Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2672246
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 15
Found at i:712290 original size:248 final size:248
Alignment explanation
Indices: 711611--712589 Score: 1548
Period size: 248 Copynumber: 3.9 Consensus size: 248
711601 TATCTCCCAC
* * *
711611 AAAGACCTTTGAGTTCGATTACGCTCAGCTCCAA-GGCATATCATTTGCAGTATAACTTAAGTCG
1 AAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCATTTGCAGCATAACTTAAGTCG
711675 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTAC
65 AGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTAC
711740 AACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCT
130 AACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCT
*
711805 CCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTACCAACA
195 CCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
* *
711859 AAAGACCTTTGAGTTTGACTACGCTCAGCTCAACGACACATCATTTGCAGCAT-ACTTAAGTCGA
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGA
711923 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
66 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* * *
711988 ACATAACTCAAGACTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCATCTC
131 ACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTC
*
712053 CAAGGCATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
196 CAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
* *
712106 AAAGACCTTTGAGTTCAACTACGCTCAGCTAAACGGCACATCATTTGCAGCATAACTTAAGTCGA
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGA
*
712171 GAAGGGTTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
66 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* * * * * *
712236 GCATAACTCAAGGTTAGAAAGGTTATTTGTCACCAAATACCTTCGAGTTCGACTACAATCAGCTC
131 ACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTC
712301 CAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
196 CAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
* * * *
712354 AAAGACCTCTGAGTTCGACTACGCTCAGCTCAACAGCACATCATTTGCAGCATAGCTTAAGTCAA
1 AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGA
* ** * * *
712419 TAAGGGCTATCTGCCAAAGACCCCCGAGTTTAATTACACTCAGCTTCGAGGGAACATCATTTGCA
66 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
* * * * * * * *
712484 ACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACGAAAGACCTTTGAGTTCGACTACGCTCAGCT
131 ACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACACTCAGCT
* * * * *
712549 CCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGG
195 CCAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGG
712590 CTAGCTGCCA
Statistics
Matches: 673, Mismatches: 55, Indels: 5
0.92 0.08 0.01
Matches are distributed among these distances:
247 241 0.36
248 368 0.55
249 64 0.10
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (248 bp):
AAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGA
GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
ACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTC
CAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACA
Found at i:712517 original size:165 final size:164
Alignment explanation
Indices: 711594--712761 Score: 876
Period size: 165 Copynumber: 7.1 Consensus size: 164
711584 GCTCAAGGCC
* *** * * * *
711594 GAAGGGCTATCTCCCACAAAGACCTTTGAGTTCGATTACGCTCAGC-TCCAAGGCATATCATTTG
1 GAAGGGCTATCT-GC-CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTG
** * * * * * * * *
711658 CAGTATAACTTAAGTCGAGAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACACTCAG
64 CAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTCTGAGTTCGACTACGCTCAG
* * * * * * *
711719 CTTCGAGGGCATATCATTTACAACATAACTCAAGGCTA
129 C-TC-AAGGCACATCATTTGCAGCATAACTTAAGTCAA
* ** * * * *
711757 GAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCATATCATTT
1 GAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * * * * * * *
711821 GCAGCACAACTTAAGTCTAGAAGGGTTGTCTACCAACAAAAGACCTTTGAGTTTGACTACGCTCA
63 GCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTCTGAGTTCGACTACGCTCA
* *
711886 GCTCAACGACACATCATTTGCAGCAT-ACTTAAGTCGA
128 GCTCAA-GGCACATCATTTGCAGCATAACTTAAGTCAA
* *
711923 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACA
1 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCA
* * * *
711988 ACATAACTCAAGACTAGAAGGGTTATCTGTC-ACCAAAGACCT-TCGAGTTCGACTACGCTCATC
66 ACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTCT-GAGTTCGACTACGCTCAGC
* * * *
712051 TCCAAGGCATATCATTTGTAGCACAACTTAAGTCTA
130 T-CAAGGCACATCATTTGCAGCATAACTTAAGTCAA
* * *** * * * ** *
712087 GAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCAACTACGCTCAGC-TAAACGGCACATCATT
1 GAAGGGCTATCTG-C--C-AAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
* * * * * * * *
712151 TGCAGCATAACTTAAGTCGAGAAGGGTTATCTG-C--C-AAAGACCCCCGAGTTCGATTACACTC
62 TGCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTCTGAGTTCGACTACGCTC
* * * * *
712212 AGCTTCGAGGGCATATCATTTACAGCATAACTCAAGGT-TA
127 AGC-TC-AAGGCACATCATTTGCAGCATAACTTAA-GTCAA
* * * * ** * * * * *
712252 GAAAGGTTATTTGTCACCAAATACCTTCGAGTTCGACTACAATCAGC-TCCAAGGCATATCATTT
1 GAAGGGCTATCTG---CCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * * * *
712316 GCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAAAAGACCTCTGAGTTCGACTACGCTCA
63 GCAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTCTGAGTTCGACTACGCTCA
* *
712381 GCTCAACAGCACATCATTTGCAGCATAGCTTAAGTCAA
128 GCTCAA-GGCACATCATTTGCAGCATAACTTAAGTCAA
* ** *
712419 TAAGGGCTATCTGCCAAAGACCCCCGAGTTTAATTACACTCAGCTTCGAGGGAACATCATTTGCA
1 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCA
* * * * * *
712484 ACATAGCTCAAGGCAAGAAGGGCTATTTGCCAACGAAAGACCTTTGAGTTCGACTACGCTCAGCT
66 ACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTCTGAGTTCGACTACGCTCAGCT
* * *
712549 CCAAGGCACATCATTTGCAGTATAGCTTAAGTCGA
131 -CAAGGCACATCATTTGCAGCATAACTTAAGTCAA
* * *
712584 GAAGGGCTAGCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTACATCATTTACA
1 GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCA
* ** ** * *
712649 ATATAACTCAAGGCTAGAAGGGTTATCTATCTCCAAAGGACCT-TCGAGTTCGACTACGCTTAGC
66 ACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTCT-GAGTTCGACTACGCTCAGC
* * * * ** *
712713 TGCGAGGCACATCATTTACAACATAGCCCAAGGCAA
130 T-CAAGGCACATCATTTGCAGCATAACTTAAGTCAA
*
712749 GAAAGGCTATCTG
1 GAAGGGCTATCTG
712762 TCAATAAAAC
Statistics
Matches: 815, Mismatches: 159, Indels: 60
0.79 0.15 0.06
Matches are distributed among these distances:
162 1 0.00
163 82 0.10
164 250 0.31
165 287 0.35
166 30 0.04
167 94 0.12
168 71 0.09
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (164 bp):
GAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCA
ACATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTCTGAGTTCGACTACGCTCAGCT
CAAGGCACATCATTTGCAGCATAACTTAAGTCAA
Found at i:713574 original size:36 final size:36
Alignment explanation
Indices: 713451--713686 Score: 195
Period size: 36 Copynumber: 6.6 Consensus size: 36
713441 CAAAAATAAG
* * * *
713451 TATATATTATATAGTTTTTGAAAACGTTTTTAAAATC
1 TATATAATATATAGTTTTT-AAAACATTTTGAAAATA
* * * * *
713488 TATATAGTATATGGTTTTAAAAAATATTTTGAAAACATT
1 TATATAATATATAGTTTT-TAAAACATTTTG-AAA-ATA
* * *
713527 TATATATTATATTGTTTTTAAAACATTTTGAAAGTA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATA
713563 TATATAATATATAGTTTTTAAAACATTTT-AAAA-A
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATA
* *
713597 CATAT-AT-TATA-----TAAAACATTTTTGAAAAAATT
1 TATATAATATATAGTTTTTAAAACA-TTTTG--AAAATA
* *
713629 TATATATTATATAGTTTTTAAAACATTTTGAAAGTA
1 TATATAATATATAGTTTTTAAAACATTTTGAAAATA
713665 TATATAATATATAG-TTTTAAAA
1 TATATAATATATAGTTTTTAAAA
713687 GCATATATTA
Statistics
Matches: 161, Mismatches: 23, Indels: 32
0.75 0.11 0.15
Matches are distributed among these distances:
27 7 0.04
28 4 0.02
31 4 0.02
32 8 0.05
33 3 0.02
34 9 0.06
35 11 0.07
36 45 0.28
37 27 0.17
38 18 0.11
39 25 0.16
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAACATTTTGAAAATA
Found at i:713767 original size:31 final size:31
Alignment explanation
Indices: 713729--713797 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
713719 TTATATATAA
*
713729 TATATAATTTTCTAAAAACA-TTTTTGAAAAC
1 TATATAATTTT-TAAAAACATTTTTTAAAAAC
* *
713760 TATATAA-TTTTGAAAACATTTTTTAAAAAG
1 TATATAATTTTTAAAAACATTTTTTAAAAAC
713790 TATATAAT
1 TATATAAT
713798 ATATAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 19 0.58
31 7 0.21
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (31 bp):
TATATAATTTTTAAAAACATTTTTTAAAAAC
Found at i:715130 original size:19 final size:18
Alignment explanation
Indices: 715103--715138 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
715093 ACCCTTTACT
*
715103 TTTTGTTTTATTCATTTTA
1 TTTTCTTTTATT-ATTTTA
715122 TTTTCTTTTATTATTTT
1 TTTTCTTTTATTATTTT
715139 CTTGTATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.14, C:0.06, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTCTTTTATTATTTTA
Found at i:715137 original size:13 final size:13
Alignment explanation
Indices: 715119--715162 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
715109 TTTATTCATT
715119 TTATTTTCTTTTA
1 TTATTTTCTTTTA
*
715132 TTATTTTCTTGTA
1 TTATTTTCTTTTA
715145 TTATTTT-TGTTTA
1 TTATTTTCT-TTTA
715158 TTATT
1 TTATT
715163 ATTATTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 1 0.04
13 27 0.96
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.75
Consensus pattern (13 bp):
TTATTTTCTTTTA
Found at i:715172 original size:26 final size:26
Alignment explanation
Indices: 715118--715179 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 26
715108 TTTTATTCAT
*
715118 TTTATTTTCTTTTATTATTTTCTTGTA
1 TTTATTTT-TTTTATTATTTTATTGTA
715145 -TTATTTTTGTTTATTATTATTATT-TA
1 TTTATTTTT-TTTATTATT-TTATTGTA
715171 TTTATTTTT
1 TTTATTTTT
715180 ACTAACCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 18 0.58
27 12 0.39
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (26 bp):
TTTATTTTTTTTATTATTTTATTGTA
Found at i:719045 original size:12 final size:12
Alignment explanation
Indices: 719025--719060 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
719015 ATTAAAAGTC
*
719025 TTAAGTTTATAA
1 TTAAATTTATAA
719037 TTAAATTTATAA
1 TTAAATTTATAA
*
719049 TTATATTTATAA
1 TTAAATTTATAA
719061 GATATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
TTAAATTTATAA
Found at i:720416 original size:28 final size:25
Alignment explanation
Indices: 720344--720419 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
720334 ATGTCAAAGA
* *
720344 GTATTATATTATTTTTAATTTCAAAT
1 GTATTTTATTATTTTT-ATTTAAAAT
