Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 147 of 203
Found at i:46708671 original size:22 final size:21
Alignment explanation
Indices: 46708642--46708685 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
46708632 AAAGAGAATG
* *
46708642 AAAAATAAAATAAAAAGTTAA
1 AAAAATAAAAGAAAAAATTAA
46708663 AAAACATAAAAGAAAAAATTAA
1 AAAA-ATAAAAGAAAAAATTAA
46708685 A
1 A
46708686 TTGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAGAAAAAATTAA
Found at i:46711848 original size:43 final size:43
Alignment explanation
Indices: 46711786--46711914 Score: 172
Period size: 43 Copynumber: 3.0 Consensus size: 43
46711776 TAGGACCTCT
*
46711786 GATATGTGTTTTTCGTGTAAGACCACGTCTGGGACATTGGCATC
1 GATATGTG-TTTACGTGTAAGACCACGTCTGGGACATTGGCATC
* *
46711830 GACT-TGTGTTTACGTGTAAGACC-CTGTTTGGGACAGTGGCATC
1 GA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGACATTGGCATC
* *
46711873 GATATGTGATTACATGTAAGACCACGTCTGGGACATTGGCAT
1 GATATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCAT
46711915 TGTACAAGCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
42 2 0.03
43 64 0.86
44 7 0.09
45 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (43 bp):
GATATGTGTTTACGTGTAAGACCACGTCTGGGACATTGGCATC
Found at i:46714667 original size:9 final size:9
Alignment explanation
Indices: 46714643--46714685 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
46714633 AGAACAAAAC
*
46714643 TTGAGAAAA
1 TTGAGAGAA
46714652 TTGAGAGAA
1 TTGAGAGAA
* *
46714661 TTAAGAGAG
1 TTGAGAGAA
46714670 TTGAGAGAA
1 TTGAGAGAA
*
46714679 CTGAGAG
1 TTGAGAG
46714686 GTTAGAAAGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.33, T:0.21
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:46714685 original size:18 final size:18
Alignment explanation
Indices: 46714652--46714708 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
46714642 CTTGAGAAAA
*
46714652 TTGAGAGAATTAAGAGAG
1 TTGAGAGAATTGAGAGAG
*
46714670 TTGAGAGAACTGAGAG-G
1 TTGAGAGAATTGAGAGAG
* *
46714687 TTAGAAAGGATTGAGAGAG
1 TT-GAGAGAATTGAGAGAG
46714706 TTG
1 TTG
46714709 GATTTGAGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 3 0.09
18 26 0.81
19 3 0.09
ACGTcount: A:0.39, C:0.02, G:0.37, T:0.23
Consensus pattern (18 bp):
TTGAGAGAATTGAGAGAG
Found at i:46715043 original size:22 final size:23
Alignment explanation
Indices: 46715005--46715050 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
46714995 ATATAAATAT
*
46715005 TAAAGTATATACAAAAATGAAAA
1 TAAAGTATATACAAAAATAAAAA
46715028 TAAA-TATATA-AGAAAATAAAAA
1 TAAAGTATATACA-AAAATAAAAA
46715050 T
1 T
46715051 GATAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 16 0.76
23 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (23 bp):
TAAAGTATATACAAAAATAAAAA
Found at i:46723587 original size:26 final size:26
Alignment explanation
Indices: 46723550--46723629 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
46723540 TGGAGGAAGT
*
46723550 ATACTG-TACTGGCAGGTTTGATGCG
1 ATACTGATACTGGCAGCTTTGATGCG
*
46723575 ATACTGATACTGGCAGCTTTGCTGCG
1 ATACTGATACTGGCAGCTTTGATGCG
* *
46723601 TTACT-ATTACTGGCAACTTT-ACTGCG
1 ATACTGA-TACTGGCAGCTTTGA-TGCG
46723627 ATA
1 ATA
46723630 TTGGTGTGTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
25 7 0.15
26 39 0.85
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (26 bp):
ATACTGATACTGGCAGCTTTGATGCG
Found at i:46723800 original size:32 final size:34
Alignment explanation
Indices: 46723764--46723829 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
46723754 GCCCACACTA
* *
46723764 TTACTGTATTGGGTTAAAG-CCAGACTG-TACTG
1 TTACTGAATAGGGTTAAAGCCCAGACTGTTACTG
*
46723796 TTACTGAATAGGGTTCAAGCCCAGACTGTTACTG
1 TTACTGAATAGGGTTAAAGCCCAGACTGTTACTG
46723830 CTTGTTGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 16 0.55
33 8 0.28
34 5 0.17
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (34 bp):
TTACTGAATAGGGTTAAAGCCCAGACTGTTACTG
Found at i:46726281 original size:20 final size:19
Alignment explanation
Indices: 46726215--46726281 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 19
46726205 TGTATGGGAT
*
46726215 TTGCACTTAGGTGTCCCTG
1 TTGCACTTAGGTGTCCTTG
* **
46726234 TTTGCACTTTGGTACCCTTG
1 -TTGCACTTAGGTGTCCTTG
* *
46726254 TATACACTTCGGTGTCCTTG
1 T-TGCACTTAGGTGTCCTTG
46726274 TTCGCACT
1 TT-GCACT
46726282 ACGATAACCC
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 2 0.06
20 34 0.94
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.40
Consensus pattern (19 bp):
TTGCACTTAGGTGTCCTTG
Found at i:46733288 original size:91 final size:90
Alignment explanation
Indices: 46733146--46733312 Score: 264
Period size: 91 Copynumber: 1.8 Consensus size: 90
46733136 CATTCAAACC
* *
46733146 ACATTTATTGACATCTAAACAACAATTTACTGCTGCTTTAATACACCAAACAATAGTCCTTAAAA
1 ACATTAATTGACATCTAAACAACAATTTACTGCTGCATTAATACACCAAACAATAGTCCTTAAAA
46733211 CAACATAAATATAGTCACTTAGACA
66 CAACATAAATATAGTCACTTAGACA
* *
46733236 ACATTAATTGACGA-CTAAACAAGAATTTTTCTGCTGCATTAATACACCAAACAATAGTCCTTAA
1 ACATTAATTGAC-ATCTAAACAACAA-TTTACTGCTGCATTAATACACCAAACAATAGTCCTTAA
*
46733300 AGCAACATAAATA
64 AACAACATAAATA
46733313 CACCACTCTC
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 21 0.30
91 49 0.70
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (90 bp):
ACATTAATTGACATCTAAACAACAATTTACTGCTGCATTAATACACCAAACAATAGTCCTTAAAA
CAACATAAATATAGTCACTTAGACA
Found at i:46734635 original size:44 final size:45
Alignment explanation
Indices: 46734572--46734662 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 45
46734562 GAATCCGAAC
*
46734572 AAAGTTCGATGTGGTAAAAACCATTG-TCATAAATGCAAAAAATA
1 AAAGTTCAATGTGGTAAAAACCATTGATCATAAATGCAAAAAATA
46734616 AAAGTTCAATGTGGTAAAAACCATTGTATATCATAAATGCAAAAAAT
1 AAAGTTCAATGTGGTAAAAACCATTG---ATCATAAATGCAAAAAAT
46734663 CTATCGTATA
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 25 0.60
48 17 0.40
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.26
Consensus pattern (45 bp):
AAAGTTCAATGTGGTAAAAACCATTGATCATAAATGCAAAAAATA
Found at i:46736732 original size:18 final size:19
Alignment explanation
Indices: 46736696--46736737 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
46736686 GTTTTCATTG
46736696 AAAACCATTTTTGAAATTT
1 AAAACCATTTTTGAAATTT
* **
46736715 CAAACC-TTTTTGCCATTT
1 AAAACCATTTTTGAAATTT
46736733 AAAAC
1 AAAAC
46736738 TTGTACAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAACCATTTTTGAAATTT
Found at i:46746065 original size:69 final size:68
Alignment explanation
Indices: 46745947--46746849 Score: 453
Period size: 69 Copynumber: 13.1 Consensus size: 68
46745937 TGTCATTTTG
* * * * * * * * * *
46745947 AAAGGCTTGCCAATTTATGATCACAGCCCCCAATATAGCTAGCGAACCTACATTCCTAATAGATA
1 AAAGGCTTGTCGATTTATGATCGCAGCCTCCAACACAGCTA-CGGACCTACGTTCCCAATTGATA
46746012 TTAA
65 TTAA
* *
46746016 AAAGGCTTGTTGATTTATGATTGCAGCCTCCAACACAGCTCACGGACCTACGTTCCCAATTGATA
1 AAAGGCTTGTCGATTTATGATCGCAGCCTCCAACACAGCT-ACGGACCTACGTTCCCAATTGATA
*
46746081 TTAC
65 TTAA
* * * * * * ** * * **
46746085 AAAGGCTCGACGGTTTATGATCACAACCTCCAACAAAGCTAACATACCTATGTTCCTAGCTGATA
1 AAAGGCTTGTCGATTTATGATCGCAGCCTCCAACACAGCT-ACGGACCTACGTTCCCAATTGATA
46746150 TTAA
65 TTAA
* * * * * * ** * *
46746154 AAAGGCTT-ACCAGTTTATGATCGTAGCCTCTAACATAACTCACGGACCTTTGTTCCCAACTGGT
1 AAAGGCTTGTCGA-TTTATGATCGCAGCCTCCAACACAGCT-ACGGACCTACGTTCCCAATTGAT
* *
46746218 AATAC
64 ATTAA
* * * * * * ** *
46746223 AAAGGC--GTACTAGTTTATGATTGCAACATCCAACATAGCTAGCGAACCTACGTTCCCAGCTGG
1 AAAGGCTTGT-CGA-TTTATGATCGCAGCCTCCAACACAGCTA-CGGACCTACGTTCCCAATTGA
*
46746286 TATTAC
63 TATTAA
* * * *
46746292 AAAGGCTTGTCGATTTATGATCACAGTCTCCAACACAGCTAGCGGACCTACGTTCCCAGTTGACA
1 AAAGGCTTGTCGATTTATGATCGCAGCCTCCAACACAGCTA-CGGACCTACGTTCCCAATTGATA
46746357 TTACA
65 TTA-A
* * * * * * * * **
46746362 GAA-GCTTG-CTGGTTTATGATTGTAGCATCCAACAGAACTTGCGGACCTACGTTCTTAATTGAT
1 AAAGGCTTGTC-GATTTATGATCGCAGCCTCCAACACAGC-TACGGACCTACGTTCCCAATTGAT
46746425 ATTATA
64 ATTA-A
* * * * * * * *
46746431 AAA-GCTAGTCGGTTTATGATCGCAGCCTCTAACGCAACTAGCGGACCTAAGTTTCCAGTTGATA
1 AAAGGCTTGTCGATTTATGATCGCAGCCTCCAACACAGCTA-CGGACCTACGTTCCCAATTGATA
*
46746495 TTAT
65 TTAA
* * * *
46746499 AAAGGCTTGTCGATTTATGATCGTAGCCTTCAA-AGCTGCTCACAGACCTACGTTCCCAATTGAT
1 AAAGGCTTGTCGATTTATGATCGCAGCCTCCAACA-CAGCT-ACGGACCTACGTTCCCAATTGAT
*
46746563 ATTAT
64 ATTAA
** * * * * * * *
46746568 AAAGGC-TCACTAGTTTATGATTGCAGCCTCCAACATATCTAGTGGACCTACGTTCCCAGTTAAT
1 AAAGGCTTGTCGA-TTTATGATCGCAGCCTCCAACACAGCTA-CGGACCTACGTTCCCAATTGAT
*
46746632 ATTAC
64 ATTAA
* * * * * * * * ** *
46746637 AAAGG-TTTTCCAGTTTATGATTGTAGCCTTCAACACCGCTCATGGACCTATGTTCCCAGCTAAT
1 AAAGGCTTGTCGA-TTTATGATCGCAGCCTCCAACACAGCT-ACGGACCTACGTTCCCAATTGAT
*
46746701 ATTAC
64 ATTAA
*** * * * * * ** *
46746706 AAAGGCTCACCAATTTATGATCACAGCCTCCAGCATAGCTAGCGGACTTACGTTCCCAGCTAATA
1 AAAGGCTTGTCGATTTATGATCGCAGCCTCCAACACAGCTA-CGGACCTACGTTCCCAATTGATA
46746771 TTACA
65 TTA-A
* * * * * * *
46746776 AAA-GCTTG-CCAGTTTAAGATCGTAGCCTCCAAAATAGCTCACAGACCTACGCTT-CCAACTGA
1 AAAGGCTTGTCGA-TTTATGATCGCAGCCTCCAACACAGCT-ACGGACCTACG-TTCCCAATTGA
46746838 TATTATA
63 TATTA-A
46746845 AAAGG
1 AAAGG
46746850 TTTTTGATTT
Statistics
Matches: 641, Mismatches: 166, Indels: 53
0.75 0.19 0.06
Matches are distributed among these distances:
68 15 0.02
69 604 0.94
70 20 0.03
71 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.28
Consensus pattern (68 bp):
AAAGGCTTGTCGATTTATGATCGCAGCCTCCAACACAGCTACGGACCTACGTTCCCAATTGATAT
TAA
Found at i:46746860 original size:138 final size:139
Alignment explanation
Indices: 46746027--46746849 Score: 517
Period size: 138 Copynumber: 6.0 Consensus size: 139
46746017 AAGGCTTGTT
** * * * *
46746027 GATTTATGATTGCAGCCTCCAACACAGCTCA-CGGACCTACGTTCCCAATTGATATTACAAAGGC
1 GATTTATGATCACAGCCTCCAACATAGCT-AGCGGACCTACGTTCCCAGTTAATATTACAAAAGC
* * * ** * * * * * *
46746091 TCGACGGTTTATGATCACAACCTCCAACAA-AGCTAACATACCTATGTTCCTAGCTGATATTA-A
65 TTGCCAGTTTATGATCGTAGCCTCCAA-AATAGCTCACAGACCTACGTTCCCAACTGATATTATA
*
46746154 AAAGGCTTACC
129 AAAGGCTCACC
** * * ** ** ** * *
46746165 -AGTTTATGATCGTAGCCTCTAACATAACTCA-CGGACCTTTGTTCCCAACTGGTAATACAAAGG
1 GA-TTTATGATCACAGCCTCCAACATAGCT-AGCGGACCTACGTTCCCAGTTAATATTACAAAAG
* * * * * * * * * *
46746228 CGTACTAGTTTATGATTGCAACATCCAACATAGCT-AGC-GAACCTACGTTCCCAGCTGGTATTA
64 CTTGCCAGTTTATGATCGTAGCCTCCAAAATAGCTCA-CAG-ACCTACGTTCCCAACTGATATTA
* ***
46746291 -CAAAGGCTTGTC
127 TAAAAGGCTCACC
* * * * *
46746303 GATTTATGATCACAGTCTCCAACACAGCTAGCGGACCTACGTTCCCAGTTGACATTACAGAAGCT
1 GATTTATGATCACAGCCTCCAACATAGCTAGCGGACCTACGTTCCCAGTTAATATTACAAAAGCT
** * * * * * ** * ** *
46746368 TGCTGGTTTATGATTGTAGCATCCAACAGAACTTGCGGACCTACGTTCTTAATTGATATTATAAA
66 TGCCAGTTTATGATCGTAGCCTCCAAAATAGCTCACAGACCTACGTTCCCAACTGATATTATAAA
*
46746433 A-GCT-AGTC
131 AGGCTCA-CC
* * * ** * * * * * *
46746441 GGTTTATGATCGCAGCCTCTAACGCAACTAGCGGACCTAAGTTTCCAGTTGATATTATAAAGGCT
1 GATTTATGATCACAGCCTCCAACATAGCTAGCGGACCTACGTTCCCAGTTAATATTACAAAAGCT
* * * *
46746506 TGTC-GATTTATGATCGTAGCCTTCAAAGCT-GCTCACAGACCTACGTTCCCAATTGATATTAT-
66 TGCCAG-TTTATGATCGTAGCCTCCAAA-ATAGCTCACAGACCTACGTTCCCAACTGATATTATA
46746568 AAAGGCTCA-C
129 AAAGGCTCACC
* ** * * * *
46746578 TAGTTTATGATTGCAGCCTCCAACATATCTAGTGGACCTACGTTCCCAGTTAATATTACAAAGGT
1 GA-TTTATGATCACAGCCTCCAACATAGCTAGCGGACCTACGTTCCCAGTTAATATTACAAAAGC
* * * * ** ** * * * *
46746643 TTTCCAGTTTATGATTGTAGCCTTCAACACCGCTCATGGACCTATGTTCCCAGCTAATATTA-CA
65 TTGCCAGTTTATGATCGTAGCCTCCAAAATAGCTCACAGACCTACGTTCCCAACTGATATTATAA
46746707 AAGGCTCACC
130 AAGGCTCACC
* * * *
46746717 AATTTATGATCACAGCCTCCAGCATAGCTAGCGGACTTACGTTCCCAGCTAATATTACAAAAGCT
1 GATTTATGATCACAGCCTCCAACATAGCTAGCGGACCTACGTTCCCAGTTAATATTACAAAAGCT
*
46746782 TGCCAGTTTAAGATCGTAGCCTCCAAAATAGCTCACAGACCTACGCTT-CCAACTGATATTATAA
66 TGCCAGTTTATGATCGTAGCCTCCAAAATAGCTCACAGACCTACG-TTCCCAACTGATATTATAA
46746846 AAGG
130 AAGG
46746850 TTTTTGATTT
Statistics
