Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold477.1
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: 1033125
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.33
Warning! 34335 characters in sequence are not A, C, G, or T
File 1 of 3
Found at i:11004 original size:233 final size:224
Alignment explanation
Indices: 10534--11022 Score: 601
Period size: 233 Copynumber: 2.1 Consensus size: 224
10524 GTATGACTTA
* * *
10534 GAAATTCCTAATTTGGAGAAAGAGTGAGTGTAGGGACAAGAAATAAAAAATGAAAAAGAAAATTT
1 GAAATTCCTGATTTGGAGAAAGAATGAGTGTAGGGACAAGAAATAAAAAATGAAAAAGAAAATAT
*
10599 TAAAATGCCCTAAAACAAGAAATTAAACCACGAATAAAAAACAAGAACCAGAGCAAAAATCTGGA
66 TAAAATGCCCTAAAACAAGAAATTAAACCACGAATAAAAAACAAGAACCAGAGCAAAAATATGGA
* * *
10664 TAAAAAATACCAAAATACAGTAACCAACTTTGCTTTCATGTTCTTTCCAAACATTAAGATAAATA
131 AAAAAAATACCAAAATACAGTAACCAACTTTGCTTTCATGTTCCTTCCAAACATGAAGATAAATA
* * *
10729 TTACCAGTACGGACAAAAGCATTACCTGC
196 TTACCAGTACGAACAAAAACATTACCCGC
* * *
10758 G-AATTCCTGATTTGGAGAAAGAATGAGTTTAGCTG-CAAGAAATAAGAAATGAAAAA-AAAA-A
1 GAAATTCCTGATTTGGAGAAAGAATGAGTGTAG-GGACAAGAAATAAAAAATGAAAAAGAAAATA
** * *
10819 TTAAGAATGTGCTGAAACAAGAAATTAAACAACAGCTTAAAGAATAAAAAACAAGAATCAGAGCA
65 TTAA-AATGCCCTAAAACAAGAAATTAAAC--CA-C-----GAATAAAAAACAAGAACCAGAGCA
** * *
10884 ACGATATGGAAAAAAGAAATACTAAAATACAGTAACCAACTTTGCTTTTCATGTTCCTTCGAAAC
121 AAAATATGG-AAAAA-AAATACCAAAATACAGTAACCAACTTTGC-TTTCATGTTCCTTCCAAAC
* * *
10949 ATGAAGATGAATATTACCATTATGAACAAAAACATTACCCG-
183 ATGAAGATAAATATTACCAGTACGAACAAAAACATTACCCGC
*
10990 GAAATTCTTGATTTGGAGAAAGAATGAGTGTAG
1 GAAATTCCTGATTTGGAGAAAGAATGAGTGTAG
11023 ATGAGTTGAG
Statistics
Matches: 225, Mismatches: 26, Indels: 19
0.83 0.10 0.07
Matches are distributed among these distances:
221 4 0.02
222 26 0.12
223 48 0.21
224 4 0.02
225 1 0.00
230 29 0.13
231 4 0.02
232 29 0.13
233 80 0.36
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (224 bp):
GAAATTCCTGATTTGGAGAAAGAATGAGTGTAGGGACAAGAAATAAAAAATGAAAAAGAAAATAT
TAAAATGCCCTAAAACAAGAAATTAAACCACGAATAAAAAACAAGAACCAGAGCAAAAATATGGA
AAAAAAATACCAAAATACAGTAACCAACTTTGCTTTCATGTTCCTTCCAAACATGAAGATAAATA
TTACCAGTACGAACAAAAACATTACCCGC
Found at i:11553 original size:45 final size:45
Alignment explanation
Indices: 11489--11578 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
11479 ACTTCATCCC
*
11489 TTTAATTACATACATATTTACGGGTTTGTGGAAACTGAGGAGAAA
1 TTTAATTACATACATATTTACAGGTTTGTGGAAACTGAGGAGAAA
*
11534 TTTAATTGCATACATATTTACAGGTTTGTGGAAACTGAGGAGAAA
1 TTTAATTACATACATATTTACAGGTTTGTGGAAACTGAGGAGAAA
11579 GGCTATGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (45 bp):
TTTAATTACATACATATTTACAGGTTTGTGGAAACTGAGGAGAAA
Found at i:12712 original size:27 final size:27
Alignment explanation
Indices: 12674--12728 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
12664 CCATCAAGAA
12674 AACATTTTTTTTTACTCCAATAACCCT
1 AACATTTTTTTTTACTCCAATAACCCT
12701 AACATTTTTTTTTACTCCAATAACCCT
1 AACATTTTTTTTTACTCCAATAACCCT
12728 A
1 A
12729 CCCAATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (27 bp):
AACATTTTTTTTTACTCCAATAACCCT
Found at i:15003 original size:26 final size:26
Alignment explanation
Indices: 14969--15022 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
14959 ATTCAAACTC
14969 TTGCTAATTTTAAATGGGATTTCAAG
1 TTGCTAATTTTAAATGGGATTTCAAG
14995 TTGCTAATTTTAAATGGGATTTCAAG
1 TTGCTAATTTTAAATGGGATTTCAAG
15021 TT
1 TT
15023 TGATAGATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (26 bp):
TTGCTAATTTTAAATGGGATTTCAAG
Found at i:23099 original size:20 final size:20
Alignment explanation
Indices: 23054--23100 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23044 TTAAAAAAAT
* *
23054 AAATTTAAATTTAATTATGA
1 AAATATAAATTTAATTATAA
*
23074 ATATATAAATATTAA-TATAA
1 AAATATAAAT-TTAATTATAA
23094 AAATATA
1 AAATATA
23101 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
AAATATAAATTTAATTATAA
Found at i:24867 original size:5 final size:5
Alignment explanation
Indices: 24857--24928 Score: 64
Period size: 5 Copynumber: 14.8 Consensus size: 5
24847 TGTTAAAAAA
* *
24857 ATATT ATATT ATAGTA ATGATT ATGTT -T-TT ATATT ATATT ATCATT
1 ATATT ATATT ATA-TT AT-ATT ATATT ATATT ATATT ATATT AT-ATT
24903 A-A-T ATATT ATATT ATATT ATA-T ATAT
1 ATATT ATATT ATATT ATATT ATATT ATAT
24929 ACATAAAACA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
3 4 0.07
4 8 0.14
5 33 0.59
6 10 0.18
7 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:24910 original size:19 final size:19
Alignment explanation
Indices: 24886--24928 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
24876 ATTATGTTTT
24886 TATATTATATTATCATTA-A
1 TATATTATATTAT-ATTATA
24905 TATATTATATTATATTATA
1 TATATTATATTATATTATA
24924 TATAT
1 TATAT
24929 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:24960 original size:17 final size:17
Alignment explanation
Indices: 24938--24971 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24928 TACATAAAAC
*
24938 AAAAGAAAGAATAGAAA
1 AAAAGAAAGAAAAGAAA
24955 AAAAGAAAGAAAAGAAA
1 AAAAGAAAGAAAAGAAA
24972 CAGAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAGAAAGAAAAGAAA
Found at i:24967 original size:9 final size:9
Alignment explanation
Indices: 24938--24971 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
24928 TACATAAAAC
24938 AAAAGAAAG
1 AAAAGAAAG
*
24947 AATAGAAA-
1 AAAAGAAAG
24955 AAAAGAAAG
1 AAAAGAAAG
24964 AAAAGAAA
1 AAAAGAAA
24972 CAGAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:32072 original size:14 final size:14
Alignment explanation
Indices: 32029--32072 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
32019 ACAAATATAG
32029 AAATTAAATTCTTAA
1 AAATTAAATT-TTAA
* * *
32044 AAATAAAAATATAA
1 AAATTAAATTTTAA
32058 AAATTAAATTTTAA
1 AAATTAAATTTTAA
32072 A
1 A
32073 TTTACGAAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
AAATTAAATTTTAA
Found at i:39532 original size:31 final size:30
Alignment explanation
Indices: 39453--39537 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 30
39443 AACCCTTAAA
* * *
39453 TTTTAATTTTATCAATTTTAATCTCTATATT
1 TTTTAATTTT-TCAATTTTAGTCCCTATACT
**
39484 TTTTGAATTGGTCAATTTTAGTCCCTATACT
1 TTTT-AATTTTTCAATTTTAGTCCCTATACT
*
39515 TTTTAAATTTTTAAATTTTAGTC
1 TTTT-AATTTTTCAATTTTAGTC
39538 TTGATCCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 40 0.91
32 4 0.09
ACGTcount: A:0.27, C:0.11, G:0.06, T:0.56
Consensus pattern (30 bp):
TTTTAATTTTTCAATTTTAGTCCCTATACT
Found at i:47818 original size:15 final size:15
Alignment explanation
Indices: 47784--47818 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47774 CATTATAATT
*
47784 ATATACACTCATATC
1 ATATACACTCATATA
*
47799 TTATACACTCATATA
1 ATATACACTCATATA
47814 ATATA
1 ATATA
47819 TTAGGTTACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATACACTCATATA
Found at i:51590 original size:11 final size:11
Alignment explanation
Indices: 51574--51608 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
51564 TATGCTTCAC
*
51574 TATTTTTCTTT
1 TATTTTTATTT
51585 TATTTTTATTTT
1 TATTTTTA-TTT
51597 TATTTTTATTT
1 TATTTTTATTT
51608 T
1 T
51609 TATAATAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:51591 original size:6 final size:6
Alignment explanation
Indices: 51582--51611 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
51572 ACTATTTTTC
51582 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
51612 AATAAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:53732 original size:691 final size:691
Alignment explanation
Indices: 52411--53793 Score: 2757
Period size: 691 Copynumber: 2.0 Consensus size: 691
52401 TTTCATCCCC
52411 AAAGTACCCATAATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCGA
1 AAAGTACCCATAATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCGA
52476 AGCGGTCCACGTACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCCAAACTCGGC
66 AGCGGTCCACGTACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCCAAACTCGGC
52541 AGCTCCACTATCTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGA
131 AGCTCCACTATCTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGA
52606 CGTTGAATCCGAAGATGACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTG
196 CGTTGAATCCGAAGATGACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTG
52671 CGGCAGCTTTAGCGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGAC
261 CGGCAGCTTTAGCGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGAC
52736 TCAGCGAGTTCAGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATG
326 TCAGCGAGTTCAGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATG
52801 TGCTCGTGCTGCCATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCT
391 TGCTCGTGCTGCCATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCT
*
52866 CTCGGATTTCGGATACCCATTTACCCCAAGTCCTCATTCGGACCCCACGGTAAACCGGATGCTTA
456 CTCGGATTTCGGATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTA
52931 CTATTATCTCTCGGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCC
521 CTATTATCTCTCGGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCC
52996 ATATGGTGACGATGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTG
586 ATATGGTGACGATGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTG
53061 AGTCACCCATTGTAACTGAAACAAAAAAGAAGCTACTCGAT
651 AGTCACCCATTGTAACTGAAACAAAAAAGAAGCTACTCGAT
53102 AAAGTACCCATAATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCGA
1 AAAGTACCCATAATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCGA
53167 AGCGGTCCACGTACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCCAAACTCGGC
66 AGCGGTCCACGTACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCCAAACTCGGC
53232 AGCTCCACTATCTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGA
131 AGCTCCACTATCTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGA
53297 CGTTGAATCCGAAGATGACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTG
196 CGTTGAATCCGAAGATGACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTG
53362 CGGCAGCTTTAGCGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGAC
261 CGGCAGCTTTAGCGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGAC
53427 TCAGCGAGTTCAGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATG
326 TCAGCGAGTTCAGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATG
53492 TGCTCGTGCTGCCATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCT
391 TGCTCGTGCTGCCATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCT
53557 CTCGGATTTCGGATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTA
456 CTCGGATTTCGGATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTA
53622 CTATTATCTCTCGGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCC
521 CTATTATCTCTCGGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCC
53687 ATATGGTGACGATGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTG
586 ATATGGTGACGATGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTG
53752 AGTCACCCATTGTAACTGAAACAAAAAAGAAGCTACTCGAT
651 AGTCACCCATTGTAACTGAAACAAAAAAGAAGCTACTCGAT
53793 A
1 A
53794 TAATGCTATC
Statistics
Matches: 691, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
691 691 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (691 bp):
AAAGTACCCATAATTTTCTTCATAATACCAAGGGATACCACAAGGATTAAAAAGCCACCCATCGA
AGCGGTCCACGTACACGAACTCGTTCCCTGACTCAGCCGACTCATAGCTCGTCCCCAAACTCGGC
AGCTCCACTATCTCACTCAGCTCTTCCGGTGTCGATGACATATCATCCACATTCGACGATGACGA
CGTTGAATCCGAAGATGACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTG
CGGCAGCTTTAGCGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGAC
TCAGCGAGTTCAGGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATG
TGCTCGTGCTGCCATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCT
CTCGGATTTCGGATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTA
CTATTATCTCTCGGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCC
ATATGGTGACGATGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTG
AGTCACCCATTGTAACTGAAACAAAAAAGAAGCTACTCGAT
Found at i:54369 original size:557 final size:557
Alignment explanation
Indices: 53310--54428 Score: 2231
Period size: 557 Copynumber: 2.0 Consensus size: 557
53300 TGAATCCGAA
53310 GATG-ACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTAG
1 GATGAACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTAG
53374 CGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTCA
66 CGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTCA
53439 GGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTGC
131 GGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTGC
53504 CATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCTCTCGGATTTCGG
196 CATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCTCTCGGATTTCGG
53569 ATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTACTATTATCTCTC
261 ATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTACTATTATCTCTC
53634 GGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCCATATGGTGACGA
326 GGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCCATATGGTGACGA
53699 TGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTGAGTCACCCATTG
391 TGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTGAGTCACCCATTG
53764 TAACTGAAACAAAAAAGAAGCTACTCGATATAATGCTATCTATATATATATGTAAAGTAAGAAAC
456 TAACTGAAACAAAAAAGAAGCTACTCGATATAATGCTATCTATATATATATGTAAAGTAAGAAAC
53829 TTTATATAAATTTAAGCAATAAAGGTAAGGTTTTTTG
521 TTTATATAAATTTAAGCAATAAAGGTAAGGTTTTTTG
53866 GATGAACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTAG
1 GATGAACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTAG
53931 CGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTCA
66 CGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTCA
53996 GGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTGC
131 GGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTGC
54061 CATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCTCTCGGATTTCGG
196 CATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCTCTCGGATTTCGG
54126 ATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTACTATTATCTCTC
261 ATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTACTATTATCTCTC
54191 GGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCCATATGGTGACGA
326 GGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCCATATGGTGACGA
54256 TGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTGAGTCACCCATTG
391 TGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTGAGTCACCCATTG
54321 TAACTGAAACAAAAAAGAAGCTACTCGATATAATGCTATCTATATATATATGTAAAGTAAGAAAC
456 TAACTGAAACAAAAAAGAAGCTACTCGATATAATGCTATCTATATATATATGTAAAGTAAGAAAC
54386 TTTATATAAATTTAAGCAATAAAGGTAAGGTTTTTTG
521 TTTATATAAATTTAAGCAATAAAGGTAAGGTTTTTTG
54423 GATGAA
1 GATGAA
54429 GGGTTTTGGG
Statistics
Matches: 562, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
556 4 0.01
557 558 0.99
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (557 bp):
GATGAACGTGGCATCGTCGACGCTGTTGTTTTTGTTACTCAAGAACTCCATTGCGGCAGCTTTAG
CGGCGGCTGCTTGTACATCACGCGGCGAGTTAGAAGCCGGACGAGGCAACGACTCAGCGAGTTCA
GGGAAGTTAAGGATCGCCGAGTTACCTTTGATACTCAAAGCCGCCACGTCATGTGCTCGTGCTGC
CATTTCGGGTGTGGAGAAAGTACCTAGCCAGATCCGGTTCTTTTTTCGGGGCTCTCGGATTTCGG
ATACCCATTTACCCCAAGCCCTCATTCGGACCCCACGGTAAACCGGATGCTTACTATTATCTCTC
GGACGCTTTTCCCTTTTCGGGTCGGGTATTAACTCAGTACCCAATCTTTTTCCATATGGTGACGA
TGAAGGAGACGAGTTGTTACTAACCGTGCTAGACTCAGTTTCCGAGTTCAGTGAGTCACCCATTG
TAACTGAAACAAAAAAGAAGCTACTCGATATAATGCTATCTATATATATATGTAAAGTAAGAAAC
TTTATATAAATTTAAGCAATAAAGGTAAGGTTTTTTG
Found at i:57989 original size:20 final size:20
Alignment explanation
Indices: 57952--57991 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57942 ATGACTTTTT
*
57952 TTTAACATTTAAATAAAAAA
1 TTTAAAATTTAAATAAAAAA
57972 TTTAAAATTCTAAA-AAAAAA
1 TTTAAAATT-TAAATAAAAAA
57992 AAGCTAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TTTAAAATTTAAATAAAAAA
Found at i:61333 original size:29 final size:29
Alignment explanation
Indices: 61291--61367 Score: 111
Period size: 29 Copynumber: 2.7 Consensus size: 29
61281 TTTCCATCAG
*
61291 GTTAC-TTTCTAGTCACTTATGTTTGAAAT
1 GTTACGTTT-TAGTCACTTATGTTTGAAAC
* *
61320 GTTATGTTTTAGTCTCTTATGTTTGAAAC
1 GTTACGTTTTAGTCACTTATGTTTGAAAC
61349 GTTACGTTTTAGTCACTTA
1 GTTACGTTTTAGTCACTTA
61368 CGTTATCGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
29 39 0.93
30 3 0.07
ACGTcount: A:0.22, C:0.13, G:0.16, T:0.49
Consensus pattern (29 bp):
GTTACGTTTTAGTCACTTATGTTTGAAAC
Found at i:66705 original size:42 final size:42
Alignment explanation
Indices: 66646--66729 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
66636 CACCCTGTAA
66646 CATATATATTCGAATTATAATCAGGCGAGAAACTAGAAAATT
1 CATATATATTCGAATTATAATCAGGCGAGAAACTAGAAAATT
* *
66688 CATATATATTTGAATTATAATCAGGGGAGAAACTAGAAAATT
1 CATATATATTCGAATTATAATCAGGCGAGAAACTAGAAAATT
66730 ACTTTTGGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (42 bp):
CATATATATTCGAATTATAATCAGGCGAGAAACTAGAAAATT
Found at i:67801 original size:42 final size:42
Alignment explanation
Indices: 67742--67825 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
67732 CACCCTGTAA
67742 CATATATATTCGAATTATAATCAGGCGAGAAACTAGAAAATT
1 CATATATATTCGAATTATAATCAGGCGAGAAACTAGAAAATT
* *
67784 CATATATATTTGAATTATAATCAGGGGAGAAACTAGAAAATT
1 CATATATATTCGAATTATAATCAGGCGAGAAACTAGAAAATT
67826 ACTTTTGGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.10, G:0.15, T:0.30
Consensus pattern (42 bp):
CATATATATTCGAATTATAATCAGGCGAGAAACTAGAAAATT
Found at i:72121 original size:22 final size:19
Alignment explanation
Indices: 72093--72136 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
72083 ACACAAAACA
72093 ATAATTAGTTAAAAATATTATT
1 ATAATTA-TT-AAAATATT-TT
*
72115 ATAATTATTATAATATTTT
1 ATAATTATTAAAATATTTT
72134 ATA
1 ATA
72137 TAACATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 7 0.33
21 2 0.10
22 7 0.33
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
ATAATTATTAAAATATTTT
Found at i:77895 original size:58 final size:57
Alignment explanation
Indices: 77769--77897 Score: 152
Period size: 56 Copynumber: 2.2 Consensus size: 57
77759 AGAAAATTAG
**
77769 ATGATAAAAAAATATAATTGAATAATTAAGTGACTATTTTGTAATTTTTGATAATTGA
1 ATGATAAAAAAA-ATAATTGAATAATTAAGTGACTATTTTACAATTTTTGATAATTGA
* * * * * *
77827 GTGACAAAAAAAATTATT-AATAATTAAGTGTCTATTTTACAATTTTTTTATAGTTGA
1 ATGATAAAAAAAATAATTGAATAATTAAGTGACTATTTTACAA-TTTTTGATAATTGA
77884 ATGATTAAAAAAAA
1 ATGA-TAAAAAAAA
77898 GACATAATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 21 0.36
57 20 0.34
58 18 0.31
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (57 bp):
ATGATAAAAAAAATAATTGAATAATTAAGTGACTATTTTACAATTTTTGATAATTGA
Found at i:81044 original size:72 final size:72
Alignment explanation
Indices: 80927--81091 Score: 330
Period size: 72 Copynumber: 2.3 Consensus size: 72
80917 ACTCACCATT
80927 CCCCCAATTTGCTCCGGCAAAGTACCCATTAACTCATTAAAGCTAACATCAAAAACAGTCGTATT
1 CCCCCAATTTGCTCCGGCAAAGTACCCATTAACTCATTAAAGCTAACATCAAAAACAGTCGTATT
80992 TCTCAAC
66 TCTCAAC
80999 CCCCCAATTTGCTCCGGCAAAGTACCCATTAACTCATTAAAGCTAACATCAAAAACAGTCGTATT
1 CCCCCAATTTGCTCCGGCAAAGTACCCATTAACTCATTAAAGCTAACATCAAAAACAGTCGTATT
81064 TCTCAAC
66 TCTCAAC
81071 CCCCCAATTTGCTCCGGCAAA
1 CCCCCAATTTGCTCCGGCAAA
81092 CAAGATCGAA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 93 1.00
ACGTcount: A:0.33, C:0.32, G:0.10, T:0.24
Consensus pattern (72 bp):
CCCCCAATTTGCTCCGGCAAAGTACCCATTAACTCATTAAAGCTAACATCAAAAACAGTCGTATT
