Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007962.1 Hibiscus syriacus cultivar Beakdansim tig00110391_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: 1774241
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 8
Found at i:122347 original size:19 final size:18
Alignment explanation
Indices: 122308--122341 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
122298 TATATTTTTA
122308 TTTTTTAAAAAATATTAT
1 TTTTTTAAAAAATATTAT
122326 TTTTTTAAAAAA-ATTA
1 TTTTTTAAAAAATATTA
122342 AATTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTTTTAAAAAATATTAT
Found at i:125765 original size:3 final size:3
Alignment explanation
Indices: 125757--125824 Score: 82
Period size: 3 Copynumber: 22.3 Consensus size: 3
125747 ATGTTATTTA
* * * *
125757 TAT TAT TAT TAT TAT TCT AAT TAT TAT TAT TAT AAT TAT AAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
125805 TAT TAT TAA TAT ATAT TAT T
1 TAT TAT TAT TAT -TAT TAT T
125825 TAATATTACA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
3 51 0.94
4 3 0.06
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:125783 original size:21 final size:21
Alignment explanation
Indices: 125757--125824 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
125747 ATGTTATTTA
*
125757 TATTATTATTATTATTCTAAT
1 TATTATTATTATTATTATAAT
*
125778 TATTATTATTATAATTATAAT
1 TATTATTATTATTATTATAAT
*
125799 TATTATTATTATTAATATATAT
1 TATTATTATTATTATTATA-AT
125821 TATT
1 TATT
125825 TAATATTACA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 36 0.86
22 6 0.14
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTATTATTATTATAAT
Found at i:140045 original size:83 final size:83
Alignment explanation
Indices: 139906--140167 Score: 463
Period size: 83 Copynumber: 3.2 Consensus size: 83
139896 GAACAAATGT
*
139906 AATGTGCTCATAGCATATTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGCTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGCTAAAACCAAT
139971 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
139989 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGCTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGCTAAAACCAAT
140054 CATTGAATTTGAAAGATG
66 CATTGAATTTGAAAGATG
* *
140072 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAATTA-CAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGCTAA-AACCAA
*
140136 TCATTAAATTTGAAAGATG
65 TCATTGAATTTGAAAGATG
*
140155 AATTTGCTCATAG
1 AATGTGCTCATAG
140168 TAGAAATAAG
Statistics
Matches: 173, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
83 172 0.99
84 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.38
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGCTAAAACCAAT
CATTGAATTTGAAAGATG
Found at i:141150 original size:113 final size:113
Alignment explanation
Indices: 140952--141719 Score: 1222
Period size: 113 Copynumber: 6.8 Consensus size: 113
140942 TCAAAGATTT
*
140952 AAATCCATCAGTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
141017 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
141065 AAATCTATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
141130 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
*
141178 AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATTTGAAG
1 AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
141243 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
141291 AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
141356 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
66 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * *
141404 AAATCCATCACTTGAGGGATTAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATTTAAAG
1 AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
* * * *
141469 AAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAGCTTTTTGCTC
66 AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * **** * *
141517 AAATCCATCACTTGATGGGTCAGT-TTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCCGAA
1 AAATCCATCACTTGATGGATTA-TCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAA
* * *
141581 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 GAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * * * * * * *
141630 AAATTCATCAATTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAATTCATCTGAAG
1 AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
141695 AA--A--AAGAAGTTCATAATGAGAAGAA
66 AAGGATGAAGAAGTTCATAATGAGAAGAA
141720 CTCATCTGAA
Statistics
Matches: 610, Mismatches: 43, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
109 22 0.04
111 1 0.00
113 587 0.96
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (113 bp):
AAATCCATCACTTGATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
Found at i:141706 original size:36 final size:37
Alignment explanation
Indices: 141666--141755 Score: 164
Period size: 36 Copynumber: 2.5 Consensus size: 37
141656 TGCCAGGTAG
*
141666 AGTTCATAATGAGAAGAATTCATCTGAAGAAA-AAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
141702 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
141739 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
141756 GCTTATTTAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 31 0.60
37 21 0.40
ACGTcount: A:0.49, C:0.09, G:0.21, T:0.21
Consensus pattern (37 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGA
Found at i:142010 original size:3 final size:3
Alignment explanation
Indices: 142002--142084 Score: 76
Period size: 3 Copynumber: 27.3 Consensus size: 3
141992 ATGTTATTTA
* * * * * *
142002 TAT TAT TAT TAT TAT TCT AAT TAT TAT TAT TAT AAT TAT AAT AAT AAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
142050 AAT AAT TAT TAT TAT TAT TAT TAA TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
142085 TAATATTACA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
3 66 0.96
4 3 0.04
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:145050 original size:35 final size:31
Alignment explanation
Indices: 144986--145049 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 31
144976 AAAATAAAAC
144986 GAATTAAAAAATAATAAAAAAAATATTTTTT
1 GAATTAAAAAATAATAAAAAAAATATTTTTT
*
145017 GAATTAAAAATATAATAATAATAAATATTTTTT
1 GAATTAAAAA-ATAATAA-AAAAAATATTTTTT
145050 TGAAAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 10 0.33
32 7 0.23
33 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (31 bp):
GAATTAAAAAATAATAAAAAAAATATTTTTT
Found at i:146542 original size:29 final size:24
Alignment explanation
Indices: 146481--146526 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
146471 AATTGAAATG
146481 ATTTTTATTTTATATTAATAATAT
1 ATTTTTATTTTATATTAATAATAT
146505 ATTTTTATTTTATATTAATAAT
1 ATTTTTATTTTATATTAATAAT
146527 TTTATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTTTTATTTTATATTAATAATAT
Found at i:147479 original size:15 final size:15
Alignment explanation
Indices: 147455--147484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
147445 ATAGGTGATT
147455 AAATTAAATTAATTA
1 AAATTAAATTAATTA
*
147470 AAATTGAATTAATTA
1 AAATTAAATTAATTA
147485 TTTTTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AAATTAAATTAATTA
Found at i:147687 original size:9 final size:9
Alignment explanation
Indices: 147674--147716 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
147664 AATTTAAATA
147674 ATTAATTTG
1 ATTAATTTG
*
147683 GTTAATTTG
1 ATTAATTTG
*
147692 ATTAGTTTG
1 ATTAATTTG
147701 ATTAA-TTG
1 ATTAATTTG
*
147709 ACTAATTT
1 ATTAATTT
147717 TAAATTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.53
Consensus pattern (9 bp):
ATTAATTTG
Found at i:147953 original size:2 final size:2
Alignment explanation
Indices: 147946--147974 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
147936 ATACTAAACC
147946 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
147975 TGGAATTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:148412 original size:7 final size:7
Alignment explanation
Indices: 148400--148604 Score: 81
Period size: 7 Copynumber: 29.4 Consensus size: 7
148390 TAGATTATAA
148400 CCTAAAC
1 CCTAAAC
*
148407 CCTAAAT
1 CCTAAAC
148414 CCTAAAC
1 CCTAAAC
148421 CCTAAAC
1 CCTAAAC
*
148428 TCTAAAC
1 CCTAAAC
*** *
148435 TAAAAAT
1 CCTAAAC
*
148442 CTTAAAC
1 CCTAAAC
148449 CCTAAAC
1 CCTAAAC
*
148456 CCTAAGC
1 CCTAAAC
* *
148463 CTTAATC
1 CCTAAAC
*
148470 CCTAGA-
1 CCTAAAC
** *
148476 TATAAAT
1 CCTAAAC
148483 CCTAAAC
1 CCTAAAC
148490 CCTAAAC
1 CCTAAAC
*
148497 TCTAAAC
1 CCTAAAC
*** *
148504 TAAAAAT
1 CCTAAAC
*
148511 CTTAAAC
1 CCTAAAC
148518 CCTAAAC
1 CCTAAAC
* *
148525 CTTAAGC
1 CCTAAAC
* *
148532 CTTAATC
1 CCTAAAC
148539 CCTAAGA-
1 CCTAA-AC
** *
148546 TATAAAT
1 CCTAAAC
148553 CCTAAAC
1 CCTAAAC
*
148560 CCTAATC
1 CCTAAAC
* *
148567 CTTAAGC
1 CCTAAAC
*
148574 CATAAAC
1 CCTAAAC
*
148581 CCTAAAT
1 CCTAAAC
**
148588 TATAAAC
1 CCTAAAC
148595 CCTAAAC
1 CCTAAAC
148602 CCT
1 CCT
148605 TATTTCAATT
Statistics
Matches: 141, Mismatches: 54, Indels: 6
0.70 0.27 0.03
Matches are distributed among these distances:
6 4 0.03
7 137 0.97
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.24
Consensus pattern (7 bp):
CCTAAAC
Found at i:148485 original size:69 final size:70
Alignment explanation
Indices: 148409--148564 Score: 296
Period size: 69 Copynumber: 2.2 Consensus size: 70
148399 ACCTAAACCC
148409 TAAATCCTAAACCCTAAACTCTAAACTAAAAATCTTAAACCCTAAACCCTAAGCCTTAATCCCT-
1 TAAATCCTAAACCCTAAACTCTAAACTAAAAATCTTAAACCCTAAACCCTAAGCCTTAATCCCTA
148473 AGATA
66 AGATA
*
148478 TAAATCCTAAACCCTAAACTCTAAACTAAAAATCTTAAACCCTAAACCTTAAGCCTTAATCCCTA
1 TAAATCCTAAACCCTAAACTCTAAACTAAAAATCTTAAACCCTAAACCCTAAGCCTTAATCCCTA
148543 AGATA
66 AGATA
148548 TAAATCCTAAACCCTAA
1 TAAATCCTAAACCCTAA
148565 TCCTTAAGCC
Statistics
Matches: 85, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
69 63 0.74
70 22 0.26
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (70 bp):
TAAATCCTAAACCCTAAACTCTAAACTAAAAATCTTAAACCCTAAACCCTAAGCCTTAATCCCTA
AGATA
Found at i:148570 original size:42 final size:42
Alignment explanation
Indices: 148492--148604 Score: 138
Period size: 42 Copynumber: 2.7 Consensus size: 42
148482 TCCTAAACCC
* * * * *
148492 TAAACTCTAAACTAAAAATCTTAAACCCTAAACCTTAAGCCT
1 TAAACCCTAAATTATAAATCCTAAACCCTAAACCTTAAGCCA
* *
148534 TAATCCCTAAGA-TATAAATCCTAAACCCTAATCCTTAAGCCA
1 TAAACCCTAA-ATTATAAATCCTAAACCCTAAACCTTAAGCCA
*
148576 TAAACCCTAAATTATAAACCCTAAACCCT
1 TAAACCCTAAATTATAAATCCTAAACCCT
148605 TATTTCAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.02
42 59 0.97
43 1 0.02
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.26
Consensus pattern (42 bp):
TAAACCCTAAATTATAAATCCTAAACCCTAAACCTTAAGCCA
Found at i:150465 original size:11 final size:11
Alignment explanation
Indices: 150451--150527 Score: 73
Period size: 11 Copynumber: 6.8 Consensus size: 11
