACACTTAGAAGAGCAAGCTTGGCAGAGGAAAAAGGAATCCAAAGAGAAACTTAGC-AAGTT
* * *
24359806 TGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAG-TAAAGAACGAGAGAGGGCAG-TGTCTTTG
390 TG-AATGCGCTTGAAACAGCAAAATCTGAATTG-GCTAAAGAACGAGAGAGGACAGCT-TCTTTA
24359869 ATGGAA-AGG
452 AT-GAAGAGG
* *
24359878 GTTGAATCTTTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTGAGAGGTATAA
1 GTTGAATCATTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTAAGAGGTATAA
*
24359943 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAG
66 AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
*
24360008 CTGAATCCAAAGAGAAGCTTAGCGAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
131 CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
* *
24360073 AAAGAACGAGAGAGGGCAGTGTCTTTGAC-AGAAAGGGTTGAATCTTTGGATCACCTTGAA-GAG
196 AAAGAACGAGAGAGAGCAGTGTCTTTGACGA-AAAGGGTTGAATCTTTGGATCACATTGAAGGA-
* * * * * * *
24360136 CAGTGGCTCCAGAAACAGGATGAGGTTGAGA-G-ATACAAGAAAATGCTTGAGGAAGCATGTAGG
259 CAGCGACTCCAGAAACAGAAAGAGCTTGAGAGGTATA-AAG-AAAGGCTTGAGGAAGCATCTAGG
* * * ****
24360199 -AGTCAAAGT-CAGTTAGAAGAGCAAG-TTGGGCATATGAAAAAGGAATTTGGAGAGAAACTTGA
322 TA-TCAAA-TACACTTAGAAGAGCAAGCTT-GGCAGAGGAAAAAGGAATCCAAAGAGAAACTT--
* * ** *
24360261 AGC-AGCTTTTG-ATGC-TTTAGAAACTGTGAAATCTGAATTGGCTAAAGAACGTGAGAGGACAG
382 AGCAAG--TTTGAATGCGCTT-GAAACAGCAAAATCTGAATTGGCTAAAGAACGAGAGAGGACAG
24360323 CTTCTTTAATGAAGAGG
444 CTTCTTTAATGAAGAGG
24360340 GTTGAA
1 GTTGAA
24360346 CAGTGGGCTC
Statistics
Matches: 411, Mismatches: 42, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
460 3 0.01
461 16 0.04
462 383 0.93
463 2 0.00
464 7 0.02
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (460 bp):
GTTGAATCATTGGATCTTATTGAAGGACAGCGATTCCTGATGCAGAAAGAGCTTAAGAGGTATAA
AGAAAGGCTTGAGGAGGCATCTAGGTGTCAAATACACTTGGAAGAGCAAGCTTTGCAGAGGGAAA
CTGAATCCAAAGAGAAGCTTAGCAAAGTTTGCAATGCGCTTGAAGCAGCAAAATCTGAATTGAGT
AAAGAACGAGAGAGAGCAGTGTCTTTGACGAAAAGGGTTGAATCTTTGGATCACATTGAAGGACA
GCGACTCCAGAAACAGAAAGAGCTTGAGAGGTATAAAGAAAGGCTTGAGGAAGCATCTAGGTATC
AAATACACTTAGAAGAGCAAGCTTGGCAGAGGAAAAAGGAATCCAAAGAGAAACTTAGCAAGTTT
GAATGCGCTTGAAACAGCAAAATCTGAATTGGCTAAAGAACGAGAGAGGACAGCTTCTTTAATGA
AGAGG
Found at i:24368948 original size:13 final size:14
Alignment explanation
Indices: 24368929--24368961 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
24368919 TGCATAAACA
24368929 TCCACATGTTCAAC
1 TCCACATGTTCAAC
24368943 -CCACATGTTCAAC
1 TCCACATGTTCAAC
24368956 TCCACA
1 TCCACA
24368962 GCTCTCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.30, C:0.39, G:0.06, T:0.24
Consensus pattern (14 bp):
TCCACATGTTCAAC
Found at i:24374830 original size:123 final size:123
Alignment explanation
Indices: 24374656--24374896 Score: 482
Period size: 123 Copynumber: 2.0 Consensus size: 123
24374646 GAAACTCGGA
24374656 TTGTAGTTTTCCTCTTATTATTAAAATTGATTAATTATTTAGGGGATTTATTGTGATTGGAGGAG
1 TTGTAGTTTTCCTCTTATTATTAAAATTGATTAATTATTTAGGGGATTTATTGTGATTGGAGGAG
24374721 TGGGTTCCAATATTTTAAGTTAGCTTAAACCTAATTTTATAAAAATTTTGTGAATAAT
66 TGGGTTCCAATATTTTAAGTTAGCTTAAACCTAATTTTATAAAAATTTTGTGAATAAT
24374779 TTGTAGTTTTCCTCTTATTATTAAAATTGATTAATTATTTAGGGGATTTATTGTGATTGGAGGAG
1 TTGTAGTTTTCCTCTTATTATTAAAATTGATTAATTATTTAGGGGATTTATTGTGATTGGAGGAG
24374844 TGGGTTCCAATATTTTAAGTTAGCTTAAACCTAATTTTATAAAAATTTTGTGA
66 TGGGTTCCAATATTTTAAGTTAGCTTAAACCTAATTTTATAAAAATTTTGTGA
24374897 TATATTTAAT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 118 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (123 bp):
TTGTAGTTTTCCTCTTATTATTAAAATTGATTAATTATTTAGGGGATTTATTGTGATTGGAGGAG
TGGGTTCCAATATTTTAAGTTAGCTTAAACCTAATTTTATAAAAATTTTGTGAATAAT
Found at i:24376531 original size:124 final size:124
Alignment explanation
Indices: 24376335--24376561 Score: 382
Period size: 124 Copynumber: 1.8 Consensus size: 124
24376325 TAATTTCGAG
* * *
24376335 TTGACGTTTATGATCAAATAGTATAAAAGCGCTTTTAGTAGGATGCTATTTGAGAACAATTAGTG
1 TTGACGTTTATGAGCAAATAGTATAAAAGCGCTTCTAGCAGGATGCTATTTGAGAACAATTAGTG
24376400 AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
66 AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
* * * *
24376459 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTATGAGCAAATAGTATAAAAGCGCTTCTAGCAGGATGCTATTTGAGAACAATTAGTG
*
24376524 AAAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAG
66 AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
24376562 TATGTTTAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 95 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (124 bp):
TTGACGTTTATGAGCAAATAGTATAAAAGCGCTTCTAGCAGGATGCTATTTGAGAACAATTAGTG
AAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTCATGGAAGAAATAATTTTT
Found at i:24380688 original size:20 final size:20
Alignment explanation
Indices: 24380651--24380688 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24380641 TTTATTTTTA
*
24380651 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
24380671 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
24380689 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:24384264 original size:24 final size:24
Alignment explanation
Indices: 24384227--24384289 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
24384217 ATTATCATAA
*
24384227 TCAAATACATATGCATAAACAAAT
1 TCAAATACAAATGCATAAACAAAT
* * *
24384251 TTAGATACAAATGCATACACAAAT
1 TCAAATACAAATGCATAAACAAAT
*
24384275 TCAAATACAGATGCA
1 TCAAATACAAATGCA
24384290 GACGCTGATC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.51, C:0.17, G:0.08, T:0.24
Consensus pattern (24 bp):
TCAAATACAAATGCATAAACAAAT
Found at i:24384857 original size:28 final size:27
Alignment explanation
Indices: 24384799--24384861 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
24384789 TTAATTAGGG
* *
24384799 TCCTAGCTTAAATACATGTTTAATATG
1 TCCTAGCTTAAATACATGTTTAAGATA
*
24384826 TCCTAGCTT-AATGCATGATTTTAAGATA
1 TCCTAGCTTAAATACATG--TTTAAGATA
24384854 TCCTAGCT
1 TCCTAGCT
24384862 GCTGTCGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 7 0.23
27 9 0.29
28 15 0.48
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (27 bp):
TCCTAGCTTAAATACATGTTTAAGATA
Found at i:24391043 original size:57 final size:57
Alignment explanation
Indices: 24390959--24391938 Score: 1757
Period size: 57 Copynumber: 17.2 Consensus size: 57
24390949 NNNNNNNNNN
* *
24390959 TTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
* *
24391016 TTAATTTAGGTTAGATTAGGGTTTTTAGTTAATTTAGGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391073 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391130 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391187 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391244 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391301 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391358 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391415 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391472 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391529 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391586 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391643 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
* * * *
24391700 TTAATTTAGGTTAGATTAGGGTTTTTATTTAATTTAGGTTAGGTTTAGGGTTTTTAG
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
* * * *
24391757 TTAATTTAGGTTAGATTAGGGTTTTTAATTAATTTAGGATAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
* *
24391814 TTAATTTAGGTTAGATTAAG-GTTTTTAATTAATTT-TGGTTAGGTTTAGGGTTTTTAG
1 TTAATTTAGGTTAGATT-AGCGTTTTTAGTTAATTTAT-GTTAGGTTTAGGGTTTTTAA
* * * * *
24391871 TTAATTTAGGTTCGATTAGGGTTTTTAATTAATTTAGGTTAGGTTTAGGGTTTTTAG
1 TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
24391928 TTAATTTAGGT
1 TTAATTTAGGT
24391939 GTTTGAATGT
Statistics
Matches: 905, Mismatches: 14, Indels: 8
0.98 0.02 0.01
Matches are distributed among these distances:
56 2 0.00
57 901 1.00
58 2 0.00
ACGTcount: A:0.25, C:0.01, G:0.22, T:0.52
Consensus pattern (57 bp):
TTAATTTAGGTTAGATTAGCGTTTTTAGTTAATTTATGTTAGGTTTAGGGTTTTTAA
Found at i:24392111 original size:28 final size:29
Alignment explanation
Indices: 24392051--24392157 Score: 153
Period size: 29 Copynumber: 3.7 Consensus size: 29
24392041 GGCATAACAG
*
24392051 TTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGGTTTAGGGTTTTTAA
* * *
24392080 TTAATTTAGGTTA-GATTAGCGTTTTTAG
1 TTAATTTAGGTTAGGTTTAGGGTTTTTAA
*
24392108 TTAATTTATGTTAGGTTTAGGGTTTTTAA
1 TTAATTTAGGTTAGGTTTAGGGTTTTTAA
*
24392137 TTAATTTAGGTTAGGGTTAGG
1 TTAATTTAGGTTAGGTTTAGG
24392158 TTAGGGTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
28 24 0.36
29 43 0.64
ACGTcount: A:0.24, C:0.01, G:0.23, T:0.51
Consensus pattern (29 bp):
TTAATTTAGGTTAGGTTTAGGGTTTTTAA
Found at i:24392165 original size:34 final size:30
Alignment explanation
Indices: 24392051--24392180 Score: 142
Period size: 29 Copynumber: 4.3 Consensus size: 30
24392041 GGCATAACAG
*
24392051 TTAATTTATGTTAGGT-TTAGGGTTTTTAA
1 TTAATTTAGGTTAGGTATTAGGGTTTTTAA
* *
24392080 TTAATTTAGGTTA-G-ATTAGCGTTTTTAG
1 TTAATTTAGGTTAGGTATTAGGGTTTTTAA
*
24392108 TTAATTTATGTTAGGT-TTAGGGTTTTTAA
1 TTAATTTAGGTTAGGTATTAGGGTTTTTAA
*
24392137 TTAATTTAGGTTAGGGTTAGGTTAGGGTTTTCAA
1 TTAATTTAGGTTA-GG-TA--TTAGGGTTTTTAA
*
24392171 TTAAATTAGG
