Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_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: 2176229
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:519732 original size:20 final size:20
Alignment explanation
Indices: 519677--519728 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
519667 CACTTTCAGC
* *
519677 TAGCTGAATTCAGCTCACCT
1 TAGCTCAATTCAGCTCACAT
*
519697 TAGCTCTACTTCAGCTC-CAT
1 TAGCTC-AATTCAGCTCACAT
519717 TAGCTCAATTCA
1 TAGCTCAATTCA
519729 AGCTAACAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 5 0.19
20 13 0.48
21 9 0.33
ACGTcount: A:0.25, C:0.31, G:0.12, T:0.33
Consensus pattern (20 bp):
TAGCTCAATTCAGCTCACAT
Found at i:523767 original size:165 final size:163
Alignment explanation
Indices: 523555--523926 Score: 484
Period size: 165 Copynumber: 2.3 Consensus size: 163
523545 CTATGTGTAC
* * * * * * * *
523555 TATAGGCATTAAATGTGGAACCCACGTAATTTATCATATGTTGATGAATGATC-GTATAGGCACT
1 TATAGGCACTAAGTGTGAAACCCACGAAATTCATCATATGTTGATGAACGATCAG-ATAGGAACA
*
523619 AAGTGTGCAAA-CCAAAGAAATTCATTATATGTTGATGAACGACCGTATAGGCACTAAGTGTGCA
65 AAGTGTGCAAACCCAAA-AAATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTGC-
* * *
523683 AACCCA-AGGAATTCATCATGTGTTGATGAACT-ACCT
128 AACCCACA-AAATTCATCATATGTTGATGAA-TGACCA
*
523719 TATAGGCACTAAGTGTGAAAACCCACGAAATTCATTATATGTTGATGAACGATCAGATAGGAACA
1 TATAGGCACTAAGTGTG-AAACCCACGAAATTCATCATATGTTGATGAACGATCAGATAGGAACA
* *
523784 AAGTGTGCAAACCCACAAACTTCATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTGCAA
65 AAGTGTGCAAACCCAAAAAATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTGCAA
523849 CCCACAAAATTCATCATATGTTGATGAATGACCA
130 CCCACAAAATTCATCATATGTTGATGAATGACCA
* * *
523883 TATAGGCACTAAGTGTGTATCACAC-AGAATTCATCATATGTTGA
1 TATAGGCACTAAGTGTGAAACCCACGA-AATTCATCATATGTTGA
523927 CCAACGACCG
Statistics
Matches: 183, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
162 1 0.01
163 22 0.12
164 61 0.33
165 94 0.51
166 5 0.03
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (163 bp):
TATAGGCACTAAGTGTGAAACCCACGAAATTCATCATATGTTGATGAACGATCAGATAGGAACAA
AGTGTGCAAACCCAAAAAATTCATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTGCAAC
CCACAAAATTCATCATATGTTGATGAATGACCA
Found at i:523875 original size:54 final size:54
Alignment explanation
Indices: 523555--523960 Score: 433
Period size: 55 Copynumber: 7.4 Consensus size: 54
523545 CTATGTGTAC
* * * ** * * *
523555 TATAGGCATTAAATGTGGAACCCACGTAATTTATCATATGTTGATGAATGATCG
1 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
* * *
523609 TATAGGCACTAAGTGTGCAAACCAAAGAAATTCATTATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACA-AAATTCATCATATGTTGATGAACGACCG
* * * *
523664 TATAGGCACTAAGTGTGCAAACCCA-AGGAATTCATCATGTGTTGATGAACTACCT
1 TATAGGCACTAAGTGTGC-AACCCACA-AAATTCATCATATGTTGATGAACGACCG
* * * *
523719 TATAGGCACTAAGTGTGAAAACCCACGAAATTCATTATATGTTGATGAACGATCAG
1 TATAGGCACTAAGTGTG-CAACCCACAAAATTCATCATATGTTGATGAACGA-CCG
* * *
523775 -ATAGGAACAAAGTGTGCAAACCCACAAACTTCATCATATGTTGATGAACGACCG
1 TATAGGCACTAAGTGTGC-AACCCACAAAATTCATCATATGTTGATGAACGACCG
* *
523829 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAATGACCA
1 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
* * * * **
523883 TATAGGCACTAAGTGTGTATCACACAGAATTCATCATATGTTGACCAACGACCG
1 TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
*
523937 TA-ACGGCACTACA-TGTGCACCCCA
1 TATA-GGCACTA-AGTGTGCAACCCA
523961 GAGAAATTAT
Statistics
Matches: 295, Mismatches: 48, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
53 1 0.00
54 118 0.40
55 170 0.58
56 6 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (54 bp):
TATAGGCACTAAGTGTGCAACCCACAAAATTCATCATATGTTGATGAACGACCG
Found at i:529810 original size:20 final size:21
Alignment explanation
Indices: 529787--529826 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
529777 GCTAGCTGAA
529787 TTCAGCT-CACCTTAGCTCCG
1 TTCAGCTCCACCTTAGCTCCG
*
529807 TTCAGCTCCACTTTAGCTCC
1 TTCAGCTCCACCTTAGCTCC
529827 ATTAGCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.15, C:0.40, G:0.12, T:0.33
Consensus pattern (21 bp):
TTCAGCTCCACCTTAGCTCCG
Found at i:533853 original size:165 final size:165
Alignment explanation
Indices: 533581--533911 Score: 662
Period size: 165 Copynumber: 2.0 Consensus size: 165
533571 GATGCCTTTT
533581 GGTTTAACTAATGCACCTAGTATGTTCATGCAACTAGTGAATCATGTTTTGCGACCTTATATTGG
1 GGTTTAACTAATGCACCTAGTATGTTCATGCAACTAGTGAATCATGTTTTGCGACCTTATATTGG
533646 AAAATATTGTGTTGTGTATTTTTATAACATTCTTATCTACAACAAGTCATTGCAGGAACATGAGG
66 AAAATATTGTGTTGTGTATTTTTATAACATTCTTATCTACAACAAGTCATTGCAGGAACATGAGG
533711 AACATTTGAGAAATGTTCTTGGCATATTGAGAGAA
131 AACATTTGAGAAATGTTCTTGGCATATTGAGAGAA
533746 GGTTTAACTAATGCACCTAGTATGTTCATGCAACTAGTGAATCATGTTTTGCGACCTTATATTGG
1 GGTTTAACTAATGCACCTAGTATGTTCATGCAACTAGTGAATCATGTTTTGCGACCTTATATTGG
533811 AAAATATTGTGTTGTGTATTTTTATAACATTCTTATCTACAACAAGTCATTGCAGGAACATGAGG
66 AAAATATTGTGTTGTGTATTTTTATAACATTCTTATCTACAACAAGTCATTGCAGGAACATGAGG
533876 AACATTTGAGAAATGTTCTTGGCATATTGAGAGAA
131 AACATTTGAGAAATGTTCTTGGCATATTGAGAGAA
533911 G
1 G
533912 AAAGGTTGTT
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 166 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (165 bp):
GGTTTAACTAATGCACCTAGTATGTTCATGCAACTAGTGAATCATGTTTTGCGACCTTATATTGG
AAAATATTGTGTTGTGTATTTTTATAACATTCTTATCTACAACAAGTCATTGCAGGAACATGAGG
AACATTTGAGAAATGTTCTTGGCATATTGAGAGAA
Found at i:551772 original size:40 final size:40
Alignment explanation
Indices: 551728--551889 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
551718 ACCGTAGTGC
*
551728 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
551768 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
551808 TACCCATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
551848 TACACATAAGTTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
551888 TA
1 TA
551890 TAAACCTGTA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:557530 original size:54 final size:54
Alignment explanation
Indices: 557454--557987 Score: 647
Period size: 54 Copynumber: 9.9 Consensus size: 54
557444 TGCCCATAAA
** ** *** * * *
557454 GTTATTCATAAACATATTATGAATTCCGTGTTTTGCACACATAGTGCCAAAACA
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* * * * * *
557508 ATTATTCATCCACATGGGATGAATTTCGTAAAATGAACACTTAGTGTCGAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* * * * *
557562 GTTATTCACCCACATAGGATGAATTACGTGAAATGCACACTTATTGTCGAAAAG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* * *
557616 GTTATTCATTCACATAGGATGAATTTCGTGAAATGCACACTTAGTGCTGAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* * * **
557670 GTTTTTCATCCAAATAGGATGAATTCCATGAAATGCACACTTAGTGTTGAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
*
557724 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACA
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* * * **
557778 GTTATTCATCCACGTATGATGAATTCCGTGAAATGCACACGTAGTGTTGAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
* * ** * * **
557832 GTTATTCATCCACATAAGATGGATTCTATAAAATGCAAACTTAGTGCCGAAATA
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
*
557886 GTTATTCATCCACATAGGATGAATTTCGTGAAATGCACACTTAGTGCCGAAACG
1 GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
*
557940 GTTATTCATCCACATAGGAT-AATTTTCGTGAAATGCACACTTAGTGCC
1 GTTATTCATCCACATAGGATGAA-TTCCGTGAAATGCACACTTAGTGCC
557988 TATTTTGTAA
Statistics
Matches: 409, Mismatches: 70, Indels: 2
0.85 0.15 0.00
Matches are distributed among these distances:
53 2 0.00
54 407 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (54 bp):
GTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACG
Found at i:564494 original size:54 final size:54
Alignment explanation
Indices: 564444--564774 Score: 482
Period size: 54 Copynumber: 6.1 Consensus size: 54
564434 TTTGCACAGA
* * *** * *
564444 TAGTGCCAAAACAGTTATTCATCCACGCGGGATGAATTCTATAAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAATGCACACT
* *
564498 TAGTGCTGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAATGAACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAATGCACACT
* * * *
564552 TAGTGTCGAAACGGTTATTCATCCACATATGATGAATTCCGTGAAATGCACAAT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAATGCACACT
* * *
564606 TAGTGTCGAAACAGTTATTCATCCACATAGGATGAATTTCATGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAATGCACACT
* *
564660 TAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAATGCACACT
* *
564714 TAGTGCCGAAACGGTTATTCATTCACATAGGATGAATTCCGTGAAATGCACACT
1 TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAATGCACACT
564768 TAGTGCC
1 TAGTGCC
564775 TATTTGGTAA
Statistics
Matches: 252, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 252 1.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (54 bp):
TAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCATGAAATGCACACT
Found at i:567935 original size:3 final size:3
Alignment explanation
Indices: 567927--568039 Score: 59
Period size: 3 Copynumber: 36.3 Consensus size: 3
567917 ATTTTGTTAT
* *
567927 TTA TTA TTA TTA TTA TATA TTA TTA TTA ATA TTTA TTA TT- TTA GTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* * * * * * * *
567973 CTA TCA TAA GTTA TTA TTA TTG TGA CTA TTTA TTA ATA CTA GTT- TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA
*
568020 GTA TTA TTA TATA TTA TTA T
1 TTA TTA TTA T-TA TTA TTA T
568040 AAATATATTA
Statistics
Matches: 83, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
2 4 0.05
3 66 0.80
4 13 0.16
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:567939 original size:13 final size:12
Alignment explanation
Indices: 567927--568039 Score: 59
Period size: 13 Copynumber: 9.1 Consensus size: 12
567917 ATTTTGTTAT
567927 TTATTATTATTA
1 TTATTATTATTA
567939 TTATATATTATTA
1 TTAT-TATTATTA
*
567952 TTAATATTTATTA
1 TTATTA-TTATTA
* *
567965 TT-TTAGTACTA
1 TTATTATTATTA
* *
567976 TCATAAGTTATTA
1 TTATTA-TTATTA
* * *
567989 TTATTGTGACTA
1 TTATTATTATTA
* *
568001 TTTATTAATACTA
1 -TTATTATTATTA
*
568014 GTT-TTAGTATTA
1 -TTATTATTATTA
568026 TTATATATTATTA
1 TTAT-TATTATTA
568039 T
1 T
568040 AAATATATTA
Statistics
Matches: 74, Mismatches: 20, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
11 7 0.09