150441 TCGAGCATGT
150451 ATCGAGCTTAA
1 ATCGAGCTTAA
150462 ATCGAGCTTAAA
1 ATCGAGCTT-AA
* *
150474 ATCGAGTTTGA
1 ATCGAGCTTAA
*
150485 ATCGAACTTAAA
1 ATCGAGCTT-AA
*
150497 ATCGAGCTTGA
1 ATCGAGCTTAA
* * *
150508 ATAGAGTTTCA
1 ATCGAGCTTAA
150519 ATCGAGCTT
1 ATCGAGCTT
150528 GAGTCTTGAG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
11 33 0.63
12 19 0.37
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (11 bp):
ATCGAGCTTAA
Found at i:150477 original size:12 final size:12
Alignment explanation
Indices: 150451--150505 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
150441 TCGAGCATGT
150451 ATCGAGCTT-AA
1 ATCGAGCTTAAA
150462 ATCGAGCTTAAA
1 ATCGAGCTTAAA
**
150474 ATCGAG-TTTGA
1 ATCGAGCTTAAA
*
150485 ATCGAACTTAAA
1 ATCGAGCTTAAA
150497 ATCGAGCTT
1 ATCGAGCTT
150506 GAATAGAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
11 17 0.47
12 19 0.53
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (12 bp):
ATCGAGCTTAAA
Found at i:150479 original size:23 final size:23
Alignment explanation
Indices: 150451--150529 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 23
150441 TCGAGCATGT
*
150451 ATCGAGCTTAAATCGAGCTTAAA
1 ATCGAGCTTGAATCGAGCTTAAA
* *
150474 ATCGAGTTTGAATCGAACTTAAA
1 ATCGAGCTTGAATCGAGCTTAAA
* **
150497 ATCGAGCTTGAATAGAG-TTTCA
1 ATCGAGCTTGAATCGAGCTTAAA
150519 ATCGAGCTTGA
1 ATCGAGCTTGA
150530 GTCTTGAGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 14 0.29
23 34 0.71
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.29
Consensus pattern (23 bp):
ATCGAGCTTGAATCGAGCTTAAA
Found at i:150489 original size:34 final size:34
Alignment explanation
Indices: 150451--150527 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
150441 TCGAGCATGT
* *
150451 ATCGAGCTT-AAATCGAGCTTAAAATCGAGTTTGA
1 ATCGAGCTTAAAATCGAGCTT-AAATAGAGTTTCA
* *
150485 ATCGAACTTAAAATCGAGCTTGAATAGAGTTTCA
1 ATCGAGCTTAAAATCGAGCTTAAATAGAGTTTCA
150519 ATCGAGCTT
1 ATCGAGCTT
150528 GAGTCTTGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 26 0.70
35 11 0.30
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (34 bp):
ATCGAGCTTAAAATCGAGCTTAAATAGAGTTTCA
Found at i:151210 original size:18 final size:17
Alignment explanation
Indices: 151183--151220 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
151173 GGAGAGAACA
*
151183 AAATAAAAAATATATAT
1 AAATAAAAAATATAAAT
151200 AAATAAAAAAATATAAAT
1 AAAT-AAAAAATATAAAT
151218 AAA
1 AAA
151221 AAGACTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAAAATATAAAT
Found at i:151215 original size:14 final size:14
Alignment explanation
Indices: 151196--151222 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
151186 TAAAAAATAT
151196 ATATAAATAAAAAA
1 ATATAAATAAAAAA
151210 ATATAAATAAAAA
1 ATATAAATAAAAA
151223 GACTATTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
ATATAAATAAAAAA
Found at i:152643 original size:13 final size:13
Alignment explanation
Indices: 152621--152682 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
152611 AAAAAAATAA
*
152621 AATAAAAATAAAT
1 AATAATAATAAAT
*
152634 AATGATAATAATAAT
1 AATAATAAT-A-AAT
*
152649 AATAAATAATAAAA
1 AAT-AATAATAAAT
*
152663 AATAATAAAAAAT
1 AATAATAATAAAT
152676 AATAATA
1 AATAATA
152683 TATCCTAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
13 22 0.55
14 6 0.15
15 7 0.17
16 5 0.12
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.26
Consensus pattern (13 bp):
AATAATAATAAAT
Found at i:152645 original size:9 final size:9
Alignment explanation
Indices: 152616--152682 Score: 63
Period size: 10 Copynumber: 7.8 Consensus size: 9
152606 AACGAAAAAA
152616 AATAA-AAT
1 AATAATAAT
*
152624 AAAAATAAAT
1 AATAAT-AAT
*
152634 AATGATAAT
1 AATAATAAT
152643 AATAATAAT
1 AATAATAAT
152652 AAATAATAA-
1 -AATAATAAT
152661 AA-AATAAT
1 AATAATAAT
152669 AA-AA-AAT
1 AATAATAAT
152676 AATAATA
1 AATAATA
152683 TATCCTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
7 10 0.20
8 12 0.24
9 12 0.24
10 15 0.31
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.25
Consensus pattern (9 bp):
AATAATAAT
Found at i:152646 original size:3 final size:3
Alignment explanation
Indices: 152616--152682 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
152606 AACGAAAAAA
* *
152616 AAT AA- AAT AAA AAT AAAT AAT GAT AAT AAT AAT AAT AAAT AAT AA-
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
152661 AA- AAT AAT AA- AA- AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
152683 TATCCTAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
2 10 0.18
3 39 0.71
4 6 0.11
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:152870 original size:37 final size:37
Alignment explanation
Indices: 152793--153067 Score: 304
Period size: 37 Copynumber: 7.2 Consensus size: 37
152783 TTATTTTAAA
* *
152793 ATATTATATAAGTTTACAAAAAAATGTTTTTTAAAATTAT
1 ATATTATATAATTTTTC--AAAAATG-TTTTTAAAATTAT
152833 ATATTATATAATTTTTCAAAAATGTTTTTAAAATTAT
1 ATATTATATAATTTTTCAAAAATGTTTTTAAAATTAT
* **
152870 ATATTACATAATTTTTCCAAAAATGTGTTTTAAAACAAT
1 ATATTATATAATTTTT-CAAAAATGT-TTTTAAAATTAT
* **
152909 ATATTATATAATTTTTAAAAAATGTTTTTAAAGCTAT
1 ATATTATATAATTTTTCAAAAATGTTTTTAAAATTAT
* *
152946 ATATTATATAATTTTTCAACAAA-ATTTTAAAAATTAT
1 ATATTATATAATTTTTCAA-AAATGTTTTTAAAATTAT
* * *
152983 ATACTATATAAGTTTTC-AAAAT-TTTTTAAAAACTAT
1 ATATTATATAATTTTTCAAAAATGTTTTT-AAAATTAT
* *
153019 ATAATATATAAATTTTCAAAAATCGTTTTCTGAAAATTAT
1 ATATTATATAATTTTTCAAAAAT-GTTTT-T-AAAATTAT
153059 ATATTATAT
1 ATATTATAT
153068 TTTGCCAAAA
Statistics
Matches: 203, Mismatches: 23, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
35 7 0.03
36 23 0.11
37 86 0.42
38 27 0.13
39 29 0.14
40 31 0.15
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (37 bp):
ATATTATATAATTTTTCAAAAATGTTTTTAAAATTAT
Found at i:152911 original size:76 final size:74
Alignment explanation
Indices: 152793--153067 Score: 313
Period size: 76 Copynumber: 3.6 Consensus size: 74
152783 TTATTTTAAA
* *
152793 ATATTATATAAGTTTACAAAAAAATGTTTTTTAAAATTATATATTATATAATTTTTCAAAAATGT
1 ATATTATATAATTTTTC--AAAAATG-TTTTTAAAATTATATATTATATAATTTTTCAAAAATGT
*
152858 TTTTAAAATTAT
63 TTTTAAAACTAT
* ** *
152870 ATATTACATAATTTTTCCAAAAATGTGTTTTAAAACAATATATTATATAATTTTTAAAAAATGTT
1 ATATTATATAATTTTT-CAAAAATGT-TTTTAAAATTATATATTATATAATTTTTCAAAAATGTT
*
152935 TTTAAAGCTAT
64 TTTAAAACTAT
* * * *
152946 ATATTATATAATTTTTCAACAAA-ATTTTAAAAATTATATACTATATAAGTTTTC-AAAAT-TTT
1 ATATTATATAATTTTTCAA-AAATGTTTTTAAAATTATATATTATATAATTTTTCAAAAATGTTT
153008 TTAAAAACTAT
65 TT-AAAACTAT
* *
153019 ATAATATATAAATTTTCAAAAATCGTTTTCTGAAAATTATATATTATAT
1 ATATTATATAATTTTTCAAAAAT-GTTTT-T-AAAATTATATATTATAT
153068 TTTGCCAAAA
Statistics
Matches: 168, Mismatches: 22, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
72 8 0.05
73 29 0.17
74 27 0.16
75 5 0.03
76 85 0.51
77 13 0.08
78 1 0.01
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (74 bp):
ATATTATATAATTTTTCAAAAATGTTTTTAAAATTATATATTATATAATTTTTCAAAAATGTTTT
TAAAACTAT
Found at i:152947 original size:113 final size:110
Alignment explanation
Indices: 152793--153067 Score: 320
Period size: 113 Copynumber: 2.4 Consensus size: 110
152783 TTATTTTAAA
** *
152793 ATATTATATAAGTTTACAAAAAAATGTTTTTTAAAATTATATATTATATAATTTTTCAA-AAATG
1 ATATTATATAA-TTT-TTAAAAAATG-TTTTTAAAATTATATATTATATAATTTTTCAACAAA-A
* * *
152857 TTTTTAAAATTATATATTACATAATTTTTCCAAAAATGTGTTTT-AAAACAAT
62 TTTTAAAAATTATATACTACATAAGTTTT-C-AAAAT-T-TTTTAAAAACAAT
**
152909 ATATTATATAATTTTTAAAAAATGTTTTTAAAGCTATATATTATATAATTTTTCAACAAAATTTT
1 ATATTATATAATTTTTAAAAAATGTTTTTAAAATTATATATTATATAATTTTTCAACAAAATTTT
* *
152974 AAAAATTATATACTATATAAGTTTTCAAAATTTTTTAAAAACTAT
66 AAAAATTATATACTACATAAGTTTTCAAAATTTTTTAAAAACAAT
* * *
153019 ATAATATATAAATTTTCAAAAATCGTTTTCTGAAAATTATATATTATAT
1 ATATTATATAATTTTTAAAAAAT-GTTTT-T-AAAATTATATATTATAT
153068 TTTGCCAAAA
Statistics
Matches: 139, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
109 4 0.03
110 28 0.20
111 10 0.07
112 2 0.01
113 70 0.50
114 11 0.08
115 3 0.02
116 11 0.08
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (110 bp):
ATATTATATAATTTTTAAAAAATGTTTTTAAAATTATATATTATATAATTTTTCAACAAAATTTT
AAAAATTATATACTACATAAGTTTTCAAAATTTTTTAAAAACAAT
Found at i:153124 original size:12 final size:12
Alignment explanation
Indices: 153107--153145 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
153097 TACTATATAC
153107 ATATATATGTAT
1 ATATATATGTAT
*
153119 ATATATATATAT
1 ATATATATGTAT
* *
153131 ATATTTGTGTAT
1 ATATATATGTAT
153143 ATA
1 ATA
153146 AACAAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:153145 original size:2 final size:2
Alignment explanation
Indices: 153100--153134 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
153090 ACTATATTAC
* *
153100 TA TA TA CA TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
153135 TTGTGTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:154150 original size:84 final size:83
Alignment explanation
Indices: 153675--154619 Score: 804
Period size: 84 Copynumber: 11.4 Consensus size: 83
153665 ATTTTATTGA
* * ** * *
153675 CAGATAACCCTTCTTGCCTTGGGCTATGCTATAAATAATGTACCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
153740 CTCGAAGGTC-TT--TGG
66 CTCGAAGGTCTTTGGTGG
* * * * *
153755 CATATAGCCCTTCTAGTCTTGGGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
153820 CTCGAAGGT-TTT--TGG
66 CTCGAAGGTCTTTGGTGG
* * * * * *
153835 CAGATAGCCCTTCTAGCCTTGAGCTATAC--CATATATGATGTGTCGTT-GAGTTGAGTGTAATC
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCA-A-ATGATGTG-CCTTGGAGCTGAGCGTAGTC
* * *
153897 GAACTCAAATGTCTTTGTTGG
63 GAACTCGAAGGTCTTTGGTGG
* * * * * * * *
153918 CATATAACCCTTGTAGCCTTGAGTTATCCTGCAAATGATGTGCCCTCGAAGCTGAGCGTGGTCTA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
153983 ACTCGAAGGTC-TT--TGG
65 ACTCGAAGGTCTTTGGTGG
* * * * * * * * * *
153999 CATATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGTCTTAGAGTTGAGCGTAGTTGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
154064 CTCGAAAGTCATTTGGTGA
66 CTCGAAGGTC-TTTGGTGG
* * * *
154083 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCAAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* * * *
154148 CTCAAAGGTATTTTAGTGA
66 CTCGAAGGT-CTTTGGTGG
* * ** * * * * **
154167 CATATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATTAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
*
154232 ACTCGAGGGTC-TT--TGG
65 ACTCGAAGGTCTTTGGTGG
* * * * *
154248 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGACCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
154313 CTTGAAAGTCTTTGGTTGG
66 CTCGAAGGTCTTTGG-TGG
* * * * * * * * *
154332 TAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATGCATTGGAGTTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
*
154397 CTCGAAGGTCTTTTGGTGA
