Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 133 of 325
Found at i:42660166 original size:10 final size:10
Alignment explanation
Indices: 42660147--42660178 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
42660137 TTTTAGGATT
42660147 TTAT-TTTAA
1 TTATCTTTAA
42660156 TTATCTTTAA
1 TTATCTTTAA
42660166 TTATCTTTAA
1 TTATCTTTAA
42660176 TTA
1 TTA
42660179 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:42666525 original size:3 final size:3
Alignment explanation
Indices: 42666517--42666609 Score: 101
Period size: 3 Copynumber: 33.0 Consensus size: 3
42666507 TTTATTTCTG
*
42666517 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
42666564 TT- TTA TTA -TA TT- TTA TT- TTT TTA TTT TTAA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA
42666605 -TA TTA
1 TTA TTA
42666610 ATAAAATTCT
Statistics
Matches: 79, Mismatches: 3, Indels: 16
0.81 0.03 0.16
Matches are distributed among these distances:
2 14 0.18
3 63 0.80
4 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:42668571 original size:1 final size:1
Alignment explanation
Indices: 42668560--42668612 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
42668550 ATACATAAAT
* * * * * *
42668560 AAAATAAAAAAAAAAGAAAAAAGAAAAAAAAAAGAGAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
42668613 TATATGTAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (1 bp):
A
Found at i:42668579 original size:11 final size:11
Alignment explanation
Indices: 42668560--42668612 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
42668550 ATACATAAAT
42668560 AAAATAAAAAA-
1 AAAA-AAAAAAG
42668571 AAAAGAAAAAAG
1 AAAA-AAAAAAG
42668583 AAAAAAAAAAG
1 AAAAAAAAAAG
*
42668594 AGAAAAAAAAG
1 AAAAAAAAAAG
42668605 AAAAAAAA
1 AAAAAAAA
42668613 TATATGTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
11 34 0.89
12 4 0.11
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:42668586 original size:18 final size:18
Alignment explanation
Indices: 42668560--42668611 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
42668550 ATACATAAAT
*
42668560 AAAATAAAAAAAAAAGA-
1 AAAAAAAAAAAAAAAGAG
42668577 AAAAAGAAAAAAAAAAGAG
1 AAAAA-AAAAAAAAAAGAG
42668596 AAAAAAAAGAAAAAAA
1 AAAAAAAA-AAAAAAA
42668612 ATATATGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 4 0.13
18 15 0.48
19 12 0.39
ACGTcount: A:0.88, C:0.00, G:0.10, T:0.02
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAGAG
Found at i:42668590 original size:20 final size:20
Alignment explanation
Indices: 42668560--42668612 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
42668550 ATACATAAAT
*
42668560 AAAATAAAAAAAAAAGAAAA
1 AAAAGAAAAAAAAAAGAAAA
*
42668580 AAGAA-AAAAAAAAGAGAAAA
1 AA-AAGAAAAAAAAAAGAAAA
42668600 AAAAGAAAAAAAA
1 AAAAGAAAAAAAA
42668613 TATATGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.07
20 26 0.87
21 2 0.07
ACGTcount: A:0.89, C:0.00, G:0.09, T:0.02
Consensus pattern (20 bp):
AAAAGAAAAAAAAAAGAAAA
Found at i:42672394 original size:44 final size:44
Alignment explanation
Indices: 42672330--42672419 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
42672320 GACATATGCG
*
42672330 TCGTTGACACAATACCGTTAGACAACTAATCTCAAATAGAGTTA
1 TCGTCGACACAATACCGTTAGACAACTAATCTCAAATAGAGTTA
*
42672374 TCGTCGACACAATACCGTTAGTCAACTAATCTCAAATAGAGTTA
1 TCGTCGACACAATACCGTTAGACAACTAATCTCAAATAGAGTTA
42672418 TC
1 TC
42672420 TCTATTATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (44 bp):
TCGTCGACACAATACCGTTAGACAACTAATCTCAAATAGAGTTA
Found at i:42673881 original size:18 final size:18
Alignment explanation
Indices: 42673836--42673883 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
42673826 CTTACTTCTT
42673836 AAAAAATTAAAATAAAAA
1 AAAAAATTAAAATAAAAA
* **
42673854 AAGACTTTAAAA-AACAAA
1 AAAAAATTAAAATAA-AAA
42673872 AAAAAATTAAAA
1 AAAAAATTAAAA
42673884 GTTCATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (18 bp):
AAAAAATTAAAATAAAAA
Found at i:42674417 original size:20 final size:20
Alignment explanation
Indices: 42674392--42674436 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
42674382 CCTTAAATTG
**
42674392 TTTTATTTATAAGGTTATTA
1 TTTTATTTATAAACTTATTA
42674412 TTTTATTTATAAACTTATTA
1 TTTTATTTATAAACTTATTA
42674432 TTTTA
1 TTTTA
42674437 ATAGACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTATTTATAAACTTATTA
Found at i:42677985 original size:77 final size:77
Alignment explanation
Indices: 42677891--42678077 Score: 211
Period size: 79 Copynumber: 2.4 Consensus size: 77
42677881 AGTTTCGCTA
* * *
42677891 CTTCAATGAAGGAAATAATGTTATTTGAGTTAAAGA-AAAAA-AAA-AAGCA-AAAGAAACTTAA
1 CTTCAGTGAAGTAAATAATGATATTTGAGTTAAA-ATAAAAATAAATAA--ATAAAGAAACTTAA
42677952 AAAGTTAGCTGCACCG
63 AAAGTT-GCTGCACCG
*
42677968 CTTCAGTGAAGTAAATAATGATGTTTGAGTTTTAAAATAAAAATAAATAAATAAAGAAACTTAAA
1 CTTCAGTGAAGTAAATAATGATATTTGAG--TTAAAATAAAAATAAATAAATAAAGAAACTTAAA
* *
42678033 TAGTTGCTTCACCG
64 AAGTTGCTGCACCG
* * *
42678047 CGTCAGTGAAATAAATAATGGTATTTGAGTT
1 CTTCAGTGAAGTAAATAATGATATTTGAGTT
42678078 TTACACAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
77 27 0.29
78 1 0.01
79 44 0.47
80 20 0.21
81 2 0.02
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (77 bp):
CTTCAGTGAAGTAAATAATGATATTTGAGTTAAAATAAAAATAAATAAATAAAGAAACTTAAAAA
GTTGCTGCACCG
Found at i:42679733 original size:45 final size:45
Alignment explanation
Indices: 42679683--42679772 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
42679673 CCTCATGACA
42679683 ACATTAAAGTGATTGATGATGCAATAATTGTTTATTCTCCAATTT
1 ACATTAAAGTGATTGATGATGCAATAATTGTTTATTCTCCAATTT
*
42679728 ACATTAAAGTGATTGATGATGCAATAGTTGTTTATTCTCCAATTT
1 ACATTAAAGTGATTGATGATGCAATAATTGTTTATTCTCCAATTT
42679773 TTCTTCTCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.42
Consensus pattern (45 bp):
ACATTAAAGTGATTGATGATGCAATAATTGTTTATTCTCCAATTT
Found at i:42685938 original size:18 final size:17
Alignment explanation
Indices: 42685911--42685944 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
42685901 TTCAATTGAT
42685911 AATGAAACCATTAAGTC
1 AATGAAACCATTAAGTC
42685928 AATGTAAACCATTAAGT
1 AATG-AAACCATTAAGT
42685945 TAATCTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (17 bp):
AATGAAACCATTAAGTC
Found at i:42689101 original size:18 final size:17
Alignment explanation
Indices: 42689064--42689114 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
42689054 AAGATAAAAA
42689064 ATATT-ATTTTCTTTACAT
1 ATATTCATTTTCTTT--AT
*
42689082 ATATTCTTTTTACTTTAT
1 ATATTCATTTT-CTTTAT
*
42689100 ATTTTCATTTTCTTT
1 ATATTCATTTTCTTT
42689115 CTTCTTCCCC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 4 0.14
18 16 0.57
19 4 0.14
20 4 0.14
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTCATTTTCTTTAT
Found at i:42690183 original size:89 final size:88
Alignment explanation
Indices: 42690022--42690218 Score: 265
Period size: 89 Copynumber: 2.2 Consensus size: 88
42690012 TTTAAGTGTG
* * * * *
42690022 TAAAAAACCCTCAAACTTTTTGAAAAAAAGTAATTAAGCCATTGCTTTTTTTTGGCACTCAATTG
1 TAAAAAACCCTCAAACTTTCTCAAAAAAAGCAATTAAGCCACTGCCTTTTTTTGGCACTCAATTG
*
42690087 GATACTTGAACTTTCAAAATGCA
66 GATACTTGAACTATCAAAATGCA
42690110 TCAAAAAGACCCTCAAACTTTCTCAAAAAAAGCAATTAAGTCC-CTGCCTTTTTTT-GCACTCAA
1 T-AAAAA-ACCCTCAAACTTTCTCAAAAAAAGCAATTAAG-CCACTGCCTTTTTTTGGCACTCAA
42690173 TTAGG-TACTTGAACTATCAAAATGCA
63 TT-GGATACTTGAACTATCAAAATGCA
42690199 TAAAAAAAGCCCTCAAACTT
1 T-AAAAAA-CCCTCAAACTT
42690219 AAAAAAGAAG
Statistics
Matches: 97, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
88 2 0.02
89 52 0.54
90 41 0.42
91 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (88 bp):
TAAAAAACCCTCAAACTTTCTCAAAAAAAGCAATTAAGCCACTGCCTTTTTTTGGCACTCAATTG
GATACTTGAACTATCAAAATGCA
Found at i:42690251 original size:89 final size:87
Alignment explanation
Indices: 42690022--42690299 Score: 258
Period size: 89 Copynumber: 3.1 Consensus size: 87
42690012 TTTAAGTGTG
*** * ** **
42690022 TAAAAAA-CCCTCAAACTTTTTGAAAAAAAGTAATTAAGCCATTGCTTTTTTTTGGCACTCAATT
1 TAAAAAAGCCCTCAAACTTTAAAAAAAAAAGCAATTAAGCCCCTGAATTTTTTT-GCACTCAATT
*
42690086 GGATACTTGAACTTTCAAAATGCA
65 GG-TACTTGAACTATCAAAATGCA
* *** * **
42690110 TCAAAAAGACCCTCAAACTTTCTCAAAAAAAGCAATTAAGTCCCTGCCTTTTTTTGCACTCAATT
1 TAAAAAAG-CCCTCAAACTTTAAAAAAAAAAGCAATTAAGCCCCTGAATTTTTTTGCACTCAATT
42690175 AGGTACTTGAACTATCAAAATGCA
65 -GGTACTTGAACTATCAAAATGCA
* *
42690199 TAAAAAAAGCCCTCAAAC-TTAAAAAAGAAGAAGCAATTAAGCCCCT-AATTTTTTTCCACTCTA
1 T-AAAAAAGCCCTCAAACTTTAAAAAA-AA-AAGCAATTAAGCCCCTGAATTTTTTTGCACTCAA
* * *
42690262 TTGAGTACTTGAATTGTC-AAATACA
63 TTG-GTACTTGAACTATCAAAATGCA
42690287 TCAAAAAAGCCCT
1 T-AAAAAAGCCCT
42690300 TTGATTGTTA
Statistics
Matches: 161, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
88 30 0.19
89 69 0.43
90 62 0.39
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (87 bp):
TAAAAAAGCCCTCAAACTTTAAAAAAAAAAGCAATTAAGCCCCTGAATTTTTTTGCACTCAATTG
GTACTTGAACTATCAAAATGCA
Found at i:42690425 original size:10 final size:9
Alignment explanation
Indices: 42690412--42690542 Score: 50
Period size: 10 Copynumber: 13.8 Consensus size: 9
42690402 AATATTAAAA
42690412 ATAAAAATCT
1 ATAAAAAT-T
*
42690422 ATAAAAGTT
1 ATAAAAATT
*
42690431 ATAAAATTT
1 ATAAAAATT
**
42690440 ATTAAATTTT
1 A-TAAAAATT
42690450 AATAAAAA-T
1 -ATAAAAATT
42690459 ATAAAAATAT
1 ATAAAAAT-T
* **
42690469 TTAAATTTT
1 ATAAAAATT
*
42690478 CCTAAAAATT
1 -ATAAAAATT
* *
42690488 AGAAATAAAT
1 ATAAA-AATT
42690498 ATAAAAATCGT
1 ATAAAAAT--T
*
42690509 AAAAAAATT
1 ATAAAAATT
42690518 ATAAAAAATT
1 AT-AAAAATT
*
42690528 GT-AAAATT
1 ATAAAAATT
*
42690536 TTAAAAA
1 ATAAAAA
42690543 AAATCATAAA
Statistics
Matches: 91, Mismatches: 20, Indels: 21
0.69 0.15 0.16
Matches are distributed among these distances:
8 14 0.15
9 23 0.25
10 45 0.49
11 9 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:42690469 original size:27 final size:28
Alignment explanation
Indices: 42690441--42690554 Score: 79
Period size: 30 Copynumber: 3.9 Consensus size: 28