12 22 0.30
13 45 0.61
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.58
Consensus pattern (12 bp):
TTATTATTATTA
Found at i:572095 original size:22 final size:22
Alignment explanation
Indices: 572070--572112 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
572060 TCCTAGTCGG
*
572070 CTTTTATGTTTCCTTTTCATTC
1 CTTTTATATTTCCTTTTCATTC
* *
572092 CTTTTTTATTTGCTTTTCATT
1 CTTTTATATTTCCTTTTCATT
572113 ATTATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.19, G:0.05, T:0.67
Consensus pattern (22 bp):
CTTTTATATTTCCTTTTCATTC
Found at i:574773 original size:111 final size:111
Alignment explanation
Indices: 574573--574802 Score: 286
Period size: 111 Copynumber: 2.1 Consensus size: 111
574563 CGAAGTGACA
* * *
574573 AAATAGTAATTCACCTCATTATGAATACAATGGGTGGCACCTTTTATGCCGAAAATGCACAGTTA
1 AAATGGTAATTAACCTCATTATGAATACAATGGGTGGCAACTTTTATGCCGAAAATGCACAGTTA
**
574638 TGCATTAAGCAAAATCGATCGATAACTTCCGTACACAAAGTATGTC
66 TGCATTAAGCAAAATCGATCGATAACTTCAATACACAAAGTATGTC
* * * *
574684 GAAATGGTAATTAACCTCATTATGAATACCATGGTTGG-AATTTTTATGCCGAAAATGTACTA-T
1 -AAATGGTAATTAACCTCATTATGAATACAATGGGTGGCAACTTTTATGCCGAAAATGCAC-AGT
** * *
574747 TATGTGTTAAG-AAAATTCGATCGATAACTTTAATATACAAAGTATGTC
64 TATGCATTAAGCAAAA-TCGATCGATAACTTCAATACACAAAGTATGTC
*
574795 AAAAGGTA
1 AAATGGTA
574803 CCTATGACTC
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
110 11 0.11
111 57 0.56
112 34 0.33
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (111 bp):
AAATGGTAATTAACCTCATTATGAATACAATGGGTGGCAACTTTTATGCCGAAAATGCACAGTTA
TGCATTAAGCAAAATCGATCGATAACTTCAATACACAAAGTATGTC
Found at i:575396 original size:22 final size:22
Alignment explanation
Indices: 575333--575388 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
575323 CTACTATGGC
575333 ATCGATACTTCTATACTTATGT
1 ATCGATACTTCTATACTTATGT
575355 ATCGATACTTCTATACTTATGT
1 ATCGATACTTCTATACTTATGT
575377 ATCGATACTTCT
1 ATCGATACTTCT
575389 TTCATTATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.45
Consensus pattern (22 bp):
ATCGATACTTCTATACTTATGT
Found at i:581699 original size:112 final size:112
Alignment explanation
Indices: 581554--581783 Score: 345
Period size: 112 Copynumber: 2.1 Consensus size: 112
581544 CTGAAGTGTC
* *
581554 GAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCATA-TTTTATGCTGAAAATGTAACGT
1 GAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCA-ACTTTTATACCGAAAATGTAACGT
* *
581618 TATGCATTAAACAAAACCGATTGATAGCTTTCATACACAAAGTATGTT
65 TATGCATTAAACAAAACCGATCGATAACTTTCATACACAAAGTATGTT
* * *
581666 GAAATGGTAATTCACCTCATTATGAATACCATGGGTGGTAACTTTTATACCGATAATGTACCGTT
1 GAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCAACTTTTATACCGAAAATGTAACGTT
* * * *
581731 ATTCATTAAGCAAAATCGATCGATAACTTTTATACACAAAGTATGTT
66 ATGCATTAAACAAAACCGATCGATAACTTTCATACACAAAGTATGTT
581778 GAAATG
1 GAAATG
581784 CATCTATGAC
Statistics
Matches: 106, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
111 1 0.01
112 105 0.99
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (112 bp):
GAAATGGTAATTCACCTCATTATGAATACCATGGGTGGCAACTTTTATACCGAAAATGTAACGTT
ATGCATTAAACAAAACCGATCGATAACTTTCATACACAAAGTATGTT
Found at i:588848 original size:224 final size:224
Alignment explanation
Indices: 588410--588849 Score: 514
Period size: 224 Copynumber: 2.0 Consensus size: 224
588400 CATCTTCTAG
* * *
588410 TCAAATCTTTTCTAAGTCAATTTCAACTCTATGAATGAGGATATTAGTTCAAAAACCAACCTATA
1 TCAAATCTTATCGAAGTCAATTTCAACTCTATGAATGAGGATATTAGTTCAAAAACCAACCTAGA
* * **
588475 ATCTAATGCATTCTAGCTTAACTCAACAACAAGGAGATATTTTCCAGTTGTTGTTTTGAGGCTAG
66 AGCTAATGCATTCTAGCTTAACTCAACAACAAGGAGATATTTTCCAATTGAAGTTTTGAGGCTAG
* *
588540 GTTTCAACTTCATGAAGAAGGATACTTGACCCCGAAGCACACCCAAAACTGATTACATCTTGGCT
131 GTTTCAACTTAATGAAGAAGGATACTTGACCCCGAAGCACACCCAAAACTGATGACATCTTGGCT
***
588605 TAACTCAGTGGCAAGGAGCCACATTCCGT
196 TAACTCAACAGCAAGGAGCCACATTCCGT
* * * *
588634 TCAAATCTTATCGAATTCAATTTCAACTCTATG-ATCGAGGATATTGGGTTCGAAAGCCAA-CTC
1 TCAAATCTTATCGAAGTCAATTTCAACTCTATGAAT-GAGGATATT-AGTTCAAAAACCAACCT-
* * * * *
588697 AGAAGC-AACTGCATTCTAGCTTAACTTAGCAACAATGAGCTATTTT-CAATTGAAGTTTTTAGG
63 AGAAGCTAA-TGCATTCTAGCTTAACTCAACAACAAGGAGATATTTTCCAATTGAAGTTTTGAGG
* * * * * **
588760 CTAGGTTTCAACTTAATGACGAATGATACTTGA-CCTGAAAGCACATCCAGAACTGAATGGTAT-
127 CTAGGTTTCAACTTAATGAAGAAGGATACTTGACCCCG-AAGCACACCCAAAACTG-ATGACATC
* *
588823 TTGTCTTAACTCAACAGCGAGGAGCCA
190 TTGGCTTAACTCAACAGCAAGGAGCCA
588850 TTTTTTAGTT
Statistics
Matches: 180, Mismatches: 30, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
223 5 0.03
224 123 0.68
225 52 0.29
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (224 bp):
TCAAATCTTATCGAAGTCAATTTCAACTCTATGAATGAGGATATTAGTTCAAAAACCAACCTAGA
AGCTAATGCATTCTAGCTTAACTCAACAACAAGGAGATATTTTCCAATTGAAGTTTTGAGGCTAG
GTTTCAACTTAATGAAGAAGGATACTTGACCCCGAAGCACACCCAAAACTGATGACATCTTGGCT
TAACTCAACAGCAAGGAGCCACATTCCGT
Found at i:590276 original size:19 final size:19
Alignment explanation
Indices: 590254--590307 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
590244 TTTATATTAT
*
590254 TTATTATTTTTACTATATA
1 TTATTATTATTACTATATA
* *
590273 TTATTATTATTAGTATTTA
1 TTATTATTATTACTATATA
*
590292 GTATT-TTATTACTATA
1 TTATTATTATTACTATA
590308 ATAAGTTACT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
18 9 0.31
19 20 0.69
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (19 bp):
TTATTATTATTACTATATA
Found at i:591758 original size:14 final size:14
Alignment explanation
Indices: 591739--591765 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
591729 ATCTTTAATT
591739 CTATTTTTTTTTTA
1 CTATTTTTTTTTTA
591753 CTATTTTTTTTTT
1 CTATTTTTTTTTT
591766 GTTTTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.81
Consensus pattern (14 bp):
CTATTTTTTTTTTA
Found at i:592027 original size:25 final size:25
Alignment explanation
Indices: 591973--592060 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
591963 CAATCGAGAC
* * **
591973 TATTTTTTTAATTCATTTAAAATTT
1 TATTTTATTAATTCATTTCATCTTT
*
591998 CATTTTATTAATTCATTTCATCTTT
1 TATTTTATTAATTCATTTCATCTTT
*
592023 TATTTTA-T-ATTCATTCCATTCTTT
1 TATTTTATTAATTCATTTCA-TCTTT
* *
592047 AATATTAATTAATT
1 TAT-TTTATTAATT
592061 TTATTTTATT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
23 9 0.18
24 8 0.16
25 29 0.58
26 1 0.02
27 3 0.06
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTTATTAATTCATTTCATCTTT
Found at i:592047 original size:23 final size:25
Alignment explanation
Indices: 591999--592060 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
591989 TTAAAATTTC
*
591999 ATTTTATTAATTCATTTCATCTTTT
1 ATTTTATTAATTCATTCCATCTTTT
*
592024 ATTTTA-T-ATTCATTCCATTCTTTA
1 ATTTTATTAATTCATTCCA-TCTTTT
*
592048 ATATTAATTAATT
1 AT-TTTATTAATT
592061 TTATTTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 9 0.30
24 8 0.27
25 9 0.30
26 1 0.03
27 3 0.10
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTATTAATTCATTCCATCTTTT
Found at i:592068 original size:5 final size:5
Alignment explanation
Indices: 592058--592083 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
592048 ATATTAATTA
592058 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
592084 CATCAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:592710 original size:47 final size:48
Alignment explanation
Indices: 592616--592712 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 48
592606 CTTATGCTCC
*
592616 ATTTTTATTATATTTATCTTTATTATTTATTTTATTCCTAAGTTAATTT
1 ATTTTTATTATATTTATCTTTATTATTTATTTTATTACTAAG-TAATTT
*
592665 ATTTTT-TTATA-TTAT-TTTACTTATTTATTATTTCTTACTAA-TAATTT
1 ATTTTTATTATATTTATCTTTA-TTATTTA-T-TTTATTACTAAGTAATTT
592712 A
1 A
592713 CTCTTTTAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
46 4 0.09
47 18 0.42
48 6 0.14
49 15 0.35
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (48 bp):
ATTTTTATTATATTTATCTTTATTATTTATTTTATTACTAAGTAATTT
Found at i:594303 original size:16 final size:16
Alignment explanation
Indices: 594284--594321 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
594274 CATCAGATTC
594284 AAACATA-ACAATCCAA
1 AAACATATA-AATCCAA
594300 AAACATATAAATCCAA
1 AAACATATAAATCCAA
594316 AAACAT
1 AAACAT
594322 GCAAAGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 20 0.95
17 1 0.05
ACGTcount: A:0.63, C:0.21, G:0.00, T:0.16
Consensus pattern (16 bp):
AAACATATAAATCCAA
Found at i:596160 original size:23 final size:23
Alignment explanation
Indices: 596081--596159 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
596071 ACCCGATGGG
*
596081 TGTATCGATGCACATTCAAGGAA
1 TGTATCGATGCACATTCAAGGGA
* * *
596104 TGTATCGGTGCACCTTC-ATGG-
1 TGTATCGATGCACATTCAAGGGA
* *
596125 TGTATCAATGCATATTCAAGGGA
1 TGTATCGATGCACATTCAAGGGA
*
596148 TGCATCGATGCA
1 TGTATCGATGCA
596160 TTATGCACAA
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
21 13 0.30
22 5 0.12
23 25 0.58
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (23 bp):
TGTATCGATGCACATTCAAGGGA
Found at i:603038 original size:34 final size:34
Alignment explanation
Indices: 602989--603127 Score: 134
Period size: 34 Copynumber: 3.8 Consensus size: 34
602979 ACATCATTTC
*
602989 ATGCCAATAATGCACCCATATGCATTATTCTTTT
1 ATGCCGATAATGCACCCATATGCATTATTCTTTT
*
603023 ATACCGATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTT
1 ATGCCGATAATGCACCCATATGCA---T---TAT----T-CTTTT
* * *
603068 ATGCCAATAATACACTCATATGCATTATTCTTTT
1 ATGCCGATAATGCACCCATATGCATTATTCTTTT
603102 ATGCCGATAATGCACCCATATGCATT
1 ATGCCGATAATGCACCCATATGCATT
603128 TAAGTTATAG
Statistics
Matches: 85, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
34 50 0.59
35 1 0.01
37 1 0.01
39 3 0.04
40 3 0.04
42 1 0.01
44 1 0.01
45 25 0.29
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (34 bp):
ATGCCGATAATGCACCCATATGCATTATTCTTTT
Found at i:603069 original size:45 final size:43
Alignment explanation
Indices: 603018--603172 Score: 148
Period size: 45 Copynumber: 3.7 Consensus size: 43
603008 ATGCATTATT
* *
603018 CTTTTATACCGATAATGCACCCATATGCATTTTAGCTATGGCATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTTAG-TAT-GCATC
* *
603063 CTTTTATGCCAATAATACACTCATATGCA---T--TAT---T-
1 CTTTTATGCCAATAATGCACCCATATGCATTTTAGTATGCATC
* *
603097 CTTTTATGCCGATAATGCACCCATATGCATTTAAGTTATAGCATC
