Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008973.1 Hibiscus syriacus cultivar Beakdansim tig00112319_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: 2070395
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:1783741 original size:37 final size:36
Alignment explanation
Indices: 1783691--1784236 Score: 323
Period size: 37 Copynumber: 14.5 Consensus size: 36
1783681 TAAAGAAGTG
*
1783691 AATCAATCTTAAGCCTTCACCAAGGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCACCAA-GAGTAGTGAAGCA
* *
1783728 AATCAATCTTAAGCCTTCACGAAAGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCAC-CAAGAGTAGTGAAGCA
** * *
1783765 AATTCC-TCTTAAGCCTTCATGGAAGACTAGTGAAACA
1 AA-TCCATCTTAAGCCTTCA-CCAAGAGTAGTGAAGCA
* * * * ****
1783802 AATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCA
1 AATCCATC-TTAAGCCTT-C-ACCA--A-GAGT-AGTGAAGCA
* *
1783845 GA-CCATCTAAAGCCTTCACCGAAGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCACC-AAGAGTAGTGAAGCA
* *
1783881 AATCCATCTTAAGCCTTCACTGATGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCAC-CAAGAGTAGTGAAGCA
* * * *
1783918 AATTCATCACTAAGCCTT--CCAAGCA-TGATGATTAAGTCCTCC
1 AATCCATC-TTAAGCCTTCACCAAG-AGT-A-G-TGAAG----CA
*** * *
1783960 GGGCCATCTAAAGCCTTCACCGAAGAGCAGTGAAGCA
1 AATCCATCTTAAGCCTTCACC-AAGAGTAGTGAAGCA
* ** *
1783997 AAT-CAGTCTTAAACCTTCATTGAAGAGTAGTGAAACA
1 AATCCA-TCTTAAGCCTTCA-CCAAGAGTAGTGAAGCA
**
1784034 AATCCATCTTAAGCCTTCACCGGGTAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCACCAAG-AGTAGTGAAGCA
**
1784071 AATCGGTCTTAAGCCTTCACCAAAGAGTAGTGAAGCA
1 AATCCATCTTAAGCCTTCACC-AAGAGTAGTGAAGCA
* * *
1784108 AATCCATCTTAATCCTTCACCGAGGAGTAATGAAGCA
1 AATCCATCTTAAGCCTTCACC-AAGAGTAGTGAAGCA
* * *
1784145 AATCAATCTTAAGCCTTCACTGAAGAGTAGTAAAG-A
1 AATCCATCTTAAGCCTTCAC-CAAGAGTAGTGAAGCA
* ** *
1784181 AAACCTATCTTAAGCCTTCATTGAAGAGTAGTAAAGCA
1 AATCC-ATCTTAAGCCTTCA-CCAAGAGTAGTGAAGCA
* * *
1784219 AATTCATTTTAAACCTTC
1 AATCCATCTTAAGCCTTC
1784237 TCAGAAGAGT
Statistics
Matches: 392, Mismatches: 81, Indels: 72
0.72 0.15 0.13
Matches are distributed among these distances:
35 3 0.01
36 18 0.05
37 286 0.73
38 32 0.08
39 5 0.01
40 3 0.01
41 19 0.05
42 13 0.03
43 10 0.03
44 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (36 bp):
AATCCATCTTAAGCCTTCACCAAGAGTAGTGAAGCA
Found at i:1783943 original size:116 final size:115
Alignment explanation
Indices: 1783733--1784051 Score: 448
Period size: 116 Copynumber: 2.8 Consensus size: 115
1783723 AAGCAAATCA
* *
1783733 ATCTTAAGCCTTCA-CGAAAGAGTAGTGAAGCAAATTCC-TCTTAAGCCTTCATGGAAGACTAGT
1 ATCTAAAGCCTTCACCG-AAGAGTAGTGAAGCAAA-TCCATCTTAAGCCTTCAT-GAAGAGTAGT
* *
1783796 GAAACAAATTCATCAGTAAGCCTTCCGAGCATGATGATTAAGTCCTCCAGACC
63 GAAACAAATTCATCACTAAGCCTTCCAAGCATGATGATTAAGTCCTCCAGACC
*
1783849 ATCTAAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACTGATGAGTAGTGA
1 ATCTAAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCA-TGAAGAGTAGTGA
* * *
1783914 AGCAAATTCATCACTAAGCCTTCCAAGCATGATGATTAAGTCCTCCGGGCC
65 AACAAATTCATCACTAAGCCTTCCAAGCATGATGATTAAGTCCTCCAGACC
* *
1783965 ATCTAAAGCCTTCACCGAAGAGCAGTGAAGCAAAT-CAGTCTTAAACCTTCATTGAAGAGTAGTG
1 ATCTAAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCA-TCTTAAGCCTTCA-TGAAGAGTAGTG
* *
1784029 AAACAAATCCATC-TTAAGCCTTC
64 AAACAAATTCATCACTAAGCCTTC
1784052 ACCGGGTAGT
Statistics
Matches: 184, Mismatches: 15, Indels: 9
0.88 0.07 0.04
Matches are distributed among these distances:
115 14 0.08
116 167 0.91
117 3 0.02
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (115 bp):
ATCTAAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCATGAAGAGTAGTGAA
ACAAATTCATCACTAAGCCTTCCAAGCATGATGATTAAGTCCTCCAGACC
Found at i:1784066 original size:74 final size:74
Alignment explanation
Indices: 1783691--1784221 Score: 369
Period size: 74 Copynumber: 7.0 Consensus size: 74
1783681 TAAAGAAGTG
* * * * *
1783691 AATCAATCTTAAGCCTTCAC-CAAGGAGTAGTGAAGCAAATCAATCTTAAGCCTTCA-CGAAAGA
1 AATCAGTCTTAAGCCTTCACTGAA-GAGTAGTGAAACAAATCCATCTTAAGCCTTCACCG-AGGA
1783754 GTAGTGAAGCA
64 GTAGTGAAGCA
* * * * *
1783765 AATTC-CTCTTAAGCCTTCA-TGGAAGACTAGTGAAACAAATTCATCAGTAAGCCTTCCGAGCAT
1 AA-TCAGTCTTAAGCCTTCACT-GAAGAGTAGTGAAACAAATCCATC-TTAAGCCTT-C-A-C-C
* * ****
1783828 GATGATTAAGTCCTCCA
59 GAGGAGT-AGTGAAGCA
* * * * * * *
1783845 GACCA-TCTAAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCTTAAGCCTTCACTGATGAGT
1 AATCAGTCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATCCATCTTAAGCCTTCACCGAGGAGT
1783909 AGTGAAGCA
66 AGTGAAGCA
* * * *** **** *
1783918 AATTCA-TCACTAAGCCTTCCAAGCATGATGATTAAGT-CCTCCGGGCCATCTAAAGCCTTCACC
1 AA-TCAGTC-TTAAGCCTT-C-A-C-TGAAGAGT-AGTGAAACAAATCCATCTTAAGCCTTCACC
* *
1783981 GAAGAGCAGTGAAGCA
59 GAGGAGTAGTGAAGCA
* *
1783997 AATCAGTCTTAAACCTTCATTGAAGAGTAGTGAAACAAATCCATCTTAAGCCTTCACCG-GGTAG
1 AATCAGTCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATCCATCTTAAGCCTTCACCGAGG-AG
1784061 TAGTGAAGCA
65 TAGTGAAGCA
* ** * *
1784071 AATCGGTCTTAAGCCTTCACCAAAGAGTAGTGAAGCAAATCCATCTTAATCCTTCACCGAGGAGT
1 AATCAGTCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATCCATCTTAAGCCTTCACCGAGGAGT
*
1784136 AATGAAGCA
66 AGTGAAGCA
* * * ** *
1784145 AATCAATCTTAAGCCTTCACTGAAGAGTAGT-AAAGAAAACCTATCTTAAGCCTTCATTGAAGAG
1 AATCAGTCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATCC-ATCTTAAGCCTTCACCGAGGAG
*
1784209 TAGTAAAGCA
65 TAGTGAAGCA
1784219 AAT
1 AAT
1784222 TCATTTTAAA
Statistics
Matches: 352, Mismatches: 81, Indels: 48
0.73 0.17 0.10
Matches are distributed among these distances:
73 17 0.05
74 198 0.56
75 22 0.06
76 4 0.01
77 4 0.01
78 19 0.05
79 78 0.22
80 10 0.03
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (74 bp):
AATCAGTCTTAAGCCTTCACTGAAGAGTAGTGAAACAAATCCATCTTAAGCCTTCACCGAGGAGT
AGTGAAGCA
Found at i:1784677 original size:54 final size:54
Alignment explanation
Indices: 1784607--1785268 Score: 819
Period size: 54 Copynumber: 12.2 Consensus size: 54
1784597 AAATTATTAT
*
1784607 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAAGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * *
1784661 AAAAGATTGTTTGAGTTCCTACTCCTTAAAGAAAGAGGGAGCAAACCCATAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * * *
1784715 AGAAGATTGTTTGATTTCTTACTCCCTAAAGAAAGAAAGAAAGAGCGAACCCGTAAGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAG--AG--GGAGCGAACCCGTAGGC
* * *
1784773 AGAAGATTGTTCGAGTTCTTACTCCCTAAAGAAAGAGAGAGTGAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
1784827 AGAAGATTGTTCGAGCTCCTACTCCCTAACGAAAGAGGGAGC-AATCCCCTTGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAA-CCCGTAGGC
* * *
1784881 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGTGAACCCGTTGGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * *
1784935 AGAAGATTGTTTGAGTTCCTACTTCCTAAAGAAAGAGTGAGCGAATCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * * * *
1784989 AGAAGATTGTTCGAGTTCCTACTCCCTGAAGCAAGAGGGAGTGAACCCATAGGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
1785043 AG-AGTATTGTTCGAGTTCCTACTCCCTAAAAGAAAGAGGTAGCGAACCCGTTGGA
1 AGAAG-ATTGTTCGAGTTCCTACTCCCT-AAAGAAAGAGGGAGCGAACCCGTAGGC
** ** * *
1785098 AGAAGATT-TTCGAGTTCCTACAACCTAAAGAAAGAGGGAGCGAACATGTTGGT
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* *
1785151 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGAGAGCGAACCCATAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
* * *
1785205 AGAAGATTATTCGAGTT-CTACTCACTAAAGAAAGAGGGAGCAAACCCGTAGGC
1 AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
*
1785258 AGAGGATTGTT
1 AGAAGATTGTT
1785269 TGACACTACA
Statistics
Matches: 522, Mismatches: 76, Indels: 21
0.84 0.12 0.03
Matches are distributed among these distances:
53 76 0.15
54 368 0.70
55 27 0.05
56 6 0.01
58 45 0.09
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (54 bp):
AGAAGATTGTTCGAGTTCCTACTCCCTAAAGAAAGAGGGAGCGAACCCGTAGGC
Found at i:1791282 original size:2 final size:2
Alignment explanation
Indices: 1791275--1791347 Score: 137
Period size: 2 Copynumber: 36.5 Consensus size: 2
1791265 TCAATCTACA
1791275 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
1791317 AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1791348 ATTTACGACA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1791528 original size:13 final size:13
Alignment explanation
Indices: 1791510--1791566 Score: 69
Period size: 13 Copynumber: 4.4 Consensus size: 13
1791500 GCAATTCACT
*
1791510 TCATAAATGTGCG
1 TCATAAATGCGCG
*
1791523 TCATAAATGCACG
1 TCATAAATGCGCG
*
1791536 TCATAAATGCGTG
1 TCATAAATGCGCG
* *
1791549 TAATAAATGTGCG
1 TCATAAATGCGCG
1791562 TCATA
1 TCATA
1791567 GATTTATGAC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (13 bp):
TCATAAATGCGCG
Found at i:1791785 original size:55 final size:54
Alignment explanation
Indices: 1791697--1791949 Score: 262
Period size: 55 Copynumber: 4.7 Consensus size: 54
1791687 TAGTAGTGCA
* * ** *
1791697 AGTTCCTACTCCCTAAAGAAATAAAGAGCGAACCCGTTAGCAGAAGATTATTCG
1 AGTTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTAGCAGAAGATTGTTCG
* * ** *
1791751 AGTTCTATACTTCCTAAAGAAAGGGGGAATGAACCCG-TAGGCAGAAGATTGTTCT
1 AGTTC-ATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTA-GCAGAAGATTGTTCG
* * *
1791806 AATTCATACTCCCTAAAGAAAGAGGGAGCGAAACCGTTGGCAGAA-AGTTGTTCG
1 AGTTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTAGCAGAAGA-TTGTTCG
* * * * *
1791860 AGTTC-TACTCCCTAAAGTAAGAGAGAGCGAACCCATTGGCATAAGATTGTTCG
1 AGTTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTAGCAGAAGATTGTTCG
*
1791913 AGTTCTATAATCCCTAAA-ACAAGAGGGAGCGAACCCG
1 AGTTC-ATACTCCCTAAAGA-AAGAGGGAGCGAACCCG
1791950 CAAGTCGAAG
Statistics
Matches: 163, Mismatches: 28, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
53 47 0.29
54 50 0.31
55 66 0.40
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (54 bp):
AGTTCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTAGCAGAAGATTGTTCG
Found at i:1792260 original size:6 final size:6
Alignment explanation
Indices: 1792121--1792252 Score: 191
Period size: 6 Copynumber: 22.2 Consensus size: 6
1792111 CCGGGTTATA
* *
1792121 AATATT -ATATT AAAATT ATATTATT ATTATT ATATATT AATATT AATATT
1 AATATT AATATT AATATT A-A-TATT AATATT A-ATATT AATATT AATATT
1792171 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
1 AATATT AATATT AATATT AATATT AATATT AATATT AATATT AATATT
1792219 AATA-T --TATT AATATT AATATT AATATT AATATT A
1 AATATT AATATT AATATT AATATT AATATT AATATT A
1792253 TTAATATTTA
Statistics
Matches: 115, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
3 2 0.02
4 1 0.01
5 6 0.05
6 96 0.83
7 6 0.05
8 4 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
AATATT
Found at i:1793395 original size:21 final size:21