42690431 ATAAAATTTA
42690441 TTAAATTTTAATAAAAATATAAAAATAT
1 TTAAATTTTAATAAAAATATAAAAATAT
** *
42690469 TTAAATTTTCCTAAAAATTAGAAATAAATAT
1 TTAAATTTTAATAAAAA-TA-TAA-AAATAT
** **
42690500 AAAAATCGTAA-AAAAATTATAAAAA-AT
1 TTAAATTTTAATAAAAA-TATAAAAATAT
*
42690527 TGTAAAATTTTAAAAAAAATCATAAAAA
1 T-T-AAATTTTAATAAAAAT-ATAAAAA
42690555 AATTATAGAG
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
27 2 0.03
28 18 0.28
29 12 0.18
30 22 0.34
31 11 0.17
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (28 bp):
TTAAATTTTAATAAAAATATAAAAATAT
Found at i:42690520 original size:20 final size:20
Alignment explanation
Indices: 42690497--42690561 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
42690487 TAGAAATAAA
42690497 TATAAAAATCGTAAAAAAAT
1 TATAAAAATCGTAAAAAAAT
* **
42690517 TATAAAAAATTGT-AAAATTT
1 TAT-AAAAATCGTAAAAAAAT
* *
42690537 TAAAAAAAATCATAAAAAAAT
1 T-ATAAAAATCGTAAAAAAAT
42690558 TATA
1 TATA
42690562 GAGTGCATAA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (20 bp):
TATAAAAATCGTAAAAAAAT
Found at i:42690543 original size:10 final size:10
Alignment explanation
Indices: 42690481--42690561 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
42690471 AAATTTTCCT
*
42690481 AAAAATTAGA
1 AAAAATTATA
42690491 AATAAA-TAT-
1 AA-AAATTATA
42690500 AAAAATCGTA-A
1 AAAAAT--TATA
42690511 AAAAATTATA
1 AAAAATTATA
*
42690521 AAAAATTGTA
1 AAAAATTATA
** *
42690531 AAATTTTAAA
1 AAAAATTATA
*
42690541 AAAAATCATAA
1 AAAAATTAT-A
42690552 AAAAATTATA
1 AAAAATTATA
42690562 GAGTGCATAA
Statistics
Matches: 53, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 26 0.49
11 20 0.38
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:42690766 original size:10 final size:9
Alignment explanation
Indices: 42690741--42690817 Score: 55
Period size: 10 Copynumber: 8.0 Consensus size: 9
42690731 TTTTATATTT
42690741 TTTTTTATA
1 TTTTTTATA
**
42690750 AATTTTATA
1 TTTTTTATA
*
42690759 TTTCTTTACA
1 TTT-TTTATA
42690769 TTTTTTATAA
1 TTTTTTAT-A
*
42690779 TTTTTTCCTA
1 TTTTTT-ATA
*
42690789 TATTTCTATA
1 T-TTTTTATA
*
42690799 TGTTTTATA
1 TTTTTTATA
42690808 TATTTTTATA
1 T-TTTTTATA
42690818 AAATTTACAA
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
9 19 0.37
10 27 0.53
11 5 0.10
ACGTcount: A:0.26, C:0.06, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTTTATA
Found at i:42694219 original size:44 final size:44
Alignment explanation
Indices: 42694156--42694239 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
42694146 CCAAAACATG
* *
42694156 TGTCATATATATCATGAACTCAGACCACAACTCATGAGTTAAAA
1 TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTAAAA
*
42694200 TGTCACATATATCATGAACTCAAACCACTACTCATGAGTT
1 TGTCACATATATCATGAACTCAAACCACAACTCATGAGTT
42694240 CAGATCACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.29
Consensus pattern (44 bp):
TGTCACATATATCATGAACTCAAACCACAACTCATGAGTTAAAA
Found at i:42695753 original size:44 final size:43
Alignment explanation
Indices: 42695679--42695832 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
42695669 ACATAGGATT
* *
42695679 TCGATATATGATTTCATGTAAGACCTTGTCTGGGACGTTGGCA
1 TCGATATATGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
* * *
42695722 TCGATTTGA-GATTTACGTGTAAGACCATGTCTGAGACATTGGCA
1 TCGATAT-ATGATTT-CGTGTAAGACCATGTCTGGGACGTTGGCA
* *
42695766 TCG-TATATGATTTCGTGTAAGGCCCTGTCTGGGACAG-TGGCA
1 TCGATATATGATTTCGTGTAAGACCATGTCTGGGAC-GTTGGCA
* * *
42695808 TCGATATTTGATTACATGTAAGACC
1 TCGATATATGATTTCGTGTAAGACC
42695833 TCGTCTAGGA
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
42 28 0.30
43 35 0.38
44 29 0.32
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TCGATATATGATTTCGTGTAAGACCATGTCTGGGACGTTGGCA
Found at i:42697417 original size:30 final size:30
Alignment explanation
Indices: 42697383--42697470 Score: 106
Period size: 30 Copynumber: 2.9 Consensus size: 30
42697373 CTAGCTTATA
42697383 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * *
42697413 TTCAGCTTAGGAG-TATAATCTCAGCTCAAC
1 TTCAGCTCACGAGCTA-AACCTTAGCTCAAC
* *
42697443 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
42697471 TTTTAGTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
29 2 0.04
30 43 0.91
31 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:42697896 original size:13 final size:13
Alignment explanation
Indices: 42697878--42697902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42697868 GTATCGAAAA
42697878 TGTGTTCACACCT
1 TGTGTTCACACCT
42697891 TGTGTTCACACC
1 TGTGTTCACACC
42697903 ATGATGACCA
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:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:42703771 original size:46 final size:46
Alignment explanation
Indices: 42703721--42703849 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
42703711 TGGTTGAGCA
*
42703721 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
42703767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
42703813 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42703850 GCGGGTTACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:42725234 original size:10 final size:10
Alignment explanation
Indices: 42725219--42725245 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
42725209 TCCTCAATGT
42725219 CAATGCTTTG
1 CAATGCTTTG
42725229 CAATGCTTTG
1 CAATGCTTTG
42725239 CAATGCT
1 CAATGCT
42725246 CCTTCCCCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (10 bp):
CAATGCTTTG
Found at i:42734456 original size:24 final size:24
Alignment explanation
Indices: 42734424--42734472 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
42734414 TTAAAGACTA
*
42734424 AATTGATAATTTATCCACTTTTAT
1 AATTAATAATTTATCCACTTTTAT
*
42734448 AATTAATAATTTATCCCCTTTTAT
1 AATTAATAATTTATCCACTTTTAT
42734472 A
1 A
42734473 TACAGTGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (24 bp):
AATTAATAATTTATCCACTTTTAT
Found at i:42735262 original size:18 final size:18
Alignment explanation
Indices: 42735239--42735275 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
42735229 ATTTGGTAAG
*
42735239 TTAGATTTGGGTTGTTAA
1 TTAGATTTCGGTTGTTAA
42735257 TTAGATTTCGGTTGTTAA
1 TTAGATTTCGGTTGTTAA
42735275 T
1 T
42735276 ACATAGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.24, T:0.51
Consensus pattern (18 bp):
TTAGATTTCGGTTGTTAA
Found at i:42742341 original size:20 final size:19
Alignment explanation
Indices: 42742312--42742350 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
42742302 CTTGTATGAG
*
42742312 ATTTCACTTCGGTGCCTCT
1 ATTTCACTTCAGTGCCTCT
42742331 ATTTGCACTTCAGTGCCTCT
1 ATTT-CACTTCAGTGCCTCT
42742351 GAATGCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.13, C:0.31, G:0.15, T:0.41
Consensus pattern (19 bp):
ATTTCACTTCAGTGCCTCT
Found at i:42742357 original size:20 final size:20
Alignment explanation
Indices: 42742316--42742370 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 20
42742306 TATGAGATTT
*
42742316 CACTTCGGTGCCTCT-ATTTG
1 CACTTC-GTGCCTCTGATATG
42742336 CACTTCAGTGCCTCTGA-ATG
1 CACTTC-GTGCCTCTGATATG
42742356 CACATT-GTGCCTCTG
1 CAC-TTCGTGCCTCTG
42742371 TTTGTACCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 9 0.29
20 19 0.61
21 3 0.10
ACGTcount: A:0.15, C:0.31, G:0.20, T:0.35
Consensus pattern (20 bp):
CACTTCGTGCCTCTGATATG
Found at i:42746558 original size:93 final size:93
Alignment explanation
Indices: 42746399--42746571 Score: 251
Period size: 93 Copynumber: 1.9 Consensus size: 93
42746389 GGGATATTTG
* *
42746399 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCGAACTCGTTGAG
*
42746464 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAATCCGAGTTCGTGAGATGTAACTA
* * * *
42746492 GGCATCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGAATAG-GAACG-CCTGAGCTCGTTG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAAT-GCGAACGTCC-GAACTCGTTG
42746555 AGTTGAATCCGAGTTCG
64 AGTTGAATCCGAGTTCG
42746572 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
92 2 0.03
93 68 0.96
94 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAACGTCCGAACTCGTTGAG
TTGAATCCGAGTTCGTGAGATGTAACTA
Found at i:42746569 original size:46 final size:44
Alignment explanation
Indices: 42746404--42746577 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 44
42746394 ATTTGGGCAT
* *
42746404 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-GCGAATG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATAG-GAA-G
* * * * *
42746449 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAGATGTAACTAGGCAT
1 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACT--TATG-AA-TAGGAAG
* *
42746497 CCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGAATAGGAACG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATAGGAA-G
* *
42746542 CCTGAGCTCGTTGAGTTGAATCCGAGTTCGCTTATG
1 CC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG
42746578 GGCGGGTTAC
Statistics
Matches: 104, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 5 0.05
45 5 0.05
46 60 0.58
47 28 0.27
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (44 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGAATAGGAAG
Found at i:42763439 original size:92 final size:93
Alignment explanation
Indices: 42763335--42763503 Score: 268
Period size: 92 Copynumber: 1.8 Consensus size: 93
42763325 GCCCATAAGT
* * *
42763335 GAACTCGGACTCAACTCAACGAGCACGGGCATTTGCATCCATAAGT-AACTCGGATTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
42763399 CAAGCTCGGATGTCTAGTTACATCTCTC
66 CAAGCTCGGATGTCTAGTTACATCTCTC
**
42763427 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
42763492 CGAGTTCGGATG
66 CAAGCTCGGATG
42763504 CCCAAACATC
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 42 0.61
93 27 0.39
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGTCTAGTTACATCTCTC
Found at i:42763487 original size:46 final size:46
Alignment explanation
Indices: 42763327--42763501 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
42763317 TGTAACCCGC
* * *