66 CTCGAAGGTC-TTTGGTGG
* * * * *
154416 CAGATAACCCTTCTAGCTTTGAGTTATGTTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
* *
154481 CTTGAAGGTCTTTGTATGG
66 CTCGAAGGTCTTTG-GTGG
* * ** * * * * * * *
154500 CAGATAGCCCTTCTCGATTTAAGCTATGCTGCAAGTGTTGTGACTTTGAGCTGAACGTAATCGAA
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
**
154565 CTCGAAGGTCTTTTATTGG
66 CTCGAAGGTC-TTTGGTGG
* *
154584 CAGACAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
1 CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAAT
154620 AGTTTTTTTT
Statistics
Matches: 694, Mismatches: 148, Indels: 42
0.79 0.17 0.05
Matches are distributed among these distances:
78 1 0.00
79 1 0.00
80 174 0.25
81 82 0.12
82 2 0.00
83 45 0.06
84 354 0.51
85 35 0.05
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (83 bp):
CAGATAACCCTTCTAGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTGG
Found at i:154245 original size:249 final size:248
Alignment explanation
Indices: 153665--154619 Score: 1044
Period size: 249 Copynumber: 3.8 Consensus size: 248
153655 GAACTCGATA
* * * * * * * *
153665 ATTTTATTGACAGATAACCCTTCTTGCCTTGGGCTATGCTATAAATAATGT-ACCTTGGAGCTGA
1 ATTTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGA
* * * ** *
153729 GCGTAGTCGAACTCGAAGGTCTTTGGCATATAGCCCTTCTAGTCTTGGGCTATGCTGTAAATGAT
66 GCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* *
153794 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTT--TGGCAGATAGCCCTTCTAGCCTTG
131 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTGGTGGCAGATAACCCTTCTAGCCTTG
* * * * * * * * * *
153856 AGCTATACCATATATGATGTGTCGTT-GAGTTGAGTGTAATCGAACTCAAATGT
196 AGTTATGCTACAAATGATATG-CATTGGAGTTGAGCGTAGTCGAACTCAAAGGT
* * * * * **
153909 -CTTT-GTTGGCATATAACCCTTGTAGCCTTGAGTTATCCTGCAAATGATGTGCCCTCGAAGCTG
1 ATTTTAG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTG
* * * *
153972 AGCGTGGTCTAACTCGAAGGTCTTTGGCATATAGCCCTTCTCGACTTAAGCTATACTGCAAATGA
65 AGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGA
* * * * *
154037 TGTGTCTTAGAGTTGAGCGTAGTTGAACTCGAAAGTCATTTGGTGACAGATAACCCTTCTAGCCT
130 TGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTC-TTTGGTGGCAGATAACCCTTCTAGCCT
** * * *
154102 TGAGTTATGCTGTAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGT
194 TGAGTTATGCTACAAATGATATGCATTGGAGTTGAGCGTAGTCGAACTCAAAGGT
*
154157 ATTTTAGTGACATATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGA
1 ATTTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGA
* * ** *
154222 GTGTAATTAAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
66 GCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* * * * *
154287 GTGCCTTGGACCTGAGCGTAGTCGAACTTGAAAGTCTTTGGTTGGTAGATAACCCTTCTCGACTT
131 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTGG-TGGCAGATAACCCTTCTAGCCTT
* *
154352 AAGTTATGCTACAAATGATATGCATTGGAGTTGAGCGTAGTCGAACTCGAAGGT
195 GAGTTATGCTACAAATGATATGCATTGGAGTTGAGCGTAGTCGAACTCAAAGGT
* * * * * * * *
154406 CTTTTGGTGACAGATAACCCTTCTAGCTTTGAGTTATGTTGTAAATGATATG-CCTTGGAGCTGA
1 ATTTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGA
* * *
154470 GCGTAGTCGAACTTGAAGGTCTTTGTATGGCAGATAGCCCTTCTCGATTTAAGCTATGCTGCAAG
66 GCGTAGTCGAACTCGAAGGTC--T-T-TGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
* * * * * * ** *
154535 TGTTGTGACTTTGAGCTGAACGTAATCGAACTCGAAGGTCTTTTATTGGCAGACAACCCTTCTAG
127 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTC-TTTGGTGGCAGATAACCCTTCTAG
*
154600 CCTTGAGTTATGCTGCAAAT
191 CCTTGAGTTATGCTACAAAT
154620 AGTTTTTTTT
Statistics
Matches: 590, Mismatches: 106, Indels: 22
0.82 0.15 0.03
Matches are distributed among these distances:
243 37 0.06
244 97 0.16
246 3 0.01
247 3 0.01
248 89 0.15
249 254 0.43
250 2 0.00
251 1 0.00
252 101 0.17
253 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (248 bp):
ATTTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGA
GCGTAGTCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGAT
GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTGGTGGCAGATAACCCTTCTAGCCTTG
AGTTATGCTACAAATGATATGCATTGGAGTTGAGCGTAGTCGAACTCAAAGGT
Found at i:154513 original size:333 final size:328
Alignment explanation
Indices: 153675--154513 Score: 928
Period size: 333 Copynumber: 2.5 Consensus size: 328
153665 ATTTTATTGA
* * ** * * *
153675 CAGATAACCCTTCTTGCCTTGGGCTATGCTATAAAT-A-ATGTACCTTGGAGCTGAGCGTAGTCG
1 CAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATATGT--CTTGGAGTTGAGCGTAGTCG
* * * * *
153738 AACTCGAAGGTCTTT-G-G-CATATAGCCCTTCTAG-TCTTGGGCTATGCTGTAAATGATGTGCC
64 AACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCT-TTGAGTTATGCTGTAAATGATATGCC
153799 TTGGAGCTGAGCGTAGTCGAACTCGAAGG-TTTT-TGGCAGATAGCCCTTCTAGCCTTGAGCTAT
128 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTATGGCAGATAGCCCTTCTAGCCTTGAGCTAT
* * * * * * * *
153862 ACCATATATGATGTGTCGTTGAGTTGAGTGTAATCGAACTCAAATGTCTTTGTTGGCATATAACC
193 ACCATAAATGATGTGCCCTCGAGCTGAGTGTAATCAAACTCAAAGGTC-TTGTTGGCAGATAACC
* * * * * * * *
153927 CTTGTAGCCTTGAGTTATCCTGCAAATGATGTGCCCTCGAAGCTGAGCGTGGTCTAACTCGAAGG
257 CTTCTAGACTTAAGCTATCCTGCAAATGATGTGCCCTCGAACCTGAGCGTAGTCGAACTCGAAAG
153992 TCTTTGG
322 TCTTTGG
* * * * * *
153999 CATATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGTCTTAGAGTTGAGCGTAGTTGAA
1 CAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATATGTCTTGGAGTTGAGCGTAGTCGAA
* *
154064 CTCGAAAGTCATTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCTT
66 CTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCTTTGAGTTATGCTGTAAATGATATGCCTT
* * * * * *
154129 GGAGCTGAGCGTAGTCAAACTCAAAGGTATTTTAGTGACATATAACCCTTCTAGCCTTGAGTTAT
130 GGAGCTGAGCGTAGTCGAACTCGAAGGT-TTTTA-TGGCAGATAGCCCTTCTAGCCTTGAGCTAT
* * * * * *
154194 GCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATTAAACTCGAGGGTC-T-TTGGCAGATAGCC
193 ACCATAAATGATGTGCCCTCG-AGCTGAGTGTAATCAAACTCAAAGGTCTTGTTGGCAGATAACC
* * * * *
154257 CTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGACCTGAGCGTAGTCGAACTTGAAAG
257 CTTCTAGACTTAAGCTATCCTGCAAATGATGTGCCCTCGAACCTGAGCGTAGTCGAACTCGAAAG
154321 TCTTTGGTTGG
322 TC--T--TTGG
* * *
154332 TAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATG-CATTGGAGTTGAGCGTAGTCGA
1 CAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATATGTC-TTGGAGTTGAGCGTAGTCGA
*
154396 ACTCGAAGGTCTTTTGGTGACAGATAACCCTTCTAGCTTTGAGTTATGTTGTAAATGATATGCCT
65 ACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCTTTGAGTTATGCTGTAAATGATATGCCT
*
154461 TGGAGCTGAGCGTAGTCGAACTTGAAGGTCTTTGTATGGCAGATAGCCCTTCT
129 TGGAGCTGAGCGTAGTCGAACTCGAAGGT-TTT-TATGGCAGATAGCCCTTCT
154514 CGATTTAAGC
Statistics
Matches: 424, Mismatches: 73, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
324 55 0.13
325 4 0.01
326 4 0.01
327 1 0.00
328 64 0.15
329 26 0.06
330 42 0.10
331 2 0.00
332 42 0.10
333 182 0.43
334 2 0.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (328 bp):
CAGATAACCCTTCTCGACTTAAGCTATACTACAAATGATATGTCTTGGAGTTGAGCGTAGTCGAA
CTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCTTTGAGTTATGCTGTAAATGATATGCCTTG
GAGCTGAGCGTAGTCGAACTCGAAGGTTTTTATGGCAGATAGCCCTTCTAGCCTTGAGCTATACC
ATAAATGATGTGCCCTCGAGCTGAGTGTAATCAAACTCAAAGGTCTTGTTGGCAGATAACCCTTC
TAGACTTAAGCTATCCTGCAAATGATGTGCCCTCGAACCTGAGCGTAGTCGAACTCGAAAGTCTT
TGG
Found at i:155830 original size:83 final size:87
Alignment explanation
Indices: 155725--155948 Score: 253
Period size: 95 Copynumber: 2.5 Consensus size: 87
155715 GGCTAGCTGA
* *
155725 ATCCATAAAG-TCGGGGCATTTAACAAATTGCTCTAGAGGGACAACTTA-ATAT-ATA-AA-CAC
1 ATCCATAAAGCT-GGGGCGTTTAACCAATTGCTCTAGAGGGACAACTTATATATAATATAATCAC
* * *
155785 CTTTATCAGGTTAGTTGAATCTT
65 CTTTATCAGGCTAGCTGAATATT
155808 ATCCATAAAGCTGGGGCGTTTAACCAATTGC-CTTAGAGGGACAACTCAAGCTTTATTATATAAT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTC-TAGAGGG---A--CAA-C-TTA-TATATAAT
*
155872 ATAATTACCTTTATCAGGCTAGCTGAATATT
57 ATAATCACCTTTATCAGGCTAGCTGAATATT
*
155903 ATCCATAAAGCCGGGGCGTTTAACCAATTGCTCTAGAGGGACAACT
1 ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACT
155949 CAAGCTTTAT
Statistics
Matches: 119, Mismatches: 7, Indels: 25
0.79 0.05 0.17
Matches are distributed among these distances:
82 1 0.01
83 34 0.29
84 1 0.01
86 1 0.01
88 4 0.03
89 2 0.02
90 6 0.05
92 5 0.04
93 3 0.03
94 2 0.02
95 59 0.50
96 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (87 bp):
ATCCATAAAGCTGGGGCGTTTAACCAATTGCTCTAGAGGGACAACTTATATATAATATAATCACC
TTTATCAGGCTAGCTGAATATT
Found at i:155884 original size:95 final size:96
Alignment explanation
Indices: 155773--155972 Score: 314
Period size: 95 Copynumber: 2.1 Consensus size: 96
155763 GGACAACTTA
** * * * *
155773 ATATATAAACACCTTTATCAGGTTAGTTGAATCTTATCCATAAAGCTGGGGCGTTTAACCAATTG
1 ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG
155838 C-CTTAGAGGGACAACTCAAGCTTTATTATAT
66 CTC-TAGAGGGACAACTCAAGCTTTATTATAT
155869 A-ATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG
1 ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG
*
155933 CTCTAGAGGGACAACTCAAGCTTTATTGTAT
66 CTCTAGAGGGACAACTCAAGCTTTATTATAT
155964 ATATATAAT
1 ATATATAAT
155973 ATTATAATAT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
95 86 0.91
96 9 0.09
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (96 bp):
ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTG
CTCTAGAGGGACAACTCAAGCTTTATTATAT
Found at i:159413 original size:14 final size:15
Alignment explanation
Indices: 159385--159422 Score: 69
Period size: 14 Copynumber: 2.6 Consensus size: 15
159375 AGAGAGAACA
159385 AAATAAAAAATATAT
1 AAATAAAAAATATAT
159400 AAATAAAAAA-ATAT
1 AAATAAAAAATATAT
159414 AAATAAAAA
1 AAATAAAAA
159423 GAGTATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
AAATAAAAAATATAT
Found at i:160874 original size:10 final size:10
Alignment explanation
Indices: 160861--160913 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
160851 AAAAAACAAA
*
160861 AAATAAAAAT
1 AAATAATAAT
*
160871 AAATAATGAT
1 AAATAATAAT
160881 GATAATAATAA-
1 -A-AATAATAAT
160892 ATAATAATAAT
1 A-AATAATAAT
160903 AAATAATAAT
1 AAATAATAAT
160913 A
1 A
160914 TATCCTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
10 28 0.76
11 2 0.05
12 7 0.19
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (10 bp):
AAATAATAAT
Found at i:160887 original size:16 final size:16
Alignment explanation
Indices: 160862--160913 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
160852 AAAAACAAAA
*
160862 AATAAAAATAAATAAT
1 AATAATAATAAATAAT
* *
160878 GATGATAAT-AATAAAT
1 AATAATAATAAAT-AAT
160894 AATAATAATAAATAAT
1 AATAATAATAAATAAT
160910 AATA
1 AATA
160914 TATCCTAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:160888 original size:3 final size:3
Alignment explanation
Indices: 160862--160913 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
160852 AAAAACAAAA