Alignment explanation
Indices: 1793369--1793415 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1793359 GTTTCCAGAT
*
1793369 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCAACTA
1793390 TCGCAACGCGAACTTCAACTA
1 TCGCAACGCGAACTTCAACTA
1793411 TCGCA
1 TCGCA
1793416 TTGCAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCAACTA
Found at i:1793453 original size:20 final size:21
Alignment explanation
Indices: 1793430--1793483 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
1793420 AATTTACATA
1793430 TTCGCATTGCGATAATC-AAG
1 TTCGCATTGCGATAATCGAAG
*
1793450 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAATCGAAG
*
1793471 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
1793484 TTTCCGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAATCGAAG
Found at i:1793570 original size:21 final size:21
Alignment explanation
Indices: 1793540--1793634 Score: 86
Period size: 21 Copynumber: 4.6 Consensus size: 21
1793530 GATTTACATA
*
1793540 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
1793561 TTCGCGTTGCAATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
1793582 TTTGCGTTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
* * *
1793603 TT--CATTACGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
1793622 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
1793635 TTATTCCAAA
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
19 13 0.24
21 42 0.76
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:1793658 original size:42 final size:40
Alignment explanation
Indices: 1793565--1793659 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
1793555 TCCAAGTTCG
*
1793565 CGTTGCAATAGTCGAAGTTTGCGTTGCGATTTTCCAAATT
1 CGTTGCAATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
* * *
1793605 CATTACGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCAATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATT
*
1793647 CGTTGTAATAGTC
1 CGTTGCAATAGTC
1793660 CAAAATTGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
40 25 0.56
41 2 0.04
42 18 0.40
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (40 bp):
CGTTGCAATAGTCGAAGTTCGCGTTGCGATTTTCCAAATT
Found at i:1793763 original size:6 final size:6
Alignment explanation
Indices: 1793752--1793783 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
1793742 GACACGTATT
1793752 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1793784 CGAGACGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.31, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1794307 original size:6 final size:6
Alignment explanation
Indices: 1794296--1794320 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1794286 CTCGCTCGTC
1794296 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
1794321 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:1794468 original size:42 final size:40
Alignment explanation
Indices: 1794406--1794757 Score: 327
Period size: 42 Copynumber: 8.4 Consensus size: 40
1794396 CGTTGCGATT
1794406 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACTCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAAC
* * *
1794448 TTCGACTATCGCAACAAATTTGGAATAAATCGCAACGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
* *
1794488 TTGGAATAAATCGCAACGCGAACTTT-GACT--ATCGCAACGAAC
1 TTGGACT--ATCGCAA--CGAA-TTTGGAATAAATCGCAACGAAC
* * * *
1794530 TTGGAATAAATCGCAACGCGAACTTGGACT--ATCGCAACGAAT
1 TTGGACT--ATCGCAA--CGAATTTGGAATAAATCGCAACGAAC
* *
1794572 TTGGAATAAATCACAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGAATTTGGAATAAATCGCAA--CGAAC
* *
1794616 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAAC
*
1794658 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAT
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
* *
1794698 TTGAAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGAATTTGGAATAAATCGCAA--CGAAC
*
1794742 TTCGACTATCGCAACG
1 TTGGACTATCGCAACG
1794758 TGAACTTGGA
Statistics
Matches: 269, Mismatches: 27, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
40 28 0.10
41 2 0.01
42 213 0.79
44 23 0.09
45 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (40 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGAAC
Found at i:1794512 original size:63 final size:61
Alignment explanation
Indices: 1794413--1794776 Score: 303
Period size: 63 Copynumber: 5.8 Consensus size: 61
1794403 ATTTTGGACT
* * * *
1794413 ATCGCAA-CGAATTTGGAATAAATCGCAACTCGAACTTCGACT-ATCGCAACAAATTTGGAATAA
1 ATCGCAACCGAACTTGGAAT--ATCGCAA--CGAACTTGGAATAATCGCAACGAATTTGGAATAA
* * * *
1794476 ATCGCAA-CGAATTTGGAATAAATCGCAACGCGAACTTTGACT-ATCGCAACGAACTTGGAATAA
1 ATCGCAACCGAACTTGGAAT--ATCGCAA--CGAACTTGGAATAATCGCAACGAATTTGGAATAA
* * *
1794539 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCACAACGAATTTGGAATAA
1 ATCGCAAC-CGAACTTGGAATATCGCAACGAACTTGGAAT-AATCGCAACGAATTTGGAATAA
* * * *
1794602 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACT--
1 ATCGCAAC-CGAACTTGGAATATCGCAACGAACTTGGAAT-AATCGCAA--CGAATTTGGAATAA
* * *
1794665 ATCGCAA-CGAATTTGGAATAAATCGCAACGAATTTGAAATAAATCGCAACGAATTTGGAATAA
1 ATCGCAACCGAACTTGGAAT--ATCGCAACGAACTTGGAAT-AATCGCAACGAATTTGGAATAA
* * *
1794728 ATCGCAACGCGAACTTCGACTATCGCAACGTGAACTTGGACT-ATCGCAA
1 ATCGCAAC-CGAACTTGGAATATCGCAAC--GAACTTGGAATAATCGCAA
1794777 TGCGATAGTC
Statistics
Matches: 258, Mismatches: 29, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
61 28 0.11
63 193 0.75
65 37 0.14
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (61 bp):
ATCGCAACCGAACTTGGAATATCGCAACGAACTTGGAATAATCGCAACGAATTTGGAATAA
Found at i:1794591 original size:105 final size:105
Alignment explanation
Indices: 1794409--1794776 Score: 557
Period size: 105 Copynumber: 3.5 Consensus size: 105
1794399 TGCGATTTTG
* * * *
1794409 GACTATCGCAACGAATTTGGAATAAATCGCAACTCGAACTTCGACTATCGCAACAAATTTGGAAT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1794474 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
66 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
1794514 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
* *
1794579 AAATCACAACGAATTTGGAATAAATCGCAACGCGAACTTC
66 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
1794619 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
*
1794684 AAATCGCAACGAATTTGAAATAAATCGCAA--CGAA-TTT
66 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
* * * *
1794721 GGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGTGAACTTGGACTATCGCAA
1 -GACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA
1794777 TGCGATAGTC
Statistics
Matches: 245, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
105 226 0.92
107 10 0.04
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (105 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTT
Found at i:1794752 original size:21 final size:21
Alignment explanation
Indices: 1794728--1794781 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1794718 TTTGGAATAA
1794728 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
1794749 ATCGCAACGTGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
*
1794770 ATCGCAATGCGA
1 ATCGCAACGCGA
1794782 TAGTCGAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:1797017 original size:22 final size:22
Alignment explanation
Indices: 1796973--1797017 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1796963 ATAATATTTT
*
1796973 TATAAATGAAATATTTTATTAA
1 TATAAATGAAATATTTTAATAA
*
1796995 TATAAAT-ATATATTATTAATAA
1 TATAAATGAAATATT-TTAATAA
1797017 T
1 T
1797018 TTTTAACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TATAAATGAAATATTTTAATAA
Found at i:1797994 original size:2 final size:2
Alignment explanation
Indices: 1797987--1798042 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
1797977 TATAACATAG
1797987 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1798029 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
1798043 AACATGTTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1806272 original size:13 final size:13
Alignment explanation
Indices: 1806254--1806315 Score: 97
Period size: 13 Copynumber: 4.8 Consensus size: 13
1806244 GCTCAATGAA
*
1806254 CGTCATAAATGCG
1 CGTCATAAATGTG
*
1806267 CATCATAAATGTG
1 CGTCATAAATGTG
1806280 CGTCATAAATGTG
1 CGTCATAAATGTG
*
1806293 TGTCATAAATGTG
1 CGTCATAAATGTG
1806306 CGTCATAAAT
1 CGTCATAAAT
1806316 TTATGACGCA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (13 bp):
CGTCATAAATGTG
Found at i:1807990 original size:173 final size:174
Alignment explanation
Indices: 1807701--1808048 Score: 689
Period size: 173 Copynumber: 2.0 Consensus size: 174
1807691 AATTGGGTGC
1807701 TCAATAATTCATAAGAGTCCAATTGATATGTTTACAATAACTTTTTATACCTAATTAGTTTATAT
1 TCAATAATTCATAAGAGTCCAATTGATATGTTTACAATAACTTTTTATACCTAATTAGTTTATAT
1807766 TCATCTTAAATTATAATTCCATTTTGATTTTAAATCTATTCAAATTTATTGATAAATAATATCTA
66 TCATCTTAAATTATAATTCCATTTTGATTTTAAATCTATTCAAATTTATTGATAAATAATATCTA
1807831 TTATTTGGAATTATCTCTTACTTAAACTT-AAAAAAATTGTTAT
131 TTATTTGGAATTATCTCTTACTTAAACTTAAAAAAAATTGTTAT
1807874 TCAATAATTCATAAGAGTCCAATTGATATGTTTACAATAACTTTTTATACCTAATTAGTTTATAT
1 TCAATAATTCATAAGAGTCCAATTGATATGTTTACAATAACTTTTTATACCTAATTAGTTTATAT
1807939 TCATCTTAAATTATAATTCCATTTTGATTTTAAATCTATTCAAATTTATTGATAAATAATATCTA
66 TCATCTTAAATTATAATTCCATTTTGATTTTAAATCTATTCAAATTTATTGATAAATAATATCTA
1808004 TTATTTGGAATTATCTCTTACTTAAACTTAAAAAAAATTGTTAT
131 TTATTTGGAATTATCTCTTACTTAAACTTAAAAAAAATTGTTAT
1808048 T
1 T
1808049 ACATTAAAAA
Statistics
Matches: 174, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
173 159 0.91
174 15 0.09
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.46
Consensus pattern (174 bp):
TCAATAATTCATAAGAGTCCAATTGATATGTTTACAATAACTTTTTATACCTAATTAGTTTATAT
TCATCTTAAATTATAATTCCATTTTGATTTTAAATCTATTCAAATTTATTGATAAATAATATCTA
TTATTTGGAATTATCTCTTACTTAAACTTAAAAAAAATTGTTAT
Found at i:1809039 original size:16 final size:16
Alignment explanation
Indices: 1809009--1809057 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1808999 TTCGTATCCG
*
1809009 ATCCGAAAAAATCGGAT
1 ATCC-AAAAATTCGGAT
1809026 ATCCAAAAATTCGGAT
1 ATCCAAAAATTCGGAT
* * *
1809042 AACCGAAATTTCGGAT
1 ATCCAAAAATTCGGAT
1809058 CGGATATTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 24 0.86
17 4 0.14
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.22
Consensus pattern (16 bp):
ATCCAAAAATTCGGAT
Found at i:1813947 original size:3 final size:3
Alignment explanation
Indices: 1813939--1813988 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
1813929 TATTAGCAGC
* *
1813939 TTA TTA TTA TTA TTA TTA TTG TTA CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1813987 TT
1 TT