1 CTTTTATGCCAATAATGCACCCATATGCATTTTAG-TAT-GCATC
*
603142 CTTTCATGCCAATAATGCACCCATATGCATT
1 CTTTTATGCCAATAATGCACCCATATGCATT
603173 ATTCTTTTGT
Statistics
Matches: 89, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
34 26 0.29
35 1 0.01
39 3 0.03
40 3 0.03
42 1 0.01
44 1 0.01
45 54 0.61
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (43 bp):
CTTTTATGCCAATAATGCACCCATATGCATTTTAGTATGCATC
Found at i:603072 original size:79 final size:79
Alignment explanation
Indices: 602939--603180 Score: 376
Period size: 79 Copynumber: 3.1 Consensus size: 79
602929 GTATAACATA
* * * * *
602939 CTTTTATGTCGATAATGCACCAATATTCATTTTAGCTATGACATCATTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCAATAATGCAC
603004 CCATATGCATTATT
66 CCATATGCATTATT
* * *
603018 CTTTTATACCGATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTTATGCCAATAATACAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCAATAATGCAC
*
603083 TCATATGCATTATT
66 CCATATGCATTATT
* * *
603097 CTTTTATGCCGATAATGCACCCATATGCATTTAAGTTATAGCATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCCGATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCAATAATGCAC
603162 CCATATGCATTATT
66 CCATATGCATTATT
603176 CTTTT
1 CTTTT
603181 GTTCATTCGT
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 147 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (79 bp):
CTTTTATGCCGATAATGCACCCATATGCATTTTAGCTATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:603729 original size:20 final size:19
Alignment explanation
Indices: 603684--603732 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
603674 GTTTTAAAAT
*
603684 GGTATCGATACTTCCATTC
1 GGTATCGATACTCCCATTC
* *
603703 GGCATCGATACTCCCCCTTC
1 GGTATCGATACT-CCCATTC
603723 GGTATCGATA
1 GGTATCGATA
603733 TTGATTGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (19 bp):
GGTATCGATACTCCCATTC
Found at i:607707 original size:59 final size:59
Alignment explanation
Indices: 607641--607898 Score: 358
Period size: 59 Copynumber: 4.4 Consensus size: 59
607631 TCCCATACAA
* * *
607641 AAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGGTGCCCAATAAAG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAA-GTGCCCTATAAGG
* * * *
607700 AAATTCATACACTTAGTATCAATTTCCTAACATTTTAGCACACAAAGTGCCCTATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAAGG
* * * *
607759 AAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTGTACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAAGG
*
607818 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAG-ATCACGAAGTGCCCTATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCA-CACGAAGTGCCCTATAAGG
* *
607877 AAATTCATACACGTAGCATGAA
1 AAATTCATACACTTAGTATGAA
607899 ATAAATACAC
Statistics
Matches: 180, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
58 1 0.01
59 177 0.98
60 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (59 bp):
AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAAGG
Found at i:608226 original size:59 final size:59
Alignment explanation
Indices: 608152--608550 Score: 617
Period size: 59 Copynumber: 6.8 Consensus size: 59
608142 TATACTTCCC
* * *
608152 ATACAAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACAC-AAGGTGCCCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAA-GTGCCCT
* * * *
608211 ATAAAGAAATTCATACACTTAGTATCAATTTCCTAACATTTTAGCACACAAAGTGCCCT
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* *
608270 ATACGGAAATTTATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
*
608329 GTAC-GAAAATTCATACACTTAGTATGAATTTCTTAACATTTTAG-ATCACGAAGTGCCCT
1 ATACAG-AAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCA-CACGAAGTGCCCT
* * * *
608388 ATACGGAAATTCATACACGTAGCATGAATTTCTTAACATTTTAGCACACAAAGTGCCCT
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
608447 ATACAGAAATTCATACACTT-GTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
608505 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCA
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCA
608551 TAATTAGTGT
Statistics
Matches: 312, Mismatches: 22, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
58 58 0.19
59 250 0.80
60 4 0.01
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.33
Consensus pattern (59 bp):
ATACAGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
Found at i:608351 original size:517 final size:517
Alignment explanation
Indices: 607378--608415 Score: 2058
Period size: 517 Copynumber: 2.0 Consensus size: 517
607368 CACCTACGCG
607378 TGAAATAAATACACGTTAAGTATTACTTAGTGAGGCATAATTTATCACAAGTAAAGTTCTAAACA
1 TGAAATAAATACACGTTAAGTATTACTTAGTGAGGCATAATTTATCACAAGTAAAGTTCTAAACA
607443 CAAGTTATTTTATTACACTTTACATTTGAAGGGATCGTTCATTACAATAAATATTCTATAATTTG
66 CAAGTTATTTTATTACACTTTACATTTGAAGGGATCGTTCATTACAATAAATATTCTATAATTTG
*
607508 CATCGCTAGTGCTAATATCATCGTTTATCAACCATCACTAAAATCGGTGTGGTTTGCATACTCAT
131 CATCGCTAGTGCTAATATCATCGTTTATCAACCATCACTAAAATCGGTGTGGTTTGCATACCCAT
607573 TACCAATATAAAAATCCACTTCTTTATTAAGAATTTATTAGGTTTATACATATATACTTCCCATA
196 TACCAATATAAAAATCCACTTCTTTATTAAGAATTTATTAGGTTTATACATATATACTTCCCATA
607638 CAAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGGTGCCCAATAAAGAAA
261 CAAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGGTGCCCAATAAAGAAA
607703 TTCATACACTTAGTATCAATTTCCTAACATTTTAGCACACAAAGTGCCCTATACGGAAATTTATA
326 TTCATACACTTAGTATCAATTTCCTAACATTTTAGCACACAAAGTGCCCTATACGGAAATTTATA
607768 CACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTGTACGAAAATTCATACACTTA
391 CACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTGTACGAAAATTCATACACTTA
607833 GTATGAATTTCTTAACATTTTAGATCACGAAGTGCCCTATACGGAAATTCATACACGTAGCA
456 GTATGAATTTCTTAACATTTTAGATCACGAAGTGCCCTATACGGAAATTCATACACGTAGCA
607895 TGAAATAAATACACGTTAAGTATTACTTAGTGAGGCATAATTTATCACAAGTAAAGTTCTAAACA
1 TGAAATAAATACACGTTAAGTATTACTTAGTGAGGCATAATTTATCACAAGTAAAGTTCTAAACA
607960 CAAGTTATTTTATTACACTTTACATTTGAAGGGATCGTTCATTACAATAAATATTCTATAATTTG
66 CAAGTTATTTTATTACACTTTACATTTGAAGGGATCGTTCATTACAATAAATATTCTATAATTTG
608025 CATCGCTAGTGCTAATATCATCGTTTATCAACCATCACTAAAATCGGTGTGGTTTGCATACCCAT
131 CATCGCTAGTGCTAATATCATCGTTTATCAACCATCACTAAAATCGGTGTGGTTTGCATACCCAT
*
608090 TACCAATATAAAAATCCACTTCTTTATTAAGAATTTCTTAGGTTTATACATATATACTTCCCATA
196 TACCAATATAAAAATCCACTTCTTTATTAAGAATTTATTAGGTTTATACATATATACTTCCCATA
608155 CAAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGGTGCCCAATAAAGAAA
261 CAAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGGTGCCCAATAAAGAAA
608220 TTCATACACTTAGTATCAATTTCCTAACATTTTAGCACACAAAGTGCCCTATACGGAAATTTATA
326 TTCATACACTTAGTATCAATTTCCTAACATTTTAGCACACAAAGTGCCCTATACGGAAATTTATA
608285 CACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTGTACGAAAATTCATACACTTA
391 CACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTGTACGAAAATTCATACACTTA
608350 GTATGAATTTCTTAACATTTTAGATCACGAAGTGCCCTATACGGAAATTCATACACGTAGCA
456 GTATGAATTTCTTAACATTTTAGATCACGAAGTGCCCTATACGGAAATTCATACACGTAGCA
608412 TGAA
1 TGAA
608416 TTTCTTAACA
Statistics
Matches: 519, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
517 519 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (517 bp):
TGAAATAAATACACGTTAAGTATTACTTAGTGAGGCATAATTTATCACAAGTAAAGTTCTAAACA
CAAGTTATTTTATTACACTTTACATTTGAAGGGATCGTTCATTACAATAAATATTCTATAATTTG
CATCGCTAGTGCTAATATCATCGTTTATCAACCATCACTAAAATCGGTGTGGTTTGCATACCCAT
TACCAATATAAAAATCCACTTCTTTATTAAGAATTTATTAGGTTTATACATATATACTTCCCATA
CAAAAATTCATACACTTAGTATGAATTTCTTATCATTTTAGCACACAAGGTGCCCAATAAAGAAA
TTCATACACTTAGTATCAATTTCCTAACATTTTAGCACACAAAGTGCCCTATACGGAAATTTATA
CACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTGTACGAAAATTCATACACTTA
GTATGAATTTCTTAACATTTTAGATCACGAAGTGCCCTATACGGAAATTCATACACGTAGCA
Found at i:609056 original size:95 final size:95
Alignment explanation
Indices: 608888--609107 Score: 293
Period size: 95 Copynumber: 2.3 Consensus size: 95
608878 GTTATTCATA
*
608888 ATCGATACTCC-TACCATGGTATCAATACTACCTTACTATGGTATCAATACCCCCTTCGGGTATC
1 ATCGATAC-CCTTACCATGGTATCAATACTAACTTACTATGGTATCAATACCCCCTTCGGGTATC
** * *
608952 GATTTCAAAATTAGATTCAATGTGGCCTGGT
65 GATACCAAAATTAGATTCAATGTGACATGGT
* * *
608983 ATCGATACCCTTACCATGGTATCGATAC-AACTATACTATGGTA-CTGATACCCCCTTCTGGTAT
1 ATCGATACCCTTACCATGGTATCAATACTAACT-TACTATGGTATC-AATACCCCCTTCGGGTAT
* * *
609046 CGATACCAAAATTAGGTTCGATGTTACATGGT
64 CGATACCAAAATTAGATTCAATGTGACATGGT
609078 ATCGATACCCTTACCATGGTATCAATACTA
1 ATCGATACCCTTACCATGGTATCAATACTA
609108 CCTCGTCGGT
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
94 6 0.06
95 102 0.94
96 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (95 bp):
ATCGATACCCTTACCATGGTATCAATACTAACTTACTATGGTATCAATACCCCCTTCGGGTATCG
ATACCAAAATTAGATTCAATGTGACATGGT
Found at i:610250 original size:15 final size:15
Alignment explanation
Indices: 610230--610268 Score: 69
Period size: 15 Copynumber: 2.5 Consensus size: 15
610220 CATCTATTAA
610230 AACATACATAATAAT
1 AACATACATAATAAT
610245 AACATACATAATAAT
1 AACATACATAATAAT
610260 AACAATACA
1 AAC-ATACA
610269 AATTAGTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (15 bp):
AACATACATAATAAT
Found at i:611194 original size:22 final size:21
Alignment explanation
Indices: 611161--611209 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
611151 TTATGACTAA
611161 ATTGATAGAATGTATAAATATT
1 ATTGATAGAATGTATAAATA-T
* *
611183 ATTGATCA-AATGTGTAATTAT
1 ATTGAT-AGAATGTATAAATAT
611204 ATTGAT
1 ATTGAT
611210 TTTTTAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 16 0.67
23 1 0.04
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (21 bp):
ATTGATAGAATGTATAAATAT
Found at i:612861 original size:17 final size:17
Alignment explanation
Indices: 612827--612878 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
612817 ACCGGACAAA
* *
612827 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
612844 TTTATTAATTTACTGAG
1 TTTATTAATTTACAGAG
*
612861 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
612876 TTT
1 TTT
612879 CTACTGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:618263 original size:21 final size:21
Alignment explanation
Indices: 618237--618283 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
618227 GTTTCCAGAT
618237 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