1 TTAATTTAGG
24392181 GTTTTTATTT
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
28 24 0.29
29 36 0.43
30 2 0.02
31 1 0.01
34 21 0.25
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (30 bp):
TTAATTTAGGTTAGGTATTAGGGTTTTTAA
Found at i:24392395 original size:21 final size:21
Alignment explanation
Indices: 24392370--24392429 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 21
24392360 TCCTCTAGCT
*
24392370 TCCGGCGGTGGTTGTTCTTCC
1 TCCGGTGGTGGTTGTTCTTCC
*
24392391 TCCGGTGGTGATTGTGGTTCTTCC
1 TCCGGTGGTG---GTTGTTCTTCC
24392415 TCCGGTGGTGGTTGT
1 TCCGGTGGTGGTTGT
24392430 GGTTCTTCCG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.39
24 20 0.61
ACGTcount: A:0.02, C:0.22, G:0.37, T:0.40
Consensus pattern (21 bp):
TCCGGTGGTGGTTGTTCTTCC
Found at i:24392415 original size:24 final size:24
Alignment explanation
Indices: 24392383--24392438 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
24392373 GGCGGTGGTT
24392383 GTTCTTCCTCCGGTGGTGATTGTG
1 GTTCTTCCTCCGGTGGTGATTGTG
*
24392407 GTTCTTCCTCCGGTGGTGGTTGTG
1 GTTCTTCCTCCGGTGGTGATTGTG
24392431 GTTCTTCC
1 GTTCTTCC
24392439 GGTTCGGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.02, C:0.23, G:0.32, T:0.43
Consensus pattern (24 bp):
GTTCTTCCTCCGGTGGTGATTGTG
Found at i:24392439 original size:21 final size:21
Alignment explanation
Indices: 24392368--24392441 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
24392358 CTTCCTCTAG
* **
24392368 CTTCCGGCGGTGGTTGTTCTT
1 CTTCCGGTGGTGGTTGTGGTT
* *
24392389 CCTCCGGTGGTGATTGTGGTT
1 CTTCCGGTGGTGGTTGTGGTT
24392410 CTTCCTCCGGTGGTGGTTGTGGTT
1 C-T--TCCGGTGGTGGTTGTGGTT
24392434 CTTCCGGT
1 CTTCCGGT
24392442 TCGGCATCTG
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
21 23 0.53
23 1 0.02
24 19 0.44
ACGTcount: A:0.01, C:0.23, G:0.35, T:0.41
Consensus pattern (21 bp):
CTTCCGGTGGTGGTTGTGGTT
Found at i:24392737 original size:18 final size:18
Alignment explanation
Indices: 24392693--24392738 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
24392683 TATTCGGAAA
* *
24392693 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
24392711 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
24392729 AGGAAACATA
1 AGGATACATA
24392739 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:24394529 original size:21 final size:22
Alignment explanation
Indices: 24394493--24394542 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
24394483 NNNTATGGGT
24394493 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
24394515 TTGAGAGAA-TTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
24394536 TTGAGAG
1 TTGAGAG
24394543 GAAAAATTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.68
22 9 0.32
ACGTcount: A:0.40, C:0.00, G:0.34, T:0.26
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:24404811 original size:44 final size:45
Alignment explanation
Indices: 24404748--24404845 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 45
24404738 CTATTACACC
*
24404748 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * *
24404792 TCCATTACATTCAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
24404837 TCCATTACA
1 TCCATTACA
24404846 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.34, C:0.30, G:0.05, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:24404916 original size:9 final size:9
Alignment explanation
Indices: 24404899--24404992 Score: 91
Period size: 9 Copynumber: 10.4 Consensus size: 9
24404889 GTAGTGATTC
24404899 AATTCGGTT
1 AATTCGGTT
*
24404908 AATTTGGTT
1 AATTCGGTT
* *
24404917 AATTTGGGT
1 AATTCGGTT
24404926 AATTCGGTT
1 AATTCGGTT
*
24404935 AATTCGGGT
1 AATTCGGTT
* *
24404944 AATCCGATT
1 AATTCGGTT
*
24404953 AATTCAGTT
1 AATTCGGTT
*
24404962 AATTTTGG-T
1 AA-TTCGGTT
*
24404971 AATTCGGGT
1 AATTCGGTT
24404980 AATTCGGTT
1 AATTCGGTT
24404989 AATT
1 AATT
24404993 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
8 4 0.06
9 61 0.90
10 3 0.04
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:24404994 original size:27 final size:27
Alignment explanation
Indices: 24404899--24404994 Score: 113
Period size: 27 Copynumber: 3.6 Consensus size: 27
24404889 GTAGTGATTC
*
24404899 AATTCGGTTAA-TTTGGTTAATTTGGGT
1 AATTCGGTTAATTTTGG-TAATTCGGGT
** * **
24404926 AATTCGGTTAATTCGGGTAATCCGATT
1 AATTCGGTTAATTTTGGTAATTCGGGT
*
24404953 AATTCAGTTAATTTTGGTAATTCGGGT
1 AATTCGGTTAATTTTGGTAATTCGGGT
24404980 AATTCGGTTAATTTT
1 AATTCGGTTAATTTT
24404995 TAACCAAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
27 52 0.95
28 3 0.05
ACGTcount: A:0.25, C:0.08, G:0.22, T:0.45
Consensus pattern (27 bp):
AATTCGGTTAATTTTGGTAATTCGGGT
Found at i:24406563 original size:22 final size:24
Alignment explanation
Indices: 24406521--24406564 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
24406511 CAATTTTGAC
24406521 AAAAAAAATCATATATCAATTTTT
1 AAAAAAAATCATATATCAATTTTT
*
24406545 AAAAAAAA-CAT-TATTAATTT
1 AAAAAAAATCATATATCAATTT
24406565 CAAGTAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 8 0.42
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAAAAAATCATATATCAATTTTT
Found at i:24408136 original size:18 final size:17
Alignment explanation
Indices: 24408113--24408147 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
24408103 GAATAGATTT
24408113 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
24408131 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
24408148 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:24408995 original size:18 final size:17
Alignment explanation
Indices: 24408964--24408998 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
24408954 GATTTAGGGT
24408964 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
24408981 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
24408999 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:24411660 original size:23 final size:24
Alignment explanation
Indices: 24411613--24411658 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
24411603 AAAAAATATT
24411613 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
24411637 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTTTATTTT
24411659 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:24411804 original size:68 final size:68
Alignment explanation
Indices: 24411725--24411934 Score: 370
Period size: 68 Copynumber: 3.1 Consensus size: 68
24411715 TCAAGTTTGT
* *
24411725 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAAATAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
24411790 AAA
66 AAA
24411793 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
24411858 AAA
66 AAA
*
24411861 TTTACTAATCAAATGTTAGATTTCATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
24411924 AAT
66 AAA
24411927 TTTACTAA
1 TTTACTAA
24411935 CAATTAATTT
Statistics
Matches: 138, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
66 27 0.20
67 1 0.01
68 110 0.80
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.40
Consensus pattern (68 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATACAATTAATAATTTGAT
AAA
Found at i:24411835 original size:9 final size:9
Alignment explanation
Indices: 24411823--24411850 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
24411813 TTTTATTACA
24411823 ACAATTAAT
1 ACAATTAAT
24411832 ACAATTAAT
1 ACAATTAAT
24411841 ACAATTAAT
1 ACAATTAAT
24411850 A
1 A
24411851 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:24411944 original size:16 final size:16
Alignment explanation
Indices: 24411923--24411964 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
24411913 AATAATTTGA
*
24411923 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
24411939 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
24411955 TAGTTTTAAT
1 TAATTTTAAT
24411965 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:24411948 original size:22 final size:23
Alignment explanation
Indices: 24411938--24411999 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
24411928 TTACTAACAA
* * *
24411938 TTAATTTTA-ATAACAATTAGTT
1 TTAATTTTATATAAAAAATAATT
*
24411960 TTAATTTTATTTAAAAAATAATT
1 TTAATTTTATATAAAAAATAATT
*
24411983 TTAATTTTA-ATTAAAAA
1 TTAATTTTATATAAAAAA
24412000 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 15 0.45
23 18 0.55
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
TTAATTTTATATAAAAAATAATT
Found at i:24413906 original size:18 final size:17
Alignment explanation
Indices: 24413869--24413942 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
24413859 TAAATTTCAT
*
24413869 AAAAT-TATAAAAATTG
1 AAAATATATAAAAATTC
24413885 AAAATATATAAACAATTC
1 AAAATATATAAA-AATTC
* *
24413903 AAAAGATATTTTAAAAA-TA
1 -AAA-ATA-TATAAAAATTC
*
24413922 AAAAAATATAAAAATTC
1 AAAATATATAAAAATTC
24413939 AAAA
1 AAAA
24413943 ATTTAAATTA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
16 12 0.26
17 13 0.28
18 7 0.15
19 4 0.09
20 5 0.11
21 5 0.11
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (17 bp):
AAAATATATAAAAATTC
Found at i:24419512 original size:43 final size:43
Alignment explanation
Indices: 24419451--24419536 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
24419441 TCAAATATGT
*
24419451 TAGTTATTCATTTCATGTAAACATCAATAACAAAGATGAGCTC
