Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006071.1 Hibiscus syriacus cultivar Beakdansim tig00014370_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 851632
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 2 of 4
Found at i:315952 original size:29 final size:30
Alignment explanation
Indices: 315926--315981 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
315916 TTAAATTTGA
* *
315926 TAACTTAAA-TTTATTTTATAATAATTTAT
1 TAACTTAAAGATTATTTTATAACAATTTAT
*
315955 TAATTTAAAGATTATTTTATAACAATT
1 TAACTTAAAGATTATTTTATAACAATT
315982 AAATAAATTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
29 8 0.35
30 15 0.65
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (30 bp):
TAACTTAAAGATTATTTTATAACAATTTAT
Found at i:316202 original size:13 final size:14
Alignment explanation
Indices: 316178--316206 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
316168 TTTTCAAAAG
316178 TTTATAGTTTTTTT
1 TTTATAGTTTTTTT
316192 TTTAT-GTTTTTTT
1 TTTATAGTTTTTTT
316205 TT
1 TT
316207 CACAATTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (14 bp):
TTTATAGTTTTTTT
Found at i:316798 original size:16 final size:17
Alignment explanation
Indices: 316765--316798 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
316755 TTTTTATAAC
*
316765 AATTTAATAAATTTAAT
1 AATTTAATAAATTAAAT
316782 AATTTAA-AAATTAAAT
1 AATTTAATAAATTAAAT
316798 A
1 A
316799 TTTTTTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTTAATAAATTAAAT
Found at i:321229 original size:15 final size:15
Alignment explanation
Indices: 321208--321250 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
321198 GCCTATCTTT
321208 TTTTTTAAATAAAATA
1 TTTTTTAAA-AAAATA
321224 -TTTTT-AAAAAATA
1 TTTTTTAAAAAAATA
321237 TTTTTTAAAAAAAT
1 TTTTTTAAAAAAAT
321251 CAGAACTTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 6 0.24
14 7 0.28
15 12 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTTTTAAAAAAATA
Found at i:321241 original size:14 final size:13
Alignment explanation
Indices: 321208--321250 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 13
321198 GCCTATCTTT
321208 TTTTTTAAATAAAA
1 TTTTTTAAA-AAAA
321222 TATTTTTAAAAAATA
1 T-TTTTTAAAAAA-A
321237 TTTTTTAAAAAAA
1 TTTTTTAAAAAAA
321250 T
1 T
321251 CAGAACTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.07
14 15 0.56
15 10 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTTTTAAAAAAA
Found at i:325935 original size:2 final size:2
Alignment explanation
Indices: 325919--325966 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
325909 TATCACAAAT
* *
325919 TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
325961 TA TA TA
1 TA TA TA
325967 ATTAAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:327409 original size:88 final size:88
Alignment explanation
Indices: 327306--328971 Score: 561
Period size: 88 Copynumber: 19.0 Consensus size: 88
327296 TAAAAATGTC
* * *
327306 GATCC-ACTTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTCATTCTGTGA
1 GATCCAAC-TCCTTCTGTGATGG-AATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGA
327370 TAGAATCGAGC-AAAAGTTGACGCT
64 TAGAATCGAGCAAAAAGTTGACGCT
* * * * **** *
327394 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATG-TCGATCCACCTCCTTCTGTGAT
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT-GATCTACCTCCTTCTGTGAT
* * * * * *
327458 GGAATCGAACAAGATGTCGATGCT
65 AGAATCGAGCAAAAAGTTGACGCT
* * * * * * * * * * *
327482 GATCTATCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGTTGATCTAACTCCTTCTGCGATG
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
* * ** *
327547 GATTTGAGCGAAATAA--AAATG-T
66 GAATCGAGC-AAA-AAGTTGACGCT
* * * *
327569 CGATCC-ACATCATTCTGTGATGGAATCGAACGAGACGTTGGTGCTGATCTACCTCCTTCTGTGA
1 -GATCCAAC-TCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGA
*
327633 TAGAAACGAGCAAAAAGTTGACGCT
64 TAGAATCGAGCAAAAAGTTGACGCT
* * * * **** * * *
327658 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATG-TCGAT-TCACATCATTCTTTGA
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT-GATCT-ACCTCCTTCTGTGA
* * * * * * *
327721 TGGAATTGAACAAGATGTTGATGTT
64 TAGAATCGAGCAAAAAGTTGACGCT
* * * * * * * * *
327746 GATCTACCTCCTTCTGTGATAGAATC-AAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGAT
1 GATCCAACTCCTTCTGTGATGGAATCGAA-CGAAATGTTGATGCTGATCTACCTCCTTCTGTGAT
* * * ** *
327810 GGATTTGAGCGAAATAAAAAT-A-TC-
65 AGAATCGAGC--AA-AAAGTTGACGCT
* * * * * * *
327834 GATCCACCTCCTTCTGCGATGGAATCGAATGAGATGTTGTTACTGATCTACCTTCTTCTGTGATA
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
*
327899 GAAACGAGCAAAAAGTTGACGCT
66 GAATCGAGCAAAAAGTTGACGCT
* * * * **** * *
327922 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATG-TCGATCCATCTCCTTCTGTGAT
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT-GATCTACCTCCTTCTGTGAT
* ** * * * * *
327986 GGAATCGAATAAGATGTCGATGTT
65 AGAATCGAGCAAAAAGTTGACGCT
* * * * * * * * * * *
328010 GATCTACCTCCTTCTATGATAGAATC-AGGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGAT
1 GATCCAACTCCTTCTGTGATGGAATCGA-ACGAAATGTTGATGCTGATCTACCTCCTTCTGTGAT
* * * ** *
328074 GGATTTGAGCGAAATAAAAAT-A-TC-
65 AGAATCGAGC--AA-AAAGTTGACGCT
* * * * * * *
328098 GATCCACCTCCTTCTGCGATGGAATCGAATGAGATGTTGGTGCTGATCTACCTTCTTCTGTAATA
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
*
328163 GAAACGAGCAAAAAGTTGACGCT
66 GAATCGAGCAAAAAGTTGACGCT
* * * * * **** * *
328186 GATCCAACTTCTTCTGCGATGGATTTGAGCGAAATAAAAATG-TCGATCCATCTCCTTCTGTGAT
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT-GATCTACCTCCTTCTGTGAT
* * * * * *
328250 GGAATCGAACAAGATGTCGATGCT
65 AGAATCGAGCAAAAAGTTGACGCT
* * * * * * * * * *
328274 GATCTACCTCCTTCTGTGATAGAATC-AAGCTAAAAGTTGACGATGATCCAACTCCTTCTGCGAT
1 GATCCAACTCCTTCTGTGATGGAATCGAA-CGAAATGTTGATGCTGATCTACCTCCTTCTGTGAT
* * * ** * *
328338 GGATTTGAGCGAAATAA--AAATGTT
65 AGAATCGAGC-AAA-AAGTTGACGCT
* * * *
328362 GATCCACCTCCTTCTGTGACGGAATCGAAC-AAGATGTCGATGCTGATCTACCTCATTCTGTGAT
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAA-ATGTTGATGCTGATCTACCTCCTTCTGTGAT
* *
328426 AGAATCAAGCTAAAAGTTGACGCT
65 AGAATCGAGCAAAAAGTTGACGCT
* * * * **** ** * * *
328450 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATATTGATCCACCTCCTTCTGCGATG
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
*** * * * ** *
328515 GAATCGAATGAGATGCTGGTGAT
66 GAATCGAGCAAAAAGTTGACGCT
* * * * * * * * * * * * * *
328538 GATCTACCTTCTTCTGTGATAGAAACGAGCAAAAAGTTGACGTTGATCCAACTCCTTCTGCGATG
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
* * ** * *
328603 GATTTGAGCGAAATAA--AAATGTT
66 GAATCGAGC-AAA-AAGTTGACGCT
* * * * * * * *
328626 GATACATCTCATTCTGTGATGGAAATCGAATGATACGTAGGTGCTGATCTACCTCCTTCTGTGAT
1 GATCCAACTCCTTCTGTGATGG-AATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGAT
*
328691 AGAAACGAGCAAAAAGTTGACGCT
65 AGAATCGAGCAAAAAGTTGACGCT
* * * * **** * * *
328715 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAAT-TTCGATCCATCTCCTTCTGTGAT
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCT-GATCTACCTCCTTCTGTGAT
* * * * * *
328779 GGAATCAAACAAGATA-TCGATGCT
65 AGAATCGAGCAA-AAAGTTGACGCT
** * * * * * * * * * * *
328803 GATTTACCTCCTTCTGTGATAGAATCAAACTAAAAGTTGACGTTGATCCAACTCCTTCTGCGATG
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
* * *
328868 GATTTGAGCGAACAAA--TG--TC-
66 GAATCGAGC-AA-AAAGTTGACGCT
* * * * *
328888 GATCCACCTCATTCTGTGATGGAATCCAATGAAATGTTGGTGCTGATCTACCTCCTTCTGTGATA
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
*
328953 GAATCGAGCAAATAGTTGA
66 GAATCGAGCAAAAAGTTGA
328972 ACAATCTCTT
Statistics
Matches: 1099, Mismatches: 423, Indels: 114
0.67 0.26 0.07
Matches are distributed among these distances:
83 2 0.00
84 2 0.00
85 67 0.06
86 12 0.01
87 59 0.05
88 860 0.78
89 85 0.08
90 9 0.01
91 3 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (88 bp):
GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTTGATGCTGATCTACCTCCTTCTGTGATA
GAATCGAGCAAAAAGTTGACGCT
Found at i:327449 original size:44 final size:44
Alignment explanation
Indices: 327261--328966 Score: 375
Period size: 44 Copynumber: 38.8 Consensus size: 44
327251 AGTTGACGCT
* * * * *
327261 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTC
1 GATCCACCTCCTTCTGTGATGGAATCGAGCG-AAATAAAGATGTC
* * * ***
327306 GATCCACTTCCTTCTGTGATGGAAATCGAACGATATGTCGATG-C
1 GATCCACCTCCTTCTGTGATGG-AATCGAGCGAAATAAAGATGTC
* * * ** *
327350 TGATCTACCTCATTCTGTGATAGAATCGAGC-AAA-AGTTGACG-C
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-AAGATGTC
* * * * *
327393 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* ***
327438 GATCCACCTCCTTCTGTGATGGAATCGAAC-AAGATGTCGATG-C
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAA-ATAAAGATGTC
* * * * * *
327481 TGATCTATCTCCTTCTGTGATAGAATCGAGC-AAA-AAGTTGACGTT
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAA--AGATGTC
* * * * * *
327526 GATCTAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTC
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * * * **** *
327570 GATCCACATCATTCTGTGATGGAATCGAACGAGACGTTGGTG-C
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * * * *
327613 TGATCTACCTCCTTCTGTGATAGAAACGAGC--AA-AAAGTTGACGC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATG--TC
* * * * *
327657 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * * * * * *** *
327702 GATTCACATCATTCTTTGATGGAATTGAAC-AAGATGTTGATGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAA-ATAAAGATGTC
* * * * ** *
327746 GATCTACCTCCTTCTGTGATAGAATCAAGCTAAA-AGTTGACG-C
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-AAGATGTC
* * * * * *
327789 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATATC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* ** * *
327834 GATCCACCTCCTTCTGCGATGGAATCGAATGAGAT---GTTGTTAC
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATG-T-C
* * * * * *
327877 TGATCTACCTTCTTCTGTGATAGAAACGAGC--AA-AAAGTTGACGC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATG--TC
* * * * *
327921 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* ** *** *
327966 GATCCATCTCCTTCTGTGATGGAATCGA-ATAAGATGTCGATGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAA-ATAAAGATGTC
* * * ** * *
328010 GATCTACCTCCTTCTATGATAGAATC-AG-GCTA-AAAGTTGACGC
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATG--TC
* * * * * *
328053 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATATC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* ** * *** *
328098 GATCCACCTCCTTCTGCGATGGAATCGAATGAGATGTTGGTG-C
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * * * * * *
328141 TGATCTACCTTCTTCTGTAATAGAAACGAGC--AA-AAAGTTGACGC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATG--TC
* * * * * *
328185 TGATCCAACTTCTTCTGCGATGGATTTGAGCGAAATAAAAATGTC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * ***
328230 GATCCATCTCCTTCTGTGATGGAATCGAAC-AAGATGTCGATG-C
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAA-ATAAAGATGTC
* * * * ** *
328273 TGATCTACCTCCTTCTGTGATAGAATCAAGCTAAA-AGTTGACGAT-
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-AAGATG-TC
* * * * * *
328318 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * ***
328362 GATCCACCTCCTTCTGTGACGGAATCGAAC-AAGATGTCGATG-C
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAA-ATAAAGATGTC
* * * * * ** *
328405 TGATCTACCTCATTCTGTGATAGAATCAAGCTAAA-AGTTGACG-C
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-AAGATGTC
* * * * * * *
328449 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATATT
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* ** * *** *
328494 GATCCACCTCCTTCTGCGATGGAATCGAATGAGATGCTGGTGAT-
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATG-TC
* * * * * * *
328538 GATCTACCTTCTTCTGTGATAGAAACGAGC-AAA-AAGTTGACGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAA--AGATGTC
* * * * * *
328582 GATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTT
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * * ** * *** *
328626 GATACATCTCATTCTGTGATGGAAATCGAATGATACGTAGGTG-C
1 GATCCACCTCCTTCTGTGATGG-AATCGAGCGAAATAAAGATGTC
* * * * *
328670 TGATCTACCTCCTTCTGTGATAGAAACGAGC--AA-AAAGTTGACGC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATG--TC