Matches: 533, Mismatches: 131, Indels: 41
0.76 0.19 0.06
Matches are distributed among these distances:
137 9 0.02
138 508 0.95
139 16 0.03
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.29
Consensus pattern (139 bp):
GATTTATGATCACAGCCTCCAACATAGCTAGCGGACCTACGTTCCCAGTTAATATTACAAAAGCT
TGCCAGTTTATGATCGTAGCCTCCAAAATAGCTCACAGACCTACGTTCCCAACTGATATTATAAA
AGGCTCACC
Found at i:46747001 original size:105 final size:105
Alignment explanation
Indices: 46746819--46747018 Score: 287
Period size: 105 Copynumber: 1.9 Consensus size: 105
46746809 ATAGCTCACA
* ** *
46746819 GACCTACGCTTCCAACTGATATTATAAAAGGTTTTTGATTTAAAATCGCAACCTCTAGATATTTG
1 GACCTACGCTTCCAACTGATATTATAAAAGGCTTTCCATTTAAAATCGCAACCTCTAGATATTTA
* *
46746884 AGTTAGTTAAGTTAAGCTCGCAACTCTGAAACAACTTGTG
66 AGTTAGCTAAGTTAAGCTCACAACTCTGAAACAACTTGTG
* * *
46746924 GACCTACGC-TCCTAGCTGATATTAT-AAAGGCTTTCCAGTTTAAAATTGCAGCCTCTAGATATT
1 GACCTACGCTTCC-AACTGATATTATAAAAGGCTTTCCA-TTTAAAATCGCAACCTCTAGATATT
46746987 TAAGTTAGCTAAGTTAAGCTCACAACTCTGAA
64 TAAGTTAGCTAAGTTAAGCTCACAACTCTGAA
46747019 CAATAAGCGG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
104 12 0.14
105 72 0.86
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (105 bp):
GACCTACGCTTCCAACTGATATTATAAAAGGCTTTCCATTTAAAATCGCAACCTCTAGATATTTA
AGTTAGCTAAGTTAAGCTCACAACTCTGAAACAACTTGTG
Found at i:46756460 original size:42 final size:43
Alignment explanation
Indices: 46756392--46756479 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 43
46756382 GTTTTTATCA
* *
46756392 TTGAAAAAATAATTTAAAAAGAGGAGAAGATA-ATCTTGGGTTG
1 TTGAAAAAAGAAATTAAAAAGAGGAGAAGATATA-CTTGGGTTG
46756435 TTGAAAAAAGAAATTAAAAA-AGGAGAAGATATACTTGGGTTG
1 TTGAAAAAAGAAATTAAAAAGAGGAGAAGATATACTTGGGTTG
46756477 TTG
1 TTG
46756480 GATTTACCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
42 23 0.55
43 19 0.45
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (43 bp):
TTGAAAAAAGAAATTAAAAAGAGGAGAAGATATACTTGGGTTG
Found at i:46757684 original size:15 final size:15
Alignment explanation
Indices: 46757664--46757696 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
46757654 ACTTAGTTTT
*
46757664 CTTAGTTGTATTTAA
1 CTTAGTTATATTTAA
46757679 CTTAGTTATATTTAA
1 CTTAGTTATATTTAA
46757694 CTT
1 CTT
46757697 TTACAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.55
Consensus pattern (15 bp):
CTTAGTTATATTTAA
Found at i:46770716 original size:37 final size:37
Alignment explanation
Indices: 46770639--46770765 Score: 141
Period size: 37 Copynumber: 3.5 Consensus size: 37
46770629 AGTACACAAG
* * * * *
46770639 TAATCCAACCGA-AACATGCCAATCGCTCATAATAGT
1 TAATCCAACCGATAACATCCCAAACACTCATAAGAGC
* *
46770675 TAATCCACCCGATAACATCCCAAACACTTATAAGAGC
1 TAATCCAACCGATAACATCCCAAACACTCATAAGAGC
* *
46770712 TAATCCAACCGATAACA-CACCAAACTCTCATAAGATC
1 TAATCCAACCGATAACATC-CCAAACACTCATAAGAGC
*
46770749 TAATCCAACCAATAACA
1 TAATCCAACCGATAACA
46770766 CGCCACGACA
Statistics
Matches: 77, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
36 12 0.16
37 65 0.84
ACGTcount: A:0.43, C:0.31, G:0.07, T:0.20
Consensus pattern (37 bp):
TAATCCAACCGATAACATCCCAAACACTCATAAGAGC
Found at i:46771963 original size:57 final size:56
Alignment explanation
Indices: 46771852--46772027 Score: 271
Period size: 57 Copynumber: 3.1 Consensus size: 56
46771842 ATAGAAATAG
*
46771852 TGAAAATGAAGAAATGGGAAACATTTGGAAATGAACTGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATG-AGAAAT-GAAAACATTTGGAAATGAA-TGTGGTTTTCTCCAAAATGAAAA
*
46771911 TGAAAATAGAGAAATGAAAACATTTGGAAATGAATTTGGTTTTCTCCAAAATGAAAA
1 TGAAAAT-GAGAAATGAAAACATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
* *
46771968 TGAAAATGGAGAAATGAAAACATTTGGAAATGAATGTAGTTTTCTCAAAAATGAAAA
1 TGAAAAT-GAGAAATGAAAACATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
46772025 TGA
1 TGA
46772028 TCTGAAAATG
Statistics
Matches: 110, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
57 78 0.71
58 18 0.16
59 13 0.12
60 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (56 bp):
TGAAAATGAGAAATGAAAACATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
Found at i:46775483 original size:14 final size:14
Alignment explanation
Indices: 46775464--46775495 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
46775454 ACACTCTCAG
46775464 ATTTGGGGTGTGTT
1 ATTTGGGGTGTGTT
46775478 ATTTGGGGTGTGTT
1 ATTTGGGGTGTGTT
46775492 ATTT
1 ATTT
46775496 AGTGGTATCA
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:0.09, C:0.00, G:0.38, T:0.53
Consensus pattern (14 bp):
ATTTGGGGTGTGTT
Found at i:46776239 original size:29 final size:29
Alignment explanation
Indices: 46776197--46776252 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
46776187 ACACCTAAGC
*
46776197 AGAAACTGAAGGGTGTAGTTTCTTTGCGT
1 AGAAACTAAAGGGTGTAGTTTCTTTGCGT
46776226 AGAAACTAAAGGGTGTAGTTTCTTTGC
1 AGAAACTAAAGGGTGTAGTTTCTTTGC
46776253 TTCGCGACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.34
Consensus pattern (29 bp):
AGAAACTAAAGGGTGTAGTTTCTTTGCGT
Found at i:46777192 original size:25 final size:25
Alignment explanation
Indices: 46777164--46777213 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
46777154 AAAACTTGAG
*
46777164 GATTTTGGTTGAGAATACTTCTGGT
1 GATTTTGATTGAGAATACTTCTGGT
*
46777189 GATTTTGATTGAGAGTACTTCTGGT
1 GATTTTGATTGAGAATACTTCTGGT
46777214 TGATAGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.44
Consensus pattern (25 bp):
GATTTTGATTGAGAATACTTCTGGT
Found at i:46780896 original size:33 final size:33
Alignment explanation
Indices: 46780841--46780925 Score: 100
Period size: 33 Copynumber: 2.6 Consensus size: 33
46780831 TGGGCAAGGC
* *
46780841 CGTGT-GGGTCACACGAGCAAGGTCAATTTGGG
1 CGTGTGGGGCCACACGGGCAAGGTCAATTTGGG
* *
46780873 CGTGTGGGGCCACACGGGTAAGGTGAATTTGGG
1 CGTGTGGGGCCACACGGGCAAGGTCAATTTGGG
* * *
46780906 TGGGTGAGGCCACACGGGCA
1 CGTGTGGGGCCACACGGGCA
46780926 TGTAGGCCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 5 0.11
33 39 0.89
ACGTcount: A:0.20, C:0.19, G:0.42, T:0.19
Consensus pattern (33 bp):
CGTGTGGGGCCACACGGGCAAGGTCAATTTGGG
Found at i:46783034 original size:27 final size:27
Alignment explanation
Indices: 46783002--46783177 Score: 176
Period size: 27 Copynumber: 6.5 Consensus size: 27
46782992 CCCCAAAATA
46783002 GGTAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGACTAAAATACCCCCATAG
* * * *
46783029 TGTAAAAT-AATCGAAATACCTCCATAG
1 GGTAAAATGACT-AAAATACCCCCATAG
* *
46783056 GGTAAAAT-AATCGAAATACCCCCATAG
1 GGTAAAATGACT-AAAATACCCCCATAG
* **
46783083 GGTAAAATGACCAAAATACCCTGATAG
1 GGTAAAATGACTAAAATACCCCCATAG
* * *
46783110 GGTAGAGTGACCAAAATACCCCCCATAG
1 GGTAAAATGACTAAAATA-CCCCCATAG
* *
46783138 GGTAAAATAACCAAAATACCCCCATAG
1 GGTAAAATGACTAAAATACCCCCATAG
*
46783165 GATAAAATGACTA
1 GGTAAAATGACTA
46783178 TTATACCGCT
Statistics
Matches: 125, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.02
27 100 0.80
28 23 0.18
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCCCATAG
Found at i:46783184 original size:55 final size:54
Alignment explanation
Indices: 46783002--46783177 Score: 210
Period size: 54 Copynumber: 3.2 Consensus size: 54
46782992 CCCCAAAATA
* * * *
46783002 GGTAAAATGACTAAAATACCCCCATAGTGTAAAATAATCGAAATACCTCCATAG
1 GGTAAAATGACTAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAG
* * * **
46783056 GGTAAAAT-AATCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCTGATAG
1 GGTAAAATGACT-AAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAG
* * *
46783110 GGTAGAGTGACCAAAATACCCCCCATAGGGTAAAATAACCAAAATACCCCCATAG
1 GGTAAAATGACTAAAATA-CCCCCATAGGGTAAAATAACCAAAATACCCCCATAG
*
46783165 GATAAAATGACTA
1 GGTAAAATGACTA
46783178 TTATACCGCT
Statistics
Matches: 98, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
53 2 0.02
54 53 0.54
55 43 0.44
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (54 bp):
GGTAAAATGACTAAAATACCCCCATAGGGTAAAATAACCAAAATACCCCCATAG
Found at i:46783607 original size:29 final size:31
Alignment explanation
Indices: 46783560--46783617 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
46783550 AGGATTTCTA
46783560 ACTGCATATCTGCACTGATTAATGATATTGT
1 ACTGCATATCTGCACTGATTAATGATATTGT
*
46783591 ACTGC-TA-CTGCATTGATTAATGATATT
1 ACTGCATATCTGCACTGATTAATGATATT
46783618 ACATACTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 19 0.73
30 2 0.08
31 5 0.19
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (31 bp):
ACTGCATATCTGCACTGATTAATGATATTGT
Found at i:46783624 original size:25 final size:27
Alignment explanation
Indices: 46783564--46783625 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
46783554 TTTCTAACTG
46783564 CATATCTGCACTGATTAATGATATTGTA
1 CATA-CTGCACTGATTAATGATATTGTA
* *
46783592 CTGCTACTGCATTGATTAATGATA-T-TA
1 C--ATACTGCACTGATTAATGATATTGTA
46783619 CATACTG
1 CATACTG
46783626 TTCACCGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
25 5 0.17
27 3 0.10
28 2 0.07
29 17 0.59
30 2 0.07
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (27 bp):
CATACTGCACTGATTAATGATATTGTA
Found at i:46783693 original size:33 final size:35
Alignment explanation
Indices: 46783637--46783703 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 35
46783627 TCACCGCATG
* **
46783637 ACTGATATCTGTTACTGTTATT-GGCCAAGGCCTC
1 ACTGATATCTATTACTGAAATTGGGCCAAGGCCTC
*
46783671 ACTGAT-TCTATTACTGAAATTGGGCTAAGGCCT
1 ACTGATATCTATTACTGAAATTGGGCCAAGGCCT
46783704 ACATCGTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (35 bp):
ACTGATATCTATTACTGAAATTGGGCCAAGGCCTC
Found at i:46789778 original size:17 final size:16
Alignment explanation
Indices: 46789752--46789790 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
46789742 AAATAAAAAC
*
46789752 TAAAAATGAAATAGAA
1 TAAAAATGAAACAGAA
46789768 TAAAGAATGAAACAGAA
1 TAAA-AATGAAACAGAA
46789785 -AAAAAT
1 TAAAAAT
46789791 TTTAATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 7 0.33
17 11 0.52
ACGTcount: A:0.69, C:0.03, G:0.13, T:0.15
Consensus pattern (16 bp):
TAAAAATGAAACAGAA
Found at i:46794670 original size:18 final size:17
Alignment explanation
Indices: 46794656--46794691 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
46794646 TTGATGAGAT
46794656 AAAAATAAATAATGAAA
1 AAAAATAAATAATGAAA
46794673 AAGAAATAAATAA-GAAA
1 AA-AAATAAATAATGAAA
46794690 AA
1 AA
46794692 TAATCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (17 bp):
AAAAATAAATAATGAAA
Found at i:46807162 original size:16 final size:16
Alignment explanation
Indices: 46807141--46807174 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
46807131 GTCTAAGGTT
46807141 CAAGTATTAATGTTCA
1 CAAGTATTAATGTTCA
46807157 CAAGTATTAATGTTCA
1 CAAGTATTAATGTTCA
46807173 CA
1 CA
46807175 CTTTTCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (16 bp):
CAAGTATTAATGTTCA
Found at i:46809846 original size:21 final size:21
Alignment explanation
Indices: 46809822--46809861 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
46809812 TTATATATAA
*
46809822 TAATAATACTAATAAAAATTG
1 TAATAATAATAATAAAAATTG
*
46809843 TAATAATAATAATGAAAAT
1 TAATAATAATAATAAAAAT
46809862 ATTAAACTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (21 bp):
TAATAATAATAATAAAAATTG
Found at i:46811087 original size:6 final size:6
Alignment explanation
Indices: 46811076--46811120 Score: 81
Period size: 6 Copynumber: 7.3 Consensus size: 6
46811066 ATAATTGATG
46811076 TGATTA TGATTA TGATTA TGATTA TGATTA TGATTA TGATGTA TG
1 TGATTA TGATTA TGATTA TGATTA TGATTA TGATTA TGAT-TA TG
46811121 TGTAAATCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 34 0.89
7 4 0.11
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (6 bp):
TGATTA
Found at i:46811912 original size:7 final size:7
Alignment explanation
Indices: 46811900--46811931 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
46811890 TGGGATTTTC
46811900 TTTTGGA
1 TTTTGGA
*
46811907 TTTTGGG
1 TTTTGGA
46811914 TTTTGGA