1813989 GGCATATCTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:1817253 original size:57 final size:57
Alignment explanation
Indices: 1817165--1817278 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
1817155 GGGGCAAACC
1817165 TAAACACATATCCTCTAACCAATCTCCACAAGATGCATGAAAACCATTGGTAACATG
1 TAAACACATATCCTCTAACCAATCTCCACAAGATGCATGAAAACCATTGGTAACATG
1817222 TAAACACATATCCTCTAACCAATCTCCACAAGATGCATGAAAACCATTGGTAACATG
1 TAAACACATATCCTCTAACCAATCTCCACAAGATGCATGAAAACCATTGGTAACATG
1817279 AGAAGGAAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (57 bp):
TAAACACATATCCTCTAACCAATCTCCACAAGATGCATGAAAACCATTGGTAACATG
Found at i:1823602 original size:49 final size:49
Alignment explanation
Indices: 1823546--1823790 Score: 391
Period size: 49 Copynumber: 5.0 Consensus size: 49
1823536 GAATAACATG
* *
1823546 AGTGGCACTTTTTATGCCGAAATGCACCGTTACGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
1823595 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
* * *
1823644 AGTGGCACATTTTACGCTGAAATGCACCGTTATGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
* * * *
1823693 TGTAGCACCTTTTATGTCGAAATGCACCGTTATACATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
* *
1823742 TGTGACACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
1 AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
1823791 TTAGAGCATT
Statistics
Matches: 180, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 180 1.00
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.38
Consensus pattern (49 bp):
AGTGGCACCTTTTATGCCGAAATGCACCGTTATGCATTTAACTTTCATT
Found at i:1827873 original size:136 final size:137
Alignment explanation
Indices: 1827647--1827920 Score: 541
Period size: 136 Copynumber: 2.0 Consensus size: 137
1827637 ACAAGAGGAG
1827647 TCGTAAAGCTGTCACAACCGACCCTTTGGGGGAAAAGCTTACTAGTTGCAACGATGAAGTTTTTG
1 TCGTAAAGCTGTCACAACCGACCCTTTGGGGGAAAAGCTTACTAGTTGCAACGATGAAGTTTTTG
1827712 AAATTAAATGTTGGGAGTCACCACCAATCATTTTAAGATGCGATTGGAACACCAAAAATCGGGTA
66 AAATTAAATGTTGGGAGTCACCACCAATCATTTTAAGATGCGATTGGAACACCAAAAATCGGGTA
1827777 ATTTTAA
131 ATTTTAA
1827784 TCGTAAAGCTGTCACAACCGACCCTTT-GGGGAAAAGCTTACTAGTTGCAACGATGAAGTTTTTG
1 TCGTAAAGCTGTCACAACCGACCCTTTGGGGGAAAAGCTTACTAGTTGCAACGATGAAGTTTTTG
1827848 AAATTAAATGTTGGGAGTCACCACCAATCATTTTAAGATGCGATTGGAACACCAAAAATCGGGTA
66 AAATTAAATGTTGGGAGTCACCACCAATCATTTTAAGATGCGATTGGAACACCAAAAATCGGGTA
1827913 ATTTTAA
131 ATTTTAA
1827920 T
1 T
1827921 AAAACATTTT
Statistics
Matches: 137, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
136 110 0.80
137 27 0.20
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (137 bp):
TCGTAAAGCTGTCACAACCGACCCTTTGGGGGAAAAGCTTACTAGTTGCAACGATGAAGTTTTTG
AAATTAAATGTTGGGAGTCACCACCAATCATTTTAAGATGCGATTGGAACACCAAAAATCGGGTA
ATTTTAA
Found at i:1830406 original size:55 final size:55
Alignment explanation
Indices: 1830318--1831963 Score: 1797
Period size: 55 Copynumber: 30.0 Consensus size: 55
1830308 GAATCATTGT
* * * *
1830318 AGAAGATTTTTCGAGTTCTATACTCCCTTAAGCAATAGGGAGCGAACCCGTTTGG
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
** * * *
1830373 AGAAGATTGTTCGAGTTCCATACTCTTTGAAGCAATGGGGAGCGAACCCATTGGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * ** * *
1830428 AGAAGATTGTTCGAGTTCTATACTCCATGATGCAATAGGGAGAAAACTCGTTTAC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * * *
1830483 AAAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATGGGGAGCGAAGCCGTTGGT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* **
1830538 AGAAGATTGTCCGAGTTCTTTACTCCCTGAAGCAATAGGGAGCGAACCCG-TTGAC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTG-C
* ** * * * *
1830593 AAAAGATTGTTCGAGTTTTAAACTCCCTAAAGCAATAGGGAGCGAACCCGTCTGT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * *
1830648 AGAAGATTGTTTGATTTCCATACTCCCTGAAGCAATGGGGAGCGAACCCGTTGGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * *
1830703 AGAAGATTGTAT-GAGTTCTATACTCCTTAAAGCAATAGGGAGCGAACCCGTTGGC
1 AGAAGATTGT-TCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * * * *
1830758 AGAAGATT-TCTTGAGTTCTATACTCCCTGAAGCAATAGGGAGTGAAACCATTTTC
1 AGAAGATTGT-TCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * ** *
1830813 AAAAGATTGTTCGAGTTCCATACTCCCTGAAACAATAGGGAGCAAACCCAATTGT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* *
1830868 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATATGGAGTGAACCCGTTTGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * *
1830923 AGAATATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCATTTTC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * * * *
1830978 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAAT-GGAAAGCAAACCCATTGGT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGG-GAGCGAACCCGTTTGC
* ** * * * *
1831033 AGTAGATTGTTTAAGTTCTATACT--CTGAAGCAATAGGGAGTGAACCC-ATTGAT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTG-C
* * * *
1831086 AGAAGATTGTTCGAATTCTATACTCCCTGAAGCAATAGGGAGTGAACCC-TTTGGT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTT-GC
* * * * *
1831141 AGAAGATTGTTCAAGTTCTATACTCCCTGAAAG-AATAGGGAGTGAACCC-ATTGAT
1 AGAAGATTGTTCGAGTTCCATACTCCCTG-AAGCAATAGGGAGCGAACCCGTTTG-C
* * * * *
1831196 AGAAGATAGTTCAAGTTCTATACTCCCTGAAGCAATAGAGAGCAAACCC-TTTGAC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTG-C
* * * * *
1831251 AGAAGATTGTTCAAGTTCTATACTCCCTGAAGCAATAGAGAGCGAACCTGTTTGT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * * * * *
1831306 AGAAGGTTTTTTGAGTTTCATACTCCTTGAAGCAATAGGGAGCGAACCCATTGGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * *
1831361 AGAAGATTGTTCGAGTTCTATACTCCATGAAGCAATAGGGAGAGAACCCGTTGGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* *
1831416 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACTCGGTTT-C
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAAC-CCGTTTGC
* * **
1831471 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCGATAGGGAGCAAACTTGTTTGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * **
1831526 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGTAATAGGGAGAGAACCCATTTTT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * * *
1831581 AGAAGATTATTTGAGTTCCATACTCCCTTAAGCAATAGGGAACGAACCCG-ATGAC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTG-C
* *
1831636 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGAGAACCCATTTGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * **
1831691 AGAAGATTGTTCAAGTTCCATACTCCCTAAAGCAATAGGGAATGAACCCGTTTGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * * * *
1831746 AGAAGATTATTCAAGTTCCATACTCCCTGAACCACTAGGGAGCGAACCCATTTTC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* * * * **
1831801 AGAAGATTGTTTGAGTTCCATACTCCCTAAAGCAATAGAGAACGAACCAATTTGC
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
* ** * **
1831856 AGAATATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGAAAACCCATTTTT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
*** * * *
1831911 AGAAGATTGTTCGAGTTCCATACTTTGTGAAGCAATTGGGAGTGAACCTGTTT
1 AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTT
1831964 ATTGAATATT
Statistics
Matches: 1347, Mismatches: 225, Indels: 38
0.84 0.14 0.02
Matches are distributed among these distances:
52 2 0.00
53 38 0.03
54 17 0.01
55 1272 0.94
56 18 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (55 bp):
AGAAGATTGTTCGAGTTCCATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGC
Found at i:1832381 original size:13 final size:13
Alignment explanation
Indices: 1832363--1832389 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1832353 GGTTGTTACC
1832363 CATCACTCCACTA
1 CATCACTCCACTA
1832376 CATCACTCCACTA
1 CATCACTCCACTA
1832389 C
1 C
1832390 CAATATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.48, G:0.00, T:0.22
Consensus pattern (13 bp):
CATCACTCCACTA
Found at i:1833356 original size:2 final size:2
Alignment explanation
Indices: 1833349--1833394 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
1833339 CATGTTCATA
1833349 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1833391 AT AT
1 AT AT
1833395 GTAAAATACA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1834460 original size:19 final size:19
Alignment explanation
Indices: 1834438--1834504 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
1834428 AGAACTGTTG
* * *
1834438 ACTTTGACCTTAACTATTT
1 ACTTTGACCTAAACCATTA
1834457 ACTTTGACCTAAACCATTA
1 ACTTTGACCTAAACCATTA
* *
1834476 AATTTGACCTAAACCATTG
1 ACTTTGACCTAAACCATTA
*
1834495 ACCTTGACCT
1 ACTTTGACCT
1834505 TTGATTTTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.36
Consensus pattern (19 bp):
ACTTTGACCTAAACCATTA
Found at i:1836260 original size:10 final size:10
Alignment explanation
Indices: 1836245--1836283 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
1836235 AGAAAAGAAA
1836245 TAAATTAATG
1 TAAATTAATG
**
1836255 TAAATTTAAAA
1 TAAA-TTAATG
1836266 TAAATTAATG
1 TAAATTAATG
1836276 TAAATTAA
1 TAAATTAA
1836284 AAATAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (10 bp):
TAAATTAATG
Found at i:1836268 original size:21 final size:21
Alignment explanation
Indices: 1836242--1836290 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
1836232 GAAAGAAAAG
*
1836242 AAATAAATTAATGTAAATTTA
1 AAATAAATTAATGTAAATTAA
1836263 AAATAAATTAATGTAAATTAA
1 AAATAAATTAATGTAAATTAA
1836284 AAATAAA
1 AAATAAA
1836291 ATTATATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (21 bp):
AAATAAATTAATGTAAATTAA
Found at i:1836304 original size:3 final size:3
Alignment explanation
Indices: 1836296--1836320 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1836286 ATAAAATTAT
1836296 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
1836321 ATTATAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:1843884 original size:20 final size:21
Alignment explanation
Indices: 1843856--1843896 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1843846 CTTTACATAG
* *
1843856 TAGTGTCGATATCAT-AGGCA
1 TAGTATCGATACCATCAGGCA
1843876 TAGTATCGATACCATCAGGCA
1 TAGTATCGATACCATCAGGCA
1843897 CAAACGGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.27
Consensus pattern (21 bp):
TAGTATCGATACCATCAGGCA
Found at i:1847969 original size:24 final size:24
Alignment explanation
Indices: 1847942--1847993 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
1847932 AACGGATATA
*
1847942 TCAAAAATCAAAACATAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
** * *
1847966 TCAAGTATCATATCAGAAATCAGG
1 TCAAAAATCAAAACAGAAATCAGG
1847990 TCAA
1 TCAA
1847994 GTAACATATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.17, G:0.12, T:0.21
Consensus pattern (24 bp):
TCAAAAATCAAAACAGAAATCAGG
Found at i:1847994 original size:24 final size:24