618258 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
618279 TCGCA
1 TCGCA
618284 GGCGATTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:618349 original size:40 final size:42
Alignment explanation
Indices: 618294--618463 Score: 285
Period size: 40 Copynumber: 4.1 Consensus size: 42
618284 GGCGATTTAC
618294 ATAGTCGAAGTTCGCATTGCGA-TT-TTCCAAATTCGTTGCG
1 ATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCG
618334 ATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCG
1 ATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCG
*
618376 ATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCG
1 ATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCG
* *
618416 ATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGTG
1 ATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCG
618458 ATAGTC
1 ATAGTC
618464 CAAAATCGCA
Statistics
Matches: 124, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
40 60 0.48
41 6 0.05
42 58 0.47
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (42 bp):
ATAGTCGAAGTTCGCATTGCGATTTATTCCAAATTCGTTGCG
Found at i:618390 original size:82 final size:82
Alignment explanation
Indices: 618294--618463 Score: 313
Period size: 82 Copynumber: 2.1 Consensus size: 82
618284 GGCGATTTAC
618294 ATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCATTGCGATTT
1 ATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCATTGCGATTT
618359 ATTCCAAATTCGTTGCG
66 ATTCCAAATTCGTTGCG
* *
618376 ATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTGCGATTT
1 ATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCATTGCGATTT
*
618441 ATTCCAAATTCGTTGTG
66 ATTCCAAATTCGTTGCG
618458 ATAGTC
1 ATAGTC
618464 CAAAATCGCA
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
82 85 1.00
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (82 bp):
ATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCATTGCGATTT
ATTCCAAATTCGTTGCG
Found at i:618596 original size:5 final size:5
Alignment explanation
Indices: 618588--618623 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
618578 CGACCCGACC
*
618588 CGAGA CGAGA CGAGA CGAGA CGAGA TGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
618624 GCGGCGGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.36, C:0.19, G:0.42, T:0.03
Consensus pattern (5 bp):
CGAGA
Found at i:618954 original size:17 final size:17
Alignment explanation
Indices: 618921--618966 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
618911 TGGGAACAAG
*
618921 GGTCGGGGTCGGGGTCGT
1 GGTCGTGGTC-GGGTCGT
618939 GGTCGTGGTCGGGTCGT
1 GGTCGTGGTCGGGTCGT
618956 GGTCGTGGTCG
1 GGTCGTGGTCG
618967 TGGTAATACG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.00, C:0.17, G:0.57, T:0.26
Consensus pattern (17 bp):
GGTCGTGGTCGGGTCGT
Found at i:618959 original size:23 final size:24
Alignment explanation
Indices: 618921--618970 Score: 84
Period size: 23 Copynumber: 2.1 Consensus size: 24
618911 TGGGAACAAG
618921 GGTCGGGGTCGGGGTCGTGGTCGT
1 GGTCGGGGTCGGGGTCGTGGTCGT
*
618945 GGTC-GGGTCGTGGTCGTGGTCGT
1 GGTCGGGGTCGGGGTCGTGGTCGT
618968 GGT
1 GGT
618971 AATACGTGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.00, C:0.16, G:0.56, T:0.28
Consensus pattern (24 bp):
GGTCGGGGTCGGGGTCGTGGTCGT
Found at i:618967 original size:6 final size:6
Alignment explanation
Indices: 618921--618970 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
618911 TGGGAACAAG
* *
618921 GGTCGG GGTCGG GGTCGT GGTCGT GGTCG- GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
618968 GGT
1 GGT
618971 AATACGTGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
5 5 0.12
6 37 0.88
ACGTcount: A:0.00, C:0.16, G:0.56, T:0.28
Consensus pattern (6 bp):
GGTCGT
Found at i:619093 original size:21 final size:21
Alignment explanation
Indices: 619067--619204 Score: 128
Period size: 21 Copynumber: 6.7 Consensus size: 21
619057 ATTTTGGACT
619067 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
619088 ATCGCAACGCGAACTTT-GACT--
1 ATCGCAA--CGAA-TTTGGAATAA
619109 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
*
619130 ATCGCAACCAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
619151 ATCGCAACGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
619172 ATCGCAACGAATTTGG-A-AA
1 ATCGCAACGAATTTGGAATAA
*
619191 ATCGCAACAAATTT
1 ATCGCAACGAATTT
619205 ATTATATATA
Statistics
Matches: 96, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
18 3 0.03
19 27 0.28
21 48 0.50
23 15 0.16
24 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:619166 original size:63 final size:61
Alignment explanation
Indices: 619067--619204 Score: 231
Period size: 63 Copynumber: 2.2 Consensus size: 61
619057 ATTTTGGACT
* *
619067 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTTGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGG-A-AA
*
619130 ATCGCAACCAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
1 ATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
619191 ATCGCAACAAATTT
1 ATCGCAACAAATTT
619205 ATTATATATA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
61 15 0.21
62 1 0.01
63 56 0.78
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (61 bp):
ATCGCAACAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGAAA
Found at i:623367 original size:19 final size:19
Alignment explanation
Indices: 623339--623386 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
623329 GAAGTTGAAC
*
623339 GAGAGATAAAGAGTCGAAT
1 GAGAGCTAAAGAGTCGAAT
623358 GAGAGCTAAAGAGTCGAAT
1 GAGAGCTAAAGAGTCGAAT
*
623377 GGGAGCTAAA
1 GAGAGCTAAA
623387 TGTACCTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.33, T:0.15
Consensus pattern (19 bp):
GAGAGCTAAAGAGTCGAAT
Found at i:630997 original size:19 final size:19
Alignment explanation
Indices: 630938--630997 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
630928 CTTTTCTTCA
* *
630938 TTTTGATCTTTCTTTTTAT
1 TTTTGAACTTTCTTTTTCT
* * *
630957 TTTTGCAC-TCCTTTGTCAT
1 TTTTGAACTTTCTTTTTC-T
630976 TTTTGAACTTTCTTTTTCT
1 TTTTGAACTTTCTTTTTCT
630995 TTT
1 TTT
630998 GTTTTTGTTC
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
18 6 0.19
19 18 0.58
20 7 0.23
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTGAACTTTCTTTTTCT
Found at i:636515 original size:13 final size:13
Alignment explanation
Indices: 636487--636525 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
636477 TGTTTGTTTG
*
636487 TTTCTTTTTCTT-
1 TTTCTTTTTTTTA
636499 TTTCTTTTTTTTA
1 TTTCTTTTTTTTA
636512 TTTCTTTATTTTTA
1 TTTCTTT-TTTTTA
636526 ATTTTAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 7 0.29
14 6 0.25
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTTA
Found at i:659990 original size:21 final size:22
Alignment explanation
Indices: 659965--660019 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
659955 ATTGTGAGGA
659965 GAGTATCGATACTCCATCA-AG
1 GAGTATCGATACTCCATCATAG
* * *
659986 GAGTATCAATACT-GATCATAT
1 GAGTATCGATACTCCATCATAG
660007 G-GTATCGATACTC
1 GAGTATCGATACTC
660020 GAGGCCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (22 bp):
GAGTATCGATACTCCATCATAG
Found at i:665935 original size:22 final size:21
Alignment explanation
Indices: 665905--665960 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
665895 TACTTGGGGA
665905 AGTATTGATACCATAAGAAGGG
1 AGTATTGATACCATAAGAA-GG
* * *
665927 AGTACTGATACC-CAAGGAGG
1 AGTATTGATACCATAAGAAGG
665947 AGTATTGATACCAT
1 AGTATTGATACCAT
665961 CGTGAATGTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 13 0.46
21 4 0.14
22 11 0.39
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (21 bp):
AGTATTGATACCATAAGAAGG
Found at i:666819 original size:18 final size:19
Alignment explanation
Indices: 666796--666835 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
666786 TTTTAAATAC
666796 TTATATTTT-GTAATCATA
1 TTATATTTTGGTAATCATA
*
666814 TTATATTTTGGTAATTATA
1 TTATATTTTGGTAATCATA
666833 TTA
1 TTA
666836 CATCCGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (19 bp):
TTATATTTTGGTAATCATA
Found at i:667607 original size:22 final size:23
Alignment explanation
Indices: 667582--667628 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
667572 ATTAAAGATC
* *
667582 TAACCA-AATTTTTTTAAGAAAA
1 TAACCATAATTTTTTAAAAAAAA
*
667604 TAACTATAATTTTTTAAAAAAAA
1 TAACCATAATTTTTTAAAAAAAA
667627 TA
1 TA
667629 TTAAGAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.38
Consensus pattern (23 bp):
TAACCATAATTTTTTAAAAAAAA
Found at i:669311 original size:32 final size:32
Alignment explanation
Indices: 669275--669431 Score: 138
Period size: 32 Copynumber: 4.9 Consensus size: 32
669265 CTATAATCAT
* *
669275 CAAACTTAGAAAATAACACTTTTAATATCTAA
1 CAAACTTAGAAAATAACAATTTCAATATCTAA
* * * * *
669307 CAAACTTAGAACATAATACTTTCAATAGCCAA
1 CAAACTTAGAAAATAACAATTTCAATATCTAA
* * * *
669339 CAAACTTATAATATAATAATTTCAATATCTGA
1 CAAACTTAGAAAATAACAATTTCAATATCTAA
* * *
669371 CAAACATA-AAACATAACAATTTCAATATCCAC
1 CAAACTTAGAAA-ATAACAATTTCAATATCTAA
* *
669403 CAAACATA-AAACATAATAATTTCAATATC
1 CAAACTTAGAAA-ATAACAATTTCAATATC
669432 CAAGAAAAAT
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
31 2 0.02
32 104 0.98
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (32 bp):
CAAACTTAGAAAATAACAATTTCAATATCTAA
Found at i:669366 original size:64 final size:64
Alignment explanation
Indices: 669275--669431 Score: 179
Period size: 64 Copynumber: 2.5 Consensus size: 64
669265 CTATAATCAT
* * * * * * * *
669275 CAAACTTAGAAAATAACACTTTTAATATCTAACAAACTTAGAACATAATACTTTCAATAGCCAA
1 CAAACTTAAAAAATAATAATTTCAATATCTAACAAACATAAAACATAACAATTTCAATAGCCAA
* * * * *
669339 CAAACTTATAATATAATAATTTCAATATCTGACAAACATAAAACATAACAATTTCAATATCCAC
1 CAAACTTAAAAAATAATAATTTCAATATCTAACAAACATAAAACATAACAATTTCAATAGCCAA
* *
669403 CAAACATAAAACATAATAATTTCAATATC
1 CAAACTTAAAAAATAATAATTTCAATATC
669432 CAAGAAAAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 78 1.00
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (64 bp):
CAAACTTAAAAAATAATAATTTCAATATCTAACAAACATAAAACATAACAATTTCAATAGCCAA
Found at i:669432 original size:32 final size:32
Alignment explanation
Indices: 669298--669470 Score: 168
Period size: 32 Copynumber: 5.4 Consensus size: 32
669288 TAACACTTTT
* * * *
669298 AATATCTAACAAACTTAGAACATAATACTTTC