* * *
160862 AAT AAA AAT AAAT AAT GAT GAT AAT AAT AAAT AAT AAT AAT AAAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT -AAT AAT
160910 AAT A
1 AAT A
160914 TATCCTAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
3 33 0.79
4 9 0.21
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:160898 original size:13 final size:13
Alignment explanation
Indices: 160882--160913 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
160872 AATAATGATG
160882 ATAATAATAAATA
1 ATAATAATAAATA
160895 ATAATAATAAATA
1 ATAATAATAAATA
160908 ATAATA
1 ATAATA
160914 TATCCTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATAATAAATA
Found at i:161069 original size:41 final size:41
Alignment explanation
Indices: 161023--161124 Score: 125
Period size: 44 Copynumber: 2.4 Consensus size: 41
161013 TTATTTTAAA
*
161023 ATATTATATAAGTTTTCAGAAAAAATGTTT-TTTAAAATTAT
1 ATATTATATAATTTTTCA-AAAAAATGTTTATTTAAAATTAT
** *
161064 ATATTATATAATTTTTCAAAAATGTTTTTAAAATTTAAAATTAT
1 ATATTATATAATTTTTCAAAAAAATGTTT---ATTTAAAATTAT
161108 ATATTATATAATTTTTC
1 ATATTATATAATTTTTC
161125 CAATTTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
40 8 0.15
41 17 0.32
44 28 0.53
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (41 bp):
ATATTATATAATTTTTCAAAAAAATGTTTATTTAAAATTAT
Found at i:161107 original size:37 final size:39
Alignment explanation
Indices: 161025--161110 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 39
161015 ATTTTAAAAT
*
161025 ATTATATAAGTTTTCAGAAAAAATGTTTTTTAAAATTATAT
1 ATTATATAAGTTTTC--AAAAAATGTTTTTTAAAATTATAA
*
161066 ATTATATAATTTTTC-AAAAATG-TTTTTAAAATT-TAAA
1 ATTATATAAGTTTTCAAAAAATGTTTTTTAAAATTAT-AA
161103 ATTATATA
1 ATTATATA
161111 TTATATAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 1 0.02
37 20 0.48
38 7 0.17
41 14 0.33
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (39 bp):
ATTATATAAGTTTTCAAAAAATGTTTTTTAAAATTATAA
Found at i:161149 original size:43 final size:44
Alignment explanation
Indices: 161055--161153 Score: 130
Period size: 44 Copynumber: 2.3 Consensus size: 44
161045 AAATGTTTTT
**
161055 TAAAATTATATATTATATAATTTTTCAAAAATGTTTTTAAAATT
1 TAAAATTATATATTATATAATTTTTCAAAAATGTTTTTAAAAAA
* * *
161099 TAAAATTATATATTATATAATTTTTC-CAATTTTTTTTAAAACAA
1 TAAAATTATATATTATATAATTTTTCAAAAATGTTTTTAAAA-AA
161143 T-AAATTATATA
1 TAAAATTATATA
161154 ATTTTTCAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 22 0.45
44 27 0.55
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.49
Consensus pattern (44 bp):
TAAAATTATATATTATATAATTTTTCAAAAATGTTTTTAAAAAA
Found at i:161220 original size:36 final size:35
Alignment explanation
Indices: 161045--161288 Score: 190
Period size: 36 Copynumber: 6.7 Consensus size: 35
161035 TTTTCAGAAA
161045 AAATGTTTTTTAAAATTATATATTATATAATTTTTC
1 AAAT-TTTTTTAAAATTATATATTATATAATTTTTC
161081 AAAAATGTTTTTAAAATTTAAAATTATATATTATATAATTTTTCC
1 --AAA---TTTT----TTTAAAATTATATATTATATAATTTTT-C
* ** *
161126 AATTTTTTTTAAAACAATAAATTATATAATTTTTC
1 AAATTTTTTTAAAATTATATATTATATAATTTTTC
* **
161161 --A-GTTTTTAAAGCTATATATTATATAATTTTTC
1 AAATTTTTTTAAAATTATATATTATATAATTTTTC
* *
161193 AAATTTTTTTAAAATTTATATACTATATAAATTTTC
1 AAATTTTTTTAAAA-TTATATATTATATAATTTTTC
* * * *
161229 AAAATGTTTT-AAATTATACAATATATAAATGTTTTC
1 AAATTTTTTTAAAATTATATATTATAT-AAT-TTTTC
* *
161265 AAAATATTTTCAAAATTATATATT
1 -AAATTTTTTTAAAATTATATATT
161289 TTAAAAATAT
Statistics
Matches: 165, Mismatches: 25, Indels: 32
0.74 0.11 0.14
Matches are distributed among these distances:
32 27 0.16
34 12 0.07
35 14 0.08
36 55 0.33
37 6 0.04
38 13 0.08
40 7 0.04
41 1 0.01
43 2 0.01
44 27 0.16
45 1 0.01
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.50
Consensus pattern (35 bp):
AAATTTTTTTAAAATTATATATTATATAATTTTTC
Found at i:161298 original size:11 final size:12
Alignment explanation
Indices: 161260--161307 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
161250 TATATAAATG
*
161260 TTTTCAAAATAT
1 TTTTAAAAATAT
*
161272 TTTCAAAATTATAT
1 TTTTAAAA--ATAT
161286 ATTTTAAAAATAT
1 -TTTTAAAAATAT
161299 TTTTAAAAA
1 TTTTAAAAA
161308 CTATATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 15 0.50
13 4 0.13
14 4 0.13
15 7 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTTAAAAATAT
Found at i:161312 original size:28 final size:27
Alignment explanation
Indices: 161260--161333 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 27
161250 TATATAAATG
* * *
161260 TTTTCAAAATATTTTCAAAATTATATA
1 TTTTAAAAATATTTTAAAAACTATATA
161287 TTTTAAAAATATTTTTAAAAACTATATA
1 TTTTAAAAATA-TTTTAAAAACTATATA
* * *
161315 ATATATAAAT-TTTTAAAAA
1 TTTTAAAAATATTTTAAAAA
161334 TTATTTTCTG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 9 0.22
27 10 0.25
28 21 0.52
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (27 bp):
TTTTAAAAATATTTTAAAAACTATATA
Found at i:161330 original size:38 final size:38
Alignment explanation
Indices: 161287--161399 Score: 120
Period size: 38 Copynumber: 2.9 Consensus size: 38
161277 AAATTATATA
161287 TTTTAAAAATATTTTTAAAAACTATATAATATATAAAT
1 TTTTAAAAATATTTTTAAAAACTATATAATATATAAAT
* * * **
161325 TTTTAAAAATTATTTTCTGAAAATTATATATTATAT-TTT
1 TTTTAAAAA-TATTTT-TAAAAACTATATAATATATAAAT
* * *
161364 TTTTAAAAATATTTTCACAAACTATATTACTATATA
1 TTTTAAAAATATTTTTAAAAACTATA-TAATATATA
161400 CATATATATA
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
37 7 0.11
38 22 0.36
39 16 0.26
40 16 0.26
ACGTcount: A:0.45, C:0.05, G:0.01, T:0.49
Consensus pattern (38 bp):
TTTTAAAAATATTTTTAAAAACTATATAATATATAAAT
Found at i:161406 original size:2 final size:2
Alignment explanation
Indices: 161394--161429 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
161384 ACTATATTAC
* *
161394 TA TA TA CA TA TA TA TA TA TA TA TG 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
161430 AATAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:166625 original size:106 final size:106
Alignment explanation
Indices: 166440--166645 Score: 279
Period size: 106 Copynumber: 1.9 Consensus size: 106
166430 GATGTAATAG
* * * * * *
166440 TGAAATGAAGTGATATATCACTGAAAAGTTTCTGTAATGAAGTGACTGAGCACTGAAAATTTGTT
1 TGAAATGAAGTGATATATCAATGAAAAGTGTCTGTAATGAAGTAACTGACCACTGAAAAGTTATT
* * *
166505 GTCATTGTGTATTAATTGGTGTATGAGAAAATAACGTTTTT
66 GTCATTGTGTATTAAATGGTATACGAGAAAATAACGTTTTT
* * *
166546 TGAAATGAAGTGATATATCAATGAAAAGTGTCTG-ATGTGAAGTAATTGACCATTGAAAAGTTAT
1 TGAAATGAAGTGATATATCAATGAAAAGTGTCTGTA-ATGAAGTAACTGACCACTGAAAAGTTAT
*
166610 TGTCTTTGTGTATTAAATGGTATACGAGAAAATAAC
65 TGTCATTGTGTATTAAATGGTATACGAGAAAATAAC
166646 ATATTAAATA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
105 1 0.01
106 85 0.99
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.35
Consensus pattern (106 bp):
TGAAATGAAGTGATATATCAATGAAAAGTGTCTGTAATGAAGTAACTGACCACTGAAAAGTTATT
GTCATTGTGTATTAAATGGTATACGAGAAAATAACGTTTTT
Found at i:166738 original size:22 final size:20
Alignment explanation
Indices: 166698--166736 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
166688 TCTAAAATGA
*
166698 AATGATATATGACTAAAAAT
1 AATGATATATCACTAAAAAT
166718 AATGATATATCACTAAAAA
1 AATGATATATCACTAAAAA
166737 AAATTCTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (20 bp):
AATGATATATCACTAAAAAT
Found at i:174981 original size:53 final size:53
Alignment explanation
Indices: 174878--174982 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
174868 TTTCTGGTTG
* *
174878 TCATGTTTTACAGATCAGAGGACTCATATCACCTTCTCATACAATTTATATGA
1 TCATGTTTTACAGATCAGAGGACTCATATCACCTTCTCAGACAATCTATATGA
* ** * *
174931 TCATGTTTTACAGATCAGAGGATTTGTATCTCCTTCTCAGACGATCTATATG
1 TCATGTTTTACAGATCAGAGGACTCATATCACCTTCTCAGACAATCTATATG
174983 CCATCATCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (53 bp):
TCATGTTTTACAGATCAGAGGACTCATATCACCTTCTCAGACAATCTATATGA
Found at i:181363 original size:19 final size:19
Alignment explanation
Indices: 181339--181377 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
181329 TCGAATGCAT
181339 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
181358 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
181377 T
1 T
181378 GAATATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:181393 original size:64 final size:63
Alignment explanation
Indices: 181276--181482 Score: 206
Period size: 64 Copynumber: 3.2 Consensus size: 63
181266 TATTCAAAGG
* *
181276 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAATTAATT-GAACATCGAATGCA
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAA-TATTTCAAACATCGAATGCA
*
181338 TTC
61 TTT
181341 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTC-AAACATCGAATGCATTT
* * *** * * * *
181405 GATGCATCGATGCACAAGCCATACATCGATGCAC-CAGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTG-AATATTTCAAACATCGAATGCATTT
*
181468 CATGCATCGATGCAC
1 CATGCACCGATGCAC
181483 ACTTGGTGCA
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
62 4 0.03
63 37 0.30
64 65 0.52
65 16 0.13
66 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTCAAACATCGAATGCATTT
Found at i:183598 original size:20 final size:21
Alignment explanation
Indices: 183565--183604 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
183555 TTTTAACGTA
183565 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
183585 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
183605 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:183612 original size:22 final size:20
Alignment explanation
Indices: 183564--183608 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
183554 ATTTTAACGT
183564 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
183584 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
183605 AATT
1 AATT
183609 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:188547 original size:21 final size:21
Alignment explanation
Indices: 188505--188548 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
188495 ACCCCGGGAG
*
188505 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
188526 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
188547 CT
1 CT
188549 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:189580 original size:19 final size:19
Alignment explanation
Indices: 189556--189594 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
189546 TCGAATGCAT
189556 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
189575 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
189594 T
1 T
189595 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:189611 original size:65 final size:64
Alignment explanation
Indices: 189493--189701 Score: 203
Period size: 65 Copynumber: 3.2 Consensus size: 64
189483 TATTCAAAGG
* *
189493 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCGATGAAT-TAATT-GAACATCGAATGC
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAATAT-TTTCAAACATCGAATGC