TCTCAAC
Found at i:82873 original size:3 final size:3
Alignment explanation
Indices: 82865--82889 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
82855 TTATTGCTTT
82865 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
82890 AGGGACAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:84037 original size:17 final size:18
Alignment explanation
Indices: 84004--84038 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
83994 AATGAATTAC
*
84004 TTAAAATT-AATTAAAAA
1 TTAAAATTAAAATAAAAA
84021 TTAAAATTAAAATAAAAA
1 TTAAAATTAAAATAAAAA
84039 AAATTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAATTAAAATAAAAA
Found at i:88400 original size:39 final size:39
Alignment explanation
Indices: 88356--88450 Score: 181
Period size: 39 Copynumber: 2.4 Consensus size: 39
88346 GTGTGAGACA
*
88356 TATATCCGGGCTAATTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
88395 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
88434 TATATCCGGGCTAAGTC
1 TATATCCGGGCTAAGTC
88451 NNNNNNNNNN
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:91169 original size:120 final size:124
Alignment explanation
Indices: 91000--91426 Score: 306
Period size: 131 Copynumber: 3.4 Consensus size: 124
90990 AAAACCAAAG
* * * * * * * *
91000 CCCAGCAC-AGTAGGGCACGATTCCTCGAATTTTCGAACATTGAACATTACC-CCGCCTT-AG-C
1 CCCAGCACGA-TAGGGCACGACTCCTCGAATTTCCAAACATCGAATATTACCTACACCTTAAGTA
* *
91061 AA-ACACGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAATGGGAAATCGAAA
65 AAGACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAA
* * *
91120 CCCAGCACGATAGGGCACGACTCCTCGAATTCCCAAAAATCGAATATTACCTACACTTTAAAGAG
1 CCCAGCACGATAGGGCACGACTCCTCGAATTTCCAAACATCGAATATTACCTACACCTT--A-AG
* * * * * *
91185 TTTTTAAAGACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAGTTGCA
63 ----TAAAGACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAA
91250 A
124 A
* * * * **
91251 CCCAGCACGATAGGGCACGCCTCCCCGAATTTCCAAACATCGAATATTTCCTTCATTTTAAAGAG
1 CCCAGCACGATAGGGCACGACTCCTCGAATTTCCAAACATCGAATATTACCTACACCTT--A-AG
* * * * * * * * * *
91316 TTTTTAGAAAATATGAGTGAAATTCTAAAGGGACATTCGATTGTTTTGAGCAAACGAGAAATCGC
63 ----TA-AAGACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGA
91381 AA
123 AA
* * * * * *
91383 CCCAGTACGATAGGGCACGATTCCGCGTATTGCCAAATATCGAA
1 CCCAGCACGATAGGGCACGACTCCTCGAATTTCCAAACATCGAA
91427 CATCGCATTC
Statistics
Matches: 253, Mismatches: 41, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
120 42 0.17
121 5 0.02
125 2 0.01
130 2 0.01
131 113 0.45
132 89 0.35
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (124 bp):
CCCAGCACGATAGGGCACGACTCCTCGAATTTCCAAACATCGAATATTACCTACACCTTAAGTAA
AGACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAA
Found at i:91442 original size:132 final size:131
Alignment explanation
Indices: 91061--91455 Score: 484
Period size: 131 Copynumber: 3.0 Consensus size: 131
91051 CCGCCTTAGC
* * * * * *
91061 AAACACGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAATGGGAAATCGAAACCCAGC
1 AAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGC
* * *
91126 ACGATAGGGCACGACTCCTCGAATTCCCAAAAATCGAATATTACCTACACTTTAAAGAGTTTTTA
66 ACGATAGGGCACGACTCCCCGAATTCCCAAAAATCGAATATTACCTTCATTTTAAAGAGTTTTTA
91191 A
131 A
* * *
91192 AGACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAGTTGCAACCCAGC
1 AAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGC
* * * *
91257 ACGATAGGGCACGCCTCCCCGAATTTCCAAACATCGAATATTTCCTTCATTTTAAAGAGTTTTTA
66 ACGATAGGGCACGACTCCCCGAATTCCCAAAAATCGAATATTACCTTCATTTTAAAGAGTTTTTA
91322 GA
131 -A
* * * * * *
91324 AAATATGAGTGAAATTCTAAAGGGACATTCGATTGTTTTGAGCAAACGAGAAATCGCAACCCAGT
1 AAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGC
* * * * * * ** * * *
91389 ACGATAGGGCACGATTCCGCGTATTGCCAAATATCGAACATCGCATTCGTTTTAAAGGGTTTTTA
66 ACGATAGGGCACGACTCCCCGAATTCCCAAAAATCGAATATTACCTTCATTTTAAAGAGTTTTTA
91454 A
131 A
91455 A
1 A
91456 TGAATGATTG
Statistics
Matches: 226, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
131 116 0.51
132 110 0.49
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (131 bp):
AAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAGC
ACGATAGGGCACGACTCCCCGAATTCCCAAAAATCGAATATTACCTTCATTTTAAAGAGTTTTTA
A
Found at i:92857 original size:26 final size:25
Alignment explanation
Indices: 92811--92859 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
92801 CATATATAAA
*
92811 AAAATATTGAAAGTAAATAATACGT
1 AAAATATTGAAAATAAATAATACGT
* *
92836 AAAATAGTTTAAAATAACTAATAC
1 AAAATA-TTGAAAATAAATAATAC
92860 ATGTACAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (25 bp):
AAAATATTGAAAATAAATAATACGT
Found at i:94582 original size:88 final size:88
Alignment explanation
Indices: 94433--94654 Score: 372
Period size: 88 Copynumber: 2.5 Consensus size: 88
94423 CTACTGTAAC
* * * *
94433 TGCTCCGCTACAACTTCAAGGAGAGAAGATCTACAATCTTTAGCCTGTTACCCTACGACTTAGGG
1 TGCTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACGACTTAGGG
94498 AGTTAAGGCTTGCTTCTTTGATT
66 AGTTAAGGCTTGCTTCTTTGATT
* * * *
94521 TGCTCCGCTGCGACTTCAGGGAGACAAAATCTACAATCTTCAGCCTGTTGCCCTATGACTTAGGG
1 TGCTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACGACTTAGGG
94586 AGTTAAGGCTTGCTTCTTTGATT
66 AGTTAAGGCTTGCTTCTTTGATT
94609 TGCTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
1 TGCTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCT
94655 ACTCCACTAC
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 124 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (88 bp):
TGCTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTGTTACCCTACGACTTAGGG
AGTTAAGGCTTGCTTCTTTGATT
Found at i:94669 original size:45 final size:45
Alignment explanation
Indices: 94619--94802 Score: 113
Period size: 45 Copynumber: 4.1 Consensus size: 45
94609 TGCTCCGCTG
* *
94619 CAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTA
1 CAACTTCAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTA
* * * * * ** * * * * *
94664 CAACTTTAGGGAGATAGGATGGT---GGCTTAAATCTGCTTCACTG
1 CAACTTCAGGAAGACAAGAT-CTACAATCTTCAACCTACTCCACTA
* * * * * ** * *
94707 CAGCTTTAGGAAGACAAGATTTGCCATCTTCAATTTGCTCCACTG
1 CAACTTCAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTA
* *
94752 CAACTTCAGGAAGAAAAGATCTACAATCTTCAGCCTACTCCACTA
1 CAACTTCAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTA
94797 CAACTT
1 CAACTT
94803 TTGAGAGCTA
Statistics
Matches: 102, Mismatches: 33, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
42 1 0.01
43 28 0.27
45 72 0.71
46 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
CAACTTCAGGAAGACAAGATCTACAATCTTCAACCTACTCCACTA
Found at i:94782 original size:133 final size:133
Alignment explanation
Indices: 94600--95172 Score: 914
Period size: 133 Copynumber: 4.3 Consensus size: 133
94590 AAGGCTTGCT
* *
94600 TCTTTGATTTGCTCCGCTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
1 TCTTCGATTTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* * * * *
94665 AACTTTAGGGAGATAGGATGGTGGCTTAAATCTGCTTCACTGCAGCTTTAGGAAGACAAGATTTG
66 AACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
*
94730 CCA
131 CCG
* * *
94733 TCTTCAATTTGCTCCACTGCAACTTCAGGAAGAAAAGATCTACAATCTTCAGCCTACTCCACTAC
1 TCTTCGATTTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* * *
94798 AACTTTTGAGAGCTAGGATGGTGGCTTAAATCTGCTTCGCTGCAACTTCAGGAAGACTAGATTCG
66 AACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
*
94863 TCG
131 CCG
*
94866 TCTTCGATTTACTCCACTG-ACACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTA
1 TCTTCGATTTGCTCCACTGCA-ACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTA
* *
94930 AAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTTAGGAAGACTAGATTC
65 CAACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTC
94995 GCCG
130 GCCG
*
94999 TCTTCGATTTGCTCCACTGCAACTTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
1 TCTTCGATTTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
* * *
95064 AATTTTAGGGAGCTAGAATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCA
66 AACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
95129 CCG
131 CCG
* *
95132 TCTTCGATCTGCTCCACTGCAACTTCATGGAGACAAGATCT
1 TCTTCGATTTGCTCCACTGCAACTTCAGGGAGACAAGATCT
95173 GTAGAATCAG
Statistics
Matches: 403, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
132 1 0.00
133 401 1.00
134 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (133 bp):
TCTTCGATTTGCTCCACTGCAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTAC
AACTTTAGGGAGCTAGGATGGTGGCTTAAATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCG
CCG
Found at i:95158 original size:45 final size:45
Alignment explanation
Indices: 94960--95156 Score: 159
Period size: 45 Copynumber: 4.4 Consensus size: 45
94950 GGTGGCTTAA
* *
94960 ATCTGCTTCACTGCAACTTTAGGAAGACTAGATTCGCCGTCTTCG
1 ATCTGCTCCACTGCAACTTTAGGAAGACTAGATTCACCGTCTTCG
* * * **
95005 ATTTGCTCCACTGCAACTTTAGGGAGACAAGA-TCTACAATCTTC-
1 ATCTGCTCCACTGCAACTTTAGGAAGACTAGATTC-ACCGTCTTCG
* * * * * * *** * **
95049 AGCCTACTCCACTACAATTTTAGGGAG-CTAGAAT-GGTGGCTTAA
1 A-TCTGCTCCACTGCAACTTTAGGAAGACTAGATTCACCGTCTTCG
* *
95093 ATCTGCTTCACTGCAACTTCAGGAAGACTAGATTCACCGTCTTCG
1 ATCTGCTCCACTGCAACTTTAGGAAGACTAGATTCACCGTCTTCG
95138 ATCTGCTCCACTGCAACTT
1 ATCTGCTCCACTGCAACTT
95157 CATGGAGACA
Statistics
Matches: 112, Mismatches: 34, Indels: 12
0.71 0.22 0.08
Matches are distributed among these distances:
43 21 0.19
44 14 0.12
45 77 0.69
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (45 bp):
ATCTGCTCCACTGCAACTTTAGGAAGACTAGATTCACCGTCTTCG
Found at i:95299 original size:64 final size:64
Alignment explanation