1 TTTTGGA
46811921 TTTTGGA
1 TTTTGGA
46811928 TTTT
1 TTTT
46811932 TCTATGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.28, T:0.62
Consensus pattern (7 bp):
TTTTGGA
Found at i:46814242 original size:20 final size:19
Alignment explanation
Indices: 46814214--46814251 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
46814204 AATCCTAATT
*
46814214 AAACTAAATAAAAATAAAAA
1 AAACAAAAT-AAAATAAAAA
46814234 AAACAAAATAAAATAAAA
1 AAACAAAATAAAATAAAA
46814252 TAATTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.13
Consensus pattern (19 bp):
AAACAAAATAAAATAAAAA
Found at i:46823987 original size:21 final size:19
Alignment explanation
Indices: 46823945--46823987 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
46823935 ATTAATTTTA
*
46823945 ATATTATTTAAATACATAT
1 ATATTATTTAAACACATAT
*
46823964 ATATTACTTTATAACACATCT
1 ATATTA-TTTA-AACACATAT
46823985 ATA
1 ATA
46823988 AAATATATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 4 0.20
21 10 0.50
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTATTTAAACACATAT
Found at i:46825124 original size:69 final size:69
Alignment explanation
Indices: 46825013--46825143 Score: 192
Period size: 69 Copynumber: 1.9 Consensus size: 69
46825003 CCGGTGGTCA
* * * *
46825013 GGAGACTGAAGTTGAACCTCCTCCGGGGTTTCCAGATAAGCGGCGAGGGAG-TGAAAGAAATGAT
1 GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGG-GCTCAAAGAAATGAT
46825077 GGACG
65 GGACG
* *
46825082 GGAGAGTGAAGTTAAAGCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATG
1 GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATG
46825144 GAGGTACTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 54 0.98
ACGTcount: A:0.31, C:0.18, G:0.35, T:0.17
Consensus pattern (69 bp):
GGAGACTGAAGTTAAACCTCCTCCAGGGTTTCCAGAAAAGCGGCGAGGGGCTCAAAGAAATGATG
GACG
Found at i:46827011 original size:58 final size:58
Alignment explanation
Indices: 46826949--46827065 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
46826939 ACCGTTAATA
* **
46826949 ATGCCACATTTTCATTGATTGATTATGTGATATAATAAATCTGAACAAATGGTTGATT
1 ATGCCACATTTTCATTGATTGATGACATGATATAATAAATCTGAACAAATGGTTGATT
46827007 ATGCCACATTTTCATTGATTGATGACATGATATAATAAATCTGAACAAATGGTTGATT
1 ATGCCACATTTTCATTGATTGATGACATGATATAATAAATCTGAACAAATGGTTGATT
46827065 A
1 A
46827066 GGTTGATTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (58 bp):
ATGCCACATTTTCATTGATTGATGACATGATATAATAAATCTGAACAAATGGTTGATT
Found at i:46838833 original size:45 final size:44
Alignment explanation
Indices: 46838810--46838968 Score: 176
Period size: 45 Copynumber: 3.5 Consensus size: 44
46838800 CCGAAGTAAT
*
46838810 GCCATAATATCTTTCAACTATGGTCTTATTCGTATTAGATTTAAA
1 GCCATAATATCTTTCAACTATGGTCTTATT-GCATTAGATTTAAA
* * *
46838855 GCCATAATATCTTTCAACTAAGGTCTTATTTGTATTAGATCTAAA
1 GCCATAATATCTTTCAACTATGGTCTTA-TTGCATTAGATTTAAA
* ** * **
46838900 GCCATAATATCTTTCAATTATGGTCTTA-CACATTGCCGATTTAGT
1 GCCATAATATCTTTCAACTATGGTCTTATTGCATT--AGATTTAAA
*
46838945 GCCATAGTATCTTTCAACTATGGT
1 GCCATAATATCTTTCAACTATGGT
46838969 ATTTTTAATT
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
43 3 0.03
45 93 0.95
46 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.40
Consensus pattern (44 bp):
GCCATAATATCTTTCAACTATGGTCTTATTGCATTAGATTTAAA
Found at i:46852365 original size:40 final size:40
Alignment explanation
Indices: 46852306--46852386 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
46852296 ACTTGAAACG
*
46852306 ATACACATGTCCAATATGCTCGAGGCCTGCTCAGAGTGTC
1 ATACACATGTCCAACATGCTCGAGGCCTGCTCAGAGTGTC
46852346 ATACACATGTCCAACATGCTCGAGGCCTGCTCAGAGTGTC
1 ATACACATGTCCAACATGCTCGAGGCCTGCTCAGAGTGTC
46852386 A
1 A
46852387 GTCCTATGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
ATACACATGTCCAACATGCTCGAGGCCTGCTCAGAGTGTC
Found at i:46856019 original size:24 final size:22
Alignment explanation
Indices: 46855979--46856044 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 22
46855969 AAAACTATGT
*
46855979 TAAATTTAAATAGTAATACATA
1 TAAATTTAAATAATAATACATA
46856001 GTAAATTTCAAATAATAATACATA
1 -TAAATTT-AAATAATAATACATA
*
46856025 TAAAACTTAAAATAATAATA
1 T-AAA-TTTAAATAATAATA
46856045 AAAGAAACTC
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 8 0.21
24 28 0.74
25 2 0.05
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (22 bp):
TAAATTTAAATAATAATACATA
Found at i:46865417 original size:70 final size:70
Alignment explanation
Indices: 46865141--46865445 Score: 211
Period size: 70 Copynumber: 4.3 Consensus size: 70
46865131 CCTCCCTTAA
* ** * *
46865141 AAAACAGTTAGAGAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTTGCAGGTTTAATAC-TCTA
1 AAAACAATTAGAGAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTCACAGGTTCAATACAGC-A
46865205 GCCTCT
65 GCCTCT
* * * * * * * ** * * *
46865211 AAAATAGTTAGTGATAGCTAAGGCTTCCAGTTGTTTTCTTAGGGCTCACAGGTTCAATACCGTAG
1 AAAACAATTAGAGAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTCACAGGTTCAATACAGCAG
* *
46865276 CCCCA
66 CCTCT
* * * * * * * *
46865281 AAAATACA-TAGAGAGAGCTAAGGCTCCCAACTAAGATCTTAAGGTTCATAGATTCAATATAACA
1 AAAACA-ATTAGAGAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTCACAGGTTCAATACAGCA
46865345 GCCTCT
65 GCCTCT
* * * * * * * *
46865351 AAAACAATTAGTGGGAGCTAAGGTTCCTAGTTGTGATCTTAAGGCTCGCAGGTTTAATACAGCAG
1 AAAACAATTAGAGAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTCACAGGTTCAATACAGCAG
46865416 CC-CTT
66 CCTC-T
* *
46865421 AAAAAATAGTTAAAGAGAGCTAAGG
1 AAAACA-A-TTAGAGAGAGCTAAGG
46865446 TTCGTAGGTT
Statistics
Matches: 173, Mismatches: 56, Indels: 10
0.72 0.23 0.04
Matches are distributed among these distances:
69 2 0.01
70 157 0.91
71 1 0.01
72 13 0.08
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (70 bp):
AAAACAATTAGAGAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTCACAGGTTCAATACAGCAG
CCTCT
Found at i:46865418 original size:140 final size:141
Alignment explanation
Indices: 46865149--46865445 Score: 327
Period size: 140 Copynumber: 2.1 Consensus size: 141
46865139 AAAAAACAGT
* * * *
46865149 TAGAGAGAGCTAAGGCTCCCAGCTATGATCTTAAGGCTTGCAGGTTTAATACTCTAGCCTCTAAA
1 TAGAGAGAGCTAAGGCTCCCAACTAAGATCTTAAGGCTTGCAGATTCAATACTCTAGCCTCTAAA
* * * ** * * *
46865214 ATAGTTAGTGATAGCTAAGGCTTCCAGTTGTTTTCTTAGGGCTCACAGGTTCAATACCGTAGCCC
66 ACAATTAGTGAGAGCTAAGGCTTCCAGTTGTGATCTTAAGGCTCACAGGTTCAATACAGCAGCCC
*
46865279 -CAAAAATACA
131 TAAAAAATACA
46865289 TAGAGAGAGCTAAGGCTCCCAACTAAGATCTTAAGG-TT-CATAGATTCAATA-TAAC-AGCCTC
1 TAGAGAGAGCTAAGGCTCCCAACTAAGATCTTAAGGCTTGC--AGATTCAATACT--CTAGCCTC
* * *
46865350 TAAAACAATTAGTGGGAGCTAAGG-TTCCTAGTTGTGATCTTAAGGCTCGCAGGTTTAATACAGC
62 TAAAACAATTAGTGAGAGCTAAGGCTTCC-AGTTGTGATCTTAAGGCTCACAGGTTCAATACAGC
**
46865414 AGCCCTTAAAAAATAGT
126 AGCCC-TAAAAAATACA
*
46865431 TAAAGAGAGCTAAGG
1 TAGAGAGAGCTAAGG
46865446 TTCGTAGGTT
Statistics
Matches: 131, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
138 1 0.01
139 7 0.05
140 101 0.77
141 1 0.01
142 21 0.16
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (141 bp):
TAGAGAGAGCTAAGGCTCCCAACTAAGATCTTAAGGCTTGCAGATTCAATACTCTAGCCTCTAAA
ACAATTAGTGAGAGCTAAGGCTTCCAGTTGTGATCTTAAGGCTCACAGGTTCAATACAGCAGCCC
TAAAAAATACA
Found at i:46865545 original size:121 final size:121
Alignment explanation
Indices: 46865320--46865538 Score: 294
Period size: 121 Copynumber: 1.8 Consensus size: 121
46865310 ACTAAGATCT
* * * * * * ** *
46865320 TAAGGTTCATAGATTCAATATAACAGCCTCTAAAACAATTAGTGGGAGCTAAGGTTCCTAGTTGT
1 TAAGGTTCATAGATTCAATACAACAACCTCTAAAACAATTAGCGAGAGCTAAGGCTCCCAACTAT
*
46865385 GATCTTAAGGCTCGCAGGTTTAATACAGCAGCCCTTAAAAAATAGTTAAAGAGAGC
66 GATCTTAAGGCTCGCAGGTTCAATACAGCAGCCCTTAAAAAATAGTTAAAGAGAGC
* * * * *
46865441 TAAGGTTCGTAGGTTCAATACCACAACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAACTAT
1 TAAGGTTCATAGATTCAATACAACAACCTCTAAAACAATTAGCGAGAGCTAAGGCTCCCAACTAT
*
46865506 GATCTTAAGGCTCGCAGGTTCAATACCGCAGCC
66 GATCTTAAGGCTCGCAGGTTCAATACAGCAGCC
46865539 TCTAAAATAG
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
121 82 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (121 bp):
TAAGGTTCATAGATTCAATACAACAACCTCTAAAACAATTAGCGAGAGCTAAGGCTCCCAACTAT
GATCTTAAGGCTCGCAGGTTCAATACAGCAGCCCTTAAAAAATAGTTAAAGAGAGC
Found at i:46865554 original size:70 final size:70
Alignment explanation
Indices: 46865441--46865905 Score: 414
Period size: 70 Copynumber: 6.7 Consensus size: 70
46865431 TAAAGAGAGC
* * * *
46865441 TAAGGTTCGTAGGTTCAATACCACAACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAACTAT
1 TAAGGCTCGCAGGTTCAATACCGCAACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAATTAT
46865506 GATCT
66 GATCT
* * **
46865511 TAAGGCTCGCAGGTTCAATACCGCAGCCTCTAAAATAGTTAGCGAGAGTTAAGGCTCCCCGTTAT
1 TAAGGCTCGCAGGTTCAATACCGCAACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAATTAT
46865576 GATCT
66 GATCT
* * * * * * * *
46865581 TAGGGCTCACAAGTTC---A--G-TACCTCT-AAATAGTTAGTGAGAGCTAAGTCT-CTAAGCTA
1 TAAGGCTCGCAGGTTCAATACCGCAACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAA-TTA
*
46865638 TGATCG
65 TGATCT
* * ** *
46865644 TAGGGCTTGCAGGTTCAATACAACAGA-CTCTAAAATAGTTAGCGAGAGCTAAGGCTCCTAGA-T
1 TAAGGCTCGCAGGTTCAATACCGCA-ACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCA-ATT
46865707 ATGATCT
64 ATGATCT
* * ** *
46865714 TAGGGCTCGCAGGTTCAATACCGCAACCTCT-AAATACTTAGAAAGAGCTAAGGCTCCCAATTGT
1 TAAGGCTCGCAGGTTCAATACCGCAACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAATTAT
*
46865778 GACCT
66 GATCT
* * * * * * * *
46865783 TAAGACTCGTAGGTTCAATATCGCAGCCCCTAAAAAGAGTTGGAGAGAGAGCTAAGGCTCCCAGT
1 TAAGGCTCGCAGGTTCAATACCGCAACCTCT-AAAATAGTT--AGCGAGAGCTAAGGCTCCCAAT
*
46865848 TGTGATCT
63 TATGATCT
* * * *
46865856 TAAGGCTTGCAGGTTTAATATCGCAACCTCT-AAATCAATTAGCGAGAGCT
1 TAAGGCTCGCAGGTTCAATACCGCAACCTCTAAAAT-AGTTAGCGAGAGCT
46865906 CAAGCTGCTA
Statistics
Matches: 319, Mismatches: 58, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.00
63 41 0.13
64 5 0.02
65 1 0.00
66 1 0.00
67 1 0.00
68 1 0.00
69 60 0.19
70 140 0.44
71 12 0.04
72 4 0.01
73 52 0.16
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.26
Consensus pattern (70 bp):
TAAGGCTCGCAGGTTCAATACCGCAACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAATTAT
GATCT
Found at i:46865711 original size:133 final size:134
Alignment explanation
Indices: 46865466--46865735 Score: 373
Period size: 133 Copynumber: 2.0 Consensus size: 134
46865456 CAATACCACA
*
46865466 ACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAACTATGATCTTAAGGCTCGCAGGTTCAATA
1 ACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAACTATGATCGTAAGGCTCGCAGGTTCAATA
** * * * *
46865531 CCGCAGCCTCTAAAATAGTTAGCGAGAGTTAAGGCTCCCCGTTATGATCTTAGGGCTCACAAGTT
66 CAACAGACTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAGATATGATCTTAGGGCTCACAAGTT
*
46865596 CAGT
131 CAAT
* * * * *
46865600 ACCTCT-AAATAGTTAGTGAGAGCTAAGTCT-CTAAGCTATGATCGTAGGGCTTGCAGGTTCAAT
1 ACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAA-CTATGATCGTAAGGCTCGCAGGTTCAAT
* * *
46865663 ACAACAGACTCTAAAATAGTTAGCGAGAGCTAAGGCTCCTAGATATGATCTTAGGGCTCGCAGGT
65 ACAACAGACTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAGATATGATCTTAGGGCTCACAAGT
46865728 TCAAT
130 TCAAT
46865733 ACC
1 ACC
46865736 GCAACCTCTA
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
132 3 0.03
133 110 0.92
134 6 0.05
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (134 bp):
ACCTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAACTATGATCGTAAGGCTCGCAGGTTCAATA
CAACAGACTCTAAAATAGTTAGCGAGAGCTAAGGCTCCCAGATATGATCTTAGGGCTCACAAGTT
CAAT
Found at i:46869317 original size:301 final size:300
Alignment explanation
Indices: 46868749--46869329 Score: 718
Period size: 301 Copynumber: 1.9 Consensus size: 300
46868739 CTATATGTGG
* * * * * * * *
46868749 TGAAGTTGGCATAAGGTCATAATAAACACTGCGTATTCTGCAGGTTGTAATAAACGCGAATTGGT
1 TGAAGCTGACATAAGGTCACAATAAACACTGCATATTCTACAGGCTGTAATAAACGCAAATTGAT