*
189554 ATTC
61 ATTT
189558 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTT
* * *** * * **
189623 GATGCATCGATGCACAAGCCATACATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTT
*
189687 CATGCATCGATGCAC
1 CATGCACCGATGCAC
189702 ACTTGGTGCA
Statistics
Matches: 125, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
63 7 0.06
64 52 0.42
65 64 0.51
66 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTT
Found at i:189719 original size:64 final size:65
Alignment explanation
Indices: 189542--189704 Score: 213
Period size: 65 Copynumber: 2.5 Consensus size: 65
189532 GAATTAATTG
* * * *
189542 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** * **
189607 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATACATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
189670 A
65 A
189671 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
189705 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:192299 original size:15 final size:16
Alignment explanation
Indices: 192273--192304 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
192263 AACATTACAG
192273 TTTAGCCCTATAAGTT
1 TTTAGCCCTATAAGTT
192289 TTTAG-CCTATAAGTT
1 TTTAGCCCTATAAGTT
192304 T
1 T
192305 ATTGAACACG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (16 bp):
TTTAGCCCTATAAGTT
Found at i:196024 original size:38 final size:39
Alignment explanation
Indices: 195972--196048 Score: 129
Period size: 38 Copynumber: 2.0 Consensus size: 39
195962 AACTTAACGG
*
195972 TCCGTCACATCTTTACCCATTTTGAGTAACA-AATGAAA
1 TCCGTCACAGCTTTACCCATTTTGAGTAACAGAATGAAA
*
196010 TCCGTCACGGCTTTACCCATTTTGAGTAACAGAATGAAA
1 TCCGTCACAGCTTTACCCATTTTGAGTAACAGAATGAAA
196049 CGTTAGGCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 29 0.81
39 7 0.19
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (39 bp):
TCCGTCACAGCTTTACCCATTTTGAGTAACAGAATGAAA
Found at i:196353 original size:13 final size:14
Alignment explanation
Indices: 196323--196354 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
196313 CTTAATTGCG
196323 AAAATTAAAAAGTT
1 AAAATTAAAAAGTT
196337 -AAATTAAAAA-TT
1 AAAATTAAAAAGTT
196349 AAAATT
1 AAAATT
196355 CATTCCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 15 0.88
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
AAAATTAAAAAGTT
Found at i:197602 original size:8 final size:9
Alignment explanation
Indices: 197586--197622 Score: 74
Period size: 9 Copynumber: 4.1 Consensus size: 9
197576 TTCTTGGACC
197586 TGAAAAAAA
1 TGAAAAAAA
197595 TGAAAAAAA
1 TGAAAAAAA
197604 TGAAAAAAA
1 TGAAAAAAA
197613 TGAAAAAAA
1 TGAAAAAAA
197622 T
1 T
197623 ATTATAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.14
Consensus pattern (9 bp):
TGAAAAAAA
Found at i:197659 original size:26 final size:26
Alignment explanation
Indices: 197628--197678 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
197618 AAAATATTAT
*
197628 AATATAAATAATAATAA-TATATAATG
1 AATAT-AATAATAAAAACTATATAATG
197654 AATATAATAATAAAAACTATATAAT
1 AATATAATAATAAAAACTATATAAT
197679 ACTATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
AATATAATAATAAAAACTATATAATG
Found at i:197679 original size:22 final size:22
Alignment explanation
Indices: 197617--197679 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 22
197607 AAAAAATGAA
197617 AAAAATATTATAATATAAATAAT
1 AAAAATA-TATAATATAAATAAT
*
197640 AATAATATATAATGAATATAATAAT
1 AAAAATATATAAT--ATA-AATAAT
197665 AAAAACTATATAATA
1 AAAAA-TATATAATA
197680 CTATATTTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 6 0.18
23 6 0.18
24 4 0.12
25 10 0.29
26 8 0.24
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAAATATATAATATAAATAAT
Found at i:197814 original size:87 final size:88
Alignment explanation
Indices: 197666--197836 Score: 247
Period size: 87 Copynumber: 2.0 Consensus size: 88
197656 TATAATAATA
* *
197666 AAAACTATATAATACTATATTTTCAAAAATATGTTTTCAAACATTATATTATACATTTTCAAAAA
1 AAAACTATATAATACTATATTTTCAAAAAAATATTTTCAAACATTATATTATACATTTTCAAAAA
* * *
197731 TTGTTTTTTTTAAACTATGTTTTC
66 TCG-ATTTTTAAAACTATGTTTTC
* * *
197755 AAAACTATATAATA-TATGTTTTTAAAAAAATATTTTCAAA-ATTATATTATATATTTTCAAAAA
1 AAAACTATATAATACTATATTTTCAAAAAAATATTTTCAAACATTATATTATACATTTTCAAAAA
197818 TCGATTTTTAAAACTATGT
66 TCGATTTTTAAAACTATGT
197837 ATTATATGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
86 14 0.19
87 24 0.32
88 22 0.30
89 14 0.19
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.46
Consensus pattern (88 bp):
AAAACTATATAATACTATATTTTCAAAAAAATATTTTCAAACATTATATTATACATTTTCAAAAA
TCGATTTTTAAAACTATGTTTTC
Found at i:197817 original size:35 final size:37
Alignment explanation
Indices: 197750--197902 Score: 163
Period size: 36 Copynumber: 4.2 Consensus size: 37
197740 TTAAACTATG
* * *
197750 TTTTCAAAACTATATAATATATGTTTTTAAAAAAATA
1 TTTTCAAAACTATATATTATATGTTTTCAAAAATATA
* **
197787 TTTTCAAAA-T-TATATTATATATTTTCAAAAATCGA
1 TTTTCAAAACTATATATTATATGTTTTCAAAAATATA
* * *
197822 TTTTTAAAACTATGTATTATATGTTTTCAAAACGT-T-
1 TTTTCAAAACTATATATTATATGTTTTCAAAA-ATATA
* *
197858 TTCTAAAAACTATATATTATATGTTTT-AAAAATATA
1 TTTTCAAAACTATATATTATATGTTTTCAAAAATATA
197894 TTTTCAAAA
1 TTTTCAAAA
197903 ACTACATTAT
Statistics
Matches: 94, Mismatches: 17, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
34 1 0.01
35 32 0.34
36 33 0.35
37 27 0.29
38 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (37 bp):
TTTTCAAAACTATATATTATATGTTTTCAAAAATATA
Found at i:205448 original size:32 final size:31
Alignment explanation
Indices: 205405--205465 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 31
205395 TTGAAAAAAT
*
205405 AATATAAATATATATTATTATAATTATCTCTA
1 AATATAAATATATATTATAAT-ATTATCTCTA
* *
205437 AATATATATATATTTTATAATATTATCTC
1 AATATAAATATATATTATAATATTATCTC
205466 GGATCTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (31 bp):
AATATAAATATATATTATAATATTATCTCTA
Found at i:214831 original size:176 final size:176
Alignment explanation
Indices: 214537--214885 Score: 680
Period size: 176 Copynumber: 2.0 Consensus size: 176
214527 TTGAAACTAA
214537 TGTACAAATAGGTGCAAACTAGCTACTAAAGTCTCATGTTTTCTTCTTTTATATCATATATGAAT
1 TGTACAAATAGGTGCAAACTAGCTACTAAAGTCTCATGTTTTCTTCTTTTATATCATATATGAAT
* *
214602 CTTGTATTCCTAATTTTTTATTCAGTTCTGAAATCTTCGAGATTGTTAGAGGATATGGCCTCAAG
66 ATTGTATTCCTAATTTTTTATTCAGTTATGAAATCTTCGAGATTGTTAGAGGATATGGCCTCAAG
214667 AGGGATTAAATATGTTGATTGTTATGGTGTTGATAATATATTGTTT
131 AGGGATTAAATATGTTGATTGTTATGGTGTTGATAATATATTGTTT
214713 TGTACAAATAGGTGCAAACTAGCTACTAAAGTCTCATGTTTTCTTCTTTTATATCATATATGAAT
1 TGTACAAATAGGTGCAAACTAGCTACTAAAGTCTCATGTTTTCTTCTTTTATATCATATATGAAT
214778 ATTGTATTCCTAATTTTTTATTCAGTTATGAAATCTTCGAGATTGTTAGAGGATATGGCCTCAAG
66 ATTGTATTCCTAATTTTTTATTCAGTTATGAAATCTTCGAGATTGTTAGAGGATATGGCCTCAAG
214843 AGGGATTAAATATGTTGATTGTTATGGTGTTGATAATATATTG
131 AGGGATTAAATATGTTGATTGTTATGGTGTTGATAATATATTG
214886 GTGAGTTTGT
Statistics
Matches: 171, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
176 171 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (176 bp):
TGTACAAATAGGTGCAAACTAGCTACTAAAGTCTCATGTTTTCTTCTTTTATATCATATATGAAT
ATTGTATTCCTAATTTTTTATTCAGTTATGAAATCTTCGAGATTGTTAGAGGATATGGCCTCAAG
AGGGATTAAATATGTTGATTGTTATGGTGTTGATAATATATTGTTT
Found at i:215627 original size:20 final size:20
Alignment explanation
Indices: 215604--215646 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
215594 CATCCTCATC
215604 GCAGCATCACCCTCTTTGTA
1 GCAGCATCACCCTCTTTGTA
215624 GCAGCATCACCCTCTTTGTA
1 GCAGCATCACCCTCTTTGTA
215644 GCA
1 GCA
215647 CAACCCCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.35, G:0.16, T:0.28
Consensus pattern (20 bp):
GCAGCATCACCCTCTTTGTA
Found at i:220516 original size:23 final size:23
Alignment explanation
Indices: 220488--220546 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
220478 TTTCATAATC
*
220488 AAAAACCCTGTTTACAAGAACCA
1 AAAAACTCTGTTTACAAGAACCA
* * *
220511 AAAAACTCTATTTACTAGAACCG
1 AAAAACTCTGTTTACAAGAACCA
220534 AAAAACTCTGTTT
1 AAAAACTCTGTTT
220547 CTACATTAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (23 bp):
AAAAACTCTGTTTACAAGAACCA
Found at i:227187 original size:18 final size:18
Alignment explanation
Indices: 227164--227199 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
227154 GTGTTTAGGA
227164 TGGTAAGGAAAGCTTTGT
1 TGGTAAGGAAAGCTTTGT
227182 TGGTAAGGAAAGCTTTGT
1 TGGTAAGGAAAGCTTTGT
227200 GACTAAGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.33
Consensus pattern (18 bp):
TGGTAAGGAAAGCTTTGT
Found at i:245662 original size:12 final size:12
Alignment explanation
Indices: 245647--245681 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
245637 ATTATTTAAA
245647 CGGGTATTGGGT
1 CGGGTATTGGGT
245659 CGGGTATTGGGT
1 CGGGTATTGGGT
245671 CGGGTATTGGG
1 CGGGTATTGGG
245682 CCAGGAATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.09, C:0.09, G:0.51, T:0.31
Consensus pattern (12 bp):
CGGGTATTGGGT
Found at i:245698 original size:24 final size:24
Alignment explanation
Indices: 245647--245701 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
245637 ATTATTTAAA
* * * * *
245647 CGGGTATTGGGTCGGGTATTGGGT
1 CGGGTATTGGGCCAGGAATCGGGC
245671 CGGGTATTGGGCCAGGAATCGGGC
1 CGGGTATTGGGCCAGGAATCGGGC
245695 CGGGTAT
1 CGGGTAT
245702 ATATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.15, G:0.47, T:0.25
Consensus pattern (24 bp):
CGGGTATTGGGCCAGGAATCGGGC
Found at i:245831 original size:13 final size:13
Alignment explanation
Indices: 245801--245845 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
245791 TTTAATATTT
*
245801 ATCGGGTCAGGT-
1 ATCGGGTCGGGTA
245813 ATCGGGTCGGGTA
1 ATCGGGTCGGGTA
*
245826 ATCGGGGCGGGTA
1 ATCGGGTCGGGTA
245839 ATCGGGT
1 ATCGGGT
245846 AATCGGGGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.16, C:0.16, G:0.47, T:0.22
Consensus pattern (13 bp):
ATCGGGTCGGGTA
Found at i:254202 original size:15 final size:15
Alignment explanation
Indices: 254184--254214 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
254174 GATATTTGAG
*
254184 TATATTTTATTCGGA
1 TATATGTTATTCGGA
254199 TATATGTTATTCGGA
1 TATATGTTATTCGGA
254214 T
1 T
254215 CAGGTCGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.52
Consensus pattern (15 bp):
TATATGTTATTCGGA
Found at i:265000 original size:29 final size:29
Alignment explanation
Indices: 264963--265039 Score: 136
Period size: 29 Copynumber: 2.7 Consensus size: 29
264953 GACTTGTTCG
* *
264963 GATGCCTATGTTTGCATGGTTCGGATTCA
1 GATGTCTATGTTTGCATGGTTCAGATTCA
264992 GATGTCTATGTTTGCATGGTTCAGATTCA
1 GATGTCTATGTTTGCATGGTTCAGATTCA
265021 GATGTCTATGTTTGCATGG
1 GATGTCTATGTTTGCATGG
265040 ATTCCAACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.40
Consensus pattern (29 bp):
GATGTCTATGTTTGCATGGTTCAGATTCA