* * * * * *
328714 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATTTC
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * * **
328759 GATCCATCTCCTTCTGTGATGGAATCAAAC-AAGATATCGATG-C
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAA-ATAAAGATGTC
** * * * * ** * *
328802 TGATTTACCTCCTTCTGTGATAGAATCAAACTAAA-AGTTGACGTT
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA-AAGATGTC
* * * * *
328847 GATCCAACTCCTTCTGCGATGGATTTGAGCG-AA-CAA-ATGTC
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* * ** *** *
328888 GATCCACCTCATTCTGTGATGGAATCCAATGAAATGTTGGTG-C
1 GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
* *
328931 TGATCTACCTCCTTCTGTGATAGAATCGAGC-AAATA
1 -GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATA
328967 GTTGAACAAT
Statistics
Matches: 1149, Mismatches: 424, Indels: 178
0.66 0.24 0.10
Matches are distributed among these distances:
41 40 0.03
42 8 0.01
43 63 0.05
44 897 0.78
45 98 0.09
46 20 0.02
47 23 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
GATCCACCTCCTTCTGTGATGGAATCGAGCGAAATAAAGATGTC
Found at i:327529 original size:132 final size:132
Alignment explanation
Indices: 327232--328971 Score: 2508
Period size: 132 Copynumber: 13.2 Consensus size: 132
327222 CAACTCCATA
*
327232 TGTGAT-GAATCAAG-AAAGAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
1 TGTGATAGAATCGAGCAAA-AAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-AA
* * *
327295 ATAAAAATGTCGATCCACTTCCTTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCT
64 ATAAAAATGTCGATCCACCTCCTTCTGTGATGG-AATCGAACAAGATGTCGATGCTGATCTACCT
*
327360 CATTC
128 CCTTC
327365 TGTGATAGAATCGAGC-AAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
*
327429 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTATCTCCT
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
327494 TC
131 TC
* *
327496 TGTGATAGAATCGAGCAAAAAGTTGACGTTGATCTAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * * * * *
327561 AAAAATGTCGATCCACATCATTCTGTGATGGAATCGAACGAGACGTTGGTGCTGATCTACCTCCT
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
327626 TC
131 TC
*
327628 TGTGATAGAAACGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * * * * * *
327693 AAAAATGTCGATTCACATCATTCTTTGATGGAATTGAACAAGATGTTGATGTTGATCTACCTCCT
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
327758 TC
131 TC
* *
327760 TGTGATAGAATCAAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * ** * * * *
327825 AAAAATATCGATCCACCTCCTTCTGCGATGGAATCGAATGAGATGTTGTTACTGATCTACCTTCT
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
327890 TC
131 TC
*
327892 TGTGATAGAAACGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * *
327957 AAAAATGTCGATCCATCTCCTTCTGTGATGGAATCGAATAAGATGTCGATGTTGATCTACCTCCT
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
328022 TC
131 TC
* *
328024 TATGATAGAATC-AGGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
1 TGTGATAGAATCGA-GCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
* * ** * * *
328088 TAAAAATATCGATCCACCTCCTTCTGCGATGGAATCGAATGAGATGTTGGTGCTGATCTACCTTC
65 TAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCC
328153 TTC
130 TTC
* * *
328156 TGTAATAGAAACGAGCAAAAAGTTGACGCTGATCCAACTTCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
*
328221 AAAAATGTCGATCCATCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
328286 TC
131 TC
* * *
328288 TGTGATAGAATCAAGCTAAAAGTTGACGATGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * *
328353 AAAAATGTTGATCCACCTCCTTCTGTGACGGAATCGAACAAGATGTCGATGCTGATCTACCTCAT
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
328418 TC
131 TC
* *
328420 TGTGATAGAATCAAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * * ** * * *
328485 AAAAATATTGATCCACCTCCTTCTGCGATGGAATCGAATGAGATG-CTGGTGATGATCTACCTTC
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTC-GATGCTGATCTACCTCC
328549 TTC
130 TTC
* *
328552 TGTGATAGAAACGAGCAAAAAGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * * * ** * * * *
328617 AAAAATGTTGATACATCTCATTCTGTGATGGAAATCGAATGATACGTAGGTGCTGATCTACCTCC
66 AAAAATGTCGATCCACCTCCTTCTGTGATGG-AATCGAACAAGATGTCGATGCTGATCTACCTCC
328682 TTC
130 TTC
*
328685 TGTGATAGAAACGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * * * *
328750 AAAAATTTCGATCCATCTCCTTCTGTGATGGAATCAAACAAGATATCGATGCTGATTTACCTCCT
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
328815 TC
131 TC
* * * *
328817 TGTGATAGAATCAAACTAAAAGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCG--A-
1 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
* * * * * *
328879 ACAAATGTCGATCCACCTCATTCTGTGATGGAATCCAATGAA-ATGTTGGTGCTGATCTACCTCC
66 AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAA-CAAGATGTCGATGCTGATCTACCTCC
328943 TTC
130 TTC
*
328946 TGTGATAGAATCGAGCAAATAGTTGA
1 TGTGATAGAATCGAGCAAAAAGTTGA
328972 ACAATCTCTT
Statistics
Matches: 1454, Mismatches: 144, Indels: 22
0.90 0.09 0.01
Matches are distributed among these distances:
129 76 0.05
130 3 0.00
131 50 0.03
132 1146 0.79
133 170 0.12
134 9 0.01
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (132 bp):
TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAT
AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGATGTCGATGCTGATCTACCTCCT
TC
Found at i:329383 original size:21 final size:20
Alignment explanation
Indices: 329349--329438 Score: 84
Period size: 21 Copynumber: 4.6 Consensus size: 20
329339 GTTTCAAGAG
329349 AAATTGTCTT-AAGAGAGACA
1 AAATTGT-TTCAAGAGAGACA
329369 AAACTTGTTTC-A-AGAG--A
1 AAA-TTGTTTCAAGAGAGACA
* *
329386 AAA-TGTCTCAAGGGAGACA
1 AAATTGTTTCAAGAGAGACA
329405 AAACTTGTTTCAAGAGAGACA
1 AAA-TTGTTTCAAGAGAGACA
329426 AAATTCGTTTCAA
1 AAATT-GTTTCAA
329439 TGGAAACGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
15 5 0.09
16 1 0.02
17 7 0.12
19 8 0.14
20 8 0.14
21 28 0.49
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.26
Consensus pattern (20 bp):
AAATTGTTTCAAGAGAGACA
Found at i:329384 original size:36 final size:36
Alignment explanation
Indices: 329325--329421 Score: 158
Period size: 36 Copynumber: 2.7 Consensus size: 36
329315 CTATCTCTAA
* *
329325 AGAGACAAAACTTTGTTTCAAGAGAAATTGTCTTAAG
1 AGAGACAAAAC-TTGTTTCAAGAGAAAATGTCTCAAG
329362 AGAGACAAAACTTGTTTCAAGAGAAAATGTCTCAAG
1 AGAGACAAAACTTGTTTCAAGAGAAAATGTCTCAAG
*
329398 GGAGACAAAACTTGTTTCAAGAGA
1 AGAGACAAAACTTGTTTCAAGAGA
329422 GACAAAATTC
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 46 0.81
37 11 0.19
ACGTcount: A:0.42, C:0.12, G:0.21, T:0.25
Consensus pattern (36 bp):
AGAGACAAAACTTGTTTCAAGAGAAAATGTCTCAAG
Found at i:329732 original size:39 final size:39
Alignment explanation
Indices: 329678--329795 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
329668 AAAGATTTTA
* * *
329678 TGTTTCAAGAGAAACTGTCTCAAGAGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
* *
329717 TGTTTCGAGGGAAACTATGTCAAGCGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
329756 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
1 TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
329795 T
1 T
329796 TTAAAACAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (39 bp):
TGTTTCGAGGGAAACTATCTCAAGAGAGATAAAATCTTC
Found at i:329879 original size:74 final size:77
Alignment explanation
Indices: 329798--329973 Score: 243
Period size: 74 Copynumber: 2.3 Consensus size: 77
329788 AATCTTCTTT
*
329798 AAAACAATCTTGAGTGAAATGAAAT-GTCTTCTTTTAAGTAAAAAATGTCTCAAGCGAGACAAA-
1 AAAACAATCTTGAGTGAAAT-AAATCGTCTTCTTTCAAGTAAAAAATGTCTCAAGCGAGACAAAG
329861 T-TGTTTTAAG-A
65 TCTGTTTTAAGAA
* * * *
329872 AAAACAATCTTGAGTGAAATAAATCTTCTTGTTTCGAGTAAAAACTGTCTCAAGCGAGACAAAGT
1 AAAACAATCTTGAGTGAAATAAATCGTCTTCTTTCAAGTAAAAAATGTCTCAAGCGAGACAAAGT
329937 CTGTTTTAAGAA
66 CTGTTTTAAGAA
** *
329949 AAAACAATCTCAAGTGAGATAAATC
1 AAAACAATCTTGAGTGAAATAAATC
329974 CTCTGTATTA
Statistics
Matches: 90, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
73 4 0.04
74 53 0.59
75 1 0.01
76 9 0.10
77 23 0.26
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (77 bp):
AAAACAATCTTGAGTGAAATAAATCGTCTTCTTTCAAGTAAAAAATGTCTCAAGCGAGACAAAGT
CTGTTTTAAGAA
Found at i:334651 original size:2 final size:2
Alignment explanation
Indices: 334644--334707 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
334634 TATCACAAAT
334644 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
334684 TA TA TA T- TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
334708 TAATTAAAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
1 3 0.05
2 56 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:334671 original size:15 final size:14
Alignment explanation
Indices: 334644--334707 Score: 107
Period size: 13 Copynumber: 4.8 Consensus size: 14
334634 TATCACAAAT
334644 TATATATATATATA
1 TATATATATATATA
334658 TATATATA-ATATA
1 TATATATATATATA
334671 TATATATATA-ATA
1 TATATATATATATA
334684 TATATAT-TATATA
1 TATATATATATATA
334697 TATATATATAT
1 TATATATATAT
334708 TAATTAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
12 2 0.04
13 33 0.70
14 12 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TATATATATATATA
Found at i:348394 original size:21 final size:20
Alignment explanation
Indices: 348309--348465 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
348299 AATGACCAAT
** *
348309 AAAATCGCAACGCGA-AATA
1 AAAATCGCAACGCGATTTTC
***
348328 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* ** *
348348 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGA-TTTTC
*
348368 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
348389 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
348410 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
348431 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
348451 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
348466 ACACATAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:348494 original size:20 final size:20
Alignment explanation
Indices: 348432--348677 Score: 248
Period size: 20 Copynumber: 12.2 Consensus size: 20
348422 CGATTTTCCA
* ** *
348432 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
348452 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
348472 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
348492 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
348512 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
348532 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
348552 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
348572 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* *
348592 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGTATCCGT
*
348612 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
*
348632 AAAATCGCAACG-ATAATCCGT
1 -AAATCGCAACGCGT-ATCCGT
* * *
348653 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
348673 AAATC
1 AAATC
348678 CGGTAGGGCA
Statistics
Matches: 194, Mismatches: 25, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.01
20 170 0.88
21 22 0.11
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:349425 original size:24 final size:24
Alignment explanation
Indices: 349386--349432 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
349376 AAATTTGGTC
349386 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
349410 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
349433 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:349624 original size:12 final size:12
Alignment explanation
Indices: 349607--349631 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
349597 ATATAATCCT
349607 GAAGAAGAAAAA
1 GAAGAAGAAAAA
349619 GAAGAAGAAAAA
1 GAAGAAGAAAAA
349631 G
1 G
349632 TCCCCGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:351971 original size:33 final size:33
Alignment explanation
Indices: 351920--352130 Score: 209
Period size: 33 Copynumber: 6.2 Consensus size: 33
351910 CGGAAATTAC
*
351920 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
* *
351953 AATCCCAACATGAAAATCGCAATGCGGAAATAAA
1 AATCGCAACATGAAAATCGCAATGC-GAAATGAA
*
351987 AATCGCAAC-GGAAAATCGCAATGCGAAATGAA
1 AATCGCAACATGAAAATCGCAATGCGAAATGAA
* * *
