Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_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: 4069050
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 20
Found at i:1665031 original size:30 final size:30
Alignment explanation
Indices: 1664987--1665063 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
1664977 ACCTTTACCT
* *
1664987 TTAACTTTATTTATTTCATAGAATGTTTCA
1 TTAACTTAATTTATTTCATAGAATGTATCA
* * * *
1665017 TTCACTTCATTTATTACATAGTATGTATCA
1 TTAACTTAATTTATTTCATAGAATGTATCA
*
1665047 TTAATTTAATTTATTTC
1 TTAACTTAATTTATTTC
1665064 GCAATATGTA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (30 bp):
TTAACTTAATTTATTTCATAGAATGTATCA
Found at i:1665323 original size:49 final size:49
Alignment explanation
Indices: 1665206--1665463 Score: 227
Period size: 49 Copynumber: 5.3 Consensus size: 49
1665196 ATCAGTAACG
** * * * * *
1665206 TCAGACATGCTAGGT-ACCATTGATAATAGCACCACTGTCACACAA-ACG
1 TCAGACATGCTAAATCATCATTAATAGTAGCACCACTATCACA-AAGACA
* * * * * * **
1665254 TCAAACATGCT-AATTATCATTATTAGTAGTACCACTATTACAAGGATG
1 TCAGACATGCTAAATCATCATTAATAGTAGCACCACTATCACAAAGACA
* * **
1665302 TCAGACATTCTAAATCATCATTAAT-GCTAGCACTACCGTCACAAAGACA
1 TCAGACATGCTAAATCATCATTAATAG-TAGCACCACTATCACAAAGACA
* * * *
1665351 TCAGGCATGATAAATCATCATTAATAGTAGCATCACTATTACAAAGACA
1 TCAGACATGCTAAATCATCATTAATAGTAGCACCACTATCACAAAGACA
* *
1665400 TCAGACGTGCTAAATCATCATTAATAGTAGCACCACTATCACAAAGACG
1 TCAGACATGCTAAATCATCATTAATAGTAGCACCACTATCACAAAGACA
* *
1665449 TCATACGTGCTAAAT
1 TCAGACATGCTAAAT
1665464 GCTTCACTTC
Statistics
Matches: 166, Mismatches: 39, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
47 2 0.01
48 42 0.25
49 121 0.73
50 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (49 bp):
TCAGACATGCTAAATCATCATTAATAGTAGCACCACTATCACAAAGACA
Found at i:1665463 original size:98 final size:98
Alignment explanation
Indices: 1665206--1665463 Score: 263
Period size: 98 Copynumber: 2.7 Consensus size: 98
1665196 ATCAGTAACG
** * * *
1665206 TCAGACATGCTAGGT-ACCATTGATAATAGCACCACTGTCACACAA-ACGTCAAACATGCT-AAT
1 TCAGACATGCTAAATCATCATTAATAGTAGCACCACTGTCACA-AAGACGTCAAACATGCTAAAT
* * * * **
1665268 TATCATTATTAGTAGTACCACTATTACAAGGATG
65 CATCATTAATAGTAGCACCACTATTACAAAGACA
* * * * ** *
1665302 TCAGACATTCTAAATCATCATTAAT-GCTAGCACTACCGTCACAAAGACATCAGGCATGATAAAT
1 TCAGACATGCTAAATCATCATTAATAG-TAGCACCACTGTCACAAAGACGTCAAACATGCTAAAT
*
1665366 CATCATTAATAGTAGCATCACTATTACAAAGACA
65 CATCATTAATAGTAGCACCACTATTACAAAGACA
* * * *
1665400 TCAGACGTGCTAAATCATCATTAATAGTAGCACCACTATCACAAAGACGTCATACGTGCTAAAT
1 TCAGACATGCTAAATCATCATTAATAGTAGCACCACTGTCACAAAGACGTCAAACATGCTAAAT
1665464 GCTTCACTTC
Statistics
Matches: 128, Mismatches: 29, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
96 14 0.11
97 31 0.24
98 82 0.64
99 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (98 bp):
TCAGACATGCTAAATCATCATTAATAGTAGCACCACTGTCACAAAGACGTCAAACATGCTAAATC
ATCATTAATAGTAGCACCACTATTACAAAGACA
Found at i:1671889 original size:29 final size:29
Alignment explanation
Indices: 1671857--1671929 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
1671847 TTTACCTTTC
*
1671857 ACTTTATTCATTTCATAGCATGTTTCATT
1 ACTTTATTCATTTCATAGCATGTATCATT
* * *
1671886 ACTTCATTTATTACATAGCATGTATCATT
1 ACTTTATTCATTTCATAGCATGTATCATT
1671915 -CATTTAATTCATTTC
1 AC-TTT-ATTCATTTC
1671930 GCAGCCTGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 1 0.03
29 27 0.77
30 7 0.20
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.49
Consensus pattern (29 bp):
ACTTTATTCATTTCATAGCATGTATCATT
Found at i:1672210 original size:49 final size:49
Alignment explanation
Indices: 1672135--1672329 Score: 239
Period size: 49 Copynumber: 4.0 Consensus size: 49
1672125 CATGGTAATT
* *
1672135 ATCATTATTAGTAGCACCACCATCACAAAGACATCAGACATGCTAAATC
1 ATCATTAATAGTAGCACCACCATCACAAAGACATCAGACGTGCTAAATC
** * * **
1672184 ATTGTTAATAGTAGCACCACCTTCACAAAGACGTCATTCGTGCTAAATC
1 ATCATTAATAGTAGCACCACCATCACAAAGACATCAGACGTGCTAAATC
* **
1672233 ATCATTAATAATAGCACCACTGTCACAAAGA-AGTCAGACGTGCTAAATC
1 ATCATTAATAGTAGCACCACCATCACAAAGACA-TCAGACGTGCTAAATC
* * * *
1672282 ATCATTAATAGTATCACCACCATCACAAAGACGTAAAACGTGCTAAAT
1 ATCATTAATAGTAGCACCACCATCACAAAGACATCAGACGTGCTAAAT
1672330 GCTCCACCTC
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
49 121 1.00
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (49 bp):
ATCATTAATAGTAGCACCACCATCACAAAGACATCAGACGTGCTAAATC
Found at i:1672270 original size:98 final size:98
Alignment explanation
Indices: 1672135--1672329 Score: 266
Period size: 98 Copynumber: 2.0 Consensus size: 98
1672125 CATGGTAATT
* * **
1672135 ATCATTATTAGTAGCACCACCATCACAAAGACATCAGACATGCTAAATCATTGTTAATAGTAGCA
1 ATCATTAATAATAGCACCACCATCACAAAGACATCAGACATGCTAAATCATCATTAATAGTAGCA
* * **
1672200 CCACCTTCACAAAGACGTCATTCGTGCTAAATC
66 CCACCATCACAAAGACGTAAAACGTGCTAAATC
** * *
1672233 ATCATTAATAATAGCACCACTGTCACAAAGA-AGTCAGACGTGCTAAATCATCATTAATAGTATC
1 ATCATTAATAATAGCACCACCATCACAAAGACA-TCAGACATGCTAAATCATCATTAATAGTAGC
1672297 ACCACCATCACAAAGACGTAAAACGTGCTAAAT
65 ACCACCATCACAAAGACGTAAAACGTGCTAAAT
1672330 GCTCCACCTC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
97 1 0.01
98 83 0.99
ACGTcount: A:0.39, C:0.24, G:0.12, T:0.24
Consensus pattern (98 bp):
ATCATTAATAATAGCACCACCATCACAAAGACATCAGACATGCTAAATCATCATTAATAGTAGCA
CCACCATCACAAAGACGTAAAACGTGCTAAATC
Found at i:1672463 original size:52 final size:52
Alignment explanation
Indices: 1672392--1672490 Score: 144
Period size: 52 Copynumber: 1.9 Consensus size: 52
1672382 TAAATCATTT
* * * *
1672392 ATCATTCACTTATCAAAATCTTTTCAAATATCATCACAATCAAGTATCATAC
1 ATCATTCACTCATCAAAATCTTTTCAAACATCAACAAAATCAAGTATCATAC
* *
1672444 ATCATTCACTCATCAAAATCTTTTTAAACATTAACAAAATCAAGTAT
1 ATCATTCACTCATCAAAATCTTTTCAAACATCAACAAAATCAAGTAT
1672491 AATCACTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.34
Consensus pattern (52 bp):
ATCATTCACTCATCAAAATCTTTTCAAACATCAACAAAATCAAGTATCATAC
Found at i:1673259 original size:20 final size:22
Alignment explanation
Indices: 1673220--1673261 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
1673210 AACATTACTT
1673220 TTCAACTTCTAATCAATTTCCAC
1 TTCAACTTCTAA-CAATTTCCAC
1673243 TTCAA-TTCTAA-AATTTCCA
1 TTCAACTTCTAACAATTTCCA
1673262 TATTCTGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.40
Consensus pattern (22 bp):
TTCAACTTCTAACAATTTCCAC
Found at i:1684397 original size:30 final size:30
Alignment explanation
Indices: 1684361--1684428 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
1684351 AAGAGTGTCT
*
1684361 ATTTGAAGGTCATGAAACAATATTTAGTCA
1 ATTTGAAGGTCATGAAACAATACTTAGTCA
*
1684391 ATTTGAAGGTCATGAAACAATGCTTAGTCA
1 ATTTGAAGGTCATGAAACAATACTTAGTCA
*
1684421 GTTTGAAG
1 ATTTGAAG
1684429 AAGGGAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.32
Consensus pattern (30 bp):
ATTTGAAGGTCATGAAACAATACTTAGTCA
Found at i:1689874 original size:17 final size:17
Alignment explanation
Indices: 1689852--1689892 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
1689842 AGGCAGCATG
1689852 CCTTCTTGTTCACCATT
1 CCTTCTTGTTCACCATT
1689869 CCTTCTTGTTCACCATT
1 CCTTCTTGTTCACCATT
1689886 CCTTCTT
1 CCTTCTT
1689893 CCATGACTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.10, C:0.37, G:0.05, T:0.49
Consensus pattern (17 bp):
CCTTCTTGTTCACCATT
Found at i:1691639 original size:60 final size:58
Alignment explanation
Indices: 1691567--1691683 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 58
1691557 TTTTCAAAAA
* * *
1691567 TATATATGATATATATATT-ATAATATATAATTTTAGAAAATATATATTTATATAATATAT
1 TATATATGATATAT-TATTGAAAATATATAATTTTAGAAAACATAT-TTCATAT-ATATAT
* * *
1691627 TATATATTATATATTTTTGAAAATATATAATTTTTGAAAACATATTTCATATATATA
1 TATATATGATATATTATTGAAAATATATAATTTTAGAAAACATATTTCATATATATA
1691684 ATTTTTGAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
58 5 0.10
59 9 0.18
60 36 0.72
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (58 bp):
TATATATGATATATTATTGAAAATATATAATTTTAGAAAACATATTTCATATATATAT
Found at i:1691641 original size:7 final size:7
Alignment explanation
Indices: 1691607--1691641 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
1691597 TTTTAGAAAA
1691607 TATATAT
1 TATATAT
1691614 T-TATAT
1 TATATAT
*
1691620 AATATAT
1 TATATAT
1691627 TATATAT
1 TATATAT
1691634 TATATAT
1 TATATAT
1691641 T
1 T
1691642 TTTGAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.20
7 20 0.80
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:1691653 original size:16 final size:17
Alignment explanation
Indices: 1691634--1691671 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1691624 TATTATATAT
1691634 TATAT-ATTTTTGAAAA
1 TATATAATTTTTGAAAA
1691650 TATATAATTTTTGAAAA
1 TATATAATTTTTGAAAA
*
1691667 CATAT
1 TATAT
1691672 TTCATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (17 bp):
TATATAATTTTTGAAAA
Found at i:1691688 original size:45 final size:41
Alignment explanation
Indices: 1691581--1691693 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 41
1691571 TATGATATAT
* * *
1691581 ATATTATAATATATAATTTTAGAAAATATATATTTATATAAT
1 ATATTAT-ATATATAATTTTTGAAAATATATATTTATAAAAC
*
1691623 ATATTATATATTATATATTTTTGAAAATATATAATTTTTGAAAAC
1 ATATTATATA-TATA-ATTTTTGAAAATATAT-ATTTAT-AAAAC
1691668 ATATTTCATATATATAATTTTTGAAA
1 ATA-TT-ATATATATAATTTTTGAAA
1691694 TCATACGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
41 3 0.05
42 11 0.18
43 15 0.25
44 5 0.08
45 16 0.26
46 6 0.10
47 5 0.08
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.49
Consensus pattern (41 bp):
ATATTATATATATAATTTTTGAAAATATATATTTATAAAAC
Found at i:1691763 original size:18 final size:17
Alignment explanation
Indices: 1691723--1691763 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
1691713 TAATATATAT
1691723 TGTATAGTTTTTAAAAA
1 TGTATAGTTTTTAAAAA
* *
1691740 TATATAGTTTTTTAAATA
1 TGTATAG-TTTTTAAAAA
1691758 TGTATA
1 TGTATA
1691764 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (17 bp):
TGTATAGTTTTTAAAAA
Found at i:1694275 original size:35 final size:34
Alignment explanation
Indices: 1694209--1694276 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 34
1694199 AAAAAATATA
* *
1694209 TATTTTTAAAAAATAAAGAAAAGAAACATTATTG
1 TATTTTAAAAAAAAAAAGAAAAGAAACATTATTG
* *
1694243 TATTTTAAAAAAGAAAAAGAAAAGCAATATTATT
1 TATTTTAAAAAA-AAAAAGAAAAGAAACATTATT
1694277 AAAATAGTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (34 bp):
TATTTTAAAAAAAAAAAGAAAAGAAACATTATTG
Found at i:1695610 original size:75 final size:75
Alignment explanation
Indices: 1695477--1695627 Score: 257
Period size: 75 Copynumber: 2.0 Consensus size: 75
1695467 TATCCTCCTG
* * *
1695477 AGTTTCCCAGGCCATCCAAAGAAGGTAATATTTATAATAATACATCACAACATTTGCATCTGAGG
1 AGTTTCCCAGGCCATCCAAAGAAGGTAATATTTATAATAATACAACACAACATCTGCATCTGAGA
1695542 AAATCAATTC
66 AAATCAATTC
*
1695552 AGTTTCCCAGGCCATCCAAAGAAGGTAATATTTATAATAATACAACACATCATCTGCATCTGAGA
1 AGTTTCCCAGGCCATCCAAAGAAGGTAATATTTATAATAATACAACACAACATCTGCATCTGAGA
*
1695617 AAATCATTTC
66 AAATCAATTC
1695627 A
1 A
1695628 TATATGTTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.28
Consensus pattern (75 bp):
AGTTTCCCAGGCCATCCAAAGAAGGTAATATTTATAATAATACAACACAACATCTGCATCTGAGA
AAATCAATTC
Found at i:1697489 original size:22 final size:22