Alignment explanation
Indices: 1847962--1848080 Score: 152
Period size: 24 Copynumber: 5.0 Consensus size: 24
1847952 AAACATAAAT
1847962 CAGGTCAAGTATCATATCAGAAAT-
1 CAGGTCAAGTATCATATCAG-AATC
*
1847986 CAGGTCAAGTAACATATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
* *
1848010 CAAGTCAAGTATCAGATCAGAATC
1 CAGGTCAAGTATCATATCAGAATC
*
1848034 CATGTC-AGATATCATATCAGAATC
1 CAGGTCAAG-TATCATATCAGAATC
* *
1848058 CATGTCAAGTATCAGATCAGAAT
1 CAGGTCAAGTATCATATCAGAAT
1848081 TCAAATCAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
23 5 0.06
24 78 0.92
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.24
Consensus pattern (24 bp):
CAGGTCAAGTATCATATCAGAATC
Found at i:1848089 original size:24 final size:24
Alignment explanation
Indices: 1847965--1848098 Score: 137
Period size: 24 Copynumber: 5.6 Consensus size: 24
1847955 CATAAATCAG
* *
1847965 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAA
* *
1847989 GTCAAGTAACATATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAA
*
1848013 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAA
* *
1848037 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAA
*
1848061 GTCAAGTATCAGATCAGAATTCAA
1 GTCAAGTATCAGATCAGAATCCAA
* **
1848085 ATCAAAAATCAGAT
1 GTCAAGTATCAGAT
1848099 AAAATATTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
23 5 0.05
24 88 0.93
25 2 0.02
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAA
Found at i:1850613 original size:10 final size:10
Alignment explanation
Indices: 1850600--1850627 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
1850590 ATCAAAGTTT
1850600 TGGTCAACTG
1 TGGTCAACTG
1850610 TGGTCAACTG
1 TGGTCAACTG
1850620 TGGTCAAC
1 TGGTCAAC
1850628 AGTCAAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (10 bp):
TGGTCAACTG
Found at i:1852712 original size:24 final size:24
Alignment explanation
Indices: 1852685--1852771 Score: 95
Period size: 24 Copynumber: 3.6 Consensus size: 24
1852675 AACGGATATA
* *
1852685 TCAAATATCAAAACATAAATCAGG
1 TCAAGTATCAAATCATAAATCAGG
* *
1852709 TCAAGTATCATATCAGAAATCAGG
1 TCAAGTATCAAATCATAAATCAGG
* *
1852733 TCAAGTAACAAATCAT-AATCCAAG
1 TCAAGTATCAAATCATAAAT-CAGG
*
1852757 TCAAGTATCAGATCA
1 TCAAGTATCAAATCA
1852772 GAATCCATGT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
23 3 0.06
24 49 0.94
ACGTcount: A:0.47, C:0.18, G:0.11, T:0.23
Consensus pattern (24 bp):
TCAAGTATCAAATCATAAATCAGG
Found at i:1852776 original size:24 final size:24
Alignment explanation
Indices: 1852708--1852823 Score: 137
Period size: 24 Copynumber: 4.8 Consensus size: 24
1852698 CATAAATCAG
* *
1852708 GTCAAGTATCATATCAGAAAT-CAG
1 GTCAAGTATCAGATCAG-AATCCAT
* * * *
1852732 GTCAAGTAACAAATCATAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
1852756 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
*
1852780 GTC-AGATATCATATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
1852804 GTCAAGTATCAGATCAGAAT
1 GTCAAGTATCAGATCAGAAT
1852824 TCAAATCGAA
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
23 5 0.06
24 72 0.91
25 2 0.03
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:1855369 original size:18 final size:18
Alignment explanation
Indices: 1855345--1855390 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1855335 CAACGGTTAA
1855345 CGGGTCGGGTCAACAGGT
1 CGGGTCGGGTCAACAGGT
* * **
1855363 TGGGTCGAGTCAAGGGGT
1 CGGGTCGGGTCAACAGGT
1855381 CGGGTCGGGT
1 CGGGTCGGGT
1855391 TGTGACCGGT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.13, C:0.17, G:0.50, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTCAACAGGT
Found at i:1863071 original size:29 final size:28
Alignment explanation
Indices: 1863039--1863255 Score: 233
Period size: 29 Copynumber: 7.5 Consensus size: 28
1863029 AACAAGGCGA
* *
1863039 GGATATAATCCCATAG-AGAATTAGGACAG
1 GGATATAATCCCAT-GTAGAATCAGGA-TG
* *
1863068 GGATACAATCTCATG-AGGAA-CTAGGATGG
1 GGATATAATCCCATGTA-GAATC-AGGAT-G
*
1863097 GGATATAATCTCATGTAGAATCAGGATG
1 GGATATAATCCCATGTAGAATCAGGATG
1863125 AGGATATAATCCCATGTAGAATCAGGATG
1 -GGATATAATCCCATGTAGAATCAGGATG
*
1863154 AGGATATAATCCCATGCAGAATCAGGATGG
1 -GGATATAATCCCATGTAGAATCAGGAT-G
1863184 GGATATAATCCCATGTAGAATCAGGATG
1 GGATATAATCCCATGTAGAATCAGGATG
* **
1863212 GGATATAATCACATACAGAATCAGGACTG
1 GGATATAATCCCATGTAGAATCAGGA-TG
* *
1863241 AGATATAATTCCATG
1 GGATATAATCCCATG
1863256 CAGATCATGA
Statistics
Matches: 165, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
28 27 0.16
29 135 0.82
30 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (28 bp):
GGATATAATCCCATGTAGAATCAGGATG
Found at i:1863183 original size:87 final size:86
Alignment explanation
Indices: 1863037--1863259 Score: 276
Period size: 87 Copynumber: 2.6 Consensus size: 86
1863027 AAAACAAGGC
* * * *
1863037 GAGGATATAATCCCATAGAGAATTAGGA-CAGGGATACAATCTCATG-AGGAACTAGGATGGGGA
1 GAGGATATAATCCCAT-GAGAATCAGGATGA-GGATATAATCCCATGCA-GAACTAGGATGGGGA
*
1863100 TATAATCTCATGTAGAATCAGGAT
63 TATAATCCCATGTAGAATCAGGAT
1863124 GAGGATATAATCCCATGTAGAATCAGGATGAGGATATAATCCCATGCAGAA-TCAGGATGGGGAT
1 GAGGATATAATCCCATG-AGAATCAGGATGAGGATATAATCCCATGCAGAACT-AGGATGGGGAT
1863188 ATAATCCCATGTAGAATCAGGAT
64 ATAATCCCATGTAGAATCAGGAT
* * *
1863211 G-GGATATAATCACATACAGAATCAGGACTGA-GATATAATTCCATGCAGA
1 GAGGATATAATCCCAT-GAGAATCAGGA-TGAGGATATAATCCCATGCAGA
1863260 TCATGACAGA
Statistics
Matches: 122, Mismatches: 8, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
86 42 0.34
87 78 0.64
88 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (86 bp):
GAGGATATAATCCCATGAGAATCAGGATGAGGATATAATCCCATGCAGAACTAGGATGGGGATAT
AATCCCATGTAGAATCAGGAT
Found at i:1863259 original size:29 final size:28
Alignment explanation
Indices: 1863098--1863294 Score: 207
Period size: 29 Copynumber: 6.9 Consensus size: 28
1863088 CTAGGATGGG
* *
1863098 GATATAATCTCATGTAGAATCAGGATGA
1 GATATAATCCCATGCAGAATCAGGATGA
*
1863126 GGATATAATCCCATGTAGAATCAGGATGA
1 -GATATAATCCCATGCAGAATCAGGATGA
*
1863155 GGATATAATCCCATGCAGAATCAGGATGGG
1 -GATATAATCCCATGCAGAATCAGGAT-GA
* *
1863185 GATATAATCCCATGTAGAATCAGGATGG
1 GATATAATCCCATGCAGAATCAGGATGA
* *
1863213 GATATAATCACATACAGAATCAGGACTGA
1 GATATAATCCCATGCAGAATCAGGA-TGA
* * *
1863242 GATATAATTCCATGCAG-ATCATGACAGA
1 GATATAATCCCATGCAGAATCAGGA-TGA
* ** *
1863270 GATACAATCTAATGCAAAATCAGGA
1 GATATAATCCCATGCAGAATCAGGA
1863295 ATGCGTTAAT
Statistics
Matches: 146, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
28 45 0.31
29 100 0.68
30 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (28 bp):
GATATAATCCCATGCAGAATCAGGATGA
Found at i:1865295 original size:18 final size:17
Alignment explanation
Indices: 1865249--1865297 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 17
1865239 TGAGATGATG
1865249 GAAAAGGAGAAAGAACAA
1 GAAAA-GAGAAAGAACAA
1865267 GAAGAAGAG-AAGAAACAA
1 GAA-AAGAGAAAG-AACAA
1865285 GAAAAGAAGAAAG
1 GAAAAG-AGAAAG
1865298 GAAAAAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 6 0.22
18 16 0.59
19 5 0.19
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (17 bp):
GAAAAGAGAAAGAACAA
Found at i:1868216 original size:45 final size:46
Alignment explanation
Indices: 1868152--1868259 Score: 148
Period size: 45 Copynumber: 2.4 Consensus size: 46
1868142 CAGTGCACTA
* *
1868152 AGAGTGCATCGCTGCATCAAGTGCATTCGATG-TTTCA-AAATAGCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-AGCC
*
1868197 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCC
1 AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCC
**
1868243 TCAGTGCATCGATGCAT
1 AGAGTGCATCGATGCAT
1868260 GGTATGTGCA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
45 30 0.54
46 23 0.41
47 3 0.05
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (46 bp):
AGAGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCC
Found at i:1868334 original size:65 final size:63
Alignment explanation
Indices: 1868200--1868345 Score: 172
Period size: 65 Copynumber: 2.3 Consensus size: 63
1868190 AATAGCCAGA
1868200 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGGTAT
* **
1868265 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGG-A
1 GTGCATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGGTA
1868327 TT
63 -T
*
1868329 GGTGCATCGGTGCATCA
1 -GTGCATCGATGCATCA
1868346 CTTTGATAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
62 3 0.04
63 4 0.06
64 22 0.31
65 42 0.59
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGTAT
Found at i:1870982 original size:23 final size:22
Alignment explanation
Indices: 1870952--1871031 Score: 99
Period size: 22 Copynumber: 3.6 Consensus size: 22
1870942 GCATGGCCTT
1870952 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
1870974 CGTGCATCGGTGCACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
1870996 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
1871018 ATGCATCGATGCAC
1 GTGCATCGATGCAC
1871032 TGTTAGGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
21 15 0.32
22 16 0.34
23 16 0.34
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:1871006 original size:44 final size:42
Alignment explanation
Indices: 1870930--1871050 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 42
1870920 AAAACCCGAT
* ** *
1870930 GGATGCATCGATGCA-TGGCCTTGTGCATCGATGCACATTCAA
1 GGATGCATCGATGCACT-GTCAGGTGTATCGATGCACATTCAA
* *
1870972 GGCGTGCATCGGTGCACCT-TCATGGTGTATCGATGCACATTCAA
1 GG-ATGCATCGATGCA-CTGTCA-GGTGTATCGATGCACATTCAA
*
1871016 GGATGCATCGATGCACTGTTAGGTGTATCGATGCA
1 GGATGCATCGATGCACTGTCAGGTGTATCGATGCA
1871051 TGAAGCACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
42 18 0.28
43 25 0.38
44 21 0.32
45 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (42 bp):
GGATGCATCGATGCACTGTCAGGTGTATCGATGCACATTCAA
Found at i:1871047 original size:20 final size:21
Alignment explanation
Indices: 1870956--1871050 Score: 86
Period size: 21 Copynumber: 4.4 Consensus size: 21
1870946 GGCCTTGTGC
*
1870956 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACATTCAA-G-GTGT
* * *
1870979 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGTGT
*
1871000 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACATTCAAGG-TGT
*
1871022 ATCGATGCAC-TGT-TAGGTGT
1 ATCGATGCACAT-TCAAGGTGT
1871042 ATCGATGCA
1 ATCGATGCA
1871051 TGAAGCACAA
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
20 11 0.18
21 22 0.37
22 14 0.23
23 13 0.22
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.27
Consensus pattern (21 bp):
ATCGATGCACATTCAAGGTGT
Found at i:1873835 original size:139 final size:139
Alignment explanation
Indices: 1873585--1873864 Score: 551
Period size: 139 Copynumber: 2.0 Consensus size: 139
1873575 AGATTTTCAA
*
1873585 ATTCAGTTCCATGATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCGTTTTGGATTACTTTT
1 ATTCAGTTCCATAATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCGTTTTGGATTACTTTT
1873650 GAAAACATGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAGAATAGAACCCAAGTATATCT
66 GAAAACATGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAGAATAGAACCCAAGTATATCT
1873715 AGAATAGTC
131 AGAATAGTC
1873724 ATTCAGTTCCATAATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCGTTTTGGATTACTTTT
1 ATTCAGTTCCATAATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCGTTTTGGATTACTTTT
1873789 GAAAACATGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAGAATAGAACCCAAGTATATCT
66 GAAAACATGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAGAATAGAACCCAAGTATATCT
1873854 AGAATAGTC
131 AGAATAGTC
1873863 AT
1 AT
1873865 CTACCAAGAC
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.38
Consensus pattern (139 bp):
ATTCAGTTCCATAATCACTCCTAACACTAGTTATAGAGTAACCTTTTTCGTTTTGGATTACTTTT
GAAAACATGATGAATTTTTCTAATGCTTCATCTTTAGTACTTAAGAATAGAACCCAAGTATATCT
AGAATAGTC
Found at i:1877178 original size:65 final size:64
Alignment explanation
Indices: 1876984--1877189 Score: 229
Period size: 65 Copynumber: 3.2 Consensus size: 64
1876974 CTAAGAGTCT
* * * * *
1876984 ATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGCCAGAGTGCATCGATGCATGGCTGGTGT
1 ATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCCATAGTGCATCGATGCATGGTTGGTGC
* *
1877048 ATCGATGCATCAAATGCATTTGATGTTTTCATAAAATCCTTAGTGCATCGATGCATGGTAT-GTG
1 ATCGATGCATCAAATGCATTCGATG-TTTCATAAAATCCATAGTGCATCGATGCATGGT-TGGTG
1877112 C
64 C
* ** * *
1877113 ATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATTGGTG
1 ATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCCATAGTGCATCGATGCATGG-TTGGTG
1877177 C
64 C
*
1877178 ATCGCTGCATCA
1 ATCGATGCATCA
1877190 CTTTGATAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
63 3 0.03
64 47 0.39
65 66 0.55
66 4 0.03
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (64 bp):
ATCGATGCATCAAATGCATTCGATGTTTCATAAAATCCATAGTGCATCGATGCATGGTTGGTGC
Found at i:1877637 original size:20 final size:20
Alignment explanation
Indices: 1877614--1877663 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
1877604 TTTGAGTTAA
1877614 TTAAAATATGTTTAAAG-TGT
1 TTAAAATATGTTTAAAGCT-T
*
1877634 TTAAAATGTGTTTAAAGCTT
1 TTAAAATATGTTTAAAGCTT
*
1877654 TTTAAATATG
1 TTAAAATATG
1877664 AAAAAAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.46
Consensus pattern (20 bp):
TTAAAATATGTTTAAAGCTT
Found at i:1877758 original size:21 final size:20
Alignment explanation
Indices: 1877717--1877770 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 20
1877707 TATTGTTCAT
1877717 AGTTTGGAAAC-TTTGTAAG
1 AGTTTGGAAACTTTTGTAAG
*
1877736 AGTTTGGAAACTTTTATTAAG
1 AGTTTGGAAACTTTT-GTAAG
1877757 AGTTTGGAAACTTT
1 AGTTTGGAAACTTT
1877771 GCACCCAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.34
20 3 0.09
21 18 0.56
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (20 bp):
AGTTTGGAAACTTTTGTAAG
Found at i:1877884 original size:19 final size:20
Alignment explanation
Indices: 1877860--1877912 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1877850 AGTGTATTTA
* *
1877860 AAAGTTTCTATACTTTC-AC
1 AAAGTTTCAAAACTTTCTAC
*
1877879 AAAGTTTCAAAACTTTCTTC
1 AAAGTTTCAAAACTTTCTAC
*
1877899 AAAGTTTCGAAACT
1 AAAGTTTCAAAACT
1877913 AAATGTGCAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.38
Consensus pattern (20 bp):
AAAGTTTCAAAACTTTCTAC
Found at i:1882375 original size:29 final size:29
Alignment explanation
Indices: 1882343--1882414 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 29
1882333 ACATAAATGT
* *
1882343 GATATAATCTCATGCAAAAACAGGATAGA
1 GATATAATCTCATGCAAAAACAGAACAGA
* * * * * *
1882372 GATACAATCCCATGCAGAATCAGAACGGG
1 GATATAATCTCATGCAAAAACAGAACAGA
1882401 GATATAATCTCATG
1 GATATAATCTCATG
1882415 TAGAATCAAG
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.42, C:0.18, G:0.19, T:0.21
Consensus pattern (29 bp):
GATATAATCTCATGCAAAAACAGAACAGA
Found at i:1882771 original size:37 final size:37
Alignment explanation
Indices: 1882723--1882799 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
1882713 ATAAAGTCAC
*
1882723 AAAATACAACTTATACATATCTCGAGAGAAATGTGCA
1 AAAATACAACTTATACATATCTCGAGAGAAACGTGCA
* *
1882760 AAAATACAACTTATACGTATCTTGAGAGAAACGTGCA
1 AAAATACAACTTATACATATCTCGAGAGAAACGTGCA
1882797 AAA
1 AAA
1882800 TCAAACTGAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (37 bp):
AAAATACAACTTATACATATCTCGAGAGAAACGTGCA
Found at i:1884120 original size:19 final size:19
Alignment explanation
Indices: 1884098--1884134 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1884088 TCTACATCGA
1884098 TAGTCGTCAACTACGTCAG
1 TAGTCGTCAACTACGTCAG
* *
1884117 TAGTCGTTAGCTACGTCA
1 TAGTCGTCAACTACGTCA
1884135 TCATGTTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (19 bp):
TAGTCGTCAACTACGTCAG
Found at i:1886075 original size:157 final size:157
Alignment explanation
Indices: 1885868--1886179 Score: 597
Period size: 157 Copynumber: 2.0 Consensus size: 157
1885858 CTGTATCACG
1885868 TAAACTGAAGATAGAATAACAGAATTATGGGTTTCCTCTACTTGTCCAATGCTTAACAAAGGTGA
1 TAAACTGAAGATAGAATAACAGAATTATGGGTTTCCTCTACTTGTCCAATGCTTAACAAAGGTGA
1885933 CTAGCTCAATTAAGTGAATGAAAAGTGGTTGTCAGAACTGCTTAGCAATCACCTTATCATGCAAT
66 CTAGCTCAATTAAGTGAATGAAAAGTGGTTGTCAGAACTGCTTAGCAATCACCTTATCATGCAAT
* *
1885998 CATGTAATAAGCATCTTGGGAATTACA
131 CATGTAATAAGCATATCGGGAATTACA
*
1886025 TAAACTGAAGATAGAATAACAGAATTATGGGTTTCCTCTACTTGTCCAATGCTTACCAAAGGTGA
1 TAAACTGAAGATAGAATAACAGAATTATGGGTTTCCTCTACTTGTCCAATGCTTAACAAAGGTGA
1886090 CTAGCTCAATTAAGTGAATGAAAAGTGGTTGTCAGAACTGCTTAGCAATCACCTTATCATGCAAT
66 CTAGCTCAATTAAGTGAATGAAAAGTGGTTGTCAGAACTGCTTAGCAATCACCTTATCATGCAAT
1886155 CATGTAATAAGCATATCGGGAATTA
131 CATGTAATAAGCATATCGGGAATTA
1886180 ACTGCCTATT
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (157 bp):
TAAACTGAAGATAGAATAACAGAATTATGGGTTTCCTCTACTTGTCCAATGCTTAACAAAGGTGA
CTAGCTCAATTAAGTGAATGAAAAGTGGTTGTCAGAACTGCTTAGCAATCACCTTATCATGCAAT
CATGTAATAAGCATATCGGGAATTACA
Found at i:1887523 original size:20 final size:21
Alignment explanation
Indices: 1887498--1887548 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
1887488 TCGGATGATC
1887498 AGTATCGATACTGAT-TGAAG
1 AGTATCGATACTGATGTGAAG
*
1887518 AGTATCGATACTGATGTGGAG
1 AGTATCGATACTGATGTGAAG
1887539 -GTATCGATAC
1 AGTATCGATAC
1887549 CAAGAGGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (21 bp):
AGTATCGATACTGATGTGAAG
Found at i:1891368 original size:2 final size:2
Alignment explanation
Indices: 1891361--1891403 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1891351 CAGGTTTCAG
1891361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1891403 A
1 A
1891404 ACCTAAGTGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1892504 original size:25 final size:26
Alignment explanation
Indices: 1892470--1892535 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 26
1892460 TATTTTTTAT
*
1892470 ATATTCAAATATTTCAAAT-ATAATA
1 ATATTTAAATATTTCAAATAATAATA
* *
1892495 ATATTTAAATTAAATTCATATAATAATA
1 ATATTTAAA-T-ATTTCAAATAATAATA
*
1892523 ATA-ATAAATATTT
1 ATATTTAAATATTT
1892536 TATTCACAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
25 11 0.33
26 2 0.06
27 11 0.33
28 9 0.27
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATTTAAATATTTCAAATAATAATA
Found at i:1893338 original size:50 final size:51
Alignment explanation
Indices: 1893283--1893379 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 51
1893273 GAAATAATTC
*
1893283 TTTACAATTATTTTT-AAATAATT-AATAAATTTTAATAAATAAATTATCTT
1 TTTACAATTATTTTTGAAATAATTCAA-AAATTATAATAAATAAATTATCTT
*
1893333 TTTACAATTATTTTTGAAATGATTCAAAAATTATAATAAATAAATTA
1 TTTACAATTATTTTTGAAATAATTCAAAAATTATAATAAATAAATTA
1893380 AATTATTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 15 0.35
51 26 0.60
52 2 0.05
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (51 bp):
TTTACAATTATTTTTGAAATAATTCAAAAATTATAATAAATAAATTATCTT
Found at i:1904240 original size:2 final size:2
Alignment explanation
Indices: 1904233--1904311 Score: 149
Period size: 2 Copynumber: 39.0 Consensus size: 2
1904223 TGTATCTATG
1904233 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1904275 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
1904312 GAGAAATGAA
Statistics
Matches: 76, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 74 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1914008 original size:59 final size:59
Alignment explanation
Indices: 1913934--1914339 Score: 577
Period size: 59 Copynumber: 6.9 Consensus size: 59
1913924 CCCATACGGG
* * * *
1913934 AATTCATACACTTAGTATGAATTCCTTATCATTTTAGCATACA-AGGTGCCCAATATGGA
1 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAGA-GTGCCCTATATGGA
** ** *
1913993 GGTTCATACACTTAGTATGAATTCCTGATCATGTTAGCACACAGAGTTCCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAGAGTGCCCTATATGGA
*
1914052 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGGAGTGCCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAGAGTGCCCTATATGGA
* * *
1914111 AATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACGGAGTACCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAGAGTGCCCTATATGGA
*
1914170 AATTAATACACTTAGTATGAATTCCTTCTCATGTTAGCACA-AGGAGTGCCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACA-GAGTGCCCTATATGGA
* * *
1914229 ATTTCATACACTTAGTATGAGTTCCTTCTCATGTTAGCACAC-GAAGTTCCCTATATGGA
1 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAG-AGTGCCCTATATGGA
* *
1914288 AATTCATACACTTAGTATGAATTCATTCTCATGTTAGCAAAC-GAAGTGCCCT
1 AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAG-AGTGCCCT
1914340 TCTAGTAATC
Statistics
Matches: 315, Mismatches: 28, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
58 1 0.00
59 313 0.99
60 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (59 bp):
AATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACAGAGTGCCCTATATGGA
Found at i:1916845 original size:33 final size:33
Alignment explanation
Indices: 1916803--1916877 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
1916793 ATGAAATAAT
*
1916803 AGATGATATGTGTCTATAAGTATGACATATGTA
1 AGATGATATGTGTCTATAAGTATGACATAGGTA
*
1916836 AGATTATATGTGTCTATAAGTATGACATAGGTA
1 AGATGATATGTGTCTATAAGTATGACATAGGTA
*
1916869 AAATGATAT
1 AGATGATAT
1916878 AGGTATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (33 bp):
AGATGATATGTGTCTATAAGTATGACATAGGTA
Found at i:1928506 original size:59 final size:58
Alignment explanation
Indices: 1928443--1928737 Score: 412
Period size: 59 Copynumber: 5.0 Consensus size: 58
1928433 TACATTTCCC
* * * *