1 AATATCCAACAAACATAAAACATAATAATTTC
* * * *
669330 AATAGCCAACAAACTTATAATATAATAATTTC
1 AATATCCAACAAACATAAAACATAATAATTTC
** *
669362 AATATCTGACAAACATAAAACATAACAATTTC
1 AATATCCAACAAACATAAAACATAATAATTTC
*
669394 AATATCCACCAAACATAAAACATAATAATTTC
1 AATATCCAACAAACATAAAACATAATAATTTC
* * ** * * *
669426 AATATCCAAGAAAAATAAAGTACAATTATTTT
1 AATATCCAACAAACATAAAACATAATAATTTC
669458 AATAT-CAACAAAC
1 AATATCCAACAAAC
669471 TCACAACATT
Statistics
Matches: 115, Mismatches: 26, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
31 6 0.05
32 109 0.95
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (32 bp):
AATATCCAACAAACATAAAACATAATAATTTC
Found at i:669462 original size:96 final size:96
Alignment explanation
Indices: 669287--669463 Score: 212
Period size: 96 Copynumber: 1.8 Consensus size: 96
669277 AACTTAGAAA
* * * * * * **
669287 ATAACACTTTTAATATCTAACAAACTTAGAACATAATACTTTCAATAGCCAACAAACTTATAATA
1 ATAACAATTTCAATATCCAACAAACATAAAACATAATAATTTCAATAGCCAACAAAAATATAATA
*
669352 TAATAATTTCAATATCTGACAAACATAAAAC
66 CAATAATTTCAATATCTGACAAACATAAAAC
* * *
669383 ATAACAATTTCAATATCCACCAAACATAAAACATAATAATTTCAATATCCAAGAAAAATA-AAGT
1 ATAACAATTTCAATATCCAACAAACATAAAACATAATAATTTCAATAGCCAACAAAAATATAA-T
* *
669447 ACAATTATTTTAATATC
65 ACAATAATTTCAATATC
669464 AACAAACTCA
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
95 2 0.03
96 64 0.97
ACGTcount: A:0.50, C:0.17, G:0.03, T:0.30
Consensus pattern (96 bp):
ATAACAATTTCAATATCCAACAAACATAAAACATAATAATTTCAATAGCCAACAAAAATATAATA
CAATAATTTCAATATCTGACAAACATAAAAC
Found at i:669822 original size:20 final size:20
Alignment explanation
Indices: 669797--669834 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
669787 ATCTAACACA
* *
669797 TGAAAATATTTTTAAAAACT
1 TGAAAAAATATTTAAAAACT
669817 TGAAAAAATATTTAAAAA
1 TGAAAAAATATTTAAAAA
669835 TCATTATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (20 bp):
TGAAAAAATATTTAAAAACT
Found at i:671254 original size:19 final size:18
Alignment explanation
Indices: 671230--671268 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
671220 ACATCTGAAC
*
671230 ATAATATAGATACCAAAAT
1 ATAATACAGATA-CAAAAT
*
671249 ATAATACAGTTACAAAAT
1 ATAATACAGATACAAAAT
671267 AT
1 AT
671269 TAGTATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (18 bp):
ATAATACAGATACAAAAT
Found at i:674466 original size:17 final size:17
Alignment explanation
Indices: 674403--674468 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
674393 TTTTTTCATC
*
674403 AAAAATAAAATAAAC-AA
1 AAAAATAAAA-AATCAAA
* *
674420 AAAAATAAAAAAGGCACA
1 AAAAATAAAAAA-TCAAA
*
674438 AAAAAGAGAAAAATCAAA
1 AAAAATA-AAAAATCAAA
674456 AAAAATAAAAAAT
1 AAAAATAAAAAAT
674469 AATCCATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
16 2 0.05
17 17 0.43
18 16 0.40
19 5 0.12
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAATAAAAAATCAAA
Found at i:678050 original size:27 final size:27
Alignment explanation
Indices: 677965--678037 Score: 132
Period size: 27 Copynumber: 2.8 Consensus size: 27
677955 TGTTTGGTTC
677965 TAGAAAAT-ATTTTCTATTTTTATTTG
1 TAGAAAATAATTTTCTATTTTTATTTG
677991 TAGAAAATAATTTTCTATTTTTATTTG
1 TAGAAAATAATTTTCTATTTTTATTTG
678018 TAGAAAATAATTTTC-ATTTT
1 TAGAAAATAATTTTCTATTTT
678038 CAGTTTTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
26 13 0.28
27 33 0.72
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (27 bp):
TAGAAAATAATTTTCTATTTTTATTTG
Found at i:678212 original size:16 final size:16
Alignment explanation
Indices: 678193--678230 Score: 62
Period size: 14 Copynumber: 2.5 Consensus size: 16
678183 TATTAAAATA
678193 TAAAAAATATAATTAT
1 TAAAAAATATAATTAT
678209 T--AAAATATAATTAT
1 TAAAAAATATAATTAT
678223 TAAAAAAT
1 TAAAAAAT
678231 CATTACATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 14 0.70
16 6 0.30
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAAAAATATAATTAT
Found at i:678215 original size:14 final size:14
Alignment explanation
Indices: 678196--678227 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
678186 TAAAATATAA
678196 AAAATATAATTATT
1 AAAATATAATTATT
678210 AAAATATAATTATT
1 AAAATATAATTATT
678224 AAAA
1 AAAA
678228 AATCATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAAATATAATTATT
Found at i:678235 original size:14 final size:14
Alignment explanation
Indices: 678195--678235 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
678185 TTAAAATATA
678195 AAAAATATAATTATT
1 AAAAA-ATAATTATT
*
678210 AAAATATAATTATT
1 AAAAAATAATTATT
*
678224 AAAAAATCATTA
1 AAAAAATAATTA
678236 CATAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAAAATAATTATT
Found at i:678594 original size:21 final size:21
Alignment explanation
Indices: 678570--678610 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
678560 CCATTACGAT
*
678570 GCTTACATGACAATTTACAAA
1 GCTTACATGACAATATACAAA
678591 GCTTACATGACAATATACAA
1 GCTTACATGACAATATACAA
678611 TATTCATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.20, G:0.10, T:0.27
Consensus pattern (21 bp):
GCTTACATGACAATATACAAA
Found at i:678785 original size:25 final size:25
Alignment explanation
Indices: 678751--678812 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
678741 TATTTTTCAA
* * *
678751 AAAAAATAAAAAATTATTTAAATAT
1 AAAATATAAAAAAATATTCAAATAT
* *
678776 AAAATATAAAAAAATATTCATATCT
1 AAAATATAAAAAAATATTCAAATAT
*
678801 TAAATATAAAAA
1 AAAATATAAAAA
678813 TACTAAAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (25 bp):
AAAATATAAAAAAATATTCAAATAT
Found at i:679340 original size:45 final size:44
Alignment explanation
Indices: 679240--679340 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 44
679230 CACCTTTAAA
*
679240 TTTATAATTGAGATCCCTAATTTTGTCAAACTCACTTTTTTACT
1 TTTATAATTGAGATCCCTAATTTTGTCAAACTCACTTTTTTACC
* *
679284 TTTATAATTGAGA-CCCTTAATTTTTTTTCAACCTCAC-TTTTTACC
1 TTTATAATTGAGATCCC-TAA--TTTTGTCAAACTCACTTTTTTACC
679329 TTTATAATTGAG
1 TTTATAATTGAG
679341 GCTCCTACTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
43 3 0.06
44 16 0.31
45 19 0.37
46 13 0.25
ACGTcount: A:0.27, C:0.18, G:0.07, T:0.49
Consensus pattern (44 bp):
TTTATAATTGAGATCCCTAATTTTGTCAAACTCACTTTTTTACC
Found at i:679910 original size:42 final size:40
Alignment explanation
Indices: 679819--679919 Score: 107
Period size: 41 Copynumber: 2.5 Consensus size: 40
679809 TATTTATATT
* * * *
679819 ATTA-AAATATATT-CTTTAGTTATTAAAAATATAAAATT
1 ATTATAAATATATTATTTTAATAATTAAAAATATAAAATA
*
679857 ATTATATAATATATTATTTTAATAATTTAAAATATAATAAATA
1 ATTATA-AATATATTATTTTAATAATTAAAAATAT-A-AAATA
*
679900 ATTATAAATATGTTATTTTA
1 ATTATAAATATATTATTTTA
679920 GAATATTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
38 4 0.08
39 1 0.02
40 8 0.15
41 15 0.29
42 14 0.27
43 10 0.19
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (40 bp):
ATTATAAATATATTATTTTAATAATTAAAAATATAAAATA
Found at i:687700 original size:18 final size:17
Alignment explanation
Indices: 687652--687700 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
687642 AAAGTAGTTG
687652 GTTTAATTAATGAACTA
1 GTTTAATTAATGAACTA
*
687669 GTTTAATTAGTGAACTA
1 GTTTAATTAATGAACTA
687686 GCTTT-ATTGAATGAA
1 G-TTTAATT-AATGAA
687701 ATATCATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 20 0.71
18 8 0.29
ACGTcount: A:0.37, C:0.06, G:0.16, T:0.41
Consensus pattern (17 bp):
GTTTAATTAATGAACTA
Found at i:687760 original size:16 final size:17
Alignment explanation
Indices: 687729--687796 Score: 75
Period size: 16 Copynumber: 3.9 Consensus size: 17
687719 GTAACTTTCA
*
687729 TAATGAATTACATGCTT
1 TAATGAACTACATGCTT
687746 TAATGAACT-CATGCTT
1 TAATGAACTACATGCTT
* *
687762 AAATGAATTAAACATGCTT
1 TAATGAACT--ACATGCTT
687781 TAATGAACTACCATGC
1 TAATGAACTA-CATGC
687797 ATATTTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
16 14 0.33
17 9 0.21
18 5 0.12
19 14 0.33
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (17 bp):
TAATGAACTACATGCTT
Found at i:690602 original size:116 final size:116
Alignment explanation
Indices: 690398--690620 Score: 446
Period size: 116 Copynumber: 1.9 Consensus size: 116
690388 GGTAGAAAAT
690398 AAGTTTCAAATATTATGGATTTTGTTTTGGAGATGTGGTTATATTAGTACAATACTAACATATGT
1 AAGTTTCAAATATTATGGATTTTGTTTTGGAGATGTGGTTATATTAGTACAATACTAACATATGT
690463 ATCGTACATAAATTTATGATTTTATACAGATCGTGATTGATTGTGGTAGAA
66 ATCGTACATAAATTTATGATTTTATACAGATCGTGATTGATTGTGGTAGAA
690514 AAGTTTCAAATATTATGGATTTTGTTTTGGAGATGTGGTTATATTAGTACAATACTAACATATGT
1 AAGTTTCAAATATTATGGATTTTGTTTTGGAGATGTGGTTATATTAGTACAATACTAACATATGT
690579 ATCGTACATAAATTTATGATTTTATACAGATCGTGATTGATT
66 ATCGTACATAAATTTATGATTTTATACAGATCGTGATTGATT
690621 TGTGATCGAG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
116 107 1.00
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (116 bp):
AAGTTTCAAATATTATGGATTTTGTTTTGGAGATGTGGTTATATTAGTACAATACTAACATATGT
ATCGTACATAAATTTATGATTTTATACAGATCGTGATTGATTGTGGTAGAA
Found at i:690753 original size:24 final size:24
Alignment explanation
Indices: 690726--690773 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
690716 TGCATGACAT
690726 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
690750 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
690774 CCAGGAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:695400 original size:29 final size:31
Alignment explanation
Indices: 695366--695437 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
695356 TTGGATTTAG
*
695366 TTAGTGACCAAATTACAAA-TTT-GAAAA-T
1 TTAGTGACCAAAGTACAAACTTTAGAAAAGT
*
695394 TTAAGTGACCAAAGTATAAACTTTAGAAAAGT
1 TT-AGTGACCAAAGTACAAACTTTAGAAAAGT
*
695426 TTAGGGACCAAA
1 TTAGTGACCAAA
695438 ATGGTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 2 0.05
29 15 0.41
30 3 0.08
31 14 0.38
32 3 0.08
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.28
Consensus pattern (31 bp):
TTAGTGACCAAAGTACAAACTTTAGAAAAGT
Found at i:695895 original size:30 final size:31
Alignment explanation
Indices: 695805--695895 Score: 150
Period size: 30 Copynumber: 3.0 Consensus size: 31
695795 TTTGACTTAA
695805 GAAAGATGATAAGGTTGAGGTGTCCTGG-TT
1 GAAAGATGATAAGGTTGAGGTGTCCTGGTTT
695835 GAAAGATGATAAGGTTGAGGTGTCCTGGTTT
1 GAAAGATGATAAGGTTGAGGTGTCCTGGTTT
* *
695866 GGAAGATGATAAGG-TGAGGTGTCTTGGTTT