* * *
46868814 AGCCCCAAAGAGTGCCACTTTATAACCCTCCTTAGGCCTACTAGGGGGACTAGATTGTCATACAG
66 AGCCCCAAAGAGCGCCACTATATAACCCTCCTTAGGCCCACTAGGGGGACTAGATTGTCATACAG
* * * * * *
46868879 TAATAGTCACTGACCTGAAACCCAAATATGCTTCGGGTCGCCGACCTGCGACCTAGCTAGACCCT
131 TAATAGTCACTAACCTAAAACCCAAATAAGCTTCGGGTCACCGACCTGCGACCTAGCCAGACCCC
* * * * * *
46868944 ACTAGATGGATGCACACAAGACGTACAGCGAGAGGACAGTGAGGGGAGCTTGCGATATCAGCTCA
196 ACCAAATGGATGCACACAAGACGTACAACAAGAAGACAGTGAGGGGAGCTCGCGATATCAGCTCA
*
46869009 TAGGAGTTGAAGGGAGCTCGTGATATCAACCCACAAGACC
261 CAGGAGTTGAAGGGAGCTCGTGATATCAACCCACAAGACC
*
46869049 TGAAGCTGACATAAGGTCACAATAGACACTGCATATTCTACAGGCTGTAATAAACGCAAAGTT-A
1 TGAAGCTGACATAAGGTCACAATAAACACTGCATATTCTACAGGCTGTAATAAACGCAAA-TTGA
* * * *
46869113 TGGCCCTAAGGAGCGCCACTATATAGCCCTCCTTAGGCCCACTAGGGGGGACTAGATTGTCATAC
65 TAGCCCCAAAGAGCGCCACTATATAACCCTCCTTAGGCCCACTA-GGGGGACTAGATTGTCATAC
* * * * * *
46869178 AGTAATAGTTACTAACCTAAAACCTAGATAAGCTTCGGGTCACCGACCCT-CGACTTGGCCATAC
129 AGTAATAGTCACTAACCTAAAACCCAAATAAGCTTCGGGTCACCGA-CCTGCGACCTAGCCAGAC
* * * * * *
46869242 CCCACCAAATGGGTGCACACGAGACGTACAACAAGAATACAGTTAGGGGAGCTCGCGGTA-CTGG
193 CCCACCAAATGGATGCACACAAGACGTACAACAAGAAGACAGTGAGGGGAGCTCGCGATATC-AG
* *
46869306 CTCGCAGGAGTTGATGGGAGCTCG
257 CTCACAGGAGTTGAAGGGAGCTCG
46869330 CAGTATCAGC
Statistics
Matches: 234, Mismatches: 43, Indels: 7
0.82 0.15 0.02
Matches are distributed among these distances:
300 90 0.38
301 141 0.60
302 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (300 bp):
TGAAGCTGACATAAGGTCACAATAAACACTGCATATTCTACAGGCTGTAATAAACGCAAATTGAT
AGCCCCAAAGAGCGCCACTATATAACCCTCCTTAGGCCCACTAGGGGGACTAGATTGTCATACAG
TAATAGTCACTAACCTAAAACCCAAATAAGCTTCGGGTCACCGACCTGCGACCTAGCCAGACCCC
ACCAAATGGATGCACACAAGACGTACAACAAGAAGACAGTGAGGGGAGCTCGCGATATCAGCTCA
CAGGAGTTGAAGGGAGCTCGTGATATCAACCCACAAGACC
Found at i:46869510 original size:20 final size:20
Alignment explanation
Indices: 46869481--46869530 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
46869471 TGTCAGCCCT
* * *
46869481 ATGAATAGTGGGGTTAAATC
1 ATGAACAGTGGAGTCAAATC
46869501 ATGAACAGTGGAGTCAAATC
1 ATGAACAGTGGAGTCAAATC
*
46869521 ATTAACAGTG
1 ATGAACAGTG
46869531 ATAATATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (20 bp):
ATGAACAGTGGAGTCAAATC
Found at i:46871508 original size:14 final size:14
Alignment explanation
Indices: 46871483--46871519 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
46871473 CTTTATTTAT
46871483 GTTTAT-TTTAATG
1 GTTTATGTTTAATG
46871496 GTTTATGTTTAATG
1 GTTTATGTTTAATG
46871510 GTTTATGTTT
1 GTTTATGTTT
46871520 TGTGGCGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 6 0.26
14 17 0.74
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.62
Consensus pattern (14 bp):
GTTTATGTTTAATG
Found at i:46873153 original size:21 final size:21
Alignment explanation
Indices: 46873094--46873281 Score: 128
Period size: 21 Copynumber: 9.0 Consensus size: 21
46873084 GCTCGAAAGC
* * *
46873094 TGAACAGAAGTTCATGAGAGC
1 TGAACAGAAGCTCATAAGAGT
* * * *
46873115 TAAACAGAAACCCATAAGGGT
1 TGAACAGAAGCTCATAAGAGT
* * *
46873136 TGAATAGAAGCTCGTAAGAGC
1 TGAACAGAAGCTCATAAGAGT
* *
46873157 TGAAC-GAAAACTCATATGAGT
1 TGAACAG-AAGCTCATAAGAGT
* *
46873178 TAAACAGAAGCTCATAAGAGC
1 TGAACAGAAGCTCATAAGAGT
*
46873199 TGAACAGAAACTCATAAGAGT
1 TGAACAGAAGCTCATAAGAGT
* **
46873220 TGAATAGAAGCTCGA-AAGACC
1 TGAACAGAAGCTC-ATAAGAGT
* * *
46873241 TGAACGGAAACTCATATGAGT
1 TGAACAGAAGCTCATAAGAGT
* * *
46873262 TAAATAGAAGCTCGTAAGAG
1 TGAACAGAAGCTCATAAGAG
46873282 CTAAACGGAA
Statistics
Matches: 121, Mismatches: 42, Indels: 8
0.71 0.25 0.05
Matches are distributed among these distances:
20 2 0.02
21 117 0.97
22 2 0.02
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (21 bp):
TGAACAGAAGCTCATAAGAGT
Found at i:46873244 original size:84 final size:84
Alignment explanation
Indices: 46873096--46873292 Score: 295
Period size: 84 Copynumber: 2.3 Consensus size: 84
46873086 TCGAAAGCTG
* * * * *
46873096 AACAGAAGTTCATGAGAGCTAAACAGAAACCCATAAGGGTTGAATAGAAGCTCGTAAGAGCTGAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAATAGAAGCTCGAAAGACCTGAA
46873161 CGAAAACTCATATGAGTTA
66 CGAAAACTCATATGAGTTA
* *
46873180 AACAGAAGCTCATAAGAGCTGAACAGAAACTCATAAGAGTTGAATAGAAGCTCGAAAGACCTGAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAATAGAAGCTCGAAAGACCTGAA
*
46873245 CGGAAACTCATATGAGTTA
66 CGAAAACTCATATGAGTTA
* * *
46873264 AATAGAAGCTCGTAAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
46873293 GTAAAACACG
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 101 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (84 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGAGTTGAATAGAAGCTCGAAAGACCTGAA
CGAAAACTCATATGAGTTA
Found at i:46873289 original size:42 final size:42
Alignment explanation
Indices: 46873110--46873292 Score: 231
Period size: 42 Copynumber: 4.4 Consensus size: 42
46873100 GAAGTTCATG
* * * * *
46873110 AGAGCTAAACAGAAACCCATAAGGGTTGAATAGAAGCTCGTA
1 AGAGCTGAACGGAAACTCATAAGAGTTAAATAGAAGCTCGTA
* * * *
46873152 AGAGCTGAACGAAAACTCATATGAGTTAAACAGAAGCTCATA
1 AGAGCTGAACGGAAACTCATAAGAGTTAAATAGAAGCTCGTA
* * *
46873194 AGAGCTGAACAGAAACTCATAAGAGTTGAATAGAAGCTCGAA
1 AGAGCTGAACGGAAACTCATAAGAGTTAAATAGAAGCTCGTA
* *
46873236 AGACCTGAACGGAAACTCATATGAGTTAAATAGAAGCTCGTA
1 AGAGCTGAACGGAAACTCATAAGAGTTAAATAGAAGCTCGTA
*
46873278 AGAGCTAAACGGAAA
1 AGAGCTGAACGGAAA
46873293 GTAAAACACG
Statistics
Matches: 118, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 118 1.00
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.17
Consensus pattern (42 bp):
AGAGCTGAACGGAAACTCATAAGAGTTAAATAGAAGCTCGTA
Found at i:46876478 original size:3 final size:3
Alignment explanation
Indices: 46876470--46876503 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
46876460 GCAGGGAGTC
46876470 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46876504 TGTTAGGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:46876775 original size:32 final size:32
Alignment explanation
Indices: 46876738--46876812 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 32
46876728 TGTCCAAGTT
* *
46876738 AGGCCTTGAACTTGGCAATTGTTCCCACATTG
1 AGGCCTTGAACTTGACAATTGTTCCCACATTA
* * *
46876770 GGGCC-TAAACTTGACAATTGTTTCCACATTA
1 AGGCCTTGAACTTGACAATTGTTCCCACATTA
46876801 AGG-CTTGAACTT
1 AGGCCTTGAACTT
46876813 TAGGGTTTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
30 1 0.03
31 30 0.86
32 4 0.11
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (32 bp):
AGGCCTTGAACTTGACAATTGTTCCCACATTA
Found at i:46876808 original size:90 final size:90
Alignment explanation
Indices: 46876631--46876809 Score: 225
Period size: 90 Copynumber: 2.0 Consensus size: 90
46876621 GGGTCTAAAT
* * * *
46876631 TTTTTTTTGTCCAAGTTAGGTCATAAACTTGGCAATTGTTTCCACAATGGAACCTAGACTTGGCA
1 TTTTTTTTGTCCAAGTTAGGCCATAAACTTGGCAATTGTTCCCACAATGGAACCTAAACTTGACA
* *
46876696 ACTTTTCCCATATTGAGACTTGAAG
66 ACTTTTCCCACATTAAGACTTGAAG
* * * **
46876721 TTTTTTTTGTCCAAGTTAGGCCTTGAACTTGGCAATTGTTCCCACATTGGGGCCTAAACTTGACA
1 TTTTTTTTGTCCAAGTTAGGCCATAAACTTGGCAATTGTTCCCACAATGGAACCTAAACTTGACA
* *
46876786 A-TTGTTTCCACATTAAGGCTTGAA
66 ACTT-TTCCCACATTAAGACTTGAA
46876810 CTTTAGGGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
89 2 0.03
90 73 0.97
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (90 bp):
TTTTTTTTGTCCAAGTTAGGCCATAAACTTGGCAATTGTTCCCACAATGGAACCTAAACTTGACA
ACTTTTCCCACATTAAGACTTGAAG
Found at i:46878254 original size:26 final size:24
Alignment explanation
Indices: 46878223--46878291 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
46878213 AGAGCTTCTC
*
46878223 AGATAACTTTGCCACTAAGGTTTTT
1 AGATAA-TTTGCCACTAAGGCTTTT
* * *
46878248 CGAATAATATGCCACATAAGCCTTTT
1 AG-ATAATTTGCCAC-TAAGGCTTTT
46878274 AGATAATTTGCCAC-AAGG
1 AGATAATTTGCCACTAAGG
46878292 GCTTCCTAGA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.09
25 19 0.54
26 13 0.37
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (24 bp):
AGATAATTTGCCACTAAGGCTTTT
Found at i:46878329 original size:76 final size:76
Alignment explanation
Indices: 46878198--46878446 Score: 284
Period size: 76 Copynumber: 3.3 Consensus size: 76
46878188 CAGACTTTCC
* * ** * *
46878198 AGATAACTCGCCACAAGAGCTT-CTCAGATAACTTTGCCACTAAGGTTTTTCGAATAATATGCCA
1 AGATAATTCGCCACAAGGGCTTCCT-AGATAACTTCACCAATAAGGTTTTTCGAATAATACGCCA
*
46878262 CATAAGCCTTTT
65 CATAGGCCTTTT
* * * * *
46878274 AGATAATTTGCCACAAGGGCTTCCTAGATAACTTCACTAATATGGTTTTTTGAATAATACACCAC
1 AGATAATTCGCCACAAGGGCTTCCTAGATAACTTCACCAATAAGGTTTTTCGAATAATACGCCAC
46878339 ATAGGCCTTTT
66 ATAGGCCTTTT
* * ** * * *
46878350 AGAGAATTCACCACAAGGGCTTCCTAGATAACTTTGCCACTAAGGTTTTTCAAATACTACGCCAC
1 AGATAATTCGCCACAAGGGCTTCCTAGATAACTTCACCAATAAGGTTTTTCGAATAATACGCCAC
*
46878415 ATAGGCCTTTC
66 ATAGGCCTTTT
* *
46878426 AGATAACTCGCCACAAAGGCT
1 AGATAATTCGCCACAAGGGCT
46878447 AGGTTTGGTT
Statistics
Matches: 143, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
76 141 0.99
77 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (76 bp):
AGATAATTCGCCACAAGGGCTTCCTAGATAACTTCACCAATAAGGTTTTTCGAATAATACGCCAC
ATAGGCCTTTT
Found at i:46878425 original size:25 final size:25
Alignment explanation
Indices: 46878397--46878445 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
46878387 CACTAAGGTT
*
46878397 TTTCAAAT-ACTACGCCACATAGGCC
1 TTTCAAATAACT-CGCCACAAAGGCC
*
46878422 TTTCAGATAACTCGCCACAAAGGC
1 TTTCAAATAACTCGCCACAAAGGC
46878446 TAGGTTTGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.33, C:0.31, G:0.14, T:0.22
Consensus pattern (25 bp):
TTTCAAATAACTCGCCACAAAGGCC
Found at i:46880977 original size:20 final size:23
Alignment explanation
Indices: 46880949--46880992 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
46880939 TAAGAAATGC
46880949 TTTGTAAA-G-CTTAGAAACACT
1 TTTGTAAAGGTCTTAGAAACACT
*
46880970 TTTG-AAAGGTCTTAGAGACACT
1 TTTGTAAAGGTCTTAGAAACACT
46880992 T
1 T
46880993 AAAAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 3 0.15
21 5 0.25
22 12 0.60
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (23 bp):
TTTGTAAAGGTCTTAGAAACACT
Found at i:46882857 original size:24 final size:24
Alignment explanation
Indices: 46882821--46882866 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
46882811 ATTTACCAAC
46882821 CATTTGAACCAAACATTAAGTTGA
1 CATTTGAACCAAACATTAAGTTGA
*
46882845 CATTTGAATCAAACATTAAGTT
1 CATTTGAACCAAACATTAAGTT
46882867 TTACTGTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (24 bp):
CATTTGAACCAAACATTAAGTTGA
Found at i:46891602 original size:27 final size:27
Alignment explanation
Indices: 46891572--46891749 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
46891562 ATATTGAGTC
* * * *
46891572 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
46891599 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46891626 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
46891654 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
46891681 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
46891708 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
46891735 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
46891750 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:46891711 original size:82 final size:81
Alignment explanation
Indices: 46891593--46891748 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
46891583 TGCTATATAA
* *
46891593 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
46891658 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
46891675 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
46891739 CACTTAGTGC
65 CACTTAGTGC
46891749 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:46907726 original size:9 final size:9
Alignment explanation
Indices: 46907709--46907754 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
46907699 TGAGTTTTCG
