Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 145 of 235
Found at i:48662461 original size:72 final size:72
Alignment explanation
Indices: 48662379--48662524 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
48662369 TTATGTCACG
*
48662379 TTGTATGTTATTGGATAAGTCTGTATCTATGCATATGGTGTGAGAGTGATAAAAGGCTTAATAAT
1 TTGTATGTTATTGGATAAGTATGTATCTATGCATATGGTGTGAGAGTGATAAAAGGCTTAATAAT
48662444 TAGCCTA
66 TAGCCTA
48662451 TTGTATGTTATTGGATAAGTATGTATCTATGCATATGGTGTGAGAGTGATAAAAGGCTTAATAAT
1 TTGTATGTTATTGGATAAGTATGTATCTATGCATATGGTGTGAGAGTGATAAAAGGCTTAATAAT
48662516 TAGCCTA
66 TAGCCTA
48662523 TT
1 TT
48662525 TCTGGCCACA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (72 bp):
TTGTATGTTATTGGATAAGTATGTATCTATGCATATGGTGTGAGAGTGATAAAAGGCTTAATAAT
TAGCCTA
Found at i:48665527 original size:28 final size:29
Alignment explanation
Indices: 48665450--48665528 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 29
48665440 TATTAATTAT
48665450 TAATAATTTATATAAATTTTTTATAATTTTA
1 TAATAATTT-T-TAAATTTTTTATAATTTTA
* * *
48665481 TAA-AA-ATTAAAATAATTTTATAA-TTTA
1 TAATAATTTTTAAAT-TTTTTATAATTTTA
48665508 TAATAATTTTTAAATTTTTTA
1 TAATAATTTTTAAATTTTTTA
48665529 GTAAGAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
27 11 0.28
28 16 0.41
29 7 0.18
30 2 0.05
31 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TAATAATTTTTAAATTTTTTATAATTTTA
Found at i:48665528 original size:48 final size:52
Alignment explanation
Indices: 48665443--48665539 Score: 118
Period size: 48 Copynumber: 1.9 Consensus size: 52
48665433 TATTAATTAT
48665443 TAATTATTAATAATTTATATAAATTTTTTATAATTTTA-TAA-AAATTAAAA
1 TAATTATTAATAATTTATATAAATTTTTTATAATTTTAGTAAGAAATTAAAA
48665493 TAATT-TT-ATAATTTATA-ATAA-TTTTTA-AATTTTTTAGTAAGAAATTA
1 TAATTATTAATAATTTATATA-AATTTTTTATAA--TTTTAGTAAGAAATTA
48665540 CTCTTCCTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
46 2 0.05
47 7 0.17
48 17 0.40
49 5 0.12
50 11 0.26
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (52 bp):
TAATTATTAATAATTTATATAAATTTTTTATAATTTTAGTAAGAAATTAAAA
Found at i:48678932 original size:49 final size:48
Alignment explanation
Indices: 48678779--48679098 Score: 176
Period size: 49 Copynumber: 6.7 Consensus size: 48
48678769 AAGGTACGAT
* * * *
48678779 GCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCAC-ATCTAA
1 GCCGATGCCATGTCCCAAACA-GGTCTTACACTGGCTCTCACTATCTGA
* * * *
48678827 GCCGATGCCATGTCCTAGACAAGTCTTACACTGACT-TC-C-ATACATCGA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTAT-C-T-GA
* * *
48678875 GGCTGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGT
1 -GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCAC-TATCTGA
* * ** * * *
48678925 GTCGATGCCATGTCCCAAATAGGTCTTACACT--AACACAC-CTC-AA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTATCTGA
** * * * *
48678969 GCCGATGCCAAATCCTAGACAGGTCTTCCACTAGCT-TGCA-TATCTTGA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCT-CACTATC-TGA
* * *
48679017 GGCCGATGCCATGTCCTAGACAAGTCTTACACTGGCTCTCATCTATC-GA
1 -GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCA-CTATCTGA
* * ** *
48679066 TGCCGATTCTATGTCCCAGGCAGGTCCTACACT
1 -GCCGATGCCATGTCCCAAACAGGTCTTACACT
48679099 AGCACTCATA
Statistics
Matches: 207, Mismatches: 47, Indels: 35
0.72 0.16 0.12
Matches are distributed among these distances:
44 25 0.12
45 5 0.02
46 7 0.03
47 17 0.08
48 19 0.09
49 121 0.58
50 4 0.02
51 6 0.03
52 1 0.00
53 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACAGGTCTTACACTGGCTCTCACTATCTGA
Found at i:48679081 original size:142 final size:142
Alignment explanation
Indices: 48678778--48679083 Score: 350
Period size: 142 Copynumber: 2.1 Consensus size: 142
48678768 TAAGGTACGA
* * * * * * **
48678778 TGCCGACGCCATGTTCCAAACATGGTCTTACACTAGCTCTCACATCTAAGCCGATGCCATGTCCT
1 TGCCGATGCCATGTCCCAAATA-GGTCTTACACTA--ACACACCTC-AAGCCGATGCCAAATCCT
* *
48678843 AGACAAGTCTTACACTGACTTCCATACATCGAGGCTGATGCCATGTCCCAGACAGGTCTTACACT
62 AGACAAGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCCAGACAAGTCTTACACT
48678908 GGCTCTCACTTATCTG
127 GGCTCTCACTTATCTG
*
48678924 TGTCGATGCCATGTCCCAAATAGGTCTTACACTAACACACCTCAAGCCGATGCCAAATCCTAGAC
1 TGCCGATGCCATGTCCCAAATAGGTCTTACACTAACACACCTCAAGCCGATGCCAAATCCTAGAC
* * * * *
48678989 AGGTCTTCCACT-AGCTTGCATATC-TTGAGGCCGATGCCATGTCCTAGACAAGTCTTACACTGG
66 AAGTCTTACACTGA-CTTCCATA-CATCGAGGCCGATGCCATGTCCCAGACAAGTCTTACACTGG
48679052 CTCTCA-TCTATC-G
129 CTCTCACT-TATCTG
* *
48679065 ATGCCGATTCTATGTCCCA
1 -TGCCGATGCCATGTCCCA
48679084 GGCAGGTCCT
Statistics
Matches: 137, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
141 3 0.02
142 97 0.71
143 7 0.05
145 12 0.09
146 18 0.13
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.27
Consensus pattern (142 bp):
TGCCGATGCCATGTCCCAAATAGGTCTTACACTAACACACCTCAAGCCGATGCCAAATCCTAGAC
AAGTCTTACACTGACTTCCATACATCGAGGCCGATGCCATGTCCCAGACAAGTCTTACACTGGCT
CTCACTTATCTG
Found at i:48681945 original size:15 final size:15
Alignment explanation
Indices: 48681925--48681953 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48681915 GCCTCTGTCG
48681925 AGTGATCTGGAGATA
1 AGTGATCTGGAGATA
48681940 AGTGATCTGGAGAT
1 AGTGATCTGGAGAT
48681954 GACTTCTCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.34, T:0.28
Consensus pattern (15 bp):
AGTGATCTGGAGATA
Found at i:48682766 original size:19 final size:19
Alignment explanation
Indices: 48682742--48682778 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
48682732 GTGTTCATAT
48682742 TGTGCGTTTGGGTCATAGA
1 TGTGCGTTTGGGTCATAGA
48682761 TGTGCGTTTGGGTCATAG
1 TGTGCGTTTGGGTCATAG
48682779 CGCTATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.38, T:0.38
Consensus pattern (19 bp):
TGTGCGTTTGGGTCATAGA
Found at i:48685669 original size:71 final size:71
Alignment explanation
Indices: 48685551--48685693 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 71
48685541 TCACTAAACC
* * * *
48685551 ATTATCCTCATCGCCTTTTTGCCAGTTTAGGGAGAAACTTCATGTCACAATGCAGTAGTAGATGG
1 ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
*
48685616 GTGAAT
66 GTAAAT
* *
48685622 ATTATCCTCATCTCCTTTTTGTCC-GTTCAAGGAGAAACTTCAGGTCACAATATAGTAGTAGATG
1 ATTATCCTCATCGCCTTTTTG-CCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATG
48685686 GGTAAAT
65 GGTAAAT
48685693 A
1 A
48685694 GTTGAGTTAG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
71 62 0.97
72 2 0.03
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (71 bp):
ATTATCCTCATCGCCTTTTTGCCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
GTAAAT
Found at i:48687857 original size:23 final size:23
Alignment explanation
Indices: 48687788--48687860 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
48687778 TTTTATACAA
*
48687788 TATAAATTTTGGTAGTT-TTTA-
1 TATAAATTTTAGTAGTTATTTAT
** * *
48687809 TATAAATAGATATGTTGTTATATAT
1 TATAAAT-TTTA-GTAGTTATTTAT
48687834 TATAAATTTTAGTAGTTATTTAT
1 TATAAATTTTAGTAGTTATTTAT
48687857 TATA
1 TATA
48687861 TAAATAAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
21 7 0.18
22 1 0.03
23 19 0.49
24 5 0.13
25 7 0.18
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (23 bp):
TATAAATTTTAGTAGTTATTTAT
Found at i:48698158 original size:61 final size:60
Alignment explanation
Indices: 48698033--48698156 Score: 164
Period size: 59 Copynumber: 2.1 Consensus size: 60
48698023 TTTTTTTTAA
* * * *
48698033 TTTTTAGAGTTAGGACTAAATTGATAGATTTTATAAATATTGAGGGTAAAATTTATTAAAT
1 TTTTTAGAATTAGAACTAAAATGATA-ATTTTATAAACATTGAGGGTAAAATTTATTAAAT
*
48698094 TTTTTAGAATTAGAACTAAAATGAT-ATTTTGTAAACATTGAGGGCT-AAATTT-TTAAAT
1 TTTTTAGAATTAGAACTAAAATGATAATTTTATAAACATTGAGGG-TAAAATTTATTAAAT
48698152 TTTTT
1 TTTTT
48698157 TTATATTTAG
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
58 11 0.19
59 23 0.40
60 1 0.02
61 22 0.39
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (60 bp):
TTTTTAGAATTAGAACTAAAATGATAATTTTATAAACATTGAGGGTAAAATTTATTAAAT
Found at i:48703138 original size:8 final size:9
Alignment explanation
Indices: 48703063--48703139 Score: 75
Period size: 9 Copynumber: 8.3 Consensus size: 9
48703053 TACTTTTAAT
48703063 TTTTTATAA
1 TTTTTATAA
*
48703072 TATTTAATAA
1 T-TTTTATAA
*
48703082 TTTATATAA
1 TTTTTATAA
* *
48703091 TTTTTCTAT
1 TTTTTATAA
*
48703100 TTTTTATCA
1 TTTTTATAA
48703109 TTTTTATAA
1 TTTTTATAA
48703118 TATTTTAATAA
1 T-TTTT-ATAA
48703129 TTTTTA-AA
1 TTTTTATAA
48703137 TTT
1 TTT
48703140 AAAACTTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
8 5 0.09
9 29 0.53
10 16 0.29
11 5 0.09
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:48703660 original size:9 final size:9
Alignment explanation
Indices: 48703648--48703778 Score: 74
Period size: 9 Copynumber: 14.4 Consensus size: 9
48703638 AAAATTTCCC
48703648 TTTTATAAT
1 TTTTATAAT
48703657 TTTTATAAT
1 TTTTATAAT
*
48703666 ATTTA-ATAT
1 TTTTATA-AT
48703675 TTTTAATTAAT
1 TTTT-A-TAAT
* *
48703686 TTTAATTAT
1 TTTTATAAT
48703695 TTTT-TAAT
1 TTTTATAAT
*
48703703 TTTT-TTAT
1 TTTTATAAT
48703711 TTATTATAAT
1 TT-TTATAAT
* *
48703721 TTTAATCAT
1 TTTTATAAT
48703730 TTTTA-AA-
1 TTTTATAAT
**
48703737 AATTATAAT
1 TTTTATAAT
*
48703746 TTTTATAGT
1 TTTTATAAT
* *
48703755 TTTTTTATGT