1928443 ATATGGGAATTCATACACTTAGCATGAATTCCATATCATTTTAGCACACAAGGTG-CCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACAA-GTGCCCT
** * *
1928501 AATATGGAGGTTCATACACTTAGTATAAATTCCTTATCATGTTAGCACACGATGTGCCCT
1 -ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACAC-AAGTGCCCT
* * *
1928561 ATATGGAAATTCATAAACTTAGTATGAATTCCTTCTCATGTTAGCACACGGAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACAC-AAGTGCCCT
*
1928620 ATATGGAAATTCATACACTTAGTATGAATTCCTTTTCATGTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACAC-AAGTGCCCT
*
1928679 ATATGGAAATTCATACACTTAGTATGAATTCCTTCTCATGTTAGCACACGAAGTGCCCT
1 ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACAC-AAGTGCCCT
1928738 TCTGGTAATC
Statistics
Matches: 215, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
59 211 0.98
60 4 0.02
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (58 bp):
ATATGGAAATTCATACACTTAGTATGAATTCCTTATCATGTTAGCACACAAGTGCCCT
Found at i:1929183 original size:20 final size:20
Alignment explanation
Indices: 1929154--1929278 Score: 75
Period size: 20 Copynumber: 6.5 Consensus size: 20
1929144 ATGTGGTCCA
*
1929154 GTATCTATACCCTTACCATG
1 GTATCGATACCCTTACCATG
* *
1929174 GTATCGATACTACTATACTATG
1 GTATCGATAC-CCT-TACCATG
* * *
1929196 GTACCGATACCCCTA-TATG
1 GTATCGATACCCTTACCATG
*** **
1929215 GTATCGATACCAAAATTA-G
1 GTATCGATACCCTTACCATG
*
1929234 GT-TCGAT---GTTACC-TG
1 GTATCGATACCCTTACCATG
1929249 GTATCGATACCCTTACCATG
1 GTATCGATACCCTTACCATG
1929269 GTATCGATAC
1 GTATCGATAC
1929279 TACCTCATTC
Statistics
Matches: 80, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
15 4 0.05
16 5 0.06
18 5 0.06
19 23 0.29
20 25 0.31
21 3 0.04
22 15 0.19
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCTTACCATG
Found at i:1929211 original size:22 final size:22
Alignment explanation
Indices: 1929163--1929212 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1929153 AGTATCTATA
*
1929163 CCCT-TACCATGGTATCGATAC
1 CCCTATACCATGGTACCGATAC
** *
1929184 TACTATACTATGGTACCGATAC
1 CCCTATACCATGGTACCGATAC
1929206 CCCTATA
1 CCCTATA
1929213 TGGTATCGAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (22 bp):
CCCTATACCATGGTACCGATAC
Found at i:1938445 original size:15 final size:15
Alignment explanation
Indices: 1938422--1938451 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1938412 GAGTATGGAG
*
1938422 CACTCGAATACAGTT
1 CACTAGAATACAGTT
1938437 CACTAGAATACAGTT
1 CACTAGAATACAGTT
1938452 GAGGAAGATG
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:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (15 bp):
CACTAGAATACAGTT
Found at i:1951863 original size:5 final size:5
Alignment explanation
Indices: 1951850--1951899 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
1951840 AACGGTCAAC
* *
1951850 GGTCA GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTC- GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTC
1951900 AGACCGGTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
4 4 0.10
5 31 0.79
7 4 0.10
ACGTcount: A:0.06, C:0.22, G:0.52, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:1951874 original size:27 final size:26
Alignment explanation
Indices: 1951843--1951909 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
1951833 GAAAGTCAAC
1951843 GGTCAACGGTCAGGTCGGGTCGGGTCG
1 GGTCAACGGTCAGGTCGGGTC-GGTCG
*
1951870 GGTCAACGGTCGGGTCGGGTCGGTCG
1 GGTCAACGGTCAGGTCGGGTCGGTCG
1951896 GGTCAGACCGGTCA
1 GGTCA-A-CGGTCA
1951910 AACCAGTTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 10 0.28
27 21 0.58
28 5 0.14
ACGTcount: A:0.12, C:0.24, G:0.46, T:0.18
Consensus pattern (26 bp):
GGTCAACGGTCAGGTCGGGTCGGTCG
Found at i:1951942 original size:20 final size:20
Alignment explanation
Indices: 1951898--1951943 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
1951888 GTCGGTCGGG
*
1951898 TCAG-ACCGGTCAAACCAGT
1 TCAGAACCGGTCAAACCAGA
1951917 TC-GAACCGGTCAAAACC-GA
1 TCAGAACCGGTC-AAACCAGA
1951936 TCAGAACC
1 TCAGAACC
1951944 TGTTTCCAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.35, C:0.33, G:0.20, T:0.13
Consensus pattern (20 bp):
TCAGAACCGGTCAAACCAGA
Found at i:1964637 original size:11 final size:11
Alignment explanation
Indices: 1964621--1964657 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1964611 AAATTTTGGC
1964621 TTTTTGTTTTT
1 TTTTTGTTTTT
*
1964632 TTTTTGTCTTT
1 TTTTTGTTTTT
*
1964643 TTTTGGTTTTT
1 TTTTTGTTTTT
1964654 TTTT
1 TTTT
1964658 GTGGAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (11 bp):
TTTTTGTTTTT
Found at i:1966231 original size:22 final size:19
Alignment explanation
Indices: 1966204--1966252 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
1966194 TGTATTCTAT
1966204 TAATTTAATCCTAATTTTAA
1 TAATTTAAT-CTAATTTTAA
1966224 TTAAATTTAA--TAATTTTAA
1 -T-AATTTAATCTAATTTTAA
1966243 TAATTTAATC
1 TAATTTAATC
1966253 ATATTACGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
17 7 0.28
18 1 0.04
19 9 0.36
21 1 0.04
22 7 0.28
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTTAATCTAATTTTAA
Found at i:1966243 original size:9 final size:9
Alignment explanation
Indices: 1966215--1966248 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1966205 AATTTAATCC
1966215 TAATTTTAA
1 TAATTTTAA
*
1966224 TTAAATTTAA
1 -TAATTTTAA
1966234 TAATTTTAA
1 TAATTTTAA
1966243 TAATTT
1 TAATTT
1966249 AATCATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TAATTTTAA
Found at i:1966249 original size:17 final size:19
Alignment explanation
Indices: 1966215--1966251 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1966205 AATTTAATCC
1966215 TAATTTTAATTAAATTTAA
1 TAATTTTAATTAAATTTAA
1966234 TAATTTTAA-T-AATTTAA
1 TAATTTTAATTAAATTTAA
1966251 T
1 T
1966252 CATATTACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 1 0.06
19 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATTTTAATTAAATTTAA
Found at i:1966883 original size:20 final size:19
Alignment explanation
Indices: 1966849--1966893 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
1966839 ATATATATAT
* *
1966849 AATTATTAGTAAAAAATTAA
1 AATTATTACT-AAAAATAAA
*
1966869 AATTATTACTGAAAATAAA
1 AATTATTACTAAAAATAAA
1966888 AATTAT
1 AATTAT
1966894 ATATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
AATTATTACTAAAAATAAA
Found at i:1966898 original size:2 final size:2
Alignment explanation
Indices: 1966891--1966929 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1966881 AAATAAAAAT
1966891 TA TA TA TA TA 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 TA TA TA TA TA T
1966930 GAGATTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1973223 original size:2 final size:2
Alignment explanation
Indices: 1973216--1973248 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1973206 TAGCAGACTT
1973216 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1973249 TGCAGTTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1974323 original size:99 final size:98
Alignment explanation
Indices: 1974149--1974339 Score: 249
Period size: 99 Copynumber: 1.9 Consensus size: 98
1974139 AGTTAAGCAA
* * * *
1974149 CACCTTTATCATGTTAGCTGAATCTTATCCATAAAGTCGGGGCATTTAACCAATTGTCTTAGAGG
1 CACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGTCTTAGAGG
1974214 GACAACTCAAGCTTTATTGTATAAATATTATAAT
66 GACAACTCAAGCTTTATT-TATAAATATTATAAT
* * * *
1974248 CACCTTTATGAGGCTAGTTGAATTTTATCCATAAAGCCAGGGCGTTTAACCAATTG-CTCTAGAG
1 CACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGTCT-TAGAG
* ** *
1974312 GGATATTTCAAGCTTTATTTATATATAT
65 GGACAACTCAAGCTTTATTTATAAATAT
1974340 AATATTATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
98 10 0.13
99 69 0.87
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (98 bp):
CACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAGGGCATTTAACCAATTGTCTTAGAGG
GACAACTCAAGCTTTATTTATAAATATTATAAT
Found at i:1978007 original size:16 final size:17
Alignment explanation
Indices: 1977968--1978041 Score: 63
Period size: 15 Copynumber: 4.7 Consensus size: 17
1977958 AACAAATTGC
1977968 AATATATATATATAATAA
1 AATATA-ATATATAATAA
* *
1977986 AGTATAATATCTAA-AA
1 AATATAATATATAATAA
1978002 AATATAA-ATA-AAT-A
1 AATATAATATATAATAA
*
1978016 AATA-AATAAATAATAA
1 AATATAATATATAATAA
1978032 AA-A-AATATAT
1 AATATAATATAT
1978042 GTATATATGA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
13 2 0.04
14 9 0.20
15 12 0.26
16 11 0.24
17 7 0.15
18 5 0.11
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (17 bp):
AATATAATATATAATAA
Found at i:1978011 original size:17 final size:18
Alignment explanation
Indices: 1977968--1978040 Score: 57
Period size: 17 Copynumber: 4.3 Consensus size: 18
1977958 AACAAATTGC
*
1977968 AATATATATATATAATAA
1 AATATAAATATATAATAA
* *
1977986 AGTAT-AATATCTAA-AA
1 AATATAAATATATAATAA
* *
1978002 AATATAAATAAATAA-AT
1 AATATAAATATATAATAA
*
1978019 AA-ATAAATA-ATAAAAA
1 AATATAAATATATAATAA
1978035 AATATA
1 AATATA
1978041 TGTATATATG
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
15 4 0.09
16 16 0.36
17 20 0.45
18 4 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (18 bp):
AATATAAATATATAATAA
Found at i:1978014 original size:4 final size:4
Alignment explanation
Indices: 1978005--1978038 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
1977995 TCTAAAAAAT
*
1978005 ATAA ATAA ATAA ATAA ATAA AT-A ATAA AAAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
1978039 TATGTATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:1978022 original size:12 final size:12
Alignment explanation
Indices: 1978005--1978038 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
1977995 TCTAAAAAAT
1978005 ATAAATAAATAA
1 ATAAATAAATAA
1978017 ATAAATAAAT-A
1 ATAAATAAATAA
*
1978028 ATAAAAAAATA
1 ATAAATAAATA
1978039 TATGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAATAAATAA
Found at i:1978122 original size:27 final size:24
Alignment explanation
Indices: 1978092--1978141 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
1978082 AATATTTTTA
*
1978092 AAAACTAACATAAAAAACTGAAAAAAC
1 AAAACT-A-ATAAAAAA-TAAAAAAAC
1978119 AAAACTAATAAAAAATAAAAAAA
1 AAAACTAATAAAAAATAAAAAAA
1978142 GAATATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 7 0.32
25 8 0.36
26 1 0.05
27 6 0.27
ACGTcount: A:0.76, C:0.10, G:0.02, T:0.12
Consensus pattern (24 bp):
AAAACTAATAAAAAATAAAAAAAC
Found at i:1978184 original size:15 final size:15
Alignment explanation
Indices: 1978165--1978207 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1978155 TATATTAAAG
1978165 AATAATATAAAATGA
1 AATAATATAAAATGA
* * *
1978180 GATAATATAACATTA
1 AATAATATAAAATGA
1978195 AATAA-ATAAAATG
1 AATAATATAAAATG
1978208 TCAATTTAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (15 bp):
AATAATATAAAATGA