42763327 CCATAAGTGAACTCGGACTCAACTCAACGAGCACGGGCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCAT
* * ** *
42763373 CCATAAGT-AACTCGGATTCAACTCAACAAGCTCGGATGTCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAT-TAGCAT
* *** * *
42763418 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTAGCAT
*
42763465 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
42763502 TGCCCAAACA
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 30 0.29
46 41 0.40
47 31 0.30
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTAGCAT
Found at i:42765901 original size:31 final size:31
Alignment explanation
Indices: 42765883--42765962 Score: 94
Period size: 31 Copynumber: 2.6 Consensus size: 31
42765873 TAAGAAAATC
*
42765883 GAATAAAGAAATCCAAGATAGAGAAAAACCA
1 GAATAAAGAAATCCAAGATAAAGAAAAACCA
* *
42765914 GAATAAAGAAATCC-AGAATAAAG-AGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAAAACCA
*
42765944 GAAT-AAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
42765963 CGATATTATG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 11 0.26
30 13 0.30
31 19 0.44
ACGTcount: A:0.59, C:0.14, G:0.16, T:0.11
Consensus pattern (31 bp):
GAATAAAGAAATCCAAGATAAAGAAAAACCA
Found at i:42765931 original size:15 final size:15
Alignment explanation
Indices: 42765883--42765953 Score: 83
Period size: 15 Copynumber: 4.7 Consensus size: 15
42765873 TAAGAAAATC
42765883 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
42765898 -AGATAGAGAAAAACCA
1 GA-ATAAAG-AAATCCA
42765914 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
42765929 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
42765944 GAAT-AAGAAA
1 GAATAAAGAAA
42765954 CCCAAGATAC
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
14 6 0.13
15 29 0.62
16 11 0.23
17 1 0.02
ACGTcount: A:0.61, C:0.11, G:0.17, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:42768981 original size:92 final size:93
Alignment explanation
Indices: 42768874--42769042 Score: 261
Period size: 92 Copynumber: 1.8 Consensus size: 93
42768864 GCCCATAAGT
* *
42768874 GAACTCGGAATCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGT-AACTCGGATTCAACTCA
1 GAACTCGGAATCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
42768937 ACAAGCTCGGATGTCTAGTTACATCTCTC
65 ACAAGCTCGGATGTCTAGTTACATCTCTC
* *
42768966 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
42769031 CGAGTTCGGATG
66 CAAGCTCGGATG
42769043 CCCAAACATC
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
91 2 0.03
92 41 0.59
93 26 0.38
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGAATCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CAAGCTCGGATGTCTAGTTACATCTCTC
Found at i:42769027 original size:46 final size:46
Alignment explanation
Indices: 42768866--42769040 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
42768856 TGTAACCCGC
*
42768866 CCATAAGTGAACTCGGAATCAACTCAACGAGCTCAGG-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCAT
* * ** * *
42768912 CCATAAGT-AACTCGGATTCAACTCAACAAGCTCGGATGTCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAT-TCGCAT
* *** *
42768957 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
42769004 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
42769041 TGCCCAAACA
Statistics
Matches: 102, Mismatches: 22, Indels: 10
0.76 0.16 0.07
Matches are distributed among these distances:
44 2 0.02
45 29 0.28
46 40 0.39
47 31 0.30
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:42770401 original size:13 final size:13
Alignment explanation
Indices: 42770383--42770410 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42770373 ATTTCCATGA
42770383 TTTTTTGAAAATT
1 TTTTTTGAAAATT
42770396 TTTTTTGAAAATT
1 TTTTTTGAAAATT
42770409 TT
1 TT
42770411 GACGTTTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTTTTGAAAATT
Found at i:42771701 original size:96 final size:95
Alignment explanation
Indices: 42771492--42771725 Score: 263
Period size: 96 Copynumber: 2.5 Consensus size: 95
42771482 TGTGAGTATT
* * ** * * *
42771492 GAGATCCTGTTTAAGACCATATTTGGGATATGACATCGGCATCAAGATGAGATCCGTGTAAGACC
1 GAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATCAAGATGAGATCCATGTAAGACC
* * *
42771557 ATATCTGGGGTATGGCATCGACATCGATAA
66 ATATCTGAGATATGACATCGACATCGATAA
* *
42771587 GAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATC-AGTATGAGATCCAATGTAAGA
1 GAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATCAAG-ATGAGATCC-ATGTAAGA
* * * *
42771651 CCATATCTGAGATATGACATTGGCATTGATAT
64 CCATATCTGAGATATGACATCGACATCGATAA
* * * *
42771683 GAGGTCCCGTATAAGACCATGTCTAGGACATGGCATCGGCATC
1 GAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATC
42771726 GTTATGAAAC
Statistics
Matches: 115, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
94 2 0.02
95 44 0.38
96 69 0.60
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (95 bp):
GAGATCCCGTATAAGACCACGTCTGGGACATGACATCGGCATCAAGATGAGATCCATGTAAGACC
ATATCTGAGATATGACATCGACATCGATAA
Found at i:42771732 original size:48 final size:48
Alignment explanation
Indices: 42771491--42771816 Score: 209
Period size: 48 Copynumber: 6.9 Consensus size: 48
42771481 ATGTGAGTAT
* * * * * *
42771491 TGAGATCCTGTTTAAGACCATATTTGGGATATGACATCGGCATCAAGA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
* ** * *
42771539 TGAGAT-CCGTGTAAGACCATATCTGGGGTATGGCATCGACATCGATA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
* * ** *
42771586 AGAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATC-AGTA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGA-TA
** * * * * *
42771634 TGAGATCCAATGTAAGACCATATCTGAGATATGACATTGGCATTGATA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
* * * * *
42771682 TGAGGTCCCGTATAAGACCATGTCTAGGACATGGCATCGGCATCGTTA
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
* * * * * *
42771730 TGA-AACTTCGTGTAAGACCATAGCTGGG-C-TG---TTGGCATCGATG
1 TGAGATC-CCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
* * ** * * *
42771773 TGAGATCCCATGTAAGACCACGTTTGGGACATGGCATTGGCATC
1 TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATC
42771817 TTTTAATGTG
Statistics
Matches: 211, Mismatches: 57, Indels: 20
0.73 0.20 0.07
Matches are distributed among these distances:
43 27 0.13
44 3 0.01
45 2 0.01
46 2 0.01
47 41 0.19
48 135 0.64
49 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (48 bp):
TGAGATCCCGTATAAGACCATATCTGGGACATGACATCGGCATCGATA
Found at i:42771732 original size:96 final size:95
Alignment explanation
Indices: 42771521--42771751 Score: 259
Period size: 96 Copynumber: 2.4 Consensus size: 95
42771511 TATTTGGGAT
* * * *
42771521 ATGACATCGGCATCAAG-ATGAGATCCGTGTAAGACCATATCTGGGGTATGGCATCGACATCGAT
1 ATGACATCGGCATC-AGTATGAGATCCATGTAAGACCATATCTGAGATATGACATCGACATCGAT
* *
42771585 AAGAGATCTCGTATAAGACCACGTCTGGGAC
65 AAGAGATCCCGTATAAGACCACGTCTAGGAC
* * * *
42771616 ATGACATTGGCATCAGTATGAGATCCAATGTAAGACCATATCTGAGATATGACATTGGCATTGAT
1 ATGACATCGGCATCAGTATGAGATCC-ATGTAAGACCATATCTGAGATATGACATCGACATCGAT
* * *
42771681 ATGAGGTCCCGTATAAGACCATGTCTAGGAC
65 AAGAGATCCCGTATAAGACCACGTCTAGGAC
* * * *
42771712 ATGGCATCGGCATC-GTTATGAAACTTCGTGTAAGACCATA
1 ATGACATCGGCATCAG-TATGAGA-TCCATGTAAGACCATA
42771752 GCTGGGCTGT
Statistics
Matches: 114, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
94 2 0.02
95 23 0.20
96 87 0.76
97 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (95 bp):
ATGACATCGGCATCAGTATGAGATCCATGTAAGACCATATCTGAGATATGACATCGACATCGATA
AGAGATCCCGTATAAGACCACGTCTAGGAC
Found at i:42771757 original size:144 final size:138
Alignment explanation
Indices: 42771503--42771792 Score: 298
Period size: 144 Copynumber: 2.1 Consensus size: 138
42771493 AGATCCTGTT
* * * * **
42771503 TAAGACCATATTTGGGATATGACATCGGCATCAAGATGAGATCCGTGTAAGACCATATCTGGGGT
1 TAAGACCATATCTGAGATATGACATCGGCATCAAGATGAGATCCGTATAAGACCATATCTAGGAC
* *
42771568 ATGGCATCGACATCGATAAGAGATCTCGTATAAGACCACGTCTGGGACATGACATTGGCATC-AG
66 ATGGCATCGACATCGATAAGAAATCTCGTATAAGACCAAGTCTGGG-C-TG---TTGGCATCGA-
42771632 TATGAGATCCAATG
125 TATGAGATCCAATG
* ** * * *
42771646 TAAGACCATATCTGAGATATGACATTGGCATTGATATGAGGTCCCGTATAAGACCATGTCTAGGA
1 TAAGACCATATCTGAGATATGACATCGGCATCAAGATGAGAT-CCGTATAAGACCATATCTAGGA
* * * * *
42771711 CATGGCATCGGCATCGTTATGAAA-CTTCGTGTAAGACCATAG-CTGGGCTGTTGGCATCGATGT
65 CATGGCATCGACATCGATAAGAAATC-TCGTATAAGACCA-AGTCTGGGCTGTTGGCATCGATAT
*
42771774 GAGATCCCATG
128 GAGATCCAATG
42771785 TAAGACCA
1 TAAGACCA
42771793 CGTTTGGGAC
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
139 28 0.23
140 1 0.01
142 2 0.02
143 37 0.30
144 54 0.44
145 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (138 bp):
TAAGACCATATCTGAGATATGACATCGGCATCAAGATGAGATCCGTATAAGACCATATCTAGGAC
ATGGCATCGACATCGATAAGAAATCTCGTATAAGACCAAGTCTGGGCTGTTGGCATCGATATGAG
ATCCAATG
Found at i:42777255 original size:27 final size:27
Alignment explanation
Indices: 42777225--42777429 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
42777215 ATATTAAGTC
* *
42777225 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
42777252 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
42777280 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
42777307 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
42777334 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
42777361 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
42777388 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
42777415 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42777430 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:42777364 original size:54 final size:54
Alignment explanation
Indices: 42777225--42777428 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
42777215 ATATTAAGTC
* * * **
42777225 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
42777280 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
42777334 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
42777388 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