*
720370 GTATTTT-TTATGTTT-TTTAAAAT
1 GTATTTTATTATTTTTATTTAAAAT
720393 AAGTATTTGTATTATTTTTATTTAAAA
1 --GTATTT-TATTATTTTTATTTAAAA
720420 ATCTCAATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
23 7 0.17
25 13 0.32
26 7 0.17
27 7 0.17
28 7 0.17
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.59
Consensus pattern (25 bp):
GTATTTTATTATTTTTATTTAAAAT
Found at i:721505 original size:15 final size:15
Alignment explanation
Indices: 721485--721632 Score: 163
Period size: 15 Copynumber: 9.5 Consensus size: 15
721475 TAATAAGGTT
721485 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
721500 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
721515 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
*
721530 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
* *
721545 AATTATTATAAAATA
1 ATTTATTTTAAAATA
*
721560 AATTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
721575 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
721594 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
721612 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
721626 ATTTATT
1 ATTTATT
721633 AGTATGGATT
Statistics
Matches: 119, Mismatches: 6, Indels: 16
0.84 0.04 0.11
Matches are distributed among these distances:
14 14 0.12
15 85 0.71
16 4 0.03
17 2 0.02
18 1 0.01
19 1 0.01
20 2 0.02
21 4 0.03
22 6 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:721603 original size:22 final size:22
Alignment explanation
Indices: 721577--721677 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
721567 TTAAAATAAA
*
721577 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
721599 TTATTTTAAAATAATTTATTTAAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * *
721623 ATAATTTATTAGTATGGATTGAT
1 TTATTTTA-AAATATGGATTGAT
721646 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
721668 TTATTTTAAA
1 TTATTTTAAA
721678 TAATTTATTA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:721728 original size:112 final size:111
Alignment explanation
Indices: 721612--721910 Score: 546
Period size: 112 Copynumber: 2.7 Consensus size: 111
721602 TTTTAAAATA
721612 ATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTT-AAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
*
721677 ATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGATTG
65 ATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGAATTG
*
721724 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGTTTTATTTTAA
1 ATTTA-TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
721789 ATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGAATTG
65 ATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGAATTG
721836 ATTTATTTAAATAATTTATTAGTATGGATT-ACTTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTAAATAATTTATTAGTATGGATTGA-TTTATTTTAAAATATGGATTGATTTATTTTAA
721900 ATAATTTATTA
65 ATAATTTATTA
721911 TTGTAGTTGT
Statistics
Matches: 182, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
110 1 0.01
111 67 0.37
112 111 0.61
113 3 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (111 bp):
ATTTATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAA
TAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGAATTG
Found at i:721744 original size:58 final size:54
Alignment explanation
Indices: 721612--721910 Score: 422
Period size: 54 Copynumber: 5.4 Consensus size: 54
721602 TTTTAAAATA
*
721612 ATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
***
721666 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
721724 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *** *
721778 TTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTATTGTAGTTGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
721836 ATTTA-TTTAAATAATTTATTAGTATGGATT-ACTTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTTATTTTAAAATATGGATTG
721889 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
721911 TTGTAGTTGT
Statistics
Matches: 218, Mismatches: 17, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
53 13 0.06
54 99 0.45
55 6 0.03
56 8 0.04
57 34 0.16
58 58 0.27
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:721772 original size:22 final size:22
Alignment explanation
Indices: 721747--721789 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
721737 AATTTATTAG
721747 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
721769 TATGGATTGTTTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
721790 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:721883 original size:22 final size:22
Alignment explanation
Indices: 721858--721900 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
721848 AATTTATTAG
721858 TATGGATT-ACTTTATTTTAAAA
1 TATGGATTGA-TTTATTTTAAAA
721880 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
721901 TAATTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:723065 original size:18 final size:18
Alignment explanation
Indices: 723038--723079 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
723028 ATTAATATTA
*
723038 TATTTATATTCGT-TTGTT
1 TATTTATATTAGTATT-TT
*
723056 TATTTTTATTAGTATTTT
1 TATTTATATTAGTATTTT
723074 TATTTA
1 TATTTA
723080 ATTTATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (18 bp):
TATTTATATTAGTATTTT
Found at i:724196 original size:20 final size:21
Alignment explanation
Indices: 724171--724263 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
724161 TTTTCCCAAT
*
724171 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
724191 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
724212 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
724232 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
724253 TCGCAATGCGA
1 TCGCAATGCGA
724264 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:724278 original size:41 final size:41
Alignment explanation
Indices: 724171--724263 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
724161 TTTTCCCAAT
724171 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
724212 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
724253 TCGCAATGCGA
1 TCGCAATGCGA
724264 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:724331 original size:20 final size:20
Alignment explanation
Indices: 724306--724362 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
724296 GCAACGAGAT
*
724306 ACTTTCGTAACGCGATACTG
1 ACTTTCGCAACGCGATACTG
*
724326 ACTTTCGCAACGCGATTCTG
1 ACTTTCGCAACGCGATACTG
*
724346 ACTTTCACAACGCGATA
1 ACTTTCGCAACGCGATA
724363 ATACATAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (20 bp):
ACTTTCGCAACGCGATACTG
Found at i:724598 original size:20 final size:21
Alignment explanation
Indices: 724553--724600 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
724543 TCTCTCACCC
724553 ATCTCCGACGAAATCCGTCCCT
1 ATCTCCGACGAAATCCGT-CCT
*
724575 ATCTCCGGCGAAATCCGT-CT
1 ATCTCCGACGAAATCCGTCCT
724595 ATCTCC
1 ATCTCC
724601 ATCTCTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 8 0.32
22 17 0.68
ACGTcount: A:0.21, C:0.40, G:0.15, T:0.25
Consensus pattern (21 bp):
ATCTCCGACGAAATCCGTCCT
Found at i:724877 original size:20 final size:20
Alignment explanation
Indices: 724818--724881 Score: 83
Period size: 20 Copynumber: 3.2 Consensus size: 20
724808 GCGATTTTAG
*
724818 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
*
724838 ATTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
724858 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
724878 TTTC
1 TTTC
724882 AGAAACTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.16, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:726222 original size:18 final size:18
Alignment explanation
Indices: 726201--726245 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
726191 TCCACTTTGG
*
726201 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
726219 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
726237 GAGCCATCA
1 GAGCCATCA
726246 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:726752 original size:20 final size:20
Alignment explanation
Indices: 726727--726772 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
726717 TAGTTTACTT
726727 TCGCAACACAAAAATGACTA
1 TCGCAACACAAAAATGACTA
* ** *
726747 TCGCAACGCGGAAATGGCTA
1 TCGCAACACAAAAATGACTA
726767 TCGCAA
1 TCGCAA
726773 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACACAAAAATGACTA
Found at i:726781 original size:19 final size:20
Alignment explanation
Indices: 726738--726793 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
726728 CGCAACACAA
726738 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
726758 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
726777 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
726794 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:726801 original size:14 final size:14
Alignment explanation
Indices: 726782--726839 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
726772 ATGCGAAATG
726782 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
726796 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
*
726812 ATGAAATCGTAACGAC
1 A--AAATCGCAACGAC
726828 AAAATCGCAACG
1 AAAATCGCAACG
726840 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:726808 original size:33 final size:33
Alignment explanation
Indices: 726766--726856 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
726756 GGAAATGGCT
726766 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
726799 ATCGCAATGCGAAATG-AAATCGTAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
726831 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
726857 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:726892 original size:14 final size:14
Alignment explanation
Indices: 726873--726930 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
726863 TTGTGTTTCG
726873 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
726887 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
726903 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
726919 CGTTGCGATTTT
1 CGTTGCGATTTT
726931 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:726911 original size:32 final size:33
Alignment explanation
Indices: 726868--726946 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
726858 GCGATTTGTG
*
726868 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
726900 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
726933 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
726947 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 26 0.58
33 19 0.42
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:726945 original size:19 final size:19