Found at i:1979303 original size:15 final size:14
Alignment explanation
Indices: 1979266--1979315 Score: 57
Period size: 15 Copynumber: 3.5 Consensus size: 14
1979256 AAACGTTAAT
*
1979266 AATAATAAAACAAA
1 AATAATAAAAAAAA
*
1979280 AA-AACAAAAAAAGA
1 AATAATAAAAAAA-A
1979294 AATAATAAAAATAAA
1 AATAATAAAAA-AAA
1979309 AATAATA
1 AATAATA
1979316 TATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 8 0.27
14 5 0.17
15 15 0.50
16 2 0.07
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (14 bp):
AATAATAAAAAAAA
Found at i:1979384 original size:41 final size:38
Alignment explanation
Indices: 1979333--1979476 Score: 117
Period size: 35 Copynumber: 3.9 Consensus size: 38
1979323 TTATATATAA
1979333 AAAAACTATTTCTAAAGAACTATATAATATATATATTTTTTC
1 AAAAACTATTT-TAAA-AACTATAT-AT-TATATATTTTTTC
*
1979375 AAAAA-TATTTTAAAATCTATATATTATATA--TTTT-
1 AAAAACTATTTTAAAAACTATATATTATATATTTTTTC
* * * * *
1979409 AAAAAATGTTTTCAAAATTATATATTATATA-GTTTTC
1 AAAAACTATTTTAAAAACTATATATTATATATTTTTTC
* *
1979446 AAAAA-TGTTTT-AGAA--ATATATTATATATTTT
1 AAAAACTATTTTAAAAACTATATATTATATATTTT
1979477 CAACATGTTT
Statistics
Matches: 91, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
33 12 0.13
34 7 0.08
35 28 0.31
36 10 0.11
37 11 0.12
38 2 0.02
39 7 0.08
40 4 0.04
41 5 0.05
42 5 0.05
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (38 bp):
AAAAACTATTTTAAAAACTATATATTATATATTTTTTC
Found at i:1979414 original size:35 final size:34
Alignment explanation
Indices: 1979359--1979613 Score: 181
Period size: 35 Copynumber: 7.4 Consensus size: 34
1979349 GAACTATATA
* *
1979359 ATATA-TATATTTTTTCAAAAATATTTTAAAATCT
1 ATATATTATATATTTTCAAAAATGTTTTAAAAT-T
*
1979393 ATATATTATATATTTTAAAAAATGTTTTCAAAATT
1 ATATATTATATATTTTCAAAAATGTTTT-AAAATT
*
1979428 ATATATTATATAGTTTTCAAAAATGTTTTAGAA--
1 ATATATTATATA-TTTTCAAAAATGTTTTAAAATT
* *
1979461 ATATATTATATATTTTC-AACATGTTTTTTAAA--
1 ATATATTATATATTTTCAAAAATG-TTTTAAAATT
* * *
1979493 A-A-ATTATATGA-TAT-ATAAATGTTTTCAAAACT
1 ATATATTATAT-ATTTTCAAAAATGTTTT-AAAATT
* * *
1979525 ATATATTATATGAGTTTTTAAAAAATGATTTCAAAAACT
1 ATATATTATAT-A--TTTTCAAAAATG-TTT-TAAAATT
*
1979564 ATATATTATATAAGTTTTC-AAAATGATTTTAAAAACT
1 ATATATTATAT-A-TTTTCAAAAATG-TTTT-AAAATT
1979601 ATATATTATATAT
1 ATATATTATATAT
1979614 GTATTTTTAA
Statistics
Matches: 184, Mismatches: 19, Indels: 35
0.77 0.08 0.15
Matches are distributed among these distances:
29 4 0.02
30 16 0.09
31 7 0.04
32 13 0.07
33 13 0.07
34 14 0.08
35 36 0.20
36 21 0.11
37 29 0.16
38 10 0.05
39 21 0.11
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (34 bp):
ATATATTATATATTTTCAAAAATGTTTTAAAATT
Found at i:1979549 original size:27 final size:27
Alignment explanation
Indices: 1979485--1979549 Score: 62
Period size: 27 Copynumber: 2.4 Consensus size: 27
1979475 TTCAACATGT
*
1979485 TTTTTAAAAAATTATATGATATATAAA
1 TTTTTAAAAAACTATATGATATATAAA
* * *
1979512 TGTTTT-CAAAACTATAT-ATTATATGAG
1 T-TTTTAAAAAACTATATGA-TATATAAA
1979539 TTTTTAAAAAA
1 TTTTTAAAAAA
1979550 TGATTTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
26 5 0.17
27 21 0.70
28 4 0.13
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (27 bp):
TTTTTAAAAAACTATATGATATATAAA
Found at i:1979613 original size:39 final size:39
Alignment explanation
Indices: 1979509--1979612 Score: 151
Period size: 37 Copynumber: 2.7 Consensus size: 39
1979499 TATGATATAT
* *
1979509 AAATG-TTTTCAAAACTATATATTATATGAGTTTTTAAA
1 AAATGATTTTAAAAACTATATATTATATAAGTTTTTAAA
* *
1979547 AAATGATTTCAAAAACTATATATTATATAAG-TTTT-CA
1 AAATGATTTTAAAAACTATATATTATATAAGTTTTTAAA
1979584 AAATGATTTTAAAAACTATATATTATATA
1 AAATGATTTTAAAAACTATATATTATATA
1979613 TGTATTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
37 29 0.48
38 9 0.15
39 22 0.37
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (39 bp):
AAATGATTTTAAAAACTATATATTATATAAGTTTTTAAA
Found at i:1979639 original size:76 final size:76
Alignment explanation
Indices: 1979509--1979653 Score: 172
Period size: 76 Copynumber: 1.9 Consensus size: 76
1979499 TATGATATAT
* **
1979509 AAATGTTTTCAAAACTATATATTATATGAGTTTTTAAAAAATGATTTCAAAAACTAT-ATAT-TA
1 AAATGTTTTAAAAACTATATATTATATGAGTTTTTAAAAAACCATTTC-AAAACTATAATATATA
1979572 TATAAGTTTTCA
65 TATAAGTTTTCA
* *
1979584 AAATGATTTTAAAAACTATATATTATAT-ATGTATTTTTAAAGACCATTTGC-AAACTATAATAT
1 AAATG-TTTTAAAAACTATATATTATATGA-GT-TTTTAAAAAACCATTT-CAAAACTATAATAT
1979647 ATATATA
62 ATATATA
1979654 TATATAAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
75 6 0.10
76 30 0.51
77 16 0.27
78 7 0.12
ACGTcount: A:0.45, C:0.07, G:0.06, T:0.42
Consensus pattern (76 bp):
AAATGTTTTAAAAACTATATATTATATGAGTTTTTAAAAAACCATTTCAAAACTATAATATATAT
ATAAGTTTTCA
Found at i:1981946 original size:14 final size:14
Alignment explanation
Indices: 1981927--1981954 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1981917 ACAGAAATAT
1981927 AAAACATTTTCCAG
1 AAAACATTTTCCAG
1981941 AAAACATTTTCCAG
1 AAAACATTTTCCAG
1981955 TGTTTGGATG
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:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (14 bp):
AAAACATTTTCCAG
Found at i:1982136 original size:16 final size:17
Alignment explanation
Indices: 1982107--1982138 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1982097 TATATAATTA
1982107 TATTTTATAAAAATATG
1 TATTTTATAAAAATATG
1982124 TATTTTA-AAAAATAT
1 TATTTTATAAAAATAT
1982139 TAATAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (17 bp):
TATTTTATAAAAATATG
Found at i:1986129 original size:34 final size:34
Alignment explanation
Indices: 1986091--1986191 Score: 126
Period size: 34 Copynumber: 3.1 Consensus size: 34
1986081 CAGTTGAGAT
1986091 TAAACAAACCCAGATTGAAATTTCACAGAAACTA
1 TAAACAAACCCAGATTGAAATTTCACAGAAACTA
**
1986125 TAAACAAAATC--A--GAAA--TCGA-AGAAACTA
1 TAAACAAACCCAGATTGAAATTTC-ACAGAAACTA
1986153 TAAACAAACCCAGATTGAAATTTCACAGAAACTA
1 TAAACAAACCCAGATTGAAATTTCACAGAAACTA
1986187 TAAAC
1 TAAAC
1986192 GAAATCAGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
28 19 0.35
29 1 0.02
30 5 0.09
32 5 0.09
33 1 0.02
34 24 0.44
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (34 bp):
TAAACAAACCCAGATTGAAATTTCACAGAAACTA
Found at i:1986165 original size:62 final size:62
Alignment explanation
Indices: 1986091--1986210 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
1986081 CAGTTGAGAT
1986091 TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAAGAAACTA
1 TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAAGAAACTA
* *
1986153 TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACGAAATCAGAAATCGCAGAA
1 TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAAGAA
1986211 GTGAAATAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.17
Consensus pattern (62 bp):
TAAACAAACCCAGATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAAGAAACTA
Found at i:1986210 original size:28 final size:27
Alignment explanation
Indices: 1986116--1986210 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 27
1986106 TGAAATTTCA
1986116 CAGAAACTATAAACAAAATCAGAAATCG
1 CAGAAACTATAAAC-AAATCAGAAATCG
* * *
1986144 AAGAAACTATAAACAAACCCAGATTGAAATTTCA
1 CAGAAACTATAAACAAA-TC--A--GAAA--TCG
1986178 CAGAAACTATAAACGAAATCAGAAATCG
1 CAGAAACTATAAAC-AAATCAGAAATCG
1986206 CAGAA
1 CAGAA
1986211 GTGAAATAAG
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
27 3 0.06
28 21 0.40
30 5 0.09
32 5 0.09
34 16 0.30
35 3 0.06
ACGTcount: A:0.55, C:0.18, G:0.12, T:0.16
Consensus pattern (27 bp):
CAGAAACTATAAACAAATCAGAAATCG
Found at i:1998729 original size:60 final size:60
Alignment explanation
Indices: 1998636--1998748 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
1998626 TTTTTGAATA
* **
1998636 TTTTGAATATTTTAATTTCATCCTTAAATTATGA-TTGTCATTCTAAATTAGTCTTTATAC
1 TTTTGAATATTTTAATTGCATCCCCAAATTATGACTT-TCATTCTAAATTAGTCTTTATAC
*
1998696 TTTTGAATATTTTAATTGCCTCCCCAAATTATGACTTTCATTCTAAATTAGTC
1 TTTTGAATATTTTAATTGCATCCCCAAATTATGACTTTCATTCTAAATTAGTC
1998749 CCCAAAATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 46 0.96
61 2 0.04
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (60 bp):
TTTTGAATATTTTAATTGCATCCCCAAATTATGACTTTCATTCTAAATTAGTCTTTATAC
Found at i:2002021 original size:35 final size:35
Alignment explanation
Indices: 2001960--2002034 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
2001950 CATCACGAAT
* * *
2001960 AGTATGGCCTTGAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
*
2001995 AGTAAGGCCCTGAGCACAAAGTCGAGGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
2002030 AGTAA
1 AGTAA
2002035 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.25, G:0.29, T:0.13
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTCCA
Found at i:2002121 original size:24 final size:24
Alignment explanation
Indices: 2002108--2002201 Score: 127
Period size: 24 Copynumber: 4.0 Consensus size: 24
2002098 AAACATAATT
*
2002108 CAAGTCAAGTATCATATCAAAATC
1 CAAGTCAAGTATCATATCAGAATC
* *
2002132 CAAGTCATGTATCAGATCAGAATC
1 CAAGTCAAGTATCATATCAGAATC
*
2002156 CATGTCAA-TATCATATCAGAATC
1 CAAGTCAAGTATCATATCAGAATC
* *
2002179 CAGGTCAAGTATCATAACAGAAT
1 CAAGTCAAGTATCATATCAGAAT
2002202 TCAAATAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
23 21 0.34
24 40 0.66
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (24 bp):
CAAGTCAAGTATCATATCAGAATC
Found at i:2002191 original size:47 final size:48
Alignment explanation
Indices: 2002111--2002201 Score: 130
Period size: 47 Copynumber: 1.9 Consensus size: 48
2002101 CATAATTCAA
* *
2002111 GTCAAGTATCATATCAAAATCCAAGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAAAATCCAAGTCAAGTATCAGAACAGAATCCAT
* * *
2002159 GTCAA-TATCATATCAGAATCCAGGTCAAGTATCATAACAGAAT
1 GTCAAGTATCATATCAAAATCCAAGTCAAGTATCAGAACAGAAT
2002202 TCAAATAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
47 33 0.87
48 5 0.13
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (48 bp):
GTCAAGTATCATATCAAAATCCAAGTCAAGTATCAGAACAGAATCCAT
Found at i:2004636 original size:7 final size:7
Alignment explanation
Indices: 2004624--2004648 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2004614 TTGGTCAACT
2004624 ACGGTCA
1 ACGGTCA
2004631 ACGGTCA
1 ACGGTCA
2004638 ACGGTCA
1 ACGGTCA
2004645 ACGG
1 ACGG
2004649 GTCGGGCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.32, T:0.12
Consensus pattern (7 bp):
ACGGTCA
Found at i:2012725 original size:17 final size:17
Alignment explanation
Indices: 2012703--2012735 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2012693 TATGGAATTA
2012703 GGATTTTTAGAGTTTTG
1 GGATTTTTAGAGTTTTG
2012720 GGATTTTTAGAGTTTT
1 GGATTTTTAGAGTTTT
2012736 AATAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (17 bp):
GGATTTTTAGAGTTTTG