1 GAAAGATGATAAGGTTGAGGTGTCCTGGTTT
695896 AATGGTAATT
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
30 43 0.74
31 15 0.26
ACGTcount: A:0.25, C:0.05, G:0.37, T:0.32
Consensus pattern (31 bp):
GAAAGATGATAAGGTTGAGGTGTCCTGGTTT
Found at i:697161 original size:24 final size:24
Alignment explanation
Indices: 697132--697179 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
697122 TGCATGACAT
697132 TGTACATAAATGTTTTATGCATCA
1 TGTACATAAATGTTTTATGCATCA
*
697156 TGTACATAGATGTTTTATGCATCA
1 TGTACATAAATGTTTTATGCATCA
697180 CCAGGAAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (24 bp):
TGTACATAAATGTTTTATGCATCA
Found at i:701754 original size:45 final size:45
Alignment explanation
Indices: 701699--702057 Score: 370
Period size: 45 Copynumber: 8.0 Consensus size: 45
701689 AATGAATGAA
701699 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
** * *
701744 CAAAATAATAATATATATGGGTGGATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
*
701789 CAAAATTATAATGCATATGGGTGCATTATC-AGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGA-CATGAAAGGATGC
* ** *
701834 CTAAATAATAATGCATATGGGTGCATTATCGGTATGAAAGTATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
* * * *
701879 CAAAATAATAACGTATATGGGTGCGTTATCGGA-TTGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATC-GACATGAAAGGATGC
* * ** *
701924 CAAAATAATATTGTATATGGGTGCATTATCGGTATGAAAGGATGA
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
* * * * *
701969 C-ATAT-TTGAATGCATATGGGTGCATTATCAACATAAAAGTATGC
1 CAAAATAAT-AATGCATATGGGTGCATTATCGACATGAAAGGATGC
* * ** *
702013 TATAATTGAA-AATGCATAAT-GGTGCATTATAAACATGAATGGATG
1 CA-AAAT-AATAATGCAT-ATGGGTGCATTATCGACATGAAAGGATG
702058 TTATAAATGA
Statistics
Matches: 259, Mismatches: 45, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.00
44 32 0.12
45 193 0.75
46 31 0.12
47 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
Found at i:701842 original size:90 final size:89
Alignment explanation
Indices: 701699--701997 Score: 413
Period size: 90 Copynumber: 3.3 Consensus size: 89
701689 AATGAATGAA
*
701699 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCAAAATAATAATATATATGG
1 CAAAATAATAATGCATATGGGTGCATTATCG-CATGAAAGGATGCCAAAATAATAATGTATATGG
* *
701764 GTGGATTATCGGCATGAAAGGATGC
65 GTGCATTATCGGTATGAAAGGATGC
* * *
701789 CAAAATTATAATGCATATGGGTGCATTATCAGCATGAAAGGATGCCTAAATAATAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATC-GCATGAAAGGATGCCAAAATAATAATGTATATGG
*
701854 GTGCATTATCGGTATGAAAGTATGC
65 GTGCATTATCGGTATGAAAGGATGC
* * * * *
701879 CAAAATAATAACGTATATGGGTGCGTTATCGGATTGAAAGGATGCCAAAATAATATTGTATATGG
1 CAAAATAATAATGCATATGGGTGCATTATCGCA-TGAAAGGATGCCAAAATAATAATGTATATGG
*
701944 GTGCATTATCGGTATGAAAGGATGA
65 GTGCATTATCGGTATGAAAGGATGC
* *
701969 C-ATAT-TTGAATGCATATGGGTGCATTATC
1 CAAAATAAT-AATGCATATGGGTGCATTATC
701998 AACATAAAAG
Statistics
Matches: 184, Mismatches: 22, Indels: 7
0.86 0.10 0.03
Matches are distributed among these distances:
88 1 0.01
89 23 0.12
90 159 0.86
91 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (89 bp):
CAAAATAATAATGCATATGGGTGCATTATCGCATGAAAGGATGCCAAAATAATAATGTATATGGG
TGCATTATCGGTATGAAAGGATGC
Found at i:701859 original size:135 final size:134
Alignment explanation
Indices: 701701--702012 Score: 432
Period size: 135 Copynumber: 2.3 Consensus size: 134
701691 TGAATGAACA
* *
701701 AAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCAAAATAATAATATATATGGGT
1 AAATAATAATGCATATGGGTGCATTATCGACATGAAAGTATGCCAAAATAATAACATATATGGGT
*
701766 G-GATTATCGGCA-TGAAAGGATGCCAAAATTATAATGCATATGGGTGCATTATCAGCATGAAAG
66 GCG-TTATCGG-ATTGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAG
*
701829 GATGCC
129 GATGAC
** *
701835 TAAATAATAATGCATATGGGTGCATTATCGGTATGAAAGTATGCCAAAATAATAACGTATATGGG
1 -AAATAATAATGCATATGGGTGCATTATCGACATGAAAGTATGCCAAAATAATAACATATATGGG
* * * *
701900 TGCGTTATCGGATTGAAAGGATGCCAAAATAATATTGTATATGGGTGCATTATCGGTATGAAAGG
65 TGCGTTATCGGATTGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGG
701965 ATGAC
130 ATGAC
* * * *
701970 ATAT-TTGAATGCATATGGGTGCATTATCAACATAAAAGTATGC
1 AAATAAT-AATGCATATGGGTGCATTATCGACATGAAAGTATGC
702013 TATAATTGAA
Statistics
Matches: 157, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
133 1 0.01
134 36 0.23
135 119 0.76
136 1 0.01
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.29
Consensus pattern (134 bp):
AAATAATAATGCATATGGGTGCATTATCGACATGAAAGTATGCCAAAATAATAACATATATGGGT
GCGTTATCGGATTGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGGA
TGAC
Found at i:702949 original size:45 final size:45
Alignment explanation
Indices: 702894--703252 Score: 352
Period size: 45 Copynumber: 8.0 Consensus size: 45
702884 AATGAATGAA
702894 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
** * *
702939 CAAAATAATAATATATATGGGTGGATTATCGGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
*
702984 CAAAATTATAATGCATATGGGTGCATTATC-AGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGA-CATGAAAGGATGC
* * ** *
703029 CTAAATAATAATGCATATGGGTGCACTATCGGTATGAAAGTATGC
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
* * * * *
703074 CAAAATAATAACGTATATCGGTGCGTTATCGGA-TTGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATC-GACATGAAAGGATGC
* * ** *
703119 CAAAATAATATTGTATATGGGTGCATTATCGGTATGAAAGGATGA
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
* * * * *
703164 C-ATAT-TTGAATGCATATGGGTGCATTATCAACATAAAAGTATGC
1 CAAAATAAT-AATGCATATGGGTGCATTATCGACATGAAAGGATGC
* * ** *
703208 TATAATTGAA-AATGCATAAT-GGTGCATTATAAACATGAATGGATG
1 CA-AAAT-AATAATGCAT-ATGGGTGCATTATCGACATGAAAGGATG
703253 TTATAAATGA
Statistics
Matches: 255, Mismatches: 49, Indels: 19
0.79 0.15 0.06
Matches are distributed among these distances:
43 1 0.00
44 32 0.13
45 189 0.74
46 31 0.12
47 2 0.01
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.28
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGC
Found at i:703037 original size:90 final size:89
Alignment explanation
Indices: 702894--703192 Score: 395
Period size: 90 Copynumber: 3.3 Consensus size: 89
702884 AATGAATGAA
*
702894 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCAAAATAATAATATATATGG
1 CAAAATAATAATGCATATGGGTGCATTATCG-CATGAAAGGATGCCAAAATAATAATGTATATGG
* *
702959 GTGGATTATCGGCATGAAAGGATGC
65 GTGCATTATCGGTATGAAAGGATGC
* * *
702984 CAAAATTATAATGCATATGGGTGCATTATCAGCATGAAAGGATGCCTAAATAATAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATC-GCATGAAAGGATGCCAAAATAATAATGTATATGG
* *
703049 GTGCACTATCGGTATGAAAGTATGC
65 GTGCATTATCGGTATGAAAGGATGC
* * * * * *
703074 CAAAATAATAACGTATATCGGTGCGTTATCGGATTGAAAGGATGCCAAAATAATATTGTATATGG
1 CAAAATAATAATGCATATGGGTGCATTATCGCA-TGAAAGGATGCCAAAATAATAATGTATATGG
*
703139 GTGCATTATCGGTATGAAAGGATGA
65 GTGCATTATCGGTATGAAAGGATGC
* *
703164 C-ATAT-TTGAATGCATATGGGTGCATTATC
1 CAAAATAAT-AATGCATATGGGTGCATTATC
703193 AACATAAAAG
Statistics
Matches: 180, Mismatches: 26, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
88 1 0.01
89 22 0.12
90 156 0.87
91 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (89 bp):
CAAAATAATAATGCATATGGGTGCATTATCGCATGAAAGGATGCCAAAATAATAATGTATATGGG
TGCATTATCGGTATGAAAGGATGC
Found at i:703059 original size:135 final size:134
Alignment explanation
Indices: 702896--703207 Score: 414
Period size: 135 Copynumber: 2.3 Consensus size: 134
702886 TGAATGAACA
* * *
702896 AAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCAAAATAATAATATATATGGGT
1 AAATAATAATGCATATGGGTGCATTATCGACATGAAAGTATGCCAAAATAATAACATATATCGGT
*
702961 G-GATTATCGGCA-TGAAAGGATGCCAAAATTATAATGCATATGGGTGCATTATCAGCATGAAAG
66 GCG-TTATCGG-ATTGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAG
*
703024 GATGCC
129 GATGAC
* ** *
703030 TAAATAATAATGCATATGGGTGCACTATCGGTATGAAAGTATGCCAAAATAATAACGTATATCGG
1 -AAATAATAATGCATATGGGTGCATTATCGACATGAAAGTATGCCAAAATAATAACATATATCGG
* * * *
703095 TGCGTTATCGGATTGAAAGGATGCCAAAATAATATTGTATATGGGTGCATTATCGGTATGAAAGG
65 TGCGTTATCGGATTGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGG
703160 ATGAC
130 ATGAC
* * * *
703165 ATAT-TTGAATGCATATGGGTGCATTATCAACATAAAAGTATGC
1 AAATAAT-AATGCATATGGGTGCATTATCGACATGAAAGTATGC
703208 TATAATTGAA
Statistics
Matches: 154, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
133 1 0.01
134 35 0.23
135 117 0.76
136 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.28
Consensus pattern (134 bp):
AAATAATAATGCATATGGGTGCATTATCGACATGAAAGTATGCCAAAATAATAACATATATCGGT
GCGTTATCGGATTGAAAGGATGCCAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGGA
TGAC
Found at i:703258 original size:46 final size:46
Alignment explanation
Indices: 703172--703265 Score: 118
Period size: 46 Copynumber: 2.0 Consensus size: 46
703162 GACATATTTG
* * *
703172 AATGCATATGGGTGCATTATCAACATAAAAGTATGCTATAATTGAA
1 AATGCATATGGGTGCATTATAAACATAAAAGGATGCTATAAATGAA
* * *
703218 AATGCATAAT-GGTGCATTATAAACATGAATGGATGTTATAAATGAA
1 AATGCAT-ATGGGTGCATTATAAACATAAAAGGATGCTATAAATGAA
703264 AA
1 AA
703266 GAAAGAATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 39 0.95
47 2 0.05
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.30
Consensus pattern (46 bp):
AATGCATATGGGTGCATTATAAACATAAAAGGATGCTATAAATGAA
Found at i:710729 original size:2 final size:2
Alignment explanation
Indices: 710724--710775 Score: 95
Period size: 2 Copynumber: 25.5 Consensus size: 2
710714 CGTGTGTGTG
710724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
710766 TA TA TGA TA T
1 TA TA T-A TA T
710776 GTTTGTTTTG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 47 0.96
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:713852 original size:17 final size:17
Alignment explanation
Indices: 713830--713872 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
713820 GTGTTTGTTG
* *
713830 CTCGAACAAGAGTTTTT
1 CTCGAACAAGAATTTCT
713847 CTCGAA-AGAGAATTTCT
1 CTCGAACA-AGAATTTCT
713864 CTCGAACAA
1 CTCGAACAA
713873 AGGGAAGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.05
17 20 0.91
18 1 0.05
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (17 bp):
CTCGAACAAGAATTTCT
Found at i:720700 original size:24 final size:24
Alignment explanation
Indices: 720671--720719 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