1 TTTTATA-AT
48703765 TTTTAATAAT
1 TTTT-ATAAT
48703775 TTTT
1 TTTT
48703779 CTAAAAGTTT
Statistics
Matches: 92, Mismatches: 20, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
7 3 0.03
8 16 0.17
9 47 0.51
10 18 0.20
11 7 0.08
12 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
TTTTATAAT
Found at i:48703708 original size:11 final size:11
Alignment explanation
Indices: 48703674--48703733 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
48703664 ATATTTAATA
48703674 TTTTTAATTA-
1 TTTTTAATTAT
*
48703684 ATTTTAATTAT
1 TTTTTAATTAT
*
48703695 TTTTTAATTTT
1 TTTTTAATTAT
*
48703706 TTTATTTATTAT
1 TTT-TTAATTAT
* *
48703718 AATTTTAATCAT
1 -TTTTTAATTAT
48703730 TTTT
1 TTTT
48703734 AAAAATTATA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
10 9 0.24
11 15 0.39
12 12 0.32
13 2 0.05
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTAATTAT
Found at i:48703723 original size:25 final size:25
Alignment explanation
Indices: 48703695--48703778 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
48703685 TTTTAATTAT
48703695 TTTTTAATTTTTTTATTTATTATAA
1 TTTTTAATTTTTTTATTTATTATAA
* ***
48703720 -TTTTAATCATTTTTAAAAATTATAA
1 TTTTTAAT-TTTTTTATTTATTATAA
*
48703745 TTTTTATAGTTTTTTTATGTTTTTAATAA
1 TTTTTA-A-TTTTTTTAT-TTATT-ATAA
48703774 TTTTT
1 TTTTT
48703779 CTAAAAGTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
24 7 0.16
25 13 0.30
26 5 0.11
27 7 0.16
28 3 0.07
29 9 0.20
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTAATTTTTTTATTTATTATAA
Found at i:48704428 original size:20 final size:21
Alignment explanation
Indices: 48704398--48704437 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
48704388 TTAATTGAAA
48704398 ATAATAAAAATCT-AATTAATT
1 ATAATAAAAAT-TAAATTAATT
48704419 ATAA-AAAAATTAAATTAAT
1 ATAATAAAAATTAAATTAAT
48704438 ATTAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 13 0.72
21 4 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATAAAAATTAAATTAATT
Found at i:48704441 original size:11 final size:10
Alignment explanation
Indices: 48704425--48704472 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
48704415 AATTATAAAA
48704425 AAATTAAATT
1 AAATTAAATT
48704435 AATATTAAATT
1 AA-ATTAAATT
48704446 AAATTATAAATT
1 AAA-T-TAAATT
*
48704458 ACATTAAATT
1 AAATTAAATT
48704468 CAAAT
1 -AAAT
48704473 ATAATAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 9 0.28
11 15 0.47
12 8 0.25
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTAAATT
Found at i:48704463 original size:17 final size:16
Alignment explanation
Indices: 48704425--48704472 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
48704415 AATTATAAAA
*
48704425 AAATTAAATTAATATT
1 AAATTAAATTAAAATT
48704441 AAATTAAATTATAAATT
1 AAATTAAATTA-AAATT
* *
48704458 ACATTAAATTCAAAT
1 AAATTAAATTAAAAT
48704473 ATAATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATTAAATTAAAATT
Found at i:48704466 original size:22 final size:23
Alignment explanation
Indices: 48704425--48704476 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
48704415 AATTATAAAA
*
48704425 AAAT-TAAATTAATATTAAATT-
1 AAATATAAATTAACATTAAATTC
48704446 AAATTATAAATT-ACATTAAATTC
1 AAA-TATAAATTAACATTAAATTC
48704469 AAATATAA
1 AAATATAA
48704477 TAATATTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.11
22 15 0.56
23 9 0.33
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATAAATTAACATTAAATTC
Found at i:48704492 original size:5 final size:5
Alignment explanation
Indices: 48704425--48704472 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
48704415 AATTATAAAA
*
48704425 AAATT AAATT AATATT AAATT AAATTAT AAATT ACATT AAATT CAAAT
1 AAATT AAATT AA-ATT AAATT AAA-T-T AAATT AAATT AAATT -AAAT
48704473 ATAATAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
5 22 0.59
6 11 0.30
7 4 0.11
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:48705030 original size:28 final size:28
Alignment explanation
Indices: 48704972--48705046 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
48704962 TGATGTAATC
**
48704972 ATATTTTTAAAAAATAAAATAATAATTAT
1 ATATTTTT-AAAAATAAAATAATAAACAT
*
48705001 ATATTTTTAAAAATAATATTAA-AAACAT
1 ATATTTTTAAAAATAA-AATAATAAACAT
* *
48705029 ATAATTTTGAAAA-AAAAT
1 ATATTTTTAAAAATAAAAT
48705047 TATGTATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.05
27 2 0.05
28 23 0.59
29 12 0.31
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
ATATTTTTAAAAATAAAATAATAAACAT
Found at i:48713733 original size:48 final size:50
Alignment explanation
Indices: 48713541--48713736 Score: 155
Period size: 48 Copynumber: 4.1 Consensus size: 50
48713531 AATAATGCCA
* * * * *
48713541 ATGCCATGTCCCAGATATGGTCTTACACTGGCTCATCC---ATCAAGTCA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATAATCAGGCCG
* **
48713588 ATGCCATGTCCCAAACATGGTCTTACACTGAC-CATGGA-AATCGAGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATAATC-AGGCCG
* * * * *
48713637 ACGCCATGTCCCAGACATGATCTTACACTAGCTC-TCGTC-TCAT-A-GCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATC--CATAATCAGGCCG
48713685 ATGCCATGTCCCAAACATGGTCTTACACTGGCTC-T-CATAAT-ATGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATAATCA-GGCCG
48713733 ATGC
1 ATGC
48713737 ATTTCTCATA
Statistics
Matches: 118, Mismatches: 21, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 7 0.06
47 29 0.25
48 46 0.39
49 32 0.27
50 1 0.01
51 2 0.02
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.25
Consensus pattern (50 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATAATCAGGCCG
Found at i:48715507 original size:54 final size:54
Alignment explanation
Indices: 48715425--48715608 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 54
48715415 TTACAGCAGA
* * * *
48715425 ATTACCAATCTAGGTTAAATCCCTCATAACATAAATTTAATGAGTATTGTCGGG
1 ATTACCATTCCAGGCTAAATCCCTCATAACATAAATTTAAGGAGTATTGTCGGG
** * *
48715479 ATTACCATTCCATACTAAATCCTTCATAACATAAATTTAAGGAGTATTGTCGAG
1 ATTACCATTCCAGGCTAAATCCCTCATAACATAAATTTAAGGAGTATTGTCGGG
* * *
48715533 ATTACCATTCCAGGCTAAATCCCTCATAGCATAAATTCAAGGAGTATTATCGGG
1 ATTACCATTCCAGGCTAAATCCCTCATAACATAAATTTAAGGAGTATTGTCGGG
48715587 ATTACCATTCCAGGCTAAATCC
1 ATTACCATTCCAGGCTAAATCC
48715609 TTTACAATGA
Statistics
Matches: 115, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (54 bp):
ATTACCATTCCAGGCTAAATCCCTCATAACATAAATTTAAGGAGTATTGTCGGG
Found at i:48717062 original size:84 final size:84
Alignment explanation
Indices: 48716972--48717140 Score: 329
Period size: 84 Copynumber: 2.0 Consensus size: 84
48716962 TTTTAACATC
48716972 GGATTTGTGGTCCCGAAACCACCATTCCGACTAGGCCCCATTTCATGATGTTACAATATATCAAC
1 GGATTTGTGGTCCCGAAACCACCATTCCGACTAGGCCCCATTTCATGATGTTACAATATATCAAC
*
48717037 CAACTCGCTTATTATCTGA
66 CAACTCACTTATTATCTGA
48717056 GGATTTGTGGTCCCGAAACCACCATTCCGACTAGGCCCCATTTCATGATGTTACAATATATCAAC
1 GGATTTGTGGTCCCGAAACCACCATTCCGACTAGGCCCCATTTCATGATGTTACAATATATCAAC
48717121 CAACTCACTTATTATCTGA
66 CAACTCACTTATTATCTGA
48717140 G
1 G
48717141 TATCAAAACA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (84 bp):
GGATTTGTGGTCCCGAAACCACCATTCCGACTAGGCCCCATTTCATGATGTTACAATATATCAAC
CAACTCACTTATTATCTGA
Found at i:48733598 original size:14 final size:15
Alignment explanation
Indices: 48733581--48733609 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48733571 GCACGAAAAT
48733581 TTCACACA-AATAAA
1 TTCACACATAATAAA
48733595 TTCACACATAATAAA
1 TTCACACATAATAAA
48733610 CACAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48741096 original size:16 final size:16
Alignment explanation
Indices: 48741046--48741096 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
48741036 TTGGGGGGGG
* *
48741046 AATGGAATAGGGCTAC
1 AATGGAATAGAGCTAT
*
48741062 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTAT
* *
48741078 AATGGAGTAGAGTTAT
1 AATGGAATAGAGCTAT
48741094 AAT
1 AAT
48741097 TAGTAATTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.25
Consensus pattern (16 bp):
AATGGAATAGAGCTAT
Found at i:48741635 original size:94 final size:94
Alignment explanation
Indices: 48741527--48741715 Score: 342
Period size: 94 Copynumber: 2.0 Consensus size: 94
48741517 TTAATTATCT
*
48741527 TCTATAAATTAATCTTTCGATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCAGTTAGA
1 TCTATAAATTAATCTTCCGATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCAGTTAGA
*
48741592 CTGTAATAACTTGTGTCATTATCTTCCTA
66 CTATAATAACTTGTGTCATTATCTTCCTA
* *
48741621 TCTATAAATTAATCTTCCTATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCATTTAGA
1 TCTATAAATTAATCTTCCGATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCAGTTAGA
48741686 CTATAATAACTTGTGTCATTATCTTCCTA
66 CTATAATAACTTGTGTCATTATCTTCCTA
48741715 T
1 T
48741716 AAATTTATCC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (94 bp):
TCTATAAATTAATCTTCCGATAAATTAATCTCAATTTTATGGTTTCATCTAAAGTTTCAGTTAGA
CTATAATAACTTGTGTCATTATCTTCCTA
Found at i:48743318 original size:17 final size:17
Alignment explanation
Indices: 48743296--48743331 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
48743286 GAGCTGGTGA
48743296 AATATCTAAATCAAGTG
1 AATATCTAAATCAAGTG
48743313 AATATCTAAATCAAGTG
1 AATATCTAAATCAAGTG