46907709 AATTCGAAT
1 AATTCGAAT
*
46907718 AACTCGAAT
1 AATTCGAAT
46907727 AATTCGAAT
1 AATTCGAAT
*
46907736 AATTTGAAT
1 AATTCGAAT
46907745 AATTCGAAT
1 AATTCGAAT
46907754 A
1 A
46907755 TCAAACTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (9 bp):
AATTCGAAT
Found at i:46909642 original size:80 final size:80
Alignment explanation
Indices: 46909492--46909643 Score: 225
Period size: 80 Copynumber: 1.9 Consensus size: 80
46909482 AGTCATGTTA
**
46909492 AAGAGGTGAAATCGACAAAGGAATGGGGAAGAAAATGAAGAACAATGGAAGGGGTTTGAAGAAAG
1 AAGAGGTGAAATCGACAAAGGAATGGGGAAGAAAATGAAGAACAATGGAAGGGGAATGAAGAAAG
*
46909557 GAAGTGATCTTTTTC
66 AAAGTGATCTTTTTC
* * * *
46909572 AAGAGGTGAAATTGGCAAGGGAATGGGGAAGAAAATGAAGAACAATGGAA-GGGAATGAAGAGAG
1 AAGAGGTGAAATCGACAAAGGAATGGGGAAGAAAATGAAGAACAATGGAAGGGGAATGAAGAAAG
46909636 AAAAGTGA
66 -AAAGTGA
46909644 GAGAGAAGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
79 11 0.17
80 53 0.83
ACGTcount: A:0.45, C:0.05, G:0.35, T:0.15
Consensus pattern (80 bp):
AAGAGGTGAAATCGACAAAGGAATGGGGAAGAAAATGAAGAACAATGGAAGGGGAATGAAGAAAG
AAAGTGATCTTTTTC
Found at i:46913110 original size:122 final size:124
Alignment explanation
Indices: 46912784--46913133 Score: 474
Period size: 126 Copynumber: 2.8 Consensus size: 124
46912774 TAATTTCGAG
* *
46912784 TTGACGTTTCTGATAAAATAGTATAAAATCGCTTCTTGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGA-GAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
46912849 AAATCGCGCCCTCGTGGACGCGCTTTTCCTACAGTAGGTCACAGAAGAAATAATTAGTTTT
65 AAATCGCGCCCTCGTAGACGAGCTTCTCCTACAGTAGGTCACAGAAGAAATAATTA-TTTT
*
46912910 TTGAAGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAG-AAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * * *
46912975 AAATCGCGGCCTCGTCAG-CGAGCTTCTGCTAGAGTAGGTCA-TGTAAGAAATAA-T-TTTT
65 AAATCGCGCCCTCGT-AGACGAGCTTCTCCTACAGTAGGTCACAG-AAGAAATAATTATTTT
* * *
46913033 TTGACGTTTCTGAGAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAGTTTATGA
1 TTGACGTTTCTGAGAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGA
* * * *
46913098 AATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
66 AATCGCGCCCTCGTAGACGAGCTTCTCCTACAGTAG
46913134 CATGTTTGGG
Statistics
Matches: 201, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
121 1 0.00
122 77 0.38
123 17 0.08
125 2 0.01
126 103 0.51
127 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGAAATAGTATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGA
AATCGCGCCCTCGTAGACGAGCTTCTCCTACAGTAGGTCACAGAAGAAATAATTATTTT
Found at i:46916366 original size:116 final size:116
Alignment explanation
Indices: 46916162--46916379 Score: 409
Period size: 116 Copynumber: 1.9 Consensus size: 116
46916152 TGATAAATTG
46916162 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
46916227 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
* *
46916278 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATGTAAAATTATTATTTGT
1 TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
*
46916343 TAGTACCAGTCAACACATTTTTCCAAATCTAACATTA
66 TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTA
46916380 CGTTAAGGTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 99 1.00
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.39
Consensus pattern (116 bp):
TATTAAGTCAAAAAATTGTATTAATGGTTAGTAAAATTATCAAATTATATAAAATTATTAATTGT
TAGTACCAGTCAAAACATTTTTCCAAATCTAACATTATGTGAATGTAAAAT
Found at i:46916416 original size:22 final size:20
Alignment explanation
Indices: 46916381--46916426 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
46916371 CTAACATTAC
46916381 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
46916401 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
46916423 -TTAA
1 GTTAA
46916427 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:46916444 original size:29 final size:29
Alignment explanation
Indices: 46916405--46917123 Score: 647
Period size: 29 Copynumber: 26.2 Consensus size: 29
46916395 TTTTAAGTTA
46916405 AGGGTTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
*
46916435 AGGGTTAGGGCTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
46916459 A-GGTTAGGGTTTTTAATTAAATTAGGTC
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
** *
46916487 AATGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
46916515 AGGGTT----TTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
46916538 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46916567 AGGGTTAGGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46916591 -GGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
** * *
46916619 AATGTTAGAGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
**
46916647 AGGGTT----TTTAATTAAATTAGCTTAGG--
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
46916673 A---TTAGGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46916694 A-GGTTAGGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
46916717 A-GGTTAGGGTTTTTAAGTT-AA-GAGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTT
*
46916744 AGGGTT----TTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
* *
46916767 AAGGTTAGGGTTTGTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
46916796 AGGGGTTAGGGTGTTTAATTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
46916826 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
46916855 AGGGTTAGGGTTTGTCATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
46916884 AGAGGTTAGGGTTTTTAGTTAATTTAGGTT
1 AG-GGTTAGGGTTTTTAATTAAATTAGGTT
* *
46916914 AGGGGTTATGGTTTTTAGTTAAATTAGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTAGGTT
46916944 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46916973 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46917002 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46917031 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46917060 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46917089 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
46917118 AGGGTT
1 AGGGTT
46917124 TTTATTACAT
Statistics
Matches: 588, Mismatches: 38, Indels: 127
0.78 0.05 0.17
Matches are distributed among these distances:
21 2 0.00
23 87 0.15
24 35 0.06
25 9 0.02
26 19 0.03
27 22 0.04
28 23 0.04
29 306 0.52
30 84 0.14
31 1 0.00
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.45
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:46916450 original size:51 final size:50
Alignment explanation
Indices: 46916376--46916558 Score: 251
Period size: 51 Copynumber: 3.6 Consensus size: 50
46916366 CAAATCTAAC
*
46916376 ATTACGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAA
1 ATTAGGTTAAGGTTAGGGTTTTTAA-TTAAGGGTTTAGGGTTTTTAATTAA
* * *
46916427 ATTAGGTTAGGGTTAGGGCTTTTAATTAAATTAGG-TTAGGGTTTTTAATTAA
1 ATTAGGTTAAGGTTAGGGTTTTTAATT-AA--GGGTTTAGGGTTTTTAATTAA
* *
46916479 ATTAGGTCAATGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAA
1 ATTAGGTTAAGGTTAGGGTTTTTAA-TTAAGGGTTTAGGGTTTTTAATTAA
*
46916530 ATTAGGTTAGGGTTAGGGTTTTTAATTAA
1 ATTAGGTTAAGGTTAGGGTTTTTAATTAA
46916559 ATTAGGTTAG
Statistics
Matches: 115, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
50 8 0.07
51 63 0.55
52 40 0.35
53 4 0.03
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.45
Consensus pattern (50 bp):
ATTAGGTTAAGGTTAGGGTTTTTAATTAAGGGTTTAGGGTTTTTAATTAA
Found at i:46916580 original size:58 final size:58
Alignment explanation
Indices: 46916508--46917123 Score: 787
Period size: 58 Copynumber: 11.1 Consensus size: 58
46916498 TTTTAAGTTA
46916508 AGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
46916567 AGGGTTAGGGTTTTTAATT-AA--A--TT-GGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
** * * *
46916619 AATGTTAGAGTTTTTAAGTT--A--A-G---GGTTTAGGGTTTTTAATTAAATTAGCTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
*
46916670 AGGATTAGGGTTTTTAATT-AA--A--TTA-GGTTAGGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
46916717 A-GGTTAGGGTTTTTAAGTT-AA-GAGTTTA--G---GG-TTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* * *
46916767 AAGGTTAGGGTTTGTAATTAAATTAGGTTAGGGGTTAGGGTGTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTA-GGGTTAGGGTTTTTAATTAAATTAGGTT
* *
46916826 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTGTCATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
* * * *
46916884 AGAGGTTAGGGTTTTTAGTTAATTTAGGTTAGGGGTTATGGTTTTTAGTTAAATTAGGTT
1 AG-GGTTAGGGTTTTTAATTAAATTAGGTTA-GGGTTAGGGTTTTTAATTAAATTAGGTT
46916944 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
46917002 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
46917060 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
46917118 AGGGTT
1 AGGGTT
46917124 TTTATTACAT
Statistics
Matches: 500, Mismatches: 30, Indels: 55
0.85 0.05 0.09
Matches are distributed among these distances:
45 9 0.02
46 18 0.04
47 7 0.01
48 2 0.00
49 2 0.00
50 10 0.02
51 59 0.12
52 65 0.13
53 4 0.01
55 2 0.00
57 2 0.00
58 192 0.38
59 102 0.20
60 26 0.05
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.45
Consensus pattern (58 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:46916615 original size:18 final size:19
Alignment explanation
Indices: 46916570--46916616 Score: 51
Period size: 23 Copynumber: 2.3 Consensus size: 19
46916560 TTAGGTTAGG
46916570 GTTAGGGTTTTTAATTAAA
1 GTTAGGGTTTTTAATTAAA
46916589 TTGGGTTAGGGTTTTTAATTAAA
1 ----GTTAGGGTTTTTAATTAAA
46916612 -TTAGG
1 GTTAGG
46916617 TTAATGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.21
23 19 0.79
ACGTcount: A:0.28, C:0.00, G:0.26, T:0.47
Consensus pattern (19 bp):
GTTAGGGTTTTTAATTAAA
Found at i:46917151 original size:25 final size:25
Alignment explanation
Indices: 46917123--46917260 Score: 144
Period size: 25 Copynumber: 5.7 Consensus size: 25
46917113 AGGTTAGGGT
46917123 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
46917148 TTTTATTACATCAAATAAA-ATC-A
1 TTTTATTACATCAAATAAACTTCTA
** * *** *
46917171 --AAATAAC-TCGAAAT-TTTTTTTA
1 TTTTATTACATC-AAATAAACTTCTA
*
46917193 TTTTATTACATCAAATAAACTTTTA
1 TTTTATTACATCAAATAAACTTCTA
46917218 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
46917243 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
46917261 TATCAAAATA
Statistics
Matches: 91, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.02
21 9 0.10
22 1 0.01
23 1 0.01
24 10 0.11
25 68 0.75
ACGTcount: A:0.42, C:0.13, G:0.01, T:0.44
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:46917306 original size:43 final size:45
Alignment explanation
Indices: 46917133--46917313 Score: 152
Period size: 45 Copynumber: 4.0 Consensus size: 45
46917123 TTTTATTACA
* *
46917133 TCAAATAAACTTCTATTTTATTACATCAAATAAAATCAAAATAAC
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
*** * * * * ** *
46917178 TCGAAAT-TTTTTTTATTTTATTACATCAAATAAACTTTTATTTTATTAC
1 TC-AAATAAACTTCTATTTTATTACATAAAAT-AA-TATCA--AAATAAC
*
46917227 ATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAAC
1 -TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
* *
46917273 TCAAA-AAATTTCTATTTT-TTTCATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATA
46917314 TTCAAAATTT
Statistics
Matches: 107, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
43 21 0.20
44 12 0.11
45 27 0.25
46 10 0.09
47 2 0.02
48 3 0.03
49 10 0.09
50 22 0.21
ACGTcount: A:0.45, C:0.13, G:0.01, T:0.41
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTATTACATAAAATAATATCAAAATAAC
Found at i:46917758 original size:18 final size:18
Alignment explanation
Indices: 46917735--46917769 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
46917725 CGGAAAAGGA
*
46917735 TACATATAAGGGTTAGGG
1 TACATATAAGGGCTAGGG
46917753 TACATATAAGGGCTAGG
1 TACATATAAGGGCTAGG
46917770 AAACGCACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (18 bp):
TACATATAAGGGCTAGGG
Found at i:46918428 original size:7 final size:7
Alignment explanation