Alignment explanation
Indices: 726889--726988 Score: 77
Period size: 19 Copynumber: 5.5 Consensus size: 19
726879 GATTTTGTCG
726889 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
726907 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
726921 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*** *
726940 TTGCGATAGCCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
** *
726960 TTGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
726979 TTGCGATTTT
1 TTGCGATTTT
726989 AAGTTTCGTG
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
14 6 0.09
15 3 0.04
16 4 0.06
17 4 0.06
18 9 0.13
19 24 0.36
20 17 0.25
ACGTcount: A:0.14, C:0.21, G:0.22, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:726965 original size:20 final size:19
Alignment explanation
Indices: 726931--726985 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
726921 TTGCGATTTT
*
726931 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
726950 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
726970 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
726986 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:728867 original size:14 final size:14
Alignment explanation
Indices: 728848--728883 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
728838 ATTGTTTAAT
728848 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
728862 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
728876 TGATTTGT
1 TGATTTGT
728884 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:729059 original size:20 final size:20
Alignment explanation
Indices: 729034--729091 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
729024 TCGCATTGCG
* *
729034 ATTTTCTCGTTGCAATAGCC
1 ATTTTCGCGTTGCGATAGCC
729054 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
729074 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
729092 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:730155 original size:24 final size:24
Alignment explanation
Indices: 730128--730181 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
730118 GTATTCGAAA
* * *
730128 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTAAATACACGGAC
*
730152 TTTGATATTGGTAAATACACGGAT
1 TTTGATATTGGTAAATACACGGAC
730176 TTTGAT
1 TTTGAT
730182 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTAAATACACGGAC
Found at i:730373 original size:12 final size:12
Alignment explanation
Indices: 730356--730380 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
730346 ATATAATCCT
730356 GAAGAAGAAAAA
1 GAAGAAGAAAAA
730368 GAAGAAGAAAAA
1 GAAGAAGAAAAA
730380 G
1 G
730381 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:732694 original size:19 final size:19
Alignment explanation
Indices: 732672--732802 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
732662 GGAAATTACT
732672 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
732691 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
732705 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
732724 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
732738 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
732757 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
732771 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
732790 ATCGCAACGCGAA
1 ATCGCAATGCGAA
732803 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:732714 original size:33 final size:33
Alignment explanation
Indices: 732672--732798 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
732662 GGAAATTACT
732672 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
732705 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
732737 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
732771 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
732799 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:732779 original size:66 final size:66
Alignment explanation
Indices: 732673--732805 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
732663 GAAATTACTA
*
732673 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
732738 T
66 T
*
732739 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
732804 T
66 T
732805 T
1 T
732806 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:732820 original size:19 final size:19
Alignment explanation
Indices: 732798--732839 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
732788 AAATCGCAAC
732798 GCGAATTTAATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
* *
732817 GCGATTTTCATTTCGCGTT
1 GCGAATTTAATTTCGCGTT
732836 GCGA
1 GCGA
732840 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (19 bp):
GCGAATTTAATTTCGCGTT
Found at i:732840 original size:19 final size:19
Alignment explanation
Indices: 732807--732873 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
732797 CGCGAATTTA
732807 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
732826 ATTTCGCGTTGCGA--TTC
1 ATTTCGCGTTGCGATTTTC
*
732843 ---TCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTC
*
732859 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
732874 AGTACTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
14 10 0.25
16 3 0.08
17 3 0.08
19 24 0.60
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (19 bp):
ATTTCGCGTTGCGATTTTC
Found at i:732999 original size:14 final size:14
Alignment explanation
Indices: 732980--733016 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
732970 CATCAATTAA
732980 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
732994 ACAAATCACCTTTT
1 ACAAATCAACTTTT
733008 ACAAATCAA
1 ACAAATCAA
733017 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:734438 original size:21 final size:21
Alignment explanation
Indices: 734372--734438 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
734362 GTGAATCGGG
*
734372 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
734392 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
734414 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
734435 CTCT
1 CTCT
734439 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:734457 original size:42 final size:41
Alignment explanation
Indices: 734372--734494 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
734362 GTGAATCGGG
* * * *
734372 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
734414 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
734456 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
734495 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:734889 original size:91 final size:90
Alignment explanation
Indices: 734710--734896 Score: 286
Period size: 91 Copynumber: 2.0 Consensus size: 90
734700 ATATTTCAAA
*
734710 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTA
*
734775 GCAGAATTGGTAGCAACCGAATAAATTT
63 GCAGAATTGGAAGCAACCGAATAAATTT
734803 ACTTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAG
1 ACTTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAG
* *
734867 CAGTATTGGAAGCAATCGAATAAATTT
64 CAGAATTGGAAGCAACCGAATAAATTT
734894 ACT
1 ACT
734897 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 40 0.45
93 21 0.24
95 27 0.31
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
GAATTGGAAGCAACCGAATAAATTT
Found at i:736618 original size:20 final size:19
Alignment explanation
Indices: 736583--736637 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
736573 TCTTTTGGTT
*
736583 GAAATGAAAATTGCAACGA
1 GAAATGAAAATCGCAACGA
* *
736602 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGA
736622 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
736638 TGCGATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.49, C:0.15, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:736633 original size:19 final size:19
Alignment explanation
Indices: 736583--736642 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
736573 TCTTTTGGTT
* *
736583 GAAATGAAAATTGCAACGA
1 GAAATGAAAATCGCAACGC
*
736602 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
736622 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
736641 GA
1 GA
736643 TTTTGGTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 19 0.54
20 16 0.46
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:736660 original size:19 final size:19
Alignment explanation
Indices: 736638--736682 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
736628 AAAATCGCAA
*
736638 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
* *
736657 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
736676 TGCGATT
1 TGCGATT
736683 CTCTCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.16, G:0.27, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:737265 original size:20 final size:20
Alignment explanation
Indices: 737236--737369 Score: 162
Period size: 20 Copynumber: 6.7 Consensus size: 20
737226 CGCTATGTAA
* *
737236 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* *
737256 ATCTCGTTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
737276 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
737297 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
737317 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
737337 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
737357 ATCGCATTGCGAT
1 ATCGCATTGCGAT
737370 TTTTCCAATT
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
19 3 0.03
20 84 0.82
21 12 0.12
22 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:738409 original size:22 final size:21
Alignment explanation
Indices: 738366--738409 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
738356 AAAAAGTTAC
* *
738366 CTAAAACATTATTATTTATAA
1 CTAAAACATAATGATTTATAA
*
738387 CTAAAACATCAATGATTTTTAA
1 CTAAAACAT-AATGATTTATAA
738409 C
1 C
738410 ATTTACGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (21 bp):
CTAAAACATAATGATTTATAA
Found at i:741445 original size:29 final size:29
Alignment explanation
Indices: 741410--741491 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
741400 AAACTAAATT
*
741410 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
741439 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
741468 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
741492 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:746213 original size:29 final size:29
Alignment explanation
Indices: 746178--746259 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
746168 AAACTAAATT
*
746178 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
746207 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