48743330 AA
1 AA
48743332 ATTAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (17 bp):
AATATCTAAATCAAGTG
Found at i:48746093 original size:40 final size:39
Alignment explanation
Indices: 48746038--48746160 Score: 174
Period size: 40 Copynumber: 3.1 Consensus size: 39
48746028 AATTATTGAA
*
48746038 TGATTGCACATACGTGCCCCTGTTTGTACTTCGATATCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCC
* *
48746078 TGATTGTACATACGTGCCCCTGTTCGTACTTCGGTACCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* *
48746117 TTGATTGCACATATGTGCCCCTGTTTTTACTTCGGTAGCCC
1 -TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCC
48746158 TGA
1 TGA
48746161 ACACATTTAC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.04
40 68 0.92
41 3 0.04
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.36
Consensus pattern (39 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:48746098 original size:20 final size:20
Alignment explanation
Indices: 48746038--48746139 Score: 66
Period size: 20 Copynumber: 5.1 Consensus size: 20
48746028 AATTATTGAA
*
48746038 TGATTGCACATACGTGCCCC
1 TGATTGTACATACGTGCCCC
* * **
48746058 TGTTTGTAC-TTCGATATCCC
1 TGATTGTACATACG-TGCCCC
48746078 TGATTGTACATACGTGCCCC
1 TGATTGTACATACGTGCCCC
* * *
48746098 TG-TTCGTAC-TTCGGTACCCT
1 TGATT-GTACATAC-GTGCCCC
* *
48746118 TGATTGCACATATGTGCCCC
1 TGATTGTACATACGTGCCCC
48746138 TG
1 TG
48746140 TTTTTACTTC
Statistics
Matches: 59, Mismatches: 17, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
19 7 0.12
20 46 0.78
21 6 0.10
ACGTcount: A:0.17, C:0.29, G:0.20, T:0.34
Consensus pattern (20 bp):
TGATTGTACATACGTGCCCC
Found at i:48751695 original size:13 final size:13
Alignment explanation
Indices: 48751677--48751701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48751667 AGCCTGATAA
48751677 TTTAAATAATTTT
1 TTTAAATAATTTT
48751690 TTTAAATAATTT
1 TTTAAATAATTT
48751702 AATGATTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTAAATAATTTT
Found at i:48752356 original size:14 final size:14
Alignment explanation
Indices: 48752337--48752368 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
48752327 TTTGTTTACT
48752337 AAAAATAAATTTTA
1 AAAAATAAATTTTA
*
48752351 AAAAATAATTTTTA
1 AAAAATAAATTTTA
48752365 AAAA
1 AAAA
48752369 GTGATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
AAAAATAAATTTTA
Found at i:48753227 original size:15 final size:17
Alignment explanation
Indices: 48753206--48753253 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 17
48753196 TATACTACAA
48753206 AATATTTATTATTAA-T
1 AATATTTATTATTAATT
*
48753222 -ATATTTATAATTGTAATT
1 AATATTTATTA-T-TAATT
48753240 AATATTTATTATTA
1 AATATTTATTATTA
48753254 GAATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 5 0.19
18 2 0.08
19 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
AATATTTATTATTAATT
Found at i:48753432 original size:18 final size:19
Alignment explanation
Indices: 48753400--48753438 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
48753390 TTAAATATGT
* *
48753400 ATGTTTTTATTAAATTTAA
1 ATGTTTTTATAAAATTAAA
48753419 ATGTTTTTA-AAAATTAAA
1 ATGTTTTTATAAAATTAAA
48753437 AT
1 AT
48753439 TAAACATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATGTTTTTATAAAATTAAA
Found at i:48754046 original size:31 final size:31
Alignment explanation
Indices: 48754011--48754069 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
48754001 TGATTTATGC
* *
48754011 TTTAAATTTGGTAATTATTTTTATATTAAGG
1 TTTAAATTAGGTAATTATTTTCATATTAAGG
48754042 TTTAAATTAGGTAATTATTTTCATATTA
1 TTTAAATTAGGTAATTATTTTCATATTA
48754070 GAGTTTGAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTAAATTAGGTAATTATTTTCATATTAAGG
Found at i:48757314 original size:13 final size:15
Alignment explanation
Indices: 48757283--48757315 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
48757273 TTAAGGTTTA
48757283 AATTAACTAAAACCT
1 AATTAACTAAAACCT
48757298 AATTAA-TAAAA-CT
1 AATTAACTAAAACCT
48757311 AATTA
1 AATTA
48757316 GCTTTTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 5 0.28
15 6 0.33
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (15 bp):
AATTAACTAAAACCT
Found at i:48758878 original size:79 final size:82
Alignment explanation
Indices: 48758767--48758951 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
48758757 GCTACTCGTT
* *
48758767 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
48758830 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
48758847 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
48758910 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
48758927 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48758952 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:48758951 original size:40 final size:40
Alignment explanation
Indices: 48758748--48758951 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
48758738 CGGAATTTAA
** *
48758748 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48758788 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
48758828 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48758867 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48758907 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48758947 CCGGA
1 CCGGA
48758952 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48766838 original size:79 final size:81
Alignment explanation
Indices: 48766738--48766922 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
48766728 GCTACTCGTT
* * * *
48766738 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACCCGCACAAATGCCTTC-GGATCTTAACCC
*
48766801 GAATTTAGTAAC-TAGCA
64 GAATATAGTAACTTAGCA
* ** *
48766818 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCCCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACCCGCACAAATGCCTTCGGATCTTAACCCGA
* *
48766882 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
48766898 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48766923 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 35 0.39
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACCCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTAACTTAGCA
Found at i:48766922 original size:40 final size:40
Alignment explanation
Indices: 48766738--48766922 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
48766728 GCTACTCGTT
* * *
48766738 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* * * *
48766778 CAATTGCCTTCGGGACTTAACCCGAATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
* **
48766818 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCA
* * *
48766857 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TAGCA
48766898 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48766923 CATCATTCAA
Statistics
Matches: 118, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 76 0.64
41 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCA
Found at i:48778316 original size:40 final size:40
Alignment explanation
Indices: 48778207--48778341 Score: 188
Period size: 40 Copynumber: 3.5 Consensus size: 40
48778197 CGGATGATAA
* * *
48778207 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48778247 CCGGGCTAAGTCCC---GGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48778284 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48778324 -CTGGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48778342 TACTTGGTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
37 34 0.40
39 16 0.19
40 36 0.42
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48779169 original size:16 final size:16
Alignment explanation
Indices: 48779148--48779180 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48779138 GTAGATGGAT
48779148 ATATGAGTCTAGTTTC
1 ATATGAGTCTAGTTTC
48779164 ATATGAGTCTAGTTTC
1 ATATGAGTCTAGTTTC
48779180 A
1 A
48779181 GGGAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (16 bp):
ATATGAGTCTAGTTTC
Found at i:48788908 original size:15 final size:16
Alignment explanation
Indices: 48788888--48788917 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48788878 TGGTGCCTAG
48788888 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
48788903 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
48788918 AACATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:48791489 original size:20 final size:20
Alignment explanation
Indices: 48791464--48791510 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
48791454 AAGGACTAAA
*
48791464 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTGTAAAATTTG
* * *
48791484 ATGAAAAATTTTGAAATTTT
1 ATGAAAAATTGTAAAATTTG
48791504 ATGAAAA
1 ATGAAAA
48791511 CATGTGCTGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTGTAAAATTTG
Found at i:48792949 original size:205 final size:205
Alignment explanation
Indices: 48792597--48793004 Score: 807
Period size: 205 Copynumber: 2.0 Consensus size: 205
48792587 TTACTCCTTT
48792597 ATTTTTCCCCTATTTTATAATGCTCGGAAGCTCGTGAAGGTTGGAAGATCGTTGGAGCATCGTCA
1 ATTTTTCCCCTATTTTATAATGCTCGGAAGCTCGTGAAGGTTGGAAGATCGTTGGAGCATCGTCA
*
48792662 CACTATCGTCTAGCATTTTGGGTATATTTAGTGAAATCATTTTGGTATAATGGCATGTATAGGGA
66 CACTATCGTCTAGCATTTTGGGTAGATTTAGTGAAATCATTTTGGTATAATGGCATGTATAGGGA