42777429 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:42777394 original size:81 final size:81
Alignment explanation
Indices: 42777279--42777428 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
42777269 ATAATCAAAC
* * * * * *
42777279 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
42777344 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
42777360 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
42777425 GTGC
66 GTGC
42777429 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:42785395 original size:27 final size:27
Alignment explanation
Indices: 42785365--42785569 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
42785355 ATATTAAGTC
* *
42785365 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
42785392 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
42785420 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* ** *
42785447 CGCACACTTAGTG-TCGCATGGTCAATT
1 CGCACACTTAGTGCT-ACATAATCAACT
** **
42785474 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
42785501 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
42785528 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
42785555 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42785570 GTACAATTTA
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
26 1 0.01
27 127 0.82
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:42785504 original size:54 final size:53
Alignment explanation
Indices: 42785365--42785568 Score: 239
Period size: 54 Copynumber: 3.8 Consensus size: 53
42785355 ATATTAAGTC
* * * **
42785365 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAA-T
* *
42785420 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGTCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTG-CACATGGTCAAAT
** **
42785474 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGC-ACATGGTCAAAT
* *
42785528 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
42785569 TGTACAATTT
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
53 2 0.02
54 79 0.62
55 46 0.36
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCACATGGTCAAAT
Found at i:42785531 original size:81 final size:81
Alignment explanation
Indices: 42785365--42785568 Score: 223
Period size: 81 Copynumber: 2.5 Consensus size: 81
42785355 ATATTAAGTC
* * ** * ** **
42785365 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCA-CATAATCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTG-CATCATTTTC-ATTTCGCACACTT
* *
42785429 AGTGCTACATAGTCAACT
64 AGTGCAACATAGTCAAAT
* * * *
42785447 CGCACACTTAGTG-TCGCATGGTCAATTCGCACACTTAGTGCATCATTTTCATTTCGCACACTTA
1 CGCACACTTAGTGCT-ACATAGCCAAATCGCACACTTAGTGCATCATTTTCATTTCGCACACTTA
*
42785511 GTGCAACATGGTCAAAT
65 GTGCAACATAGTCAAAT
42785528 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
42785569 TGTACAATTT
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
81 64 0.63
82 38 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGCATCATTTTCATTTCGCACACTTAG
TGCAACATAGTCAAAT
Found at i:42789463 original size:35 final size:35
Alignment explanation
Indices: 42789382--42789465 Score: 125
Period size: 35 Copynumber: 2.4 Consensus size: 35
42789372 TTTTGAGGTT
* *
42789382 TCACTCCATAGAGCATGTAGACCATTTTCATGGTG
1 TCACTCCATAGAGCACGTAGACCATTTACATGGTG
42789417 TCTA-TCCATAGAGCACGTAGACCATTTACATGGTG
1 TC-ACTCCATAGAGCACGTAGACCATTTACATGGTG
*
42789452 TCACTCTATAGAGC
1 TCACTCCATAGAGC
42789466 CTATAGACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 1 0.02
35 42 0.95
36 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (35 bp):
TCACTCCATAGAGCACGTAGACCATTTACATGGTG
Found at i:42797043 original size:81 final size:81
Alignment explanation
Indices: 42796737--42797043 Score: 377
Period size: 81 Copynumber: 3.8 Consensus size: 81
42796727 CATACCTGAA
* * * *
42796737 CCCTTATGTGATAAAATGACAATTTTTCCCTTATGTGATAAAATGACAATTTTTCCCTTATGT-T
1 CCCTTATGTGGTAAAATGACAATTTTGCCCTTATGTGGTAAAATGACTATTTTTCCCTTATGTGT
*
42796801 GCAAAATGACAGTTTTG
66 -TAAAATGACAGTTTTG
* * ** * * * * *
42796818 CCCTTATGTTGCAAAATGACTGTTTTGCCATTATGTGTTAAAATGA-TGATTTTTCCTTTATATA
1 CCCTTATGTGGTAAAATGACAATTTTGCCCTTATGTGGTAAAATGACT-ATTTTTCCCTTATGTG
*
42796882 TTAAAATGACAATTTTG
65 TTAAAATGACAGTTTTG
* * *
42796899 CCCTTATGTGAG-AAAATGACAATTTTGCCCTTGTGTGGCAAAATGACTATTTTGCCCTTATGTG
1 CCCTTATGTG-GTAAAATGACAATTTTGCCCTTATGTGGTAAAATGACTATTTTTCCCTTATGTG
42796963 TTAAAATGACAGTTTTG
65 TTAAAATGACAGTTTTG
* * *
42796980 CCCTTATGTGGTAAAATGACAATTTTTCCCTTATGAGGTAAAATGACTATTTTTACCTTATGTG
1 CCCTTATGTGGTAAAATGACAATTTTGCCCTTATGTGGTAAAATGACTATTTTTCCCTTATGTG
42797044 GTAGGATGGT
Statistics
Matches: 190, Mismatches: 31, Indels: 10
0.82 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 186 0.98
82 3 0.02
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (81 bp):
CCCTTATGTGGTAAAATGACAATTTTGCCCTTATGTGGTAAAATGACTATTTTTCCCTTATGTGT
TAAAATGACAGTTTTG
Found at i:42797046 original size:27 final size:27
Alignment explanation
Indices: 42796737--42797046 Score: 325
Period size: 27 Copynumber: 11.5 Consensus size: 27
42796727 CATACCTGAA
*
42796737 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTT
*
42796764 CCCTTATGTGATAAAATGACAATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTT
* * * *
42796791 CCCTTATGTTGCAAAATGACAGTTTTG
1 CCCTTATGTGGTAAAATGACAATTTTT
* * ** *
42796818 CCCTTATGTTGCAAAATGACTGTTTTG
1 CCCTTATGTGGTAAAATGACAATTTTT
* * **
42796845 CCATTATGTGTTAAAATGATGATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTT
* * ** *
42796872 CCTTTATATATTAAAATGACAATTTTG
1 CCCTTATGTGGTAAAATGACAATTTTT
*
42796899 CCCTTATGTGAG-AAAATGACAATTTTG
1 CCCTTATGTG-GTAAAATGACAATTTTT
* * * *
42796926 CCCTTGTGTGGCAAAATGACTATTTTG
1 CCCTTATGTGGTAAAATGACAATTTTT
* * *
42796953 CCCTTATGTGTTAAAATGACAGTTTTG
1 CCCTTATGTGGTAAAATGACAATTTTT
42796980 CCCTTATGTGGTAAAATGACAATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTT
* *
42797007 CCCTTATGAGGTAAAATGACTATTTTT
1 CCCTTATGTGGTAAAATGACAATTTTT
*
42797034 ACCTTATGTGGTA
1 CCCTTATGTGGTA
42797047 GGATGGTTGT
Statistics
Matches: 243, Mismatches: 38, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 242 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACAATTTTT
Found at i:42797455 original size:18 final size:18
Alignment explanation
Indices: 42797403--42797461 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
42797393 TGCATTCTAT
*
42797403 ACTGATTACTGCTACTAC
1 ACTGATTACTGCTACTGC
* *
42797421 ACTGATCA-TGGGTACTGC
1 ACTGATTACT-GCTACTGC
*
42797439 ACTGATTACTGCCACTGC
1 ACTGATTACTGCTACTGC
42797457 TACTG
1 -ACTG
42797462 TTTCTGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 1 0.03
18 26 0.81
19 5 0.16
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (18 bp):
ACTGATTACTGCTACTGC
Found at i:42798091 original size:15 final size:16
Alignment explanation
Indices: 42798071--42798100 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42798061 TGTAGCCTTG
42798071 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
42798086 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
42798101 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:42799794 original size:17 final size:17
Alignment explanation
Indices: 42799774--42799807 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42799764 TTTCCTCGAT
*
42799774 TTTATTAAATTCATTAA
1 TTTAATAAATTCATTAA
*
42799791 TTTAATAATTTCATTAA
1 TTTAATAAATTCATTAA
42799808 ATTCATCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATAAATTCATTAA
Found at i:42803744 original size:20 final size:20
Alignment explanation
Indices: 42803719--42803757 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
42803709 AGAGACTAAA
* *
42803719 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
42803739 ATGAAAAATTCTAAAATTT
1 ATGAAAAATTCTAAAATTT
42803758 TATGGATACA
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:0.49, C:0.03, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:42832378 original size:29 final size:29
Alignment explanation
Indices: 42832345--42832402 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42832335 CGAACCAGAA
42832345 TACAAGGCATTACGTAACTCGATCTCATG
1 TACAAGGCATTACGTAACTCGATCTCATG
42832374 TACAAGGCATTACGTAACTCGATCTCATG
1 TACAAGGCATTACGTAACTCGATCTCATG
42832403 CACACAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (29 bp):
TACAAGGCATTACGTAACTCGATCTCATG
Found at i:42833831 original size:46 final size:46
Alignment explanation
Indices: 42833778--42833898 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 46
42833768 CTCGTAGCCG
42833778 ATGCATGTCCCAGACATGTCTTACATT-G-ACCTACGTCTCAAGGCCA
1 ATGCATGTCCCAGACATGTCTTACATTAGCA-CT-CGTCTCAAGGCCA
* * * * *
42833824 ATGCATGTCCTAGACATGTCTTACACTAGCACTTGTCTCAATGCCG
1 ATGCATGTCCCAGACATGTCTTACATTAGCACTCGTCTCAAGGCCA
*
42833870 ATGCCTTGTCCCAGACATGGTCTTACATT
1 ATG-CATGTCCCAGACAT-GTCTTACATT
42833899 TGCTCTCATA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
46 38 0.60
47 15 0.24
48 10 0.16
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACATTAGCACTCGTCTCAAGGCCA
Found at i:42840653 original size:44 final size:45
Alignment explanation
Indices: 42840584--42840696 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 45
42840574 GGGTAAGGTA
*
42840584 CCGATGCCATGT-CCAAACATGGTCTTACACTAAC-ACATCTCGTA-G
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTAACTACATCTCG-AGG
* *
42840629 CCGATGCATGTCCCAGACATGTCTTACACTGACTTACGTCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTAAC-TACATCTCGAGG
*
42840675 TCGATGCATGTCCCAGACATGT
1 CCGATGCATGTCCCAGACATGT
42840697 AATCCCAATG
Statistics
Matches: 60, Mismatches: 4, Indels: 7
0.85 0.06 0.10
Matches are distributed among these distances:
44 17 0.28
45 14 0.23
46 29 0.48
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGTCTTACACTAACTACATCTCGAGG
Found at i:42842387 original size:36 final size:36
Alignment explanation
Indices: 42842340--42842410 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