352019 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C---ATGAAAATCGCAATGCGA-AAT-GAA
352058 AAT-GCGAA-ATGAAAATCGCAATGCGAAATGAA
1 AATCGC-AACATGAAAATCGCAATGCGAAATGAA
*
352090 AATCGCAACGA-GATAATCGCAATGCGAAATGAA
1 AATCGCAAC-ATGAAAATCGCAATGCGAAATGAA
352123 AATCGCAA
1 AATCGCAA
352131 TGCGAAATGA
Statistics
Matches: 149, Mismatches: 14, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
31 1 0.01
32 24 0.16
33 82 0.55
34 17 0.11
38 16 0.11
39 8 0.05
40 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCGCAACATGAAAATCGCAATGCGAAATGAA
Found at i:352019 original size:19 final size:19
Alignment explanation
Indices: 351934--352148 Score: 238
Period size: 19 Copynumber: 12.4 Consensus size: 19
351924 GCAACGAGAG
351934 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
351953 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
351967 AATCGCAATGCGGAAATAAA
1 AATCGCAATGC-GAAATGAA
351987 AATCGCAA--CG----GAA
1 AATCGCAATGCGAAATGAA
352000 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
352019 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
352038 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
352052 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
352071 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
352090 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
352104 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
352123 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
352142 AATCGCA
1 AATCGCA
352149 TTGTGATTCT
Statistics
Matches: 166, Mismatches: 8, Indels: 44
0.76 0.04 0.20
Matches are distributed among these distances:
13 10 0.06
14 32 0.19
15 4 0.02
16 5 0.03
17 6 0.04
18 3 0.02
19 94 0.57
20 12 0.07
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:352077 original size:71 final size:71
Alignment explanation
Indices: 351934--352148 Score: 225
Period size: 71 Copynumber: 3.1 Consensus size: 71
351924 GCAACGAGAG
* * * **
351934 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATAAAAATCGCAA--C
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GATAATCGAAATGC-GAAACGAAAATCGCAATGC
351996 G----GAA
64 GAAATGAA
* * *
352000 AATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCAACGAGAGAATCGCAATG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCG-AAATGCGAAACGA-A-AATCGCAATG
352062 CGAAATGAA
63 CGAAATGAA
* *
352071 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAATGAAAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGAAATGCGAAACGAAAATCGCAATGCGA
352136 AATGAA
66 AATGAA
352142 AATCGCA
1 AATCGCA
352149 TTGTGATTCT
Statistics
Matches: 124, Mismatches: 12, Indels: 21
0.79 0.08 0.13
Matches are distributed among these distances:
63 4 0.03
64 3 0.02
65 14 0.11
66 28 0.23
67 2 0.02
71 59 0.48
72 7 0.06
73 7 0.06
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.14
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGAAATGCGAAACGAAAATCGCAATGCGA
AATGAA
Found at i:352168 original size:52 final size:52
Alignment explanation
Indices: 351962--352148 Score: 331
Period size: 52 Copynumber: 3.6 Consensus size: 52
351952 AAATCCCAAC
* *
351962 ATGAAAATCGCAATGCGGAAATAAAAATCGCAACG-GAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
*
352014 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
352066 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
352118 ATGAAAATCGCAATGCGAAATGAAAATCGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCA
352149 TTGTGATTCT
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
51 17 0.13
52 114 0.87
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
Found at i:352257 original size:52 final size:53
Alignment explanation
Indices: 352144--352260 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
352134 GAAATGAAAA
*
352144 TCGCATTGTGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
352197 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
352249 TCGCATTGCGAT
1 TCGCATTGCGAT
352261 AGTCATTTTT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 30 0.48
53 33 0.52
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.45
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:352268 original size:19 final size:19
Alignment explanation
Indices: 352163--352260 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
352153 GATTCTCTCG
352163 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
352183 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
352202 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
352216 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
352235 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
352254 TTGCGAT
1 TTGCGAT
352261 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 36 0.51
20 15 0.21
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:352382 original size:14 final size:14
Alignment explanation
Indices: 352363--352399 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
352353 CATCAATTAC
352363 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
352377 ACAAATCATCTTTT
1 ACAAATCAACTTTT
352391 ACAAATCAA
1 ACAAATCAA
352400 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:353215 original size:99 final size:101
Alignment explanation
Indices: 353082--353282 Score: 388
Period size: 101 Copynumber: 2.0 Consensus size: 101
353072 TAGTGACTTA
353082 CATAAATTTTAAAAAAAAATTAATCAAATTGAAATATAAGAAAAATAT-A-ACTTACCCCCCCCA
1 CATAAATTTTAAAAAAAAATTAATCAAATTGAAATATAAGAAAAATATAAGACTTACCCCCCCCA
353145 TCGAAATAGCATTGTCTTCGACCCCTAATAATACGC
66 TCGAAATAGCATTGTCTTCGACCCCTAATAATACGC
353181 CATAAATTTTAAAAAAAAATTAATCAAATTGAAATATAAGAAAAATATAAGACTTACCCCCCCCA
1 CATAAATTTTAAAAAAAAATTAATCAAATTGAAATATAAGAAAAATATAAGACTTACCCCCCCCA
353246 TCGAAATAGCATTGTCTTCGACCCCTAATAATACGC
66 TCGAAATAGCATTGTCTTCGACCCCTAATAATACGC
353282 C
1 C
353283 CCACCAAGAC
Statistics
Matches: 100, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 48 0.48
100 1 0.01
101 51 0.51
ACGTcount: A:0.45, C:0.21, G:0.07, T:0.26
Consensus pattern (101 bp):
CATAAATTTTAAAAAAAAATTAATCAAATTGAAATATAAGAAAAATATAAGACTTACCCCCCCCA
TCGAAATAGCATTGTCTTCGACCCCTAATAATACGC
Found at i:354103 original size:19 final size:19
Alignment explanation
Indices: 354077--354213 Score: 116
Period size: 19 Copynumber: 7.8 Consensus size: 19
354067 CACTAAACTT
*
354077 AAAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
* * **
354096 AGAATCGCAACGAGAAACC
1 AAAATCGCAACGCGAAATG
354115 AAAATCGCAACGCG-AATG
1 AAAATCGCAACGCGAAATG
*
354133 AAAATCGCAACG-G-CA-G
1 AAAATCGCAACGCGAAATG
*
354149 --AATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
354166 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
354180 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
*
354199 AAAATCGCAATGCGA
1 AAAATCGCAACGCGA
354214 TTTTGGTTCG
Statistics
Matches: 93, Mismatches: 15, Indels: 20
0.73 0.12 0.16
Matches are distributed among these distances:
14 19 0.20
15 2 0.02
16 4 0.04
17 5 0.05
18 15 0.16
19 48 0.52
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:354171 original size:33 final size:34
Alignment explanation
Indices: 354079--354208 Score: 167
Period size: 33 Copynumber: 3.8 Consensus size: 34
354069 CTAAACTTAA
* * *
354079 AATCGCAATGCGAAATGAGAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAG----CAG
354117 AATCGCAACGCG-AATGAAAATCGCAACG-GCAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGCAG
*
354149 AATCGCAATGCGAAATGAAAATCGCAACGAG-AG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGCAG
354182 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
354209 TGCGATTTTG
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
32 13 0.15
33 44 0.52
34 1 0.01
36 1 0.01
37 15 0.18
38 11 0.13
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.11
Consensus pattern (34 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGCAG
Found at i:354230 original size:18 final size:19
Alignment explanation
Indices: 354209--354251 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
354199 AAAATCGCAA
354209 TGCGATTTTGG-TTCGCGT
1 TGCGATTTTGGTTTCGCGT
354227 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
354246 TGCGAT
1 TGCGAT
354252 CTATCGTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.07, C:0.16, G:0.33, T:0.44
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:354265 original size:32 final size:33
Alignment explanation
Indices: 354224--354316 Score: 127
Period size: 32 Copynumber: 2.8 Consensus size: 33
354214 TTTTGGTTCG
*
354224 CGTTGCGATTTTGGTTTCGCGTTGCGA-TCTAT
1 CGTTGCGATTTTAGTTTCGCGTTGCGATTCTAT
*
354256 CGTTGCGATTTTCA-TTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTT-AGTTTCGCGTTGCGATTCTAT
*
354289 CGTTGCGATTTTAAGTTTCGTGTTGCGA
1 CGTTGCGATTTT-AGTTTCGCGTTGCGA
354317 AAGTAAACTA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
32 25 0.46
33 17 0.31
34 12 0.22
ACGTcount: A:0.11, C:0.19, G:0.26, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTAGTTTCGCGTTGCGATTCTAT
Found at i:354280 original size:19 final size:18
Alignment explanation
Indices: 354209--354284 Score: 63
Period size: 19 Copynumber: 4.4 Consensus size: 18
354199 AAAATCGCAA
**
354209 TGCGATTTTGGTTCGCGT
1 TGCGATTTTCTTTCGCGT
*
354227 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
354246 TGCGA---TCTAT--CGT
1 TGCGATTTTCTTTCGCGT
354259 TGCGATTTTCATTTCGCGT
1 TGCGATTTTC-TTTCGCGT
354278 TGCGATT
1 TGCGATT
354285 CTCTCGTTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
13 8 0.17
15 2 0.04
16 3 0.06
17 2 0.04
18 9 0.19
19 23 0.49
ACGTcount: A:0.09, C:0.18, G:0.28, T:0.45
Consensus pattern (18 bp):
TGCGATTTTCTTTCGCGT
Found at i:354539 original size:91 final size:89
Alignment explanation
Indices: 354413--354601 Score: 324
Period size: 91 Copynumber: 2.1 Consensus size: 89
354403 TCAGGGTATT
* *
354413 AGTTTAGCCGAATTGGCAGCAACCGAACAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
1 AGTTTAG-AGAATTGGCAGCAACCGAACAAATTACTTTCAACCAAAAGACAAAAC-AAGAC-AAT
354478 ACTATTTCACAGTGTTAAAGAATACAC
63 ACTATTTCACAGTGTTAAAGAATACAC
354505 AGTTTAGAGAATTGGCAGCAACCGAACAAATTACTTTCAACCAAAAGACAAAACAAGACAATACT
1 AGTTTAGAGAATTGGCAGCAACCGAACAAATTACTTTCAACCAAAAGACAAAACAAGACAATACT
*
354570 ATTTCACATTGTTAAAGAATACAC
66 ATTTCACAGTGTTAAAGAATACAC
354594 AGTTTAGA
1 AGTTTAGA
354602 TTTCACAGTG
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
89 37 0.39
90 5 0.05
91 45 0.48
92 7 0.07
ACGTcount: A:0.45, C:0.19, G:0.13, T:0.23
Consensus pattern (89 bp):
AGTTTAGAGAATTGGCAGCAACCGAACAAATTACTTTCAACCAAAAGACAAAACAAGACAATACT
ATTTCACAGTGTTAAAGAATACAC
Found at i:354605 original size:31 final size:31
Alignment explanation
Indices: 354570--354631 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
354560 AGACAATACT
*
354570 ATTTCACATTGTTAAAGAATACACAGTTTAG
1 ATTTCACAGTGTTAAAGAATACACAGTTTAG
354601 ATTTCACAGTGTTAAAGAATACACAGTTTAG
1 ATTTCACAGTGTTAAAGAATACACAGTTTAG
354632 CAGAATTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.34
Consensus pattern (31 bp):
ATTTCACAGTGTTAAAGAATACACAGTTTAG
Found at i:354627 original size:17 final size:17
Alignment explanation
Indices: 354574--354627 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
354564 AATACTATTT
*
354574 CACATTGTTAAAGAATA
1 CACAGTGTTAAAGAATA
* *
354591 CACAGT-TT--AGATTT
1 CACAGTGTTAAAGAATA
354605 CACAGTGTTAAAGAATA
1 CACAGTGTTAAAGAATA
354622 CACAGT
1 CACAGT
354628 TTAGCAGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
16 2 0.07
17 15 0.52
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (17 bp):
CACAGTGTTAAAGAATA
Found at i:356322 original size:19 final size:19
Alignment explanation
Indices: 356300--356375 Score: 81
Period size: 19 Copynumber: 4.3 Consensus size: 19
356290 AAAATCGCAA
**
356300 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
356319 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCGT
356333 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
356352 TGCGATTTTCATTTCTCGT
1 TGCGATTTTCATTTCGCGT
356371 TGCGA
1 TGCGA
356376 CAGTCATTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
14 6 0.12
16 7 0.15
17 6 0.12
19 29 0.60
ACGTcount: A:0.09, C:0.21, G:0.24, T:0.46
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:356390 original size:20 final size:19