48792727 AATTTGGCCAATAATGGCTTGAAAATGTTATTTTGTAACCTAGCCATTAGGATGGCTAGTAATGG
131 AATTTGGCCAATAATGGCTTGAAAATGTTATTTTGTAACCTAGCCATTAGGATGGCTAGTAATGG
48792792 CTTATTTTGG
196 CTTATTTTGG
48792802 ATTTTTCCCCTATTTTATAATGCTCGGAAGCTCGTGAAGGTTGGAAGATCGTTGGAGCATCGTCA
1 ATTTTTCCCCTATTTTATAATGCTCGGAAGCTCGTGAAGGTTGGAAGATCGTTGGAGCATCGTCA
48792867 CACTATCGTCTAGCATTTTGGGTAGATTTAGTGAAATCATTTTGGTATAATGGCATGTATAGGGA
66 CACTATCGTCTAGCATTTTGGGTAGATTTAGTGAAATCATTTTGGTATAATGGCATGTATAGGGA
48792932 AATTTGGCCAATAATGGCTTGAAAATGTTATTTTGTAACCTAGCCATTAGGATGGCTAGTAATGG
131 AATTTGGCCAATAATGGCTTGAAAATGTTATTTTGTAACCTAGCCATTAGGATGGCTAGTAATGG
48792997 CTTATTTT
196 CTTATTTT
48793005 AGTATGATTA
Statistics
Matches: 202, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 202 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (205 bp):
ATTTTTCCCCTATTTTATAATGCTCGGAAGCTCGTGAAGGTTGGAAGATCGTTGGAGCATCGTCA
CACTATCGTCTAGCATTTTGGGTAGATTTAGTGAAATCATTTTGGTATAATGGCATGTATAGGGA
AATTTGGCCAATAATGGCTTGAAAATGTTATTTTGTAACCTAGCCATTAGGATGGCTAGTAATGG
CTTATTTTGG
Found at i:48793356 original size:145 final size:145
Alignment explanation
Indices: 48793093--48793382 Score: 535
Period size: 145 Copynumber: 2.0 Consensus size: 145
48793083 AGTTAATCTA
48793093 AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
1 AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
* *
48793158 TAAATACTTGAAATGGCTGGAATTGGTTGAGTGTTTTATGTATAGGTTTTTCGGTAAATTTGGGT
66 TAAATACCTGAAATGGCTGGAATTGGTTGAGTGTTTTATGTACAGGTTTTTCGGTAAATTTGGGT
48793223 GAGAAATAAAGCTAG
131 GAGAAATAAAGCTAG
*
48793238 AGGTAAATTTGTAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
1 AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
*
48793303 TAAATACCTGAAATGGCTGGAATTGGTTGAGTGTTTTATGTACATGTTTTTCGGTAAATTTGGGT
66 TAAATACCTGAAATGGCTGGAATTGGTTGAGTGTTTTATGTACAGGTTTTTCGGTAAATTTGGGT
*
48793368 GAGAAATGAAGCTAG
131 GAGAAATAAAGCTAG
48793383 GAAATGGCTT
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 140 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (145 bp):
AGGTAAATTTATAATCATTTATGCATGTAGTGGTATGCCTTGTTAAATGATGAATTTGCCTACTT
TAAATACCTGAAATGGCTGGAATTGGTTGAGTGTTTTATGTACAGGTTTTTCGGTAAATTTGGGT
GAGAAATAAAGCTAG
Found at i:48799854 original size:30 final size:30
Alignment explanation
Indices: 48799806--48799862 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
48799796 TTTACGAGCC
***
48799806 TAGGGGCAAAAGTGTAATTTTGACAAAGTT
1 TAGGGGCAAAAACATAATTTTGACAAAGTT
*
48799836 TAGGGGCAAAAACATAATTTTGCCAAA
1 TAGGGGCAAAAACATAATTTTGACAAA
48799863 ATATGATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAACATAATTTTGACAAAGTT
Found at i:48800529 original size:50 final size:49
Alignment explanation
Indices: 48800450--48800689 Score: 277
Period size: 49 Copynumber: 4.8 Consensus size: 49
48800440 ATTGTGAGAA
*
48800450 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATG-GTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CAGATGTGTT-GGT
* * ** * *
48800500 CACGTGTGTAATACTAAGTGCAGGCTACTACATGTACTGAAGTGTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAGATGTGTTGGT
*
48800549 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATG-GTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CAGATGTGTT-GGT
* * ** * *
48800599 CACGTGTGTAATACTAAGTGCAGGCTACTACATGTACTGAAGTGTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAGATGTGTTGGT
* *
48800648 CACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA-CAGAT
48800690 AACTTTGGTT
Statistics
Matches: 156, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
49 78 0.50
50 78 0.50
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (49 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACAGATGTGTTGGT
Found at i:48800621 original size:99 final size:99
Alignment explanation
Indices: 48800450--48800689 Score: 444
Period size: 99 Copynumber: 2.4 Consensus size: 99
48800440 ATTGTGAGAA
48800450 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAATACT
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAATACT
48800515 AAGTGCAGGCTACTACATGTACTGAAGTGTTGGT
66 AAGTGCAGGCTACTACATGTACTGAAGTGTTGGT
48800549 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAATACT
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAATACT
48800614 AAGTGCAGGCTACTACATGTACTGAAGTGTTGGT
66 AAGTGCAGGCTACTACATGTACTGAAGTGTTGGT
* * * *
48800648 CACATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGAT
1 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGAT
48800690 AACTTTGGTT
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 137 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (99 bp):
CACATGTGTAGTACTATGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAATACT
AAGTGCAGGCTACTACATGTACTGAAGTGTTGGT
Found at i:48826510 original size:40 final size:40
Alignment explanation
Indices: 48826454--48826719 Score: 376
Period size: 40 Copynumber: 6.7 Consensus size: 40
48826444 TCGAATGATG
* * * *
48826454 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
48826494 TCCGGACTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48826534 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
48826574 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
48826614 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTAAA
* * *
48826654 TCCAGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTCTAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAA
*
48826695 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48826720 AGCAAGTAGT
Statistics
Matches: 204, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 192 0.94
41 10 0.05
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:48831151 original size:13 final size:13
Alignment explanation
Indices: 48831133--48831158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48831123 GATATAAATT
48831133 CACATAAAATAAA
1 CACATAAAATAAA
48831146 CACATAAAATAAA
1 CACATAAAATAAA
48831159 TTTTAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.15, G:0.00, T:0.15
Consensus pattern (13 bp):
CACATAAAATAAA
Found at i:48843867 original size:40 final size:39
Alignment explanation
Indices: 48843812--48843889 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
48843802 ACGACTTATC
**
48843812 GGCTAAAATGGCACTTAGTGTGCGGTTTGAAATAGCTTT
1 GGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCTTT
* *
48843851 GGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCTT
1 GGCTAAAA-TGGCACTTAGTGTGCAATTTGAAATAGCTT
48843890 CAGCTAACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 8 0.24
40 26 0.76
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (39 bp):
GGCTAAAATGGCACTTAGTGTGCAATTTGAAATAGCTTT
Found at i:48843947 original size:28 final size:28
Alignment explanation
Indices: 48843896--48843964 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
48843886 GCTTCAGCTA
* *
48843896 ACTTAGTGTGCAAACTATCGAGGATGGC
1 ACTTAGTGTGCAAACTATCCAGGATAGC
48843924 ACTTAGTGTGCGAAAC-ATCCAGGATAGC
1 ACTTAGTGTGC-AAACTATCCAGGATAGC
*
48843952 ACTTAGCGTGCAA
1 ACTTAGTGTGCAA
48843965 GGTATCGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.05
28 31 0.84
29 4 0.11
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (28 bp):
ACTTAGTGTGCAAACTATCCAGGATAGC
Found at i:48848116 original size:29 final size:30
Alignment explanation
Indices: 48848068--48848126 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
48848058 ATGCAATGTC
* *
48848068 ATATATGAACTTTGAGTTTG-TACAATTTT
1 ATATATGAAATTTGAATTTGATACAATTTT
* *
48848097 ATATATGAAATTTTAATTTGATTCAATTTT
1 ATATATGAAATTTGAATTTGATACAATTTT
48848127 CACAAATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.34, C:0.05, G:0.10, T:0.51
Consensus pattern (30 bp):
ATATATGAAATTTGAATTTGATACAATTTT
Found at i:48848764 original size:14 final size:14
Alignment explanation
Indices: 48848745--48848775 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
48848735 TGCTACTATT
48848745 TTACTATTATGTTG
1 TTACTATTATGTTG
*
48848759 TTACTATTTTGTTG
1 TTACTATTATGTTG
48848773 TTA
1 TTA
48848776 TTGTTTGGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (14 bp):
TTACTATTATGTTG
Found at i:48849914 original size:16 final size:17
Alignment explanation
Indices: 48849882--48849914 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48849872 TTTGTTTGGA
48849882 TATTGTATAACTTTGTT
1 TATTGTATAACTTTGTT
*
48849899 TATTGT-TAATTTTGTT
1 TATTGTATAACTTTGTT
48849915 ACTATTTTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (17 bp):
TATTGTATAACTTTGTT
Found at i:48853566 original size:35 final size:35
Alignment explanation
Indices: 48853491--48853617 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 35
48853481 GTGCATCGTC
* * *
48853491 AATCCAACCAAAACACACCAAATTCTCATAAGAGCC
1 AATCCAACCGAAACACACC-AATGCTCATAAGAGCT
* *
48853527 AATCCAATCGAAATACACCAATGCTCATAAGAGCT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
** * *
48853562 AATCCCTCCTAAACACACCAATGCTCACAAGAGCT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
*
48853597 AGTCCAACCGAAACACACCAA
1 AATCCAACCGAAACACACCAA
48853618 ACAGAGAGTA
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