Alignment explanation
Indices: 1697464--1697506 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
1697454 TTTTGATTTT
*
1697464 AACTAAATTAACCAAATTAACA
1 AACTAAATTAAACAAATTAACA
*
1697486 AACTGAATTAAACAAATTAAC
1 AACTAAATTAAACAAATTAAC
1697507 TGAAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.58, C:0.16, G:0.02, T:0.23
Consensus pattern (22 bp):
AACTAAATTAAACAAATTAACA
Found at i:1697925 original size:2 final size:2
Alignment explanation
Indices: 1697920--1697952 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1697910 TATATCACAC
*
1697920 AT AT AT AT AT AT AT AT AT AT AT AC AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1697953 GGTTATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1697936 original size:25 final size:22
Alignment explanation
Indices: 1697900--1697952 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
1697890 CTTAACTGTG
1697900 TATA-ATATTATATATCACACAT
1 TATATATATTATATAT-ACACAT
*
1697922 ATATATATATATATATATATACAT
1 -TATATATAT-TATATATACACAT
1697946 TATATAT
1 TATATAT
1697953 GGTTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 11 0.41
24 9 0.33
25 7 0.26
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (22 bp):
TATATATATTATATATACACAT
Found at i:1698323 original size:55 final size:55
Alignment explanation
Indices: 1698246--1698353 Score: 191
Period size: 55 Copynumber: 2.0 Consensus size: 55
1698236 ACAATTGCAA
1698246 TTACTTGCACTTTTTACCGTCTAATGCTTCCTTCAGTTTCCTTCCCAATGCAATT
1 TTACTTGCACTTTTTACCGTCTAATGCTTCCTTCAGTTTCCTTCCCAATGCAATT
*
1698301 TTACTTGTACTTTTT-CCTGTCTAATGCTTCCTTCAGTTTCCTTCCCAATGCAA
1 TTACTTGCACTTTTTACC-GTCTAATGCTTCCTTCAGTTTCCTTCCCAATGCAA
1698354 ATGCCAAAGG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
54 2 0.04
55 49 0.96
ACGTcount: A:0.18, C:0.29, G:0.09, T:0.44
Consensus pattern (55 bp):
TTACTTGCACTTTTTACCGTCTAATGCTTCCTTCAGTTTCCTTCCCAATGCAATT
Found at i:1706781 original size:20 final size:21
Alignment explanation
Indices: 1706751--1706790 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1706741 AGCCGTTGGG
1706751 GCCTGATGGTATCGATACTAT
1 GCCTGATGGTATCGATACTAT
1706772 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
1706791 CTATACATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAT
Found at i:1721481 original size:36 final size:36
Alignment explanation
Indices: 1721403--1721484 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 36
1721393 GGCCGTATCG
* **
1721403 CTTGAGACAAGTTTTCGCTAAAACAAATTTTTTCTCA
1 CTTGAGACAAG-TTTCCCTAAAACAAATTTCATCTCA
*
1721440 CTTGAGACAA-TTTCCCTCAAAACAAATTTCATCTTA
1 CTTGAGACAAGTTTCCCT-AAAACAAATTTCATCTCA
*
1721476 GTTGAGACA
1 CTTGAGACA
1721485 TTTTTCCTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 6 0.15
36 23 0.59
37 10 0.26
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (36 bp):
CTTGAGACAAGTTTCCCTAAAACAAATTTCATCTCA
Found at i:1721782 original size:131 final size:132
Alignment explanation
Indices: 1721630--1721884 Score: 352
Period size: 131 Copynumber: 1.9 Consensus size: 132
1721620 TCTTGAAAAA
** * *
1721630 ATCTTTGAGATTTTTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAGTTTCTTTTGAAACATC
1 ATCTTTGAGATCATTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAATTTCTCTTGAAACA-C
* * * * * *
1721695 -ATCTTTGAGTCTGTTTCTCTTTAAACAAA-ATTTGTCTTCCTTGAGACAGTTTCTCTTTAAGCA
65 AATCTTTGAGTCTGTTTCCCTTAAAACAAAGATTTGTATCCCTTAAGAAAGTTTCTCTTTAAGCA
1721758 CCC
130 CCC
* * *
1721761 ATCTTTGAGATCATTTCCCTTGAAACGAATTTTGTTTCCCTTGAGATAATTTCTCTTGAAACACA
1 ATCTTTGAGATCATTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAATTTCTCTTGAAACAC-
*
1721826 AATCTTTGAGTCTGTTTCCCTTAAAACAAAGTTTTGTATCCCTTAAGAAAGTTTCTCTT
65 AATCTTTGAGTCTGTTTCCCTTAAAACAAAGATTTGTATCCCTTAAGAAAGTTTCTCTT
1721885 AAAACAAATC
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
130 1 0.01
131 56 0.52
132 27 0.25
133 23 0.21
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (132 bp):
ATCTTTGAGATCATTTCCCTTGAAACGAATTTTATCTCCCTTGAGACAATTTCTCTTGAAACACA
ATCTTTGAGTCTGTTTCCCTTAAAACAAAGATTTGTATCCCTTAAGAAAGTTTCTCTTTAAGCAC
CC
Found at i:1721804 original size:66 final size:66
Alignment explanation
Indices: 1721615--1721890 Score: 253
Period size: 66 Copynumber: 4.2 Consensus size: 66
1721605 CCTTGAAATG
* * * * *
1721615 GTTTCTCTTGAAA-A-A-ATCTTTGAGAT-TTTTTCCCTTGAAACGAATTTTATCTCCCTTGAGA
1 GTTTCTCTTTAAACACACATCTTTGAG-TCTGTTTCCCTTGAAACAAATTTTGTTTCCCTTGAGA
1721676 CA
65 CA
* * * *
1721678 GTTTCT-TTTGAAACA-TCATCTTTGAGTCTGTTTCTCTTTAAACAAAATTTGTCTT-CCTTGAG
1 GTTTCTCTTT-AAACACACATCTTTGAGTCTGTTTCCCTTGAAACAAATTTTGT-TTCCCTTGAG
1721740 ACA
64 ACA
* * * *
1721743 GTTTCTCTTTAAGCACCCATCTTTGAGATC-ATTTCCCTTGAAACGAATTTTGTTTCCCTTGAGA
1 GTTTCTCTTTAAACACACATCTTTGAG-TCTGTTTCCCTTGAAACAAATTTTGTTTCCCTTGAGA
*
1721807 TA
65 CA
* * * * * *
1721809 ATTTCTCTTGAAACACAAATCTTTGAGTCTGTTTCCCTTAAAACAAAGTTTTGTATCCCTTAAGA
1 GTTTCTCTTTAAACACACATCTTTGAGTCTGTTTCCCTTGAAACAAA-TTTTGTTTCCCTTGAGA
*
1721874 AA
65 CA
*
1721876 GTTTCTCTTAAAACA
1 GTTTCTCTTTAAACA
1721891 AATCCCTAAA
Statistics
Matches: 172, Mismatches: 30, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
62 2 0.01
63 9 0.05
64 2 0.01
65 51 0.30
66 77 0.45
67 31 0.18
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (66 bp):
GTTTCTCTTTAAACACACATCTTTGAGTCTGTTTCCCTTGAAACAAATTTTGTTTCCCTTGAGAC
A
Found at i:1722011 original size:43 final size:43
Alignment explanation
Indices: 1721958--1722111 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 43
1721948 AAACCTCATA
1721958 ATCACGTAGGAACCATGTCACCCTTAGATAACCAGCCATCCTC
1 ATCACGTAGGAACCATGTCACCCTTAGATAACCAGCCATCCTC
* * * * ** *
1722001 ATCACTTAGGAACTATATTATCATCCCTAAAGAT-GGCATGCCCTCCTC
1 ATCACGTAGGAAC--CA-TGTCA-CCCT-TAGATAACCA-GCCATCCTC
** * *
1722049 ATCACGTAGGAGTCATGTCACCCTTAGATAACTATCCATCCTC
1 ATCACGTAGGAACCATGTCACCCTTAGATAACCAGCCATCCTC
* *
1722092 ATCGCGTAGGAACCGTGTCA
1 ATCACGTAGGAACCATGTCA
1722112 TCACCCTCTC
Statistics
Matches: 82, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
43 39 0.48
44 5 0.06
45 5 0.06
46 5 0.06
47 6 0.07
48 22 0.27
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.25
Consensus pattern (43 bp):
ATCACGTAGGAACCATGTCACCCTTAGATAACCAGCCATCCTC
Found at i:1722398 original size:3 final size:3
Alignment explanation
Indices: 1722390--1722446 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
1722380 GGTCTACAAA
1722390 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1722438 ATT ATT ATT
1 ATT ATT ATT
1722447 TATGCATTTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1727176 original size:101 final size:101
Alignment explanation
Indices: 1726977--1727158 Score: 258
Period size: 101 Copynumber: 1.8 Consensus size: 101
1726967 GAATAATTTA
*
1726977 AGGGGAGTCATCTCATCACACTACCATCCCACACTCTAAGTGAAAGGGAGCATACCTTCCACCCC
1 AGGGGAGTCAGCTCATCACACTACCATCCCACACTCTAAGTGAAAGGGAGCATACCTTCCACCCC
* ****
1727042 GAGCTAGTCAAGTAGATATTTTTTTACACTGCTTCG
66 GAGCTAGTCAAGTAAATATTCCCGTACACTGCTTCG
* * *
1727078 AGGGGAGTCAGCTCATCACACCTACTATTCCACACTCTAAGTGAAAGGGAGCATTCCTT-CACCC
1 AGGGGAGTCAGCTCATCACA-CTACCATCCCACACTCTAAGTGAAAGGGAGCATACCTTCCACCC
*
1727142 CGAGCTAGTCAGGTAAA
65 CGAGCTAGTCAAGTAAA
1727159 GTCATCCCGT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
101 39 0.53
102 35 0.47
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (101 bp):
AGGGGAGTCAGCTCATCACACTACCATCCCACACTCTAAGTGAAAGGGAGCATACCTTCCACCCC
GAGCTAGTCAAGTAAATATTCCCGTACACTGCTTCG
Found at i:1732147 original size:55 final size:55
Alignment explanation
Indices: 1732080--1732373 Score: 333
Period size: 55 Copynumber: 5.3 Consensus size: 55
1732070 CTTTGTGTAC
*
1732080 TATCGACACTAAGTGTGCAAAACCATAAAATTTATAATATGTTTATGAACGACCA
1 TATCGACACTAAGTGTGCAAAACCACAAAATTTATAATATGTTTATGAACGACCA
* * * * ***
1732135 TATCGGCACTAAGTGTGCAAAACCACAGAATTCATAATATGTTTATGAATGATTG
1 TATCGACACTAAGTGTGCAAAACCACAAAATTTATAATATGTTTATGAACGACCA
* * *
1732190 TATCGGCACTAAGTGTGCAAAACCACATAATTTATAATATGTTTATGAACGACCG
1 TATCGACACTAAGTGTGCAAAACCACAAAATTTATAATATGTTTATGAACGACCA
* * *
1732245 TATCGACACTAAGTGTTCAAAACCATAAAATTCT-TAATATGTTTAT-ATACGACAA
1 TATCGACACTAAGTGTGCAAAACCACAAAATT-TATAATATGTTTATGA-ACGACCA
* ** * * *
1732300 TATCGACACTAAGTTTATAAAACCA-AGAAATTCATAATATATTTATGAACGACCT
1 TATCGACACTAAGTGTGCAAAACCACA-AAATTTATAATATGTTTATGAACGACCA
* * *
1732355 TATTGGCACTACGTGTGCA
1 TATCGACACTAAGTGTGCA
1732374 CCTCAAAGAA
Statistics
Matches: 202, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
54 2 0.01
55 198 0.98
56 2 0.01
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.31
Consensus pattern (55 bp):
TATCGACACTAAGTGTGCAAAACCACAAAATTTATAATATGTTTATGAACGACCA
Found at i:1736422 original size:14 final size:14
Alignment explanation
Indices: 1736403--1736433 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1736393 CTTATAATTT
1736403 AATAATCATTTATG
1 AATAATCATTTATG
1736417 AATAATCATTTATG
1 AATAATCATTTATG
1736431 AAT
1 AAT
1736434 TTTATCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (14 bp):
AATAATCATTTATG
Found at i:1737480 original size:27 final size:27
Alignment explanation
Indices: 1737442--1737494 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
1737432 AATTTTGAAT
*
1737442 ACTTTAGGTACCTATTTTGACAAAAAA
1 ACTTTAGGTACCTATTTTAACAAAAAA
1737469 ACTTTAGGTACCTATTTTAACAAAAA
1 ACTTTAGGTACCTATTTTAACAAAAA
1737495 TATAAGCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (27 bp):
ACTTTAGGTACCTATTTTAACAAAAAA
Found at i:1739001 original size:31 final size:31
Alignment explanation
Indices: 1738966--1739028 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
1738956 CATTGTAAGA
1738966 TAAAAGCTAAAAGATGTATTCTTTAACTTTT
1 TAAAAGCTAAAAGATGTATTCTTTAACTTTT
1738997 TAAAAGCTAAAAGATGTATTCTTTAACTTTT
1 TAAAAGCTAAAAGATGTATTCTTTAACTTTT
1739028 T
1 T
1739029 TATCTCTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (31 bp):
TAAAAGCTAAAAGATGTATTCTTTAACTTTT
Found at i:1750783 original size:20 final size:20
Alignment explanation
Indices: 1750758--1750814 Score: 96
Period size: 20 Copynumber: 2.8 Consensus size: 20
1750748 CCCTCTTTGA
*
1750758 AGGGGAACCGATCCCCTCAC
1 AGGGGAATCGATCCCCTCAC
1750778 AGGGGAATCGATCCCCTCAC
1 AGGGGAATCGATCCCCTCAC
1750798 AGGGGAATCGATACCCC
1 AGGGGAATCGAT-CCCC
1750815 CCTGGGGTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 31 0.89
21 4 0.11
ACGTcount: A:0.26, C:0.35, G:0.26, T:0.12
Consensus pattern (20 bp):
AGGGGAATCGATCCCCTCAC
Found at i:1754507 original size:236 final size:234
Alignment explanation
Indices: 1754078--1754548 Score: 899
Period size: 236 Copynumber: 2.0 Consensus size: 234
1754068 TGGAAAATCC
1754078 TTAGTGTGGATAGCTAAGGTAGTGGACGTAGACTTGGTTGAGAAAGTCGAACCACTCTAAATCGC
1 TTAGTGTGGATAGCTAAGGTAGTGGACGTAGACTTGGTTGAGAAAGTCGAACCACTCTAAATCGC
*
1754143 TGTGCAATTTCTTTCAATTTTCTGTAAAATCTTCCACCAAAATTTTATTGCCATTCACCCCCATC
66 TGTGCAATTTCTTTCAATTTTCTGTAAAAGCTTCCACCAAAATTTTATTGCCATTCACCCCCATC
1754208 TTGGCCAATTCCGTCAATCGATTAACTCAACAATATGCTTGGCCTTTAACATCTTATGGTAGTTC
131 TTGGCCAATTCCGTCAATCGATTAACTCAACAATATGCTTGGCCTTTAACATCTTATGGTAGTTC
1754273 TATATTACTGAGA-TTCCCAAAGTTTATTTTGTTACTTA
196 TATATTACTGAGATTTCCCAAAGTTTATTTTGTTACTTA
1754311 TTAGTGTGGATAGCTAAGGTAGTGGACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCG
1 TTAGTGTGGATAGCTAAGGTAGTGGACGTAGAC-TTGGTTGAGAAAGTCGAACCACTCTAAATCG
1754376 CTGTGCAATTTCTTTCAATTTTCTGTAAAAGCTTCCACCAAAATTTTTATTGCCAATTCACCCCC
65 CTGTGCAATTTCTTTCAATTTTCTGTAAAAGCTTCCACCAAAA-TTTTATTGCC-ATTCACCCCC
1754441 ATCTTGGCCAATTCCGTCAATCGATTAACTCAACAATATGCTTGGCCTTTAACATCTTATGGTAG
128 ATCTTGGCCAATTCCGTCAATCGATTAACTCAACAATATGCTTGGCCTTTAACATCTTATGGTAG
1754506 TTCTATATTACTGAGATTTCCCAAAGTTTATTTTGTTACTTA
193 TTCTATATTACTGAGATTTCCCAAAGTTTATTTTGTTACTTA
1754548 T
1 T
1754549 CATTTCAGGT
Statistics
Matches: 233, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
233 33 0.14
234 73 0.31
235 10 0.04
236 91 0.39
237 26 0.11
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (234 bp):
TTAGTGTGGATAGCTAAGGTAGTGGACGTAGACTTGGTTGAGAAAGTCGAACCACTCTAAATCGC
TGTGCAATTTCTTTCAATTTTCTGTAAAAGCTTCCACCAAAATTTTATTGCCATTCACCCCCATC
TTGGCCAATTCCGTCAATCGATTAACTCAACAATATGCTTGGCCTTTAACATCTTATGGTAGTTC
TATATTACTGAGATTTCCCAAAGTTTATTTTGTTACTTA
Found at i:1756891 original size:112 final size:112
Alignment explanation
Indices: 1756668--1757241 Score: 1001
Period size: 112 Copynumber: 5.1 Consensus size: 112
1756658 TTGTCGGTTT
* *
1756668 GTGTCGATACTTTATAAAAATATAT-TGATCCATAACAATATAACAAGTAAAAAAATGAC-AAAC
1 GTGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
*
1756731 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGTATATATTGAAA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
1756779 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
1756844 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
1756891 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1756956 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
1757003 GTGTCGATACTTTATAAAAATGTAT-TAATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
* * *
1757067 CGGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
1757115 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATAAAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
1757180 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
1757227 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
1757242 TATATGTATC
Statistics
Matches: 446, Mismatches: 13, Indels: 7
0.96 0.03 0.02
Matches are distributed among these distances:
111 55 0.12
112 391 0.88
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:1757466 original size:162 final size:162
Alignment explanation
Indices: 1757189--1757521 Score: 549
Period size: 162 Copynumber: 2.1 Consensus size: 162
1757179 CGGTCTATAA
* * *
1757189 ATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATTATATGTATCGA
1 ATGACAAAACAGGTAAAGAGCTACCGGATATATTGATAGTGTCGATACTTTATTATAAGTATCGA
* * *
1757254 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAAAATGTCGATACTTTATAAAAGTA
66 CACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAATGTCGATACTTTATAAAAATA
* *
1757319 TATCGATCTATAACAATATAACATGTAAAAAT
131 TATCGATCCATAACAATATAACAAGTAAAAAT
* *
1757351 ATGACAAAACCGGTAAAGAGCTACCGGATATATTGATAGTGTCTATACTTTATTATAAGTATCGA
1 ATGACAAAACAGGTAAAGAGCTACCGGATATATTGATAGTGTCGATACTTTATTATAAGTATCGA
* * *
1757416 TACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATG
66 CACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAATGTCGATACTTTATAAAAATA
1757481 TATCGATCCATAACAATATAACAAGTAAAAAT
131 TATCGATCCATAACAATATAACAAGTAAAAAT
1757513 ATGACAAAA
1 ATGACAAAA
1757522 TCGATCTCGA
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 158 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (162 bp):
ATGACAAAACAGGTAAAGAGCTACCGGATATATTGATAGTGTCGATACTTTATTATAAGTATCGA
CACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAAAATGTCGATACTTTATAAAAATA
TATCGATCCATAACAATATAACAAGTAAAAAT
Found at i:1758204 original size:23 final size:23
Alignment explanation
Indices: 1758175--1758222 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
1758165 AAATACGTCA
*
1758175 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTAATACATT
*
1758198 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATACATT
1758221 AT
1 AT
1758223 TGTACTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATACATT
Found at i:1758938 original size:20 final size:20
Alignment explanation
Indices: 1758913--1758953 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1758903 TAGGGAGAGG
*
1758913 ATTGAAAGGTTAAGATCTTT
1 ATTGAAAGGTTAAGACCTTT
1758933 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
1758953 A
1 A
1758954 AATGAAACGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (20 bp):
ATTGAAAGGTTAAGACCTTT
Found at i:1762797 original size:47 final size:47
Alignment explanation
Indices: 1762728--1762821 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
1762718 AAGTTCAGAT
1762728 ACTTCCTTGGAAATTTCTGTCATAACATTAGCCTCTTTTGTTCTGGA
1 ACTTCCTTGGAAATTTCTGTCATAACATTAGCCTCTTTTGTTCTGGA
1762775 ACTTCCTTGGAAATTTCTGTCATAACATTAGCCTCTTTTGTTCTGGA
1 ACTTCCTTGGAAATTTCTGTCATAACATTAGCCTCTTTTGTTCTGGA
1762822 CCTTTTTGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (47 bp):
ACTTCCTTGGAAATTTCTGTCATAACATTAGCCTCTTTTGTTCTGGA
Found at i:1764172 original size:108 final size:108
Alignment explanation
Indices: 1764049--1764264 Score: 432
Period size: 108 Copynumber: 2.0 Consensus size: 108
1764039 GTCGATCTCC
1764049 CAGGATACAACAACAAACGTTCACAATAGTAAGCACAACTGAAGTGAACAATCGAACACAATATT
1 CAGGATACAACAACAAACGTTCACAATAGTAAGCACAACTGAAGTGAACAATCGAACACAATATT
1764114 TGTTTTTATCTATCATCGAAAAATGACTTTGGAAGAATCAGAG
66 TGTTTTTATCTATCATCGAAAAATGACTTTGGAAGAATCAGAG
1764157 CAGGATACAACAACAAACGTTCACAATAGTAAGCACAACTGAAGTGAACAATCGAACACAATATT
1 CAGGATACAACAACAAACGTTCACAATAGTAAGCACAACTGAAGTGAACAATCGAACACAATATT
1764222 TGTTTTTATCTATCATCGAAAAATGACTTTGGAAGAATCAGAG
66 TGTTTTTATCTATCATCGAAAAATGACTTTGGAAGAATCAGAG
1764265 AATTGAAAGG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
108 108 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (108 bp):
CAGGATACAACAACAAACGTTCACAATAGTAAGCACAACTGAAGTGAACAATCGAACACAATATT
TGTTTTTATCTATCATCGAAAAATGACTTTGGAAGAATCAGAG
Found at i:1764374 original size:20 final size:20
Alignment explanation
Indices: 1764349--1764389 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1764339 TAGGGAGAGG
1764349 ATTGAAAGGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
*
1764369 ATTGAAATGTTAAGACCTTT
1 ATTGAAAGGTTAAGACCTTT
1764389 A
1 A
1764390 AATGAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (20 bp):
ATTGAAAGGTTAAGACCTTT
Found at i:1764397 original size:21 final size:20
Alignment explanation
Indices: 1764351--1764398 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1764341 GGGAGAGGAT
* *
1764351 TGAAAGGTTAAGACCTTTAT
1 TGAAATGTTAAGACCTTTAA
1764371 TGAAATGTTAAGACCTTTAAA
1 TGAAATGTTAAGACCTTT-AA
1764392 TGAAATG
1 TGAAATG
1764399 ACTTAACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (20 bp):
TGAAATGTTAAGACCTTTAA
Found at i:1764878 original size:153 final size:156
Alignment explanation
Indices: 1764662--1765023 Score: 473
Period size: 153 Copynumber: 2.3 Consensus size: 156
1764652 GAAAAAAATG
* * *
1764662 AATAAA-TTAAATTATGAAAAACCTTTTAATTATGTGGTGACACTTGCCATCATCTGATTAGAGA
1 AATAAATTTAAATTATGAAAAACCTTTTAATCAAGTGGTGACACGTGCCATCATCTGATTAGAGA
* * * * * * *
1764726 ATTAAATTTATTACATTAATTGAAATTAGGATCAAATTATTATAACATATAAGT-AT-T-GTCTG
66 ATTAAATATATTAAATTAATTAAAATTAAGATCAAATTAATATAACATATAAGTCATGTCATCTA
1764788 GTTGGAAGAAAAAAATAATTACATTA
131 GTTGGAAGAAAAAAATAATTACATTA
* *
1764814 AATAAATTTTAATTATGAAAAACCTTTTAATCAAGTGGTGACACGTGTCATCATCTGATTAGAGA
1 AATAAATTTAAATTATGAAAAACCTTTTAATCAAGTGGTGACACGTGCCATCATCTGATTAGAGA
* * *
1764879 GTTAAATATATTAAATTAATTAAAATTAAGATTAAATTAATATAATATATAAGTACGCATGTCAC
66 ATTAAATATATTAAATTAATTAAAATTAAGATCAAATTAATATAACATATAAGT---CATGT---
1764944 CATCTAGTTGGAAGAAAAAAATAATTACATTA
125 CATCTAGTTGGAAGAAAAAAATAATTACATTA
*
1764976 AATAAATTTAAATTATGAAAAAACCTTTTAATC-AGATGGTGGCACGTG
1 AATAAATTTAAATTATG-AAAAACCTTTTAATCAAG-TGGTGACACGTG
1765024 GATTAAATTT
Statistics
Matches: 181, Mismatches: 17, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
152 6 0.03
153 99 0.55
157 2 0.01
158 1 0.01
162 47 0.26
163 26 0.14
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.35
Consensus pattern (156 bp):
AATAAATTTAAATTATGAAAAACCTTTTAATCAAGTGGTGACACGTGCCATCATCTGATTAGAGA
ATTAAATATATTAAATTAATTAAAATTAAGATCAAATTAATATAACATATAAGTCATGTCATCTA
GTTGGAAGAAAAAAATAATTACATTA
Found at i:1767732 original size:21 final size:21
Alignment explanation
Indices: 1767703--1767751 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
1767693 AAGGTCAGTT
* *
1767703 TCTAAATGCCTGTATTATGTA
1 TCTATATGCATGTATTATGTA
1767724 TCTATATGCATGTATTATGTA
1 TCTATATGCATGTATTATGTA
1767745 TCTATAT
1 TCTATAT
1767752 TGATATGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (21 bp):
TCTATATGCATGTATTATGTA
Found at i:1774138 original size:26 final size:26
Alignment explanation
Indices: 1774109--1774168 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
1774099 TGTGATCAAC
1774109 CAAAGAAAGTATATACCTGATTTACT
1 CAAAGAAAGTATATACCTGATTTACT
1774135 CAAAGAAAGTATATACCTGATTTACT
1 CAAAGAAAGTATATACCTGATTTACT
1774161 CAAAGAAA
1 CAAAGAAA
1774169 CTGGTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.27
Consensus pattern (26 bp):
CAAAGAAAGTATATACCTGATTTACT
Found at i:1778146 original size:126 final size:126
Alignment explanation
Indices: 1777921--1778173 Score: 497
Period size: 126 Copynumber: 2.0 Consensus size: 126
1777911 TCTTTTACCA
1777921 CCTCTTTTCTCTTTTGTGTTCGTTTGTGTGCTTGCATGCAAATTTAAATCCCCTATTTAAACTAC
1 CCTCTTTTCTCTTTTGTGTTCGTTTGTGTGCTTGCATGCAAATTTAAATCCCCTATTTAAACTAC
1777986 TTGTGTTTACCAATTTTTTCTAACTGGTATTTTGCATTCTGAGTTAACCTAGTAAAACCCT
66 TTGTGTTTACCAATTTTTTCTAACTGGTATTTTGCATTCTGAGTTAACCTAGTAAAACCCT
1778047 CCTCTTTTCTCTTTTGTGTTCGTTTGTGTGCTTGCATGCAAATTTAAATCCCCTATTTAAACTAC
1 CCTCTTTTCTCTTTTGTGTTCGTTTGTGTGCTTGCATGCAAATTTAAATCCCCTATTTAAACTAC
*
1778112 TTGTGTTTACCATTTTTTTCTAACTGGTATTTTGCATTCTGAGTTAACCTAGTAAAACCCT
66 TTGTGTTTACCAATTTTTTCTAACTGGTATTTTGCATTCTGAGTTAACCTAGTAAAACCCT
1778173 C
1 C
1778174 AACTTTTTCC
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 126 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (126 bp):
CCTCTTTTCTCTTTTGTGTTCGTTTGTGTGCTTGCATGCAAATTTAAATCCCCTATTTAAACTAC
TTGTGTTTACCAATTTTTTCTAACTGGTATTTTGCATTCTGAGTTAACCTAGTAAAACCCT
Found at i:1781420 original size:31 final size:33
Alignment explanation
Indices: 1781391--1781496 Score: 194
Period size: 33 Copynumber: 3.2 Consensus size: 33
1781381 TATATATATA
1781391 TATATATATAATATTTTTTATTTTTTATATTAAT
1 TATATATATAATATTTTTTA-TTTTTATATTAAT
1781425 TATATATATAATATTTTTTATTTTTATATTAAT
1 TATATATATAATATTTTTTATTTTTATATTAAT
*
1781458 TATATATATAATATTTTATATTTTTATATTAAT
1 TATATATATAATATTTTTTATTTTTATATTAAT
1781491 TATATA
1 TATATA
1781497 ATACAAACCC
Statistics
Matches: 71, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
33 51 0.72
34 20 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (33 bp):
TATATATATAATATTTTTTATTTTTATATTAAT
Found at i:1781566 original size:16 final size:16
Alignment explanation
Indices: 1781545--1781577 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1781535 CTAGCTTTTA
1781545 TAATTATGTATGTGTT
1 TAATTATGTATGTGTT
1781561 TAATTATGTATGTGTT
1 TAATTATGTATGTGTT
1781577 T
1 T