Alignment explanation
Indices: 356327--356397 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
356317 GTTGCGATTC
*
356327 TCTCGTTGCGATTTTCATT
1 TCTCGTTGCGACTTTCATT
* *
356346 TCGCGTTGCGATTTTCATT
1 TCTCGTTGCGACTTTCATT
**
356365 TCTCGTTGCGACAGTCATT
1 TCTCGTTGCGACTTTCATT
356384 CTCTCGTTGCGACT
1 -TCTCGTTGCGACT
356398 CTTCTGCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
19 33 0.73
20 12 0.27
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.44
Consensus pattern (19 bp):
TCTCGTTGCGACTTTCATT
Found at i:356922 original size:20 final size:20
Alignment explanation
Indices: 356895--357067 Score: 197
Period size: 20 Copynumber: 8.7 Consensus size: 20
356885 CTTTAAATAT
*
356895 CGCGTTGCGATTTACGGATT
1 CGCGTTGCGATTTACGGATA
*
356915 CTCGTTGCGATTTACGGATTA
1 CGCGTTGCGATTTACGGA-TA
*
356936 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
356955 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* * **
356975 CACATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
356995 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* **
357015 CACGTTGTAATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
357035 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
357055 CGCGTTGCGATTT
1 CGCGTTGCGATTT
357068 TCATATTCGC
Statistics
Matches: 129, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
19 2 0.02
20 125 0.97
21 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:357076 original size:20 final size:19
Alignment explanation
Indices: 357035--357130 Score: 77
Period size: 20 Copynumber: 4.7 Consensus size: 19
357025 TTTACGGATA
* *
357035 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTT-TATATT
357055 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTT-ATATT
357075 CGCGTTGCGAATTTGTACTA-T
1 CGCGTTGCG-ATTT-TA-TATT
* * *
357096 CGCATTGCGATTTTCAAGAAT
1 CGCGTTGCGATTTT--ATATT
357117 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
357131 GGAAACTGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.03
20 30 0.47
21 29 0.45
22 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.41
Consensus pattern (19 bp):
CGCGTTGCGATTTTATATT
Found at i:357098 original size:21 final size:21
Alignment explanation
Indices: 357053--357130 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
357043 GATTTATGTG
357053 TTCGCGTTGCG-ATTTTCATA
1 TTCGCGTTGCGAATTTTCATA
357073 TTCGCGTTGCGAATTTGT-ACTA
1 TTCGCGTTGCGAATTT-TCA-TA
* *
357095 -TCGCATTGCG-ATTTTCAAGA
1 TTCGCGTTGCGAATTTTC-ATA
*
357115 ATCGCGTTGCG-ATTTT
1 TTCGCGTTGCGAATTTT
357131 GGAAACTGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.02
20 16 0.33
21 29 0.59
22 3 0.06
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.41
Consensus pattern (21 bp):
TTCGCGTTGCGAATTTTCATA
Found at i:365364 original size:21 final size:21
Alignment explanation
Indices: 365338--365385 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
365328 ATCGGAACCC
*
365338 AAAGGCACGCCAAATCGCCCA
1 AAAGGCACACCAAATCGCCCA
*
365359 AAAGGCACACCAAATCGCCCG
1 AAAGGCACACCAAATCGCCCA
365380 AAAGGC
1 AAAGGC
365386 GTAACAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.35, G:0.21, T:0.04
Consensus pattern (21 bp):
AAAGGCACACCAAATCGCCCA
Found at i:373791 original size:149 final size:146
Alignment explanation
Indices: 373516--374232 Score: 906
Period size: 149 Copynumber: 4.9 Consensus size: 146
373506 CAGGGTGTTA
* * *
373516 TAATATCACGCCGAGCACTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTACATGCCGAGCGCT
1 TAATATCACGCCGAGCGCTTCAACGTTTAGAGTAGGCA-GGGAGACAGAGTACATGCCGAGCGCT
373581 TCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCCG
65 TCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGC-CTAACGTGTGGAGTAGGCCG
373646 GGTGAAACAAGATGTGCCT
129 GGTGAAA-AAGATGTGCCT
*
373665 TAATGTCACGCCGAGCGCTTCAACGTTTAGAGTAGGCAGAGGAGACAGAGTACATGCCGAGCGCT
1 TAATATCACGCCGAGCGCTTCAACGTTTAGAGTAGGCAG-GGAGACAGAGTACATGCCGAGCGCT
*
373730 TCCAGAGGGAAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCCG
65 TCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGC-CTAACGTGTGGAGTAGGCCG
373795 GGTGAAATAAGATGTGCCT
129 GGTGAAA-AAGATGTGCCT
* * *
373814 TAATGTCACGCCGAGCGCTTCAACGTTGAGAGTAGGCAGAGGAGACAGAGTGCATGCCGAGCGCT
1 TAATATCACGCCGAGCGCTTCAACGTTTAGAGTAGGCAG-GGAGACAGAGTACATGCCGAGCGCT
* * * * *
373879 TCCAAAGGGGAGTAGGCAGGATGACCTGATCTTACGTCGAGCG-CTAACGTATGGAGTAGG-C-A
65 TCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCTAACGTGTGGAGTAGGCCGG
373941 G-G-----G-TGT-CC-
130 GTGAAAAAGATGTGCCT
* * * * * * * *
373949 CAGAT-TCACGCCGAGC-ATCTCAACGTGTAGGGTAAGCAGGGTAGATAGAGTTCATGCCTAGCG
1 TA-ATATCACGCCGAGCGCT-TCAACGTTTAGAGTAGGCAGGG-AGACAGAGTACATGCCGAGCG
* *
374012 CTTCTAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGT
63 CTTCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCG-CCTAACGTGTGGAGTAGGC
* * *
374077 CGGGTGAAATA-ATGCGCTT
127 CGGGTGAAAAAGATGTGCCT
* * * * * * *
374096 TAATATCAGGTCGAGCGCCTCAACGTGTGGGGTAGGCAGGGTAGACAGAGTTCATGCCGAGCGCT
1 TAATATCACGCCGAGCGCTTCAACGTTTAGAGTAGGCAGGG-AGACAGAGTACATGCCGAGCGCT
*
374161 TCCAGAGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCCTTAACGTGTGGAGTAGGCCG
65 TCCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCC-TAACGTGTGGAGTAGGCCG
374226 GGTGAAA
129 GGTGAAA
374233 TAAAATGATT
Statistics
Matches: 505, Mismatches: 43, Indels: 42
0.86 0.07 0.07
Matches are distributed among these distances:
134 3 0.01
135 87 0.17
136 4 0.01
137 19 0.04
138 2 0.00
139 1 0.00
140 1 0.00
144 1 0.00
145 3 0.01
146 6 0.01
147 134 0.27
148 1 0.00
149 243 0.48
ACGTcount: A:0.25, C:0.21, G:0.35, T:0.19
Consensus pattern (146 bp):
TAATATCACGCCGAGCGCTTCAACGTTTAGAGTAGGCAGGGAGACAGAGTACATGCCGAGCGCTT
CCAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCTAACGTGTGGAGTAGGCCGGG
TGAAAAAGATGTGCCT
Found at i:373961 original size:284 final size:284
Alignment explanation
Indices: 373257--374229 Score: 992
Period size: 284 Copynumber: 3.4 Consensus size: 284
373247 TAAGGAATTT
* * * * * * *
373257 CGCCGAGCGCTTCAACATTAAGAGTTGGAAGGGGGAC--AGTTCATGCCGAGCGCTTCCAG-TGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGAGACAGAGTACATGCCGAGCGCTTCCAGAGGG
* * * * * * *
373319 GAGTAGGCCGGATGACCTGATCTTACGCCGGGCGCTCTAATGTATGGGGTAGGCAGGGTATTCCT
66 GAGTAGGCAGGATGACCTGATCTTACGCCGAGCGC-CTAACGTGTGGAGTAGGCAGGGTGTGCCT
* * * * ** * * * *
373384 -ATTTTCACGCCGAGC-GCTTCACCGT-TAAGAGTTGGAAGGG-GGATAGAGTTCATGCCGAGCG
130 CAATGTCACGCCGAGCATC-TCAACGTGT-AGAGTAAGCAGGGTAGACAGAGTACATGCCGAGCG
* * * * * *
373445 CTTCCAGTGGGGAGTAGGCAGGATG-CTTGATCTTACGCCGGGCGCTCTAAC--GTGGAGTAGGC
193 CTTCCAGAGGGAAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGC
* *
373507 AGGGTG---T--T-----ATAATATCA
258 CGGGTGAAATAATGCGCCTTAATATCA
* *
373524 CGCCGAGCACTTCAACGTTGAGAGTAGGCAGGGGGGACAGAGTACATGCCGAGCGCTTCCAGAGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCA-GGGAGACAGAGTACATGCCGAGCGCTTCCAGAGG
* *
373589 GGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCCGGGTGAAAC
65 GGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGC-CTAACGTGTGGAGTAGG-C-AG-G----
* * * *
373654 AAGATGTGCCTTAATGTCACGCCGAGC-GCTTCAACGTTTAGAGTAGGCAGAGG-AGACAGAGTA
122 --G-TGTGCCTCAATGTCACGCCGAGCATC-TCAACGTGTAGAGTAAGCAG-GGTAGACAGAGTA
*
373717 CATGCCGAGCGCTTCCAGAGGGAAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTAACGT
182 CATGCCGAGCGCTTCCAGAGGGAAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCCTAACGT
* *
373782 GTGGAGTAGGCCGGGTGAAATAAGATGTGCCTTAATGTCA
247 GTGGAGTAGGCCGGGTGAAAT-A-ATGCGCCTTAATATCA
* *
373822 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGAGGAGACAGAGTGCATGCCGAGCGCTTCCAAAGG
1 CGCCGAGCGCTTCAACGTTGAGAGTAGGCAG-GGAGACAGAGTACATGCCGAGCGCTTCCAGAGG
* *
373887 GGAGTAGGCAGGATGACCTGATCTTACGTCGAGCG-CTAACGTATGGAGTAGGCAGGGTGT-CC-
65 GGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCCTAACGTGTGGAGTAGGCAGGGTGTGCCT
* * * *
373949 CAGAT-TCACGCCGAGCATCTCAACGTGTAGGGTAAGCAGGGTAGATAGAGTTCATGCCTAGCGC
130 CA-ATGTCACGCCGAGCATCTCAACGTGTAGAGTAAGCAGGGTAGACAGAGTACATGCCGAGCGC
* * *
374013 TTCTAGAGGGGAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGTC
194 TTCCAGAGGGAAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGCC
*
374078 GGGTGAAATAATGCGCTTTAATATCA
259 GGGTGAAATAATGCGCCTTAATATCA
* * * * *
374104 GGTCGAGCGCCTCAACGTGTG-GGGTAGGCAGGGTAGACAGAGTTCATGCCGAGCGCTTCCAGAG
1 CGCCGAGCGCTTCAACGT-TGAGAGTAGGCAGGG-AGACAGAGTACATGCCGAGCGCTTCCAGAG
*
374168 GGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCCTTAACGTGTGGAGTAGGCCGGGTG
64 GGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCC-TAACGTGTGGAGTAGGCAGGGTG
374230 AAATAAAATG
Statistics
Matches: 602, Mismatches: 64, Indels: 63
0.83 0.09 0.09
Matches are distributed among these distances:
267 25 0.04
268 7 0.01
270 21 0.03
271 49 0.08
272 1 0.00
273 1 0.00
274 1 0.00
280 1 0.00
281 7 0.01
282 131 0.22
283 50 0.08
284 162 0.27
285 5 0.01
286 19 0.03
287 1 0.00
289 1 0.00
293 2 0.00
294 1 0.00
295 1 0.00
296 16 0.03
297 1 0.00
298 99 0.16
ACGTcount: A:0.23, C:0.22, G:0.35, T:0.20
Consensus pattern (284 bp):
CGCCGAGCGCTTCAACGTTGAGAGTAGGCAGGGAGACAGAGTACATGCCGAGCGCTTCCAGAGGG
GAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCCTAACGTGTGGAGTAGGCAGGGTGTGCCTC
AATGTCACGCCGAGCATCTCAACGTGTAGAGTAAGCAGGGTAGACAGAGTACATGCCGAGCGCTT
CCAGAGGGAAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGCCGG
GTGAAATAATGCGCCTTAATATCA
Found at i:374217 original size:431 final size:426
Alignment explanation
Indices: 373294--374236 Score: 1225
Period size: 431 Copynumber: 2.2 Consensus size: 426
373284 GAAGGGGGAC
* * *
373294 AGTTCATGCCGAGCGCTTCCAG-TGGGAGTAGGCCGGATGACCTGATCTTACGCCGGGCGCTCTA
1 AGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTA
* * * * * * *
373358 ATGTATGGGGTAGG-CAGG-G---T--ATTCCTATTTTCACGCCGAGCGCTTCACCGTTAAGAGT
66 ACGTGTGGAGTAGGCCGGGTGAAATAAATTCCTAATGTCACGCCGAGCGCTTCAACGTTAAGAGT
* * * * ** *
373416 TGGAAGGGGGATAGAGTTCATGCCGAGCGCTTCCAGTGGGGAGTAGGCAGGATGCTTGATCTTAC
131 AGGAAGGGAGACAGAGTGCATGCCGAGCGCTTCCAAAGGGGAGTAGGCAGGATGCCTGATCTTAC
* * *
373481 GCCGGGCGCTCTAACGTGGAGTAGGCAGGGTGTTATAATATCACGCCGAGCACTTCAACGTTGAG
196 GCCGAGCGC-CTAACGTGGAGTAGGCAGGGTGTCACAATATCACGCCGAGCACTTCAACGTTGAG
* *
373546 AGTAGGCAGGGGGGACAGAGTACATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGGT
260 AGTAAGCAGGGGAGACAGAGTACATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGGT
* * *
373611 CTTACGCCGAGCGCTCTAACGTGTGGAGTAGGCCGGGTGAAACAAGATGTGCCTTAATGTCACGC
325 CTTACGCCGAGCGCCCTAACGTGTGGAGTAGGCCGGGTGAAACAAGATGCGCCTTAATATCACGC
* *
373676 CGAGCGCTTCAACGTTTAGAGTAGGCAGAGGAGACAG
390 CGAGCGCCTCAACGTGTAGAGTAGGCAGAGGAGACAG
* * *
373713 AGTACATGCCGAGCGCTTCCAGAGGGAAGTAGGCAGGATGACCTGGTCTTACGCCGAGCGCTCTA
1 AGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTA
*
373778 ACGTGTGGAGTAGGCCGGGTGAAATAAGATGTGCCTTAATGTCACGCCGAGCGCTTCAACGTTGA
66 ACGTGTGGAGTAGGCCGGGTGAAATAA-AT-T-CC-TAATGTCACGCCGAGCGCTTCAACGTTAA
*
373843 GAGTAGGCAGAGGAGACAGAGTGCATGCCGAGCGCTTCCAAAGGGGAGTAGGCAGGATGACCTGA
127 GAGTAGGAAG-GGAGACAGAGTGCATGCCGAGCGCTTCCAAAGGGGAGTAGGCAGGATG-CCTGA
* *
373908 TCTTACGTCGAGCG-CTAACGTATGGAGTAGGCAGGGTGTCCCAGAT-TCACGCCGAGCA-TCTC
190 TCTTACGCCGAGCGCCTAACG--TGGAGTAGGCAGGGTGTCACA-ATATCACGCCGAGCACT-TC
* * * * * *
373970 AACG-TGTAGGGTAAGCAGGGTAGATAGAGTTCATGCCTAGCGCTTCTAGAGGGGAGTAGGCAGG
251 AACGTTG-AGAGTAAGCAGGGGAGACAGAGTACATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGG
* * *
374034 ATGACCTGGTCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGTCGGGTGAAA-TA-ATGCGCTTT
315 ATGACCTGGTCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGCCGGGTGAAACAAGATGCGCCTT
* * * *
374097 AATATCAGGTCGAGCGCCTCAACGTGTGGGGTAGGCAG-GGTAGACAG
380 AATATCACGCCGAGCGCCTCAACGTGTAGAGTAGGCAGAGG-AGACAG
374144 AGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGC-CTT
1 AGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTC-T
374208 AACGTGTGGAGTAGGCCGGGTGAAATAAA
65 AACGTGTGGAGTAGGCCGGGTGAAATAAA
374237 ATGATTTAGG
Statistics
Matches: 453, Mismatches: 50, Indels: 31
0.85 0.09 0.06
Matches are distributed among these distances:
419 21 0.05
420 48 0.11
421 3 0.01
422 1 0.00
425 1 0.00