746236 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
746260 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:755074 original size:23 final size:22
Alignment explanation
Indices: 755014--755207 Score: 194
Period size: 23 Copynumber: 8.5 Consensus size: 22
755004 AACATTCTTC
755014 TTCTTCTTCTTCCATAAA-CATT
1 TTCTTCTTCTTCCATAAACCA-T
* * *
755036 TTTTTCTTTTTTCATAAACTCAT
1 TTCTTCTTCTTCCATAAAC-CAT
*
755059 TGCTTCTTCTTCCATAAACCTAT
1 TTCTTCTTCTTCCATAAACC-AT
*
755082 TTCTTCTTCTTCCATAAACCTAC
1 TTCTTCTTCTTCCATAAACC-AT
*
755105 TTCTTCTTCTTCCATAAATTCAT
1 TTCTTCTTCTTCCATAAA-CCAT
* * *
755128 TTCTTCCTCTTCAATAAACCCTT
1 TTCTTCTTCTTCCATAAA-CCAT
755151 TTCTTCTTCTTCCATAAACACAT
1 TTCTTCTTCTTCCATAAAC-CAT
* *
755174 TTATT-TTTTTCCATAAACCCAT
1 TTCTTCTTCTTCCATAAA-CCAT
*
755196 TTCTCCTTCTTC
1 TTCTTCTTCTTC
755208 AATTCGCCTG
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
22 34 0.24
23 104 0.74
24 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.01, T:0.49
Consensus pattern (22 bp):
TTCTTCTTCTTCCATAAACCAT
Found at i:756993 original size:48 final size:47
Alignment explanation
Indices: 756937--757128 Score: 188
Period size: 48 Copynumber: 4.0 Consensus size: 47
756927 TACTCCTCCG
* *
756937 CCACCATCTCCCTCA-CCCCCACCTCCTTACTATTACAAGTCTCCACCT
1 CCACCATCT-CCT-AGCCCCCACCACCTTACTACTACAAGTCTCCACCT
*
756985 CCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCTCCACCT
1 CCACCATCTCCTAG-CCCCCACCACCTTACTACTACAAGTCTCCACCT
* * * * *
757033 CCTCCCTCTACTAGTCCCCCACCGCCTTACTACTACAAATCTCCACCT
1 CCACCATCTCCTAG-CCCCCACCACCTTACTACTACAAGTCTCCACCT
* * * * * * * *
757081 CCACCCTCACCAAGTCCTCCGCCACCATACTATTACAAGTCACCACCT
1 CCACCATCTCCTAG-CCCCCACCACCTTACTACTACAAGTCTCCACCT
757129 TACTACTATG
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 118 0.97
ACGTcount: A:0.23, C:0.50, G:0.04, T:0.22
Consensus pattern (47 bp):
CCACCATCTCCTAGCCCCCACCACCTTACTACTACAAGTCTCCACCT
Found at i:757052 original size:96 final size:96
Alignment explanation
Indices: 756952--757128 Score: 264
Period size: 96 Copynumber: 1.8 Consensus size: 96
756942 ATCTCCCTCA
* * * * *
756952 CCCCCACCTCCTTACTATTACAAGTCTCCACCTCCACCATCTCCTAGTCCCCCACCACCATACTA
1 CCCCCACCGCCTTACTACTACAAATCTCCACCTCCACCATCACCAAGTCCCCCACCACCATACTA
*
757017 CTACAAGTCTCCACCTCCTCCCTCTACTAGT
66 CTACAAGTCACCACCTCCTCCCTCTACTAGT
* * *
757048 CCCCCACCGCCTTACTACTACAAATCTCCACCTCCACCCTCACCAAGTCCTCCGCCACCATACTA
1 CCCCCACCGCCTTACTACTACAAATCTCCACCTCCACCATCACCAAGTCCCCCACCACCATACTA
*
757113 TTACAAGTCACCACCT
66 CTACAAGTCACCACCT
757129 TACTACTATG
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 71 1.00
ACGTcount: A:0.24, C:0.49, G:0.05, T:0.23
Consensus pattern (96 bp):
CCCCCACCGCCTTACTACTACAAATCTCCACCTCCACCATCACCAAGTCCCCCACCACCATACTA
CTACAAGTCACCACCTCCTCCCTCTACTAGT
Found at i:757130 original size:69 final size:69
Alignment explanation
Indices: 757052--757197 Score: 175
Period size: 69 Copynumber: 2.1 Consensus size: 69
757042 ACTAGTCCCC
* * * * * *
757052 CACCGCCTTACTACTACAAATCTCCACCTCCACCCTCACCAAGTCCTCCGCCACCATACTATTAC
1 CACCACCTTACTACTACAAATCACCACCTCCACCATCACCAAGTCCCCCACCACCATACTACTAC
*
757117 AAGT
66 AAAT
** * * *
757121 CACCACCTTACTACTATGATTCACCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTAC
1 CACCACCTTACTACTACAAATCACCACCTCCACCATCACCAAGTCCCCCACCACCATACTACTAC
757186 AAAT
66 AAAT
*
757190 CTCCACCT
1 CACCACCT
757198 CCACCATCTC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (69 bp):
CACCACCTTACTACTACAAATCACCACCTCCACCATCACCAAGTCCCCCACCACCATACTACTAC
AAAT
Found at i:757150 original size:165 final size:165
Alignment explanation
Indices: 756979--757293 Score: 472
Period size: 165 Copynumber: 1.9 Consensus size: 165
756969 TTACAAGTCT
* * *
756979 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAGTCTCCACCTCCTCCCTCT-A
1 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAATCTCCACCTCCACCATCTCA
* * * *
757043 CT-AGTCCCCCACCGCCTTACTACTACAAATCTCCACCTCCACCCTCACCAAGTCCTCCGCCACC
66 CTCA--CCACCACCGCCATACTACTACAAATCTCCACCTCCACCCTCACCAAGTCCCCCACCACC
* *
757107 ATACTATTACAAGTCACCACCTTACTACTATGATTCA
129 ATACTACTACAAATCACCACCTTACTACTATGATTCA
*
757144 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAATCTCCACCTCCACCATCTCC
1 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAATCTCCACCTCCACCATCTCA
* * * *
757209 CTCACCACCACCTCCATACTATTACAAGTCTCCACCTCCACCCTCACCGAGTCCCCCACCACCAT
66 CTCACCACCACCGCCATACTACTACAAATCTCCACCTCCACCCTCACCAAGTCCCCCACCACCAT
757274 ACTACTACAAATCACCACCT
131 ACTACTACAAATCACCACCT
757294 CCACCATCTC
Statistics
Matches: 134, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
165 131 0.98
166 2 0.01
167 1 0.01
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (165 bp):
CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAATCTCCACCTCCACCATCTCA
CTCACCACCACCGCCATACTACTACAAATCTCCACCTCCACCCTCACCAAGTCCCCCACCACCAT
ACTACTACAAATCACCACCTTACTACTATGATTCA
Found at i:757173 original size:48 final size:48
Alignment explanation
Indices: 757121--757394 Score: 286
Period size: 48 Copynumber: 5.7 Consensus size: 48
757111 TATTACAAGT
* ** *
757121 CACCACCTTACTACTATGATTCACCACCTCCACCATCTCCTAGTCCCC
1 CACCACCATACTACTACAAATCACCACCTCCACCATCTCCTAGTCCCC
* *
757169 CACCACCATACTACTACAAATCTCCACCTCCACCATCTCCCTCA--CCAC
1 CACCACCATACTACTACAAATCACCACCTCCACCATCT-CCT-AGTCCCC
* * * * * * *
757217 CACCTCCATACTATTACAAGTCTCCACCTCCACCCTCACCGAGTCCCC
1 CACCACCATACTACTACAAATCACCACCTCCACCATCTCCTAGTCCCC
*
757265 CACCACCATACTACTACAAATCACCACCTCCACCATCTCCCTCA--CCAC
1 CACCACCATACTACTACAAATCACCACCTCCACCATCT-CCT-AGTCCCC
* * * * * * * *
757313 CACCTCCATACTATTACAAGTCTCCGCCTCCACCCTCACCGAGTCCCC
1 CACCACCATACTACTACAAATCACCACCTCCACCATCTCCTAGTCCCC
757361 CACCACCATACTACTACAAATCACCACCTCCACC
1 CACCACCATACTACTACAAATCACCACCTCCACC
757395 TCCCTACATT
Statistics
Matches: 183, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
46 2 0.01
47 4 0.02
48 170 0.93
49 5 0.03
50 2 0.01
ACGTcount: A:0.27, C:0.50, G:0.03, T:0.20
Consensus pattern (48 bp):
CACCACCATACTACTACAAATCACCACCTCCACCATCTCCTAGTCCCC
Found at i:757202 original size:96 final size:95
Alignment explanation
Indices: 757144--757394 Score: 439
Period size: 96 Copynumber: 2.6 Consensus size: 95
757134 CTATGATTCA
* * * *
757144 CCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTACAAATCTCCACCTCCACCATCTCC
1 CCACCTCCACCCTCACCGAGTCCCCCACCACCATACTACTACAAATCACCACCTCCACCATCT-C
757209 CTCACCACCACCTCCATACTATTACAAGTCT
65 CTCACCACCACCTCCATACTATTACAAGTCT
757240 CCACCTCCACCCTCACCGAGTCCCCCACCACCATACTACTACAAATCACCACCTCCACCATCTCC
1 CCACCTCCACCCTCACCGAGTCCCCCACCACCATACTACTACAAATCACCACCTCCACCATCT-C
757305 CTCACCACCACCTCCATACTATTACAAGTCT
65 CTCACCACCACCTCCATACTATTACAAGTCT
*
757336 CCGCCTCCACCCTCACCGAGTCCCCCACCACCATACTACTACAAATCACCACCTCCACC
1 CCACCTCCACCCTCACCGAGTCCCCCACCACCATACTACTACAAATCACCACCTCCACC
757395 TCCCTACATT
Statistics
Matches: 150, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 150 1.00
ACGTcount: A:0.26, C:0.52, G:0.03, T:0.19
Consensus pattern (95 bp):
CCACCTCCACCCTCACCGAGTCCCCCACCACCATACTACTACAAATCACCACCTCCACCATCTCC
TCACCACCACCTCCATACTATTACAAGTCT
Found at i:757226 original size:117 final size:117
Alignment explanation
Indices: 757004--757245 Score: 304
Period size: 117 Copynumber: 2.1 Consensus size: 117
756994 CCTAGTCCCC
* * * * * *
757004 CACCACCATACTACTACAAGTCTCCACCTCCTCCCTCTACTAGTCCCCCACCGCCTTACTACTAC
1 CACCACCTTACTACTACAAGTCACCACCTCCACCATCTACTAGTCCCCCACCACCATACTACTAC
* ** * *
757069 AAATCTCCACCTCCACCCTCACCAAGTCCTCCGCCACCATACTATTACAAGT
66 AAATCTCCACCTCCACCATCACCAACACCACCACCACCATACTATTACAAGT
** * *
757121 CACCACCTTACTACTATGATTCACCACCTCCACCATCTCCTAGTCCCCCACCACCATACTACTAC
1 CACCACCTTACTACTACAAGTCACCACCTCCACCATCTACTAGTCCCCCACCACCATACTACTAC
* ** *
757186 AAATCTCCACCTCCACCATCTCCCTCACCACCACCTCCATACTATTACAAGT
66 AAATCTCCACCTCCACCATCACCAACACCACCACCACCATACTATTACAAGT
*
757238 CTCCACCT
1 CACCACCT
757246 CCACCCTCAC
Statistics
Matches: 105, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
117 105 1.00
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.23
Consensus pattern (117 bp):
CACCACCTTACTACTACAAGTCACCACCTCCACCATCTACTAGTCCCCCACCACCATACTACTAC
AAATCTCCACCTCCACCATCACCAACACCACCACCACCATACTATTACAAGT
Found at i:757270 original size:144 final size:143
Alignment explanation
Indices: 757121--757394 Score: 338
Period size: 144 Copynumber: 1.9 Consensus size: 143
757111 TATTACAAGT
* ** * *
757121 CACCACCTTACTACTATGATTCACCACCTCCACCATCT-CCT-AGTCCCCCACCACCATACTACT
1 CACCACCATACTACTACAAATCACCACCTCCACCATCTCCCTCA--CCACCACCACCATACTACT
* * * * *
757184 ACAAATCTCCACCTCCACCATCTCC-CTCACCACCACCTCCATACTATTACAAGTCTCCACCTCC
64 ACAAATCTCCACCTCCACCATCACCACTC-CC-CCACCACCATACTACTACAAATCACCACCTCC
757248 ACCCTCACCGAGTCCCC
127 ACCCTCACCGAGTCCCC
* *
757265 CACCACCATACTACTACAAATCACCACCTCCACCATCTCCCTCACCACCACCTCCATACTATTAC
1 CACCACCATACTACTACAAATCACCACCTCCACCATCTCCCTCACCACCACCACCATACTACTAC
* * * *
757330 AAGTCTCCGCCTCCACCCTCACCGAGTCCCCCACCACCATACTACTACAAATCACCACCTCCACC
66 AAATCTCCACCTCCACCATCACC-ACTCCCCCACCACCATACTACTACAAATCACCACCTCCACC
757395 TCCCTACATT
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
144 102 0.93
145 5 0.05
146 3 0.03
ACGTcount: A:0.27, C:0.50, G:0.03, T:0.20
Consensus pattern (143 bp):
CACCACCATACTACTACAAATCACCACCTCCACCATCTCCCTCACCACCACCACCATACTACTAC
AAATCTCCACCTCCACCATCACCACTCCCCCACCACCATACTACTACAAATCACCACCTCCACCC
TCACCGAGTCCCC
Found at i:757496 original size:48 final size:48
Alignment explanation
Indices: 757438--757714 Score: 202
Period size: 48 Copynumber: 5.8 Consensus size: 48
757428 ACAAAGCTCA
* * * * *
757438 CCACCGCCATACTATTATAAGTCTCCACCTCCACCCTCTCCTAGTCCC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* * * * *
757486 CCGCCACCATATTACTACAAGTCAACGCCCCCACCATCTCC-A-TCACC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTC-CC
* * * * * * * *
757533 ACCACCACCTTACTATTACAAGTCACCTCCACCTCCTTCACCTAGTCCA
1 -CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* * * *
757582 CCACCTCCGTACTACTACAAGTCACCACCTCTACCATCTCCTAGTCCA
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
* * * * *
757630 CCACCTCCATACTACTACAAGTCTCCACCACCTCCTTCTCC--GTCACC
1 CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTC-CC
* * * * *
757677 ACCACCACCTTATTATTATAAGTCACCCCCTCCACCAT
1 -CCACCACCATACTACTACAAGTCACCACCTCCACCAT
757715 ATACTCATTA
Statistics
Matches: 176, Mismatches: 47, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
46 5 0.03
47 4 0.02
48 163 0.93
49 2 0.01
50 2 0.01
ACGTcount: A:0.25, C:0.47, G:0.05, T:0.23
Consensus pattern (48 bp):