1781578 TATTTTGGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TAATTATGTATGTGTT
Found at i:1782597 original size:51 final size:51
Alignment explanation
Indices: 1782542--1782640 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
1782532 TAAGTTTGAT
* * *
1782542 GTGATAAATTTTAATAAAAAAT-TATATTTTATTGGAGCTCGTCACCTCGAG
1 GTGATAAATTTGAATAAAAAATAT-TATTTTATTGAAACTCGTCACCTCGAG
* * * *
1782593 GTGATGAGTTTGAATAAAAAATATTTTTTTATTGAAATTCGTCACCTC
1 GTGATAAATTTGAATAAAAAATATTATTTTATTGAAACTCGTCACCTC
1782641 AAAATGATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (51 bp):
GTGATAAATTTGAATAAAAAATATTATTTTATTGAAACTCGTCACCTCGAG
Found at i:1786337 original size:24 final size:24
Alignment explanation
Indices: 1786309--1786355 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1786299 TTTTCCTTTC
1786309 ATATTAGCTCCATTATCATACCCA
1 ATATTAGCTCCATTATCATACCCA
1786333 ATATTAGCTCCATTATCATACCC
1 ATATTAGCTCCATTATCATACCC
1786356 TTGACCACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATTAGCTCCATTATCATACCCA
Found at i:1787385 original size:42 final size:42
Alignment explanation
Indices: 1787335--1787459 Score: 205
Period size: 42 Copynumber: 3.0 Consensus size: 42
1787325 CAACAGAATC
*
1787335 ATTAGGTGAATCATTGGAATTTCCAATAGAATTATTAGAAGT
1 ATTAGGTGAATCATTGGAATTTCCAATAGGATTATTAGAAGT
* *
1787377 ATTAGGTGAATCATTGAAATTTCCAATAGGATTATTAGAAAT
1 ATTAGGTGAATCATTGGAATTTCCAATAGGATTATTAGAAGT
* *
1787419 ATTAGGTGAATCATTAGAATTTCCAATCGGATTATTAGAAG
1 ATTAGGTGAATCATTGGAATTTCCAATAGGATTATTAGAAG
1787460 GTTTAATCGG
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (42 bp):
ATTAGGTGAATCATTGGAATTTCCAATAGGATTATTAGAAGT
Found at i:1787642 original size:28 final size:28
Alignment explanation
Indices: 1787576--1787642 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 28
1787566 TCGAGGTAAC
*
1787576 ATAT-TTAA-AAGTAATCAATAAAACAA
1 ATATATTAACAAGTAAACAATAAAACAA
* * * *
1787602 ATATAGTAGCAAGTAAACAATAGAACAT
1 ATATATTAACAAGTAAACAATAAAACAA
1787630 ATATATTAACAAG
1 ATATATTAACAAG
1787643 GAAAGATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
26 4 0.12
27 2 0.06
28 26 0.81
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.25
Consensus pattern (28 bp):
ATATATTAACAAGTAAACAATAAAACAA
Found at i:1788352 original size:37 final size:36
Alignment explanation
Indices: 1788278--1788667 Score: 234
Period size: 37 Copynumber: 10.4 Consensus size: 36
1788268 ATACATTTAT
* *
1788278 ATATATAG-TTTACAAATGATTTTTGAAAATACGTATATG
1 ATATATAGTTTTA-AAA-CATTTTTGAAAATA--TATATA
*
1788317 ATATATAGTTTTAAAACATTTTTTGAAACTATATATA
1 ATATATAGTTTTAAAACA-TTTTTGAAAATATATATA
* * *
1788354 TTATATAATTTTTAAAACATTTTCGAAAAT-TATATA
1 ATATAT-AGTTTTAAAACATTTTTGAAAATATATATA
*
1788390 ATATATAGTTTTTAAAACATTTTT-AAAAAATTATATA
1 ATATATAG-TTTTAAAACATTTTTGAAAATA-TATATA
* *
1788427 TTATATAATTTTTGAAAACATTTTT-AAAATATATATA
1 ATATAT-AGTTTT-AAAACATTTTTGAAAATATATATA
*
1788464 ATATATAGTTTTTTAAATCA-TTTTGAAAACT-TATATA
1 ATATATAG--TTTTAAAACATTTTTGAAAA-TATATATA
* * *
1788501 ATATATTA-TTTTGGAAAAAATATTTTTGAAAACAATTGTATA
1 ATATA-TAGTTTT----AAAACATTTTTGAAAA-TA-TATATA
* *
1788543 TTATATAGTTTTTCAAAAACATGTTTG-AAA-ATATAT-
1 ATATATAG-TTTT--AAAACATTTTTGAAAATATATATA
*
1788579 ATA-A-A--TTTAAAATATTTTTTTGAAAATATATTATA
1 ATATATAGTTTTAAAACA--TTTTTGAAAATATA-TATA
* *
1788614 TTATATGGTTTTGAAAACCATTTTT-AAAATCATATATA
1 ATATATAGTTTT-AAAA-CATTTTTGAAAAT-ATATATA
* *
1788652 AAATATAATTTTAAAA
1 ATATATAGTTTTAAAA
1788668 AATATATTTT
Statistics
Matches: 280, Mismatches: 36, Indels: 72
0.72 0.09 0.19
Matches are distributed among these distances:
29 5 0.02
31 8 0.03
32 3 0.01
33 3 0.01
34 4 0.01
35 12 0.04
36 33 0.12
37 73 0.26
38 54 0.19
39 37 0.13
40 21 0.08
41 14 0.05
42 9 0.03
43 4 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
ATATATAGTTTTAAAACATTTTTGAAAATATATATA
Found at i:1788462 original size:74 final size:74
Alignment explanation
Indices: 1788296--1788518 Score: 274
Period size: 74 Copynumber: 3.0 Consensus size: 74
1788286 TTTACAAATG
* **
1788296 ATTTTTGAAAATACGTATATGATATATAG-TTTTAAAACATTTTTTGAAACTATATATATTATAT
1 ATTTTT-AAAATA--TATATAATATATAGTTTTTAAAACATTTTTAAAAACT-TATATATTATAT
1788360 AATTTTT-AAAAC
62 AATTTTTGAAAAC
* *
1788372 ATTTTCGAAAAT-TATATAATATATAGTTTTTAAAACATTTTTAAAAAATTATATATTATATAAT
1 ATTTT-TAAAATATATATAATATATAGTTTTTAAAACATTTTTAAAAACTTATATATTATATAAT
1788436 TTTTGAAAAC
65 TTTTGAAAAC
* * * *
1788446 ATTTTTAAAATATATATAATATATAGTTTTTTAAATCA-TTTTGAAAACTTATATAATATATTAT
1 ATTTTTAAAATATATATAATATATAG-TTTTTAAAACATTTTTAAAAACTTATATATTATATAAT
*
1788510 TTTGGAAAA
65 TTTTGAAAA
1788519 AATATTTTTG
Statistics
Matches: 130, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
73 37 0.28
74 73 0.56
75 10 0.08
76 10 0.08
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (74 bp):
ATTTTTAAAATATATATAATATATAGTTTTTAAAACATTTTTAAAAACTTATATATTATATAATT
TTTGAAAAC
Found at i:1788597 original size:70 final size:69
Alignment explanation
Indices: 1788517--1788653 Score: 163
Period size: 70 Copynumber: 2.0 Consensus size: 69
1788507 TATTTTGGAA
*
1788517 AAAATA-TTTTTGAAAACAAT-TGTATATTATATAGTTTTTCAAAAACATGTTTGAAAAT-ATAT
1 AAAATATTTTTTGAAAA-AATAT-TATATTATAT-GGTTTTCAAAAACAT-TTTGAAAATCATAT
1788579 ATAAATTT
62 ATAAATTT
* * * *
1788587 AAAATATTTTTTTGAAAATATATTATATTATATGGTTTTGAAAACCATTTTTAAAATCATATATA
1 AAAATA-TTTTTTGAAAAAATATTATATTATATGGTTTTCAAAAACATTTTGAAAATCATATATA
1788652 AA
65 AA
1788654 ATATAATTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
69 8 0.14
70 27 0.47
71 12 0.21
72 11 0.19
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (69 bp):
AAAATATTTTTTGAAAAAATATTATATTATATGGTTTTCAAAAACATTTTGAAAATCATATATAA
ATTT
Found at i:1788702 original size:12 final size:12
Alignment explanation
Indices: 1788674--1788735 Score: 61
Period size: 12 Copynumber: 4.8 Consensus size: 12
1788664 AAAAAATATA
*
1788674 TTTTTTATATAT
1 TTTTTTATTTAT
*
1788686 ATTTTTTATTTCT
1 -TTTTTTATTTAT
1788699 TTTTTTATTTGAT
1 TTTTTTATTT-AT
1788712 ATTTATTTATTTAT
1 -TTT-TTTATTTAT
*
1788726 TTATTTATTT
1 TTTTTTATTT
1788736 CGTTTATCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
12 17 0.40
13 13 0.31
14 5 0.12
15 7 0.17
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:1788720 original size:4 final size:4
Alignment explanation
Indices: 1788672--1788735 Score: 55
Period size: 4 Copynumber: 16.2 Consensus size: 4
1788662 TTAAAAAATA
* *
1788672 TATT T-TT TATAT ATATT T-TT TATT TCTT TTTT TATT TGA-- TATT TATT
1 TATT TATT TAT-T -TATT TATT TATT TATT TATT TATT T-ATT TATT TATT
1788719 TATT TATT TATT TATT T
1 TATT TATT TATT TATT T
1788736 CGTTTATCTC
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
2 1 0.02
3 7 0.14
4 36 0.72
5 3 0.06
6 3 0.06
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:1791836 original size:21 final size:21
Alignment explanation
Indices: 1791810--1791875 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
1791800 TAATTCTCTA
*
1791810 CATGAAAAGATTAAATCATTT
1 CATGAAAAGATTAAGTCATTT
*
1791831 CATGAAAAGCA-TAAGTCCTTT
1 CATGAAAAG-ATTAAGTCATTT
*
1791852 AATTG-AAAGATTAAGTCATTT
1 CA-TGAAAAGATTAAGTCATTT
1791873 CAT
1 CAT
1791876 CGAATGGTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
20 2 0.05
21 32 0.86
22 3 0.08
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (21 bp):
CATGAAAAGATTAAGTCATTT
Found at i:1795380 original size:21 final size:21
Alignment explanation
Indices: 1795293--1795381 Score: 67
Period size: 21 Copynumber: 4.2 Consensus size: 21
1795283 CTCTTCATGA
*
1795293 AAAGATTAAATCATTTCAT-G
1 AAAGATTAAGTCATTTCATCG
* *
1795313 AAAAGGTTAAG-CATTTTTCATCA
1 -AAAGATTAAGTCA--TTTCATCG
* * *
1795336 AAAGGA-TAAGTCCTTTAATTG
1 AAA-GATTAAGTCATTTCATCG
1795357 AAAGATTAAGTCATTTCATCG
1 AAAGATTAAGTCATTTCATCG
1795378 AAAG
1 AAAG
1795382 GTCTTAACCC
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
20 4 0.08
21 32 0.63
22 13 0.25
23 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAGATTAAGTCATTTCATCG
Found at i:1795833 original size:3 final size:3
Alignment explanation
Indices: 1795827--1795865 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
1795817 ATAATAATAT
1795827 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1795866 CTCAGATTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1797055 original size:2 final size:2
Alignment explanation
Indices: 1797050--1797075 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1797040 AATCACTTGA
1797050 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
1797076 TATTTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1798421 original size:112 final size:112
Alignment explanation
Indices: 1798219--1798679 Score: 730
Period size: 112 Copynumber: 4.1 Consensus size: 112
1798209 TTGTCGGTTT
*
1798219 GTGTCGATACTTTATAAAAATATATTAATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1798284 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
* *
1798331 GTGTCGATACTTTATAAAAATATATTGATACATAACAATATAACAGGTAAAAAAATGGCAAAACC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
1798396 GGTCTATAAATGACAAAACATGTAAATCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
* * * * *
1798443 GTGTCGATACTTAATAAAAATGTATCGATCCATAACAATATAACAAGTAAACAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * *
1798508 -GT-TATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
* *
1798553 GTGTCGATACTTTATAAAAATGTATCT-ATCCATAACAATATAACAGGTAAACAAATGACAAAAC
1 GTGTCGATACTTTATAAAAATATAT-TGATCCATAACAATATAACAGGTAAAAAAATGACAAAAC
* * *
1798617 CGGTCTATAAATGACAAAACAGGTAAAACGCTACCGAATATGTTGATA
65 CGGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
1798665 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
1798680 TATAAGTAGC
Statistics
Matches: 325, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
110 100 0.31
111 4 0.01
112 221 0.68
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAA
Found at i:1798617 original size:222 final size:224
Alignment explanation
Indices: 1798219--1798676 Score: 724
Period size: 222 Copynumber: 2.1 Consensus size: 224
1798209 TTGTCGGTTT
* * *
1798219 GTGTCGATACTTTATAAAAATATATTAATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTAATAAAAATATATCAATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
1798284 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
*
1798349 AATATATTGATACATAACAATATAACAGGTAAAAAAATGGCAAAACCGGTCTATAAATGACAAAA
131 AATATATTGATACATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAA
* * *
1798414 CATGTAAATCGCTACCGGATATATTGAAA
196 CAGGTAAAACGCTACCGAATATATTGAAA
* * *
1798443 GTGTCGATACTTAATAAAAATGTATCGATCCATAACAATATAACAAGTAAACAAATGACAAAACC
1 GTGTCGATACTTAATAAAAATATATCAATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
* * *
1798508 -GT-TATAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATACTTTATAAA
66 GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
* * *
1798571 AATGTATCT-ATCCATAACAATATAACAGGTAAACAAATGACAAAACCGGTCTATAAATGACAAA
131 AATATAT-TGATACATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAA
* *
1798635 ACAGGTAAAACGCTACCGAATATGTTGATA
195 ACAGGTAAAACGCTACCGAATATATTGAAA
1798665 GTGTCGATACTT
1 GTGTCGATACTT
1798677 TATTATAAGT
Statistics
Matches: 215, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
222 153 0.71
223 3 0.01