720661 TACATGACAT
720671 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
720695 TGTACATAGATGTTTTATACATCA
1 TGTACATAGATGTTTTATACATCA
720719 T
1 T
720720 CAGGAAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (24 bp):
TGTACATAGATGTTTTATACATCA
Found at i:721636 original size:32 final size:30
Alignment explanation
Indices: 721600--721661 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
721590 TTTGACTTAG
* *
721600 GGAAGGTGATAAGGGATTAGGTGTCTTAGTTT
1 GGAAGATGATAA-GG-TTAGGTATCTTAGTTT
*
721632 GGAAGATGATAAGGTTAGGTATCTTGGTTT
1 GGAAGATGATAAGGTTAGGTATCTTAGTTT
721662 AATGGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 14 0.52
31 2 0.07
32 11 0.41
ACGTcount: A:0.26, C:0.03, G:0.35, T:0.35
Consensus pattern (30 bp):
GGAAGATGATAAGGTTAGGTATCTTAGTTT
Found at i:722385 original size:30 final size:31
Alignment explanation
Indices: 722349--722409 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
722339 AGGAAAATAT
* *
722349 GGGGACC-ATTCTATAATTTTTGAAAAGTTG
1 GGGGACCAATTCAATAATTTTGGAAAAGTTG
722379 GGGGACCAATTCAATAATTTTGGAAAAGTTG
1 GGGGACCAATTCAATAATTTTGGAAAAGTTG
722410 TGGATGGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 7 0.25
31 21 0.75
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.33
Consensus pattern (31 bp):
GGGGACCAATTCAATAATTTTGGAAAAGTTG
Found at i:732789 original size:18 final size:18
Alignment explanation
Indices: 732747--732792 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
732737 TAGTTTGATT
*
732747 AATGAAATAACATTATTC
1 AATGAACTAACATTATTC
*
732765 AATGAACTAACTTTATTC
1 AATGAACTAACATTATTC
732783 AATGAACTAA
1 AATGAACTAA
732793 ATGCATGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (18 bp):
AATGAACTAACATTATTC
Found at i:732868 original size:17 final size:18
Alignment explanation
Indices: 732848--732926 Score: 58
Period size: 17 Copynumber: 4.4 Consensus size: 18
732838 ACTACTTCCC
732848 TAAATGAAATACATGC-T
1 TAAATGAAATACATGCAT
* *
732865 TAAATGCAATGCATGCAT
1 TAAATGAAATACATGCAT
*
732883 T-AATGAACA-ACATACTTAT
1 TAAATGAA-ATACATGC--AT
* *
732902 TAAATGCAATGCATGCAT
1 TAAATGAAATACATGCAT
732920 T-AATGAA
1 TAAATGAA
732927 CAACATACTT
Statistics
Matches: 47, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
17 28 0.60
18 6 0.13
19 4 0.09
20 9 0.19
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (18 bp):
TAAATGAAATACATGCAT
Found at i:732906 original size:37 final size:37
Alignment explanation
Indices: 732864--732949 Score: 172
Period size: 37 Copynumber: 2.3 Consensus size: 37
732854 AAATACATGC
732864 TTAAATGCAATGCATGCATTAATGAACAACATACTTA
1 TTAAATGCAATGCATGCATTAATGAACAACATACTTA
732901 TTAAATGCAATGCATGCATTAATGAACAACATACTTA
1 TTAAATGCAATGCATGCATTAATGAACAACATACTTA
732938 TTAAATGCAATG
1 TTAAATGCAATG
732950 AATGTCATGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (37 bp):
TTAAATGCAATGCATGCATTAATGAACAACATACTTA
Found at i:732960 original size:42 final size:41
Alignment explanation
Indices: 732867--732960 Score: 142
Period size: 37 Copynumber: 2.3 Consensus size: 41
732857 TACATGCTTA
732867 AATGCAATGCATGCATTAATGAACAACATACTTATTAAATGC
1 AATG-AATGCATGCATTAATGAACAACATACTTATTAAATGC
732909 ----AATGCATGCATTAATGAACAACATACTTATTAAATGC
1 AATGAATGCATGCATTAATGAACAACATACTTATTAAATGC
732946 AATGAATGTCATGCA
1 AATGAATG-CATGCA
732961 ACTAATAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
37 37 0.79
41 4 0.09
42 6 0.13
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (41 bp):
AATGAATGCATGCATTAATGAACAACATACTTATTAAATGC
Found at i:736003 original size:17 final size:17
Alignment explanation
Indices: 735981--736022 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
735971 AAAGTTGTTG
735981 GTTTAATTAA-AGAAATA
1 GTTTAATTAATA-AAATA
* *
735998 GTTTAATGAATAAACTA
1 GTTTAATTAATAAAATA
736015 GTTTAATT
1 GTTTAATT
736023 CGTGAACTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.45, C:0.02, G:0.12, T:0.40
Consensus pattern (17 bp):
GTTTAATTAATAAAATA
Found at i:736107 original size:16 final size:17
Alignment explanation
Indices: 736079--736137 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 17
736069 CTTTCATAAA
*
736079 GAACTATATGCTTTAAT
1 GAACTACATGCTTTAAT
*
736096 GAACT-CATGCTTAAAT
1 GAACTACATGCTTTAAT
*
736112 GAATTAAACATGCTTTAAT
1 GAACT--ACATGCTTTAAT
736131 GAACTAC
1 GAACTAC
736138 CATGAATATT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 13 0.38
17 7 0.21
19 14 0.41
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (17 bp):
GAACTACATGCTTTAAT
Found at i:740694 original size:23 final size:23
Alignment explanation
Indices: 740649--740695 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
740639 ACTTTGATGC
* **
740649 TGAATCATTCAACACTGTTTTAT
1 TGAATCAGTCAACACTGAATTAT
*
740672 TGAATCAGTCAGCACTGAATTAT
1 TGAATCAGTCAACACTGAATTAT
740695 T
1 T
740696 CAGAGGTACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (23 bp):
TGAATCAGTCAACACTGAATTAT
Found at i:741607 original size:7 final size:7
Alignment explanation
Indices: 741595--741642 Score: 96
Period size: 7 Copynumber: 6.9 Consensus size: 7
741585 CAAATAATAT
741595 ATATTTA
1 ATATTTA
741602 ATATTTA
1 ATATTTA
741609 ATATTTA
1 ATATTTA
741616 ATATTTA
1 ATATTTA
741623 ATATTTA
1 ATATTTA
741630 ATATTTA
1 ATATTTA
741637 ATATTT
1 ATATTT
741643 CGAGATATCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 41 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
ATATTTA
Found at i:742903 original size:149 final size:149
Alignment explanation
Indices: 742633--742931 Score: 598
Period size: 149 Copynumber: 2.0 Consensus size: 149
742623 AAAAAATCAA
742633 TTCTGTAATTCAATGTTTATATCTTTCGATTAGGTTTTGGTTATTAGTAGAAAAGATTTGCTTTG
1 TTCTGTAATTCAATGTTTATATCTTTCGATTAGGTTTTGGTTATTAGTAGAAAAGATTTGCTTTG
742698 ATTTTAGGAGCAGATTTTAGGTGCTTGATATTAGGGATTTGGCGTACAAGTCTTTAAAACTTTTG
66 ATTTTAGGAGCAGATTTTAGGTGCTTGATATTAGGGATTTGGCGTACAAGTCTTTAAAACTTTTG
742763 CTTATTTATTTTAATAATT
131 CTTATTTATTTTAATAATT
742782 TTCTGTAATTCAATGTTTATATCTTTCGATTAGGTTTTGGTTATTAGTAGAAAAGATTTGCTTTG
1 TTCTGTAATTCAATGTTTATATCTTTCGATTAGGTTTTGGTTATTAGTAGAAAAGATTTGCTTTG
742847 ATTTTAGGAGCAGATTTTAGGTGCTTGATATTAGGGATTTGGCGTACAAGTCTTTAAAACTTTTG
66 ATTTTAGGAGCAGATTTTAGGTGCTTGATATTAGGGATTTGGCGTACAAGTCTTTAAAACTTTTG
742912 CTTATTTATTTTAATAATT
131 CTTATTTATTTTAATAATT
742931 T
1 T
742932 AAAATTAACT
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 150 1.00
ACGTcount: A:0.26, C:0.08, G:0.19, T:0.47
Consensus pattern (149 bp):
TTCTGTAATTCAATGTTTATATCTTTCGATTAGGTTTTGGTTATTAGTAGAAAAGATTTGCTTTG
ATTTTAGGAGCAGATTTTAGGTGCTTGATATTAGGGATTTGGCGTACAAGTCTTTAAAACTTTTG
CTTATTTATTTTAATAATT
Found at i:745314 original size:12 final size:12
Alignment explanation
Indices: 745297--745322 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
745287 GTTAATTATT
745297 ATGTTTACATCA
1 ATGTTTACATCA
745309 ATGTTTACATCA
1 ATGTTTACATCA
745321 AT
1 AT
745323 TTATAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (12 bp):
ATGTTTACATCA
Found at i:748716 original size:2 final size:2
Alignment explanation
Indices: 748711--748740 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
748701 CGTATTCTTT
*
748711 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
748741 ATTTGTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:753648 original size:14 final size:14
Alignment explanation
Indices: 753610--753650 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
753600 ATTATATTTA
753610 TTTATTTTAT-TAT
1 TTTATTTTATCTAT
753623 TTTATTCTTATCT-T
1 TTTATT-TTATCTAT
753637 TTTATCTTTATCTA
1 TTTAT-TTTATCTA
753651 AAAATTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 6 0.25
14 16 0.67
15 2 0.08
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTATTTTATCTAT
Found at i:754543 original size:15 final size:16
Alignment explanation
Indices: 754507--754549 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
754497 TTTTATTAAC
754507 ATATGAATGTG-TTCT
1 ATATGAATGTGCTTCT
* *
754522 ATGTGAAAGTGCTT-T
1 ATATGAATGTGCTTCT
754537 ATATGAATGTGCT
1 ATATGAATGTGCT
754550 CAATGTGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (16 bp):
ATATGAATGTGCTTCT
Found at i:754558 original size:15 final size:15
Alignment explanation
Indices: 754510--754558 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
754500 TATTAACATA
*
754510 TGAATGTGTTCTATG
1 TGAATGTGCTCTATG
* * *
754525 TGAAAGTGCTTTATA
1 TGAATGTGCTCTATG
*
754540 TGAATGTGCTCAATG
1 TGAATGTGCTCTATG
754555 TGAA
1 TGAA
754559 AATGTTATGC
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (15 bp):
TGAATGTGCTCTATG
Found at i:754725 original size:24 final size:25
Alignment explanation
Indices: 754690--754760 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 25
754680 GAGTCGAGGG
*
754690 TTCTACG-CGGTCCTTCGGGA-AAA
1 TTCTACGAAGGTCCTTCGGGACAAA
754713 TTTCTAC-AAGGTCCTTCGGGACAAA
1 -TTCTACGAAGGTCCTTCGGGACAAA
*
754738 TTCTACGTA-GTCCTTCGGGACAA
1 TTCTACGAAGGTCCTTCGGGACAA
754761 CTCTATATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
24 38 0.90
25 4 0.10
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
TTCTACGAAGGTCCTTCGGGACAAA
Found at i:756442 original size:20 final size:19
Alignment explanation
Indices: 756417--756454 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
756407 TAGGTCTCTC
756417 AGTATCGATACCAATCCTTG
1 AGTATCGATACCAA-CCTTG
756437 AGTATCGATACCAACCTT
1 AGTATCGATACCAACCTT
756455 AGGTACCGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (19 bp):
AGTATCGATACCAACCTTG
Found at i:756464 original size:19 final size:20
Alignment explanation
Indices: 756417--756466 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
756407 TAGGTCTCTC
*
756417 AGTATCGATACCAATCCTTG
1 AGTACCGATACCAATCCTTG
*
756437 AGTATCGATACCAA-CCTT-
1 AGTACCGATACCAATCCTTG
756455 AGGTACCGATAC
1 A-GTACCGATAC
756467 AAAAATAGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 1 0.04
19 13 0.46
20 14 0.50
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (20 bp):
AGTACCGATACCAATCCTTG
Found at i:756657 original size:20 final size:21
Alignment explanation
Indices: 756607--756657 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
756597 AATTAGTTAA
*
756607 GTATTGATACCCTTACTTAGG
1 GTATTGATACCCTCACTTAGG
** *
756628 GTATCAATACCCTCAC-TATG