Indices: 95195--95322 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
95185 TCATAGGCTT
* *
95195 ATGCTTATGCCAAATAATTAGGATGCTATGATCGACATGAATCAAAAGTTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAAAGCTCCTAACTAGATGTG
* * * *
95259 ATGCTTATGTCAAGTAATTAGGATGCTATGATCGAAATGAATGAAATGCTCCTAACTAGATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAAAGCTCCTAACTAGATGTG
95323 TTATGTATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAAAGCTCCTAACTAGATGTG
Found at i:96091 original size:52 final size:52
Alignment explanation
Indices: 96000--96145 Score: 229
Period size: 52 Copynumber: 2.8 Consensus size: 52
95990 GCTCGAAACA
* * *
96000 AATAAGTTAATCAAAGATTGCAAATGCAATAAGAAGGCAATTAACTCCATATG
1 AATAAGTTAATCAAAGATAGC-AATGCAATAAGAAGGCAATTAACTCAACATG
*
96053 AATAAGTTAATCAAAGATAGCAATGCAATAAGAAGGCAATTAATTCAACATG
1 AATAAGTTAATCAAAGATAGCAATGCAATAAGAAGGCAATTAACTCAACATG
* *
96105 AATAAGTTAATCAAAGATAGCAATGTAATAAGAAGGAAATT
1 AATAAGTTAATCAAAGATAGCAATGCAATAAGAAGGCAATT
96146 TATTAGGAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
52 67 0.77
53 20 0.23
ACGTcount: A:0.50, C:0.10, G:0.16, T:0.24
Consensus pattern (52 bp):
AATAAGTTAATCAAAGATAGCAATGCAATAAGAAGGCAATTAACTCAACATG
Found at i:97123 original size:23 final size:23
Alignment explanation
Indices: 97077--97125 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
97067 GGTGATTAAA
*
97077 TTATACAAGTGTAATGCATATAT
1 TTATACAAGTGTAATACATATAT
* * *
97100 TTATACATGTGTAATATATTTAT
1 TTATACAAGTGTAATACATATAT
97123 TTA
1 TTA
97126 ATTACTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.06, G:0.10, T:0.47
Consensus pattern (23 bp):
TTATACAAGTGTAATACATATAT
Found at i:97336 original size:27 final size:28
Alignment explanation
Indices: 97306--97365 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
97296 ATTATTATTG
*
97306 TAAAGTTAAA-AAAATTAAAG-AATAAAA
1 TAAAGTGAAATAAAA-TAAAGAAATAAAA
97333 TAAA-TGAAATAAAATAAAGAAATAAAA
1 TAAAGTGAAATAAAATAAAGAAATAAAA
*
97360 CAAAGT
1 TAAAGT
97366 AAAGAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 9 0.32
27 18 0.64
28 1 0.04
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (28 bp):
TAAAGTGAAATAAAATAAAGAAATAAAA
Found at i:97356 original size:13 final size:13
Alignment explanation
Indices: 97316--97364 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
97306 TAAAGTTAAA
97316 AAAATTAAAG-AAT
1 AAAA-TAAAGAAAT
97329 AAAATAAATGAAAT
1 AAAATAAA-GAAAT
97343 AAAATAAAGAAAT
1 AAAATAAAGAAAT
*
97356 AAAACAAAG
1 AAAATAAAG
97365 TAAAGAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
12 4 0.12
13 18 0.55
14 11 0.33
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.16
Consensus pattern (13 bp):
AAAATAAAGAAAT
Found at i:98210 original size:40 final size:40
Alignment explanation
Indices: 98130--98210 Score: 90
Period size: 40 Copynumber: 2.0 Consensus size: 40
98120 AATTATGGGA
* ** *
98130 TACTGAATATTGTTTTGAATACTGAATTGAACCGTGAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACCGTAAAAT
* * **
98170 TACTGAATAATGTTACGTATACTGCATTGAATTGTAAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACCGTAAAAT
98210 T
1 T
98211 TCTAATGAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (40 bp):
TACTGAATAATGTTACGAATACTGAATTGAACCGTAAAAT
Found at i:98468 original size:45 final size:45
Alignment explanation
Indices: 98417--98522 Score: 142
Period size: 45 Copynumber: 2.4 Consensus size: 45
98407 ATATGCCAAC
*
98417 TACTGTTACTGTTACTGTTACCGATTCGA-CACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACAGATTC-ATCACTTTGTGTGTCGAA
* * *
98462 TACTGTTACCGTTACTGTTACAGATTCATCATTTTGTGTGTTGAA
1 TACTGTTACTGTTACTGTTACAGATTCATCACTTTGTGTGTCGAA
* *
98507 TACTGCTACTGCTACT
1 TACTGTTACTGTTACT
98523 ACTACCGTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
44 1 0.02
45 52 0.98
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACAGATTCATCACTTTGTGTGTCGAA
Found at i:99289 original size:6 final size:7
Alignment explanation
Indices: 99262--99288 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
99252 TGTCAAAATT
99262 TAAAAAA
1 TAAAAAA
99269 TAAAAAA
1 TAAAAAA
99276 TAAAAAA
1 TAAAAAA
99283 TAAAAA
1 TAAAAA
99289 TTTGGAGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:102066 original size:19 final size:19
Alignment explanation
Indices: 102040--102087 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
102030 GGGAAAATTT
*
102040 AATGCAAATGATGCAGTGC
1 AATGCAAATGATGCAATGC
*
102059 AGTGCAAATGATGCAATGC
1 AATGCAAATGATGCAATGC
102078 AATGCAAATG
1 AATGCAAATG
102088 CATGGGATGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (19 bp):
AATGCAAATGATGCAATGC
Found at i:103806 original size:120 final size:124
Alignment explanation
Indices: 103632--103935 Score: 312
Period size: 131 Copynumber: 2.4 Consensus size: 124
103622 GACGAAAAAC
* * * * * * *
103632 CGAAGCCCAGCAC-AGTAGGGCACGATTCCTCGAATTTTCGAACATTGAACATTACCCT-GCCTT
1 CGAAACCCAGCACGA-TAGGGCACGACTCCACGAATTTCCAAACATCGAATATTACCCTCGCCTT
* *
103695 -AG-AAA-ACACGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAATGGGAAAT
65 AAGTAAAGACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
* * * * *
103752 CGAAACCCAGCACGATAGGGCACGACTCCCCGAATTCCCAAAAATCGAATATTACCTTCGCTTTA
1 CGAAACCCAGCACGATAGGGCACGACTCCACGAATTTCCAAACATCGAATATTACCCTCGCCTT-
* * *
103817 AAGAGTTTTTAAAGACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAA
65 -A-AG----TAAAGACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAA
103882 T
124 T
* * * *
103883 TGCAACCCCGCACGATAGGGCACGCCTCCACGAATTTCCAAACATCGAATATT
1 CGAAACCCAGCACGATAGGGCACGACTCCACGAATTTCCAAACATCGAATATT
103936 TCCTTCATTT
Statistics
Matches: 149, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
120 46 0.31
121 5 0.03
125 2 0.01
130 3 0.02
131 93 0.62
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (124 bp):
CGAAACCCAGCACGATAGGGCACGACTCCACGAATTTCCAAACATCGAATATTACCCTCGCCTTA
AGTAAAGACACGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAAT
Found at i:103941 original size:131 final size:131
Alignment explanation
Indices: 103697--104092 Score: 497
Period size: 131 Copynumber: 3.0 Consensus size: 131
103687 CCTGCCTTAG
* * * * * *
103697 AAAACACGAGTGAAATTCCAAAGGAATATTTGATTATTTTGAACAAATGGGAAATCGAAACCCAG
1 AAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAG
* * *
103762 CACGATAGGGCACGACTCCCCGAATTCCCAAAAATCGAATATTACCTTCGCTTTAAAGAGTTTTT
66 CACGATAGGGCACGACTCCACGAATTACCAAAAATCGAATATTACCTTCGTTTTAAAGAGTTTTT
103827 A
131 A
* * *
103828 AAGACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCCG
1 AAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAG
* * * * *
103893 CACGATAGGGCACGCCTCCACGAATTTCCAAACATCGAATATTTCCTTCATTTTAAAGAGTTTTT
66 CACGATAGGGCACGACTCCACGAATTACCAAAAATCGAATATTACCTTCGTTTTAAAGAGTTTTT
103958 A
131 A
* * * * * *
103959 GAAAATATGAGTGAAATTCTAAAGGGACATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCA
1 -AAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCA
* * * * * **
104024 GCACGATAGGGCACGATTCCGCGTATTACCAAATATCGAACATCGCCTTCGTTTTAAAG-GATTT
65 GCACGATAGGGCACGACTCCACGAATTACCAAAAATCGAATATTACCTTCGTTTTAAAGAG-TTT
104088 TTA
129 TTA
104091 AA
1 AA
104093 TGAATGATTG
Statistics
Matches: 228, Mismatches: 35, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
131 118 0.52
132 110 0.48
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (131 bp):
AAAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATCGCAACCCAG
CACGATAGGGCACGACTCCACGAATTACCAAAAATCGAATATTACCTTCGTTTTAAAGAGTTTTT
A
Found at i:105495 original size:26 final size:25
Alignment explanation
Indices: 105449--105497 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
105439 CATATATAAA
*
105449 AAAATATTGAAAGTAAATAATACGT
1 AAAATATTGAAAATAAATAATACGT
* *
105474 AAAATAGTTTAAAATAACTAATAC
1 AAAATA-TTGAAAATAAATAATAC
105498 ATGTACAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 6 0.30
26 14 0.70
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (25 bp):
AAAATATTGAAAATAAATAATACGT
Found at i:116603 original size:31 final size:31
Alignment explanation
Indices: 116568--116637 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
116558 TTAATATAGT
* * * *
116568 ATTTGTTACATGAGTTTAGTTTTAATGTTCA
1 ATTTGGTACATGAGATTAGTTTCAATATTCA
*
116599 ATTTGGTACATGAGATTGGTTTCAATATTCA
1 ATTTGGTACATGAGATTAGTTTCAATATTCA
*
116630 AATTGGTA
1 ATTTGGTA
116638 ATTGAGTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.29, C:0.07, G:0.19, T:0.46
Consensus pattern (31 bp):
ATTTGGTACATGAGATTAGTTTCAATATTCA
Found at i:119996 original size:19 final size:19
Alignment explanation
Indices: 119974--120033 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
119964 GATACATGAG
119974 TAAAAATTCTTATAAAAAA
1 TAAAAATTCTTATAAAAAA
*
119993 TAAAACTTCTT-TAAAATAAA
1 TAAAAATTCTTAT-AAA-AAA
*
120013 TAAAAAGTT-TTATAAATAA
1 TAAAAA-TTCTTATAAAAAA
120032 TA
1 TA
120034 TGAATGAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
18 1 0.03
19 17 0.50
20 13 0.38
21 3 0.09
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (19 bp):
TAAAAATTCTTATAAAAAA
Found at i:120029 original size:20 final size:19
Alignment explanation
Indices: 119974--120031 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
119964 GATACATGAG
119974 TAAAAATTCTTATAAA-AAA
1 TAAAAATT-TTATAAATAAA
*
119993 TAAAACTTCTT-TAAAATAAA
1 TAAAAATT-TTAT-AAATAAA
120013 TAAAAAGTTTTATAAATAA
1 TAAAAA-TTTTATAAATAA
120032 TATGAATGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 1 0.03
19 13 0.39
20 16 0.48
21 3 0.09
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAAATTTTATAAATAAA
Found at i:120295 original size:18 final size:19
Alignment explanation