224 59 0.27
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (224 bp):
GTGTCGATACTTAATAAAAATATATCAATCCATAACAATATAACAAGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
AATATATTGATACATAACAATATAACAGGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAA
CAGGTAAAACGCTACCGAATATATTGAAA
Found at i:1798859 original size:182 final size:181
Alignment explanation
Indices: 1798552--1799181 Score: 1000
Period size: 182 Copynumber: 3.5 Consensus size: 181
1798542 ATATGTTGAT
*
1798552 AGTGTCGATACTTTATAAAAATGTATCTATCCATAACAATATAACAGGTAAACAAATGACAAAAC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAA-AAATGACAAAAC
** * * * *
1798617 CGGTCTATAAATGACAAAACAGGTAAAACGCTACCGAATATGTTGATAGTGTCGATACTTTATTA
65 CGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTA
*
1798682 TAAGTAGCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
130 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
*
1798734 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA-ATGACAAAAC
1798799 CGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTA
65 CGGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTA
* *
1798864 TAAGTATCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCGCTCATAA
130 TAAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
* * *
1798916 AGTGTCGATACTTTATAAAAATATATCGATCCTTAATAATATAACAGGT-AAAAAT----AAACC
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACC
* *
1798976 GGTCTCGAAATGACAAAACCGGTAAAGAGCGACCGGATATGTTGAAAGTGTCGATACTTTATTAT
66 GGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTAT
* *
1799041 AAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAACGCAAATAA
131 AAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
* *
1799092 AGTGTCGATACTTTATAAAAATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAAT
1 AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAA-ATGACAAAAC
* *
1799157 CAGTCTCGAAATGACAAAATCGGTA
65 CGGTCTCGAAATGACAAAACCGGTA
1799182 GTAAAAAAGT
Statistics
Matches: 413, Mismatches: 28, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
176 159 0.38
177 4 0.01
178 2 0.00
180 2 0.00
181 6 0.01
182 240 0.58
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACC
GGTCTCGAAATGACAAAACCGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATACTTTATTAT
AAGTATCGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTAATAA
Found at i:1804646 original size:137 final size:137
Alignment explanation
Indices: 1804267--1804927 Score: 817
Period size: 138 Copynumber: 4.8 Consensus size: 137
1804257 ACTATTCATA
* ** ** * * *
1804267 TGAAAACGCTTCTTGTGGGATACGTCTTTCTTTTTTTTGTCAGCAAATATGTTATAATTGCCCTA
1 TGAAAGCGCTTCTTGTGGGACGCACCTTTC-CTTTTTTGTCAGAAAATAGGTTATAATTGCCCTA
* * *
1804332 TTATGTGTCATATCCCCCGGTGGGGCACTATTCACATCAACACCTATTATGTTTGAGGGGACACA
65 TTATGTGTCATGTCCCCCGGT-GGGCACTATTCACATCAACACCTATCATGTTTGAGGGGACGCA
1804397 ACAATGTGG
129 ACAATGTGG
* * * *
1804406 TGAAAGCGCTTTTTATGGGACGTGA-CTTTCCTTTTTTGTCAGAAAATAGGTTATAATTACCCTA
1 TGAAAGCGCTTCTTGTGGGACG-CACCTTTCCTTTTTTGTCAGAAAATAGGTTATAATTGCCCTA
* ** *
1804470 TTATGTGTCATGTCTCCCGACGAGGCATTATTCACATCAACACCTATCATGTTTGAGGGGACGCA
65 TTATGTGTCATGTCCCCCGGTG-GGCACTATTCACATCAACACCTATCATGTTTGAGGGGACGCA
1804535 ACAATGTGG
129 ACAATGTGG
* **
1804544 TAAAATTGCTTCTTGTGGGACGC-CTCTTTCC-TTTTTGTCAGAAAATAGGTTATAATTGCCCTA
1 TGAAAGCGCTTCTTGTGGGACGCAC-CTTTCCTTTTTTGTCAGAAAATAGGTTATAATTGCCCTA
* *
1804607 TTATGTGTCATGTCCCCCGGTGAGGCACTATTCACATCAACACCTATCATGTTTAAGGGGACGCT
65 TTATGTGTCATGTCCCCCGGTG-GGCACTATTCACATCAACACCTATCATGTTTGAGGGGACGCA
1804672 ACAATGTGG
129 ACAATGTGG
* * * * * * *
1804681 TGAAATCACTTCTTGTGGGGCACACCTTTCCTTTTTTTGTTAGATAATAGGTTATAATTGTCCTA
1 TGAAAGCGCTTCTTGTGGGACGCACCTTTCC-TTTTTTGTCAGAAAATAGGTTATAATTGCCCTA
* * *
1804746 TTATGTGTCATGTCCCCCGGTGGGTACTATTCATATCAACACCTATCATGTTTGAGGGGAAGCAA
65 TTATGTGTCATGTCCCCCGGTGGGCACTATTCACATCAACACCTATCATGTTTGAGGGGACGCAA
*
1804811 CAATGTGA
130 CAATGTGG
* * * * *
1804819 TGAAAGTGCTTCTTGTGGGATGCACATTTCC-TTTTTGTCAGAGAATATGTTATAATTGCCCTAT
1 TGAAAGCGCTTCTTGTGGGACGCACCTTTCCTTTTTTGTCAGAAAATAGGTTATAATTGCCCTAT
* ** ** *
1804883 TATGTGTGATGTCCCCCGACGGATATTATTCACATCAACACCTAT
66 TATGTGTCATGTCCCCCGGTGGGCACTATTCACATCAACACCTAT
1804928 TATTCGTTAT
Statistics
Matches: 453, Mismatches: 62, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
136 68 0.15
137 124 0.27
138 188 0.42
139 73 0.16
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (137 bp):
TGAAAGCGCTTCTTGTGGGACGCACCTTTCCTTTTTTGTCAGAAAATAGGTTATAATTGCCCTAT
TATGTGTCATGTCCCCCGGTGGGCACTATTCACATCAACACCTATCATGTTTGAGGGGACGCAAC
AATGTGG
Found at i:1804791 original size:275 final size:274
Alignment explanation
Indices: 1804300--1804927 Score: 857
Period size: 275 Copynumber: 2.3 Consensus size: 274
1804290 GTCTTTCTTT
* *
1804300 TTTTTGTCAGCAAATATGTTATAATTGCCCTATTATGTGTCATATCCCCCGGTGGGGCACTATTC
1 TTTTTGTCAGAAAATATGTTATAATTGCCCTATTATGTGTCATGTCCCCCGGT-GGGCACTATTC
* * * * **
1804365 ACATCAACACCTATTATGTTTGAGGGGACACAACAATGTGGTGAAAGCGCTTTTTATGGGACGTG
65 ACATCAACACCTATCATGTTTAAGGGGACACAACAATGTGGTGAAAGCACTTCTTATGGGACGAC
*
1804430 ACTTTCCTTTTTTGTCAGAAAATAGGTTATAATTACCCTATTATGTGTCATGTCTCCCGACGAGG
130 ACTTTCCTTTTTTGTCAGAAAATAGGTTATAATTACCCTATTATGTGTCATGTCCCCCGACGAGG
* * * *
1804495 CATTATTCACATCAACACCTATCATGTTTGAGGGGACGCAACAATGTGGTAAAATTGCTTCTTGT
195 CACTATTCACATCAACACCTATCATGTTTGAGGGGAAGCAACAATGTGATAAAAGTGCTTCTTGT
*
1804560 GGGACGC-CTCTTTCC
260 GGGACGCAC-ATTTCC
*
1804575 TTTTTGTCAGAAAATAGGTTATAATTGCCCTATTATGTGTCATGTCCCCCGGTGAGGCACTATTC
1 TTTTTGTCAGAAAATATGTTATAATTGCCCTATTATGTGTCATGTCCCCCGGTG-GGCACTATTC
* * * * *
1804640 ACATCAACACCTATCATGTTTAAGGGGACGCTACAATGTGGTGAAATCACTTCTTGTGGGGC-AC
65 ACATCAACACCTATCATGTTTAAGGGGACACAACAATGTGGTGAAAGCACTTCTTATGGGACGAC
* * ** **
1804704 ACCTTTCCTTTTTTTGTTAGATAATAGGTTATAATTGTCCTATTATGTGTCATGTCCCCCGGTG-
130 A-CTTTCC-TTTTTTGTCAGAAAATAGGTTATAATTACCCTATTATGTGTCATGTCCCCCGACGA
* * *
1804768 GGTACTATTCATATCAACACCTATCATGTTTGAGGGGAAGCAACAATGTGATGAAAGTGCTTCTT
193 GGCACTATTCACATCAACACCTATCATGTTTGAGGGGAAGCAACAATGTGATAAAAGTGCTTCTT
*
1804833 GTGGGATGCACATTTCC
258 GTGGGACGCACATTTCC
* * ** ** *
1804850 TTTTTGTCAGAGAATATGTTATAATTGCCCTATTATGTGTGATGTCCCCCGACGGATATTATTCA
1 TTTTTGTCAGAAAATATGTTATAATTGCCCTATTATGTGTCATGTCCCCCGGTGGGCACTATTCA
1804915 CATCAACACCTAT
66 CATCAACACCTAT
1804928 TATTCGTTAT
Statistics
Matches: 311, Mismatches: 38, Indels: 9
0.87 0.11 0.03
Matches are distributed among these distances:
274 23 0.07
275 239 0.77
276 49 0.16
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (274 bp):
TTTTTGTCAGAAAATATGTTATAATTGCCCTATTATGTGTCATGTCCCCCGGTGGGCACTATTCA
CATCAACACCTATCATGTTTAAGGGGACACAACAATGTGGTGAAAGCACTTCTTATGGGACGACA
CTTTCCTTTTTTGTCAGAAAATAGGTTATAATTACCCTATTATGTGTCATGTCCCCCGACGAGGC
ACTATTCACATCAACACCTATCATGTTTGAGGGGAAGCAACAATGTGATAAAAGTGCTTCTTGTG
GGACGCACATTTCC
Found at i:1805046 original size:21 final size:21
Alignment explanation
Indices: 1805020--1805059 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1805010 AGTCATTCGG
1805020 ATATATTAAATATTATTTATA
1 ATATATTAAATATTATTTATA
*
1805041 ATATATTAATTATTATTTA
1 ATATATTAAATATTATTTA
1805060 AAGTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
ATATATTAAATATTATTTATA
Found at i:1805811 original size:21 final size:21
Alignment explanation
Indices: 1805782--1805851 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
1805772 GGTGTCATAA
*
1805782 AACCCTGCGGGCTGGGCATGT
1 AACCCTGCGGGCTAGGCATGT
* *
1805803 AACCTTGCGGGCTAGGTATGT
1 AACCCTGCGGGCTAGGCATGT
* * * *
1805824 ACCCCTGTGGACTAGGAATGT
1 AACCCTGCGGGCTAGGCATGT
1805845 AACCCTG
1 AACCCTG
1805852 TGGAGATGAC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.23
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGCATGT
Found at i:1806454 original size:17 final size:17
Alignment explanation
Indices: 1806432--1806467 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
1806422 AAACTGAAAC
1806432 ATAAATAT-ATAATTCTA
1 ATAAATATAAT-ATTCTA
1806449 ATAAATATAATATTCTA
1 ATAAATATAATATTCTA
1806466 AT
1 AT
1806468 TATATCAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATAATATTCTA
Found at i:1818099 original size:29 final size:29
Alignment explanation
Indices: 1818066--1818122 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1818056 CCAAAACAGT
*
1818066 TAAATATTACCTAT-TATACACACTTTCTA
1 TAAATATTACCGATCTAT-CACACTTTCTA
*
1818095 TAAATATTACCGATCTATCACTCTTTCT
1 TAAATATTACCGATCTATCACACTTTCT
1818123 GACAAAACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.33, C:0.23, G:0.02, T:0.42
Consensus pattern (29 bp):
TAAATATTACCGATCTATCACACTTTCTA
Found at i:1830961 original size:5 final size:5
Alignment explanation
Indices: 1830951--1830978 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1830941 AAACGGGAAA
1830951 GATGT GATGT GATGT GATGT GATGT GAT
1 GATGT GATGT GATGT GATGT GATGT GAT
1830979 AGAGAATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (5 bp):
GATGT
Found at i:1831874 original size:20 final size:20
Alignment explanation
Indices: 1831849--1831887 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1831839 AATATTATTT
* *
1831849 TATCATAACAGTAGATAAAA
1 TATCATAAAAATAGATAAAA
1831869 TATCATAAAAATAGATAAA
1 TATCATAAAAATAGATAAA
1831888 TAATTATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.08, T:0.26
Consensus pattern (20 bp):
TATCATAAAAATAGATAAAA
Found at i:1831921 original size:25 final size:26
Alignment explanation
Indices: 1831866--1831921 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
1831856 ACAGTAGATA
*
1831866 AAATATCATAAAAATAGATAAATAAT
1 AAATATCATAAAAATAAATAAATAAT
* *
1831892 -TATATCATAAAGATAAAT-AATAAT
1 AAATATCATAAAAATAAATAAATAAT
1831916 AAATAT
1 AAATAT
1831922 TTTAAGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (26 bp):
AAATATCATAAAAATAAATAAATAAT
Found at i:1831948 original size:22 final size:21
Alignment explanation
Indices: 1831907--1831950 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
1831897 CATAAAGATA
**
1831907 AATAATAATAAATATTTTAAG
1 AATAATAATAAATAAATTAAG
1831928 AATATATAATAAATAAATTAAG
1 AATA-ATAATAAATAAATTAAG
1831950 A
1 A
1831951 TGGAGATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (21 bp):
AATAATAATAAATAAATTAAG
Found at i:1833325 original size:3 final size:3
Alignment explanation
Indices: 1833312--1833394 Score: 58
Period size: 3 Copynumber: 26.3 Consensus size: 3
1833302 TAATTTTGGA
* *
1833312 TAT TAAT TAT TAT TAT TAAT TAT TAA TAT TAC TAGT TAT TAT TAT TAT
1 TAT T-AT TAT TAT TAT T-AT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * * *
1833360 TAC TAT AAA TAGT AAT TGT TAT TAT TAT TAC TAT T
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT T
1833395 TGTTTATAAA
Statistics
Matches: 60, Mismatches: 16, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
3 51 0.85
4 9 0.15
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (3 bp):
TAT
Found at i:1833328 original size:13 final size:12
Alignment explanation
Indices: 1833312--1833394 Score: 58
Period size: 13 Copynumber: 6.6 Consensus size: 12
1833302 TAATTTTGGA
1833312 TATTAATTATTAT
1 TATT-ATTATTAT
*
1833325 TATTAATTATTAA
1 TATT-ATTATTAT
*
1833338 TATTACTAGTTAT
1 TATTATTA-TTAT
*
1833351 TATTATTATTAC
1 TATTATTATTAT
* * *
1833363 TATAAATAGTAAT