1 TAGTTATTCATATCATGTAAACATCAATAACAAAGATGAGCTC
*
24419494 TAGTTATTCATATCATGTAAACATCAATAACAAATATGAGCTC
1 TAGTTATTCATATCATGTAAACATCAATAACAAAGATGAGCTC
24419537 ATCAAATGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (43 bp):
TAGTTATTCATATCATGTAAACATCAATAACAAAGATGAGCTC
Found at i:24419828 original size:24 final size:24
Alignment explanation
Indices: 24419785--24419860 Score: 91
Period size: 24 Copynumber: 3.1 Consensus size: 24
24419775 TATAAAGGGA
24419785 AGCTCACAAAGAGC-CTTTAACAGGT
1 AGCTC-CAAAGAGCAC-TTAACAGGT
* *
24419810 AGCTCCAAAGAGCACTTAATAGGA
1 AGCTCCAAAGAGCACTTAACAGGT
* *
24419834 AGCTCCGAAGAGCACTTAACGGGT
1 AGCTCCAAAGAGCACTTAACAGGT
24419858 AGC
1 AGC
24419861 ACCGGGTAGC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 38 0.86
25 6 0.14
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.17
Consensus pattern (24 bp):
AGCTCCAAAGAGCACTTAACAGGT
Found at i:24422614 original size:28 final size:28
Alignment explanation
Indices: 24422574--24422630 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
24422564 TCGGTGGTGT
24422574 AAAGCTTTGTGTCAAGTTGGAGACCCAC
1 AAAGCTTTGTGTCAAGTTGGAGACCCAC
24422602 AAAGCTTTGTGTCAAGTTGGAGACCCAC
1 AAAGCTTTGTGTCAAGTTGGAGACCCAC
24422630 A
1 A
24422631 GAATACCAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (28 bp):
AAAGCTTTGTGTCAAGTTGGAGACCCAC
Found at i:24423389 original size:231 final size:232
Alignment explanation
Indices: 24422986--24423451 Score: 925
Period size: 231 Copynumber: 2.0 Consensus size: 232
24422976 TTGAACTAGA
24422986 TAAAGATGGTTGATAAGGAGGTTTAGGCGGCATTACATACTGCAATGAGGTCGGCGAGGAACTCA
1 TAAAGATGGTTGATAAGGAGGTTTAGGCGGCATTACATACTGCAATGAGGTCGGCGAGGAACTCA
24423051 AAACGGATGGTCGTAGGGAAAACGTTTAATTTAAATAAAACGTCAACCTTAAATGTAAAAAAAAA
66 AAACGGATGGTCGTAGGGAAAACGTTTAATTTAAATAAAACGTCAACCTTAAATGTAAAAAAAAA
24423116 TGAAATGGAAAAGCAATACTCATTATGATTCTTTTTAATAATTTATCTTTTATATATGATAACAA
131 TGAAATGGAAAAGCAATACTCATTATGATTCTTTTTAATAATTTATCTTTTATATATGATAACAA
24423181 TCTTAAAGTTTAACTATTATATATA-TTAAATATTAT
196 TCTTAAAGTTTAACTATTATATATATTTAAATATTAT
24423217 TAAAGATGGTTGATAAGGAGGTTTAGGCGGCATTACATACTGCAATGAGGTCGGCGAGGAACTCA
1 TAAAGATGGTTGATAAGGAGGTTTAGGCGGCATTACATACTGCAATGAGGTCGGCGAGGAACTCA
24423282 AAACGGATGGTCGTAGGGAAAACGTTTAATTTAAATAAAACGTCAACCTTAAATGTAAAAAAAAA
66 AAACGGATGGTCGTAGGGAAAACGTTTAATTTAAATAAAACGTCAACCTTAAATGTAAAAAAAAA
24423347 TGAAATGGAAAAGCAATACTCATTATGATTCTTTTTAATAATTTATCTTTTATATATGATAACAA
131 TGAAATGGAAAAGCAATACTCATTATGATTCTTTTTAATAATTTATCTTTTATATATGATAACAA
24423412 TCTTAAAGTTTAACTATTATATATATTTAAATATTAT
196 TCTTAAAGTTTAACTATTATATATATTTAAATATTAT
24423449 TAA
1 TAA
24423452 TTAATTTAAT
Statistics
Matches: 234, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
231 220 0.94
232 14 0.06
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (232 bp):
TAAAGATGGTTGATAAGGAGGTTTAGGCGGCATTACATACTGCAATGAGGTCGGCGAGGAACTCA
AAACGGATGGTCGTAGGGAAAACGTTTAATTTAAATAAAACGTCAACCTTAAATGTAAAAAAAAA
TGAAATGGAAAAGCAATACTCATTATGATTCTTTTTAATAATTTATCTTTTATATATGATAACAA
TCTTAAAGTTTAACTATTATATATATTTAAATATTAT
Found at i:24423797 original size:43 final size:43
Alignment explanation
Indices: 24423743--24424012 Score: 310
Period size: 43 Copynumber: 6.3 Consensus size: 43
24423733 TCTTTTAAAG
* * *
24423743 CGCCGCTATAGACTATGGTCTTTAACGGCGCTTAGATAAAAAA
1 CGCCACTATAGACTATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * * *
24423786 CGCCGCGATAGACCATGGTCTTTAGCGGCGCTTATACAAAAAA
1 CGCCACTATAGACTATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * *
24423829 TGCCACTATAGA-TCGTGGTCTTTAGCGGCGCTTATACAAAAAA
1 CGCCACTATAGACT-ATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * * *
24423872 CGCCACTATAGA-TCGTGGTCTTTAGCGGCGTTTGGATAAAAAA
1 CGCCACTATAGACT-ATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * *
24423915 CGCCACTATAGACCATGGTCTTCAGCGGCGCTTGGACAAAAAA
1 CGCCACTATAGACTATGGTCTTTAGCGGCGCTTAGACAAAAAA
* * *
24423958 CGCCACTATAGACGATGGTCTTTAGCGCCGCTTAGGCAAAAAAA
1 CGCCACTATAGACTATGGTCTTTAGCGGCGCTTAGAC-AAAAAA
*
24424002 CACCACTATAG
1 CGCCACTATAG
24424013 GCCGTGTTCT
Statistics
Matches: 198, Mismatches: 26, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
43 182 0.92
44 16 0.08
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (43 bp):
CGCCACTATAGACTATGGTCTTTAGCGGCGCTTAGACAAAAAA
Found at i:24423913 original size:129 final size:130
Alignment explanation
Indices: 24423748--24424026 Score: 373
Period size: 129 Copynumber: 2.2 Consensus size: 130
24423738 TAAAGCGCCG
** * * *
24423748 CTATAGACTATGGTCTTTAACGGCGCTTAGATAAAAAACGCCGCGATAGACCATGGTCTTTAGCG
1 CTATAGACCGTGGTCTTTAGCGGCGCTTAGATAAAAAACGCCACGATAGACCATGGTCTTCAGCG
* * * * *
24423813 GCGCTTATACAAAAAATGCCACTATAGATCG-TGGTCTTTAGCGGCGCTTATAC-AAAAAACGCC
66 GCGCTTAGACAAAAAACGCCACTATAGA-CGATGGTCTTTAGCGCCGCTTAGACAAAAAAACACC
24423876 A
130 A
* * * *
24423877 CTATAGATCGTGGTCTTTAGCGGCGTTTGGATAAAAAACGCCACTATAGACCATGGTCTTCAGCG
1 CTATAGACCGTGGTCTTTAGCGGCGCTTAGATAAAAAACGCCACGATAGACCATGGTCTTCAGCG
* *
24423942 GCGCTTGGACAAAAAACGCCACTATAGACGATGGTCTTTAGCGCCGCTTAGGCAAAAAAACACCA
66 GCGCTTAGACAAAAAACGCCACTATAGACGATGGTCTTTAGCGCCGCTTAGACAAAAAAACACCA
* *
24424007 CTATAGGCCGTGTTCTTTAG
1 CTATAGACCGTGGTCTTTAG
24424027 TGACGTTTCT
Statistics
Matches: 129, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
128 2 0.02
129 100 0.78
130 27 0.21
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (130 bp):
CTATAGACCGTGGTCTTTAGCGGCGCTTAGATAAAAAACGCCACGATAGACCATGGTCTTCAGCG
GCGCTTAGACAAAAAACGCCACTATAGACGATGGTCTTTAGCGCCGCTTAGACAAAAAAACACCA
Found at i:24424494 original size:66 final size:66
Alignment explanation
Indices: 24424410--24424576 Score: 221
Period size: 66 Copynumber: 2.5 Consensus size: 66
24424400 CTCGCTGTAG
* *
24424410 CCTCTGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTACT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTGCTGCCTCTGCTTTAAG-TACTAGCTGGAGTTCTTCATATC-TTCGTT
24424473 GAA
64 GAA
** *
24424476 CCTCAGCTTCTCTCGCTGCTGCCTCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTCTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCCTCTGCTTTAAGTACTAGCTGGAGTTCTTCATATCTTCGTTGA
24424541 A
66 A
* * * *
24424542 CATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGT
1 CCTCAGCTTCTCTCGCTGCTGCCTCTGCTTTAAGT
24424577 TGTGTAATTT
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
65 2 0.02
66 87 0.97
67 1 0.01
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCCTCTGCTTTAAGTACTAGCTGGAGTTCTTCATATCTTCGTTGA
A
Found at i:24429379 original size:14 final size:14
Alignment explanation
Indices: 24429360--24429427 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
24429350 ATGATCGTTG
24429360 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
24429374 AAACCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
24429389 TAACCCCTAAAT-T-
1 -AAACCCTAAATCTC
* *
24429402 -AACCTTAAATCCC
1 AAACCCTAAATCTC
*
24429415 AAACCTTAAATCT
1 AAACCCTAAATCT
24429428 ATACCCCGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
11 8 0.19
14 15 0.36
15 17 0.40
16 2 0.05
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:24429383 original size:15 final size:15
Alignment explanation
Indices: 24429363--24429400 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
24429353 ATCGTTGAAA
24429363 CCCTAAATCTCAAAC
1 CCCTAAATCTCAAAC
* *
24429378 CCCTAAACCTCTAAC
1 CCCTAAATCTCAAAC
24429393 CCCTAAAT
1 CCCTAAAT
24429401 TAACCTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (15 bp):
CCCTAAATCTCAAAC
Found at i:24429972 original size:41 final size:41
Alignment explanation
Indices: 24429922--24430240 Score: 178
Period size: 41 Copynumber: 7.8 Consensus size: 41
24429912 GGTAAATGCG
*
24429922 TTAGCGGTGCTTAGATACAAACGCCGCTAAAG-GCCGAAAAA
1 TTAGCGGTGCTTAGATAAAAACGCCGCTAAAGAGCCG-AAAA
* * * * * **
24429963 TTAGTGGTGCTCAGATAAAAACGTCACTAAAGATCCGAGCA
1 TTAGCGGTGCTTAGATAAAAACGCCGCTAAAGAGCCGAAAA
* * * **
24430004 TTAGCGGCGCTTAGACAAAAACGCCGCTAAA-TGCCAGAGTA
1 TTAGCGGTGCTTAGATAAAAACGCCGCTAAAGAGCC-GAAAA
* * * * * * * **
24430045 TTAGTGGCGCTCAAATAAAAACGCCACTAAAAATCCGAGCA
1 TTAGCGGTGCTTAGATAAAAACGCCGCTAAAGAGCCGAAAA
* * * * **
24430086 TTAGCGGCGCTGAGAGAAAATCGCCGCTAAAG-GCCAGAAGT
1 TTAGCGGTGCTTAGATAAAAACGCCGCTAAAGAGCC-GAAAA
* * * * *
24430127 TTAGCGGCG-TTCATATAAAAACGCCGCTAAAGATCTGAGAA
1 TTAGCGGTGCTT-AGATAAAAACGCCGCTAAAGAGCCGAAAA
* * * * * **
24430168 TTAGCGGCGCTCAGATAAAAACACCACTAAAGATCCGAGCA
1 TTAGCGGTGCTTAGATAAAAACGCCGCTAAAGAGCCGAAAA
* ** *
24430209 TTAGCGGCGCACAAATAAAAACGCCGCTAAAG
1 TTAGCGGTGCTTAGATAAAAACGCCGCTAAAG
24430241 GTTTAAAAAT
Statistics
Matches: 216, Mismatches: 55, Indels: 14
0.76 0.19 0.05
Matches are distributed among these distances:
40 5 0.02
41 204 0.94
42 7 0.03
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (41 bp):
TTAGCGGTGCTTAGATAAAAACGCCGCTAAAGAGCCGAAAA
Found at i:24430017 original size:82 final size:82
Alignment explanation
Indices: 24429922--24430240 Score: 336
Period size: 82 Copynumber: 3.9 Consensus size: 82
24429912 GGTAAATGCG
* * * *
24429922 TTAGCGGTGCTTAGATACAAACGCCGCTAAAGGCC-GAAAAATTAGTGGTGCTCAGATAAAAACG
1 TTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAG-AAAATTAGTGGCGCTCAAATAAAAACG
*
24429986 TCACTAAAGATCCGAGCA
65 CCACTAAAGATCCGAGCA