Indices: 120274--120310 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
120264 GCTTATAATG
*
120274 TTTTTGAATATT-TATAAC
1 TTTTAGAATATTATATAAC
120292 TTTTAGAATATTATATAAC
1 TTTTAGAATATTATATAAC
120311 GGATTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (19 bp):
TTTTAGAATATTATATAAC
Found at i:121117 original size:16 final size:16
Alignment explanation
Indices: 121098--121143 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
121088 TTTAAGTTCG
121098 AATCATTTTAAATTTT
1 AATCATTTTAAATTTT
* *
121114 AATCACTTTAAAATTT
1 AATCATTTTAAATTTT
* *
121130 AATAATTTCAAATT
1 AATCATTTTAAATT
121144 ATTTGTCCCA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (16 bp):
AATCATTTTAAATTTT
Found at i:121393 original size:3 final size:3
Alignment explanation
Indices: 121385--121409 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
121375 TGTGCTTATA
121385 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
121410 TTTTTGGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:123294 original size:12 final size:12
Alignment explanation
Indices: 123277--123317 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
123267 TAACACATTT
*
123277 TATGTATATGTA
1 TATGTATGTGTA
123289 TATGTATGTGTA
1 TATGTATGTGTA
* *
123301 TGTGTATGCGTA
1 TATGTATGTGTA
123313 TATGT
1 TATGT
123318 TACATTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.49
Consensus pattern (12 bp):
TATGTATGTGTA
Found at i:126597 original size:132 final size:131
Alignment explanation
Indices: 126204--126599 Score: 433
Period size: 132 Copynumber: 3.0 Consensus size: 131
126194 TCTCACCCAA
* * * ** **
126204 TAAATTTGTCACTTCTTCAGGCAATCTCATGTACTCATACTCTCGACTAAGTTGGGAGATAAAAC
1 TAAATTTGTCGCTTCTTTAGGTAGCCTCATGTACTCAGGCTCTCGACTAAGTTGGGAGATAAAAC
* * * * *
126269 CTCGGCCCAATTGGGGATAATGCT-GAAAGTGTTGAGGGGTTTGTCGACTTTGGGTAGATGACAC
66 CTCGGCCCGATTGGGGATAATACTGGACA-TGTTGAGGGGTCT-TCGGCTTTGGGTAGATGACAC
126333 TTC
129 TTC
* * * * *
126336 TAAATCTGTCGCTTC-TTCGCGTAGCCTCGTGTACTCTGGCTCTCGACTAAGTCGGGAGATAAAA
1 TAAATTTGTCGCTTCTTTAG-GTAGCCTCATGTACTCAGGCTCTCGACTAAGTTGGGAGATAAAA
* * * *
126400 CCTCGGCCCGATCGAGGACAATACTGGACATGTTGAGGGGCTCGTT-GG-TTCTGGGTAGATAAC
65 CCTCGGCCCGATTGGGGATAATACTGGACATGTTGAGGGG-TC-TTCGGCTT-TGGGTAGATGAC
126463 ACTTC
127 ACTTC
* * *
126468 TAAATTTGTCGCTTCTTTAGGTAGCCTCATGTACTCGGGCTCCCGATTAAGTTGGGAGATAAAAC
1 TAAATTTGTCGCTTCTTTAGGTAGCCTCATGTACTCAGGCTCTCGACTAAGTTGGGAGATAAAAC
** * *
126533 CTCGGCTTGATTGGGGATAATATTGGACATGTTGAGGGGTCTATCGGCTTTGGGCA-ACTGACAC
66 CTCGGCCCGATTGGGGATAATACTGGACATGTTGAGGGGTCT-TCGGCTTTGGGTAGA-TGACAC
126597 TTC
129 TTC
126600 AAAAACTTTT
Statistics
Matches: 218, Mismatches: 36, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
130 1 0.00
131 8 0.04
132 198 0.91
133 10 0.05
134 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (131 bp):
TAAATTTGTCGCTTCTTTAGGTAGCCTCATGTACTCAGGCTCTCGACTAAGTTGGGAGATAAAAC
CTCGGCCCGATTGGGGATAATACTGGACATGTTGAGGGGTCTTCGGCTTTGGGTAGATGACACTT
C
Found at i:127714 original size:102 final size:102
Alignment explanation
Indices: 127596--127876 Score: 519
Period size: 102 Copynumber: 2.8 Consensus size: 102
127586 TGTATGTCTG
*
127596 TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTATA
1 TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
127661 CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
66 CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
*
127698 TATGTATGCACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
1 TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
127763 CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
66 CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
* *
127800 TATGTATGTACAAACCTCGTTTCTATAGTGGAAAATTGCTTGTATT-ACACGAACTACATCTGTA
1 TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
127864 CGAGTGGTGAAAT
66 CGAGTGGTGAAAT
127877 GTTTTAAACC
Statistics
Matches: 174, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
101 30 0.17
102 144 0.83
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (102 bp):
TATGTATGTACAAACCTCGTTTCTATGGTGGAAAATTGCTTGTATTAACACGAACTACTTCTGTA
CGAGTGGTGAAATACTCTATGTATGCATGCATGCATA
Found at i:131639 original size:26 final size:27
Alignment explanation
Indices: 131585--131638 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
131575 TTAACTAAGA
131585 TAACATTTTTAGCTAAAAAGTAGATTT
1 TAACATTTTTAGCTAAAAAGTAGATTT
131612 TAACATTTTTAGCTAAAAAGTAGATTT
1 TAACATTTTTAGCTAAAAAGTAGATTT
131639 AGGATTGGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (27 bp):
TAACATTTTTAGCTAAAAAGTAGATTT
Found at i:134191 original size:9 final size:9
Alignment explanation
Indices: 134147--134202 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
134137 GAAGGAAGAG
134147 GATGATGAC
1 GATGATGAC
*
134156 GACGATGAC
1 GATGATGAC
134165 GATGATGAC
1 GATGATGAC
*
134174 GA-GACTGAT
1 GATGA-TGAC
*
134183 GATGATGAT
1 GATGATGAC
*
134192 GATGGTGAC
1 GATGATGAC
134201 GA
1 GA
134203 CAATGGCGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
8 2 0.05
9 36 0.90
10 2 0.05
ACGTcount: A:0.32, C:0.11, G:0.36, T:0.21
Consensus pattern (9 bp):
GATGATGAC
Found at i:143351 original size:18 final size:18
Alignment explanation
Indices: 143320--143354 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
143310 GGACAAAAAA
143320 AAACTTAAATACCAAATT
1 AAACTTAAATACCAAATT
143338 AAACATTAAA-ACCAAAT
1 AAAC-TTAAATACCAAAT
143355 ATAAGTAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (18 bp):
AAACTTAAATACCAAATT
Found at i:143554 original size:30 final size:30
Alignment explanation
Indices: 143498--143554 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
143488 AATATATTTA
* * *
143498 AAAATTTTAATTAAGCTCTCATAATTTTTG
1 AAAATTTCAATTAAGCCCTCAAAATTTTTG
143528 AAAATTTCAATT-AGACCCTCAAAATTT
1 AAAATTTCAATTAAG-CCCTCAAAATTT
143555 GATATCAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (30 bp):
AAAATTTCAATTAAGCCCTCAAAATTTTTG
Found at i:150332 original size:20 final size:20
Alignment explanation
Indices: 150307--150347 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
150297 TGCTCAAAAC
150307 AACACTAAACTAACTAAAGA
1 AACACTAAACTAACTAAAGA
150327 AACACTAAACTAACTAAAGA
1 AACACTAAACTAACTAAAGA
150347 A
1 A
150348 CCTGATTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.20, G:0.05, T:0.15
Consensus pattern (20 bp):
AACACTAAACTAACTAAAGA
Found at i:152019 original size:29 final size:29
Alignment explanation
Indices: 151960--152017 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
151950 AGTGCTTTTA
*
151960 AATTAATTTTATTATTATAAGCATAAAAT
1 AATTAATTTTATTATTATAAGAATAAAAT
*
151989 AATTATTTTTA-TATTATAA-AAT-AAAT
1 AATTAATTTTATTATTATAAGAATAAAAT
152015 AAT
1 AAT
152018 AAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 7 0.26
27 2 0.07
28 8 0.30
29 10 0.37
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (29 bp):
AATTAATTTTATTATTATAAGAATAAAAT
Found at i:152722 original size:22 final size:23
Alignment explanation
Indices: 152680--152727 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
152670 TCTAAATATC
*
152680 ATAATTAAATTATATATTTTTATT
1 ATAATTAAA-TATATAATTTTATT
152704 ATAATTAAA-ATATAATTTTATT
1 ATAATTAAATATATAATTTTATT
152726 AT
1 AT
152728 TTTAATAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 14 0.61
24 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATAATTAAATATATAATTTTATT
Found at i:155632 original size:22 final size:22
Alignment explanation
Indices: 155607--155656 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
155597 TTGTTTTCTC
*
155607 ATTATTTTGCTACAATTTTATT
1 ATTATTTTGCAACAATTTTATT
* * *
155629 ATTATGTTGCAACTATTTTGTT
1 ATTATTTTGCAACAATTTTATT
*
155651 GTTATT
1 ATTATT
155657 GTTTGGATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (22 bp):
ATTATTTTGCAACAATTTTATT
Found at i:155727 original size:30 final size:30
Alignment explanation
Indices: 155691--155747 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
155681 TTTATTGTTA
155691 ATTTTGTTATTATTTTAAAGGCATTTATTG
1 ATTTTGTTATTATTTTAAAGGCATTTATTG
*
155721 ATTTTGTTATTATTTTAGAGGCATTTA
1 ATTTTGTTATTATTTTAAAGGCATTTA
155748 CTTATTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.04, G:0.14, T:0.56
Consensus pattern (30 bp):
ATTTTGTTATTATTTTAAAGGCATTTATTG
Found at i:158003 original size:70 final size:71
Alignment explanation
Indices: 157885--158025 Score: 180
Period size: 70 Copynumber: 2.0 Consensus size: 71
157875 GCCTCACCGA
* * *
157885 TTGCTATCTAATTTTATGTCTCTAGTCAAAGCGATTGGATCACCA-TTTTCTAATTTAATTAATT
1 TTGCTATCTAATTTTATGCCTCTAGTCAAAGCGATAGGATCACCATTTTTC-AATTCAATTAATT
157949 C-AACTT
65 CTAACTT
* * **
157955 TTGCTGTCTGATTTTATGCCTCTAGTCAAAGCGATAGGAT-ATTTATTTTTCAATTCAATTAATT
1 TTGCTATCTAATTTTATGCCTCTAGTCAAAGCGATAGGATCA-CCATTTTTCAATTCAATTAATT
158019 CTAACTT
65 CTAACTT
158026 AATTTTATGC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
69 1 0.02
70 50 0.82
71 10 0.16
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (71 bp):
TTGCTATCTAATTTTATGCCTCTAGTCAAAGCGATAGGATCACCATTTTTCAATTCAATTAATTC
TAACTT
Found at i:159162 original size:18 final size:19
Alignment explanation
Indices: 159139--159177 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
159129 TATAAAGAAA
159139 AAAAATA-TACATATATAT
1 AAAAATAGTACATATATAT
159157 AAAAATATGTACATATATAT
1 AAAAATA-GTACATATATAT
159177 A
1 A
159178 TAGGTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
20 12 0.63
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (19 bp):
AAAAATAGTACATATATAT
Found at i:159622 original size:3 final size:3
Alignment explanation
Indices: 159611--159663 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
159601 CAATAATACC
* * *