1 TATTATTA-TTAT
*
1833376 TGTTATTATTAT
1 TATTATTATTAT
*
1833388 TACTATT
1 TATTATT
1833395 TGTTTATAAA
Statistics
Matches: 53, Mismatches: 15, Indels: 5
0.73 0.21 0.07
Matches are distributed among these distances:
12 20 0.38
13 33 0.62
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (12 bp):
TATTATTATTAT
Found at i:1833341 original size:16 final size:16
Alignment explanation
Indices: 1833317--1833361 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1833307 TTGGATATTA
1833317 ATTATTATTATTAATT
1 ATTATTATTATTAATT
* * *
1833333 ATTAATATTACTAGTT
1 ATTATTATTATTAATT
1833349 ATTATTATTATTA
1 ATTATTATTATTA
1833362 CTATAAATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTATTATTATTAATT
Found at i:1834326 original size:19 final size:18
Alignment explanation
Indices: 1834302--1834363 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 18
1834292 AGGCGAAATC
1834302 TTAAGTTTCACTGAGGAAA
1 TTAAGTTTCACTGA-GAAA
* *
1834321 TTAAGTGTTAAAC-GA-AAT
1 TTAAGT-TT-CACTGAGAAA
1834339 TTAAGTTTCACTGATGAAA
1 TTAAGTTTCACTGA-GAAA
1834358 TTAAGT
1 TTAAGT
1834364 GTTAATTTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
16 2 0.06
17 4 0.12
18 8 0.24
19 14 0.41
20 4 0.12
21 2 0.06
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (18 bp):
TTAAGTTTCACTGAGAAA
Found at i:1834346 original size:37 final size:38
Alignment explanation
Indices: 1834295--1834368 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 38
1834285 ATTTGATAGG
1834295 CGAAATCTTAAGTTTCACTGAGGAAATTAAGTGTTAAA
1 CGAAATCTTAAGTTTCACTGAGGAAATTAAGTGTTAAA
*
1834333 CGAAAT-TTAAGTTTCACTGATGAAATTAAGTGTTAA
1 CGAAATCTTAAGTTTCACTGAGGAAATTAAGTGTTAA
1834369 TTTCACCTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 29 0.83
38 6 0.17
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (38 bp):
CGAAATCTTAAGTTTCACTGAGGAAATTAAGTGTTAAA
Found at i:1834374 original size:25 final size:26
Alignment explanation
Indices: 1834339--1834624 Score: 116
Period size: 26 Copynumber: 11.2 Consensus size: 26
1834329 TAAACGAAAT
*
1834339 TTAAGTTTCACTGATGAAATTAAGTG
1 TTAAGTTTCACTGTTGAAATTAAGTG
* * ***
1834365 TTAA-TTTCACCTG-TGTAAGTCTTTG
1 TTAAGTTTCA-CTGTTGAAATTAAGTG
*
1834390 TTAAGTTTCACTGTTGGAATTAAGTG
1 TTAAGTTTCACTGTTGAAATTAAGTG
* * *
1834416 TTAA-TTTCACCGGTGTAAGTCT-A-TG
1 TTAAGTTTCACTGTTG-AAAT-TAAGTG
*
1834441 TTAAGTTTCACTGTTGGAATTAAGTG
1 TTAAGTTTCACTGTTGAAATTAAGTG
* *
1834467 TTAA-TTTCACTGGTGTAAGTCT-A-TG
1 TTAAGTTTCACTGTTG-AAAT-TAAGTG
* *
1834492 TTAAG-TTCAACTATTGGAATTAAGTG
1 TTAAGTTTC-ACTGTTGAAATTAAGTG
* * * * *
1834518 -CAAATTTCACCAGTAT-AAGTCT--CTG
1 TTAAGTTTCA-CTGT-TGAAAT-TAAGTG
* *
1834543 TTAAGTTTCACTGCTGGAATTAAGTG
1 TTAAGTTTCACTGTTGAAATTAAGTG
* * *
1834569 TTAA-TTTCATTGTTGTAAGTATA-TG
1 TTAAGTTTCACTGTTGAAATTA-AGTG
* * *
1834594 TTAGGTTTCACTGTTGGAATTATGTG
1 TTAAGTTTCACTGTTGAAATTAAGTG
*
1834620 ATAAG
1 TTAAG
1834625 CTTAATATGG
Statistics
Matches: 185, Mismatches: 50, Indels: 50
0.65 0.18 0.18
Matches are distributed among these distances:
24 4 0.02
25 86 0.46
26 91 0.49
27 4 0.02
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.42
Consensus pattern (26 bp):
TTAAGTTTCACTGTTGAAATTAAGTG
Found at i:1834398 original size:51 final size:51
Alignment explanation
Indices: 1834339--1834615 Score: 380
Period size: 51 Copynumber: 5.4 Consensus size: 51
1834329 TAAACGAAAT
* * *
1834339 TTAAGTTTCACTGATGAAATTAAGTGTTAATTTCACCTGTGTAAGTCTTTG
1 TTAAGTTTCACTGTTGGAATTAAGTGTTAATTTCACCTGTGTAAGTCTATG
*
1834390 TTAAGTTTCACTGTTGGAATTAAGTGTTAATTTCACCGGTGTAAGTCTATG
1 TTAAGTTTCACTGTTGGAATTAAGTGTTAATTTCACCTGTGTAAGTCTATG
1834441 TTAAGTTTCACTGTTGGAATTAAGTGTTAATTTCA-CTGGTGTAAGTCTATG
1 TTAAGTTTCACTGTTGGAATTAAGTGTTAATTTCACCT-GTGTAAGTCTATG
* ** * * *
1834492 TTAAG-TTCAACTATTGGAATTAAGTGCAAATTTCACCAGTATAAGTCTCTG
1 TTAAGTTTC-ACTGTTGGAATTAAGTGTTAATTTCACCTGTGTAAGTCTATG
* * *
1834543 TTAAGTTTCACTGCTGGAATTAAGTGTTAATTTCA-TTGTTGTAAGTATATG
1 TTAAGTTTCACTGTTGGAATTAAGTGTTAATTTCACCTG-TGTAAGTCTATG
*
1834594 TTAGGTTTCACTGTTGGAATTA
1 TTAAGTTTCACTGTTGGAATTA
1834616 TGTGATAAGC
Statistics
Matches: 199, Mismatches: 22, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
50 5 0.03
51 190 0.95
52 4 0.02
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.42
Consensus pattern (51 bp):
TTAAGTTTCACTGTTGGAATTAAGTGTTAATTTCACCTGTGTAAGTCTATG
Found at i:1839381 original size:17 final size:17
Alignment explanation
Indices: 1839359--1839415 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
1839349 CTTCAAAGAG
1839359 ATTTTATATTTAATTTA
1 ATTTTATATTTAATTTA
*
1839376 ATTTTATA-TTATATTTG
1 ATTTTATATTTA-ATTTA
1839393 ATTTTA-ATTTTAATATTA
1 ATTTTATA-TTTAAT-TTA
1839411 ATTTT
1 ATTTT
1839416 TAAATAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 4 0.12
17 20 0.59
18 10 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
ATTTTATATTTAATTTA
Found at i:1839460 original size:27 final size:25
Alignment explanation
Indices: 1839404--1839473 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 25
1839394 TTTTAATTTT
*
1839404 AATATTAATTTTTAA-A-TAAATTA
1 AATATTAATTTTTAATATTATATTA
1839427 AATATTAATTTTTAATATTATATTA
1 AATATTAATTTTTAATATTATATTA
*
1839452 TAGTTATTAA-TTTTAATATTAT
1 -A-ATATTAATTTTTAATATTAT
1839474 TTTTTTAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
23 15 0.37
24 1 0.02
25 6 0.15
26 13 0.32
27 6 0.15
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (25 bp):
AATATTAATTTTTAATATTATATTA
Found at i:1839477 original size:12 final size:12
Alignment explanation
Indices: 1839362--1839477 Score: 60
Period size: 12 Copynumber: 9.7 Consensus size: 12
1839352 CAAAGAGATT
*
1839362 TTATATTTAAT-
1 TTATTTTTAATA
*
1839373 TTAATTTT-ATA
1 TTATTTTTAATA
* * *
1839384 TTATATTTGATT
1 TTATTTTTAATA
*
1839396 TTAATTTTAATA
1 TTATTTTTAATA
1839408 TTAATTTTTAA-A
1 TT-ATTTTTAATA
** *
1839420 -TAAATTAAATA
1 TTATTTTTAATA
1839431 TTAATTTTTAATA
1 TT-ATTTTTAATA
* *
1839444 TTATATTATAGTTA
1 TTAT-TTTTA-ATA
*
1839458 TTAATTTTAATA
1 TTATTTTTAATA
1839470 TTATTTTT
1 TTATTTTT
1839478 TTAAAATAAA
Statistics
Matches: 75, Mismatches: 22, Indels: 15
0.67 0.20 0.13
Matches are distributed among these distances:
10 7 0.09
11 14 0.19
12 25 0.33
13 24 0.32
14 5 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATTTTTAATA
Found at i:1839512 original size:65 final size:63
Alignment explanation
Indices: 1839368--1839532 Score: 212
Period size: 65 Copynumber: 2.6 Consensus size: 63
1839358 GATTTTATAT
1839368 TTAATTTAATTTTATATTATATT-T-GATT-TTAATTTTAATATTAATTTTTAAATAAATTAAAT
1 TTAATTT--TTTTATATTATATTATAG-TTATTAATTTTAATATTAATTTTTAAATAAATTAAAT
1839430 A
63 A
* * *
1839431 TTAA-TTTTTAATATTATATTATAGTTATTAATTTTAATATTATTTTTTTAAAATAAATTACATA
1 TTAATTTTTTTATATTATATTATAGTTATTAATTTTAATATTA-ATTTTT-AAATAAATTAAATA
*
1839495 TTAATTTTTTTATATTATATTATAGATATTTAATTTTA
1 TTAATTTTTTTATATTATATTATAGTTA-TTAATTTTA
1839533 TATCATATAA
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
60 13 0.14
61 3 0.03
62 18 0.20
63 9 0.10
64 17 0.19
65 21 0.23
66 9 0.10
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (63 bp):
TTAATTTTTTTATATTATATTATAGTTATTAATTTTAATATTAATTTTTAAATAAATTAAATA
Found at i:1839587 original size:20 final size:19
Alignment explanation
Indices: 1839527--1839588 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
1839517 TAGATATTTA
*
1839527 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
1839546 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
1839564 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
1839584 ATTTT
1 ATTTT
1839589 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:1840075 original size:31 final size:31
Alignment explanation
Indices: 1840040--1840099 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
1840030 TAGTTGTATG
*
1840040 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATATCAGTATTGTAAAACTAA
1840071 AATTATTTAAATATCAGTATTGTAAAACT
1 AATTATTTAAATATCAGTATTGTAAAACT
1840100 CTTTTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATATCAGTATTGTAAAACTAA
Found at i:1842755 original size:55 final size:55
Alignment explanation
Indices: 1842696--1843524 Score: 852
Period size: 55 Copynumber: 15.5 Consensus size: 55
1842686 ACGGGTCTAC
* * *
1842696 CCCTATTCCTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAACTTGTCCGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
* * * ** * *
1842751 CCCTATTCCTTCAGGGAGTATAGAACTTGAACAATCTTTTGA-AAACGGGTTCGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATC-TTCAACAAACGTGTCCGCT
** * * * * *
1842806 CCCTATTTGTTCA-ATGAGTATAGAACTCGAACTATCTTCATA-AAATGGGTCCACT
1 CCCTATTCCTTCAGA-GAGTATAGGACTCGAACAATCTTCA-ACAAACGTGTCCGCT
* * * **
1842861 CCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGAATCCGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCA-ACAAACGTGTCCGCT
** * * * **
1842916 CCCTATTTGTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAATGTGTTTGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
* *
1842971 CCCTATTCCTTTAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCACT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
* * * * *
1843026 CCCTATTCCTTTAGAGAGTATATGACTCGAATAATCTTCAACAAATGTGTCTGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
* * * *
1843081 CCAC-ATTCCTTCAGAGAGTATAGGACTTGAAAAATCTTCAACAAACGTGTCTGAT
1 CC-CTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
* * * * *
1843136 CCCTATTCTTTTAGAGAGTATAGGACTCG----ATCTTCAACAAATGTGTTCTCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
* * *
1843187 CCCTATTCCTTCAGAAAGTATGGGACTCG----ATCTTCAACAAACGTATCCGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
**
1843238 CCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGTGTTTGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
** * *
1843289 CCCTATTATTTCAGAGAGTATAGGACT----CAATCTTTAACAAACATGTCCGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
* * * *
1843340 CCCTATTCCTTCATAGAGTATAGGACT----CAATCTTCAACAAACGTCTCTGTT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
*
1843391 CCCTATTTCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGTGTCCGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
* * *
1843442 CCCTATTCCTTCAAAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTTCGCT
1 CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
1843497 CCCTATTCCTTCAGAGAGTATAGGACTC
1 CCCTATTCCTTCAGAGAGTATAGGACTC
1843525 CATCTTCATA
Statistics
Matches: 660, Mismatches: 99, Indels: 30
0.84 0.13 0.04
Matches are distributed among these distances:
51 262 0.40
54 4 0.01
55 390 0.59
56 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (55 bp):
CCCTATTCCTTCAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCGCT
Found at i:1843190 original size:51 final size:51
Alignment explanation
Indices: 1842949--1843532 Score: 613
Period size: 51 Copynumber: 11.1 Consensus size: 51
1842939 GACTCGAACA
* *
1842949 ATCTTCAACAAATGTGTT-TGCTCCCTATTCCTTTAGAGAGTATAGGACTCG
1 ATCTTCAACAAACGTGTTCT-CTCCCTATTCCTTCAGAGAGTATAGGACTCG
* * * *
1843000 AACAATCTTCAACAAACGTGTCCACTCCCTATTCCTTTAGAGAGTATATGACTCG
1 ----ATCTTCAACAAACGTGTTCTCTCCCTATTCCTTCAGAGAGTATAGGACTCG
* *
1843055 AATAATCTTCAACAAATGTG-TCTGCTCCAC-ATTCCTTCAGAGAGTATAGGACTTG