* * **
24430004 TTAGCGGCGCTTAGACAAAAACGCCGCTAAATGCCAGAGTATTAGTGGCGCTCAAATAAAAACGC
1 TTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAAAATTAGTGGCGCTCAAATAAAAACGC
*
24430069 CACTAAAAATCCGAGCA
66 CACTAAAGATCCGAGCA
* * * ** * * *
24430086 TTAGCGGCGCTGAGAGAAAATCGCCGCTAAAGGCCAGAAGTTTAGCGGCGTTCATATAAAAACGC
1 TTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAAAATTAGTGGCGCTCAAATAAAAACGC
* * *
24430151 CGCTAAAGATCTGAGAA
66 CACTAAAGATCCGAGCA
* * * * ** * *
24430168 TTAGCGGCGCTCAGATAAAAACACCACTAAAGATCC-GAGCATTAGCGGCGCACAAATAAAAACG
1 TTAGCGGCGCTTAGATAAAAACGCCGCTAAAG-GCCAGAAAATTAGTGGCGCTCAAATAAAAACG
*
24430232 CCGCTAAAG
65 CCACTAAAG
24430241 GTTTAAAAAT
Statistics
Matches: 199, Mismatches: 36, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
82 196 0.98
83 3 0.02
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (82 bp):
TTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAAAATTAGTGGCGCTCAAATAAAAACGC
CACTAAAGATCCGAGCA
Found at i:24430116 original size:123 final size:123
Alignment explanation
Indices: 24430003--24430241 Score: 311
Period size: 123 Copynumber: 1.9 Consensus size: 123
24429993 AGATCCGAGC
* *
24430003 ATTAGCGGCGCTT-AGACAAAAACGCCGCTAAATG-CCAGAGTATTAGTGGCGCTCAAATAAAAA
1 ATTAGCGGCG-TTCAGACAAAAACGCCGCTAAA-GACCAGAGAATTAGCGGCGCTCAAATAAAAA
*
24430066 CGCCACTAAAAATCCGAGCATTAGCGGCGCTGAGAGAAAATCGCCGCTAAAGGCCAGAAG
64 CACCACTAAAAATCCGAGCATTAGCGGCGCTGAGAGAAAATCGCCGCTAAAGGCCAGAAG
* * * * * *
24430126 TTTAGCGGCGTTCATATAAAAACGCCGCTAAAGATCTGAGAATTAGCGGCGCTCAGATAAAAACA
1 ATTAGCGGCGTTCAGACAAAAACGCCGCTAAAGACCAGAGAATTAGCGGCGCTCAAATAAAAACA
* ** * * *
24430191 CCACTAAAGATCCGAGCATTAGCGGCGCACAAATAAAAACGCCGCTAAAGG
66 CCACTAAAAATCCGAGCATTAGCGGCGCTGAGAGAAAATCGCCGCTAAAGG
24430242 TTTAAAAATC
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
122 3 0.03
123 96 0.97
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (123 bp):
ATTAGCGGCGTTCAGACAAAAACGCCGCTAAAGACCAGAGAATTAGCGGCGCTCAAATAAAAACA
CCACTAAAAATCCGAGCATTAGCGGCGCTGAGAGAAAATCGCCGCTAAAGGCCAGAAG
Found at i:24432640 original size:22 final size:22
Alignment explanation
Indices: 24432612--24432677 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
24432602 ATCTCACCAC
24432612 ATAGTTTGTGGTATACCTAATA
1 ATAGTTTGTGGTATACCTAATA
* *
24432634 ATAGTTT-T--TATA-GT-A-C
1 ATAGTTTGTGGTATACCTAATA
24432650 A-AGTTTGTGGTATACCTAATA
1 ATAGTTTGTGGTATACCTAATA
24432671 ATAGTTT
1 ATAGTTT
24432678 TTATAGTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
15 5 0.15
16 2 0.06
17 1 0.03
18 5 0.15
19 5 0.15
20 1 0.03
21 2 0.06
22 12 0.36
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.44
Consensus pattern (22 bp):
ATAGTTTGTGGTATACCTAATA
Found at i:24432664 original size:37 final size:37
Alignment explanation
Indices: 24432614--24432688 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
24432604 CTCACCACAT
24432614 AGTTTGTGGTATACCTAATAATAGTTTTTATAGTACA
1 AGTTTGTGGTATACCTAATAATAGTTTTTATAGTACA
24432651 AGTTTGTGGTATACCTAATAATAGTTTTTATAGTACA
1 AGTTTGTGGTATACCTAATAATAGTTTTTATAGTACA
24432688 A
1 A
24432689 CCATTTACGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (37 bp):
AGTTTGTGGTATACCTAATAATAGTTTTTATAGTACA
Found at i:24438412 original size:18 final size:16
Alignment explanation
Indices: 24438380--24438421 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
24438370 AATCATTATT
24438380 TAATTAATTTAATATC
1 TAATTAATTTAATATC
24438396 TAATTATATTGTAATAT-
1 TAATTA-ATT-TAATATC
24438413 TAACTTAAT
1 TAA-TTAAT
24438422 CAATAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTAATTTAATATC
Found at i:24439543 original size:18 final size:16
Alignment explanation
Indices: 24439511--24439552 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
24439501 AATCATTATT
24439511 TAATTAATTTAATATC
1 TAATTAATTTAATATC
24439527 TAATTATATTGTAATAT-
1 TAATTA-ATT-TAATATC
24439544 TAACTTAAT
1 TAA-TTAAT
24439553 CAATAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATTAATTTAATATC
Found at i:24443764 original size:15 final size:16
Alignment explanation
Indices: 24443744--24443775 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
24443734 ACAATAATTC
24443744 TAAAAATTT-TAAAAA
1 TAAAAATTTATAAAAA
24443759 TAAAAATTTATAAAAA
1 TAAAAATTTATAAAAA
24443775 T
1 T
24443776 TCAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TAAAAATTTATAAAAA
Found at i:24447092 original size:115 final size:114
Alignment explanation
Indices: 24446734--24447110 Score: 456
Period size: 114 Copynumber: 3.3 Consensus size: 114
24446724 AAAATAAGCA
** **
24446734 TTAGCGGCGTTTTTTATCCAAA-CGCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGGGC
1 TTAGCGGCGTTTTTGGT--AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACC
* * * ** *
24446797 ATTCAGGGATTTAGCGGCGTTTTTTAGGAAGCGCCGCTAATGCTCAGGGCT
64 TTTCGGGGATTTAGCGGCGTTTTTAATAAAGCACCGCTAATGCTCAGGGCT
* * * *
24446848 TTAGTGGCATTTTTGAG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTTTGACCT
1 TTAGCGGCGTTTTTG-GTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCT
* *
24446912 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCACCGCTAATTCTCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAATAAAGCACCGCTAATGCTCAGGGCT
* * * *
24446962 TTTGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACATTAGCCCAATGACGCCGTTTTCTGACCTT
1 TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCTT
* * * *
24447027 TCGGGGGCTTTAGCGGCATTTTTAATACAA-CACCGCTAATGCTCTGGGAT
66 TC-GGGGATTTAGCGGCGTTTTTAATA-AAGCACCGCTAATGCTCAGGGCT
*
24447077 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAA
1 TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAA
24447111 TTATTTGTCT
Statistics
Matches: 227, Mismatches: 30, Indels: 11
0.85 0.11 0.04
Matches are distributed among these distances:
112 3 0.01
113 7 0.03
114 145 0.64
115 70 0.31
116 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGACCTT
TCGGGGATTTAGCGGCGTTTTTAATAAAGCACCGCTAATGCTCAGGGCT
Found at i:24447603 original size:16 final size:16
Alignment explanation
Indices: 24447582--24447618 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
24447572 TTCGCTGTAT
24447582 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
24447598 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
24447614 TGGAA
1 TGGAA
24447619 AATCAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.38, T:0.19
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:24453205 original size:54 final size:54
Alignment explanation
Indices: 24453146--24453252 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
24453136 TCAAATTTCT
24453146 TATTATTATATTTGTTGGAATTAGTCAGTTGGAATTATTAAATCAAAAAATGAA
1 TATTATTATATTTGTTGGAATTAGTCAGTTGGAATTATTAAATCAAAAAATGAA
*
24453200 TATTATTATATTTGTTGGAATTAGTCAGTTGGACTTATTAAATCAAAAAATGA
1 TATTATTATATTTGTTGGAATTAGTCAGTTGGAATTATTAAATCAAAAAATGA
24453253 TCGATTGGTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (54 bp):
TATTATTATATTTGTTGGAATTAGTCAGTTGGAATTATTAAATCAAAAAATGAA
Found at i:24457653 original size:87 final size:87
Alignment explanation
Indices: 24457502--24457667 Score: 251
Period size: 87 Copynumber: 1.9 Consensus size: 87
24457492 GACCACAGTT
* * * *
24457502 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCAGCAGCGAGAGAAGC
*
24457567 AAAGGCTGCAGCGAAAGAATCA
66 AAACGCTGCAGCGAAAGAATCA
* * *
24457589 GAGGTTCAAAATAAATATGAAGAACTCCAGCTACAACTTAAAACAGATGCAGCATCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCAGCAGCGAGAGAAGC
*
24457654 AGACGCTGCAGCGA
66 AAACGCTGCAGCGA
24457668 GGGAAGCAGA
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 70 1.00
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.13
Consensus pattern (87 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAACAGAGGCAGCAGCGAGAGAAGC
AAACGCTGCAGCGAAAGAATCA
Found at i:24457656 original size:21 final size:21
Alignment explanation
Indices: 24457632--24457677 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
24457622 CAACTTAAAA
* *
24457632 CAGATGCAGCATCGAGAGAAG
1 CAGACGCAGCAGCGAGAGAAG
* *
24457653 CAGACGCTGCAGCGAGGGAAG
1 CAGACGCAGCAGCGAGAGAAG
24457674 CAGA
1 CAGA
24457678 GTAGAGCAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.22, G:0.37, T:0.07
Consensus pattern (21 bp):
CAGACGCAGCAGCGAGAGAAG
Found at i:24457701 original size:87 final size:87
Alignment explanation
Indices: 24457502--24457704 Score: 210
Period size: 87 Copynumber: 2.3 Consensus size: 87
24457492 GACCACAGTT
* * * * * *
24457502 GAGGTTCAAAGGAAATATGAAGAACTCCAGCTACAACTTAAAGCAGAGGCGGCAGCGAGGGAAGC
1 GAGGTACAAAAGAAATACGAAGAACTCCAGCTACAACTTAAAACAGAGGCAGCAGCGAGAGAAGC
* *
24457567 AAAGGCTGCAGCGAAAGAATCA
66 AAACGCTGCAGCGAAAGAAGCA
* * * * *
24457589 GAGGTTCAAAATAAATATGAAGAACTCCAGCTACAACTTAAAACAGATGCAGCATCGAGAGAAGC
1 GAGGTACAAAAGAAATACGAAGAACTCCAGCTACAACTTAAAACAGAGGCAGCAGCGAGAGAAGC
* **
24457654 AGACGCTGCAGCGAGGGAAGCA
66 AAACGCTGCAGCGAAAGAAGCA
* ** *
24457676 GA-GTAGAGCAGAAAGTACGACGAACTCCA
1 GAGGTACAAAAGAAA-TACGAAGAACTCCA
24457705 ACAACAGTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
86 7 0.07
87 89 0.93
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.12
Consensus pattern (87 bp):
GAGGTACAAAAGAAATACGAAGAACTCCAGCTACAACTTAAAACAGAGGCAGCAGCGAGAGAAGC