428 2 0.00
429 1 0.00
430 6 0.01
431 170 0.38
432 47 0.10
433 151 0.33
434 2 0.00
ACGTcount: A:0.24, C:0.21, G:0.35, T:0.20
Consensus pattern (426 bp):
AGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGATCTTACGCCGAGCGCTCTA
ACGTGTGGAGTAGGCCGGGTGAAATAAATTCCTAATGTCACGCCGAGCGCTTCAACGTTAAGAGT
AGGAAGGGAGACAGAGTGCATGCCGAGCGCTTCCAAAGGGGAGTAGGCAGGATGCCTGATCTTAC
GCCGAGCGCCTAACGTGGAGTAGGCAGGGTGTCACAATATCACGCCGAGCACTTCAACGTTGAGA
GTAAGCAGGGGAGACAGAGTACATGCCGAGCGCTTCCAGAGGGGAGTAGGCAGGATGACCTGGTC
TTACGCCGAGCGCCCTAACGTGTGGAGTAGGCCGGGTGAAACAAGATGCGCCTTAATATCACGCC
GAGCGCCTCAACGTGTAGAGTAGGCAGAGGAGACAG
Found at i:374228 original size:147 final size:147
Alignment explanation
Indices: 373967--374235 Score: 466
Period size: 147 Copynumber: 1.8 Consensus size: 147
373957 CGCCGAGCAT
* * *
373967 CTCAACGTGTAGGGTAAGCAGGGTAGATAGAGTTCATGCCTAGCGCTTCTAGAGGGGAGTAGGCA
1 CTCAACGTGTAGGGTAAGCAGGGTAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCA
* *
374032 GGATGACCTGGTCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGTCGGGTGAAATAATGCGCTTT
66 GGATGACCTGATCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGCCGGGTGAAATAATGCGCTTT
374097 AATATCAGGTCGAGCGC
131 AATATCAGGTCGAGCGC
* *
374114 CTCAACGTGTGGGGTAGGCAGGGTAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCA
1 CTCAACGTGTAGGGTAAGCAGGGTAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCA
*
374179 GGATGACCTGATCTTACGCCGAGCGCCTTAACGTGTGGAGTAGGCCGGGTGAAATAA
66 GGATGACCTGATCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGCCGGGTGAAATAA
374236 AATGATTTAG
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 114 1.00
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (147 bp):
CTCAACGTGTAGGGTAAGCAGGGTAGACAGAGTTCATGCCGAGCGCTTCCAGAGGGGAGTAGGCA
GGATGACCTGATCTTACGCCGAGCGCCCTAACGTGTGGAGTAGGCCGGGTGAAATAATGCGCTTT
AATATCAGGTCGAGCGC
Found at i:384166 original size:14 final size:14
Alignment explanation
Indices: 384143--384172 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
384133 GAATTACATC
*
384143 TTCTGTAAAATGTT
1 TTCTGAAAAATGTT
384157 TTCTGAAAAATGTT
1 TTCTGAAAAATGTT
384171 TT
1 TT
384173 ACGGTGTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (14 bp):
TTCTGAAAAATGTT
Found at i:384951 original size:32 final size:32
Alignment explanation
Indices: 384884--384953 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
384874 ATATTATTAT
* *
384884 AATATAATTGAGTATTTTATTATAATATTAAA
1 AATATAATTGAGTATATTATTAAAATATTAAA
*
384916 AATATAA-T-AGTATATTATTAGAAATGTTAATA
1 AATATAATTGAGTATATTATTA-AAATATTAA-A
384948 AATATA
1 AATATA
384954 TGTTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.33
31 8 0.24
32 14 0.42
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (32 bp):
AATATAATTGAGTATATTATTAAAATATTAAA
Found at i:385039 original size:42 final size:43
Alignment explanation
Indices: 384976--385064 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 43
384966 ATATTTTGAT
*
384976 TAAAATTATATTGAAATATTTTATTAATATTAAATTCATAAAA
1 TAAAATTATATTGAAATATTTTACTAATATTAAATTCATAAAA
* *
385019 TAAAATTATTTTG-ATTATTTTACTAATATTAAATTCATAAAA
1 TAAAATTATATTGAAATATTTTACTAATATTAAATTCATAAAA
385061 TAAA
1 TAAA
385065 TTTAAAAGTC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
42 31 0.72
43 12 0.28
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.45
Consensus pattern (43 bp):
TAAAATTATATTGAAATATTTTACTAATATTAAATTCATAAAA
Found at i:385288 original size:79 final size:79
Alignment explanation
Indices: 385129--385275 Score: 240
Period size: 79 Copynumber: 1.9 Consensus size: 79
385119 AATATTCTCC
* * *
385129 TTAAATGTGAAATTAAATTAAGAGTTTAATAAGCATTTAAGCTGTAACATCTTGACTTTTCGTGA
1 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
385194 TTAAATTCTTAAAT
66 TTAAATTCTTAAAT
* * *
385208 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACGTTCAAGTTGTATCATCTCGACTTTTCGTGA
1 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
385273 TTA
66 TTA
385276 TTTTTTTAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 62 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (79 bp):
TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
TTAAATTCTTAAAT
Found at i:385302 original size:16 final size:17
Alignment explanation
Indices: 385272--385311 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
385262 ACTTTTCGTG
* *
385272 ATTATTTTTTTAAATTT
1 ATTATTATTTAAAATTT
385289 -TTATTATTTAAAATTT
1 ATTATTATTTAAAATTT
385305 ATTATTA
1 ATTATTA
385312 ACAAAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTATTATTTAAAATTT
Found at i:389789 original size:22 final size:21
Alignment explanation
Indices: 389738--389790 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 21
389728 CGAGGGGGAG
389738 GTATAATTTAAGAAAATGCCA
1 GTATAATTTAAGAAAATGCCA
*
389759 --CT--TTT-AGAAAATGCCAA
1 GTATAATTTAAGAAAATGCC-A
389776 GTATAATTTAAGAAA
1 GTATAATTTAAGAAA
389791 GTTATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 11
0.65 0.05 0.30
Matches are distributed among these distances:
16 10 0.42
17 4 0.17
19 2 0.08
21 3 0.12
22 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.30
Consensus pattern (21 bp):
GTATAATTTAAGAAAATGCCA
Found at i:391822 original size:21 final size:22
Alignment explanation
Indices: 391798--391845 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
391788 TGAAAAAAGG
*
391798 GTCAAACGACCAAA-AAAATAT
1 GTCAAACGACAAAAGAAAATAT
* *
391819 GTCAAAGGGCAAAAGAAAATAT
1 GTCAAACGACAAAAGAAAATAT
391841 GTCAA
1 GTCAA
391846 CAGACATACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.15
Consensus pattern (22 bp):
GTCAAACGACAAAAGAAAATAT
Found at i:392068 original size:29 final size:31
Alignment explanation
Indices: 392024--392087 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
392014 ATTAAGTTAA
* ** *
392024 ATATTTTAAATAATTATTTTTTTGCAAATAT
1 ATATTTTAAATAATTACTTGATTGAAAATAT
392055 ATATTTT-AA-AATTACTTGATTGAAAATAT
1 ATATTTTAAATAATTACTTGATTGAAAATAT
392084 ATAT
1 ATAT
392088 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.69
30 2 0.07
31 7 0.24
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (31 bp):
ATATTTTAAATAATTACTTGATTGAAAATAT
Found at i:393232 original size:8 final size:8
Alignment explanation
Indices: 393219--393310 Score: 77
Period size: 8 Copynumber: 11.5 Consensus size: 8
393209 AACCCGACCC
393219 GACCCGTT
1 GACCCGTT
393227 GACCC---
1 GACCCGTT
393232 GACCCGTT
1 GACCCGTT
**
393240 GACCCGACC
1 GACCCG-TT
393249 GACCCGTT
1 GACCCGTT
*
393257 GACCTGTT
1 GACCCGTT
393265 GA-CCGTT
1 GACCCGTT
393272 GACCCGTT
1 GACCCGTT
393280 GA-CCGTT
1 GACCCGTT
393287 GACCCTCGTT
1 GA-CC-CGTT
393297 GACCACTGTT
1 GACC-C-GTT
393307 GACC
1 GACC
393311 AAAACATTGA
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
5 5 0.07
7 13 0.19
8 27 0.40
9 10 0.15
10 13 0.19
ACGTcount: A:0.15, C:0.38, G:0.24, T:0.23
Consensus pattern (8 bp):
GACCCGTT
Found at i:393232 original size:13 final size:13
Alignment explanation
Indices: 393214--393248 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
393204 GTCACAACCC
393214 GACCCGACCCGTT
1 GACCCGACCCGTT
393227 GACCCGACCCGTT
1 GACCCGACCCGTT
393240 GACCCGACC
1 GACCCGACC
393249 GACCCGTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.17, C:0.49, G:0.23, T:0.11
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:393272 original size:15 final size:15
Alignment explanation
Indices: 393252--393300 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
393242 CCCGACCGAC
393252 CCGTTGACCTGTTGA
1 CCGTTGACCTGTTGA
*
393267 CCGTTGACCCGTTGA
1 CCGTTGACCTGTTGA
393282 CCGTTGACCCTCGTTGA
1 CCGTTGA-CCT-GTTGA
393299 CC
1 CC
393301 ACTGTTGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 21 0.70
16 2 0.07
17 7 0.23
ACGTcount: A:0.12, C:0.35, G:0.24, T:0.29
Consensus pattern (15 bp):
CCGTTGACCTGTTGA
Found at i:393274 original size:7 final size:7
Alignment explanation
Indices: 393252--393290 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
393242 CCCGACCGAC
393252 CCGTTGA
1 CCGTTGA
393259 CCTGTTGA
1 CC-GTTGA
393267 CCGTTGA
1 CCGTTGA
393274 CCCGTTGA
1 -CCGTTGA
393282 CCGTTGA
1 CCGTTGA
393289 CC
1 CC
393291 CTCGTTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.13, C:0.33, G:0.26, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:393593 original size:18 final size:18
Alignment explanation
Indices: 393567--393607 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
393557 TCGAAAGGAC
* *
393567 TGAAGTAAATGATAAGAT
1 TGAATTAAATAATAAGAT
393585 TGAATTAAATAATAAGAT
1 TGAATTAAATAATAAGAT
*
393603 CGAAT
1 TGAAT
393608 GGAAGGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.51, C:0.02, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAATTAAATAATAAGAT
Found at i:394505 original size:23 final size:23
Alignment explanation
Indices: 394479--394561 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
394469 TCCGACTTGA
* *
394479 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
394502 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
394525 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
394549 ATTCTGATATGAT
1 ATTCTGATATGAT
394562 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:394549 original size:24 final size:24
Alignment explanation
Indices: 394494--394568 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
394484 GTTATGATCC
394494 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
394517 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
394541 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
394565 TGAC
1 TGAC
394569 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:396748 original size:17 final size:18
Alignment explanation
Indices: 396719--396754 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
396709 ACCGGTCACA
396719 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
396737 ACCCGA-CCGACCCGTTG
1 ACCCGACCCGACCCGTTG
396754 A
1 A
396755 TCTGTTGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:398100 original size:18 final size:18
Alignment explanation
Indices: 398074--398109 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
398064 TCGAAAGGAC
*
398074 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
398092 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
398110 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:399280 original size:23 final size:23
Alignment explanation
Indices: 399254--399336 Score: 96
Period size: 23 Copynumber: 3.6 Consensus size: 23
399244 TCCGACTTGA
* *
399254 ATTCTGTTATGATCCTGACCTGG
1 ATTCTGATATGATCATGACCTGG
* *
399277 ATTCTGATCTGAT-ATTGACATGG
1 ATTCTGATATGATCA-TGACCTGG
*
399300 ATTCTGATCTGATACATGACCTGG
1 ATTCTGATATGAT-CATGACCTGG
399324 ATTCTGATATGAT
1 ATTCTGATATGAT
399337 ACTTGACTTG
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
23 31 0.61
24 19 0.37
25 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (23 bp):
ATTCTGATATGATCATGACCTGG
Found at i:399324 original size:24 final size:24
Alignment explanation
Indices: 399269--399343 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
399259 GTTATGATCC
399269 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
399292 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
399316 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
399340 TGAC
1 TGAC
399344 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:402229 original size:22 final size:21
Alignment explanation
Indices: 402178--402230 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 21
402168 CGAGGGGGAG
402178 GTATAATTTAAGAAAATGCCA
1 GTATAATTTAAGAAAATGCCA
*
402199 --CT--TTT-AGAAAATGCCAA
1 GTATAATTTAAGAAAATGCC-A
402216 GTATAATTTAAGAAA
1 GTATAATTTAAGAAA
402231 GTTATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 11
0.65 0.05 0.30
Matches are distributed among these distances:
16 10 0.42
17 4 0.17
19 2 0.08
21 3 0.12
22 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.30
Consensus pattern (21 bp):
GTATAATTTAAGAAAATGCCA
Found at i:404271 original size:21 final size:22
Alignment explanation
Indices: 404247--404294 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
404237 TGAAAAAAGG
*
404247 GTCAAACGACCAAA-AAAATAT