1 ----ATCTTCAACAAACGTGTTCT-CTCC-CTATTCCTTCAGAGAGTATAGGACTCG
* * *
1843110 AAAAATCTTCAACAAACGTG-TCTGATCCCTATTCTTTTAGAGAGTATAGGACTCG
1 ----ATCTTCAACAAACGTGTTCT-CTCCCTATTCCTTCAGAGAGTATAGGACTCG
* * *
1843165 ATCTTCAACAAATGTGTTCTCTCCCTATTCCTTCAGAAAGTATGGGACTCG
1 ATCTTCAACAAACGTGTTCTCTCCCTATTCCTTCAGAGAGTATAGGACTCG
* * *
1843216 ATCTTCAACAAACGTATCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCG
1 ATCTTCAACAAACGTGTTCTCTCCCTATTCCTTCAGAGAGTATAGGACTCG
** *
1843267 ATCTTCAACAAACGTGTT-TGCTCCCTATTATTTCAGAGAGTATAGGACTCA
1 ATCTTCAACAAACGTGTTCT-CTCCCTATTCCTTCAGAGAGTATAGGACTCG
* * * * * *
1843318 ATCTTTAACAAACATGTCCGCTCCCTATTCCTTCATAGAGTATAGGACTCA
1 ATCTTCAACAAACGTGTTCTCTCCCTATTCCTTCAGAGAGTATAGGACTCG
* * *
1843369 ATCTTCAACAAACGT-CTCTGTTCCCTATTTCTTCAGAGAGTATAGGACTCG
1 ATCTTCAACAAACGTGTTCT-CTCCCTATTCCTTCAGAGAGTATAGGACTCG
* * * *
1843420 ATCTTCAACAAACGTGTCCGCTCCCTATTCCTTCAAAGAGTATAGGACTTGAACA
1 ATCTTCAACAAACGTGTTCTCTCCCTATTCCTTCAGAGAGTATAGGAC-T---CG
* *
1843475 ATCTTCAACAAACGTGTTCGCTCCCTATTCCTTCAGAGAGTATAGGACTCC
1 ATCTTCAACAAACGTGTTCTCTCCCTATTCCTTCAGAGAGTATAGGACTCG
1843526 ATCTTCA
1 ATCTTCA
1843533 TAAAATGAGT
Statistics
Matches: 455, Mismatches: 61, Indels: 30
0.83 0.11 0.05
Matches are distributed among these distances:
50 1 0.00
51 261 0.57
52 5 0.01
54 3 0.01
55 184 0.40
56 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (51 bp):
ATCTTCAACAAACGTGTTCTCTCCCTATTCCTTCAGAGAGTATAGGACTCG
Found at i:1843263 original size:102 final size:103
Alignment explanation
Indices: 1842859--1843532 Score: 725
Period size: 102 Copynumber: 6.4 Consensus size: 103
1842849 AATGGGTCCA
* * * **
1842859 CTCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGAATCCGCTCCCTATT
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCA-ACAAACGTGTCCGCTCCCTATT
** * * *
1842923 TGTTCAGGGAGTATAAGACTCGAACAATCTTCAACAAATGTGTT-TG
61 CCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGTGTTCTG
* *
1842969 CTCCCTATTCCTTTAGAGAGTATAGGACTCGAACAATCTTCAACAAACGTGTCCACTCCCTATTC
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGTGTCCGCTCCCTATTC
* * *
1843034 CTTTAGAGAGTATATGACTCGAATAATCTTCAACAAATGTG-TCTG
62 CTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGTGTTCTG
* * *
1843079 CTCCAC-ATTCCTTCAGAGAGTATAGGACTTGAAAAATCTTCAACAAACGTGTCTGATCCCTATT
1 CTCC-CTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCAACAAACGTGTCCGCTCCCTATT
* * *
1843143 CTTTTAGAGAGTATAGGACTCGATCTTCAACAAATGTGTTCT-
61 CCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGTGTTCTG
* * *
1843185 CTCCCTATTCCTTCAGAAAGTATGGGACTCGATCTTCAACAAACGTATCCGCTCCCTATTCCTTC
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGTGTCCGCTCCCTATTCCTTC
1843250 AGAGAGTATAGGACTCGATCTTCAACAAACGTGTT-TG
66 AGAGAGTATAGGACTCGATCTTCAACAAACGTGTTCTG
** * * *
1843287 CTCCCTATTATTTCAGAGAGTATAGGACTCAATCTTTAACAAACATGTCCGCTCCCTATTCCTTC
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGTGTCCGCTCCCTATTCCTTC
* * *
1843352 ATAGAGTATAGGACTCAATCTTCAACAAACGT-CTCTG
66 AGAGAGTATAGGACTCGATCTTCAACAAACGTGTTCTG
* *
1843389 TTCCCTATTTCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGTGTCCGCTCCCTATTCCTTC
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGTGTCCGCTCCCTATTCCTTC
* *
1843454 AAAGAGTATAGGACTTGAACAATCTTCAACAAACGTGTTC-G
66 AGAGAGTATAGGAC-T---CGATCTTCAACAAACGTGTTCTG
*
1843495 CTCCCTATTCCTTCAGAGAGTATAGGACTCCATCTTCA
1 CTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCA
1843533 TAAAATGAGT
Statistics
Matches: 500, Mismatches: 52, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
101 2 0.00
102 224 0.45
103 1 0.00
105 1 0.00
106 95 0.19
107 5 0.01
109 2 0.00
110 169 0.34
111 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (103 bp):
CTCCCTATTCCTTCAGAGAGTATAGGACTCGATCTTCAACAAACGTGTCCGCTCCCTATTCCTTC
AGAGAGTATAGGACTCGATCTTCAACAAACGTGTTCTG
Found at i:1843625 original size:37 final size:37
Alignment explanation
Indices: 1843547--1843652 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
1843537 ATGAGTTTGC
* * * * *
1843547 TTCACTACTCTTCCGTGAAGTCTTATAGA-TGATTTGC
1 TTCACTACTCTTTCGTGAAGGC-TAAAGATTGAATTGA
1843584 TTCACTACTCTTTCGTGAAGGCTAAAGATTGAATTGA
1 TTCACTACTCTTTCGTGAAGGCTAAAGATTGAATTGA
*
1843621 TTCAC-AGCTCTTTCGTGAAGGCTTAAGATTGA
1 TTCACTA-CTCTTTCGTGAAGGCTAAAGATTGA
1843653 CTTGTTTAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
36 6 0.10
37 55 0.90
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (37 bp):
TTCACTACTCTTTCGTGAAGGCTAAAGATTGAATTGA
Found at i:1844973 original size:19 final size:19
Alignment explanation
Indices: 1844930--1845066 Score: 63
Period size: 19 Copynumber: 7.2 Consensus size: 19
1844920 TCCCTATTTA
1844930 TTTCATTTTTC-TTT-TTT
1 TTTCATTTTTCTTTTCTTT
**
1844947 CATCATTTTTCTTTTCTTT
1 TTTCATTTTTCTTTTCTTT
*
1844966 TTTCATTTTT-TCTTCGATTT
1 TTTCATTTTTCTTTTC--TTT
** *
1844986 TCCCA-TTTTCTTTTCATT
1 TTTCATTTTTCTTTTCTTT
*
1845004 TTTCATCATTT-TTTTCATTT
1 TTTCAT-TTTTCTTTTC-TTT
* * *
1845024 CTTCA--TTTCTTCATCATTC
1 TTTCATTTTTCTT-TTC-TTT
1845043 TTTCATTTTTTCCTTTTCTTT
1 TTTCA-TTTTT-CTTTTCTTT
1845064 TTT
1 TTT
1845067 TTTTATTTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 24
0.67 0.15 0.18
Matches are distributed among these distances:
17 12 0.14
18 14 0.16
19 29 0.33
20 19 0.22
21 5 0.06
22 5 0.06
23 3 0.03
ACGTcount: A:0.10, C:0.20, G:0.01, T:0.69
Consensus pattern (19 bp):
TTTCATTTTTCTTTTCTTT
Found at i:1844976 original size:8 final size:8
Alignment explanation
Indices: 1844925--1845117 Score: 55
Period size: 8 Copynumber: 22.5 Consensus size: 8
1844915 TGAAATCCCT
1844925 ATTTATTTC
1 ATTT-TTTC
1844934 A-TTTTTC
1 ATTTTTTC
1844941 -TTTTTTC
1 ATTTTTTC
1844948 ATCATTTTTC
1 AT--TTTTTC
1844958 ---TTTTC
1 ATTTTTTC
1844963 -TTTTTTC
1 ATTTTTTC
1844970 ATTTTTTC
1 ATTTTTTC
1844978 -TTCGATTTTCCC
1 ATT---TTTT--C
1844990 ATTTTCTTTTC
1 A-TTT-TTT-C
1845001 ATTTTTCATC
1 ATTTTT--TC
1845011 ATTTTTTTC
1 A-TTTTTTC
*
1845020 ATTTCTTC
1 ATTTTTTC
1845028 ATTTCTTCATC
1 ATTT-TT--TC
*
1845039 ATTCTTTC
1 ATTTTTTC
1845047 ATTTTTTC
1 ATTTTTTC
*
1845055 CTTTTCTT-
1 ATTTT-TTC
* *
1845063 TTTTTTTT
1 ATTTTTTC
1845071 ATTTTTCTCTC
1 A-TTTT-T-TC
1845082 ATTTTTTC
1 ATTTTTTC
*
1845090 CTTTTTCTC
1 ATTTTT-TC
1845099 -TTTTTTC
1 ATTTTTTC
1845106 -TCTTTTTC
1 AT-TTTTTC
1845114 ATTT
1 ATTT
1845118 CTTCTTCAAG
Statistics
Matches: 145, Mismatches: 10, Indels: 59
0.68 0.05 0.28
Matches are distributed among these distances:
5 5 0.03
7 22 0.15
8 57 0.39
9 17 0.12
10 22 0.15
11 16 0.11
12 4 0.03
14 2 0.01
ACGTcount: A:0.10, C:0.19, G:0.01, T:0.70
Consensus pattern (8 bp):
ATTTTTTC
Found at i:1845046 original size:27 final size:27
Alignment explanation
Indices: 1844998--1845059 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
1844988 CCATTTTCTT
*
1844998 TTCATTTTTCATCATTTTTTTCATTTC
1 TTCATTTTTCATCATTTCTTTCATTTC
*
1845025 TTCATTTCTTCATCA-TTCTTTCATTTT
1 TTCATTT-TTCATCATTTCTTTCATTTC
*
1845052 TTCCTTTT
1 TTCATTTT
1845060 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 1 0.03
27 23 0.74
28 7 0.23
ACGTcount: A:0.13, C:0.21, G:0.00, T:0.66
Consensus pattern (27 bp):
TTCATTTTTCATCATTTCTTTCATTTC
Found at i:1845062 original size:28 final size:28
Alignment explanation
Indices: 1844998--1845050 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
1844988 CCATTTTCTT
*
1844998 TTCATTT-TTCATCATTTTTTTCATTTC
1 TTCATTTCTTCATCATTTCTTTCATTTC
1845025 TTCATTTCTTCATCA-TTCTTTCATTT
1 TTCATTTCTTCATCATTTCTTTCATTT
1845051 TTTCCTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (28 bp):
TTCATTTCTTCATCATTTCTTTCATTTC
Found at i:1845070 original size:17 final size:18
Alignment explanation
Indices: 1845048--1845104 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
1845038 CATTCTTTCA
1845048 TTTTTTCCTTTTCT-TTT
1 TTTTTTCCTTTTCTCTTT
** **
1845065 TTTTTTATTTTTCTCTCA
1 TTTTTTCCTTTTCTCTTT
1845083 TTTTTTCCTTTTTCTCTTT
1 TTTTTTCC-TTTTCTCTTT
1845102 TTT
1 TTT
1845105 CTCTTTTTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
17 12 0.40
18 7 0.23
19 11 0.37
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTTCCTTTTCTCTTT
Found at i:1845084 original size:35 final size:36
Alignment explanation
Indices: 1845040--1845113 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
1845030 TTCTTCATCA
* * *
1845040 TTCTTTCATTTTTTCC-TTTTCTTTTTTTTTTATTT
1 TTCTCTCATTTTTTCCTTTTTCTCTTTTTTCTATTT
*
1845075 TTCTCTCATTTTTTCCTTTTTCTCTTTTTTCTCTTT
1 TTCTCTCATTTTTTCCTTTTTCTCTTTTTTCTATTT
1845111 TTC
1 TTC
1845114 ATTTCTTCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
35 15 0.44
36 19 0.56
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (36 bp):
TTCTCTCATTTTTTCCTTTTTCTCTTTTTTCTATTT
Found at i:1845110 original size:17 final size:17
Alignment explanation
Indices: 1845048--1845113 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
1845038 CATTCTTTCA
*
1845048 TTTTTTC-C-TTTTCTT
1 TTTTTTCTCTTTTTCTC
* *
1845063 TTTTTTTTATTTTTCTC
1 TTTTTTCTCTTTTTCTC
1845080 TCATTTTT-TCCTTTTTCTC
1 T--TTTTTCT-CTTTTTCTC
1845099 TTTTTTCTCTTTTTC
1 TTTTTTCTCTTTTTC
1845114 ATTTCTTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
15 6 0.15
17 19 0.46
18 2 0.05
19 14 0.34
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTTTCTCTTTTTCTC
Found at i:1845122 original size:16 final size:16
Alignment explanation
Indices: 1844958--1845122 Score: 57
Period size: 19 Copynumber: 9.4 Consensus size: 16
1844948 ATCATTTTTC
1844958 TTTTCT-TTTTTCATT
1 TTTTCTCTTTTTCATT
*
1844973 TTTTCTTCGATTTTCCCATT
1 TTTTC-TC--TTTT-TCATT
*
1844993 TTCTTTTCATTTTTCATCAT
1 TT-TTCTC-TTTTTCAT--T
*
1845013 TTTTTTCATTTCTTCATT
1 TTTTCTC-TTT-TTCATT
*
1845031 TCTTCATCATTCTTTCATT
1 TTTTC-TC-TT-TTTCATT
**
1845050 TTTTC-CTTTTCTTTTTT
1 TTTTCTC-TTT-TTCATT
* *
1845067 TTTTATTTTTCTCTCATT
1 TTTTCTCTTT-T-TCATT
*
1845085 TTTTC-CTTTTTCTCTT
1 TTTTCTCTTTTTC-ATT
1845101 TTTTCTCTTTTTCATT
1 TTTTCTCTTTTTCATT
*
1845117 TCTTCT
1 TTTTCT
1845123 TCAAGCAAAA
Statistics
Matches: 116, Mismatches: 18, Indels: 31
0.70 0.11 0.19
Matches are distributed among these distances:
15 7 0.06
16 17 0.15
17 26 0.22
18 14 0.12
19 33 0.28
20 17 0.15
21 2 0.02
ACGTcount: A:0.08, C:0.21, G:0.01, T:0.70
Consensus pattern (16 bp):
TTTTCTCTTTTTCATT
Found at i:1848617 original size:8 final size:8
Alignment explanation
Indices: 1848604--1848630 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1848594 AAAGAGGATG
1848604 TATATACA
1 TATATACA
1848612 TATATACA
1 TATATACA
1848620 TATATACA
1 TATATACA
1848628 TAT
1 TAT
1848631 GAGAGGATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (8 bp):
TATATACA
Found at i:1858656 original size:2 final size:2
Alignment explanation
Indices: 1858649--1858702 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
1858639 GTTGGTATTA
1858649 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
1858691 AT AT AT AT -T AT A
1 AT AT AT AT AT AT A
1858703 AAAATTAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 50 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1858966 original size:2 final size:2
Alignment explanation
Indices: 1858959--1858984 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1858949 ACTTCATTCA
1858959 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
1858985 TAGTTTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1861387 original size:27 final size:27