CCACCACCATACTACTACAAGTCACCACCTCCACCATCTCCTAGTCCC
Found at i:757572 original size:144 final size:144
Alignment explanation
Indices: 757404--757712 Score: 368
Period size: 144 Copynumber: 2.1 Consensus size: 144
757394 CTCCCTACAT
* * *
757404 TTACAAGTCACCACCACCACCTTCACAAAG-CTCACCACCGCCATACTATTATAAGTCTCCACCT
1 TTACAAGTCACCACCACCACCTTCACAAAGTC-CACCACCGCCATACTACTACAAGTCACCACCT
* * * * * *
757468 CCACCCTCTCCTAGTCCCCCGCCACCATATTACTACAAGTCAACGCCCCCACCATCTCCATCACC
65 CCACCATCTCCTAGTCCACCACCACCATACTACTACAAGTCAACACCACCACCATCTCCATCACC
757533 ACCACCACCTTACTA
130 ACCACCACCTTACTA
* * ** * *
757548 TTACAAGTCACCTCCACCTCCTTCACCTAGTCCACCACCTCCGTACTACTACAAGTCACCACCTC
1 TTACAAGTCACCACCACCACCTTCACAAAGTCCACCACCGCCATACTACTACAAGTCACCACCTC
* * ** * * *
757613 TACCATCTCCTAGTCCACCACCTCCATACTACTACAAGTCTCCACCACCTCCTTCTCCGTCACCA
66 CACCATCTCCTAGTCCACCACCACCATACTACTACAAGTCAACACCACCACCATCTCCATCACCA
*
757678 CCACCACCTTATTA
131 CCACCACCTTACTA
* * *
757692 TTATAAGTCACCCCCTCCACC
1 TTACAAGTCACCACCACCACC
757713 ATATACTCAT
Statistics
Matches: 137, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
144 136 0.99
145 1 0.01
ACGTcount: A:0.26, C:0.47, G:0.05, T:0.22
Consensus pattern (144 bp):
TTACAAGTCACCACCACCACCTTCACAAAGTCCACCACCGCCATACTACTACAAGTCACCACCTC
CACCATCTCCTAGTCCACCACCACCATACTACTACAAGTCAACACCACCACCATCTCCATCACCA
CCACCACCTTACTA
Found at i:757598 original size:51 final size:47
Alignment explanation
Indices: 757390--757667 Score: 168
Period size: 48 Copynumber: 5.8 Consensus size: 47
757380 ATCACCACCT
* * * **
757390 CCACCTCCCTACATTTACAAGTCACCACCACCACCTTCACAAAG-CTCA
1 CCACCTCCATAC-TATACAAGTCACCACCACCTCCTTCACCTAGTC-CA
* * * * * * * *
757438 CCACCGCCATACTATTATAAGTCTCCACCTCCACCCTCTCCTAGTCCC
1 CCACCTCCATACTA-TACAAGTCACCACCACCTCCTTCACCTAGTCCA
* * * * * * * * *
757486 CCGCCACCATATTACTACAAGTCAACGCCCCCACCATCTCC-A-TCACCA
1 CCACCTCCATACTA-TACAAGTCACCACCACCTCCTTCACCTAGT--CCA
* * *
757534 CCACCACCTTACTATTACAAGTCACCTCCACCTCCTTCACCTAGTCCA
1 CCACCTCCATACTA-TACAAGTCACCACCACCTCCTTCACCTAGTCCA
* * * *
757582 CCACCTCCGTACTACTACAAGTCACCACC-TCTACCATCTCCTAGTCCA
1 CCACCTCCATACTA-TACAAGTCACCACCACCT-CCTTCACCTAGTCCA
*
757630 CCACCTCCATACTACTACAAGTCTCCACCACCTCCTTC
1 CCACCTCCATACTA-TACAAGTCACCACCACCTCCTTC
757668 TCCGTCACCA
Statistics
Matches: 179, Mismatches: 43, Indels: 16
0.75 0.18 0.07
Matches are distributed among these distances:
46 1 0.01
47 4 0.02
48 169 0.94
49 4 0.02
50 1 0.01
ACGTcount: A:0.26, C:0.47, G:0.05, T:0.22
Consensus pattern (47 bp):
CCACCTCCATACTATACAAGTCACCACCACCTCCTTCACCTAGTCCA
Found at i:757612 original size:24 final size:23
Alignment explanation
Indices: 757580--757658 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
757570 TCACCTAGTC
757580 CACCACCTCCGTACTACTACAAGT
1 CACCACCTCC-TACTACTACAAGT
* * *
757604 CACCACCT-CTACCATCTCCTAGT
1 CACCACCTCCTACTA-CTACAAGT
757627 CCACCACCTCCATACTACTACAAGT
1 -CACCACCTCC-TACTACTACAAGT
*
757652 CTCCACC
1 CACCACC
757659 ACCTCCTTCT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
22 4 0.09
23 7 0.16
24 22 0.50
25 7 0.16
26 4 0.09
ACGTcount: A:0.27, C:0.47, G:0.05, T:0.22
Consensus pattern (23 bp):
CACCACCTCCTACTACTACAAGT
Found at i:757700 original size:96 final size:95
Alignment explanation
Indices: 757405--757714 Score: 256
Period size: 96 Copynumber: 3.2 Consensus size: 95
757395 TCCCTACATT
* * * * *
757405 TACAAGTCACCACCACCACC-T-TCACAAAGCTCACCACCGCCATACTATTATAAGTCTCCACCT
1 TACAAGTCACCACCTCCACCATCTC-CATA-C-CACCACCACCATACTATTACAAGTCTCCACCA
* * *
757468 CCACCCTCTCCTAGTC-CC-CCGCCACCATATTAC
63 CCTCCTTCTCC--GTCACCACCACCACCATATTAC
* * * * * *
757501 TACAAGTCAACGCCCCCACCATCTCCATCACCACCACCACCTTACTATTACAAGTCACCTCCACC
1 TACAAGTCACCACCTCCACCATCTCCAT-ACCACCACCACCATACTATTACAAGTCTCCACCACC
* * * *
757566 TCCTTCACC-T-AGTCCACCACCTCCGTACTAC
65 TCCTTCTCCGTCA--CCACCACCACCATATTAC
* * *
757597 TACAAGTCACCACCTCTACCATCTCC-TAGTCCACCACCTCCATACTACTACAAGTCTCCACCAC
1 TACAAGTCACCACCTCCACCATCTCCATA--CCACCACCACCATACTATTACAAGTCTCCACCAC
* *
757661 CTCCTTCTCCGTCACCACCACCACCTTATTAT
64 CTCCTTCTCCGTCACCACCACCACCATATTAC
* *
757693 TATAAGTCACCCCCTCCACCAT
1 TACAAGTCACCACCTCCACCAT
757715 ATACTCATTA
Statistics
Matches: 169, Mismatches: 34, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
93 1 0.01
94 1 0.01
95 3 0.02
96 155 0.92
97 5 0.03
98 4 0.02
ACGTcount: A:0.26, C:0.46, G:0.05, T:0.22
Consensus pattern (95 bp):
TACAAGTCACCACCTCCACCATCTCCATACCACCACCACCATACTATTACAAGTCTCCACCACCT
CCTTCTCCGTCACCACCACCACCATATTAC
Found at i:762815 original size:36 final size:37
Alignment explanation
Indices: 762740--762824 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
762730 ATCCCATTAT
* *
762740 CATTTTTC-AACAAACATCTACCAAACTTTGAAAACC
1 CATTTTTCAAAGAAACATCTACCAAACTATGAAAACC
*
762776 CATTTTTCAAAGAAACATTTACCAAACTATGAAAA-C
1 CATTTTTCAAAGAAACATCTACCAAACTATGAAAACC
762812 CATTTTCTCAAAG
1 CATTTT-TCAAAG
762825 TTGGTTGCCA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 15 0.34
37 29 0.66
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTATGAAAACC
Found at i:771713 original size:20 final size:20
Alignment explanation
Indices: 771690--771729 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
771680 ATTTTTAAAA
771690 TATTAAA-ATAATTTATTTAT
1 TATTAAATATAATTT-TTTAT
*
771710 TATTAAATATTATTTTTTAT
1 TATTAAATATAATTTTTTAT
771730 AATTTTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTAAATATAATTTTTTAT
Found at i:771834 original size:26 final size:28
Alignment explanation
Indices: 771797--771853 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
771787 AATTATATTA
771797 ATTATTTATT-AAAGTAAT-AGTACTAT
1 ATTATTTATTAAAAGTAATAAGTACTAT
* *
771823 ATTATATT-TTAAAAGTATTAATTACTAT
1 ATTAT-TTATTAAAAGTAATAAGTACTAT
771851 ATT
1 ATT
771854 TTAATATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 7 0.27
27 9 0.35
28 10 0.38
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (28 bp):
ATTATTTATTAAAAGTAATAAGTACTAT
Found at i:771931 original size:19 final size:19
Alignment explanation
Indices: 771863--771943 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
771853 TTTAATATCT
771863 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
771882 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
771901 TGTATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
771921 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
771939 -TATTA
1 TTATTA
771944 TTTCTATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:772040 original size:30 final size:27
Alignment explanation
Indices: 771991--772064 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 27
771981 TAATTTATTA
771991 TATATTATTAAAATAAAAATATAATATCT
1 TATATTATTAAAATAAAAATATAATA--T
*
772020 TATATTATTATAATTAAAAATATAATAT
1 TATATTATTA-AAATAAAAATATAATAT
772048 TATATTAATTTAAAATA
1 TATATT-A-TTAAAATA
772065 TTAATAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 7 0.17
29 15 0.38
30 18 0.45
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (27 bp):
TATATTATTAAAATAAAAATATAATAT
Found at i:772056 original size:23 final size:24
Alignment explanation
Indices: 772021--772070 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
772011 ATAATATCTT
772021 ATATTATTATAATTAAAAATA-TA
1 ATATTATTATAATTAAAAATATTA
*
772044 ATATTA-TATTAATTTAAAATATTA
1 ATATTATTA-TAATTAAAAATATTA
772068 ATA
1 ATA
772071 AATATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 2 0.08
23 17 0.71
24 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATTATTATAATTAAAAATATTA
Found at i:772075 original size:23 final size:23
Alignment explanation
Indices: 772028--772087 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
772018 CTTATATTAT
* *
772028 TATAATTAAAAATA-TAATATTA
1 TATAATTTAAAATATTAATATAA
772050 TATTAATTTAAAATATTAATA-AA
1 TA-TAATTTAAAATATTAATATAA
*
772073 TAT-ATTTTAAATATT
1 TATAATTTAAAATATT
772088 TGGATTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 11 0.33
22 3 0.09
23 14 0.42
24 5 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATAATTTAAAATATTAATATAA
Found at i:773988 original size:32 final size:32
Alignment explanation
Indices: 773947--774011 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
773937 ACTCCGGGCG
*
773947 ACCAAGGAGTGAGTGCGAGCTATCCATGGAGC
1 ACCAAGGAGTGAGTGCGAGCTATCCAGGGAGC
773979 ACCAAGGAGTGAGTGCGAGCTATCCAGGGAGC
1 ACCAAGGAGTGAGTGCGAGCTATCCAGGGAGC
774011 A
1 A
774012 TTGCATGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.35, T:0.14
Consensus pattern (32 bp):
ACCAAGGAGTGAGTGCGAGCTATCCAGGGAGC
Found at i:774173 original size:23 final size:23
Alignment explanation
Indices: 774143--774186 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
774133 GTGCATGCGT
774143 TGCATCCATAGCTGGGAGATTCC
1 TGCATCCATAGCTGGGAGATTCC
774166 TGCATCCATAGCTGGGAGATT
1 TGCATCCATAGCTGGGAGATT
774187 GCAGCCAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (23 bp):
TGCATCCATAGCTGGGAGATTCC
Found at i:774668 original size:21 final size:21
Alignment explanation
Indices: 774620--774668 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
774610 ACTAAAATTT
774620 AGTTAATTAGTTTGTTAGCATA
1 AGTT-ATTAGTTTGTTAGCATA
* **
774642 AATTATTAGTTTGTTAGTTTA
1 AGTTATTAGTTTGTTAGCATA
774663 AGTTAT
1 AGTTAT
774669 ATTATATTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (21 bp):
AGTTATTAGTTTGTTAGCATA
Found at i:774681 original size:28 final size:30
Alignment explanation
Indices: 774645--774707 Score: 112
Period size: 28 Copynumber: 2.2 Consensus size: 30
774635 TAGCATAAAT
774645 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
774673 TATTAGTTTGTTAGTTTAAGTTATATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATATTA
774703 TATTA
1 TATTA
774708 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 20 0.61
29 1 0.03
30 12 0.36
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (30 bp):
TATTAGTTTGTTAGTTTAAGTTATATATTA
Found at i:778663 original size:52 final size:49
Alignment explanation
Indices: 778602--778823 Score: 363
Period size: 49 Copynumber: 4.4 Consensus size: 49
778592 AATAATTATT
*
778602 TAGTAATGATTAGTAATAATGAAATTATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAAT-TAA--ATTATTATTAATATTTAATGATTTGG
*
778654 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATTAAATTATTATTAATATTTAATGATTTGG
*
778703 TAATAATGATTAGTAATAATTAAATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATTAAATTATTATTAATATTTAATGATTTGG
*
778752 TAGTAATGATTAGTAATAATTAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATTAAATTATTATTAATATTTAATGATTTGG
*
778801 TAGTAATGATTTAGTAATTATTA
1 TAGTAATGA-TTAGTAATAATTA
778824 GTAATAATGA