1 GTATTGATACCCTCACTTAGG
756648 GTATTGATAC
1 GTATTGATAC
756658 TCCATTGAGT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (21 bp):
GTATTGATACCCTCACTTAGG
Found at i:756753 original size:20 final size:20
Alignment explanation
Indices: 756730--756768 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
756720 CTACCCTTTG
* *
756730 AATATCGATACCTTATGAAC
1 AATATCAATACCCTATGAAC
756750 AATATCAATACCCTATGAA
1 AATATCAATACCCTATGAA
756769 GAGGTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.28
Consensus pattern (20 bp):
AATATCAATACCCTATGAAC
Found at i:757809 original size:14 final size:14
Alignment explanation
Indices: 757792--757833 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
757782 CTTTTAAAAT
757792 ATTTTTGAAATTAA
1 ATTTTTGAAATTAA
757806 ATTTTTGATAAATTAA
1 ATTTTTG--AAATTAA
*
757822 ATTTTTGGAATT
1 ATTTTTGAAATT
757834 TGATTTAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 11 0.44
16 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (14 bp):
ATTTTTGAAATTAA
Found at i:759991 original size:110 final size:110
Alignment explanation
Indices: 759834--760054 Score: 309
Period size: 110 Copynumber: 2.0 Consensus size: 110
759824 CAAATTAGTG
* *
759834 AATTTGTGAAAATTTTTAAAGGTCGTTTGGTTAAAGAAATGTAAAATTACCATTGA-AATGGGAT
1 AATTTGTGAAAATTCTTAAAGGTCGTTTGGTTAAAGAAATGTAAAATTACCATTGAGAATGAGAT
** * * *
759898 TACTGGAATGTTACATTACTTGACACATTATTGAGAATGTTGTATT
66 TACCAGAATGATACATTACTTAACACATTATTG-GAATATTGTATT
* *** *
759944 AATTTGTGAAAATTCTTAAGGGTCGTTTGGTTCTCGGAATGTAAAATTACCATTGAGAATGAGAT
1 AATTTGTGAAAATTCTTAAAGGTCGTTTGGTTAAAGAAATGTAAAATTACCATTGAGAATGAGAT
*
760009 TACCAGAATGATAGATTACTTAACACATTATTGGAATATTGTATT
66 TACCAGAATGATACATTACTTAACACATTATTGGAATATTGTATT
760054 A
1 A
760055 TCTTGTTTGA
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
110 62 0.64
111 35 0.36
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (110 bp):
AATTTGTGAAAATTCTTAAAGGTCGTTTGGTTAAAGAAATGTAAAATTACCATTGAGAATGAGAT
TACCAGAATGATACATTACTTAACACATTATTGGAATATTGTATT
Found at i:760310 original size:8 final size:8
Alignment explanation
Indices: 760289--760318 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
760279 AATTAATATA
760289 TTTTTTAT
1 TTTTTTAT
760297 TATTTTTAT
1 T-TTTTTAT
760306 TTTTTTAT
1 TTTTTTAT
760314 TTTTT
1 TTTTT
760319 GAAAATACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTAT
Found at i:764075 original size:15 final size:16
Alignment explanation
Indices: 764048--764077 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
764038 AAGAAAAATT
764048 AAAATTAAAAGAAAAC
1 AAAATTAAAAGAAAAC
764064 AAAATT-AAAGAAAA
1 AAAATTAAAAGAAAA
764078 GAAGAACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (16 bp):
AAAATTAAAAGAAAAC
Found at i:765132 original size:26 final size:26
Alignment explanation
Indices: 765066--765134 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
765056 GCTTTATTCA
* *
765066 TATTTTTTT-CACTGTTCGAATTTGC
1 TATTTTTTTGCACTGTTCGAATCTAC
* ** *
765091 TATTTTTCTGTGCTGTTTGAATCTAC
1 TATTTTTTTGCACTGTTCGAATCTAC
765117 TATTTTTTTGCACTGTTC
1 TATTTTTTTGCACTGTTC
765135 AAATAGTTTA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
25 8 0.24
26 25 0.76
ACGTcount: A:0.14, C:0.16, G:0.13, T:0.57
Consensus pattern (26 bp):
TATTTTTTTGCACTGTTCGAATCTAC
Found at i:765492 original size:22 final size:19
Alignment explanation
Indices: 765465--765513 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 19
765455 TTTTAAACTA
765465 AATCCTAAAATCAAAAAAGAT
1 AATCCTAAAA--AAAAAAGAT
*
765486 AATTCCTAAAAATAAAAGAT
1 AA-TCCTAAAAAAAAAAGAT
765506 AATCCTAA
1 AATCCTAA
765514 TTTGAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 6 0.23
20 10 0.38
21 2 0.08
22 8 0.31
ACGTcount: A:0.59, C:0.14, G:0.04, T:0.22
Consensus pattern (19 bp):
AATCCTAAAAAAAAAAGAT
Found at i:777110 original size:21 final size:22
Alignment explanation
Indices: 777081--777121 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
777071 CACACATAGT
777081 TCCATAGTACACAAAGTACTAC
1 TCCATAGTACACAAAGTACTAC
777103 TCCA-AGTACACAAAGTACT
1 TCCATAGTACACAAAGTACT
777122 GGTACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (22 bp):
TCCATAGTACACAAAGTACTAC
Found at i:779189 original size:9 final size:11
Alignment explanation
Indices: 779164--779189 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
779154 AAATATATAA
779164 TATATATTATT
1 TATATATTATT
779175 TATATATTATT
1 TATATATTATT
779186 TATA
1 TATA
779190 AATTTCGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATATTATT
Found at i:784285 original size:47 final size:47
Alignment explanation
Indices: 784229--784334 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
784219 ATCACTATTT
*
784229 GGCCAAGGAGAGAAAATTGGTGCCAAGATGAACAAGCATAAACATTC
1 GGCCAAGGAGAGAAAATTGGCGCCAAGATGAACAAGCATAAACATTC
* **
784276 GGCCAAGGAGAGTAAATTGGCGCCAAGATGAACAAGCATGCACATTC
1 GGCCAAGGAGAGAAAATTGGCGCCAAGATGAACAAGCATAAACATTC
*
784323 TGCCAA-GAGAGA
1 GGCCAAGGAGAGA
784335 TATCTCTCCA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
46 5 0.09
47 48 0.91
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (47 bp):
GGCCAAGGAGAGAAAATTGGCGCCAAGATGAACAAGCATAAACATTC
Found at i:785181 original size:18 final size:17
Alignment explanation
Indices: 785158--785218 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 17
785148 ATTGGAGTAT
785158 AAAAAGAAAGAAAAGACA
1 AAAAAG-AAGAAAAGACA
785176 AAAAAGAAGAAAA-ATTCA
1 AAAAAGAAGAAAAGA--CA
785194 AAAAAGAAGAAAAGA-A
1 AAAAAGAAGAAAAGACA
785210 AAAGAAGAA
1 AAA-AAGAA
785219 TTTCAAAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.13
17 12 0.31
18 21 0.54
19 1 0.03
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAAAGAAGAAAAGACA
Found at i:785189 original size:9 final size:8
Alignment explanation
Indices: 785158--785218 Score: 50
Period size: 9 Copynumber: 7.0 Consensus size: 8
785148 ATTGGAGTAT
785158 AAAAAGAA
1 AAAAAGAA
785166 AGAAAAGACA
1 A-AAAAGA-A
785176 AAAAAGAA
1 AAAAAGAA
**
785184 GAAAAATTCA
1 -AAAAA-GAA
785194 AAAAAGAA
1 AAAAAGAA
*
785202 GAAAAGAA
1 AAAAAGAA
785210 AAAGAAGAA
1 AAA-AAGAA
785219 TTTCAAAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
8 12 0.29
9 27 0.64
10 3 0.07
ACGTcount: A:0.77, C:0.03, G:0.16, T:0.03
Consensus pattern (8 bp):
AAAAAGAA
Found at i:785230 original size:29 final size:32
Alignment explanation
Indices: 785158--785227 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 32
785148 ATTGGAGTAT
785158 AAAAAGAAAGAAAAGACAAAAAAGAAGAAAAATTCA
1 AAAAAG-AAGAAAAG--AAAAAAGAAG-AAAATTCA
*
785194 AAAAAGAAGAAAAG-AAAAAGAAG-AATTTCA
1 AAAAAGAAGAAAAGAAAAAAGAAGAAAATTCA
785224 AAAA
1 AAAA
785228 GAAAGCAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
30 10 0.30
32 9 0.27
35 8 0.24
36 6 0.18
ACGTcount: A:0.74, C:0.04, G:0.14, T:0.07
Consensus pattern (32 bp):
AAAAAGAAGAAAAGAAAAAAGAAGAAAATTCA
Found at i:791748 original size:21 final size:21
Alignment explanation
Indices: 791724--791777 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
791714 CGATGAACAA
* *
791724 TATCAATATTGATGCAAGTAG
1 TATCAATATTGATACAACTAG
*
791745 TATCGATATTGATACAACTAG
1 TATCAATATTGATACAACTAG
791766 TATCAATATTGA
1 TATCAATATTGA
791778 GAGGAAGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (21 bp):
TATCAATATTGATACAACTAG
Found at i:792690 original size:137 final size:137
Alignment explanation
Indices: 792411--792690 Score: 334
Period size: 137 Copynumber: 2.0 Consensus size: 137
792401 GTCGTAGGTG
* ** *
792411 CATTTCGACATAAATTGTATATAATGGTTATCGATTGATTTTGTGTAATGCATAATGGTGCATTT
1 CATTTCGACATAAATTATATATAAAAGTTATCGATCGATTTTGTGTAATGCATAATGGTGCATTT
* * * * *
792476 TCGTATTAGTATTATGAGTACTTTTGGCACTAGATATTCAACCATGGTATTCATAACGAGTTTGT
66 TCGTATCAGTACTATGAGTACTTTTGGCACTAGATATGCAACCATGGAATTCAAAACGAGTTTGT
*
792541 GAATTAC
131 CAATTAC
* * * *
792548 TATTTCGGCATACAATTATGTATAAAAGTTATCGATCGATTTT-TTTAATGCATAATGGTGCATT
1 CATTTCGACATA-AATTATATATAAAAGTTATCGATCGATTTTGTGTAATGCATAATGGTGCATT
* * *
792612 TTCGTATCAGTACTAT-ATGTACTTTCT-GCACTATG-TGTGCATCCATGGAATTCAAAATGAGT
65 TTCGTATCAGTACTATGA-GTACTTT-TGGCACTA-GATATGCAACCATGGAATTCAAAACGAGT
*
792674 TTGTCAATTTC
127 TTGTCAATTAC
792685 CATTTC
1 CATTTC
792691 TGTACTTAGG
Statistics
Matches: 120, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
136 1 0.01
137 92 0.77
138 27 0.22
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.41
Consensus pattern (137 bp):
CATTTCGACATAAATTATATATAAAAGTTATCGATCGATTTTGTGTAATGCATAATGGTGCATTT
TCGTATCAGTACTATGAGTACTTTTGGCACTAGATATGCAACCATGGAATTCAAAACGAGTTTGT
CAATTAC
Found at i:794071 original size:17 final size:16
Alignment explanation
Indices: 794036--794116 Score: 80
Period size: 15 Copynumber: 5.2 Consensus size: 16
794026 TGTCCGATCC
794036 GAATAACACATATTC-
1 GAATAACACATATTCT
*
794051 GAATAACATATATATCT
1 GAATAACACATAT-TCT
794068 GAATAACACATATT-T
1 GAATAACACATATTCT
* ** *
794083 GAATAACATA-AAACC
1 GAATAACACATATTCT
794098 GAATAACACATA-TCT
1 GAATAACACATATTCT
794113 GAAT
1 GAAT
794117 CCTGATTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
14 1 0.02
15 36 0.68
16 4 0.08
17 12 0.23
ACGTcount: A:0.49, C:0.16, G:0.07, T:0.27
Consensus pattern (16 bp):
GAATAACACATATTCT
Found at i:794104 original size:30 final size:32
Alignment explanation
Indices: 794034--794116 Score: 116
Period size: 32 Copynumber: 2.7 Consensus size: 32
794024 GATGTCCGAT
* *
794034 CCGAATAACACATATTCGAATAACATATATAT
1 CCGAATAACACATATTTGAATAACATATATAA
*
794066 CTGAATAACACATATTTGAATAACATA-A-AA
1 CCGAATAACACATATTTGAATAACATATATAA
*
794096 CCGAATAACACATATCTGAAT
1 CCGAATAACACATATTTGAAT
794117 CCTGATTTGA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 20 0.43
31 1 0.02
32 25 0.54
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (32 bp):
CCGAATAACACATATTTGAATAACATATATAA
Found at i:798390 original size:10 final size:11
Alignment explanation
Indices: 798375--798406 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
798365 TATTATCGTG
798375 GATTTT-GATT
1 GATTTTGGATT
798385 GATTTTGGATT
1 GATTTTGGATT
798396 G-TTTTGGATT
1 GATTTTGGATT
798406 G
1 G
798407 TAGTTGGTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.16, C:0.00, G:0.28, T:0.56
Consensus pattern (11 bp):
GATTTTGGATT
Done.