159611 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
159656 AAT AAT AA
1 AAT AAT AA
159664 NNNNNNNNNN
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 41 0.98
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:168618 original size:14 final size:14
Alignment explanation
Indices: 168599--168630 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
168589 CCCTATATCA
168599 GCACATAAATTGAG
1 GCACATAAATTGAG
168613 GCACATAAATTGAG
1 GCACATAAATTGAG
168627 GCAC
1 GCAC
168631 TGCATGGCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (14 bp):
GCACATAAATTGAG
Found at i:171729 original size:12 final size:12
Alignment explanation
Indices: 171712--171738 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
171702 TATGTGTGCT
171712 TCTTCCTTTGCC
1 TCTTCCTTTGCC
171724 TCTTCCTTTGCC
1 TCTTCCTTTGCC
171736 TCT
1 TCT
171739 CCACCTCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.41, G:0.07, T:0.52
Consensus pattern (12 bp):
TCTTCCTTTGCC
Found at i:172752 original size:3 final size:3
Alignment explanation
Indices: 172746--172770 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
172736 TGCAGTGGTG
172746 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
172771 GTGAGTTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:181590 original size:27 final size:28
Alignment explanation
Indices: 181534--181592 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
181524 ATAACTTAAA
* *
181534 TTCAGTATTTATTTTTAATGTTTAACTT
1 TTCAATATTTATTTTTAATATTTAACTT
*
181562 TTCAATATTTA-TTTTAATTATTTAATTT
1 TTCAATATTTATTTTTAA-TATTTAACTT
181590 TTC
1 TTC
181593 TGTTTATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (28 bp):
TTCAATATTTATTTTTAATATTTAACTT
Found at i:182659 original size:30 final size:30
Alignment explanation
Indices: 182619--182688 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
182609 TACATTTTAG
*
182619 TCCTCAAAAATGAAAATAAATTCAAGTTAA
1 TCCTTAAAAATGAAAATAAATTCAAGTTAA
182649 TCCTTAAAAATGAAAATAAATTCAAGTTAA
1 TCCTTAAAAATGAAAATAAATTCAAGTTAA
*
182679 TCCCTAAAAA
1 TCCTTAAAAA
182689 ATTGATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.53, C:0.14, G:0.06, T:0.27
Consensus pattern (30 bp):
TCCTTAAAAATGAAAATAAATTCAAGTTAA
Found at i:184202 original size:16 final size:15
Alignment explanation
Indices: 184177--184224 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
184167 CTATTTTAAG
184177 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
184192 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
184209 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
184224 T
1 T
184225 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:185160 original size:19 final size:19
Alignment explanation
Indices: 185113--185152 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
185103 CATTTTGTTA
185113 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
185132 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
185151 TT
1 TT
185153 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:190366 original size:16 final size:15
Alignment explanation
Indices: 190341--190388 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
190331 CTATTTTAAG
190341 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
190356 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
190373 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
190388 T
1 T
190389 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:191303 original size:19 final size:19
Alignment explanation
Indices: 191279--191315 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
191269 CATTTTGTTA
191279 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
191298 TTTATTTTTATTTCATCT
1 TTTATTTTTATTTCATCT
191316 GTTACTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:191324 original size:19 final size:19
Alignment explanation
Indices: 191280--191326 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
191270 ATTTTGTTAT
*
191280 TTATTTTTATTTCATCTTT
1 TTATTTTTATTTCATCTTG
191299 TTATTTTTATTTCATC-TG
1 TTATTTTTATTTCATCTTG
191317 TTACTTTTTA
1 TTA-TTTTTA
191327 CTTTTTACGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (19 bp):
TTATTTTTATTTCATCTTG
Found at i:199103 original size:12 final size:12
Alignment explanation
Indices: 199086--199110 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
199076 TGTTCGACGC
199086 ATCAAAATTTGA
1 ATCAAAATTTGA
199098 ATCAAAATTTGA
1 ATCAAAATTTGA
199110 A
1 A
199111 AATAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCAAAATTTGA
Found at i:199339 original size:3 final size:3
Alignment explanation
Indices: 199331--199363 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
199321 GTCTCATCGG
199331 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
199364 CCATGAACGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:200367 original size:12 final size:12
Alignment explanation
Indices: 200352--200378 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
200342 TTATTATCAT
200352 CTCTAATTCTAA
1 CTCTAATTCTAA
200364 CTCTAATTCTAA
1 CTCTAATTCTAA
200376 CTC
1 CTC
200379 GGATAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCTAATTCTAA
Found at i:202822 original size:149 final size:149
Alignment explanation
Indices: 202550--203146 Score: 948
Period size: 149 Copynumber: 4.0 Consensus size: 149
202540 GATCAGCACT
** * *
202550 TTTTCCATTGTTTGATTTATTATCATCACCATTGACATGGAAAGGCCCGTATTTTTTAGGTCGGT
1 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
* ** *
202615 CCTAGAGAA-AACTTACAGAGATTAGAAGAGTTCCAGTGTGAAGAGATAATCAGACAAGTAAAG-
66 CCTAGAGAACAA-TTACAGAGATCAGAAGAGTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGA
202678 TGCAAACACGAGGGATACCTG
130 T-CAAACACGAGGGATACCTG
*
202699 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTACTTTTTAAGTCGGT
1 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
* *
202764 CCTAGAGAACAATTACAGAGATCATAA-ATGTTCCAGTGTGAAAAGGCAATCAGGCAAGTAAAGA
66 CCTAGAGAACAATTACAGAGATCAGAAGA-GTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGA
202828 TCAAACACGAGGGATACCTG
130 TCAAACACGAGGGATACCTG
202848 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
1 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
* * * *
202913 CCTAGAGAACAATTACAGAGATCAGAAGAGTTTCAGCGTGAAGATGAAATCAGGCAAGTAAAGAT
66 CCTAGAGAACAATTACAGAGATCAGAAGAGTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGAT
202978 CAAACACGAGGGATACCTG
131 CAAACACGAGGGATACCTG
* *
202997 TTTTCCATAATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAGGTCGGT
1 TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
* * * *
203062 CCTAGAGAACAGTTACAGAGATCAGAAGAGTTCCAATGCGAAGAGGCAATTAGGCAAGTAAAGAT
66 CCTAGAGAACAATTACAGAGATCAGAAGAGTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGAT
*
203127 CAAACACAAGGGATACCTG
131 CAAACACGAGGGATACCTG
203146 T
1 T
203147 GGCTGTGGGA
Statistics
Matches: 415, Mismatches: 29, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
148 1 0.00
149 410 0.99
150 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.28
Consensus pattern (149 bp):
TTTTCCATCATTTGATTTATTATCATCACCATTGACATGGAAAGACCCGTATTTTTTAAGTCGGT
CCTAGAGAACAATTACAGAGATCAGAAGAGTTCCAGTGTGAAGAGGCAATCAGGCAAGTAAAGAT
CAAACACGAGGGATACCTG
Found at i:208112 original size:23 final size:22
Alignment explanation
Indices: 208081--208147 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
208071 TATTTCAAAG
*
208081 ATAAGAAATTATAAATTAATAT
1 ATAAAAAATTATAAATTAATAT
** *
208103 ATAATAAAATTATATTTTAATCT
1 ATAA-AAAATTATAAATTAATAT
* *
208126 CTAAAAATTTATAAATTTAATA
1 ATAAAAAATTATAAA-TTAATA
208148 CCAATCACTA
Statistics
Matches: 34, Mismatches: 9, Indels: 3
0.74 0.20 0.07
Matches are distributed among these distances:
22 12 0.35
23 22 0.65
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (22 bp):
ATAAAAAATTATAAATTAATAT
Found at i:209834 original size:11 final size:11
Alignment explanation
Indices: 209820--209852 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
209810 TTTTTTTAAA
209820 AATTTTTAATG
1 AATTTTTAATG
209831 AATTTTTAATG
1 AATTTTTAATG
209842 AATTATTTAAT
1 AATT-TTTAAT
209853 TATTACTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (11 bp):
AATTTTTAATG
Found at i:214813 original size:18 final size:17
Alignment explanation
Indices: 214788--214824 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
214778 ATATAAAGTT
214788 TTGGTAATTTCATTTTC
1 TTGGTAATTTCATTTTC
*
214805 TTGGTTAATTTTATTTTC
1 TTGG-TAATTTCATTTTC
214823 TT
1 TT
214825 TTTGGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.16, C:0.08, G:0.11, T:0.65
Consensus pattern (17 bp):
TTGGTAATTTCATTTTC
Found at i:218617 original size:14 final size:13
Alignment explanation
Indices: 218598--218632 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 13
218588 ATTTTACGTT
218598 TAATTTATCAAATA
1 TAATTTAT-AAATA
218612 TAATTTGATAAATA
1 TAATTT-ATAAATA
218626 TAATTTA
1 TAATTTA
218633 ATTCGAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 1 0.05
14 17 0.85
15 2 0.10
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
TAATTTATAAATA
Found at i:219638 original size:16 final size:16
Alignment explanation
Indices: 219627--219658 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
219617 AAATAATTTA
219627 TTTCAAAAATAAAATT
1 TTTCAAAAATAAAATT
*
219643 TTTCAAAAATTAAATT
1 TTTCAAAAATAAAATT
219659 AATTTTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTCAAAAATAAAATT
Found at i:229566 original size:47 final size:47
Alignment explanation
Indices: 229515--229605 Score: 182
Period size: 47 Copynumber: 1.9 Consensus size: 47
229505 AATTTTTAAA
229515 TTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTTTTTTCAG
1 TTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTTTTTTCAG
229562 TTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTTTTTT
1 TTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTTTTTT
229606 AAATTCTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (47 bp):
TTTCAAGTAATCTATGTTTAAATAAAGTAATTAGTATTTTTTTTCAG
Found at i:234207 original size:7 final size:7
Alignment explanation
Indices: 234195--234219 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
234185 CCCTTTTACG
234195 TTGTACA
1 TTGTACA
234202 TTGTACA
1 TTGTACA
234209 TTGTACA
1 TTGTACA
234216 TTGT
1 TTGT
234220 TAATTTGCTT
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:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (7 bp):
TTGTACA
Found at i:234669 original size:16 final size:17
Alignment explanation
Indices: 234623--234670 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
234613 AACTTGCTTA
**
234623 AGTCATTTCAAGTTCGG
1 AGTCATTTCAAGTTTAG
**
234640 AGTCATTTTGAGTTTAG
1 AGTCATTTCAAGTTTAG
234657 A-TCATTTCAAGTTT
1 AGTCATTTCAAGTTT
234671 GCGTGCTAGA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 11 0.44
17 14 0.56
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (17 bp):
AGTCATTTCAAGTTTAG
Found at i:237100 original size:7 final size:7
Alignment explanation
Indices: 237084--237131 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
237074 CAGTTATATC
237084 CGAAACT
1 CGAAACT
*
237091 CGAAATT
1 CGAAACT
237098 CGAAACT
1 CGAAACT
*
237105 TGAAACT
1 CGAAACT
*
237112 CGAAACC
1 CGAAACT
*
237119 CGAAACC
1 CGAAACT
237126 CGAAAC
1 CGAAAC
237132 CTGAAACCCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (7 bp):
CGAAACT
Found at i:237122 original size:21 final size:21
Alignment explanation
Indices: 237083--237143 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
237073 TCAGTTATAT
**
237083 CCGAAACTCGAAATTCGAAAC
1 CCGAAACTCGAAACCCGAAAC
**
237104 TTGAAACTCGAAACCCGAAAC
1 CCGAAACTCGAAACCCGAAAC
237125 CCGAAAC-CTGAAACCCGAA
1 CCGAAACTC-GAAACCCGAA
237144 GTGTTCATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
20 1 0.03
21 32 0.97
ACGTcount: A:0.43, C:0.31, G:0.15, T:0.11
Consensus pattern (21 bp):
CCGAAACTCGAAACCCGAAAC
Found at i:237132 original size:7 final size:7
Alignment explanation
Indices: 237083--237143 Score: 59
Period size: 7 Copynumber: 8.7 Consensus size: 7
237073 TCAGTTATAT
237083 CCGAAAC
1 CCGAAAC
* *
237090 TCGAAAT
1 CCGAAAC
*
237097 TCGAAAC
1 CCGAAAC
**
237104 TTGAAAC
1 CCGAAAC
*
237111 TCGAAAC
1 CCGAAAC
237118 CCGAAAC
1 CCGAAAC
237125 CCGAAAC
1 CCGAAAC
*
237132 CTGAAAC
1 CCGAAAC
237139 CCGAA
1 CCGAA
237144 GTGTTCATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.43, C:0.31, G:0.15, T:0.11
Consensus pattern (7 bp):
CCGAAAC
Found at i:240453 original size:21 final size:22
Alignment explanation
Indices: 240427--240473 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
240417 CTCTGCTCAA
*
240427 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
240448 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
240470 ACTC
1 ACTC
240474 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:247790 original size:10 final size:10
Alignment explanation
Indices: 247777--247810 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
247767 ATATATATAT
*
247777 CATATCATAC
1 CATACCATAC
247787 CATACCATAC
1 CATACCATAC
*
247797 CATACCATAT
1 CATACCATAC
247807 CATA
1 CATA
247811 ATCATTGTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (10 bp):
CATACCATAC
Found at i:247800 original size:15 final size:15
Alignment explanation
Indices: 247777--247810 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
247767 ATATATATAT
*
247777 CATATCATACCATAC
1 CATACCATACCATAC
*
247792 CATACCATACCATAT
1 CATACCATACCATAC
247807 CATA
1 CATA
247811 ATCATTGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
CATACCATACCATAC
Found at i:255410 original size:27 final size:27
Alignment explanation
Indices: 255379--255431 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
255369 ATAGCCCCAG
255379 AAAAATAGAAAAATTACTTGTTAATCA
1 AAAAATAGAAAAATTACTTGTTAATCA
255406 AAAAATAGAAAAATTACTTGTTAATC
1 AAAAATAGAAAAATTACTTGTTAATC
255432 CTCTCCTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAAATAGAAAAATTACTTGTTAATCA
Found at i:258003 original size:27 final size:26
Alignment explanation
Indices: 257960--258011 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
257950 AAATTTTAGA
257960 TATAAAAAAATAGATATTATAAAAATT
1 TATAAAAAAATAGATATTA-AAAAATT
*
257987 TATAATAAAATCA-ATATTAAAAAAT
1 TATAAAAAAAT-AGATATTAAAAAAT
258012 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 16 0.70
28 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
TATAAAAAAATAGATATTAAAAAATT
Found at i:260051 original size:25 final size:25
Alignment explanation
Indices: 260023--260073 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
260013 TAAGTTCCAA
260023 GTTAGTTTTAGATTCGGGTCAAATC
1 GTTAGTTTTAGATTCGGGTCAAATC
260048 GTTAGTTTTAGATTCGGGTCAAATC
1 GTTAGTTTTAGATTCGGGTCAAATC
260073 G
1 G
260074 GATTGTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (25 bp):
GTTAGTTTTAGATTCGGGTCAAATC
Found at i:263486 original size:18 final size:18
Alignment explanation
Indices: 263444--263489 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
263434 AACTACCAAT
263444 ATAGTTA-TTTTTATTAA
1 ATAGTTATTTTTTATTAA
**
263461 ATTCTTATTTTTTA-TATA
1 ATAGTTATTTTTTATTA-A
263479 ATAGTTATTTT
1 ATAGTTATTTT
263490 AATTTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 7 0.30
18 16 0.70
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.63
Consensus pattern (18 bp):
ATAGTTATTTTTTATTAA
Found at i:263497 original size:17 final size:17
Alignment explanation
Indices: 263444--263498 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
263434 AACTACCAAT
*
263444 ATAGTTATTTTTATTAA
1 ATAGTTATTTTTATTTA
** *
263461 ATTCTTATTTTTTATATA
1 ATAGTTA-TTTTTATTTA
*
263479 ATAGTTATTTTAATTTA
1 ATAGTTATTTTTATTTA
263496 ATA
1 ATA
263499 TGAAATCCTA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 16 0.55
18 13 0.45
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
ATAGTTATTTTTATTTA
Found at i:264778 original size:12 final size:11
Alignment explanation
Indices: 264742--264778 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
264732 TATTATTGTA
264742 TTATAAAATAT
1 TTATAAAATAT
264753 TT-TAAAAT-T
1 TTATAAAATAT
264762 TTATACAAATAT
1 TTATA-AAATAT
264774 TTATA
1 TTATA
264779 TAATTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
9 3 0.13
10 8 0.35
11 6 0.26
12 6 0.26
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (11 bp):
TTATAAAATAT
Found at i:265209 original size:29 final size:31
Alignment explanation
Indices: 265162--265223 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
265152 TTGATTTAAC
** *
265162 GTGCAATTATATGTATGAA-CTTTAATT-TG
1 GTGCAATTATATACATGAAGCTATAATTGTG
*
265191 GTGCAATTATATACGTGAAGCTATAATTGTG
1 GTGCAATTATATACATGAAGCTATAATTGTG
265222 GT
1 GT
265224 TCAGATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 16 0.59
30 7 0.26
31 4 0.15
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (31 bp):
GTGCAATTATATACATGAAGCTATAATTGTG
Found at i:265475 original size:13 final size:14
Alignment explanation
Indices: 265457--265490 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
265447 AATTTTTAGG
265457 ATTTAT-CACCAAA
1 ATTTATGCACCAAA
*
265470 ATTTATGTACCAAA
1 ATTTATGCACCAAA
265484 ATTTATG
1 ATTTATG
265491 TATAATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.41, C:0.15, G:0.06, T:0.38
Consensus pattern (14 bp):
ATTTATGCACCAAA
Found at i:265483 original size:14 final size:14
Alignment explanation
Indices: 265464--265492 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
265454 AGGATTTATC
265464 ACCAAAATTTATGT
1 ACCAAAATTTATGT
265478 ACCAAAATTTATGT
1 ACCAAAATTTATGT
265492 A
1 A
265493 TAATTTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (14 bp):
ACCAAAATTTATGT
Found at i:271402 original size:21 final size:21
Alignment explanation
Indices: 271378--271422 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
271368 TGTAGCTTGT
271378 AAACAT-GTATTTCATAAAAAA
1 AAACATAG-ATTTCATAAAAAA
*
271399 AAACATAAGATTTCATTAAAAA
1 AAACAT-AGATTTCATAAAAAA
271421 AA
1 AA
271423 CAAGAGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 14 0.67
23 1 0.05
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (21 bp):
AAACATAGATTTCATAAAAAA
Found at i:284394 original size:202 final size:195
Alignment explanation
Indices: 284041--284598 Score: 679
Period size: 198 Copynumber: 2.8 Consensus size: 195
284031 AACAGGTGCG
* * * *
284041 AGAATTTTCTTTCCTACCAAACACGCTCAAACATCCATCTTCTTTTTCAGTTTTTCACCACCCTA
1 AGAATTTTCTTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCA-TCTT
* * * * * *
284106 ATTCCATTTCTTCTAGATTTTTCACTCTGCTAAGCAAACCACTAATCTTGTTTCCGTATTTTTGC
65 ATTCCA-TTCTTCTTGTTTTTTCTCTCTGCCAAGCAAACCACTAATCTCGTTTTCGTATTTTTGC
* *
284171 TTTACAATCTATGAACAAGAAAGCTAATGAAGACGATGCTAATCTTTTGTAATGCAGCTAAATGA
129 TTTACAATCTATGAACAAGAAAGCTAATGAAGACAAAGCTAATC-TTTGTAATGCAGCTAAATGA
284236 ACA
193 ACA
284239 AGAATTCTT-TTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCATCTT
1 AGAATT-TTCTTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCATCTT
* * *
284303 TTGTTCATTCTTCTGTTGTTTTTTTTTCTCTCTGCCAAGCAAACCACTAAACTCGTTTTCGTATT
65 AT-TCCATTCTTC--TTG---TTTTTTCTCTCTGCCAAGCAAACCACTAATCTCGTTTTCGTATT
* *
284368 TTTGCTTTACTATCTATGAACAAGAAAGCTAATGAAGACAAAGCTAATCTTTGTAATGCAGTTAA
124 TTTGCTTTACAATCTATGAACAAGAAAGCTAATGAAGACAAAGCTAATCTTTGTAATGCAGCTAA
* * *