Alignment explanation
Indices: 1861332--1861399 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
1861322 TTGATCCTTA
* * *
1861332 AAAAAAATTAAAAAGTTATTACAATTC
1 AAAAACATTTAAAAGTTATTACAACTC
** **
1861359 AAAATGATTTAAAAGTTATTGGAACTC
1 AAAAACATTTAAAAGTTATTACAACTC
1861386 AAAAACATTTAAAA
1 AAAAACATTTAAAA
1861400 TTAAAAGTAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAAACATTTAAAAGTTATTACAACTC
Found at i:1863803 original size:20 final size:20
Alignment explanation
Indices: 1863765--1863817 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
1863755 TGAAAACAAT
*
1863765 TTAG-TTTTG-AAAGCAAAA
1 TTAGATTTTGAAAAACAAAA
1863783 TTAGATTTTGAAAAACAAAA
1 TTAGATTTTGAAAAACAAAA
* * *
1863803 TGAAATCTTGAAAAA
1 TTAGATTTTGAAAAA
1863818 TGATTTTGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 4 0.14
19 5 0.17
20 20 0.69
ACGTcount: A:0.51, C:0.06, G:0.13, T:0.30
Consensus pattern (20 bp):
TTAGATTTTGAAAAACAAAA
Found at i:1866093 original size:8 final size:9
Alignment explanation
Indices: 1866060--1866097 Score: 51
Period size: 8 Copynumber: 4.1 Consensus size: 9
1866050 ACAACTATAT
1866060 ATTATAAAA
1 ATTATAAAA
1866069 ATGTACTAAAA
1 AT-TA-TAAAA
1866080 ATTATAAAA
1 ATTATAAAA
1866089 A-TATAAAA
1 ATTATAAAA
1866097 A
1 A
1866098 AAATTAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 8 0.30
9 8 0.30
10 4 0.15
11 7 0.26
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (9 bp):
ATTATAAAA
Found at i:1866099 original size:20 final size:20
Alignment explanation
Indices: 1866060--1866103 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
1866050 ACAACTATAT
* **
1866060 ATTATAAAAATGTACTAAAA
1 ATTATAAAAATATAAAAAAA
1866080 ATTATAAAAATATAAAAAAA
1 ATTATAAAAATATAAAAAAA
1866100 ATTA
1 ATTA
1866104 AACTCTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
ATTATAAAAATATAAAAAAA
Found at i:1866755 original size:12 final size:13
Alignment explanation
Indices: 1866719--1866762 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
1866709 GCCCCGATTA
1866719 CCCGATTACCCGC
1 CCCGATTACCCGC
1866732 CCCGATTACCCGC
1 CCCGATTACCCGC
*
1866745 CCCGA-TACCCGA
1 CCCGATTACCCGC
1866757 CCCGAT
1 CCCGAT
1866763 AAATATTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.18, C:0.52, G:0.16, T:0.14
Consensus pattern (13 bp):
CCCGATTACCCGC
Found at i:1866816 original size:32 final size:33
Alignment explanation
Indices: 1866780--1866865 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 33
1866770 AAAAATAATT
*
1866780 ATTTATATATATATATA-ATATTAATAAATTTA
1 ATTTAAATATATATATATATATTAATAAATTTA
* * * *
1866812 ATTTAAATA-AAAAATATATATTTATATATTTA
1 ATTTAAATATATATATATATATTAATAAATTTA
1866844 ATTTAAATATATATATATATAT
1 ATTTAAATATATATATATATAT
1866866 ATATACCCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
31 5 0.11
32 30 0.67
33 10 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
ATTTAAATATATATATATATATTAATAAATTTA
Found at i:1866900 original size:24 final size:24
Alignment explanation
Indices: 1866868--1866922 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
1866858 ATATATATAT
* * *
1866868 ATACCCGACCCGATTCTCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
1866892 ATACCCGACCCAATACCCGGCCCA
1 ATACCCGACCCAATACCCGGCCCA
1866916 ATACCCG
1 ATACCCG
1866923 TTTAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (24 bp):
ATACCCGACCCAATACCCGGCCCA
Found at i:1866905 original size:12 final size:12
Alignment explanation
Indices: 1866868--1866922 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
1866858 ATATATATAT
*
1866868 ATACCCGACCCG
1 ATACCCGACCCA
* * *
1866880 ATTCTCGGCCCA
1 ATACCCGACCCA
1866892 ATACCCGACCCA
1 ATACCCGACCCA
*
1866904 ATACCCGGCCCA
1 ATACCCGACCCA
1866916 ATACCCG
1 ATACCCG
1866923 TTTAAATAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.25, C:0.47, G:0.15, T:0.13
Consensus pattern (12 bp):
ATACCCGACCCA
Found at i:1867724 original size:3 final size:3
Alignment explanation
Indices: 1867716--1867751 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
1867706 GGGTCTCCAT
1867716 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1867752 GATTGATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1871417 original size:17 final size:18
Alignment explanation
Indices: 1871377--1871421 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1871367 AATTTTATGA
* *
1871377 TGTAAAAAATATTATTTT
1 TGTAAAAAATATAATTAT
1871395 TGTAAAAAATATAATTAT
1 TGTAAAAAATATAATTAT
1871413 T-TAAAAAAT
1 TGTAAAAAAT
1871422 GTTTATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TGTAAAAAATATAATTAT
Found at i:1871757 original size:21 final size:21
Alignment explanation
Indices: 1871725--1871807 Score: 67
Period size: 21 Copynumber: 3.7 Consensus size: 21
1871715 GTAATAATTA
*
1871725 AAATATTTTATAATTTTTAGTC
1 AAATA-TTTATAATTTTCAGTC
*** *
1871747 AAATATTTATAATTTAGGGTA
1 AAATATTTATAATTTTCAGTC
1871768 AACTATGCATTTATAAGTTTTCAGTC
1 AA--AT--ATTTATAA-TTTTCAGTC
1871794 AAATATTTATAATT
1 AAATATTTATAATT
1871808 AAAATATTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
21 16 0.33
22 13 0.27
23 2 0.04
24 2 0.04
25 8 0.17
26 7 0.15
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (21 bp):
AAATATTTATAATTTTCAGTC
Found at i:1872363 original size:14 final size:15
Alignment explanation
Indices: 1872339--1872368 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1872329 AACTTGCTAT
1872339 AGAAGAGAAAGAAGA
1 AGAAGAGAAAGAAGA
1872354 AGAA-AGAAAGAAGA
1 AGAAGAGAAAGAAGA
1872368 A
1 A
1872369 ATGAGGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AGAAGAGAAAGAAGA
Found at i:1873192 original size:21 final size:21
Alignment explanation
Indices: 1873168--1873228 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
1873158 ATTTGAGCCT
1873168 GGTTTTGAAACCACCTAAGGG
1 GGTTTTGAAACCACCTAAGGG
1873189 GGTTTTGAAACCACCTAAGGG
1 GGTTTTGAAACCACCTAAGGG
* *
1873210 GGTTTTAAAAAC-CCTAAGG
1 GGTTTTGAAACCACCTAAGG
1873229 AAATAAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 7 0.18
21 31 0.82
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (21 bp):
GGTTTTGAAACCACCTAAGGG
Found at i:1873627 original size:18 final size:19
Alignment explanation
Indices: 1873600--1873639 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
1873590 ATTATTATAA
1873600 TTTTAATTTTA-ATTTATT
1 TTTTAATTTTACATTTATT
*
1873618 TTTTACTTTTACATTTATT
1 TTTTAATTTTACATTTATT
1873637 TTT
1 TTT
1873640 ATTTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTAATTTTACATTTATT
Found at i:1881350 original size:3 final size:3
Alignment explanation
Indices: 1881340--1881371 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1881330 AATAAATATT
1881340 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1881372 AAAGGACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1886792 original size:193 final size:193
Alignment explanation
Indices: 1886463--1886850 Score: 776
Period size: 193 Copynumber: 2.0 Consensus size: 193
1886453 CGACTAAAGT
1886463 ATTTATTTGTTCGACTGATGTAATAATATTGATAAATTATTAATAGACAGAAATGTCGGTGCTTG
1 ATTTATTTGTTCGACTGATGTAATAATATTGATAAATTATTAATAGACAGAAATGTCGGTGCTTG
1886528 ATTTTGAATGATGCATTTTCTCTTCACCCTTCCAAGGGTATAGGACACATTATATAATCTTCAAT
66 ATTTTGAATGATGCATTTTCTCTTCACCCTTCCAAGGGTATAGGACACATTATATAATCTTCAAT
1886593 CTTTGACTTGGATTTTTGCTTATTCTTGATGGTTTGTAGCAAGAGCTGCAAAGCTTGTCAAGG
131 CTTTGACTTGGATTTTTGCTTATTCTTGATGGTTTGTAGCAAGAGCTGCAAAGCTTGTCAAGG
1886656 ATTTATTTGTTCGACTGATGTAATAATATTGATAAATTATTAATAGACAGAAATGTCGGTGCTTG
1 ATTTATTTGTTCGACTGATGTAATAATATTGATAAATTATTAATAGACAGAAATGTCGGTGCTTG
1886721 ATTTTGAATGATGCATTTTCTCTTCACCCTTCCAAGGGTATAGGACACATTATATAATCTTCAAT
66 ATTTTGAATGATGCATTTTCTCTTCACCCTTCCAAGGGTATAGGACACATTATATAATCTTCAAT
1886786 CTTTGACTTGGATTTTTGCTTATTCTTGATGGTTTGTAGCAAGAGCTGCAAAGCTTGTCAAGG
131 CTTTGACTTGGATTTTTGCTTATTCTTGATGGTTTGTAGCAAGAGCTGCAAAGCTTGTCAAGG
1886849 AT
1 AT
1886851 ACTGAGATGA
Statistics
Matches: 195, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
193 195 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (193 bp):
ATTTATTTGTTCGACTGATGTAATAATATTGATAAATTATTAATAGACAGAAATGTCGGTGCTTG
ATTTTGAATGATGCATTTTCTCTTCACCCTTCCAAGGGTATAGGACACATTATATAATCTTCAAT
CTTTGACTTGGATTTTTGCTTATTCTTGATGGTTTGTAGCAAGAGCTGCAAAGCTTGTCAAGG
Found at i:1892440 original size:346 final size:346
Alignment explanation
Indices: 1891789--1892525 Score: 1046
Period size: 346 Copynumber: 2.1 Consensus size: 346
1891779 CTAGTGCTCA
* * * * * *
1891789 ATCGTGTTAGCTACCTTTCAGAGGTCATTTATTACAACAATAATGCAACAGTTGGTTTATTTTGT
1 ATCGTGTCAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATGCAACAATTGGCTTATTTTGT
* * *
1891854 TGGTCATTTACTGCAGAATTCAAGCAACGTTTCAGAAAATGGGTGAAATAGTGGTGCATTATCAT
66 TGGACATTTACTGCACAATTCAAGCAAAGTTTCAGAAAATGGGTGAAATAGTGGTGCATTATCAT
* * *
1891919 CTTCAGTAACTTTTCAGTGATATATCAACTCAAATAAGAAAACGTGTTTTTAACTCAAACAAAAT
131 ATTCAGCAACTTTCCAGTGATATATCAACTCAAATAAGAAAACGTGTTTTTAACTCAAACAAAAT
*
1891984 AATGCACCCTTCCAGCTATTGTTCAGTGAAATACAAACTCAAAAAAGAAAAATTTTCAGTGTAGA
196 AATGCACCCTTCCAGCTATTGTTCAGGGAAATACAAACTCAAAAAAGAAAAATTTTCAGTGTAGA
* *
1892049 ATTATCACTTCAAATCATAAAAACGTTTATATCAACCAAGCCAAATTATTAACTGTTTTAGTTA-
261 ATTATCACTTCAAATCATAAAAACGTGTATATCAACCAAGCCAAATTATTAACTGTTTTAGCTAC
* *
1892113 CTTTCATGTGCTCAATTAATGC
326 CTTCCA-GTACTCAATTAATGC
1892135 ATCGTGTCAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATGCAACAATTGGCTTATTTTGT
1 ATCGTGTCAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATGCAACAATTGGCTTATTTTGT
* * *
1892200 TGGACATTTACTGCACAATTCAAGCAAATTTTTAGAAAATTGGTGAAATAGTGGTGCATTATCAT
66 TGGACATTTACTGCACAATTCAAGCAAAGTTTCAGAAAATGGGTGAAATAGTGGTGCATTATCAT
* ** * **
1892265 ATTTAGCAACTTTCCAGTGATATATCAACTCAAATTGGAAAACTTGTTTTTAACTCAGGCAAAAT
131 ATTCAGCAACTTTCCAGTGATATATCAACTCAAATAAGAAAACGTGTTTTTAACTCAAACAAAAT
* * ** *** * * *
1892330 AATGCACCCTTTCAGCTATT-TTACTGGGAAATATGAACTCAAGTCAGATAACTTTTCAGTGTTG
196 AATGCACCCTTCCAGCTATTGTT-CAGGGAAATACAAACTCAAAAAAGAAAAATTTTCAGTGTAG
* * * * *
1892394 AATTATCACTTCAAATCATAAAAATGTGTATTTCAACTAGGCCAAATTATTCACTGTTTTAGCTA
260 AATTATCACTTCAAATCATAAAAACGTGTATATCAACCAAGCCAAATTATTAACTGTTTTAGCTA
1892459 CCTTCCAGTACTCAATTAATGC
325 CCTTCCAGTACTCAATTAATGC
* * *
1892481 ATTGCGTCAGCTACTTTTTAGAGGTCATTTATTGCAGCAATAATG
1 ATCGTGTCAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATG
1892526 ACCCATTTCA
Statistics
Matches: 345, Mismatches: 44, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
345 2 0.01
346 338 0.98
347 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (346 bp):
ATCGTGTCAGCTACTTTTTAGAGGTCATTTATTGCAACAATAATGCAACAATTGGCTTATTTTGT
TGGACATTTACTGCACAATTCAAGCAAAGTTTCAGAAAATGGGTGAAATAGTGGTGCATTATCAT
ATTCAGCAACTTTCCAGTGATATATCAACTCAAATAAGAAAACGTGTTTTTAACTCAAACAAAAT
AATGCACCCTTCCAGCTATTGTTCAGGGAAATACAAACTCAAAAAAGAAAAATTTTCAGTGTAGA
ATTATCACTTCAAATCATAAAAACGTGTATATCAACCAAGCCAAATTATTAACTGTTTTAGCTAC
CTTCCAGTACTCAATTAATGC
Found at i:1896125 original size:2 final size:2
Alignment explanation
Indices: 1896120--1896147 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1896110 TTAAACACAC
1896120 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
1896148 GAGAATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.