Statistics
Matches: 163, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
49 129 0.79
50 12 0.07
51 2 0.01
52 20 0.12
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATTAAATTATTATTAATATTTAATGATTTGG
Found at i:779047 original size:12 final size:12
Alignment explanation
Indices: 779025--779060 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
779015 TAACCATAAA
779025 AATAA-TTTAAT
1 AATAATTTTAAT
*
779036 AATGATTTTAAT
1 AATAATTTTAAT
779048 AATAATTTTAAT
1 AATAATTTTAAT
779060 A
1 A
779061 TTTAATGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.18
12 18 0.82
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
AATAATTTTAAT
Found at i:779071 original size:8 final size:8
Alignment explanation
Indices: 779054--779115 Score: 56
Period size: 8 Copynumber: 7.5 Consensus size: 8
779044 TAATAATAAT
779054 TTTAAT-A
1 TTTAATGA
779061 TTTAATGA
1 TTTAATGA
*
779069 TTTGATGA
1 TTTAATGA
779077 TTTAGTAATGA
1 -TT--TAATGA
779088 TTTTAAT-A
1 -TTTAATGA
779096 TTTAATGA
1 TTTAATGA
*
779104 TTTGATGA
1 TTTAATGA
779112 TTTA
1 TTTA
779116 GTAATGATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
7 12 0.26
8 20 0.43
9 6 0.13
11 8 0.17
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (8 bp):
TTTAATGA
Found at i:779085 original size:19 final size:19
Alignment explanation
Indices: 779063--779125 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
779053 TTTTAATATT
779063 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
*
779082 TAATGATTT--TAATATT--
1 TAATGATTTGATGAT-TTAG
779098 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTTAG
779117 TAATGATTT
1 TAATGATTT
779126 TAATATTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 9 0.24
17 5 0.14
18 5 0.14
19 18 0.49
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (19 bp):
TAATGATTTGATGATTTAG
Found at i:779089 original size:11 final size:11
Alignment explanation
Indices: 779073--779167 Score: 82
Period size: 11 Copynumber: 9.2 Consensus size: 11
779063 TAATGATTTG
779073 ATGATTTAGTA
1 ATGATTTAGTA
779084 ATGATTT--TA
1 ATGATTTAGTA
779093 AT-A-TT--TA
1 ATGATTTAGTA
779100 ATGATTT-G--
1 ATGATTTAGTA
779108 ATGATTTAGTA
1 ATGATTTAGTA
*
779119 ATGATTTTAATA
1 ATGA-TTTAGTA
*
779131 TTATGATTTAATA
1 --ATGATTTAGTA
779144 ATGATTTAGTA
1 ATGATTTAGTA
779155 ATGATTTAGTA
1 ATGATTTAGTA
779166 AT
1 AT
779168 AATCATTATA
Statistics
Matches: 73, Mismatches: 2, Indels: 18
0.78 0.02 0.19
Matches are distributed among these distances:
7 6 0.08
8 9 0.12
9 7 0.10
11 34 0.47
12 6 0.08
13 7 0.10
14 4 0.05
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (11 bp):
ATGATTTAGTA
Found at i:779093 original size:35 final size:34
Alignment explanation
Indices: 779072--779233 Score: 164
Period size: 35 Copynumber: 4.6 Consensus size: 34
779062 TTAATGATTT
779072 GATGATTTAGTAATGATTTTAATATTTAATGATTT
1 GATGATTTAGTAATGATTTTAATA-TTAATGATTT
779107 GATGATTTAGTAATGATTTTAATATT-ATGATTTAAT
1 GATGATTTAGTAATGATTTTAATATTAATGA-TT--T
* * * * *
779143 AATGATTTAGTAATGATTTAGTAATAATCATTATAAT
1 GATGATTTAGTAATGATTT--TAATATTAATGAT-TT
* * * *
779180 AATAATTTAATAATGACTTTAATATTTAATGATTT
1 GATGATTTAGTAATGATTTTAATA-TTAATGATTT
779215 GATGATTTAGTAATGATTT
1 GATGATTTAGTAATGATTT
779234 GATAATAATC
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
33 4 0.04
34 4 0.04
35 45 0.43
36 24 0.23
37 17 0.16
38 7 0.07
39 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.12, T:0.48
Consensus pattern (34 bp):
GATGATTTAGTAATGATTTTAATATTAATGATTT
Found at i:779156 original size:14 final size:13
Alignment explanation
Indices: 779117--779393 Score: 163
Period size: 14 Copynumber: 21.1 Consensus size: 13
779107 GATGATTTAG
779117 TAATGATTT-TAA
1 TAATGATTTATAA
779129 TATTATGA-TT-TAA
1 TA--ATGATTTATAA
*
779142 TAATGA-TT-TAG
1 TAATGATTTATAA
779153 TAATGATTTAGTAA
1 TAATGATTTA-TAA
*
779167 TAATCA-TTATAA
1 TAATGATTTATAA
*
779179 TAAT-AATT-TAA
1 TAATGATTTATAA
*
779190 TAATGACTTTAATATT
1 TAATGA-TTT-ATA-A
779206 TAATGATTTGATGATTTA
1 TAATGATTT-AT-A---A
779224 GTAATGATTTGATAA
1 -TAATGATTT-ATAA
*
779239 TAATCA-TTATAA
1 TAATGATTTATAA
779251 TAATGATTTAGTAA
1 TAATGATTTA-TAA
*
779265 TAATCA-TTATAA
1 TAATGATTTATAA
* *
779277 TAAT-AATGATAA
1 TAATGATTTATAA
779289 TAATGATTTAATAA
1 TAATGATTT-ATAA
* *
779303 TAATCA-TTGTAA
1 TAATGATTTATAA
*
779315 TAATGATTTAATAG
1 TAATGATTT-ATAA
779329 TAATGA-TT-TAA
1 TAATGATTTATAA
*
779340 TAATGA-TT-TAG
1 TAATGATTTATAA
779351 TAATGATTTTATAA
1 TAATGA-TTTATAA
779365 TAATGATTTAATAA
1 TAATGATTT-ATAA
779379 TAATGATTTAATAA
1 TAATGATTT-ATAA
779393 T
1 T
779394 TATTACTAAT
Statistics
Matches: 218, Mismatches: 21, Indels: 50
0.75 0.07 0.17
Matches are distributed among these distances:
11 41 0.19
12 47 0.22
13 33 0.15
14 68 0.31
15 8 0.04
16 7 0.03
18 2 0.01
19 12 0.06
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (13 bp):
TAATGATTTATAA
Found at i:779192 original size:11 final size:11
Alignment explanation
Indices: 779108--779393 Score: 140
Period size: 12 Copynumber: 23.2 Consensus size: 11
779098 TAATGATTTG
*
779108 ATGATTTAGTA
1 ATGATTTAATA
779119 ATGATTTTAATA
1 ATGA-TTTAATA
779131 TTATGATTTAATA
1 --ATGATTTAATA
*
779144 ATGATTTAGTA
1 ATGATTTAATA
779155 ATGATTTAGTAATA
1 ATGA-TT--TAATA
*
779169 ATCATTATAATA
1 ATGATT-TAATA
*
779181 ATAATTTAATA
1 ATGATTTAATA
779192 ATGACTTTAATA
1 ATGA-TTTAATA
* * * * * *
779204 TTTAATGATTTG
1 ATGATTTA-ATA
*
779216 ATGATTTAGTA
1 ATGATTTAATA
779227 ATGATTTGATAATA
1 ATGA-TT--TAATA
*
779241 ATCATTATAATA
1 ATGATT-TAATA
779253 ATGATTTAGTAATA
1 ATGA-TT--TAATA
*
779267 ATCATTATAATA
1 ATGATT-TAATA
* *
779279 ATAATGATAATA
1 ATGAT-TTAATA
779291 ATGATTTAATAATA
1 ATGA-TT--TAATA
*
779305 ATCATTGTAATA
1 ATGATT-TAATA
779317 ATGATTTAATAGTA
1 ATGATTT-A-A-TA
779331 ATGATTTAATA
1 ATGATTTAATA
*
779342 ATGATTTAGTA
1 ATGATTTAATA
779353 ATGATTTTATAATA
1 ATGA--TT-TAATA
779367 ATGATTTAATAATA
1 ATGA-TT--TAATA
779381 ATGATTTAATA
1 ATGATTTAATA
779392 AT
1 AT
779394 TATTACTAAT
Statistics
Matches: 217, Mismatches: 34, Indels: 48
0.73 0.11 0.16
Matches are distributed among these distances:
11 57 0.26
12 72 0.33
13 27 0.12
14 61 0.28
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (11 bp):
ATGATTTAATA
Found at i:779542 original size:24 final size:25
Alignment explanation
Indices: 779496--779543 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
779486 TTTAAATATT
*
779496 TAATTATTTGATACTAATGATTTAC
1 TAATTATTTGATAATAATGATTTAC
*
779521 TAATTATTT-TTAATAATGATTTA
1 TAATTATTTGATAATAATGATTTA
779544 TTATTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (25 bp):
TAATTATTTGATAATAATGATTTAC
Found at i:779553 original size:59 final size:56
Alignment explanation
Indices: 779473--779583 Score: 186
Period size: 59 Copynumber: 1.9 Consensus size: 56
779463 CATAGTCAAA
*
779473 TTTATTAATGATTTTTAAATATTTAATTATTTGATACTAATGATTTACTAATTATT
1 TTTAATAATGATTTTTAAATATTTAATTATTTGATACTAATGATTTACTAATTATT
779529 TTTAATAATGATTTATTATTAATATTTAATTATTTGATACTAATGATTTACTAAT
1 TTTAATAATGATTT-TTA--AATATTTAATTATTTGATACTAATGATTTACTAAT
779584 GATTACTAGT
Statistics
Matches: 51, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
56 13 0.25
57 3 0.06
59 35 0.69
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (56 bp):
TTTAATAATGATTTTTAAATATTTAATTATTTGATACTAATGATTTACTAATTATT
Found at i:779556 original size:24 final size:24
Alignment explanation
Indices: 779510--779558 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
779500 TATTTGATAC
*
779510 TAATGATTTACTAATTATTTTTAA
1 TAATGATTTACTAATTATATTTAA
*
779534 TAATGATTTA-TTATTAATATTTAA
1 TAATGATTTACTAATT-ATATTTAA
779558 T
1 T
779559 TATTTGATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (24 bp):
TAATGATTTACTAATTATATTTAA
Found at i:779597 original size:59 final size:56
Alignment explanation
Indices: 779478--779598 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 56
779468 TCAAATTTAT
* **
779478 TAATGATTTTTAAATATTTAATTATTTGATACTAATGATTTACTAATTATTTTTAA
1 TAATGATTTTTAAATATTTAATTATTTGATACTAATGATTTACTAATGATTACTAA
*
779534 TAATGATTTATTATTAATATTTAATTATTTGATACTAATGATTTACTAATGATTACTAG
1 TAATGATTT-TTA--AATATTTAATTATTTGATACTAATGATTTACTAATGATTACTAA
779593 TAATGA
1 TAATGA
779599 AATTATAATA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
56 9 0.16
57 3 0.05
59 46 0.79
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.50
Consensus pattern (56 bp):
TAATGATTTTTAAATATTTAATTATTTGATACTAATGATTTACTAATGATTACTAA
Found at i:780506 original size:23 final size:23
Alignment explanation
Indices: 780480--780524 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
780470 AAAATTACAA
*
780480 AAATAATAAAATTTATTTAAATT
1 AAATAATAAAATTAATTTAAATT
* *
780503 AAATAATATAGTTAATTTAAAT
1 AAATAATAAAATTAATTTAAAT
780525 AATAATTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATAATAAAATTAATTTAAATT
Found at i:781825 original size:23 final size:22
Alignment explanation
Indices: 781799--781875 Score: 68
Period size: 21 Copynumber: 3.5 Consensus size: 22
781789 AAATTTTCCC
*
781799 TTAA-ACAACTAATAAATTATTCT
1 TTAATACAACT-AT-AACTATTCT
*
781822 TTAATATAACTATAACTATTCT
1 TTAATACAACTATAACTATTCT
* * *
781844 TTAATATAACT-TTACTTTTCT
1 TTAATACAACTATAACTATTCT
*
781865 TTAATATAACT
1 TTAATACAACT
781876 TAAACTAATA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
21 19 0.39
22 19 0.39
23 6 0.12
24 5 0.10
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (22 bp):
TTAATACAACTATAACTATTCT
Found at i:781866 original size:21 final size:21
Alignment explanation
Indices: 781816--781878 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
781806 ACTAATAAAT
781816 TATTCTTTAATATAACTATAAC
1 TATTCTTTAATATAACT-TAAC
*
781838 TATTCTTTAATATAACTTTAC
1 TATTCTTTAATATAACTTAAC
*
781859 TTTTCTTTAATATAACTTAA
1 TATTCTTTAATATAACTTAA
781879 ACTAATAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
21 21 0.55
22 17 0.45
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTCTTTAATATAACTTAAC
Found at i:782124 original size:21 final size:21
Alignment explanation
Indices: 782100--782139 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
782090 TTTCTATATG
782100 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
*
782121 ATATAATTTAAACTAACAA
1 ATATAACTTAAACTAACAA
782140 ACTCATTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:782221 original size:18 final size:18
Alignment explanation
Indices: 782168--782222 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
782158 TTGTTTTACC
*
782168 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
782186 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