1 GTCAAACGACAAAAGAAAATAT
* *
404268 GTCAAAGGGCAAAAGAAAATAT
1 GTCAAACGACAAAAGAAAATAT
404290 GTCAA
1 GTCAA
404295 CAGACATACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.54, C:0.15, G:0.17, T:0.15
Consensus pattern (22 bp):
GTCAAACGACAAAAGAAAATAT
Found at i:404520 original size:29 final size:31
Alignment explanation
Indices: 404476--404539 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 31
404466 ATTAAGTTAA
* ** *
404476 ATATTTTAAATAATTATTTTTTTGCAAATAT
1 ATATTTTAAATAATTACTTGATTGAAAATAT
404507 ATATTTT-AA-AATTACTTGATTGAAAATAT
1 ATATTTTAAATAATTACTTGATTGAAAATAT
404536 ATAT
1 ATAT
404540 ATTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.69
30 2 0.07
31 7 0.24
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (31 bp):
ATATTTTAAATAATTACTTGATTGAAAATAT
Found at i:407638 original size:21 final size:22
Alignment explanation
Indices: 407609--407652 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
407599 TATAAAATTA
* *
407609 TTATTAAAT-TTATTGATTTTT
1 TTATAAAATATTATTAATTTTT
407630 TTATAAAATGATTATTAATTTTT
1 TTATAAAAT-ATTATTAATTTTT
407653 ACTGAACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (22 bp):
TTATAAAATATTATTAATTTTT
Found at i:411146 original size:18 final size:18
Alignment explanation
Indices: 411123--411168 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
411113 ACTGGTCACA
411123 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
411141 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
*
411159 AACCGACCCG
1 ACCCGACCCG
411169 TTGACCCGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.50, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:411176 original size:8 final size:8
Alignment explanation
Indices: 411163--411202 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
411153 CCGTTTAACC
411163 GACCCGTT
1 GACCCGTT
411171 GACCC---
1 GACCCGTT
411176 GACCCGTT
1 GACCCGTT
411184 GA-CCGTT
1 GACCCGTT
411191 GACCCGTT
1 GACCCGTT
411199 GACC
1 GACC
411203 AGAGTTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:411196 original size:15 final size:13
Alignment explanation
Indices: 411145--411202 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
411135 CCGTTGACCC
411145 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
411158 TAACCGACCCGTT
1 GACCCGACCCGTT
411171 GACCCGACCCGTT
1 GACCCGACCCGTT
*
411184 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
411199 GACC
1 GACC
411203 AGAGTTGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
13 26 0.68
15 12 0.32
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:411221 original size:20 final size:18
Alignment explanation
Indices: 411176--411223 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 18
411166 CCGTTGACCC
411176 GACCCGTTGACC---GTT
1 GACCCGTTGACCAGAGTT
411191 GACCCGTTGACCAGAGTT
1 GACCCGTTGACCAGAGTT
411209 GACCACTGTTGACCA
1 GACC-C-GTTGACCA
411224 AAACTTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.43
18 7 0.25
19 1 0.04
20 8 0.29
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (18 bp):
GACCCGTTGACCAGAGTT
Found at i:412539 original size:18 final size:18
Alignment explanation
Indices: 412513--412548 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
412503 TCGAAAGGAC
412513 TGAAGTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
*
412531 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
412549 CGGATGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:413691 original size:48 final size:48
Alignment explanation
Indices: 413639--413770 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
413629 AATATTTTAC
*
413639 CTGATTTTCGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
413687 CTGA-TATCTGACATAGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
** *
413735 CTG-TTACTT-GACCTGATTTCTGATATGATACTTGAC
1 CTGATT--TTCGAATTGATTTCTGATCTGATACTTGAC
413771 CTGATTTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.07
48 60 0.87
49 3 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (48 bp):
CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:413777 original size:24 final size:24
Alignment explanation
Indices: 413656--413770 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
413646 TCGATTTGAT
413656 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
*
413680 TTCTGATCTGATA-TCTGACATAGA
1 TTCTGATCTGATACT-TGACATGGA
*
413704 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
413728 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
413751 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
413771 CTGATTTATA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 77 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:413787 original size:24 final size:24
Alignment explanation
Indices: 413707--413779 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
413697 ACATAGATTC
* * *
413707 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
413731 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
413755 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
413779 T
1 T
413780 ATTTTGATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:415965 original size:18 final size:18
Alignment explanation
Indices: 415942--415987 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
415932 ACTGGTCACA
415942 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
415960 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTG
*
415978 AACCGACCCG
1 ACCCGACCCG
415988 TTGACCCGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.20, C:0.50, G:0.20, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:415995 original size:8 final size:8
Alignment explanation
Indices: 415982--416021 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
415972 CCGTTTAACC
415982 GACCCGTT
1 GACCCGTT
415990 GACCC---
1 GACCCGTT
415995 GACCCGTT
1 GACCCGTT
416003 GA-CCGTT
1 GACCCGTT
416010 GACCCGTT
1 GACCCGTT
416018 GACC
1 GACC
416022 AGAGTTGACC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
5 5 0.18
7 7 0.25
8 16 0.57
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (8 bp):
GACCCGTT
Found at i:416015 original size:15 final size:13
Alignment explanation
Indices: 415964--416021 Score: 71
Period size: 13 Copynumber: 4.3 Consensus size: 13
415954 CCGTTGACCC
415964 GACCCGACCCGTT
1 GACCCGACCCGTT
* *
415977 TAACCGACCCGTT
1 GACCCGACCCGTT
415990 GACCCGACCCGTT
1 GACCCGACCCGTT
*
416003 GACCGTTGACCCGTT
1 GACC--CGACCCGTT
416018 GACC
1 GACC
416022 AGAGTTGACC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
13 26 0.68
15 12 0.32
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.19
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:416040 original size:20 final size:18
Alignment explanation
Indices: 415995--416042 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 18
415985 CCGTTGACCC
415995 GACCCGTTGACC---GTT
1 GACCCGTTGACCAGAGTT
416010 GACCCGTTGACCAGAGTT
1 GACCCGTTGACCAGAGTT
416028 GACCACTGTTGACCA
1 GACC-C-GTTGACCA
416043 AAACTTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.43
18 7 0.25
19 1 0.04
20 8 0.29
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (18 bp):
GACCCGTTGACCAGAGTT
Found at i:417357 original size:18 final size:18
Alignment explanation
Indices: 417331--417366 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
417321 TCGAAAGGAC
417331 TGAAGTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
*
417349 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
417367 CGGATGGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.14, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:418510 original size:48 final size:48
Alignment explanation
Indices: 418458--418589 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
418448 AATATTTTAC
*
418458 CTGATTTTCGATTTGATTTCTGATCTGATACTTGACATGGATTCTGAT
1 CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
* * *
418506 CTGA-TATCTGACATAGA-TTCTGATCTGATACTTGACTTGGATTCTGAT
1 CTGATTTTC-GA-ATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
** *
418554 CTG-TTACTT-GACCTGATTTCTGATATGATACTTGAC
1 CTGATT--TTCGAATTGATTTCTGATCTGATACTTGAC
418590 CTGATTTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
47 5 0.07
48 60 0.87
49 3 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (48 bp):
CTGATTTTCGAATTGATTTCTGATCTGATACTTGACATGGATTCTGAT
Found at i:418596 original size:24 final size:24
Alignment explanation
Indices: 418475--418589 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
418465 TCGATTTGAT
418475 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
*
418499 TTCTGATCTGATA-TCTGACATAGA
1 TTCTGATCTGATACT-TGACATGGA
*
418523 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
418547 TTCTGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
418570 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
418590 CTGATTTATA
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 3 0.04
24 77 0.95
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:418606 original size:24 final size:24
Alignment explanation
Indices: 418526--418598 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
418516 ACATAGATTC
* * *
418526 TGATCTGATACTTGACTTGGA-TTC
1 TGATATGATACTTGACCT-GATTTA
* * *
418550 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
418574 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
418598 T
1 T
418599 ATTTTGATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.05
24 41 0.95
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:419739 original size:23 final size:23
Alignment explanation
Indices: 419713--419778 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 23
419703 GAAATAAAAA
419713 TATTATAAATTATATTAATTATT
1 TATTATAAATTATATTAATTATT
* *
419736 TATTA-AAATAATAATT-TTTAATT
1 TATTATAAATTAT-ATTAATT-ATT
* *
419759 TATTTTAAA-TATCTTAATTA
1 TATTATAAATTATATTAATTA
419779 AAATATTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
22 11 0.33
23 19 0.58
24 3 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTATAAATTATATTAATTATT
Found at i:419986 original size:22 final size:22
Alignment explanation
Indices: 419958--419999 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
419948 TTGAGTATTT
419958 TATTATAATATTAAAAATATAA
1 TATTATAATATTAAAAATATAA
* *
419980 TATTATAGTATTAGAAATAT
1 TATTATAATATTAAAAATAT
420000 TAACTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TATTATAATATTAAAAATATAA
Found at i:428399 original size:12 final size:12
Alignment explanation
Indices: 428382--428406 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
428372 CTCTGACACT
428382 AAAAAAAAAAGA
1 AAAAAAAAAAGA
428394 AAAAAAAAAAGA
1 AAAAAAAAAAGA
428406 A
1 A
428407 GATAGAAGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGA
Found at i:431505 original size:36 final size:36
Alignment explanation
Indices: 431374--431492 Score: 193
Period size: 36 Copynumber: 3.3 Consensus size: 36
431364 AGTCAATCCT
431374 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
* * *
431410 AAGCCTTCACCGGAGAATAGGGAAGCAATCAATCTG
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
431446 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTT
1 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
*
431482 AAGTCTTCACC
1 AAGCCTTCACC
431493 AAAAAGTAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 75 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.18
Consensus pattern (36 bp):
AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
Found at i:431973 original size:51 final size:51
Alignment explanation
Indices: 431897--432338 Score: 552
Period size: 51 Copynumber: 8.5 Consensus size: 51
431887 GTGAAGCAAA
* *
431897 TGAAGATATGCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
*
431948 TGAAGATGTTCGAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * *
431999 TGAAGATGTTCGAGTTCTATACTCTTTAGAGAGAGAAGGAGCGAACCCGTAAGA
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGT---T
* * * * *
432053 AGAAGATTTTTGAGTTCTATACTCCCTGAAGAAA-AAGGGAGCGAACCCAG-T
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAA-GGAGCGAACCC-GTT
*
432104 TGAAGATGTTCAAGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCAG-T