Found at i:275135 original size:12 final size:13
Alignment explanation
Indices: 275118--275147 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
275108 TGGGGTATAG
275118 TTTTATTTGTA-A
1 TTTTATTTGTACA
275130 TTTTATTTGTACA
1 TTTTATTTGTACA
275143 TTTTA
1 TTTTA
275148 GAAATTACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTATTTGTACA
Found at i:277070 original size:18 final size:18
Alignment explanation
Indices: 277049--277083 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
277039 ATTTAGTCTT
277049 TAAACTTATTTTAATCTC
1 TAAACTTATTTTAATCTC
277067 TAAACTTATTTTAATCT
1 TAAACTTATTTTAATCT
277084 TCCATTTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAACTTATTTTAATCTC
Found at i:277464 original size:14 final size:14
Alignment explanation
Indices: 277445--277472 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
277435 TTTGGGGTGT
277445 AACCTAAAATATTA
1 AACCTAAAATATTA
277459 AACCTAAAATATTA
1 AACCTAAAATATTA
277473 TGAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (14 bp):
AACCTAAAATATTA
Found at i:278228 original size:30 final size:30
Alignment explanation
Indices: 278191--278325 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
278181 ATTGCTAAGT
278191 AGCACACGACGACCTCCATAAGTCTCCAGG
1 AGCACACGACGACCTCCATAAGTCTCCAGG
* *
278221 AACACACGACGACCTCCATAGGTCTCCAGG
1 AGCACACGACGACCTCCATAAGTCTCCAGG
* * *
278251 AGCATACGCCGACCTCCATAGGTCTCCAGG
1 AGCACACGACGACCTCCATAAGTCTCCAGG
* *
278281 AGCATAC-AGCGACCTCTAT-AGATCTCCAGG
1 AGCACACGA-CGACCTCCATAAG-TCTCCAGG
*
278311 AGCACACGTCGACCT
1 AGCACACGACGACCT
278326 ATGGAGTTGC
Statistics
Matches: 92, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.01
30 91 0.99
ACGTcount: A:0.28, C:0.36, G:0.21, T:0.16
Consensus pattern (30 bp):
AGCACACGACGACCTCCATAAGTCTCCAGG
Found at i:281869 original size:18 final size:19
Alignment explanation
Indices: 281825--281871 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
281815 GTTTTTCGGT
*
281825 GTTTCATCTTTAGATTCAA
1 GTTTCATTTTTAGATTCAA
* *
281844 -TTTAATTTTTTGATT-AA
1 GTTTCATTTTTAGATTCAA
281861 GTTTCATTTTT
1 GTTTCATTTTT
281872 GACGTTATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.09
18 21 0.91
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (19 bp):
GTTTCATTTTTAGATTCAA
Found at i:288132 original size:20 final size:20
Alignment explanation
Indices: 288107--288236 Score: 172
Period size: 20 Copynumber: 6.5 Consensus size: 20
288097 GTTTCCAGAT
288107 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* **
288127 TCGCAACGTGATAAT-ACATAA
1 TCGCAACGCGATTCTGAC-T-A
288148 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* *
288168 TCGCAACTCAATTCTGACTA
1 TCGCAACGCGATTCTGACTA
288188 TCGCAACGCGATTCTGACTA
1 TCGCAACGCGATTCTGACTA
* *
288208 ACGCAACGCGATTCTGACTG
1 TCGCAACGCGATTCTGACTA
288228 TCGCAACGC
1 TCGCAACGC
288237 TGAATTTCAA
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.02
20 76 0.81
21 14 0.15
22 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.24
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:288164 original size:41 final size:41
Alignment explanation
Indices: 288107--288215 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 41
288097 GTTTCCAGAT
*
288107 TCGCAACGCGATTCTGACTATCGCAACGT-GATAAT-ACATAA
1 TCGCAACGCGATTCTGACTATCGCAACGTCAATAATGAC-T-A
**
288148 TCGCAACGCGATTCTGACTATCGCAAC-TCAATTCTGACTA
1 TCGCAACGCGATTCTGACTATCGCAACGTCAATAATGACTA
*
288188 TCGCAACGCGATTCTGACTAACGCAACG
1 TCGCAACGCGATTCTGACTATCGCAACG
288216 CGATTCTGAC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
40 28 0.46
41 31 0.51
42 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (41 bp):
TCGCAACGCGATTCTGACTATCGCAACGTCAATAATGACTA
Found at i:289623 original size:26 final size:27
Alignment explanation
Indices: 289557--289623 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
289547 AAAACAAGGT
289557 GTATGATTGACAAAAACTGTACGTGGC
1 GTATGATTGACAAAAACTGTACGTGGC
289584 GTATGATTGACAAAAACTGTACGTGGC
1 GTATGATTGACAAAAACTGTACGTGGC
289611 GTATGATTG-CAAA
1 GTATGATTGACAAA
289624 GAGGATAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 4 0.10
27 36 0.90
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (27 bp):
GTATGATTGACAAAAACTGTACGTGGC
Found at i:291421 original size:18 final size:18
Alignment explanation
Indices: 291398--291432 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
291388 AGAAAAAGGC
*
291398 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
291416 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
291433 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:291742 original size:140 final size:140
Alignment explanation
Indices: 291490--292052 Score: 1036
Period size: 140 Copynumber: 4.0 Consensus size: 140
291480 GCAAACGTTG
291490 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
291555 TTGAACATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTACTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
291620 CGAATTTGAC
131 CGAATTTGAC
291630 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
291695 TTGAACATTACTATGATTTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTACTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
291760 CGAATTTGAC
131 CGAATTTGAC
*
291770 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGACATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
291835 TTGAACTTTACTATGATCTGTTCAGTTTTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTACTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
*
291900 CGAATTTGAT
131 CGAATTTGAC
*
291910 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTGGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
* *
291975 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATAGCAACG
66 TTGAACATTACTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
292040 CGAATTTGAC
131 CGAATTTGAC
292050 TAT
1 TAT
292053 CGAACCGCGA
Statistics
Matches: 409, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 409 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTACTATGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:292048 original size:20 final size:20
Alignment explanation
Indices: 292023--292336 Score: 281
Period size: 20 Copynumber: 16.6 Consensus size: 20
292013 TTACACATTC
* *
292023 ATTTGAATATAGCAACGCGA
1 ATTTGACTATCGCAACGCGA
292043 ATTTGACTATCG-AACCGCGA
1 ATTTGACTATCGCAA-CGCGA
*
292063 ATTTGACTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
292082 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
292097 ATTTGACTATAGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
292117 ATTTGACTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
*
292137 ATTTGACTATCACAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
292157 ATATGACTATCACAACGC-A
1 ATTTGACTATCGCAACGCGA
*
292176 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
292191 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
292211 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
292231 ATTTGACTATCGCAATGTGA
1 ATTTGACTATCGCAACGCGA
* *
292251 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
* *
292271 ATTTGACTATTGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
292291 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
292305 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
292325 A-TTGACTTTCGC
1 ATTTGACTATCGC
292337 GTTGCGATTT
Statistics
Matches: 241, Mismatches: 33, Indels: 41
0.77 0.10 0.13
Matches are distributed among these distances:
14 27 0.11
15 6 0.02
16 1 0.00
18 1 0.00
19 17 0.07
20 187 0.78
21 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:292267 original size:94 final size:94
Alignment explanation
Indices: 292023--292267 Score: 357
Period size: 94 Copynumber: 2.6 Consensus size: 94
292013 TTACACATTC
* * *
292023 ATTTGAATATAGCAACGCGAATTTGACTATCG-AACCGCGAATTTGACTATCGCAACTCAAAAAT
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAA-CGCGAATTTGACTATCGCAACGCAAAAAT
292087 CGCAACGCGAATTTGACTATAGCAACACGA
65 CGCAACGCGAATTTGACTATAGCAACACGA
* * * *
292117 ATTTGACTATCGCAACACGAATTTGACTATCACAACGCGAATATGACTATCACAACGCAAAAATC
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATC
* **
292182 GCAACGCGAATTTGACTATCGCAACGTGA
66 GCAACGCGAATTTGACTATAGCAACACGA
* * *
292211 ATTTGACTATCGCAACGCGAATTTGACTATCGCAATGTGAATTTGATTATCGCAACG
1 ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG
292268 GGAATTTGAC
Statistics
Matches: 133, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
94 131 0.98
95 2 0.02
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (94 bp):
ATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCAAAAATC
GCAACGCGAATTTGACTATAGCAACACGA
Found at i:292321 original size:54 final size:54
Alignment explanation
Indices: 292125--292336 Score: 205
Period size: 54 Copynumber: 3.8 Consensus size: 54
292115 GAATTTGACT
* * *
292125 ATCGCAACA-CGAATTTGACTATCACAACGCGAATATGACTATCACAACGCA-AAA
1 ATCGCAA-AGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG-AGAAA
* * *
292179 ATCGCAACGCGAATTTGACTATCGCAACGTGAATTTGACTATCGCAACGCGAATTTGA
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGAA----A
* * * * *
292237 CTATCGCAATGTGAATTTGATTATCGCAACGGGAATTTGACTATTGCAACGAGAAA
1 --ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGAAA
* * *
292293 ATCGCAAAGCGTATTAGACTATCGCAACGCGAA-TTGACTTTCGC
1 ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGACTATCGC
292337 GTTGCGATTT
Statistics
Matches: 130, Mismatches: 20, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
53 9 0.07
54 72 0.55
56 1 0.01
58 1 0.01
60 47 0.36
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (54 bp):
ATCGCAAAGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGAGAAA
Found at i:292389 original size:20 final size:20
Alignment explanation
Indices: 292326--292403 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
292316 GCAACGCGAA
*
292326 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
292346 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
292366 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
* * *
292386 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
292404 AATTGTACCT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.13, C:0.18, G:0.26, T:0.44
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:293913 original size:42 final size:42
Alignment explanation
Indices: 293854--293976 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
293844 GTGAATCGAG
* *
293854 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGGGGC
1 CTCTTGAATGATGGGAGGGACCTCTTAAACGATGACAGGGGC
* * ** *
293896 CTCTTGAACGATGGGAGGGGA-CTCTTGAGGGATGATAGGGGC
1 CTCTTGAATGATGGGA-GGGACCTCTTAAACGATGACAGGGGC
*
293938 CTCTTGAATGATAGGAGAGG-CCTCTTAAACGATGACAGG
1 CTCTTGAATGATGGGAG-GGACCTCTTAAACGATGACAGG