35 60 0.79
36 16 0.21
ACGTcount: A:0.43, C:0.33, G:0.09, T:0.15
Consensus pattern (35 bp):
AATCCAACCGAAACACACCAATGCTCATAAGAGCT
Found at i:48862496 original size:27 final size:26
Alignment explanation
Indices: 48862448--48862507 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
48862438 GCGAGGCTGC
*
48862448 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
48862475 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
48862501 CAAATAT
1 CAGATAT
48862508 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48862600 original size:27 final size:26
Alignment explanation
Indices: 48862552--48862603 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48862542 GTGAGGCTGC
*
48862552 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
48862578 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
48862604 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48871926 original size:26 final size:26
Alignment explanation
Indices: 48871878--48871946 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
48871868 AGCCAATATT
* **
48871878 AGGAAGCTC-CAGAGAGCCATTAATC
1 AGGAAGCTCACAAAGAGCGTTTAATC
*
48871903 AGGAAGCTTACAAAGAGCGTTTAATC
1 AGGAAGCTCACAAAGAGCGTTTAATC
* *
48871929 GGGAAGCTCACGAAGAGC
1 AGGAAGCTCACAAAGAGC
48871947 CATATAACAG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 8 0.22
26 28 0.78
ACGTcount: A:0.36, C:0.20, G:0.28, T:0.16
Consensus pattern (26 bp):
AGGAAGCTCACAAAGAGCGTTTAATC
Found at i:48873329 original size:29 final size:30
Alignment explanation
Indices: 48873296--48873352 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
48873286 AAAATAATTT
* * *
48873296 TCAAA-CCTAGGGGTAAAATGTTCATTTTG
1 TCAAAGCCTAGAGGCAAAATGGTCATTTTG
*
48873325 TCAAAGTCTAGAGGCAAAATGGTCATTT
1 TCAAAGCCTAGAGGCAAAATGGTCATTT
48873353 CACCGGAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (30 bp):
TCAAAGCCTAGAGGCAAAATGGTCATTTTG
Found at i:48877047 original size:6 final size:6
Alignment explanation
Indices: 48877038--48877068 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
48877028 TTTTATTTTC
*
48877038 TTTATT TTTACT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
48877069 CTTCTTCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:48884822 original size:27 final size:27
Alignment explanation
Indices: 48884791--48884968 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48884781 TAAATTGTAC
48884791 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
48884818 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48884844 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48884872 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
48884900 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48884927 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48884954 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48884969 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48884905 original size:82 final size:81
Alignment explanation
Indices: 48884792--48884947 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48884782 AAATTGTACA
* *
48884792 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
48884856 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48884873 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
48884938 TGCGAGTTGA
65 TGCGAATTGA
48884948 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48884959 original size:82 final size:81
Alignment explanation
Indices: 48884788--48884968 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
48884778 GATTAAATTG
* *
48884788 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48884853 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48884869 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48884933 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48884951 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48884969 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48886618 original size:42 final size:43
Alignment explanation
Indices: 48886551--48886654 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
48886541 CATCGACTTA
48886551 TGATTTACATGTAAGACCATATCTGGGACA-TCGACATC-ATATT
1 TGATTT-CATGTAAGACCATATCTGGGACAGT-GACATCAATATT
* * * * *
48886594 TGATTTCGTGTAAGACCTTGTCTGGGATAGTGGCATCAATATT
1 TGATTTCATGTAAGACCATATCTGGGACAGTGACATCAATATT
*
48886637 TGATTACATGTAAGACCA
1 TGATTTCATGTAAGACCA
48886655 AGTTTGGGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 24 0.47
43 27 0.53
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (43 bp):
TGATTTCATGTAAGACCATATCTGGGACAGTGACATCAATATT
Found at i:48886663 original size:43 final size:42
Alignment explanation
Indices: 48886516--48886672 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 42
48886506 TGTGATATCG
* * *
48886516 TGTAAGACCACGTCTGGGA-CGTTGGCATCGACT-TATGATTTACA
1 TGTAAGACCAAGTCTGGGATAG-TGGCATC-A-TATTTGA-TTACA
* * * *
48886560 TGTAAGACCATA-TCTGGGACA-TCGACATCATATTTGATTTCG
1 TGTAAGACCA-AGTCTGGGATAGT-GGCATCATATTTGATTACA
**
48886602 TGTAAGACCTTGTCTGGGATAGTGGCATCAATATTTGATTACA
1 TGTAAGACCAAGTCTGGGATAGTGGCATC-ATATTTGATTACA
*
48886645 TGTAAGACCAAGTTTGGGAT-GTTGGCAT
1 TGTAAGACCAAGTCTGGGATAG-TGGCAT
48886673 TGTGTAAGCT
Statistics
Matches: 90, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
42 27 0.30
43 41 0.46
44 22 0.24
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCAAGTCTGGGATAGTGGCATCATATTTGATTACA
Found at i:48889178 original size:5 final size:5
Alignment explanation
Indices: 48889168--48889193 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48889158 CTCATGCTCT
48889168 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
48889194 AATTCGAGCA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:48891127 original size:5 final size:5
Alignment explanation
Indices: 48891117--48891142 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48891107 CTCATGCTCT
48891117 TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA T
48891143 AATTCGAGCA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:48899888 original size:15 final size:15
Alignment explanation
Indices: 48899868--48899896 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48899858 AGCTTATGGC
48899868 AAGACAGGGATGTCG
1 AAGACAGGGATGTCG
48899883 AAGACAGGGATGTC
1 AAGACAGGGATGTC
48899897 AAACCCAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.38, T:0.14
Consensus pattern (15 bp):
AAGACAGGGATGTCG
Found at i:48903230 original size:16 final size:17
Alignment explanation
Indices: 48903206--48903237 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48903196 AATTATTAAT
48903206 AATTCAAATAATTGAAG
1 AATTCAAATAATTGAAG
48903223 AATT-AAATAATTGAA
1 AATTCAAATAATTGAA
48903238 TAAAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.31
Consensus pattern (17 bp):
AATTCAAATAATTGAAG
Found at i:48903940 original size:25 final size:24
Alignment explanation
Indices: 48903912--48903963 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
48903902 ATCCTAATTC
*
48903912 TATA-TAAAGTTGATAATAATTAATA
1 TATATTAAAGTGGAT-ATAATT-ATA
*
48903937 TATATTATAGTGGATATAATTATA
1 TATATTAAAGTGGATATAATTATA
48903961 TAT
1 TAT
48903964 TAATAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.25
25 10 0.42
26 8 0.33
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (24 bp):
TATATTAAAGTGGATATAATTATA
Found at i:48904081 original size:29 final size:30
Alignment explanation
Indices: 48904024--48904081 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
48904014 CTTTTGAAAA
* ** *
48904024 TATTTACAAAAAGAGGCATCTGATTTTTAT
1 TATTTACAAAAAGAGGCAACCAAATTTTAT
48904054 TATTTACAAAAAGA-GCAACCAAATTTTA
1 TATTTACAAAAAGAGGCAACCAAATTTTA
48904082 AAAATACTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAAATTTTAT
Found at i:48906428 original size:29 final size:29
Alignment explanation
Indices: 48906386--48906473 Score: 149
Period size: 29 Copynumber: 3.0 Consensus size: 29
48906376 TATATATGTG
*
48906386 AATTATCGAGCACTAAGTGTGCGAAGTAA
1 AATTATCGAGCACTAAGTGTGTGAAGTAA
*
48906415 AATTATTGAGCACTAAGTGTGTGAAGTAA
1 AATTATCGAGCACTAAGTGTGTGAAGTAA
48906444 AATTATCGAGCACTAAGTGTGTGAATGTAA
1 AATTATCGAGCACTAAGTGTGTGAA-GTAA
48906474 CACCCTTCAC
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 51 0.93
30 4 0.07
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (29 bp):
AATTATCGAGCACTAAGTGTGTGAAGTAA
Found at i:48910375 original size:27 final size:27
Alignment explanation
Indices: 48910345--48910598 Score: 321
Period size: 27 Copynumber: 9.4 Consensus size: 27
48910335 GGGGCAAAAT
* * *
48910345 GGTAATTTTACCCTACAATGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48910372 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
48910399 GGTGTTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48910426 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48910453 AGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
48910480 CATAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48910507 GGTAATTCTACCCTA-TAGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