Indices: 46918418--46918442 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
46918408 TTATATACAT
46918418 AATACTA
1 AATACTA
46918425 AATACTA
1 AATACTA
46918432 AATACTA
1 AATACTA
46918439 AATA
1 AATA
46918443 TCAATCGAAT
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:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:46919549 original size:22 final size:22
Alignment explanation
Indices: 46919524--46919579 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
46919514 AAATATGGAT
46919524 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
46919546 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
46919568 TTGAGAGGAATT
1 TTGAGA-GAATT
46919580 GAGAGGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 28 0.85
23 5 0.15
ACGTcount: A:0.39, C:0.00, G:0.32, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:46919596 original size:12 final size:11
Alignment explanation
Indices: 46919540--46919596 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
46919530 GAATTTTGGA
46919540 AGGAAATTGAG
1 AGGAAATTGAG
*
46919551 A-GAATTTTG-G
1 AGGAA-ATTGAG
46919561 AAGGAAATTGAG
1 -AGGAAATTGAG
46919573 AGG-AATTGAG
1 AGGAAATTGAG
46919583 AGGAAATATGAG
1 AGGAAAT-TGAG
46919595 AG
1 AG
46919597 AGGATTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 14 0.37
11 14 0.37
12 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:46923586 original size:22 final size:22
Alignment explanation
Indices: 46923561--46923619 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
46923551 CTCCCTTCAG
* *
46923561 TGGTATCGCGATATCCTCTTCT
1 TGGTATCACGATATCCTCTTCC
46923583 TGGTATCACGATATCCTCTTCC
1 TGGTATCACGATATCCTCTTCC
*
46923605 GGGTATCACGATATC
1 TGGTATCACGATATC
46923620 ACCTTTATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (22 bp):
TGGTATCACGATATCCTCTTCC
Found at i:46939741 original size:16 final size:17
Alignment explanation
Indices: 46939709--46939743 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46939699 AAATAGGGCC
46939709 AAATTGAAAATTTTCAA
1 AAATTGAAAATTTTCAA
*
46939726 AAATTTAAAA-TTTCAA
1 AAATTGAAAATTTTCAA
46939742 AA
1 AA
46939744 TAAGTACCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.57, C:0.06, G:0.03, T:0.34
Consensus pattern (17 bp):
AAATTGAAAATTTTCAA
Found at i:46957612 original size:39 final size:39
Alignment explanation
Indices: 46957569--46957838 Score: 245
Period size: 39 Copynumber: 6.9 Consensus size: 39
46957559 GCAGTCAGGG
*
46957569 GTACCGAAGTACAACAGGGGCACATATGTGCGATCAAGA
1 GTACCGAAGTACAACAGGGGCACGTATGTGCGATCAAGA
* * * * * *
46957608 GTACCAAAGTACAATAAGGGCACGTATGTGAGATTAAGG
1 GTACCGAAGTACAACAGGGGCACGTATGTGCGATCAAGA
** * ** *
46957647 GTACCGAAGTAGGACAGGGGCACATATGTATGATCAGGA
1 GTACCGAAGTACAACAGGGGCACGTATGTGCGATCAAGA
** * * *
46957686 GTATTGAAGTACTACAGGGGCACGTATGTGGGATC-AGG
1 GTACCGAAGTACAACAGGGGCACGTATGTGCGATCAAGA
* *
46957724 GATACCGGAGTACAACAGGGGCACGTATGTGCGATCAGGA
1 G-TACCGAAGTACAACAGGGGCACGTATGTGCGATCAAGA
** * * * *
46957764 GTACCGAAGTACGGCAGGGGCACGTATATGCAATTAGGA
1 GTACCGAAGTACAACAGGGGCACGTATGTGCGATCAAGA
* * * * *
46957803 CTACCGAAGTACAATAAGGGCACGTACGTGCAATCA
1 GTACCGAAGTACAACAGGGGCACGTATGTGCGATCA
46957839 GGATATAATT
Statistics
Matches: 181, Mismatches: 48, Indels: 4
0.78 0.21 0.02
Matches are distributed among these distances:
38 2 0.01
39 177 0.98
40 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (39 bp):
GTACCGAAGTACAACAGGGGCACGTATGTGCGATCAAGA
Found at i:46957664 original size:78 final size:77
Alignment explanation
Indices: 46957567--46957841 Score: 273
Period size: 78 Copynumber: 3.5 Consensus size: 77
46957557 GTGCAGTCAG
* * *
46957567 GGGTACCGAAGTACAACAGGGGCACATATGTGCGATCAAGAGTACCAAAGTACAATAAGGGCACG
1 GGGTACCGAAGTACAACAGGGGCACATATGTGCGATCAGGAGTACCGAAGTACAACAAGGGCACG
46957632 TATGTGAGATTAA
66 TATGTGAGA-TAA
** ** ** * *
46957645 GGGTACCGAAGTAGGACAGGGGCACATATGTATGATCAGGAGTATTGAAGTACTACAGGGGCACG
1 GGGTACCGAAGTACAACAGGGGCACATATGTGCGATCAGGAGTACCGAAGTACAACAAGGGCACG
* *
46957710 TATGTGGGATCA
66 TATGTGAGATAA
* * ** *
46957722 GGGATACCGGAGTACAACAGGGGCACGTATGTGCGATCAGGAGTACCGAAGTACGGCAGGGGCAC
1 GGG-TACCGAAGTACAACAGGGGCACATATGTGCGATCAGGAGTACCGAAGTACAACAAGGGCAC
* *
46957787 GTATATGCA-ATTA
65 GTATGTG-AGATAA
* * * * * *
46957800 GGACTACCGAAGTACAATAAGGGCACGTACGTGCAATCAGGA
1 GG-GTACCGAAGTACAACAGGGGCACATATGTGCGATCAGGA
46957842 TATAATTATA
Statistics
Matches: 162, Mismatches: 32, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
77 5 0.03
78 157 0.97
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.18
Consensus pattern (77 bp):
GGGTACCGAAGTACAACAGGGGCACATATGTGCGATCAGGAGTACCGAAGTACAACAAGGGCACG
TATGTGAGATAA
Found at i:46957839 original size:117 final size:117
Alignment explanation
Indices: 46957570--46957840 Score: 291
Period size: 117 Copynumber: 2.3 Consensus size: 117
46957560 CAGTCAGGGG
* * *
46957570 TACCGAAGTACAACAGGGGCACATATGTGCGATCA-AGAGTACCAAAGTACAATAAGGGCACGTA
1 TACCGAAGTACAACAGGGGCACGTATGTGCGATCAGGGAGTACCAAAGTACAACAAGGGCACGTA
* *
46957634 TGTGAGATTAAGGGTACCGAAGTAGGACAGGGGCACATATGTATGATCAGGAG
66 TGTGAGATTAAGGGTACCGAAGTAGGACAGGGGCACATATGCA-GATCAGGAC
** * * ** *
46957687 TATTGAAGTACTACAGGGGCACGTATGTGGGATCAGGGA-TACCGGAGTACAACAGGGGCACGTA
1 TACCGAAGTACAACAGGGGCACGTATGTGCGATCAGGGAGTACCAAAGTACAACAAGGGCACGTA
* * *
46957751 TGTGCGA-TCAGGAGTACCGAAGTACGG-CAGGGGCACGTATATGCA-ATTAGGAC
66 TGTGAGATTAAGG-GTACCGAAGTA-GGACAGGGGCAC--ATATGCAGATCAGGAC
* * * *
46957804 TACCGAAGTACAATAAGGGCACGTACGTGCAATCAGG
1 TACCGAAGTACAACAGGGGCACGTATGTGCGATCAGG
46957841 ATATAATTAT
Statistics
Matches: 126, Mismatches: 23, Indels: 10
0.79 0.14 0.06
Matches are distributed among these distances:
116 4 0.03
117 112 0.89
118 4 0.03
119 6 0.05
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (117 bp):
TACCGAAGTACAACAGGGGCACGTATGTGCGATCAGGGAGTACCAAAGTACAACAAGGGCACGTA
TGTGAGATTAAGGGTACCGAAGTAGGACAGGGGCACATATGCAGATCAGGAC
Found at i:46963618 original size:67 final size:67
Alignment explanation
Indices: 46963547--46963759 Score: 162
Period size: 67 Copynumber: 3.1 Consensus size: 67
46963537 TTGATTCATA
* *
46963547 CAAAATATTAATTGTATATATTTTACCGAATTTATTAATATAAACAATTATATTAATTAATTTCG
1 CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAATTATATTAATTAATTTCG
46963612 TT
66 TT
** * * * * *** * * *
46963614 CAAAATA-TAAAAGACATGAAAATTAATTTTATTTTGGAAATAATATAATTAA-TATATTAATTT
1 CAAAATATTAATTG-TAT-ATATTTTA-CCAAATTT---ATTAATATAAATAATTATATTAA-TT
* *
46963677 AA-TTCATA
59 AATTTCGTT
* * *
46963685 CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAGTTATATTAAGTAATTTTG
1 CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAATTATATTAATTAATTTCG
*
46963750 AT
66 TT
46963752 CAAAATAT
1 CAAAATAT
46963760 AAAAGACATT
Statistics
Matches: 103, Mismatches: 33, Indels: 20
0.66 0.21 0.13
Matches are distributed among these distances:
66 18 0.17
67 27 0.26
68 5 0.05
69 8 0.08
70 5 0.05
71 21 0.20
72 19 0.18
ACGTcount: A:0.46, C:0.06, G:0.05, T:0.43
Consensus pattern (67 bp):
CAAAATATTAATTGTATATATTTTACCAAATTTATTAATATAAATAATTATATTAATTAATTTCG
TT
Found at i:46963710 original size:138 final size:138
Alignment explanation
Indices: 46963379--46963801 Score: 643
Period size: 138 Copynumber: 3.1 Consensus size: 138
46963369 GAGAACATAG
**
46963379 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAATGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * * *
46963444 AATATAAACTGTTATATTAATTAATTTTGGTCAAAATATAAAAGAAATTGAAATTAATATTTTTT
66 AATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATTGAAATTAAT-TTTATT
46963509 TTGGAAAAA
130 TTGGAAAAA
*
46963518 ATATAATGAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
46963583 AATATAAACAATTATATTAATTAATTTCGTTCAAAATATAAAAGACA-TGAAAATTAATTTTATT
66 AATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATTG-AAATTAATTTTATT
*
46963647 TTGGAAATA
130 TTGGAAAAA
* * *
46963656 ATATAATTAATATATTAATTTAATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
* * *
46963721 AATATAAATAGTTATATTAAGTAATTTTGATCAAAATATAAAAGACATTGAAATTATTTTTCA-T
66 AATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATTGAAATTAATTTT-ATT
*
46963785 TTGGAAAGA
130 TTGGAAAAA
46963794 ATATAATT
1 ATATAATT
46963802 CCTTTTTGTA
Statistics
Matches: 260, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
138 145 0.56
139 115 0.44
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
AATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGACATTGAAATTAATTTTATTT
TGGAAAAA
Found at i:46976173 original size:21 final size:20
Alignment explanation
Indices: 46976143--46976190 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
46976133 AGTCACTTGC
*
46976143 TTTATGCCCA-TATCATAATA
1 TTTATTCCCACTATCAT-ATA
*
46976163 TATTATTCCCACTTTCATATA
1 T-TTATTCCCACTATCATATA
46976184 TTTATTC
1 TTTATTC
46976191 TCCTTTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 7 0.29
21 12 0.50
22 5 0.21
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (20 bp):
TTTATTCCCACTATCATATA
Found at i:46978120 original size:34 final size:34
Alignment explanation
Indices: 46978043--46978122 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 34
46978033 CATCACAATG
* * **
46978043 ACAGTAATCAGTTGGGCCTTTGCCCAATTTTAGTA
1 ACAGT-ATCAGTGGGGCCTTGGCCCAATTACAGTA
*
46978078 ATAGTATCAGTGGGGCCTTGGCCC-ATTACAGTA
1 ACAGTATCAGTGGGGCCTTGGCCCAATTACAGTA
46978111 ACAGATATCAGT
1 ACAG-TATCAGT
46978123 CATGCAGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
33 10 0.26
34 24 0.63
35 4 0.11
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (34 bp):
ACAGTATCAGTGGGGCCTTGGCCCAATTACAGTA
Found at i:46978610 original size:27 final size:26
Alignment explanation
Indices: 46978562--46978655 Score: 73
Period size: 27 Copynumber: 3.5 Consensus size: 26
46978552 CATTTCATCT
** *
46978562 CCTA-GGGGTATAACAGTCATTTTAC
1 CCTATGGGGTATTTCAGCCATTTTAC
* ** *
46978587 CCTATGCGGGTATTTCGGTTATTTTAT
1 CCTATG-GGGTATTTCAGCCATTTTAC
* *
46978614 CCAATTGGGGTTTTTCAGCCATTTTAC
1 CCTA-TGGGGTATTTCAGCCATTTTAC
46978641 CCTATGGGTGTATTT
1 CCTATGGG-GTATTT
46978656 TGGTCTAGAT
Statistics
Matches: 52, Mismatches: 13, Indels: 6
0.73 0.18 0.08
Matches are distributed among these distances:
25 4 0.08
26 5 0.10
27 41 0.79
28 2 0.04
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (26 bp):
CCTATGGGGTATTTCAGCCATTTTAC
Found at i:46980725 original size:49 final size:49
Alignment explanation
Indices: 46980650--46980791 Score: 169
Period size: 49 Copynumber: 2.9 Consensus size: 49
46980640 AAGGAGGAAG
* *
46980650 TAAGTGGAAGTTTATTTGCAAATCAGTGGTGGCTTGTCCACAAAATCTT
1 TAAGTGGAAGTATATTTGCATATCAGTGGTGGCTTGTCCACAAAATCTT
* * * *
46980699 TAAGTGGCAGTATATTTGCATGTCAGTGGTGGCTTGTCCATAAAATGTT
1 TAAGTGGAAGTATATTTGCATATCAGTGGTGGCTTGTCCACAAAATCTT
** * * *
46980748 TCTGTGGTAA-TACATCTGCATATCTGTGGTGGCTTGTCCACAAA
1 TAAGTGG-AAGTATATTTGCATATCAGTGGTGGCTTGTCCACAAA
46980792 GTATTATCAA
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 77 0.99
50 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (49 bp):
TAAGTGGAAGTATATTTGCATATCAGTGGTGGCTTGTCCACAAAATCTT
Found at i:46996557 original size:16 final size:16
Alignment explanation
Indices: 46996545--46996579 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
46996535 AACTTCTTCT
46996545 TTATTTACTTTCTTAC
1 TTATTTACTTTCTTAC
* *
46996561 TTGTTTACTTTCTTGC
1 TTATTTACTTTCTTAC
46996577 TTA
1 TTA
46996580 AATAACTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.14, C:0.17, G:0.06, T:0.63
Consensus pattern (16 bp):
TTATTTACTTTCTTAC
Found at i:46996907 original size:50 final size:50
Alignment explanation
Indices: 46996845--46997112 Score: 254
Period size: 50 Copynumber: 5.3 Consensus size: 50
46996835 TGCCATATTT
* * ** * * * * *
46996845 CAGATATGGTCTTGCATGGGAGTTCTCATATTGGTGCCCATGCGATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