782198 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
782215 CTAATTTA
1 CTAATTTA
782223 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:782387 original size:27 final size:29
Alignment explanation
Indices: 782352--782416 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
782342 TATATATAAC
*
782352 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
782379 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
782407 TTAATTATTT
1 TTAAATATTT
782417 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:782663 original size:22 final size:22
Alignment explanation
Indices: 782620--782663 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
782610 TGTTGTGTTA
* *
782620 TCCCTTTCTTCTTCTTCTCTTT
1 TCCCTTGCTTCTTCTTCCCTTT
782642 TCCCTTGCTCTCTTC-TCCCTTT
1 TCCCTTGCT-TCTTCTTCCCTTT
782664 CTTTCTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.00, C:0.41, G:0.02, T:0.57
Consensus pattern (22 bp):
TCCCTTGCTTCTTCTTCCCTTT
Found at i:782793 original size:23 final size:22
Alignment explanation
Indices: 782767--782832 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
782757 ACGTGAGCTG
782767 AAGGATTGAAATAATGCAGCAAT
1 AAGG-TTGAAATAATGCAGCAAT
* *
782790 AAGGGTTGTAATAATACAGCAAT
1 AA-GGTTGAAATAATGCAGCAAT
* *
782813 AAGTGCTGCAATAATGCAGC
1 AAG-GTTGAAATAATGCAGC
782833 TGAATTCACG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 1 0.03
23 33 0.92
24 2 0.06
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (22 bp):
AAGGTTGAAATAATGCAGCAAT
Found at i:783293 original size:18 final size:18
Alignment explanation
Indices: 783240--783294 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
783230 TTGTTTTACC
*
783240 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
783258 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
783270 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
783287 CTAATTTA
1 CTAATTTA
783295 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:783460 original size:27 final size:29
Alignment explanation
Indices: 783425--783489 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
783415 TATATATAAC
*
783425 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
783452 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
783480 TTAATTATTT
1 TTAAATATTT
783490 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:784316 original size:18 final size:18
Alignment explanation
Indices: 784263--784317 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
784253 TTGTTTTACC
*
784263 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
784281 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
784293 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
784310 CTAATTTA
1 CTAATTTA
784318 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:784481 original size:27 final size:29
Alignment explanation
Indices: 784446--784510 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
784436 TATATATAAC
*
784446 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
784473 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
784501 TTAATTATTT
1 TTAAATATTT
784511 TTTAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:784617 original size:21 final size:21
Alignment explanation
Indices: 784564--784603 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
784554 TTTATGTATG
784564 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
*
784585 ATAAAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
784604 ACTAATTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:784753 original size:23 final size:22
Alignment explanation
Indices: 784713--784757 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
784703 TGTTGTGCTA
*
784713 TCCCTTTCTTCTTCCTCCTCTTT
1 TCCCTTGCTTCTTCCTCC-CTTT
784736 TCCCTTGCTCTCTT-CTCCCTTT
1 TCCCTTGCT-TCTTCCTCCCTTT
784758 CTTTCTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.00, C:0.44, G:0.02, T:0.53
Consensus pattern (22 bp):
TCCCTTGCTTCTTCCTCCCTTT
Found at i:784896 original size:23 final size:23
Alignment explanation
Indices: 784861--784909 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
784851 ACATGAGCTG
*
784861 AAGGATTGTAATAATACAACAAT
1 AAGGATTGCAATAATACAACAAT
* * *
784884 AAGGGTTGCAATAATGCAGCAAT
1 AAGGATTGCAATAATACAACAAT
784907 AAG
1 AAG
784910 TGCTACAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.22
Consensus pattern (23 bp):
AAGGATTGCAATAATACAACAAT
Found at i:785910 original size:29 final size:29
Alignment explanation
Indices: 785876--785932 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
785866 ATCTTAAACG
785876 ATTATCATATCTCAATCAGTATGTTAACA
1 ATTATCATATCTCAATCAGTATGTTAACA
785905 ATTATCATATCTCAATCAGTATGTTAAC
1 ATTATCATATCTCAATCAGTATGTTAAC
785933 GTCCAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.39
Consensus pattern (29 bp):
ATTATCATATCTCAATCAGTATGTTAACA
Found at i:787287 original size:88 final size:88
Alignment explanation
Indices: 787138--787317 Score: 351
Period size: 88 Copynumber: 2.0 Consensus size: 88
787128 TGGAAAAAAA
787138 TGGAATTTTCCAAGTGCTTAAGGTCCTAAAATATCTGACAGAACATAACAATGTCTATTAGCAAC
1 TGGAATTTTCCAAGTGCTTAAGGTCCTAAAATATCTGACAGAACATAACAATGTCTATTAGCAAC
787203 TTGTCAAAGAATACATCAATAGG
66 TTGTCAAAGAATACATCAATAGG
787226 TGGAATTTTCCAAGTGCTTAAGGTCCTAAAATATCTGACAGAACATAACAATGTCTATTAGCAAC
1 TGGAATTTTCCAAGTGCTTAAGGTCCTAAAATATCTGACAGAACATAACAATGTCTATTAGCAAC
*
787291 TTGTCAAATAATACATCAATAGG
66 TTGTCAAAGAATACATCAATAGG
787314 TGGA
1 TGGA
787318 GGTTTTCCTG
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
88 91 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (88 bp):
TGGAATTTTCCAAGTGCTTAAGGTCCTAAAATATCTGACAGAACATAACAATGTCTATTAGCAAC
TTGTCAAAGAATACATCAATAGG
Found at i:790231 original size:90 final size:90
Alignment explanation
Indices: 790078--790257 Score: 238
Period size: 90 Copynumber: 2.0 Consensus size: 90
790068 CAATTTACTC
* * * *
790078 TATTTGTCAAGATTTTTCAAGCCAAATTAAAATGGACTCCTAAAACTGAATCATAATATGTTAAA
1 TATTTGTCAAGATTTTTCAACCCAAACTAAAATGAACTCCTAAAACTGAATCAAAATATGTTAAA
* * *
790143 GATCAATCTAATCCAGTCCCAAAAT
66 GATCAACCGAATCCAATCCCAAAAT
* * *
790168 TATTTGTCAAGGTTTTTCAACCCGAACCT-AAATGAACTCTTAAAACTTGAA-CAAAATATGTTA
1 TATTTGTCAAGATTTTTCAACCC-AAACTAAAATGAACTCCTAAAAC-TGAATCAAAATATGTTA
790231 AAGATCAACCGAATCCAATCCCAAAAT
64 AAGATCAACCGAATCCAATCCCAAAAT
790258 CACTAAAAAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
90 71 0.91
91 7 0.09
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.29
Consensus pattern (90 bp):
TATTTGTCAAGATTTTTCAACCCAAACTAAAATGAACTCCTAAAACTGAATCAAAATATGTTAAA
GATCAACCGAATCCAATCCCAAAAT
Found at i:792811 original size:52 final size:47
Alignment explanation
Indices: 792748--792863 Score: 160
Period size: 47 Copynumber: 2.4 Consensus size: 47
792738 TATTTTAAAA
792748 TGATTTATTTTAAAATAATTTATTATAAAATAATGTATTATAAAATATGGAT
1 TGATTTATTTTAAAATAATTTATT-TAAAATAA--T-TTAT-AAATATGGAT
* * *
792800 TGATTTATTTTAAAATAATTTATTTTAAATAATTTATTAGTATGGAT
1 TGATTTATTTTAAAATAATTTATTTAAAATAATTTATAAATATGGAT
792847 TGATTTATTTTAAAATA
1 TGATTTATTTTAAAATA
792864 TAGATTGATT
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
47 25 0.41
48 4 0.07
49 1 0.02
51 7 0.11
52 24 0.39
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (47 bp):
TGATTTATTTTAAAATAATTTATTTAAAATAATTTATAAATATGGAT
Found at i:792822 original size:15 final size:14
Alignment explanation
Indices: 792802--792837 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
792792 ATATGGATTG
792802 ATTTATTTTAAAATA
1 ATTTATTTT-AAATA
792817 ATTTATTTTAAATA
1 ATTTATTTTAAATA
792831 ATTTATT
1 ATTTATT
792838 AGTATGGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:792831 original size:14 final size:15
Alignment explanation
Indices: 792735--792837 Score: 100
Period size: 15 Copynumber: 6.5 Consensus size: 15
792725 TAATAAGGTT
*
792735 ATTTATTTTAAAATG
1 ATTTATTTTAAAATA
792750 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
792765 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
* *
792780 ATGTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
792799 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
792817 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
792831 ATTTATT
1 ATTTATT
792838 AGTATGGATT
Statistics
Matches: 74, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
14 12 0.16
15 43 0.58
16 3 0.04
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 6 0.08
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:792856 original size:22 final size:23
Alignment explanation
Indices: 792831--792904 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 23
792821 ATTTTAAATA
792831 ATTTAT-TAGTATGGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* * *
792853 ATTT-TAAAATATAGATTGATTT
1 ATTTATATAGTATGGATTGATTT
* *
792875 ATTATTGTAGTTGTATGGATTGATTT
1 A-T-TTATA-TAGTATGGATTGATTT
792901 ATTT
1 ATTT
792905 TAAATAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
21 1 0.03
22 18 0.45
23 1 0.03
24 4 0.10
25 3 0.08
26 13 0.32
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.54
Consensus pattern (23 bp):
ATTTATATAGTATGGATTGATTT
Found at i:792910 original size:80 final size:79
Alignment explanation
Indices: 792817--793697 Score: 748
Period size: 80 Copynumber: 10.8 Consensus size: 79
792807 TTTTAAAATA
*
792817 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTT
*
792882 TAGTTGTATGGATTG
66 TA-ATGTATGGATTG
*
792897 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG-TATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAGAT-TG-ATTT
**
792961 ATTTATTTTAAAATATGGATTG
59 A-TTATTTTAATGTATGGATTG
* * * *
792983 ATTTA--TT--AT--TGTAGTT-GTATCGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTT
** *
793041 ATTTATTTTAAAATATAGATTG
59 A-TTATTTTAATGTATGGATTG
* * *
793063 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTT
* *
793128 TAGTTGTATGTATTG
66 TA-ATGTATGGATTG
* * * * * *
793143 ATTTATTTTAAATAATCTATTAGCATAGATAGATTTATTTTAAAATTTGGATTGA--T-TTATTT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTT
** *
793205 TAAAATATAGATTG
66 TAATGTATGGATTG
* *
793219 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA
* **
793284 TTTATTTTAAAT-AATTTATT-
60 -TTATTTT-AATGTATGGATTG
* * * ** * * *
793304 AGTATGAATTGATTTATTTTA-TAATATGGATTGATTTATTTTAAATAAGTTATTAGTATAGATT
1 A-T-TTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATT
* **
793368 GATTTATTTTAAAATATGGATTG
58 TA-TTATTTTAATGTATGGATTG
* *
793391 ATTTATTTTAAACAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTA--TT--
*
793456 ATAATTTATTAGTATGGATTG