** *
48910534 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48910561 GGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
48910588 GGTAATTCTAC
1 GGTAATTCTAC
48910599 AACTTATCAA
Statistics
Matches: 195, Mismatches: 30, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 2 0.01
27 192 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48910449 original size:81 final size:81
Alignment explanation
Indices: 48910345--48910598 Score: 366
Period size: 81 Copynumber: 3.1 Consensus size: 81
48910335 GGGGCAAAAT
* * * * **
48910345 GGTAATTTTACCCTACA-ATGGTATCTCGGTAATTCTATCCTACAGGGGTATTTCGGTGTTTCTA
1 GGTAATTCTACCCTACAGA-GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
48910409 CCCTACAAGGGTATTTC
65 CCCTACAAGGGTATTTC
* * **
48910426 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTGCCATAATTCTAC
1 GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
48910491 CCTATAAGGGTATTTC
66 CCTACAAGGGTATTTC
* *
48910507 GGTAATTCTACCCTATAGAGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
48910572 CTTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
48910588 GGTAATTCTAC
1 GGTAATTCTAC
48910599 AACTTATCAA
Statistics
Matches: 153, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 153 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGAGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAAGGGTATTTC
Found at i:48916088 original size:16 final size:16
Alignment explanation
Indices: 48916067--48916100 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48916057 CAATTCCTAT
48916067 TAATTTTCCCTAAAAA
1 TAATTTTCCCTAAAAA
*
48916083 TAATTTTCCCTGAAAA
1 TAATTTTCCCTAAAAA
48916099 TA
1 TA
48916101 GACTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (16 bp):
TAATTTTCCCTAAAAA
Found at i:48917169 original size:40 final size:41
Alignment explanation
Indices: 48917125--48917202 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
48917115 ACCGGCATTT
** *
48917125 AGCCTGCTAGGTTTTAAACCTGAATTCA-TCACCGGCACGA
1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA
**
48917165 AGCCTGCTAGACTTTAAGTCTGAACTCATTCACCGGCA
1 AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCA
48917203 TTTCGCCTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 23 0.72
41 9 0.28
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTTAAACCTGAACTCATTCACCGGCACGA
Found at i:48917269 original size:43 final size:43
Alignment explanation
Indices: 48917222--48917303 Score: 146
Period size: 43 Copynumber: 1.9 Consensus size: 43
48917212 CTAGGCTTCA
*
48917222 AGCCCGATATCATTTCACCGGTATTATAGCCTGCTAGGCTCGG
1 AGCCCGATATCATCTCACCGGTATTATAGCCTGCTAGGCTCGG
*
48917265 AGCCCGATATTATCTCACCGGTATTATAGCCTGCTAGGC
1 AGCCCGATATCATCTCACCGGTATTATAGCCTGCTAGGC
48917304 CCAAAGACTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (43 bp):
AGCCCGATATCATCTCACCGGTATTATAGCCTGCTAGGCTCGG
Found at i:48928238 original size:55 final size:54
Alignment explanation
Indices: 48928143--48928292 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
48928133 CTACTTTGTT
* ** * *
48928143 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
48928197 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
48928252 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
48928293 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:48928255 original size:27 final size:27
Alignment explanation
Indices: 48928115--48928292 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
48928105 TAAATTGTAC
48928115 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
48928142 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
48928168 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
48928196 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
48928224 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
48928251 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
48928278 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48928293 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:48928256 original size:82 final size:81
Alignment explanation
Indices: 48928116--48928271 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
48928106 AAATTGTACA
* * * *
48928116 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
48928181 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
48928197 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
48928260 TGTGCGAGTTGA
63 TGTGCGAATTGA
48928272 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:48947869 original size:39 final size:40
Alignment explanation
Indices: 48947824--48948008 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
48947814 GCTCCTCGTT
* * *
48947824 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
48947864 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
48947903 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
48947943 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
48947984 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
48948009 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:48947924 original size:40 final size:39
Alignment explanation
Indices: 48947791--48948008 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
48947781 AAATCACGTA
* * **
48947791 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
48947830 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
48947869 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
48947909 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
48947949 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
48947989 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
48948009 CAGCATTCAA
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:48955792 original size:40 final size:40
Alignment explanation
Indices: 48955692--48955956 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
48955682 GCTCCTCGTT
* * * *
48955692 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
48955732 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
48955771 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
48955811 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
48955851 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
48955891 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
48955932 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
48955957 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48955916 original size:80 final size:80
Alignment explanation
Indices: 48955659--48955956 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
48955649 AAATCACGTA
* ** * * *
48955659 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
48955721 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
48955737 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
48955800 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
48955817 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
48955881 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
48955897 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
48955957 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:48955965 original size:41 final size:41
Alignment explanation
Indices: 48955888--48955965 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
48955878 TTTGTATCTC
* * *
48955888 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
48955929 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
48955966 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:48962009 original size:54 final size:55
Alignment explanation
Indices: 48961943--48962051 Score: 175
Period size: 54 Copynumber: 2.0 Consensus size: 55
48961933 GGGTAAGTCT
*
48961943 TAAGCCGAAAATGAACAATGGGAGGTATTAATAATTTA-ATTTTTTATTGATATA
1 TAAGCCGAAAATGAACAATGGGAGGTATTAATAATTTATATTTTTTACTGATATA
* * *
48961997 TAAGCTGAAAATGACCAATGGGAGGTATTAATAATTTATTTTTTTTACTGATATA
1 TAAGCCGAAAATGAACAATGGGAGGTATTAATAATTTATATTTTTTACTGATATA
48962052 GACCCCGAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
54 36 0.72
55 14 0.28
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.39
Consensus pattern (55 bp):
TAAGCCGAAAATGAACAATGGGAGGTATTAATAATTTATATTTTTTACTGATATA
Found at i:48963805 original size:13 final size:13
Alignment explanation
Indices: 48963787--48963811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48963777 AGGCCATGTG
48963787 AGGGACATGGGCC
1 AGGGACATGGGCC
48963800 AGGGACATGGGC
1 AGGGACATGGGC
48963812 GTGTGTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.48, T:0.08
Consensus pattern (13 bp):
AGGGACATGGGCC
Found at i:48966691 original size:42 final size:42
Alignment explanation
Indices: 48966586--48966703 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 42
48966576 CGGAAAGCTC
* * * * *
48966586 ATACAATGCCAACGTCCCAGATATGGTCTTACATGTAATCAA
1 ATACGATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAA
*
48966628 ATATCGATGCCACTGTCCCAGACAGGGTCTTACATGAAATCAA
1 ATA-CGATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAA
48966671 ATACGATGCCAATGTCCCAGACATGGG-CTTACA
1 ATACGATGCCAATGTCCCAGACA-GGGTCTTACA
48966704 CATAAATCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 28 0.42
43 39 0.58
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATGTCCCAGACAGGGTCTTACATGAAATCAA