42842330 TGGTTTTTAT
*
42842340 AATATGTTGAAATGGAATATGCATGATTTATGACTC
1 AATATGTTGAAATGGAATATGCATGATATATGACTC
*
42842376 AATATGTTGAAATGGACTATGCATGATATATGACT
1 AATATGTTGAAATGGAATATGCATGATATATGACT
42842411 AAATTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (36 bp):
AATATGTTGAAATGGAATATGCATGATATATGACTC
Found at i:42846952 original size:39 final size:37
Alignment explanation
Indices: 42846885--42846977 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
42846875 ACCAGAATGG
* *
42846885 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
42846924 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
42846961 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
42846978 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:42847341 original size:3 final size:3
Alignment explanation
Indices: 42847333--42847380 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
42847323 ATTCCCACTC
* * * *
42847333 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
42847381 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:42847381 original size:18 final size:18
Alignment explanation
Indices: 42847334--42847382 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
42847324 TTCCCACTCA
*
42847334 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
42847352 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
42847370 TAATATTAATACT
1 TAATAATAATACT
42847383 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Found at i:42847382 original size:12 final size:12
Alignment explanation
Indices: 42847333--42847380 Score: 69
Period size: 12 Copynumber: 4.0 Consensus size: 12
42847323 ATTCCCACTC
*
42847333 ATAATAATAATA
1 ATAATACTAATA
42847345 ATAATACTAATA
1 ATAATACTAATA
42847357 ATAATACTAATA
1 ATAATACTAATA
* *
42847369 CTAATATTAATA
1 ATAATACTAATA
42847381 CTTACCTCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAATACTAATA
Found at i:42848097 original size:16 final size:16
Alignment explanation
Indices: 42848076--42848109 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
42848066 TCCTTTGTTC
42848076 TTTCTATTCTGTTTCT
1 TTTCTATTCTGTTTCT
*
42848092 TTTCTATTTTGTTTCT
1 TTTCTATTCTGTTTCT
42848108 TT
1 TT
42848110 CTTTTTCTTT
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:0.06, C:0.15, G:0.06, T:0.74
Consensus pattern (16 bp):
TTTCTATTCTGTTTCT
Found at i:42848130 original size:21 final size:20
Alignment explanation
Indices: 42848087--42848126 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
42848077 TTCTATTCTG
*
42848087 TTTCTTTTCTATTTTGTTTC
1 TTTCTTTTCTATTTTATTTC
42848107 TTTCTTTTTCT-TTTTATTTC
1 TTTC-TTTTCTATTTTATTTC
42848127 CTTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTATTTTATTTC
Found at i:42848293 original size:31 final size:28
Alignment explanation
Indices: 42848257--42848324 Score: 73
Period size: 31 Copynumber: 2.3 Consensus size: 28
42848247 TTGTCTTTAT
**
42848257 TTAATTTATTTCTTAATATAATATTTATAA
1 TTAATTTATTTAATAATAT-A-ATTTATAA
* *
42848287 TGTAATTAATTTAATAATATACTTTATAA
1 T-TAATTTATTTAATAATATAATTTATAA
42848316 TTAATTTAT
1 TTAATTTAT
42848325 ATATTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.22
29 8 0.25
30 2 0.06
31 15 0.47
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (28 bp):
TTAATTTATTTAATAATATAATTTATAA
Found at i:42848341 original size:21 final size:20
Alignment explanation
Indices: 42848303--42848341 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
42848293 TAATTTAATA
*
42848303 ATATACTTTATAATTAATTT
1 ATATACTTTATAAATAATTT
*
42848323 ATATATTTATATAAATAAT
1 ATATACTT-TATAAATAAT
42848342 AATATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACTTTATAAATAATTT
Found at i:42864086 original size:46 final size:46
Alignment explanation
Indices: 42863939--42864251 Score: 201
Period size: 47 Copynumber: 6.7 Consensus size: 46
42863929 TTTGTGTGCT
* * *
42863939 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * * * *
42863985 AATGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
42864033 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * * * * *
42864079 AGTGTAAGACATGTCTGGTACTTGCATCAG-CT--ATATGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGA-GAGCC
* * * * * * *
42864123 AATGTAAGACTATG-CTGGGATATGGCATCGACATGGATACGTGAGAGTC
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGAGA--TGAGAGCC
* **
42864172 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTAATG-TGAGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGA-GATGAGAGCC
* *
42864219 AGTGTAAGACCATGTCTAGAACATGACATCGGC
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC
42864252 ATTATACCCT
Statistics
Matches: 208, Mismatches: 41, Indels: 34
0.73 0.14 0.12
Matches are distributed among these distances:
42 1 0.00
43 4 0.02
44 17 0.08
45 10 0.05
46 54 0.26
47 60 0.29
48 26 0.12
49 18 0.09
50 18 0.09
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:42864191 original size:140 final size:140
Alignment explanation
Indices: 42863939--42864235 Score: 331
Period size: 140 Copynumber: 2.1 Consensus size: 140
42863929 TTTGTGTGCT
42863939 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTCTAG
* * * *
42864004 GACATGGCATTGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCG
66 GACATGGCATCGACATGGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATC-GACT-G
42864068 AGATGT-A-AGCC
129 A-ATGTGAGAGCC
* * * * * * *
42864079 AGTGTAAGACATGTCTGGTACTTGCATCAG-C-TA-TATGATGTGTCAATGTAAGACTATG-CTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-GAGCCAATGTAAGACCATGTCTA
* *
42864140 GGATATGGCATCGACATGGATACGTGAGAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGA
65 GGACATGGCATCGACATGGAGA--TGAGAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGA
*
42864204 CTTAATGTGAGAGCC
126 CTGAATGTGAGAGCC
42864219 AGTGTAAGACCATGTCT
1 AGTGTAAGA-CATGTCT
42864236 AGAACATGAC
Statistics
Matches: 134, Mismatches: 14, Indels: 17
0.81 0.08 0.10
Matches are distributed among these distances:
137 24 0.18
138 22 0.16
139 18 0.13
140 58 0.43
141 12 0.09
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAATGTAAGACCATGTCTAG
GACATGGCATCGACATGGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACTGAA
TGTGAGAGCC
Found at i:42865418 original size:21 final size:21
Alignment explanation
Indices: 42865389--42865443 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
42865379 TTATAATGAA
*
42865389 CACATGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
42865410 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
42865431 CACACGGGCGTGT
1 CACACGGGCGTGT
42865444 ACCGTGTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.11, C:0.35, G:0.31, T:0.24
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:42874134 original size:57 final size:58
Alignment explanation
Indices: 42874073--42874189 Score: 157
Period size: 58 Copynumber: 2.0 Consensus size: 58
42874063 TCCTCTTTCC
* *
42874073 AACATATGTTCATA-AGAGCTTA-ATCAAGATTACCCGTCCAGGCTAAATCCTATCTAT
1 AACATATGCTCA-AGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
* * * *
42874130 AACATATGCTCAAGAGGGCTTATATCAGGATTACCAGTCTAGGCTAAATCCTTTCTAT
1 AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
42874188 AA
1 AA
42874190 TGAGGTCAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 1 0.02
57 18 0.35
58 33 0.63
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (58 bp):
AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAGGCTAAATCCTATCTAT
Found at i:42876404 original size:56 final size:56
Alignment explanation
Indices: 42876318--42876493 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
42876308 ACAAGGGATG
*
42876318 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42876374 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42876430 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42876486 ATGGGCAA
1 ATGGGCAA
42876494 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:42877758 original size:79 final size:82
Alignment explanation
Indices: 42877620--42877802 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 82
42877610 TCGAATGATG
* *
42877620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
*
42877684 TGTGCGAGATACTA-AT
66 TGTGCGAGATACTATAA
* * * **
42877700 TCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCAT
*
42877762 TTGTGCGAGTTACTATAA
65 TTGTGCGAGATACTATAA
*
42877780 T-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42877803 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATAA
Found at i:42877811 original size:40 final size:40
Alignment explanation
Indices: 42877620--42877804 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
42877610 TCGAATGATG
* * * *
42877620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
42877660 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42877700 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42877739 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
42877780 T-CGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42877805 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 78 0.63
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42877826 original size:79 final size:78
Alignment explanation
Indices: 42877657--42877837 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 78
42877647 CTAAGTGACC
* *
42877657 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCAT
**
42877722 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* * *
42877736 AAATCCGGGTTAAG-TCCTGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTATGTCCCGAAGG
1 ATATCC-GGTTAAGATCC-GAAGGCATTTGTGCGAGATACTA-AATCCGGGCTAAG-CCCGAAGG
*
42877799 CATTTGAACGAG-TAGCT
62 CATTGGAACGAGTTA-CT
42877816 ATATCCGGTTAA-ATTCCGAAGG
1 ATATCCGGTTAAGA-TCCGAAGG
42877838 TACGTGATTT
Statistics
Matches: 86, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
78 3 0.03
79 52 0.60
80 31 0.36
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
ATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTACT
Found at i:42884365 original size:55 final size:56
Alignment explanation
Indices: 42884281--42884399 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
42884271 ACAAGGGATG
42884281 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42884336 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42884392 ATGGGCAA
1 ATGGGCAA
42884400 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 40 0.63
56 23 0.37
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:42885662 original size:79 final size:81
Alignment explanation
Indices: 42885526--42885708 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
42885516 TCGAATGATG
* *
42885526 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
42885590 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
42885605 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
42885667 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
42885685 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42885709 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:42885724 original size:40 final size:40
Alignment explanation
Indices: 42885527--42885710 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
42885517 CGAATGATGT
* * * *
42885527 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
42885567 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
42885607 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42885645 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42885686 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42885711 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:42885732 original size:79 final size:79
Alignment explanation
Indices: 42885579--42885743 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
42885569 GGACTAAGAT
* **
42885579 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
42885644 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42885658 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
42885721 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42885737 CCGAAGG
1 CCGAAGG
42885744 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42892037 original size:56 final size:54
Alignment explanation
Indices: 42891919--42892051 Score: 203
Period size: 56 Copynumber: 2.4 Consensus size: 54
42891909 TCCCAAATAG
* * *
42891919 GGTCTTACTCGTAAACACATATCAGAATCACATATCTGCCAATGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATCTGCCAACGTATTAAACGT
*
42891973 GGTCTTACTCGCACACACATATCAGAATCATATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACACATATCAGAATCACATATC--TGCCAACGTATTAAACGT
*
42892029 GGTCTTACTCCCACACACATATC
1 GGTCTTACTCGCACACACATATC
42892052 GTACAATGCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
54 33 0.46
56 39 0.54
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.28
Consensus pattern (54 bp):
GGTCTTACTCGCACACACATATCAGAATCACATATCTGCCAACGTATTAAACGT
Found at i:42892168 original size:41 final size:42
Alignment explanation
Indices: 42892065--42892349 Score: 281
Period size: 41 Copynumber: 6.8 Consensus size: 42
42892055 CAATGCCAAC
* * * *
42892065 GTCCTAGACATGGTCTTACATGTAATCACATATCGATG-CCATT
1 GTCCCAGACATGGTCTTACACGTAATCAAATAT-GATGTCGA-T
* *
42892108 GTCCTAGACAGGGTCTTACACG-AATCAAATATGATGTCGAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATGATGTCGAT
* * * * * * *
42892149 GTCCCAGACCTAGTTTTACACGTAATCACATATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAATCAAATAT-GATGTCGAT
*
42892192 GTCCCAGACGTGGTCTTACACG-AATCAAATATGATGTCGAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATGATGTCGAT
* * * * *
42892233 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAATCAAATAT-GATGTCGAT
* * * * *
42892276 GTCCCAAACGTGGTCTTACACG-AATCAAATACGATTTTGAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATATGATGTCGAT
*
42892317 GTCCCAGACATGGTCTTACACGTAATCACATAT
1 GTCCCAGACATGGTCTTACACGTAATCAAATAT
42892350 CAAAAATCCT
Statistics
Matches: 196, Mismatches: 40, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
41 72 0.37
42 54 0.28
43 70 0.36
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATGATGTCGAT
Found at i:42892189 original size:84 final size:84
Alignment explanation
Indices: 42892065--42892350 Score: 439
Period size: 84 Copynumber: 3.4 Consensus size: 84
42892055 CAATGCCAAC
* * * ** *
42892065 GTCCTAGACATGGTCTTACATGTAATCACATATCGATGCCATTGTCCTAGACAG-GGTCTTACAC
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGAC-GTGGTCTTACAC
42892129 GAATCAAATATGATGTCGAT
65 GAATCAAATATGATGTCGAT
* *
42892149 GTCCCAGACCTAGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
42892214 AATCAAATATGATGTCGAT
66 AATCAAATATGATGTCGAT
*
42892233 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACG
1 GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
* * *
42892298 AATCAAATACGATTTTGAT
66 AATCAAATATGATGTCGAT
*
42892317 GTCCCAGACATGGTCTTACACGTAATCACATATC
1 GTCCCAGACATGGTTTTACACGTAATCACATATC
42892351 AAAAATCCTA
Statistics
Matches: 186, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
83 1 0.01
84 185 0.99
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (84 bp):
GTCCCAGACATGGTTTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACG
AATCAAATATGATGTCGAT
Found at i:42904687 original size:13 final size:13
Alignment explanation
Indices: 42904669--42904697 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
42904659 GGTTGTTTAT
42904669 TAAACTAATTAAC
1 TAAACTAATTAAC
42904682 TAAACTAATTAAC
1 TAAACTAATTAAC
42904695 TAA
1 TAA
42904698 TTAAAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:42911329 original size:30 final size:30
Alignment explanation
Indices: 42911295--42911355 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
42911285 TCCTTAACTC
42911295 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
42911325 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
42911355 A
1 A
42911356 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:42930740 original size:40 final size:40
Alignment explanation
Indices: 42930637--42930779 Score: 178
Period size: 40 Copynumber: 3.5 Consensus size: 40
42930627 TTGAATTCTT
* * *
42930637 GCACACTAAGTGCCAAAACATAGTCGAAGCTATTTCAATCTC
1 GCACACTAAGTGCC-ATACATAGTCGAAGCTATCTCAA-ATC
* * *
42930679 TCACATTAAGTGTCATACATAGTCGAAGCTATCTCAAATC
1 GCACACTAAGTGCCATACATAGTCGAAGCTATCTCAAATC
* **
42930719 GCACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATC
1 GCACACTAAGTGCCATACATAGTCGAAGCTATCTCAAATC
*
42930759 GCACATTAAGTGCCATACATA
1 GCACACTAAGTGCCATACATA
42930780 ACCGAATTGT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 56 0.64
41 21 0.24
42 11 0.12
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (40 bp):
GCACACTAAGTGCCATACATAGTCGAAGCTATCTCAAATC
Found at i:42933827 original size:28 final size:27
Alignment explanation
Indices: 42933787--42933887 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 27
42933777 TACTTAATGC
42933787 CTCGCACACTAAGTGCCATC-CTCGATAT
1 CTCGCACACTAAGTGCCA-CACTC-ATAT
*
42933815 CTCGTACACTAAGTGCCACACTCAGTAT
1 CTCGCACACTAAGTGCCACACTCA-TAT
* *
42933843 CTCGTACACTAAGTTCCACACTCAATAT
1 CTCGCACACTAAGTGCCACACTC-ATAT
*
42933871 CTCGCACGCTAAGTGCC
1 CTCGCACACTAAGTGCC
42933888 GTATATAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
27 2 0.03
28 62 0.95
29 1 0.02
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.25
Consensus pattern (27 bp):
CTCGCACACTAAGTGCCACACTCATAT
Found at i:42933933 original size:40 final size:40
Alignment explanation
Indices: 42933889--42933964 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
42933879 CTAAGTGCCG
42933889 TATATAGCAAAAGCTATCTCAAATCGCACACTAAGTGTTA
1 TATATAGCAAAAGCTATCTCAAATCGCACACTAAGTGTTA
** * ** *
42933929 TATATAGCCGAAGCTATGTTGAATCTCACACTAAGT
1 TATATAGCAAAAGCTATCTCAAATCGCACACTAAGT
42933965 ACCACAAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (40 bp):
TATATAGCAAAAGCTATCTCAAATCGCACACTAAGTGTTA
Found at i:42939326 original size:23 final size:23
Alignment explanation
Indices: 42939301--42939428 Score: 120
Period size: 23 Copynumber: 5.6 Consensus size: 23
42939291 TGAGCTTATG
*
42939301 AACAGTAAGCTCTAATGAGCTGG
1 AACAGTAAGCTCTAATGAGCTGA
* *
42939324 AACGGTAAGCTCT-ATCGAGTTGA
1 AACAGTAAGCTCTAAT-GAGCTGA
* *
42939347 AAC-GTTAAGCTCTATTGAACT-A
1 AACAG-TAAGCTCTAATGAGCTGA
* *
42939369 AACAGTAAGCTC-ATACGAGCTAA
1 AACAGTAAGCTCTA-ATGAGCTGA
*
42939392 AACAGTAAGCTCCAATGAGCTGAA
1 AACAGTAAGCTCTAATGAGCTG-A
42939416 AACAGTAAGCTCT
1 AACAGTAAGCTCT
42939429 TTCAAGTTGA
Statistics
Matches: 85, Mismatches: 12, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
21 1 0.01
22 18 0.21
23 51 0.60
24 15 0.18
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (23 bp):
AACAGTAAGCTCTAATGAGCTGA
Found at i:42939401 original size:45 final size:46
Alignment explanation
Indices: 42939301--42939428 Score: 145
Period size: 45 Copynumber: 2.8 Consensus size: 46
42939291 TGAGCTTATG
* * * *
42939301 AACAGTAAGCTCTAATGAGCTGGAACGGTAAGCTCTATCGAGTTGA
1 AACAGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTATCGAGCTAA
* *
42939347 AAC-GTTAAGCTCTATTGAACT-AAACAGTAAGCTC-ATACGAGCTAA
1 AACAG-TAAGCTCTAATGAGCTGAAACAGTAAGCTCTAT-CGAGCTAA
*
42939392 AACAGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCT
1 AACAGTAAGCTCTAATGAGCTG-AAACAGTAAGCTCT
42939429 TTCAAGTTGA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
44 2 0.03
45 34 0.51
46 18 0.27
47 13 0.19
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (46 bp):
AACAGTAAGCTCTAATGAGCTGAAACAGTAAGCTCTATCGAGCTAA
Found at i:42943444 original size:43 final size:43
Alignment explanation
Indices: 42943389--42943561 Score: 199
Period size: 43 Copynumber: 4.0 Consensus size: 43
42943379 AGCTCGTACA
* * *
42943389 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
* * * * *
42943431 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCATATAAT-G
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACAT-ATCG
*
42943474 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATAT-CG