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAA-GGAGCGAACCC-GTT
432156 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
432207 TGAAGATGTTCGAAG-TCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
1 TGAAGATGTTCG-AGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
* * * * *
432258 TGAAGAGATGTTCGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCATTTGT
1 TG-A-AGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCC--GT-T
432314 TGAAGATTGTTCGAG-TCTTATACTC
1 TGAAGA-TGTTCGAGTTC-TATACTC
432339 TCTGAAGAAA
Statistics
Matches: 346, Mismatches: 29, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
50 1 0.00
51 184 0.53
52 58 0.17
53 40 0.12
54 42 0.12
55 18 0.05
56 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (51 bp):
TGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTT
Found at i:432254 original size:208 final size:206
Alignment explanation
Indices: 431909--432308 Score: 653
Period size: 208 Copynumber: 1.9 Consensus size: 206
431899 AAGATATGCG
431909 AGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCT
1 AGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCT
* * *
431974 TAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCTTTAGAGAGAGAAGGA
66 TAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGA
* *
432039 GCGAACCCGTAAGAAGAAGATTTTTGAGTTCTATACTCCCT-GAAGAAAAAGGGAGCGAACCCAG
131 GCGAACCCGTAAGAAG-AGATGTTCGAGTTCTATACTCCCTAG-AGAAAAAGGGAGCGAACCCAG
432103 TTGAAGATGTTCA
194 TTGAAGATGTTCA
*
432116 AGTTCTATACTCCTTAAAGAAAGAAGGGAGCGAACCCAG-TTGAAGATGTTCGAGTTCTATACTC
1 AGTTCTATACTCCTTAAAGAAAGAA-GGAGCGAACCC-GTTTGAAGATGTTCGAGTTCCATACTC
432180 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAAG-TCTATACTCCTTAAAGAAAGAA
64 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCG-AGTTCTATACTCCTTAAAGAAAGAA
** *
432244 GGAGCGAACCCGTTTGAAGAGATGTTCGAGTTCTATACTCCCTAGAGAAATAGGGAGCGAACCCA
128 GGAGCGAACCCGTAAGAAGAGATGTTCGAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAACCCA
432309 TTTGTTGAAG
Statistics
Matches: 180, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
207 66 0.37
208 111 0.62
209 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (206 bp):
AGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCCATACTCCT
TAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCCTTAAAGAAAGAAGGA
GCGAACCCGTAAGAAGAGATGTTCGAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAACCCAGTT
GAAGATGTTCA
Found at i:432389 original size:108 final size:108
Alignment explanation
Indices: 432277--432625 Score: 515
Period size: 108 Copynumber: 3.2 Consensus size: 108
432267 GTTCGAGTTC
* * *
432277 TATACTCCCT-AGAGAAATAGGGAGC-GAACCCATTTGTTGAAGATTGTTCGAGTCTTATACTCT
1 TATACTCCCTGA-AGAAATAGGGGGCAG-ACCCAATCGTTGAAGATTGTTCGAGTCTTATACTCT
432340 CTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
64 CTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
* *
432385 TATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
1 TATACTCCCTGAAGAAATAGGGGGCAGACCCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
432450 GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
66 GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
* * *
432493 TATACTCTCTGAAGAAACAGGGGGCAGACGCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
1 TATACTCCCTGAAGAAATAGGGGGCAGACCCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
** * *
432558 GAAGAAATAGGGGGCAGACAAGTTTGTTGAAGATGATTGTGGGTCT
66 GAAGAAATAGGGGGCAGACGCGATTGATG-A-A-GATTGTGGGTCT
432604 TATAC-CCTCTGAAGAAATAGGG
1 TATACTCC-CTGAAGAAATAGGG
432626 TGTGAACCCA
Statistics
Matches: 223, Mismatches: 12, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
108 188 0.84
109 3 0.01
110 2 0.01
111 30 0.13
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (108 bp):
TATACTCCCTGAAGAAATAGGGGGCAGACCCAATCGTTGAAGATTGTTCGAGTCTTATACTCTCT
GAAGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGGGTCT
Found at i:432400 original size:53 final size:55
Alignment explanation
Indices: 432310--432625 Score: 444
Period size: 55 Copynumber: 5.8 Consensus size: 55
432300 GCGAACCCAT
432310 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
* * *
432365 TTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
*
432418 TCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
* * * *
432473 TTGATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAACAGGGGGCAGACGCAA
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
* ** *
432526 TCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGT
1 TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
* * *
432581 TTGTTGAAGA-TGATTGTGGGTCTTATACCCTCTGAAGAAATAGGG
1 TTGTTGAAGATTG-TT-CGAGTCTTATACTCTCTGAAGAAATAGGG
432626 TGTGAACCCA
Statistics
Matches: 231, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
53 95 0.41
54 6 0.03
55 104 0.45
56 26 0.11
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.28
Consensus pattern (55 bp):
TTGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGA
Found at i:432570 original size:55 final size:55
Alignment explanation
Indices: 432257--432625 Score: 443
Period size: 55 Copynumber: 6.7 Consensus size: 55
432247 GCGAACCCGT
* * * * *
432257 TTGAAGAGATGTTCGAGT-TCTATACTCCCT-AGAGAAATAGGGAGC-GAACCCATTTG
1 TTGAAGA-TTGTTCGAGTCT-TATACTCTCTGA-AGAAATAGGGGGCAG-ACGCAATTG
*
432313 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTG
* * *
432368 ATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTG
*
432421 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTG
* * * *
432476 ATGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAACAGGGGGCAGACGCAATCG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTG
432529 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGA--CAAGTTTG
1 TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAA--TTG
* * *
432584 TTGAAGA-TGATTGTGGGTCTTATACCCTCTGAAGAAATAGGG
1 TTGAAGATTG-TT-CGAGTCTTATACTCTCTGAAGAAATAGGG
432626 TGTGAACCCA
Statistics
Matches: 276, Mismatches: 26, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
53 98 0.36
54 6 0.02
55 136 0.49
56 36 0.13
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (55 bp):
TTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATTG
Found at i:434652 original size:190 final size:192
Alignment explanation
Indices: 434314--434698 Score: 681
Period size: 190 Copynumber: 2.0 Consensus size: 192
434304 AGAGCTGCGG
434314 GGGTTGCGTCCTTAGGTCGACCAGTGCTTGCTGTCAGTTTAGGGAGGTTAGAGTAAAGTTTCGGG
1 GGGTTGCGTCCTTAGGTCGACCAGTGCTTGCTGTCAGTTTAGGGAGGTTAGAGTAAAGTTTCGGG
434379 AGATTGTGATGAAATGGTGGTGGCTTTTAGGCGTTCGTTCTTCTTCTCCAGCTTACTAGCGGTGA
66 AGATTGTGATGAAATGGTGGTGGCTTTTAGGCGTTCGTTCTTCTTCTCCAGCTTACTAGCGGTGA
*
434444 TACGAGATGAGAGCTTTGAAGCTCTCGAA-G-GGCCCTAGGAGAAGAAGGAGAGAGTTGAGA
131 TACGAGATGAGAGCTTTGAAGCTCTCGAAGGTGGCCATAGGAGAAGAAGGAGAGAGTTGAGA
*
434504 GGGTTGCGTCCTTAGGTCGACCAGTGCTTGCATGTCAGTTTA-GGAGGTTAGAGTAACGTTTCGG
1 GGGTTGCGTCCTTAGGTCGACCAGTGCTTGC-TGTCAGTTTAGGGAGGTTAGAGTAAAGTTTCGG
434568 GAGATTGTGATGAAA-GGTGGTGGCTTTTAGGCGTTCGTTCTTCTTCTCCAGCTTACTAGCGGTG
65 GAGATTGTGATGAAATGGTGGTGGCTTTTAGGCGTTCGTTCTTCTTCTCCAGCTTACTAGCGGTG
434632 ATTTACGAGATGAG-GCTTTGAAGCTCTCGAAGGGTGGCCATAGGAGAAGAAGGAGAGAGTTGAG
130 A--TACGAGATGAGAGCTTTGAAGCTCTCGAA-GGTGGCCATAGGAGAAGAAGGAGAGAGTTGAG
434696 A
192 A
434697 GG
1 GG
434699 AAGAAGAAGG
Statistics
Matches: 187, Mismatches: 2, Indels: 9
0.94 0.01 0.05
Matches are distributed among these distances:
189 50 0.27
190 84 0.45
191 21 0.11
192 1 0.01
193 31 0.17
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.29
Consensus pattern (192 bp):
GGGTTGCGTCCTTAGGTCGACCAGTGCTTGCTGTCAGTTTAGGGAGGTTAGAGTAAAGTTTCGGG
AGATTGTGATGAAATGGTGGTGGCTTTTAGGCGTTCGTTCTTCTTCTCCAGCTTACTAGCGGTGA
TACGAGATGAGAGCTTTGAAGCTCTCGAAGGTGGCCATAGGAGAAGAAGGAGAGAGTTGAGA
Found at i:439037 original size:17 final size:18
Alignment explanation
Indices: 439006--439041 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
438996 TTTTTTAAAA
439006 TTCTCAATAACTTTTAAT
1 TTCTCAATAACTTTTAAT
*
439024 TTCTTAATAA-TTTTAAT
1 TTCTCAATAACTTTTAAT
439041 T
1 T
439042 AAACCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCTCAATAACTTTTAAT
Found at i:440614 original size:32 final size:32
Alignment explanation
Indices: 440547--440616 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
440537 ATATTATTAT
* *
440547 AATATAATTGAGTATTTTATTATAATATTAAA
1 AATATAATTGAGTATATTATTAAAATATTAAA
*
440579 AATATAA-T-AGTATATTATTAGAAATGTTAATA
1 AATATAATTGAGTATATTATTA-AAATATTAA-A
440611 AATATA
1 AATATA
440617 TGTTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.33
31 8 0.24
32 14 0.42
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (32 bp):
AATATAATTGAGTATATTATTAAAATATTAAA
Found at i:440671 original size:42 final size:41
Alignment explanation
Indices: 440639--440727 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 41
440629 ATATTTTGAT
440639 TAAAATTATATTGAAATATTTTATTAATATTAAATTCATAAAA
1 TAAAATTATATTG-AATATTTTATTAATATTAAATT-ATAAAA
* *
440682 TAAAATTATTTTGATTATTTTATTAATATTAAATTCATAAAA
1 TAAAATTATATTGAATATTTTATTAATATTAAATT-ATAAAA
440724 TAAA
1 TAAA
440728 TTTAAAAGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 32 0.73
43 12 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (41 bp):
TAAAATTATATTGAATATTTTATTAATATTAAATTATAAAA
Found at i:440951 original size:79 final size:79
Alignment explanation
Indices: 440792--440938 Score: 222
Period size: 79 Copynumber: 1.9 Consensus size: 79
440782 AATATTCTCC
* * * *
440792 TTAAATGTTAAATTAAATTAAGAGTTTAATAAGCATTTAAGCTGTAACATCTTGACTTTTCGTGA
1 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
440857 TTAAATTCTTAAAT
66 TTAAATTCTTAAAT
* * * *
440871 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACGTTCAAGTTGTATCATCTCGACTTTTCGTTA
1 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
440936 TTA
66 TTA
440939 TTTTTTTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (79 bp):
TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
TTAAATTCTTAAAT
Found at i:440965 original size:16 final size:17
Alignment explanation
Indices: 440933--440976 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
440923 CGACTTTTCG
* *
440933 TTATTATTTTTTTAAAT
1 TTATTATTATTTAAAAT
440950 TT-TTATTATTTAAAAT
1 TTATTATTATTTAAAAT
440966 TTATTATTATT
1 TTATTATTATT
440977 AACAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTATTATTTAAAAT
Found at i:444493 original size:232 final size:227
Alignment explanation
Indices: 444089--444544 Score: 867
Period size: 232 Copynumber: 2.0 Consensus size: 227
444079 CGGTTCAAAC
444089 ACAAACTAAAAGTTGTAGTAAAAAGTAAGCGATAGAGTATCGATGGACGAAATGGGCATACTTGG
1 ACAAACTAAAAGTTGTAGTAAAAAGTAAGCGATAGAGTATCGATGGACGAAATGGGCATACTTGG
444154 GAGATTAATTTCACAAACAACTGAAATCGGGGTGCGGTTGCAGATCACAGTTTCTGAGTGCGGTT
66 GAGATTAATTTCACAAACAACTGAAATCGGGGTGCGGTTGCAGATCACAGTTTCTGAGTGCGGTT
444219 CTAACGGTAGCATTGAGGAAGTCATAGTCAAGGATATTGATTTCTCTGAGAGCTTTGCAAAGGCA
131 CTAACGGTAGCATTGAGGAAGTCATAGTCAAGGATATTGATTTCTCTGAGAGCTTTGCAAAGGCA
444284 AACTGCAGCCCCACCACCAAGATCACCAAAAAGAG
196 AACTGCAG--CC-CCACCAAGATCACCAAAAAGAG
444319 ACAAACTAAAAGTTGTAGTAAAAAGTAAGCGATAGAGTATCGATGGACGAATAATGGGCATACTT
1 ACAAACTAAAAGTTGTAGTAAAAAGTAAGCGATAGAGTATCGATGGACG-A-AATGGGCATACTT
444384 GGGAGATTAATTTCACAAACAACTGAAATCGGGGTGCGGTTGCAGATCACAGTTTCTGAGTGCGG
64 GGGAGATTAATTTCACAAACAACTGAAATCGGGGTGCGGTTGCAGATCACAGTTTCTGAGTGCGG
444449 TTCTAACGGTAGCATTGAGGAAGTCATAGTCAAGGATATTGATTTCTCTGAGAGCTTTGCAAAGG
129 TTCTAACGGTAGCATTGAGGAAGTCATAGTCAAGGATATTGATTTCTCTGAGAGCTTTGCAAAGG
444514 CAAACTGCAGCCCCACCAAGATCACCAAAAA
194 CAAACTGCAGCCCCACCAAGATCACCAAAAA
444545 AGAGGCAACA
Statistics
Matches: 224, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
229 19 0.08
230 51 0.23
231 1 0.00
232 153 0.68
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (227 bp):
ACAAACTAAAAGTTGTAGTAAAAAGTAAGCGATAGAGTATCGATGGACGAAATGGGCATACTTGG
GAGATTAATTTCACAAACAACTGAAATCGGGGTGCGGTTGCAGATCACAGTTTCTGAGTGCGGTT
CTAACGGTAGCATTGAGGAAGTCATAGTCAAGGATATTGATTTCTCTGAGAGCTTTGCAAAGGCA
AACTGCAGCCCCACCAAGATCACCAAAAAGAG
Found at i:445226 original size:22 final size:21
Alignment explanation
Indices: 445175--445227 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 21