Found at i:48976893 original size:49 final size:49
Alignment explanation
Indices: 48976820--48976948 Score: 188
Period size: 49 Copynumber: 2.6 Consensus size: 49
48976810 GATGCCAACG
* * *
48976820 CCATGTCCCAAACATGGTCTTACACTGGCTTTCATATAGTGAG-GTTGATT
1 CCATGTCCCAGACA-GGTCTTACACTGGCTTTCATATA-TCAGTGTCGATT
*
48976870 CCATGTCCCAGACAGGTCTTACACTGGCTTTCATCTATCAGTGTCGATT
1 CCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCAGTGTCGATT
*
48976919 CCATGTCCCAGACAGGTCTTACACTAGCTT
1 CCATGTCCCAGACAGGTCTTACACTGGCTT
48976949 GTATATCGCG
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
48 3 0.04
49 57 0.78
50 13 0.18
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (49 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTTTCATATATCAGTGTCGATT
Found at i:48977029 original size:46 final size:45
Alignment explanation
Indices: 48976964--48977086 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 45
48976954 TCGCGAGACC
* *
48976964 GATGCATGTCCCATACATGTCTTACACTAGCTCT-TGTCTCAATGCTT
1 GATGAATGTCCCAGACATGTCTTACACTAGCTCTATGT-T--ATGCTT
* * *
48977011 -ATGAATGTCCCAGACATGTCTTACACTGGCTCTCATGTTGTGGTT
1 GATGAATGTCCCAGACATGTCTTACACTAGCTCT-ATGTTATGCTT
**
48977056 GATGCTTGTCCCAGACATGTCTTACACTAGC
1 GATGAATGTCCCAGACATGTCTTACACTAGC
48977087 ACACATATCA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
45 4 0.06
46 57 0.88
47 1 0.02
48 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (45 bp):
GATGAATGTCCCAGACATGTCTTACACTAGCTCTATGTTATGCTT
Found at i:48986516 original size:30 final size:29
Alignment explanation
Indices: 48986474--48986530 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
48986464 AAAGATAACA
48986474 AGAAAACCGAATAAAGAAATCCAAGATTG
1 AGAAAACCGAATAAAGAAATCCAAGATTG
*
48986503 AGAAACCCAGAATAAAGAAATCCAAGAT
1 AGAAAACC-GAATAAAGAAATCCAAGAT
48986531 AAGATACTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.56, C:0.16, G:0.16, T:0.12
Consensus pattern (29 bp):
AGAAAACCGAATAAAGAAATCCAAGATTG
Found at i:48986532 original size:15 final size:15
Alignment explanation
Indices: 48986484--48986532 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
48986474 AGAAAACCGA
48986484 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
** *
48986499 ATTGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
48986513 AATAAAGAAATCCAAG
1 -ATAAAGAAATCCAAG
48986529 ATAA
1 ATAA
48986533 GATACTATGC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:48993704 original size:20 final size:21
Alignment explanation
Indices: 48993667--48993714 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
48993657 ATATATGTAT
*
48993667 TTAATTATTAATAGATATTTA
1 TTAATTATTAAAAGATATTTA
48993688 TTAATTA-TAAAAGATATTTA
1 TTAATTATTAAAAGATATTTA
48993708 TTAATTA
1 TTAATTA
48993715 AATAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTATTAAAAGATATTTA
Found at i:48995641 original size:20 final size:21
Alignment explanation
Indices: 48995604--48995651 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
48995594 GTTCATGTAT
*
48995604 TTAATTATTAATAGATATTTA
1 TTAATTATTAAAAGATATTTA
48995625 TTAATTA-TAAAAGATATTTA
1 TTAATTATTAAAAGATATTTA
48995645 TTAATTA
1 TTAATTA
48995652 AATAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
TTAATTATTAAAAGATATTTA
Found at i:48998454 original size:35 final size:35
Alignment explanation
Indices: 48998363--48998460 Score: 108
Period size: 35 Copynumber: 2.8 Consensus size: 35
48998353 GATGCTCATA
* * * *
48998363 AAGAGCCAATCCAACCGAAACTCACCAATGCTTAT
1 AAGAGCTAATCCAACCGAAACACACCAATGATTAC
* * *
48998398 AAGAACTAATGCC-TCCTAAACACACCAATGATTAC
1 AAGAGCTAAT-CCAACCGAAACACACCAATGATTAC
*
48998433 AAGAGCTAGTCCAACCGAAACACACCAA
1 AAGAGCTAATCCAACCGAAACACACCAA
48998461 ACAGAGAGTA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.04
35 46 0.92
36 2 0.04
ACGTcount: A:0.43, C:0.31, G:0.11, T:0.15
Consensus pattern (35 bp):
AAGAGCTAATCCAACCGAAACACACCAATGATTAC
Found at i:49018693 original size:39 final size:39
Alignment explanation
Indices: 49018649--49018886 Score: 449
Period size: 39 Copynumber: 6.1 Consensus size: 39
49018639 AATTATATTA
*
49018649 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
49018688 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
49018727 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
49018766 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
49018805 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
49018844 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATCT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
49018883 CCAG
1 CCAG
49018887 TGTCTTGAAT
Statistics
Matches: 196, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 196 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:49021156 original size:39 final size:39
Alignment explanation
Indices: 49021102--49021245 Score: 137
Period size: 39 Copynumber: 3.4 Consensus size: 39
49021092 NNNNNNNNGC
49021102 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGT
1 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGT
* *
49021141 CCGGATACATTTCCAGCACGAAGTCCCCACGAAGCCTGCGGGACTTTGGC
1 CCGGATACATTT----C-C--AG----CACGAAGCCTGCGGGACTTTAGT
*
49021191 CCGGATATATTTCCAGCACGAAGCCTGCGGGACTTTA-T
1 CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGT
*
49021229 CCCTGATACATTTCCAG
1 -CCGGATACATTTCCAG
49021246 TATCTTGCAT
Statistics
Matches: 86, Mismatches: 7, Indels: 24
0.74 0.06 0.21
Matches are distributed among these distances:
39 46 0.53
43 3 0.03
44 1 0.01
45 1 0.01
46 3 0.03
50 32 0.37
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.23
Consensus pattern (39 bp):
CCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGT
Found at i:49021195 original size:50 final size:50
Alignment explanation
Indices: 49021118--49021213 Score: 165
Period size: 50 Copynumber: 1.9 Consensus size: 50
49021108 ACATTTCCAG
*
49021118 CACGAAGCCTGCGGGACTTTAGTCCGGATACATTTCCAGCACGAAGTCCC
1 CACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGTCCC
* *
49021168 CACGAAGCCTGCGGGACTTTGGCCCGGATATATTTCCAGCACGAAG
1 CACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAG
49021214 CCTGCGGGAC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (50 bp):
CACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCCAGCACGAAGTCCC
Found at i:49023829 original size:11 final size:11
Alignment explanation
Indices: 49023815--49023864 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
49023805 AATTTCTCCT
49023815 TCTTTTCTTTC
1 TCTTTTCTTTC
49023826 TCTTTT-TCTTC
1 TCTTTTCT-TTC
*
49023837 TCTGTTTCGTTC
1 TCT-TTTCTTTC
*
49023849 -CTTTCCTTTC
1 TCTTTTCTTTC
49023859 TCTTTT
1 TCTTTT
49023865 TATATTCTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
10 7 0.23
11 18 0.58
12 6 0.19
ACGTcount: A:0.00, C:0.28, G:0.04, T:0.68
Consensus pattern (11 bp):
TCTTTTCTTTC
Found at i:49024557 original size:9 final size:9
Alignment explanation
Indices: 49024543--49024567 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49024533 TCTCTTCTTC
49024543 TTCTCCTCT
1 TTCTCCTCT
49024552 TTCTCCTCT
1 TTCTCCTCT
49024561 TTCTCCT
1 TTCTCCT
49024568 ATTCTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (9 bp):
TTCTCCTCT
Found at i:49027208 original size:51 final size:51
Alignment explanation
Indices: 49027131--49027278 Score: 235
Period size: 51 Copynumber: 2.9 Consensus size: 51
49027121 CGGATACACG
* * *
49027131 GTGGCCTTCACATAGCACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCAAAAA
* *
49027182 GTGGCCTTCACCTAGTACCACACTTGTGTCCAAAGCTATTATATTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCAAAAA
49027233 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
49027279 CTAAGGTTCA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 1 0.01
51 88 0.99
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCAAAAA
Found at i:49027346 original size:28 final size:28
Alignment explanation
Indices: 49027302--49027396 Score: 110
Period size: 28 Copynumber: 3.5 Consensus size: 28
49027292 AGGAAATTTC
49027302 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* *
49027330 TCACTTAGTACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* *
49027358 TCACTT---A-AATGCGATGG-TTTGATT
1 TCACTTAGCACAATGCCATGGACTT-ATT
49027382 TCACTTAGCACAATG
1 TCACTTAGCACAATG
49027397 TCATATCCTA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 2 0.04
24 17 0.30
25 1 0.02
27 1 0.02
28 36 0.63
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:49029677 original size:17 final size:18
Alignment explanation
Indices: 49029657--49029721 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 18
49029647 TTATTTGATA
*
49029657 ATTTTTTTATATT-ATTG
1 ATTTTTTTATATTAAATG
*
49029674 A-TTTTTTATTTTAAAT-
1 ATTTTTTTATATTAAATG
* *
49029690 ATTTTTTCA-ATTCACATG
1 ATTTTTTTATATT-AAATG
49029708 ATTTTTTTATATTA
1 ATTTTTTTATATTA
49029722 TTGACACATC
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
16 13 0.35
17 12 0.32
18 9 0.24
19 3 0.08
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (18 bp):
ATTTTTTTATATTAAATG
Found at i:49029693 original size:16 final size:16
Alignment explanation