AAACGCTGCAGCGAAAGAAGCA
Found at i:24458129 original size:44 final size:44
Alignment explanation
Indices: 24458013--24458130 Score: 100
Period size: 44 Copynumber: 2.7 Consensus size: 44
24458003 GCCGCTAAAA
* ** *
24458013 GCTAAAGAGCATGAC-CATAGCGGCGTTTGTGGAAAAAAACGCC
1 GCTAAAGAACATGACTTGTAGCGACGTTTGTGGAAAAAAACGCC
* * ** *
24458056 GCTAAAGAACATTACTTGTAGC-AGTGTTTGTGG-AAAAGGCTCC
1 GCTAAAGAACATGACTTGTAGCGA-CGTTTGTGGAAAAAAACGCC
24458099 GCTAAAAGAACATGAGCTT-TAGCGACGTTTGT
1 GCT-AAAGAACATGA-CTTGTAGCGACGTTTGT
24458131 TGGTATGCGC
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
43 23 0.39
44 32 0.54
45 4 0.07
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (44 bp):
GCTAAAGAACATGACTTGTAGCGACGTTTGTGGAAAAAAACGCC
Found at i:24458204 original size:43 final size:42
Alignment explanation
Indices: 24458103--24458297 Score: 198
Period size: 43 Copynumber: 4.6 Consensus size: 42
24458093 GGCTCCGCTA
* * * *
24458103 AAAGAACATGAGCTTTAGCGACGTTTG-TTGGTATGCGCCACT
1 AAAGAACATGACCTTTAGCGGCGTTTGTTTTG-AAGCGCCACT
* ** * * *
24458145 AAATG-TCATGTTCTTTAGCGGCGTTTGTCGTAGAATCGCCACT
1 AAA-GAACATGACCTTTAGCGGCGTTTGT-TTTGAAGCGCCACT
* * * *
24458188 AAAGAACATGACCTTTAGCGACGTTTTTTTTTGAAGCCCCGCT
1 AAAGAACATGACCTTTAGCGGCG-TTTGTTTTGAAGCGCCACT
*
24458231 AAAGAACATGACCTTTAGCGGCGTTT-TTTTGAAGCGCCGCT
1 AAAGAACATGACCTTTAGCGGCGTTTGTTTTGAAGCGCCACT
24458272 AAAGAACATGACCTTTAGCGGCGTTT
1 AAAGAACATGACCTTTAGCGGCGTTT
24458298 NNNNNNNNNN
Statistics
Matches: 128, Mismatches: 20, Indels: 11
0.81 0.13 0.07
Matches are distributed among these distances:
41 40 0.31
42 25 0.20
43 57 0.45
44 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (42 bp):
AAAGAACATGACCTTTAGCGGCGTTTGTTTTGAAGCGCCACT
Found at i:24459410 original size:43 final size:43
Alignment explanation
Indices: 24459338--24459612 Score: 358
Period size: 43 Copynumber: 6.4 Consensus size: 43
24459328 AAACAAATAA
* * *
24459338 CGGCGTCTGTGTAAAAA-CGCCGCTAAAAGAACATGACCTTTAG
1 CGGCGTTTGTGGAAAAAGCGCCGCT-AAAGAACATGATCTTTAG
* * * * *
24459381 TGGCGTTTGAGGAAGAAGCGCCACTAAAGAACATGATTTTTAG
1 CGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTTTAG
24459424 CGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTTTAG
1 CGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTTTAG
* *
24459467 CGG-GATTTGTGGAAAAAACGCCGCT-AAGAACCATGATCTTTAA
1 CGGCG-TTTGTGGAAAAAGCGCCGCTAAAGAA-CATGATCTTTAG
*
24459510 CGGAGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTTTAG
1 CGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTTTAG
* * * *
24459553 TGGCGTTTGTTGAAAAAGCGCCACTAAAGAACATGACCTTTAG
1 CGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTTTAG
24459596 CGGCGTTTGTAGGAAAA
1 CGGCGTTTGT-GGAAAA
24459613 CGCTGCTAAA
Statistics
Matches: 202, Mismatches: 24, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
42 6 0.03
43 179 0.89
44 17 0.08
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (43 bp):
CGGCGTTTGTGGAAAAAGCGCCGCTAAAGAACATGATCTTTAG
Found at i:24460239 original size:9 final size:10
Alignment explanation
Indices: 24460216--24460278 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
24460206 AGAAGTTAGA
24460216 AAAAAATTAT
1 AAAAAATTAT
*
24460226 AAAAAATTGT
1 AAAAAATTAT
24460236 AAAAAATTAT
1 AAAAAATTAT
*
24460246 AAAATA-TAT
1 AAAAAATTAT
*
24460255 -AGAAA-TAT
1 AAAAAATTAT
*
24460263 AGAAAAAATAT
1 A-AAAAATTAT
24460274 AAAAA
1 AAAAA
24460279 TTTTATAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
8 6 0.14
9 3 0.07
10 31 0.70
11 4 0.09
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:24460249 original size:28 final size:28
Alignment explanation
Indices: 24460218--24460277 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
24460208 AAGTTAGAAA
*
24460218 AAAAT-TATA-AAAAATTGTAAAAAATTAT
1 AAAATATATAGAAAAATAG-AAAAAA-TAT
*
24460246 AAAATATATAGAAATATAGAAAAAATAT
1 AAAATATATAGAAAAATAGAAAAAATAT
24460274 AAAA
1 AAAA
24460278 ATTTTATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 12 0.43
29 10 0.36
30 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (28 bp):
AAAATATATAGAAAAATAGAAAAAATAT
Found at i:24460545 original size:10 final size:10
Alignment explanation
Indices: 24460527--24460638 Score: 59
Period size: 10 Copynumber: 11.1 Consensus size: 10
24460517 TTGATGCATA
24460527 TTATAATTTT
1 TTATAATTTT
*
24460537 TTATGA-TTT
1 TTATAATTTT
**
24460546 TTATAAAATT
1 TTATAATTTT
*
24460556 TTACAATTTT
1 TTATAATTTT
*
24460566 TTATATTTTT
1 TTATAATTTT
*
24460576 TTATGATATTT
1 TTATAAT-TTT
* *
24460587 ATATATAGTTT
1 TTATA-ATTTT
* *
24460598 TTCTAA-GTT
1 TTATAATTTT
*
24460607 TTAGTAA-ATT
1 TTA-TAATTTT
*
24460617 TTAAATATTTT
1 TTATA-ATTTT
24460628 TTATAATTTT
1 TTATAATTTT
24460638 T
1 T
24460639 ATTAAAGTTT
Statistics
Matches: 75, Mismatches: 21, Indels: 12
0.69 0.19 0.11
Matches are distributed among these distances:
9 13 0.17
10 43 0.57
11 18 0.24
12 1 0.01
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (10 bp):
TTATAATTTT
Found at i:24460549 original size:19 final size:19
Alignment explanation
Indices: 24460527--24460589 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
24460517 TTGATGCATA
24460527 TTATAATTTTTTATGATTT
1 TTATAATTTTTTATGATTT
** **
24460546 TTATAAAATTTTACAATTTT
1 TTATAATTTTTTATGA-TTT
* *
24460566 TTATATTTTTTTATGATAT
1 TTATAATTTTTTATGATTT
24460585 TTATA
1 TTATA
24460590 TATAGTTTTT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (19 bp):
TTATAATTTTTTATGATTT
Found at i:24460587 original size:29 final size:30
Alignment explanation
Indices: 24460513--24460587 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 30
24460503 ATTAAAGGGC
* *
24460513 TTTTTTGATGCATA-TTATAATTTTTTATGA
1 TTTTTTTATG-ATATTTACAATTTTTTATGA
* **
24460543 TTTTTATAAAAT-TTTACAATTTTTTAT-A
1 TTTTTTTATGATATTTACAATTTTTTATGA
24460571 TTTTTTTATGATATTTA
1 TTTTTTTATGATATTTA
24460588 TATATAGTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
28 10 0.29
29 19 0.54
30 6 0.17
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (30 bp):
TTTTTTTATGATATTTACAATTTTTTATGA
Found at i:24460637 original size:9 final size:9
Alignment explanation
Indices: 24460527--24460693 Score: 59
Period size: 9 Copynumber: 17.2 Consensus size: 9
24460517 TTGATGCATA
24460527 TTATAATTTT
1 TTATAA-TTT
*
24460537 TTATGATTT
1 TTATAATTT
*
24460546 TTATAAAATT
1 TTAT-AATTT
*
24460556 TTACAATTTT
1 TTATAA-TTT
*
24460566 TTATATTTTT
1 TTATA-ATTT
24460576 TTATGATATTT
1 TTAT-A-ATTT
*
24460587 ATATATAGTTT
1 -T-TATAATTT
* *
24460598 TTCTAAGTT
1 TTATAATTT
24460607 TTAGTAAATTT
1 TTA-T-AATTT
* *
24460618 TAAATATTTT
1 T-TATAATTT
24460628 TTATAATTT
1 TTATAATTT
*
24460637 TTATTAAAGTT
1 TTA-T-AATTT
* *
24460648 TAATAACTT
1 TTATAATTT
*
24460657 TTATAACTT
1 TTATAATTT
24460666 TTAT--TTGT
1 TTATAATT-T
* *
24460674 TTTTATTTT
1 TTATAATTT
24460683 TTATAATTT
1 TTATAATTT
24460692 TT
1 TT
24460694 TTACCACATG
Statistics
Matches: 117, Mismatches: 26, Indels: 29
0.68 0.15 0.17
Matches are distributed among these distances:
7 1 0.01
8 4 0.03
9 51 0.44
10 35 0.30
11 20 0.17
12 3 0.03
13 3 0.03
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (9 bp):
TTATAATTT
Found at i:24462300 original size:15 final size:15
Alignment explanation
Indices: 24462280--24462310 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24462270 AATTAAACAC
24462280 TAATAAAAATGATAA
1 TAATAAAAATGATAA
*
24462295 TAATAATAATGATAA
1 TAATAAAAATGATAA
24462310 T
1 T
24462311 GAAATGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (15 bp):
TAATAAAAATGATAA
Found at i:24470823 original size:24 final size:24
Alignment explanation
Indices: 24470796--24470842 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
24470786 ACCGATGGCG
24470796 ACACCAAT-ACCATCATCAATGCTA
1 ACACCAATGACCA-CATCAATGCTA
*
24470820 ACACCAATGCCCACATCAATGCT
1 ACACCAATGACCACATCAATGCT
24470843 GATGTATTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.19
Consensus pattern (24 bp):
ACACCAATGACCACATCAATGCTA
Found at i:24477081 original size:25 final size:25
Alignment explanation
Indices: 24477050--24477136 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
24477040 ACAAGCTTTA
* * *
24477050 AACGGTAAACTCTTTCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
*
24477075 AATGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
24477100 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCCTCCGAGCTGAAT
24477125 AACGGTAAGCTC
1 AACGGTAAGCTC
24477137 ATACGAGTTG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCCTCCGAGCTGAAT
Found at i:24477143 original size:25 final size:25
Alignment explanation
Indices: 24477050--24477173 Score: 131
Period size: 25 Copynumber: 5.0 Consensus size: 25
24477040 ACAAGCTTTA
* * *
24477050 AACGGTAAACTCTTTCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTGAAT
* * *
24477075 AATGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTGAAT
* *
24477100 AACGGTAAGCTCCTCCGAGCTGAAT
1 AACGGTAAGCTCATACGAGCTGAAT
* *
24477125 AACGGTAAGCTCATACGAGTTGAGT
1 AACGGTAAGCTCATACGAGCTGAAT
* * *
24477150 ATCGATAAGCTCATAAGAGCTGAA
1 AACGGTAAGCTCATACGAGCTGAA
24477174 ATCGATAACC
Statistics
Matches: 85, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 85 1.00
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTGAAT
Found at i:24480150 original size:18 final size:18
Alignment explanation
Indices: 24480105--24480152 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
24480095 ATAATATAAA
* *
24480105 TTAAATAGTAAATTATTT
1 TTAAATATTAAAATATTT
**
24480123 AGAAAT-TTAAAATATTT
1 TTAAATATTAAAATATTT
24480140 TTAAATATTAAAA
1 TTAAATATTAAAA
24480153 ATTCCGATTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
TTAAATATTAAAATATTT
Found at i:24481036 original size:24 final size:24
Alignment explanation
Indices: 24481009--24481054 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24480999 CAGCCTCTCA
*
24481009 ATTTTCAAGTCCAAGATTCAACAC
1 ATTTTCAAGTCCAAGATCCAACAC
*
24481033 ATTTTGAAGTCCAAGATCCAAC
1 ATTTTCAAGTCCAAGATCCAAC
24481055 TTCAAATGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (24 bp):
ATTTTCAAGTCCAAGATCCAACAC
Found at i:24481325 original size:140 final size:140
Alignment explanation
Indices: 24480979--24481451 Score: 586
Period size: 140 Copynumber: 3.4 Consensus size: 140
24480969 TATTTTTAAA
* * * * * *
24480979 ATTTTTGTTTTAACCAAGCGCAGCCTCTCAATTTTCAAGTCCAAGATTCAACACATTTTGAAGTC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATCCAACAAATTTTAAAGTC
** *
24481044 CAAGATCCAACTTCAAATGTAACTACTTATTCAACTAGTTCATGCAATTTCTGTAATTTTACACT
66 CAAGATCCAACTTCAAATGTAACTACTTATTCAACTAACTCATGCAATTTTTGTAA--TTACACT
*
24481109 TCATATGCTAAT
129 TCATATACTAAT
* * * * * *
24481121 ATTTTTGTTTTAAACAAATGCAGCCTCTCAACTCTTAAGTCTAAGATTCAACAAATTCTAAAGTC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATCCAACAAATTTTAAAGTC
* * *
24481186 CAGGATCAAACTTCAAATGTATCTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
66 CAAGATCCAACTTCAAATGTAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
* *
24481251 ATGTACTAGT
131 ATATACTAAT
* * * * *
24481261 ATTTTTGTTTTAACCAAGTGTAGCCTCTTAACTCTCAAGTCCAAGATCCAATAGATTTTTAAGTC
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATCCAACAAATTTTAAAGTC
* * ** ** * *
24481326 CAAGATCCAACTTCAAATATAACTACTTATCCAACTAACTTGTGCAAAATTTGTAATTCCACTTT
66 CAAGATCCAACTTCAAATGTAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
24481391 ATATACTAAT
131 ATATACTAAT
* * * *
24481401 ATTTTTGTTTTAACTAAGTGAAACCTCTCAACTCTCAAGTTCAAGATCCAA
1 ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATCCAA
24481452 ATCTATCTGG
Statistics
Matches: 283, Mismatches: 48, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
140 178 0.63
142 105 0.37
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (140 bp):
ATTTTTGTTTTAACCAAGTGCAGCCTCTCAACTCTCAAGTCCAAGATCCAACAAATTTTAAAGTC
CAAGATCCAACTTCAAATGTAACTACTTATTCAACTAACTCATGCAATTTTTGTAATTACACTTC
ATATACTAAT
Found at i:24481551 original size:22 final size:21
Alignment explanation
Indices: 24481523--24481567 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
24481513 CACATTAGCG
24481523 AACAAATATATAAATATAAATA
1 AACAAATATATAAATA-AAATA
* *
24481545 AACAAATATTTATATAAAATA
1 AACAAATATATAAATAAAATA
24481566 AA
1 AA
24481568 TAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AACAAATATATAAATAAAATA
Found at i:24485563 original size:81 final size:81
Alignment explanation
Indices: 24485359--24486007 Score: 437
Period size: 81 Copynumber: 7.7 Consensus size: 81
24485349 TGTTTGCAAA
* * * *
24485359 CAAAATCAAAATAAAATCTGTTAAACGGCAGGAATAAATCTCAAAACATAATTATTTAATTAAAT
1 CAAAATC-GAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACA-AATTATTCAATT--AT
* *
24485424 CTTCTCGTTTAGAAAGAAAAT
62 -TTCTCGTTTGGAAACAAAAT
* * * * *
24485445 CAAAATCGAATAAAATCTGTTAAATGACAGGACTAAATCCCGAAACAGATTATTCAATTATTTGT
1 CAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACAAATTATTCAATTATTTCT
* **
24485510 CATTTGGAAGGAAAAT
66 CGTTTGGAAACAAAAT
* * * *** * * *
24485526 AAAAATCAAATAAAATCTATTAAACGGTGGGAATAAATCTCAAAATAGATTATTCAATTATTTCT
1 CAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACAAATTATTCAATTATTTCT
24485591 CGTTTGGAAACAAAAT
66 CGTTTGGAAACAAAAT
* * *
24485607 CAAAATCGAATAAAATCTGTTAAACGACGGGAATAAATCCAAAAACAAATTATTCAACTATTTCT
1 CAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACAAATTATTCAATTATTTCT
24485672 CGTTTGGAAACAAAAT
66 CGTTTGGAAACAAAAT
* * * * * ** *
24485688 CAAAATCGAATAAATTTTGTTAAAAGGCAGGAATAAATCTCAAAACATGTTTTATTTAATTTTAA
1 CAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACA--AATTATTCAA--TT-A
* *
24485753 ATTCTCATTTGGAAACAAAATT
61 TTTCTCGTTTGGAAACAAAA-T
* * * * * * * * *
24485775 AAAAATGGAATAAAATCTGTTGAATGGC-GAGATTAAATTCCGAAAA-AATTTTATTTAATT-TT
1 CAAAATCGAATAAAATCTGTTAAACGACAG-GAATAAA-TCCCAAAACAA-ATTATTCAATTATT
24485837 AATACTCGTTTGGAAACAAAAT
63 --T-CTCGTTTGGAAACAAAAT
* * * * * * * * *
24485859 AAAAAAATGGAATAAAATCTGTTGAATGGC-GAGATTAAATTCCGAAAA-AATTTTATTTAATT-
1 --CAAAATCGAATAAAATCTGTTAAACGACAG-GAATAAA-TCCCAAAACAA-ATTATTCAATTA
24485921 TTAATACTCGTTTGGAAACAAAAT
61 TT--T-CTCGTTTGGAAACAAAAT
* * * * * * * *
24485945 AAAAAAATGGAATAAAATCTGTTGAATGGCAGGAATAGATCCCGAAATAAATTTTATTCAATT
1 --CAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACAAA--TTATTCAATT
24486008 TTAAATTTTA
Statistics
Matches: 477, Mismatches: 68, Indels: 35
0.82 0.12 0.06
Matches are distributed among these distances:
81 193 0.40
82 3 0.01
83 7 0.01
84 14 0.03
85 57 0.12
86 157 0.33
87 40 0.08
88 6 0.01
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (81 bp):
CAAAATCGAATAAAATCTGTTAAACGACAGGAATAAATCCCAAAACAAATTATTCAATTATTTCT
CGTTTGGAAACAAAAT
Found at i:24485620 original size:162 final size:163
Alignment explanation
Indices: 24485360--24485986 Score: 523
Period size: 162 Copynumber: 3.7 Consensus size: 163
24485350 GTTTGCAAAC
24485360 AAAATCAAAATAAAATCTGTTAAACGGCAGGAATAAATCTCAAAACATA-ATTATTTAATTAAAT
1 AAAATC-AAATAAAATCTGTTAAACGGCAGGAATAAATCTC-AAA-ATAGATTATTTAATT-AAT
* * * **
24485424 CTTCTCGTTTAGAAAGAAAATCAAAATCGAATAAAATCTGTTAAATGACAGGACTAAATCCCGAA
62 -TTCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAATGACAGGAATAAATCCAAAA
* * * **
24485489 ACAGATTATTCAATTATTTGTCATTTGGAAGGAAAATA
126 ACAAATTATTCAACTATTTCTCATTTGGAAACAAAATA
* ** *
24485527 AAAATCAAATAAAATCTATTAAACGGTGGGAATAAATCTCAAAATAGATTATTCAATT-ATTTCT
1 AAAATCAAATAAAATCTGTTAAACGGCAGGAATAAATCTCAAAATAGATTATTTAATTAATTTCT
* *
24485591 CGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGACGGGAATAAATCCAAAAACAAA
66 CGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAATGACAGGAATAAATCCAAAAACAAA
* *
24485656 TTATTCAACTATTTCTCGTTTGGAAACAAAATC
131 TTATTCAACTATTTCTCATTTGGAAACAAAATA
* * * * * * *
24485689 AAAATCGAATAAATTTTGTTAAAAGGCAGGAATAAATCTCAAAACATGTTTTATTTAATTTTAAA
1 AAAATCAAATAAAATCTGTTAAACGGCAGGAATAAATCTCAAAATA-G-ATTATTTAA--TTAAT
* * * * * *
24485754 TTCTCATTTGGAAACAAAATTAAAAATGGAATAAAATCTGTTGAATGGC-GAGATTAAATTCCGA
62 TTCTCGTTTGGAAACAAAA-TCAAAATCGAATAAAATCTGTTAAATGACAG-GAATAAA-TCC-A
** * * *
24485818 AAAA-ATTTTATTTAA-TTTTAATACTCGTTTGGAAACAAAATAAA
123 AAAACAAATTATTCAACTATT--T-CTCATTTGGAAACAAAAT--A
** * * * * **
24485862 AAAATGGAATAAAATCTGTTGAATGGC-GAGATTAAAT-TCCGAAAAAATTTTATTTAATTTTAA
1 AAAATCAAATAAAATCTGTTAAACGGCAG-GAATAAATCT-C-AAAATAGATTATTTAA--TTAA
* * * * * *
24485925 -TACTCGTTTGGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAATGGCAGGAATAGATCC
61 TTTCTCGTTTGGAAACAAAAT--CAAAATCGAATAAAATCTGTTAAATGACAGGAATAAATCC
24485987 CGAAATAAAT
Statistics
Matches: 386, Mismatches: 53, Indels: 38
0.81 0.11 0.08
Matches are distributed among these distances:
162 126 0.33
163 3 0.01
164 10 0.03
165 13 0.03
166 33 0.09
167 26 0.07
168 33 0.09
169 11 0.03
170 7 0.02
171 38 0.10
172 50 0.13
173 31 0.08
174 5 0.01
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (163 bp):
AAAATCAAATAAAATCTGTTAAACGGCAGGAATAAATCTCAAAATAGATTATTTAATTAATTTCT
CGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAATGACAGGAATAAATCCAAAAACAAA
TTATTCAACTATTTCTCATTTGGAAACAAAATA
Found at i:24485827 original size:86 final size:86
Alignment explanation
Indices: 24485737--24486011 Score: 446
Period size: 86 Copynumber: 3.2 Consensus size: 86
24485727 TCAAAACATG
* * *
24485737 TTTTATTTAATTTTAAATTCTCATTTGGAAACAAAAT-TAAAAATGGAATAAAATCTGTTGAATG
1 TTTTATTTAATTTT-AATACTCGTTTGGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAATG
24485801 GCGAGATTAAATTCCGAAAAAA
65 GCGAGATTAAATTCCGAAAAAA
24485823 TTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAATGG
1 TTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAATGG
24485888 CGAGATTAAATTCCGAAAAAA
66 CGAGATTAAATTCCGAAAAAA
24485909 TTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAATGG
1 TTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAATGG
* * *
24485974 C-AGGAATAGATCCCGAAATAAA
66 CGA-GATTAAATTCCGAAA-AAA
*
24485996 TTTTATTCAATTTTAA
1 TTTTATTTAATTTTAA
24486012 ATTTTATTTT
Statistics
Matches: 179, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
85 21 0.12
86 140 0.78
87 18 0.10
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (86 bp):
TTTTATTTAATTTTAATACTCGTTTGGAAACAAAATAAAAAAATGGAATAAAATCTGTTGAATGG
CGAGATTAAATTCCGAAAAAA
Found at i:24486904 original size:20 final size:20
Alignment explanation
Indices: 24486879--24486927 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
24486869 AGGAGCAATT
*
24486879 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATC
**
24486899 AAATCAAATTGATTGGAATC