445165 CGAGGGGGAG
445175 GTATAATTTAAGAAAATGCCA
1 GTATAATTTAAGAAAATGCCA
*
445196 --CT--TTT-AGAAAATGCCAA
1 GTATAATTTAAGAAAATGCC-A
445213 GTATAATTTAAGAAA
1 GTATAATTTAAGAAA
445228 GTTATTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 11
0.65 0.05 0.30
Matches are distributed among these distances:
16 10 0.42
17 4 0.17
19 2 0.08
21 3 0.12
22 5 0.21
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.30
Consensus pattern (21 bp):
GTATAATTTAAGAAAATGCCA
Found at i:447466 original size:42 final size:41
Alignment explanation
Indices: 447434--447522 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 41
447424 ATATTTTGAT
447434 TAAAATTATATTGAAATATTTTATTAATATTAAATTCATAAAA
1 TAAAATTATATTG-AATATTTTATTAATATTAAATT-ATAAAA
* *
447477 TAAAATTATTTTGATTATTTTATTAATATTAAATTCATAAAA
1 TAAAATTATATTGAATATTTTATTAATATTAAATT-ATAAAA
447519 TAAA
1 TAAA
447523 TTTAAAAGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 32 0.73
43 12 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (41 bp):
TAAAATTATATTGAATATTTTATTAATATTAAATTATAAAA
Found at i:447672 original size:80 final size:78
Alignment explanation
Indices: 447587--447746 Score: 248
Period size: 80 Copynumber: 2.0 Consensus size: 78
447577 AATATTCTCC
* * *
447587 TTAAATGTGAAATTAAATTAAGAGTTTAATAAGCATTTAAGCTGTAACATCTTGACTTTTCGTGA
1 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
447652 TTAAATTTTTTTAAT
66 TT--ATTTTTTTAAT
* * *
447667 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACGTTCAAGTTGTATCATCTCGACTTTTCGTGA
1 TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
447732 TTATTTTTTTAAT
66 TTATTTTTTTAAT
447745 TT
1 TT
447747 TTATTATTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
78 13 0.18
80 61 0.82
ACGTcount: A:0.34, C:0.08, G:0.12, T:0.45
Consensus pattern (78 bp):
TTAAATGTGAAATTAAATTAAGAGTTTAATAAACATTCAAGCTGTAACATCTCGACTTTTCGTGA
TTATTTTTTTAAT
Found at i:449552 original size:22 final size:22
Alignment explanation
Indices: 449524--449572 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
449514 TTTTTCCTTT
449524 ACCATGCACTACAACCCAACTC
1 ACCATGCACTACAACCCAACTC
*
449546 ACCATGCACTACAACCCAGCTC
1 ACCATGCACTACAACCCAACTC
449568 ACCAT
1 ACCAT
449573 ATCACTCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.45, G:0.06, T:0.14
Consensus pattern (22 bp):
ACCATGCACTACAACCCAACTC
Found at i:456132 original size:55 final size:54
Alignment explanation
Indices: 456073--456322 Score: 295
Period size: 55 Copynumber: 4.5 Consensus size: 54
456063 TAGAATTAAC
456073 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAA-T
* ***
456128 GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAATT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGT---G-T--AGCCAAAA-T
* ** * *
456189 GACTGAGCACCTCTGTGCTTCAGCCGAGAGCTGACACCTCTGTGTAGCTAAGAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAT
* *
456243 GATTGAGCACCTCTGTGCTTCAATCGAG-GACTGACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAG-CTGACACCTCTGTGTAGCCAA-AAT
*
456298 GACTGAGCACCTCTGTGCTTCAATC
1 GATTGAGCACCTCTGTGCTTCAATC
456323 TAAATTTTGG
Statistics
Matches: 167, Mismatches: 20, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
53 1 0.01
54 45 0.27
55 72 0.43
57 1 0.01
58 2 0.01
59 1 0.01
61 45 0.27
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAT
Found at i:456171 original size:27 final size:28
Alignment explanation
Indices: 456076--456322 Score: 113
Period size: 27 Copynumber: 8.8 Consensus size: 28
456066 AATTAACGAT
*
456076 TGAGCACCTCTGTGCTTCAATCGAGAGC
1 TGAGCACCTCTGTGCTTCAATCGAGAAC
* ** * *
456104 TGA-CACCTCTGTG-TAGCCAAAAGTG-AT
1 TGAGCACCTCTGTGCT--TCAATCGAGAAC
456131 TGAGCACCTCTGTGCTTCAATCGAGAAC
1 TGAGCACCTCTGTGCTTCAATCGAGAAC
* *** *
456159 TGA-CACCTCTGTGCAGTTAAAAAAAAAATTGAC
1 TGAGCACCTCTGTGC--TT-CAATCGAGA---AC
** *
456192 TGAGCACCTCTGTGCTTCAGCCGAGAGC
1 TGAGCACCTCTGTGCTTCAATCGAGAAC
* *
456220 TGA-CACCTCTGTG-TAGCTAA--GATG-AT
1 TGAGCACCTCTGTGCT-TC-AATCGA-GAAC
*
456246 TGAGCACCTCTGTGCTTCAATCGAGGAC
1 TGAGCACCTCTGTGCTTCAATCGAGAAC
** *
456274 TGA-CACCTCTGTGCAGCCAA-CTATG-AC
1 TGAGCACCTCTGTGC-TTCAATCGA-GAAC
456301 TGAGCACCTCTGTGCTTCAATC
1 TGAGCACCTCTGTGCTTCAATC
456323 TAAATTTTGG
Statistics
Matches: 161, Mismatches: 34, Indels: 48
0.66 0.14 0.20
Matches are distributed among these distances:
26 9 0.06
27 74 0.46
28 50 0.31
29 3 0.02
30 4 0.02
31 3 0.02
32 2 0.01
33 5 0.03
34 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (28 bp):
TGAGCACCTCTGTGCTTCAATCGAGAAC
Found at i:456285 original size:115 final size:116
Alignment explanation
Indices: 456076--456289 Score: 376
Period size: 115 Copynumber: 1.9 Consensus size: 116
456066 AATTAACGAT
*
456076 TGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
456141 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAATTGAC
66 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAATTGAC
* * *
456192 TGAGCACCTCTGTGCTTCAGCCGAGAGCTGACACCTCTGTGTAGCTAAGA-TGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
*
456256 TGTGCTTCAATCGAGGACTGACACCTCTGTGCAG
66 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAG
456290 CCAACTATGA
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
115 47 0.51
116 46 0.49
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (116 bp):
TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAAATTGAC
Found at i:457448 original size:20 final size:20
Alignment explanation
Indices: 457414--457451 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
457404 AGTTGCTTAG
457414 GGTTTAAATTGAATAAATTT
1 GGTTTAAATTGAATAAATTT
457434 GGTTTGAAATT-AATAAAT
1 GGTTT-AAATTGAATAAAT
457452 GTGAATTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (20 bp):
GGTTTAAATTGAATAAATTT
Found at i:459700 original size:36 final size:36
Alignment explanation
Indices: 459660--459731 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
459650 TCTACTTCTT
*
459660 CTCTTTCTTGAGATTGATAGATTCTATTTAGGTTTA
1 CTCTTTCTTAAGATTGATAGATTCTATTTAGGTTTA
* *
459696 CTCTTTGTTAAGATTGATAGATTGTATTTAGGTTTA
1 CTCTTTCTTAAGATTGATAGATTCTATTTAGGTTTA
459732 GTCATAGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (36 bp):
CTCTTTCTTAAGATTGATAGATTCTATTTAGGTTTA
Found at i:459976 original size:16 final size:16
Alignment explanation
Indices: 459955--459986 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
459945 TCTATAATTA
459955 TTTTAAATAAATATTT
1 TTTTAAATAAATATTT
*
459971 TTTTAAATATATATTT
1 TTTTAAATAAATATTT
459987 AAAAATTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAATAAATATTT
Found at i:460999 original size:11 final size:11
Alignment explanation
Indices: 460980--461064 Score: 50
Period size: 11 Copynumber: 7.8 Consensus size: 11
460970 CTTTTAAAAG
*
460980 TTATAAAATTA
1 TTATTAAATTA
460991 TTATTAAA-T-
1 TTATTAAATTA
*
461000 TTATTGAAATTT
1 TTATT-AAATTA
* *
461012 TTATAAAATGA
1 TTATTAAATTA
461023 TTATTAAATT-
1 TTATTAAATTA
* * *
461033 TTACTCAACTA
1 TTATTAAATTA
* *
461044 TTATAAAAATA
1 TTATTAAATTA
461055 TTCATTAAAT
1 TT-ATTAAAT
461065 CCATCAAATT
Statistics
Matches: 54, Mismatches: 15, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
9 5 0.09
10 11 0.20
11 29 0.54
12 9 0.17
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (11 bp):
TTATTAAATTA
Found at i:461048 original size:32 final size:32
Alignment explanation
Indices: 460980--461064 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 32
460970 CTTTTAAAAG
* * *
460980 TTATAAAATTATTATTAAA-TTTATTGAAATTT
1 TTATAAAA-TATTATTAAATTTTACTGAAACTA
*
461012 TTATAAAATGATTATTAAATTTTACT-CAACTA
1 TTATAAAAT-ATTATTAAATTTTACTGAAACTA
461044 TTATAAAAATATTCATTAAAT
1 TTAT-AAAATATT-ATTAAAT
461065 CCATCAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
31 1 0.02
32 27 0.60
33 17 0.38
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (32 bp):
TTATAAAATATTATTAAATTTTACTGAAACTA
Found at i:462705 original size:6 final size:6
Alignment explanation
Indices: 462691--462722 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
462681 GGTGGGGCAG
*
462691 GGAGGC GGAGAC GGAGGC GGAGGC GGAGGC GG
1 GGAGGC GGAGGC GGAGGC GGAGGC GGAGGC GG
462723 GGATTGAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.66, T:0.00
Consensus pattern (6 bp):
GGAGGC
Found at i:464133 original size:29 final size:31
Alignment explanation
Indices: 464089--464153 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
464079 ATTAAGTTAA
* ** *
464089 ATATTTTAAATAATTATTTTTTTGCAAATAT
1 ATATTTTAAATAATTACTTGATTGAAAATAT
464120 ATATTTT-AA-AATTACTTGATTGAAAATAT
1 ATATTTTAAATAATTACTTGATTGAAAATAT
464149 ATATT
1 ATATT
464154 CTTTGAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 21 0.70
30 2 0.07
31 7 0.23
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (31 bp):
ATATTTTAAATAATTACTTGATTGAAAATAT
Found at i:464608 original size:21 final size:22
Alignment explanation
Indices: 464561--464609 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
464551 ATTTTTTTAG
*
464561 GTCTTGCTTGGGATCTCCCGGC
1 GTCTTGCTTGGGATCTCCCGAC
* *
464583 GTCTTGTTTGGGAT-TTCCGAC
1 GTCTTGCTTGGGATCTCCCGAC
464604 GTCTTG
1 GTCTTG
464610 AGGGTGTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.06, C:0.24, G:0.31, T:0.39
Consensus pattern (22 bp):
GTCTTGCTTGGGATCTCCCGAC
Found at i:467135 original size:31 final size:32
Alignment explanation
Indices: 467100--467184 Score: 86
Period size: 31 Copynumber: 2.7 Consensus size: 32
467090 ATATTAAGCC
*
467100 TTAAATTTAAT-GAACTATTACAAAACAAT-CA
1 TTAAATTTAATCCAACTATTACAAAA-AATACA
* * *
467131 TTAAATTTTATCCAACTATTTCAAAATATACA
1 TTAAATTTAATCCAACTATTACAAAAAATACA
* *
467163 TTAAATTT-ATCAAACTTTTACA
1 TTAAATTTAATCCAACTATTACA
467185 CTTTTTAAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
31 23 0.51
32 22 0.49
ACGTcount: A:0.46, C:0.14, G:0.01, T:0.39
Consensus pattern (32 bp):
TTAAATTTAATCCAACTATTACAAAAAATACA
Found at i:467156 original size:32 final size:31
Alignment explanation
Indices: 467112--467184 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
467102 AAATTTAATG
*
467112 AACTATTACAAAACAAT-CATTAAATTTTATCC
1 AACTATTACAAAA-AATACATTAAA-TTTATCA
* *
467144 AACTATTTCAAAATATACATTAAATTTATCA
1 AACTATTACAAAAAATACATTAAATTTATCA
*
467175 AACTTTTACA
1 AACTATTACA
467185 CTTTTTAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
31 16 0.46
32 19 0.54
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (31 bp):
AACTATTACAAAAAATACATTAAATTTATCA
Found at i:469820 original size:12 final size:13
Alignment explanation
Indices: 469796--469824 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
469786 AAATATTAAT
469796 TAATTATTAATAA
1 TAATTATTAATAA
469809 TAATTA-TAATAA
1 TAATTATTAATAA
469821 TAAT
1 TAAT
469825 AAGGGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAATTATTAATAA
Found at i:470091 original size:35 final size:35
Alignment explanation
Indices: 470040--470151 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 35
470030 AAAACATTCC
* *
470040 TCAATTTCATTCTAAACCCTAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
*
470075 TCAATTTCATTATAAACCCTAAATTCTAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
* *
470110 TCAATTACATTCTAAAACCC-AAATTCTAAAATATT
1 TCAATTTCATTCT-AAACCCTAAATTCTAAAATAAT
470145 TCAATTT
1 TCAATTT
470152 AAGGAGGAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 63 0.91
36 6 0.09
ACGTcount: A:0.43, C:0.20, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCTAAAATAAT
Found at i:471238 original size:35 final size:34
Alignment explanation
Indices: 471197--471309 Score: 163
Period size: 35 Copynumber: 3.2 Consensus size: 34
471187 AAAAAAGACA
* *
471197 GAAATTGAAGTATTTTAGAATTTGGGTTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTGGG-TTTAGAAT
*
471232 GTAATTGAATTATTTTGGAATTTAGGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTT-GGGTTTAGAAT
*
471267 GAAATTGAATTACTTTGGAATTTGTGGTTTAGAAT
1 GAAATTGAATTATTTTGGAATTTG-GGTTTAGAAT
471302 GAAATTGA
1 GAAATTGA
471310 GGATCGTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.94
36 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.23, T:0.42
Consensus pattern (34 bp):
GAAATTGAATTATTTTGGAATTTGGGTTTAGAAT
Done.