* * *
42943517 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
42943560 AT
1 AT
42943562 AACCTAATGT
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 98 0.91
44 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCACATATCG
Found at i:42956042 original size:12 final size:12
Alignment explanation
Indices: 42956025--42956055 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
42956015 GTAAACTATT
42956025 AATATTAATACA
1 AATATTAATACA
42956037 AATATTAATACA
1 AATATTAATACA
42956049 AATATTA
1 AATATTA
42956056 TTATTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
AATATTAATACA
Found at i:42958591 original size:22 final size:21
Alignment explanation
Indices: 42958531--42958592 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
42958521 TAAATTTAAA
*
42958531 TAAAATAAGTAAAT-AAAATAC
1 TAAAATAA-AAAATAAAAATAC
*
42958552 TAAAAT-AAAAATCCAAAAATAT
1 TAAAATAAAAAAT--AAAAATAC
42958574 TAAAAATAAAAAATAAAAA
1 T-AAAATAAAAAATAAAAA
42958593 AGGGACTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 6 0.18
22 12 0.35
23 5 0.15
24 6 0.18
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.21
Consensus pattern (21 bp):
TAAAATAAAAAATAAAAATAC
Found at i:42960978 original size:47 final size:47
Alignment explanation
Indices: 42960896--42961037 Score: 232
Period size: 47 Copynumber: 3.0 Consensus size: 47
42960886 GTTGAATTTA
* *
42960896 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGAATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
42960942 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
* * *
42960989 AAGCTTGTTAAATTTTCCCTTATTATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
42961036 AA
1 AA
42961038 AGAAAATTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 12 0.13
47 78 0.87
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:42961884 original size:45 final size:45
Alignment explanation
Indices: 42961820--42962039 Score: 297
Period size: 45 Copynumber: 5.0 Consensus size: 45
42961810 TATCGTACAG
* *
42961820 TACTAGTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
42961865 TACTATTCGGGCCTTTGAGCTTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
42961910 TACTATTCAGGCCTTCGAGCCTAGTAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
42961955 TACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGATA
1 TACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
42962000 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
42962040 ATGAATTCAG
Statistics
Matches: 158, Mismatches: 15, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
42 12 0.08
43 13 0.08
44 11 0.07
45 121 0.77
46 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:42968621 original size:47 final size:47
Alignment explanation
Indices: 42968540--42968775 Score: 411
Period size: 47 Copynumber: 5.0 Consensus size: 47
42968530 GTTGAATTTA
*
42968540 AAGCTTGTTAAA-TTGCTCTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
42968586 AAGCTTGTTAAATTTGCCCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
42968633 AAGCTTGTTAAATTTGCCTTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
42968680 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
* **
42968727 AAGCTTGTTAAATTTGCCCTTATTATTTCTGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
42968774 AA
1 AA
42968776 AGAAAATTTT
Statistics
Matches: 181, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 12 0.07
47 169 0.93
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Found at i:42969624 original size:45 final size:45
Alignment explanation
Indices: 42969560--42969732 Score: 214
Period size: 45 Copynumber: 4.0 Consensus size: 45
42969550 TATCGTACAG
*
42969560 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
42969605 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
42969650 TACTATTCGGGCCTTCGAGCCTAGCAGGCGA-AATGCCGATGA-A
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
42969693 TGA--ATTCGGG-TTTTAAACCTAGCAGGCT-GAATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
42969733 TTTGATAAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 23 0.20
42 7 0.06
43 2 0.02
44 11 0.10
45 71 0.62
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:42973440 original size:15 final size:16
Alignment explanation
Indices: 42973422--42973451 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42973412 AATTGTTTTA
42973422 TTACA-AATTTCACTC
1 TTACATAATTTCACTC
42973437 TTACATAATTTCACT
1 TTACATAATTTCACT
42973452 TAATCCATTC
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:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (16 bp):
TTACATAATTTCACTC
Found at i:42973770 original size:50 final size:50
Alignment explanation
Indices: 42973663--42973898 Score: 212
Period size: 50 Copynumber: 4.7 Consensus size: 50
42973653 TTGGTATGCA
* * * ** *
42973663 TAGTAGCCTACACTTAGTACTACACATGCGACC-AAAAAT-TCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATATGA-TACACG
* * *
42973712 TAGTAGCCTGAACTTAGTACTACACACATGACCTAACCATATGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATATGATACACG
* * * * *
42973762 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTGTCAGGTATGCA--
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA-CTAT-ATG-ATACACG
* * * *
42973813 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATATGATACACG
* *
42973863 TAGTAGCTTGCACTTAGTACTACATACGTGACCTAA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
42973899 AACCATCTTA
Statistics
Matches: 149, Mismatches: 29, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
48 3 0.02
49 30 0.20
50 75 0.50
51 34 0.23
52 3 0.02
53 4 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATATGATACACG
Found at i:42973848 original size:101 final size:101
Alignment explanation
Indices: 42973712--42973893 Score: 283
Period size: 101 Copynumber: 1.8 Consensus size: 101
42973702 TCAGTACACG
*
42973712 TAGTAGCCTGAACTTAGTACTACACACATGACCTAACCATATGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGAACTTAGTACTACACACACGACCTAACCATATGATACACGTAGTAGCCTGCACTT
42973777 AGTACTACACACGTGATTGAAGTTGTCAGGTATGCA
66 AGTACTACACACGTGATTGAAGTTGTCAGGTATGCA
* ** * * * *
42973813 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGCTTGCACTT
1 TAGTAGCCTGAACTTAGTACTACACACACGACCTAACCATATGATACACGTAGTAGCCTGCACTT
*
42973878 AGTACTACATACGTGA
66 AGTACTACACACGTGA
42973894 CCTAAAACCA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 72 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (101 bp):
TAGTAGCCTGAACTTAGTACTACACACACGACCTAACCATATGATACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATTGAAGTTGTCAGGTATGCA
Found at i:42980543 original size:40 final size:40
Alignment explanation
Indices: 42980496--42980639 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
42980486 CTCGCACAAG
*
42980496 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* *
42980536 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCATAAAT
* * *
42980576 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
* *
42980616 ACCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
42980640 CATTCGAATA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 88 0.98
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCATAAAT
Found at i:42980596 original size:80 final size:79
Alignment explanation
Indices: 42980461--42980639 Score: 245
Period size: 80 Copynumber: 2.3 Consensus size: 79
42980451 CCCAAGTATA
* * *
42980461 TTCGGGAT-TTAG-CCGGATATAACCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 TTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTC
**
42980524 ACTAGCATAAATGCC
65 ACTAGCATAAAAACC
* * *
42980539 TTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTC
1 TTCGGGTCTTAGCCCGGATATAACAACTCGCAC-AAGGCCTTCGGATCTTAGCCCGGATATAGTC
42980604 ACTAGCATAAAAACC
65 ACTAGCATAAAAACC
*
42980619 TTCGGGACTTAGCCCGGATAT
1 TTCGGGTCTTAGCCCGGATAT
42980640 CATTCGAATA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
77 1 0.01
78 10 0.11
79 18 0.20
80 60 0.67
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
TTCGGGTCTTAGCCCGGATATAACAACTCGCACAAGGCCTTCGGATCTTAGCCCGGATATAGTCA
CTAGCATAAAAACC
Found at i:42983780 original size:16 final size:15
Alignment explanation
Indices: 42983756--42983785 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
42983746 AACTGTTTTA
42983756 TTACAAATTTCACTC
1 TTACAAATTTCACTC
42983771 TTACATAATTTCACT
1 TTACA-AATTTCACT
42983786 TAGTCCATTT
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:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:42984060 original size:50 final size:49
Alignment explanation
Indices: 42983947--42984172 Score: 202
Period size: 50 Copynumber: 4.5 Consensus size: 49
42983937 ACAGATACAC
* * ***
42983947 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGTACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCAT-CTAAACACGT
** * *
42983996 AGTAGCCTATACTTAGTTCTACACACGTGACCTAACCATCTAATACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTAA-ACACGT
* * * * * *
42984046 AGTAGTCTGCACTTAGTACTACGCATGCGACCTAACTATTTGGAACACGT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCT-AAACACGT
* * *
42984096 AGTAGCTTGCACTTAGTACTACACACGTGACCTAAAACCATCTTAAACACAT
1 AGTAGCCTGCACTTAGTACTACACACGCGACCT--AACCATC-TAAACACGT
* * *
42984148 AGTAGCCTACACATAGTGCTACACA
1 AGTAGCCTGCACTTAGTACTACACA
42984173 TATGCTCTCA
Statistics
Matches: 139, Mismatches: 32, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
49 28 0.20
50 77 0.55
51 1 0.01
52 32 0.23
53 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
AGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCTAAACACGT
Found at i:42984124 original size:100 final size:100
Alignment explanation
Indices: 42983947--42984173 Score: 287
Period size: 100 Copynumber: 2.3 Consensus size: 100
42983937 ACAGATACAC
* *
42983947 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAGTAGCCTATACTTAG
1 AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGAACACGTAGTAGCCTACACTTAG
* *
42984012 TTCTACACACGTGACCT-AACCATC-TAATACACGT
66 TACTACACACGTGACCTAAACCATCTTAA-ACACAT
* * * ** * *
42984046 AGTAGTCTGCACTTAGTACTACGCATGCGACCTAACTATTTGGAACACGTAGTAGCTTGCACTTA
1 AGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCGGAACACGTAGTAGCCTACACTTA
42984111 GTACTACACACGTGACCTAAAACCATCTTAAACACAT
65 GTACTACACACGTGACCT-AAACCATCTTAAACACAT
* * *
42984148 AGTAGCCTACACATAGTGCTACACAT
1 AGTAGCCTGCACTTAGTACTACACAT
42984174 ATGCTCTCAC
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
99 30 0.28
100 42 0.39
102 33 0.31
103 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.25
Consensus pattern (100 bp):
AGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGAACACGTAGTAGCCTACACTTAG
TACTACACACGTGACCTAAACCATCTTAAACACAT
Found at i:42986082 original size:42 final size:42
Alignment explanation
Indices: 42985998--42986147 Score: 142
Period size: 42 Copynumber: 3.5 Consensus size: 42
42985988 ATATCTCAGA
* ** *
42985998 TATGGTCTTACATGGGATCACATATATCAATGCCATAG-CCCAGC
1 TATGGTCTTACACGAAATCAC--ATATCGATGCCAT-GTCCCAGC
* ** *
42986042 TATAGTCTTACACGATGTCCCATATCGATGCCATGTCCCAGAC
1 TATGGTCTTACACGAAATCACATATCGATGCCATGTCCCAG-C
* * *
42986085 -ATGGTCTTACACGAAATCACATATCGATGTCATATCCCAGA
1 TATGGTCTTACACGAAATCACATATCGATGCCATGTCCCAGC
*
42986126 TATGGTCTTACATGAAATCACA
1 TATGGTCTTACACGAAATCACA
42986148 CATAACCCTA
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.01
42 71 0.81
43 1 0.01
44 15 0.17
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (42 bp):
TATGGTCTTACACGAAATCACATATCGATGCCATGTCCCAGC
Found at i:42986924 original size:18 final size:18
Alignment explanation
Indices: 42986862--42986925 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
42986852 CAACCTCCTA
42986862 TTTACTT-TCCCTCAAACT
1 TTTACTTCTCCCT-AAACT
*
42986880 TTTAC-TC-CCCAAAAACTT
1 TTTACTTCTCCC-TAAAC-T
**
42986898 TTTTTTTCTCCCTAAACT
1 TTTACTTCTCCCTAAACT
42986916 TTTACTTCTC
1 TTTACTTCTC
42986926 ACCTTTTACT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 8 0.23
18 18 0.51
19 6 0.17
20 3 0.09
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTACTTCTCCCTAAACT
Found at i:42988166 original size:46 final size:46
Alignment explanation
Indices: 42988099--42988193 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
42988089 GGTGCTCCTC
42988099 TTTTTCAAGTATTTTCATTCTAACCCACTACTTCAGAGGTATAGGG
1 TTTTTCAAGTATTTTCATTCTAACCCACTACTTCAGAGGTATAGGG
*
42988145 TTTTTCAAGTATTTTCATTCTAACCCACTACTTTAGAGGTATAGGG
1 TTTTTCAAGTATTTTCATTCTAACCCACTACTTCAGAGGTATAGGG
42988191 TTT
1 TTT
42988194 GTCGCTTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (46 bp):
TTTTTCAAGTATTTTCATTCTAACCCACTACTTCAGAGGTATAGGG
Found at i:42988239 original size:44 final size:44
Alignment explanation
Indices: 42988191--42988515 Score: 215
Period size: 44 Copynumber: 7.0 Consensus size: 44
42988181 AGGTATAGGG
*
42988191 TTTGTCGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGA
1 TTTGTCGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * *
42988235 TTTGTAATCTTATAGC-TTAATCTGTTCCACTGTAACTTCAGGGGAAATAAGA
1 TTTG---TC-----GCTTTAATCTGCTCCACTGCAACTTCA-GGGAGATAAGA
* ** * *
42988287 -TTCTCATTTTCAATCTGCGCCACT-CAACTTCAAGGAGATAAGA
1 TTTGTCGCTTT-AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
** *
42988330 TTTGTAACTGGTACCTTTAATCTATTCCACTGCAACTTCAGGGAAATAAGA
1 TTTGT--C--G---CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* ** **
42988381 TTCGCTATCTTTAATCTGCTCCACTGCAACTTCAATGAGATAAGA
1 TTTG-TCGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
** * * * **
42988426 TTTGTAACTTCAATCTACTCCACTGCAATTTCAAAGAGATAAGA
1 TTTGTCGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * *
42988470 TTTGTGGCTTTAATCTGCTCCACTGTAACTTCAGGAATATAAGA
1 TTTGTCGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
42988514 TT
1 TT
42988516 CACCATGATG
Statistics
Matches: 216, Mismatches: 44, Indels: 42
0.72 0.15 0.14
Matches are distributed among these distances:
43 9 0.04
44 87 0.40
45 46 0.21
46 1 0.00
47 2 0.01
48 2 0.01
50 10 0.05
51 46 0.21
52 13 0.06
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (44 bp):
TTTGTCGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
Found at i:42988367 original size:95 final size:95
Alignment explanation
Indices: 42988198--42988515 Score: 334
Period size: 95 Copynumber: 3.4 Consensus size: 95
42988188 GGGTTTGTCG
* * * * *
42988198 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAATCTTATAGCTTAATCTGTTCC
1 CTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAA-CTGATACCTTAATCTATTCC
* *
42988263 ACTGTAACTTCAGGGGAAATAAGATTCTC-AT
65 ACTGCAACTTCA-GGGAAATAAGATTCGCTAT
* *
42988294 -TTTCAATCTGCGCCACT-CAACTTCAAGGAGATAAGATTTGTAACTGGTACCTTTAATCTATTC
1 CTTT-AATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTGATACC-TTAATCTATTC
42988357 CACTGCAACTTCAGGGAAATAAGATTCGCTAT
64 CACTGCAACTTCAGGGAAATAAGATTCGCTAT
* *
42988389 CTTTAATCTGCTCCACTGCAACTTCAATGAGATAAGATTTGTAACT--T--C--AATCTACTCCA
1 CTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTGATACCTTAATCTATTCCA
* ** * * **
42988448 CTGCAATTTCAAAGAGATAAGATTTG-TGG
66 CTGCAACTTCAGGGAAATAAGATTCGCTAT
* *
42988477 CTTTAATCTGCTCCACTGTAACTTC-AGGAATATAAGATT
1 CTTTAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATT
42988516 CACCATGATG
Statistics
Matches: 194, Mismatches: 22, Indels: 20
0.82 0.09 0.08
Matches are distributed among these distances:
87 2 0.01
88 34 0.18
89 31 0.16
92 1 0.01
94 21 0.11
95 63 0.32
96 42 0.22
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (95 bp):
CTTTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTGATACCTTAATCTATTCCA
CTGCAACTTCAGGGAAATAAGATTCGCTAT
Found at i:42998957 original size:22 final size:22
Alignment explanation
Indices: 42998929--42998972 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
42998919 AAAAATTACC
*
42998929 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTAATTAT
*
42998951 AAAATTAATTAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
42998973 TCTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:42998970 original size:10 final size:10
Alignment explanation
Indices: 42998929--42998971 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
42998919 AAAAATTACC
*
42998929 AAAATTAATC
1 AAAATTAATT
*
42998939 AAAATTTATTAT
1 AAAA-TTAAT-T
42998951 AAAATTAATT
1 AAAATTAATT
42998961 AAAATTAATT
1 AAAATTAATT
42998971 A
1 A
42998972 TTCTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 16 0.57
11 8 0.29
12 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (10 bp):
AAAATTAATT
Found at i:43005686 original size:9 final size:9
Alignment explanation
Indices: 43005672--43005704 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
43005662 GTTAATTGAA
43005672 TCGAGTTAT
1 TCGAGTTAT
43005681 TCGAGTTAT
1 TCGAGTTAT
*
43005690 TCAAGTTAT
1 TCGAGTTAT
43005699 TCGAGT
1 TCGAGT
43005705 CAACTCAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:43005880 original size:19 final size:19
Alignment explanation
Indices: 43005858--43005906 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
43005848 CAAAAAATAA
43005858 AAAAATCAAATTAATTTTC
1 AAAAATCAAATTAATTTTC
*
43005877 AAAAATTCAAATTAATTTTT
1 AAAAA-TCAAATTAATTTTC
*
43005897 AAAATTCAAA
1 AAAAATCAAA
43005907 ATATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAAATCAAATTAATTTTC
Found at i:43005886 original size:20 final size:19
Alignment explanation
Indices: 43005857--43005922 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
43005847 ACAAAAAATA
*
43005857 AAAAAATCAAATTAATTTT
1 AAAAATTCAAATTAATTTT
43005876 CAAAAATTCAAATTAATTTT
1 -AAAAATTCAAATTAATTTT
* *
43005896 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAATTAATTT-T
43005915 AAAAATTC
1 AAAAATTC
43005923 TAAAATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
18 4 0.10
19 19 0.46
20 18 0.44
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAATTAATTTT
Found at i:43005919 original size:19 final size:19
Alignment explanation
Indices: 43005877--43005933 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
43005867 ATTAATTTTC
*
43005877 AAAAATTCAAATTAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
43005896 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
43005915 AAAAATTCTAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
43005933 A
1 A
43005934 TTTTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:43009943 original size:4 final size:4
Alignment explanation
Indices: 43009934--43009960 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
43009924 GGCATAAGCA
43009934 AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA
43009961 AGAGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:43010589 original size:12 final size:12
Alignment explanation
Indices: 43010572--43010601 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
43010562 ATCAGGATAT
43010572 AATCAATTTATC
1 AATCAATTTATC
43010584 AATCAATTTATC
1 AATCAATTTATC
43010596 AATCAA
1 AATCAA
43010602 CCATCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.37
Consensus pattern (12 bp):
AATCAATTTATC
Found at i:43012850 original size:6 final size:6
Alignment explanation
Indices: 43012839--43012872 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
43012829 ATTTATTTTA
43012839 AATACT AATACT AATACT AATACT AATACT AATA
1 AATACT AATACT AATACT AATACT AATACT AATA
43012873 GTAAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.15, G:0.00, T:0.32
Consensus pattern (6 bp):
AATACT
Found at i:43013146 original size:19 final size:19
Alignment explanation
Indices: 43013122--43013175 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
43013112 TAATCAATTT
43013122 AATTTTTTTTAAATTTTAC
1 AATTTTTTTTAAATTTTAC
* ** *
43013141 AGTTTTTAAT-AATTTTAT
1 AATTTTTTTTAAATTTTAC
*
43013159 AATTTTTTTAAAATTTT
1 AATTTTTTTTAAATTTT
43013176 TAAAAAATTA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
AATTTTTTTTAAATTTTAC
Done.