**
46996895 CAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
46996945 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
1 CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
* * ** *
46996995 CAGACATGGTCTTACATGGGACCTTTCATAATTTCAATAATGCCAATGCCATGTCC
1 CAGACATGGTCTTACATGGGACC--TC-TCATCTC---GGTGCCAACGCCATGTCC
* * ** * *
46997051 CAGACATGGTCTTACAAT-GG--CTCACATATCAATGTCAATGCCATGTCC
1 CAGACATGGTCTTAC-ATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
46997099 CAGACATGGTCTTA
1 CAGACATGGTCTTA
46997113 TACGAGATTG
Statistics
Matches: 189, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
48 31 0.16
50 110 0.58
51 4 0.02
52 4 0.02
53 5 0.03
54 1 0.01
56 32 0.17
57 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
CAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCC
Found at i:47003343 original size:38 final size:37
Alignment explanation
Indices: 47003266--47003388 Score: 138
Period size: 38 Copynumber: 3.2 Consensus size: 37
47003256 TAACACCAAT
* * *
47003266 ACTAATCCTACTAGGCACTAAGCCTGAATAAAATCGGC
1 ACTAAGCCTACTAGGCACTAAGCCTGAATACACT-GGC
47003304 ACTAAGCCTACTAGGCACTAAGCCTGAATATCACTGGC
1 ACTAAGCCTACTAGGCACTAAGCCTGAATA-CACTGGC
* * * * **
47003342 ACCAAGGCTGCTAGGCACTAAGCTTGAATACCACCAGC
1 ACTAAGCCTACTAGGCACTAAGCCTGAATA-CACTGGC
47003380 ACTAAGCCT
1 ACTAAGCCT
47003389 GAATAACACC
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
38 70 0.97
39 2 0.03
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (37 bp):
ACTAAGCCTACTAGGCACTAAGCCTGAATACACTGGC
Found at i:47003381 original size:22 final size:22
Alignment explanation
Indices: 47003356--47003398 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
47003346 AGGCTGCTAG
* *
47003356 GCACTAAGCTTGAATACCACCA
1 GCACTAAGCCTGAATAACACCA
47003378 GCACTAAGCCTGAATAACACC
1 GCACTAAGCCTGAATAACACC
47003399 GGAACTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.33, G:0.14, T:0.16
Consensus pattern (22 bp):
GCACTAAGCCTGAATAACACCA
Found at i:47003405 original size:22 final size:22
Alignment explanation
Indices: 47003358--47003406 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
47003348 GCTGCTAGGC
* * *
47003358 ACTAAGCTTGAATACCACCAGC
1 ACTAAGCCTGAATAACACCAGA
*
47003380 ACTAAGCCTGAATAACACCGGA
1 ACTAAGCCTGAATAACACCAGA
47003402 ACTAA
1 ACTAA
47003407 CCCTACTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.29, G:0.14, T:0.16
Consensus pattern (22 bp):
ACTAAGCCTGAATAACACCAGA
Found at i:47007838 original size:29 final size:29
Alignment explanation
Indices: 47007796--47007952 Score: 119
Period size: 29 Copynumber: 5.4 Consensus size: 29
47007786 TCTCGCCACG
* *
47007796 AAGGCATCC-TTTAATAGTGATTTACACA
1 AAGGCTTCCATTTAATAGAGATTTACACA
* * *
47007824 AAGGCTTCCATTTAACAGAGA-TCACCATA
1 AAGGCTTCCATTTAATAGAGATTTA-CACA
47007853 AAGGCTTCCATTTAATAGAGATCGTT--ACA
1 AAGGCTTCCATTTAATAGAGAT--TTACACA
* * *
47007882 AAGGCTTCCATTTAACAAAGA-TCACCACA
1 AAGGCTTCCATTTAATAGAGATTTA-CACA
* * * *
47007911 AAGTCTTCAATTTAATAGAGA-TCACCCCA
1 AAGGCTTCCATTTAATAGAGATTTA-CACA
47007940 AAGGCTTCCATTT
1 AAGGCTTCCATTT
47007953 CACAAAGATT
Statistics
Matches: 103, Mismatches: 18, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.01
28 10 0.10
29 91 0.88
32 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (29 bp):
AAGGCTTCCATTTAATAGAGATTTACACA
Found at i:47007885 original size:58 final size:58
Alignment explanation
Indices: 47007820--47007971 Score: 205
Period size: 58 Copynumber: 2.6 Consensus size: 58
47007810 TAGTGATTTA
* * * **
47007820 CACAAAGGCTTCCATTTAACAGAGATCACCATAAAGGCTTCCATTTAATAGAGATCGT
1 CACAAAGGCTTCCATTTAACAAAGATCACCACAAAGGCTTCAATTTAATAGAGATCAC
* *
47007878 TACAAAGGCTTCCATTTAACAAAGATCACCACAAAGTCTTCAATTTAATAGAGATCAC
1 CACAAAGGCTTCCATTTAACAAAGATCACCACAAAGGCTTCAATTTAATAGAGATCAC
* * **
47007936 CCCAAAGGCTTCCATTTCACAAAGATTGCCACAAAG
1 CACAAAGGCTTCCATTTAACAAAGATCACCACAAAG
47007972 ACTGCCTTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 82 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (58 bp):
CACAAAGGCTTCCATTTAACAAAGATCACCACAAAGGCTTCAATTTAATAGAGATCAC
Found at i:47007961 original size:29 final size:29
Alignment explanation
Indices: 47007820--47007971 Score: 178
Period size: 29 Copynumber: 5.2 Consensus size: 29
47007810 TAGTGATTTA
47007820 CACAAAGGCTTCCATTTAACAGAGATCAC
1 CACAAAGGCTTCCATTTAACAGAGATCAC
* * **
47007849 CATAAAGGCTTCCATTTAATAGAGATCGT
1 CACAAAGGCTTCCATTTAACAGAGATCAC
* *
47007878 TACAAAGGCTTCCATTTAACAAAGATCAC
1 CACAAAGGCTTCCATTTAACAGAGATCAC
* * *
47007907 CACAAAGTCTTCAATTTAATAGAGATCAC
1 CACAAAGGCTTCCATTTAACAGAGATCAC
* * * **
47007936 CCCAAAGGCTTCCATTTCACAAAGATTGC
1 CACAAAGGCTTCCATTTAACAGAGATCAC
47007965 CACAAAG
1 CACAAAG
47007972 ACTGCCTTAT
Statistics
Matches: 99, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 99 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.24
Consensus pattern (29 bp):
CACAAAGGCTTCCATTTAACAGAGATCAC
Found at i:47008054 original size:29 final size:29
Alignment explanation
Indices: 47008022--47008144 Score: 81
Period size: 29 Copynumber: 4.3 Consensus size: 29
47008012 GAAAAGACCA
* *
47008022 CCACAAAGGAATCCTTATAATAGAGATTG
1 CCACAAAGGCATCCTTATAAAAGAGATTG
* * * * **
47008051 CCACAATGGCGTTCTTATAACAGAGATCA
1 CCACAAAGGCATCCTTATAAAAGAGATTG
* * * *
47008080 CCACAAAGCCTTCATTATAAAATAGATTG
1 CCACAAAGGCATCCTTATAAAAGAGATTG
* * * *
47008109 CCACAAAAGCTTCCTT-T--TAGAGATAG
1 CCACAAAGGCATCCTTATAAAAGAGATTG
47008135 CCACAAAGGC
1 CCACAAAGGC
47008145 TCATTTATAT
Statistics
Matches: 71, Mismatches: 23, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
26 15 0.21
28 1 0.01
29 55 0.77
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (29 bp):
CCACAAAGGCATCCTTATAAAAGAGATTG
Found at i:47012395 original size:28 final size:27
Alignment explanation
Indices: 47012351--47012405 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
47012341 GGTTTTTTAG
*
47012351 GGTTTAAGAAATTTTAAGGTTTTGAAAA
1 GGTTTAAGAAATTTTAAGGGTTT-AAAA
*
47012379 GGTTT-AGAAGTTGTTAAGGGTTTAAAA
1 GGTTTAAGAAATT-TTAAGGGTTTAAAA
47012406 CAAAGTAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 10 0.42
28 14 0.58
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.38
Consensus pattern (27 bp):
GGTTTAAGAAATTTTAAGGGTTTAAAA
Found at i:47037732 original size:20 final size:20
Alignment explanation
Indices: 47037689--47037730 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
47037679 TAAAGAAAGT
47037689 AAATGCAATGGAAAGTAATG
1 AAATGCAATGGAAAGTAATG
47037709 AAATGCATAT-GAAAGTAA-G
1 AAATGCA-ATGGAAAGTAATG
47037728 AAA
1 AAA
47037731 ATTTGGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 15 0.71
21 2 0.10
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.19
Consensus pattern (20 bp):
AAATGCAATGGAAAGTAATG
Found at i:47041933 original size:79 final size:78
Alignment explanation
Indices: 47041831--47042053 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
47041821 GCTCCTCGTT
* *
47041831 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
47041896 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
47041911 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
47041975 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
47041989 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
47042052 GA
63 GA
47042054 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:47041948 original size:39 final size:40
Alignment explanation
Indices: 47041831--47042053 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
47041821 GCTCCTCGTT
* *
47041831 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
47041871 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
47041911 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
47041950 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
47041989 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
47042030 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47042054 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:47049005 original size:16 final size:17
Alignment explanation
Indices: 47048979--47049010 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47048969 ACTCATCAAG
47048979 ATTCAATTAAATAATTT
1 ATTCAATTAAATAATTT
47048996 ATTC-ATTAAATAATT
1 ATTCAATTAAATAATT
47049011 CCACTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTCAATTAAATAATTT
Found at i:47049591 original size:27 final size:28
Alignment explanation
Indices: 47049561--47049630 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
47049551 ATATTAATTC
*
47049561 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTATATAATCAAGCT
47049588 CGCACACTTAGTGCTATATAATCAAGCT
1 CGCACACTTAGTGCTATATAATCAAGCT
47049616 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47049631 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAGCT
Found at i:47054263 original size:18 final size:18
Alignment explanation
Indices: 47054215--47054278 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
47054205 TACTATTTAG
* *
47054215 GGGGAGACTATTGTTCCA
1 GGGGAAACTATTGTTCAA
47054233 --GGAAACATCATTGTTCAA
1 GGGGAAAC-T-ATTGTTCAA
*
47054251 GGGGAAACTATTGCTCAA
1 GGGGAAACTATTGTTCAA
*
47054269 GGGGAGACTA
1 GGGGAAACTA
47054279 CTATTCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
16 5 0.13
17 1 0.03
18 25 0.66
19 1 0.03
20 6 0.16
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (18 bp):
GGGGAAACTATTGTTCAA
Found at i:47054422 original size:27 final size:27
Alignment explanation
Indices: 47054384--47054435 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
47054374 ATGTGCAAAT
*
47054384 AATCTTCCTCTTCTGGTGAGTTACCCG
1 AATCTTCCTCTTCTAGTGAGTTACCCG
47054411 AATCTTCCTCTTCTAGTGAGTTACC
1 AATCTTCCTCTTCTAGTGAGTTACC
47054436 TCCTAATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.29, G:0.15, T:0.38
Consensus pattern (27 bp):
AATCTTCCTCTTCTAGTGAGTTACCCG
Found at i:47065338 original size:20 final size:20
Alignment explanation
Indices: 47065238--47065324 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
47065228 GCTTGCACGA
47065238 GATTGCACTTTGGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
47065258 GATTGCACTTTGGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
* *
47065278 GATTACACAATT-GTGCCTCT
1 GATTGCAC-TTTGGTGCCTCT
*
47065298 GTTTGCACTTTGGTGCCTCT
1 GATTGCACTTTGGTGCCTCT
47065318 GATTGCA
1 GATTGCA
47065325 TAATTGTGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
19 2 0.03
20 55 0.93
21 2 0.03
ACGTcount: A:0.14, C:0.24, G:0.23, T:0.39
Consensus pattern (20 bp):
GATTGCACTTTGGTGCCTCT
Found at i:47065339 original size:40 final size:40
Alignment explanation
Indices: 47065250--47065362 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 40
47065240 TTGCACTTTG
*
47065250 GTGCCTCTGATTGCACTTTGGTGCCTCTGATTACACAATT
1 GTGCCTCTGTTTGCACTTTGGTGCCTCTGATTACACAATT
* *
47065290 GTGCCTCTGTTTGCACTTTGGTGCCTCTGATTGCATAATT
1 GTGCCTCTGTTTGCACTTTGGTGCCTCTGATTACACAATT
* ** *
47065330 GTGCCTCTGTCTATACTTCGGTGCCTCTG-TTAC
1 GTGCCTCTGTTTGCACTTTGGTGCCTCTGATTAC
47065363 GCATCTACGA
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 3 0.05
40 62 0.95
ACGTcount: A:0.13, C:0.26, G:0.21, T:0.40
Consensus pattern (40 bp):
GTGCCTCTGTTTGCACTTTGGTGCCTCTGATTACACAATT
Found at i:47072190 original size:17 final size:17
Alignment explanation
Indices: 47072168--47072203 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
47072158 AAAGTCTGAA
47072168 GGATTTG-TGAGTTAGTG
1 GGATTTGATG-GTTAGTG
47072185 GGATTTGATGGTTAGTG
1 GGATTTGATGGTTAGTG
47072202 GG
1 GG
47072204 TGGTTAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (17 bp):
GGATTTGATGGTTAGTG
Found at i:47082372 original size:9 final size:8
Alignment explanation
Indices: 47082326--47082379 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
47082316 ATCTTTAGCT
*
47082326 TTTTTATT
1 TTTTTATA
47082334 TTTTTATA
1 TTTTTATA
*
47082342 TTTTAATA