1 AAATCAAATTGATTAAAATC
*
24486919 AAATAAAAT
1 AAATCAAAT
24486928 CAGAATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:24487414 original size:21 final size:21
Alignment explanation
Indices: 24487373--24487414 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
24487363 ATTTTCGAAA
*
24487373 ACCACTTGACTTTATTGATTT
1 ACCACTTGACTTAATTGATTT
24487394 ACCACTTGAACTTAATT-ATTT
1 ACCACTTG-ACTTAATTGATTT
24487415 GTTCAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.45
Consensus pattern (21 bp):
ACCACTTGACTTAATTGATTT
Found at i:24489257 original size:25 final size:25
Alignment explanation
Indices: 24489227--24489333 Score: 117
Period size: 25 Copynumber: 4.3 Consensus size: 25
24489217 GGTCACCGAT
** *
24489227 TTCAGCTCTTATGAGCTTCCCGATA
1 TTCAGCTCACATGAGCTTCCCGTTA
* *
24489252 CTCAGCTCACATGAGCTTCCTGTTA
1 TTCAGCTCACATGAGCTTCCCGTTA
* *
24489277 TTCAGCTCGCATAAGCTTCCCGTTA
1 TTCAGCTCACATGAGCTTCCCGTTA
* *
24489302 TTCAGCTAATATGAGCTTCCCGTT-
1 TTCAGCTCACATGAGCTTCCCGTTA
*
24489326 TACAGCTC
1 TTCAGCTC
24489334 GTATGAGCAT
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
24 6 0.09
25 61 0.91
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.34
Consensus pattern (25 bp):
TTCAGCTCACATGAGCTTCCCGTTA
Found at i:24489281 original size:50 final size:49
Alignment explanation
Indices: 24489226--24489341 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 49
24489216 AGGTCACCGA
* * *
24489226 TTTCAGCTCTTATGAGCTTCCCGATACTCAGCTCACATGAGCTTCCTGT
1 TTTCAGCTCGTATGAGCTTCCCGATACTCAGCTAACATGAGCTTCCCGT
* * * * *
24489275 TATTCAGCTCGCATAAGCTTCCCGTTATTCAGCTAATATGAGCTTCCCGT
1 T-TTCAGCTCGTATGAGCTTCCCGATACTCAGCTAACATGAGCTTCCCGT
*
24489325 TTACAGCTCGTATGAGC
1 TTTCAGCTCGTATGAGC
24489342 ATACATGTAC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
49 14 0.25
50 41 0.75
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (49 bp):
TTTCAGCTCGTATGAGCTTCCCGATACTCAGCTAACATGAGCTTCCCGT
Found at i:24502283 original size:69 final size:67
Alignment explanation
Indices: 24502123--24502352 Score: 196
Period size: 69 Copynumber: 3.3 Consensus size: 67
24502113 AGGCCGTAGC
* ** * *
24502123 CTTAAATCGACGTGCTAGGTAGATCAATTGTGATCTTAAATTAGTGAGA-TGCAAAATAGGGACA
1 CTTAAATCG-CGTGCTATGTAGATCTGTCGTGATCTTAAATTAGCG-GACTGCAAAATAGGGACA
24502187 CAAT
64 CAAT
* *
24502191 CTTAAATCTTCGTGCTATGTAGATCTGTCGTGATCTTAAATTAGCGGACTGTAAAATAAGGG-CA
1 CTTAAATC-GCGTGCTATGTAGATCTGTCGTGATCTTAAATTAGCGGACTGCAAAAT-AGGGACA
*
24502255 CGATT
64 C-AAT
* * * * * * **
24502260 TTTAAATCAGCGTGCTATGTAGAT-TAGTCATGATCTAAAATCAGCGGACTACAAAAAAAAAGAC
1 CTTAAATC-GCGTGCTATGTAGATCT-GTCGTGATCTTAAATTAGCGGACTGC-AAAATAGGGAC
*
24502324 ACTAT
63 ACAAT
*
24502329 ATTAAATCTGCGTGCTATGTAGAT
1 CTTAAATC-GCGTGCTATGTAGAT
24502353 TAGATGTGAG
Statistics
Matches: 132, Mismatches: 23, Indels: 13
0.79 0.14 0.08
Matches are distributed among these distances:
67 2 0.02
68 50 0.38
69 73 0.55
70 7 0.05
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (67 bp):
CTTAAATCGCGTGCTATGTAGATCTGTCGTGATCTTAAATTAGCGGACTGCAAAATAGGGACACA
AT
Found at i:24502370 original size:69 final size:69
Alignment explanation
Indices: 24502183--24502384 Score: 203
Period size: 69 Copynumber: 2.9 Consensus size: 69
24502173 GCAAAATAGG
* * * **
24502183 GACACAATCTTAAATCTTCGTGCTATGTAGATCT-GTCGTGATCTTAAATTAGCGGACT-GTAAA
1 GACACAATATTAAATCTGCGTGCTATGTAGAT-TAGTCGTGATCTTAAATCAGCGGACTACAAAA
* *
24502246 ATAAG
65 AAAAA
* * * * * *
24502251 GGCACGATTTTTAAATCAGCGTGCTATGTAGATTAGTCATGATCTAAAATCAGCGGACTACAAAA
1 GACAC-AATATTAAATCTGCGTGCTATGTAGATTAGTCGTGATCTTAAATCAGCGGACTACAAAA
24502316 AAAAA
65 AAAAA
* * **
24502321 GACACTATATTAAATCTGCGTGCTATGTAGATTAGAT-GTGAGCTTAAATCAGCGGGTTACAAAA
1 GACACAATATTAAATCTGCGTGCTATGTAGATTAG-TCGTGATCTTAAATCAGCGGACTACAAAA
24502385 TAGGGAAGCG
Statistics
Matches: 108, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
68 5 0.05
69 92 0.85
70 11 0.10
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (69 bp):
GACACAATATTAAATCTGCGTGCTATGTAGATTAGTCGTGATCTTAAATCAGCGGACTACAAAAA
AAAA
Found at i:24508700 original size:21 final size:21
Alignment explanation
Indices: 24508670--24508710 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24508660 CCAGTTTATA
24508670 TCCTGCACA-TTCGAGTGCAAT
1 TCCTGCACATTTCGA-TGCAAT
*
24508691 TCCTGGACATTTCGATGCAA
1 TCCTGCACATTTCGATGCAA
24508711 GGCATCCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (21 bp):
TCCTGCACATTTCGATGCAAT
Found at i:24510287 original size:82 final size:80
Alignment explanation
Indices: 24510148--24510297 Score: 192
Period size: 82 Copynumber: 1.9 Consensus size: 80
24510138 AATCATCCAC
* * * ** *
24510148 ATCTATACTACTATATAAAAGATAGGCCTAAGGCCTTCCTTAAAAGATATTTTTCCATTCTTTTC
1 ATCTATACTACCATATAAAAGATAGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTTTC
24510213 TTTTGCATCAAAAAA
66 TTTTGCATCAAAAAA
* * * *
24510228 ATCTATACTTACCGTATAAAAGTTAAGCCCTAGGGCCTTCGTAAAAAGATACATGTCCATTCTTT
1 ATCTATAC-TACCATATAAAAGAT-AGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTT
24510293 TCTTT
64 TCTTT
24510298 CACATGAGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 8 0.14
81 12 0.21
82 38 0.66
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.37
Consensus pattern (80 bp):
ATCTATACTACCATATAAAAGATAGCCCTAAGGCCTTCCTAAAAAGATACATGTCCATTCTTTTC
TTTTGCATCAAAAAA
Found at i:24512798 original size:25 final size:25
Alignment explanation
Indices: 24512767--24512828 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
24512757 ATCTTAGTGC
* * *
24512767 GCTCTCTAATTATTAGCACGT-TAGT
1 GCTCTCTGATTATTAACAC-TCCAGT
24512792 GCTCTCTGATTATTAACACTCCAGT
1 GCTCTCTGATTATTAACACTCCAGT
24512817 GCTCTCTGATTA
1 GCTCTCTGATTA
24512829 GCACATTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 1 0.03
25 32 0.97
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAACACTCCAGT
Found at i:24515923 original size:17 final size:17
Alignment explanation
Indices: 24515881--24515923 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
24515871 ATGGAATTAG
* *
24515881 AATTAGATTGAGAAAAT
1 AATTAAATTGAAAAAAT
* *
24515898 GATTGAATTGAAAAAAT
1 AATTAAATTGAAAAAAT
24515915 AATTAAATT
1 AATTAAATT
24515924 AAATTAAATC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (17 bp):
AATTAAATTGAAAAAAT
Found at i:24527944 original size:174 final size:179
Alignment explanation
Indices: 24527632--24527951 Score: 470
Period size: 174 Copynumber: 1.8 Consensus size: 179
24527622 GTATCACTAG
* * * * * *
24527632 TTATGCCTTTTTAGGCCTCTTAAATCTGTCAACTGCTTGTACTTCTTTCAATTTTTCTTGTATTG
1 TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATTG
* * * *
24527697 GGACTTTGCTGCATTTGGCTTGTCTGTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGT
66 AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
*
24527762 TTGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
131 TGGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
*
24527811 TTATGCCTTTCTAGGCCTCTCAAATATATCAATTGCTTCTAC-T-TTTCAA-TTTTCTTATATTG
1 TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATTG
* * *
24527873 AGACTTTGCTGCATTTGGCTTATTTCTTTGTAT-A-TAGAATGACTAGTGATTACTTTTGACGGA
66 AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
24527936 TGGATGATTCATCATT
131 TGGATGATTCATCATT
24527952 ATTTATATGA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
174 42 0.33
175 1 0.01
176 40 0.32
177 6 0.05
178 1 0.01
179 36 0.29
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.46
Consensus pattern (179 bp):
TTATGCCTTTCTAGGCCTCTCAAATATATCAACTGCTTCTACTTCTTTCAATTTTTCTTATATTG
AGACTTTGCTGCATTTGGCTTATCTCTCTGTATAATTAGAATGACTAGTGATTACTTTAGACGGA
TGGATGATTCATCATTGATATGATATGTCTTTAATTATTTTAGTCTGTA
Found at i:24543563 original size:29 final size:28
Alignment explanation
Indices: 24543510--24543565 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
24543500 CAACACCCAT
24543510 TTTACTATTTTTTTATTAAAATTTAATC
1 TTTACTATTTTTTTATTAAAATTTAATC
*
24543538 TTTA-TATTTTTATTTTTCAAAATTTAAT
1 TTTACTATTTTT-TTATT-AAAATTTAAT
24543566 TCCTCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
28 8 0.32
29 10 0.40
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTACTATTTTTTTATTAAAATTTAATC
Found at i:24553276 original size:18 final size:18
Alignment explanation
Indices: 24553253--24553287 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
24553243 CATTAGACCA
24553253 TTTAAATAGTTAGTGGAG
1 TTTAAATAGTTAGTGGAG
24553271 TTTAAATAGTTAGTGGA
1 TTTAAATAGTTAGTGGA
24553288 CTTTTATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
TTTAAATAGTTAGTGGAG
Found at i:24558506 original size:15 final size:16
Alignment explanation
Indices: 24558486--24558515 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24558476 TGGTGCCTTG
24558486 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
24558501 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
24558516 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:24563164 original size:46 final size:46
Alignment explanation
Indices: 24563097--24563281 Score: 264
Period size: 46 Copynumber: 4.0 Consensus size: 46
24563087 CATGGCAAAG
**
24563097 TGTGAAACTTAGGTATGGTATTCCAGTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTCCAGTGAAGAAAACCATACTGAGT
* * *