Indices: 49029638--49029696 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
49029628 TTGTCTATTA
*
49029638 AAATATTTTTTATTTG
1 AAATATTTTTTATTTT
*
49029654 ATAAT-TTTTTTATATT
1 A-AATATTTTTTATTTT
*
49029670 -ATTGATTTTTTATTTT
1 AAAT-ATTTTTTATTTT
49029686 AAATATTTTTT
1 AAATATTTTTT
49029697 CAATTCACAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 2 0.06
16 27 0.79
17 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
AAATATTTTTTATTTT
Found at i:49035067 original size:28 final size:29
Alignment explanation
Indices: 49035035--49035089 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
49035025 TAGGGGCTAT
*
49035035 GACACTGGCGTGT-CTAGGCTGAGTGAGG
1 GACACGGGCGTGTGCTAGGCTGAGTGAGG
* *
49035063 GACACGGGCGTGTGCTCGGCTGTGTGA
1 GACACGGGCGTGTGCTAGGCTGAGTGA
49035090 AAACCCCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.15, C:0.20, G:0.44, T:0.22
Consensus pattern (29 bp):
GACACGGGCGTGTGCTAGGCTGAGTGAGG
Found at i:49039017 original size:18 final size:18
Alignment explanation
Indices: 49038978--49039018 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
49038968 GATATGCCAG
*
49038978 CAAGTCAAGGCTGAGCAA
1 CAAGTCAAGGCTGAACAA
*
49038996 CAAGTCAAGGCTGAACAC
1 CAAGTCAAGGCTGAACAA
49039014 CAAGT
1 CAAGT
49039019 ACCTTCAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.24, T:0.12
Consensus pattern (18 bp):
CAAGTCAAGGCTGAACAA
Found at i:49039171 original size:33 final size:33
Alignment explanation
Indices: 49039127--49039189 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
49039117 AAGATGTTGT
*
49039127 TTGGGTTGTGATTGATAAACTGACGAAGTCAGC
1 TTGGGTCGTGATTGATAAACTGACGAAGTCAGC
*
49039160 TTGGGTCGTGATTGATAGACTGACGAAGTC
1 TTGGGTCGTGATTGATAAACTGACGAAGTC
49039190 GGCTCACTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (33 bp):
TTGGGTCGTGATTGATAAACTGACGAAGTCAGC
Found at i:49057316 original size:41 final size:41
Alignment explanation
Indices: 49057227--49057380 Score: 168
Period size: 41 Copynumber: 3.8 Consensus size: 41
49057217 TTGATGACGA
* **
49057227 TTCGGCTATGTATGGCACTTTGTGTGCGATTCAG-AATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGACAGAAATAGC
* * *
49057267 TTCGGCTATATATGGCACTTAGTGTGTGAGACCGAAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGACAGAAATAGC
* * *
49057308 TTCGGCTATGTAAGGCCCTTAGTGTGCGAGATTA-AAATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGAGA-CAGAAATAGC
* * *
49057349 TTCGGCTATGTTTTGGCGCTTAGTGTGGGAGA
1 TTCGGCTATG-TATGGCACTTAGTGTGCGAGA
49057381 ATTCGAGTCT
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 28 0.29
41 50 0.53
42 17 0.18
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (41 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGAGACAGAAATAGC
Found at i:49057334 original size:81 final size:82
Alignment explanation
Indices: 49057227--49057380 Score: 204
Period size: 81 Copynumber: 1.9 Consensus size: 82
49057217 TTGATGACGA
* * *
49057227 TTCGGCTATGTATGGCACTTTGTGTGC-GATTCAGAATAGCTTCGGCTAT-ATATGGCACTTAGT
1 TTCGGCTATGTAAGGCACTTAGTGTGCAGATT-AAAATAGCTTCGGCTATGATATGGCACTTAGT
*
49057290 GTGTGAGACCGAAATAGC
65 GTGGGAGACCGAAATAGC
* * * *
49057308 TTCGGCTATGTAAGGCCCTTAGTGTGCGAGATTAAAATAGCTTCGGCTATGTTTTGGCGCTTAGT
1 TTCGGCTATGTAAGGCACTTAGTGTGC-AGATTAAAATAGCTTCGGCTATGATATGGCACTTAGT
49057373 GTGGGAGA
65 GTGGGAGA
49057381 ATTCGAGTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
81 24 0.39
82 16 0.26
83 22 0.35
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (82 bp):
TTCGGCTATGTAAGGCACTTAGTGTGCAGATTAAAATAGCTTCGGCTATGATATGGCACTTAGTG
TGGGAGACCGAAATAGC
Found at i:49064809 original size:13 final size:12
Alignment explanation
Indices: 49064791--49064848 Score: 55
Period size: 13 Copynumber: 4.6 Consensus size: 12
49064781 GCTCAAGTTA
49064791 TTTTTTCCTTTCT
1 TTTTTTCCTTT-T
*
49064804 TTTTTTCTCTCTT
1 TTTTTTC-CTTTT
*
49064817 TTCTTTCTCTTTT
1 TTTTTTC-CTTTT
49064830 TCTTTTT-CTTTT
1 T-TTTTTCCTTTT
49064842 TTTTTTC
1 TTTTTTC
49064849 AATATTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
11 5 0.13
12 6 0.16
13 20 0.53
14 7 0.18
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTCCTTTT
Found at i:49077502 original size:62 final size:62
Alignment explanation
Indices: 49077372--49077519 Score: 163
Period size: 62 Copynumber: 2.4 Consensus size: 62
49077362 GAATAATTAG
* * * *
49077372 TAAGCTACACAGCCTGGGCACACGTCTATGCCCCTGGCCGTGTGGTTTGATAATCCAAACAG
1 TAAGTTACACAGCCTGGGCACACGTCTATGCCCCTGGCCGTATGGTTTGATAATACAAACAA
* * * * *
49077434 TAAGTTACACAGCCTGGGCACATGTCTGTGCCCCTGGCTGTATGGTTTTA-AAGTACAAATAA
1 TAAGTTACACAGCCTGGGCACACGTCTATGCCCCTGGCCGTATGGTTTGATAA-TACAAACAA
* ** *
49077496 TGAGTTACATGGCCTGAGCACACG
1 TAAGTTACACAGCCTGGGCACACG
49077520 CCCGTATGCC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 2 0.03
62 69 0.97
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (62 bp):
TAAGTTACACAGCCTGGGCACACGTCTATGCCCCTGGCCGTATGGTTTGATAATACAAACAA
Found at i:49078211 original size:25 final size:24
Alignment explanation
Indices: 49078170--49078252 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
49078160 TACAACAATT
49078170 AAAGAAG-AAAAGCTAAAAAAACGAA
1 AAAGAAGAAAAAG-TAAAAAAA-GAA
*
49078195 AAAGAAGAAAAAGTAAAGAAAGAA
1 AAAGAAGAAAAAGTAAAAAAAGAA
* * * *
49078219 GAAAG-GGAAAAAGGAAAATAATGAG
1 -AAAGAAGAAAAAGTAAAA-AAAGAA
49078244 AAAGAAGAA
1 AAAGAAGAA
49078253 CTAACGTTCA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 17 0.36
25 25 0.53
26 5 0.11
ACGTcount: A:0.70, C:0.02, G:0.23, T:0.05
Consensus pattern (24 bp):
AAAGAAGAAAAAGTAAAAAAAGAA
Found at i:49081170 original size:42 final size:42
Alignment explanation
Indices: 49081048--49081211 Score: 192
Period size: 42 Copynumber: 3.9 Consensus size: 42
49081038 TACCGTACCA
*
49081048 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AAGTCTCATATCG
* * *
49081090 ATGCCAATAACCCAGGTATGGTCTTGCACT-AAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACA-TGAAGTCTCATATCG
* *
49081133 ATGCCATATCCCAGGTATGGTCTTACATGAAGCCTCATATC-
1 ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
*
49081174 ATTGCCATATCTCAGATATGGTCTTACATGTAA-TCTCA
1 A-TGCCATATCCCAGATATGGTCTTACATG-AAGTCTCA
49081212 GTAACCCTAA
Statistics
Matches: 106, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
41 2 0.02
42 68 0.64
43 35 0.33
44 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAAGTCTCATATCG
Found at i:49081719 original size:11 final size:11
Alignment explanation
Indices: 49081698--49081730 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
49081688 TTCATTTGAT
49081698 CACAC-TTTTA
1 CACACTTTTTA
49081708 CACACTTTTTA
1 CACACTTTTTA
49081719 CA-ACTTTTTA
1 CACACTTTTTA
49081729 CA
1 CA
49081731 AATAGATCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.42
Consensus pattern (11 bp):
CACACTTTTTA
Found at i:49083375 original size:28 final size:27
Alignment explanation
Indices: 49083334--49083398 Score: 76
Period size: 28 Copynumber: 2.4 Consensus size: 27
49083324 CATCAGAGAC
* * * * *
49083334 ACAGTATCGGGTGGGCTTTAGCCCATT
1 ACAGAATCAGGTGGGCCTAAGCCCAAT
49083361 AACAGAATCAGGTGGGCCTAAGCCCAAT
1 -ACAGAATCAGGTGGGCCTAAGCCCAAT
49083389 ACAGAATCAG
1 ACAGAATCAG
49083399 TATCAGATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 10 0.31
28 22 0.69
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (27 bp):
ACAGAATCAGGTGGGCCTAAGCCCAAT
Found at i:49085964 original size:29 final size:29
Alignment explanation
Indices: 49085922--49085980 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
49085912 TTCAACCTAT
49085922 TGTAAAACATCTTCATTCAAAGTCCAGTG
1 TGTAAAACATCTTCATTCAAAGTCCAGTG
49085951 TGTAAAACATCTTCATTCAAAGTCCAGTG
1 TGTAAAACATCTTCATTCAAAGTCCAGTG
49085980 T
1 T
49085981 TGAAATCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (29 bp):
TGTAAAACATCTTCATTCAAAGTCCAGTG
Found at i:49087027 original size:48 final size:48
Alignment explanation
Indices: 49086954--49087049 Score: 165
Period size: 48 Copynumber: 2.0 Consensus size: 48
49086944 AAGCAAGAGT
49086954 AAAAATGCAATGGAAATTATAAGAATAACTACGTGAATAATATATAAC
1 AAAAATGCAATGGAAATTATAAGAATAACTACGTGAATAATATATAAC
* * *
49087002 AAAAATGCAATGGAAATTATGAGAATAACTGCGTGAATAATATGTAAC
1 AAAAATGCAATGGAAATTATAAGAATAACTACGTGAATAATATATAAC
49087050 GAACAAGTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.51, C:0.08, G:0.16, T:0.25
Consensus pattern (48 bp):
AAAAATGCAATGGAAATTATAAGAATAACTACGTGAATAATATATAAC
Found at i:49090241 original size:12 final size:12
Alignment explanation
Indices: 49090224--49090252 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
49090214 TTTTTAACTT
49090224 TTTTTAATTTTG
1 TTTTTAATTTTG
49090236 TTTTT-ATTTTG
1 TTTTTAATTTTG
49090247 TTTTTA
1 TTTTTA
49090253 GGTTGTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTAATTTTG
Found at i:49102633 original size:10 final size:10
Alignment explanation
Indices: 49102618--49102643 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49102608 ACAACATGAT
49102618 TATATCATTC
1 TATATCATTC
49102628 TATATCATTC
1 TATATCATTC
49102638 TATATC
1 TATATC
49102644 TGACAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (10 bp):
TATATCATTC
Done.