1 TTTTTATA
*
47082350 TTTTAATA
1 TTTTTATA
**
47082358 AATTTATA
1 TTTTTATA
47082366 TCTTTTATA
1 T-TTTTATA
47082375 TTTTT
1 TTTTT
47082380 CTAAAAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
8 31 0.82
9 7 0.18
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (8 bp):
TTTTTATA
Found at i:47083737 original size:36 final size:37
Alignment explanation
Indices: 47083662--47083744 Score: 159
Period size: 37 Copynumber: 2.3 Consensus size: 37
47083652 TCCAAAGAAT
47083662 GAATTGTTTGTTCTTCATCAATGCCAATTATCAAGAG
1 GAATTGTTTGTTCTTCATCAATGCCAATTATCAAGAG
47083699 GAATTGTTTGTTCTTCATCAATGCCAA-TATCAAGAG
1 GAATTGTTTGTTCTTCATCAATGCCAATTATCAAGAG
47083735 GAATTGTTTG
1 GAATTGTTTG
47083745 ATATTTATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 19 0.41
37 27 0.59
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (37 bp):
GAATTGTTTGTTCTTCATCAATGCCAATTATCAAGAG
Found at i:47085451 original size:31 final size:32
Alignment explanation
Indices: 47085411--47085470 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
47085401 TCAACAAAAA
47085411 AATGAATTCAAAG-G-TCATAATTAAATACAAAT
1 AATGAATTCAAAGAGCTC--AATTAAATACAAAT
47085443 AATG-ATTCAAAGAGCTCAATTAAATACA
1 AATGAATTCAAAGAGCTCAATTAAATACA
47085471 CATTTTGGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 19 0.73
32 5 0.19
33 2 0.08
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (32 bp):
AATGAATTCAAAGAGCTCAATTAAATACAAAT
Found at i:47093907 original size:50 final size:50
Alignment explanation
Indices: 47093805--47094047 Score: 279
Period size: 50 Copynumber: 4.7 Consensus size: 50
47093795 GGGAATGAGA
* *
47093805 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA---AG---ATGAGAGG
* *
47093861 TCTCATGTAGGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* *
47093911 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
** * * * * **
47093961 TCCCCCGTAAGACCATGTCTGGGACATGGCGTGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
* * *
47094011 TCCCATGTAAGATCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47094048 GTACAGAAAA
Statistics
Matches: 166, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
50 128 0.77
53 2 0.01
56 36 0.22
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGG
Found at i:47094313 original size:12 final size:12
Alignment explanation
Indices: 47094296--47094346 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
47094286 ATGAGTTATT
47094296 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
47094308 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
47094320 TAAGTGAGTAAG
1 TAAGTAAGCAAG
47094332 TAAAG-AAGCAAG
1 T-AAGTAAGCAAG
47094344 TAA
1 TAA
47094347 AGATTCTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
11 2 0.06
12 27 0.84
13 3 0.09
ACGTcount: A:0.53, C:0.06, G:0.24, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:47094344 original size:20 final size:20
Alignment explanation
Indices: 47094306--47094344 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
47094296 TAAGTAAGCA
*
47094306 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGCAAGTG
*
47094326 AGTAAGTAAAGAAGCAAGT
1 AGTAAGTAAACAAGCAAGT
47094345 AAAGATTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.05, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGCAAGTG
Found at i:47096167 original size:40 final size:39
Alignment explanation
Indices: 47096136--47096345 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
47096126 GGACTAAGAT
* *
47096136 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
47096176 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
47096216 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
47096256 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
47096296 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
47096335 CCGAAGGCATT
1 CCGAAGGCATT
47096346 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:47096299 original size:120 final size:120
Alignment explanation
Indices: 47096083--47096345 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
47096073 TTGAATGCTG
* *
47096083 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
47096147 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
47096203 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
47096266 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
47096322 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47096346 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:47096365 original size:79 final size:80
Alignment explanation
Indices: 47096084--47096380 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
47096074 TGAATGCTGT
* ** * * * **
47096084 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
47096147 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
47096164 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
47096228 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
47096244 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
47096308 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
47096323 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
47096381 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:47100483 original size:199 final size:199
Alignment explanation
Indices: 47100137--47100729 Score: 1008
Period size: 199 Copynumber: 3.0 Consensus size: 199
47100127 ATGCTCGGCA
* * * * *
47100137 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCTGTCTAA
** ** *
47100202 CTACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
65 AAAAAGTCTGAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
47100267 GCATCACAAGAAACTCATAGTGTCTGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
130 GCATCACAAGAAACTCATAGTGTCTGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCG
47100332 AGCAT
195 AGCAT
47100337 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGTAATACCACAACAAATCTGTCTAAA
1 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGTAATACCACAACAAATCTGTCTAAA
47100402 AAAAGTCTGAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
66 AAAAGTCTGAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
47100467 CATCACAAGAAACTCATAGTGTCTGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
131 CATCACAAGAAACTCATAGTGTCTGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
47100532 GCAT
196 GCAT
47100536 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGTAATACCACAACAAATCTGTCTAAA
1 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGTAATACCACAACAAATCTGTCTAAA
47100601 AAAAGTCTGAAGATTTTGTTCATCAAATCCATAAAATACTGGAGGTGC-TTCAGTTAAACCAAAC
66 AAAAGTCTGAAGATTTTGTTCATCAAATCCAT-AAATACTGGAGGTGCATT-AGTTAAACCAAAC
* * * * **
47100665 AGGATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTTGGCACATCCAAATC
129 AGCATCACAAGAAACTCATAGTGTCTGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
47100730 TTTCACTCGT
Statistics
Matches: 375, Mismatches: 16, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
199 250 0.67
200 125 0.33
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (199 bp):
TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGTAATACCACAACAAATCTGTCTAAA
AAAAGTCTGAAGATTTTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACAG
CATCACAAGAAACTCATAGTGTCTGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCGA
GCAT
Found at i:47104551 original size:200 final size:200
Alignment explanation
Indices: 47104197--47104590 Score: 628
Period size: 200 Copynumber: 2.0 Consensus size: 200
47104187 ATGCTCGGCA
47104197 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* **
47104262 CTACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTAGAGGTGCATTAGTTAAACCAAACA
66 ATAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTAGAGGTGCATTAGTTAAACCAAACA
*
47104327 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCA
131 GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCA
47104392 AGCAT
196 AGCAT
* * * * *
47104397 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAGT-AATACCACAACAAATCTGTCTAA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
* * *
47104461 ATAAAGTCTGAAGATTTTGTTCATCAAATCCATAAAATACTGGAGGTGCTTTAGTTAAACCAAAC
66 ATAAAGTCTGAAGATTCTGTTCATCAAATCCAT-AAATACTAGAGGTGCATTAGTTAAACCAAAC
* * * *
47104526 AGGATCACAAGAATTTCAAAGTGTCCGTACCTGGTTCTAAATGTAGTTTTCAGCACATCCAAATC
130 AGCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
47104591 TTTCACTCGT
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
199 50 0.28
200 127 0.72
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAATCTATCTAA
ATAAAGTCTGAAGATTCTGTTCATCAAATCCATAAATACTAGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCAAAGTGTCCGGACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATCA
AGCAT
Found at i:47105833 original size:200 final size:200
Alignment explanation
Indices: 47105485--47105877 Score: 680
Period size: 200 Copynumber: 2.0 Consensus size: 200
47105475 ATGCTCGGCA
47105485 TGTTCAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTCA
1 TGTTCAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTCA
* **
47105550 ATACGGTCTGAAGATTCTGTTCATCAAATCGATAAATGTTGGAGGTGCATTAGTTAAACCAAACA
66 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
*
47105615 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTCTAAATGTTGTTTTAAGCACATCCAAATTG
131 GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTATAAATGTTGTTTTAAGCACATCCAAATTG
47105680 AGCAT
196 AGCAT
*
47105685 TGTTTAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTCA
1 TGTTCAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTCA
*
47105750 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGC-TTCAGTTAAACCAAAT
66 ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATT-AGTTAAACCAAAC
* * **
47105814 AGGATCACAAGAAATTCATAGTGTCCGTACCTGGTTATAAATGTTGTTTTCGGCACATCCAAAT
130 AGCATCACAAGAAATTCATAGTGTCCGGACCTGGTTATAAATGTTGTTTTAAGCACATCCAAAT
47105878 CTTTCACTCG
Statistics
Matches: 182, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
199 2 0.01
200 180 0.99
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (200 bp):
TGTTCAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCACAACAAATCTGTCTCA
ATACGGTCTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAAACCAAACA
GCATCACAAGAAATTCATAGTGTCCGGACCTGGTTATAAATGTTGTTTTAAGCACATCCAAATTG
AGCAT
Found at i:47107117 original size:200 final size:201
Alignment explanation
Indices: 47106773--47107167 Score: 666
Period size: 200 Copynumber: 2.0 Consensus size: 201
47106763 ATGCTCGGCA
47106773 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAAATCTATCTA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAAATCTATCTA
*
47106838 AATACGGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCGAAAC
66 AATACGGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAAC
*
47106903 AGCATCACAAGAAATTCATAGTGTCCGTATCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
131 AGCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
47106968 GAGCAT
196 GAGCAT
* * *
47106974 TGTTCAGTCTCATCTCAAGAATATATCAAAATATCATCAATAAATACCAC-AACAAATCTGTCTA
1 TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAAATCTATCTA
* *
47107038 AATACGGTTTGAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAAC
66 AATACGGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAAC
* * * * **
47107103 AGGATCACAAGAAATTCATAGTGTCCGTGCCTGTTTCTTAATGTAGTTTTCGGCACATCCAAATC
131 AGCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
47107168 TTTCACTCGT
Statistics
Matches: 181, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
200 132 0.73
201 49 0.27
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.30
Consensus pattern (201 bp):
TGTTCAGTCTCATCTCAAGAATATATAAAAATATCATCAATAAATACCACAAAAAAATCTATCTA
AATACGGTCTAAAGATTCTGTTCATCAAATCCATAAATACTGGAGGTGCATTAGTTAATCCAAAC
AGCATCACAAGAAATTCATAGTGTCCGTACCTGGTTCTAAATGTAGTTTTAAGCACATCCAAATC
GAGCAT
Done.