62 AT--TTTAAT-GTATGGATTG
* **
793477 ATTTATTTTAAATAATTTATTAGTATGAATAAATTTATTTTAAAATAT-GAATTGATTTATTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG-ATTGATTTATTATT
* *
793541 GTAGTTGTATGGATTG
65 TTA-ATGTATGGATTG
* * *
793557 ATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTT
*
793622 TAGTTGTATGGATTG
66 TA-ATGTATGGATTG
* *
793637 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATT
793698 TTAAATAATT
Statistics
Matches: 677, Mismatches: 80, Indels: 88
0.80 0.09 0.10
Matches are distributed among these distances:
76 44 0.06
77 9 0.01
78 3 0.00
79 7 0.01
80 325 0.48
81 17 0.03
82 17 0.03
83 2 0.00
84 13 0.02
85 29 0.04
86 190 0.28
87 21 0.03
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (79 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTT
TAATGTATGGATTG
Found at i:792928 original size:32 final size:32
Alignment explanation
Indices: 792887--792972 Score: 163
Period size: 32 Copynumber: 2.7 Consensus size: 32
792877 TATTGTAGTT
792887 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
792919 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
792951 GTATGAATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
792973 ATATGGATTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:792934 original size:18 final size:18
Alignment explanation
Indices: 792911--792967 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 18
792901 ATTTTAAATA
*
792911 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
* *
792929 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
792943 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
792961 ATTTATT
1 ATTTATT
792968 TTAAAATATG
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
14 9 0.30
15 1 0.03
16 2 0.07
17 1 0.03
18 17 0.57
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:792944 original size:112 final size:111
Alignment explanation
Indices: 792817--793600 Score: 793
Period size: 112 Copynumber: 7.1 Consensus size: 111
792807 TTTTAAAATA
792817 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
**
792882 TAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
66 TA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
792929 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
** *
792994 TAGTTGTATCGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
66 TA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* * * *
793041 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATAGATTGATTTA
* * *
793100 -T-TT-TAAAATATGGATTGATTTA--TT--AT--TGTAGTT-GTATGTATTG
60 TTATTGTATAATATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTG
* * * * * *
793143 ATTTATTTTAAATAATCTATTAGCATAGATAGATTTATTTTAAAATTTGGATTGATTTA-T-TT-
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
* *
793205 TAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
66 TATAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
*
793251 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAG-TATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAGAT-TG-ATTT
* * *
793315 ATTTATTTTATAATATGGATTGATTTATTTTAAATAAGTTATTAGTATAGATTG
59 A-TTATTGTATAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* *
793369 ATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTTAAACAATTTATTAGTATGGATTGA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-TAG-ATTGATTTA
* *
793424 TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
60 -TTATTGTATAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
* **
793477 ATTTATTTTAAATAATTTATTAGTATGAATAAATTTATTTTAAAATAT-GAATTGATTTATTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAG-ATTGATTTATTATT
** *
793541 GTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATAGATTG
65 GTA-TAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
793589 ATTTATTTTAAA
1 ATTTATTTTAAA
793601 ATATGGATTG
Statistics
Matches: 576, Mismatches: 52, Indels: 88
0.80 0.07 0.12
Matches are distributed among these distances:
102 55 0.10
103 8 0.01
104 6 0.01
105 2 0.00
106 12 0.02
107 14 0.02
108 161 0.28
109 11 0.02
110 7 0.01
111 15 0.03
112 197 0.34
113 5 0.01
114 9 0.02
115 1 0.00
116 3 0.01
117 8 0.01
118 62 0.11
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (111 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATAGATTGATTTATTATTG
TATAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:793045 original size:32 final size:31
Alignment explanation
Indices: 792999--793106 Score: 126
Period size: 32 Copynumber: 3.7 Consensus size: 31
792989 TATTGTAGTT
792999 GTATCGATTGATTTATTTTAAATAATTTATTA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
793031 GTATGGATTGATTTATTTT--A-AA---A-TA
1 GTAT-GATTGATTTATTTTAAATAATTTATTA
793056 -TA-GATTGATTTATTTTAAATAATTTATTA
1 GTATGATTGATTTATTTTAAATAATTTATTA
793085 GTATAGATTGATTTATTTTAAA
1 GTAT-GATTGATTTATTTTAAA
793107 ATATGGATTG
Statistics
Matches: 65, Mismatches: 1, Indels: 20
0.76 0.01 0.23
Matches are distributed among these distances:
22 14 0.22
24 3 0.05
25 4 0.06
26 1 0.02
28 1 0.02
29 4 0.06
30 3 0.05
32 35 0.54
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.52
Consensus pattern (31 bp):
GTATGATTGATTTATTTTAAATAATTTATTA
Found at i:793071 original size:54 final size:54
Alignment explanation
Indices: 792892--793617 Score: 616
Period size: 54 Copynumber: 13.2 Consensus size: 54
792882 TAGTTGTATG
792892 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-ATA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
* * * * * * *** *
792943 -ATTTA-TTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATC
1 GATTGATTTA-TTTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATA
793004 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
* *
793058 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
* *
793112 GATTGATTTA--TT--AT--TGTAGTT-GTATGTATTGATTTATTTTAAATAATCTATTA
1 GATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTT-AA-AA--TA-TA
* ** * * *
793165 GCATAGATAGA-TTT--AT--TTTA-AAATTTGGATTGATTTATTTTAAAATATA
1 G-ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
793214 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--A-AA---A-TA-TA
* * *
793276 TGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTATAATATG
1 --GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
* * *
793332 GATTGATTTATTTTAAATAAGTTATTAGTATAGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
* *
793386 GATTGATTTATTTTAAACAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
793440 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT--AA-ATA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
* * * * * * *** *
793491 -ATTTA-TTAGTATGAATAAATTTATTTTAAAATATGAATTGATTTATTATTGTAGTTGTATG
1 GATTGATTTATTTTAAAT-AATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATA
* *
793552 GATTGATTTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
793606 GATTGATTTATT
1 GATTGATTTATT
793618 ATTGTAGTTG
Statistics
Matches: 552, Mismatches: 70, Indels: 103
0.76 0.10 0.14
Matches are distributed among these distances:
48 26 0.05
49 21 0.04
50 30 0.05
51 4 0.01
52 12 0.02
53 8 0.01
54 296 0.54
55 13 0.02
56 10 0.02
57 8 0.01
58 29 0.05
60 5 0.01
61 7 0.01
62 27 0.05
63 11 0.02
64 45 0.08
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.52
Consensus pattern (54 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATA
Found at i:793202 original size:22 final size:22
Alignment explanation
Indices: 793167--793230 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
793157 ATCTATTAGC
*
793167 ATAGATAGATTTATTTTAAAAT
1 ATAGATTGATTTATTTTAAAAT
* *
793189 TTGGATTGATTTATTTTAAAAT
1 ATAGATTGATTTATTTTAAAAT
793211 ATAGATTGATTTATTTTAAA
1 ATAGATTGATTTATTTTAAA
793231 TAATTTATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
ATAGATTGATTTATTTTAAAAT
Found at i:793252 original size:32 final size:32
Alignment explanation
Indices: 793214--793520 Score: 285
Period size: 32 Copynumber: 9.5 Consensus size: 32
793204 TTAAAATATA
793214 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
793246 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
793278 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
* * * *
793310 AATTGATTTATTTTATAATATGGATTGATTTA-TTTT
1 GATTGATTTATTTTA-AATA---ATTTA-TTAGTATG
* * * * * * *
793346 AAATAAGTTATTAGTATAGATTGATTTATTTTAAAATATG
1 GATTGATTTATT--T-TA-AATAATTTA--TT--AGTATG
*
793386 GATTGATTTATTTTAAACAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
793418 GATTGATTTA-TTT---TAA---A--A-TATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
793440 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
793472 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
* **
793504 AATAAATTTATTTTAAA
1 GATTGATTTATTTTAAA
793521 ATATGAATTG
Statistics
Matches: 228, Mismatches: 25, Indels: 44
0.77 0.08 0.15
Matches are distributed among these distances:
22 14 0.06
23 4 0.02
25 1 0.00
26 3 0.01
28 2 0.01
29 1 0.00
31 4 0.02
32 143 0.63
33 4 0.02
34 2 0.01
36 25 0.11
37 8 0.04
38 2 0.01
39 5 0.02
40 10 0.04
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:793320 original size:18 final size:18
Alignment explanation
Indices: 793233--793321 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 18
793223 ATTTTAAATA
*
793233 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
* *
793251 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
*
793265 ATTTATTAGTATGGATTG
1 ATTTATTAGTATGAATTG
* *
793283 ATTTATT--T-T-AAATA
1 ATTTATTAGTATGAATTG
793297 ATTTATTAGTATGAATTG
1 ATTTATTAGTATGAATTG
793315 ATTTATT
1 ATTTATT
793322 TTATAATATG
Statistics
Matches: 52, Mismatches: 11, Indels: 16
0.66 0.14 0.20
Matches are distributed among these distances:
14 18 0.35
15 2 0.04
16 4 0.08
17 2 0.04
18 26 0.50
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (18 bp):
ATTTATTAGTATGAATTG
Found at i:793331 original size:22 final size:21
Alignment explanation
Indices: 793306--793350 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
793296 AATTTATTAG
793306 TATGAATTGATTTATTTTATAA
1 TATGAATTGATTTATTTTA-AA
*
793328 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
793349 TA
1 TA
793351 AGTTATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (21 bp):
TATGAATTGATTTATTTTAAA
Found at i:793439 original size:22 final size:22
Alignment explanation
Indices: 793414--793456 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
793404 AATTTATTAG
793414 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
793436 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
793457 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Done.