24563143 TGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATACTGCGT
1 TGTGAAAAGTAGGTATGGTATTCCAGTGAAGAAAACCATACTGAGT
* * * * *
24563189 TGTGAAAAGTAGGTATGGTGTTTCGGTAAAGAAAATCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTCCAGTGAAGAAAACCATACTGAGT
24563235 TGTGAAAAGTAGGTATGGTATTTCC-GTGAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTA-TTCCAGTGAAGAAAACCATACTGAGT
24563281 T
1 T
24563282 ATAGCCTTGT
Statistics
Matches: 123, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
46 120 0.98
47 3 0.02
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.29
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTCCAGTGAAGAAAACCATACTGAGT
Found at i:24569966 original size:21 final size:21
Alignment explanation
Indices: 24569937--24569981 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
24569927 GATGTATAGG
24569937 AAAAGTAAT-AAAAAATAAGA
1 AAAAGTAATCAAAAAATAAGA
*
24569957 AAAAGGTAATGCAAAAGATAAGA
1 AAAA-GTAAT-CAAAAAATAAGA
24569980 AA
1 AA
24569982 CTTTTTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 5 0.24
23 12 0.57
ACGTcount: A:0.69, C:0.02, G:0.16, T:0.13
Consensus pattern (21 bp):
AAAAGTAATCAAAAAATAAGA
Found at i:24576575 original size:48 final size:48
Alignment explanation
Indices: 24576493--24576677 Score: 244
Period size: 48 Copynumber: 3.9 Consensus size: 48
24576483 AATAGATTTC
* * * * * * *
24576493 TCGGTGGCCTGCACACAGTTCGTACCAGCTTTGTATAATACCAGATTC
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* * * *
24576541 TCGGTGGCCTGCACATAGTCTGTGCCACCCTTGTATCTTAACAGGTTA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
* *
24576589 TTGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGAATA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
*
24576637 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTGTCATAA
1 TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAA
24576678 TAGAATATTG
Statistics
Matches: 118, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 118 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (48 bp):
TCGGTGGCCTGCACACAGTCCGTGCCACCCTTGTATCATAACAGATTA
Found at i:24583466 original size:3 final size:3
Alignment explanation
Indices: 24583460--24583486 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24583450 CATCATCATC
24583460 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
24583487 TGGTTAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24583622 original size:13 final size:14
Alignment explanation
Indices: 24583592--24583626 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
24583582 TGTTTTATTG
*
24583592 AAAATGGTTTTTGA
1 AAAATGATTTTTGA
*
24583606 AAAATGATTTTTAA
1 AAAATGATTTTTGA
24583620 AAAATGA
1 AAAATGA
24583627 CTTACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (14 bp):
AAAATGATTTTTGA
Found at i:24583849 original size:21 final size:20
Alignment explanation
Indices: 24583797--24583865 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
24583787 TTATTTCATA
24583797 AATCTT-ATTATATTTTAATT
1 AATCTTAATT-TATTTTAATT
* **
24583817 AATCATGTTTTAGTTTTAATT
1 AATCTTAATTTA-TTTTAATT
*
24583838 AATCTTAATTTA-CTTAATT
1 AATCTTAATTTATTTTAATT
*
24583857 AAGCTTAAT
1 AATCTTAAT
24583866 CATTAATTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.35
20 7 0.17
21 19 0.47
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.54
Consensus pattern (20 bp):
AATCTTAATTTATTTTAATT
Found at i:24585767 original size:49 final size:49
Alignment explanation
Indices: 24585694--24585790 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
24585684 CTAGAAGGGG
* * *
24585694 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTGCAGACAGTGGAAGACCAAGTTTAGAAATGT
24585743 ATAAATAGTGATAAGAGTGCAGACAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGTGATAAGAGTGCAGACAGTGGAAGACCAAGTTTAGAAATG
24585791 CATAGCATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.42, C:0.07, G:0.27, T:0.24
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTGCAGACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:24608993 original size:21 final size:21
Alignment explanation
Indices: 24608954--24609005 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
24608944 GGTCTACAAA
24608954 CCCGTGTGGAAAGAGACACACG
1 CCCGTGT-GAAAGAGACACACG
**
24608976 CCCGTGTGAAAGTTACACACG
1 CCCGTGTGAAAGAGACACACG
* *
24608997 ACAGTGTGA
1 CCCGTGTGA
24609006 TCGAGTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (21 bp):
CCCGTGTGAAAGAGACACACG
Found at i:24609123 original size:21 final size:21
Alignment explanation
Indices: 24609099--24609153 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
24609089 TAGGAAACTC
24609099 ACACGTCTGTGTGGCT-AAGGA
1 ACACGTC-GTGTGGCTCAAGGA
*
24609120 ACACGGTCGTGT-GCTCAAGGC
1 ACAC-GTCGTGTGGCTCAAGGA
24609141 ACACGTCCGTGTG
1 ACACGT-CGTGTG
24609154 AAAATTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.17
21 21 0.72
22 3 0.10
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (21 bp):
ACACGTCGTGTGGCTCAAGGA
Found at i:24629238 original size:21 final size:21
Alignment explanation
Indices: 24629199--24629250 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
24629189 GGTCTACAAA
24629199 CCCGTGTGGAAAGAGACACACG
1 CCCGTGT-GAAAGAGACACACG
**
24629221 CCCGTGTGAAAGTTACACACG
1 CCCGTGTGAAAGAGACACACG
* *
24629242 ACAGTGTGA
1 CCCGTGTGA
24629251 TCGAGTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (21 bp):
CCCGTGTGAAAGAGACACACG
Found at i:24634615 original size:15 final size:16
Alignment explanation
Indices: 24634587--24634616 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24634577 TTTATTACAT
24634587 TTGCATTTATGTTAAC
1 TTGCATTTATGTTAAC
24634603 TTGCATTTA-GTTAA
1 TTGCATTTATGTTAA
24634617 TTAATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (16 bp):
TTGCATTTATGTTAAC
Found at i:24648766 original size:47 final size:47
Alignment explanation
Indices: 24648697--24648789 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
24648687 GGTTCGGCCC
24648697 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
1 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
*
24648744 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAGATATTTTC
1 CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTC
24648790 CCAAATTCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.35
Consensus pattern (47 bp):
CAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAATATTTTCT
Found at i:24652027 original size:12 final size:13
Alignment explanation
Indices: 24651994--24652038 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
24651984 TAAATATAAT
24651994 TAAAATTTA-TAA
1 TAAAATTTATTAA
24652006 TAAAA-TTATTAA
1 TAAAATTTATTAA
24652018 -AAAATTTATTAGA
1 TAAAATTTATTA-A
*
24652031 TATAATTT
1 TAAAATTT
24652039 TATGCACTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 7 0.25
12 14 0.50
13 1 0.04
14 6 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
TAAAATTTATTAA
Found at i:24657293 original size:21 final size:20
Alignment explanation
Indices: 24657269--24657328 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
24657259 ATTGTTATTT
24657269 TCTTAACAATAAAATTTAAAA
1 TCTTAA-AATAAAATTTAAAA
* *
24657290 TCTTAAAGTAAAATTTGAAA
1 TCTTAAAATAAAATTTAAAA
* * *
24657310 TGTTTAGAT-AAATTTAAAA
1 TCTTAAAATAAAATTTAAAA
24657329 AATTTACATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
19 9 0.28
20 17 0.53
21 6 0.19
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (20 bp):
TCTTAAAATAAAATTTAAAA
Found at i:24661804 original size:18 final size:18
Alignment explanation
Indices: 24661778--24661825 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
24661768 ACTAAACTCA
* **
24661778 AACCAAACCCAAGTATTC
1 AACCCAACCCAAGTACCC
* *
24661796 AACCCAACCTAATTACCC
1 AACCCAACCCAAGTACCC
24661814 AACCCAACCCAA
1 AACCCAACCCAA
24661826 TCATAAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.44, C:0.42, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAACCCAAGTACCC
Found at i:24661943 original size:9 final size:9
Alignment explanation
Indices: 24661929--24661983 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
24661919 GTAGTGATTC
24661929 AATTCGGTT
1 AATTCGGTT
*
24661938 AATTCGGGT
1 AATTCGGTT
24661947 AATTCGGTT
1 AATTCGGTT
*
24661956 AATTCGGGT
1 AATTCGGTT
*
24661965 AATTAGGTT
1 AATTCGGTT
*
24661974 AATTCAGTT
1 AATTCGGTT
24661983 A
1 A
24661984 TTTTTAACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:24661952 original size:18 final size:18
Alignment explanation
Indices: 24661929--24661978 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
24661919 GTAGTGATTC
24661929 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
24661947 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
*
24661965 AATTAGGTTAATTC
1 AATTCGGTTAATTC
24661979 AGTTATTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:24668013 original size:18 final size:18
Alignment explanation
Indices: 24667990--24668026 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24667980 TACCGAGGAG
24667990 ACTACTTCAAACCGTATA
1 ACTACTTCAAACCGTATA
24668008 ACTACTTCAAACCGTATA
1 ACTACTTCAAACCGTATA
24668026 A
1 A
24668027 TGATTTCTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (18 bp):
ACTACTTCAAACCGTATA
Done.