Found at i:2012746 original size:18 final size:18
Alignment explanation
Indices: 2012725--2012759 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2012715 TTTTGGGATT
2012725 TTTAGAGTTTTAATAAAA
1 TTTAGAGTTTTAATAAAA
*
2012743 TTTAGGGTTTTAATAAA
1 TTTAGAGTTTTAATAAA
2012760 TAAATTATAT
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:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (18 bp):
TTTAGAGTTTTAATAAAA
Found at i:2013472 original size:21 final size:21
Alignment explanation
Indices: 2013433--2013472 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2013423 AAAATATAAT
*
2013433 AAATAATATTATTTATTAACA
1 AAATAATAATATTTATTAACA
2013454 AAATAATAATACTTT-TTAA
1 AAATAATAATA-TTTATTAA
2013473 AATATTAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATAATAATATTTATTAACA
Found at i:2013614 original size:23 final size:23
Alignment explanation
Indices: 2013584--2013657 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 23
2013574 TAAAATAAAA
2013584 TTATTAAAAATTATATTAATTAT
1 TTATTAAAAATTATATTAATTAT
* *
2013607 TTATT-AAAA-TA-A-GAATCAT
1 TTATTAAAAATTATATTAATTAT
* ** *
2013626 ATATTATTAATTATATTAATTAC
1 TTATTAAAAATTATATTAATTAT
2013649 TTATTAAAA
1 TTATTAAAA
2013658 TAATAATACC
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
19 9 0.25
20 3 0.08
21 4 0.11
22 5 0.14
23 15 0.42
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (23 bp):
TTATTAAAAATTATATTAATTAT
Found at i:2013795 original size:22 final size:21
Alignment explanation
Indices: 2013770--2013817 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
2013760 TTTTTATGAA
*
2013770 ATTAATAAATAATATTA-ATTTT
1 ATTAATAAAT--TATTATATATT
2013792 ATTAATAAATTATTATATATT
1 ATTAATAAATTATTATATATT
2013813 ATTAA
1 ATTAA
2013818 ATTAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 5 0.21
21 9 0.38
22 10 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAATAAATTATTATATATT
Found at i:2017431 original size:21 final size:21
Alignment explanation
Indices: 2017405--2017456 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
2017395 TTACCCAAAT
2017405 TCCATTAACCAAAATTTTTTC
1 TCCATTAACCAAAATTTTTTC
*
2017426 TCCATTAACTAAAATTTTTTC
1 TCCATTAACCAAAATTTTTTC
*
2017447 TCCATAAACC
1 TCCATTAACC
2017457 GTTAACCGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.00, T:0.40
Consensus pattern (21 bp):
TCCATTAACCAAAATTTTTTC
Found at i:2023955 original size:23 final size:23
Alignment explanation
Indices: 2023929--2023979 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2023919 AATAACATAT
**
2023929 TAGGTACCGCTTATATAATGTAA
1 TAGGTACCGCTTATATAATAAAA
**
2023952 TAGGTAGTGCTTATATAATAAAA
1 TAGGTACCGCTTATATAATAAAA
2023975 TAGGT
1 TAGGT
2023980 TAATTACTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (23 bp):
TAGGTACCGCTTATATAATAAAA
Found at i:2024033 original size:23 final size:23
Alignment explanation
Indices: 2024007--2024063 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
2023997 ATCAAACACA
* * *
2024007 ATAATATATTAGGTACCGCTTAT
1 ATAATATAATAGATACCACTTAT
* *
2024030 ATAATGTAATAGATATCACTTAT
1 ATAATATAATAGATACCACTTAT
*
2024053 ATAATAAAATA
1 ATAATATAATA
2024064 TGTTAATTAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (23 bp):
ATAATATAATAGATACCACTTAT
Found at i:2024063 original size:87 final size:87
Alignment explanation
Indices: 2023902--2024152 Score: 405
Period size: 87 Copynumber: 2.9 Consensus size: 87
2023892 CATTTAACTG
* * *
2023902 GAAATATTACCAAATACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGT-GCTTAT
1 GAAACATTATCAAACACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTA-TCGCTTAT
2023966 ATAATAAAATAGGTTAATTACTA
65 ATAATAAAATAGGTTAATTACTA
* * *
2023989 GAAACATTATCAAACACAATAATATATTAGGTACCGCTTATATAATGTAATAGATATCACTTATA
1 GAAACATTATCAAACACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTATCGCTTATA
*
2024054 TAATAAAATATGTTAATTACTA
66 TAATAAAATAGGTTAATTACTA
* *
2024076 GAAACATTATCAAACACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGTAGCGCTTATA
1 GAAACATTATCAAACACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTATCGCTTATA
2024141 TAATAAAATAGG
66 TAATAAAATAGG
2024153 CAGCGCTTAT
Statistics
Matches: 150, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
86 1 0.01
87 149 0.99
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (87 bp):
GAAACATTATCAAACACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTATCGCTTATA
TAATAAAATAGGTTAATTACTA
Found at i:2024120 original size:23 final size:23
Alignment explanation
Indices: 2024094--2024173 Score: 106
Period size: 23 Copynumber: 3.5 Consensus size: 23
2024084 ATCAAACACA
* *
2024094 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
2024117 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
* *
2024140 ATAATAAAATAGGCAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
2024163 ATAATAAAATA
1 ATAATATAATA
2024174 TGTTAATTAC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.31
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:2024137 original size:110 final size:110
Alignment explanation
Indices: 2024007--2024261 Score: 377
Period size: 110 Copynumber: 2.3 Consensus size: 110
2023997 ATCAAACACA
* * * ** * *
2024007 ATAATATATTAGGTACCGCTTATATAATGTAATAGATATCACTTATATAATAAAATATGTTAATT
1 ATAATGTAATAGGTAACGCTTATATAATAAAATAGACAGCACTTATATAATAAAATATGTTAATT
* *
2024072 ACT-AGAAACATTATCAAACACAATAACATATTAGGTAGCGCTTAT
66 ACTGA-AAACATTATCAAACACAATAACATATTAGGTACCACTTAT
* * *
2024117 ATAATGTAATAGGTAGCGCTTATATAATAAAATAGGCAGCGCTTATATAATAAAATATGTTAATT
1 ATAATGTAATAGGTAACGCTTATATAATAAAATAGACAGCACTTATATAATAAAATATGTTAATT
2024182 ACTGAAAACATTATCAAACACAATAACATATTAGGTACCACTTAT
66 ACTGAAAACATTATCAAACACAATAACATATTAGGTACCACTTAT
*
2024227 ATAATGTAATAGGTAACACTTATATAATAAAATAG
1 ATAATGTAATAGGTAACGCTTATATAATAAAATAG
2024262 GTTAATTACT
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
110 130 0.99
111 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (110 bp):
ATAATGTAATAGGTAACGCTTATATAATAAAATAGACAGCACTTATATAATAAAATATGTTAATT
ACTGAAAACATTATCAAACACAATAACATATTAGGTACCACTTAT
Found at i:2024226 original size:87 final size:87
Alignment explanation
Indices: 2024126--2024359 Score: 351
Period size: 87 Copynumber: 2.7 Consensus size: 87
2024116 TATAATGTAA
* ** * *
2024126 TAGGTAGCGCTTATATAATAAAATAGGCAGCGCTTATATAATAAAATATGTTAATTACTGAAAAC
1 TAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAAC
2024191 ATTATCAAACACAATAACATAT
66 ATTATCAAACACAATAACATAT
* * * *
2024213 TAGGTACCACTTATATAATGTAATAGGTAACACTTATATAATAAAATAGGTTAATTACTGGAAAC
1 TAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAAC
*
2024278 ATTATCAAGCACAATAACATAT
66 ATTATCAAACACAATAACATAT
* *
2024300 TAGGTATCGCTTATATAACGTAATAGGTAGCGCTTATATAATAAAAATAGGTTAATTACT
1 TAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAAT-AAAATAGGTTAATTACT
2024360 TAATTTGTTA
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 114 0.87
88 17 0.13
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (87 bp):
TAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGTTAATTACTGAAAAC
ATTATCAAACACAATAACATAT
Found at i:2024230 original size:23 final size:23
Alignment explanation
Indices: 2024204--2024263 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
2024194 ATCAAACACA
* *
2024204 ATAACATATTAGGTACCACTTAT
1 ATAACATAATAGGTAACACTTAT
**
2024227 ATAATGTAATAGGTAACACTTAT
1 ATAACATAATAGGTAACACTTAT
* *
2024250 ATAATAAAATAGGT
1 ATAACATAATAGGT
2024264 TAATTACTGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAACACTTAT
Found at i:2024262 original size:110 final size:110
Alignment explanation
Indices: 2024048--2024262 Score: 378
Period size: 110 Copynumber: 2.0 Consensus size: 110
2024038 ATAGATATCA
* *
2024048 CTTATATAATAAAATATGTTAATTACTAGAAACATTATCAAACACAATAACATATTAGGTAGCGC
1 CTTATATAATAAAATATGTTAATTACTAGAAACATTATCAAACACAATAACATATTAGGTACCAC
* *
2024113 TTATATAATGTAATAGGTAGCGCTTATATAATAAAATAGGCAGCG
66 TTATATAATGTAATAGGTAACACTTATATAATAAAATAGGCAGCG
2024158 CTTATATAATAAAATATGTTAATTACT-GAAAACATTATCAAACACAATAACATATTAGGTACCA
1 CTTATATAATAAAATATGTTAATTACTAG-AAACATTATCAAACACAATAACATATTAGGTACCA
2024222 CTTATATAATGTAATAGGTAACACTTATATAATAAAATAGG
65 CTTATATAATGTAATAGGTAACACTTATATAATAAAATAGG
2024263 TTAATTACTG
Statistics
Matches: 100, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
109 1 0.01
110 99 0.99
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (110 bp):
CTTATATAATAAAATATGTTAATTACTAGAAACATTATCAAACACAATAACATATTAGGTACCAC
TTATATAATGTAATAGGTAACACTTATATAATAAAATAGGCAGCG
Found at i:2024271 original size:197 final size:197
Alignment explanation
Indices: 2023920--2024350 Score: 684
Period size: 197 Copynumber: 2.2 Consensus size: 197
2023910 ACCAAATACA
* * * ** * *
2023920 ATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGTGCTTATATAATAAAATAGGTTAATT
1 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGCAGCGCTTATATAATAAAATAGGTTAATT
* * *
2023985 ACTAGAAACATTATCAAACACAATAATATATTAGGTACCGCTTATATAATGTAATAGATATCACT
66 ACTAGAAACATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAATAGATAACACT
*
2024050 TATATAATAAAATATGTTAATTACTAGAAACATTATCAAACACAATAACATATTAGGTAGCGCTT
131 TATATAATAAAATAGGTTAATTACTAGAAACATTATCAAACACAATAACATATTAGGTAGCGCTT
2024115 AT
196 AT
* *
2024117 ATAATGTAATAGGTAGCGCTTATATAATAAAATAGGCAGCGCTTATATAATAAAATATGTTAATT
1 ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGCAGCGCTTATATAATAAAATAGGTTAATT
*
2024182 ACT-GAAAACATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAATAGGTAACAC
66 ACTAG-AAACATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAATAGATAACAC
* * *
2024246 TTATATAATAAAATAGGTTAATTACTGGAAACATTATCAAGCACAATAACATATTAGGTATCGCT
130 TTATATAATAAAATAGGTTAATTACTAGAAACATTATCAAACACAATAACATATTAGGTAGCGCT
2024311 TAT
195 TAT
2024314 ATAACGTAATAGGTAGCGCTTATATAATAAAAATAGG
1 ATAACGTAATAGGTAGCGCTTATATAAT-AAAATAGG
2024351 TTAATTACTT
Statistics
Matches: 214, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
196 1 0.00
197 205 0.96
198 8 0.04
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (197 bp):
ATAACGTAATAGGTAGCGCTTATATAATAAAATAGGCAGCGCTTATATAATAAAATAGGTTAATT
ACTAGAAACATTATCAAACACAATAACATATTAGGTACCACTTATATAATGTAATAGATAACACT
TATATAATAAAATAGGTTAATTACTAGAAACATTATCAAACACAATAACATATTAGGTAGCGCTT
AT
Found at i:2024317 original size:23 final size:23
Alignment explanation
Indices: 2024291--2024340 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
2024281 ATCAAGCACA
* *
2024291 ATAACATATTAGGTATCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
*
2024314 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2024337 ATAA
1 ATAA
2024341 TAAAAATAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Done.