284433 GTGAGCG
189 ATGAACA
* * * * * ** *
284440 AGAATTTTCTTCCCTACCTAACACACTCAAACATTTATGTTCTTTTTTGGTTTTTCACCATCCTA
1 AGAATTTTCTTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCATCTTA
** * **
284505 TATCCATTTCTTC-CCTTTTTTCTACTCTGCCAAGCAAACCACTAATCTCATTTTCCAAATTTTT
66 T-TCCA-TTCTTCTTGTTTTTTCT-CTCTGCCAAGCAAACCACTAATCTCGTTTT-CGTATTTTT
284569 GCTTTACAATCTATGAACAAGAAAGCTAAT
127 GCTTTACAATCTATGAACAAGAAAGCTAAT
284599 TATTTCCTTC
Statistics
Matches: 311, Mismatches: 38, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
196 8 0.03
197 37 0.12
198 94 0.30
199 4 0.01
200 2 0.01
201 76 0.24
202 90 0.29
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (195 bp):
AGAATTTTCTTTCCTACCAAACACGCTCAAACATTCATATTCTTTTTCAGTTTTTCACCATCTTA
TTCCATTCTTCTTGTTTTTTCTCTCTGCCAAGCAAACCACTAATCTCGTTTTCGTATTTTTGCTT
TACAATCTATGAACAAGAAAGCTAATGAAGACAAAGCTAATCTTTGTAATGCAGCTAAATGAACA
Found at i:292453 original size:3 final size:3
Alignment explanation
Indices: 292445--292479 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
292435 AGCATTTTGG
292445 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
292480 AACTTAGCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:305769 original size:29 final size:30
Alignment explanation
Indices: 305737--305805 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
305727 AATTAAACTA
* *
305737 AAATTTTAAAATCTAAAAAATA-AAATG-TT
1 AAATTTTAAAATATAAAAAATATAAA-GACT
* *
305766 AAATTTTTAAATATTAAAAATATAAAGACT
1 AAATTTTAAAATATAAAAAATATAAAGACT
305796 AAATTTTAAA
1 AAATTTTAAA
305806 TTTACTGAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (30 bp):
AAATTTTAAAATATAAAAAATATAAAGACT
Found at i:313118 original size:18 final size:18
Alignment explanation
Indices: 313095--313151 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
313085 CCCAACTACT
* *
313095 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTGCC
313113 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
313131 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
313149 GTA
1 GTA
313152 AACGGTCGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:314850 original size:18 final size:18
Alignment explanation
Indices: 314803--314856 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
314793 CCCAACTACT
* * *
314803 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTGCC
314821 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
314839 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
314857 ATAAACGATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:317136 original size:130 final size:125
Alignment explanation
Indices: 316857--317164 Score: 350
Period size: 125 Copynumber: 2.4 Consensus size: 125
316847 CTATATCCGT
* * * * * * *
316857 AAATTTGTTCAAAATCA-ATCCAAATCAAAATGTTATCCGTCTAAGTTATTGATGTGTTTATTTT
1 AAATTTATTTAAAAT-AGATCCAAACCGAAATGTTATCCGCCTAACTTATTAATGTGTTTATTTT
* **
316921 CACTGTTGTTTATGATTCATGCGGTTCTTTGCTTTTTCAAAAACTAAAACATTGTAACCGT
65 CACTGTTGTTTATGATTCATGCGGTTCTTTGCTTTTTCAAAAACTAAAACACTGTAACCAC
* *
316982 AAATTTATTTAAAATCGATCCAAACCGAAATGTTATCCGCCTAACTTATTAATGTGTTTGTTTTC
1 AAATTTATTTAAAATAGATCCAAACCGAAATGTTATCCGCCTAACTTATTAATGTGTTTATTTTC
* * * * * *
317047 ACTGTTGTTTATGGTTCATGTTATATGGTTCTTTGTTTTTTCAAAAATTAAAATACTGTAACTAC
66 ACTGTTGTTTATGATTCATG-----CGGTTCTTTGCTTTTTCAAAAACTAAAACACTGTAACCAC
* * *
317112 AAATTTA-TTAAAAGTAGATCCAAACCGAAATCTTTTCTGCCTAACTTATTAAT
1 AAATTTATTTAAAA-TAGATCCAAACCGAAATGTTATCCGCCTAACTTATTAAT
317165 ATTATCCACC
Statistics
Matches: 154, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
125 74 0.48
129 6 0.04
130 74 0.48
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.42
Consensus pattern (125 bp):
AAATTTATTTAAAATAGATCCAAACCGAAATGTTATCCGCCTAACTTATTAATGTGTTTATTTTC
ACTGTTGTTTATGATTCATGCGGTTCTTTGCTTTTTCAAAAACTAAAACACTGTAACCAC
Found at i:322898 original size:16 final size:16
Alignment explanation
Indices: 322875--322908 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
322865 AAATTAGTTC
*
322875 ATTTTTTTTAACTTTTT
1 ATTTTTTTGAA-TTTTT
322892 ATTTTTTTGAATTTTT
1 ATTTTTTTGAATTTTT
322908 A
1 A
322909 ATTGAATAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTTTTTGAATTTTT
Found at i:324608 original size:16 final size:16
Alignment explanation
Indices: 324587--324635 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
324577 TAAATTGAAG
324587 TGACCAAAACTCAAAA
1 TGACCAAAACTCAAAA
*
324603 TGACCAAAATTCAAAA
1 TGACCAAAACTCAAAA
* * *
324619 TAACCTAAACTCGAAA
1 TGACCAAAACTCAAAA
324635 T
1 T
324636 TAACCTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.53, C:0.22, G:0.06, T:0.18
Consensus pattern (16 bp):
TGACCAAAACTCAAAA
Found at i:333609 original size:18 final size:17
Alignment explanation
Indices: 333568--333610 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
333558 TCACCATTTG
*
333568 CCATTGCACTTGTTCTT
1 CCATTCCACTTGTTCTT
*
333585 CAAATTCCACTTCGTTCTT
1 C-CATTCCACTT-GTTCTT
333604 CCATTCC
1 CCATTCC
333611 GCAATCTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.05
18 13 0.62
19 7 0.33
ACGTcount: A:0.16, C:0.35, G:0.07, T:0.42
Consensus pattern (17 bp):
CCATTCCACTTGTTCTT
Found at i:335230 original size:23 final size:24
Alignment explanation
Indices: 335189--335239 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
335179 TTCGTAGGTC
* *
335189 AAATAAATTATACTAATAAATGTT
1 AAATAAATTATACCAATAAATATT
*
335213 AAATATATT-TACCAATAAATATT
1 AAATAAATTATACCAATAAATATT
335236 AAAT
1 AAAT
335240 TATCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.55, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACCAATAAATATT
Found at i:341309 original size:47 final size:47
Alignment explanation
Indices: 341256--341350 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
341246 GATATCTGCG
341256 AAGAGTTGTGTATGATTCACAAAGAAGGTACCTTGATTAGTGGAGAT
1 AAGAGTTGTGTATGATTCACAAAGAAGGTACCTTGATTAGTGGAGAT
341303 AAGAGTTGTGTATGATTCACAAAGAAGGTACCTTGATTAGTGGAGAT
1 AAGAGTTGTGTATGATTCACAAAGAAGGTACCTTGATTAGTGGAGAT
341350 A
1 A
341351 TGATCTGCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.29
Consensus pattern (47 bp):
AAGAGTTGTGTATGATTCACAAAGAAGGTACCTTGATTAGTGGAGAT
Found at i:342856 original size:74 final size:74
Alignment explanation
Indices: 342765--342913 Score: 244
Period size: 74 Copynumber: 2.0 Consensus size: 74
342755 TAAATCAAAG
* * *
342765 TCATAATCTAGGAATGTGTGCTATAATTAACCCAAAATATGGGGGAAGCTCACAACAAAATTGGT
1 TCATAATCTAGGAATGTGTGATATAATTAACCCAAAAGATGGGGAAAGCTCACAACAAAATTGGT
342830 CCCAAACTA
66 CCCAAACTA
* *
342839 TCATATTCTAGGGATGTGTGATATAATTAACCCAAAAGATGGGGAAAGCTCACAACAAAATTGGT
1 TCATAATCTAGGAATGTGTGATATAATTAACCCAAAAGATGGGGAAAGCTCACAACAAAATTGGT
*
342904 CGCAAACTA
66 CCCAAACTA
342913 T
1 T
342914 ACTGTTCTTC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 69 1.00
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.25
Consensus pattern (74 bp):
TCATAATCTAGGAATGTGTGATATAATTAACCCAAAAGATGGGGAAAGCTCACAACAAAATTGGT
CCCAAACTA
Found at i:349808 original size:25 final size:26
Alignment explanation
Indices: 349780--349832 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
349770 ATATTAGAAT
*
349780 TATTACATAATA-TATAAAAATAAAA
1 TATTACAAAATATTATAAAAATAAAA
* **
349805 TATTATAAAATATTATAAACTTAAAA
1 TATTACAAAATATTATAAAAATAAAA
349831 TA
1 TA
349833 AAATAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (26 bp):
TATTACAAAATATTATAAAAATAAAA
Found at i:349812 original size:10 final size:10
Alignment explanation
Indices: 349799--349823 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
349789 ATATATAAAA
349799 ATAAAATATT
1 ATAAAATATT
349809 ATAAAATATT
1 ATAAAATATT
349819 ATAAA
1 ATAAA
349824 CTTAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
ATAAAATATT
Found at i:352065 original size:60 final size:60
Alignment explanation
Indices: 352000--352186 Score: 188
Period size: 60 Copynumber: 3.2 Consensus size: 60
351990 GATTTTTTCT
* * * *
352000 CAATTAGGTACTTGAACTTGGTTTTAAGGGTCAATTTGGTAACAAAAGTTTATTTTGGTT
1 CAATTAGGTACTTGAACTTGGCTTTAAGGTTCAATTTGGTACCAAAAGTTTATTTTGGTC
* * * * ** *
352060 CAATTAGGTAATT-AAGCTTAGCTTCAAGGTTCAAATCAGTACCTAAGAG--T-TTTT--TC
1 CAATTAGGTACTTGAA-CTTGGCTTTAAGGTTCAATTTGGTACC-AAAAGTTTATTTTGGTC
* * *
352116 CAATTAGGCACTTGAACTTGACTTTAAGGTTCAATTTGGTACCCAAAGTTTATTTTGGTC
1 CAATTAGGTACTTGAACTTGGCTTTAAGGTTCAATTTGGTACCAAAAGTTTATTTTGGTC
352176 CAATTAGGTAC
1 CAATTAGGTAC
352187 CTAAAACTTG
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
55 3 0.03
56 33 0.34
57 3 0.03
58 8 0.08
59 3 0.03
60 43 0.44
61 4 0.04
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (60 bp):
CAATTAGGTACTTGAACTTGGCTTTAAGGTTCAATTTGGTACCAAAAGTTTATTTTGGTC
Found at i:352158 original size:56 final size:56
Alignment explanation
Indices: 351969--352166 Score: 145
Period size: 56 Copynumber: 3.5 Consensus size: 56
351959 ACTTAGGTTC
* **
351969 AAGGTTCAAATCGGCACCTAAGA-TTTTTTCTCAATTAGGTACTTGAACTTGGTTTT
1 AAGGTTCAAATCGGTACCTAAGAGTTTTTTC-CAATTAGGTACTTGAACTTGACTTT
* * * * * * * *
352025 AAGGGTCAATTTGGTAAC-AAAAGTTTATTTTGGTTCAATTAGGTAATT-AAGCTT-AGCTTC
1 AAGGTTCAAATCGGTACCTAAGAG--T-TTTT--TCCAATTAGGTACTTGAA-CTTGA-CTTT
* *
352085 AAGGTTCAAATCAGTACCTAAGAGTTTTTTCCAATTAGGCACTTGAACTTGACTTT
1 AAGGTTCAAATCGGTACCTAAGAGTTTTTTCCAATTAGGTACTTGAACTTGACTTT
* * *
352141 AAGGTTCAATTTGGTACCCAA-AGTTT
1 AAGGTTCAAATCGGTACCTAAGAGTTT
352167 ATTTTGGTCC
Statistics
Matches: 106, Mismatches: 25, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
55 8 0.08
56 48 0.45
57 3 0.03
58 5 0.05
59 7 0.07
60 30 0.28
61 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (56 bp):
AAGGTTCAAATCGGTACCTAAGAGTTTTTTCCAATTAGGTACTTGAACTTGACTTT
Done.