293977 TGAGTCGGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 1 0.02
42 61 0.92
43 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (42 bp):
CTCTTGAATGATGGGAGGGACCTCTTAAACGATGACAGGGGC
Found at i:293914 original size:21 final size:21
Alignment explanation
Indices: 293854--293971 Score: 101
Period size: 21 Copynumber: 5.6 Consensus size: 21
293844 GTGAATCGAG
* * *
293854 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAACGATGGGAGGGGC
* **
293875 CTCTTCAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGGGGC
*
293896 CTCTTGAACGATGGGAGGGGA
1 CTCTTGAACGATGGGAGGGGC
** **
293917 CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGGGAGGGGC
* * *
293938 CTCTTGAATGATAGGAGAGGC
1 CTCTTGAACGATGGGAGGGGC
*
293959 CTCTTAAACGATG
1 CTCTTGAACGATG
293972 ACAGGTGAGT
Statistics
Matches: 73, Mismatches: 24, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 73 1.00
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGGC
Found at i:294495 original size:20 final size:20
Alignment explanation
Indices: 294452--294495 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
294442 AATAGTTTCT
*
294452 GAAACTTAAAATCGCAACAT
1 GAAACTTAAAATCGCAACAC
* *
294472 GAAACTTAAAATCGTAACGC
1 GAAACTTAAAATCGCAACAC
294492 GAAA
1 GAAA
294496 ATGACTATCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:294505 original size:20 final size:20
Alignment explanation
Indices: 294482--294529 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
294472 GAAACTTAAA
*
294482 ATCGTAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
294502 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
294522 ATCGCAAC
1 ATCGCAAC
294530 ATGATAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:295102 original size:12 final size:12
Alignment explanation
Indices: 295085--295109 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
295075 GTGGAGAACA
295085 TGGAGATAAATG
1 TGGAGATAAATG
295097 TGGAGATAAATG
1 TGGAGATAAATG
295109 T
1 T
295110 CGTGGCATCT
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:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (12 bp):
TGGAGATAAATG
Found at i:296676 original size:14 final size:14
Alignment explanation
Indices: 296657--296688 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
296647 AACGCGAAAT
296657 GAAAATCGCAATGA
1 GAAAATCGCAATGA
*
296671 GAAAATCGCAATGC
1 GAAAATCGCAATGA
296685 GAAA
1 GAAA
296689 CTAAAATCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.16, G:0.22, T:0.12
Consensus pattern (14 bp):
GAAAATCGCAATGA
Found at i:297101 original size:22 final size:22
Alignment explanation
Indices: 297074--297124 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
297064 GATGGAGATA
297074 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
** *
297096 GACGGATTTCGTCGGAGATGTG
1 GACGGATTTCACCGGAGATGGG
297118 GACGGAT
1 GACGGAT
297125 GTCGTCGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.41, T:0.22
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:297129 original size:22 final size:22
Alignment explanation
Indices: 297086--297131 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
297076 CGGATTTCAC
*
297086 CGGAGATGGGGACGGATTTCGT
1 CGGAGATGGGGACGGATGTCGT
*
297108 CGGAGATGTGGACGGATGTCGT
1 CGGAGATGGGGACGGATGTCGT
297130 CG
1 CG
297132 TAGAGAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.15, G:0.46, T:0.22
Consensus pattern (22 bp):
CGGAGATGGGGACGGATGTCGT
Found at i:297320 original size:20 final size:20
Alignment explanation
Indices: 297291--297362 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
297281 ATTATGTATT
* *
297291 ATCGCTTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAAA
* *
297311 ATCGCGTTGCGAT-TTACATA
1 ATCGCGTTGCGATAGT-CAAA
* **
297331 TTCGTATTGCGATAGTCAAA
1 ATCGCGTTGCGATAGTCAAA
297351 ATCGCGTTGCGA
1 ATCGCGTTGCGA
297363 ATCTGGAAAC
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
19 1 0.03
20 37 0.95
21 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAAA
Found at i:313932 original size:19 final size:19
Alignment explanation
Indices: 313908--313946 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
313898 GTTTTCTCTC
313908 TACCCATC-TTTAGGTCTTT
1 TACCCATCTTTTAGGT-TTT
313927 TACCCATCTTTTAGGTTTT
1 TACCCATCTTTTAGGTTTT
313946 T
1 T
313947 GGGGGTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.15, C:0.23, G:0.10, T:0.51
Consensus pattern (19 bp):
TACCCATCTTTTAGGTTTT
Found at i:316395 original size:43 final size:43
Alignment explanation
Indices: 316348--316504 Score: 253
Period size: 43 Copynumber: 3.7 Consensus size: 43
316338 GACAAACGCT
316348 GCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAATGCC
1 GCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAATGCC
* * *
316391 GCTATTGACTGTGTATTTAGCGTCGTTTGACTTT-ATAAACGCC
1 GCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGA-AAATGCC
*
316434 GTTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAATGCC
1 GCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAATGCC
*
316477 TCTATTGACTGTGTATTTAGCGGCGTTT
1 GCTATTGACTGTGTATTTAGCGGCGTTT
316505 ATAAATAAAC
Statistics
Matches: 103, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 101 0.98
44 1 0.01
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.41
Consensus pattern (43 bp):
GCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAATGCC
Found at i:316431 original size:86 final size:84
Alignment explanation
Indices: 316322--316537 Score: 306
Period size: 86 Copynumber: 2.5 Consensus size: 84
316312 TCGAGACATA
* * *
316322 TAGCGGCGTTTGTAAAGACAAACGCTGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAA
1 TAGCGGCGTTTAT-AA-ATAAACGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAA
316387 TGCCGCTATTGACTGTGTATT
64 TGCCGCTATTGACTGTGTATT
* ** *
316408 TAGCGTCGTTTGACTTTATAAACGCCGTTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAA
1 TAGCGGCGTTT-A-TAAATAAACGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAA
*
316473 TGCCTCTATTGACTGTGTATT
64 TGCCGCTATTGACTGTGTATT
* *
316494 TAGCGGCGTTTATAAATAAACACCGCTATTAACTGTGTATTTAG
1 TAGCGGCGTTTATAAATAAACGCCGCTATTGACTGTGTATTTAG
316538 TGCATTTGTA
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
84 27 0.24
85 1 0.01
86 85 0.75
88 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (84 bp):
TAGCGGCGTTTATAAATAAACGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGAAAATG
CCGCTATTGACTGTGTATT
Found at i:320369 original size:125 final size:124
Alignment explanation
Indices: 320138--320390 Score: 337
Period size: 125 Copynumber: 2.0 Consensus size: 124
320128 CTATTGCGAT
* * * *
320138 GTTTGTCTTTGAAAACGCTGCTAAACTACTACTCTATTGCGGCGTTTATTAAAAACACCACTAAA
1 GTTTATCTTTGAAAACGCCGCTAAACTACTACTCTATTACGACGTTTATTAAAAACACCACTAAA
* *
320203 GATGGAATATATTACATCATTTTTATAAAAACGCCGCTAAAGTAAAACTCTGTTACGGC
66 GATGGAATATATTACAGCATTTTTATAAAAACGCCACTAAAGTAAAACTCTGTTACGGC
* *
320262 GTTTATCTTTGAAAACGCCGCTAAAGTACTACTTTATTACGACGTTTATTAAAAA-ATGCCACTA
1 GTTTATCTTTGAAAACGCCGCTAAACTACTACTCTATTACGACGTTTATTAAAAACA--CCACTA
* * * * * * * *
320326 AAGATGGAATCTATTGCGGCGTTTTTATAAAAACGCCATTAAAGTAATACTGTGTTGCGGC
64 AAGATGGAATATATTACAGCATTTTTATAAAAACGCCACTAAAGTAAAACTCTGTTACGGC
320387 GTTT
1 GTTT
320391 GTTGATAAAA
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
123 1 0.01
124 49 0.44
125 61 0.55
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (124 bp):
GTTTATCTTTGAAAACGCCGCTAAACTACTACTCTATTACGACGTTTATTAAAAACACCACTAAA
GATGGAATATATTACAGCATTTTTATAAAAACGCCACTAAAGTAAAACTCTGTTACGGC
Found at i:320384 original size:41 final size:42
Alignment explanation
Indices: 320225--320556 Score: 181
Period size: 41 Copynumber: 8.0 Consensus size: 42
320215 TACATCATTT
* * * * *
320225 TTATAAAAACGCCGCTAAAGTAAAACTCTGTTACGGCGTTTA
1 TTATAAAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTG
* * * * * * * * *
320267 TCTTTGAAAACGCCGCTAAAGTACTACTTTATTACGACGTTTA
1 T-TATAAAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTG
*
320310 TTA-AAAAATGCCACTAAAGATGGAAT-CTA--TTGCGGCGTTT-
1 TTATAAAAACGCCACTAAAG-T--AATACTATGTTGCGGCGTTTG
* *
320350 TTATAAAAACGCCATTAAAGTAATACTGTGTTGCGGCGTTTG
1 TTATAAAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTG
* ** *
320392 TTGAT-AAAACGCCACTATAGATGAACCCTA--TTGCGTCGTTTG
1 TT-ATAAAAACGCCACTAAAG-T-AATACTATGTTGCGGCGTTTG
* * *
320434 -TGTAAAAACGCCGCTAAAGTACTACTATGTTGCGGCGTTTG
1 TTATAAAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTG
* ** * *
320475 TTA-AAACAACGCCACTATAGATGAACCCTA--CTGAGGCGTTTG
1 TTATAAA-AACGCCACTAAAG-T-AATACTATGTTGCGGCGTTTG
* * *
320517 -TATAAAAACGCCGCTAAAGT--TACAATTTTGCGGCGTTTG
1 TTATAAAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTG
320556 T
1 T
320557 GATGTAAACG
Statistics
Matches: 221, Mismatches: 46, Indels: 48
0.70 0.15 0.15
Matches are distributed among these distances:
37 2 0.01
38 3 0.01
39 16 0.07
40 7 0.03
41 88 0.40
42 54 0.24
43 41 0.19
44 10 0.05
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (42 bp):
TTATAAAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTG
Found at i:320426 original size:42 final size:42
Alignment explanation
Indices: 320380--320517 Score: 126
Period size: 42 Copynumber: 3.3 Consensus size: 42
320370 TAATACTGTG
320380 TTGCGGCGTTTGTTGATAAAACGCCACTATAGATGAACCCTA
1 TTGCGGCGTTTGTTGATAAAACGCCACTATAGATGAACCCTA
* * * *
320422 TTGCGTCGTTTG-TG-TAAAAACGCCGCTA-A-A-GTACTACTA
1 TTGCGGCGTTTGTTGAT-AAAACGCCACTATAGATGAAC-CCTA
*
320461 TGTTGCGGCGTTTGTT-AAAACAACGCCACTATAGATGAACCCTA
1 --TTGCGGCGTTTGTTGATAA-AACGCCACTATAGATGAACCCTA
* *
320505 CTGAGGCGTTTGT
1 TTGCGGCGTTTGT
320518 ATAAAAACGC
Statistics
Matches: 75, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
38 3 0.04
39 4 0.05
40 2 0.03
41 26 0.35
42 32 0.43
43 1 0.01
44 4 0.05
45 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (42 bp):
TTGCGGCGTTTGTTGATAAAACGCCACTATAGATGAACCCTA
Found at i:320426 original size:83 final size:82
Alignment explanation
Indices: 320273--320556 Score: 313
Period size: 83 Copynumber: 3.5 Consensus size: 82
320263 TTTATCTTTG
* * * * * * * * * *
320273 AAAACGCCGCTAAAGTACTACTTTATTACGACGTTTATTAAAAAATGCCACTAAAGATGGAA-TC
1 AAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTGTTAAAAAACGCCACTATAGAT-GAACCC
*
320337 TATTGCGGCGTTTTTATA
65 TATTGCGGCGTTTGTATA
* * *
320355 AAAACGCCATTAAAGTAATACTGTGTTGCGGCGTTTGTTGATAAAACGCCACTATAGATGAACCC
1 AAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTGTT-AAAAAACGCCACTATAGATGAACCC
* *
320420 TATTGCGTCGTTTGTGTA
65 TATTGCGGCGTTTGTATA
* *
320438 AAAACGCCGCTAAAGTACTACTATGTTGCGGCGTTTGTTAAAACAACGCCACTATAGATGAACCC
1 AAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTGTTAAAA-AACGCCACTATAGATGAACCC
* *
320503 TACTGAGGCGTTTGTATA
65 TATTGCGGCGTTTGTATA
* * *
320521 AAAACGCCGCTAAAGT--TACAATTTTGCGGCGTTTGT
1 AAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTGT
320557 GATGTAAACG
Statistics
Matches: 173, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.10
82 37 0.21
83 118 0.68
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (82 bp):
AAAACGCCACTAAAGTAATACTATGTTGCGGCGTTTGTTAAAAAACGCCACTATAGATGAACCCT
ATTGCGGCGTTTGTATA
Found at i:330046 original size:18 final size:18
Alignment explanation
Indices: 330025--330066 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
330015 AACATGTCAA
330025 CACATATAATCAT-GCATT
1 CACATA-AATCATAGCATT
* *
330043 CACACAAATCATATCATT
1 CACATAAATCATAGCATT
330061 CACATA
1 CACATA
330067 CTTATAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (18 bp):
CACATAAATCATAGCATT
Found at i:331013 original size:13 final size:13
Alignment explanation
Indices: 330995--331020 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
330985 CGGTGGATAG
330995 GAAGAAGAAAACT
1 GAAGAAGAAAACT
331008 GAAGAAGAAAACT
1 GAAGAAGAAAACT
331021 CTGGATACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.23, T:0.08
Consensus pattern (13 bp):
GAAGAAGAAAACT
Found at i:333638 original size:31 final size:32
Alignment explanation
Indices: 333565--333645 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 32
333555 CCCGAAGGAC
* * *
333565 CTATCCATATGTTCCGAAGAACATACGTAATC
1 CTATCCATATGTCCCGAAGAACATAAGTAATA
* * *
333597 CTATCTATATGTCCCGAAGGATATAAGTAA-A
1 CTATCCATATGTCCCGAAGAACATAAGTAATA
*
333628 CTATCCATATGTCTCGAA
1 CTATCCATATGTCCCGAA
333646 AGACATAGGT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 16 0.39
32 25 0.61
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.30
Consensus pattern (32 bp):
CTATCCATATGTCCCGAAGAACATAAGTAATA
Found at i:335750 original size:60 final size:60
Alignment explanation
Indices: 335656--335774 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
335646 AAGAATACCG
* *
335656 ATACTCCCTGTTCTAGGCAGTTTTATTTTTTAGAAAATTAATCCTCAACGGCTCCAAAAC
1 ATACTCCCTGTTCTAGGCAGTTTTATTTTGTAGAAAATTAATCCCCAACGGCTCCAAAAC
335716 ATACTCCCTGTTCTAGGCAGTTTTATTTTGTAGAAAATTAATCCCCAACGGCTCCAAAA
1 ATACTCCCTGTTCTAGGCAGTTTTATTTTGTAGAAAATTAATCCCCAACGGCTCCAAAA
335775 TATCCCCAAC
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (60 bp):
ATACTCCCTGTTCTAGGCAGTTTTATTTTGTAGAAAATTAATCCCCAACGGCTCCAAAAC
Found at i:343980 original size:31 final size:31
Alignment explanation
Indices: 343919--343983 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
343909 CATCCATATT
* *
343919 ATAGCTAAATTTGTATTGATCGGTGATTAAA
1 ATAGCTAAATTTGTAATGATAGGTGATTAAA
* * *
343950 ATAGTTAAATTTTTAATGATAGGTGGTTAAA
1 ATAGCTAAATTTGTAATGATAGGTGATTAAA
343981 ATA
1 ATA
343984 AAAAAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.40
Consensus pattern (31 bp):
ATAGCTAAATTTGTAATGATAGGTGATTAAA
Found at i:346877 original size:165 final size:164
Alignment explanation
Indices: 346657--346989 Score: 416
Period size: 165 Copynumber: 2.0 Consensus size: 164
346647 TTGGTTGTAA
* * *
346657 ATTTTATTGGCATTGTCGTGAGGCTTGAGCTAATACTTTTGAGAGTTATCTAAGCTTAGGC-CAA
1 ATTTTATTGGCATTGCCGTGAGGCTTGAGCTAATACTTTTGAGAGTAAGCTAAGCTTA-GCTCAA
** * * * *
346721 ATTCCTGGAAGGAAATTGTCATAATTGCTGCTTGAACTTTAAATGTATGAAATTTTGATAAGGAT
65 ATTCCTAAAAGGAAATAGTCATAATTGCTGCTTGAACTTGAAATATAGGAAA-TTTGATAAGGAT
** ** *
346786 TCTGCATGCCAAAGCTCCAGTTGGTATGATAGTGTC
129 TCCACATGCCAAAGCTCCAGTCAGTAGGATAGTGTC
* * * * *
346822 ATTTTGTTGGCTTTGCCTTGAGGCTTGAGCTAATACTTTTGGGAGTAAGCTAAGCTTAGCTCAGA
1 ATTTTATTGGCATTGCCGTGAGGCTTGAGCTAATACTTTTGAGAGTAAGCTAAGCTTAGCTCAAA
* * * *
346887 TTTCTAAAAGGAAATAGTCATAATTGCTGCTTGAACTTGACATATAGGAAATTTGATTAGGTTTC
66 TTCCTAAAAGGAAATAGTCATAATTGCTGCTTGAACTTGAAATATAGGAAATTTGATAAGGATTC
* *
346952 CACATGCCCAAGCTTCAGTCAGTAGGATAGTGTC
131 CACATGCCAAAGCTCCAGTCAGTAGGATAGTGTC
346986 ATTT
1 ATTT
346990 GTCTAACTGT
Statistics
Matches: 142, Mismatches: 25, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
164 45 0.32
165 97 0.68
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (164 bp):
ATTTTATTGGCATTGCCGTGAGGCTTGAGCTAATACTTTTGAGAGTAAGCTAAGCTTAGCTCAAA
TTCCTAAAAGGAAATAGTCATAATTGCTGCTTGAACTTGAAATATAGGAAATTTGATAAGGATTC
CACATGCCAAAGCTCCAGTCAGTAGGATAGTGTC
Found at i:347972 original size:26 final size:26
Alignment explanation
Indices: 347936--347985 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
347926 ATATGATGGA
347936 TTCGAGGAAATTATGAACTTAGATAT
1 TTCGAGGAAATTATGAACTTAGATAT
347962 TTCGAGGAAATTATGAACTTAGAT
1 TTCGAGGAAATTATGAACTTAGAT
347986 GGGTCGCTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (26 bp):
TTCGAGGAAATTATGAACTTAGATAT
Found at i:354079 original size:6 final size:6
Alignment explanation
Indices: 354070--354099 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
354060 CGTTTTTAGT
*
354070 TATTAC TATTAA TATTAA TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA
354100 ATGTCATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
TATTAA
Found at i:354855 original size:225 final size:228
Alignment explanation
Indices: 354463--354916 Score: 855
Period size: 225 Copynumber: 2.0 Consensus size: 228
354453 TTAATTTCTC
354463 TTAAATTATAAAAGTGCTTCAAAATTCCTAAAATCTTCAAATCCTAACTTTAACACAACGTCGCC
1 TTAAATTATAAAAGTGCTTCAAAATTCCTAAAATCTTCAAATCCTAACTTTAACACAACGTCGCC
354528 ACTCTTTCTGGTCTGACCACTACCATCGATGTAGTCTCTGTCATCCTCTTAGTTATACGTCGTTA
66 ACTCTTTCTGGTCTGACCACTACCATCGATGTAGTCTCTGTCATCCTCTTAGTTATACGTCGTTA
354593 TAGTTGTCGTCAGTGATCGTCGTGATCGTTGTGAGATCATGATTTT-AT-CTAGGG-TTGTGTGT
131 TAGTTGTCGTCAGTGATCGTCGTGATCGTTGTGAGATCATGATTTTCATCCTAGGGTTTGTG-GT
354655 AGGGGTGTGCAAATACGGGTACTCGATTACCGGG
195 AGGGGTGTGCAAATACGGGTACTCGATTACCGGG
354689 TTAAATTATAAAAGTGCTTC-AAATTCCTAAAATCTTCAAATCCTAACTTTAACACAACGTCGCC
1 TTAAATTATAAAAGTGCTTCAAAATTCCTAAAATCTTCAAATCCTAACTTTAACACAACGTCGCC
354753 ACTCTTTCTGGTCTGACCACTACCATCGATGTAGTCTCTGTCATCCTCTTAGTTATACGTCGTTA
66 ACTCTTTCTGGTCTGACCACTACCATCGATGTAGTCTCTGTCATCCTCTTAGTTATACGTCGTTA
354818 TAGTTGTCGTCAGTTGATCGTCGTGATCG-TGTGAGATCATGATTTTCATCCTAGGGTTTGTGGT
131 TAGTTGTCGTCAG-TGATCGTCGTGATCGTTGTGAGATCATGATTTTCATCCTAGGGTTTGTGGT
354882 AGGGGTGTGCAAATACGGGTACTCGATTACCGGG
195 AGGGGTGTGCAAATACGGGTACTCGATTACCGGG
354916 T
1 T
354917 ACCCGAAACA
Statistics
Matches: 224, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
225 139 0.62
226 37 0.17
227 43 0.19
228 5 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (228 bp):
TTAAATTATAAAAGTGCTTCAAAATTCCTAAAATCTTCAAATCCTAACTTTAACACAACGTCGCC
ACTCTTTCTGGTCTGACCACTACCATCGATGTAGTCTCTGTCATCCTCTTAGTTATACGTCGTTA
TAGTTGTCGTCAGTGATCGTCGTGATCGTTGTGAGATCATGATTTTCATCCTAGGGTTTGTGGTA
GGGGTGTGCAAATACGGGTACTCGATTACCGGG
Found at i:358067 original size:2 final size:2
Alignment explanation
Indices: 358060--358104 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
358050 GTCCTCCCTC
358060 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
358102 CT C
1 CT C
358105 ACACACACAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:361676 original size:24 final size:25
Alignment explanation
Indices: 361649--361707 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
361639 TAACTTTTTT
*
361649 TTTTGAAAAAATAATTA-ATTAT-TA
1 TTTTGAAAAAACAATTAGATT-TCTA
*
361673 TTTTTAAAAAACAATTATGATTTCTA
1 TTTTGAAAAAACAATTA-GATTTCTA
361699 TTTTGAAAA
1 TTTTGAAAA
361708 TTTTGGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 15 0.52
25 1 0.03
26 13 0.45
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (25 bp):
TTTTGAAAAAACAATTAGATTTCTA
Found at i:364422 original size:134 final size:134
Alignment explanation
Indices: 364216--364558 Score: 494
Period size: 131 Copynumber: 2.6 Consensus size: 134
364206 GGTGACATAG
* * * * * *
364216 CTCCTACATGATGAGGAGATATGGTCGGTGGATGACACGATTCCTACGCGATGAGGAAGTCTGAC
1 CTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGCGATGAGGATGACTGGC
* **
364281 CATCTTTAGGGATGATGATAACATGGTTCCTATGCGATGAGGACGGTTGGTTATCTAGGGGTGAC
66 CATCTTTAGGGATGATGATAACACGGTTCCTACACGATGAGGACGGTTGGTTATCTAGGGGTGAC
364346 ACGA
131 ACGA
*
364350 CTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACACGGTTCCTACGCGATGAGGATGACTGGC
1 CTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGCGATGAGGATGACTGGC
* *
364415 CATCTTTA-GG--GATGATAACACGGTTCCTACACGATGAGGGCGGTTGGTTATCTAGGGGTGAT
66 CATCTTTAGGGATGATGATAACACGGTTCCTACACGATGAGGACGGTTGGTTATCTAGGGGTGAC
* *
364477 GCGG
131 ACGA
* * * * *
364481 CTCCTACGTGATAAGGAGATCTGGTCGGTGGATGACACGGTTCTTACGCGACGAGGATAATTGGC
1 CTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGCGATGAGGATGACTGGC
364546 CATCTTTAGGGAT
66 CATCTTTAGGGAT
364559 AATGTTTCAA
Statistics
Matches: 186, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
131 116 0.62
132 2 0.01
133 2 0.01
134 66 0.35
ACGTcount: A:0.23, C:0.18, G:0.33, T:0.26
Consensus pattern (134 bp):
CTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGCGATGAGGATGACTGGC
CATCTTTAGGGATGATGATAACACGGTTCCTACACGATGAGGACGGTTGGTTATCTAGGGGTGAC
ACGA
Found at i:364706 original size:66 final size:65
Alignment explanation
Indices: 364560--364792 Score: 310
Period size: 66 Copynumber: 3.6 Consensus size: 65
364550 TTTAGGGATA
* * * * *
364560 ATGTTTCAAGAGAAACTATCTCAA-AGGAGACACAACTCATTTCAAGGGAAATGAT-CTCAAAGA
1 ATGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATTTATTTCAAGGGAAA-CATACTCAAAGA
364623 TG
64 TG
* * * *
364625 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTTAAGTGAAACATACTCAAAGAT
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTATTTCAAGGGAAACATACTCAAAGAT
364690 G
65 G
* *
364691 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAATTTCAAGGGAAACA-ACTCAGAGATG
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACATACTCAAAGATG
*
364755 ATGTTTCAAGAGAAACTGACTCAAGAGAGACAAAATTT
1 ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
364793 GTTTTGAGTA
Statistics
Matches: 148, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
64 46 0.31
65 47 0.32
66 55 0.37
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.24
Consensus pattern (65 bp):
ATGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACATACTCAAAGATG
Found at i:364796 original size:36 final size:35
Alignment explanation
Indices: 364756--364851 Score: 102
Period size: 37 Copynumber: 2.6 Consensus size: 35
364746 TCAGAGATGA
364756 TGTTTCAAGAGAAACTGACTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAA-TGACTCAAGAGAGACAAAATT
** * * *
364792 TGTTTTGAGTAAAAATTGTCTTAAGAGAGACAAAATT
1 TGTTTCAAG-AGAAA-TGACTCAAGAGAGACAAAATT
*
364829 TGTTTCAAGGGAAATGATCTCAA
1 TGTTTCAAGAGAAATGA-CTCAA
364852 AGATGTTTGT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
35 2 0.04
36 14 0.30
37 30 0.65
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (35 bp):
TGTTTCAAGAGAAATGACTCAAGAGAGACAAAATT
Done.